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.002G171100.1
Common NameB456_002G171100, LOC105785612
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: 414aa    MW: 45832.5 Da    PI: 8.4365
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.002G171100.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.74.8e-066082123
                        EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                        y+C++C++ F r  nL+ H r+H
  Gorai.002G171100.1 60 YVCEICNQGFQRDQNLQMHRRRH 82
                        9*********************9 PP
2zf-C2H216.23e-05137159123
                         EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                         ++C++C+k +  +s++k H++t+
  Gorai.002G171100.1 137 WVCEKCSKGYAVQSDYKAHLKTC 159
                         58*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.601.6E-55982IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.83E-55982No hitNo description
PROSITE profilePS5015710.976082IPR007087Zinc finger, C2H2
SMARTSM003550.00526082IPR015880Zinc finger, C2H2-like
PROSITE patternPS01359062142IPR019786Zinc finger, PHD-type, conserved site
PROSITE patternPS0002806282IPR007087Zinc finger, C2H2
SMARTSM00355190101131IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.608.8E-5128158IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.83E-5132157No hitNo description
SMARTSM0035560137164IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009630Biological Processgravitropism
GO:0009965Biological Processleaf morphogenesis
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:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043621Molecular Functionprotein self-association
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046872Molecular Functionmetal ion binding
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 414 aa     Download sequence    Send to blast
MLDNNSSISA APLPSSSSDP LTPLENGATH KRKRKPAGTP DPDAEVVSLS PKTLLESDRY  60
VCEICNQGFQ RDQNLQMHRR RHKVPWKLLK RESQEVKKRV FVCPEPTCLH HDPCHALGDL  120
VGIKKHFRRK HSNQKQWVCE KCSKGYAVQS DYKAHLKTCG TRGHSCDCGR VFSRVESFIE  180
HQDACTIRRV QPELQAQLQP AAACSSRTAS STSPSSDANF SIAPLHGLPI TKSTEPVFLY  240
KRVSGSDHQR QQLQHNLELQ LLPSSTANSR DSDEEYATHL KLSIGSNDGG EKNASETTLE  300
ATRLKEFASG QLKLAMAEKA YAEKARQEAK RQIEMAELEF ASAKRIRQQA QGELEKAQAL  360
KDQATKKISA TIMQITCQTC KHQFQTSTAA GPDDETSLAM SYMSSATTEG EGE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-18134185455Zinc finger protein JACKDAW
5b3h_F3e-18134185455Zinc 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_012467178.10.0PREDICTED: protein SHOOT GRAVITROPISM 5-like
RefseqXP_016708157.10.0PREDICTED: protein SHOOT GRAVITROPISM 5-like
SwissprotF4IPE31e-164IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBLA0A0D2QEG80.0A0A0D2QEG8_GOSRA; Uncharacterized protein
TrEMBLA0A1U8L0L10.0A0A1U8L0L1_GOSHI; protein SHOOT GRAVITROPISM 5-like
STRINGGorai.002G171100.10.0(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
AT1G68130.11e-148indeterminate(ID)-domain 14
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]