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 PGSC0003DMP400004999
Common NameLOC102595417
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: 334aa    MW: 38295.4 Da    PI: 5.3037
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400004999genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B347.82.6e-15311121198
                           HHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
                    B3  11 lksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 
                           ++++rl++pk fa+++ ++  +   + le +sg++Wev+l  + + g+++l++GWk+F +   ++ g f++F ++ rs f  +v++f+
  PGSC0003DMP400004999  31 HELCRLRIPKGFASRYCKNILN--PVYLEVPSGEVWEVEL--EHSEGHIWLAEGWKDFSDYYSIRRGNFFMFGYNARSHF--NVTIFD 112
                           46799***********544334..5***************..999999**************************999999..998886 PP
2B353.64.1e-17235316489
                           E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS
                    B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 
                            + ps+v++ + l++p kfa+ + +g+   s  l+l+ +   sW vk+i+ +k+ +   t GWk Fv +n+Lk gD++v++++++++
  PGSC0003DMP400004999 235 FMHPSYVSRPHALYIPLKFARMYfMGN---SGNLVLRVPGKGSWPVKCIMLRKDAK--VTCGWKAFVLDNKLKYGDVCVLEVINDTK 316
                           5789*******************7544...346***************99888766..79*********************987644 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.94E-1917114IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.108.3E-2017112IPR015300DNA-binding pseudobarrel domain
CDDcd100175.34E-1521112No hitNo description
SMARTSM010195.2E-1323114IPR003340B3 DNA binding domain
PfamPF023621.3E-1131112IPR003340B3 DNA binding domain
PROSITE profilePS5086311.94235114IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.7E-22224318IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.1E-22225317IPR015300DNA-binding pseudobarrel domain
CDDcd100176.40E-18230326No hitNo description
SMARTSM010195.4E-13231328IPR003340B3 DNA binding domain
PROSITE profilePS5086311.632232328IPR003340B3 DNA binding domain
PfamPF023621.9E-15234317IPR003340B3 DNA binding domain
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: 334 aa     Download sequence    Send to blast
MVHKFRKQIG EVSSISNISQ PKFCKIIFSP HELCRLRIPK GFASRYCKNI LNPVYLEVPS  60
GEVWEVELEH SEGHIWLAEG WKDFSDYYSI RRGNFFMFGY NARSHFNVTI FDFSAAEIEY  120
PPAEIESDDS IDILDVVEHS SEYLSYDPVV QERKRIRQEG EEEDDIPVEH QTNVIDEEEF  180
QGNVVSLVIS EDCEEHEQQS NIVTSKRKAE RDEGIADNYQ RAKAFKSKNP FIVSFMHPSY  240
VSRPHALYIP LKFARMYFMG NSGNLVLRVP GKGSWPVKCI MLRKDAKVTC GWKAFVLDNK  300
LKYGDVCVLE VINDTKLSLI DVTIFPGISD GTN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A3e-1622232539140B3 domain-containing transcription factor VRN1
4i1k_B3e-1622232539140B3 domain-containing transcription factor VRN1
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400004999
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2154040.0AC215404.2 Solanum lycopersicum cultivar Heinz 1706 chromosome 2 clone C02HBa0163K16, complete sequence.
GenBankHG9755140.0HG975514.1 Solanum lycopersicum chromosome ch02, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006344812.10.0PREDICTED: B3 domain-containing transcription factor VRN1-like
TrEMBLM0ZSN00.0M0ZSN0_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000071990.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA7591893
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G18990.15e-34B3 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]