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_009101473.1
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: 821aa    MW: 91423.7 Da    PI: 5.4163
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009101473.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox65.66.6e-21112167156
                     TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
        Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                     +++ +++t+ q+ee+e+lF++n++p+ ++r++L+++lgL+ rqVk+WFqNrR+++k
  XP_009101473.1 112 KKRYHRHTNRQIEEMEALFKQNPHPDDKQRQRLSHELGLKPRQVKFWFQNRRTQMK 167
                     688999***********************************************998 PP
2START1457e-463205491206
                     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_009101473.1 320 EIAVSCVQELTKMCNTEEPLWIKKKSDKMGGEVLCLNEEEYKrlfpwpmenhnnkgdFRREASKANAVVIMNSITLVDAFLNAD-KWSEMFCsiv 413
                     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_009101473.1 414 aRAKTVQIISSGvsgasGSLLLMYAELQVLSPLVPtREAYFLRYVEQnAENGNWAIVDFPIDQIQPLSAnTPHEYK--RKPSGCIIQDMPNGYSQ 506
                     9**********************************************99***************999866444444..7**************** PP

                     EEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
           START 164 vtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206
                     v wvehv++++r++h+++   vksg+a+ga++w+  l+rqce+
  XP_009101473.1 507 VKWVEHVEVNERHVHEIFAEYVKSGIAFGASRWLDVLERQCER 549
                     *****************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466896.27E-20104170IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.603.4E-21106175IPR009057Homeodomain-like
PROSITE profilePS5007117.75109169IPR001356Homeobox domain
SMARTSM003896.4E-19110173IPR001356Homeobox domain
CDDcd000863.52E-19112170No hitNo description
PfamPF000462.2E-18112167IPR001356Homeobox domain
PROSITE patternPS000270144167IPR017970Homeobox, conserved site
PROSITE profilePS5084843.495311552IPR002913START domain
SuperFamilySSF559618.1E-30312551No hitNo description
CDDcd088759.35E-104315548No hitNo description
SMARTSM002346.4E-27320549IPR002913START domain
PfamPF018522.2E-38321549IPR002913START domain
SuperFamilySSF559611.79E-12579800No 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: 821 aa     Download sequence    Send to blast
MLTMGEENVM TTDNRFASPQ PPSSSPATIQ NPNFNFNPFN SFSSVIPKEE HGMMSMSMLM  60
MMGDGGVEEM MENGSAGGSS GSGSEQAEDQ KSGNEFDVAE LQDEEQPPPA KKKRYHRHTN  120
RQIEEMEALF KQNPHPDDKQ RQRLSHELGL KPRQVKFWFQ NRRTQMKAQQ DRAENVMLRA  180
DNDNLKAENS HLQAELRCLS CPSCGGPTVL GDIPFNELHI ENCRLREELD RLSSIASRYT  240
GRPMEPSQPM INPPLEVQHH QPSLELDMSV YAGNFQEQPC SDMMLLPPQD TACYLQVQTN  300
NNSNGNNMVL ADEEKVIAME IAVSCVQELT KMCNTEEPLW IKKKSDKMGG EVLCLNEEEY  360
KRLFPWPMEN HNNKGDFRRE ASKANAVVIM NSITLVDAFL NADKWSEMFC SIVARAKTVQ  420
IISSGVSGAS GSLLLMYAEL QVLSPLVPTR EAYFLRYVEQ NAENGNWAIV DFPIDQIQPL  480
SANTPHEYKR KPSGCIIQDM PNGYSQVKWV EHVEVNERHV HEIFAEYVKS GIAFGASRWL  540
DVLERQCERM ASLMARNITD LGVIPSAEGR RNMMRLSQRM MKTFCVNIST SYGQSWTALS  600
ETTKDTVRIT TRKVCEPGQP TGVVLAAVST IWLPFSHAKV FDLLRHQHHH SLLEVLFSGS  660
SPHEVAHIAN GSHPGNCISL LRINVSSNSW HNVELMLQES CIDNSGSLIV YSSVDVDSIK  720
HAMNGEDPSG MPLLPLGFSV VPVNYPDQVE GVSVNSIPLP SCLLTVGIQV LASNVPTAKP  780
NLSTVTTINN HLCSIVNQIT SVLSSTIPPA GDDAVAKQEV I
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_009101473.1
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
TrEMBLA0A397ZDS60.0A0A397ZDS6_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]