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 676758872
Organism
Sisymbrium irio
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Sisymbrieae; Sisymbrium
Family HD-ZIP
Protein Properties Length: 721aa    MW: 79634.6 Da    PI: 5.5182
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
676758872genomeVEGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox61.51.3e-1963118156
                TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
   Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                +++ +++t+ q++eLe++F+++++p+ ++r+eL+++l+L+  qVk+WFqN+R+++k
  676758872  63 KKRYHRHTQRQIQELESFFKECPHPDDKQRKELSRELNLEPLQVKFWFQNKRTQMK 118
                688999***********************************************998 PP
2START1915.9e-602624671192
                HHHHHHHHHHHHHHHHC-TT-EEEE...EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEEEEEEECTT CS
      START   1 elaeeaaqelvkkalaeepgWvkss...esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWdetla....kaetlevissg 88 
                ela +a++elv++a+ ++p+W +s    e++n++e+ ++f+++ +     +++ea+r+s+vv+m++ +lve+l+d++ qW+  +     +a tlev+s+g
  676758872 262 ELAVAAMEELVRMAQTGDPLWISSDnsaEILNEEEYFRTFPRGIGpkpvgFRSEASRESTVVIMNHINLVEILMDVN-QWSGVFCgivsRALTLEVLSTG 360
                57899*******************999***************999********************************.******99999*********** PP

                ......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXXHHHH CS
      START  89 ......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskvtwvehvdlkgrlphwll 181
                      galq+m+ae+q++splvp R+ +fvRy++q+++ +w++vdvS+ds ++ p    + R++++pSg+li++++ng+skvtw+eh+++++r++h ++
  676758872 361 vagnynGALQVMTAEFQVPSPLVPtRENYFVRYCKQHSDNTWAVVDVSLDSLRPSP----ITRSRRRPSGCLIQELQNGYSKVTWIEHTEVDDRSVHTMY 456
                ******************************************************99....7*************************************** PP

                HHHHHHHHHHH CS
      START 182 rslvksglaeg 192
                ++lv++gla++
  676758872 457 KPLVNTGLAFV 467
                ********997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.601.7E-2244118IPR009057Homeodomain-like
SuperFamilySSF466895.85E-1952120IPR009057Homeodomain-like
PROSITE profilePS5007117.15160120IPR001356Homeobox domain
SMARTSM003893.9E-1861124IPR001356Homeobox domain
PfamPF000463.0E-1763118IPR001356Homeobox domain
CDDcd000864.40E-1963121No hitNo description
PROSITE patternPS00027095118IPR017970Homeobox, conserved site
PROSITE profilePS5084838.178253466IPR002913START domain
SuperFamilySSF559615.91E-31255468No hitNo description
CDDcd088752.67E-114257466No hitNo description
SMARTSM002342.7E-65262479IPR002913START domain
PfamPF018521.2E-49263467IPR002913START domain
Gene3DG3DSA:3.30.530.201.4E-5361449IPR023393START-like domain
SuperFamilySSF559611.65E-24471713No 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:0048825Biological Processcotyledon development
GO:0090627Biological Processplant epidermal cell differentiation
GO:0005634Cellular Componentnucleus
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 721 aa     Download sequence    Send to blast
MYHPNMFESH HHMFDMTPKS SDNDLGLTGS REDDFESKSG AEVTMENPLE EELQDPNQRP  60
NKKKRYHRHT QRQIQELESF FKECPHPDDK QRKELSRELN LEPLQVKFWF QNKRTQMKAQ  120
HERHENSILK SDNDKLRAEN NRYKDALSNA TCPNCGGPAA IGEMSFDEQH LRIENARLRE  180
EIDRISAIAA KYVGKPLLAH SSPFPQLPSS HHIPSRSLDL EVGNFGTNNN HQTSFVGEMY  240
GTSDIMRSVS IPSEADKPMI VELAVAAMEE LVRMAQTGDP LWISSDNSAE ILNEEEYFRT  300
FPRGIGPKPV GFRSEASRES TVVIMNHINL VEILMDVNQW SGVFCGIVSR ALTLEVLSTG  360
VAGNYNGALQ VMTAEFQVPS PLVPTRENYF VRYCKQHSDN TWAVVDVSLD SLRPSPITRS  420
RRRPSGCLIQ ELQNGYSKVT WIEHTEVDDR SVHTMYKPLV NTGLAFVITS PEGRKSMLKL  480
AERMVTSFCS GVGASTAHAW TTLTTTGSDD VRVMTRKSMD DPGRPPGIVL SAATSFWIPV  540
EPKRVFDFLR DENSRSEWDI LSNGGLVQEM AHIANGRDPG NCVSLLRVNS TNSGQSNMLI  600
LQESCTDASG SYVIYAPVDI MAMNVVLSGG DPDYVALLPS GFAILPDGST REGGKAGDGV  660
EGGEGNNLEV ATSGSLLTVA FQILVDSVPT AKLSLGSVAT VNSLIKCTVE RIKAAVAGDG  720
A
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in cell specification and pattern formation during embryogenesis. 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 PDF2. {ECO:0000269|PubMed:11439135, ECO:0000269|PubMed:12505995}.
