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 Neem_11743_f_1
Organism
Azadirachta indica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta
Family HD-ZIP
Protein Properties Length: 842aa    MW: 92532.5 Da    PI: 6.3119
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_11743_f_1genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox56.64.4e-182785357
                    --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
        Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                    k  ++t+eq+e+Le+++ ++++ps  +r++L +++    +++ +q+kvWFqNrR +ek+
  Neem_11743_f_1 27 KYVRYTAEQVEALERVYLECPKPSSLRRQQLIRECpilaNIEPKQIKVWFQNRRCREKQ 85
                    56789****************************************************97 PP
2START156.42.3e-491653722204
                     HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..EEEEEE CS
           START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..galqlm 94 
                     +aee+++e+++ka+ ++  Wv+++ +++g++++ +f+ s+++sg a+ra+g+v  ++a   +e+l+d++ W +++++ e+      g  g+++l 
  Neem_11743_f_1 165 IAEETLAEFLSKATGTAVDWVQMPGMKPGPDSVGIFAISQSCSGVAARACGLVSLEPA-KIAEILKDRPSWFRDCRSLEVFTMFPAGnaGTIELL 258
                     7899******************************************************.7777777777*****************99******* PP

                     EEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXXHHHHHHHH CS
           START  95 vaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgrlphwllrslv 185
                     +++ +a+++l+p Rdf+++Ry+ +l  g++v++++S++     p+    +++vR+e+lpSg+li+p+++g+s + +v+h +l++++++++lr+l+
  Neem_11743_f_1 259 YTQAYAPTTLAPaRDFWTLRYTTTLDNGSLVVCERSLSGSGAGPNpaaAAQFVRGEMLPSGYLIRPCEGGGSIIRIVDHLNLEAWSVPEVLRPLY 353
                     **************************************98888888899********************************************** PP

                     HHHHHHHHHHHHHHTXXXX CS
           START 186 ksglaegaktwvatlqrqc 204
                     +s+ + +++++ a+l++ +
  Neem_11743_f_1 354 ESSKVVAQRMTIAALRYIR 372
                     **************99865 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.604.6E-18782IPR009057Homeodomain-like
PROSITE profilePS5007115.2892286IPR001356Homeobox domain
SMARTSM003895.9E-152490IPR001356Homeobox domain
SuperFamilySSF466894.06E-162689IPR009057Homeodomain-like
CDDcd000865.54E-162787No hitNo description
PfamPF000461.4E-152885IPR001356Homeobox domain
CDDcd146861.78E-679118No hitNo description
Gene3DG3DSA:1.20.5.1700.00183132No hitNo description
PROSITE profilePS5084827.544155383IPR002913START domain
CDDcd088753.25E-66159375No hitNo description
SMARTSM002344.8E-40164374IPR002913START domain
Gene3DG3DSA:3.30.530.203.3E-19164350IPR023393START-like domain
SuperFamilySSF559619.06E-33164376No hitNo description
PfamPF018526.3E-47165372IPR002913START domain
PfamPF086701.2E-45688841IPR013978MEKHLA
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: 842 aa     Download sequence    Send to blast
MAMVMQQQQQ RESSSGSINK HQLDSGKYVR YTAEQVEALE RVYLECPKPS SLRRQQLIRE  60
CPILANIEPK QIKVWFQNRR CREKQRKEAS RLQTVNRKLT AMNKLLMEEN DRLQKQVSQL  120
VCENGYMRQQ LHTAPATTDA SCDSVVTTPQ HSLRDANNPA GLLSIAEETL AEFLSKATGT  180
AVDWVQMPGM KPGPDSVGIF AISQSCSGVA ARACGLVSLE PAKIAEILKD RPSWFRDCRS  240
LEVFTMFPAG NAGTIELLYT QAYAPTTLAP ARDFWTLRYT TTLDNGSLVV CERSLSGSGA  300
GPNPAAAAQF VRGEMLPSGY LIRPCEGGGS IIRIVDHLNL EAWSVPEVLR PLYESSKVVA  360
QRMTIAALRY IRQIAQETSG EVVYGLGRQP AVLRTFSQRL SRGFNDAVNG FNDDGWSLMN  420
CDGAEDVIIA VNSTKNLSTT SNAANSLAFL GGILCAKASM LLQNVPPAVL VRFLREHRSE  480
WADFNVDAYS AASLKAGSYA YPGMRPTRFT GSQIIMPLGH TIEHEELLEV IRLEGHSLAQ  540
EDAFVSRDIH LLQICSGVDE NAVGACSELV FAPIDEMFPD DGVFMQPDTQ DTLTTHRTLD  600
LTSSLEVGPA TNHAAGDSSS CQNTRSVLTI AFQFPFESNL QDNVATMARQ YVRSVISSVQ  660
RVAMAISPSG VSPILGPKLS PGSPEALTLA HWICQSYRQV KLPSIRPNYH LGAELLRSDS  720
VGGDTVLKNL WQHSDAILCC SLKSMPVFIF ANQAGLDMLE TTLVALQDIT LDKIFDESGR  780
KTLCVDFAKL MQQGFTYLPA GICMSTMGRH VSYEQAVAWK VLAAEDNTVH CLAFSFINWS  840
FV
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}.
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}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAM4659083e-44AM465908.2 Vitis vinifera contig VV78X255096.3, whole genome shotgun sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006488084.10.0homeobox-leucine zipper protein REVOLUTA
SwissprotQ9SE430.0REV_ARATH; Homeobox-leucine zipper protein REVOLUTA
TrEMBLV4SG610.0V4SG61_9ROSI; Uncharacterized protein
STRINGXP_006488084.10.0(Citrus sinensis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM47792754
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]