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 Neem_1536_f_4
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 AP2
Protein Properties Length: 707aa    MW: 78178.1 Da    PI: 6.7523
Description AP2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_1536_f_4genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP238.92.2e-12300356155
            AP2   1 sgykGVrwdkkrgrWvAeIrd.pse.ng.krkrfslgkfgtaeeAakaaiaarkkleg 55 
                    s+y+GV++++++gr++A+++d  ++  g  rk  + g ++ +e+Aa+a++ a++k++g
  Neem_1536_f_4 300 SQYRGVTRHRWTGRYEAHLWDnSCKkEGqTRKGRQ-GGYDMEEKAARAYDLAALKYWG 356
                    78*******************77776664346655.77******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000186.72E-19300364No hitNo description
PfamPF008471.3E-9300356IPR001471AP2/ERF domain
SuperFamilySSF541712.42E-14300366IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.101.6E-12301365IPR001471AP2/ERF domain
SMARTSM003804.5E-22301370IPR001471AP2/ERF domain
PROSITE profilePS5103217.359301364IPR001471AP2/ERF domain
PRINTSPR003678.4E-5302313IPR001471AP2/ERF domain
PRINTSPR003678.4E-5346366IPR001471AP2/ERF domain
CDDcd000183.18E-16399510No hitNo description
SuperFamilySSF541713.2E-5399432IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.101.7E-4400433IPR001471AP2/ERF domain
SMARTSM003801.9E-14400514IPR001471AP2/ERF domain
PROSITE profilePS5103213.169400508IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.104.9E-6482508IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007276Biological Processgamete generation
GO:0010492Biological Processmaintenance of shoot apical meristem identity
GO:0042127Biological Processregulation of cell proliferation
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 707 aa     Download sequence    Send to blast
MEVNTGPHHQ YHHHHSQPPP TAVSNAIPTS FYLSSSPINT TGICYGDVGE SGAFHSPLSV  60
MPLKSDGSLC IMEALTRSQP EGLVASSSPK LEDFLGGATM ETHQYGSHER ETMALSLDSI  120
YYHQNTESET SRQHSLDLLQ EQLRQQDQQF NPVQTHPYYL GMPCHGMYQA PLQEETKNTH  180
LADCESQLPQ MGNEAMPCFK NWVSRHYCTS NALEQQISSA MVDDGGASGS VSAIGVGDLQ  240
SLSLSMSPGS QSSCITAPRQ ISPAGADCVA LETKKRGHGK VGLKQPVHRK SIDTFGQRTS  300
QYRGVTRHRW TGRYEAHLWD NSCKKEGQTR KGRQGGYDME EKAARAYDLA ALKYWGPSTH  360
INFPLENYRQ ELEEMKNMSR QEYVAHLRRK SSGFSRGASM YRGVTRHHQH GRWQARIGRV  420
AGNKDLYLGT FKLKMTDFYD TSAIMFPLET SGAFLRLMMA YFETLYFFKA VFSDEIRKEA  480
QSTQEEAAEA YDIAAIKFRG VNAVTNFDIT RYDVERIMAS NTLIAGEFAR RNKETEPSTE  540
AIEFSPPTEN NGETSQAEHD SGNGGSDWKM VLYPQQQSNS GIGSLDPKPL ETGNYRNHSS  600
IPMAFQDMIA IDSVNSSQSM VDESAKLGGT HFSNPSSLVT SLSSSREASP DKSGPTMLFA  660
RPPLASKFIT PTTGVSSWFP SAAAAQLRPA AAISMAHLPV FAAWNDT
Functional Description ? help Back to Top
Source Description
UniProtActs as positive regulator of adventitious (crown) root formation by promoting its initiation. Promotes adventitious root initiation through repression of cytokinin signaling by positively regulating the two-component response regulator RR1. Regulated by the auxin response factor and transcriptional activator ARF23/ARF1. {ECO:0000269|PubMed:21481033}.
