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.008G168900.1
Common NameB456_008G168900, LOC105764384
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: 561aa    MW: 60111.9 Da    PI: 9.3045
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.008G168900.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.22.9e-057294123
                        EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                        + C+ C+k F r  nL+ H r H
  Gorai.008G168900.1 72 FICEVCNKGFQREQNLQLHRRGH 94
                        89*******************88 PP
2zf-C2H213.20.00027148170123
                         EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                         +kC++C+k++  +s+ k H +t+
  Gorai.008G168900.1 148 WKCEKCSKRYAVQSDWKAHSKTC 170
                         58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.606.2E-67194IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.98E-77194No hitNo description
PfamPF121712.7E-57294IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015710.997294IPR007087Zinc finger, C2H2
SMARTSM003550.00527294IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002807494IPR007087Zinc finger, C2H2
SMARTSM00355130113143IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.0E-5136169IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.98E-7143168No hitNo description
SMARTSM00355130148168IPR015880Zinc 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: 561 aa     Download sequence    Send to blast
MATASSSATF FGNSAENENP MIKQQSSAAP TSSTAPTTAP HSKKKRNQPG TPNPDVEVIA  60
LSPKSLMATN RFICEVCNKG FQREQNLQLH RRGHNLPWKL KQKSTKEVKK KVYLCPEPTC  120
VHHEPSRALG DLTGIKKHYS RKHGEKKWKC EKCSKRYAVQ SDWKAHSKTC GTREYRCDCG  180
TLFSRRDSFI THRAFCDALA QETARHPTNN LTPIGSHHIF GGNHHQMSLG LSQNQPLTSN  240
MLRLGSGTGV AKFEHLNSPP SNPSSLQNMP AFFMGDAANQ GFLPEHQSHH GNGPYINKPL  300
HGLMQLPDLQ GNTNSTAPNS ASLFNLGFFP SNSGASSIST GENGGASNSG FLSGNQFNMG  360
DVQVGSGMAS LYSSSSMQHE NISPNMSATA LLQKAAQMGS TTSNNTCSLL RGLGSSSSSG  420
VKSDRQVFAP NNFESGGSLR SQMENDSNLQ GLMNSLANGN SSIFGQDHSN FGGFTGNGMT  480
VEHHSNNANF SNVDEAKLHQ KLGVRIGESD KLTLDFLGVG EMVGNMGGNG QHGINIGSLN  540
PDVKSSAQAT SQQFGCPKLV *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C4e-34144205364Zinc finger protein JACKDAW
5b3h_F4e-34144205364Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gra.23700.0flower|seedling| flowering
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO488199430.0
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). {ECO:0000269|PubMed:24821766, ECO:0000305|PubMed:19726569}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00256DAPTransfer from AT2G02080Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by gibberellin. {ECO:0000305|PubMed:17933900}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMap-Retrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012438382.10.0PREDICTED: protein indeterminate-domain 4, chloroplastic
RefseqXP_012438383.10.0PREDICTED: protein indeterminate-domain 4, chloroplastic
RefseqXP_012438384.10.0PREDICTED: protein indeterminate-domain 4, chloroplastic
SwissprotQ8GYC11e-141IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBLA0A0D2U4K40.0A0A0D2U4K4_GOSRA; Uncharacterized protein
STRINGGorai.008G168900.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM43732654
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02080.11e-119indeterminate(ID)-domain 4
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. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]