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AT5G39550.1
Subcellular Consensus
(Prediction and Experimental)
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SUBAcon:
nucleus 1.000
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 the VIM3/ORTH1 protein that is similar to VIM1. This protein has an N-terminal PHD domain and two RING domains surrounding an SRA domain. 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. This protein functions as an E3 ubiquitin ligase in vitro with members of the UBC8 family E2s. Either of the two RING domains present in the protein can promote ubiquitylation in vitro, but, not the PHD domain. Over-expression of ORTH1/VIM3 leads to decreased levels of FWA methylation, increased levels of FWA transcripts, and delayed flowering. Cen180 repeats are also hypomethylated in plants overexpressing this protein.
Computational
Description (TAIR10)
VARIANT IN METHYLATION 3 (VIM3); 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); BEST Arabidopsis thaliana protein match is: Zinc finger (C3HC4-type RING finger) family protein (TAIR:AT1G66040.1); Has 6556 Blast hits to 5308 proteins in 497 species: Archae - 0; Bacteria - 14; Metazoa - 4783; Fungi - 431; Plants - 899; Viruses - 19; Other Eukaryotes - 410 (source: NCBI BLink).
Protein Annotations
EC:6.3.2.-eggNOG:COG3440eggNOG:ENOG410IFAPEMBL:AB012243
EMBL:AK176778EMBL:AK221256EMBL:BT010573EMBL:CP002688
EnsemblPlants:AT5G39550EnsemblPlants:AT5G39550.1entrez:833951Gene3D:2.30.280.10
Gene3D:3.30.40.10GeneID:833951Genevisible:Q9FKA7GO:GO:0004842
GO:GO:0005634GO:GO:0005720GO:GO:0008270GO:GO:0008327
GO:GO:0010216GO:GO:0010228GO:GO:0010424GO:GO:0010428
GO:GO:0010429GO:GO:0016567GO:GO:0016568GO:GO:0016874
GO:GO:0032776GO:GO:0042393GO:GO:0061630GO:GO:0090309
Gramene:AT5G39550.1hmmpanther:PTHR14140HOGENOM:HOG000240700InParanoid:Q9FKA7
InterPro:IPR001841InterPro:IPR001965InterPro:IPR003105InterPro:IPR011011
InterPro:IPR013083InterPro:IPR015947InterPro:IPR017907InterPro:IPR019786
InterPro:IPR027370KEGG:ath:AT5G39550KO:K10638ncoils:Coil
OMA:VTKCSVEPaxDb:Q9FKA7Pfam:PF00097Pfam:PF02182
Pfam:PF13445Pfam:PF13920Pfam:Q9FKA7Pfscan:PS50089
Pfscan:PS51015PhylomeDB:Q9FKA7PRIDE:Q9FKA7PRO:PR:Q9FKA7
PROSITE:PS00518PROSITE:PS01359PROSITE:PS50089PROSITE:PS51015
ProteinModelPortal:Q9FKA7Proteomes:UP000006548RefSeq:NP_198771.1scanprosite:PS00518
scanprosite:PS01359SMART:SM00184SMART:SM00249SMART:SM00466
SMR:Q9FKA7STRING:3702.AT5G39550.1SUPFAM:SSF57850SUPFAM:SSF57903
SUPFAM:SSF88697TAIR:AT5G39550tair10-symbols:ORTH1tair10-symbols:VIM3
UniGene:At.30336UniPathway:UPA00143UniProt:Q9FKA7
Coordinates (TAIR10) chr5:-:15837408..15840503
Molecular Weight (calculated) 68302.20 Da
IEP (calculated) 7.65
GRAVY (calculated) -0.57
Length 617 amino acids
Sequence (TAIR10)
(BLAST)
001: MAIETQLPCD GDGVCMRCQV NPPSEETLTC GTCVTPWHVP CLLPESLASS TGEWECPDCS GVVVPSAAPG TGNARPESSG SVLVAAIRAI QADETLTEAE
101: KAKKRQKLMS GGGDDGVDEE EKKKLEIFCS ICIQLPERPI TTPCGHNFCL KCFEKWAVGQ GKLTCMICRS KIPRHVAKNP RINLALVSAI RLANVTKCSV
201: EATAAKVHHI IRNQDRPEKA FTTERAVKTG KANAASGKFF VTIPRDHFGP IPAENDVTRK QGVLVGESWE DRQECRQWGA HFPHIAGIAG QSAVGAQSVA
301: LSGGYDDDED HGEWFLYTGS GGRDLSGNKR INKKQSSDQA FKNMNESLRL SCKMGYPVRV VRSWKEKRSA YAPAEGVRYD GVYRIEKCWS NVGVQGSFKV
401: CRYLFVRCDN EPAPWTSDEH GDRPRPLPNV PELETAADLF VRKESPSWDF DEAEGRWKWM KSPPVSRMAL DPEERKKNKR AKNTMKARLL KEFSCQICRE
501: VLSLPVTTPC AHNFCKACLE AKFAGITQLR ERSNGGRKLR AKKNIMTCPC CTTDLSEFLQ NPQVNREMME IIENFKKSEE EADASISEEE EEESEPPTKK
601: IKMDNNSVGG SGTSLSA
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)