PaperBLAST
PaperBLAST Hits for mRNA_6818 (72 a.a., MAVERNIRFD...)
Show query sequence
>mRNA_6818
MAVERNIRFDLIARLCPNSTGAELRSVCTEAGMFAIRQRRKIATEKDFLDAVEKVIRSGQ
KFSSTSLYANYQ
Running BLASTp...
Found 152 similar proteins in the literature:
E3KZT9 26S protease regulatory subunit 7 from Puccinia graminis f. sp. tritici (strain CRL 75-36-700-3 / race SCCL)
85% identity, 15% coverage
CNAG_07719 26S protease regulatory subunit 7 from Cryptococcus neoformans var. grubii H99
80% identity, 16% coverage
Q7KMQ0 26S proteasome regulatory subunit 7 from Drosophila melanogaster
77% identity, 16% coverage
Q8BVQ9 proteasome ATPase (EC 5.6.1.5) from Mus musculus (see paper)
77% identity, 15% coverage
C9JX88 26S proteasome regulatory subunit 7 from Homo sapiens
77% identity, 17% coverage
Q63347 26S proteasome regulatory subunit 7 from Rattus norvegicus
77% identity, 16% coverage
- Candidate proteins interacting with cytoskeleton in cells from the basal airway epithelium in vitro
Olatona, Frontiers in molecular biosciences 2024 - “...Protein description MW R 2 Modifications P62193 Psmc1 26S proteasome regulatory subunit 4 49.2 0.362 Q63347 Psmc2 26S proteasome regulatory subunit 7 48.5 0.045 P62198 Psmc5 26S proteasome regulatory subunit 8 45.6 0.847 P63326 Rps10 40S ribosomal protein S10 18.9 0.069 P38983 Rpsa 40S ribosomal protein...”
- Extracellular vesicles released by steatotic hepatocytes alter adipocyte metabolism
Mleczko, Journal of extracellular biology 2022 - “...P62138 1.02 3.58E03 Serine/threonineprotein phosphatase PP1alpha catalytic subunit UD2B2_RAT P08541 1.03 1.65E02 UDPglucuronosyltransferase 2B2 PRS7_RAT Q63347 1.04 1.83E02 26S protease regulatory subunit 7 RS8_RAT P62243 1.04 6.54E03 40S ribosomal protein S8 RHOA_RAT P61589 1.04 6.21E04 Transforming protein RhoA RL15_RAT P61314 1.05 4.06E03 60S ribosomal protein L15...”
- Fluoxetine Enhances Synaptic Vesicle Trafficking and Energy Metabolism in the Hippocampus of Socially Isolated Rats.
Filipović, International journal of molecular sciences 2022 - “...ATP synthase subunit alpha, mitochondrial P15999 Atp5f1a 2.03 14 14 26S proteasome regulatory subunit 7 Q63347 Psmc2 2.00 2 2 Beta-soluble NSF attachment protein F8WFM2 Napb 1.97 7 6 Neurochondrin O35095 Ncdn 1.92 8 6 Long-chain-fatty-acid--CoA ligase ACSBG1 Q924N5 Acsbg1 1.89 5 3 Dynamin-1 P21575 Dnm1...”
- Prenatal Stress Impairs Postnatal Learning and Memory Development via Disturbance of the cGMP-PKG Pathway and Oxidative Phosphorylation in the Hippocampus of Rats.
Li, Frontiers in molecular neuroscience 2020 - “...(Cisd1) A0A096MJI5 Ligase III, DNA, ATP-dependent (Lig3) P30904 Macrophage migration inhibitory factor (glycosylation-inhibiting factor) (Mif) Q63347 Proteasome 26S subunit, ATPase 2 (Psmc2) G3V8D5 6-Phosphogluconolactonase (Pgls) D3ZCV0 Actinin alpha 2 (Actn2) P62628 Dynein light chain roadblock-type 1 (Dynlrb1) Q62760 Translocase of outer mitochondrial membrane 20 (Tomm20) P84076...”
- Functional proteomic analysis of corticosteroid pharmacodynamics in rat liver: Relationship to hepatic stress, signaling, energy regulation, and drug metabolism.
Ayyar, Journal of proteomics 2017 - “...cellular apoptosis UP P67779 Phb Prohibitin Inhibits DNA synthesis; role in regulating cell proliferation UP Q63347 Psmc2 Proteasome 26S subunit ATPase 2 ATP-dependent degradation of ubiquinated proteins UP O88767 Park7 Protein deglycase DJ-1 Cell protection against oxidative stress and cell death UP Q8VBU2 Ndrg2 Protein NDRG2...”
- Effects of buyang huanwu decoction on ventricular remodeling and differential protein profile in a rat model of myocardial infarction
Zhou, Evidence-based complementary and alternative medicine : eCAM 2012 - “...24818.6 5.64 Peroxiredoxin-6 , 7 Q561S0 NDUAA_RAT 80 (23) 40493.09 7.64 NADH dehydrogenase , 8 Q63347 PRS7_RAT 46 (27) 48574.78 5.59 26S protease regulatory subunit 9 P61983 (1433G_RAT) 64 (27) 28302.59 4.80 14-3-3 protein gamma 10 P02091 (HBB1_RAT) 73 (23) 15979.39 7.87 Hemoglobin subunit beta-1 11...”
- Preliminary quantitative profile of differential protein expression between rat L6 myoblasts and myotubes by stable isotope labeling with amino acids in cell culture.
Cui, Proteomics 2009 - “...4 IPI00211733.1 1.88NA 1 P62193 117263 26S protease regulatory subunit 7 IPI00421600.7 1.78 0.10 4 Q63347 25581 ATPase family AAA domain-containing protein 1 IPI00566676.1 1.55NA 1 309532 Dipeptidyl-peptidase 2 precursor IPI00230946.4 3.14NA 1 Q9EPB1 83799 Fxna IPI00390597.2 1.73NA 1 Q6UPR8 373544 Insulin-like growth factor binding protein...”
- Chronic ethanol feeding affects proteasome-interacting proteins.
Bousquet-Dubouch, Proteomics 2009 - “...21.1 9.8 4.6 13.7 3.7 21 15 6 13 5 8 0.7 0.4 1.6 Rpt1 Q63347 7 1.1 17.3 0.2 47 36 0.9 Rpt2 P62193 4 0.9 14.2 0.2 65 73 1.3 Rpt3 Q63570 4 1.0 9.9 4.6 38 33 1.0 Rpt4 P62334 9 0.9 9.4...”
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PRS7_HUMAN / P35998 26S proteasome regulatory subunit 7; 26S proteasome AAA-ATPase subunit RPT1; Proteasome 26S subunit ATPase 2 from Homo sapiens (Human) (see 11 papers)
G3V7L6 26S proteasome regulatory subunit 7 from Rattus norvegicus
L8IKB7 26S proteasome regulatory subunit 7 from Bos mutus
NP_150239 26S proteasome regulatory subunit 7 from Rattus norvegicus
Q5E9F9 26S proteasome regulatory subunit 7 from Bos taurus
77% identity, 16% coverage
- function: Component of the 26S proteasome, a multiprotein complex involved in the ATP-dependent degradation of ubiquitinated proteins. This complex plays a key role in the maintenance of protein homeostasis by removing misfolded or damaged proteins, which could impair cellular functions, and by removing proteins whose functions are no longer required. Therefore, the proteasome participates in numerous cellular processes, including cell cycle progression, apoptosis, or DNA damage repair. PSMC2 belongs to the heterohexameric ring of AAA (ATPases associated with diverse cellular activities) proteins that unfolds ubiquitinated target proteins that are concurrently translocated into a proteolytic chamber and degraded into peptides.
subunit: Component of the 19S proteasome regulatory particle complex. The 26S proteasome consists of a 20S core particle (CP) and two 19S regulatory subunits (RP) (PubMed:27342858, PubMed:27428775). The regulatory particle is made of a lid composed of 9 subunits, a base containing 6 ATPases including PSMC2 and few additional components (PubMed:27342858, PubMed:27428775). Interacts with NDC80/HEC; this interaction is detected only during M phase (PubMed:10409732, PubMed:9295362). Interacts and SQSTM1 (PubMed:15340068). Interacts with PAAF1 (PubMed:15831487). Directly interacts with TRIM5 (PubMed:22078707).
subunit: (Microbial infection) Interacts with HIV-1 Tat. - Proteomics to Metabolomics: A New Insight into the Pathogenesis of Hypertensive Nephropathy
Eshraghi, Kidney & blood pressure research 2023 - “...M0R3X6 Cbr1 Carbonyl reductase (NADPH) 1.741 0.039 P02793 Ftl1 Ferritin light chain 1 1.633 0.036 G3V7L6 Psmc2 Proteasome 26S subunit, ATPase 2 1.579 0.046 D3ZQN7 Lamb1 Laminin subunit beta-1 1.915 0.043 F7FJQ3 Npc2 NPC interacellular cholesterol transporter 2 1.812 0.037 P02761 Mup4|1 Major urinary protein 1.649...”
- Comparative Analysis of Erythrocyte Proteomes of Water Buffalo, Dairy Cattle, and Beef Cattle by Shotgun LC-MS/MS
Guo, Frontiers in veterinary science 2019 - “...4.7 D2U6Q1 Haptoglobin (Fragment) 8 6 47547.58 8.26 G3N233 Uncharacterized protein 1 1 47895.71 9.63 L8IKB7 26S protease regulatory subunit 7 9 8 48633.3 5.71 P11179 Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex, mitochondrial 1 1 48971.98 9.1 L8IG31 Uncharacterized protein 1 1 50072.82 6.58 Q3SX22...”
- Regulation of the proteasome by neuronal activity and calcium/calmodulin-dependent protein kinase II.
Djakovic, The Journal of biological chemistry 2009 - GeneRIF: Data show that data provide a novel mechanism whereby CaMKII may regulate the proteasome in neurons to facilitate remodeling of synaptic connections through protein degradation.
- Participation of the 26S proteasome in the regulation of progesterone receptor concentrations in the rat brain.
Camacho-Arroyo, Neuroendocrinology 2002 (PubMed)- GeneRIF: The 26S proteasome could participate in the turnover of progesterone receptors in the preoptic area and the hippocampus of the rat in vivo.
- Impact of Nannochloropsis oceanica and Chlorococcum amblystomatis Extracts on UVA-Irradiated on 3D Cultured Melanoma Cells: A Proteomic Insight
Gęgotek, Cells 2024 - “...apoptosis regulation (defensin 4A (O15263), hexokinase-2 (P52789)), proteolysis (proteasome 26S subunits 6 and 7 (H0YJC0, P35998)), and gene expression and cell proliferation (polyadenylate-binding protein 4 (PABPC4, Q13310), hypoxia-inducible factor 1-alpha (HIF 1, Q9NWT6), forkhead box 1 protein (Fox 1, A6NFN3), and tyrosine-protein kinase receptor (KIF5B-ALK, M1V481))...”
- Characterizing ATP processing by the AAA+ protein p97 at the atomic level
Shein, Nature chemistry 2024 - “...The accession IDs of the sequences used for AAA+ ATPases alignment (Fig. 3a ) were P35998 (PSMC2_ H.sapiens ), P46459 (NSF_ H.sapiens ), Q16740 (CLPP_ H.sapiens ), P36776 (LONP1_ H.sapiens ), Q13608 (PEX6_ H.sapiens ), Q9Y265 (RUVBL1_ H.sapiens ), P0ABH9 (ClpA_ E.coli ), P31539 (Hsp104_ S.cerevisiae...”
- The Delayed Turnover of Proteasome Processing of Myocilin upon Dexamethasone Stimulation Introduces the Profiling of Trabecular Meshwork Cells' Ubiquitylome.
Tundo, International journal of molecular sciences 2024 - “...transcription subunit 23 FLSDPK(UniMod:121)TVLSAESEELNR Q9ULK4 G1/S-specific cyclin-D1 FLSLEPVK(UniMod:121)K P24385 26S proteasome regulatory subunit 7 FVNLGIEPPK(UniMod:121)GVLLFGPPGTGK P35998 Glioma pathogenesis-related protein 1 GATC(UniMod:4)SAC(UniMod:4)PNNDK(UniMod:121)C(UniMod:4)LDNLC(UniMod:4)VNR P48060 Sodium channel protein type 9 subunit alpha GINYVK(UniMod:121)QTLR Q15858 Cyclin-dependent kinase inhibitor 1 GLGLPK(UniMod:121)LYLPTGPR P38936 WD repeat-containing protein 6 GLGVSALC(UniMod:4)FK(UniMod:121)SR Q9NNW5 Pyruvate kinase PKM...”
- Synthetic Antibodies Detect Distinct Cellular States of Chromosome Passenger Complex Proteins
Ura, Journal of molecular biology 2022 - “...2961200 1262300 1654700 0 0 P52294 IMA1 0 1376400 1431700 1573600 1276000 2521500 0 0 P35998 PRS7 1576000 1515400 1310100 1254900 1275400 1635000 0 0 Q14789 GOGB1 0 0 1283000 0 12684000 25153000 0 0 P42345 MTOR 8096300 7437700 1020600 904980 0 706970 0 0 Q9Y223...”
- Pan-cancer analysis of genomic and transcriptomic data reveals the prognostic relevance of human proteasome genes in different cancer types.
Larsson, BMC cancer 2022 - “...14q32.11 S4, p56 P62191 440 49,185 PSMC2 Proteasome 26S subunit, ATPase 2 Rpt1 7q22.1 MSS1 P35998 433 48,634 PSMC3IP PSMC3 Interacting Protein 17q21.2 HOP2, TBPIP Q9P2W1 217 24,906 PSMC3 Proteasome 26S subunit, ATPase 3 Rpt5 11p11.2 TBP1 P17980 439 49,204 PSMC4 Proteasome 26S subunit, ATPase 4...”
- Proteomic analysis of the umbilical cord in fetal growth restriction and preeclampsia.
Conrad, PloS one 2022 - “...intensity. UniProt ID Protein Log Fold Change Q9BWM7 Sideroflexin-3 -5.08 Q96IJ6 Mannose-1-phosphate guanyltransferase alpha; -2.97 P35998 26S proteasome regulatory subunit 7 -2.97 P08574 Cytochrome c1, heme protein, mitochondrial -2.87 Q9UNS2 COP9 signalosome complex subunit 3 -2.69 P30837 Aldehyde dehydrogenase X, mitochondrial -2.66 P00367 Glutamate dehydrogenase 1...”
- Intraglandular mesenchymal stem cell treatment induces changes in the salivary proteome of irradiated patients.
Lynggaard, Communications medicine 2022 - “...O60814 Histone H2B type 1-K 3.276 2.631 Q13283 Ras GTPase-activating protein-binding protein 1 4.404 2.585 P35998 26S proteasome regulatory subunit 7 7.769 2.535 P02652 Apolipoprotein A-II 2.713 2.416 P06737 Glycogen phosphorylase 2.481 2.342 Q5D862 Filaggrin-2 1.745 2.280 P14317 Hematopoietic lineage cell-specific protein 2.566 2.204 O00515 Ladinin-1...”
- A Proteomic Study Suggests Stress Granules as New Potential Actors in Radiation-Induced Bystander Effects
Tudor, International journal of molecular sciences 2021 - “...1.27 6.25 79 P40121 CAP-G protein Bystander 0 Gy Protein motility 121 1.47 6.15 94 P35998 26S proteasome regulatory subunit 7 Bystander 0 Gy interleukin-1-mediated signaling pathway 123 1.31 6.56 136 P49368 T-complex protein 1 subunit gamma Bystander 0 Gy Extracellular exosome 127 1.31 4.91 87...”
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- Multi-omics analyses of red blood cell reveal antioxidation mechanisms associated with hemolytic toxicity of gossypol
Tang, Oncotarget 2017 - “...+ 0.024 Thioredoxin G8JKZ8 1.503 + 0.097 + 0.009 Others 26S protease regulatory subunit 7 Q5E9F9 1.230 + 0.112 + 0.045 Alpha-hemoglobin-stabilizing protein Q865F8 1.321 + 0.076 + 0.099 Hemoglobin, theta 1 A1A4Q7 0.467 + 0.074 - 0.017 Anion exchange protein Q9XSW5 1.203 + 0.074 +...”
PRS7_MOUSE / P46471 26S proteasome regulatory subunit 7; 26S proteasome AAA-ATPase subunit RPT1; Proteasome 26S subunit ATPase 2 from Mus musculus (Mouse) (see 2 papers)
NP_035318 26S proteasome regulatory subunit 7 from Mus musculus
77% identity, 16% coverage
- function: Component of the 26S proteasome, a multiprotein complex involved in the ATP-dependent degradation of ubiquitinated proteins. This complex plays a key role in the maintenance of protein homeostasis by removing misfolded or damaged proteins, which could impair cellular functions, and by removing proteins whose functions are no longer required. Therefore, the proteasome participates in numerous cellular processes, including cell cycle progression, apoptosis, or DNA damage repair. PSMC2 belongs to the heterohexameric ring of AAA (ATPases associated with diverse cellular activities) proteins that unfolds ubiquitinated target proteins that are concurrently translocated into a proteolytic chamber and degraded into peptides.
subunit: Component of the 19S proteasome regulatory particle complex. The 26S proteasome consists of a 20S core particle (CP) and two 19S regulatory subunits (RP). The regulatory particle is made of a lid composed of 9 subunits, a base containing 6 ATPases including PSMC2 and few additional components. Interacts with NDC80 and SQSTM1. Interacts with PAAF1. Interacts with TRIM5. - Silencing Proteasome 26S Subunit ATPase 2 (PSMC2) Protects the Osteogenic Differentiation In Vitro and Osteogenesis In Vivo.
Zhou, Calcified tissue international 2021 (PubMed)- GeneRIF: Silencing Proteasome 26S Subunit ATPase 2 (PSMC2) Protects the Osteogenic Differentiation In Vitro and Osteogenesis In Vivo.
- Periostin Protects Against Alcohol-related Liver Disease by Activating Autophagy by Interacting With Protein Disulfide Isomerase.
Zhang, Cellular and molecular gastroenterology and hepatology 2023 - “...Cap1 Adenylyl cyclase-associated protein 1 6 2 2 P43277 Hist1h1d Histone H1.3 17 4 1 P46471 Psmc2 26S proteasome regulatory subunit 7 3 1 1 P47738 Aldh2 Aldehyde dehydrogenase mitochondrial 3 1 1 P47753 Capza1 F-actin-capping protein subunit alpha-1 3 1 1 P47754 Capza2 F-actin-capping protein...”
- LPS Tolerance Inhibits Cellular Respiration and Induces Global Changes in the Macrophage Secretome.
Gillen, Biomolecules 2021 - “...(exosome) Yes Yes No Q9CXW4 RPL11 ribosomal protein L7 1.1280 Yes (exosome) Yes Yes No P46471 PSMC2 proteasome 26S subunit, ATPase 2 1.6182 Yes (related) Yes Yes No P11438 LAMP1 lysosomal associated membrane protein 1 2.8676 Yes (exosome) Yes Yes No P22777 SERPINE1 serpin family E...”
- Alport syndrome: Proteomic analysis identifies early molecular pathway alterations in Col4a3 knock out mice.
Nicolaou, Nephrology (Carlton, Vic.) 2020 - “...Proteasome subunit alpha type7 P99026 Psmb4 a 3.10E02 1.2 NN MM Proteasome subunit beta type4 P46471 Psmc2 a 2.19E02 1.3 NN MM 26S protease regulatory subunit 7 O88685 Psmc3 a 7.42E04 1.4 NN MM 26S protease regulatory subunit 6A Q3TXS7 Psmd1 3.97E02 1.3 NN MM 26S...”
- Proteomic Alterations in B Lymphocytes of Sensitized Mice in a Model of Chemical-Induced Asthma
Haenen, PloS one 2015 - “...(GDI) beta 1 Q61599 70 59 10 2.6210 4.97 22894 2013 proteasome 26S subunit 1 P46471 78 24 16 2.4681 5.25 40580 1522 sterile alpha motif domain-containing protein 14 1 Q8K070 67 26 10 2.1569 9.51 45075 1605 rho GDP dissociation inhibitor (GDI) alpha 1 Q99PT1...”
- Proteomic profiling of aging in glomeruli of mice by using two-dimensional differential gel electrophoresis.
Liu, Medical science monitor : international medical journal of experimental and clinical research 2015 - “...Selenium-binding protein 1 P17563 1.56 31% 5.87 53051 138 1011 26S protease regulatory subunit 7 P46471 1.48 36% 5.72 49016 149 2383 L-lactate dehydrogenase B chain P16125 1.41 26% 5.7 36834 94 2386 Annexin A5 P48036 1.37 34% 4.83 35787 92 1785 Ferritin light chain 1...”
- Apigenin Attenuates Atherogenesis through Inducing Macrophage Apoptosis via Inhibition of AKT Ser473 Phosphorylation and Downregulation of Plasminogen Activator Inhibitor-2.
Zeng, Oxidative medicine and cellular longevity 2015 - “...phosphatase nonreceptor type 6 , 17 Q61176 (ARGI1_MOUSE) 37 (27) 34957 6.52 Arginase-1 , 18 P46471 (PRS7_MOUSE) 84 (27) 49016 5.72 26S protease regulatory subunit 7 19 P07724 (ALBU_MOUSE) 102 (26) 70700 5.75 Serum albumin , 20 Q99K51 (PLST_MOUSE) 138 (27) 71210 5.42 Plastin-3 21 Q8JZX4...”
- HBx inhibits CYP2E1 gene expression via downregulating HNF4α in human hepatoma cells.
Liu, PloS one 2014 - “...ribosomal protein L7 5.495 P47963 Rpl13 60 S ribosomal protein L13 1.770 Protein/amino acid catabolism P46471 Psmc2 26 S protease regulatory subunit 7 83.176 Q9QXF8 Gnmt Glycine N-methyltransferase 4.285 Q8QZR5 Gpt Alanine amino transferase 1 1.820 Carbohydrate catabolism A2AJL3 Fggy FGGY carbohydrate kinase domain containing protein...”
- Human stefin B role in cell's response to misfolded proteins and autophagy.
Polajnar, PloS one 2014 - “...6A Psmc3 3,55E-93 0 16 P54775 26S protease regulatory subunit 6B Psmc4 4,87E-44 0 12 P46471 26S protease regulatory subunit 7 Psmc2 3,05E-24 1 12 P62196 26S protease regulatory subunit 8 Psmc5 3,74E-14 1 12 Q3TXS7 26S proteasome non-ATPase regulatory subunit 1 Psmd1 2,04E-37 0 11...”
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8uscA / P35998 8uscA
77% identity, 17% coverage
- Ligands: peptide; adenosine-5'-triphosphate (8uscA)
PRS7_YEAST / P33299 26S proteasome regulatory subunit 7 homolog; Protein CIM5; Tat-binding homolog 3 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see 4 papers)
P33299 proteasome ATPase (EC 5.6.1.5) from Saccharomyces cerevisiae (see 2 papers)
NP_012777 proteasome regulatory particle base subunit RPT1 from Saccharomyces cerevisiae S288C
YKL145W One of six ATPases of the 19S regulatory particle of the 26S proteasome involved in the degradation of ubiquitinated substrates; required for optimal CDC20 transcription; interacts with Rpn12p and the E3 ubiquitin-protein ligase Ubr1p from Saccharomyces cerevisiae
77% identity, 15% coverage
- function: The 26S proteasome is involved in the ATP-dependent degradation of ubiquitinated proteins. The regulatory (or ATPase) complex confers ATP dependency and substrate specificity to the 26S complex (By similarity).
subunit: Interacts with UBR1 and CIC1. - N-Terminal methylation of proteasome subunit Rpt1 in yeast.
Kimura, Proteomics 2013 (PubMed)- GeneRIF: Studied the yeast Rpt1 subunit and showed that following the removal of the initiation Met residue, the N-terminal Pro residue is either unmodified,mono-methylated, or di-methylated, and that this N-methylation has not been conserved throughout evolution.
- Structural basis for specific recognition of Rpt1p, an ATPase subunit of 26 S proteasome, by proteasome-dedicated chaperone Hsm3p.
Takagi, The Journal of biological chemistry 2012 - GeneRIF: We determined the crystal structures of Hsm3 and its complex with the C-terminal domain of the Rpt1 subunit.
- Similar temporal and spatial recruitment of native 19S and 20S proteasome subunits to transcriptionally active chromatin.
Geng, Proceedings of the National Academy of Sciences of the United States of America 2012 - GeneRIF: Data show that proteasome subunits Rpt1, Rpt4, Rpn8, Rpn12, Pre6, and Pre10 are recruited to GAL10 rapidly upon galactose induction.
- A Novel Computational Approach for Identifying Essential Proteins From Multiplex Biological Networks
Zhao, Frontiers in genetics 2020 - “...GO:0006511 BP GO:0005198 MF GO:0008541, GO:0034515 BP YER012W True GO:0010499, GO:0043161 BP GO:0005789, GO:0034515 CC YKL145W True GO:0006511, GO:0045899 BP GO:0016887 MF GO:0008540 CC YFR052W True GO:0006511 BP GO:0008541, GO:0034515 CC YHR200W False GO:0006511 BP GO:0005198 MF GO:0008540 CC YOR261C True GO:0006511 BP GO:0008541, GO:0034515 CC...”
- Heme, A Metabolic Sensor, Directly Regulates the Activity of the KDM4 Histone Demethylase Family and Their Interactions with Partner Proteins
Konduri, Cells 2020 - “...YHR097C 6321889 pH-response regulator protein PBP1 YGR178C 398366039 PAB1-binding protein ATXN2, ATXN2L + + RPT1 YKL145W 6322704 ATPase of the 19S regulatory particle of the 26S proteasome PSMC2 + RTK1 YDL025C 6320179 Probable serine/threonine protein kinase HUNK, PRKAA2 + + RVB2 YPL235W 6325021 RuvB-like protein RUVBL2...”
- Effects of Acetylation and Phosphorylation on Subunit Interactions in Three Large Eukaryotic Complexes
Šoštarić, Molecular & cellular proteomics : MCP 2018 - “...(Rrp4, exosome), YOR151C (Rpb2, RNA polymerase II) and YKL145W (Rpt1, 26S proteasome). Purified proteins were separated by SDS-PAGE followed by staining with...”
- A multi-network clustering method for detecting protein complexes from multiple heterogeneous networks
Ou-Yang, BMC bioinformatics 2017 - “...YER021W genes, 95.2% YFR052W, YGL004C, YGL048C, YHL030W YOR259C, YOR261C, YPR108W, YHR200W YFR004W, YFR010W, YDL147W, YDR394W YKL145W 13 1.65e-35 YBR119W, YDL087C, YDR235W, YDR240C U1 snRNP 14 out of 16 YHR086W, YIL061C, YKL012W, YLR147C genes, 87.5% YML046W, YMR125W, YPL178W, YPR182W YLR275W, YLR298C, YFL017W-A, YGR013W 18 4.7e-29 YBR254C, YDR108W,...”
- Population FBA predicts metabolic phenotypes in yeast
Labhsetwar, PLoS computational biology 2017 - “...Mean Fluorescence (a.u.) [ 42 ] Ratio (SD/YEPD) [ 50 ] YIL084C 162 26.7249 1.18 YKL145W 2114 100.3195 0.62 YHR107C 2317 113.8195 0.78 YEL031W 3125 85.5069 0.72 YBR249C 19459 185.6222 1.94 YHR183W 48926 1128.4 1.69 YLR058C 98940 267.899 2.01 YLR249W 189235 1904.1 0.63 YJL136C 370314 543.9343...”
- The RNAPII-CTD Maintains Genome Integrity through Inhibition of Retrotransposon Gene Expression and Transposition
Aristizabal, PLoS genetics 2015 - “...YCR061W GGCCACAGACCGATGTAGTT TGTTAGCAGACGGAAGAAGGA This study YML116W CACCGGTTCACGAGACATAC ACCCATACCGAGACACAAGG This study YIR034C CTGCCGGGCCTAAATTATCT ACGAGCGCAATGTCTATCG This study YKL145W GGTGAAGGTGCTCGTATGGT GGGTCAAACCCGTCTAACTG This study RPB1 CAGGCATTCGATTGGGTATT GGAAGCAACACCAGCAAAAT This study Ty1 cDNA-mediated mobility assay This assay tracks the mobility of a genome encoded Ty1 element [ 38 , 39 ]. The...”
- “...TEC1 suppressed additional gene expression alterations observed in the rpb1-CTD11 mutant. (A-D) RT-qPCR analysis of YKL145W, YIR034C, YML116W, and YCR061W mRNA levels in wild type, rpb1-CTD11 , tec1 and rpb1-CTD11 tec1 mutants. (E) Decreased levels of RPB1 in the rpb1-CTD11 mutant were not normalized upon loss...”
- Complementation of Yeast Genes with Human Genes as an Experimental Platform for Functional Testing of Human Genetic Variants
Hamza, Genetics 2015 - “...ASTRA complex, involved in chromatin remodeling YKL035W UGP1 b 7360 UGP2 c UDP-glucose pyrophosphorylase (UGPase) YKL145W RPT1 5701 PSMC2 ATPase of the 19S regulatory particle of the 26S proteasome YKL189W HYM1 51719; 81617 CAB39 ; CAB39L Component of the RAM signaling network YML069W POB3 b 6749...”
- Online nanoflow reversed phase-strong anion exchange-reversed phase liquid chromatography-tandem mass spectrometry platform for efficient and in-depth proteome sequence analysis of complex organisms
Zhou, Analytical chemistry 2011 - “...YML109W N Y Y Y YIL092W N Y Y N YIL084C Y Y Y N YKL145W Y Y Y Y YKL075C N Y Y N YIL002C Y Y N N YHR015W N N N N YPL008W N N Y N YGL006W N Y Y Y YKR031C...”
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6fvtH / P33299 6fvtH (see paper)
76% identity, 17% coverage
- Ligand: adenosine-5'-triphosphate (6fvtH)
7qo4H / P33299 26s proteasome wt-ubp6-ubvs complex in the si state (atpases, rpn1, ubp6, and ubvs)
76% identity, 18% coverage
- Ligands: adenosine-5'-triphosphate; magnesium ion (7qo4H)
NCU02840 26S protease regulatory subunit 7 from Neurospora crassa OR74A
73% identity, 16% coverage
O42931 26S proteasome regulatory subunit 7 homolog from Schizosaccharomyces pombe (strain 972 / ATCC 24843)
SPBC16C6.07c 19S proteasome regulatory subunit Rpt1 from Schizosaccharomyces pombe
73% identity, 16% coverage
- Proteasome regulation of petite-negativity in fission yeast.
Amberg, bioRxiv : the preprint server for biology 2024 - “...spermidine family transmembrane transporter O94300 SPBC887.17 0.48 0.021 plasma membrane guanine and adenine transmembrane transporter O42931 rpt1 0.46 0.003 19S proteasome base subcomplex ATPase subunit Rpt1 P36612 rpt2 0.45 0.003 19S proteasome base subcomplex ATPase subunit Rpt2 P23880 sds21 0.45 0.017 serine/threonine protein phosphatase PP1 catalytic...”
- A non-transcriptional role for the glucocorticoid receptor in mediating the cell stress response
Ptushkina, Scientific reports 2017 - “...protein Xdj1 NONE SPAC4A8.16c translation initiation factor eIF3c EIF3CL|EIF3C SPBC17D11.05 translation initiation factor eIF3a EIF3A SPBC16C6.07c 19S proteasome regulatory subunit Rpt1 PSMC2 SPBC4.07c 19S proteasome regulatory subunit Rpt2 NONE SPCC576.10c 19S proteasome regulatory subunit Rpt3 PSMC4 SPBP19A11.03c 19S proteasome regulatory subunit Mts4 PSMD2 SPAC1565.08 AAA family...”
EHI_080890 26S protease regulatory subunit 7, putative from Entamoeba histolytica HM-1:IMSS
70% identity, 17% coverage
- Identification and characterization of archaeal-type FAD synthase as a novel tractable drug target from the parasitic protozoa Entamoeba histolytica
Wulansari, mSphere 2024 - “...AIG family protein 27 EHI_169350 10.0 34.1 3.4 7.9E-04 Non-pathogenic pore-forming peptide precursor, putative 28 EHI_080890 11.2 36.1 3.3 2.3E-04 26S protease regulatory subunit, putative 29 EHI_027020 235.7 762.2 3.2 2.2E-16 Hypothetical protein 30 EHI_128900 89.2 289.7 3.2 5.2E-14 Hypothetical protein 31 EHI_171760 123.8 394.1 3.2...”
- N-acetyl ornithine deacetylase is a moonlighting protein and is involved in the adaptation of Entamoeba histolytica to nitrosative stress
Shahi, Scientific reports 2016 - “...and serine/threonine kinase 3 (EHI_096560), hydrolases, such as 26S protease regulatory subunit (EHI_052050), CP 17 (EHI_080890) and acetylornithine deacetylase (EHI_114340), membrane vesicle trafficking proteins, such as adaptor proteins (EHI_023600 and EHI_058450), and nucleic acid binding proteins, such as 40S ribosomal protein S4 (EHI_057850) and translation initiation...”
EHI_052050 26s protease regulatory subunit from Entamoeba histolytica HM-1:IMSS
C4M846 26s protease regulatory subunit from Entamoeba histolytica (strain ATCC 30459 / HM-1:IMSS / ABRM)
70% identity, 17% coverage
- Screening and Structural Characterization of Heat Shock Response Elements (HSEs) in <i>Entamoeba histolytica</i> Promoters
Dorantes-Palma, International journal of molecular sciences 2024 - “...HSEs. This category predominantly features genes encoding enzymes, such as the 26S Protease Regulatory Subunit (EHI_052050) with ATP hydrolysis activity, crucial for protein degradation in both cytosol and nucleus; Ribosomal RNA Methyltransferase (EHI_098730) with tRNA methyltransferase activity; Adenosine Deaminase (EHI_005040) with adenosine deaminase activity; and others...”
- “...(EHI_070230), and Protein Kinase (EHI_197540). Ninety-three genes had two HSEs, including 26S Protease Regulatory Subunit (EHI_052050) and Rab GTPase Activating Protein (EHI_009970). Additionally, eighteen genes had three HSEs, two genes had four, and two had five HSEs. In the medium expression level group, 103 genes were...”
- Identification of S-Nitrosylated (SNO) Proteins in Entamoeba histolytica Adapted to Nitrosative Stress: Insights into the Role of SNO Actin and In vitro Virulence
Trebicz-Geffen, Frontiers in cellular and infection microbiology 2017 - “...their product nitrosylated. These genes are plasma membrane calcium-transporting ATPase, (EHI_016480), 26s protease regulatory subunit (EHI_052050), phosphorylase (EHI_096830), myosin heavy chain (EHI_110180), helicase (EHI_148930), uncharacterized protein (EHI_189410), and a putative D-3-phosphoglycerate dehydrogenase (EHI_060860). According to the results of the PANTHER statistical overrepresentation test, the actin family...”
- N-acetyl ornithine deacetylase is a moonlighting protein and is involved in the adaptation of Entamoeba histolytica to nitrosative stress
Shahi, Scientific reports 2016 - “...activating protein (EHI_079910) and serine/threonine kinase 3 (EHI_096560), hydrolases, such as 26S protease regulatory subunit (EHI_052050), CP 17 (EHI_080890) and acetylornithine deacetylase (EHI_114340), membrane vesicle trafficking proteins, such as adaptor proteins (EHI_023600 and EHI_058450), and nucleic acid binding proteins, such as 40S ribosomal protein S4 (EHI_057850)...”
- Proteomic Study of Entamoeba histolytica Trophozoites, Cysts, and Cyst-Like Structures
Luna-Nácar, PloS one 2016 (no snippet)
FGSG_00559 26S protease regulatory subunit 7 from Fusarium graminearum PH-1
70% identity, 16% coverage
- Network-based data integration for selecting candidate virulence associated proteins in the cereal infecting fungus Fusarium graminearum
Lysenko, PloS one 2013 - “...is unable to pin-point the specific member of a multigene family. Example 1: Prediction of FGSG_00559 with a Role in Intracellular Signalling Modulation Within the integrated network, the protein coded for by the gene FGSG_00559 is predicted on the basis of links to four VV proteins....”
- “...(alpha,alpha-trehalose glucohydrolase)) and FGSG_09908 ( PKAR , reduced virulence, probable cAMP-dependent protein kinase regulatory chain. FGSG_00559 is annotated in the MIPS GenRE database [6] as a probable 26S proteasome regulatory subunit YTA3. Two of these seed proteins FGSG_09895 and FGSG_09908 reside within close physical proximity in...”
W5QCP6 26S proteasome regulatory subunit 7 from Ovis aries
74% identity, 15% coverage
Q86JA1 26S proteasome regulatory subunit 7 from Dictyostelium discoideum
69% identity, 17% coverage
MNEG_6814 26S proteasome regulatory subunit T1 from Monoraphidium neglectum
72% identity, 17% coverage
B9MUK8 AAA+ ATPase domain-containing protein from Populus trichocarpa
72% identity, 17% coverage
B4FZV6 AAA+ ATPase domain-containing protein from Zea mays
72% identity, 20% coverage
- Proteomic comparison of basal endosperm in maize miniature1 mutant and its wild-type Mn1
Silva-Sanchez, Frontiers in plant science 2013 - “...hydroxymethyltransferase ND ND 1.24 0.01 B6TJM5 26S protease regulatory subunit 6A ND ND 1.26 0.02 B4FZV6 Similar to 26S protease regulatory subunit 7 from Oryza sativa (Q9FXT9) ND ND 1.26 0.00 B6SJ21 Guanine nucleotide-binding protein beta subunit-like protein ND ND 1.27 0.02 B6TMX0 Pyruvate kinase ND...”
