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_16938_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 bHLH
Protein Properties Length: 665aa    MW: 73284.5 Da    PI: 5.4448
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_16938_f_1genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH39.11.3e-12485530454
                     HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHH CS
             HLH   4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksL 54 
                     +h e+Er+RR+++N++f  Lr ++P+       K++Ka+ L  A+ YI++L
  Neem_16938_f_1 485 NHVEAERQRREKLNQRFYALRAVVPNV-----SKMDKASLLGDAISYINEL 530
                     799***********************6.....5***************998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF142157.6E-5762242IPR025610Transcription factor MYC/MYB N-terminal
PROSITE profilePS5088817.39481530IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000831.28E-15484535No hitNo description
SuperFamilySSF474599.95E-19484551IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.108.2E-19485551IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000104.2E-10485530IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003532.3E-17487536IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009269Biological Processresponse to desiccation
GO:0009611Biological Processresponse to wounding
GO:0009737Biological Processresponse to abscisic acid
GO:0009867Biological Processjasmonic acid mediated signaling pathway
GO:0009963Biological Processpositive regulation of flavonoid biosynthetic process
GO:0010200Biological Processresponse to chitin
GO:0043619Biological Processregulation of transcription from RNA polymerase II promoter in response to oxidative stress
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0051090Biological Processregulation of sequence-specific DNA binding transcription factor activity
GO:2000068Biological Processregulation of defense response to insect
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 665 aa     Download sequence    Send to blast
MTDYRLPSTM NLWTDDNGSV MEAFMSSDLT GLWPPSQSSA STADPTKNHI SSSQQPFNQE  60
TLQQRLQQLI DGARESWTYA IFWQSSYDYS GPSVLGWGDG YYKGEGDKGK SKMKATTAAE  120
QEHRKKVLRE LNSLISGSAT PADDAIDEEV TDTEWFFLIS MTQSFYVNGG GLPAQAFFSN  180
SPVWVCGSER LVHSSCERAR QGQVFGLQTI VCIPSANGVV ELGSTDMIIQ SADLMNKVRF  240
LFNFNSMEIG SWPSIQNQDQ GENDPSSWIN DPTPGFVEIK DSAAAVGSGP GSVSAANNNN  300
HLQISKGIQL ENPRPASLTE NVSGVDLQQQ QNQQIQQTQS LFSRELNFSE YGYDHSSVRN  360
GNSHLLKPES GEILNFAESK RSSTANGNNN LFSNHSPFVA EETNKKKRSP TSRGSNEEGM  420
LSFTSGVILP SSGVVKSSGG AGDSDHSDLE ASVVKEADSS RVVDPEKRPR KRGRKPANGR  480
EEPLNHVEAE RQRREKLNQR FYALRAVVPN VSKMDKASLL GDAISYINEL KEKLQSLESD  540
KEDMKKQLES MKKELASGAK DSRSGPSISD QELQMSNHAS KLIDMDIEVK IIGWDAMIRI  600
QCSKKNHPAA KLMAALKELD LEVHHASMSV VNDLMIQQAT VKMGSRFYTQ EQLWNVLAAK  660
VGDSL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4rqw_A5e-72542451195Transcription factor MYC3
4rqw_B5e-72542451195Transcription factor MYC3
4rs9_A5e-72542451195Transcription factor MYC3
4yz6_A5e-72542451195Transcription factor MYC3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1466474KRPRKRGRK
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator that binds to the G-box motif (5'-AACGTG-3') found in the promoter of the jasmonate-induced gene LAPA1 (PubMed:15231736). Acts as negative regulator of blue light-mediated photomorphogenesis and positively regulates root growth (PubMed:24483714). Promotes growth in response to the phytohormones abscisic acid (ABA) and jasmonate (JA) (PubMed:24483714). Binds to the G-box motif (5'-CACGTG-3') of the RBCS-3A gene promoter (PubMed:24483714). Acts downstream of the jasmonate (JA) receptor to orchestrate JA-mediated activation of plant responses (PubMed:28733419). Positively