Family Search for PF05254 (UPF0203)
April 2024: See Interactive Tools for Functional Annotation of Bacterial Genomes for advice on using these tools.
PF05254 hits 10 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.
MDM35_YEAST / O60200 Mitochondrial distribution and morphology protein 35 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see 10 papers)
NP_012870 Mdm35p from Saccharomyces cerevisiae S288C
YKL053C-A Mdm35p from Saccharomyces cerevisiae
Aligns to 7:75 / 86 (80.2%), covers 100.0% of PF05254, 101.6 bits
- function: Involved in mitochondrial distribution and morphology. Mediates the import of UPS1, UPS2 and UPS3, 3 atypical mitochondrial intermembrane space (IMS) proteins lacking the two major IMS-targeting signals, into the intermembrane space. The UPS1:MDM35 complex mediates the transfer of phosphatidic acid (PA) between liposomes and probably functions as a PA transporter across the mitochondrion intermembrane space (PubMed:26071602, PubMed:26071601, PubMed:26235513). Phosphatidic acid import is required for cardiolipin (CL) synthesis in the mitochondrial inner membrane (PubMed:26071602).
subunit: Interacts with UPS1, UPS2 and UPS3. - Structural basis of intramitochondrial phosphatidic acid transport mediated by Ups1-Mdm35 complex.
Yu, EMBO reports 2015 - GeneRIF: crystal structure of Ups1-Mdm35 bound with a phosphatidic acid (PA) molecule at 2.0 A resolution; study reveals molecular basis of Ups1-Mdm35-mediated PA binding and transfer and sheds new light on mechanism of intramitochondrial lipid transport by MSF1/PRELI family proteins
- Structural and mechanistic insights into phospholipid transfer by Ups1-Mdm35 in mitochondria.
Watanabe, Nature communications 2015 - GeneRIF: The Ups1-Mdm35 complex constitutes a single domain that has a deep pocket and flexible Omega-loop lid. A basic residue at the pocket bottom and the Omega-loop lid are important for phosphatidic acid extraction from the membrane following Ups1 binding.
- Mdm35p imports Ups proteins into the mitochondrial intermembrane space by functional complex formation.
Tamura, The EMBO journal 2010 - GeneRIF: The authors show that Ups1, Ups2 and Ups3 protein import is mediated by another mitochondrial intermembrane space protein, Mdm35p.
- Regulation of mitochondrial phospholipids by Ups1/PRELI-like proteins depends on proteolysis and Mdm35.
Potting, The EMBO journal 2010 - GeneRIF: The authors identified Mdm35, a member of the twin Cx9C protein family, as a novel interaction partner of Ups1 and Ups2.
- Systematic analysis of the twin cx(9)c protein family.
Longen, Journal of molecular biology 2009 (PubMed)- GeneRIF: Loss of Mdm35, Emi1, and Mrp10 leads to abnormal mitochondrial morphology
- Synthetic yeast chromosome XI design provides a testbed for the study of extrachromosomal circular DNA dynamics
Blount, Cell genomics 2023 - “...The 1460bp product was cloned into pSXI_3_34_J4 as an XbaI/NarI restriction fragment, replacing 15bp of YKL053C-A , generating plasmid pSXI_3_34_J4 kanMX . pYZ412 MAT expression vector: the 3.4 kb MAT locus from pXZX353 80 was subcloned into pRS415. 76 p SCW11 - cre -EBD- kanMX4 SCRaMbLE...”
- “...YKL069W , and a modified chunk J4 with a kanMX4 selection cassette was inserted into YKL053C-A , giving strain ysXIb02. Megachunk J was then integrated into this strain, along with cas9 and gRNAs targeting double-strand breaks to the LEU2 and kanMX4 markers ( Figure2 C). For...”
- Synthetic yeast chromosome XI design enables extrachromosomal circular DNA formation on demand
Blount, 2022 - Pathways shaping the mitochondrial inner membrane
Klecker, Open biology 2021 - “...63 , 64 ] Mdm32 (Yor147w) CL reduced altered [ 63 , 64 ] Mdm35 (Ykl053c-a) PE reduced wild-type-like, less cristae [ 45 , 63 , 65 , 66 ] Mmm1 (Yme6; Yll006w) PE and CL reduced altered [ 63 , 67 , 68 ] Ups1...”
