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 RrC1210_p4
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 HB-PHD
Protein Properties Length: 813aa    MW: 92021.2 Da    PI: 4.4122
Description HB-PHD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC1210_p4genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox32.61.4e-104554981053
                 HHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHH CS
    Homeobox  10 eqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRa 53 
                   +e L ++F++n  ps++ r  L+k+l+L+ ++V+ WF+N R+
  RrC1210_p4 455 AAVEKLRQVFAENELPSKSVRDSLSKELSLDPEKVSKWFKNTRY 498
                 67899*************************************97 PP
2PHD42.12e-14188243151
                 SBTTTSS..TCTTSSEEEBS.SSSSEEETTTSTSSSSHHSHHSS..TBSSHHHHTT CS
         PHD   1 rCkvCgk..sdeegelvlCd.gCkewfHlkClglkleseekpeg..ewlCeeCkek 51 
                 +C+ C++  +  +++++lCd +C+++fH+kCl+++le+e++p g   w+C+ C++k
  RrC1210_p4 188 FCAECNSreASLDNDIILCDgTCNRAFHQKCLDPPLETESIPPGdqGWFCKFCDCK 243
                 6999**965555********56********************9999*******985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF579031.32E-13180245IPR011011Zinc finger, FYVE/PHD-type
Gene3DG3DSA:3.30.40.102.0E-12184243IPR013083Zinc finger, RING/FYVE/PHD-type
PROSITE profilePS5001611.056186243IPR019787Zinc finger, PHD-finger
CDDcd155041.62E-31188240No hitNo description
SMARTSM002496.0E-10188241IPR001965Zinc finger, PHD-type
PfamPF006281.3E-11188243IPR019787Zinc finger, PHD-finger
PROSITE patternPS013590189240IPR019786Zinc finger, PHD-type, conserved site
Gene3DG3DSA:1.10.10.604.2E-12431497IPR009057Homeodomain-like
PROSITE profilePS5007112.552443503IPR001356Homeobox domain
SuperFamilySSF466894.06E-10443507IPR009057Homeodomain-like
SMARTSM003891.0E-10445507IPR001356Homeobox domain
CDDcd000865.93E-8446498No hitNo description
PfamPF000465.0E-8455498IPR001356Homeobox domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009733Biological Processresponse to auxin
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 813 aa     Download sequence    Send to blast
MEESETKGKK VKKETEKACV SVERAESTLL SSLVKKKGKE TTSKRKYNKR KTEEEICSKF  60
SNKKYSLGEE EDEGKKRRKR KSKTQQKGNK VVEEVDEALR LQRRTRYLLI KMKMQQNLID  120
AYAAEGWKGQ SREKIRPDKE LERARKHILD CKLGLREAIR QLDLLSSVGR MEEKVMGPDG  180
SIHHDHIFCA ECNSREASLD NDIILCDGTC NRAFHQKCLD PPLETESIPP GDQGWFCKFC  240
DCKIEIIDTM NAQIGTQYPV DSNWQDIFNE EASLPVGSEA ALNKEADWPS DDSEDGDYDP  300
EMKERSNSRS DSGGGGGGDN DGESISTSVS LASDGVALST GSWEGQEFGN VVESGETSNE  360
ETVHGPRQRK TVDYTKLYHE MFGKDAVLQE QGSEDEDWGP SDRRKRRKES DAVAMCENSK  420
RDQDVVEETV EQSERDSVSV EGKGGRRPIF RIPRAAVEKL RQVFAENELP SKSVRDSLSK  480
ELSLDPEKVS KWFKNTRYMA LKNRKAESVK QPEESKASSG DSVPEAAAME KNTEANEIQD  540
TVEENKETNE VQDTMDDAVV EKNTEASEVQ ETVDETVTEE SKETNEIQDT VEETVVEERT  600
ETNEVQETLD ESVVEKNTET NEVQDTMDGE TNTETNEIQE TVDEAAMEKN TETNEVENTM  660
DGETITEANE IQDTMDKSVL LKFNDPTNQT TVSPCHEEIQ QANNSFPTPI EDQKSQPYVE  720
QKDSSLTLLP QEEVSSQMSL ETSLEDKERK KEEELEAVME MLCRAENKLL DVTQRLERFR  780
TPKGRKKLGK SYSSLHEEDS VVYVPTAEIK ESR
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
17478KKRRK
27480KKRRKRK
3403408RKRRKE
Functional Description ? help Back to Top
Source Description
UniProtSpecifically binds to the fungal elicitor-responsive DNA element, 5'-CTAATTGTTTA-3', of the gene PR2 promoter.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By pathogen infection.
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_018450297.10.0PREDICTED: LOW QUALITY PROTEIN: pathogenesis-related homeodomain protein-like
SwissprotP487850.0PRH_ARATH; Pathogenesis-related homeodomain protein
TrEMBLA0A078FM680.0A0A078FM68_BRANA; BnaA08g13270D protein
STRINGBra010310.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM86992738
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G29940.10.0pathogenesis related homeodomain protein A
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]