PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GSVIVT01008486001
Common NameLOC100260988, VIT_17s0000g01870
Organism
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: 234aa    MW: 26315.7 Da    PI: 8.8561
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSVIVT01008486001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.74.9e-065779123
                       EEETTTTEEESSHHHHHHHHHHT CS
            zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                       y C++C++ F r  nL+ H r+H
  GSVIVT01008486001 57 YICEICNQGFQRDQNLQMHRRRH 79
                       89********************9 PP

2zf-C2H217.79.8e-06134156123
                        EEETTTTEEESSHHHHHHHHHHT CS
            zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                        ++C++C+k +  +s++k H++t+
  GSVIVT01008486001 134 WVCEKCNKGYAVQSDYKAHLKTC 156
                        58*******************98 PP

3zf-C2H210.80.0015164181522
                        TTTEEESSHHHHHHHHHH CS
            zf-C2H2   5 dCgksFsrksnLkrHirt 22 
                        dCg++Fsr +++  H+  
  GSVIVT01008486001 164 DCGRVFSRVESFIEHQDA 181
                        9**************976 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.11E-55679No hitNo description
Gene3DG3DSA:3.30.160.605.6E-65679IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.8665779IPR007087Zinc finger, C2H2
PfamPF128740.0115775No hitNo description
SMARTSM003550.00655779IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002805979IPR007087Zinc finger, C2H2
PROSITE patternPS01359059139IPR019786Zinc finger, PHD-type, conserved site
SMARTSM0035521098128IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.609.6E-5125155IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.11E-5129154No hitNo description
SMARTSM0035546134161IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 234 aa     Download sequence    Send to blast
MLGCSNSDNN NNSSAEPFAS LENGSNSKRK RRPAGTPDPD AEVVSLSPKT LLESDRYICE  60
ICNQGFQRDQ NLQMHRRRHK VPWKLLKRET PVVRKRVFVC PEPSCLHHDP CHALGDLVGI  120
KKHFRRKHSN HKQWVCEKCN KGYAVQSDYK AHLKTCGTRG HSCDCGRVFS RVESFIEHQD  180
ACNMGHLRPE SQLLQPAACL SRTASSPSPS SETNFSVPPW SAVNHTESPL QYQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C4e-18130183356Zinc finger protein JACKDAW
5b3h_F4e-18130183356Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Vvi.125490.0bud| fruit| leaf
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expression levels gradually decrease with aging in both the shoot and root vasculature. {ECO:0000269|PubMed:16813575}.
UniprotTISSUE SPECIFICITY: Mainly expressed in the endodermis, the gravity-sensing tissue in inflorescence stems. Mostly present in stems and flowers, and, to a lower extent, in seedlings, hypocotyls, roots and the shoot apical meristem (SAM). {ECO:0000269|PubMed:16813575}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor involved in inflorescence stems gravitropism, probably by regulating starch accumulation in amyloplasts of graviperceptive cells. Required for stem circumnutation movements. Regulates lateral organ morphogenesis and gravitropic responses (PubMed:24039602). Acts cooperatively with IDD16 to control silique and branche orientation (PubMed:24039602). Involved in the establishment of auxin gradients through the regulation of auxin biosynthesis and transport (PubMed:24039602). {ECO:0000269|PubMed:16813575, ECO:0000269|PubMed:18259878, ECO:0000269|PubMed:24039602, ECO:0000269|PubMed:9210330}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not regulated by auxin. {ECO:0000269|PubMed:24039602}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAM4669390.0AM466939.2 Vitis vinifera contig VV78X012233.18, whole genome shotgun sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002283220.21e-167PREDICTED: protein SHOOT GRAVITROPISM 5
SwissprotF4IPE31e-115IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBLA0A438K9X91e-165A0A438K9X9_VITVI; Protein SHOOT GRAVITROPISM 5
STRINGVIT_17s0000g01870.t011e-166(Vitis vinifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP9516242
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G01940.11e-113C2H2-like zinc finger protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Kim JY,Ryu JY,Baek K,Park CM
    High temperature attenuates the gravitropism of inflorescence stems by inducing SHOOT GRAVITROPISM 5 alternative splicing in Arabidopsis.
    New Phytol., 2016. 209(1): p. 265-79
    [PMID:26256266]
  3. Ryu JY,Kim JY,Park CM
    Adaptive thermal control of stem gravitropism through alternative RNA splicing in Arabidopsis.
    Plant Signal Behav, 2015. 10(11): p. e1093715
    [PMID:26452406]
  4. Qu Y, et al.
    Peroxisomal CuAO╬ and its product H2O2 regulate the distribution of auxin and IBA-dependent lateral root development in Arabidopsis.
    J. Exp. Bot., 2017. 68(17): p. 4851-4867
    [PMID:28992128]
  5. Shi H, et al.
    Zinc finger of Arabidopsis thaliana 6 is involved in melatonin-mediated auxin signaling through interacting INDETERMINATE DOMAIN15 and INDOLE-3-ACETIC ACID 17.
    J. Pineal Res., 2018. 65(2): p. e12494
    [PMID:29607541]