- Mutational analysis of the C-terminal FATC domain of Saccharomyces cerevisiae Tra1
Hoke, Current genetics 2010 - “...4.0 Unknown YHR215W PHO12 3.7 Acid phosphatase YML123C PHO84 3.1 Inorganic phosphate and manganese transporter YKL053C-A MDM35 3.1 Mitochondrial intermembrane space YBR147W RTC2 2.9 Similarity to G-protein coupled receptor YDL098C SNU23 2.8 Component of U4/U6.U5 snRNP YKL120W OAC1 2.7 Mitochondrial inner membrane transporter YBR050C REG2 2.7...”
- The genetic interactome of prohibitins: coordinated control of cardiolipin and phosphatidylethanolamine by conserved regulators in mitochondria
Osman, The Journal of cell biology 2009 - “...b YHR194w IM GD MDM32 b YOR147w IM SL MDM34 b YGL219c OM SL MDM35 YKL053c-A IMS SL UPS1 b YLR193c IMS SL Unknown GEP1 YLR168c IMS SL GEP3 YOR205c M GD GEP4 YHR100c M SL GEP5 YLR091w M GD GEP6 YMR293c M SL GEP7 YGL057c...”
- Functional genomics of genes with small open reading frames (sORFs) in S. cerevisiae
Kastenmayer, Genome research 2006 - “...YFR032C-A YBR089C-A YPR052C YEL020W-A YLR325C YJR135W-A YKL053C-A YHR143W-A YCL057C-A YLR287C-A YOR182C YLR388W YFL017W-A YBL026W YHR072W-A YHR005C-A YLL018C-A...”
- Functional genomics reveals relationships between the retrovirus-like Ty1 element and its host Saccharomyces cerevisiae
Griffith, Genetics 2003 - “...YBR077c, YDL115c, YDR496c, YFL032w, YGL250w, YGR064w, YKL053c-A, YLR052w, YLR322w, YML010c-B, YNL226w, YNL228w, YNL295w, YOL159c, YOR292c, YPL080c Nuclear...”
- Transitive functional annotation by shortest-path analysis of gene expression data
Zhou, Proceedings of the National Academy of Sciences of the United States of America 2002 - “...C], TOS5 [2, 1, C] (16), YDR165W [114, 113, C] (23), YKL053C-A [16, 62, M], YKL195W* [25, 37, M] (16), YLR356W [46, 45, C], YLR434C [119, 124, C] YBR089W [2, 1,...”
- “...YDR324C* [3, 1, N], YML093W* [3, 2, C] LSG1 [3, 2, C] YKL053C-A [3, 3, M] RNQ1 [9, 8, M] (16), YGL069C* [24, 44, M] (26), YGL102C* [4, 4, C] (27) RNQ1 [3, 2, M]...”
TRIA1_HUMAN / O43715 TP53-regulated inhibitor of apoptosis 1; Protein 15E1.1; WF-1; p53-inducible cell-survival factor; p53CSV from Homo sapiens (Human) (see 3 papers)
TC 3.A.9.1.1 / O43715 TP53-regulated inhibitor of apoptosis 1, component of Chloroplast envelope protein translocase (CEPT); outer membrane complex. The Tic20-like protein (acc # AUO68237.1; 413 aas, 6 TMSs in a 1 TMS (N-terminal) + 5 TMSs (C-terminal)), of the lower brown alga, Saccharina japonica, has been characterized from Homo sapiens
NP_057483 TP53-regulated inhibitor of apoptosis 1 from Homo sapiens
Aligns to 2:67 / 76 (86.8%), covers 82.6% of PF05254, 93.3 bits
- function: Involved in the modulation of the mitochondrial apoptotic pathway by ensuring the accumulation of cardiolipin (CL) in mitochondrial membranes. In vitro, the TRIAP1:PRELID1 complex mediates the transfer of phosphatidic acid (PA) between liposomes and probably functions as a PA transporter across the mitochondrion intermembrane space to provide PA for CL synthesis in the inner membrane (PubMed:23931759). Likewise, the TRIAP1:PRELID3A complex mediates the transfer of phosphatidic acid (PA) between liposomes (in vitro) and probably functions as a PA transporter across the mitochondrion intermembrane space (in vivo) (PubMed:26071602). Mediates cell survival by inhibiting activation of caspase-9 which prevents induction of apoptosis (PubMed:15735003).
catalytic activity: a 1,2-diacyl-sn-glycero-3-phosphate(in) = a 1,2-diacyl-sn- glycero-3-phosphate(out) (RHEA:36435)
subunit: Monomer (PubMed:26071602). Interacts with APAF1 and HSP70 (PubMed:15735003). Forms a complex with PRELID1 in the mitochondrion intermembrane space (PubMed:23931759). Interacts with PRELID3A (PubMed:26071602). - substrates: proteins
- Predicting Apoptosis Protein Subcellular Locations based on the Protein Overlapping Property Matrix and Tri-Gram Encoding.
