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 Solyc07g054630.2.1
Organism
Solanum lycopersicum
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; Lycopersicon
Family B3
Protein Properties Length: 579aa    MW: 66046.5 Da    PI: 10.089
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc07g054630.2.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B344.23.4e-1416103598
                         -..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS
                  B3   5 ltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95 
                          + ++v+  ++l+lp kf++ehg +     t+++  ++   W v l  +k +++++l +GW+eF + + ++   f++Fk+ ++s+f  +v+
  Solyc07g054630.2.1  16 IVEPSVMDDRQLRLPDKFVREHGDE--LLDTVKIIVPTDDFWCVGL--KKAGKMIWLHDGWQEFMEHHSVNCWYFLLFKYGQTSCF--NVH 100
                         567899999*************865..6679***************..********************************999***..999 PP

                         EE- CS
                  B3  96 vfr 98 
                         +f+
  Solyc07g054630.2.1 101 IFD 103
                         987 PP
2B366.24.7e-21290374289
                         EEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS.SE CS
                  B3   2 fkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr.se 89 
                         +++l + +v ++ +l +p +f+++++ k  +s  + l+d++g++W+v++   +++ r++l+kGW +Fv +n L +gD++vF+l ++ + 
  Solyc07g054630.2.1 290 LQILEKYNVERNYILNIPVEFVRKYMPK--TSELIELQDTDGNKWKVRC--IRRKLRVLLSKGWLNFVTDNSLLVGDVCVFELLKNfQA 374
                         55666667888999***********855..5679***************..888899*************************9876444 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.73E-1611103IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.5E-1612103IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086310.53212105IPR003340B3 DNA binding domain
SMARTSM010191.4E-913105IPR003340B3 DNA binding domain
CDDcd100172.43E-1315103No hitNo description
PfamPF023625.1E-1115103IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.1E-27282385IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019367.46E-26284384IPR015300DNA-binding pseudobarrel domain
CDDcd100178.98E-23287385No hitNo description
SMARTSM010197.0E-18289387IPR003340B3 DNA binding domain
PROSITE profilePS5086315.312289387IPR003340B3 DNA binding domain
PfamPF023624.4E-18291377IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009909Biological Processregulation of flower development
GO:0010048Biological Processvernalization response
GO:0005654Cellular Componentnucleoplasm
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 579 aa     Download sequence    Send to blast
MESCSNSYSA GSFYVIVEPS VMDDRQLRLP DKFVREHGDE LLDTVKIIVP TDDFWCVGLK  60
KAGKMIWLHD GWQEFMEHHS VNCWYFLLFK YGQTSCFNVH IFDLAATEID YQLRSHGYAK  120
SRDVAQDLSH RKDKIVGDNG FTSSIEIVDL LETEQGPESS AKSSELPHRA KRRKIASGKI  180
KITRCYETRS KTNKLHDNGQ LLNAKNLNIS GNGSLTKPVG GKSVRRSIKT PIHSAVATGG  240
TRKLFTSKQR EKSLGRGRYD RRERAQQKVS ETSRAIQTAK MFIPENPYFL QILEKYNVER  300
NYILNIPVEF VRKYMPKTSE LIELQDTDGN KWKVRCIRRK LRVLLSKGWL NFVTDNSLLV  360
GDVCVFELLK NFQAVALILK VHMFRNRVEE NSKNLHTGSL FEQTLSTGKN CVLQFDESKH  420
TKSSDAFEPL SSDRTNHKTD TENSFGQQQE KSVVHGSSGN RRKRGRPMDA EANTDTENSF  480
GQQQEKSVVH GSSGNRRKRG RPRDAEANTD TENSSRQQEE KSVVHGSSGN RRKGRRLRDA  540
KGNSATTAAK MFTPENPYFM ITLGEYHVVR NYILFQWN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A3e-1827138531141B3 domain-containing transcription factor VRN1
4i1k_B3e-1827138531141B3 domain-containing transcription factor VRN1
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc07g054630.2.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0094820.0Solanum lycopersicum DNA, chromosome 8, clone: C08SLm0073D06, complete sequence
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010323713.10.0B3 domain-containing transcription factor VRN1-like isoform X3
TrEMBLA0A3Q7HCR60.0A0A3Q7HCR6_SOLLC; Uncharacterized protein
STRINGSolyc07g054630.2.10.0(Solanum lycopersicum)
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
AT3G18990.15e-45B3 family protein
Publications ? help Back to Top
  1. Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD
    Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments.
    Theor. Appl. Genet., 2005. 112(1): p. 72-84
    [PMID:16208505]