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 SapurV1A.0979s0040.4.p
Organism
Salix purpurea
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Salix
Family B3
Protein Properties Length: 209aa    MW: 24050.2 Da    PI: 9.059
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
SapurV1A.0979s0040.4.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B362.95.2e-20113203498
                             E-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
                      B3   4 vltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                             vl ps+  + ++++lp  fae++  g     s  ++l+ ++g++W v++ yr+++    +++GW eF ++n+L egD+++F+l +++
  SapurV1A.0979s0040.4.p 113 VLRPSYLYRGCIMYLPSGFAEKNlnG----LSGFMKLQLPDGKQWPVRCLYRGGR--AKFSQGWYEFTQENNLGEGDVCIFELLKSR 193
                             7889*******************643....34469999***********666665..5699*********************99988 PP

                             EE..EEEEE- CS
                      B3  89 efelvvkvfr 98 
                             +  l+v+vfr
  SapurV1A.0979s0040.4.p 194 DVVLKVTVFR 203
                             9889999998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.104.4E-26102203IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.27E-26104203IPR015300DNA-binding pseudobarrel domain
CDDcd100171.10E-25108203No hitNo description
PROSITE profilePS5086314.043110205IPR003340B3 DNA binding domain
SMARTSM010195.5E-22110205IPR003340B3 DNA binding domain
PfamPF023624.3E-18113203IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 209 aa     Download sequence    Send to blast
MRLTKSANVS QVADEWAQNV FAQYNEHKNS QDEVKLYSPD EETPKLKKRG RKRLKIDPNE  60
QQLSSLNEDD GEARFRFYES ASARKRTVTA EERERAMNAA KAYAPDNPYC RVVLRPSYLY  120
RGCIMYLPSG FAEKNLNGLS GFMKLQLPDG KQWPVRCLYR GGRAKFSQGW YEFTQENNLG  180
EGDVCIFELL KSRDVVLKVT VFRVLEDV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A9e-767620815146B3 domain-containing transcription factor VRN1
4i1k_B9e-767620815146B3 domain-containing transcription factor VRN1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtInvolved in the regulation of vernalization (By similarity). Binds to DNA in vitro in a non-sequence-specific manner. XLG2 promotes the DNA binding activity of RTV1 specifically to promoter regions of FT and SOC1 in vivo and thus leads to the activation of floral integrator genes. {ECO:0000250, ECO:0000269|PubMed:22232549}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSapurV1A.0979s0040.4.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By cold. {ECO:0000269|PubMed:22232549}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011001170.11e-143PREDICTED: B3 domain-containing transcription factor VRN1-like isoform X2
RefseqXP_011001171.11e-143PREDICTED: B3 domain-containing transcription factor VRN1-like isoform X3
SwissprotQ9XIB53e-85REM19_ARATH; B3 domain-containing protein REM19
TrEMBLA0A2K2AUR81e-140A0A2K2AUR8_POPTR; Uncharacterized protein
STRINGPOPTR_0004s15400.11e-141(Populus trichocarpa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49480.19e-81related to vernalization1 1
Publications ? help Back to Top
  1. Conte MG,Gaillard S,Droc G,Perin C
    Phylogenomics of plant genomes: a methodology for genome-wide searches for orthologs in plants.
    BMC Genomics, 2008. 9: p. 183
    [PMID:18426584]
  2. Mantegazza O, et al.
    Analysis of the arabidopsis REM gene family predicts functions during flower development.
    Ann. Bot., 2014. 114(7): p. 1507-15
    [PMID:25002525]