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 XP_009108342.1
Organism
Brassica rapa
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 HD-ZIP
Protein Properties Length: 734aa    MW: 82231.5 Da    PI: 6.4031
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009108342.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox55.87.6e-1894148256
                     T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
        Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                     ++ ++++++q++e+e++F+ n++p+ +++++L+++lgLt  qVk+WFqNrR + k
  XP_009108342.1  94 KRLHRHSTHQIQEMEAFFKVNPHPNDDDKTRLSEELGLTPLQVKFWFQNRRNQIK 148
                     4457899********************************************8765 PP
2START151.19.9e-482504752206
                     HHHHHHHHHHHHHHHC-TT-EEEE.....EXCCTTEEEEEEESSS.....SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEEEEE CS
           START   2 laeeaaqelvkkalaeepgWvkss.....esengdevlqkfeeskv....dsgealrasgvvdmvlallveellddkeqWdetla....kaetle 83 
                     la ++ qel k+ + +ep+W k        s+n+d++ + f+   v    ++ ea+ra +vv+m++ +lv+ +ld   +W+e++     +a+t++
  XP_009108342.1 250 LAVSCVQELAKMCATNEPLWNKKGsdneiISLNEDVYKKMFQWPSVddnhFRREASRANTVVIMNSITLVNAFLDAD-KWSEMFCsivsRAKTIQ 343
                     578899**************9998767665566666666654333377778**************************.******999*9****** PP

                     EECTT.....EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE..TTS-EEEEEEEEE-TTS--.....-TTSEE-EESSEEEEEEEECTCEEEEEEE CS
           START  84 vissg.....galqlmvaelqalsplvp.RdfvfvRyirq.lgagdwvivdvSvdseqkppe....sssvvRaellpSgiliepksnghskvtwv 167
                      issg     g l lm+aelq++splvp R+ +f+Ry +q  +ag+w+ivd  vd   kp +    + ++ R    pSg++i+++sng+s++twv
  XP_009108342.1 344 IISSGvsgasGSLLLMYAELQVPSPLVPtREIYFLRYVKQnAEAGKWMIVDFPVDGLIKPASgittTDQYRR---MPSGFIIQDMSNGYSQITWV 435
                     *******************************************************99999888775555555...******************** PP

                     E-EE--SSXX.HHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
           START 168 ehvdlkgrlp.hwllrslvksglaegaktwvatlqrqcek 206
                     ehv+++++++ h+++r  v+sg+a+ga +w+a l+rqce+
  XP_009108342.1 436 EHVEVEEKHVhHEMVREYVESGAAFGAERWLAVLRRQCER 475
                     **********9***************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466899.19E-1876148IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.603.0E-1890144IPR009057Homeodomain-like
PROSITE profilePS5007116.21290150IPR001356Homeobox domain
SMARTSM003891.2E-1791154IPR001356Homeobox domain
CDDcd000866.03E-1892151No hitNo description
PfamPF000465.3E-1594147IPR001356Homeobox domain
PROSITE patternPS000270125148IPR017970Homeobox, conserved site
PROSITE profilePS5084845.848240478IPR002913START domain
SuperFamilySSF559613.3E-32242477No hitNo description
CDDcd088751.81E-97244474No hitNo description
SMARTSM002342.0E-33249475IPR002913START domain
PfamPF018525.0E-40250475IPR002913START domain
SuperFamilySSF559612.75E-9495683No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 734 aa     Download sequence    Send to blast
MYEDHQVAKS GKEGGHMVTN YSDNIFGSAS SSPTGTVQNP DFKLSTFLNP NFSYVIPKEE  60
YGMMSMTENG SAWSGNNPVE DSAIEQQLPP VKKKRLHRHS THQIQEMEAF FKVNPHPNDD  120
DKTRLSEELG LTPLQVKFWF QNRRNQIKIE QDRSDNKMLK AENETLKTEN RKLQFDLQRL  180
SCSSCGGSRD KLHLENYRLR QELDRLHSIA SLMNPCLPPP ETACLFPDMK DNITNNLLIA  240
KEDKAVAMDL AVSCVQELAK MCATNEPLWN KKGSDNEIIS LNEDVYKKMF QWPSVDDNHF  300
RREASRANTV VIMNSITLVN AFLDADKWSE MFCSIVSRAK TIQIISSGVS GASGSLLLMY  360
AELQVPSPLV PTREIYFLRY VKQNAEAGKW MIVDFPVDGL IKPASGITTT DQYRRMPSGF  420
IIQDMSNGYS QITWVEHVEV EEKHVHHEMV REYVESGAAF GAERWLAVLR RQCERMPSLM  480
ATNITDLGVI PSVEAKRKLM KLSQSMVRTY CLTISNSYGQ ALSESPKETV RITTRKVCGG  540
VVLCGVSTTL LPYSHHQVFD FLRHDHGRSQ MEEMFNENPF QEVAHIENGS HPGNCISLLH  600
FHGASSSNNV EWMLQETCTD NSGSLVVYST VHANAVQLAM SGEDPSRIPL LPLGFSVVPV  660
NQPHVVEGIS VNLDSCLLTV AIQVLVSNAT TATLNLSTTV INNRICSTVY RISSALGSPL  720
LPEIPSSFKQ EISN
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in flowers. {ECO:0000269|PubMed:16778018}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009108342.1
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_009108342.10.0PREDICTED: homeobox-leucine zipper protein HDG4
SwissprotQ8L7H40.0HDG4_ARATH; Homeobox-leucine zipper protein HDG4
TrEMBLM4DWY90.0M4DWY9_BRARP; Uncharacterized protein
STRINGBra021035.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM43562548
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G17710.10.0homeodomain GLABROUS 4
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]