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 Pahal.J01902.1
Organism
Panicum hallii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family HD-ZIP
Protein Properties Length: 274aa    MW: 29252.3 Da    PI: 4.5207
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pahal.J01902.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox60.23.4e-1948101356
                     --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
        Homeobox   3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                     k++++++eq+++Le+ Fe ++++  e++++LA+ lgL+ rqV vWFqNrRa++k
  Pahal.J01902.1  48 KKRRLSAEQVRALERSFEVENKLEPERKARLARDLGLQPRQVAVWFQNRRARWK 101
                     45689************************************************9 PP
2HD-ZIP_I/II134.34.2e-4347139193
     HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelke 93 
                     ekkrrls+eqv++LE+sFe e+kLeperK++lar+LglqprqvavWFqnrRAR+ktkqlE+dy+aL+++ydal++++++L++++++L +e+ke
  Pahal.J01902.1  47 EKKRRLSAEQVRALERSFEVENKLEPERKARLARDLGLQPRQVAVWFQNRRARWKTKQLERDYAALRHSYDALRHDHDALRRDKDALLAEIKE 139
                     69**************************************************************************************99987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466891.21E-1941105IPR009057Homeodomain-like
PROSITE profilePS5007117.47543103IPR001356Homeobox domain
SMARTSM003891.5E-1846107IPR001356Homeobox domain
PfamPF000461.6E-1648101IPR001356Homeobox domain
CDDcd000866.92E-1848104No hitNo description
Gene3DG3DSA:1.10.10.602.9E-2049110IPR009057Homeodomain-like
PRINTSPR000319.3E-67483IPR000047Helix-turn-helix motif
PROSITE patternPS00027078101IPR017970Homeobox, conserved site
PRINTSPR000319.3E-68399IPR000047Helix-turn-helix motif
PfamPF021831.3E-17103144IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009637Biological Processresponse to blue light
GO:0030308Biological Processnegative regulation of cell growth
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
GO:0048573Biological Processphotoperiodism, flowering
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 274 aa     Download sequence    Send to blast
MKRPRGGSPS LLPTANPDDD DGYDAAAGME AEGDAEEMVA RGGGGGEKKR RLSAEQVRAL  60
ERSFEVENKL EPERKARLAR DLGLQPRQVA VWFQNRRARW KTKQLERDYA ALRHSYDALR  120
HDHDALRRDK DALLAEIKEL KAKLGDEEAA ASFTSVKAEP AASDGPPVAG VGSSESDSSA  180
VLNDADAPAG VAEAPVPEVQ GALLPTPAAA AGAATSHGGA FFHGGFLKVE EDETGFLDDD  240
EPCGGFFAVE QPPPMAWWTE PTEHCLLELN WGG*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
17278ERKARLA
295103RRARWKTKQ
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription activator that binds to the DNA sequence 5'-CAAT[AT]ATTG-3'. May be involved in the regulation of gibberellin signaling. {ECO:0000269|PubMed:10732669, ECO:0000269|PubMed:18049796}.
UniProtProbable transcription activator that binds to the DNA sequence 5'-CAAT[AT]ATTG-3'. May be involved in the regulation of gibberellin signaling. {ECO:0000269|PubMed:10732669, ECO:0000269|PubMed:18049796}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00051PBMTransfer from AT4G40060Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By gibberellin. Down-regulated in leaves by drought stress. {ECO:0000269|PubMed:17999151, ECO:0000269|PubMed:18049796}.
UniProtINDUCTION: By gibberellin. Down-regulated in leaves by drought stress. {ECO:0000269|PubMed:17999151, ECO:0000269|PubMed:18049796}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0342570.0BT034257.1 Zea mays full-length cDNA clone ZM_BFc0009H14 mRNA, complete cds.
GenBankBT0390620.0BT039062.1 Zea mays full-length cDNA clone ZM_BFb0367N11 mRNA, complete cds.
GenBankBT0553740.0BT055374.1 Zea mays full-length cDNA clone ZM_BFb0091J03 mRNA, complete cds.
GenBankJX4699290.0JX469929.1 Zea mays subsp. mays clone UT3187 HB-type transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025803235.10.0homeobox-leucine zipper protein HOX4-like
SwissprotQ6K4981e-121HOX4_ORYSJ; Homeobox-leucine zipper protein HOX4
SwissprotQ9XH371e-121HOX4_ORYSI; Homeobox-leucine zipper protein HOX4
TrEMBLA0A2S3H0J40.0A0A2S3H0J4_9POAL; Uncharacterized protein
STRINGSi030822m1e-162(Setaria italica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP30093482
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G40060.12e-40homeobox protein 16
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]