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.2NG636600.2.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 B3
Protein Properties Length: 851aa    MW: 93997.6 Da    PI: 6.5688
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.2NG636600.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B359.46.2e-19261360198
                          EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                          f+kvl+ sd+++ grlvlpk +ae++   ++++e++ lt++d +g++W +++++  +++s++yvl+ G     ++ +L++gD+v+F++++
  Pavir.2NG636600.2.p 261 FEKVLSASDAGRIGRLVLPKACAEAYfpPISQPEGRPLTIQDARGKEWHFQFRFwpNNNSRMYVLE-GVTPCIQSLQLQAGDTVTFSRIE 349
                          99**************************555567778***************9989999999***9.********************887 PP

                          SSEE..EEEEE- CS
                   B3  87 rsefelvvkvfr 98 
                            +++lv+++++
  Pavir.2NG636600.2.p 350 -PGGKLVMGFRK 360
                          .77777877776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.3E-31253370IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.35E-21258361IPR015300DNA-binding pseudobarrel domain
CDDcd100175.05E-24259360No hitNo description
SMARTSM010191.5E-22261361IPR003340B3 DNA binding domain
PROSITE profilePS5086311.589261362IPR003340B3 DNA binding domain
PfamPF023624.2E-16261360IPR003340B3 DNA binding domain
PROSITE profilePS5105014.832522572IPR011124Zinc finger, CW-type
PfamPF074964.9E-12527569IPR011124Zinc finger, CW-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010030Biological Processpositive regulation of seed germination
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:2000034Biological Processregulation of seed maturation
GO:0005634Cellular Componentnucleus
GO:0005739Cellular Componentmitochondrion
GO:0003677Molecular FunctionDNA binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 851 aa     Download sequence    Send to blast
MKNSAAQSAS GQVVPKLFPC QNNLCIFGKS DEVLSGRKFE QSPSLVLDSR NDDLAIVNKS  60
NHPFLVKSIE AGQSSSILRQ KEIENGSRQI KWEQPPLSIG DMGKPFLTRS QSALESPQCT  120
RRDDNKDPTT DSTTSESISE ACLSMSLGIA NNGNRMEATS TVERPILSPT TVIAEGRELT  180
TALSPFQHAQ RARHFLTRPP RVGEGAVFDP TRDMFPHLRV ARPPAEGRGR NQLLPRYWPR  240
ITDQELQQIS GDSNSTIVPL FEKVLSASDA GRIGRLVLPK ACAEAYFPPI SQPEGRPLTI  300
QDARGKEWHF QFRFWPNNNS RMYVLEGVTP CIQSLQLQAG DTVTFSRIEP GGKLVMGFRK  360
ATNTVSLPDS QISAIANGSL LSETLFSTAN DNLGVVSGYP GFLQSIKGAA DLHPSSLYDH  420
HMNSADGDVS WLKADKFGSR PDEGSLRFLQ KRSRNIGSKS RRFLMDAEDA MELKLTWEEA  480
QELLRPAPTA KPTIVMIEDY EFEEYDEPPV FAKRSIFTIR ATGEQDQWIQ CDDCSKWRRL  540
PLTVIIASKW TCTDNSWDPK SCSCSAPEEL TPKELQSVLQ QYEEMRRRKG SYYGLKLNVA  600
EMDASNLDAL ATAAVFGDVG NQGTASVATT TKHPRHRPGC TCIVCIQPPS GKGPKHNPSC  660
TCNVCMTVRR RFKTLMMRKK QRQSEREEAE ASKKMAWMNR DEPEGSNLSR SPQTLDTTRD  720
SNDVAMFDKT ADMSKGHIDL NFHPAVRDDH QGQHGTQQPR PVSMVGLMEV ASRPLDNYMK  780
QNGLTSLAGE QGGGSSSTAT VPPAPVESEE RASNELRVAS VEREREPDAM AVDEAGDNQQ  840
DKSGDDVAAT *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A7e-682393632126B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1668679RRRFKTLMMRKK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.34120.0callus| leaf| stem
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.2NG636600.2.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
GenBankBT0629270.0BT062927.1 Zea mays full-length cDNA clone ZM_BFc0008I17 mRNA, complete cds.
GenBankJX4285020.0JX428502.1 Zea mays subsp. mays clone pUT3100 ABI32 ABI3VP1 type transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004958699.10.0B3 domain-containing protein Os07g0679700
SwissprotQ6Z3U30.0Y7797_ORYSJ; B3 domain-containing protein Os07g0679700
TrEMBLA0A3L6QVT40.0A0A3L6QVT4_PANMI; B3 domain-containing protein
STRINGPavir.Ba00225.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G32010.10.0HSI2-like 1
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]