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_03893.1_g00001.1
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: 586aa    MW: 66338.4 Da    PI: 5.3705
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_03893.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B331.72.7e-1019921190
                             HHTT-EE--HHH.HTT.---..--SEEEEEE.TTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS
                       B3 11 lksgrlvlpkkfaeeh.ggkkeesktltled.esgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90
                             + ++ l++p +f++++ +g +  + t +l++ +s  +W+vk+     sgr +l++GW+eF+ a+ L++g  ++ +++g+  f
  Rsa1.0_03893.1_g00001.1 19 FHTH-LIIPVNFFSKYiEGRS-VDNTAQLKSgSSDITWQVKM-----SGR-ILSDGWREFAVAHSLQAGHLILVRYEGDLVF 92
                             4455.9**********85554.4459999996777*******.....444.59**********************9885444 PP
2B352.96.7e-171562401198
                              HHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEE CS
                       B3  11 lksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkv 96 
                              l  + l+lp +f++++g+ ke+  +++l d +g sW++ l+++ +s+++++  +W++F+++ng ++g  ++Fkl+g +++++v+ +
  Rsa1.0_03893.1_g00001.1 156 LLIDTLYLPQHFTSSNGLRKES-HKIVLIDGEGGSWTLDLRFNDSSDTFYMN-CWRSFCEENGQEAGGNFTFKLVG-NGETPVLCF 238
                              555789***********99865.6*************************999.**********************9.666688888 PP

                              E- CS
                       B3  97 fr 98 
                              + 
  Rsa1.0_03893.1_g00001.1 239 CP 240
                              76 PP
3B353.15.8e-17361452499
                              E-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS
                       B3   4 vltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 
                              + ++++ l+ +r++lp +f++e +++k++  ++ l  ++ r+W  +l ++ ++gr+ l++GWk F++ang k g++v+++ ++ ++
  Rsa1.0_03893.1_g00001.1 361 IKIRPYILTCNRMRLPQQFVTESNMNKTG--MIYLLGKDDRKWMTNL-VEERDGRMNLGSGWKVFAEANGFKPGESVTLESIW-ED 442
                              5677899999**********999999766..8***************.688888899***********************999.99 PP

                              E..EEEEE-S CS
                       B3  90 felvvkvfrk 99 
                              +++++++fr+
  Rsa1.0_03893.1_g00001.1 443 GTPMIRFFRT 452
                              99*****996 PP
4B3375.8e-12492581598
                              -..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS.SE CS
                       B3   5 ltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr.se 89 
                              l+p+dv +   l+lp +f++++g++  e  ++++     +++e+  +   ++g++ l++GW eF++ang+k +++++++++++ ++
  Rsa1.0_03893.1_g00001.1 492 LLPEDVKAG-VLMLPSQFLKANGINRLE--KIVILA--ENKMELSGCLLSRGGTVALENGWGEFCEANGVKLRESFTLEFIKKpDK 572
                              566676665.5***********988444..455444..5788888877999999***************************99677 PP

                              E..EEEEE- CS
                       B3  90 felvvkvfr 98 
                              +  v+k+++
  Rsa1.0_03893.1_g00001.1 573 TAHVFKFCS 581
                              767777776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.6E-13895IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086310.0668100IPR003340B3 DNA binding domain
CDDcd100175.76E-12995No hitNo description
SuperFamilySSF1019361.49E-12995IPR015300DNA-binding pseudobarrel domain
SMARTSM010197.0E-1511100IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.0E-17139241IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.82E-18140241IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086313.662146241IPR003340B3 DNA binding domain
CDDcd100172.34E-14146240No hitNo description
SMARTSM010192.1E-25147242IPR003340B3 DNA binding domain
PfamPF023621.5E-14151240IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.106.6E-16348452IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.53E-17354453IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086313.042358453IPR003340B3 DNA binding domain
SMARTSM010197.4E-22358453IPR003340B3 DNA binding domain
PfamPF023621.7E-15360452IPR003340B3 DNA binding domain
CDDcd100174.97E-15366451No hitNo description
Gene3DG3DSA:2.40.330.101.3E-13480580IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019369.02E-14485580IPR015300DNA-binding pseudobarrel domain
CDDcd100174.59E-8486578No hitNo description
PROSITE profilePS508639.122487582IPR003340B3 DNA binding domain
SMARTSM010192.2E-14487583IPR003340B3 DNA binding domain
PfamPF023627.4E-10490581IPR003340B3 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: 586 aa     Download sequence    Send to blast
MAKSTLLRPQ FFHKLVPGFH THLIIPVNFF SKYIEGRSVD NTAQLKSGSS DITWQVKMSG  60
RILSDGWREF AVAHSLQAGH LILVRYEGDL VFHVTDCGEI PSNKNGDDDK HSHPRTDVDD  120
DLPNKKRAKT NSNKTEADSS SLGNSYFVAT VTAFNLLIDT LYLPQHFTSS NGLRKESHKI  180
VLIDGEGGSW TLDLRFNDSS DTFYMNCWRS FCEENGQEAG GNFTFKLVGN GETPVLCFCP  240
TESITSKRQR DSSEEEEDTE WESGEEDEPL KETEKNKCDP KRRAVPYSSD SPLILEDTTP  300
AFSLCCPDQS TSDKDQEDYF KRIKKQSLYI DPGSKDENNK EENMSWERDS TPSGQNPLVT  360
IKIRPYILTC NRMRLPQQFV TESNMNKTGM IYLLGKDDRK WMTNLVEERD GRMNLGSGWK  420
VFAEANGFKP GESVTLESIW EDGTPMIRFF RTWSNNSSKT NKKESVSTEV VTEPRTRDSS  480
SEIHDRFVTL TLLPEDVKAG VLMLPSQFLK ANGINRLEKI VILAENKMEL SGCLLSRGGT  540
VALENGWGEF CEANGVKLRE SFTLEFIKKP DKTAHVFKFC SPETNR
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_03893.1_g00001.1
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_018436183.10.0PREDICTED: B3 domain-containing protein REM12-like
TrEMBLA0A078H8C21e-180A0A078H8C2_BRANA; BnaA09g41270D protein
STRINGBra007836.1-P1e-146(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM137801326
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G24650.18e-71DNA binding;DNA binding;sequence-specific DNA binding transcription factors