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_33196_f_2
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: 62aa    MW: 7146.35 Da    PI: 10.9212
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_33196_f_2genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF102.21.9e-32959151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    krienk+nrqvtfskRr g+lKKA+E+SvLCdaevaviifs++gkl+eys+
  Neem_33196_f_2  9 KRIENKINRQVTFSKRRGGLLKKAHEISVLCDAEVAVIIFSHKGKLFEYST 59
                    79***********************************************96 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004324.7E-40160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006632.071161IPR002100Transcription factor, MADS-box
SuperFamilySSF554558.5E-30261IPR002100Transcription factor, MADS-box
CDDcd002652.13E-36261No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004047.3E-32323IPR002100Transcription factor, MADS-box
PfamPF003194.6E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004047.3E-322338IPR002100Transcription factor, MADS-box
PRINTSPR004047.3E-323859IPR002100Transcription 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: 62 aa     Download sequence    Send to blast
MGRGRVQLKR IENKINRQVT FSKRRGGLLK KAHEISVLCD AEVAVIIFSH KGKLFEYSTD  60
SW
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A5e-21160161MEF2C
5f28_B5e-21160161MEF2C
5f28_C5e-21160161MEF2C
5f28_D5e-21160161MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that promotes early floral meristem identity in synergy with APETALA1 and CAULIFLOWER. Is required subsequently for the transition of an inflorescence meristem into a floral meristem (PubMed:28586421). Seems to be partially redundant to the function of APETALA1 and CAULIFLOWER in the up-regulation of LEAFY. Is also required for normal pattern of cell division, expansion and differentiation during morphogenesis of the silique (PubMed:28586421). Probably not required for fruit elongation but instead is required to prevent ectopic activity of IND. Represses SAUR10 expression in stems and inflorescence branches (PubMed:28586421). {ECO:0000269|PubMed:10648231, ECO:0000269|PubMed:15035986, ECO:0000269|PubMed:28586421, ECO:0000269|PubMed:9502732}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Dramatically up-regulated upon the transition from vegetative to reproductive development.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY3389752e-58AY338975.1 Citrus sinensis APETALA1 (AP1) gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007156376.15e-36hypothetical protein PHAVU_003G2810000g, partial
RefseqXP_021684192.12e-35truncated transcription factor CAULIFLOWER A-like isoform X2
RefseqXP_022776708.13e-35truncated transcription factor CAULIFLOWER A-like isoform X1
RefseqXP_022776709.13e-35truncated transcription factor CAULIFLOWER A-like isoform X2
SwissprotQ388762e-34AGL8_ARATH; Agamous-like MADS-box protein AGL8
TrEMBLA0A151TRY37e-37A0A151TRY3_CAJCA; Agamous-like MADS-box protein AGL8 isogeny
STRINGXP_004172815.18e-36(Cucumis sativus)
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
AT5G60910.17e-37AGAMOUS-like 8
Publications ? help Back to Top
  1. Yu Y, et al.
    MlWRKY12, a novel Miscanthus transcription factor, participates in pith secondary cell wall formation and promotes flowering.
    Plant Sci., 2013. 212: p. 1-9
    [PMID:24094048]
  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. Jaradat MR,Ruegger M,Bowling A,Butler H,Cutler AJ
    A comprehensive transcriptome analysis of silique development and dehiscence in Arabidopsis and Brassica integrating genotypic, interspecies and developmental comparisons.
    GM Crops Food, 2014. 5(4): p. 302-20
    [PMID:25523176]
  4. Wang C,Dehesh K
    From retrograde signaling to flowering time.
    Plant Signal Behav, 2015. 10(6): p. e1022012
    [PMID:26098376]
  5. Borghi M,Xie DY
    Tissue-specific production of limonene in Camelina sativa with the Arabidopsis promoters of genes BANYULS and FRUITFULL.
    Planta, 2016. 243(2): p. 549-61
    [PMID:26530959]
  6. Yu Y, et al.
    WRKY71 accelerates flowering via the direct activation of FLOWERING LOCUS T and LEAFY in Arabidopsis thaliana.
    Plant J., 2016. 85(1): p. 96-106
    [PMID:26643131]
  7. McCarthy EW,Mohamed A,Litt A
    Functional Divergence of APETALA1 and FRUITFULL is due to Changes in both Regulation and Coding Sequence.
    Front Plant Sci, 2015. 6: p. 1076
    [PMID:26697035]
  8. Davin N, et al.
    Functional network analysis of genes differentially expressed during xylogenesis in soc1ful woody Arabidopsis plants.
    Plant J., 2016. 86(5): p. 376-90
    [PMID:26952251]
  9. Hyun Y, et al.
    Multi-layered Regulation of SPL15 and Cooperation with SOC1 Integrate Endogenous Flowering Pathways at the Arabidopsis Shoot Meristem.
    Dev. Cell, 2016. 37(3): p. 254-66
    [PMID:27134142]
  10. José Ripoll J, et al.
    microRNA regulation of fruit growth.
    Nat Plants, 2015. 1(4): p. 15036
    [PMID:27247036]
  11. Li W,Wang H,Yu D
    Arabidopsis WRKY Transcription Factors WRKY12 and WRKY13 Oppositely Regulate Flowering under Short-Day Conditions.
    Mol Plant, 2016. 9(11): p. 1492-1503
    [PMID:27592586]
  12. Eldridge T, et al.
    Fruit shape diversity in the Brassicaceae is generated by varying patterns of anisotropy.
    Development, 2016. 143(18): p. 3394-406
    [PMID:27624834]
  13. Bemer M, et al.
    FRUITFULL controls SAUR10 expression and regulates Arabidopsis growth and architecture.
    J. Exp. Bot., 2017. 68(13): p. 3391-3403
    [PMID:28586421]
  14. Sehra B,Franks RG
    Redundant CArG Box Cis-motif Activity Mediates SHATTERPROOF2 Transcriptional Regulation during Arabidopsis thaliana Gynoecium Development.
    Front Plant Sci, 2017. 8: p. 1712
    [PMID:29085379]
  15. Balanzà V, et al.
    Genetic control of meristem arrest and life span in Arabidopsis by a FRUITFULL-APETALA2 pathway.
    Nat Commun, 2018. 9(1): p. 565
    [PMID:29422669]