UniProtTranscription activator that recognizes and binds to the DNA consensus sequence 5'-CAC[AG]N[AT]TNCCNANG-3'. Required for the initiation and growth of ovules integumenta, and for the development of female gametophyte. Plays a critical role in the development of gynoecium marginal tissues (e.g. stigma, style and septa), and in the fusion of carpels and of medial ridges leading to ovule primordia. Also involved in organs initiation and development, including floral organs. Maintains the meristematic competence of cells and consequently sustains expression of cell cycle regulators during organogenesis, thus controlling the final size of each organ by controlling their cell number. Regulates INO autoinduction and expression pattern. As ANT promotes petal cell identity and mediates down-regulation of AG in flower whorl 2, it functions as a class A homeotic gene. {ECO:0000269|PubMed:10528263, ECO:0000269|PubMed:10639184, ECO:0000269|PubMed:10948255, ECO:0000269|PubMed:11041883, ECO:0000269|PubMed:12183381, ECO:0000269|PubMed:12271029, ECO:0000269|PubMed:12655002, ECO:0000269|PubMed:8742706, ECO:0000269|PubMed:8742707, ECO:0000269|PubMed:9001406, ECO:0000269|PubMed:9093862, ECO:0000269|PubMed:9118807}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00088SELEXTransfer from AT4G37750Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by auxin. {ECO:0000269|PubMed:21481033}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021284854.10.0AP2-like ethylene-responsive transcription factor ANT
SwissprotQ389141e-128ANT_ARATH; AP2-like ethylene-responsive transcription factor ANT
SwissprotQ84Z021e-128CRL5_ORYSJ; AP2-like ethylene-responsive transcription factor CRL5
TrEMBLA0A061FFL00.0A0A061FFL0_THECC; Integrase-type DNA-binding superfamily protein
STRINGEOY156530.0(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM31372863
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G37750.11e-109AP2 family protein
Publications ? help Back to Top
  1. Kitomi Y, et al.
    The auxin responsive AP2/ERF transcription factor CROWN ROOTLESS5 is involved in crown root initiation in rice through the induction of OsRR1, a type-A response regulator of cytokinin signaling.
    Plant J., 2011. 67(3): p. 472-84
    [PMID:21481033]
  2. Li P,Xue H
    Structural characterization and expression pattern analysis of the rice PLT gene family.
    Acta Biochim. Biophys. Sin. (Shanghai), 2011. 43(9): p. 688-97
    [PMID:21807632]
  3. Heyndrickx KS,Vandepoele K
    Systematic identification of functional plant modules through the integration of complementary data sources.
    Plant Physiol., 2012. 159(3): p. 884-901
    [PMID:22589469]
  4. Horstman A,Willemsen V,Boutilier K,Heidstra R
    AINTEGUMENTA-LIKE proteins: hubs in a plethora of networks.
    Trends Plant Sci., 2014. 19(3): p. 146-57
    [PMID:24280109]
  5. Li C, et al.
    Ectopic expression of a maize hybrid down-regulated gene ZmARF25 decreases organ size by affecting cellular proliferation in Arabidopsis.
    PLoS ONE, 2014. 9(4): p. e94830
    [PMID:24756087]
  6. Wynn AN,Seaman AA,Jones AL,Franks RG
    Novel functional roles for PERIANTHIA and SEUSS during floral organ identity specification, floral meristem termination, and gynoecial development.
    Front Plant Sci, 2014. 5: p. 130
    [PMID:24778638]
  7. Randall RS, et al.
    AINTEGUMENTA and the D-type cyclin CYCD3;1 regulate root secondary growth and respond to cytokinins.
    Biol Open, 2015. 4(10): p. 1229-36
    [PMID:26340943]
  8. Meng LS,Wang ZB,Yao SQ,Liu A
    The ARF2-ANT-COR15A gene cascade regulates ABA-signaling-mediated resistance of large seeds to drought in Arabidopsis.
    J. Cell. Sci., 2015. 128(21): p. 3922-32
    [PMID:26395398]
  9. Yamaguchi N,Jeong CW,Nole-Wilson S,Krizek BA,Wagner D
    AINTEGUMENTA and AINTEGUMENTA-LIKE6/PLETHORA3 Induce LEAFY Expression in Response to Auxin to Promote the Onset of Flower Formation in Arabidopsis.
    Plant Physiol., 2016. 170(1): p. 283-93
    [PMID:26537561]
  10. Krizek BA, et al.
    RNA-Seq Links the Transcription Factors AINTEGUMENTA and AINTEGUMENTA-LIKE6 to Cell Wall Remodeling and Plant Defense Pathways.
    Plant Physiol., 2016. 171(3): p. 2069-84
    [PMID:27208279]
  11. Han H,Krizek BA
    AINTEGUMENTA-LIKE6 can functionally replace AINTEGUMENTA but alters Arabidopsis flower development when misexpressed at high levels.
    Plant Mol. Biol., 2016. 92(4-5): p. 597-612
    [PMID:27605095]
  12. Karpinska B,Alomrani SO,Foyer CH
    Inhibitor-induced oxidation of the nucleus and cytosol in Arabidopsis thaliana: implications for organelle to nucleus retrograde signalling.
    Philos. Trans. R. Soc. Lond., B, Biol. Sci., 2018.
    [PMID:28808105]
  13. Li B, et al.
    Network-Guided Discovery of Extensive Epistasis between Transcription Factors Involved in Aliphatic Glucosinolate Biosynthesis.
    Plant Cell, 2018. 30(1): p. 178-195
    [PMID:29317470]