Cis-element ? help Back to Top
SourceLink
PlantRegMap676758872
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2299700.0AK229970.1 Arabidopsis thaliana mRNA for L1 specific homeobox gene ATML1/ovule-specific homeobox protein A20, complete cds, clone: RAFL22-43-B20.
GenBankAY0911040.0AY091104.1 Arabidopsis thaliana putative L1-specific homeobox gene ATML1/ovule-specific homeobox protein A20 (At4g21750) mRNA, complete cds.
GenBankAY1504910.0AY150491.1 Arabidopsis thaliana putative L1-specific homeobox gene ATML1/ovule-specific homeobox protein A20 (At4g21750) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013696499.10.0homeobox-leucine zipper protein MERISTEM L1
RefseqXP_013696501.10.0homeobox-leucine zipper protein MERISTEM L1
RefseqXP_013696503.10.0homeobox-leucine zipper protein MERISTEM L1 isoform X2
RefseqXP_022546647.10.0homeobox-leucine zipper protein MERISTEM L1 isoform X1
RefseqXP_022546648.10.0homeobox-leucine zipper protein MERISTEM L1
SwissprotQ8RWU40.0ATML1_ARATH; Homeobox-leucine zipper protein MERISTEM L1
TrEMBLA0A3P6ADA30.0A0A3P6ADA3_BRACM; Uncharacterized protein
STRINGBo7g107550.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM49128149
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G21750.20.0HD-ZIP family protein
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. Takada S,Takada N,Yoshida A
    Induction of epidermal cell fate in Arabidopsis shoots.
    Plant Signal Behav, 2013. 8(11): p. e26236
    [PMID:23989220]
  3. Liang Z,Brown RC,Fletcher JC,Opsahl-Sorteberg HG
    Calpain-Mediated Positional Information Directs Cell Wall Orientation to Sustain Plant Stem Cell Activity, Growth and Development.
    Plant Cell Physiol., 2015. 56(9): p. 1855-66
    [PMID:26220906]
  4. Katagiri Y, et al.
    The coordination of ploidy and cell size differs between cell layers in leaves.
    Development, 2016. 143(7): p. 1120-5
    [PMID:26903507]
  5. Seeliger I, et al.
    The AP2-type transcription factors DORNRÖSCHEN and DORNRÖSCHEN-LIKE promote G1/S transition.
    Mol. Genet. Genomics, 2016. 291(5): p. 1835-49
    [PMID:27277595]
  6. Schwarz EM,Roeder AH
    Transcriptomic Effects of the Cell Cycle Regulator LGO in Arabidopsis Sepals.
    Front Plant Sci, 2016. 7: p. 1744
    [PMID:27920789]
  7. Meyer HM, et al.
    Fluctuations of the transcription factor ATML1 generate the pattern of giant cells in the Arabidopsis sepal.
    Elife, 2018.
    [PMID:28145865]