Yang, International journal of molecular sciences 2019 - “...illustrate this point, the longest sequence (ID: Q68749, length: 3037) and the shortest sequence (ID: O43715, length: 76) of the datasets were selected to test the time required of this method. Remarkably, in our laboratory environment (Intel Xeon CPU E5620 @ 2.40GHz, 16 4-core processors, 16G...”
- “...seconds and 471 seconds to generate the PSSM profiles of two proteins (i.e., Q68749 and O43715) respectively. This result also indicates that the longer a sequence is, the more time it will take to process it. However, the required time for obtaining POPMs of two proteins...”
- Effect of ghost pepper on cell proliferation, apoptosis, senescence and global proteomic profile in human renal adenocarcinoma cells.
Perla, PloS one 2018 - “...4 I3L276 HMOX2 Heme oxygenase 2 64.98 110.82 208.33 144.13 -3.21 0.031 UR, protein 5 O43715 TRIAP1 TP53-regulated inhibitor of apoptosis 1 49.04 19.75 1.00 0.00 49.04 0.052 Protein 6 P04040 CAT Catalase 37.92 55.59 236.27 118.47 -6.23 0.043 Protein 7 P06681 C2 Complement C2 1.00...”
- “...pathways in ghost pepper treated cells [ 35 ]. As TP53-regulated inhibitor of apoptosis 1 (O43715; TRIAP1 ) was decreased in treated cells, its role in inhibiting activation of caspase-9 and prevention of apoptosis induction [ 36 ] was probably negatively affected by Ghost pepper at...”
- Triap1 upregulation promotes escape from mitotic-slippage-induced G1 arrest.
Pavani, Cell reports 2023 (PubMed)- GeneRIF: Triap1 upregulation promotes escape from mitotic-slippage-induced G1 arrest.
- Regulation of Apoptosis and Inflammatory Response in Interleukin-1β-Induced Nucleus Pulposus Cells by miR-125b-5p Via Targeting TRIAP1.
Jie, Biochemical genetics 2021 (PubMed)- GeneRIF: Regulation of Apoptosis and Inflammatory Response in Interleukin-1beta-Induced Nucleus Pulposus Cells by miR-125b-5p Via Targeting TRIAP1.
- Circular RNA circPVT1 Contributes to Doxorubicin (DXR) Resistance of Osteosarcoma Cells by Regulating TRIAP1 via miR-137.
Li, BioMed research international 2021 - GeneRIF: Circular RNA circPVT1 Contributes to Doxorubicin (DXR) Resistance of Osteosarcoma Cells by Regulating TRIAP1 via miR-137.
- TRIAP1 knockdown sensitizes non-small cell lung cancer to ionizing radiation by disrupting redox homeostasis.
Hao, Thoracic cancer 2020 - GeneRIF: TRIAP1 knockdown sensitizes non-small cell lung cancer to ionizing radiation by disrupting redox homeostasis.
- miR-1301/TRIAP1 Axis Participates in Epirubicin-Mediated Anti-Proliferation and Pro-Apoptosis in Osteosarcoma.
Yu, Yonsei medical journal 2019 - GeneRIF: miR-1301 was implicated in the chemosensitivity of osteosarcoma to epirubicin by modulating TRIAP1.
- TP53 Regulated Inhibitor of Apoptosis 1 (TRIAP1) stable silencing increases late apoptosis by upregulation of caspase 9 and APAF1 in RPMI8226 multiple myeloma cell line.
Fook-Alves, Biochimica et biophysica acta 2016 (PubMed)- GeneRIF: Inhibition of TRIAP1 in RPMI8226 cells increased the percentage of apoptotic cells, accompanied by increased expression of APAF1 and Caspase 9, and Caspase 9 and Caspase 3/7 activity.
- Overexpression of Mitochondria Mediator Gene TRIAP1 by miR-320b Loss Is Associated with Progression in Nasopharyngeal Carcinoma.
Li, PLoS genetics 2016 - GeneRIF: TRIAP1 is regulated by miR-320b and has a role in progression in nasopharyngeal carcinoma
- Apoptosis inhibitor TRIAP1 is a novel effector of drug resistance.