regulates both wound-responsive and pathogen-responsive genes through MYC2-targeted transcription factors (MTFs) involved in early response to JA (PubMed:28733419). With JA2L forms a transcription module that regulates wounding-responsive genes (PubMed:28733419). With ERF.C3 forms a transcription module that regulates pathogen-responsive genes (PubMed:28733419). Plays a critical role in orchestrating JA-mediated defense gene expression during Botrytis cinerea infection (PubMed:28733419). Regulates negatively defense responses to root-knot nematodes, potentially by mediating crosstalk among the hormones strigolactones, abscisic acid (ABA) and jasmonate (JA) (PubMed:30576511). Regulates the termination of JA-mediated defense responses by specifically binding the G-box (5'-CACATG-3') motifs in the promoters of MTB1, MTB2 and MTB3, which are transcription factors that negatively regulates JA signaling (PubMed:30610166). May be involved in JA-induced chilling tolerance, possibly by ameliorating the antioxidant enzyme system of fruit and increasing proline and lycopene levels (PubMed:29528226). {ECO:0000269|PubMed:15231736, ECO:0000269|PubMed:24483714, ECO:0000269|PubMed:28733419, ECO:0000269|PubMed:29528226, ECO:0000269|PubMed:30576511, ECO:0000269|PubMed:30610166}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00084PBMTransfer from AT1G32640Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by methyl jasmonate (PubMed:15231736, PubMed:28733419). Induced by wounding (PubMed:15231736). Induced by infection with the fungal pathogen Botrytis cinerea (PubMed:28733419). Induced in fruit by storage in cold (PubMed:29528226). Induced by hydrogen peroxide and infection with root-knot nematodes (PubMed:30576511). {ECO:0000269|PubMed:15231736, ECO:0000269|PubMed:28733419, ECO:0000269|PubMed:29528226, ECO:0000269|PubMed:30576511}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006428423.10.0transcription factor MYC2
RefseqXP_006491734.10.0transcription factor MYC2-like
SwissprotA0A3Q7HRZ60.0MYC2_SOLLC; Transcription factor MYC2
TrEMBLA0A067DP670.0A0A067DP67_CITSI; Uncharacterized protein
TrEMBLA0A2H5PZM70.0A0A2H5PZM7_CITUN; Uncharacterized protein
TrEMBLV4S2U80.0V4S2U8_9ROSI; Uncharacterized protein
STRINGXP_006491734.10.0(Citrus sinensis)
STRINGXP_006428423.10.0(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM12652896
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G32640.10.0bHLH family protein
Publications ? help Back to Top
  1. Tomato Genome Consortium
    The tomato genome sequence provides insights into fleshy fruit evolution.
    Nature, 2012. 485(7400): p. 635-41
    [PMID:22660326]
  2. Gupta N,Prasad VB,Chattopadhyay S
    LeMYC2 acts as a negative regulator of blue light mediated photomorphogenic growth, and promotes the growth of adult tomato plants.
    BMC Plant Biol., 2014. 14: p. 38
    [PMID:24483714]
  3. Sun H,Fan HJ,Ling HQ
    Genome-wide identification and characterization of the bHLH gene family in tomato.
    BMC Genomics, 2015. 16: p. 9
    [PMID:25612924]
  4. Du M, et al.
    MYC2 Orchestrates a Hierarchical Transcriptional Cascade That Regulates Jasmonate-Mediated Plant Immunity in Tomato.
    Plant Cell, 2017. 29(8): p. 1883-1906
    [PMID:28733419]
  5. Min D, et al.
    SlMYC2 Involved in Methyl Jasmonate-Induced Tomato Fruit Chilling Tolerance.
    J. Agric. Food Chem., 2018. 66(12): p. 3110-3117
    [PMID:29528226]
  6. Xu X, et al.
    Strigolactones positively regulate defense against root-knot nematodes in tomato.
    J. Exp. Bot., 2019. 70(4): p. 1325-1337
    [PMID:30576511]
  7. Liu Y, et al.
    MYC2 Regulates the Termination of Jasmonate Signaling via an Autoregulatory Negative Feedback Loop.
    Plant Cell, 2019. 31(1): p. 106-127
    [PMID:30610166]