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.5NG548200.1.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 MYB
Protein Properties Length: 599aa    MW: 65031.4 Da    PI: 5.7659
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG548200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding52.41.3e-1689136148
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                          +g+WT  Ed +lvd+vk++G g+W+++ +  g+ R++k+c++rw ++l
  Pavir.5NG548200.1.p  89 KGPWTSAEDAILVDYVKKHGEGNWNAVQKNTGLFRCGKSCRLRWANHL 136
                          79******************************************9986 PP
2Myb_DNA-binding52.51.1e-16142185146
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
      Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                          +g++T+eE+ l++++++++G++ W++ a++++ gRt++++k++w++
  Pavir.5NG548200.1.p 142 KGAFTPEEERLIIQLHAKMGNK-WARMAAHLP-GRTDNEIKNYWNT 185
                          799*******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PIRSFPIRSF0016935.2E-25546598IPR016310Transcription factor, GAMYB
PROSITE profilePS5129416.62584136IPR017930Myb domain
SuperFamilySSF466895.24E-3186183IPR009057Homeodomain-like
SMARTSM007172.1E-1488138IPR001005SANT/Myb domain
PfamPF002491.2E-1489136IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.3E-2390143IPR009057Homeodomain-like
CDDcd001673.08E-1191136No hitNo description
PROSITE profilePS5129425.656137191IPR017930Myb domain
SMARTSM007172.1E-17141189IPR001005SANT/Myb domain
PfamPF002497.6E-16142185IPR001005SANT/Myb domain
CDDcd001678.17E-13144185No hitNo description
Gene3DG3DSA:1.10.10.603.6E-26144189IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009789Biological Processpositive regulation of abscisic acid-activated signaling pathway
GO:0043068Biological Processpositive regulation of programmed cell death
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0045926Biological Processnegative regulation of growth
GO:0048235Biological Processpollen sperm cell differentiation
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 599 aa     Download sequence    Send to blast
MLHGLPPRPL SARNQAGRRY MNQGDEEENR GRRKRGRMRW RPDRAAMYRV KSESDCEMML  60
QDQMDSPVAD DGSSGGGSPH RGSGPPLKKG PWTSAEDAIL VDYVKKHGEG NWNAVQKNTG  120
LFRCGKSCRL RWANHLRPNL KKGAFTPEEE RLIIQLHAKM GNKWARMAAH LPGRTDNEIK  180
NYWNTRIKRC QRAGLPIYPA SVCNQSSSED QQISGDFNCG ENISNDLLSG NSLYLPDFTS  240
DNFIANTEAL PYAPQLSAAS ISNLLGQSFA SKNCSFMDQA DQSGMLKQSG YVLPALSDTV  300
DGVLSSVDQF SNDSEKLKQA LGFDYLNEAN ASSKSITPFG VTLSGSHAFL NGIFSASRPI  360
NGPLKMELPS LQDTESDPNS WLKYTLAPAM QPTELVDPYL HSPIATPSVK SESASPRNSG  420
LLEELLHEAQ ALRSGKNQLP SVRSSSSSAG TPCETTTVVS PEFDLCQEYL DEHHSSFLNE  480
CAPFSGYSFT ESTPVSAASP DIFQLSKISP AQSPSMGSGE QAVEPKHDTA GSPHPENLRP  540
DALFSGNTAD PSSFNDAIAM LLGNDMNAEP KPVLGDGIAF GSSSWGNMPH ACEISEFK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A5e-32851893106B-MYB
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.229920.0leaf
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator of gibberellin-dependent alpha-amylase expression in aleurone cells. Involved in pollen and floral organs development. May bind to the 5'-TAACAAA-3' box of alpha-amylase promoter. {ECO:0000269|PubMed:9150608}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00490DAPTransfer from AT5G06100Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5NG548200.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By gibberellin in aleurone cells. {ECO:0000269|PubMed:9150608}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0339250.0BT033925.1 Zea mays full-length cDNA clone ZM_BFc0044D10 mRNA, complete cds.
GenBankBT0626920.0BT062692.1 Zea mays full-length cDNA clone ZM_BFb0334D20 mRNA, complete cds.
GenBankBT0638280.0BT063828.1 Zea mays full-length cDNA clone ZM_BFc0110K24 mRNA, complete cds.
GenBankHQ8587500.0HQ858750.1 Zea mays clone UT1459 MYBGA transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025819835.10.0transcription factor GAMYB-like
SwissprotA2WW870.0GAM1_ORYSI; Transcription factor GAMYB
TrEMBLA0A2S3HQQ90.0A0A2S3HQQ9_9POAL; Transcription factor
TrEMBLA0A2T7DFC70.0A0A2T7DFC7_9POAL; Transcription factor
STRINGPavir.Ea03206.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP39473664
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G06100.34e-87myb domain protein 33