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 Csa03g055350.2
Organism
Camelina sativa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina
Family B3
Protein Properties Length: 228aa    MW: 25874.2 Da    PI: 9.9343
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa03g055350.2genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B353.15.8e-17130223199
                     EEEE-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EE CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvv 94 
                     f  vl ps+  + ++++lp  fae++ +g++ +   ++  ++  ++W v++    k gr  +++GW eF  +n++ egD++vF+l ++++f l+v
  Csa03g055350.2 130 FRVVLRPSYLYRGCIMYLPSGFAEKYlSGIS-GF--IK-LQLGEKQWPVRC--LYKAGRAKFSQGWYEFTLENNIGEGDVCVFELLRTRDFILKV 218
                     678899********************85452.33..44.44688*******..666666779************************99***9*99 PP

                     EEE-S CS
              B3  95 kvfrk 99 
                     ++fr 
  Csa03g055350.2 219 TAFRV 223
                     99985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.105.1E-23122222IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.32E-22123224IPR015300DNA-binding pseudobarrel domain
CDDcd100174.53E-21128222No hitNo description
PROSITE profilePS5086312.52130224IPR003340B3 DNA binding domain
SMARTSM010191.6E-19130224IPR003340B3 DNA binding domain
PfamPF023622.0E-15130223IPR003340B3 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: 228 aa     Download sequence    Send to blast
MDMNSAQNHF SKRARLFENP NDRDARVMYP SNPTSTEPVN RGGYGGSTAI QSFFKDSTPE  60
ETPKVLKKRG RKKKNPNPED INSSTPGGDD SENRSKFYES ASARKRTVTA EERERAVTAA  120
KTFEPANPFF RVVLRPSYLY RGCIMYLPSG FAEKYLSGIS GFIKLQLGEK QWPVRCLYKA  180
GRAKFSQGWY EFTLENNIGE GDVCVFELLR TRDFILKVTA FRVNEYV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A1e-909622715146B3 domain-containing transcription factor VRN1
4i1k_B1e-909622715146B3 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
PlantRegMapCsa03g055350.2
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0156820.0BT015682.1 Arabidopsis thaliana At1g49480 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010500487.11e-169PREDICTED: B3 domain-containing protein REM19
RefseqXP_010500488.11e-169PREDICTED: B3 domain-containing protein REM19
SwissprotQ9XIB51e-152REM19_ARATH; B3 domain-containing protein REM19
TrEMBLR0IJ371e-156R0IJ37_9BRAS; Uncharacterized protein
STRINGXP_010500487.11e-168(Camelina sativa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49480.11e-127related 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]