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.2NG636600.1.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 B3
Protein Properties Length: 950aa    MW: 104629 Da    PI: 6.9276
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.2NG636600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B359.27.2e-19360459198
                          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.2NG636600.1.p 360 FEKVLSASDAGRIGRLVLPKACAEAYfpPISQPEGRPLTIQDARGKEWHFQFRFwpNNNSRMYVLE-GVTPCIQSLQLQAGDTVTFSRIE 448
                          99**************************555567778***************9989999999***9.********************887 PP

                          SSEE..EEEEE- CS
                   B3  87 rsefelvvkvfr 98 
                            +++lv+++++
  Pavir.2NG636600.1.p 449 -PGGKLVMGFRK 459
                          .77777877776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.6E-31352469IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.75E-21357460IPR015300DNA-binding pseudobarrel domain
CDDcd100176.26E-24358459No hitNo description
PROSITE profilePS5086311.589360461IPR003340B3 DNA binding domain
SMARTSM010191.5E-22360460IPR003340B3 DNA binding domain
PfamPF023624.8E-16360459IPR003340B3 DNA binding domain
PROSITE profilePS5105014.832621671IPR011124Zinc finger, CW-type
PfamPF074965.6E-12626668IPR011124Zinc 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: 950 aa     Download sequence    Send to blast
MAMPMAVAKR CMNPACGAPA TGAGGDWRKG WPLRSGAFAL LCDKCGLAYE QFVFCDIFHL  60
KESGWRDCSF CGKRLHCGCV ASKNSYDLLD SGGVQCVTCM KNSAAQSASG QVVPKLFPCQ  120
NNLCIFGKSD EVLSGRKFEQ SPSLVLDSRN DDLAIVNKSN HPFLVKSIEA GQSSSILRQK  180
EIENGSRQIK WEQPPLSIGD MGKPFLTRSQ SALESPQCTR RDDNKDPTTD STTSESISEA  240
CLSMSLGIAN NGNRMEATST VERPILSPTT VIAEGRELTT ALSPFQHAQR ARHFLTRPPR  300
VGEGAVFDPT RDMFPHLRVA RPPAEGRGRN QLLPRYWPRI TDQELQQISG DSNSTIVPLF  360
EKVLSASDAG RIGRLVLPKA CAEAYFPPIS QPEGRPLTIQ DARGKEWHFQ FRFWPNNNSR  420
MYVLEGVTPC IQSLQLQAGD TVTFSRIEPG GKLVMGFRKA TNTVSLPDSQ ISAIANGSLL  480
SETLFSTAND NLGVVSGYPG FLQSIKGAAD LHPSSLYDHH MNSADGDVSW LKADKFGSRP  540
DEGSLRFLQK RSRNIGSKSR RFLMDAEDAM ELKLTWEEAQ ELLRPAPTAK PTIVMIEDYE  600
FEEYDEPPVF AKRSIFTIRA TGEQDQWIQC DDCSKWRRLP LTVIIASKWT CTDNSWDPKS  660
CSCSAPEELT PKELQSVLQQ YEEMRRRKGS YYGLKLNVAE MDASNLDALA TAAVFGDVGN  720
QGTASVATTT KHPRHRPGCT CIVCIQPPSG KGPKHNPSCT CNVCMTVRRR FKTLMMRKKQ  780
RQSEREEAEA SKKMAWMNRD EPEGSNLSRS PQTLDTTRDS NDVAMFDKTA DMSKGHIDLN  840
FHPAVRDDHQ GQHGTQQPRP VSMVGLMEVA SRPLDNYMKQ NGLTSLAGEQ GGGSSSTATV  900
PPAPVESEER ASNELRVASV EREREPDAMA VDEAGDNQQD KSGDDVAAT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5yzy_C4e-673384621125B3 domain-containing transcription repressor VAL1
5yzz_C4e-673384621125B3 domain-containing transcription repressor VAL1
5z00_C4e-673384621125B3 domain-containing transcription repressor VAL1
5z00_G4e-673384621125B3 domain-containing transcription repressor VAL1
5z00_K4e-673384621125B3 domain-containing transcription repressor VAL1
5z00_M4e-673384621125B3 domain-containing transcription repressor VAL1
6j9a_A4e-673384622126B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1767778RRRFKTLMMRKK
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.2NG636600.1.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
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)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP65193748
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]