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 Pavir.3KG259300.1.p
Organism
Panicum virgatum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family NF-YB
Protein Properties Length: 146aa    MW: 16453.8 Da    PI: 6.5293
Description NF-YB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.3KG259300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YB168.39.1e-5318110294
                NF-YB   2 reqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyr 91 
                          +eqdr+lPian++rim++++P+n+ki+kdake+vqecvsefisf+tseasdkc +ekrkting+dl+w+++tlGfe+yveplk ylk yr
  Pavir.3KG259300.1.p  18 KEQDRYLPIANIGRIMRRAVPENGKIAKDAKESVQECVSEFISFITSEASDKCMKEKRKTINGEDLIWSMGTLGFEEYVEPLKHYLKLYR 107
                          89**************************************************************************************** PP

                NF-YB  92 ele 94 
                          e+ 
  Pavir.3KG259300.1.p 108 EVP 110
                          *86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.20.107.7E-4816109IPR009072Histone-fold
SuperFamilySSF471132.17E-3620109IPR009072Histone-fold
PfamPF008089.3E-272387IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
PRINTSPR006156.6E-205169No hitNo description
PROSITE patternPS0068505470IPR003956Transcription factor, NFYB/HAP3, conserved site
PRINTSPR006156.6E-207088No hitNo description
PRINTSPR006156.6E-2089107No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 146 aa     Download sequence    Send to blast
MSEAESAPET GGGSYGGKEQ DRYLPIANIG RIMRRAVPEN GKIAKDAKES VQECVSEFIS  60
FITSEASDKC MKEKRKTING EDLIWSMGTL GFEEYVEPLK HYLKLYREVP IESPPLSLRA  120
AYYYCIRYES VAKPAQKMTY GEHLR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1n1j_A5e-4618108393NF-YB
4awl_B5e-4618108494NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
4csr_A5e-4618108494NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.192641e-160stem
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Ubiquitous. {ECO:0000269|PubMed:14617083}.
Functional Description ? help Back to Top
Source Description
UniProtComponent of the NF-Y/HAP transcription factor complex. The NF-Y complex stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters. May regulate the expression of photosynthetic genes, and may be involved in chloroplast and amyloplast development. {ECO:0000269|PubMed:14617083}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.3KG259300.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKM0787421e-113KM078742.1 Triticum aestivum CCAAT-binding transcription factor A (NFYB-D11) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025805143.11e-73nuclear transcription factor Y subunit B-4-like
RefseqXP_025805144.11e-73nuclear transcription factor Y subunit B-4-like
SwissprotQ65XK12e-58NFYB4_ORYSJ; Nuclear transcription factor Y subunit B-4
TrEMBLA0A2T8KIH71e-81A0A2T8KIH7_9POAL; Uncharacterized protein
TrEMBLA0A2T8KIM23e-81A0A2T8KIM2_9POAL; Uncharacterized protein
STRINGPavir.J18451.1.p1e-103(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP20138331
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G38880.62e-56nuclear factor Y, subunit B1
Publications ? help Back to Top
  1. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]