Adams, Oncology reports 2015 (PubMed)- GeneRIF: Results describe the upregulation of TRIAP1 in drugresistant breast cancer cells. Its experimental modulation changed breast tumor cells sensitivity to doxorubicin, thus confirming its role in drug resistance.
- More
NP_081209 TP53-regulated inhibitor of apoptosis 1 from Mus musculus
Q9D8Z2 TP53-regulated inhibitor of apoptosis 1 from Mus musculus
Aligns to 2:67 / 76 (86.8%), covers 82.6% of PF05254, 92.4 bits
TRIA1_XENTR / A9ULB4 TP53-regulated inhibitor of apoptosis 1; p53-inducible cell-survival factor; p53csv from Xenopus tropicalis (Western clawed frog) (Silurana tropicalis) (see paper)
Aligns to 2:67 / 78 (84.6%), covers 82.6% of PF05254, 90.2 bits
- function: Involved in the modulation of the mitochondrial apoptotic pathway by ensuring the accumulation of cardiolipin (CL) in mitochondrial membranes. The triap1:prelid1 complex probably functions as a phosphatidic acid (PA) transporter across the mitochondrion intermembrane space to provide PA for cardiolipin CL synthesis in the inner membrane. Likewise, the triap1:prelid3a complex mediates the transfer of phosphatidic acid (PA) between liposomes (in vitro) and probably functions as a PA transporter across the mitochondrion intermembrane space (in vivo). Mediates cell survival by inhibiting activation of caspase-9 which prevents induction of apoptosis (By similarity). Required for pronephros development; probably involved at an early stage in the formation of pronephric components derived from the somatic layer (PubMed:18472403).
catalytic activity: a 1,2-diacyl-sn-glycero-3-phosphate(in) = a 1,2-diacyl-sn- glycero-3-phosphate(out) (RHEA:36435)
subunit: Monomer. Forms a complex with prelid1 in the mitochondrion intermembrane space. Interacts with prelid3a.
CG30108 uncharacterized protein from Drosophila melanogaster
Aligns to 2:65 / 88 (72.7%), covers 89.9% of PF05254, 87.3 bits
- Transcriptional profiling of Drosophila S2 cells in early response to Drosophila C virus
Zhu, Virology journal 2013 - “...CG15097, CG15308, CG15543, CG15673, CG1600, CG16717, CG16718, CG16833, CG17599, CG17660, CG17681, CG18528, CG18557, CG18643, CG18769, CG30108, CG30115, CG30281, CG30421, CG30466, CG30502, CG31012, CG31323, CG31324, CG31431, CG31522, CG31523, CG3168, CG31778, CG32048, CG32066, CG32170, CG32206, CG32207, CG32313, CG32512, CG32982, CG33099, CG3348, CG34330, CG34349, CG34360, CG34383, CG34404, CG3788, CG3884,...”
6i4yA / O43715,P0AEX9 X-ray structure of the human mitochondrial prelid3b-triap1 complex (see paper)
Aligns to 371:429 / 429 (13.8%), covers 82.6% of PF05254, 87.1 bits
- Ligand: alpha-d-glucopyranose (6i4yA)
LOC103505407 TP53-regulated inhibitor of apoptosis 1-like from Diaphorina citri
Aligns to 27:93 / 102 (65.7%), covers 82.6% of PF05254, 84.0 bits
- Annotation of the Asian Citrus Psyllid Genome Reveals a Reduced Innate Immune System
Arp, Frontiers in physiology 2016 - “...LOC103520736 XM_017448611.1 NW_007381407.1 5 Zootermopsis nevadensis KDR14692.1 97 6.00E-161 49 TP53-regulated inhibitor of apoptosis 1-like LOC103505407 XM_008469737.2 NW_007377609.1 3 Microplitis demolitor XP_008548768.1 23 5.00E-29 61 TNF receptor-associated factor 4 LOC103507530 XM_008472010.2 NW_007377755.1 7 + Cimex lectularius XP_014244337.1 72 0 62 TNF receptor-associated factor 6-like LOC103510016 XM_017444539.1...”
CG30109 uncharacterized protein from Drosophila melanogaster
Aligns to 2:68 / 88 (76.1%), covers 89.9% of PF05254, 83.4 bits
- Akaluc/AkaLumine bioluminescence system enables highly sensitive, non-invasive and temporal monitoring of gene expression in Drosophila
Ito, Communications biology 2023 - “...IBINp-Venus-Akaluc strain expressing Akaluc under the control of a putative IBIN promoter region (319bp between CG30109 and IBIN , Fig. 5a ). When the IBINp-Venus-Akaluc strain was infected with DH5, an increased luminescent signal was observed in a similar pattern to that of IBIN Akaluc-KI (Fig....”
