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 Rsa1.0_06088.1_g00002.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family B3
Protein Properties Length: 400aa    MW: 45535.2 Da    PI: 7.752
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_06088.1_g00002.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B345.71.2e-143203991599
                              -EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
                       B3  15 rlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 
                              +  lp  fae++ +g++ + +++   ++  ++W v++    k gr  +++GW eF  +n+L egD++vF+l ++++f l+v++fr 
  Rsa1.0_06088.1_g00002.1 320 ICLLPSGFAEKYlSGIS-GFIKV---QLGEKQWPVRC--LYKAGRAKFSQGWYEFTVENNLGEGDVCVFELLRTRDFVLKVTAFRV 399
                              5689********74442.43344...4677*******..666666779************************99*******99985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF511973.09E-5556215No hitNo description
Gene3DG3DSA:2.60.120.3301.1E-5157219IPR027443Isopenicillin N synthase-like
PfamPF031713.2E-6113148IPR005123Oxoglutarate/iron-dependent dioxygenase
PROSITE profilePS5086311.166306400IPR003340B3 DNA binding domain
SMARTSM010191.6E-11316400IPR003340B3 DNA binding domain
SuperFamilySSF1019362.55E-15321399IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.106.8E-17321398IPR015300DNA-binding pseudobarrel domain
PfamPF023624.5E-13321399IPR003340B3 DNA binding domain
CDDcd100177.49E-15323398No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0055114Biological Processoxidation-reduction process
GO:0003677Molecular FunctionDNA binding
GO:0016491Molecular Functionoxidoreductase activity
Sequence ? help Back to Top
Protein Sequence    Length: 400 aa     Download sequence    Send to blast
AVDNYYKPDL KKTALARQNF IGYKDFSWIV QFLACNTSTD STTVPASTVP EDTELRKLTN  60
PWPQNPSDFR EVCQEYAREV EKLAFKLLEL ISISLGLPGD RFTGYFNDQT SFLRFNRYPP  120
CPNPELALGV GRHTDAGVIT VLAQDNVWTN DKYWSAEHRV VVNTSKERFS MPFFLFPSHE  180
VNIEPLEEFI SEDNPPCYKK YNWGKFFAAR NRSDYKKLQN LEDEDAETTV HANTGHASSA  240
IQSFFAGPVK AEEATPTPTL KVTKKRGRKK KNADPEEVNS SAPRDDDPES RSKFYESASA  300
RKRTVTAEER ERAINASKTI CLLPSGFAEK YLSGISGFIK VQLGEKQWPV RCLYKAGRAK  360
FSQGWYEFTV ENNLGEGDVC VFELLRTRDF VLKVTAFRVN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A1e-6229340015143B3 domain-containing transcription factor VRN1
4i1k_B1e-6229340015143B3 domain-containing transcription factor VRN1
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_06088.1_g00002.1
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2411281e-101AC241128.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH040N18, complete sequence.
GenBankAY3563681e-101AY356368.1 Brassica rapa cultivar Samjin reduced vernalization response 1 mRNA, complete cds.
GenBankAY5179291e-101AY517929.1 Brassica rapa cultivar Kwonsim reduced vernalization response 1 mRNA, complete cds.
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM112428103
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G18990.17e-95B3 family protein