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_009103958.1
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: 710aa    MW: 79720.1 Da    PI: 6.8675
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009103958.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox51.61.6e-162679356
                    --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
        Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56
                      ++++++q++ Le++F+++++p+  +  +L ++l+L+++q+k+WFqN+R++ k
  XP_009103958.1 26 IYHRHSNHQIQKLEAYFKECPHPDDLQQLKLGEELKLKQKQIKFWFQNKRTQAK 79
                    567899********************************************9987 PP
2START124.71.1e-392374473206
                     HHHHHHHHHHHHHHC-TT-EEEE.......EXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEEEEEEEC CS
           START   3 aeeaaqelvkkalaeepgWvkss.......esengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetla....kaetlevis 86 
                     + +a +e++++++ eep+W kss       ++en+++  +k +  k+ ++e +++++v + ++ +lv+ lld+  +W   +     ka+t+ v++
  XP_009103958.1 237 MVAAVTEVITLIQTEEPMWIKSSidsrlviDQENYEKKFTKNSYFKT-RIESSKEIAVIPLDAKNLVNMLLDTE-KWASLFStivsKAKTIHVLE 329
                     67899**********************99999999999999988888.**************************.66666666666********9 PP

                     TTEEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXX.HH CS
           START  87 sggalqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskvtwvehvdlkgrlp.hw 179
                     s     lm+ +l  lspl p R+f+++R+++ql++g wvi+dvS  + ++   + +   + ++pSg+li+ ++nghskvtw+ehv++++++  h 
  XP_009103958.1 330 SSK---LMYEQLHILSPLLPpREFMILRCCQQLEEGLWVIADVSYHQVAFEF-EFGTPACYKRPSGFLIQAMPNGHSKVTWMEHVEVNDKVRaHR 420
                     975...666777777788777*****************************98.788888899*****************************99** PP

                     HHHHHHHHHHHHHHHHHHHHTXXXXXX CS
           START 180 llrslvksglaegaktwvatlqrqcek 206
                     ++r l+  g   ga++w+atl+r ce+
  XP_009103958.1 421 IYRDLLCGGFGYGARRWTATLERMCER 447
                     *************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.601.9E-16783IPR009057Homeodomain-like
SuperFamilySSF466893.04E-15981IPR009057Homeodomain-like
PROSITE profilePS5007115.032181IPR001356Homeobox domain
SMARTSM003891.2E-142385IPR001356Homeobox domain
CDDcd000861.91E-142482No hitNo description
PfamPF000465.6E-142679IPR001356Homeobox domain
PROSITE profilePS5084841.045226450IPR002913START domain
SuperFamilySSF559611.28E-26228448No hitNo description
CDDcd088751.08E-90230446No hitNo description
SMARTSM002349.7E-27235447IPR002913START domain
PfamPF018522.1E-32237447IPR002913START domain
Gene3DG3DSA:3.30.530.202.9E-6276411IPR023393START-like domain
SuperFamilySSF559612.06E-6471674No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0008289Molecular Functionlipid binding
Sequence ? help Back to Top
Protein Sequence    Length: 710 aa     Download sequence    Send to blast
MASGRDSSSS DEQETSLYTS DGDKRIYHRH SNHQIQKLEA YFKECPHPDD LQQLKLGEEL  60
KLKQKQIKFW FQNKRTQAKV QNEKADNASL RTENMKIRRE NEAMQEALNT VTCPPCGGPH  120
PEQVDRKLYF QNLSANNAYL REERDKLSIL VYKTEGHPKP IVNALAYLHG PSLHASTSNN  180
PHVTYGTSSN HLVEPPSLLR ELYLREHISF AQPPQPRQLQ CSPPLSNMEK VMMTEAMVAA  240
VTEVITLIQT EEPMWIKSSI DSRLVIDQEN YEKKFTKNSY FKTRIESSKE IAVIPLDAKN  300
LVNMLLDTEK WASLFSTIVS KAKTIHVLES SKLMYEQLHI LSPLLPPREF MILRCCQQLE  360
EGLWVIADVS YHQVAFEFEF GTPACYKRPS GFLIQAMPNG HSKVTWMEHV EVNDKVRAHR  420
IYRDLLCGGF GYGARRWTAT LERMCERLSL YSVSDFPTTD DPGVVKTING RRRLMDLGER  480
MLKNFAWILN MPEKSDFSQQ SATNSSGVNI SVRVNKEAGQ PVGLIVCACS SLCLPLAPLQ  540
VYNFLKNLEV RHQWDVLCHA SPVTEVARFV TGANNKNCVN ILQPSSAAEG GDLMIIQDSF  600
IDALGGMVVY APVDLSTAHA AVSGNVNPSD IPILPSGVVI SRDGRPSATA ELDGGCDNCK  660
TLLTVAFQIL VTGPTIYEEL QMDKWTTSVD TLISSTITKV KAMLNCHDGQ
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in anthers with highest levels in the tapetum and pollen grains, and chalazal end of the embryo sac. {ECO:0000269|PubMed:16778018}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that binds to the DNA sequence 5'-GCATTAAATGCGCA-3'. {ECO:0000269|PubMed:16778018}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009103958.1
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_009103958.10.0PREDICTED: homeobox-leucine zipper protein HDG10-like
SwissprotQ9FFI00.0HDG9_ARATH; Homeobox-leucine zipper protein HDG9
TrEMBLM4CG800.0M4CG80_BRARP; Uncharacterized protein
STRINGBra003213.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM84681531
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G17320.10.0homeodomain GLABROUS 9
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]