- “...of the IBINp-Venus-Akaluc construct, a 319bp region between IBIN and a gene 5 upstream ( CG30109 ) was amplified from fly genomic DNA as the promoter of IBIN . The UAS sequence was removed from the UAS-Venus-Akaluc plasmid using Hind III and Eco R I, and...”
- Immune-inducible non-coding RNA molecule lincRNA-IBIN connects immunity and metabolism in Drosophila melanogaster
Valanne, PLoS pathogens 2019 - “...(genomic loci 2R:17,671,068..17,671,295 [+]) and it is located between two protein coding genes; P32 and CG30109 . Therefore, CR44404 is classified as a long non-coding intergenic RNA (lincRNA) molecule. Although CR44404 is very close to the protein-coding gene P32, the genes do not overlap. To confirm...”
- “...expression levels of the adjacent genes were examined in the transcriptome analysis. Neither P32 nor CG30109 were affected by infection in the same way as CR44404 , the expression of which was ~1300-fold upon a M . luteus infection. Instead, P32 (1.17-fold) and CG30109 (1.27-fold) were...”
Q9SMZ9 Uncharacterized protein At4g33100 from Arabidopsis thaliana
AT4G33100 hypothetical protein from Arabidopsis thaliana
Aligns to 13:81 / 92 (75.0%), covers 92.8% of PF05254, 83.1 bits
- Gene3D: modelling protein structure, function and evolution
Yeats, Nucleic acids research 2006 - “...took the first three non-viral proteins with the name hypothetical protein returned by UniProt-O43716 (human), Q9SMZ9 ( Arabidopsis thaliana ) and O30176 ( Archaeoglobus fulgidis ). By examining the functional terms and structural predictions associated with these proteins and the protein families they belong to, we...”
- “...us to justify this transfer of information. O43716 is a Glu-tRNAGln amidotransferase C subunit (Pfam:PF02686). Q9SMZ9 is possibly involved in mitochondrial distribution and morphology (GO process:0007005). O30176 contains a MazG nucleotide pyrophosphohydrolase domain (Pfam:PF03819). Identifying structural targets Another current task for Gene3D is in identifying good...”
- Glycerolipid synthesis and lipid trafficking in plant mitochondria
Michaud, The FEBS journal 2017 - “...At1g72100 Ups1 Yeast/mammals IMS [ 59 ] PA transfer between OM IM At5g13070 Mdm35 IMS At4g33100 Ups2 Yeast IMS [ 58 ] PL transfer between OMIM At5g13070 NDPK-D Mammals IMS [ 60 ] OMIM CL transfer between OMIM NDPK3 (At4g11010) mtCK Mammals IMS [ 84 ]...”
XP_001351047 conserved protein, unknown function from Plasmodium falciparum 3D7
Aligns to 17:81 / 81 (80.2%), covers 92.8% of PF05254, 67.2 bits
- Screening and characterization of hypothetical proteins of Plasmodium falciparum as novel vaccine candidates in the fight against malaria using reverse vaccinology
Aguttu, Journal, genetic engineering & biotechnology 2021 - “...diphosphate kinase (PF13-0349) at 0.704, XP_001351030.1 interacts with male development protein1 (Mdv-1) at 0.645, and XP_001351047.1 with an uncharacterized protein (MAL8P1.53) at 0.400. Conclusion Reverse vaccinology is a promising strategy for the screening and identification of antigenic antigens with potential capacity to elicit cellular and humoral...”
- “...XP_002808602.1, XP_001350996.2, XP_002808605.1, XP_001350997.1, XP_001351014.2, XP_001350955.1, XP_001351004.1, XP_001351002.1, XP_001351011.2, XP_001351013.1, XP_024328987.1, XP_001351030.1, XP_001351040.1, XP_002808611.1, XP_001351044.1, XP_001351047.1, XP_001351049.1, XP_001351045.1, XP_001350986.1, XP_001350982.1, XP_002808604.1, XP_001350978.2, XP_002808603.2) of conserved hypothetical proteins of Plasmodium falciparum 3D7 were selected for this study. The protein sequences were selected based on the criteria that...”
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by Morgan Price,
Arkin group
Lawrence Berkeley National Laboratory