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 RrC1952_p2
Organism
Raphanus raphanistrum
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: 712aa    MW: 79984.7 Da    PI: 9.4418
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC1952_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B353.93.3e-17595194
                EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTE.EEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EE CS
          B3  1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgr.yvltkGWkeFvkangLkegDfvvFkldgrsefelvv 94
                ff +l+ s++ +++rl++p kfa++++ +   s+ + l+ ++g +W+v l  rk ++  +++++GW+eFv+   ++ g  +vF+++g+s f+ ++
  RrC1952_p2  5 FFHKLIFSSTIQEKRLRVPDKFASKFKDE--LSVAVALTVPDGHVWRVGL--RKADNNkIWFQDGWQEFVDRYSIRIGYLLVFRYEGNSAFSVYI 95
                889999*****************999755..99*****************..66655559***************************99995544 PP
2B338.52.1e-122563251793
                 E--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS
          B3  17 vlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 
                 +lp  fae++ +g++ + +++   ++  ++W v++    k gr  +++GW eF  +n+L egD++vF+l ++++f  v
  RrC1952_p2 256 YLPSGFAEKYlSGIS-GFIKV---QLGEKQWPVRC--LYKAGRAKFSQGWYEFTLENNLGEGDVCVFELLRTRDF--V 325
                 7999******74442.43344...4677*******..666666779**********************9988887..3 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.106.2E-22398IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019368.24E-21398IPR015300DNA-binding pseudobarrel domain
CDDcd100178.51E-19597No hitNo description
PfamPF023622.1E-14595IPR003340B3 DNA binding domain
SMARTSM010192.5E-18599IPR003340B3 DNA binding domain
PROSITE profilePS5086314.833599IPR003340B3 DNA binding domain
PROSITE profilePS5086310.771240332IPR003340B3 DNA binding domain
SMARTSM010191.4E-11243332IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.107.1E-16253327IPR015300DNA-binding pseudobarrel domain
CDDcd100176.22E-12253321No hitNo description
SuperFamilySSF1019366.08E-15253327IPR015300DNA-binding pseudobarrel domain
PfamPF023624.1E-11255325IPR003340B3 DNA binding domain
PROSITE profilePS513756.906499529IPR002885Pentatricopeptide repeat
PfamPF130411.3E-7529576IPR002885Pentatricopeptide repeat
PROSITE profilePS5137510.052530564IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007566.8E-4533566IPR002885Pentatricopeptide repeat
PROSITE profilePS513759.35565595IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007564.2E-4567600IPR002885Pentatricopeptide repeat
PROSITE profilePS513755.886601631IPR002885Pentatricopeptide repeat
PROSITE profilePS513757.136671705IPR002885Pentatricopeptide repeat
PfamPF015350.062675702IPR002885Pentatricopeptide repeat
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 712 aa     Download sequence    Send to blast
MPRPFFHKLI FSSTIQEKRL RVPDKFASKF KDELSVAVAL TVPDGHVWRV GLRKADNNKI  60
WFQDGWQEFV DRYSIRIGYL LVFRYEGNSA FSVYIYNLSH SEINYHSSGL MDTPHNHLKR  120
ARLFEDLEDE DAAAAELVVY SSSSSVYPPS SHHPGVTVAV NKGYASSPAI QSFFAGPVKA  180
EETTPTPKVA KKRGRKKKNP VPEEINSSAP RDDDPESRSK FYESASARKR TVTAEERERA  240
INAAKTFEPT NPFFRYLPSG FAEKYLSGIS GFIKVQLGEK QWPVRCLYKA GRAKFSQGWY  300
EFTLENNLGE GDVCVFELLR TRDFVLKSFP YRLICSGGGG ISNRKFRVGF LSLLQRNTKT  360
LVQAKQIHAQ LVINGCFRDN SLLGKLIGHY CSKQSTESSK LAHSLAFPRF SRPDKFLFNT  420
LLKCSNPEDS IRLFTSWASK SSLLYLNERT FVFLLGACAR SASSSSRVGR IVHGMMGLLE  480
VGSLIHGYVE KLGFTPEVDV FIGTGLVDMY SKCGCLTSAI SVFELMRVKN VLTWTSMATG  540
LALNGRGSET PSLLNRMAES GIRPNEVTFT SLLSAYRHIG LVQEGLELFR SMRTRFGVTP  600
VIQHYGCVVD LLGKAGRLRE AYEFVLAMPI KPDSIMLRSL CNACSVYGET VMGEEIGKAL  660
MEMEQEEKGD ECEDYVALSN VFASKGKWVE VEKLRNEMKE LRIKTRPGYS FV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A5e-6622033315142B3 domain-containing transcription factor VRN1
4i1k_B5e-6622033315142B3 domain-containing transcription factor VRN1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2325620.0AC232562.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH054E04, complete sequence.
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
AT3G18990.10.0B3 family protein