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.003G184900.5
Common NameB456_003G184900
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: 468aa    MW: 53550.1 Da    PI: 6.1458
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.003G184900.5genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox69.25.2e-2291146156
                         TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
            Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                         +++ +++t++q++eLe++F+++++p+ ++r +L+++lgL+ rqVk+WFqNrR+++k
  Gorai.003G184900.5  91 KKRYHRHTAHQIQELEAVFKECPHPDDKQRMKLSQELGLKPRQVKFWFQNRRTQMK 146
                         688999***********************************************998 PP
2START91.71.5e-292784622164
                         HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS..............SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S.. CS
               START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskv.............dsgealrasgvvdmvlallveellddkeqWdetla.. 77 
                         la +a++e+ k+   +ep+Wv+    e+g+evl   e s+              +++ea+r+s vv+m++ +lv  ++d + +W e ++  
  Gorai.003G184900.5 278 LAMSATDEVAKMCRTNEPLWVRNN--ETGKEVLNLDEHSRMfhwplnlkqrsseFRTEASRDSSVVIMNSITLVDAFVDAN-KWMELFPsi 365
                         6778999***************99..**********99999****************************************.******999 PP

                         ..EEEEEEEECTT.....EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE....TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEE CS
               START  78 ..kaetlevissg.....galqlmvaelqalsplvp.RdfvfvRyirq...lgagdwvivdvSvdseqkppesssvvRaellpSgiliepk 157
                           +a+ ++vis+g     g lqlm+ael +lsplvp R+ +f+Ry++q   + +  w+ivd  +d   +   + s+   +++pSg+li+++
  Gorai.003G184900.5 366 vaRAKCVQVISQGvsgtnGCLQLMYAELHVLSPLVPtREAYFLRYCQQqnvEDETYWAIVDFPLDGFHNSL-QTSFPLYKRRPSGCLIQDM 455
                         99**********************************************99888888*****9999887765.78888888*********** PP

                         CTCEEEE CS
               START 158 snghskv 164
                         +ng+s+v
  Gorai.003G184900.5 456 PNGYSRV 462
                         *****97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466892.09E-2083149IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.602.7E-2287154IPR009057Homeodomain-like
PROSITE profilePS5007117.36288148IPR001356Homeobox domain
SMARTSM003891.7E-2090152IPR001356Homeobox domain
PfamPF000461.8E-1991146IPR001356Homeobox domain
CDDcd000865.06E-1991149No hitNo description
PROSITE patternPS000270123146IPR017970Homeobox, conserved site
PROSITE profilePS5084828.744268467IPR002913START domain
SuperFamilySSF559611.34E-21269463No hitNo description
CDDcd088754.13E-87272462No hitNo description
PfamPF018524.9E-23278462IPR002913START domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048497Biological Processmaintenance of floral organ identity
GO:0005634Cellular Componentnucleus
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 468 aa     Download sequence    Send to blast
SEAKTVRETK RGRKMYGDCE AISSMGGNMV VSSETLFTST FQNPNFTYLP LEPLPPMIPK  60
EENGSLLRGK EEMKSGSESE LQETTEQPLK KKRYHRHTAH QIQELEAVFK ECPHPDDKQR  120
MKLSQELGLK PRQVKFWFQN RRTQMKAQQD RSENVILRAE NESLKSEFYR LQAELSKLVC  180
PNCGGPPVPG GVSFDELRIE NARLGEELER VCAIASRYIG RPIQTMGALM PPSLELDMNI  240
YPRQFLEPMP PTLSETPSYP DNNNLILMEE EKTIAMELAM SATDEVAKMC RTNEPLWVRN  300
NETGKEVLNL DEHSRMFHWP LNLKQRSSEF RTEASRDSSV VIMNSITLVD AFVDANKWME  360
LFPSIVARAK CVQVISQGVS GTNGCLQLMY AELHVLSPLV PTREAYFLRY CQQQNVEDET  420
YWAIVDFPLD GFHNSLQTSF PLYKRRPSGC LIQDMPNGYS RVRPFNF*
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in shoot apical meristem (SAM) with higher levels in L1 cells and the epidermal layer of young leaves. Expressed in the L1 of apical inflorescence meristems, early flower primordia, carpel and stamen filament epidermis, ovule primordia, nucellus and chalaze. {ECO:0000269|PubMed:16778018}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY3384960.0AY338496.1 Gossypium hirsutum homeodomain protein BNLGHi6863 (bnlghi6863) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012472199.10.0PREDICTED: homeobox-leucine zipper protein HDG5-like
SwissprotQ9FJS21e-152HDG5_ARATH; Homeobox-leucine zipper protein HDG5
TrEMBLA0A0D2MQP70.0A0A0D2MQP7_GOSRA; Uncharacterized protein (Fragment)
STRINGGorai.003G184900.10.0(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G46880.11e-141homeobox-7
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. 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]
  3. Lung SC, et al.
    Arabidopsis ACYL-COA-BINDING PROTEIN1 interacts with STEROL C4-METHYL OXIDASE1-2 to modulate gene expression of homeodomain-leucine zipper IV transcription factors.
    New Phytol., 2018. 218(1): p. 183-200
    [PMID:29288621]