- “...domain) 1.24 0.31 NF NF B6TJM5 26S protease regulatory subunit 6A 1.26 0.02 NF NF B4FZV6 Putative uncharacterized protein 1.26 0 NF NF C0HF77 Uncharacterized LOC100304374 1.29 0.09 zma:100304374 NF B6TRW8 Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 1.32 0 zma:100284269 zma00020, zma00310, zma01100, zma01110 B6TMX0...”
P0DKJ9 26S proteasome regulatory subunit 7A from Oryza sativa subsp. japonica
72% identity, 17% coverage
B9IKK0 AAA+ ATPase domain-containing protein from Populus trichocarpa
72% identity, 17% coverage
A0A0A0K674 AAA+ ATPase domain-containing protein from Cucumis sativus
72% identity, 17% coverage
PRS7A_ARATH / Q9SSB5 26S proteasome regulatory subunit 7 homolog A; 26S proteasome AAA-ATPase subunit RPT1a; 26S proteasome subunit 7 homolog A; Regulatory particle triple-A ATPase subunit 1a from Arabidopsis thaliana (Mouse-ear cress) (see 2 papers)
AT1G53750 RPT1A (REGULATORY PARTICLE TRIPLE-A 1A); ATPase from Arabidopsis thaliana
72% identity, 17% coverage
- function: The 26S proteasome is involved in the ATP-dependent degradation of ubiquitinated proteins. The regulatory (or ATPase) complex confers ATP dependency and substrate specificity to the 26S complex
subunit: Component of the 19S regulatory particle (RP/PA700) base subcomplex of the 26S proteasome. The 26S proteasome is composed of a core protease (CP), known as the 20S proteasome, capped at one or both ends by the 19S regulatory particle (RP/PA700). The RP/PA700 complex is composed of at least 17 different subunits in two subcomplexes, the base and the lid, which form the portions proximal and distal to the 20S proteolytic core, respectively. - Analysis of 26S Proteasome Activity across Arabidopsis Tissues
, Plants (Basel, Switzerland) 2024 - “...TAIR accession for the 19S RP presented are: RPN7 (At4g24820), RPN10 (At4g38630), RPN12a (At1g64520), RPT1a (At1g53750), RPT3 (At5g58290), and RPT5a (At3g05530). TAIR accession for the 20S CP presented are: PAC1 (At3g22110), PAD1 (At3g51260), PAF1 (At5g42790), PBC1 (At1g21720), PBE1 (At1g13060), and PBF1 (At3g60820). Figure 2 Proteasomal activity...”
- The Structural Role of RPN10 in the 26S Proteasome and an RPN2-Binding Residue on RPN13 Are Functionally Important in Arabidopsis
Lin, International journal of molecular sciences 2024 - “...of PSMs rpn10-2 /Col-0 (% SD) CP Base PAA1 At5g35590 118.3/100.8 (117.4 8.6) 3 RPT1a At1g53750 141.3/106.6 (132.6 11.8) PAA2 At2g05840 123.0/89.9 (136.8 6.3) RPT1b At1g53780 ND/ND (NA) PAB1 At1g16470 32.7/43.4 (75.3 80.1) RPT2a At4g29040 ND/ND (NA) PAB2 At1g79210 17.3/ND (NA) RPT2b At2g20140 93.3/98.7 (94.5 19.0)...”
- Unbiased proteomic and forward genetic screens reveal that mechanosensitive ion channel MSL10 functions at ER-plasma membrane contact sites in Arabidopsis thaliana
Codjoe, eLife 2022 - “...At4G35090), LOW EXPRESSION OF OSMOTICALLY RESPONSIVE GENES 1 (LOS1, At1G56070), REGULATORY PARTICLE TRIPLE-A 1A (RPT1a, At1g53750), POTASSIUM CHANNEL IN ARABIDOPSIS THALIANA 1 (KAT1, At5G46240 ). Statistical analyses Statistical analyses were performed in RStudio (v4.1.2), except for chi-squared tests, which were performed in Microsoft Excel. ShapiroWilk tests...”
- In vivo assembly of the sorgoleone biosynthetic pathway and its impact on agroinfiltrated leaves of Nicotiana benthamiana
Pan, The New phytologist 2021 - “...(RPN12a) 2.749 2.011 1.715 1.502 Niben101Scf00182g03011.1 AT2G26590 Regulatory particle nonATPase 13 (RPN13) 1.237 1.040 Niben101Scf00747g12004.1 AT1G53750 Regulatory particle tripleA 1A (RPT1A) 1.813 1.191 Niben101Scf00386g00002.1 AT5G58290 Regulatory particle tripleA ATPase 3 (RPT3) 1.212 1.013 Niben101Scf00369g09017.1 AT3G05530 Regulatory particle tripleA ATPase 5A (RPT5A) 2.498 1.765 1.402 1.457 Niben101Scf00574g11010.1...”
- Time-resolved interaction proteomics of the GIGANTEA protein under diurnal cycles in Arabidopsis
Krahmer, FEBS letters 2019 - “...1.4E04 1.7E03 7.0 n n.d. AT1G72730 DEA(D/H)box RNA helicase 1 6.7E05 0.0011 7.0 n n.d. AT1G53750 RPT1A 1 0.0096 0.031 6.6 n n.d. AT4G31420 REIL 1 0.0020 0.011 6.6 n n.d. AT5G28050 Cytidine/deoxycytidylate deaminase 1 1.3E04 0.0017 5.1 n n.d. AT1G29880 glycyltRNA synthetase 1 0.0010 0.0068...”
- “...enriched. For example, in our time series, two proteasome regulatory proteins were enriched, RPT1A ( AT1G53750 ) and RPN10 ( AT4G38630 ) (Table 3 ). GITAP had identified a different proteasome regulatory protein in rice 86 . TCP1/cpn60 chaperonin family proteins ( AT3G03960 ; AT3G20050 )...”
- Increases in activity of proteasome and papain-like cysteine protease in Arabidopsis autophagy mutants: back-up compensatory effect or cell-death promoting effect?
Havé, Journal of experimental botany 2018 - “...and Mapman (mapman.gabipd.org/). Accession numbers AT4G38220; AT2G27020; AT2G24200; AT4G20850; AT5G35590; AT4G31300; AT3G22110; AT2G05840; AT4G14800; AT3G60820; AT1G53750; AT3G05530; AT4G17510; AT5G05780; AT5G58290; AT5G10540; AT1G21720; AT1G56450; AT5G42790; AT4G01610; AT1G47128; AT1G53850; AT5G45890; AT5G51070; AT3G13235; AT1G79340; AT1G50380; AT3G51260; AT5G23540; AT4G38630; AT1G51710; AT5G66140; AT4G30910; AT4G39090; AT5G43060; AT5G10760; AT1G16470; AT1G79210; AT2G14260; AT5G23140; AT4G16190;...”
- “...1.80 1.43 1.65 XICs AT3G60820 PBF1 Thr 20S (CP ) 1.15 1.49 1.23 1.52 XICs AT1G53750 RPT1A non-catalytic 19S (RP base) 1.25 1.42 1.29 1.47 Class 3 XICs AT3G05530 RPT5A non-catalytic 19S (RP base) 1.31 2.29 1.39 2.33 XICs AT4G17510 UCH3 Cys C 1.55 2.27 1.82...”
- Transcriptome and Co-Expression Network Analyses Identify Key Genes Regulating Nitrogen Use Efficiency in Brassica juncea L
Goel, Scientific reports 2018 - “...AT5G66760 0.99406313 0.443595033 NAC scaffold45345 AT3G44110 0.990036914 0.455946169 SNF2 scaffold4567 AT5G60670 0.988754 0.415705034 FHA C350767 AT1G53750 0.986395 0.472080454 Pusa Bold and Pusa Jaikisan. Each module with top-5 TFs, their transcript sequence ID (TSID), ATID (Arabidopsis TAIR ID names), K (Scaled connectivity), GS (Gene significance) are shown...”
- Mass Spectrometric Analyses Reveal a Central Role for Ubiquitylation in Remodeling the Arabidopsis Proteome during Photomorphogenesis
Aguilar-Hernández, Molecular plant 2017 - “...unknown 24 8 16 8 At2g18960 AHA1 H + -ATPase 1 23 35 30 46 At1g53750 RPT1a 26S proteasome RPT subunit 1a 21 2 25 0 At5g03300 ADK2 adenosine kinase 2 21 0 16 0 At3g52880 MDAR1 monodehydroacorbate reductase 1 20 0 20 4 At4g23670 polyketide...”
- “...barrel 14 4 26 8 At1g48410 AGO1 argonaute RNA dicer 1 13 4 25 5 At1g53750 RPT1a 26S proteasome RPT subunit 1a 21 2 25 0 At4g31500 CYP83B1 cytochrome P454 subfamily B, 1 4 6 25 7 At1g70830 MLP28 MLP-like protein 28 28 28 24 33...”
- More
- GhVIM28, a negative regulator identified from VIM family genes, positively responds to salt stress in cotton
Yang, BMC plant biology 2024 - “...]. The study revealed that the ubiquitination levels of two substrate complexes, ATPase subunits RPT1 (Q9SSB5) and RPT5 (Q9SEI2), were increased under salt stress, providing further evidence that the UPS system may be activated under salt stress. Additionally, significant alterations in the ubiquitination levels of certain...”
- Comparative Ubiquitination Proteomics Revealed the Salt Tolerance Mechanism in Sugar Beet Monomeric Additional Line M14
Liu, International journal of molecular sciences 2022 - “...acid metabolism, the spliceosome, and the biosynthesis of amino acids. Among them, four proteins (P42742, Q9SSB5, O81149, and Q9SZD4) were enriched in the proteasome pathway, all of which were involved in protein degradation of the proteasome components, suggesting turnover of the proteosome components in response to...”
- “...100 ]. In our research, the ubiquitination levels of two substrate complex ATPase subunits, RPT1 (Q9SSB5) and RPT5 (Q9SEI2), were increased under salt stress, further demonstrating that the UPS system may be activated in response to salt stress. In addition, the ubiquitination modification levels of some...”
LOC107906028 26S proteasome regulatory subunit 7A from Gossypium hirsutum
72% identity, 17% coverage
8amzH / Q41365 Spinach 19s proteasome
72% identity, 18% coverage
- Ligand: adenosine-5'-triphosphate (8amzH)
D7TZI9 AAA+ ATPase domain-containing protein from Vitis vinifera
70% identity, 17% coverage
Q4D9J1 Proteasome regulatory ATPase subunit 1, putative from Trypanosoma cruzi (strain CL Brener)
69% identity, 16% coverage
- Secretome analysis of Trypanosoma cruzi by proteomics studies
Brossas, PloS one 2017 - “...Peptidyl-prolyl cis-trans isomerase Q4DPB9 21.9 Phosphoglycerate kinase Q4D193 44.4 Proteasome regulatory ATPase subunit 1, putative Q4D9J1 48.5 Proteasome regulatory ATPase subunit 2, putative Q4D0B9 49 Rab7 GTP binding protein, putative Q4E4T4 23.9 Ras-related protein rab-2a, putative (Fragment) Q4DM40 10.5 Ras-related protein rab-5, putative (Fragment) Q4D504 20.4...”
LINJ_22_0440 putative proteasome regulatory ATPase subunit 1 from Leishmania infantum JPCM5
66% identity, 16% coverage
AT1G53780 ATP binding / ATPase/ hydrolase/ nucleoside-triphosphatase/ nucleotide binding / peptidyl-prolyl cis-trans isomerase from Arabidopsis thaliana
66% identity, 12% coverage
- The Structural Role of RPN10 in the 26S Proteasome and an RPN2-Binding Residue on RPN13 Are Functionally Important in Arabidopsis
Lin, International journal of molecular sciences 2024 - “...118.3/100.8 (117.4 8.6) 3 RPT1a At1g53750 141.3/106.6 (132.6 11.8) PAA2 At2g05840 123.0/89.9 (136.8 6.3) RPT1b At1g53780 ND/ND (NA) PAB1 At1g16470 32.7/43.4 (75.3 80.1) RPT2a At4g29040 ND/ND (NA) PAB2 At1g79210 17.3/ND (NA) RPT2b At2g20140 93.3/98.7 (94.5 19.0) PAC1 At3g22110 102.9/101.3 (101.5 27.4) RPT3 At5g58290 139.4/118.4 (117.7 16.2)...”
- Comprehensive analysis of small RNA-seq data reveals that combination of miRNA with its isomiRs increase the accuracy of target prediction in Arabidopsis thaliana
Ahmed, RNA biology 2014 - “...AT1G52150 AT2G34710 AT4G32880 AT5G60690 ath-miR172a 20 3p 22 MIPF0000035 AT2G28550 AT2G39250 AT3G54990 AT4G36920 AT5G60120 AT5G67180 AT1G53780 AT3G14770 AT3G54990 AT4G36920 AT5G60120 ath-miR403 9 3p 8 MIPF0000290 AT1G31280 ath-miR408 16 3p 18 MIPF0000102 AT1G72230 AT2G02850 AT2G30210 AT2G44790 AT2G47020 AT3G02200 AT5G05390 AT5G07130 ath-miR447 14 3p 1 MIPF0000170 AT5G60760 ath-miR773...”
- Genome wide analysis of Cyclophilin gene family from rice and Arabidopsis and its comparison with yeast
Trivedi, Plant signaling & behavior 2012 - “...- 2 - ROC6 0 429 49.39 5.10 Nucleus - - AT1G53780 3 620 69.18 4.5 PM 5 - AT3G56070 2 176 18.92 7.9 Cytosol 96 brix domain-containing protein (At1g52930), HDA3...”
- Differential regulation of the PanA and PanB proteasome-activating nucleotidase and 20S proteasomal proteins of the haloarchaeon Haloferax volcanii
Reuter, Journal of bacteriology 2004 - “...DmRpt6b (AAF57069), AtRpt1a (At1g53750), AtRpt1b (At1g53780), AtRpt2a (At4g29040), AtRpt2b (At2g20140), AtRpt3 (At5g58290), AtRpt4a (At1g45000), AtRpt4b...”
PRS7B_ARATH / Q9SSB4 26S proteasome regulatory subunit 7 homolog B; 26S proteasome AAA-ATPase subunit RPT1b; 26S proteasome subunit 7 homolog B; Regulatory particle triple-A ATPase subunit 1b from Arabidopsis thaliana (Mouse-ear cress) (see paper)
66% identity, 15% coverage
- function: The 26S proteasome is involved in the ATP-dependent degradation of ubiquitinated proteins. The regulatory (or ATPase) complex confers ATP dependency and substrate specificity to the 26S complex
subunit: Component of the 19S regulatory particle (RP/PA700) base subcomplex of the 26S proteasome. The 26S proteasome is composed of a core protease (CP), known as the 20S proteasome, capped at one or both ends by the 19S regulatory particle (RP/PA700). The RP/PA700 complex is composed of at least 17 different subunits in two subcomplexes, the base and the lid, which form the portions proximal and distal to the 20S proteolytic core, respectively.
PF3D7_1311500, XP_001349843 26S protease regulatory subunit 7, putative from Plasmodium falciparum 3D7
62% identity, 17% coverage
- Plasmodium falciparum Cyclic GMP-Dependent Protein Kinase Interacts with a Subunit of the Parasite Proteasome
Govindasamy, Infection and immunity 2019 - GeneRIF: PfPKG and RPT1 interact in vitro, and the interacting fragment of RPT1 carries a PfPKG consensus phosphorylation site; a peptide carrying this consensus site competes with the RPT1 fragment for binding to PfPKG and is efficiently phosphorylated by PfPKG. These data suggest that PfPKG's phosphorylation of RPT1 could contribute to its regulation of parasite proteolysis.
- “...sequences encoded fragments of annotated Plasmodium proteins: RPT1 (PF3D7_1311500) consisting of amino acids 114 to 420 (RPT1114 - 420), a subunit of the 19S...”
- Plasmodium falciparum Cyclic GMP-Dependent Protein Kinase Interacts with a Subunit of the Parasite Proteasome.
Govindasamy, Infection and immunity 2019 - GeneRIF: PfPKG and RPT1 interact in vitro, and the interacting fragment of RPT1 carries a PfPKG consensus phosphorylation site; a peptide carrying this consensus site competes with the RPT1 fragment for binding to PfPKG and is efficiently phosphorylated by PfPKG. These data suggest that PfPKG's phosphorylation of RPT1 could contribute to its regulation of parasite proteolysis.
- “...sequences encoded fragments of annotated Plasmodium proteins: RPT1 (PF3D7_1311500) consisting of amino acids 114 to 420 (RPT1114 - 420), a subunit of the 19S...”
- Signaling transcript profile of the asexual intraerythrocytic development cycle of Plasmodium falciparum induced by melatonin and cAMP
Lima, Genes & cancer 2016 - “...putative Acid-amino acid ligase 0.2 PF3D7_1240600 2277.t00392, MAL12P1.390, PFL1960w proteasome regulatory protein, putative UPS 4 PF3D7_1311500 PF13_0063 26S protease regulatory subunit 7, putative (RPT1) UPS 0.4 PF3D7_1243700 2277.t00420, MAL12P1.418, PFL2100w ubiquitin-conjugating enzyme E2, putative UPS 0.2 Trophozoite (MEL) PF3D7_0704600 - E3 ubiquitin ligase UPS 3 PF3D7_1402500...”
- Proteome-wide analysis reveals widespread lysine acetylation of major protein complexes in the malaria parasite
Cobbold, Scientific reports 2016 - “...Phosphoglycerate mutase (PGM1) 10 0 43 * PF3D7_0821100 Protein kinase 1 (PK1) 10 0 349 PF3D7_1311500 26S protease regulatory subunit 7 (RPT1) 4.69 4.5 10 PF3D7_1105000 Histone H4 2.07 48.8 80 PF3D7_0919900 regulator of chromosome condensation, putative 2.04 25.5 1300, 1303 Sir2B PF3D7_0804900 GTPase-activating protein 10...”
GL50803_86683 26S protease regulatory subunit 7 from Giardia intestinalis
51% identity, 13% coverage
- Plasmid vectors for proteomic analyses in Giardia: purification of virulence factors and analysis of the proteasome
Jerlström-Hultqvist, Eukaryotic cell 2012 - “...proteasome alpha subunit 4 (GL50803_15099), Giardia Rpt1 (GL50803_86683) (42), polyclonal goat anti-GST (GE Healthcare), and FLAG tag monoclonal anti-FLAG M2...”
- “...Rpn11. The ADI (GL50803_112103), OCT (GL50803_10311), Rpt-1 (GL50803_86683), Pre-1 (GL50803_3209), and Rpn11 (GL50803_16823) genes were amplified by PCR from G....”
- An atypical proprotein convertase in Giardia lamblia differentiation
Davids, Molecular and biochemical parasitology 2011 - “...86 ]. In a recent proteomic study [ 87 ], two proteasome subunits (GL50803_15099 and GL50803_86683) were immunolocalized to the cytoplasmic side of the ESV membrane in early encystation and the authors proposed that they might assist in the development and maturation of ESV cargo via...”
PRS4_ENCCU / Q8SRH0 26S proteasome regulatory subunit 4 homolog from Encephalitozoon cuniculi (strain GB-M1) (Microsporidian parasite) (see paper)
NP_586091 26S PROTEASOME REGULATORY SUBUNIT 4 from Encephalitozoon cuniculi GB-M1
42% identity, 16% coverage
- function: Acts as a regulatory subunit of the 26S proteasome which degrades poly-ubiquitinated proteins in the cytoplasm and in the nucleus. It is essential for the regulated turnover of proteins and for the removal of misfolded proteins. The proteasome is a multicatalytic proteinase complex that is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH (By similarity).
subunit: The 26S proteasome consists of a 20S proteasome core and two 19S regulatory subunits. The 20S proteasome core is composed of 28 subunits that are arranged in four stacked rings, resulting in a barrel-shaped structure. The two end rings are each formed by seven alpha subunits, and the two central rings are each formed by seven beta subunits. The catalytic chamber with the active sites is on the inside of the barrel (By similarity). - ESTs from the microsporidian Edhazardia aedis
Gill, BMC genomics 2008 - “...Brachiola algerae AM422905 1-ACYL-SN-GLYCEROL-3-PHOSPHATE ACYLTRANSFERASE Encephalitozoon cuniculi NP_586146 26S PROTEASOME REGULATORY SUBUNIT 4 Encephalitozoon cuniculi NP_586091 26S PROTEASOME REGULATORY SUBUNIT 6 Encephalitozoon cuniculi NP_586128 26S PROTEASOME REGULATORY SUBUNIT 8 Encephalitozoon cuniculi XP_955738 40S RIBOSOMAL PROTEIN S2 Leishmania infantum XP_001466537 40S RIBOSOMAL PROTEIN S3 Encephalitozoon cuniculi XP_955676...”
tca_00698 proteasome-activating nucleotidase from Methanothermobacter sp. EMTCatA1
46% identity, 14% coverage
- Analysis of a Methanogen and an Actinobacterium Dominating the Thermophilic Microbial Community of an Electromethanogenic Biocathode
Kobayashi, Archaea (Vancouver, B.C.) 2021 - “...the A1-IV cluster encoded homologs of various stress-related proteins, such as chaperones and proteasomes (tca_00660, tca_00698, and tca_00826), antioxidant enzymes, and alternative redox proteins (tca_00140, tca_00141, tca_00142, tca_00723, and tca_00821) (marked by red arrowheads in Figure 4 ) (Table S8 ). This likely reflected the process...”
MTH728 ATP-dependent 26S protease regulatory subunit 4 from Methanothermobacter thermautotrophicus str. Delta H
46% identity, 14% coverage
- Differential regulation of the PanA and PanB proteasome-activating nucleotidase and 20S proteasomal proteins of the haloarchaeon Haloferax volcanii
Reuter, Journal of bacteriology 2004 - “...MbPanB (Meth2182), MmPanA (MM1006), MmPanB (MM0798), MtPan (MTH728), PaPan (PAB2233), PfPan (PF0115), PhPan (PH0201), ApPan (APE2012), SsPan (SSO0271), NePan...”
PF0115 ATP-dependent 26S protease regulatory subunit from Pyrococcus furiosus DSM 3638
47% identity, 14% coverage
- Interplay between transcriptional regulators and VapBC toxin-antitoxin loci during thermal stress response in extremely thermoacidophilic archaea
Cooper, Environmental microbiology 2023 - “...Msed_2052 Ssol_1825 SSO0766 Saci_0909 PF1404 AF0481 Proteasome subunit PF0159 PAN DFR88_06820 Msed_2275 Ssol_1248 SSO0271 Saci_0656 PF0115 AF1976 Prefoldin subunit DFR88_10125 Msed_1630 Ssol_1321 SSO0349 Saci_1463 Prefoldin subunit PF0375 AF2063 Prefoldin subunit DFR88_06255 Msed_0082 Ssol_1787 SSO0730 Saci_0605 PF0382 AF1150 Mpru = Metallosphaera prunae ; Msed = Metallosphaera sedula...”
- Bioprocessing analysis of Pyrococcus furiosus strains engineered for CO₂-based 3-hydroxypropionate production
Hawkins, Biotechnology and bioengineering 2015 - “...a putative protease from the PAD1/JAB1 superfamily (PF1070), the proteasome (PF1571, PF0159), proteasome-activating nucleosidase (PAN) (PF0115), D-aminopeptidase (PF1924), a membrane dipeptidase (PF0874), and an aminopeptidase (PF2063). The up-regulation of proteasome subunits and PAN are likely involved in protein turnover of misfolded M. sedula proteins ( Maupin-Furlow...”
- Role of the beta1 subunit in the function and stability of the 20S proteasome in the hyperthermophilic archaeon Pyrococcus furiosus
Madding, Journal of bacteriology 2007 - “...and 2-PF0159), as well as an ATPase (PF0115), referred to as proteasome-activating nucleotidase. Transcriptional analysis of the P. furiosus dynamic heat...”
- “...PAN gene in E. coli. The PAN gene (PF0115) was cloned into a pET-21b() vector (Novagen, Madison, WI) using the following primers: forward, 5-GGTGATACATATGAGTG...”
- Cold shock of a hyperthermophilic archaeon: Pyrococcus furiosus exhibits multiple responses to a suboptimal growth temperature with a key role for membrane-bound glycoproteins
Weinberg, Journal of bacteriology 2005 - “...0.8 (4.9) 2.3 0.4 (5.0) PF0085 PF0094 PF0101 PF0115 PF0190 Glutamate biosynthesis PF0204 PF0205 PF0262 PF0264 PF0276 PF0295 PF0312 PF0318 Unknown PF0324 PF0325...”
- “...in protein degradation, with an up-regulation of the proteosome (PF0115) and an AARE (PF0318). In the assay developed for AARE in a related Pyrococcus species...”
- Differential regulation of the PanA and PanB proteasome-activating nucleotidase and 20S proteasomal proteins of the haloarchaeon Haloferax volcanii
Reuter, Journal of bacteriology 2004 - “...MmPanB (MM0798), MtPan (MTH728), PaPan (PAB2233), PfPan (PF0115), PhPan (PH0201), ApPan (APE2012), SsPan (SSO0271), NePan (NEQ186). 7768 REUTER ET AL. FIG....”
- Heat shock response by the hyperthermophilic archaeon Pyrococcus furiosus
Shockley, Applied and environmental microbiology 2003 - “...ATP-dependent LA (Lon)a Proteasome, subunit alpha (PsmA) PF1404 PF0159 PF0115 PF0467 PF1571 1.03 0.33 0.89 0.21 0.25 0.16 1.53 0.24 1.96 0.28 2.0 1.9 1.2 2.9...”
cgd8_840 26S proteasome regulatory subunit S10b like AAA+ ATpase from Cryptosporidium parvum Iowa II
51% identity, 14% coverage
F1NU79 Proteasome 26S subunit, ATPase 5 from Gallus gallus
49% identity, 14% coverage
- Quantitative Proteomic Analysis Reveals Yeast Cell Wall Products Influence the Serum Proteome Composition of Broiler Chickens
Conlon, International journal of molecular sciences 2022 - “...are: Proteasome endopeptidase complex (A0A1L1RSU8), Proteasome subunit beta 1 (A0A1L1RYR5), proteasome 26S subunit, ATPase 5 (F1NU79), uncharacterized protein (F1NPN5), A1AGP (Q8JIG5), proteasome subunit alpha type (F1NC02), proteasome subunit alpha type (A0A1L1S0K9), proteasome subunit beta type (A0A1L1RUE7), proteasome subunit alpha type (A0A1D5PHL0), proteasome subunit alpha type (F1NEQ6),...”
- “...samples: namely proteasome subunit beta 1 (A0A1L1RYR5), chromogranin A (F1NLZ2), proteasome 26S subunit, ATPase 5 (F1NU79), uncharacterized protein (Q5F491), surfactant protein A (Q90XB2), pantetheinase precursor (E1BUA6), uncharacterized protein (F1NPN5), alpha-1,4 glucan phosphorylase (E1BSN7), uncharacterized protein (A0A1D5PW77), T-complex protein 1 subunit theta (F1NEF2), proteasome subunit beta type...”
- Marek's Disease Virus Regulates the Ubiquitylome of Chicken CD4+ T Cells to Promote Tumorigenesis.
Zhou, International journal of molecular sciences 2019 - “...CDK1 (cyclin-dependent kinase 1, UniProt ID#: P13863), MCM4 (UniProt ID#: E1C2U4), and PSMC5 (UniProt ID#: F1NU79) and downregulated ZAP70 (zeta-chain-associated protein kinase 70, UniProt ID#: E1BU42), BTK (Brutons tyrosine kinase, UniProt ID#: Q8JH64), GPX1 (Glutathione peroxidase 1, UniProt ID#: R4GH86), and ESD (S-formylglutathione hydrolase, UniProt ID#:...”
TON_1385 proteasome-activating nucleotidase from Thermococcus onnurineus NA1
44% identity, 15% coverage
- Proteomic Insights into Sulfur Metabolism in the Hydrogen-Producing Hyperthermophilic Archaeon Thermococcus onnurineus NA1
Moon, International journal of molecular sciences 2015 - “...Y Intracellular protease I (Pfp1) TON_1285 Y Y 1.55 Y Y 0.99 Proteasome-activating nucleotidase (PAN) TON_1385 Y Y Y Y Y Y Acylamino acid-releasing enzyme (acylaminoacyl-peptidase) TON_1543 5.87 Y Y 1.00 Y Y Cobalt-activating carboxypeptidase TON_1687 26.05 8.33 3.22 1.00 1.00 1.00 d -aminopeptidase TON_1960 Y...”
- “...proteomic analysis herein found significant up-regulation of Lon protease (Lon, TON_0529) and proteasome-activating nucleotidase (PAN, TON_1385) in the sulfur-cultured cells ( Table 2 ). The Lon protease ( Ton Lon, TON_0529) of T. onnurineus NA1 has high sequence homology with a previously characterized LonB protease (...”
5m32h / P62195 Human 26s proteasome in complex with oprozomib (see paper)
49% identity, 17% coverage
- Ligand: adenosine-5'-diphosphate (5m32h)
L8HM36 26S protease regulatory subunit 8 (Fragment) from Bos mutus
49% identity, 14% coverage
- Quantitative proteomics analysis reveals the key proteins related to semen quality in Niangya yaks
Wang, Proteome science 2023 - “...ID GI Functional classification Fold change Regulation HSPB1 L8IQW1 2236062986 signal passage 0.68 Down PSMC5 L8HM36 27806101 protein catabolism process 1.55 Up PSMD8 L8HVD5 555993092 protein hydrolysis 1.43 Up UGP2 L8I7H2 440901488 UDP-glucose metabolism process 2.09 Up PSMB3 L8IEX9 440904222 Proteasome-mediated ubiquitin-dependent protein catabolism 1.57 Up...”
- “...value PRM-FC PRM P value Regulation HSPB1 L8IQW1 942046753 0.68 0.00 0.42 0.01 Down PSMC5 L8HM36 440890860 1.55 0.00 1.63 0.05 Up HSP90AB1 L8IAK0 440908439 1.39 0.00 1.20 0.33 Up PSMD8 L8HVD5 555993092 1.43 0.00 1.45 0.29 Up PSMD2 L8HQZ9 440894961 1.39 0.00 1.42 0.21 Up...”
Q9V287 Proteasome-activating nucleotidase from Pyrococcus abyssi (strain GE5 / Orsay)
45% identity, 15% coverage
PRS8_HUMAN / P62195 26S proteasome regulatory subunit 8; 26S proteasome AAA-ATPase subunit RPT6; Proteasome 26S subunit ATPase 5; Proteasome subunit p45; Thyroid hormone receptor-interacting protein 1; TRIP1; p45/SUG from Homo sapiens (Human) (see 9 papers)
PRS8_MOUSE / P62196 26S proteasome regulatory subunit 8; 26S proteasome AAA-ATPase subunit RPT6; Proteasome 26S subunit ATPase 5; Proteasome subunit p45; p45/SUG; mSUG1 from Mus musculus (Mouse) (see 2 papers)
PRS8_RAT / P62198 26S proteasome regulatory subunit 8; 26S proteasome AAA-ATPase subunit RPT6; Proteasome 26S subunit ATPase 5; Proteasome subunit p45; Thyroid hormone receptor-interacting protein 1; TRIP1; p45/SUG from Rattus norvegicus (Rat) (see paper)
P62196 proteasome ATPase (EC 5.6.1.5) from Mus musculus (see paper)
P62194 26S proteasome regulatory subunit 8 from Bos taurus
NP_002796 26S proteasome regulatory subunit 8 isoform 1 from Homo sapiens
NP_032976 26S proteasome regulatory subunit 8 from Mus musculus
NP_112411 26S proteasome regulatory subunit 8 from Rattus norvegicus
49% identity, 14% coverage
- function: Component of the 26S proteasome, a multiprotein complex involved in the ATP-dependent degradation of ubiquitinated proteins. This complex plays a key role in the maintenance of protein homeostasis by removing misfolded or damaged proteins, which could impair cellular functions, and by removing proteins whose functions are no longer required. Therefore, the proteasome participates in numerous cellular processes, including cell cycle progression, apoptosis, or DNA damage repair. PSMC5 belongs to the heterohexameric ring of AAA (ATPases associated with diverse cellular activities) proteins that unfolds ubiquitinated target proteins that are concurrently translocated into a proteolytic chamber and degraded into peptides.
subunit: Component of the 19S proteasome regulatory particle complex. The 26S proteasome consists of a 20S core particle (CP) and two 19S regulatory subunits (RP). The regulatory particle is made of a lid composed of 9 subunits, a base containing 6 ATPases including PSMC5 and few additional components (PubMed:27342858, PubMed:27428775). Component of a complex with USP49 and RUVBL1 (PubMed:23824326). Interacts with PRPF19. Interacts with TRIM5 (PubMed:22078707). Interacts with NDC80 (PubMed:10409732, PubMed:9295362). Interacts with PAAF1 (PubMed:15831487). Interacts, in vitro, with the thyroid hormone receptor (in a thyroid hormone T3-dependent manner) and with retinoid X receptor (RXR) (By similarity). Interacts with ERCC6 (PubMed:26030138). - function: Component of the 26S proteasome, a multiprotein complex involved in the ATP-dependent degradation of ubiquitinated proteins. This complex plays a key role in the maintenance of protein homeostasis by removing misfolded or damaged proteins, which could impair cellular functions, and by removing proteins whose functions are no longer required. Therefore, the proteasome participates in numerous cellular processes, including cell cycle progression, apoptosis, or DNA damage repair. PSMC5 belongs to the heterohexameric ring of AAA (ATPases associated with diverse cellular activities) proteins that unfolds ubiquitinated target proteins that are concurrently translocated into a proteolytic chamber and degraded into peptides.
subunit: Component of the 19S proteasome regulatory particle complex. The 26S proteasome consists of a 20S core particle (CP) and two 19S regulatory subunits (RP) (By similarity). The regulatory particle is made of a lid composed of 9 subunits, a base containing 6 ATPases including PSMC5 and few additional components (By similarity). Component of a complex with USP49 and RUVBL1 (By similarity). Interacts with PRPF19 (PubMed:17349974). Interacts with TRIM5 (By similarity). Interacts with NDC80 (By similarity). Interacts with PAAF1 (By similarity). Interacts, in vitro, with the thyroid hormone receptor (in a thyroid hormone T3-dependent manner) and with retinoid X receptor (RXR) (PubMed:8598193). Interacts with ERCC6 (By similarity). - function: Component of the 26S proteasome, a multiprotein complex involved in the ATP-dependent degradation of ubiquitinated proteins. This complex plays a key role in the maintenance of protein homeostasis by removing misfolded or damaged proteins, which could impair cellular functions, and by removing proteins whose functions are no longer required. Therefore, the proteasome participates in numerous cellular processes, including cell cycle progression, apoptosis, or DNA damage repair. PSMC5 belongs to the heterohexameric ring of AAA (ATPases associated with diverse cellular activities) proteins that unfolds ubiquitinated target proteins that are concurrently translocated into a proteolytic chamber and degraded into peptides.
subunit: Component of the 19S proteasome regulatory particle complex (By similarity). The 26S proteasome consists of a 20S core particle (CP) and two 19S regulatory subunits (RP) (By similarity). The regulatory particle is made of a lid composed of 9 subunits, a base containing 6 ATPases including PSMC5 and few additional components (By similarity). Component of a complex with USP49 and RUVBL1 (By similarity). Interacts with PRPF19 (By similarity). Interacts with TRIM5 (By similarity). Interacts with NDC80 (By similarity). Interacts with PAAF1 (By similarity). Interacts, in vitro, with the thyroid hormone receptor (in a thyroid hormone T3-dependent manner) and with retinoid X receptor (RXR) (PubMed:7776974). Interacts with ERCC6 (By similarity). - Integrated analysis of phosphoproteome and ubiquitylome in epididymal sperm of buffalo (Bubalus bubalis)
Zhang, Molecular reproduction and development 2021 - “...epsilon) AGPAT5 S186 K209, K120 Q58D01 26S proteasome nonATPase regulatory subunit 4 PSMD4 S266 K122 P62194 26S proteasome regulatory subunit 8 PSMC5 S395 K222 F1MQJ7 3Phosphoinositide dependent protein kinase 1 PDPK1 S242 K258 A6QLG5 40S ribosomal protein S9 RPS9 S153, S23 K30 F1MJS8 Akinase anchor protein...”
- Immunoproteomic Identification of Noncarbohydrate Antigens Eliciting Graft-Specific Adaptive Immune Responses in Patients with Bovine Pericardial Bioprosthetic Heart Valves.
Gates, Proteomics. Clinical applications 2019 - “...] Annexin A11 ANX11 P27214 [ 20 22 ] 26S protease regulatory subunit 8 PSMC5 P62194 [ 23 ] Alpha-fetoprotein AFP Q3SZ57 [ 24 ] ATP-dependent RNA helicase A DHX9 Q28141 [ 25 ] 60S ribosomal protein L23a RL23A Q24JY1 [ 26 ] Medium-chain specific acyl-CoA...”
