PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Rsa1.0_04790.1_g00003.1
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 HB-PHD
Protein Properties Length: 994aa    MW: 111435 Da    PI: 4.4532
Description HB-PHD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_04790.1_g00003.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox42.41.2e-13586631853
                              -HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHH CS
                 Homeobox   8 tkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRa 53 
                              t+  +++L + Fe+nryp+ ++re LAk+l++t +qV+ WF N R 
  Rsa1.0_04790.1_g00003.1 586 TNPRTQRLLKSFEENRYPDITTRENLAKELEMTVKQVSSWFNNTRF 631
                              6677899************************************995 PP
2Homeobox40.16.2e-13889934853
                              -HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHH CS
                 Homeobox   8 tkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRa 53 
                              t+  +++L + Fe+nryp+ ++re LAk+l++t +q++ WF N R 
  Rsa1.0_04790.1_g00003.1 889 TNPRTQRLFKSFEENRYPDITTRENLAKELQMTVKQISSWFNNTRF 934
                              6667899************************************996 PP
3PHD39.11.8e-13247302151
                              SBTTTSSTCT..TSSEEEBSS.SSSEEETTTSTSSSSHHSHHSS..TBSSHHHHTT CS
                      PHD   1 rCkvCgksde..egelvlCdg.CkewfHlkClglkleseekpeg..ewlCeeCkek 51 
                              +C+ Cg+++   +++++lCdg C++ fH++C++++l++e++p +  +wlC+ C++k
  Rsa1.0_04790.1_g00003.1 247 FCAKCGSKELpiDNDIILCDGfCDRGFHQYCVEPPLRKEDIPPDdeSWLCPGCNCK 302
                              6999**944356********88*******************99999*******975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF579037.53E-14238303IPR011011Zinc finger, FYVE/PHD-type
Gene3DG3DSA:3.30.40.107.6E-13243301IPR013083Zinc finger, RING/FYVE/PHD-type
PROSITE profilePS5001611.11245302IPR019787Zinc finger, PHD-finger
CDDcd155042.72E-27247299No hitNo description
PfamPF006287.0E-11247302IPR019787Zinc finger, PHD-finger
SMARTSM002493.1E-9247300IPR001965Zinc finger, PHD-type
PROSITE patternPS013590248299IPR019786Zinc finger, PHD-type, conserved site
SMARTSM003894.3E-9585640IPR001356Homeobox domain
PfamPF000463.5E-11586631IPR001356Homeobox domain
SuperFamilySSF466892.69E-12586636IPR009057Homeodomain-like
PROSITE profilePS5007112.827586636IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.604.0E-13589639IPR009057Homeodomain-like
CDDcd000862.19E-10590630No hitNo description
SMARTSM003891.1E-8888943IPR001356Homeobox domain
PfamPF000461.9E-10889934IPR001356Homeobox domain
SuperFamilySSF466893.04E-12889939IPR009057Homeodomain-like
PROSITE profilePS5007112.746889939IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.601.7E-12892942IPR009057Homeodomain-like
CDDcd000861.71E-10893933No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
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: 994 aa     Download sequence    Send to blast
MHSANRRRTR SSGSGLDQTN PEVDKVPPVL QTPEAEIHMK HAEEPTRNEG KGISNGVSGE  60
EHKSTTPVTG KKSSVPHRRE VVLGLPCRGQ FEIHRSSKKL GGGGGERNVV VSAHKRCEEA  120
AGSSSVDVNA APTPVDGSKK RKESIVRKSE VREDDEYTRI KKKLRYFLNR IRYEQSLIDA  180
YSLEGWKGSS AEKLRPEKEL ERAKKEILKR KVKIRELFQY LDTLCAQGSI PESLFDSGGE  240
ISSEDIFCAK CGSKELPIDN DIILCDGFCD RGFHQYCVEP PLRKEDIPPD DESWLCPGCN  300
CKDYSMDLLN ESLGTKLSVS DSWEKVFPEA AAAMAGGDQT LDCDLPSDDS EDEEYDPDGL  360
NDKADDEDGS DDSDESENED GSCDESDCTS ASDEMIESFK DAKDMMDLPS DDSEDDDYDK  420
MQECSDSDNS SDSEDLETSF KGDESNHQYE VTPRGKPGRK KSQLPDVPIS ESDTGIDDDG  480
LVDVPGRRKV ERLDYKKLYD DEYENVPTSS SDDEDWDKTA GTEDLESAEE GDTVPLKQHS  540
EAEEHTSTKK PRQISKRDTL KAPQEVRREN GCSGEKSSSA VYNKQTNPRT QRLLKSFEEN  600
RYPDITTREN LAKELEMTVK QVSSWFNNTR FSTSKRMASK DDVEKLRTGE GETSVAGSSE  660
QTMETNSVIV NKIGASNITN TGSRKRKQYD EMIESFKEAK DIMDLPSDDS EDDDYDPDAP  720
IHDEDKMQEC SDSDYTSDSE DVESNQQDEV TPRGKPGRKK SQLPDVPISE SDTGIDDDGL  780
VDVPGRRKVE RLDYKKLYDE EYENVATSSS DDEDWDKTAG KEDFESAEEG DTVPRTQHTE  840
AEEHTSTKKP GQVSKGESKK DTLKAPQELR RENDCSGEKS SSAVYKKQTN PRTQRLFKSF  900
EENRYPDITT RENLAKELQM TVKQISSWFN NTRFSTNKRM ASKEDVEKLR TGEGETSVAG  960
SSEQTMGTNS VIENKIGASD LTNSVSRKRR RRLI
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1158164RIKKKLR
2682687SRKRKQ
3784791GRRKVERL
4986990RKRRR
5987992KRRRRL
Functional Description ? help Back to Top
Source Description
UniProtBinds only to large DNA fragments. Recognizes a DNA fragment carrying 8 copies of box7 motif of the light-induced cab-E promoter of Nicotiana plumbaginifolia. Also recognizes the box7m1 motif.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_04790.1_g00003.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1171050.0AK117105.1 Arabidopsis thaliana At3g19510 mRNA for putative homeobox protein HAT3.1, complete cds, clone: RAFL16-64-G01.
GenBankBT0059650.0BT005965.1 Arabidopsis thaliana At3g19510 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018433119.10.0PREDICTED: homeobox protein HAT3.1-like
SwissprotQ049960.0HAT31_ARATH; Homeobox protein HAT3.1
TrEMBLA0A3P5ZFP40.0A0A3P5ZFP4_BRACM; Uncharacterized protein
STRINGBra038213.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM72702543
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G19510.10.0Homeodomain-like protein with RING/FYVE/PHD-type zinc finger domain
Publications ? help Back to Top
  1. Sanz-Fernández M, et al.
    Screening Arabidopsis mutants in genes useful for phytoremediation.
    J. Hazard. Mater., 2017. 335: p. 143-151
    [PMID:28441590]