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AT1G57820.1
Subcellular Consensus
(Prediction and Experimental)
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SUBAcon:
nucleus 1.000
ASURE: nucleus
What is SUBAcon?
Experimental Localisations and PPI
FP MS/MS PPI
SUBAcon links
AGI-AGI relationships
Coexpression PPI
no PPI data
Description (TAIR10) protein_coding : Zinc finger (C3HC4-type RING finger) family protein
Curator
Summary (TAIR10)
Encodes a 645-amino acid methylcytosine-binding protein with a PHD domain, two RING finger domains, and an SRA domain that is involved in centromere heterochromatinization. This protein functions as an E3 ubiquitin ligase in vitro. The protein has been shown to bind to methylated cytosines of CG, CNG and CNN motifs via its SRA domain but has a preference for the former. It plays a role in the establishment/maintenance of chromatin structure during cell division and is localized in the nucleus. Plants over-expressing VIM1/ORTH2 show an inhibition in root growth and a delay in flowering. Both over-expression of GFP:ORTH2 and loss of ORTH2/VIM1 lead to decreased levels of DNA methylation. GFP:ORTH2 over-expressers also have increased levels of FWA transcripts.
Computational
Description (TAIR10)
VARIANT IN METHYLATION 1 (VIM1); CONTAINS InterPro DOMAIN/s: Zinc finger, RING-type, conserved site (InterPro:IPR017907), Zinc finger, PHD-type, conserved site (InterPro:IPR019786), Zinc finger, RING-type (InterPro:IPR001841), Zinc finger, PHD-type (InterPro:IPR001965), SRA-YDG (InterPro:IPR003105), Zinc finger, C3HC4 RING-type (InterPro:IPR018957), Zinc finger, FYVE/PHD-type (InterPro:IPR011011), Zinc finger, PHD-finger (InterPro:IPR019787); BEST Arabidopsis thaliana protein match is: zinc finger (C3HC4-type RING finger) family protein (TAIR:AT1G57800.1); Has 4294 Blast hits to 3626 proteins in 667 species: Archae - 0; Bacteria - 14; Metazoa - 3221; Fungi - 261; Plants - 573; Viruses - 10; Other Eukaryotes - 215 (source: NCBI BLink).
Protein Annotations
BioGrid:27382EC:6.3.2.-eggNOG:COG3440eggNOG:ENOG410IFAP
EMBL:AC079732EMBL:AY065438EMBL:AY117235EMBL:CP002684
EnsemblPlants:AT1G57820EnsemblPlants:AT1G57820.1entrez:842157Gene3D:2.30.280.10
Gene3D:3.30.40.10GeneID:842157Genevisible:Q8VYZ0GO:GO:0003682
GO:GO:0004842GO:GO:0005634GO:GO:0005720GO:GO:0008270
GO:GO:0008327GO:GO:0010216GO:GO:0010369GO:GO:0010385
GO:GO:0010424GO:GO:0010428GO:GO:0010429GO:GO:0016567
GO:GO:0016874GO:GO:0031508GO:GO:0032776GO:GO:0042393
GO:GO:0051301GO:GO:0061630GO:GO:0090309hmmpanther:PTHR14140
HOGENOM:HOG000240700InParanoid:Q8VYZ0InterPro:IPR001841InterPro:IPR001965
InterPro:IPR003105InterPro:IPR011011InterPro:IPR013083InterPro:IPR015947
InterPro:IPR017907InterPro:IPR019786InterPro:IPR019787InterPro:IPR027370
KEGG:ath:AT1G57820KO:K10638ncoils:CoilOMA:CMVCRAA
PaxDb:Q8VYZ0Pfam:PF00097Pfam:PF02182Pfam:PF13445
Pfam:PF13920Pfam:Q8VYZ0Pfscan:PS50016Pfscan:PS50089
Pfscan:PS51015PhylomeDB:Q8VYZ0PIR:E96612PRIDE:Q8VYZ0
PRO:PR:Q8VYZ0PROSITE:PS00518PROSITE:PS01359PROSITE:PS50016
PROSITE:PS50089PROSITE:PS51015ProteinModelPortal:Q8VYZ0Proteomes:UP000006548
RefSeq:NP_176092.2RefSeq:NP_974045.1scanprosite:PS00518scanprosite:PS01359
SMART:SM00184SMART:SM00249SMART:SM00466SMR:Q8VYZ0
STRING:3702.AT1G57820.1SUPFAM:SSF57850SUPFAM:SSF57903SUPFAM:SSF88697
TAIR:AT1G57820tair10-symbols:ORTH2tair10-symbols:VIM1UniGene:At.28484
UniPathway:UPA00143UniProt:Q8VYZ0
Coordinates (TAIR10) chr1:-:21414342..21417902
Molecular Weight (calculated) 71470.80 Da
IEP (calculated) 8.05
GRAVY (calculated) -0.68
Length 645 amino acids
Sequence (TAIR10)
(BLAST)
001: MARDIQLPCD GDGVCMRCKS NPPPEESLTC GTCVTPWHVS CLSSPPKTLA STLQWHCPDC SGEIDPLPVS GGATGFESAG SDLVAAIRAI EADESLSTEE
101: KAKMRQRLLS GKGVEEDDEE EKRKKKGKGK NPNLDVLSAL GDNLMCSFCM QLPERPVTKP CGHNACLKCF EKWMGQGKRT CGKCRSIIPE KMAKNPRINS
201: SLVAAIRLAK VSKSAAATTS KVFHFISNQD RPDKAFTTER AKKTGKANAA SGKIYVTIPP DHFGPIPAEN DPVRNQGLLV GESWEDRLEC RQWGAHFPHV
301: AGIAGQSTYG AQSVALSGGY KDDEDHGEWF LYTGSGGRDL SGNKRTNKEQ SFDQKFEKSN AALKLSCKLG YPVRVVRSHK EKRSAYAPEE GVRYDGVYRI
401: EKCWRKVGVQ GSFKVCRYLF VRCDNEPAPW TSDENGDRPR PIPNIPELNM ATDLFERKET PSWDFDEGEG CWKWMKPPPA SKKSVNVLAP EERKNLRKAI
501: KAAHSNTMRA RLLKEFKCQI CQQVLTLPVT TPCAHNFCKA CLEAKFAGKT LVRERSTGGR TLRSRKNVLN CPCCPTDISD FLQNPQVNRE VAEVIEKLKT
601: QEEDTAELED EDEGECSGTT PEEDSEQPKK RIKLDTDATV SATIR
See Also
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)