- Identification of a quality-control factor that monitors failures during proteasome assembly.
Zavodszky, Science (New York, N.Y.) 2021 - GeneRIF: Identification of a quality-control factor that monitors failures during proteasome assembly.
- Hypoxia-induced increase in Sug1 leads to poor post-transplantation survival of allogeneic mesenchymal stem cells.
Abu-El-Rub, FASEB journal : official publication of the Federation of American Societies for Experimental Biology 2020 (PubMed)- GeneRIF: Hypoxia-induced increase in Sug1 leads to poor post-transplantation survival of allogeneic mesenchymal stem cells.
- A Disease-associated Mutant of NLRC4 Shows Enhanced Interaction with SUG1 Leading to Constitutive FADD-dependent Caspase-8 Activation and Cell Death.
Raghawan, The Journal of biological chemistry 2017 - GeneRIF: autoinflammation-associated H443P nlrc4 mutant is altered in interaction with SUG1 and ubiquitinated proteins, triggering constitutive caspase-8-mediated cell death dependent on FADD but independent of Ser(533) phosphorylation.
- Radiosensitizing effect of PSMC5, a 19S proteasome ATPase, in H460 lung cancer cells.
Yim, Biochemical and biophysical research communications 2016 (PubMed)- GeneRIF: Our data suggest that PSMC5 facilitates the damaging effects of radiation in radiation-responsive H460 cancer cells and therefore may serve as a prognostic indicator for radiotherapy and molecular targeted therapy in lung cancer patients.
- The Xanthomonas campestris type III effector XopJ proteolytically degrades proteasome subunit RPT6.
Üstün, Plant physiology 2015 - GeneRIF: XopJ has protease activity to specifically degrade RPT6.
- Spatial control of Shoc2-scaffold-mediated ERK1/2 signaling requires remodeling activity of the ATPase PSMC5.
Jang, Journal of cell science 2015 - GeneRIF: results demonstrate that PSMC5 is a new and important player involved in regulating ERK1/2 signal transmission through the remodeling of Shoc2 scaffold complex in a spatially-defined manner.
- Proteasomal degradation of γ-aminobutyric acidB receptors is mediated by the interaction of the GABAB2 C terminus with the proteasomal ATPase Rtp6 and regulated by neuronal activity.
Zemoura, The Journal of biological chemistry 2014 - GeneRIF: gamma-aminobutyric acidB receptor proteasomal degradation is mediated by the interaction of the GABAB2 C terminus with the proteasomal ATPase Rtp6 and regulated by neuronal activity
- TRIP-1 via AKT modulation drives lung fibroblast/myofibroblast trans-differentiation.
Nyp, Respiratory research 2014 - GeneRIF: TRIP-1 regulates fibroblast acquisition of phenotype and function associated with myofibroblasts.
- More
- PSMC5 regulates microglial polarization and activation in LPS-induced cognitive deficits and motor impairments by interacting with TLR4.
Bi, Journal of neuroinflammation 2023 - GeneRIF: PSMC5 regulates microglial polarization and activation in LPS-induced cognitive deficits and motor impairments by interacting with TLR4.
- PSMC5, a 19S Proteasomal ATPase, Regulates Cocaine Action in the Nucleus Accumbens.
Ohnishi, PloS one 2015 - GeneRIF: Study shows that chronic exposure to cocaine alters the nuclear levels of PSMC5, an ATPase-containing subunit of the 19S proteasomal complex, in the nucleus accumbens and that PSMC5 in turn controls behavioral responses to cocaine.
- Caspase-3 cleaves specific 19 S proteasome subunits in skeletal muscle stimulating proteasome activity.
Wang, The Journal of biological chemistry 2010 - GeneRIF: Caspase-3 cleaves specific 19 S proteasome subunits in skeletal muscle stimulating proteasome activity
- Striatal 19S Rpt6 deficit is related to alpha-synuclein accumulation in MPTP-treated mice.
Liu, Biochemical and biophysical research communications 2008 (PubMed)- GeneRIF: These results imply that a deficiency in 19S Rpt6 may be partially related to the MPTP-induced increase in alpha-synuclein in the striatum. (19S Rpt6)
- Altered Phosphorylation of the Proteasome Subunit Rpt6 Has Minimal Impact on Synaptic Plasticity and Learning.
Scudder, eNeuro - GeneRIF: Altered Phosphorylation of the Proteasome Subunit Rpt6 Has Minimal Impact on Synaptic Plasticity and Learning.
- Phosphorylation of RPT6 Controls Its Ability to Bind DNA and Regulate Gene Expression in the Hippocampus of Male Rats during Memory Formation.
Farrell, The Journal of neuroscience : the official journal of the Society for Neuroscience 2024 - GeneRIF: Phosphorylation of RPT6 Controls Its Ability to Bind DNA and Regulate Gene Expression in the Hippocampus of Male Rats during Memory Formation.
- Age-Related Memory Impairment Is Associated with Increased zif268 Protein Accumulation and Decreased Rpt6 Phosphorylation.
Trask, International journal of molecular sciences 2020 - GeneRIF: Age-Related Memory Impairment Is Associated with Increased zif268 Protein Accumulation and Decreased Rpt6 Phosphorylation.
- Hypoxia-induced increase in Sug1 leads to poor post-transplantation survival of allogeneic mesenchymal stem cells.
Abu-El-Rub, FASEB journal : official publication of the Federation of American Societies for Experimental Biology 2020 (PubMed)- GeneRIF: Hypoxia-induced increase in Sug1 leads to poor post-transplantation survival of allogeneic mesenchymal stem cells.
- Phosphorylation of Rpt6 regulates synaptic strength in hippocampal neurons.
Djakovic, The Journal of neuroscience : the official journal of the Society for Neuroscience 2012 - GeneRIF: CaMKII-dependent phosphorylation of Rpt6 at S120 may be an important regulatory mechanism for proteasome-dependent control of synaptic remodeling in slow homeostatic plasticity
- Proteasome function is regulated by cyclic AMP-dependent protein kinase through phosphorylation of Rpt6.
Zhang, The Journal of biological chemistry 2007 (PubMed)- GeneRIF: cyclic AMP-dependent protein kinase regulates proteasome function through phosphorylation of Rpt6
- An integrated approach using proximity labelling and chemical crosslinking to probe in situ host-virus protein-protein interactions.
Li, QRB discovery 2024 - “...P54136 4R3Z Fang et al. ( 2022 ) AIMP2 Q13155 5A5H RPS3 P23396 5AJ0 PSMC5 P62195 5GJR Antiviral EIF4G2 P78344 4IUL Antiviral UPF1 Q92900 2GJK Antiviral GSPT1 P15170 5LZT Proviral TurboID Single protein HCMV US28 1,054 PDZ-RhoGEF O15085 1HTJ Proviral Medica et al. ( 2023 )...”
- High-quality peptide evidence for annotating non-canonical open reading frames as human proteins.
Deutsch, bioRxiv : the preprint server for biology 2024 - “...example, c17norep146 is a uoORF that overlaps the annotated CDS of PSMC5 (PSMC5, UniProtKB accession P62195). It displays clear Ribo-seq translation in the correct frame, far exceeding the translation rate of the annotated CDS, and is supported by 8 distinct HLA-I peptides with excellent spectra across...”
- AI-driven eyelid tumor classification in ocular oncology using proteomic data.
Wang, NPJ precision oncology 2024 - “...cell adhesion molecule - - P51665 PSMD7 26S proteasome non-ATPase regulatory subunit 7 Yes Yes P62195 PSMC5 26S proteasome regulatory subunit 8 Yes Yes Q96P63 SERPINB12 Serpin B12 - Yes Q9UN36 NDRG2 Protein NDRG2 - Yes Neural network modeling The neural network classifier was a nonlinear...”
- Meibomian Gland Dysfunction Is Associated with Low Levels of Immunoglobulin Chains and Cystatin-SN
Muttuvelu, International journal of molecular sciences 2023 - “...hydrolase 14 USP14 0.008 1.39 Q9BR76 Coronin-1B CORO1B 0.015 1.38 P32119 Peroxiredoxin-2 PRDX2 0.045 1.38 P62195 26S protease regulatory subunit 8 PSMC5 0.049 1.38 O00534 von Willebrand factor A domain-containing protein 5A VWA5A 0.043 1.36 O14950 Myosin regulatory light chain 12B MYL12B 0.039 1.36 Q15366-7 Poly(rC)-binding...”
- The mitotic surveillance pathway requires PLK1-dependent 53BP1 displacement from kinetochores
Burigotto, 2023 - Different-sized extracellular vesicles derived from stored red blood cells package diverse cargoes and cause distinct cellular effects.
Oh, Transfusion 2023 - “...P62191 5700 0.0 3.0 3.0 26S protease regulatory subunit 8 proteasome 26S subunit, ATPase 5(PSMC5) P62195 5705 0.0 3.3 3.3 26S proteasome regulatory subunit 9 proteasome 26S subunit, non-ATPase 9(PSMD9) O00233 5715 0.0 3.3 3.3 T-complex protein 1 subunit alpha t-complex 1(TCP1) P17987 6950 0.0 6.0...”
- Blood Proteome Profiling Reveals Biomarkers and Pathway Alterations in Fragile X PM at Risk for Developing FXTAS.
Zafarullah, International journal of molecular sciences 2023 - “...0.043046 Phospholipase D3 177 P62277 RPS13 0.34 14.07 0.003518 0.043046 40S ribosomal protein S13 178 P62195 PSMC5 0.28 12.86 0.003549 0.043146 26S proteasome regulatory subunit 8 179 O95866 MPIG6B 1.07 16.4 0.003566 0.043146 Megakaryocyte and platelet inhibitory receptor G6b 180 Q13761 RUNX3 0.41 12.98 0.003604 0.043363...”
- Insight into the Molecular Signature of Skeletal Muscle Characterizing Lifelong Football Players
Orrù, International journal of environmental research and public health 2022 - “...NAA50 2.55 Q00765 Receptor expression-enhancing protein 5 REEP5 2.55 P62491 Ras-related protein Rab-11A RAB11A 2.55 P62195 26S protease regulatory subunit 8 PSMC5 2.55 P01011 Alpha-1-antichymotrypsin SERPINA3 2.55 Q16853 Membrane primary amine oxidase AOC3 2.55 P36776 Lon protease homolog, mitochondrial LONP1 2.55 Q7L7X3 Serine/threonine-protein kinase TAO1 TAOK1...”
- More
- VPS13D affects epileptic seizures by regulating mitochondrial fission and autophagy in epileptic rats.
Wang, Genes & diseases 2024 - “...P10404 P11440 P16332 P17918 P23116 P24452 P27612 P31938 P32233 P38647 P43883 P47226 P48678 P52293 P59325 P62196 P70362 Q03145 Q5XJY5 Q61599 Q61838 Q62351 Q64133 Q64337 Q6P1B1 Q6P2B1 Q80X90 Q8BJ71 Q8BMA6 Q91VI7 Q922R8 Q99KK7 Q99LX0 Q9CQT1 Q9CZ44 Q9D0F9 Q9EQK5 Down-regulated A2ASS6 C0HKE6 P10922 P11103 P28659 P49312 P51410 P61255...”
- Overlap in synaptic neurological condition susceptibility pathways and the neural pannexin 1 interactome revealed by bioinformatics analyses
Frederiksen, Channels (Austin, Tex.) 2023 - “...93.8 Table 3. Overview of Mus musculus synaptic PANX1-interacting proteins. UniProt ID Gene Name Description P62196 Psmc5 26S protease regulatory subunit 8 P62270 Rps18 40S ribosomal protein S18 P97351 Rps3a 40S ribosomal protein S3a Q6ZWN5 Rps9 40S ribosomal protein S9 P97789 Xrn1 53 exoribonuclease 1 P14869...”
- Histological and Top-Down Proteomic Analyses of the Visual Pathway in the Cuprizone Demyelination Model
Almuslehi, Journal of molecular neuroscience : MN 2022 - “...47.7/7.0 1028 22 14 II - - - - Psmc5 26S proteasome regulatory subunit 8 P62196 45.8/7.4 587 27 12 III - - - - MP13 (2.19/ 0.001) Cs Citrate synthase Q9CZU6 52.0/8.8 48.5/ 6.6 913 19 9 II - Spinal cord (Hasan et al. 2019...”
- Sushi domain-containing protein 4 controls synaptic plasticity and motor learning
González-Calvo, eLife 2021 - “...Sept11 49,694 5 9 4.5 O70318 Band 4.1-like protein 2 Epb41l2 109,94 6 8 4 P62196 26S protease regulatory subunit 8 Psmc5 45,626 5 8 4 Q9Z2Q6 Septin-5 Sept5 42,747 4 8 4 The NEDD4 subfamily of HECT ubiquitin ligases is known to ubiquitinate and target...”
- Amyloid Precursor Protein (APP) May Act as a Substrate and a Recognition Unit for CRL4CRBN and Stub1 E3 Ligases Facilitating Ubiquitination of Proteins Involved in Presynaptic Functions and Neurodegeneration
Del, The Journal of biological chemistry 2016 - “...Psmd4 Psmd7 Psmd8 Psmd11 Psmd12 Psmd13 Psmd14 P62192 P54775 P62196 P62334 Q3TXS7 Q8VDM4 O35226 P26516 Q9CX56 Q8BG32 Q9D8W5 Q9WVJ2 O35593 49 47 46 44 106 100 41...”
- Redundant Roles of Rpn10 and Rpn13 in Recognition of Ubiquitinated Proteins and Cellular Homeostasis
Hamazaki, PLoS genetics 2015 - “...CP subunits 3 (Q9R1P0) and 2 (P70195) and the RP subunits Rpn8 (A1L3B8) and Rpt6 (P62196) in the Rpn13 LKO liver, compared to the control liver ( Fig 2A ). 10.1371/journal.pgen.1005401.g002 Fig 2 Rpn13 deficiency in the liver impairs degradation of ubiquitinated proteins. (A) Immunoblot analysis...”
- Alpha-enolase is upregulated on the cell surface and responds to plasminogen activation in mice expressing a ∆133p53α mimic.
Sawhney, PloS one 2015 - “...p53 Bone marrow Proteasome (Prosome Macropain) 26S Subunit, ATPase, 5 (PSMC5): Decreased in p53+ treated P62196 Protein turnover, negative regulation of transcription. 26S proteasome involved in degradation of ubiquitinated p53 [ 54 ] 40S ribosomal protein SA (RPSA): Decreased in p53+ treated P14206 40S ribosomal subunit...”
- Human stefin B role in cell's response to misfolded proteins and autophagy.
Polajnar, PloS one 2014 - “...6B Psmc4 4,87E-44 0 12 P46471 26S protease regulatory subunit 7 Psmc2 3,05E-24 1 12 P62196 26S protease regulatory subunit 8 Psmc5 3,74E-14 1 12 Q3TXS7 26S proteasome non-ATPase regulatory subunit 1 Psmd1 2,04E-37 0 11 Q8BG32 26S proteasome non-ATPase regulatory subunit 11 Psmd11 3,03E-28 0...”
- More
- Candidate proteins interacting with cytoskeleton in cells from the basal airway epithelium in vitro
Olatona, Frontiers in molecular biosciences 2024 - “...proteasome regulatory subunit 4 49.2 0.362 Q63347 Psmc2 26S proteasome regulatory subunit 7 48.5 0.045 P62198 Psmc5 26S proteasome regulatory subunit 8 45.6 0.847 P63326 Rps10 40S ribosomal protein S10 18.9 0.069 P38983 Rpsa 40S ribosomal protein SA 32.8 0.001 P39032 Rpl36 60S ribosomal protein L36...”
- The type 2 diabetes gene product STARD10 is a phosphoinositide-binding protein that controls insulin secretory granule biogenesis.
Carrat, Molecular metabolism 2020 - “...0.006621 60S ribosomal protein L18a Q4FZT9 Psmd2 5.0539 0.006621 26S proteasome non-ATPase regulatory subunit 2 P62198 Psmc5 5.1616 0.006621 26S proteasome regulatory subunit 8 G3V8B6 Psmd1 3.6940 0.006621 26S proteasome non-ATPase regulatory subunit 1 P70673 Kcnj11 5.1478 0.007165 ATP-sensitive inward rectifier potassium channel 11 Q3B8Q2 Eif4a3...”
- A proteomics-metabolomics approach indicates changes in hypothalamic glutamate-GABA metabolism of adult female rats submitted to intrauterine growth restriction
Pedroso, European journal of nutrition 2019 - “...chain 12B P41562 Idh1 Isocitrate dehydrogenase [NADP] cytoplasmic P60522 Gabarapl2 Gamma-aminobutyric acid receptor-associated protein-like 2 P62198 Psmc5 26S protease regulatory subunit 8 P62870 Elob/Tceb2 Elongin-B Q4V8E4 Cfap36 Cilia- and flagella-associated protein 36 Q62915 Cask Peripheral plasma membrane protein CASK Q66HR2 Mapre1 Microtubule-associated protein RP/EB family member...”
- Proteome mapping of epidermal growth factor induced hepatocellular carcinomas identifies novel cell metabolism targets and mitogen activated protein kinase signalling events.
Borlak, BMC genomics 2015 - “...7 0 7 6 1 T C, MEM 112* T43799 proteasome protein p45/SUG [imported] 11265288 P62198 Psmc5 46 7.6 222 6 0 6 6 0 T C, N 113 T-complex protein 1, theta subunit (TCP-1-theta) (CCT-theta) 12846632 BAB27244 Cct8 50 5.5 189 5 0 5 0...”
- Chronic ethanol feeding affects proteasome-interacting proteins.
Bousquet-Dubouch, Proteomics 2009 - “...9.4 4.4 59 49 1.0 Rpt5 Q6P6U2 2 0.9 16.3 13.0 63 62 1.2 Rpt6 P62198 7 1.1 11.7 5.6 60 63 1.3 Other regulators PA28 Q63797 NQ NQ / / 8 3 c 0.4 PA28 Q63798 2 0.3 7.6 1.9 9 NI <0.1 PA200 Q5SSW2...”
- High-throughput identification of IMCD proteins using LC-MS/MS.
Pisitkun, Physiological genomics 2006
PAB2233 26S protease regulatory subunit 4 from Pyrococcus abyssi GE5
45% identity, 15% coverage
- Role of the beta1 subunit in the function and stability of the 20S proteasome in the hyperthermophilic archaeon Pyrococcus furiosus
Madding, Journal of bacteriology 2007 - “...MMP1647 NP1524A, NP5038A AAR39040 PTO0456a PAE0696a PAB2233 PF0115 PH0201 AAO73475 SSO0271 ST0330 TA0840a TVN0947a TK2252 Bacteria Mycobacterium tuberculosis...”
- Differential regulation of the PanA and PanB proteasome-activating nucleotidase and 20S proteasomal proteins of the haloarchaeon Haloferax volcanii
Reuter, Journal of bacteriology 2004 - “...MmPanA (MM1006), MmPanB (MM0798), MtPan (MTH728), PaPan (PAB2233), PfPan (PF0115), PhPan (PH0201), ApPan (APE2012), SsPan (SSO0271), NePan (NEQ186). 7768 REUTER...”
- Proteolysis in hyperthermophilic microorganisms
Ward, Archaea (Vancouver, B.C.) 2002 - “...ATP-dependent proteases PAB1313 ATP-dependent LA (Lon)1 PAB2233 ATP-dependent regulatory subunit PAB2199 Proteasome beta subunit (PsmB-2) PAB1867 Proteasome...”
W5PW97 AAA+ ATPase domain-containing protein from Ovis aries
49% identity, 14% coverage
6msgC / P62195 6msgC (see paper)
49% identity, 14% coverage
- Ligands: peptide; adenosine-5'-triphosphate (6msgC)
Q6AZC1 26S proteasome regulatory subunit 8 (Fragment) from Danio rerio
49% identity, 14% coverage
PRS8_DROME / O18413 26S proteasome regulatory subunit 8 from Drosophila melanogaster (Fruit fly) (see 2 papers)
O18413 proteasome endopeptidase complex (EC 3.4.25.1) from Drosophila melanogaster (see paper)
49% identity, 14% coverage
- function: The 26S proteasome is involved in the ATP-dependent degradation of ubiquitinated proteins. The regulatory (or ATPase) complex confers ATP dependency and substrate specificity to the 26S complex (By similarity).
subunit: Component of the 19S proteasome regulatory particle complex. The 26S proteasome consists of a 20S proteasome core and two 19S regulatory subunits. Interacts with Rpn6 (PubMed:22187461). Interacts with imd and Usp2 isoform A (PubMed:25027767).
Hlac_0185 26S proteasome subunit P45 family from Halorubrum lacusprofundi ATCC 49239
42% identity, 17% coverage
- Morphological and proteomic analysis of biofilms from the Antarctic archaeon, Halorubrum lacusprofundi
Liao, Scientific reports 2016 - “...Table 2 , Fig. 7 ). Additionally, biofilms had lower levels of a proteasome protein (Hlac_0185), a protein translocase (Hlac_2426), and a cell division protein (Hlac_1716) ( Table 2 ). Discussion The major metabolic pathways and cellular processes involved in biofilm formation were inferred by integrating...”
- “...MC1 family protein 1.5 2.1 Hlac_3022 type III restriction protein Res subunit 1.5 1.5 Proteolysis Hlac_0185 proteasome regulatory subunit (PsmR) 0.61 ns 0.67 ns Cell division Hlac_1716 cell division control protein CdcH 0.71 ns 0.62 ns Protein chaperones Hlac_0416 group II chaperonin 0.45 0.63 0.61 0.70...”
CNAG_04666 26S protease regulatory subunit 8 from Cryptococcus neoformans var. grubii H99
44% identity, 14% coverage
- HDAC genes play distinct and redundant roles in Cryptococcus neoformans virulence
Brandão, Scientific reports 2018 - “...A4 0.450060236 CNAG_03904 26S protease regulatory subunit 6B 0.150163286 CNAG_04380 Peptidase 0.391189814 CNAG_04635 Endopeptidase 0.225975854 CNAG_04666 26S protease regulatory subunit 8 0.186381652 CNAG_04906 26S protease regulatory subunit 10B 0.282517098 CNAG_05742 STP1 Putative site-2 protease 0.354935589 CNAG_05872 Endopeptidase 0.437070994 CNAG_06153 26S protease regulatory subunit 6A-B 0.401220915 CNAG_06410...”
TK2252 proteasome-activating nucleotidase from Thermococcus kodakaraensis KOD1
44% identity, 15% coverage
PRS8_CAEEL / Q9XTT9 26S proteasome regulatory subunit 8; 26S proteasome AAA-ATPase subunit rpt-6; Proteasome regulatory particle ATPase-like protein 6 from Caenorhabditis elegans (see paper)
NP_499609 26S proteasome regulatory subunit 8 from Caenorhabditis elegans
51% identity, 14% coverage
- function: Component of the 26S proteasome, a multiprotein complex involved in the ATP-dependent degradation of ubiquitinated proteins (PubMed:30265660). This complex plays a key role in the maintenance of protein homeostasis by removing misfolded or damaged proteins, which could impair cellular functions, and by removing proteins whose functions are no longer required (PubMed:30265660). Therefore, the proteasome participates in numerous cellular processes, including cell cycle progression, apoptosis, or DNA damage repair (By similarity). Belongs to the heterohexameric ring of AAA (ATPases associated with diverse cellular activities) proteins that unfolds ubiquitinated target proteins that are concurrently translocated into a proteolytic chamber and degraded into peptides (By similarity). In addition, regulates gene expression in response to bacterial infection (PubMed:30265660). Binds to the GATA transcription factor elt-2 to control its transcriptional activity and thus the expression of elt-2-dependent genes in response to infection by Gram-negative bacteria such as P.aeruginosa (PubMed:30265660).
subunit: Component of the 19S proteasome regulatory particle complex (Probable). The 26S proteasome consists of a 20S core particle (CP) and two 19S regulatory subunits (RP) (By similarity). Interacts with elt-2 (PubMed:30265660).
disruption phenotype: RNAi-mediated knockdown at the L4 stage of larval development inhibits activity of the proteasome (PubMed:30265660). RNAi-mediated knockdown at the L4 larval stage also results in increased mortality and transcription of immune genes containing the elt-2 binding motif when exposed to Gram-negative bacteria such as P.aeruginosa (PubMed:30265660). RNAi-mediated knockdown at this stage, furthermore, prevents the recovery of P.aeruginosa infected animals treated with the antibiotic streptomycin (PubMed:30265660). - Non-proteolytic activity of 19S proteasome subunit RPT-6 regulates GATA transcription during response to infection.
Olaitan, PLoS genetics 2018 - GeneRIF: Study results indicate that C. elegans RPT-6 interacts with ELT-2 in vivo to control the expression of immune genes during response to Pseudomonas aeruginosa infection in a manner that is likely independent of the proteolytic activity of the proteasome.
J9AKD6 26S protease regulatory subunit 8 from Wuchereria bancrofti
49% identity, 21% coverage
5eqtA / O57940 Crystal structure of the atpase domain of pan from pyrococcus horikoshii
49% identity, 20% coverage
- Ligand: adenosine-5'-diphosphate (5eqtA)
let1 / AAA61615.1 Let1 from Schizosaccharomyces pombe (see paper)
NP_595870 proteasome regulatory subunit Rpt6 from Schizosaccharomyces pombe
SPBC23G7.12c 19S proteasome regulatory subunit Rpt6 from Schizosaccharomyces pombe
49% identity, 15% coverage
O28303 proteasome ATPase (EC 5.6.1.5) from Archaeoglobus fulgidus (see 2 papers)
AF1976 26S protease regulatory subunit 4 from Archaeoglobus fulgidus DSM 4304
42% identity, 14% coverage
- Proteolytic systems of archaea: slicing, dicing, and mincing in the extreme
Maupin-Furlow, Emerging topics in life sciences 2018 - “...3h43, 3whk, 5eqt, 3h4m, 2wg5 Mj PAN (Q58576) [ 197 , 198 ]; Af PAN (O28303) [ 41 ]; Hv PAN1 (D4GUJ7) and Hv PAN2 (Q5UT56) [ 199 , 200 ] Cdc48/p97-type AAA ATPase Intracellular 5g4f, 5g4g Ta VAT (O05209) [ 49 ] NfeD-like (STOPP, stomatin...”
- Interplay between transcriptional regulators and VapBC toxin-antitoxin loci during thermal stress response in extremely thermoacidophilic archaea
Cooper, Environmental microbiology 2023 - “...Ssol_1825 SSO0766 Saci_0909 PF1404 AF0481 Proteasome subunit PF0159 PAN DFR88_06820 Msed_2275 Ssol_1248 SSO0271 Saci_0656 PF0115 AF1976 Prefoldin subunit DFR88_10125 Msed_1630 Ssol_1321 SSO0349 Saci_1463 Prefoldin subunit PF0375 AF2063 Prefoldin subunit DFR88_06255 Msed_0082 Ssol_1787 SSO0730 Saci_0605 PF0382 AF1150 Mpru = Metallosphaera prunae ; Msed = Metallosphaera sedula ;...”
- Role of the beta1 subunit in the function and stability of the 20S proteasome in the hyperthermophilic archaeon Pyrococcus furiosus
Madding, Journal of bacteriology 2007 - “...ST0477, ST0324 TA0612 TVN0663 TK1429, TK2207 APE2012 AF1976 EAM94439a VNG2000G, VNG0510G AAV47895, AAV48212 AAV38127, AAV38126 HQ3115A, HQ1544A MJ1176 ABE53157,...”
- Differential regulation of the PanA and PanB proteasome-activating nucleotidase and 20S proteasomal proteins of the haloarchaeon Haloferax volcanii
Reuter, Journal of bacteriology 2004 - “...GlRpt5 (EAA42075), GlRpt6 (EAA42208), AfPan (AF1976), HmPanA (Contig93_11146_12363), HmPanB (Contig169_4249_3029), HbPanA (VNG0510g), HbPanB (VNG2000g), HvPanA...”
6he8I / O28303 Pan-proteasome in state 1 (see paper)
42% identity, 15% coverage
- Ligand: adenosine-5'-triphosphate (6he8I)
PF3D7_1306400 26S protease regulatory subunit 10B, putative from Plasmodium falciparum 3D7
46% identity, 16% coverage
- Mitigating the risk of antimalarial resistance via covalent dual-subunit inhibition of the Plasmodium proteasome
Deni, Cell chemical biology 2023 - “...C580Y 20S 6 PF3D7_0518300 S208L S208L WLL Stokes etal. 29 RPN6 Cam3.II K13 WT 19S PF3D7_1306400 E266K E266K WLW Stokes etal. 29 RPT5 Cam3.II K13 C580Y 19S PF3D7_1130400 G319S G319S WLW Stokes etal. 29 RPT4 Cam3.II K13 WT 19S PF3D7_1402300 E380 E380 WLW Stokes etal. 29...”
- Identification of sulfenylation patterns in trophozoite stage Plasmodium falciparum using a non-dimedone based probe
Schipper, Molecular and biochemical parasitology 2021 - “...PF3D7_1248900 26S protease regulatory subunit 8, putative 49.5 33.1% / 32.2% / 35.6% C391 68 PF3D7_1306400 26S protease regulatory subunit 10B, putative 44.7 35.6% / 42.2% / 38.9% C111' 69 PF3D7_1402300 26S proteasome regulatory subunit RPN6 78.4 20.6% / 23.0% / 16.2% C377 Protein folding 70...”
- Genomic and Genetic Approaches to Studying Antimalarial Drug Resistance and Plasmodium Biology
Okombo, Trends in parasitology 2021 - “...5; WLW: Pf 20S 2 (PF3D7_1328100), Pf 26S proteasome 19S regulatory particles ( pfrpt4 , PF3D7_1306400), ( pfrpt5 , PF3D7_1130400), ( pfrpn6 , PF3D7_1402300) [ 59 61 ] DSM265 Triazolopyrimidine Phase I/II ( NCT02389348 , NCT02573857 , NCT02123290 a ) Dihydroorotate dehydrogenase (PfDHODH) Mitochondrion Pyrimidine biosynthesis...”
- Insights into the intracellular localization, protein associations and artemisinin resistance properties of Plasmodium falciparum K13
Gnädig, PLoS pathogens 2020 - “...PF3D7_0504600 2-oxoisovalerate dehydrogenase subunit beta, mitochondrial, putative BCKDHB Mitochondrial TCA cycle 0.41% 3 6 (3,3) PF3D7_1306400 26S proteasome AAA-ATPase subunit RPT4, putative RPT4 Proteasome 0.36% 3 5 (2,3) PF3D7_0524000 Karyopherin beta KASb Import and export through the nuclear pore 0.35% 4 6 (3,3) PF3D7_0702500 Plasmodium exported...”
- Elucidating Mechanisms of Drug-Resistant Plasmodium falciparum
Ross, Cell host & microbe 2019 - “...WLL-vs, WLW-vs, asparagine ethylenediamines 20S b5 (PF3D7_1011400) 20S b6 (PF3D7_0518300) 20S b2 (PF3D7_1328100) 19S RPT4 (PF3D7_1306400) 19S RPT5 (PF3D7_1130400) 19S RPN6 (PF3D7_1402300) Nucleus mRNA processing Cleavage and polyadenylation specificity factor subunit 3 AN3661 pfcpsf3 (PF3D7_1438500) Rhoptries and Exonemes Egress and invasion of host cells Plasmepsins IX...”
- Covalent Plasmodium falciparum-selective proteasome inhibitors exhibit a low propensity for generating resistance in vitro and synergize with multiple antimalarial agents
Stokes, PLoS pathogens 2019 - “...20S 2 subunit C72Y C31Y WLW 6/18 PF3D7_1328100 20S 2 subunit A90E A49E WLW 2/18 PF3D7_1306400 19S RPT4 NA E380* WLW 2/18 PF3D7_1130400 19S RPT5 NA G319S WLW 1/18 PF3D7_1130400 19S RPT5 NA R295S WLW 1/18 PF3D7_1402300 19S RPN6 NA E266K WLW 2/18 a Amino acid...”
- Transcriptome analysis based detection of Plasmodium falciparum development in Anopheles stephensi mosquitoes
Oakley, Scientific reports 2018 - “...and proteasome 26S protease regulatory subunit 4 PF3D7_1008400 Day 8 26S protease regulatory subunit 10B PF3D7_1306400 Day 4, 6, and 8 26S proteasome regulatory subunit RPN8 PF3D7_0912900 Day 4 and 6 Beta3 proteasome subunit PFA_0400c Day 6 Proteasome subunit type-4 PF3D7_0803800 Day 8 26S proteasome regulatory...”
- Analysis of the interactome of the Ser/Thr Protein Phosphatase type 1 in Plasmodium falciparum
Hollin, BMC genomics 2016 - “...complex subunit 2, putative (THO2) TDO/A (1) PF3D7_1303800 conserved Plasmodium protein, unknown function TDO/A (2) PF3D7_1306400 26S protease regulatory subunit 10B, putative (RPT4) TDO/A (1) PF3D7_1308400 conserved Plasmodium protein, unknown function QDO/A (1) RRVLF PF3D7_1308800 tyrosine recombinase (INT) QDO/A (1) KYIKF TDO/A (1) PF3D7_1316100 inositol polyphosphate...”
PH0201 26S protease regulatory subunit from Pyrococcus horikoshii OT3
49% identity, 13% coverage
- Role of the beta1 subunit in the function and stability of the 20S proteasome in the hyperthermophilic archaeon Pyrococcus furiosus
Madding, Journal of bacteriology 2007 - “...NP5038A AAR39040 PTO0456a PAE0696a PAB2233 PF0115 PH0201 AAO73475 SSO0271 ST0330 TA0840a TVN0947a TK2252 Bacteria Mycobacterium tuberculosis Rhodococcus...”
- Differential regulation of the PanA and PanB proteasome-activating nucleotidase and 20S proteasomal proteins of the haloarchaeon Haloferax volcanii
Reuter, Journal of bacteriology 2004 - “...(MM0798), MtPan (MTH728), PaPan (PAB2233), PfPan (PF0115), PhPan (PH0201), ApPan (APE2012), SsPan (SSO0271), NePan (NEQ186). 7768 REUTER ET AL. FIG. 3. PanA and...”
- Proteolysis in hyperthermophilic microorganisms
Ward, Archaea (Vancouver, B.C.) 2002 - “...ATP-dependent proteases PH0452 ATP-dependent LA (Lon)1 PH0201 ATP-dependent regulatory subunit PH0245 Proteasome beta subunit (PsmB-2) PH1402 Proteasome beta...”
O65088 TAT-binding protein homolog (Fragment) from Picea mariana
49% identity, 33% coverage
LOC110759896 26S proteasome regulatory subunit 8 homolog A from Prunus avium
49% identity, 14% coverage
PRS8B_ARATH / Q94BQ2 26S proteasome regulatory subunit 8 homolog B; 26S proteasome AAA-ATPase subunit RPT6b; 26S proteasome subunit 8 homolog B; Regulatory particle triple-A ATPase subunit 6b from Arabidopsis thaliana (Mouse-ear cress) (see 2 papers)
AT5G20000 26S proteasome AAA-ATPase subunit, putative from Arabidopsis thaliana
49% identity, 14% coverage
- function: The 26S proteasome is involved in the ATP-dependent degradation of ubiquitinated proteins. The regulatory (or ATPase) complex confers ATP dependency and substrate specificity to the 26S complex
subunit: Component of the 19S regulatory particle (RP/PA700) base subcomplex of the 26S proteasome. The 26S proteasome is composed of a core protease (CP), known as the 20S proteasome, capped at one or both ends by the 19S regulatory particle (RP/PA700). The RP/PA700 complex is composed of at least 17 different subunits in two subcomplexes, the base and the lid, which form the portions proximal and distal to the 20S proteolytic core, respectively. - The Structural Role of RPN10 in the 26S Proteasome and an RPN2-Binding Residue on RPN13 Are Functionally Important in Arabidopsis
Lin, International journal of molecular sciences 2024 - “...At3g14290 26.9/31.6 (85.2 45.1) RPT6a At5g19990 44.2/84.2 (52.5 91.0) PAF1 At5g42790 96.1/107.9 (89.1 13.8) RPT6b At5g20000 73.1/ND (NA) PAF2 At1g47250 10.13/ND (NA) RPN1a At2g20580 330.8/272.8 (121.3 20.0) PAG1 At2g27020 85.6/65.8 (130.1 34.1) RPN1b At4g28470 34.6/91.7 (37.7 37.8) PBA1 At4g31300 90.4/77.6 (116.4 24.2) RPN2a At2g32730 157.8/105.0 (150.3...”
- The Xanthomonas campestris type III effector XopJ targets the host cell proteasome to suppress salicylic-acid mediated plant defence
Üstün, PLoS pathogens 2013 - “...the proteasome [22] . The Arabidopsis genome encodes two RPT6 genes (RPT6a, At5g19990 and RPT6b, At5g20000) which are directly arranged in tandem and expression of both genes is supported by cDNAs ( www.arabidopsis.org ). Both protein sequences share 97% identity with each other ( Figure S1...”
