PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Cotton_A_13065_BGI-A2_v1.0
Organism
Gossypium arboreum
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: 467aa    MW: 52668.9 Da    PI: 8.8912
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cotton_A_13065_BGI-A2_v1.0genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.55.5e-065678123
                                EEETTTTEEESSHHHHHHHHHHT CS
                     zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                                y+C++C++ F r  nL+ H r+H
  Cotton_A_13065_BGI-A2_v1.0 56 YVCEICNQGFQRDQNLQMHRRRH 78
                                9*********************9 PP
2zf-C2H215.54.9e-05133155123
                                 EEETTTTEEESSHHHHHHHHHHT CS
                     zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                                 ++C++C+k +  +s++k H++t+
  Cotton_A_13065_BGI-A2_v1.0 133 WVCQKCSKGYAVQSDYKAHLKTC 155
                                 58*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576675.31E-55379No hitNo description
Gene3DG3DSA:3.30.160.601.9E-55578IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.00525678IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.975678IPR007087Zinc finger, C2H2
PROSITE patternPS01359058138IPR019786Zinc finger, PHD-type, conserved site
PROSITE patternPS0002805878IPR007087Zinc finger, C2H2
SMARTSM0035521097127IPR015880Zinc finger, C2H2-like
SMARTSM0035596133153IPR015880Zinc finger, C2H2-like
SMARTSM0035548160182IPR015880Zinc 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: 467 aa     Download sequence    Send to blast
MLPDNSCSSL PSLEPFTCID NGNNNNKRKR RPAGTPDPDA EVVSLSPKTL LESDRYVCEI  60
CNQGFQRDQN LQMHRRRHKV PWKLLKRETP VVRKRVFVCP EPSCLHHDPC HALGDLVGIK  120
KHFRRKHSNH KQWVCQKCSK GYAVQSDYKA HLKTCGTRGH SCDCGRVFSR VESFIEHQDA  180
CHMSRSRPQS QAMQPVCLSQ TASSSNPSND INFSTVPWPS LELANTTTDT MLLNPTKDNS  240
PKNAHYHDLE LQLLTTSNPT EVLVPPKKLD HHSIQLQLSI GSFQSTCTEK EATKKSTEIH  300
EKPVFVASRL KEEAIAQLRL AMAEKAYAEE ARKQARRQVE LAEHELAKAK RIRQQAQAES  360
AKAQALKNHA VKQINSTIFQ VTCHACRHRF QATIPPEENS LVVSYISSAI TEVTKFCNCG  420
DMVMDSLVNR VSRLKDKLLT PLGWASTKMN GNELGEEEYV NNNYGGK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-17129181355Zinc finger protein JACKDAW
5b3h_F3e-17129181355Zinc 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}.
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_017609042.10.0PREDICTED: protein SHOOT GRAVITROPISM 5-like
SwissprotF4IPE31e-143IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBLA0A1U8N6F90.0A0A1U8N6F9_GOSHI; protein indeterminate-domain 16-like isoform X1
STRINGGorai.006G190500.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM69328131
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G01940.11e-131C2H2-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 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]
  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]