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 cra_locus_5807_iso_2
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Apocynaceae; Rauvolfioideae; Vinceae; Catharanthinae; Catharanthus
Family C2H2
Protein Properties Length: 498aa    MW: 55674.3 Da    PI: 8.5388
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
cra_locus_5807_iso_2genomeMPGR-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.46e-06114136123
                                          EEETTTTEEESSHHHHHHHHHHT CS
                              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                                          y+C++C++ F r  nL+ H r+H
  cra_locus_5807_iso_2_len_1589_ver_3 114 YVCEICNQGFQRDQNLQMHRRRH 136
                                          9*********************9 PP

2zf-C2H215.93.8e-05198220123
                                          EEETTTTEEESSHHHHHHHHHHT CS
                              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                                          ++C++C+k +  +s++k H++t+
  cra_locus_5807_iso_2_len_1589_ver_3 198 WVCEKCSKGYAVQSDYKAHLKTC 220
                                          58*******************98 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576678.71E-6113136No hitNo description
Gene3DG3DSA:3.30.160.602.1E-5113136IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.97114136IPR007087Zinc finger, C2H2
SMARTSM003550.0052114136IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280116136IPR007087Zinc finger, C2H2
SMARTSM00355210162192IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.6E-4189219IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576678.71E-6193218No hitNo description
SMARTSM0035560198225IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009590Biological Processdetection of gravity
GO:0009959Biological Processnegative gravitropism
GO:0009965Biological Processleaf morphogenesis
GO:0010031Biological Processcircumnutation
GO:0010601Biological Processpositive regulation of auxin biosynthetic process
GO:0048444Biological Processfloral organ morphogenesis
GO:2000012Biological Processregulation of auxin polar transport
GO:2000904Biological Processregulation of starch metabolic process
GO:0005634Cellular Componentnucleus
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 498 aa     Download sequence    Send to blast
RPGDPSIHTL LSSMSKTKNL CGERERKEKE KSPFSNLXQQ PTNYRIHFLS TTNPKLMLLD  60
NNTTSTGPSS SSDALTSSEN GVTQKRKRRP AGTPDPDAEV VYLSPKTLLE SDRYVCEICN  120
QGFQRDQNLQ MHRRRHKVPW KLLKREENST STDQQQVKKR VFVCPEPSCL HHDPCHALGD  180
LVGIKKHFRR KHSNNKQWVC EKCSKGYAVQ SDYKAHLKTC GTRGHSCDCG RVFSRVESFI  240
EHQDACSVRR IRPPAVPEVQ PLQQQALSAA CSSQAASSTS PSSDQTNFSI APIISSRILI  300
NMSNNNIIRP TTNLELQLLP SSSNAANIDH PQEKIIKCDE NNVTKLKLSL GSSGDERPQL  360
LRNEDSSSVA EAVDVAKLKQ GANEQLRMAM AEKAFAEEAR QEAKRQMELA EMEFGNAKRI  420
RQQAQNELEK AQLLREESIK KINETISEIT CHSCKQKFHH HHHQAHSTNI AAAAAIAVDE  480
TSPAMSYMSS ATTDAEGE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C4e-18196246555Zinc finger protein JACKDAW
5b3h_F4e-18196246555Zinc finger protein JACKDAW
Search in ModeBase
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00254DAPTransfer from AT2G01940Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not regulated by auxin. {ECO:0000269|PubMed:24039602}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007045432.20.0PREDICTED: protein SHOOT GRAVITROPISM 5
RefseqXP_024461730.10.0protein SHOOT GRAVITROPISM 5
SwissprotF4IPE31e-155IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBLA0A2K1ZH050.0A0A2K1ZH05_POPTR; Uncharacterized protein
STRINGEOY012640.0(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA10222482
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]