- “...found in the Arabidopsis Genome Initiative or GenBank/EMBL databases under following accession numbers: At5g19990 (AtRPT6a); At5g20000 (AtRPT6b); JX965405 (NtRPT6); JX965404 (CaRPT6); EHN02423.1 (ScRPT6). Accession numbers of proteins used for sequence alignments can be found in the legend of the respective figures. Supporting Information Figure S1 Protein...”
- Differential regulation of the PanA and PanB proteasome-activating nucleotidase and 20S proteasomal proteins of the haloarchaeon Haloferax volcanii
Reuter, Journal of bacteriology 2004 - “...AtRpt5b (At1g09100), AtRpt6a (At5g19990), AtRpt6b (At5g20000), ScRpt1 (YKL145w), ScRpt2 (YDL007w), ScRpt3 (YDR394w), ScRpt4 (YOR259c), ScRpt5 (YOR117w),...”
Q25544 26S proteasome regulatory subunit 8 homolog from Naegleria fowleri
43% identity, 15% coverage
PRS8A_ARATH / Q9C5U3 26S proteasome regulatory subunit 8 homolog A; 26S proteasome AAA-ATPase subunit RPT6a; 26S proteasome subunit 8 homolog A; Regulatory particle triple-A ATPase subunit 6a from Arabidopsis thaliana (Mouse-ear cress) (see 2 papers)
AT5G19990 RPT6A (REGULATORY PARTICLE TRIPLE-A ATPASE 6A); ATPase from Arabidopsis thaliana
49% identity, 14% coverage
- function: The 26S proteasome is involved in the ATP-dependent degradation of ubiquitinated proteins. The regulatory (or ATPase) complex confers ATP dependency and substrate specificity to the 26S complex
subunit: Component of the 19S regulatory particle (RP/PA700) base subcomplex of the 26S proteasome. The 26S proteasome is composed of a core protease (CP), known as the 20S proteasome, capped at one or both ends by the 19S regulatory particle (RP/PA700). The RP/PA700 complex is composed of at least 17 different subunits in two subcomplexes, the base and the lid, which form the portions proximal and distal to the 20S proteolytic core, respectively. - The Structural Role of RPN10 in the 26S Proteasome and an RPN2-Binding Residue on RPN13 Are Functionally Important in Arabidopsis
Lin, International journal of molecular sciences 2024 - “...PAE1 At1g53850 18.8/11.8 (158.6 141.7) RPT5b At1g09100 11.54/ND (NA) PAE2 At3g14290 26.9/31.6 (85.2 45.1) RPT6a At5g19990 44.2/84.2 (52.5 91.0) PAF1 At5g42790 96.1/107.9 (89.1 13.8) RPT6b At5g20000 73.1/ND (NA) PAF2 At1g47250 10.13/ND (NA) RPN1a At2g20580 330.8/272.8 (121.3 20.0) PAG1 At2g27020 85.6/65.8 (130.1 34.1) RPN1b At4g28470 34.6/91.7 (37.7...”
- Response of the organellar and nuclear (post)transcriptomes of Arabidopsis to drought
Xu, Frontiers in plant science 2023 - “...DISEASE 1; monitors a superoxide-dependent signal and negatively regulates a plant cell death pathway LSD1 AT5G19990 REGULATORY PARTICLE TRIPLE-A ATPASE 6A; 26S proteasome AAA-ATPase subunit RPT6A AT3G53970 PROTEASOME REGULATOR 1; was identified as homologous to human PI31 PTRE1 AT2G18790 PHYTOCHROME B; red/far-red photoreceptor PHYB AT1G09530 PHYTOCHROME...”
- Genome-wide identification of ubiquitin proteasome subunits as superior reference genes for transcript normalization during receptacle development in strawberry cultivars
Chen, BMC genomics 2021 - “...Correlation coefficient (R 2 ) RPT6A 26S proteasome regulatory particle AAA-ATPase subunit protein 6A FvH4_1g03980 AT5G19990 0 GGTTTTGATGGCTACAAATCGT CCATTCATTTTCTCGGCAATCT 188 100.2 0.998 RPN5A 26S proteasome regulatory particle non-ATPase subunit protein 5A FvH4_5g27840 AT5G09900 0 GAGGCAATTTAGACGCGCAA GCTCAAGAATGTCAGTGGCG 107 99.5 0.997 VPS32 Vacuolar protein sorting protein 32 FvH4_1g06720...”
- Development of iFOX-hunting as a functional genomic tool and demonstration of its use to identify early senescence-related genes in the polyploid Brassica napus
Ling, Plant biotechnology journal 2018 - “...reductase transmembrane protein family 86% Early leaf senescence rsl1767 AT2G33880 Homeobox3 72% Slow growth rsl1810 AT5G19990 Regulatory particle tripleA ATPase 6A 89% Early leaf senescence/lethal rsl1947 AT3G49910 Translation protein SH3like family protein 89% Dwarf rsl1988 AT1G75990 PAM domain (PCI/PINT associated module) protein 80% Early leaf senescence...”
- ChlamyNET: a Chlamydomonas gene co-expression network reveals global properties of the transcriptome and the early setup of key co-expression patterns in the green lineage
Romero-Campero, BMC genomics 2016 - “...Cre16.g663500 CrRPN10 At4g38630 REGULATORY PARTICLE NON-ATPASE 10 4 3.48 x 10- 14 0 Cre04.g216600 CrRPT6A At5g19990 REGULATORY PARTICLE TRIPLE-A ATPASE 6A 19 1.74 x 10- 12 0.25 Cre07.g329700 CrRPT2A At4g29040 REGULATORY PARTICLE TRIPLE-A ATPASE 2A 3 3.44 x 10- 16 0.33 According to this information several...”
- Proteomic analysis of endoplasmic reticulum stress responses in rice seeds
Qian, Scientific reports 2015 - “...regulatory subunit 6A LOC_Os02g56000 gi|115445841 3.909 AT5G58290 26S protease regulatory subunit 6B LOC_Os02g21970 gi|115444937 6.237 AT5G19990 26S proteasome regulatory particle triple-A ATPase subunit6 LOC_Os02g11050 gi|125596332 2.299 AT1G53750 26S protease regulatory subunit 7 LOC_Os02g54340 gi|218199510 5.739 AT1G64520 proteasome regulatory particle LOC_Os07g25420 gi|222622165 2.796 AT2G20580 proteasome/cyclosome repeat containing...”
- DYn-2 Based Identification of Arabidopsis Sulfenomes
Akter, Molecular & cellular proteomics : MCP 2015 - “...REGULATORY PARTICLE TRIPLE-A ATPASE 6A Description AT5G19990 AGI code Nucleolus, nucleus, plasma membrane Nucleus Nucleus Mitochondrion, plastid Mitochondrion,...”
- The Xanthomonas campestris type III effector XopJ targets the host cell proteasome to suppress salicylic-acid mediated plant defence
Üstün, PLoS pathogens 2013 - “...core particle of the proteasome [22] . The Arabidopsis genome encodes two RPT6 genes (RPT6a, At5g19990 and RPT6b, At5g20000) which are directly arranged in tandem and expression of both genes is supported by cDNAs ( www.arabidopsis.org ). Both protein sequences share 97% identity with each other...”
- “...can be found in the Arabidopsis Genome Initiative or GenBank/EMBL databases under following accession numbers: At5g19990 (AtRPT6a); At5g20000 (AtRPT6b); JX965405 (NtRPT6); JX965404 (CaRPT6); EHN02423.1 (ScRPT6). Accession numbers of proteins used for sequence alignments can be found in the legend of the respective figures. Supporting Information Figure...”
- More
- Physiological and differential protein expression analyses of the calcium stress response in the <i>Drynaria roosii</i> rhizome
Wu, Heliyon 2024 - “...40S ribosomal protein S10-2 RPS10B 1.903 0.043 Q9FJA6 40S ribosomal protein S3-3 RPS3C 1.637 0.035 Q9C5U3 26S proteasome regulatory subunit 8 homolog A RPT6A 3.444 0.011 Q93Y35 26S proteasome non-ATPase regulatory subunit 6 homolog RPN7 1.830 0.032 Q9LP45 26S proteasome non-ATPase regulatory subunit 11 homolog RPN6...”
- “...1.869 0.049 Q43468 Hsp70-Hsp90 organizing protein 1 HOP1 1.561 0.024 Q9LY99 Prohibitin-5 PHB5 1.609 0.019 Q9C5U3 26S proteasome regulatory subunit 8 homolog A RPT6A 3.758 0.042 O04019 26S proteasome regulatory subunit 6A homolog B RPT5B 1.515 0.003 Carbohydrate and energy metabolism ( 2 ) O20250 Transketolase...”
- Physiological and Transcriptional Responses of Apocynum venetum to Salt Stress at the Seed Germination Stage
Li, International journal of molecular sciences 2023 - “...regulatory subunit 6A homolog A 3.39 RPT1A P0DKJ9 26S proteasome regulatory subunit 7A 5.17 RPT6A Q9C5U3 26S proteasome regulatory subunit 8 homolog A 4.29 RPT4A Q9SEI3 26S proteasome regulatory subunit 10B homolog A 8.74 PCS1 Q9LZL3 Aspartic proteinase PCS1 3.89 APF2 Q9LNJ3 Aspartyl protease family protein...”
- An iTRAQ-based proteomics approach to clarify the molecular physiology of somatic embryo development in Prince Rupprecht's larch (Larix principis-rupprechtii Mayr)
Zhao, PloS one 2015 - “...Heat shock cognate protein 701 F4KCE5 1 1.144 0.343 1 Regulatory particle triple-A ATPase 6A Q9C5U3 1 2.882 0.805 3 Nucleosome assembly Histone H2B (Fragments) Q99285 1 0.575 10.349 2 Probable histone H2B.3 Q1SU99 1 0.788 10.605 2 Histone H4 variant TH011 P62785 1 1.089 1.873...”
PS10A_ARATH / Q9SEI3 26S proteasome regulatory subunit 10B homolog A; 26S proteasome AAA-ATPase subunit RPT4a; 26S proteasome subunit 10B homolog A; Regulatory particle triple-A ATPase subunit 4a from Arabidopsis thaliana (Mouse-ear cress) (see 2 papers)
AT5G43010 RPT4A; ATPase from Arabidopsis thaliana
44% identity, 16% coverage
- function: The 26S proteasome is involved in the ATP-dependent degradation of ubiquitinated proteins. The regulatory (or ATPase) complex confers ATP dependency and substrate specificity to the 26S complex
subunit: Component of the 19S regulatory particle (RP/PA700) base subcomplex of the 26S proteasome. The 26S proteasome is composed of a core protease (CP), known as the 20S proteasome, capped at one or both ends by the 19S regulatory particle (RP/PA700). The RP/PA700 complex is composed of at least 17 different subunits in two subcomplexes, the base and the lid, which form the portions proximal and distal to the 20S proteolytic core, respectively. - The Structural Role of RPN10 in the 26S Proteasome and an RPN2-Binding Residue on RPN13 Are Functionally Important in Arabidopsis
Lin, International journal of molecular sciences 2024 - “...PAC1 At3g22110 102.9/101.3 (101.5 27.4) RPT3 At5g58290 139.4/118.4 (117.7 16.2) PAC2 At4g15160 ND/ND (NA) RPT4a At5g43010 17.5/16.8 (104.2 180.6) PAD1 At3g51260 124.0/107.3 (115.6 3.7) RPT4b At1g45000 111.8/120.1 (93.1 35.8) PAD2 At5g66140 32.7/10.5 (312.5 270.9) RPT5a At3g05530 145.2/138.2 (105.1 30.4) PAE1 At1g53850 18.8/11.8 (158.6 141.7) RPT5b At1g09100...”
- Cadaverine regulates biotin synthesis to modulate primary root growth in Arabidopsis
Gibbs, The Plant journal : for cell and molecular biology 2021 - “...(AT2G43360), BIO4 (AT5G04620), MCCA (AT1G03090), BCCP1 (AT5G16390), PAO4 (AT1G65840), OCT1 (AT1G73220), PP2A (AT1G69960), and RPT4A (AT5G43010). AUTHOR CONTRIBUTIONS NMG, HAM, and PHM designed the research; NMG, SHS, SLN, SM, and CA performed the research; NMG, SHS, SLN, HAM, and PHM analyzed the data; NMG and PHM...”
- Proteomic analysis of affinity-purified 26S proteasomes identifies a suite of assembly chaperones in Arabidopsis
Gemperline, The Journal of biological chemistry 2019 (secret) - Partial Activation of SA- and JA-Defensive Pathways in Strawberry upon Colletotrichum acutatum Interaction
Amil-Ruiz, Frontiers in plant science 2016 - “...gene24345 AT2G32240 Leucine-rich repeat-containing protein LRR protein, plant receptor 1.93 3.95E-02 SIGNAL TRANSDUCTION M18F3 gene21849 AT5G43010 Regulatory particle AAA-ATPase 4A/Proteasome complex Regulatory ATPase, Proteasome complex 2.02 3.95E-02 M29G3# gene25430 AT2G22990 Serine carboxypeptidase Peptidase, Glucosinolate and phenylpropanoid pathway 1.88 (5.1 2.2) 3.95E-02 M5E3 gene12921 AT1G74960 Beta-ketoacyl-ACP synthase...”
- The complex of ASYMMETRIC LEAVES (AS) proteins plays a central role in antagonistic interactions of genes for leaf polarity specification in Arabidopsis
Machida, Wiley interdisciplinary reviews. Developmental biology 2015 - “...); RPT4a ( rpt4a ); PAD1 ( pad1 ) AT5G05780; AT4G29040; AT1G13060; AT3G05530; AT1G53750; AT5G45620; AT5G43010; AT3G51260 26S proteasome subunit; 20S subunit; one of the six AAAATPases of the proteasome; proteasome component domain; 20S proteasome subunit Component of 26S or 20S proteasome Endoplasmic reticulum and golgi...”
- Transcript and protein profiling analysis of OTA-induced cell death reveals the regulation of the toxicity response process in Arabidopsis thaliana
Wang, Journal of experimental botany 2012 - “...particle triple-A ATPase 6A 3.3 (1.74) AT5G19990 RPT4A 26S proteasome AAA-ATPase subunit RPT4A 3.0 (1.60) AT5G43010 RPT5B 26S proteasome AAA-ATPase subunit RPT5B 2.9 (1.53) AT1G09100 PAA2 20S proteasome subunit PAA2 4.3 (2.11) AT2G05840 PAA1 Proteasome alpha subunit A1 2.7 (1.45) AT5G35590 PBC2 Peptidase/threonine-type endopeptidase 5.0 (2.33)...”
- Differential regulation of the PanA and PanB proteasome-activating nucleotidase and 20S proteasomal proteins of the haloarchaeon Haloferax volcanii
Reuter, Journal of bacteriology 2004 - “...AtRpt3 (At5g58290), AtRpt4a (At1g45000), AtRpt4b (At5g43010), AtRpt5a (At3g05530), AtRpt5b (At1g09100), AtRpt6a (At5g19990), AtRpt6b (At5g20000), ScRpt1...”
- Physiological and Transcriptional Responses of Apocynum venetum to Salt Stress at the Seed Germination Stage
Li, International journal of molecular sciences 2023 - “...regulatory subunit 7A 5.17 RPT6A Q9C5U3 26S proteasome regulatory subunit 8 homolog A 4.29 RPT4A Q9SEI3 26S proteasome regulatory subunit 10B homolog A 8.74 PCS1 Q9LZL3 Aspartic proteinase PCS1 3.89 APF2 Q9LNJ3 Aspartyl protease family protein 2 8.63 At5g10770 Q8S9J6 Aspartyl protease family protein At5g10770 4.31...”
- Disclosing proteins in the leaves of cork oak plants associated with the immune response to Phytophthora cinnamomi inoculation in the roots: A long-term proteomics approach
Coelho, PloS one 2021 - “...0.6 Ribosomal protein S6 A8MS03 A8MS28 0.481 0.754 0.026 0.6 Ribosomal L27e protein family A8MS28 Q9SEI3 0.326 0.496 0.026 0.6 26S proteasome regulatory subunit 10B homolog A PS10A/RTP4A Q9SII0 0.257 0.395 0.009 0.6 Probable histone H2A variant 2 H2AV2 Q39142 2.316 3.472 0.041 0.6 Chlorophyll a-b...”
- “...assembly (5) 5 A8MRL0 Histone superfamily protein H3.3 (A8MRL0/AT4G40030) Nucleus DNA-binding; Protein heterodimerization 1.1 5.2 Q9SEI3 26S proteasome regulatory subunit 10B homolog A (PS10A/RTP4A) Nucleus Effector Triggered Imunity; ATPase activity 0.6 5 P59259 Histone H4 (H4/HIS4) Nucleus Nucleosome assembly; Protein heterodimerization 0.5 5 Q8LB10 ATP-dependent Clp...”
- Proteomic analysis on roots of Oenothera glazioviana under copper-stress conditions
Wang, Scientific reports 2017 - “...Metabolism 1 Q9ZT91 Elongation factor Tu, mitochondrial Arabidopsis thaliana Q8W4H7 TUFA 2 6.69 9.7E-09 2 Q9SEI3 26S protease regulatory subunit 10B homolog A Arabidopsis thaliana Q9SEI3 RPT4A 5 0.66 0.00028 3 P54778 26S protease regulatory subunit 6B homolog Solanum tuberosum Q9SEI4 RPT3 3 0.59 0.00084 4...”
L7UU40 26S protease regulatory subunit 8 homolog A-like from Nicotiana tabacum
49% identity, 14% coverage
HVO_RS08770 proteasome-activating nucleotidase Pan1 from Haloferax volcanii DS2
HVO_0850 proteasome-activating nucleotidase A from Haloferax volcanii DS2
45% identity, 14% coverage
- Halobacterium salinarum and Haloferax volcanii Comparative Transcriptomics Reveals Conserved Transcriptional Processing Sites
Ibrahim, Genes 2021 - “...is consistent with conserved TPS locations in both H. salinarum (TPS_9619_1) and H. volcanii (TPS_058741, HVO_RS08770) considering the nominal positional uncertainty. Previous searches for ribosome associated ncRNAs (rancRNAs) in H. volcanii [ 49 ] led to the discovery of 856 loci internal to annotated CDS from...”
- Transcriptional Landscape and Regulatory Roles of Small Noncoding RNAs in the Oxidative Stress Response of the Haloarchaeon Haloferax volcanii
Gelsinger, Journal of bacteriology 2018 - “...protein translocase TatA (HVO_RS09630), deoxyhypusine synthase (HVO_RS00895), sugar ABC transporter permease (HVO_RS17705), hydrolase (HVO_RS12225), peptidase (HVO_RS08770), RND transporter (HVO_RS14695), and IS 110 family transposase (HVO_RS02445). We do not report putative targets for intergenic sRNAs because of the inherent difficulty in reliably predicting these targets due to...”
- Highly efficient and simple SSPER and rrPCR approaches for the accurate site-directed mutagenesis of large and small plasmids
Jia, New biotechnology 2022 - “...P2 rrnA , rRNA promoter used for gene expression. Open reading frames targeted for mutagenesis: hvo_0850 (Pan1, UniProt D4GUJ7); hvo_2995 (Fdx, UniProt D4GY89); hvo_1016 (JAMM2. UniProt D4GVJ3), and hvo_1018 (RecJ3, UniProt D4GVJ5) were fused to an N-terminal histidine tag ( his6- ), while hvo_1756 (Pat1, UniProt...”
- CdrS Is a Global Transcriptional Regulator Influencing Cell Division in Haloferax volcanii
Liao, mBio 2021 - “...HVO_0717 down Cell division protein FtsZ1 50 HVO_1660 Diadenylate cyclase (DacZ) 47 HVO_1907 Cdc48d 110 HVO_0850 Proteasome-activating nucleotidase (PanA) 92 HVO_1562 20S proteasome beta subunit (PsmB) 72 HVO_1885s down RNA with unknown function 41 HVO_0464 Threonine ammonia-lyase 95 HVO_1691 PRC domain protein 72 HVO_0398 Conserved hypothetical...”
- Haloferax volcanii-a model archaeon for studying DNA replication and repair
Pérez-Arnaiz, Open biology 2020 - “...the critical interaction of PCNA with DNA. Interestingly, the deletion of proteasome-activating nucleotidase A (PanA; HVO_0850) increases the half-life of PCNA, demonstrating that H. volcanii PCNA is a target of proteasomal degradation [ 139 , 140 ]. This study, using pulse-chase labelling, immobilized metal affinity chromatography...”
- Archaeal Tuc1/Ncs6 homolog required for wobble uridine tRNA thiolation is associated with ubiquitin-proteasome, translation, and RNA processing system homologs
Chavarria, PloS one 2014 - “...homolog of Archaea 29% 9 SAMP2 D4GZE7 HVO_0202 7 Ubiquitin-fold protein 42% 37.5 PAN-A/1 D4GUJ7 HVO_0850 46 Proteasome-activating nucleotidase A/1, 26S proteasome Rpt1-6 subunit homolog 46% 42 aCPSF1 D4GUM1 HVO_0874 72 Archaeal cleavage and polyadenylation specificity factor 1 65% 64 aEF-1 D4GZY6 HVO_0359 46 Translation elongation...”
PAN1_HALVD / D4GUJ7 Proteasome-activating nucleotidase 1; PAN 1; Proteasomal ATPase 1; Proteasome regulatory ATPase 1; Proteasome regulatory particle 1 from Haloferax volcanii (strain ATCC 29605 / DSM 3757 / JCM 8879 / NBRC 14742 / NCIMB 2012 / VKM B-1768 / DS2) (Halobacterium volcanii) (see 4 papers)
D4GUJ7 proteasome ATPase (EC 5.6.1.5) from Haloferax volcanii (see 2 papers)
45% identity, 14% coverage
- function: ATPase which is responsible for recognizing, binding, unfolding and translocation of substrate proteins into the archaeal 20S proteasome core particle. Is essential for opening the gate of the 20S proteasome via an interaction with its C-terminus, thereby allowing substrate entry and access to the site of proteolysis. Thus, the C- terminus of the proteasomal ATPase functions like a 'key in a lock' to induce gate opening and therefore regulate proteolysis. Unfolding activity requires energy from ATP hydrolysis, whereas ATP binding alone promotes ATPase-20S proteasome association which triggers gate opening, and supports translocation of unfolded substrates (Probable). Is also able to cleave other nucleoside triphosphates including GTP and TTP, but the rate of hydrolysis is 4- to 5-fold slower than for ATP.
subunit: Homododecamer, in a proposed two stacked hexameric ring configuration, but may also form homohexamer. The hexameric complex has likely a two-ring architecture resembling a top hat that caps the 20S proteasome core at one or both ends. Upon ATP-binding, the C-terminus of PAN probably interacts with the alpha-rings of the proteasome core by binding to the intersubunit pockets. Interacts with SAMP1-MoaE conjugate in vitro, but does not bind to SAMP1 or MoaE alone (PubMed:24343376). Interacts with NcsA (PubMed:24906001).
disruption phenotype: Strains lacking panA gene alone display relatively normal growth rate and overall cell yield, but they are more sensitive to growth on organic versus inorganic nitrogen sources and hypo-osmotic stress, they show limited growth in the presence of L- canavanine and display enhanced thermotolerance. Moreover, strains lackings both panA and panB still show robust growth, demonstrating that the PAN proteins are not essential. - Highly efficient and simple SSPER and rrPCR approaches for the accurate site-directed mutagenesis of large and small plasmids
Jia, New biotechnology 2022 - “...rRNA promoter used for gene expression. Open reading frames targeted for mutagenesis: hvo_0850 (Pan1, UniProt D4GUJ7); hvo_2995 (Fdx, UniProt D4GY89); hvo_1016 (JAMM2. UniProt D4GVJ3), and hvo_1018 (RecJ3, UniProt D4GVJ5) were fused to an N-terminal histidine tag ( his6- ), while hvo_1756 (Pat1, UniProt D4GS81) was fused...”
- Proteolytic systems of archaea: slicing, dicing, and mincing in the extreme
Maupin-Furlow, Emerging topics in life sciences 2018 - “...PAN (Q58576) [ 197 , 198 ]; Af PAN (O28303) [ 41 ]; Hv PAN1 (D4GUJ7) and Hv PAN2 (Q5UT56) [ 199 , 200 ] Cdc48/p97-type AAA ATPase Intracellular 5g4f, 5g4g Ta VAT (O05209) [ 49 ] NfeD-like (STOPP, stomatin operon protein partner) domain Membrane 3wwv...”
- Archaeal Tuc1/Ncs6 homolog required for wobble uridine tRNA thiolation is associated with ubiquitin-proteasome, translation, and RNA processing system homologs
Chavarria, PloS one 2014 - “...enzyme homolog of Archaea 29% 9 SAMP2 D4GZE7 HVO_0202 7 Ubiquitin-fold protein 42% 37.5 PAN-A/1 D4GUJ7 HVO_0850 46 Proteasome-activating nucleotidase A/1, 26S proteasome Rpt1-6 subunit homolog 46% 42 aCPSF1 D4GUM1 HVO_0874 72 Archaeal cleavage and polyadenylation specificity factor 1 65% 64 aEF-1 D4GZY6 HVO_0359 46 Translation...”
PS10B_ARATH / Q9MAK9 26S proteasome regulatory subunit S10B homolog B; 26S proteasome AAA-ATPase subunit RPT4b; 26S proteasome subunit S10B homolog B; Regulatory particle triple-A ATPase subunit 4b from Arabidopsis thaliana (Mouse-ear cress) (see 2 papers)
AT1G45000 26S proteasome regulatory complex subunit p42D, putative from Arabidopsis thaliana
41% identity, 17% coverage
- function: The 26S proteasome is involved in the ATP-dependent degradation of ubiquitinated proteins. The regulatory (or ATPase) complex confers ATP dependency and substrate specificity to the 26S complex
subunit: Component of the 19S regulatory particle (RP/PA700) base subcomplex of the 26S proteasome. The 26S proteasome is composed of a core protease (CP), known as the 20S proteasome, capped at one or both ends by the 19S regulatory particle (RP/PA700). The RP/PA700 complex is composed of at least 17 different subunits in two subcomplexes, the base and the lid, which form the portions proximal and distal to the 20S proteolytic core, respectively. - The Structural Role of RPN10 in the 26S Proteasome and an RPN2-Binding Residue on RPN13 Are Functionally Important in Arabidopsis
Lin, International journal of molecular sciences 2024 - “...PAC2 At4g15160 ND/ND (NA) RPT4a At5g43010 17.5/16.8 (104.2 180.6) PAD1 At3g51260 124.0/107.3 (115.6 3.7) RPT4b At1g45000 111.8/120.1 (93.1 35.8) PAD2 At5g66140 32.7/10.5 (312.5 270.9) RPT5a At3g05530 145.2/138.2 (105.1 30.4) PAE1 At1g53850 18.8/11.8 (158.6 141.7) RPT5b At1g09100 11.54/ND (NA) PAE2 At3g14290 26.9/31.6 (85.2 45.1) RPT6a At5g19990 44.2/84.2...”
- Proteome Mapping of South African Cassava Mosaic Virus-Infected Susceptible and Tolerant Landraces of Cassava
Ramulifho, Proteomes 2021 - “...(RPT) subunit 2a and RPT2b directly interacted with Manes.01G032500 (AT1G29150, Proteasome component family) and Manes.05G155000 (AT1G45000, Holliday junction DNA helicase RuvB P-loop family), which were both over-expressed in T200 and under-expressed in TME3 ( Figure 4 b, Table 3 ). Proteinprotein interaction network functional enrichment analysis...”
- “...homologs of Manes.01G032500 (AT1G29150; 7.14 ratio in T200 and 1.40 ratio in TME3) and Manes.05G155000 (AT1G45000; 2.82 ratio in T200 and 1.07 ratio in TME3) ( Table 3 ) interact directly with RPT2a and RPT2b proteins ( Figure 4 b). RPT2a has been linked with PAMP...”
- In vivo assembly of the sorgoleone biosynthetic pathway and its impact on agroinfiltrated leaves of Nicotiana benthamiana
Pan, The New phytologist 2021 - “...1.166 Niben101Scf01462g02022.1 AT4G28470 26S proteasome regulatory subunit S2 1B (RPN1B) 2.222 1.645 1.357 1.210 Niben101Scf04861g00014.1 AT1G45000 AAAtype ATPase family protein 2.400 1.730 1.276 1.191 Niben101Scf07364g00017.1 AT5G23540 Mov34/MPN/PAD1 family protein 1.729 Niben101Scf03035g05011.1 AT1G79210 Ntn hydrolases superfamily protein 2.611 1.454 1.199 1.253 Niben101Scf02487g00001.1 AT3G26340 Ntn hydrolases superfamily protein...”
- The Arabidopsis Proteins AtNHR2A and AtNHR2B Are Multi-Functional Proteins Integrating Plant Immunity With Other Biological Processes
Singh, Frontiers in plant science 2020 - “...H. et al., 2017 At1g41880 60S ribosomal protein L35a-type (AtRPL35aB) Cytoplasm Protein synthesis Carroll, 2013 At1g45000 AtRPT4b Nucleus/Cytoplasm Proteasome component Fu et al., 1999 At1g49970 CLP protease proteolytic subunit 1 (AtClpR1) Chloroplast Chloroplast development and differentiation Koussevitzky et al., 2007 At1g72930 TNL-type NLR pathogen effector recognition...”
- Linkage Analysis and Multi-Locus Genome-Wide Association Studies Identify QTNs Controlling Soybean Plant Height
Fang, Frontiers in plant science 2020 - “...Pentatricopeptide repeat-containing protein At1g07590, mitochondrial Glyma.13G336500 GO:0031047 AT1G13790 Factor of DNA methylation 4 Glyma.04G029400 GO:0006281 AT1G45000 26S proteasome regulatory subunit S10B homolog B Glyma.04G029500 AT1G75400 RING/U-box superfamily protein Glyma.04G029700 GO:0005524 AT1G10210 MPK1 Glyma.04G029700 GO:0005524 AT1G59580 Mitogen-activated protein kinase Glyma.04G029900 AT1G19650 Phosphatidylinositol/phosphatidylcholine transfer protein SFH4 Glyma.04G030000 GO:0005524...”
- Proteomic analysis of affinity-purified 26S proteasomes identifies a suite of assembly chaperones in Arabidopsis
Gemperline, The Journal of biological chemistry 2019 (secret) - Time-resolved interaction proteomics of the GIGANTEA protein under diurnal cycles in Arabidopsis
Krahmer, FEBS letters 2019 - “...added in proof). AAAtype ATPase family proteins related to components of the 26S proteasome ( AT1G45000 and/or AT4G27680 ) and a protease inhibitor, CYSTATIN 1 ( AT5G12140 ) were also enriched. Several proteins annotated as being involved in protein stabilization were also significantly enriched by GI3F6H,...”
- Proteomic analysis of endoplasmic reticulum stress responses in rice seeds
Qian, Scientific reports 2015 - “...CPuORF25conserved peptide uORF-containing transcript LOC_Os01g50030 gi|115468554 2.197 AT1G24510 T-complex protein LOC_Os06g36700 Protein degradation gi|115444877 2.723 AT1G45000 26S protease regulatory subunit LOC_Os02g10640 gi|115474241 2.457 AT2G20140 26S protease regulatory subunit 4 LOC_Os07g49150 gi|556560 4.396 26S protease regulatory subunit 6A LOC_Os02g56000 gi|115445841 3.909 AT5G58290 26S protease regulatory subunit 6B...”
- More
- Comparative protein profiles of the Ambrosia plants.
Barton, Biochimica et biophysica acta. Proteins and proteomics 2017 - “...12 1 1 1 Glucose Metabolism 26S protease regulatory subunit S10B homolog B A. thaliana Q9MAK9 44758 4 100 5 16 1 1 Protein Catabolism 40S ribosomal protein S13 G. max P62302 17141 4 100 7 30 1 1 Translation 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase C. roseus Q42699 84860...”
CNAG_04906 26S protease regulatory subunit 10B from Cryptococcus neoformans var. grubii H99
43% identity, 16% coverage
cgd6_920 26s protease regulatory subunit 8 from Cryptosporidium parvum Iowa II
46% identity, 15% coverage
Q9U7A2 proteasome endopeptidase complex (EC 3.4.25.1) from Drosophila melanogaster (see paper)
47% identity, 14% coverage
L2GMP0 26S proteasome subunit P45 family protein from Vittaforma corneae (strain ATCC 50505)
36% identity, 16% coverage
E3KHM1 26S protease regulatory subunit 8 from Puccinia graminis f. sp. tritici (strain CRL 75-36-700-3 / race SCCL)
38% identity, 16% coverage
B5RI16 Proteasome (Prosome, macropain) 26S subunit, ATPase, 6 (Fragment) from Salmo salar
50% identity, 13% coverage
PF3D7_1248900 26S protease regulatory subunit 8, putative from Plasmodium falciparum 3D7
49% identity, 13% coverage
XP_955738 26S proteasome regulatory subunit 8 from Encephalitozoon cuniculi GB-M1
41% identity, 14% coverage
- ESTs from the microsporidian Edhazardia aedis
Gill, BMC genomics 2008 - “...26S PROTEASOME REGULATORY SUBUNIT 6 Encephalitozoon cuniculi NP_586128 26S PROTEASOME REGULATORY SUBUNIT 8 Encephalitozoon cuniculi XP_955738 40S RIBOSOMAL PROTEIN S2 Leishmania infantum XP_001466537 40S RIBOSOMAL PROTEIN S3 Encephalitozoon cuniculi XP_955676 40S RIBOSOMAL PROTEIN S4 Mycetophagus quadripustulatus CAJ17168 40S RIBOSOMAL PROTEIN SA or P40 Encephalitozoon cuniculi NP_584728...”
BF0774 AAA-metalloprotease FtsH with ATPase domain from Bacteroides fragilis YCH46
BF638R_0745 ATP-dependent zinc metalloprotease FtsH from Bacteroides fragilis 638R
36% identity, 9% coverage
- The mannobiose-forming exo-mannanase involved in a new mannan catabolic pathway in Bacteroides fragilis
Kawaguchi, Archives of microbiology 2014 (PubMed)- “...and/or sugar transporter (BF0773), mannobiose 2-epimerase (BF0774), and mannosylglucose phosphorylase (BF0772). If this hypothesis is correct, ManA has...”
- “...that the consecutive genes, BF0771, BF0772, BF0773, and BF0774 in the Bacteroides fragilis NCTC 9343 genome (CR626927) (Cerdeno-Tarraga et al. 2005), organize...”
- Metabolic mechanism of mannan in a ruminal bacterium, Ruminococcus albus, involving two mannoside phosphorylases and cellobiose 2-epimerase: discovery of a new carbohydrate phosphorylase, β-1,4-mannooligosaccharide phosphorylase
Kawahara, The Journal of biological chemistry 2012 - “...Intracellular Intracellular Intracellular Intracellular BF0772 BF1316 BF0774 BF3668 BF1664 BF0773 -Mannanase FIGURE 5. Metabolic pathway of mannan in...”
- New microbial mannan catabolic pathway that involves a novel mannosylglucose phosphorylase
Senoura, Biochemical and biophysical research communications 2011 (PubMed)- “...and/or sugar transporter (BF0773), mannobiose 2-epimerase (BF0774), and mannosylglucose phosphorylase (BF0772), finally progressing to glycolysis. This pathway...”
- Identification of genes required for the survival of B. fragilis using massive parallel sequencing of a saturated transposon mutant library
Veeranagouda, BMC genomics 2014 - “...encoding for chaperones (heat shock protein) such as groEL , groES , grpE and ftsH (BF638R_0745) were also identified as essential for B. fragilis growth. Also, many genes involved in amino acid, nucleotide, lipid and cofactor metabolism were present in the essential gene list. Conjugation associated...”
PRS8_ENCCU / Q8SQK0 26S proteasome regulatory subunit 8 homolog from Encephalitozoon cuniculi (strain GB-M1) (Microsporidian parasite) (see paper)
41% identity, 16% coverage
- function: Acts as a regulatory subunit of the 26S proteasome which degrades poly-ubiquitinated proteins in the cytoplasm and in the nucleus. It is essential for the regulated turnover of proteins and for the removal of misfolded proteins. The proteasome is a multicatalytic proteinase complex that is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH (By similarity).
subunit: The 26S proteasome consists of a 20S proteasome core and two 19S regulatory subunits. The 20S proteasome core is composed of 28 subunits that are arranged in four stacked rings, resulting in a barrel-shaped structure. The two end rings are each formed by seven alpha subunits, and the two central rings are each formed by seven beta subunits. The catalytic chamber with the active sites is on the inside of the barrel (By similarity).
MA4268 proteasome-activating nucleotidase from Methanosarcina acetivorans C2A
42% identity, 12% coverage
- Role of the beta1 subunit in the function and stability of the 20S proteasome in the hyperthermophilic archaeon Pyrococcus furiosus
Madding, Journal of bacteriology 2007 - “...AAV38126 HQ3115A, HQ1544A MJ1176 ABE53157, ABE52987 MK0878 MA4268, MA4123 AAZ69383, AAZ69600 MM1006, MM0798 ND ABD40790, ABD40788 MTH728 MMP1647 NP1524A,...”
