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_00003.1_g00026.1
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: 1366aa    MW: 154572 Da    PI: 6.8211
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00003.1_g00026.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B346.94.8e-151332003299
                              --SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
                       B3  32 esktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 
                              +++ l++ede+g+ W++ ++  k  +ryvltkGW+++vk+++L +gDfv +++  +++ +l+++++r+
  Rsa1.0_00003.1_g00026.1 133 TERILRVEDEEGKPWQFGFSDLKVTQRYVLTKGWSNYVKEKQLVAGDFVFLQRLYTDSSRLFIGFRRR 200
                              33479**************99999****************************7767777799999997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.3E-1797209IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.12E-1398196IPR015300DNA-binding pseudobarrel domain
SMARTSM010199.8E-5102201IPR003340B3 DNA binding domain
PROSITE profilePS5086311.152104201IPR003340B3 DNA binding domain
CDDcd100179.15E-11127198No hitNo description
PfamPF023625.9E-13128200IPR003340B3 DNA binding domain
SMARTSM002553.7E-5240385IPR000157Toll/interleukin-1 receptor homology (TIR) domain
PfamPF015821.7E-16252356IPR000157Toll/interleukin-1 receptor homology (TIR) domain
SuperFamilySSF522001.83E-14255358IPR000157Toll/interleukin-1 receptor homology (TIR) domain
PROSITE profilePS501048.86279352IPR000157Toll/interleukin-1 receptor homology (TIR) domain
Gene3DG3DSA:3.40.50.101401.4E-6288357IPR000157Toll/interleukin-1 receptor homology (TIR) domain
SuperFamilySSF525404.89E-40408652IPR027417P-loop containing nucleoside triphosphate hydrolase
PfamPF009311.3E-20420659IPR002182NB-ARC
Gene3DG3DSA:3.40.50.3002.0E-5424439IPR027417P-loop containing nucleoside triphosphate hydrolase
PRINTSPR003643.0E-21426441No hitNo description
Gene3DG3DSA:3.40.50.3007.1E-7440572IPR027417P-loop containing nucleoside triphosphate hydrolase
PRINTSPR003643.0E-21502516No hitNo description
PRINTSPR003643.0E-21593607No hitNo description
SuperFamilySSF467852.18E-5629732IPR011991Winged helix-turn-helix DNA-binding domain
Gene3DG3DSA:3.40.50.3002.0E-5680721IPR027417P-loop containing nucleoside triphosphate hydrolase
SuperFamilySSF520583.4E-31753979IPR032675Leucine-rich repeat domain, L domain-like
Gene3DG3DSA:3.80.10.106.0E-25756982IPR032675Leucine-rich repeat domain, L domain-like
PfamPF077258.2E-8818835IPR011713Leucine-rich repeat 3
PRINTSPR003643.0E-21905921No hitNo description
SMARTSM005091.6E-710641138IPR003617Transcription elongation factor, TFIIS/CRSP70, N-terminal, sub-type
CDDcd001834.18E-1310641137No hitNo description
Gene3DG3DSA:1.20.930.109.1E-1910641137IPR017923Transcription factor IIS, N-terminal
PROSITE profilePS5131918.31710651139IPR017923Transcription factor IIS, N-terminal
SuperFamilySSF476761.07E-1510651144IPR017923Transcription factor IIS, N-terminal
PfamPF087113.3E-1310861136IPR017923Transcription factor IIS, N-terminal
PROSITE profilePS5010311.72311961224IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006351Biological Processtranscription, DNA-templated
GO:0007165Biological Processsignal transduction
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
GO:0043531Molecular FunctionADP binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 1366 aa     Download sequence    Send to blast
