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_009101475.1
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: 820aa    MW: 91295.5 Da    PI: 5.3404
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009101475.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox65.66.6e-21111166156
                     TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
        Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                     +++ +++t+ q+ee+e+lF++n++p+ ++r++L+++lgL+ rqVk+WFqNrR+++k
  XP_009101475.1 111 KKRYHRHTNRQIEEMEALFKQNPHPDDKQRQRLSHELGLKPRQVKFWFQNRRTQMK 166
                     688999***********************************************998 PP
2START1457e-463195481206
                     HHHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS................SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S... CS
           START   1 elaeeaaqelvkkalaeepgWvkssesengdevlqkfeeskv...............dsgealrasgvvdmvlallveellddkeqWdetla... 77 
                     e+a ++ qel k+   eep+W k  + ++g evl   ee+                 ++ ea++a +vv+m++ +lv  +l+   +W+e++    
  XP_009101475.1 319 EIAVSCVQELTKMCNTEEPLWIKKKSDKMGGEVLCLNEEEYKrlfpwpmenhnnkgdFRREASKANAVVIMNSITLVDAFLNAD-KWSEMFCsiv 412
                     578899*******************888888877655444445799999********9**************************.******9999 PP

                     .EEEEEEEECTT.....EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE..TTS-EEEEEEEEE-TTS--..-TTSEE-EESSEEEEEEEECTCEEE CS
           START  78 .kaetlevissg.....galqlmvaelqalsplvp.RdfvfvRyirq.lgagdwvivdvSvdseqkppe.sssvvRaellpSgiliepksnghsk 163
                      +a+t++ issg     g l lm+aelq+lsplvp R+ +f+Ry +q  + g w+ivd  +d+ q+ +  +++  +  + pSg++i++++ng+s+
  XP_009101475.1 413 aRAKTVQIISSGvsgasGSLLLMYAELQVLSPLVPtREAYFLRYVEQnAENGNWAIVDFPIDQIQPLSAnTPHEYK--RKPSGCIIQDMPNGYSQ 505
                     9**********************************************99***************999866444444..7**************** PP

                     EEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
           START 164 vtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206
                     v wvehv++++r++h+++   vksg+a+ga++w+  l+rqce+
  XP_009101475.1 506 VKWVEHVEVNERHVHEIFAEYVKSGIAFGASRWLDVLERQCER 548
                     *****************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466896.27E-20103169IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.603.4E-21105174IPR009057Homeodomain-like
PROSITE profilePS5007117.75108168IPR001356Homeobox domain
SMARTSM003896.4E-19109172IPR001356Homeobox domain
PfamPF000462.2E-18111166IPR001356Homeobox domain
CDDcd000863.32E-19111169No hitNo description
PROSITE patternPS000270143166IPR017970Homeobox, conserved site
PROSITE profilePS5084843.495310551IPR002913START domain
SuperFamilySSF559618.1E-30311550No hitNo description
CDDcd088759.76E-104314547No hitNo description
SMARTSM002346.4E-27319548IPR002913START domain
PfamPF018522.2E-38320548IPR002913START domain
SuperFamilySSF559611.79E-12578799No 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: 820 aa     Download sequence    Send to blast
MLTMGEENVM TTDNRFASPQ PPSSSPATIQ NPNFNFNPFN SFSSVIPEEH GMMSMSMLMM  60
MGDGGVEEMM ENGSAGGSSG SGSEQAEDQK SGNEFDVAEL QDEEQPPPAK KKRYHRHTNR  120
QIEEMEALFK QNPHPDDKQR QRLSHELGLK PRQVKFWFQN RRTQMKAQQD RAENVMLRAD  180
NDNLKAENSH LQAELRCLSC PSCGGPTVLG DIPFNELHIE NCRLREELDR LSSIASRYTG  240
RPMEPSQPMI NPPLEVQHHQ PSLELDMSVY AGNFQEQPCS DMMLLPPQDT ACYLQVQTNN  300
NSNGNNMVLA DEEKVIAMEI AVSCVQELTK MCNTEEPLWI KKKSDKMGGE VLCLNEEEYK  360
RLFPWPMENH NNKGDFRREA SKANAVVIMN SITLVDAFLN ADKWSEMFCS IVARAKTVQI  420
ISSGVSGASG SLLLMYAELQ VLSPLVPTRE AYFLRYVEQN AENGNWAIVD FPIDQIQPLS  480
ANTPHEYKRK PSGCIIQDMP NGYSQVKWVE HVEVNERHVH EIFAEYVKSG IAFGASRWLD  540
VLERQCERMA SLMARNITDL GVIPSAEGRR NMMRLSQRMM KTFCVNISTS YGQSWTALSE  600
TTKDTVRITT RKVCEPGQPT GVVLAAVSTI WLPFSHAKVF DLLRHQHHHS LLEVLFSGSS  660
PHEVAHIANG SHPGNCISLL RINVSSNSWH NVELMLQESC IDNSGSLIVY SSVDVDSIKH  720
AMNGEDPSGM PLLPLGFSVV PVNYPDQVEG VSVNSIPLPS CLLTVGIQVL ASNVPTAKPN  780
LSTVTTINNH LCSIVNQITS VLSSTIPPAG DDAVAKQEVI
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in shoot apical meristem (SAM) with higher levels in L1 cells and the epidermal layer of young leaves. Expressed in the L1 of apical inflorescence meristems, early flower primordia, carpel and stamen filament epidermis, ovule primordia, nucellus and chalaze. {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_009101475.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1892450.0AC189245.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB017K02, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009101472.10.0PREDICTED: homeobox-leucine zipper protein HDG5
RefseqXP_009101473.10.0PREDICTED: homeobox-leucine zipper protein HDG5
RefseqXP_009101474.10.0PREDICTED: homeobox-leucine zipper protein HDG5
RefseqXP_018514995.10.0PREDICTED: homeobox-leucine zipper protein HDG5
RefseqXP_018514996.10.0PREDICTED: homeobox-leucine zipper protein HDG5
SwissprotQ9FJS20.0HDG5_ARATH; Homeobox-leucine zipper protein HDG5
TrEMBLA0A3P5Z7V30.0A0A3P5Z7V3_BRACM; Uncharacterized protein
STRINGBo01466s010.10.0(Brassica oleracea)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G46880.10.0homeobox-7
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]
  2. Lung SC, et al.
    Arabidopsis ACYL-COA-BINDING PROTEIN1 interacts with STEROL C4-METHYL OXIDASE1-2 to modulate gene expression of homeodomain-leucine zipper IV transcription factors.
    New Phytol., 2018. 218(1): p. 183-200
    [PMID:29288621]