- Differential regulation of the PanA and PanB proteasome-activating nucleotidase and 20S proteasomal proteins of the haloarchaeon Haloferax volcanii
Reuter, Journal of bacteriology 2004 - “...(AY627304), MjPan (MJ1176), MkPan (MK0878), MaPanA (MA4268), MaPanB (MA4123), MbPanA (Meth3002), MbPanB (Meth2182), MmPanA (MM1006), MmPanB (MM0798), MtPan...”
MK0878 ATP-dependent 26S proteasome regulatory subunit from Methanopyrus kandleri AV19
39% identity, 13% coverage
- Role of the beta1 subunit in the function and stability of the 20S proteasome in the hyperthermophilic archaeon Pyrococcus furiosus
Madding, Journal of bacteriology 2007 - “...AAV38127, AAV38126 HQ3115A, HQ1544A MJ1176 ABE53157, ABE52987 MK0878 MA4268, MA4123 AAZ69383, AAZ69600 MM1006, MM0798 ND ABD40790, ABD40788 MTH728 MMP1647...”
- Differential regulation of the PanA and PanB proteasome-activating nucleotidase and 20S proteasomal proteins of the haloarchaeon Haloferax volcanii
Reuter, Journal of bacteriology 2004 - “...(AY627303), HvPanB (AY627304), MjPan (MJ1176), MkPan (MK0878), MaPanA (MA4268), MaPanB (MA4123), MbPanA (Meth3002), MbPanB (Meth2182), MmPanA (MM1006), MmPanB...”
- The complete genome of hyperthermophile Methanopyrus kandleri AV19 and monophyly of archaeal methanogens
Slesarev, Proceedings of the National Academy of Sciences of the United States of America 2002 - “...complexes, such as the proteasome (MK0385, MK0878, MK1228), the predicted exosome (MK0375-MK0389), and, notably, the potential thermophile-specific repair...”
Smp_017070 putative 26s protease regulatory subunit S10b from Schistosoma mansoni
45% identity, 14% coverage
- Effects of proteasome inhibitor MG-132 on the parasite Schistosoma mansoni
Morais, PloS one 2017 - “...sapiens] 1.53 Q2_P40330 JAP04182.S - proteasome 26S non-ATPase subunit 5 [Homo sapiens] 1.56 Q2_P36517 C916741.1 Smp_017070 26S protease regulatory subunit S10b, putative 1.59 Q2_P24543 C809045.1 Smp_042150 Dynein light chain 1. cytoplasmic, putative 1.68 Q2_P25077 C809737.1 Smp_052870 26S proteasome non-ATPase regulatory subunit, putative 1.83 Q2_P13768 C911179.1 Smp_122680...”
XP_014318322 26S proteasome regulatory subunit 10B isoform X3 from Myotis lucifugus
48% identity, 15% coverage
ST0330 205aa long hypothetical 26S protease regulatory subunit from Sulfolobus tokodaii str. 7
43% identity, 26% coverage
Q32PW9 Psmc6 protein (Fragment) from Rattus norvegicus
48% identity, 14% coverage
G3I6I1 26S protease regulatory subunit S10B from Cricetulus griseus
48% identity, 18% coverage
G3V6W6 Proteasome 26S subunit, ATPase 6 from Rattus norvegicus
48% identity, 13% coverage
3h4mA / Q58576 Aaa atpase domain of the proteasome- activating nucleotidase (see paper)
43% identity, 21% coverage
- Ligand: adenosine-5'-diphosphate (3h4mA)
PRS10_HUMAN / P62333 26S proteasome regulatory subunit 10B; 26S proteasome AAA-ATPase subunit RPT4; Proteasome 26S subunit ATPase 6; Proteasome subunit p42 from Homo sapiens (Human) (see 4 papers)
PRS10_MOUSE / P62334 26S proteasome regulatory subunit 10B; 26S proteasome AAA-ATPase subunit RPT4; Proteasome 26S subunit ATPase 6; Proteasome subunit p42 from Mus musculus (Mouse) (see paper)
P62334 proteasome ATPase (EC 5.6.1.5) from Mus musculus (see paper)
5l4gL / P62333 human 26S proteasome at 3.9 A (see paper)
NP_002797 26S proteasome regulatory subunit 10B isoform 1 from Homo sapiens
NP_080235 26S proteasome regulatory subunit 10B isoform 1 from Mus musculus
P62335 26S proteasome regulatory subunit 10B from Ictidomys tridecemlineatus
48% identity, 13% coverage
- function: Component of the 26S proteasome, a multiprotein complex involved in the ATP-dependent degradation of ubiquitinated proteins. This complex plays a key role in the maintenance of protein homeostasis by removing misfolded or damaged proteins, which could impair cellular functions, and by removing proteins whose functions are no longer required. Therefore, the proteasome participates in numerous cellular processes, including cell cycle progression, apoptosis, or DNA damage repair. PSMC6 belongs to the heterohexameric ring of AAA (ATPases associated with diverse cellular activities) proteins that unfolds ubiquitinated target proteins that are concurrently translocated into a proteolytic chamber and degraded into peptides.
subunit: Component of the 19S proteasome regulatory particle complex. The 26S proteasome consists of a 20S core particle (CP) and two 19S regulatory subunits (RP). The regulatory particle is made of a lid composed of 9 subunits, a base containing 6 ATPases including PSMC6 and few additional components (PubMed:27342858, PubMed:27428775). Interacts with PAAF1 (PubMed:15831487). - function: Component of the 26S proteasome, a multiprotein complex involved in the ATP-dependent degradation of ubiquitinated proteins. This complex plays a key role in the maintenance of protein homeostasis by removing misfolded or damaged proteins, which could impair cellular functions, and by removing proteins whose functions are no longer required. Therefore, the proteasome participates in numerous cellular processes, including cell cycle progression, apoptosis, or DNA damage repair. PSMC6 belongs to the heterohexameric ring of AAA (ATPases associated with diverse cellular activities) proteins that unfolds ubiquitinated target proteins that are concurrently translocated into a proteolytic chamber and degraded into peptides.
subunit: Component of the 19S proteasome regulatory particle complex. The 26S proteasome consists of a 20S core particle (CP) and two 19S regulatory subunits (RP). The regulatory particle is made of a lid composed of 9 subunits, a base containing 6 ATPases including PSMC6 and few additional components. Interacts with PAAF1. - Ligand: adenosine-5'-triphosphate (5l4gL)
- Proteomic Characterization of Changes in Mouse Brain Cortex Protein Expression at Different Post-Mortem Intervals: A Preliminary Study for Forensic Biomarker Identification
Bonelli, International journal of molecular sciences 2024 - “...Slc44a3 Q921V7 Choline transporter-like protein 3 44 5/18 57 8.04/73414 0.0112 DOWN EXP4 PRS10_ Psmc6 P62334 26S proteasome regulatory subunit 10B 67 21/33 78 7.09/44172 0.0008 DOWN EXP5 AZI2_ Azi2 Q9QYP6 5-azacytidine-induced protein 2 44 11/59 65 6.23/46062 0.0113 DOWN EXP6 PDCL2_ Pdcl2 Q78Y63 Phosducin-like protein...”
- Proteomic Identification and Quantification of Snake Venom Biomarkers in Venom and Plasma Extracellular Vesicles
Willard, Toxins 2021 - “...2/3 complex subunit 3 >100 O08795 Glucosidase 2 subunit beta >100 A6PWS5 Gelsolin (Fragment) >100 P62334 26S protease regulatory subunit 10B >100 P55821 Stathmin-2 >100 toxins-13-00654-t003_Table 3 Table 3 Up-regulation of potential biomarkers from mouse plasma after C. o. helleri envenomation. Accession No. Protein Fold Change...”
- Citrullinated Epitopes Identified on Tumour MHC Class II by Peptide Elution Stimulate Both Regulatory and Th1 Responses and Require Careful Selection for Optimal Anti-Tumour Responses.
Symonds, Frontiers in immunology 2021 - “...55 kDa regulatory subunit B gamma isoform Q8BG02 Ppp2r2c MDEIDAIGGxRFSEGTSADREIQ 26S protease regulatory subunit 10B P62334 Psmc6 x, citrulline. Despite the citrullinated versions being eluted from HLA-DP4 on tumour cells, analysis of all native sequences showed a range of predicted binding scores using the IEDB predictions...”
- γ-Oryzanol Improves Cognitive Function and Modulates Hippocampal Proteome in Mice
Rungratanawanich, Nutrients 2019 - “...33.0 4.72 0.017 1.033 P28663 Beta-soluble NSF attachment protein (Napb) 77 33.5 5.47 0.008 0.357 P62334 26S proteasome regulatory subunit 10B (Psmc6) 42 44.1 7.49 0.039 0.421 Q8R1Q8 Cytoplasmic dynein 1 light intermediate chain 1 (Dync1li1) 53 56.6 6.42 0.028 1.098 Neuroprotection and antioxidant activity P10649...”
- Diazepam Accelerates GABAAR Synaptic Exchange and Alters Intracellular Trafficking
Lorenz-Guertin, Frontiers in cellular neuroscience 2019 - “...Nucleus Transporter 0.4 7.9E-02 Q922F4 TUBB6 Tubulin beta 6 class V Cytoplasm Other 0.5 5.2E-02 P62334 PSMC6 Proteasome 26S subunit, ATPase 6 Nucleus Peptidase 0.5 2.9E-04 P11798 CAMK2A Calcium/calmodulin dependent protein kinase II alpha Cytoplasm Kinase 0.5 3.6E-02 E9PV14 EPB41L1 Erythrocyte membrane protein band 4.1 like...”
- Early cysteine-dependent inactivation of 26S proteasomes does not involve particle disassembly.
Hugo, Redox biology 2018 - “...oxidative modification. However, an ATPase and a non-ATPase subunit of the 19S regulator (accession numbers P62334 and Q9D8W5, respectively) were identified via an oxidized cysteine-containing peptide, the latter only identified in the AA-treated samples, and the former identified in both reduced and oxidized form; this suggests...”
- “...allowed us to estimate that the intensity ratio of the oxidized peptide (AVASQLDCNFLK, accession number P62334 in Table 1 ) to its protein amount increased upon AA treatment (0.077 for control sample, 0.141 for AA-treated sample; ratio of the peptide intensity vs the protein intensity in...”
- Novel Insights into the Adipokinome of Obese and Obese/Diabetic Mouse Models.
Knebel, International journal of molecular sciences 2017 - “...8.64 10 3 Prolargin Q9JK53 Prelp 1.90 8.59 10 4 26S protease regulatory subunit 10B P62334 Psmc6 1.89 6.65 10 5 Coiled-coil domain-containing protein 80 Q8R2G6 Ccdc80 1.89 2.33 10 4 Pentraxin-related protein PTX3 P48759 Ptx3 1.87 3.35 10 2 Tenascin Q80YX1 Tnc 1.86 6.09 10...”
- Functional proteomic analysis of corticosteroid pharmacodynamics in rat liver: Relationship to hepatic stress, signaling, energy regulation, and drug metabolism.
Ayyar, Journal of proteomics 2017 - “...C21 steroids UP Q62730 Hsd17b2 17-beta-hydroxysteroid dehydrogenase type 2 Oxidation of estradiol and testosterone UP/DOWN P62334 Psmc6 26S protease regulatory subunit ATP-dependent degradation of ubiquinated proteins UP P13437 Acaa2 3-ketoacyl-CoA thiolase, mitochondrial Inhibits BNIP3-mediated apoptosis and mitochondrial damage UP P50554 Abat 4-aminobutyrate aminotransferase, mitochondrial Catabolism of...”
- More
- The Silence of PSMC6 Inhibits Cell Growth and Metastasis in Lung Adenocarcinoma.
Zhang, BioMed research international 2021 - GeneRIF: The Silence of PSMC6 Inhibits Cell Growth and Metastasis in Lung Adenocarcinoma.
- PSMC6 promotes osteoblast apoptosis through inhibiting PI3K/AKT signaling pathway activation in ovariectomy-induced osteoporosis mouse model.
Zhang, Journal of cellular physiology 2020 (PubMed)- GeneRIF: PSMC6 promotes osteoblast apoptosis through inhibiting PI3K/AKT signaling pathway activation in ovariectomy-induced osteoporosis mouse model.
- Identification of candidate biomarkers associated with apoptosis in melanosis coli: GNG5, LPAR3, MAPK8, and PSMC6.
Hua, Bioscience reports 2019 - GeneRIF: PSMC6 was differently expressed in melanosis coli tissues.PSMC6 expression was related to cell apoptosis.
- Genetic variations in the PSMA3, PSMA6 and PSMC6 genes are associated with type 1 diabetes in Latvians and with expression level of number of UPS-related and T1DM-susceptible genes in HapMap individuals.
Sjakste, Molecular genetics and genomics : MGG 2016 (PubMed)- GeneRIF: Our results provide evidence on new T1DM-susceptible loci in the PSMA3, PSMA6 and PSMC6 proteasome genes and give a new insight into the T1DM pathogenesis
- Advanced oxidation protein products decrease the expression of calcium transport channels in small intestinal epithelium via the p44/42 MAPK signaling pathway.
Wu, European journal of cell biology 2015 (PubMed)- GeneRIF: Advanced oxidation protein products down-regulate the expression of calcium transport channels through p44/42 MAPK signaling mechanisms in the small intestinal epithelium.
- Juvenile idiopathic arthritis subtype- and sex-specific associations with genetic variants in the PSMA6/PSMC6/PSMA3 gene cluster.
Sjakste, Pediatrics and neonatology 2014 (PubMed)- GeneRIF: Evidence of a sex-specific association of PSMC6 genetic variants with subtypes of juvenile idiopathic arthritis.
- Interactions of SARS coronavirus nucleocapsid protein with the host cell proteasome subunit p42.
Wang, Virology journal 2010 - GeneRIF: N protein of SARS Coronavirus interacts with the host cell proteasome subunit p42.
- PSMC6 induces immune cell infiltration and inflammatory response to aggravate primary Sjögren's syndrome.
Piao, Journal of human genetics 2023 (PubMed)- GeneRIF: PSMC6 induces immune cell infiltration and inflammatory response to aggravate primary Sjogren's syndrome.
- PSMC6 promotes osteoblast apoptosis through inhibiting PI3K/AKT signaling pathway activation in ovariectomy-induced osteoporosis mouse model.
Zhang, Journal of cellular physiology 2020 (PubMed)- GeneRIF: PSMC6 promotes osteoblast apoptosis through inhibiting PI3K/AKT signaling pathway activation in ovariectomy-induced osteoporosis mouse model.
- The role of HR-HPV integration in the progression of premalignant lesions into different cancer types.
Catalán-Castorena, Heliyon 2024 - “...KTN1 (Q86UP2) FBXO34 (Q9NWN3) CGRRF1 (Q99675) BMP4 (P12644) FERMT2 (Q96AC1) DDHD1 (Q8NEL9) STYX (Q8WUJ0) PSMC6 (P62333) [ 117 ] Cervical squamous cell carcinoma stage IIB VPH 16 Nanopore MinION Sequencer L2, L1, E1, E2 Intergenic regions, introns, and exons CHMP4B (Q9H444) KIF3B (O15066) ASXL1 (Q8IXJ9) ATRN...”
- The mitotic surveillance pathway requires PLK1-dependent 53BP1 displacement from kinetochores
Burigotto, 2023 - Insight Into the Metabolic Adaptations of Electrically Pulse-Stimulated Human Myotubes Using Global Analysis of the Transcriptome and Proteome.
Mengeste, Frontiers in physiology 2022 - “...and SH3 domain-containing protein 2 3,57E-02 2,60 P61970 NUTF2 Nuclear transport factor 2 4,89E-02 2,58 P62333 PSMC6 26S protease regulatory subunit 10B 4,87E-02 2,53 P47897 QARS Glutamine--tRNA ligase 2,93E-03 2,48 P17174 GOT1 Aspartate aminotransferase, cytoplasmic 1,74E-02 2,46 P67809 YBX1 Nuclease-sensitive element-binding protein 1 1,73E-02 2,43 P21912...”
- Pan-cancer analysis of genomic and transcriptomic data reveals the prognostic relevance of human proteasome genes in different cancer types.
Larsson, BMC cancer 2022 - “...Rpt6 17q23.3 SUG1 P62195 406 45,626 PSMC6 Proteasome 26S subunit, ATPase 6 Rpt4 14q22.1 SUG2 P62333 389 44,173 PSMD1 Proteasome 26S subunit, non-ATPase 1 Rpn2 2q37.1 S1, P112, Rpn2 Q99460 953 105,836 PSMD2 Proteasome 26S subunit, non-ATPase 2 Rpn1 3q27.1 TRAP2 Q13200 908 100,200 PSMD3 Proteasome...”
- Differences in Cellular Clearing Mechanisms of Aggregates of Two Subtypes of HLA-B27
Thakur, Frontiers in immunology 2021 - “...subunit, ATPase 3 (PSMC3) P17980 49.2 8 30 1.55 Proteasome 26S subunit, ATPase 6 (PSMC6) P62333 44.1 8 31 1.61 Proteasome 26S subunit, non-ATPase 2 (PSMD2) Q13200 29.5 5 25 1.64 Proteasome activator subunit 1 (PSME1) Q06323 28.7 3 15 1.55 Proteasome subunit alpha 1 (PSMA1)...”
- Secretory Carrier Membrane Protein 3 Interacts with 3A Viral Protein of Enterovirus and Participates in Viral Replication.
Lu, Microbiology spectrum 2021 - “...2 1.91 P62195 PSMC5 26S Protease regulatory subunit 8 45.6 136.6 3 3 4 9.11 P62333 PSMC6 26S Protease regulatory subunit S10B 44.1 121.0 3 3 3 9.77 Q99460 PSMD1 26S Proteasome non-ATPase regulatory subunit 1 105.8 138.1 3 3 3 4.62 O00231 PSMD11 26S Proteasome...”
- Growth inhibition by bacterial Cas2Em proteins expressed in mammalian cells
Yu, American journal of translational research 2020 (secret) - Proteomic Study Identifies Glycolytic and Inflammation Pathways Involved in Recurrent Otitis Media.
Ura, International journal of molecular sciences 2020 - “...Deviation p -Value Q5HYB6 8 Epididymis luminal protein 189 DKFZp686J1372 9 558.97 6.3 0.9 0.03 P62333 21 26S proteasome regulatory subunit 10B PSMC6 6 202.21 3.16 0.47 0.016 Q01518-2 35 Isoform 2 of adenylyl cyclase-associated protein 1 CAP1 11 357.54 2.6 0.31 0.016 P55072 29 Transitional...”
- More
- Caffeine causes cell cycle arrest at G0/G1 and increases of ubiquitinated proteins, ATP and mitochondrial membrane potential in renal cells.
Kanlaya, Computational and structural biotechnology journal 2023 - “...Q3SZI4 YWHAQ 169.4 39.6 6/11 27.8 19.461.81 13.691.78 0.70 0.0370 26S protease regulatory subunit 10B P62335 Psmc6 90.0 36.8 11/11 44.2 19.600.75 14.441.41 0.74 0.0051 26S protease regulatory subunit 6A P17980 PSMC3 69.4 24.4 8/8 49.2 16.361.15 11.441.25 0.70 0.0105 26S proteasome non-ATPase regulatory subunit 1...”
NP_001315347 26S proteasomal subunit RPT4a from Solanum lycopersicum
40% identity, 16% coverage
MMP1647 proteasome-activating nucleotidase (PAN) from Methanococcus maripaludis S2
44% identity, 13% coverage
PAN_METJA / Q58576 Proteasome-activating nucleotidase; PAN; Proteasomal ATPase; Proteasome regulatory ATPase; Proteasome regulatory particle from Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Methanococcus jannaschii) (see 7 papers)
Q58576 proteasome ATPase (EC 5.6.1.5) from Methanocaldococcus jannaschii (see paper)
MJ1176 proteasome regulatory AAA-ATPase from Methanocaldococcus jannaschii DSM 2661
43% identity, 13% coverage
- function: ATPase which is responsible for recognizing, binding, unfolding and translocation of substrate proteins into the archaeal 20S proteasome core particle. Is essential for opening the gate of the 20S proteasome via an interaction with its C-terminus, thereby allowing substrate entry and access to the site of proteolysis. Thus, the C- termini of the proteasomal ATPase function like a 'key in a lock' to induce gate opening and therefore regulate proteolysis. Unfolding activity requires energy from ATP hydrolysis, whereas ATP binding alone promotes ATPase-20S proteasome association which triggers gate opening, and supports translocation of unfolded substrates. In addition to ATP, is able to cleave other nucleotide triphosphates such as CTP, GTP and UTP, but hydrolysis of these other nucleotides is less effective in promoting proteolysis than ATP. Moreover, PAN by itself can function as a chaperone in vitro.
subunit: Homohexamer. The hexameric complex has a two-ring architecture resembling a top hat that caps the 20S proteasome core at one or both ends. Alone, can form a complex composed of two stacked hexameric rings in vitro. Upon ATP-binding, the C-terminus of PAN interacts with the alpha-rings of the proteasome core by binding to the intersubunit pockets. - Allosteric regulation of the 20S proteasome by the Catalytic Core Regulators (CCRs) family.
Deshmukh, Nature communications 2023 - “...sequence for control peptides was derived from the UniProtKB database with the following unique identities: Q58576 (PAN ATPase) in spot H22 (Supplementary Fig. 2F ) and spot d12 (Supplementary Fig. 14E ), P33297 ( S. cerevisiae Rpt5) in spot H21, Q63569 (Rpt5) and P62193 (Rpt2) from...”
- Stoichiometry of Nucleotide Binding to Proteasome AAA+ ATPase Hexamer Established by Native Mass Spectrometry
Yu, Molecular & cellular proteomics : MCP 2020 (secret) - Proteolytic systems of archaea: slicing, dicing, and mincing in the extreme
Maupin-Furlow, Emerging topics in life sciences 2018 - “...] Proteasome associated nucleotidase (PAN)/Rpt-type AAA ATPase Intracellular 3h43, 3whk, 5eqt, 3h4m, 2wg5 Mj PAN (Q58576) [ 197 , 198 ]; Af PAN (O28303) [ 41 ]; Hv PAN1 (D4GUJ7) and Hv PAN2 (Q5UT56) [ 199 , 200 ] Cdc48/p97-type AAA ATPase Intracellular 5g4f, 5g4g Ta...”
- Role of the beta1 subunit in the function and stability of the 20S proteasome in the hyperthermophilic archaeon Pyrococcus furiosus
Madding, Journal of bacteriology 2007 - “...VNG0510G AAV47895, AAV48212 AAV38127, AAV38126 HQ3115A, HQ1544A MJ1176 ABE53157, ABE52987 MK0878 MA4268, MA4123 AAZ69383, AAZ69600 MM1006, MM0798 ND ABD40790,...”
- Differential regulation of the PanA and PanB proteasome-activating nucleotidase and 20S proteasomal proteins of the haloarchaeon Haloferax volcanii
Reuter, Journal of bacteriology 2004 - “...(VNG2000g), HvPanA (AY627303), HvPanB (AY627304), MjPan (MJ1176), MkPan (MK0878), MaPanA (MA4268), MaPanB (MA4123), MbPanA (Meth3002), MbPanB (Meth2182), MmPanA...”
B4FTV9 26S protease regulatory subunit S10B from Zea mays
NP_001148485 26S protease regulatory subunit S10B from Zea mays
38% identity, 17% coverage
LOC100383510 uncharacterized protein LOC100383510 from Zea mays
C0PGM6 26S protease regulatory subunit S10B homolog B from Zea mays
38% identity, 17% coverage
- Proteomic comparison of basal endosperm in maize miniature1 mutant and its wild-type Mn1
Silva-Sanchez, Frontiers in plant science 2013 - “...zma01110 B8A2W6 pco071606; LOC100280280; K01412 mitochondrial processing peptidase [EC:3.4.24.64] 1.34 0.31 zma:100280280 NF C0PGM6 Uncharacterized LOC100383510; K03064 26S proteasome regulatory subunit T4 1.37 0.04 zma:100383510 zma03050 B6UAK0 umc2374; LOC100285843 (EC:3.1.1.31); K01057 6-phosphogluconolactonase [EC:3.1.1.31] 1.49 0.3 zma:100285843 zma00030, zma01100, zma01110 B8A0Q6 TIDP3457; LOC100279930; K00234 succinate dehydrogenase (ubiquinone)...”
- Proteomic comparison of basal endosperm in maize miniature1 mutant and its wild-type Mn1
Silva-Sanchez, Frontiers in plant science 2013 - “...sativa (Q6ZFJ9) ND ND 1.35 0.03 B6T782 40S ribosomal protein SA ND ND 1.36 0.03 C0PGM6 Similar to 26S protease regulatory subunit S10B from Zea mays (B4FTV9) ND ND 1.37 0.04 B4FBY6 Similar to caffeoyl CoA 3-O-methyltransferase from Zea mays (Q7X6T0) ND ND 1.40 0.01 B4G1D2...”
- “...zma00710, zma01100, zma01110 B8A2W6 pco071606; LOC100280280; K01412 mitochondrial processing peptidase [EC:3.4.24.64] 1.34 0.31 zma:100280280 NF C0PGM6 Uncharacterized LOC100383510; K03064 26S proteasome regulatory subunit T4 1.37 0.04 zma:100383510 zma03050 B6UAK0 umc2374; LOC100285843 (EC:3.1.1.31); K01057 6-phosphogluconolactonase [EC:3.1.1.31] 1.49 0.3 zma:100285843 zma00030, zma01100, zma01110 B8A0Q6 TIDP3457; LOC100279930; K00234 succinate...”
BT4007 AAA-metalloprotease FtsH, with ATPase domain from Bacteroides thetaiotaomicron VPI-5482
36% identity, 9% coverage
- Tetracycline-related transcriptional regulation of the CTnDOT mobilization region
Waters, Journal of bacteriology 2013 - “...using primers GRW54 fwd and rev (Table 2) from BT4007 and cloned into pLYL7oriT(RK2), which is mobilizable by the IncP plasmid RP4 but cannot be mobilized by...”
- “...resulting plasmid, pGRW54, was then introduced into both BT4007 and December 2013 Volume 195 Number 24 BT4004. Mating assays were performed to evaluate...”
- Characterization of the Bacteroides CTnDOT regulatory protein RteC
Park, Journal of bacteriology 2011 - “...coli (Stratagene) B. thetaiotaomicron 5482A strains BT4001 BT4007 Rifr Rifr Tcr Emr Spontaneous rifampin-resistant mutant BT4001 containing wild-type CTnDOT...”
- “...A promoterless rteC gene was amplified from BT4007 using PCR. High-fidelity PCR amplification was done with PfuUltra high-fidelity DNA polymerase (Stratagene)....”
- Tetracycline-associated transcriptional regulation of transfer genes of the Bacteroides conjugative transposon CTnDOT
Jeters, Journal of bacteriology 2009 - “...listed in Table 1. Bacteroides thetaiotaomicron 5482 strain BT4007 contains a copy of CTnDOT in the chromosome. B. thetaiotaomicron strain BT4004 contains a...”
- “...contains a single copy of CTnERL BT4001QAB Thy Rifs Tcr BT4007 BT4004 Tcr Emr Tcr Emr Plasmids pLYL72 Cmr Tra (Apr) pLYL05 Cfxr (Apr) pKSO1 Cfxr (Apr) pKSO5...”
- An unexpected effect of tetracycline concentration: growth phase-associated excision of the Bacteroides mobilizable transposon NBU1
Song, Journal of bacteriology 2009 - “...and tetQ under the control of the tetQ promoter (PQ). BT4007 genomic DNA (containing a copy of CTnDOT) was used as the template to amplify the rteB gene. Pfu...”
- “...Description (source or reference) Strains E. coli S17-1 BT4001 BT4007 BT4100N1-S1 BT4104N1-3 BT4004 RecA Tpr RP4 Rifr Rifr Tcr Emr Thy Tpr Thy Tpr Tcr Rifr Tcr...”
- Unexpected effect of a Bacteroides conjugative transposon, CTnDOT, on chromosomal gene expression in its bacterial host
Moon, Molecular microbiology 2007 - “...possible effects of CTnDOT on BT4001 gene expression. The strains were BT4001 and BT4001-carrying CTnDOT (BT4007). BT4007 was exposed to tetracycline (1 g per ml), whereas BT4001 was not. The plan was to use this information to identify genes of interest, whose expression could then be...”
- “...using RNA samples from wild-type B. thetaiotaomicron 5482 (BT4001) and the same strain containing CTnDOT (BT4007). Fold change was obtained by dChip analysis. c Location of the open reading frame in the BT4001 genome sequence. To add to the nomenclatural confusion, annotators of other Bacteroides genome...”
- Regulation of excision genes of the Bacteroides conjugative transposon CTnDOT
Moon, Journal of bacteriology 2005 - “...amplified by PCR. Genomic DNA from Bacteroides thetaiotaomicron BT4007, a strain that contains CTnDOT, was used as a template, and the Pfu (Stratagene)...”
- “...500 bp of downstream sequence was amplified by PCR. BT4007 genomic DNA was used as a template, and the Pfu polymerase was used for high-fidelity amplification....”
- A newly discovered Bacteroides conjugative transposon, CTnGERM1, contains genes also found in gram-positive bacteria
Wang, Applied and environmental microbiology 2003 - “...S17-1 B. thetaiotaomicron BT5482 strains BT4001 BT4100 BT4007 BT4004 BT4009 BT4001WH504 VOL. 69, 2003 4597 Southern hybridization analysis. Southern blot...”
- Biochemical analysis of interactions between outer membrane proteins that contribute to starch utilization by Bacteroides thetaiotaomicron
Cho, Journal of bacteriology 2001 - “...a PCR-generated 0.61-kbp internal fragment of susG (pBT-1-SG) (11) BT4007 Tcr Emr Gnr (G2-G7) Starch Ms-2 Emr Gnr SusA SusB SusC SusD SusE SusF SusG G2 G3...”
- “...The wild-type control strain used for comparison was BT4007; it contained pNLY1::PsusA, the shuttle vector into which susG was cloned to produce pSGC23A. The...”
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MM1006 26S proteasome regulatory subunit RPT2/S4 from Methanosarcina mazei Goe1
40% identity, 12% coverage
- The archaeal proteasome is regulated by a network of AAA ATPases
Forouzan, The Journal of biological chemistry 2012 - “...residues), and TaCDC48-L745W (containing W466F, W541Y, and L745W mutations) genes were synthesized by GenScript. MmPAN-A (Mm1006, gi 20905437), MmPAN-B (Mm0789, gi 20905207), Mm20S (Mm2620, gi 21228722), Mm20S (Mm0694, gi 21226796), and TaCDC48 (Ta0840, gi 16081896) were obtained as gifts from W. Baumeister and P. Zwickl. MmCDC48-A...”
- Role of the beta1 subunit in the function and stability of the 20S proteasome in the hyperthermophilic archaeon Pyrococcus furiosus
Madding, Journal of bacteriology 2007 - “...ABE53157, ABE52987 MK0878 MA4268, MA4123 AAZ69383, AAZ69600 MM1006, MM0798 ND ABD40790, ABD40788 MTH728 MMP1647 NP1524A, NP5038A AAR39040 PTO0456a PAE0696a...”
- Differential regulation of the PanA and PanB proteasome-activating nucleotidase and 20S proteasomal proteins of the haloarchaeon Haloferax volcanii
Reuter, Journal of bacteriology 2004 - “...MaPanB (MA4123), MbPanA (Meth3002), MbPanB (Meth2182), MmPanA (MM1006), MmPanB (MM0798), MtPan (MTH728), PaPan (PAB2233), PfPan (PF0115), PhPan (PH0201), ApPan...”
GL50803_17106 26S protease regulatory subunit 8 from Giardia intestinalis
45% identity, 14% coverage
- Transcriptome profiling of Giardia intestinalis using strand-specific RNA-seq
Franzén, PLoS computational biology 2013 - “...(65) 6468 (64,64,64,66,68) Alpha-8 giardin GL50803_11649 62 263 262 (262) 26S protease regulatory subunit 8 GL50803_17106 1175 11 (7, 14) 714 (11,7,14) Median body protein GL50803_16343 233 24 (166) 166168 (166,166,166,168) a Length in nucleotides. Determined from the most common polyA site. The parenthesis shows alternative...”
AFUA_4G04660 proteasome regulatory particle subunit Rpt6, putative from Aspergillus fumigatus Af293
45% identity, 14% coverage
An14g00180 uncharacterized protein from Aspergillus niger
45% identity, 14% coverage
- The capacity of Aspergillus niger to sense and respond to cell wall stress requires at least three transcription factors: RlmA, MsnA and CrzA
Fiedler, Fungal biology and biotechnology 2014 - “...in proteasomal degradation, i.e. An18g06700 (Pre7p ortholog), An18g06680 (Pre4p ortholog) and An04g01870 (Pre1p ortholog) and An14g00180 (Rpt6p ortholog; Additional file 5 ). Transcriptome response of A. niger to fenpropimorph . FP is an inhibitor of ergosterol biosynthesis in S. cerevisiae by inhibiting sterol C-14 reductase (...”
- “...complex Arp2/3 (An01g05510, An18g06590), tropomyosin TpmA, the tubulin-specific chaperone TbcA and proteasomal degradation proteins (An18g06700, An14g00180, An18g06680). Overlapping and up-regulated in the CA-treated wild-type but down-regulated in the rlmA strain was the -1,3-glucan synthase AgsE, thus strongly indicating that this gene is a direct target of...”
PRS8_YEAST / Q01939 26S proteasome regulatory subunit 8 homolog; Protein CIM3; Protein SUG1; Tat-binding protein TBY1 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see 5 papers)
Q01939 proteasome ATPase (EC 5.6.1.5) from Saccharomyces cerevisiae (see 2 papers)
6fvtJ / Q01939 6fvtJ (see paper)
NP_011467, YGL048C One of six ATPases of the 19S regulatory particle of the 26S proteasome involved in the degradation of ubiquitinated substrates; bound by ubiquitin-protein ligases Ubr1p and Ufd4p; localized mainly to the nucleus throughout the cell cycle from Saccharomyces cerevisiae
NP_011467 proteasome regulatory particle base subunit RPT6 from Saccharomyces cerevisiae S288C
41% identity, 15% coverage
- function: The 26S proteasome is involved in the ATP-dependent degradation of ubiquitinated proteins. The regulatory (or ATPase) complex confers ATP dependency and substrate specificity to the 26S complex (By similarity).
subunit: May form a homodimer or a heterodimer with a related family member. Interacts with OLA1, TMA17, and UBR1. - Ligands: adenosine-5'-diphosphate; magnesium ion (6fvtJ)
- Proteome plasticity in response to persistent environmental change
Domnauer, Molecular cell 2021 - “...NP_014769 in Movie S1 ) or vice versa ( Figure 4F , S4B , and NP_011467 in Movie S1 ); and (3) PK sites mapped to the core of the reference structure at both temperatures ( Figure S4C and NP_013127 in Movie S1 ). We reasoned...”
- “...using QuickTime player. Movie S1 . Map of cutting sites in 3D structure for NP_011651, NP_011467, NP_014769, NP_013127, and NP_013774. Cutting sites from all biological repeats of each temperature were pooled. The scale of ball size, which reflects the frequency of proteinase K cutting, is annotated...”
- Protein functional module identification method combining topological features and gene expression data
Zhao, BMC genomics 2021 - “...complex ubiquitin-dependent YDL147W, YDR394W, YDR427W, YEL037C, protein catabolic YER012W, YER021W, YFR004W, YFR010W, process YFR052W, YGL004C, YGL048C, YHL030W, YHR027C, YHR200W, YKL145W,YLR421C, YMR314W, YOR117W, YOR259C, YOR261C, YPR108W 6.86e-17 YBL026W, YCR077C, YDR378C, YER112W, spliceosomal mRNA YER146W, YGL173C, YJL124C, YJR022W, tri-snRNP processing YKL173W, YLR147C,YLR275W, YMR268C, complex YNL118C, YPR178W, YOL149W, YNL147W,...”
- A multi-network clustering method for detecting protein complexes from multiple heterogeneous networks
Ou-Yang, BMC bioinformatics 2017 - “...YDL097C proteasome complex 20 out of 21 YDR427W, YEL037C, YER012W, YER021W genes, 95.2% YFR052W, YGL004C, YGL048C, YHL030W YOR259C, YOR261C, YPR108W, YHR200W YFR004W, YFR010W, YDL147W, YDR394W YKL145W 13 1.65e-35 YBR119W, YDL087C, YDR235W, YDR240C U1 snRNP 14 out of 16 YHR086W, YIL061C, YKL012W, YLR147C genes, 87.5% YML046W, YMR125W,...”
- Complementation of Yeast Genes with Human Genes as an Experimental Platform for Functional Testing of Human Genetic Variants
Hamza, Genetics 2015 - “...50814 NSDHL C-3 sterol dehydrogenase YGL030W RPL30 b 6156 RPL30 Ribosomal 60S subunit protein L30 YGL048C RPT6 5705 PSMC5 ATPase of the 19S regulatory particle of the 26S proteasome YGR024C THG1 54974 THG1L tRNAHis guanylyltransferase YGR075C PRP38 55119 PRPF38B Unique component of the U4/U6.U5 tri-snRNP particle...”
