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.004G195900.1
Common NameB456_004G195900, LOC105792043
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 HD-ZIP
Protein Properties Length: 302aa    MW: 33554.7 Da    PI: 7.5059
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.004G195900.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox60.52.7e-19141195256
                         T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
            Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                         rk+ +++k+q  +Lee F+++++++ +++  LAk+lgL  rqV vWFqNrRa+ k
  Gorai.004G195900.1 141 RKKLRLSKDQSAILEESFKEHNTLNPKQKMALAKQLGLRPRQVEVWFQNRRARTK 195
                         788899***********************************************98 PP
2HD-ZIP_I/II130.56.6e-42141230191
         HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 
                         +kk+rlsk+q+++LEesF+e+++L+p++K++la++Lgl+prqv+vWFqnrRARtk+kq+E+d+e+Lkr++++l+een+rL+kev+eLr +l
  Gorai.004G195900.1 141 RKKLRLSKDQSAILEESFKEHNTLNPKQKMALAKQLGLRPRQVEVWFQNRRARTKLKQTEVDCEFLKRCCENLTEENRRLQKEVQELR-AL 230
                         69*************************************************************************************9.55 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046188.6E-332114IPR006712HD-ZIP protein, N-terminal
SuperFamilySSF466898.36E-19132198IPR009057Homeodomain-like
PROSITE profilePS5007117.459137197IPR001356Homeobox domain
SMARTSM003891.1E-16139201IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.609.9E-19141195IPR009057Homeodomain-like
CDDcd000861.60E-16141198No hitNo description
PfamPF000461.2E-16141195IPR001356Homeobox domain
PRINTSPR000311.5E-5168177IPR000047Helix-turn-helix motif
PROSITE patternPS000270172195IPR017970Homeobox, conserved site
PRINTSPR000311.5E-5177193IPR000047Helix-turn-helix motif
PfamPF021832.3E-11197231IPR003106Leucine zipper, homeobox-associated
SMARTSM003404.2E-27197240IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009641Biological Processshade avoidance
GO:0009734Biological Processauxin-activated signaling pathway
GO:0009826Biological Processunidimensional cell growth
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 302 aa     Download sequence    Send to blast
MMVGKEDLGL SLSLGFPQNH HSLQLNLRPS LLPSSVDSCS SVPSGFTAFH KSSWNDVSAP  60
SDPNAESFRG ETRSFLRGID VNRLPSTVDC EEEAGVSSPN STISSVSGKR SEREGTNGDE  120
LDIERACSRG ISDEEDGDAS RKKLRLSKDQ SAILEESFKE HNTLNPKQKM ALAKQLGLRP  180
RQVEVWFQNR RARTKLKQTE VDCEFLKRCC ENLTEENRRL QKEVQELRAL KLSPQFYMQM  240
TPPTTLTMCP SCERVGASST VDPRSHHQLP QTHHRAIPIN PWAPAAAPIP HGPFDALRPQ  300
S*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1139145SRKKLRL
2189197RRARTKLKQ
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that plays a role in auxin-mediated morphogenesis. Negatively regulates lateral root elongation. {ECO:0000269|PubMed:12492842}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00550DAPTransfer from AT5G47370Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By indole-3-acetic acid (IAA). {ECO:0000269|PubMed:12492842}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHM1347910.0HM134791.1 Gossypium hirsutum homeodomain-leucine zipper protein HD2 (HB2) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012475863.10.0PREDICTED: homeobox-leucine zipper protein HAT4
SwissprotP466011e-120HAT2_ARATH; Homeobox-leucine zipper protein HAT2
TrEMBLA0A0D2R7R40.0A0A0D2R7R4_GOSRA; Uncharacterized protein
STRINGGorai.004G195900.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM15632690
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G16780.11e-110homeobox protein 2
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. Zou LJ, et al.
    Role of Transcription Factor HAT1 in Modulating Arabidopsis thaliana Response to Cucumber mosaic virus.
    Plant Cell Physiol., 2016. 57(9): p. 1879-89
    [PMID:27328697]