AT3G13300.1
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Subcellular Consensus
(Prediction and Experimental) min:  :max.
SUBAcon:cytosol 1.000 ASURE: cytosol What is SUBAcon? |
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| Experimental Localisations and PPI |
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SUBAcon links
AGI-AGI relationships |
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| Description (TAIR10) | protein_coding : Transducin/WD40 repeat-like superfamily protein | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Curator Summary (TAIR10) |
Encodes VCS (VARICOSE). Involved in mRNA decapping. VCS forms a mRNA decapping complex with DCP1 (At1g08370) and DCP2 (At5g13570). Unlike DCP2, VCS itself does not have mRNA decapping activity in vitro. DCP1, DCP2 and VCS colocalize in cytoplasmic loci, which are putative Arabidopsis mRNA processing bodies. Null mutants of DCP1, DCP2, and VCS accumulate capped mRNAs with a reduced degradation rate. These mutants also share a similar lethal phenotype at the seedling cotyledon stage, with disorganized veins, swollen root hairs, and altered epidermal cell morphology. VCS is also required for leaf development. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Computational Description (TAIR10) |
VARICOSE (VCS); FUNCTIONS IN: protein homodimerization activity, nucleotide binding; INVOLVED IN: mRNA catabolic process, deadenylation-independent decapping of nuclear-transcribed mRNA, leaf morphogenesis; LOCATED IN: cytosol, nucleus, cytoplasmic mRNA processing body; EXPRESSED IN: whole plant, guard cell, cultured cell; CONTAINS InterPro DOMAIN/s: WD40 repeat-like-containing domain (InterPro:IPR011046), WD40 repeat 2 (InterPro:IPR019782), WD40-repeat-containing domain (InterPro:IPR017986), WD40 repeat (InterPro:IPR001680), WD40/YVTN repeat-like-containing domain (InterPro:IPR015943), WD40 repeat, subgroup (InterPro:IPR019781); BEST Arabidopsis thaliana protein match is: varicose-related (TAIR:AT3G13290.1); Has 1013 Blast hits to 919 proteins in 280 species: Archae - 4; Bacteria - 227; Metazoa - 270; Fungi - 225; Plants - 138; Viruses - 6; Other Eukaryotes - 143 (source: NCBI BLink). | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Protein Annotations |
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| Coordinates (TAIR10) | chr3:+:4304085..4309949 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Molecular Weight (calculated) | 145729.00 Da | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| IEP (calculated) | 6.01 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| GRAVY (calculated) | -0.36 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Length | 1344 amino acids | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Sequence (TAIR10) (BLAST) |
0001: MASSPGNTNP HNTPPFDLGI LFKPSSNPYP PPAASYPPPT GPFLHNQYDQ QHYAPPGISA QPSPVTQQQQ DVSSSSAATN LHPQRTLSYP TPPLNLQSPR 0101: SNHNPGTHIL ALLNNTNNGA PVANQEPSHQ LPVVNHNEIA RSFPGGSGPI RVPSCKLPKG RRLIGEHAVY DVDVRLQGEI QPQLEVTPIT KYGSDPQLVV 0201: GRQIAVNKVY ICYGLKGGNI RVLNINTALR SLFRGHSQRV TDMAFFAEDV DMLASVSLDG KVFVWKISEG SEGEDQPQIT GKIVLALQIL GEEDTKHPRV 0301: CWHCHKQEIL VVSIGKHVLR IDTTKVGRGE VFSAEAPLQC PLDKLIDGVQ IVGKHDGEVT DLSMCQWMTT RLVSSSVDGT IKIWQDRKAQ PLVVLRPHDG 0401: HPVSSATFVT SPERPDHIIL ITGGPLNREM KIWVSAGEEG WLLPADAESW RCTQTLDLKS STEPRAEEAF FNQVIALSEA GLLLLANAKR NALYAVHLDY 0501: GSSPVGTRMD YLSEFTVTMP ILSFIGTNDP PEEPIVKVYC VQTLAIQQYT LDLCLCLPPP IENMGLEKSD SSVSREANLV EGMSEPSGLK PTDLPSVDSV 0601: PKPSIIVNRS ESANKLSFPS AEATSQAIVP PNGEPKTSGL PSQTSGAGSA YATLPQLPLS PRLSSKLSGY HTPVEAIEPV IPHHELGGKT PSADYSVDRQ 0701: MDAVGERNLD VSSVEEISRS KDSNVTPDDD VSGMRSPSAF FKHPTHLVTP SEILMGVSSA EASITTEDRR DRDANIQDVN NDPRDTEVEV KEISEARSTQ 0801: NGEINDHDET ENCTSENREK VFCSQVSNLS TEMARDCYPS TEGTFIPGES KAYGQPIKAG DESGVDSRGG PAKLLKGKKQ KAKNSQGPGL SSTSSNVANL 0901: ADSFNEQSQS LSHPMTDLLP QLLAMQETMN QVMASQKEMQ RQLSNAATGP IGKESKRLEV ALGRMIEKSS KSNADALWAR IQEETVKNEK ALRDHAQQIV 1001: NATTNFMSKE LNAMFEKTIK KELAAIGPAL ARSVVPVIEK TVSSAITESF QRGIGDKAVN QLDKSVNIKL EATVARQIQA QFQTSGKQAL QEGLRSSVES 1101: SVIPSFEKAC KAMFDQIDSA FQKGIAEHTN AAQQRFDSGH SQLAHTLKES ITSASSVAQA LSRELAETQR NLLALAAAGA NSGGSNSLVT QLSGGPLGAL 1201: LEKVEAPMDP TTELSRLISE RKYEESFTSA LQRSDVSIVS WLCSQVDLRG LLAMNPLPLS QGVLLSLLQQ LACDISKDTS RKLAWMTDVV AAINPSDQMI 1301: AVHARPIFEQ VYQILHHHRN APGSDVSAIR LIMHVINSML MGCK |
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| See Also |
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Citation
If you find this resource useful please cite one of the following publications:
Hooper CM, Castleden I, Tanz SK, Aryamanesh, and Millar, AH (2017) SUBA4: the interactive data analysis centre for Arabidopsis subcellular protein locations Nucleic Acids Res. Jan 4;45(D1):D1064-D1074. doi: 10.1093/nar/gkw1041 (PubMed)
Hooper CM, Tanz SK, Castleden IR, Vacher MA, Small ID, Millar AH (2014) "SUBAcon: a consensus algorithm for unifying the subcellular localization data of the Arabidopsis proteome. Bioinformatics." 1;30(23):3356-64. (Bioinformatics) (PubMed)