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 Gorai.007G002600.2
Common NameB456_007G002600, LOC105801693
Organism
Gossypium raimondii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family C2H2
Protein Properties Length: 372aa    MW: 41933.7 Da    PI: 9.2278
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.007G002600.2genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.94.2e-065173123
                        EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                        y+C++C++ F r  nL+ H r+H
  Gorai.007G002600.2 51 YVCEICNQGFQRDQNLQMHRRRH 73
                        9*********************9 PP
2zf-C2H215.93.7e-05128150123
                         EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                         ++C++C+k +  +s++k H++t+
  Gorai.007G002600.2 128 WVCQKCSKGYAVQSDYKAHLKTC 150
                         58*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576674.05E-54874No hitNo description
Gene3DG3DSA:3.30.160.601.4E-55073IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.00525173IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.975173IPR007087Zinc finger, C2H2
PROSITE patternPS0002805373IPR007087Zinc finger, C2H2
PROSITE patternPS01359053133IPR019786Zinc finger, PHD-type, conserved site
SMARTSM0035519092122IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.608.5E-4119149IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM0035596128148IPR015880Zinc finger, C2H2-like
SMARTSM0035548155177IPR015880Zinc 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: 372 aa     Download sequence    Send to blast
MLPDNSCSSQ PLYLENGSTN NKRKRRPAGT PDPDAEVVSL SPKTLLESDR YVCEICNQGF  60
QRDQNLQMHR RRHKVPWKLL KRETPVVRKR VFVCPEPTCL HHDPCHALGD LVGIKKHFRR  120
KHSNHKQWVC QKCSKGYAVQ SDYKAHLKTC GTRGHSCDCG RVFSRVESFI EHQDACHMGR  180
VRQEPQALQP ACLSRTASSH SPSSDTNFST SPWPSSLMLA KTMDTPSSPQ KAQYHNLELQ  240
LLTTSSPSPT EAKKYSTQAG EQLRLAMAEK AYAEEARREA KRQMEIAEQE FGKAKRIRLQ  300
AQAELEKAHD IKEHAIKQIR STMLEITCQA CKQQFQARTP LGDKCPVVNY ISSGITEGEV  360
ENDIGAKVTK T*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-17126176555Zinc finger protein JACKDAW
5b3h_F2e-17126176555Zinc finger protein JACKDAW
Search in ModeBase
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012488378.10.0PREDICTED: protein SHOOT GRAVITROPISM 5-like isoform X2
SwissprotF4IPE31e-152IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBLA0A0D2T6H70.0A0A0D2T6H7_GOSRA; Uncharacterized protein
STRINGGorai.007G002600.10.0(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G01940.11e-140C2H2-like zinc finger protein
Publications ? help Back to Top
  1. Paterson AH, et al.
    Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.
    Nature, 2012. 492(7429): p. 423-7
    [PMID:23257886]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. 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]
  4. 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]
  5. Qu Y, et al.
    Peroxisomal CuAOζ 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]
  6. 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]