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 Pavir.5NG495200.1.p
Organism
Panicum virgatum
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 HB-PHD
Protein Properties Length: 1544aa    MW: 168777 Da    PI: 6.9266
Description HB-PHD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG495200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox29.41.3e-09767811852
                          -HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHH CS
             Homeobox   8 tkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrR 52 
                           +  ++ L+ +F +++yps++++e LA++lgLt +qV  WF   R
  Pavir.5NG495200.1.p 767 GPIVTQKLKVHFDEDPYPSRATKENLAQELGLTFNQVCRWFSSTR 811
                          5667899**********************************8776 PP
2Homeobox32.71.3e-1098510211349
                           HHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHH CS
             Homeobox   13 eeLeelFeknrypsaeereeLAkklgLterqVkvWFq 49  
                           + L+++Fek++yps++++e LA++lgLt +qV+ WF 
  Pavir.5NG495200.1.p  985 QKLKAHFEKDPYPSRSTKESLAQELGLTFNQVTKWFS 1021
                           78**********************************7 PP
3PHD41.72.6e-14433487150
                          SBTTTSS..TCTTSSEEEBSS.SSSEEETTTSTSSSSHHSHHSS..TBSSHHHHT CS
                  PHD   1 rCkvCgk..sdeegelvlCdg.CkewfHlkClglkleseekpeg..ewlCeeCke 50 
                          +C++Cg+   + +++++lCdg C++ fH++Cl+++l +e++p g   wlC+ C +
  Pavir.5NG495200.1.p 433 FCAICGSkdVTLQNDIILCDGaCDRGFHQNCLKPPLLTEDIPPGdeGWLCPACVC 487
                          7******64445********66********************9999*******87 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF579031.42E-15423490IPR011011Zinc finger, FYVE/PHD-type
Gene3DG3DSA:3.30.40.101.9E-14429488IPR013083Zinc finger, RING/FYVE/PHD-type
PROSITE profilePS5001611.163431488IPR019787Zinc finger, PHD-finger
SMARTSM002496.5E-12433486IPR001965Zinc finger, PHD-type
PfamPF006281.6E-11433487IPR019787Zinc finger, PHD-finger
CDDcd155041.04E-28433485No hitNo description
PROSITE patternPS013590434485IPR019786Zinc finger, PHD-type, conserved site
SMARTSM003892.1E-10760821IPR001356Homeobox domain
SuperFamilySSF466892.74E-10763816IPR009057Homeodomain-like
CDDcd000861.81E-10764815No hitNo description
PfamPF000465.0E-7768811IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.609.3E-11771824IPR009057Homeodomain-like
PROSITE profilePS5007112.276774817IPR001356Homeobox domain
SuperFamilySSF466892.4E-109671026IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.604.6E-119671020IPR009057Homeodomain-like
PROSITE profilePS5007112.7799701030IPR001356Homeobox domain
SMARTSM003892.7E-119721034IPR001356Homeobox domain
CDDcd000862.84E-119761028No hitNo description
PfamPF000464.5E-89851021IPR001356Homeobox domain
PROSITE patternPS00027010051028IPR017970Homeobox, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 1544 aa     Download sequence    Send to blast
MGRKGSEVSA NKRYPLRSAH SSGRVLRSAS TKDNKACSEP PNDSAAAQSA VRKRRNGSPS  60
ASPNNSVRVL HSASKNKDDA CSEPLNDRTT AKAAANKRKN ASPSQVGSTT NTVRVLHSAL  120
KSKDEVCSEP ITNRTAGEPA ANNRKNVSPS KLRSPSNSVR VLRSASKYKE ETYTEPLNDS  180
TAVEPAANRR KIASSSKVGS PNNTVRVLRS ALKNKNEACS EPLNDSTVGQ PTVKRRKTGS  240
