PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GSVIVT01025855001
Common NameVIT_08s0040g00240
Organism
Vitis vinifera
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; rosids incertae sedis; Vitales; Vitaceae; Vitis
Family C2H2
Protein Properties Length: 391aa    MW: 45212.7 Da    PI: 8.7445
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSVIVT01025855001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H220.89.9e-076484323
                       ETTTTEEESSHHHHHHHHHHT CS
            zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
                       C+ Cg sF+ + +Lk+H+++H
  GSVIVT01025855001 64 CEECGASFKKPAYLKQHMQSH 84
                       *******************99 PP
2zf-C2H2193.9e-06110134123
                        EEET..TTTEEESSHHHHHHHHHHT CS
            zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                        ++Cp  dC  s++rk++L+rH+  H
  GSVIVT01025855001 110 FTCPvdDCQSSYRRKDHLTRHLLQH 134
                        89*******************9887 PP
3zf-C2H217.61e-05139164123
                        EEET..TTTEEESSHHHHHHHHHH.T CS
            zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                        ++Cp  +C+++F  + n+krHi+  H
  GSVIVT01025855001 139 FTCPveNCKRRFAFQGNMKRHIKEfH 164
                        89*********************988 PP
4zf-C2H220.81e-06178202123
                        EEET..TTTEEESSHHHHHHHHHHT CS
            zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                        y+Cp   Cgk+F+  s L++H  +H
  GSVIVT01025855001 178 YVCPelGCGKVFKFASKLQKHEDSH 202
                        9********************9888 PP
5zf-C2H213.30.00024269293223
                        EET..TTTEEESSHHHHHHHHHH.T CS
            zf-C2H2   2 kCp..dCgksFsrksnLkrHirt.H 23 
                        kC+   C  +Fs+ksnL +H +  H
  GSVIVT01025855001 269 KCHfkGCLHTFSTKSNLDQHVKAvH 293
                        79999***************99877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.15E-81684No hitNo description
PROSITE profilePS501578.5381845IPR007087Zinc finger, C2H2
SMARTSM00355141840IPR015880Zinc finger, C2H2-like
SMARTSM003550.00816284IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.1576289IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.604.3E-663110IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS0002806484IPR007087Zinc finger, C2H2
SuperFamilySSF576671.16E-6103136No hitNo description
SMARTSM003550.0027110134IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.66110139IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.602.7E-9111136IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280112134IPR007087Zinc finger, C2H2
SuperFamilySSF576672.35E-6137165No hitNo description
Gene3DG3DSA:3.30.160.603.0E-6137161IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.018139164IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.801139169IPR007087Zinc finger, C2H2
PROSITE patternPS000280141164IPR007087Zinc finger, C2H2
SuperFamilySSF576674.23E-5174203No hitNo description
Gene3DG3DSA:3.30.160.608.4E-8174202IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0023178202IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.928178207IPR007087Zinc finger, C2H2
PROSITE patternPS000280180202IPR007087Zinc finger, C2H2
SMARTSM0035513210235IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280212235IPR007087Zinc finger, C2H2
SMARTSM0035514238259IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.609.7E-5249290IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576679.37E-7251306No hitNo description
PROSITE profilePS5015710.803268298IPR007087Zinc finger, C2H2
SMARTSM003550.026268293IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280270293IPR007087Zinc finger, C2H2
SMARTSM003559.8299325IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280301325IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005730Cellular Componentnucleolus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0008097Molecular Function5S rRNA binding
GO:0046872Molecular Functionmetal ion binding
GO:0080084Molecular Function5S rDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 391 aa     Download sequence    Send to blast
MGERGERKEP IFRDVRRYFC DYCGLCRSKK ALIRAHMLSH HKEEMEGQKV HNNEEKEGEK  60
SNACEECGAS FKKPAYLKQH MQSHSLEALN FFGSSIKRPQ SRTTCFERPF TCPVDDCQSS  120
YRRKDHLTRH LLQHQGKLFT CPVENCKRRF AFQGNMKRHI KEFHDEESPP NDVGSKQYVC  180
PELGCGKVFK FASKLQKHED SHAKLDSVEA VCLEPECLKH FTNEQCLKAH LQSCHQHIIC  240
EICGTKQLKK NIKRHLRTHE SVCSSERVKC HFKGCLHTFS TKSNLDQHVK AVHLKLRPFV  300
CGIPGCGMRF PFKHVRDNHE KTGCHVYTHG DFEELDEQFR LRPKGGRKRK SPPIEALLRK  360
RVTPPSQSDS ILCQGPEYLS WLLSDAEDQQ *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
2i13_A4e-13583221184Aart
2i13_B4e-13583221184Aart
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1341349RPKGGRKRK
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Both isoforms 1 and 2 transcripts are expressed in seedlings and both TFIIIA and TFIIIA-C are present at similar ratios in 10-day-old seedlings (at protein level). In correlation with the reorganization of 5S rDNA chromatin to a mature state, full-length isoform 1 protein TFIIIA with transcriptional activity accumulates and permits de novo transcription of 5S rRNA. Isoforms 1 and 2 transcripts accumulate in various tissues of the reproductive phase, including flowers and siliques, but only isoform 2 is present in mature seeds. In flowers, both TFIIIA and TFIIIA-C are present at similar ratios (at protein level). Very low amounts of TFIIIA are found in extracts from fresh siliques compared to TFIIIA-C. The amount of full-length TFIIIA protein progressively increases from fresh siliques to seeds concomitant with lower proportions of the shorter TFIIIA-C protein (at protein level) thus leading to 5S rRNA accumulation in the seed. {ECO:0000269|PubMed:22353599}.
UniprotTISSUE SPECIFICITY: Expressed in seedlings, flowers, siliques and seeds. {ECO:0000269|PubMed:22353599}.
Functional Description ? help Back to Top
Source Description
UniProtEssential protein (PubMed:22353599). Isoform 1 is a transcription activator the binds both 5S rDNA and 5S rRNA and stimulates the transcription of 5S rRNA gene (PubMed:12711688, PubMed:22353599). Isoform 1 regulates 5S rRNA levels during development (PubMed:22353599). {ECO:0000269|PubMed:12711688, ECO:0000269|PubMed:22353599}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00229DAPTransfer from AT1G72050Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankFQ3808190.0FQ380819.1 Vitis vinifera clone SS0ACG27YJ08.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002278827.10.0PREDICTED: transcription factor IIIA
SwissprotQ84MZ41e-136TF3A_ARATH; Transcription factor IIIA
TrEMBLD7TQ660.0D7TQ66_VITVI; Uncharacterized protein
STRINGVIT_08s0040g00240.t010.0(Vitis vinifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP29811627
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.21e-138transcription factor IIIA