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 Sme2.5_02949.1_g00006.1
Organism
Solanum melongena
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
Family NF-YC
Protein Properties Length: 105aa    MW: 11757.8 Da    PI: 10.6243
Description NF-YC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sme2.5_02949.1_g00006.1genomeEGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YC27.85.2e-0916931996
                    NF-YC 19 helPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdflvdiv 96
                              ++P+ ri + lka+   k +   +Pv+l  a e++++++   + + a++nk++ ++   i+ av + d  + l+ +v
  Sme2.5_02949.1_g00006.1 16 LQFPVGRITRFLKAERYAKYVVVGTPVFLVAALEYLVVKVLEVAGNTARDNKKTQINPRHIQLAVRNDDELNKLLRDV 93
                             589**************************************************************9998776554333 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004141.9E-322105IPR002119Histone H2A
Gene3DG3DSA:1.10.20.107.4E-434104IPR009072Histone-fold
PfamPF001254.6E-11581IPR007125Histone H2A/H2B/H3
SuperFamilySSF471139.63E-32590IPR009072Histone-fold
PRINTSPR006206.5E-31628IPR002119Histone H2A
PRINTSPR006206.5E-313550IPR002119Histone H2A
PRINTSPR006206.5E-315063IPR002119Histone H2A
PRINTSPR006206.5E-316478IPR002119Histone H2A
PRINTSPR006206.5E-3192105IPR002119Histone H2A
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000786Cellular Componentnucleosome
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 105 aa     Download sequence    Send to blast
MAVTKKSCSR STKTGLQFPV GRITRFLKAE RYAKYVVVGT PVFLVAALEY LVVKVLEVAG  60
NTARDNKKTQ INPRHIQLAV RNDDELNKLL RDVFINNGEL SPLIS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5gsu_C1e-37610413111Histone H2A type 1-A
5gsu_G1e-37610413111Histone H2A type 1-A
5gt0_C1e-37610413111Histone H2A type 1-A
5gt0_G1e-37610413111Histone H2A type 1-A
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtCore component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_022028534.13e-44histone H2A.6
SwissprotO818269e-45H2A3_ARATH; Probable histone H2A.3
TrEMBLA0A1J3ITE26e-43A0A1J3ITE2_NOCCA; Histone H2A
STRINGLus100324643e-43(Linum usitatissimum)
STRINGLus100429603e-43(Linum usitatissimum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA16469
Publications ? help Back to Top
  1. Yi H,Sardesai N,Fujinuma T,Chan CW,Gelvin SB
    Constitutive expression exposes functional redundancy between the Arabidopsis histone H2A gene HTA1 and other H2A gene family members.
    Plant Cell, 2006. 18(7): p. 1575-89
    [PMID:16751347]
  2. Sridhar VV, et al.
    Control of DNA methylation and heterochromatic silencing by histone H2B deubiquitination.
    Nature, 2007. 447(7145): p. 735-8
    [PMID:17554311]