MEEMKAFCEF LSHRQPPRSL SESTADDAIE YLRTLPPDRF NKAVSRLSEA TFNEIDGDHP  60
FNSPMVTTFL HERVKANEQA NEEEDGDKKR GGKSDGDQEI LLEKYLTTSD LSNLDTHVAA  120
VDEDFGKYFL LATERILRVE DEEGKPWQFG FSDLKVTQRY VLTKGWSNYV KEKQLVAGDF  180
VFLQRLYTDS SRLFIGFRRR QASALGQCQD LTSLATSSEQ LKEVETPPQL RSHGRHVTEL  240
DPVLVISCGE NQDSEERYFI SYISKELCLR GFTPLIYDLT RSTLTAGLEM LHSSRVGVII  300
FSKNYVCSRQ CQDEFVAIMD HSKANNLVLL PVFFKVEVTD IRGQSGSFGR AFSRLEYSVL  360
ASQAPYLTSI NKYQYKKGDE VLLAKNIVRD VCFLLNPDTN MNLRGRLQMK SILSLLNFSQ  420
FSAPHIVGLW GMAGIGKTTI AREIFGTQAE RYEVCYFLPD FHIVCQTRGL SHLRDEFFSK  480
ICGEEKVIVD AYDTKLGFIR DRFLGKKLLI VLDGVSNARD AEFLVGGFGW LSGGHTLILT  540
SRNRQVLVQC NAKEIRKIQK LSEPESLHLF SQFATEQNWK ERTSLVTELV NYASGIPLAL  600
CALGSSLQNQ CINEEKQHLK GLRQHPLVEI QDAFKISFSV LDDNEKNTFL DLACFFRGER  660
KDHVVNILDG CGFITDLGIY GLIDESLISL VDNKIEMPNI FQDTGRFVVC QESNETGKRS  720
RLCDPTDIVD VLTNNSGTEA IEGIFLDASG LTVELSPTAF EKMYRLRLLK LYSPTSKTHC  780
NVCLPQGLYS LPDELRLLHW ERYPLGSLPR NFNPKNIVEL NMPYSNMTKL WKGTKNLEKL  840
KRIILSHSRQ LTKFPRLSKA KNLEHIDLEG CTSLVKVNSS ILHHQKLTFL SLKDCSRLRS  900
MPATVHLEAL EVLNLSGCSE LEDLQDFSPN LSELYLAGTA ITKMPSSIGG LTRLVTLDLE  960
NRNRLQHLPP EISNLKAVVS LRSKRPASSI DLSSVEDTAP PHKRCRLKGV IESVILSLRK  1020
KKRESSVSRV NEETEKEKEV REKLVDGNNN DDFDPFAAFW DDRQKSILKI QEKLEDPDLS  1080
EEALVELLQK LEYVDITLED LQGSNIGRVV NQKRRHRSPI VQRLAQQLIN KWKRMVEKFL  1140
RLKPGDFQSP SLIGKRTDCN SESQNKHNPY PFPHPKDRET SVPEGSLNLK GLFPIRPGKP  1200
VCASYFHTGN CSSGSTCIFD HPSLMPVHKN TSLPLIQRFS SSMGDSSSDL VNPATSKRRI  1260
QKNTSSMASE TEHLNQRGFS YSIGDSSSEL VEASTKKPPI HKKTSSLVPQ MPYFNPQGFS  1320
YSIGDSSSEL VETSTMSEVT HTNVGRDTSD SWDDEEDTQF LNWLHL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A3e-14962002113B3 domain-containing transcription factor NGA1
5os9_B3e-14962002113B3 domain-containing transcription factor NGA1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtDisease resistance protein that cooperates with RPP2B to confer resistance to Hyaloperonospora parasitica isolate Cala2. {ECO:0000269|PubMed:15165183}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_00003.1_g00026.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankFJ8428450.0FJ842845.1 Brassica rapa subsp. pekinensis isolate BrTNL19 disease resistance protein gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018480582.10.0PREDICTED: probable WRKY transcription factor 19
SwissprotF4JT780.0RPP2A_ARATH; Disease resistance protein RPP2A
TrEMBLD1GEI40.0D1GEI4_BRARP; Disease resistance protein
STRINGBra012540.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM5462920
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G12020.11e-147WRKY family protein
Publications ? help Back to Top
  1. Meyers BC,Morgante M,Michelmore RW
    TIR-X and TIR-NBS proteins: two new families related to disease resistance TIR-NBS-LRR proteins encoded in Arabidopsis and other plant genomes.
    Plant J., 2002. 32(1): p. 77-92
    [PMID:12366802]
  2. Sinapidou E, et al.
    Two TIR:NB:LRR genes are required to specify resistance to Peronospora parasitica isolate Cala2 in Arabidopsis.
    Plant J., 2004. 38(6): p. 898-909
    [PMID:15165183]
  3. Kempema LA,Cui X,Holzer FM,Walling LL
    Arabidopsis transcriptome changes in response to phloem-feeding silverleaf whitefly nymphs. Similarities and distinctions in responses to aphids.
    Plant Physiol., 2007. 143(2): p. 849-65
    [PMID:17189325]