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_7883_f_3
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: 369aa    MW: 40572 Da    PI: 6.1877
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_7883_f_3genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH50.63.5e-16113159455
                    HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
            HLH   4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                     hn  E+rRR+riN+++  L+ l+P++      K +Ka++L +A+eY+k+Lq
  Neem_7883_f_3 113 VHNLSEKRRRSRINEKMKALQNLIPNS-----NKTDKASMLDEAIEYLKHLQ 159
                    6*************************7.....5******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF474591.57E-20106170IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.109.0E-20106169IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088817.866109158IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000834.36E-18112163No hitNo description
PfamPF000101.3E-13113159IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.1E-17115164IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007623Biological Processcircadian rhythm
GO:0009409Biological Processresponse to cold
GO:0010114Biological Processresponse to red light
GO:0010154Biological Processfruit development
GO:0010187Biological Processnegative regulation of seed germination
GO:0048440Biological Processcarpel development
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 369 aa     Download sequence    Send to blast
MEDHLYEDDT INNNSSGVNL YGAAPSSSSF HDNQPPPSSS DDISLILQQI LYRSSVRVSG  60
ANASSSSVGV SENENTDEHD CQSEEGVEPL VHEVQAKGVR PRSSSKRSRA AEVHNLSEKR  120
RRSRINEKMK ALQNLIPNSN KTDKASMLDE AIEYLKHLQI QVQVLTMKNG LNLHPMYFPG  180
GLPPIQLSEM RMGFGAENGS PHMQSTGTLV NQQTSIQNVS NPPNQRSSPN QLQLPNMSNI  240
INSETSFWMD SSIQANYGAF HLGTSSREAC RVNALPHQQL NASHSGTNPL VVFTVKNEQK  300
DFLTLSDMAL FIKFETEATA MVLHAFSTQG SGRKDSNSFE ASMVGQDQAG GVRLENVEPN  360
IILPTHLNR
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that plays a role in floral organogenesis. Promotes the growth of carpel margins and of pollen tract tissues derived from them. {ECO:0000269|PubMed:10225997, ECO:0000269|Ref.8}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00035PBMTransfer from AT4G36930Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by the A class gene AP2 in the first whorl and by ARF3/ETT in gynoecium. {ECO:0000269|PubMed:11245574}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006425918.11e-122transcription factor SPATULA isoform X2
SwissprotQ9FUA42e-51SPT_ARATH; Transcription factor SPATULA
TrEMBLV4RWH01e-121V4RWH0_9ROSI; Uncharacterized protein
STRINGXP_006425918.11e-122(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM41992754
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G36930.11e-52bHLH family protein
Publications ? help Back to Top
  1. Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH
    Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature.
    Differentiation, 2010. 80(1): p. 1-8
    [PMID:20219281]
  2. Pabón-Mora N,Wong GK,Ambrose BA
    Evolution of fruit development genes in flowering plants.
    Front Plant Sci, 2014. 5: p. 300
    [PMID:25018763]
  3. Moubayidin L,Ostergaard L
    Dynamic control of auxin distribution imposes a bilateral-to-radial symmetry switch during gynoecium development.
    Curr. Biol., 2014. 24(22): p. 2743-8
    [PMID:25455035]
  4. Pfannebecker KC,Lange M,Rupp O,Becker A
    Seed Plant-Specific Gene Lineages Involved in Carpel Development.
    Mol. Biol. Evol., 2017. 34(4): p. 925-942
    [PMID:28087776]
  5. Zumajo-Cardona C,Ambrose BA,Pabón-Mora N
    Evolution of the SPATULA/ALCATRAZ gene lineage and expression analyses in the basal eudicot, Bocconia frutescens L. (Papaveraceae).
    Evodevo, 2017. 8: p. 5
    [PMID:28331573]
  6. Reyes-Olalde JI, et al.
    The bHLH transcription factor SPATULA enables cytokinin signaling, and both activate auxin biosynthesis and transport genes at the medial domain of the gynoecium.
    PLoS Genet., 2017. 13(4): p. e1006726
    [PMID:28388635]
  7. Wu M, et al.
    SPATULA regulates floral transition and photomorphogenesis in a PHYTOCHROME B-dependent manner in Arabidopsis.
    Biochem. Biophys. Res. Commun., 2018. 503(4): p. 2380-2385
    [PMID:29966653]