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 29842.m003633
Common NameLOC8284237, RCOM_0905400
Organism
Ricinus communis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Acalyphoideae; Acalypheae; Ricinus
Family HD-ZIP
Protein Properties Length: 727aa    MW: 80058.8 Da    PI: 5.6469
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
29842.m003633genomeJCVIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox629.2e-2059114156
                    TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
       Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                    +++ +++t+ q++e+e++F+++++p+ ++r+eL+++lgL+  qVk+WFqN+R+++k
  29842.m003633  59 KKRYHRHTQRQIQEMEAFFKECPHPDDKQRKELSRELGLEPLQVKFWFQNKRTQMK 114
                    688999***********************************************998 PP
2START217.54.6e-682484681206
                    HHHHHHHHHHHHHHHHC-TT-EEEE....EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEEEEE CS
          START   1 elaeeaaqelvkkalaeepgWvkss....esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWdetla....kaetle 83 
                    ela +a++el+++a+a++p+Wv       e +n++e+l+ f+++ +      ++ea+r+s+vv+m++++lve+l+d++ qW++ +     +a+tle
  29842.m003633 248 ELAVAAMEELMRMAQAGDPLWVPGEnsttEVLNEEEYLRAFPRGIGprplgLRSEASRESAVVIMNHVNLVEILMDVN-QWSTVFCsivsRAMTLE 342
                    57899*****************988889999************999********************************.******99999****** PP

                    EECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE- CS
          START  84 vissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskvtwvehvdl 172
                     +s+g      galq+m+ae+q++splvp R+ +fvRy++q+ +g+w++vdvS+d+ ++ p    ++R+++++Sg++i++++ng+skvtw+eh+++
  29842.m003633 343 ILSTGvagnynGALQVMTAEFQVPSPLVPtRENYFVRYCKQHVDGTWAVVDVSLDNLRPSP----IARSRRRLSGCVIQDLPNGYSKVTWIEHIEV 434
                    ***********************************************************99....7****************************** PP

                    -SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
          START 173 kgrlphwllrslvksglaegaktwvatlqrqcek 206
                    ++r++h+l+r+l++sgla+gak+wva l+rqce+
  29842.m003633 435 DDRSVHSLYRPLINSGLAFGAKRWVAILDRQCER 468
                    ********************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.604.8E-2242114IPR009057Homeodomain-like
SuperFamilySSF466894.6E-1946116IPR009057Homeodomain-like
PROSITE profilePS5007116.82756116IPR001356Homeobox domain
SMARTSM003891.3E-1857120IPR001356Homeobox domain
PfamPF000462.3E-1759114IPR001356Homeobox domain
CDDcd000869.64E-1959117No hitNo description
PROSITE patternPS00027091114IPR017970Homeobox, conserved site
PROSITE profilePS5084844.01239471IPR002913START domain
SuperFamilySSF559611.49E-34239470No hitNo description
CDDcd088754.99E-126243467No hitNo description
SMARTSM002343.6E-70248468IPR002913START domain
PfamPF018525.0E-57249468IPR002913START domain
Gene3DG3DSA:3.30.530.209.4E-5350461IPR023393START-like domain
SuperFamilySSF559614.67E-26488719No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009845Biological Processseed germination
GO:0009913Biological Processepidermal cell differentiation
GO:0048497Biological Processmaintenance of floral organ identity
GO:0048825Biological Processcotyledon development
GO:0005634Cellular Componentnucleus
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 727 aa     Download sequence    Send to blast
MFQPALFESH HMFDMTPKSS ENELGNLKDD DYDHETKSGT ETTEAPSGDD QDPNQRPKKK  60
RYHRHTQRQI QEMEAFFKEC PHPDDKQRKE LSRELGLEPL QVKFWFQNKR TQMKAQHERQ  120
ENSILKAENE KLRAENNRYK EALSNASCPN CGGPATLGEI SFDEQHLRIE NARLREEIDR  180
LSGIAAKYIG KPISSLSHLS SHLPSRSLDL GVSNFGTQSG YVGEMYGATD FLRSITGPTE  240
AEKPMIVELA VAAMEELMRM AQAGDPLWVP GENSTTEVLN EEEYLRAFPR GIGPRPLGLR  300
SEASRESAVV IMNHVNLVEI LMDVNQWSTV FCSIVSRAMT LEILSTGVAG NYNGALQVMT  360
AEFQVPSPLV PTRENYFVRY CKQHVDGTWA VVDVSLDNLR PSPIARSRRR LSGCVIQDLP  420
NGYSKVTWIE HIEVDDRSVH SLYRPLINSG LAFGAKRWVA ILDRQCERLA SSMAINIPAG  480
DLCVITSPEG RKSMLKLAER MVMSFCSGVG ASTAHAWTTL SATGSDDVRV MTRKSMDDPG  540
RPPGIVLCAA TSFWLPVPPK RVFQFLSDEN HRSEWDILSN GGQVEEMAHI ANGRDPGNCV  600
SLLRVISANS SQSNMLTLQE SCTDSTGSYV IYAPVDIAAM NIVLSGGDPD YVALLPSGFA  660
ILPDGPGFSP GIILDVGSGG ALVTVAFQIL VDSIPTAKLS LGSVATVNNL IKCTVERIKA  720
AVTCETA
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that binds to the L1 box DNA sequence 5'-TAAATG[CT]A-3'. Plays a role in maintaining the identity of L1 cells, possibly by interacting with their L1 box or other target-gene promoters. Functionally redundant to ATML1. {ECO:0000269|PubMed:12505995}.
Cis-element ? help Back to Top
SourceLink
PlantRegMap29842.m003633
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_015574304.10.0homeobox-leucine zipper protein MERISTEM L1 isoform X1
SwissprotQ93V990.0PDF2_ARATH; Homeobox-leucine zipper protein PROTODERMAL FACTOR 2
TrEMBLB9RXQ10.0B9RXQ1_RICCO; Homeobox protein, putative
STRINGXP_002518520.10.0(Ricinus communis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF15083499
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G04890.10.0protodermal factor 2
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. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]