PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Neem_17850_f_1
Organism
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 M-type_MADS
Protein Properties Length: 83aa    MW: 9508.92 Da    PI: 10.5908
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_17850_f_1genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF95.23e-30959151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    krien + rqvtfskRrng+lKK +ELSvLCdaeva+iifs++gklye+ss
  Neem_17850_f_1  9 KRIENATSRQVTFSKRRNGLLKKGFELSVLCDAEVALIIFSPRGKLYEFSS 59
                    79***********************************************96 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.286161IPR002100Transcription factor, MADS-box
SMARTSM004322.2E-40160IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.09E-29264IPR002100Transcription factor, MADS-box
PRINTSPR004044.3E-31323IPR002100Transcription factor, MADS-box
CDDcd002658.68E-38360No hitNo description
PfamPF003192.6E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004044.3E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004044.3E-313859IPR002100Transcription factor, MADS-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 83 aa     Download sequence    Send to blast
MTRGKTQMKR IENATSRQVT FSKRRNGLLK KGFELSVLCD AEVALIIFSP RGKLYEFSSS  60
RYSIYNCALD HSSQGFNPVW KNT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A5e-18166173MEF2C
5f28_B5e-18166173MEF2C
5f28_C5e-18166173MEF2C
5f28_D5e-18166173MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator that regulates root development by controlling meristem size and patterning of the root apical meristem. Regulates auxin transport and gradients in the root meristematic cells via direct regulation of the auxin efflux carrier PIN1 and PIN4 gene expression. Binds specifically to the CArG-box DNA sequences in the promoter regions of PIN1 and PIN4 genes (PubMed:24121311). Involved in the regulation of shoot apical meristem (SAM) cell identities and transitions. Promotes flowering transition and participates in flower meristem maintenance and determinacy. Positively regulates TFL1 and WUS expression. Binds directly to the TFL1 regulatory sequences (PubMed:25636918). {ECO:0000269|PubMed:24121311}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. {ECO:0000269|PubMed:24121311}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007134936.11e-36hypothetical protein PHAVU_010G088100g
RefseqXP_007134937.11e-36hypothetical protein PHAVU_010G088100g
SwissprotQ388382e-34AGL14_ARATH; Agamous-like MADS-box protein AGL14
TrEMBLV7ARU43e-35V7ARU4_PHAVU; Uncharacterized protein
STRINGXP_007134936.16e-36(Phaseolus vulgaris)
STRINGLus100067166e-35(Linum usitatissimum)
STRINGLus100141445e-35(Linum usitatissimum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM7828413
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G11880.11e-36AGAMOUS-like 14
Publications ? help Back to Top
  1. Zimmermann P,Hirsch-Hoffmann M,Hennig L,Gruissem W
    GENEVESTIGATOR. Arabidopsis microarray database and analysis toolbox.
    Plant Physiol., 2004. 136(1): p. 2621-32
    [PMID:15375207]
  2. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  3. Qu Y, et al.
    Peroxisomal CuAO╬ and its product H2O2 regulate the distribution of auxin and IBA-dependent lateral root development in Arabidopsis.
    J. Exp. Bot., 2017. 68(17): p. 4851-4867
    [PMID:28992128]