PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Lj3g3v3085530.1
Organism
Lotus japonicus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus
Family HD-ZIP
Protein Properties Length: 843aa    MW: 92512.4 Da    PI: 6.3331
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lj3g3v3085530.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.22.9e-182784457
                     -SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
         Homeobox  4 RttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                       ++t+eq+e+Le++++++++ps  +r++L +++    +++ +q+kvWFqNrR +ek+
  Lj3g3v3085530.1 27 YVRYTAEQVEALERVYAECPKPSSLRRQQLIRECpilsNIEPKQIKVWFQNRRCREKQ 84
                     5789****************************************************97 PP
2START158.64.9e-501653722204
                      HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..EEEEE CS
            START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..galql 93 
                      +aee+++e+++ka+ ++  Wv+++ +++g++++ +f+ s+++sg a+ra+g+v  +++   +e+l+d++ W + +++ e+      g  g+++l
  Lj3g3v3085530.1 165 IAEETLTEFLSKATGTAVDWVQLPGMKPGPDSVGIFAISQSCSGVAARACGLVSLEPT-KIAEILKDRPSWFRECRSLEVFTMFPAGngGTIEL 257
                      789*******************************************************.7777777777***********999999999***** PP

                      EEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXXHHHHHH CS
            START  94 mvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgrlphwllrs 183
                       +++++a+++l+p Rdf+++Ry+ +l  g++v++++S++   ++p+    +++vRae+lpSg+li+p+++g+s +++v+h +l++++++++lr+
  Lj3g3v3085530.1 258 VYTQTYAPTTLAPaRDFWTLRYTSSLDNGSLVVCERSLSGSGSRPNpaaAAQFVRAEMLPSGYLIRPCDGGGSIIHIVDHLNLEAWSVPEVLRP 351
                      **************************************98877777779********************************************* PP

                      HHHHHHHHHHHHHHHHTXXXX CS
            START 184 lvksglaegaktwvatlqrqc 204
                      l++s+ + ++k++ a+l++ +
  Lj3g3v3085530.1 352 LYESSKVVAQKMTIAALRYIR 372
                      ****************99865 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003892.8E-152389IPR001356Homeobox domain
SuperFamilySSF466892.01E-162588IPR009057Homeodomain-like
CDDcd000864.80E-162686No hitNo description
PfamPF000467.5E-162784IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.603.0E-182884IPR009057Homeodomain-like
PROSITE profilePS5007115.1272985IPR001356Homeobox domain
CDDcd146862.36E-678117No hitNo description
PROSITE profilePS5084827.103155383IPR002913START domain
CDDcd088755.18E-70159375No hitNo description
SMARTSM002341.3E-40164374IPR002913START domain
SuperFamilySSF559617.42E-34164376No hitNo description
Gene3DG3DSA:3.30.530.205.5E-20164364IPR023393START-like domain
PfamPF018521.2E-47165372IPR002913START domain
PfamPF086705.9E-49698842IPR013978MEKHLA
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009855Biological Processdetermination of bilateral symmetry
GO:0009944Biological Processpolarity specification of adaxial/abaxial axis
GO:0009956Biological Processradial pattern formation
GO:0010014Biological Processmeristem initiation
GO:0010051Biological Processxylem and phloem pattern formation
GO:0010089Biological Processxylem development
GO:0030154Biological Processcell differentiation
GO:0005634Cellular Componentnucleus
GO:0008289Molecular Functionlipid binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 843 aa     Download sequence    Send to blast
MAMAVAQHRG ESSSSGSIDK HLDGGKYVRY TAEQVEALER VYAECPKPSS LRRQQLIREC  60
PILSNIEPKQ IKVWFQNRRC REKQRKEASR LQTVNRKLSA MNKLLMEEND RLQKQVSQLV  120
CENGFMRQQL HTTPGANTDA SCDSVVTTPQ HTMRDANNPA GLLSIAEETL TEFLSKATGT  180
AVDWVQLPGM KPGPDSVGIF AISQSCSGVA ARACGLVSLE PTKIAEILKD RPSWFRECRS  240
LEVFTMFPAG NGGTIELVYT QTYAPTTLAP ARDFWTLRYT SSLDNGSLVV CERSLSGSGS  300
RPNPAAAAQF VRAEMLPSGY LIRPCDGGGS IIHIVDHLNL EAWSVPEVLR PLYESSKVVA  360
QKMTIAALRY IRQIAQETSG EVVYGLGRQP AVLRTFSQRL SRGFNDAVNG FNDDGWTVLN  420