- A Whole Genome Screen for Minisatellite Stability Genes in Stationary-Phase Yeast Cells
Alver, G3 (Bethesda, Md.) 2013 - “...MUP1 YGR055w RPT4 a YOR259c TEM1 a YML064c DPB4 YDR121w NNF1 a YJR112w RPT6 a YGL048c TIM22 a YDL217c ERG8 a YMR220w ODC1 YPL134c RRI1 YDL216c TLG2 YOL018c Genes appearing in bold typeface are the strongest hits from the ade2-min3 screens (scored as ++++ for at...”
- Conservation of nucleosome positions in duplicated and orthologous gene pairs
Nishida, TheScientificWorldJournal 2012 - “...0.975176081 393992 + chr07 YGL056C 0.960426378 0.969119302 397624 chr07 YGL055W 0.964044825 0.969447792 398631 + chr07 YGL048C 0.971402915 0.953304338 411289 chr07 YGL043W 0.964287661 0.976335397 417487 + chr07 YGL028C 0.960077919 0.965512687 442914 chr07 YGL006W 0.950151816 0.968357705 485925 + chr07 YGR001C 0.958621356 0.990717019 498038 chr07 YGR006W 0.980877592 0.97721459 506074...”
- “...YOL156W AFUA_7G00950 0.46726022 YGL201C AFUA_5G10890 0.462753539 YKR086W AFUA_1G03820 0.461061937 YPL157W AFUA_6G08610 0.460257721 YIL046W AFUA_2G14110 0.45798838 YGL048C AFUA_4G04660 0.457664607 YHR216W AFUA_2G03610 0.456902272 YDR424C AFUA_1G04850 0.455530713 YPR141C AFUA_2G14280 0.452133975 YLR427W AFUA_1G07150 0.444534443 YHL004W AFUA_1G06570 0.439699159 YLL002W AFUA_5G09540 0.431520497 YKR052C AFUA_6G12550 0.429429023 YNL260C AFUA_1G09000 0.425937756 YNL112W AFUA_2G10750 0.423331447 YFL026W...”
- Systematic identification of novel, essential host genes affecting bromovirus RNA replication
Gancarz, PloS one 2011 - “...YAL033W POP5 17 12 YER012W PRE1 a 21; 8.4 13; 19 YML046W PRP39 9.4 49 YGL048C RPT6 15 52 YKL125W RRN3 13 76 YGR245C SDA1 22 14 YDR472W TRS31 7.5 22 YDR327W N/A c 460 160 YOR262W N/A b , c 9.8 13 a CDC14 and...”
- “...inhibit BMV RNA accumulation in secondary validation testing. ORF Gene (+)RNA4 (average % untreated) q-value YGL048C RPT6 128 0.024 YGL073W HSF1 164 0.004 YER012W PRE1 3013 0.024 YGL018C JAC1 5713 0.029 YJR017C ESS1 815 0.024 Interestingly, all five genes that inhibited BMV RNA replication ( ESS1...”
- A comparison of the functional modules identified from time course and static PPI network data
Tang, BMC bioinformatics 2011 - “...0.63 15 3 4.64e-24 YGL004C YFR004W YLR421C YDR363W-A YDL147W YKL145W YPR108W YFR052W YGR232W YOR261C YIL075C YGL048C YER021W YDR427W YDL097C YDL007W YFR010W YHL030W YBR272C YBL084C 19/22S regulator complex 0.69 17 4 4.35e-22 YFR036W YDL008W YKL022C YLR102C YDR118W YNL172W YOR249C anaphase- promoting complex 0.53 8 5 5.50e-17 YLR166C...”
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- Phosphorylation of the 19S regulatory particle ATPase subunit, Rpt6, modifies susceptibility to proteotoxic stress and protein aggregation.
Marquez-Lona, PloS one 2017 - GeneRIF: suggest that Rpt6 phosphorylation at S119 may play an important function in proteasome-dependent relief of proteotoxic stress that can be critical in protein aggregation pathologies
- Proteasome Activation is Mediated via a Functional Switch of the Rpt6 C-terminal Tail Following Chaperone-dependent Assembly.
Sokolova, Scientific reports 2015 - GeneRIF: Data show that both ATPases Rpt6 and Rpt3 tails are required for the eviction of Nas6 chaperone upon proteasome assembly.
- Conformational dynamics of the Rpt6 ATPase in proteasome assembly and Rpn14 binding.
Ehlinger, Structure (London, England : 1993) 2013 - GeneRIF: S. cerevisiae Rpt6's C-terminal domain undergoes dynamic helix-coil transitions enabled by helix-destabilizing glycines within its two most C-terminal alpha helices.
- Synergistic effects of TOR and proteasome pathways on the yeast transcriptome and cell growth.
Zhang, Open biology 2013 - GeneRIF: Data suggest that the proteasome and the TOR signalling pathway synergistically regulate a significant portion of the genome to coordinate cell growth and starvation response.
- Functional and biochemical characterization of the 20S proteasome in a yeast temperature-sensitive mutant, rpt6-1.
Chouduri, BMC biochemistry 2008 - GeneRIF: Two alpha-subunits (alpha1 and alpha7) of the 20S proteasome in the rpt6-1 mutant differed from their wild-type counterparts and peptidase activities were found to be lower in the mutant than in the wild-type strain
- The proteasomal ATPase complex is required for stress-induced transcription in yeast.
Sulahian, Nucleic acids research 2006 - GeneRIF: The non-proteolytic requirement for the proteasomal Sug1 ATPase includes at least the heat and oxidative stress-responsive genes.
- Qualitative and quantitative multiplexed proteomic analysis of complex yeast protein fractions that modulate the assembly of the yeast prion Sup35p
Redeker, PloS one 2011 - “...0.01 Q08723 RPN8_YEAST 26S proteasome regulatory subunit RPN8 RPN8 0 0 2 5.00 0.06 0.13 Q01939 PRS8_YEAST 26S protease regulatory subunit 8 homolog RPT6 0 0 2 7.50 0.06 0.01 P21243 PSA6_YEAST Proteasome component C7-alpha SCL1 0 0 3 6.67 0.06 0.09 P12945 NAT1_YEAST N-terminal acetyltransferase...”
PRS6A_ENCCU / Q8SR13 26S proteasome regulatory subunit 6A from Encephalitozoon cuniculi (strain GB-M1) (Microsporidian parasite) (see paper)
36% identity, 14% coverage
- function: Acts as a regulatory subunit of the 26S proteasome which degrades poly-ubiquitinated proteins in the cytoplasm and in the nucleus. It is essential for the regulated turnover of proteins and for the removal of misfolded proteins. The proteasome is a multicatalytic proteinase complex that is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH (By similarity).
subunit: The 26S proteasome consists of a 20S proteasome core and two 19S regulatory subunits. The 20S proteasome core is composed of 28 subunits that are arranged in four stacked rings, resulting in a barrel-shaped structure. The two end rings are each formed by seven alpha subunits, and the two central rings are each formed by seven beta subunits. The catalytic chamber with the active sites is on the inside of the barrel (By similarity).
NEQ186 NEQ186 from Nanoarchaeum equitans Kin4-M
39% identity, 15% coverage
E3K1H4 26S protease subunit rpt4 from Puccinia graminis f. sp. tritici (strain CRL 75-36-700-3 / race SCCL)
41% identity, 16% coverage
CNAG_02239 26S protease regulatory subunit 4 from Cryptococcus neoformans var. grubii H99
43% identity, 11% coverage
- The Cryptococcus neoformans STRIPAK complex controls genome stability, sexual development, and virulence
Peterson, PLoS pathogens 2024 - “...ID numbers, from left to right in the graph, are CNAG_02234, CNAG_02235, CNAG_02236, CNAG_02237, CNAG_02238, CNAG_02239, and CNAG_02240. (F) AlphaFold structure prediction of Pph22 and Ppg1 and a superimposition of the two proteins. Root mean square deviation (RMSD) values of superimposed structures are 0.507 (between 285...”
- HDAC genes play distinct and redundant roles in Cryptococcus neoformans virulence
Brandão, Scientific reports 2018 - “...CNAG_00581 Saccharopepsin 0.406541427 CNAG_01343 ATP-dependent Clp protease ATP-binding subunit ClpX 0.397082268 CNAG_01688 ATP-dependent metalloprotease 0.454088763 CNAG_02239 26S protease regulatory subunit 4 0.447325323 CNAG_02282 Carboxypeptidase A4 0.450060236 CNAG_03904 26S protease regulatory subunit 6B 0.150163286 CNAG_04380 Peptidase 0.391189814 CNAG_04635 Endopeptidase 0.225975854 CNAG_04666 26S protease regulatory subunit 8 0.186381652...”
- Analysis of the Protein Kinase A-Regulated Proteome of Cryptococcus neoformans Identifies a Role for the Ubiquitin-Proteasome Pathway in Capsule Formation
Geddes, mBio 2016 - “...0.026 CNAG_01881 Molecular chaperone GrpE 1.557 2.879 0.005 CNAG_01899 Prefoldin alpha subunit 1.574 2.132 0.031 CNAG_02239 26S protease regulatory subunit 4 0.714 2.185 0.035 CNAG_02725 20S proteasome subunit beta 2 0.594 1.365 0.045 CNAG_02827 Ubiquitin-like protein Nedd8 0.764 0.761 0.028 CNAG_03627 Peptidyl-prolyl cis - trans isomerase...”
B5RI28 Proteasome (Prosome, macropain) 26S subunit, ATPase 1a (Fragment) from Salmo salar
32% identity, 16% coverage
XP_001866517 26S proteasome regulatory subunit 6A-B from Culex quinquefasciatus
35% identity, 16% coverage
NP_001014855 26S proteasome regulatory subunit 4 from Bos taurus
31% identity, 15% coverage
- Investigation of the association of two candidate genes (H-FABP and PSMC1) with growth and carcass traits in Qinchuan beef cattle from China.
Liang, Genetics and molecular research : GMR 2014 (PubMed)- GeneRIF: Thus, the results of our study suggest that the H-FABP and PSMC1 gene polymorphisms could be used as genetic markers in marker-assisted selection for improving Qinchuan beef cattle
- Mapping, expression, and association study of the bovine PSMC1 gene.
Guo, Biochemical genetics 2008 (PubMed)- GeneRIF: data show that animals with AA genotype have a lower food intake, grow faster, are longer in the body & have less backfat & bigger loin muscle; PSMC1 gene was expressed mainly in lung, testis, and spleen; mapped PSMC1 gene on BTA10
- Differential roles of the COOH termini of AAA subunits of PA700 (19 S regulator) in asymmetric assembly and activation of the 26 S proteasome.
Gillette, The Journal of biological chemistry 2008 - GeneRIF: reveal critical roles of COOH termini of Rpt subunits of PA700 in the assembly and activation of eukaryotic 26 S proteasome[PA700 proteasome activator ]
MNEG_3522 26S proteasome regulatory subunit T2 from Monoraphidium neglectum
43% identity, 11% coverage
PRS4_HUMAN / P62191 26S proteasome regulatory subunit 4; P26s4; 26S proteasome AAA-ATPase subunit RPT2; Proteasome 26S subunit ATPase 1 from Homo sapiens (Human) (see 7 papers)
PRS4_MOUSE / P62192 26S proteasome regulatory subunit 4; P26s4; 26S proteasome AAA-ATPase subunit RPT2; Proteasome 26S subunit ATPase 1 from Mus musculus (Mouse) (see 5 papers)
P62192 proteasome ATPase (EC 5.6.1.5) from Mus musculus (see paper)
A4FUZ3 Proteasome (Prosome, macropain) 26S subunit, ATPase, 1 from Bos taurus
F2Z5J1 26S protease regulatory subunit 4 from Sus scrofa
NP_002793 26S proteasome regulatory subunit 4 isoform a from Homo sapiens
NP_032973 26S proteasome regulatory subunit 4 from Mus musculus
P62193 26S proteasome regulatory subunit 4 from Rattus norvegicus
31% identity, 15% coverage
- function: Component of the 26S proteasome, a multiprotein complex involved in the ATP-dependent degradation of ubiquitinated proteins. This complex plays a key role in the maintenance of protein homeostasis by removing misfolded or damaged proteins, which could impair cellular functions, and by removing proteins whose functions are no longer required. Therefore, the proteasome participates in numerous cellular processes, including cell cycle progression, apoptosis, or DNA damage repair. PSMC1 belongs to the heterohexameric ring of AAA (ATPases associated with diverse cellular activities) proteins that unfolds ubiquitinated target proteins that are concurrently translocated into a proteolytic chamber and degraded into peptides.
subunit: Component of the 19S proteasome regulatory particle complex. The 26S proteasome consists of a 20S core particle (CP) and two 19S regulatory subunits (RP). The regulatory particle is made of a lid composed of 9 subunits, a base containing 6 ATPases including PSMC1 and few additional components (PubMed:27342858, PubMed:27428775). Interacts with SCA7 (PubMed:11734547). Interacts with NGLY1 (PubMed:15358861). Interacts with PAAF1 (PubMed:15831487). - function: Component of the 26S proteasome, a multiprotein complex involved in the ATP-dependent degradation of ubiquitinated proteins. This complex plays a key role in the maintenance of protein homeostasis by removing misfolded or damaged proteins, which could impair cellular functions, and by removing proteins whose functions are no longer required. Therefore, the proteasome participates in numerous cellular processes, including cell cycle progression, apoptosis, or DNA damage repair. PSMC1 belongs to the heterohexameric ring of AAA (ATPases associated with diverse cellular activities) proteins that unfolds ubiquitinated target proteins that are concurrently translocated into a proteolytic chamber and degraded into peptides.
subunit: Component of the 19S proteasome regulatory particle complex. The 26S proteasome consists of a 20S core particle (CP) and two 19S regulatory subunits (RP). The regulatory particle is made of a lid composed of 9 subunits, a base containing 6 ATPases including PSMC1 and few additional components. Interacts with SCA7. Interacts with NGLY1. Interacts with PAAF1. - Proteomic Characterization of Changes in Mouse Brain Cortex Protein Expression at Different Post-Mortem Intervals: A Preliminary Study for Forensic Biomarker Identification
Bonelli, International journal of molecular sciences 2024 - “...Score b Peptide Matched SC c % Theoretical (pI/Mr) p -Value Variation EXP1 PRS4_ Psmc1 P62192 26S proteasome regulatory subunit 4 41 6/38 49 5.87/59184 0.0076 DOWN EXP2 CTL3_ Slc44a3 Q921V7 Choline transporter-like protein 3 44 5/18 57 8.04/73414 0.0112 DOWN EXP4 PRS10_ Psmc6 P62334 26S...”
- Enrichment of Neurodegenerative Microglia Signature in Brain-Derived Extracellular Vesicles Isolated from Alzheimer's Disease Mouse Models
Muraoka, Journal of proteome research 2021 - “...2808.41 1.25 1.613 P60766 Cdc42 844.66 932.37 1.10 0.370 Q80UP3 Dgkz 167.80 207.27 1.24 1.670 P62192 Psmc1 1531.69 1674.17 1.09 1.746 Q5SYD0 Myo1d 1717.22 2076.67 1.21 1.350 A2ADY9 Ddi2 84.14 104.29 1.24 2.941 A2AF47 Dock11 198.13 296.61 1.50 1.329 Q8BIK4-2 Dock9 725.87 1049.00 1.45 1.415 a...”
- Subproteomic profiling of sarcolemma from dystrophic mdx-4cv skeletal muscle.
Murphy, Data in brief 2018 - “...1 44.7 9.69E-03 1.6 Q99M71 Epdr1 Mammalian ependymin-related protein 1 1 1 89.1 9.58E-04 1.6 P62192 Psmc1 26S protease regulatory subunit 4 1 1 75.4 2.08E-03 1.5 Table 3 Mass spectrometric identification of proteins identified by a single unique peptide with an increased abundance in the...”
- Early cysteine-dependent inactivation of 26S proteasomes does not involve particle disassembly.
Hugo, Redox biology 2018 - “...Control Antimycin P62334 26S protease regulatory subunit 10B AVASQLD C NFLK R; O R; O P62192 26S protease regulatory subunit 4 AI C TEAGLMALR R ND Q3TXS7 26S proteasome non-ATPase regulatory subunit 1 MEEADALIESL C R R R VLSMTET C R R R Q8BG32 26S proteasome...”
- Amyloid Precursor Protein (APP) May Act as a Substrate and a Recognition Unit for CRL4CRBN and Stub1 E3 Ligases Facilitating Ubiquitination of Proteins Involved in Presynaptic Functions and Neurodegeneration
Del, The Journal of biological chemistry 2016 - “...Psmd1 Psmd2 Psmd4 Psmd7 Psmd8 Psmd11 Psmd12 Psmd13 Psmd14 P62192 P54775 P62196 P62334 Q3TXS7 Q8VDM4 O35226 P26516 Q9CX56 Q8BG32 Q9D8W5 Q9WVJ2 O35593 49 47 46 44...”
- Delineation of Molecular Pathways Involved in Cardiomyopathies Caused by Troponin T Mutations.
Gilda, Molecular & cellular proteomics : MCP 2016 - RhoGDIβ Inhibits Bone Morphogenetic Protein 4 (BMP4)-induced Adipocyte Lineage Commitment and Favors Smooth Muscle-like Cell Differentiation.
Huang, The Journal of biological chemistry 2015 - Human stefin B role in cell's response to misfolded proteins and autophagy.
Polajnar, PloS one 2014 - “...protein Prnp 1,33E-06 3 0 P62334 26S protease regulatory subunit 10B Psmc6 5,73E-45 2 24 P62192 26S protease regulatory subunit 4 Psmc1 7,84E-73 0 13 O88685 26S protease regulatory subunit 6A Psmc3 3,55E-93 0 16 P54775 26S protease regulatory subunit 6B Psmc4 4,87E-44 0 12 P46471...”
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- Integrated analysis of phosphoproteome and ubiquitylome in epididymal sperm of buffalo (Bubalus bubalis)
Zhang, Molecular reproduction and development 2021 - “...kinase PASK S158 K1035, K1046, K218, K1131 F1N0B2 Phospholipidtransporting ATPase LOC536660 S855 K152, K704, K229 A4FUZ3 Proteasome (prosome, macropain) 26S subunit, ATPase, 1 PSMC1 S244 K178 F1MKX4 Proteasome activator complex subunit 4 PSME4 S293, S294 K918, K636, K56, K36, K1501, K574 Q3ZCK9 Proteasome subunit alpha type4...”
- ATP synthase subunit ATP5B interacts with TGEV Nsp2 and acts as a negative regulator of TGEV replication
Wang, Virulence 2024 - “...grp-58 57279 55 5(3) 5(3) 0.18 11% Q2YGT7 RPL10 3667 38 1(1) 1(1) 1.03 37% F2Z5J1 PSMC1 49325 36 9(2) 5(2) 0.14 12% A0A287AJY2 TCP1 58499 32 2(1) 1(1) 0.06 1% A0A288CFV5 TF 80865 31 1(1) 1(1) 0.04 1% A0A287BLN0 CLK3 492770 30 1(1) 1(1) 0.07...”
- PSMC1 variant causes a novel neurological syndrome.
Aharoni, Clinical genetics 2022 - GeneRIF: PSMC1 variant causes a novel neurological syndrome.
- 14q32.11 microdeletion including CALM1, TTC7B, PSMC1, and RPS6KA5: A new potential cause of developmental and language delay in three unrelated patients.
Eno, American journal of medical genetics. Part A 2021 (PubMed)- GeneRIF: 14q32.11 microdeletion including CALM1, TTC7B, PSMC1, and RPS6KA5: A new potential cause of developmental and language delay in three unrelated patients.
- Low expression of TCP1 (T-Complex 1) and PSMC1 (Proteasome 26S subunit, ATPase 1) in heterotopic ossification during ankylosing spondylitis.
Zhong, Bioengineered 2021 - GeneRIF: Low expression of TCP1 (T-Complex 1) and PSMC1 (Proteasome 26S subunit, ATPase 1) in heterotopic ossification during ankylosing spondylitis.
- TOPORS, a Dual E3 Ubiquitin and Sumo1 Ligase, Interacts with 26 S Protease Regulatory Subunit 4, Encoded by the PSMC1 Gene.
Czub, PloS one 2016 - GeneRIF: P26s4 Associates with the C-Terminal Region of TOPORS.
- PSMC1 Gene in Parkinson's Disease.
Gómez-Garre, European neurology 2012 (PubMed)- GeneRIF: Our results suggest that there is no association between variations or haplotypes in the PSMC1 gene and Parkinson's disease
- Caspase-3 cleaves specific 19 S proteasome subunits in skeletal muscle stimulating proteasome activity.
Wang, The Journal of biological chemistry 2010 - GeneRIF: Caspase-3 cleaves specific 19 S proteasome subunits in skeletal muscle stimulating proteasome activity
- Depletion of 26S proteasomes in mouse brain neurons causes neurodegeneration and Lewy-like inclusions resembling human pale bodies.
Bedford, The Journal of neuroscience : the official journal of the Society for Neuroscience 2008 - GeneRIF: Psmc1 conditional knock-out mice demonstrate that 26S proteasomal dysfunction is sufficient to trigger neurodegenerative disease.
- Inhibition of proteasome function leads to NF-kappaB-independent IL-8 expression in human hepatocytes.
Joshi-Barve, Hepatology (Baltimore, Md.) 2003 (PubMed)- GeneRIF: Hepatocytes dying because of inhibition of proteasome function produce massive quantities of the proinflammatory chemokine IL-8, possibly resulting in neutrophil infiltration, increased inflammation, and liver injury.
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- Heterozygosity for the proteasomal Psmc1 ATPase is insufficient to cause neuropathology in mouse brain, but causes cell cycle defects in mouse embryonic fibroblasts.
Rezvani, Neuroscience letters 2012 (PubMed)- GeneRIF: In Psmc1(+/-)primary mouse embryonic fibroblasts we found decreased PSMC1 protein expression, altered assembly of the 26S proteasome and G2/M cell cycle arrest.
- Caspase-3 cleaves specific 19 S proteasome subunits in skeletal muscle stimulating proteasome activity.
Wang, The Journal of biological chemistry 2010 - GeneRIF: Caspase-3 cleaves specific 19 S proteasome subunits in skeletal muscle stimulating proteasome activity
- Different-sized extracellular vesicles derived from stored red blood cells package diverse cargoes and cause distinct cellular effects.
Oh, Transfusion 2023 - “...P28072 5694 1.0 6.7 6.7 26S protease regulatory subunit 4 proteasome 26S subunit, ATPase 1(PSMC1) P62191 5700 0.0 3.0 3.0 26S protease regulatory subunit 8 proteasome 26S subunit, ATPase 5(PSMC5) P62195 5705 0.0 3.3 3.3 26S proteasome regulatory subunit 9 proteasome 26S subunit, non-ATPase 9(PSMD9) O00233...”
- Proteomic analysis of the umbilical cord in fetal growth restriction and preeclampsia.
Conrad, PloS one 2022 - “...Change Q8N8S7 Protein enabled homolog -4.07 P60228 Eukaryotic translation initiation factor 3 subunit E -2.65 P62191 26S proteasome regulatory subunit 4 -2.54 Q13576 Ras GTPase-activating-like protein IQGAP2 -2.26 Q16881 Thioredoxin reductase 1, cytoplasmic -2.09 Q02818 Nucleobindin-1 -1.93 O95373 Importin-7 -1.90 P23381 TryptophantRNA ligase, cytoplasmic -1.90 P56134...”
- Pan-cancer analysis of genomic and transcriptomic data reveals the prognostic relevance of human proteasome genes in different cancer types.
Larsson, BMC cancer 2022 - “...Class II: Proteasome 26S subunit PSMC1 Proteasome 26S subunit, ATPase 1 Rpt2 14q32.11 S4, p56 P62191 440 49,185 PSMC2 Proteasome 26S subunit, ATPase 2 Rpt1 7q22.1 MSS1 P35998 433 48,634 PSMC3IP PSMC3 Interacting Protein 17q21.2 HOP2, TBPIP Q9P2W1 217 24,906 PSMC3 Proteasome 26S subunit, ATPase 3...”
- Characterization of the pVHL Interactome in Human Testis Using High-Throughput Library Screening.
Falconieri, Cancers 2022 - “...flavoprotein subunit alpha, mitochondrial (ETFA) P13804 electron transport 3 26S proteasome regulatory subunit 4 (PSMC1) P62191 protein degradation 3 Histone deacetylase complex subunit (SAP30) O75446 deacetylation 3 E3 ubiquitin-protein ligase (TTC3) P53804 ubiquitination/protein degradation 3 Ankyrin repeat and EF-hand domain-containing protein 1 (ANKEF1) Q9NU02 n.d. 2...”
- Aflibercept Intervention in Experimental Branch Retinal Vein Occlusion Results in Upregulation of DnaJ Homolog Subfamily C Member 17
Cehofski, Journal of ophthalmology 2021 - “...of S-phase kinase-associated protein 1 0.0086 1.35 Q6Q7J2 Rab GDP dissociation inhibitor beta 0.0041 0.86 P62191 26S proteasome regulatory subunit 4 subunit 4 0.0098 0.71 P20585 DNA mismatch repair protein Msh3 0.0077 0.66 Q29195 60S ribosomal protein L10 0.0088 0.61 Q16891-3 Isoform 3 of MICOS complex...”
- Regulation of the HTRA2 Protease Activity by an Inhibitory Antibody-Derived Peptide Ligand and the Influence on HTRA2-Specific Protein Interaction Networks in Retinal Tissues
Schmelter, Biomedicines 2021 - “...POTE ankyrin domain family member E POTEE 3.6 9 1 10.4 121.4 - - 18 P62191 26S proteasome regulatory subunit 4 PSMC1 3.0 1 1 2.7 49.2 n.d. - 19 P46405 40S ribosomal protein S12 RPS12 7.1 5 5 49.2 14.5 n.d. - 20 P55735 Protein...”
- Differences in Cellular Clearing Mechanisms of Aggregates of Two Subtypes of HLA-B27
Thakur, Frontiers in immunology 2021 - “...peptides Coverage (%) Fold change Proteins upregulated in B*2704 Proteasome 26S subunit, ATPase 1 (PSMC1) P62191 49.2 8 24 1.62 Proteasome 26S subunit, ATPase 3 (PSMC3) P17980 49.2 8 30 1.55 Proteasome 26S subunit, ATPase 6 (PSMC6) P62333 44.1 8 31 1.61 Proteasome 26S subunit, non-ATPase...”
- Alendronate-induced Perturbation of the Bone Proteome and Microenvironmental Pathophysiology.
Kim, International journal of medical sciences 2021 - “...0.1397 0.0465 0.0254 Q9Y5M8 SRPRB Signal recognition particle receptor subunit beta 0.645 0.0983 0.1459 0.0486 P62191 PSMC1 26S proteasome regulatory subunit 4 0.6447 0.1717 0.0328 0.0243 P43251 BTD Biotinidase (Biotinase) 0.6273 0.1495 0.0734 0.0392 P08648 ITGA5 Integrin alpha-5 0.6102 0.0891 0.1285 0.0398 Q07955 SRSF1 Serine/arginine-rich splicing...”
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- Candidate proteins interacting with cytoskeleton in cells from the basal airway epithelium in vitro
Olatona, Frontiers in molecular biosciences 2024 - “...without cytoskeletal associations selectively recovered with antibody. Accession Gene Protein description MW R 2 Modifications P62193 Psmc1 26S proteasome regulatory subunit 4 49.2 0.362 Q63347 Psmc2 26S proteasome regulatory subunit 7 48.5 0.045 P62198 Psmc5 26S proteasome regulatory subunit 8 45.6 0.847 P63326 Rps10 40S ribosomal...”
- Allosteric regulation of the 20S proteasome by the Catalytic Core Regulators (CCRs) family
Deshmukh, Nature communications 2023 - “...(Supplementary Fig. 14E ), P33297 ( S. cerevisiae Rpt5) in spot H21, Q63569 (Rpt5) and P62193 (Rpt2) from R. norvegicus in spot H23 and H24 respectively (Supplementary Fig. 2F ). The peptides are attached in duplicates to the cellulose membrane by C-termini, and their N-termini are...”
- Space Radiation-Induced Alterations in the Hippocampal Ubiquitin-Proteome System
Tidmore, International journal of molecular sciences 2021 - “...B2GV54 P15429 P56603 Q5FVQ8 Q6AY41 Q9ESB5 B2RZ37 P15431 P60892 Q5MJ12 * Q6AYH5 Q9JHU0 B2RZ78 P15800 P62193 * Q5U2Z5 Q6AYK6 * Q9QYL8 D3ZEY4 P20069 P62824 Q62656 Q6MG06 Q9R085 * D3ZGS3 P22062 P62959 Q62824 Q6MG49 Q9R0I8 D4ABY2 P23576 P68255 * Q63009 * Q6MG55 Q9R1N3 F1LSG8 P23965 P84586 *...”
- “...15/88 (17%) 5/20 (25%) 10/37 (27%) 7/41 (17%) 15/61 (24.5%) 12/57 (21.0%) P04256 P12001 P13471 P62193 P68255 P84586 P86182 Q4VSI4 Q5MJ12 Q63009 Q6AY09 Q6AYK6 Q80W83 Q9R085 Q9Z269 F1LQ48 P48679 P62243 Q4KLM4 Q68FS2 B0BN85 D4AE41 F1LNJ2 F1M386 O35346 P07153 P20171 P21272 Q62829 Q9JJ31 D3ZBM7 O35821 P10686 P41123...”
- Differential Retinal Protein Expression in Primary and Secondary Retinal Ganglion Cell Degeneration Identified by Integrated SWATH and Target-Based Proteomics
Kwong, International journal of molecular sciences 2021 - “...(Melanoma-associated antigen MUC18) (CD antigen CD146) 1.47 0.56 0.02 A0A0G2JUB0 Protein FAM3C 1.40 0.49 0.04 P62193 26S proteasome regulatory subunit 4 (P26s4) (26S proteasome AAA-ATPase subunit RPT2) (Proteasome 26S subunit ATPase 1) 1.39 0.48 0.01 M0R567 Interferon regulatory factor 2-binding protein-like 1.38 0.46 0.00 Downregulation P63041...”
- Striated muscle-specific serine/threonine-protein kinase beta segregates with high versus low responsiveness to endurance exercise training
Kusić, Physiological genomics 2020 (secret) - The type 2 diabetes gene product STARD10 is a phosphoinositide-binding protein that controls insulin secretory granule biogenesis.
Carrat, Molecular metabolism 2020 - “...channel 11 Q3B8Q2 Eif4a3 5.3478 0.007229 Eukaryotic initiation factor 4A-III Q5XIH7 Phb2 4.8776 0.007229 Prohibitin-2 P62193 Psmc1 5.0757 0.007229 26S proteasome regulatory subunit 4 M0R735 Syncrip 5.9137 0.007229 Heterogeneous nuclear ribonucleoprotein Q A0A0G2JTI7 Prpf3 4.0762 0.007229 Pre-mRNA-processing factor 3 D4A0U3 Zfp638 3.6588 0.007229 Zinc finger protein...”
- Proteomic analysis of cortical neuronal cultures treated with poly-arginine peptide-18 (R18) and exposed to glutamic acid excitotoxicity
MacDougall, Molecular brain 2019 - “...delta 1.127 3.944 3.499 Cct5 Q68FQ0 T-complex protein 1 subunit epsilon 1.096 2.269 2.291 Psmc1 P62193 26S protease regulatory subunit 4 1.419 22.67 18.197 Axonal growth/Neuronal differentiation/Cytoskeletal arrangement Actr2 Q5M7U6 Actin-related protein 2 1.355 1.271 1.459 b Ap2m1 P84092 AP-2 complex subunit mu 1.271 5.394 6.855...”
- Deciphering glycomics and neuroproteomic alterations in experimental traumatic brain injury: Comparative analysis of aspirin and clopidogrel treatment
Abou-Abbass, Electrophoresis 2016 - “...Leucine-rich PPR motif-containing protein, mitochondrial Ketimine reductase mu-crystallin 26S protease regulatory subunit 4 Q5SGE0 Q9QYU4 P62193 0.00173 0.00834 0.00023 ASA versus Ctrl and CLOP versus Ctrl and ASACLOP versus Ctrl Glutaredoxin-1 Serine/threonine-protein phosphatase PP1-gamma catalytic subunit Q9ESH6 P63088 0.00222 1.58 10 5 Table 2 List of...”
- More
W5NZR9 AAA+ ATPase domain-containing protein from Ovis aries
31% identity, 15% coverage
- Poor maternal diet during gestation alters offspring muscle proteome in sheep
Reed, Journal of animal science 2022 - “...1.90b W5QIL2 102.1 1.42a 95.1 0.97b 102.8 2.39a PSMC1 W5NZR9 105.5 3.35a 93.1 2.41b 101.4 3.02ab PSMC2 W5QCP6 104.2 2.72a 93.7 1.08b 102.1 2.40ab PSMC3 W5P9K6...”
- “...MAP2K1 W5QC41 PKM W5PQF0 CCT7 W5P5W9 TPI1 W5Q1I6 IMPDH W5NZR9 PSMC1 W5PEV7 DYNLL2 W5QH42 MAT2A W5PSC8 FBLN5 Oxidative stress Thioredoxin is a core component of...”
PRS6A_CAEEL / O76371 26S protease regulatory subunit 6A; Proteasome regulatory particle ATPase-like protein 5 from Caenorhabditis elegans (see paper)
35% identity, 16% coverage
- function: Component of the 26S proteasome, a multiprotein complex involved in the ATP-dependent degradation of ubiquitinated proteins (PubMed:27528192). This complex plays a key role in the maintenance of protein homeostasis by removing misfolded or damaged proteins, which could impair cellular functions, and by removing proteins whose functions are no longer required (By similarity). Therefore, the proteasome participates in numerous cellular processes, including cell cycle progression, apoptosis, or DNA damage repair (By similarity). Belongs to the heterohexameric ring of AAA (ATPases associated with diverse cellular activities) proteins that unfolds ubiquitinated target proteins that are concurrently translocated into a proteolytic chamber and degraded into peptides (By similarity).
subunit: Component of the 19S proteasome regulatory particle complex. The 26S proteasome consists of a 20S core particle (CP) and two 19S regulatory subunits (RP). The regulatory particle is made of a lid composed of 9 subunits, a base containing 6 ATPases including the PSMC3 homolog rpt-5 and few additional components.
disruption phenotype: RNAi-mediated knockdown results in larval arrest and up-regulation of the aspartic protease ddi-1, indicative of proteasomal dysfunction. RNAi-mediated knockdown in a ddi-1, png-1, sel-11 or sel-1 mutant background results in reduced or failed expression of the proteasomal subunit rpt-3.
6msjB / P62191 6msjB (see paper)
31% identity, 17% coverage
- Ligand: adenosine-5'-triphosphate (6msjB)
SSO0271 proteasome-activating nucleotidase from Saccharolobus solfataricus P2
SSO0271 AAA family ATPase from Sulfolobus solfataricus P2
36% identity, 14% coverage
- Interplay between transcriptional regulators and VapBC toxin-antitoxin loci during thermal stress response in extremely thermoacidophilic archaea
Cooper, Environmental microbiology 2023 - “...subunit DFR88_07900 Msed_2052 Ssol_1825 SSO0766 Saci_0909 PF1404 AF0481 Proteasome subunit PF0159 PAN DFR88_06820 Msed_2275 Ssol_1248 SSO0271 Saci_0656 PF0115 AF1976 Prefoldin subunit DFR88_10125 Msed_1630 Ssol_1321 SSO0349 Saci_1463 Prefoldin subunit PF0375 AF2063 Prefoldin subunit DFR88_06255 Msed_0082 Ssol_1787 SSO0730 Saci_0605 PF0382 AF1150 Mpru = Metallosphaera prunae ; Msed =...”
- “...N.C. 1.7 N.C. Proteasome subunit Ssol_1825 SSO0766 1.7 N.C. 2.5 2.0 N.C. 1.7 PAN Ssol_1248 SSO0271 2.0 5.0 3.3 3.3 N.C. 5.0 Prefoldin subunit Ssol_1321 SSO0349 2.2 2.5 N.C. 1.7 1.7 N.C. Prefoldin subunit Ssol_1787 SSO0730 2.6 2.5 1.7 2.0 2.0 1.7 Sso 98/2 = Saccharolobus...”
- Insights into archaeal chaperone machinery: a network-based approach
Rani, Cell stress & chaperones 2018 - “...ATPaseAAA1 ATPaseAAA2 NP_341819.1 NP_341734.1 NP_341956.1 NP_342401.1 SSO0271 Saci_1462 SSO0176 SSOP1_0945 393 369 769 372 44,143.36 85,809.51 86,348.03...”
- VapC6, a ribonucleolytic toxin regulates thermophilicity in the crenarchaeote Sulfolobus solfataricus
Maezato, RNA (New York, N.Y.) 2011 - “...included RNA polymerase subunit RpoD (SSO0271), translation initiation factor subunit eIF-gamma (SSO0412), Acetyl-CoA c-acetyltransferase (acetoacetylCoA...”
- Transcriptome analysis of infection of the archaeon Sulfolobus solfataricus with Sulfolobus turreted icosahedral virus
Ortmann, Journal of virology 2008 - “...as is the gene for a proteosome-associated nucleotidase (SSO0271). Of the 55 host genes identified as responding to UV exposure, 21 are shared with...”
