Family Search for PF11961 (DUF3475)
Running HMMer for PF11961
PF11961 hits 6 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.
AT5G04550 hypothetical protein from Arabidopsis thaliana
Aligns to 28:84 / 599 (9.5%), covers 100.0% of PF11961, 92.3 bits
- DNA methylation variations underlie lettuce domestication and divergence
Cao, Genome biology 2024 - “...AT2G36540 with unknown function, as well as a distal gene Lsat_1_v5_gn_1_50600 , a homolog of AT5G04550 related to abiotic stress responses [ 48 ], that is located at ~ 64 kb downstream of this DMR ( P value < 9.710 4 for the interaction loop) (Fig....”
- Protein Phosphorylation Changes During Systemic Acquired Resistance in Arabidopsis thaliana
Zhou, Frontiers in plant science 2021 - “...14 (IQD14), eukaryotic translation initiation factor isoform 4G-1 (EIF4G1), TSS (REDUCED CHLOROPLAST COVERAGE 2), and AT5G04550. These five proteins are presumably subject to complex phosphorylation modification regulation in systemic leaves of Psm ES4326 locally inoculated plants. FIGURE 3 Phosphoproteomic analysis. (A) Significantly changed phosphorylated peptides in...”
- “...3B and Supplementary Table 4 ). Among these, five proteins (ABCG36, IQD14, EIF4G1, TSS, and AT5G04550) had five or more significantly changed phosphopeptides. Functions of these proteins are evidently regulated by complex phosphorylation modification during SAR induction. ABC transporters clearly play essential roles in plant growth/development...”
- A user-friendly platform for yeast two-hybrid library screening using next generation sequencing
Erffelinck, PloS one 2018 - “...57 AT1G18570 1654 0,351 2,529 7,207 AtMYB51/BW51A 58 AT2G33580 2239 0,259 1,868 7,207 LYK5 59 AT5G04550 2580 0,225 1,621 7,207 60 AT4G03560 2674 0,217 1,564 7,207 ATCCH1/ATTPC1 70 AT4G02020 2876 0,202 1,454 7,207 EZA1/SDG10 71 AT3G13690 3321 0,175 1,259 7,207 10.1371/journal.pone.0201270.t004 Table 4 Signalto-noise ratio of...”
- “...AT5G47110 1088 1,0668 8,3290 7,8074 LIL3:2 26 AT3G04730 1279 0,4537 3,5426 7,8074 IAA16 Y 27 AT5G04550 2580 0,2249 1,7562 7,8074 28 AT3G15760 843 0,6884 4,9614 7,2068 Y 29 AT1G12270 1949 0,5955 4,2919 7,2068 Hop1 30 AT3G47980 1097 0,5290 3,8126 7,2068 Y 31 AT1G02650 1542 0,3764 2,7124...”
- Ectopic RING zinc finger gene from hot pepper induces totally different genes in lettuce and tobacco
Kesawat, Molecular breeding : new strategies in plant improvement 2018 - “...death domain protein (DCD) 0 0 0 5.13 At2g18970 Uncharacterized gene 0.83 1.92 0.95 3.40 At5g04550 Uncharacterized gene 0.11 1.43 1.67 3.29 At1g55160 Uncharacterized gene 0.63 1.13 1.86 3.54 At2g11630 Uncharacterized gene 0.02 0.23 0.59 6.04 At2g24755 Uncharacterized gene 0 0.32 0.51 4.97 At5g26775 Uncharacterized gene...”
- Stable isotope metabolic labeling-based quantitative phosphoproteomic analysis of Arabidopsis mutants reveals ethylene-regulated time-dependent phosphoproteins and putative substrates of constitutive triple response 1 kinase
Yang, Molecular & cellular proteomics : MCP 2013 - “...AT3G08780 AT3G58440 AT3G60380 AT4G21930 AT4G37210 AT5G04550 32 AT5G63190 SHTLFADLNIKpSPTGGK KVQLSDSVQGYKpSPLR oxMGQpTPERPSISSVKK AIAAKIFpTGLR pSP pSP pTP...”
