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 GSBRNA2T00107421001
Common NameGSBRNA2T00107421001, LOC106377210
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family HB-PHD
Protein Properties Length: 690aa    MW: 76384.2 Da    PI: 4.6269
Description HB-PHD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00107421001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox43.94e-14584629853
                          -HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHH CS
             Homeobox   8 tkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRa 53 
                          t+  +++L e F++nryp+ ++re LAk+l++t +qV +WF N R 
  GSBRNA2T00107421001 584 TNPKTQRLFESFHENRYPDISTRENLAKELQMTVKQVNNWFRNTRF 629
                          6678999************************************995 PP
2PHD39.31.5e-13250304150
                          SBTTTSS..TCTTSSEEEBSS.SSSEEETTTSTSSSSHHSHHSS..TBSSHHHHT CS
                  PHD   1 rCkvCgk..sdeegelvlCdg.CkewfHlkClglkleseekpeg..ewlCeeCke 50 
                          +C+ Cg+   + ++++vlCdg C++ fH++C++++l++e++p +  +wlC+ C +
  GSBRNA2T00107421001 250 FCSKCGSkdVHIDNDIVLCDGfCDRGFHQYCVEPPLRKEDIPPDdeSWLCPGCAC 304
                          69****965555********88*******************99999*******97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF579037.75E-14240305IPR011011Zinc finger, FYVE/PHD-type
Gene3DG3DSA:3.30.40.105.9E-13246304IPR013083Zinc finger, RING/FYVE/PHD-type
PROSITE profilePS5001611.03248305IPR019787Zinc finger, PHD-finger
PfamPF006285.4E-11250304IPR019787Zinc finger, PHD-finger
SMARTSM002493.1E-9250303IPR001965Zinc finger, PHD-type
CDDcd155041.64E-26250302No hitNo description
PROSITE patternPS013590251302IPR019786Zinc finger, PHD-type, conserved site
PROSITE profilePS5007112.973574634IPR001356Homeobox domain
SMARTSM003891.9E-9575638IPR001356Homeobox domain
SuperFamilySSF466891.24E-13584631IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.601.7E-13584638IPR009057Homeodomain-like
PfamPF000461.1E-11584629IPR001356Homeobox domain
CDDcd000868.67E-12588628No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 690 aa     Download sequence    Send to blast
MDRAIRRRTT SSGSGLDQTN GAEVTPTPNK VPEAESHMKH ESTNDVNGNV KIANGVSGEE  60
EQESRTPVTV KKSSGTKFTG SHRELVLGLP CRGQFEIKRS SKKLGGGGGS GKKNVLASSH  120
KRAQGSKEAA SVHANPTPVN ESKKRKNYTK KVEVREDDEY TRIKKKLRYF LNRISYEQSL  180
IDAYSLEGWK GSSAEKLRPE KELERAKKEI LRRKVKIREL IQHLDTLCAE GNIPESLFNS  240
HGEISSEDIF CSKCGSKDVH IDNDIVLCDG FCDRGFHQYC VEPPLRKEDI PPDDESWLCP  300
GCACKDYSFE LLNDSLGTKL SVSDSWEKVF PEAAAAMAGG GGSNLDCDLP SDDSEDEEYD  360
PEGLNDNEGD EDGSDESENE DGSSDESASA SEEMIGSFKD AKDIMNLPSD DSEDDDYDPD  420
APARDEDKMQ ESSNSDDSDS DDVEANSKGD ESDQQDEVTP RGKLGRKKSK LPDVSILESD  480
AGIGEDVPGR RKVERLDYKK LYDEEYENVP TSSSDDEDWD KIAGKEDFES ADEGDTVPLE  540
QPSIAEDQKP KRENKKVTLK APQEAHREDG CSGKQSSSAS SKQTNPKTQR LFESFHENRY  600
PDISTRENLA KELQMTVKQV NNWFRNTRFS TSKTMSSKED VEKLRTCKQS EGETSVAGSS  660
KQTEPVTENK SGASESTSSG SRKRRRRLT*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1161167RIKKKLR
2488495GRRKVERL
3681685RKRRR
4682687KRRRRL
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Primarily detected in root tissue.
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
PlantRegMapGSBRNA2T00107421001
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_013672850.10.0homeobox protein HAT3.1
RefseqXP_013672851.10.0homeobox protein HAT3.1
RefseqXP_013672852.10.0homeobox protein HAT3.1
RefseqXP_013672853.10.0homeobox protein HAT3.1
SwissprotQ049960.0HAT31_ARATH; Homeobox protein HAT3.1
TrEMBLA0A3N6SYZ90.0A0A3N6SYZ9_BRACR; Uncharacterized protein
STRINGBo5g114050.10.0(Brassica oleracea)
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
AT3G19510.11e-152Homeodomain-like protein with RING/FYVE/PHD-type zinc finger domain
Publications ? help Back to Top
  1. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  2. Sanz-Fernández M, et al.
    Screening Arabidopsis mutants in genes useful for phytoremediation.
    J. Hazard. Mater., 2017. 335: p. 143-151
    [PMID:28441590]