CEGAEDVIIA VNSTKNLSST SNPANSLTFL GGILCAKASM LIQNVPPAVL VRFLREHRSE  480
WADFNVDAYS AASLKAGTYA YPGMRPTRFT GSQIIMPLGH TIEHEEMLEV IRLEGHSIAQ  540
EDAFVSRDIH LLQICSGIDE NAVGAYSELI FAPIDEMFPD DAPLVPSGFR IIPLDSKPGD  600
KKDAMNSNRT LDLTSGFEVA PATTHGADAS SSHNRSVLTI AFQFPFDSSL QDNVAVMARQ  660
YVRSVISSVQ RVAMAISPSG INPTAGSKLS PGSPEAVTLA QWICQSYSYY LGTDLLRSDS  720
LVGDMMLKHL WHHQDAVLCC SLKSLPVFIF ANQAGLDMLE TTLVALQDIT LDKIFDESGR  780
KALFADFAKL MQQGFAYLPA GICMSTMGRH VSYEQAIAWK VLTAEDNNTV HCLAFTFINW  840
SFV
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Lja.86371e-126flower| pod
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed at the earliest stages and throughout LSM initiation and development. In embryo development, expressed at the heart stage until the 'walking stick' stage in the adaxial portion of the cotyledon primordia, the shoot apical meristem (SAM) and the vascular precursor cells of the hypocotyl and root. In developing flowers, expressed first at stage 1 in the center of L3 layer and then expands to the center of L2 and L1 layers. Expressed in the center of flower meristem through stages 4 and 5. At stage 6, expressed in the adaxial side of the carpel primordia and then on the adaxial carpel face. {ECO:0000269|PubMed:11169198}.
UniprotTISSUE SPECIFICITY: Expressed in the interfascicular regions of stem and vascular bundles of young roots and leaves. {ECO:0000269|PubMed:10559440}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the regulation of interfascicular fiber (cortical cells) and secondary xylem differentiation in the inflorescence stems. Required for lateral shoot meristems (LSMs) and flower meristems (FMs) initiation. May be involved in the determination of vascular patterning and organ polarity (PubMed:10559440, PubMed:11169198, PubMed:11402186, PubMed:15111711, PubMed:15598805, PubMed:7555701). Directly regulates the expression of AGO10, ZPR1, ZPR2, ZPR3 and ZPR4 (PubMed:22781836). Required to regulate adaxial-abaxial polarity and leaf axial patterning (PubMed:20807212). {ECO:0000269|PubMed:10559440, ECO:0000269|PubMed:11169198, ECO:0000269|PubMed:11402186, ECO:0000269|PubMed:15111711, ECO:0000269|PubMed:15598805, ECO:0000269|PubMed:20807212, ECO:0000269|PubMed:22781836, ECO:0000269|PubMed:7555701}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLj3g3v3085530.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. Repressed by ZPR and miR165. Induced by DOF5.1 (PubMed:20807212). {ECO:0000269|PubMed:15111711, ECO:0000269|PubMed:17237362, ECO:0000269|PubMed:20807212}.
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_020214107.10.0homeobox-leucine zipper protein REVOLUTA
SwissprotQ9SE430.0REV_ARATH; Homeobox-leucine zipper protein REVOLUTA
TrEMBLV7AJI70.0V7AJI7_PHAVU; Uncharacterized protein
STRINGXP_007132262.10.0(Phaseolus vulgaris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF66333147
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60690.10.0HD-ZIP family protein
Publications ? help Back to Top
  1. Lian H,Li X,Liu Z,He Y
    HYL1 is required for establishment of stamen architecture with four microsporangia in Arabidopsis.
    J. Exp. Bot., 2013. 64(11): p. 3397-410
    [PMID:23918970]
  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]
  3. Baima S, et al.
    Negative feedback regulation of auxin signaling by ATHB8/ACL5-BUD2 transcription module.
    Mol Plant, 2014. 7(6): p. 1006-1025
    [PMID:24777988]
  4. Jia X, et al.
    Functional plasticity of miR165/166 in plant development revealed by small tandem target mimic.
    Plant Sci., 2015. 233: p. 11-21
    [PMID:25711809]
  5. Roodbarkelari F,Du F,Truernit E,Laux T
    ZLL/AGO10 maintains shoot meristem stem cells during Arabidopsis embryogenesis by down-regulating ARF2-mediated auxin response.
    BMC Biol., 2015. 13: p. 74
    [PMID:26358077]
  6. Shi B, et al.
    Two-Step Regulation of a Meristematic Cell Population Acting in Shoot Branching in Arabidopsis.
    PLoS Genet., 2016. 12(7): p. e1006168
    [PMID:27398935]