PSI1_ARATH / Q9XID5 Protein PSK SIMULATOR 1; AtPSI1 from Arabidopsis thaliana (Mouse-ear cress) (see paper)
AT1G34320 hypothetical protein from Arabidopsis thaliana
NP_174692 Ikzf5 (DUF668) from Arabidopsis thaliana
Aligns to 157:213 / 657 (8.7%), covers 100.0% of PF11961, 87.6 bits
- function: Promotes seedling growth probably via the regulation of phytosulfokine (PSK) signaling; PSK are peptide phytohormones acting as growth factors (PubMed:25062973). Together with PSI2 and PSI3, required during vegetative growth and reproduction (PubMed:25062973). May also have a function in carbohydrate metabolism (PubMed:25062973).
disruption phenotype: Short roots and hypocotyls due to both a reduced cell number and reduced cell elongation (PubMed:25062973). Plants missing both PSI1 and PSI3 are dwarf and contain reduced starch levels; these phenotypes are partially rescued by sucrose (PubMed:25062973). - The TIR-NB-LRR pair DSC1 and WRKY19 contributes to basal immunity of Arabidopsis to the root-knot nematode Meloidogyne incognita
Warmerdam, BMC plant biology 2020 - “...] AT5G45380 8.41 0.09 DEGRADATION OF UREA 3 (DUR3) Y Urea uptake [ 38 ] AT1G34320 8.11 0.18 PSK SIMULATOR 1 (PSI1) Y Cell growth [ 39 ] AT5G14470 7.96 0.19 Galactokinase 2 (GALK2) Y Abiotic stress response [ 40 ] AT1G64790 2.84 1.19 ILITHYIA (ILA)...”
- Expression and integrated network analyses revealed functional divergence of NHX-type Na+/H+ exchanger genes in poplar
Tian, Scientific reports 2017 - “...co-expression network. Gene Name Gene ID Arabidopsis orthologous Functional Description Co-expressed with PtNHXs PSI1 Potri.013G115300 AT1G34320 Located in plasma membrane, required for growth. PtNHX6 , PtNHX7 , and PtNHX8 MKP1 Potri.008G049900 AT3G55270 Involved in protein dephosphorylation, inactivation of MAPK activity, response to salt stress, UV, and...”
- The PSI family of nuclear proteins is required for growth in arabidopsis.
Stührwohldt, Plant molecular biology 2014 (PubMed)- GeneRIF: PSI1 protein has a role in Arabidopsis growth.
NP_001331590 D-lactate dehydrogenase (DUF668) from Arabidopsis thaliana
Aligns to 151:207 / 471 (12.1%), covers 100.0% of PF11961, 82.5 bits
PSI3_ARATH / P0DO24 Protein PSK SIMULATOR 3; AtPSI3 from Arabidopsis thaliana (Mouse-ear cress) (see paper)
AT5G08660 hypothetical protein from Arabidopsis thaliana
Aligns to 151:207 / 649 (8.8%), covers 100.0% of PF11961, 81.7 bits
- function: Promotes plant growth, especially at the vegetative stage, probably via the regulation of phytosulfokine (PSK) signaling; PSK are peptide phytohormones acting as growth factors (PubMed:25062973). Together with PSI2 and PSI3, required during vegetative growth and reproduction (PubMed:25062973). May also have a function in carbohydrate metabolism (PubMed:25062973).
disruption phenotype: Reduced response to phytosulfokine (PSK) in roots (PubMed:25062973). Small rosettes and dwarf plants as well as early senescence of older leaves (PubMed:25062973). Reduced fertility, premature senescence and severe dwarfism in psi2-1 psi3-1 plants due to reduced cell growth and proliferation as well as premature leaf growth arrest (PubMed:25062973). Plants missing both PSI1 and PSI3 are dwarf and contain reduced starch levels; these phenotypes are partially rescued by sucrose (PubMed:25062973). - The Quantitative Biotinylproteomics Studies Reveal a WInd-Related Kinase 1 (Raf-Like Kinase 36) Functioning as an Early Signaling Component in Wind-Induced Thigmomorphogenesis and Gravitropism
Yang, Molecular & cellular proteomics : MCP 2024 - “...proteins (WLIM1) Y RNA binding; cytoskeletal protein binding; actin cytoskeleton organization AT1G33050 Unknown protein Y AT5G08660 D-lactate dehydrogenase (DUF668) (PSI3) Y AT3G21865 Peroxin 22 (PEX22) Y AT3G52300 ATP synthase D chain, mitochondrial (ATPQ) Y AT3G06480 RNA helicase 40 (RH40) Y Y RNA binding; regulation of developmental...”
