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.9NG488100.1.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 MIKC_MADS
Protein Properties Length: 236aa    MW: 26661.6 Da    PI: 10.005
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG488100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF92.91.5e-29959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krien + rqvtfskRrng+lKKA+ELSvLCdaev +i+fs++gklye++s
  Pavir.9NG488100.1.p  9 KRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVGLIVFSPRGKLYEFAS 59
                         79***********************************************86 PP
2K-box70.45.5e-2477173399
                K-box   3 kssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenk 92 
                          + s+k+ ++++ ++ + ++  L +++e L++++R++lGe+Le++s++eL++Le +Leksl  iR kK++ll +qi +l++ke+ l ++nk
  Pavir.9NG488100.1.p  77 NLSNKAIQQQDIQQVKADALSLANRLEALEKSKRKFLGENLEDCSIEELHSLEVKLEKSLHVIRGKKTQLLEQQIAKLKEKERTLLKDNK 166
                          567788999********************************************************************************* PP

                K-box  93 aLrkkle 99 
                          +Lr+k+ 
  Pavir.9NG488100.1.p 167 ELREKVT 173
                          ****985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.623161IPR002100Transcription factor, MADS-box
SMARTSM004321.4E-40160IPR002100Transcription factor, MADS-box
PRINTSPR004041.0E-30323IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.05E-32387IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
CDDcd002658.95E-42379No hitNo description
PfamPF003191.1E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004041.0E-302338IPR002100Transcription factor, MADS-box
PRINTSPR004041.0E-303859IPR002100Transcription factor, MADS-box
PfamPF014864.1E-2584172IPR002487Transcription factor, K-box
PROSITE profilePS5129714.12688178IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 236 aa     Download sequence    Send to blast
MVRGKTEMKR IENATSRQVT FSKRRNGLLK KAFELSVLCD AEVGLIVFSP RGKLYEFASA  60
SSLQKTIDRY KSYTRENLSN KAIQQQDIQQ VKADALSLAN RLEALEKSKR KFLGENLEDC  120
SIEELHSLEV KLEKSLHVIR GKKTQLLEQQ IAKLKEKERT LLKDNKELRE KVTATKHLPQ  180
RDVQPPPVAP AVTRCLPPWP RNLPAPCNDD VDVETELYIG LPGRERSANR DSGSG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A5e-17173172MEF2C
5f28_B5e-17173172MEF2C
5f28_C5e-17173172MEF2C
5f28_D5e-17173172MEF2C
6byy_A4e-17174173MEF2 CHIMERA
6byy_B4e-17174173MEF2 CHIMERA
6byy_C4e-17174173MEF2 CHIMERA
6byy_D4e-17174173MEF2 CHIMERA
6bz1_A4e-17183184MEF2 CHIMERA
6bz1_B4e-17183184MEF2 CHIMERA
6bz1_C4e-17183184MEF2 CHIMERA
6bz1_D4e-17183184MEF2 CHIMERA
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.112840.0leaf
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9NG488100.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0648231e-177BT064823.1 Zea mays full-length cDNA clone ZM_BFb0180I10 mRNA, complete cds.
GenBankKJ7269281e-177KJ726928.1 Zea mays clone pUT3473 MADS transcription factor (MADS76) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025796199.11e-154MADS-box transcription factor 56-like
SwissprotA2Z9Q71e-105MAD56_ORYSI; MADS-box transcription factor 56
TrEMBLA0A1L5YFA41e-171A0A1L5YFA4_PANVG; SL2
STRINGSb01g030570.11e-138(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP14133379
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G45660.11e-70AGAMOUS-like 20