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 GSVIVT01030182001
Common NameLOC100251742, VIT_08s0058g01300
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 B3
Protein Properties Length: 857aa    MW: 93702.9 Da    PI: 7.1394
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSVIVT01030182001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3573.7e-18307407199
                        EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
                 B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                        f+k l+ sd+++ grlvlpk +ae++   ++++e+  l+++d +g++W +++++  +++s++yvl+ G     ++ +L++gD+v+F++++  
  GSVIVT01030182001 307 FEKMLSASDAGRIGRLVLPKACAEAYfpPISQPEGLPLRIQDVKGKEWVFQFRFwpNNNSRMYVLE-GVTPCIQSMQLQAGDTVTFSRMD-P 396
                        89**************************555567778***************9989999999***9.********************876.7 PP

                        EE..EEEEE-S CS
                 B3  89 efelvvkvfrk 99 
                        e++lv++++++
  GSVIVT01030182001 397 EGKLVMGFRKA 407
                        77788877765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.108.8E-30299412IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.49E-19304406IPR015300DNA-binding pseudobarrel domain
CDDcd100179.87E-22305406No hitNo description
SMARTSM010192.5E-20307408IPR003340B3 DNA binding domain
PfamPF023621.2E-15307407IPR003340B3 DNA binding domain
PROSITE profilePS5086311.18307408IPR003340B3 DNA binding domain
PROSITE profilePS5105013.455572622IPR011124Zinc finger, CW-type
PfamPF074961.0E-9577619IPR011124Zinc finger, CW-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010030Biological Processpositive regulation of seed germination
GO:2000034Biological Processregulation of seed maturation
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 857 aa     Download sequence    Send to blast
MASKTCANVS CPGASSGSTI EWRKGWALRS GDFAILCDKC GSAFEQLVFC DMFHSKDSGW  60
RKCTACGKRL HCGCIASRSL LELLDSGGVN CINCIRSSGP HPMTGDEKAN ESGAMTVDNV  120
GEIRCTSVDN QLDGGSVEKM KLTQLGNDTS GDGLKNFLQS GNDNINGSLG QMKQEEVLPP  180
QGETANMMVK DIHESLVQTN LSITLGAPSG NPNVFPSAVV EEREQHKTST PIQQGPRSRH  240
LLPKPPRSAL SPVLETNTGI VPQIRVARPP AEGRGRNQLL PRYWPRITDQ ELQQISGDSN  300
STIVPLFEKM LSASDAGRIG RLVLPKACAE AYFPPISQPE GLPLRIQDVK GKEWVFQFRF  360
WPNNNSRMYV LEGVTPCIQS MQLQAGDTVT FSRMDPEGKL VMGFRKASNS VSMQDTQLSA  420
IPNGAHSSET FFSGVIENQP IISGYSGILQ SLKGSTDPHL NALSKHLNSA SGDIGWHKTE  480
KHGGKTREGL LLPSMLVPEK KRTRTIGSKS KRLLIDGQDA LELRLTWEEA QSLLRPPPSV  540
KPVIDVIEDY EFEAYTEPPV FGKRSIFTTL PSGGEEQWVQ CDSCSKWRKV PHDYLVPCQW  600
TCAENLWDQS RCSCSAPDEL SPRELEHILR QYKDFRKRRI AAVHRPAQEH EPSGLDALAN  660
AAALGDDMSD PAATSVATTT KHPRHRPGCS CIVCIQPPSG KGKHKPTCTC NVCMTVKRRF  720
KTLMMRKKKR QSEREAEIAQ INHNIWGAKD EAEVDSTSRL ATPNPDPSEM GSNRVSMMSL  780
LQVASLPLET YLKQNGLKSL AEQQGSSGSH VPPPQATGES EGPLNEDHCI TAPAVSEREN  840
GGDEEHSGQD QSKNDA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A9e-702854142131B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1716727KRRFKTLMMRKK
2716729KRRFKTLMMRKKKR
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Vvi.8210.0fruit
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional repressor of gene expression involved in embryonic pathways, such as LEC1, ABI3, and FUS3. Repressor of the sugar-inducible genes involved in the seed maturation program in seedlings. Plays an essential role in regulating the transition from seed maturation to seedling growth. Functionally redundant with VAL1/HSI2. {ECO:0000269|PubMed:17158584, ECO:0000269|PubMed:17267611}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAM4398220.0AM439822.1 Vitis vinifera, whole genome shotgun sequence, contig VV78X016243.17, clone ENTAV 115.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002267484.10.0PREDICTED: B3 domain-containing transcription repressor VAL2 isoform X1
RefseqXP_010653336.10.0PREDICTED: B3 domain-containing transcription repressor VAL2 isoform X1
SwissprotQ5CCK40.0VAL2_ARATH; B3 domain-containing transcription repressor VAL2
TrEMBLF6GXW80.0F6GXW8_VITVI; Uncharacterized protein
STRINGVIT_08s0058g01300.t010.0(Vitis vinifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP12361446
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G32010.10.0HSI2-like 1
Publications ? help Back to Top
  1. Jia H,McCarty DR,Suzuki M
    Distinct roles of LAFL network genes in promoting the embryonic seedling fate in the absence of VAL repression.
    Plant Physiol., 2013. 163(3): p. 1293-305
    [PMID:24043445]
  2. Chhun T, et al.
    HSI2 Repressor Recruits MED13 and HDA6 to Down-Regulate Seed Maturation Gene Expression Directly During Arabidopsis Early Seedling Growth.
    Plant Cell Physiol., 2016. 57(8): p. 1689-706
    [PMID:27335347]
  3. Yuan W, et al.
    A cis cold memory element and a trans epigenome reader mediate Polycomb silencing of FLC by vernalization in Arabidopsis.
    Nat. Genet., 2016. 48(12): p. 1527-1534
    [PMID:27819666]
  4. Li C,Cui Y
    A DNA element that remembers winter.
    Nat. Genet., 2016. 48(12): p. 1451-1452
    [PMID:27898079]