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.2KG587300.2.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: 853aa    MW: 94300.8 Da    PI: 6.6553
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.2KG587300.2.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.2KG587300.2.p 261 FEKVLSASDAGRIGRLVLPKACAEAYfpPISQPEGRPLTIQDARGKEWHFQFRFwpNNNSRMYVLE-GVTPCIQSLQLQAGDTVTFSRIE 349
                          99**************************555567778***************9989999999***9.********************887 PP

                          SSEE..EEEEE- CS
                   B3  87 rsefelvvkvfr 98 
                            +++lv+++++
  Pavir.2KG587300.2.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
CDDcd100175.08E-24259360No hitNo description
PfamPF023624.2E-16261360IPR003340B3 DNA binding domain
PROSITE profilePS5086311.589261362IPR003340B3 DNA binding domain
SMARTSM010191.5E-22261361IPR003340B3 DNA binding domain
PROSITE profilePS5105014.8522572IPR011124Zinc finger, CW-type
PfamPF074967.0E-12527569IPR011124Zinc finger, CW-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 853 aa     Download sequence    Send to blast
MRNSAAQSAS GQVVPKLFPC QNNPHIFSRS DELLSGRKFE QSPSLVLDSR NDDLAIVNKS  60
NHPFMVKSIE VGQSSSILRQ KEIENGSRQI KWEQPTLSIG DMGIPFLTRS QSALESPQCT  120
RRDDNKDPTT DSTTSESISE ACLSMSLGIA NNGNKMEATS TVERPILSPT TAIAEGRELT  180
TALSPFQHAQ RARHFLTRPP RVGEGAVFDP TRDIFPHLRV ARPPAEGRGR NQLLPRYWPR  240
ITNHELLQIS GDSNSTIVPL FEKVLSASDA GRIGRLVLPK ACAEAYFPPI SQPEGRPLTI  300
QDARGKEWHF QFRFWPNNNS RMYVLEGVTP CIQSLQLQAG DTVTFSRIEP GGKLVMGFRK  360
ATNTVSLPDS QISAIANGSL LSETLFSTAN DNLGVVSGYP GFLQSIKGNA DLHPSSLYDH  420
HMNSADGDVS WLKADKFGSR PDEGSLQFLQ KRSRNIGSKS RRFLIDAEDA MELKLTWEEA  480
QELLRPAPTS KPTIVMIEDY EFEEYDEPPV FAKRSIFTIR ATGEQDQWIQ CDNCSKWRRL  540
PLTVVIASKW TCTENSWDPK SCSCSAPEEL TPKELQSVLQ QYEEMRRRKG NYGLKLNVAE  600
MDASNLDALA TAAVFGDVGN QGTASVATTT KHPRHRPGCT CIVCIQPPSG KGPKHNPSCT  660
CNVCMTVRRR FKTLMMRKKQ RQSEREEAEA SKKVAWMNRD EPEGSNLSRS PQTLDTTRDS  720
SDVAMFDKVA DMNKGHIDLN FHPAVRDDHQ GQHGTQQPRP VSMMGLMEVA SRPLDNYMKQ  780
NGLTSLAGDQ GGGSSSTATV PPAPVESEER TSNEVRVASV EREREPDAMA VDEVGDNQNQ  840
QDKSAVDDAA AT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5yzy_C6e-662393631125B3 domain-containing transcription repressor VAL1
5yzz_C6e-662393631125B3 domain-containing transcription repressor VAL1
5z00_C6e-662393631125B3 domain-containing transcription repressor VAL1
5z00_G6e-662393631125B3 domain-containing transcription repressor VAL1
5z00_K6e-662393631125B3 domain-containing transcription repressor VAL1
5z00_M6e-662393631125B3 domain-containing transcription repressor VAL1
6j9a_A6e-662393632126B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1667678RRRFKTLMMRKK
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.2KG587300.2.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.Bb03754.1.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]