PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID PGSC0003DMP400032011
Organism
Solanum tuberosum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
Family B3
Protein Properties Length: 532aa    MW: 60374 Da    PI: 10.1916
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400032011genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B368.31e-212353171196
                           HHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS.SEE..EEEE CS
                    B3  11 lksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr.sefelvvkv 96 
                            ++ +l lp +f+++++ k  +s  + l+d++g++W+v++   +++ r++l+kGW +Fv +n L +gD++vF+l+++ +  el++kv
  PGSC0003DMP400032011 235 VRNYILNLPVEFVRKYMPK--TSELIELQDTDGNKWNVRC--IRRKHRVLLSKGWLNFVTDNSLLVGDVCVFELIKDvQADELMLKV 317
                           5667899*********855..5679***************..888889***************************998988888877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS508638.148141IPR003340B3 DNA binding domain
SuperFamilySSF1019361.08E-5247IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.1E-5348IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.2E-27218322IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.51E-26220321IPR015300DNA-binding pseudobarrel domain
CDDcd100176.05E-25223321No hitNo description
SMARTSM010191.2E-17225323IPR003340B3 DNA binding domain
PROSITE profilePS5086315.862225323IPR003340B3 DNA binding domain
PfamPF023626.3E-19237317IPR003340B3 DNA binding domain
PRINTSPR009292.4E-5397407IPR017956AT hook, DNA-binding motif
PRINTSPR009292.4E-5430441IPR017956AT hook, DNA-binding motif
PRINTSPR009292.4E-5465475IPR017956AT hook, DNA-binding motif
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
Sequence ? help Back to Top
Protein Sequence    Length: 532 aa     Download sequence    Send to blast
MIWLHDGWQE FMEHHSVNCW YFLLFKYGQT SCFNVHIFDL AATEIDYQLR SHGNAKSRDV  60
TQDLSHGKDK IVGDKGVTSS VEIVDLLETE QGPESSAKSS ELSHRAKRRK IASGKIKISR  120
CYETRSRTNK LHDNGLLLNA KNLNISGNGS LTKPVGGKLV RRSMKTPIHS AVATGDTRKS  180
FTSKQREKSV GLGRYDRRKR AQQKASETSR AIQTAKMFIP ENPYFLQILE KYNIVRNYIL  240
NLPVEFVRKY MPKTSELIEL QDTDGNKWNV RCIRRKHRVL LSKGWLNFVT DNSLLVGDVC  300
VFELIKDVQA DELMLKVHMF RNRVEENSKN LHTGSLSEPT LSTGKNCILQ FDESKHTESS  360
DAFEPLSSDR TNHKTDAENS SGQQQEKSVV HGSSGNRRKR GRPRDAEANT DIENSSGQQQ  420
EKSVVHGSSG NRRKRGRPRD AEANTDIENS SGQQQEKSVV HGSSGNRRKR GRPRDAEANR  480
ATTAAKMFTP ENPYFMITLG EYHVVRNYIL ADELMLKVHI FRNKVEQNSI I*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A6e-2019832123141B3 domain-containing transcription factor VRN1
4i1k_B6e-2019832123141B3 domain-containing transcription factor VRN1
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400032011
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9755190.0HG975519.1 Solanum lycopersicum chromosome ch07, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006357562.10.0PREDICTED: B3 domain-containing transcription factor VRN1-like
TrEMBLM1BKH70.0M1BKH7_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000472990.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA85571529
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G18990.16e-32B3 family protein
Publications ? help Back to Top
  1. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]