- Role of the beta1 subunit in the function and stability of the 20S proteasome in the hyperthermophilic archaeon Pyrococcus furiosus
Madding, Journal of bacteriology 2007 - “...PAE0696a PAB2233 PF0115 PH0201 AAO73475 SSO0271 ST0330 TA0840a TVN0947a TK2252 Bacteria Mycobacterium tuberculosis Rhodococcus erythropolis Streptomyces...”
- Response of the hyperthermophilic archaeon Sulfolobus solfataricus to UV damage
Fröls, Journal of bacteriology 2007 - “...R R R R SR SR SR SR ssh7A ssh7A ssh7A SSO9180 SSO10610 SSO9535 SSO0271 8 (2/2) 8 (1/2) 7 (2/3) 9 (2/2) 9 (1/2) 7 (1/3) 1653G 1222O S S S A, E A, B C C C A...”
- Dynamic metabolic adjustments and genome plasticity are implicated in the heat shock response of the extremely thermoacidophilic archaeon Sulfolobus solfataricus
Tachdjian, Journal of bacteriology 2006 - “...3.0 2.0 NC NC 3.0 4.0 4.6 4.6 SSO0738 SSO0278 SSO0766 SSO0271 SSO0732 SSO0735 SSO0736 NC NC NC 7.2 6.5 4.3 10.6 () (1) (2) (PAN) rrp42 rrp41 rrp4 Time point...”
- Differential regulation of the PanA and PanB proteasome-activating nucleotidase and 20S proteasomal proteins of the haloarchaeon Haloferax volcanii
Reuter, Journal of bacteriology 2004 - “...PaPan (PAB2233), PfPan (PF0115), PhPan (PH0201), ApPan (APE2012), SsPan (SSO0271), NePan (NEQ186). 7768 REUTER ET AL. FIG. 3. PanA and PanB are produced in H....”
- Proteolysis in hyperthermophilic microorganisms
Ward, Archaea (Vancouver, B.C.) 2002 - “...Proteasome alpha subunit SSO0766 Proteasome beta subunit SSO0271 26S proteosome regulatory subunit Function Locus Locus Function Thermotoga maritima Sulfolobus...”
Q9V3V6 proteasome endopeptidase complex (EC 3.4.25.1) from Drosophila melanogaster (see paper)
NP_524464 regulatory particle triple-A ATPase 5 from Drosophila melanogaster
33% identity, 16% coverage
C5Z5B4 AAA+ ATPase domain-containing protein from Sorghum bicolor
36% identity, 16% coverage
D2W1W8 Predicted protein from Naegleria gruberi
35% identity, 13% coverage
GRMZM2G027282 uncharacterized protein LOC100273594 from Zea mays
36% identity, 16% coverage
- Characterization of maize miRNAs responsive to maize Iranian mosaic virus infection
Ghorbani, 3 Biotech 2022 - “...t r a n s c r i p t s (GRMZM2G027282, 047607, 054468, 056039, 136508, 150912 and 153233) were up-regulated in response to MIMV (Ghorbani et al. 2018a) as...”
- The Sporisorium reilianum Effector Vag2 Promotes Head Smut Disease via Suppression of Plant Defense Responses
Zhao, Journal of fungi (Basel, Switzerland) 2022 - “...type family protein IP25 1 GRMZM2G340749 General negative regulator of transcription Protein processes IP26 5 GRMZM2G027282 Proteasome 26S subunit 6A (RPT5a) IP27 3 GRMZM2G168119 Putative HSP20-like chaperone domain family protein IP28 2 GRMZM2G134980 Putative dnaJ chaperone family protein IP29 2 GRMZM2G006781 Conserved oligomeric Golgi complex subunit...”
- Identification of miRNA-eQTLs in maize mature leaf by GWAS
Chen, BMC genomics 2020 - “...(Fig. 5 a) and miR396e-5p (Fig. 6 a) were identified, and two genes, GRMZM2G108694 and GRMZM2G027282, were found in these two miR-eQTL regions individually on chromosome 5. Fig. 3 GWAS result of miR156k-5p. a. Manhattan plot of miR156k-5p. b. Genes located within the strong associated region...”
- “...AT2G47430.1 (CKI1) Signal transduction histidine kinase LOC_Os06g08450.1 histidine kinase putative expressed miR396e-5p S5_214385721 1.69E-10 5 GRMZM2G027282 NON AT3G05530.1 (ATS6A.2, RPT5A) regulatory particle triple-A ATPase 5A LOC_Os06g07630.1 26S protease regulatory subunit 6A a chromosome The effect of miR-eQTLs on their target genes It is evident that miRNAs...”
A2XAQ0 AAA+ ATPase domain-containing protein from Oryza sativa subsp. indica
36% identity, 17% coverage
- Salt Response Analysis in Two Rice Cultivars at Seedling Stage
Liu, Acta physiologiae plantarum 2017 - “...47.7 5.07 Q5SNC0/ 26S protease regulatory subunit 6A homolog [japonica]/ 9 0 31.82 46.8 5.07 A2XAQ0 Protein SGT1 homolog [japonica] 9 6 29.7 40.9 5.06 Q0JL44 S7 Salt stress root protein RS1 [japonica] 4 2 31.86 21.8 4.92 Q0JPA6 Salt stress-induced protein [indica]/ 2 0 20.69...”
B6TJM5 26S protease regulatory subunit 6A from Zea mays
36% identity, 16% coverage
- Proteomic comparison of basal endosperm in maize miniature1 mutant and its wild-type Mn1
Silva-Sanchez, Frontiers in plant science 2013 - “...0.45 0.01 B6TP93 Fructokinase-2 ND ND 1.20 0.02 B4FBF4 Serine hydroxymethyltransferase ND ND 1.24 0.01 B6TJM5 26S protease regulatory subunit 6A ND ND 1.26 0.02 B4FZV6 Similar to 26S protease regulatory subunit 7 from Oryza sativa (Q9FXT9) ND ND 1.26 0.00 B6SJ21 Guanine nucleotide-binding protein beta...”
- “...1.23 0.22 zma:100283546 zma03050 C0HGV5 Putative uncharacterized protein (Pfam: enolase domain) 1.24 0.31 NF NF B6TJM5 26S protease regulatory subunit 6A 1.26 0.02 NF NF B4FZV6 Putative uncharacterized protein 1.26 0 NF NF C0HF77 Uncharacterized LOC100304374 1.29 0.09 zma:100304374 NF B6TRW8 Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate...”
P46465 26S proteasome regulatory subunit 6A homolog from Oryza sativa subsp. japonica
36% identity, 16% coverage
Nmag_1362 26S proteasome subunit P45 family from Natrialba magadii ATCC 43099
40% identity, 13% coverage
YHS4 / AAA97498.1 ATPase from Saccharomyces cerevisiae (see paper)
29% identity, 16% coverage
Saci_0656 protease regulatory protein from Sulfolobus acidocaldarius DSM 639
41% identity, 12% coverage
P40327 proteasome ATPase (EC 5.6.1.5) from Saccharomyces cerevisiae (see paper)
YDL007W One of six ATPases of the 19S regulatory particle of the 26S proteasome involved in the degradation of ubiquitinated substrates; required for normal peptide hydrolysis by the core 20S particle from Saccharomyces cerevisiae
NP_010277 proteasome regulatory particle base subunit RPT2 from Saccharomyces cerevisiae S288C
29% identity, 16% coverage
- Protein functional module identification method combining topological features and gene expression data
Zhao, BMC genomics 2021 - “...on DIP dataset by ECTG P -value predicted complex known complex Biological 1.58e-35 YBR217W, YBR272C, YDL007W, YDL097C, proteasome complex ubiquitin-dependent YDL147W, YDR394W, YDR427W, YEL037C, protein catabolic YER012W, YER021W, YFR004W, YFR010W, process YFR052W, YGL004C, YGL048C, YHL030W, YHR027C, YHR200W, YKL145W,YLR421C, YMR314W, YOR117W, YOR259C, YOR261C, YPR108W 6.86e-17 YBL026W, YCR077C,...”
- A multi-network clustering method for detecting protein complexes from multiple heterogeneous networks
Ou-Yang, BMC bioinformatics 2017 - “...YIL093C subunit genes, 93.3% YNL137C, YNL306W, YPL118W, YDR347W YJR113C, YKL155C, YDR337W 10 3.70-43 YBR217W, YBR272C, YDL007W, YDL097C proteasome complex 20 out of 21 YDR427W, YEL037C, YER012W, YER021W genes, 95.2% YFR052W, YGL004C, YGL048C, YHL030W YOR259C, YOR261C, YPR108W, YHR200W YFR004W, YFR010W, YDL147W, YDR394W YKL145W 13 1.65e-35 YBR119W, YDL087C,...”
- Precise estimates of mutation rate and spectrum in yeast
Zhu, Proceedings of the National Academy of Sciences of the United States of America 2014 - “...87066 914652 192081 260436 438662 927326 YBL074C YDR224C YER018C YOL034W YDL007W YOR326W Q -- G Q E Q Stop 30-bp deletion Stop Stop Stop Stop PNAS | Published...”
- A comparison of the functional modules identified from time course and static PPI network data
Tang, BMC bioinformatics 2011 - “...YGL004C YFR004W YLR421C YDR363W-A YDL147W YKL145W YPR108W YFR052W YGR232W YOR261C YIL075C YGL048C YER021W YDR427W YDL097C YDL007W YFR010W YHL030W YBR272C YBL084C 19/22S regulator complex 0.69 17 4 4.35e-22 YFR036W YDL008W YKL022C YLR102C YDR118W YNL172W YOR249C anaphase- promoting complex 0.53 8 5 5.50e-17 YLR166C YER008C YGL233W YIL068C YDR166C...”
- A perturbed ubiquitin landscape distinguishes between ubiquitin in trafficking and in proteolysis
Ziv, Molecular & cellular proteomics : MCP 2011 - “...the 26S proteasome + YBL057C PTH2 2.2 Mitochondrially-localized peptidyl-tRNA hydrolases; negatively regulates the ubiquitin-proteasome pathway YDL007W RPT2 2.2 One of six ATPases of the 19S regulatory particle of the 26S proteasome YBR058C UBP14 2.2 Ubiquitin-specific protease that specifically disassembles unanchored ubiquitin chains YOR124C UBP2 2.2 Ubiquitin-specific...”
- Comparative transcriptome profiling analyses during the lag phase uncover YAP1, PDR1, PDR3, RPN4, and HSF1 as key regulatory genes in genomic adaptation to the lignocellulose derived inhibitor HMF for Saccharomyces cerevisiae
Ma, BMC genomics 2010 - “...+2.8 +2.4 +2.6 +2.5 YHL030W ECM29 Major component of the proteasome +4.6 +3.3 +3.6 +2.6 YDL007W RPT2 One of six ATPases of the 19 S regulatory particle of the 26 S proteasome involved in the degradation of ubiquitinated substrates +3.3 +2.6 +2.6 +2.4 YDR394W RPT3 One...”
- NLStradamus: a simple Hidden Markov Model for nuclear localization signal prediction
Nguyen, BMC bioinformatics 2009 - “...(PMID) YBR009C HHF1 4 21 11694505 11694505 b YBR010W HHT1 10 28 11694505 11694505 b YDL007W RPT2 11 15 15210724 15210724 a YDL007W RPT2 33 37 15210724 15210724 a YDR103W STE5 49 66 10481914 10481914 b YDR146C SWI5 636 655 7615496/1652372 18485366 a YDR208W MSS4 347...”
- Proteome analysis of yeast response to various nutrient limitations
Kolkman, Molecular systems biology 2006 - “...0.83 0.23 Rpn8p YOR261C 0.83 1 0.88 0.13 Rpt1p YKL145W 0.37 1 0.96 0.58 Rpt2p YDL007W 0.77 1 0.69 0.01 Rpt4p YOR259C 0.88 0.2 24 3 0.78 0.04 Rpt5p YOR117W 1.42 1 1.00 0.96 Rpt6p YGL048C 1.05 1 1.04 0.63 Vacuolar H+ ATPase Tfp1p YDL185W 0.35...”
- More
- N-Myristoylation of the Rpt2 subunit of the yeast 26S proteasome is implicated in the subcellular compartment-specific protein quality control system.
Kimura, Journal of proteomics 2016 (PubMed)- GeneRIF: N-myristoylation of Rpt2 is involved in controlled proteolysis via regulation of the nucleo-cytoplasmic localization of the yeast proteasome
- Separation of a functional deubiquitylating module from the SAGA complex by the proteasome regulatory particle.
Lim, Nature communications 2013 (PubMed)- GeneRIF: A specific interaction between the proteasomal ATPase, Rpt2p and Sgf73p of the SAGA complex leads to the dissociation of the H2Bub1-deubiquitylating module from SAGA both in vitro and in vivo.
- Prediction of lipid posttranslational modifications and localization signals from protein sequences: big-Pi, NMT and PTS1.
Eisenhaber, Nucleic acids research 2003
6fvtI / P40327 6fvtI (see paper)
29% identity, 18% coverage
- Ligand: adenosine-5'-triphosphate (6fvtI)
PF3D7_1130400 26S protease regulatory subunit 6A, putative from Plasmodium falciparum 3D7
40% identity, 15% coverage
- Mitigating the risk of antimalarial resistance via covalent dual-subunit inhibition of the Plasmodium proteasome
Deni, Cell chemical biology 2023 - “...K13 WT 19S PF3D7_1306400 E266K E266K WLW Stokes etal. 29 RPT5 Cam3.II K13 C580Y 19S PF3D7_1130400 G319S G319S WLW Stokes etal. 29 RPT4 Cam3.II K13 WT 19S PF3D7_1402300 E380 E380 WLW Stokes etal. 29 E380 refers to a premature stop-codon mutation. Results for dose-response assays testing...”
- Cyclical regression covariates remove the major confounding effect of cyclical developmental gene expression with strain-specific drug response in the malaria parasite Plasmodium falciparum
Foster, BMC genomics 2022 - “...reveals the inclusion of two additional proteasome subunits PF3D7_0723600 (proteasome assembly chaperone 4, putative) and PF3D7_1130400 (26S protease regulatory subunit 6A, putative). Protein homeostasis and the proteasome have been implicated in resistance as a key target for artemisinin mediated killing [ 35 , 36 ] and...”
- Genomic and Genetic Approaches to Studying Antimalarial Drug Resistance and Plasmodium Biology
Okombo, Trends in parasitology 2021 - “...2 (PF3D7_1328100), Pf 26S proteasome 19S regulatory particles ( pfrpt4 , PF3D7_1306400), ( pfrpt5 , PF3D7_1130400), ( pfrpn6 , PF3D7_1402300) [ 59 61 ] DSM265 Triazolopyrimidine Phase I/II ( NCT02389348 , NCT02573857 , NCT02123290 a ) Dihydroorotate dehydrogenase (PfDHODH) Mitochondrion Pyrimidine biosynthesis Dd2, K1 pfdhodh (PF3D7_0603300)...”
- Covalent Plasmodium falciparum-selective proteasome inhibitors exhibit a low propensity for generating resistance in vitro and synergize with multiple antimalarial agents
Stokes, PLoS pathogens 2019 - “...PF3D7_1328100 20S 2 subunit A90E A49E WLW 2/18 PF3D7_1306400 19S RPT4 NA E380* WLW 2/18 PF3D7_1130400 19S RPT5 NA G319S WLW 1/18 PF3D7_1130400 19S RPT5 NA R295S WLW 1/18 PF3D7_1402300 19S RPN6 NA E266K WLW 2/18 a Amino acid change in protein prior to proteolytic processing....”
- Elucidating Mechanisms of Drug-Resistant Plasmodium falciparum
Ross, Cell host & microbe 2019 - “...ethylenediamines 20S b5 (PF3D7_1011400) 20S b6 (PF3D7_0518300) 20S b2 (PF3D7_1328100) 19S RPT4 (PF3D7_1306400) 19S RPT5 (PF3D7_1130400) 19S RPN6 (PF3D7_1402300) Nucleus mRNA processing Cleavage and polyadenylation specificity factor subunit 3 AN3661 pfcpsf3 (PF3D7_1438500) Rhoptries and Exonemes Egress and invasion of host cells Plasmepsins IX and X 49c,...”
- Predicting and exploring network components involved in pathogenesis in the malaria parasite via novel subnetwork alignments
Cai, BMC systems biology 2015 - “...PF3D7_0904400 signal peptidase complex subunit 3, putative (SPC3) PF3D7_1331300 signal peptidase 21 kDa subunit (SP21) PF3D7_1130400 26S protease subunit regulatory subunit 6a, putative Heat shock response PF3D7_0708800 heat shock protein 110 (HSP110c) PF3D7_1357800 TCP-1/cpn60 chaperonin family, putative PF3D7_1215300 10 kd chaperonin, putative PF3D7_0308200 TCP-1/cpn60 chaperonin family,...”
LOC102622673 26S proteasome regulatory subunit 4 homolog A from Citrus sinensis
41% identity, 11% coverage
- Bidirectional mRNA transfer between Cuscuta australis and its hosts
Li, Frontiers in plant science 2022 - “...system development and flower development were found to be transferred from citrus/periwinkle to dodder (citrus: LOC102622673 and LOC102629518 , periwinkle: Gene_57532 and Gene_60764 ) and from dodder to citrus (dodder: DM860_000080 and DM860_002415 ) ( Supplementary Table 4 ). Four transcripts (encoding EXORDIUM-like 2 family proteins)...”
- “...( Wang et al., 2020 ). Mobile transcripts encoding 26S proteasome regulatory subunit proteins (Citrus_mobile: LOC102622673; Dodder_mobile: DM860_000080; Periwinkle_mobile: Gene_57532) involved in shoot system development were detected in the hosts and dodder ( Supplementary Table 4 ). In plants, the 26S proteasome regulatory subunit proteins control...”
P46466 26S proteasome regulatory subunit 4 homolog from Oryza sativa subsp. japonica
41% identity, 11% coverage
- The OsSPK1-OsRac1-RAI1 defense signaling pathway is shared by two distantly related NLR proteins in rice blast resistance
Yu, Plant physiology 2021 - “...(AP008207), Pish-J (KY225901), Pit (AB379815), Pi-ta (AF207842), Piz-t (DQ352040), and Xa1 (AB002266); OsRac1 (AK071126), OsRPT2a (P46466), OsSPK1 (XM_015775852), and RAI1 (AK067834); OsLOX3 (AY208920), OsPR5 (X68197), OsWRKY45 (AK103959), OsACTIN1 (Q10DV7), UBIQUITIN ( Ubq ; P0CH34) and AvrPi9 (KM004023). We checked the reference ( Liu et al., 2013...”
P54776 26S proteasome regulatory subunit 6A homolog from Solanum lycopersicum
35% identity, 16% coverage
- Identification of Tomato Proteins That Interact With Replication Initiator Protein (Rep) of the Geminivirus TYLCV.
Maio, Frontiers in plant science 2020 - “...GRIEP1 + K4BBI1 50S ribosomal protein L12 + K4AYG3 50S ribosomal protein L1 + + P54776 26S proteasome regulatory subunit 6A + K4CAT6 Small nuclear ribonucleoprotein Sm D1 + K4CUW3 60S ribosomal protein L23 + + K4C4X4 60S ribosomal protein L36 + + K4BA70 40S ribosomal...”
- “...K4BZ89, K4D576, K4ATF8, K4CX06, K4AYG3, K4BA51, K4BTU2, K4D472, K4DBB5 GO:0019538 protein metabolic processes K4B375, K4CFR0, P54776, K4CAC1, P20721, K4BXD4, K4DAC6 GO:0015979 photosynthesis K4CJ02, K4CAF0, P12372, Q2MIA1, A0A0J9YZP9, P07370, K4DG14 GO:0008152 metabolic processes K4DG37, K4CFD4, K4C144, K4B3P9, P26300, K4DHM2, K4AZV6 GO:0006412 translation P49212, K4BJL2, Q2MIB8, K4CUW3, K4BBI1,...”
- Identification of differentially accumulated proteins associated with embryogenic and non-embryogenic calli in saffron (Crocus sativus L.)
Sharifi, Proteome science 2012 - “...Q8L7C9 11/80 3/2 -1.3 1036 47/54 4.8/5.15 26S protease regulatory subunit 6A homolog/ Solanum Lycopersicum P54776 27/541 15/7 4.0** 3.8* 1.0 1042 47/54 4.8/5.08 26S protease regulatory subunit 6A homolog/ Solanum Lycopersicum P54776 29/516 16/9 5.9** 4.3** 1.4 1136 42/51 6/6.05 dTDP-glucose 4-6-dehydratase/ Ricinus communis B9SZ78...”
A0A3Q7F894 AAA+ ATPase domain-containing protein from Solanum lycopersicum
35% identity, 15% coverage
- Protein Biocargo and Anti-Inflammatory Effect of Tomato Fruit-Derived Nanovesicles Separated by Density Gradient Ultracentrifugation and Loaded with Curcumin
Mammadova, Pharmaceutics 2023 - “...mitogen activated protein kinase (A0A3Q7JBH3), a senescence associated protein (A0A3Q7HZY2), a AAA domain containing protein (A0A3Q7F894) and three luminal binding proteins (BiPs, A0A3Q7GTI1, Q9FSY7 and A0A3Q7GTI1). The 14-3-3 family are highly conserved multifaceted proteins that regulate the innate and adaptive immune responses by modulating gene expression,...”
- “...6.7 31.2 137 39.2 A0A3Q7EH12 GTP-binding protein SAR1A 110 21,910 5624 40.4 1.6 135 31.9 A0A3Q7F894 AAA domain-containing protein 162 51,696 4109 6.1 5.6 165 39.7 A0A3Q7HZY2 Senescence-associated protein 149 30,101 3726 19.2 0.8 90 29.4 A0A3Q7GX91 mitogen-activated protein kinase 48 142,212 6454 12.0 5.6 405...”
- Effects of Fe and Mn Deficiencies on the Root Protein Profiles of Tomato (Solanum lycopersicum) Using Two-Dimensional Electrophoresis and Label-Free Shotgun Analyses
Ceballos-Laita, International journal of molecular sciences 2022 - “...serine carboxypeptidase-like 50 0.67 68 Solyc02g068740.3.1 A0A3Q7F1L3 glycine cleavage system H family 0.58 69 Solyc01g099760.3.1 A0A3Q7F894 LeMA-1 putatve Mg-dependent ATPase 1 0.74 0.74 70 Solyc02g083710.3.1 A0A3Q7F6N7 26S proteasome non-ATPase regulatory subunit 4 0.80 71 Solyc04g076190.1.1 A0A3Q7G5A8 aspartic proteinase nepenthesin-1 1.20 72 Solyc04g080960.4.1 A0A3Q7GB74 pre-pro-cysteine proteinase 1.23...”
PRS4A_ARATH / Q9SZD4 26S proteasome regulatory subunit 4 homolog A; 26S proteasome AAA-ATPase subunit RPT2a; 26S proteasome subunit 4 homolog A; Protein HALTED ROOT; Regulatory particle triple-A ATPase subunit 2a from Arabidopsis thaliana (Mouse-ear cress) (see 13 papers)
AT4G29040 RPT2a (regulatory particle AAA-ATPase 2a); ATPase from Arabidopsis thaliana
NP_194633 regulatory particle AAA-ATPase 2A from Arabidopsis thaliana
41% identity, 11% coverage
- function: The 26S protease is involved in the ATP-dependent degradation of ubiquitinated proteins. The regulatory (or ATPase) complex confers ATP dependency and substrate specificity to the 26S complex (Probable) (PubMed:22158466). Interacts with transit peptides of proteins targeted to the chloroplast, and may be involved in the degradation of unimported plastid protein precursors (PubMed:24846764). Is required for the maintenance of postembryonic root and shoot meristems (PubMed:15073153, PubMed:21784786). Has a specific role in the regulation of organs size (PubMed:19321709, PubMed:19500299). Acts redundantly with RPT2B in the regulation of gametogenesis (PubMed:21784786, PubMed:22158466). With RPT2B plays a critical role in 26S proteasome assembly (PubMed:22158466). Acts as an upstream signaling component for inducing both defense and morphological phenotypes in the constitutive active uni-1D mutant (PubMed:21791544). Acts as a negative regulator of endoreduplication in trichome cells (PubMed:20195883). May function after the completion of the third endoreduplication step (8C to 16C) mediated by RHL1 (PubMed:20195883). Acts as a negative regulator of transcriptional gene silencing (TGS) at specific endogenous genes through DNA methylation (PubMed:22615900). Promotes post-transcriptional gene silencing (PTGS) by limiting the degradation of transgene aberrant RNAs by the RNA quality control (RQC) machinery, thus favoring their entry into cytoplasmic siRNA bodies where they can trigger PTGS (PubMed:22615900). Involved in tolerance to zinc deficiency, possibly through alleviation of oxidative stresses or processing of poly-ubiquitinated proteins (PubMed:21389614). Required for resistance to the fungal pathogen Golovinomyces cichoracearum (PubMed:22577987).
subunit: Component of the 19S regulatory particle (RP/PA700) base subcomplex of the 26S proteasome. The 26S proteasome is composed of a core protease (CP), known as the 20S proteasome, capped at one or both ends by the 19S regulatory particle (RP/PA700). The RP/PA700 complex is composed of at least 17 different subunits in two subcomplexes, the base and the lid, which form the portions proximal and distal to the 20S proteolytic core, respectively. Required for innate immunity (PubMed:14623884, PubMed:20516081). Interacts with UNI (PubMed:21791544).
disruption phenotype: Displays disruption of cellular organization in the postembryonic root and shoot apical meristems. Leads to decreased 26SP accumulation, resulting in reduced rates of Ub-dependent proteolysis. Shows hypersensitivity to heat shock and increased oxidative stress tolerance. Displays enlarged leaves, stems, flowers, fruits, seeds and embryos, caused by increased cell size and shows increased branch number and nuclear size of trichomes, in correlation with increased ploidy. Mutant displays enhanced susceptibility to the fungal pathogen Golovinomyces cichoracearum. The double mutants rpt2a and rpt2b are blocked in both male and female gametogenesis (PubMed:21784786, PubMed:22158466). - The Structural Role of RPN10 in the 26S Proteasome and an RPN2-Binding Residue on RPN13 Are Functionally Important in Arabidopsis
Lin, International journal of molecular sciences 2024 - “...PAA2 At2g05840 123.0/89.9 (136.8 6.3) RPT1b At1g53780 ND/ND (NA) PAB1 At1g16470 32.7/43.4 (75.3 80.1) RPT2a At4g29040 ND/ND (NA) PAB2 At1g79210 17.3/ND (NA) RPT2b At2g20140 93.3/98.7 (94.5 19.0) PAC1 At3g22110 102.9/101.3 (101.5 27.4) RPT3 At5g58290 139.4/118.4 (117.7 16.2) PAC2 At4g15160 ND/ND (NA) RPT4a At5g43010 17.5/16.8 (104.2 180.6)...”
- Lipid Body Dynamics in Shoot Meristems: Production, Enlargement, and Putative Organellar Interactions and Plasmodesmal Targeting
Veerabagu, Frontiers in plant science 2021 - “...32 Potri.014G085500 AT4G00400 56 3 8 5 26S Proteasome Regulatory particle AAA-ATPase 2A (RPT2A) Potri.014G194700 AT4G29040 50 18 15 3 26S proteasome, regulatory subunit RPN7 Potri.015G090900 AT4G24820 45 8 8 2 Ubiquitin conjugating enzyme 13A (UBC13A) Potri.011G111400 AT1G78870 18 4 5 2 Ubiquitin-activating enzyme E1 1...”
- In vivo assembly of the sorgoleone biosynthetic pathway and its impact on agroinfiltrated leaves of Nicotiana benthamiana
Pan, The New phytologist 2021 - “...2.978 1.868 1.253 1.189 Niben101Scf01068g05007.1 AT1G16470 Proteasome subunit PAB1 (PAB1) 3.675 2.640 2.340 2.181 Niben101Scf00597g03003.1 AT4G29040 Regulatory particle AAAATPase 2A (RPT2a) 1.091 Niben101Scf00674g06001.1 AT4G38630 Regulatory particle nonATPase 10 (RPN10) 2.138 1.578 1.008 Niben101Scf00132g03012.1 AT1G64520 Regulatory particle nonATPase 12A (RPN12a) 2.749 2.011 1.715 1.502 Niben101Scf00182g03011.1 AT2G26590 Regulatory...”
- Overexpression of the Selective Autophagy Cargo Receptor NBR1 Modifies Plant Response to Sulfur Deficit
Tarnowski, Cells 2020 - “...in OX). When number of -S DEGs was plotted against number of total interactions RPT2a (At4g29040) and UBQ3 (At5g03240) were identified as the most significant hubs in both interaction networks analyzed ( Figure 4 A). However, for several minor hubs we observed differences between WT and...”
- “...interacting proteins with the NBR1 co-purifying proteins (24 and 20, respectively). Hub4 (proteasomal subunit RPT2a; At4g29040) and hub5 (general regulatory factor from the 14-3-3 family GRF1; At4g09000) have known interactions with 16 and 12 NBR1 co-purifying proteins, respectively. RPT2a was identified also as a transcriptomic hub...”
- Spaceflight induces novel regulatory responses in Arabidopsis seedling as revealed by combined proteomic and transcriptomic analyses
Kruse, BMC plant biology 2020 - “...binding domain 0.40 AT3G27830 50S ribosomal protein L121, chloroplastic 0.35 AT1G09830 Phosphoribosylamine--glycine ligase, chloroplastic 0.33 AT4G29040 26S proteasome regulatory subunit 4 homolog A 0.32 AT3G53020 60S ribosomal protein L242 0.32 AT3G53970 Probable proteasome inhibitor 0.23 AT1G73990 Serine protease SPPA, chloroplastic 0.21 AT5G39740 60S ribosomal protein L52...”
- Comparative iTRAQ proteomic profiling of sweet orange fruit on sensitive and tolerant rootstocks infected by 'Candidatus Liberibacter asiaticus'
Yao, PloS one 2020 - “...0.54 1.79 E-02 gi|568854739 AT5G05780 RPN8A 26S proteasome non-ATPase regulatory subunit 0.62 4.38 E-05 gi|568853056 AT4G29040 RPT2a 26S proteasome non-ATPase regulatory subunit 0.62 1.12 E-02 0.65 3.00 E-04 gi|568877704 AT4G14110 COP9 COP9 signalosome complex subunit 0.57 2.12 E-02 # : TAIR means the Arabidopsis Information Resource...”
- Mild proteasomal stress improves photosynthetic performance in Arabidopsis chloroplasts
Grimmer, Nature communications 2020 - “...accession numbers: Rpn8a - AT5G05780; Rpn8b - AT3G11270; PAD1 AT3G51260; Rpn5a AT5G09900; Rpn10 AT4G38630; Rpt2a AT4G29040; PAA2 AT2G05840; CDC48a - AT3G09840; NAS6 - At2g03430; Sp1 - AT1G63900; Toc159 - AT4G02510. Growth assays Root length was determined after 7 and 17 days from plants grown under short-day...”
- Integration of QTL Mapping and Gene Fishing Techniques to Dissect the Multi-Main Stem Trait in Rapeseed (Brassica napus L.)
Zhao, Frontiers in plant science 2019 - “...AT3G15170 CUC1 BnaA01g28930D AT3G15500 NAC3 BnaA01g28500D AT3G15790 MBD11 BnaA01g28410D AT3G15880 WSIP2 BnaA01g26700D AT3G18550 BRC1 BnaA01g07860D AT4G29040 RPT2A cqMMS.A3-1 BnaA03g31060D AT3G08770 ERD10 BnaA03g51000D AT3G57230 AGL16 BnaA03g58880D AT4G29040 RPT2A BnaA03g38750D AT2G14900 RDK1 BnaA03g51450D AT4G31400 CTF7 BnaA03g51900D AT4G32040 KNAT5 BnaA03g52120D AT4G32551 LUC BnaA03g52290D AT4G32980 ATH1 BnaA03g52520D AT4G33430 BAK1 BnaA03g50910D...”
- “...ident Gene ID in B. napus Chromosome A. thaliana DEG1 372 3.00E99 99.00% BnaA01g07860D A01 AT4G29040 BnaA08g13550D A08 BnaC01g09460D C01 BnaC07g41720D C07 BnaC08g13300D C08 DEG2 811 0.00E+00 97.00% BnaA10g29350D A10 AT5G57950 BnaC09g33500D C09 DEG3 457 1.00E124 99.00% BnaA01g02490D A01 AT4G34670 BnaA03g28830D A03 BnaA03g52970D A03 BnaA08g11040D A08...”
- More
- A SUMO ligase AtMMS21 regulates activity of the 26S proteasome in root development.
Yu, Plant science : an international journal of experimental plant biology 2019 (PubMed)- GeneRIF: The authors showed a novel mechanism that a SUMO ligase AtMMS21 regulates activity of the 26S proteasome in root development of Arabidopsis. The in vitro and in vivo data supported that AtMMS21 interacts with RPT2a, a subunit of the 26S proteasome.
- Proteasome subunit RPT2a promotes PTGS through repressing RNA quality control in Arabidopsis.
Kim, Nature plants 2019 (PubMed)- GeneRIF: RPT2a enhances transgene post-transcriptional gene silencing by promoting the accumulation of transgene-derived short interfering RNAs without affecting their biogenesis.
- PrCYP707A1, an ABA catabolic gene, is a key component of Phelipanche ramosa seed germination in response to the strigolactone analogue GR24
Lechat, Journal of experimental botany 2012 - “...+ O Acetylornithine deacetylase (NP_001190758) Protein metabolic processes 0.091 32 26S proteasome regulatory subunit 4-A (NP_194633) Protein metabolic processes 1 33 + + RNA recognition motif-containing protein (NP_197436) Nucleotide binding 2.00E 23 36 O + Heat shock 70kDa protein 1 (NP_195870) Response to stress 0.073 37...”
- Arabidopsis RPT2a, 19S proteasome subunit, regulates gene silencing via DNA methylation.
Sako, PloS one 2012 - GeneRIF: Both the transgene and endogenous RD29A promoter regions were hypermethylated at CG and non-CG contexts in the rpt2a mutant.
- Arabidopsis thaliana 26S proteasome subunits RPT2a and RPT5a are crucial for zinc deficiency-tolerance.
Sakamoto, Bioscience, biotechnology, and biochemistry 2011 (PubMed)- GeneRIF: RPT2a and RPT5a are involved in Zn deficiency-tolerance, possibly through alleviation of oxidative stresses and/or processing of poly-ubiquitinated proteins.
- Arabidopsis RPT2a encoding the 26S proteasome subunit is required for various aspects of root meristem maintenance, and regulates gametogenesis redundantly with its homolog, RPT2b.
Ueda, Plant & cell physiology 2011 (PubMed)- GeneRIF: RPT2a and RPT2b contribute differently to the proteasome activity required for root apical meristem growth and gametophyte development.
- RPT2a, a 26S proteasome AAA-ATPase, is directly involved in Arabidopsis CC-NBS-LRR protein uni-1D-induced signaling pathways.
Chung, Plant & cell physiology 2011 (PubMed)- GeneRIF: RPT2a and RPT2b, the subunits of the 26S proteasome AAA-ATPase, are UNI-interacting proteins. uni-1D-induced morphological phenotypes during early vegetative stage were suppressed by loss of function of RPT2a, but not RPT2b.
- The RPT2 subunit of the 26S proteasome directs complex assembly, histone dynamics, and gametophyte and sporophyte development in Arabidopsis.
Lee, The Plant cell 2011 - GeneRIF: Loss of RPT2a destabilizes the 26S proteasome.
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- Comparative Ubiquitination Proteomics Revealed the Salt Tolerance Mechanism in Sugar Beet Monomeric Additional Line M14
Liu, International journal of molecular sciences 2022 - “...spliceosome, and the biosynthesis of amino acids. Among them, four proteins (P42742, Q9SSB5, O81149, and Q9SZD4) were enriched in the proteasome pathway, all of which were involved in protein degradation of the proteasome components, suggesting turnover of the proteosome components in response to low salt stress....”
- An unbiased nuclear proteomics approach reveals novel nuclear protein components that participates in MAMP-triggered immunity
Fakih, Plant signaling & behavior 2016 - “...methylation Q93Y17 AT3G07050 RPT2a encodes the 26S proteasome subunit, regulate gene silencing via DNA methylation Q9SZD4 AT4G29040 EMBRYO DEFECTIVE 2770, RNA-directed DNA methylation, mRNA splicing Q9ZT71 AT4G03430 Serine/arginine-rich SC35-like splicing factor Q8L3X8 AT3G55460 RZ1B, Putative RNA-binding involved in cold tolerance O22703 AT1G60650 WD-40 protein involved in...”
- Involvement of a universal amino acid synthesis impediment in cytoplasmic male sterility in pepper
Fang, Scientific reports 2016 - “...224.21 4 926 6.37 98.30 * Q9SMU8 Peroxidase 34 128.49 2 353 7.71 35.70 * Q9SZD4 26S proteasome regulatory subunit 4 homolog A 120.93 2 443 5.92 49.37 * Q9LNC5 Elongation factor like protein 121.56 2 987 5.05 110.44 * Q9SKN5 Auxin response factor 10 131.45...”
