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_40966_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: 84aa    MW: 9751.25 Da    PI: 9.5851
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_40966_f_1genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF98.33.1e-31959151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    +rienk nrqvtfskRrng+lKKA+ELS LCdaevaviifss+gkl+e++s
  Neem_40966_f_1  9 ERIENKVNRQVTFSKRRNGLLKKAYELSLLCDAEVAVIIFSSHGKLFEFAS 59
                    69***********************************************86 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.0E-39160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.847161IPR002100Transcription factor, MADS-box
CDDcd002659.23E-38267No hitNo description
SuperFamilySSF554551.18E-30271IPR002100Transcription factor, MADS-box
PRINTSPR004042.2E-31323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003194.8E-281057IPR002100Transcription factor, MADS-box
PRINTSPR004042.2E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004042.2E-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: 84 aa     Download sequence    Send to blast
MGRGKVVLER IENKVNRQVT FSKRRNGLLK KAYELSLLCD AEVAVIIFSS HGKLFEFASN  60
DVSELVYYIK SQREWEIGER TEKV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A7e-23166166MEF2 CHIMERA
6byy_B7e-23166166MEF2 CHIMERA
6byy_C7e-23166166MEF2 CHIMERA
6byy_D7e-23166166MEF2 CHIMERA
6bz1_A6e-23166166MEF2 CHIMERA
6bz1_B6e-23166166MEF2 CHIMERA
6bz1_C6e-23166166MEF2 CHIMERA
6bz1_D6e-23166166MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. Regulates floral organ identity and floral meristem determinacy. May be involved in the control of flowering time. {ECO:0000269|PubMed:19820190, ECO:0000269|Ref.8}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011030020.18e-34PREDICTED: truncated transcription factor CAULIFLOWER A-like
RefseqXP_011030021.18e-34PREDICTED: truncated transcription factor CAULIFLOWER A-like
RefseqXP_023923299.11e-33MADS-box transcription factor 17-like
SwissprotQ6EU391e-29MADS6_ORYSJ; MADS-box transcription factor 6
TrEMBLA0A2N9FVP95e-32A0A2N9FVP9_FAGSY; Uncharacterized protein
TrEMBLU5FXL47e-32U5FXL4_POPTR; Uncharacterized protein
STRINGPOPTR_0015s14010.17e-31(Populus trichocarpa)
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
AT2G03710.33e-31MIKC_MADS family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Li H, et al.
    The AGL6-like gene OsMADS6 regulates floral organ and meristem identities in rice.
    Cell Res., 2010. 20(3): p. 299-313
    [PMID:20038961]
  3. Zhang J,Nallamilli BR,Mujahid H,Peng Z
    OsMADS6 plays an essential role in endosperm nutrient accumulation and is subject to epigenetic regulation in rice (Oryza sativa).
    Plant J., 2010. 64(4): p. 604-17
    [PMID:20822505]
  4. Seok HY, et al.
    Rice ternary MADS protein complexes containing class B MADS heterodimer.
    Biochem. Biophys. Res. Commun., 2010. 401(4): p. 598-604
    [PMID:20888318]
  5. Li H, et al.
    Rice MADS6 interacts with the floral homeotic genes SUPERWOMAN1, MADS3, MADS58, MADS13, and DROOPING LEAF in specifying floral organ identities and meristem fate.
    Plant Cell, 2011. 23(7): p. 2536-52
    [PMID:21784949]
  6. Yadav SR,Khanday I,Majhi BB,Veluthambi K,Vijayraghavan U
    Auxin-responsive OsMGH3, a common downstream target of OsMADS1 and OsMADS6, controls rice floret fertility.
    Plant Cell Physiol., 2011. 52(12): p. 2123-35
    [PMID:22016342]
  7. Duan Y, et al.
    Characterization of Osmads6-5, a null allele, reveals that OsMADS6 is a critical regulator for early flower development in rice (Oryza sativa L.).
    Plant Mol. Biol., 2012. 80(4-5): p. 429-42
    [PMID:22933119]
  8. Conrad LJ, et al.
    The polycomb group gene EMF2B is essential for maintenance of floral meristem determinacy in rice.
    Plant J., 2014. 80(5): p. 883-94
    [PMID:25279942]
  9. Zhang J, et al.
    Down-regulation of a LBD-like gene, OsIG1, leads to occurrence of unusual double ovules and developmental abnormalities of various floral organs and megagametophyte in rice.
    J. Exp. Bot., 2015. 66(1): p. 99-112
    [PMID:25324400]
  10. Bai X, et al.
    Regulatory role of FZP in the determination of panicle branching and spikelet formation in rice.
    Sci Rep, 2016. 6: p. 19022
    [PMID:26744119]
  11. Zhang B, et al.
    A High Temperature-Dependent Mitochondrial Lipase EXTRA GLUME1 Promotes Floral Phenotypic Robustness against Temperature Fluctuation in Rice (Oryza sativa L.).
    PLoS Genet., 2016. 12(7): p. e1006152
    [PMID:27367609]