- AtMAD: Arabidopsis thaliana multi-omics association database
Lan, Nucleic acids research 2021 - “...be involved in flower development process with experimental supports ( 31 , 32 ). Moreover, AT5G08660 (PSI3) was identified to connect to YieldMainEffect2009 (seed weight) in AtMAD, which was consistent with the positive role of PSI3 in regulating plant growth and seed development ( 33 )....”
- Combining QTL mapping with transcriptome and metabolome profiling reveals a possible role for ABA signaling in resistance against the cabbage whitefly in cabbage
Broekgaarden, PloS one 2018 - “...transporter G family member 22 3.56 Wf-2 Bo2g008820 AT5G07920 Diacylglycerol kinase1 (DGK1) 1.74 Wf-2 Bo2g009180 AT5G08660 Hypothetical protein 1.68 Wf-2 Bo2g009640 AT5G09960 Hypothetical protein 4.13 Wf-2 Bo2g010640 AT5G11790 Protein N-MYC downregulated-like 2 (NDL2) 2.58 Wf-2 Bo2g010810 AT5G12080 Mechanosensitive channel of small conductance-like 10 (MSL10) 1.41 Wf-2...”
PSI2_ARATH / Q9SA91 Protein PSK SIMULATOR 2; AtPSI2 from Arabidopsis thaliana (Mouse-ear cress) (see paper)
NP_001320551 elongation factor G, putative (DUF668) from Arabidopsis thaliana
AT1G30755 hypothetical protein from Arabidopsis thaliana
Aligns to 136:192 / 615 (9.3%), covers 100.0% of PF11961, 74.7 bits
- function: Promotes seedling growth probably via the regulation of phytosulfokine (PSK) signaling; PSK are peptide phytohormones acting as growth factors (PubMed:25062973). Involved in PSK-induced root growth (PubMed:25062973). Together with PSI1 and PSI3, required during vegetative growth and reproduction (PubMed:25062973).
disruption phenotype: Reduced fertility, premature senescence and severe dwarfism in psi2-1 psi3-1 plants due to reduced cell growth and proliferation as well as premature leaf growth arrest. - The PSI family of nuclear proteins is required for growth in arabidopsis.
Stührwohldt, Plant molecular biology 2014 (PubMed)- GeneRIF: PSI2 protein has a role in Arabidopsis growth.
- Comparative RNA-seq analysis of Arabidopsis thaliana response to AtPep1 and flg22, reveals the identification of PP2-B13 and ACLP1 as new members in pattern-triggered immunity
Safaeizadeh, PloS one 2024 - “...AT4G39580 18 4.16251 21 4.40726 Encodes a Galactose oxidase/kelch repeat superfamily protein Chr4:1838568418386811 Not considered AT1G30755 14 3.83941 13 3.74068 Encodes an unknown protein Chr1:1090573110909760 Not detected/N666232, SALK_063010C Not detected ; Not considered Determination of gene expression by quantitative real-time reverse transcription PCR analysis To confirm...”
- “...genes and retrieved mutant lines for AT1G56240, AT1G65385, AT4G23215, AT1G59865, AT1G24145, AT2G35658, AT1G69900, AT2G27389, and AT1G30755. We confirmed homozygous T-DNA insertions via PCR. 10.1371/journal.pone.0297124.g002 Fig 2 Confirmation of RNA-seq results by quantitative real-time reverse transcription PCR analysis. The expression levels of 20 candidate genes in the...”