GRMZM2G104373 26S protease regulatory subunit 4 from Zea mays
41% identity, 11% coverage
PBANKA_0917900 26S protease regulatory subunit 6A, putative from Plasmodium berghei ANKA
38% identity, 15% coverage
VNG_RS01995 proteasome-activating nucleotidase Pan1 from Halobacterium salinarum NRC-1
34% identity, 17% coverage
MA4123 proteasome-activating nucleotidase from Methanosarcina acetivorans C2A
36% identity, 16% coverage
- Role of the beta1 subunit in the function and stability of the 20S proteasome in the hyperthermophilic archaeon Pyrococcus furiosus
Madding, Journal of bacteriology 2007 - “...HQ3115A, HQ1544A MJ1176 ABE53157, ABE52987 MK0878 MA4268, MA4123 AAZ69383, AAZ69600 MM1006, MM0798 ND ABD40790, ABD40788 MTH728 MMP1647 NP1524A, NP5038A...”
- Differential regulation of the PanA and PanB proteasome-activating nucleotidase and 20S proteasomal proteins of the haloarchaeon Haloferax volcanii
Reuter, Journal of bacteriology 2004 - “...MjPan (MJ1176), MkPan (MK0878), MaPanA (MA4268), MaPanB (MA4123), MbPanA (Meth3002), MbPanB (Meth2182), MmPanA (MM1006), MmPanB (MM0798), MtPan (MTH728), PaPan...”
8amzI Spinach 19s proteasome
49% identity, 10% coverage
- Ligand: adenosine-5'-diphosphate (8amzI)
CH_124004 26S protease regulatory subunit 4 from Magnaporthe grisea 70-15 (see paper)
39% identity, 11% coverage
NCU01224 26S protease regulatory subunit 4 from Neurospora crassa OR74A
39% identity, 11% coverage
XP_002271397 26S proteasome regulatory subunit 6A homolog from Vitis vinifera
35% identity, 16% coverage
PRS4B_ARATH / Q9SL67 26S proteasome regulatory subunit 4 homolog B; 26S proteasome AAA-ATPase subunit RPT2b; 26S proteasome subunit 4 homolog B; Regulatory particle triple-A ATPase subunit 2b from Arabidopsis thaliana (Mouse-ear cress) (see 5 papers)
NP_179604 AAA-type ATPase family protein from Arabidopsis thaliana
AT2G20140 26S protease regulatory complex subunit 4, putative from Arabidopsis thaliana
41% identity, 11% coverage
- function: The 26S protease is involved in the ATP-dependent degradation of ubiquitinated proteins. The regulatory (or ATPase) complex confers ATP dependency and substrate specificity to the 26S complex (PubMed:22158466). Acts redundantly with RPT2A in the regulation of gametogenesis (PubMed:21784786, PubMed:22158466). With RPT2A plays a critical role in 26S proteasome assembly (PubMed:22158466).
subunit: Component of the 19S regulatory particle (RP/PA700) base subcomplex of the 26S proteasome. The 26S proteasome is composed of a core protease (CP), known as the 20S proteasome, capped at one or both ends by the 19S regulatory particle (RP/PA700). The RP/PA700 complex is composed of at least 17 different subunits in two subcomplexes, the base and the lid, which form the portions proximal and distal to the 20S proteolytic core, respectively.
disruption phenotype: No visible phenotype under normal growth conditions (PubMed:22158466). The double mutants rpt2a and rpt2b are blocked in both male and female gametogenesis (PubMed:21784786, PubMed:22158466). - Membrane Proteomics of Arabidopsis Glucosinolate Mutants cyp79B2/B3 and myb28/29
Mostafa, Frontiers in plant science 2017 - “...LPA1 1.368 0.016 Member of photosystem D, H, S, T, M Peng et al., 2006 Q9SL67 At2g20140 26S proteasome regulatory subunit 4 homolog B RPT2B 1.361 0.007 Hydrolysis of ATP and generation of gametes D, T Tair Q9FXA1 At1g49750 At1g49750 protein AT1G49750 1.340 0.034 D, H,...”
- Involvement of a universal amino acid synthesis impediment in cytoplasmic male sterility in pepper
Fang, Scientific reports 2016 - “...3 354 7.04 35.62 * Q9FF53 Probable aquaporin PIP2-4 226.80 2 291 8.22 30.95 * Q9SL67 26S proteasome regulatory subunit 4 homolog B 114.79 2 443 5.85 49.22 * P49209 60S ribosomal protein L9-1 99.11 2 194 9.48 22.02 * Q6Q4D0 Protein TONSOKU (Protein BRUSHY 1)...”
- Arabidopsis RPT2a encoding the 26S proteasome subunit is required for various aspects of root meristem maintenance, and regulates gametogenesis redundantly with its homolog, RPT2b.
Ueda, Plant & cell physiology 2011 (PubMed)- GeneRIF: RPT2a and RPT2b proteins seem to be functionally equivalent in the root apical meristem, but RPT2b is dispensable for meristem function. [RPT2b]
- The RPT2 subunit of the 26S proteasome directs complex assembly, histone dynamics, and gametophyte and sporophyte development in Arabidopsis.
Lee, The Plant cell 2011 - GeneRIF: RPT2 is essential for assembly of the plant 26S proteasome and RPT2a and b isoforms are functionally equivalent. [RPT2b]
- The Structural Role of RPN10 in the 26S Proteasome and an RPN2-Binding Residue on RPN13 Are Functionally Important in Arabidopsis
Lin, International journal of molecular sciences 2024 - “...(NA) PAB1 At1g16470 32.7/43.4 (75.3 80.1) RPT2a At4g29040 ND/ND (NA) PAB2 At1g79210 17.3/ND (NA) RPT2b At2g20140 93.3/98.7 (94.5 19.0) PAC1 At3g22110 102.9/101.3 (101.5 27.4) RPT3 At5g58290 139.4/118.4 (117.7 16.2) PAC2 At4g15160 ND/ND (NA) RPT4a At5g43010 17.5/16.8 (104.2 180.6) PAD1 At3g51260 124.0/107.3 (115.6 3.7) RPT4b At1g45000 111.8/120.1...”
- Rho GTPase ROP1 Interactome Analysis Reveals Novel ROP1-Associated Pathways for Pollen Tube Polar Growth in Arabidopsis
Li, International journal of molecular sciences 2020 - “...and growth. The five candidates encoded the KINKY POLLEN (KIP) protein (AT5G49680), exostosin family protein (AT2G20140), cation/hydrogen exchanger CHX28 (AT3G52080), AAA-type ATPase protein (AT2G02480), and QUASIMODO2 LIKE 2 (AT2G03480). The kip mutant had a short pollen tube phenotype consistent with a previous report [ 33 ]...”
- Combined Proteomic and Metabolomic Profiling of the Arabidopsis thaliana vps29 Mutant Reveals Pleiotropic Functions of the Retromer in Seed Development
Durand, International journal of molecular sciences 2019 - “...in abundance of several H + -ATPases (At2g18960, 23.5; At4g27500, 15; At1g78920, 9; At4g39080, 6.5; At2g20140, 6.5; and At1g07670, specific to vps29 seeds). The increase of the energy metabolism appears to be essential for vps29 seeds to ensure protein turnover. Indeed, mRNA translational (GO: 0006412) and...”
- Membrane Proteomics of Arabidopsis Glucosinolate Mutants cyp79B2/B3 and myb28/29
Mostafa, Frontiers in plant science 2017 - “...1.368 0.016 Member of photosystem D, H, S, T, M Peng et al., 2006 Q9SL67 At2g20140 26S proteasome regulatory subunit 4 homolog B RPT2B 1.361 0.007 Hydrolysis of ATP and generation of gametes D, T Tair Q9FXA1 At1g49750 At1g49750 protein AT1G49750 1.340 0.034 D, H, S,...”
- Transcriptomic and proteomic approach to identify differentially expressed genes and proteins in Arabidopsis thaliana mutants lacking chloroplastic 1 and cytosolic FBPases reveals several levels of metabolic regulation
Soto-Suárez, BMC plant biology 2016 - “...belonged to the most representatives functional categories, such as protein synthesis, degradation, and post-translational modification (At2g20140), RNA regulation, processing and binding (At3g61850), glycolysis and gluconeogenesis (At4g15210, At5g20830 and At1g50460), photosynthesis and Calvin-cycle-related genes (At1g79530 and At2g39730), transport (At1g07340 and At3g19930), development (At5g24780), redox regulation (At1g76760 and...”
- “...+-0.1 1.6 0.01 0.6 +-0.01 0.0 +-0.1 0.2 +-0.1 2.7 0.2 -0.2 +-0.1 0.0 0.1 At2g20140 26S protease regulatory complex subunit 4 5'TGAGCCAGGCACTGGGAA 3'CGCTTGGTGCCAACAGCA 0.7 0.1 0.0 0.02 0.0 0.03 2.2 0.08 1.2 0.1 -0.2 0.1 -0.8 0.2 2.7 0.2 At3g61850 DAG1 (DOF affecting germination 1)...”
- Proteomic analysis of endoplasmic reticulum stress responses in rice seeds
Qian, Scientific reports 2015 - “...T-complex protein LOC_Os06g36700 Protein degradation gi|115444877 2.723 AT1G45000 26S protease regulatory subunit LOC_Os02g10640 gi|115474241 2.457 AT2G20140 26S protease regulatory subunit 4 LOC_Os07g49150 gi|556560 4.396 26S protease regulatory subunit 6A LOC_Os02g56000 gi|115445841 3.909 AT5G58290 26S protease regulatory subunit 6B LOC_Os02g21970 gi|115444937 6.237 AT5G19990 26S proteasome regulatory particle...”
- Suppression of the auxin response pathway enhances susceptibility to Phytophthora cinnamomi while phosphite-mediated resistance stimulates the auxin signalling pathway
Eshraghi, BMC plant biology 2014 - “...AT4G29040 T-DNA-insertion Defective in 26S proteasome subunit [ 65 , 68 , 91 ] rpt2b AT2G20140 T-DNA-insertion Defective in 26S Proteasome Subunit [ 65 , 91 ] rpt5a AT3G05530 T-DNA-insertion Defective in 26S Proteasome Subunits [ 68 ] rpn10 AT4G38630 T-DNA-insertion Defective in ubiquitin/26S proteasome-mediated proteolysis...”
- Comparative large scale characterization of plant versus mammal proteins reveals similar and idiosyncratic N-α-acetylation features
Bienvenut, Molecular & cellular proteomics : MCP 2012 - “...S proteasome regulatory subunit 4 for both the Arabidopsis (At2g20140 and RPT2b) and the human samples (P62191 and RPT2). Of note, several of these proteins...”
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D3G8A3 26S protease regulatory subunit-like protein (Fragment) from Lolium perenne
35% identity, 16% coverage
PRS4_DROME / P48601 26S proteasome regulatory subunit 4; P26s4 from Drosophila melanogaster (Fruit fly) (see paper)
P48601 proteasome endopeptidase complex (EC 3.4.25.1) from Drosophila melanogaster (see paper)
NP_001287493 regulatory particle triple-A ATPase 2, isoform B from Drosophila melanogaster
37% identity, 11% coverage
CLIBASIA_02160 metalloprotease from Candidatus Liberibacter asiaticus str. psy62
34% identity, 9% coverage
PGN_0043 putative transmembrane AAA-metalloprotease FtsH from Porphyromonas gingivalis ATCC 33277
25% identity, 9% coverage
- Insights into Dynamic Polymicrobial Synergy Revealed by Time-Coursed RNA-Seq
Hendrickson, Frontiers in microbiology 2017 - “...PGN_1326 PGN_0273 PGN_0937 PGN_0927 PGN_0183 fimC PGN_0931 PGN_1535 PGN_1507 PGN_1816 PGN_1534 PGN_0778 porT PGN_0358 sufC PGN_0043 PGN_1238 PGN_0185 fimE PGN_0932 PGN_1817 PGN_1204 PGN_0043 PGN_0180 fimA PGN_0458 PGN_0937 PGN_1903 PGN_0423 PGN_1460 PGN_1687 PGN_0982 PGN_1817 PGN_0752 PGN_0826 PGN_2009 PGN_0928 PGN_1210 PGN_1752 PGN_0778 porT PGN_0856 PGN_1534 PGN_0928 PGN_1424 PGN_0549...”
- Filifactor alocis--a new emerging periodontal pathogen
Aruni, Microbes and infection 2015 - “...AAA- metalloprotease FtsH (PGTDC60_0044) Zinc metalloprotease (PGN_1582) Membrane-associated zinc metalloprotease (PG0383) Transmembrane AAA- metalloprotease FtsH (PGN_0043) Metalloprotease (TDE1242) Membrane-associated zinc metalloprotease (TDE2341) (TDE2337) aminopeptidase [Peptidase_M29; Thermophilic metalloprotease (M29)] Hypothetical protein (BFO_1297) [Zinc-dependent metalloprotease] Hypothetical protein (BFO_2661) [Zinc-dependent metalloprotease] 9. Glycoprotease family protein Glycoprotease family protein (HMPREF0389_01443)...”
PGTDC60_0044 ATP-dependent zinc metalloprotease FtsH from Porphyromonas gingivalis TDC60
25% identity, 9% coverage
- Filifactor alocis--a new emerging periodontal pathogen
Aruni, Microbes and infection 2015 - “...zinc metallopeptidase family protein (HMPREF0389_01001) [Zn_peptidase_2; Putative neutral zinc metallopeptidase] ftsH transmembrane AAA- metalloprotease FtsH (PGTDC60_0044) [FtsH_fam; ATP-dependent metalloprotease FtsH] Transmembrane AAA- metalloprotease FtsH(PGN_0043) [FtsH_fam; ATP-dependent metalloprotease FtsH] Cell division protein FtsH(PG0047) [FtsH_fam; ATP-dependent metalloprotease FtsH domain] FtsH cell division protein FtsH (TDE0470) [ATP-dependent metalloprotease FtsH...”
- “...protease family protein] 8. Metalloprotease Metalloprotease (HMPREF0389_00692) Membrane-associated zinc metalloprotease (PGTDC60_1498) Transmembrane AAA- metalloprotease FtsH (PGTDC60_0044) Zinc metalloprotease (PGN_1582) Membrane-associated zinc metalloprotease (PG0383) Transmembrane AAA- metalloprotease FtsH (PGN_0043) Metalloprotease (TDE1242) Membrane-associated zinc metalloprotease (TDE2341) (TDE2337) aminopeptidase [Peptidase_M29; Thermophilic metalloprotease (M29)] Hypothetical protein (BFO_1297) [Zinc-dependent metalloprotease] Hypothetical...”
Q39444 ATP-dependent zinc metalloprotease FTSH, chloroplastic (Fragment) from Capsicum annuum
35% identity, 9% coverage
WP_005873539 ATP-dependent zinc metalloprotease FtsH from Porphyromonas gingivalis
PG0047 cell division protein FtsH, putative from Porphyromonas gingivalis W83
25% identity, 9% coverage
- Porphyromonas gingivalis genes involved in community development with Streptococcus gordonii.
Simionato, Infection and immunity 2006 - GeneRIF: May participate in a regulatory network that constrains P. gingivalis accumulation in heterotypic biofilms.
- Metabolic cooperativity between Porphyromonas gingivalis and Treponema denticola
Kin, Journal of oral microbiology 2020 - “...There were also significant reductions in the expression of genes encoding P. gingivalis ATP-dependent proteases PG0047 (2-fold), PG0620 (2-fold) and PG0010 (1.7-fold), and an annotated aminopeptidase P family protein ( PG0889 , 1.7-fold) (Supplementary Table S4). Therefore, a protein bioinformatics approach was taken to identify P....”
- Role of sodium in the RprY-dependent stress response in Porphyromonas gingivalis
Krishnan, PloS one 2013 - “...2.95 0.0004 12 3.25 0.0001 12 PG0046 Phosphatidate cytidylyltransferase 2.21 0.0028 12 2.25 0.0001 12 PG0047 Cell division protein FtsH, putative 2.04 0.0026 12 2.12 0.0016 12 PG0095 DNA mismatch repair protein MutS 0.65 0.0806 8 1.91 0.0041 8 PG0209 Formate-nitrite transporter 3.71 0.0004 12 3.39...”
- Role of the Porphyromonas gingivalis extracytoplasmic function sigma factor, SigH
Yanamandra, Molecular oral microbiology 2012 - “...1.017716 0.493898 17.708272 0.000000 (1.9E-09) 12 PG1556 conserved hypothetical protein 1.010324 0.496435 5.421035 0.000421 10 PG0047 Cell division protein FtsH, putative 1.002205 0.499237 12.419474 0.000000 (8.2E-08) 12 PG1134 thioredoxin reductase 0.991798 0.502851 59.004766 0.000000 (4.1E-15) 12 PG0278 hypothetical protein 0.957113 0.515087 18.863828 0.000000 (9.9E-10) 12 PG1129...”
- Adaptation of Porphyromonas gingivalis to microaerophilic conditions involves increased consumption of formate and reduced utilization of lactate
Lewis, Microbiology (Reading, England) 2009 - “...PG0209 PG1642 PG0899 PG1321 PG1545 PG1286 PG0432 PG1043 PG0047 PG2205 PG0889 PG1124 PG0459 PG1134 PG1641 PG2008 PG0890 PG1044 PG0034 PG1088 PG1213 PG0010 PG1269...”
- Porphyromonas gingivalis genes involved in community development with Streptococcus gordonii
Simionato, Infection and immunity 2006 - “...The roles of two upregulated genes, ftsH (PG0047) encoding an ATP-dependent zinc metallopeptidase and ptpA (PG1641) encoding a putative tyrosine phosphatase,...”
- “...The roles of two of these genes, ftsH (PG0047) encoding an ATPdependent zinc metallopeptidase and ptpA (PG1641) encoding a putative tyrosine phosphatase, were...”
LOC100037730 FtsH-like protein precursor from Solanum lycopersicum
35% identity, 8% coverage
FTSH1_ARATH / Q39102 ATP-dependent zinc metalloprotease FTSH 1, chloroplastic; AtFTSH1; EC 3.4.24.- from Arabidopsis thaliana (Mouse-ear cress) (see 10 papers)
NP_564563 FTSH1 (FtsH protease 1); ATP-dependent peptidase/ ATPase/ metallopeptidase from Arabidopsis thaliana
AT1G50250, NP_564563 FTSH protease 1 from Arabidopsis thaliana
33% identity, 8% coverage
- function: Part of a complex that function as an ATP-dependent zinc metallopeptidase. Involved in the thylakoid formation and in the removal of damaged D1 in the photosystem II, preventing cell death under high-intensity light conditions.
cofactor: Zn(2+) (Binds 1 zinc ion per subunit.)
subunit: Interacts with CHIP and HSP70. Heterohexamers with FTSH2, FTSH5 and FTSH8.
disruption phenotype: No visible changes in phenotype, probably due to a complementation by FTSH5. The presence of both FTSH1 or FTSH5 (subunit type A) and FTSH2 or FTSH8 (subunit type B) is essential for an active complex formation. - Characterization of Erysiphe necator-responsive genes in Chinese Wild Vitis quinquangularis
Gao, International journal of molecular sciences 2012 - “...S -adenosylmethionine synthetase R. communis XP_002512570 4 10 101 UN102 369 ATP-dependent peptidase/ATPase/metallopeptidase A. thaliana NP_564563 3 10 59 UN127 829 Malate dehydrogenase N. tabacum CAC12826 3 10 139 UN145 540 Putative cinnamoyl-CoA reductase R. communis XP_002533639 4 10 19 UN173 250 ATP-dependent peptidase/ATPase/metallopeptidase A. thaliana...”
- Chloroplast proteostasis: A story of birth, life, and death
Gao, Plant communications 2023 - “...substrate recognition and delivery Stroma Indistinguishable from the wild type Nishimura etal., 2015 FtsH FtsH1 AT1G50250 Forming the thylakoid FtsH hexamer (type A), functioning in PSII repair Thylakoid membrane Indistinguishable from the wild type Sakamoto etal., 2003 FtsH2 AT2G30950 VAR2, forming the thylakoid FtsH hexamer (type...”
- Light Quality Modulates Plant Cold Response and Freezing Tolerance
Kameniarová, Frontiers in plant science 2022 - “...Sjgren et al., 2006 ) and its protein interactor CLPC1 (AT5G50920), proteases FTSH1 and FTSH2 (AT1G50250, AT2G30950; Chen et al., 2006 ), calcium-sensing receptor CaS (AT5G23060; Huang et al., 2012 ), and protein translocase subunit SECA1 (AT4G01800; Skalitzky et al., 2011 ). An increase in abundance...”
- FIONA1-mediated methylation of the 3'UTR of FLC affects FLC transcript levels and flowering in Arabidopsis
Sun, PLoS genetics 2022 - “...fio1-1 fio1-5 GNC, GATA21, GATA TRANSCRIPTION FACTOR 21 AT5G64860 fio1-1 fio1-5 AtDPE1, DPE1, disproportionating enzyme AT1G50250 fio1-1 fio1-2 FTSH1, FTSH protease 1 AT1G52400 fio1-1 fio1-2 BGL1, ATBG1, BGLU18, A. THALIANA BETA-GLUCOSIDASE 1 AT1G63770 fio1-1 fio1-2 no symbol available AT2G30520 fio1-1 fio1-2 RPT2, ROOT PHOTOTROPISM 2 AT2G47940...”
- Fine Mapping and Identification of BnaC06.FtsH1, a Lethal Gene That Regulates the PSII Repair Cycle in Brassica napus
Xu, International journal of molecular sciences 2021 - “...Annotation of these genes ( Table 1 ) indicated that BnaC06G0341000ZS was highly orthologous to AT1G50250 in A. thaliana . AT1G50250 encodes FtsH1 that regulates the PSII repair cycle, and FtsH1 / FtsH5 double mutants had the etiolated-cotyledon phenotype. A comparison of BnaC06. FtsH1 between 7-521G...”
- “...region. Gene of B. napus Chromosome Position Orthologous Gene of A. thaliana Annotation BnaC06G0341000ZS 44,665,91344,669,710 AT1G50250 FtsH protease 1 BnaC06G0341100ZS 44,671,45044,675,781 AT1G67720 Leucine-rich repeat protein kinase family protein BnaC06G0341200ZS 44,681,14944,682,236 AT4G01935 insulin-induced protein BnaC06G0341300ZS 44,683,65544,685,971 AT1G67730 beta-ketoacyl reductase 1 BnaC06G0341400ZS 44,688,77744,689,358 AT1G67740 PsbY precursor (psbY) mRNA...”
- Proteins associated with the Arabidopsis thaliana plastid rhomboid-like protein RBL10
Lavell, The Plant journal : for cell and molecular biology 2021 - “...2015 ). Likewise involved in light stress response and photosystem repair is FTSH1, a metalloprotease (At1g50250) included in the list of proteins which interact with RBL10. Known for its role in specifically degrading the D1 component during PSII repair, FTSH1 itself assembles into a hexameric heterocomplex...”
- “...2 19 PRK - phosphoribulokinase AT1G32060 44 0.95299 2 20 FTSH1 - FTSH protease 1 AT1G50250 77 0.95299 2 21 ACP4 - acyl carrier protein 4 AT4G25050 15 0.95299 2 22 CPN20 - chaperonin 20 AT5G20720 27 0.95299 2 * Proteins that were identified as at...”
- GUN1 and Plastid RNA Metabolism: Learning from Genetics
Tadini, Cells 2020 - “...reduced growth reduced photosynthetic performance; reduced growth A Yes [ 44 ] Plastid Protein Degradation At1g50250 FTSH1: subunit of the thylakoid-associated heteromeric FTSH protease ftsh1-1 d : cotyledons identical to WT identical to ftsh1-1 single mutant No effect No [ 14 ] At2g30950 FTSH2: subunit of...”
- Light Regulates the Cytokinin-Dependent Cold Stress Responses in Arabidopsis
Prerostova, Frontiers in plant science 2020 - “...following enzymes were significantly accumulated in DEX:IPT and DEX:CKX plants under cold stress: FtsH protease (AT1G50250); tryptophan-tRNA ligase (AT3G04600); potassium/sodium channel protein (AT1G51100); and enzyme releasing ABA from its conjugate BGLU18 (-glucosidase 18, AT1G52400). FIGURE 7 The independent component analysis (ICA) of proteome profiles in leaves...”
- Phosphorylation of the Chloroplastic Metalloprotease FtsH in Arabidopsis Characterized by Phos-Tag SDS-PAGE
Kato, Frontiers in plant science 2019 - “...al., 2011 SKSKFQEVPETGVTFGDVAGADQAK 1 S235, S237, T245, T248 QVTVDRPDVAGR 1 T416 Roitinger et al., 2015 AT1G50250 AtFtsH1 MASNSLLR 1 S5 Engelsberger and Schulze, 2012 QVTVDRPDVAGR 1 T428 Roitinger et al., 2015 AT2G30950 AtFtsH2(VAR2) AASSACLVGNGLSVNTTTKQR 3 S5, S14, T17 Mithoe et al., 2012 QTSFSSVIR 1 S33 Roitinger...”
- More
- Commonalities and specialties in photosynthetic functions of PROTON GRADIENT REGULATION5 variants in Arabidopsis
Penzler, Plant physiology 2022 - “...PSB27-H1 0.460 3.53 E 03 Q9ZVL6 TLP18.3 Thylakoid Lumen Protein 18.3 0.493 3.53 E 03 Q39102 FTSH1 Zinc metalloprotease FTSH 1 0.500 1.56 E 02 Q8W585; Q9M895 FTSH8/FTSHI3 Zinc metalloprotease FTSH 8/FTSHI 3 0.530 5.15 E 03 Q9LU10 DEG8 Protease Do-like 8 0.532 3.53 E 03...”
- Arabidopsis Iron Superoxide Dismutase FSD1 Protects Against Methyl Viologen-Induced Oxidative Stress in a Copper-Dependent Manner
Melicher, Frontiers in plant science 2022 - “...C 2, chloroplastic 0.38 PSII protein turnover O80860 ATP-dependent zinc metalloprotease FtsH 2, chloroplastic 0.568 Q39102 ATP-dependent zinc metalloprotease FtsH 1, chloroplastic 0.477 Note that the empty cell means that the protein was not found in the differential proteome of a respective line. The abundance of...”
- YejM Controls LpxC Levels by Regulating Protease Activity of the FtsH/YciM Complex of Escherichia coli
Nguyen, Journal of bacteriology 2020 (secret) - Involvement of a universal amino acid synthesis impediment in cytoplasmic male sterility in pepper
Fang, Scientific reports 2016 - “...1.440.13 1.440.23 1.350.12 Q42553 Isopentenyl-diphosphate Delta-isomerase II 122.05 2 284 5.16 27.53 1 2.350.12 2.960.28 Q39102 ATP-dependent zinc metalloprotease FTSH 1 129.73 3 716 5.20 67.62 1 3.400.34 0.950.10 Q39043 Mediator of RNA polymerase II transcription subunit 37f 122.45 5 668 5.08 71.14 1 6.480.86 6.890.59...”
- Proteomic studies of the abiotic stresses response in model moss - Physcomitrella patens
Wang, Frontiers in plant science 2012 - “...Peroxiredoxin (thioredoxin peroxidase) Y Y P22954 Heat shock cognate 70 kDa protein 2 Y Y Q39102 Heat shock cognate 70 kDa protein 1 Y Y Q43127 Glutamine synthetase Y Y Q93Z66 Ribose-phosphate pyrophosphokinase 3 Y Y Q9SYM5 Probable rhamnose biosynthetic enzyme 1 Y Y Q39044 Vacuolar...”
- Large-scale survey of cytosine methylation of retrotransposons and the impact of readout transcription from long terminal repeats on expression of adjacent rice genes
Kashkush, Genetics 2007 - “...AAF36497.1 XP_466811.1 BAD45739 NP_565032.2 XP_462758.1 AAT94033.1 Q39102 GP_29647436 Protein database accession no. Position of Dasheng element or solo...”
For advice on how to use these tools together, see
Interactive tools for functional annotation of bacterial genomes.
The PaperBLAST database links 793,807 different protein sequences to 1,259,118 scientific articles. Searches against EuropePMC were last performed on March 13 2025.
PaperBLAST builds a database of protein sequences that are linked
to scientific articles. These links come from automated text searches
against the articles in EuropePMC
and from manually-curated information from GeneRIF, UniProtKB/Swiss-Prot,
BRENDA,
CAZy (as made available by dbCAN),
BioLiP,
CharProtDB,
MetaCyc,
EcoCyc,
TCDB,
REBASE,
the Fitness Browser,
and a subset of the European Nucleotide Archive with the /experiment tag.
Given this database and a protein sequence query,
PaperBLAST uses protein-protein BLAST
to find similar sequences with E < 0.001.
To build the database, we query EuropePMC with locus tags, with RefSeq protein
identifiers, and with UniProt
accessions. We obtain the locus tags from RefSeq or from MicrobesOnline. We use
queries of the form "locus_tag AND genus_name" to try to ensure that
the paper is actually discussing that gene. Because EuropePMC indexes
most recent biomedical papers, even if they are not open access, some
of the links may be to papers that you cannot read or that our
computers cannot read. We query each of these identifiers that
appears in the open access part of EuropePMC, as well as every locus
tag that appears in the 500 most-referenced genomes, so that a gene
may appear in the PaperBLAST results even though none of the papers
that mention it are open access. We also incorporate text-mined links
from EuropePMC that link open access articles to UniProt or RefSeq
identifiers. (This yields some additional links because EuropePMC
uses different heuristics for their text mining than we do.)
For every article that mentions a locus tag, a RefSeq protein
identifier, or a UniProt accession, we try to select one or two
snippets of text that refer to the protein. If we cannot get access to
the full text, we try to select a snippet from the abstract, but
unfortunately, unique identifiers such as locus tags are rarely
provided in abstracts.
PaperBLAST also incorporates manually-curated protein functions:
- Proteins from NCBI's RefSeq are included if a
GeneRIF
entry links the gene to an article in
PubMed®.
GeneRIF also provides a short summary of the article's claim about the
protein, which is shown instead of a snippet.
- Proteins from Swiss-Prot (the curated part of UniProt)
are included if the curators
identified experimental evidence for the protein's function (evidence
code ECO:0000269). For these proteins, the fields of the Swiss-Prot entry that
describe the protein's function are shown (with bold headings).
- Proteins from BRENDA,
a curated database of enzymes, are included if they are linked to a paper in PubMed
and their full sequence is known.
- Every protein from the non-redundant subset of
BioLiP,
a database
of ligand-binding sites and catalytic residues in protein structures, is included. Since BioLiP itself
does not include descriptions of the proteins, those are taken from the
Protein Data Bank.
Descriptions from PDB rely on the original submitter of the
structure and cannot be updated by others, so they may be less reliable.
(For SitesBLAST and Sites on a Tree, we use a larger subset of BioLiP so that every
ligand is represented among a group of structures with similar sequences, but for
PaperBLAST, we use the non-redundant set provided by BioLiP.)
- Every protein from EcoCyc, a curated
database of the proteins in Escherichia coli K-12, is included, regardless
of whether they are characterized or not.
- Proteins from the MetaCyc metabolic pathway database
are included if they are linked to a paper in PubMed and their full sequence is known.
- Proteins from the Transport Classification Database (TCDB)
are included if they have known substrate(s), have reference(s),
and are not described as uncharacterized or putative.
(Some of the references are not visible on the PaperBLAST web site.)
- Every protein from CharProtDB,
a database of experimentally characterized protein annotations, is included.
- Proteins from the CAZy database of carbohydrate-active enzymes
are included if they are associated with an Enzyme Classification number.
Even though CAZy does not provide links from individual protein sequences to papers,
these should all be experimentally-characterized proteins.
- Proteins from the REBASE database
of restriction enzymes are included if they have known specificity.
- Every protein with an evidence-based reannotation (based on mutant phenotypes)
in the Fitness Browser is included.
- Sequence-specific transcription factors (including sigma factors and DNA-binding response regulators)
with experimentally-determined DNA binding sites from the
PRODORIC database of gene regulation in prokaryotes.
- Putative transcription factors from RegPrecise
that have manually-curated predictions for their binding sites. These predictions are based on
conserved putative regulatory sites across genomes that contain similar transcription factors,
so PaperBLAST clusters the TFs at 70% identity and retains just one member of each cluster.
- Coding sequence (CDS) features from the
European Nucleotide Archive (ENA)
are included if the /experiment tag is set (implying that there is experimental evidence for the annotation),
the nucleotide entry links to paper(s) in PubMed,
and the nucleotide entry is from the STD data class
(implying that these are targeted annotated sequences, not from shotgun sequencing).
Also, to filter out genes whose transcription or translation was detected, but whose function
was not studied, nucleotide entries or papers with more than 25 such proteins are excluded.
Descriptions from ENA rely on the original submitter of the
sequence and cannot be updated by others, so they may be less reliable.
Except for GeneRIF and ENA,
the curated entries include a short curated
description of the protein's function.
For entries from BioLiP, the protein's function may not be known beyond binding to the ligand.
Many of these entries also link to articles in PubMed.
For more information see the
PaperBLAST paper (mSystems 2017)
or the code.
You can download PaperBLAST's database here.
Changes to PaperBLAST since the paper was written:
- November 2023: incorporated PRODORIC and RegPrecise. Many PRODORIC entries were not linked to a protein sequence (no UniProt identifier), so we added this information.
- February 2023: BioLiP changed their download format. PaperBLAST now includes their non-redundant subset. SitesBLAST and Sites on a Tree use a larger non-redundant subset that ensures that every ligand is represented within each cluster. This should ensure that every binding site is represented.
- June 2022: incorporated some coding sequences from ENA with the /experiment tag.
- March 2022: incorporated BioLiP.
- April 2020: incorporated TCDB.
- April 2019: EuropePMC now returns table entries in their search results. This has expanded PaperBLAST's database, but most of the new entries are of low relevance, and the resulting snippets are often just lists of locus tags with annotations.
- February 2018: the alignment page reports the conservation of the hit's functional sites (if available from from Swiss-Prot or UniProt)
- January 2018: incorporated BRENDA.
- December 2017: incorporated MetaCyc, CharProtDB, CAZy, REBASE, and the reannotations from the Fitness Browser.
- September 2017: EuropePMC no longer returns some table entries in their search results. This has shrunk PaperBLAST's database, but has also reduced the number of low-relevance hits.
Many of these changes are described in Interactive tools for functional annotation of bacterial genomes.
PaperBLAST cannot provide snippets for many of the papers that are
published in non-open-access journals. This limitation applies even if
the paper is marked as "free" on the publisher's web site and is
available in PubmedCentral or EuropePMC. If a journal that you publish
in is marked as "secret," please consider publishing elsewhere.
Many important articles are missing from PaperBLAST, either because
the article's full text is not in EuropePMC (as for many older
articles), or because the paper does not mention a protein identifier such as a locus tag, or because of PaperBLAST's heuristics. If you notice an
article that characterizes a protein's function but is missing from
PaperBLAST, please notify the curators at UniProt
or add an entry to GeneRIF.
Entries in either of these databases will eventually be incorporated
into PaperBLAST. Note that to add an entry to UniProt, you will need
to find the UniProt identifier for the protein. If the protein is not
already in UniProt, you can ask them to create an entry. To add an
entry to GeneRIF, you will need an NCBI Gene identifier, but
unfortunately many prokaryotic proteins in RefSeq do not have
corresponding Gene identifers.
References
PaperBLAST: Text-mining papers for information about homologs.
M. N. Price and A. P. Arkin (2017). mSystems, 10.1128/mSystems.00039-17.
Europe PMC in 2017.
M. Levchenko et al (2017). Nucleic Acids Research, 10.1093/nar/gkx1005.
Gene indexing: characterization and analysis of NLM's GeneRIFs.
J. A. Mitchell et al (2003). AMIA Annu Symp Proc 2003:460-464.
UniProt: the universal protein knowledgebase.
The UniProt Consortium (2016). Nucleic Acids Research, 10.1093/nar/gkw1099.
BRENDA in 2017: new perspectives and new tools in BRENDA.
S. Placzek et al (2017). Nucleic Acids Research, 10.1093/nar/gkw952.
The EcoCyc database: reflecting new knowledge about Escherichia coli K-12.
I. M. Keeseler et al (2016). Nucleic Acids Research, 10.1093/nar/gkw1003.
The MetaCyc database of metabolic pathways and enzymes.
R. Caspi et al (2018). Nucleic Acids Research, 10.1093/nar/gkx935.
CharProtDB: a database of experimentally characterized protein annotations.
R. Madupu et al (2012). Nucleic Acids Research, 10.1093/nar/gkr1133.
The carbohydrate-active enzymes database (CAZy) in 2013.
V. Lombard et al (2014). Nucleic Acids Research, 10.1093/nar/gkt1178.
The Transporter Classification Database (TCDB): recent advances
M. H. Saier, Jr. et al (2016). Nucleic Acids Research, 10.1093/nar/gkv1103.
REBASE - a database for DNA restriction and modification: enzymes, genes and genomes.
R. J. Roberts et al (2015). Nucleic Acids Research, 10.1093/nar/gku1046.
Deep annotation of protein function across diverse bacteria from mutant phenotypes.
M. N. Price et al (2016). bioRxiv, 10.1101/072470.
by Morgan Price,
Arkin group
Lawrence Berkeley National Laboratory