PLKVASPVSS ARVLRSTSVR KNEACNEPLN DSTAAQPAAG KRKGETLLNT DSPKVDVRVL  300
RSASGKKNEA CSEPINDSTS AHKAVRKRKG CRPLNDRSPK KEYVKICQRV RYILNRMNYQ  360
QSFIQAYASE GWKGQSLEKI RPEKELERAK EEILQCKLRI REAFRNMDAI LSEGKLEESL  420
FDSAGEIFSE DIFCAICGSK DVTLQNDIIL CDGACDRGFH QNCLKPPLLT EDIPPGDEGW  480
LCPACVCKAN SIDALNELQG SKLSIHDSWE KVFPEAASLA NGSKQVGSSD LPPDRIDHND  540
YNPALAEGHM NQDKFSAGDD DKVDDLGLPS EDSEDDDFDP AGPDSSEDQK NELNSEESDF  600
TSDSDYFCAE IAKSCGQDEV LASPLLDVIN HTDRMKTRAV DTHSNEETSN RTFADMELDQ  660
GMVLPILSRR QVQRLDYKKL YDEAYGKESS GSSDDEEWSG KELLESSGTD SHGEQLHPEK  720
RCSRRAPARQ QNNEHTPQRE RLHGSESVQQ TEVLRSNGSS STGRKFGPIV TQKLKVHFDE  780
DPYPSRATKE NLAQELGLTF NQVCRWFSST RHYSRVASAK KEKHLDNHTS ENNDSTNVDS  840
MQMREPSAGV MEKLTVDRNA IVPEKPMVQN NLNQCNKKDM PLSGTEIEMD SYGQESSDSS  900
DEEWSAFSTP RKARLHDNET ASPAESLHPA KRCSRRAPAR GQNNEHTPQS EQRHGSASEQ  960
QTDVLCSNSS GSKVSKYHFG PIVNQKLKAH FEKDPYPSRS TKESLAQELG LTFNQVTKWF  1020
SAIRHYSRGA AAKNKKHPGK NTTVNDNRTT FDGVQIREGS VEKPSADIND IISEKLMVQI  1080
NLNEGIEEDI PPSQYARCEE RATMTPTTIS REVGPPGYGP GENFLQIGSR NTCEQNVITT  1140
PTPILRVDPP GYVRGENQGN GAPWNSSCEQ NMFMSSATIS REVGPPGYGP EQNQGNGISW  1200
SMSCEQGVSM SYTTISREAG PPGYGSGENQ GSGTSWNTSC ERGMFTSPAI ISREVGPPGY  1260
GPGENQGNST SPNTSCELRM FTSPMAISRE VSLPGCEPGE NQNNGTSWNM SYKKGVFMSP  1320
TASREVGPPG FGPGENQSSG TSWNMRCEQR MYRSPTAIST EVGPPGYGGE NQGNGGSWSM  1380
SYEHGVFASP TAISREVGPP GYGPGENQGN TTTWITSGKQ RMFTSPTTVS SEGGLPGYSI  1440
VENHGTGGSR NIDLEQRVVA TPATISREVF PPGYDLEQRV VATPATISKE VFPPEYGPGE  1500
NQGSGASGSV RIPEGRSAEK FGFSDEARKK AIQRELRRRQ KFR*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1322328KAVRKRK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.80890.0callus| leaf| stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in the outer layers of globular embryos. {ECO:0000269|PubMed:15094187}.
UniprotTISSUE SPECIFICITY: Expressed in roots, leaves, stems, panicle and seeds. {ECO:0000269|PubMed:21951842}.
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional repressor involved in the regulation of gibberrelin (GA) signaling. Binds to the 5'-GATC-3' motif of HD16/EL1 promoter. Functions as a positive regulator of GA signaling by suppressing the expression of HD16/EL1, a negative regulator of GA signaling. {ECO:0000269|PubMed:21951842}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5NG495200.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by gibberellin. {ECO:0000269|PubMed:21951842}.
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_025814926.10.0uncharacterized protein LOC112892070 isoform X2
SwissprotQ8H9910.0HAZ1_ORYSJ; Homeobox protein HAZ1
TrEMBLA0A2T7DGV40.0A0A2T7DGV4_9POAL; Uncharacterized protein
STRINGPavir.Eb03127.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP43933768
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G19510.12e-94Homeodomain-like protein with RING/FYVE/PHD-type zinc finger domain
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]
  2. Wen BQ,Xing MQ,Zhang H,Dai C,Xue HW
    Rice homeobox transcription factor HOX1a positively regulates gibberellin responses by directly suppressing EL1.
    J Integr Plant Biol, 2011. 53(11): p. 869-78
    [PMID:21951842]