- Genomes of Meniocus linifolius and Tetracme quadricornis reveal the ancestral karyotype and genomic features of core Brassicaceae
Liu, Plant communications 2024 - “...AT1G24256 AT1G19850 AT1G24140 B2 AT1G24260 AT1G27280 AT1G24310 AT1G27210 U2 AT4G24160 AT4G27730 AT4G24740 AT4G27540 B3 AT1G27290 AT1G30755 AT1G27320 AT1G30755 B4 AT1G30757 AT1G32750 AT1G30760 AT1G32750 CBK2 D2 AT1G61210 AT1G56210 AT1G61210 AT1G56230 D1 AT1G64670 AT1G61215 AT1G64670 AT1G61240 E1 AT1G64960 AT1G67270 AT1G65020 AT1G67260 E2 AT1G67280 AT1G71100 AT1G67530 AT1G71100 E3 AT1G71110...”
- Co-Expression Networks in Sunflower: Harnessing the Power of Multi-Study Transcriptomic Public Data to Identify and Categorize Candidate Genes for Fungal Resistance
Ribone, Plants (Basel, Switzerland) 2023 - “...0.86 AT2G40140 51.25 97 0 HanXRQChr13g0399921 Green39 1 AT3G09830 66.92 88 0 HanXRQChr12g0366961 Green39 0.81 AT1G30755 49.69 100 0 HanXRQChr10g0300021 Root36 0.96 AT5G01050 53.74 98 0 HanXRQChr05g0161441 Root36 0.94 AT1G22400 52.50 98 0 HanXRQChr07g0205991 Root44/Green18 1.0/0.39 AT1G08450 70.12 95 0 HanXRQChr17g0553831 Root44 0.89 AT5G42510 42.47 64...”
- Genome-wide identification of the DUF668 gene family in cotton and expression profiling analysis of GhDUF668 in Gossypium hirsutum under adverse stress
Zhao, BMC genomics 2021 - “...5 ). Homology analysis showed that Gh_DUF66808 and Gh_DUF66823 have the highest homology with Arabidopsis AT1G30755 , which is highly related to growth, development and defense in Arabidopsis [ 53 ]. In a study conducted with flg22 treatment in Arabidopsis, the expression levels of 35 genes...”
- “...of DUF668 gene family in G. hirsutum. Additional file 6: Figure S4. Interaction network of AT1G30755 proteins in Arabidopsi s. Additional file 7: Table S3. cis-acting elements analysis of DUF668 family members in G. hirsutum. Additional file 8: Table S4. All primers used in this study....”
- Fine mapping of the major QTL for seed coat color in Brassica rapa var. Yellow Sarson by use of NIL populations and transcriptome sequencing for identification of the candidate genes
Zhao, PloS one 2019 - “...0.0) AGO2 | AGO2 (argonaute 2); nucleic acid binding Bra023130 21507995..21510828 Down-regulated SNPs hypothetical protein AT1G30755 (E = 3e-138) | unknown protein Bra032370 22098548..22098796 Down-regulated SNPs hypothetical protein AT1G30250 (E = 3e-015) | unknown protein Bra023188 20887186..20888028 Up-regulated SNPs hypothetical protein AT1G31460 (E = 1e-037) |...”
- Phylogenetic profiling of the Arabidopsis thaliana proteome: what proteins distinguish plants from other organisms?
Gutiérrez, Genome biology 2004 - “...Representative EST clone ID Locus Description Cluster 1 PS 111O21XP At1g19180 Expressed protein PS 123B21T7 At1g30755 Expressed protein PS 209F11T7 At1g63090 F-box protein (SKP1 interacting partner 3-related) PS 181I16T7 At1g72510 Expressed protein PS 148B19T7 At1g74950 Expressed protein PS 40F4T7 At2g23320 Identical to WRKY DNA-binding protein 15...”
AT5G51670 hypothetical protein from Arabidopsis thaliana
Aligns to 39:95 / 474 (12.0%), covers 100.0% of PF11961, 70.8 bits
Or search for genetic data about PF11961 in the Fitness Browser
by Morgan Price,
Arkin group
Lawrence Berkeley National Laboratory