PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

GSBRNA2T00116872001

Common Name

GSBRNA2T00116872001

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

NF-YB

Protein Properties

Length: 143aa MW: 15283 Da PI: 4.6898

Description

NF-YB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00116872001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YB	176.3	3e-55	20	113	1	94
NF-YB 1 vreqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkky 90 vreqdr+lPian+srimkk+lP n+ki+kdak+tvqecvsefisf+tseasdkcq+ekrkt+ng+dllwa+atlGfedy+eplkvyl++y GSBRNA2T00116872001 20 VREQDRYLPIANISRIMKKALPPNGKIGKDAKDTVQECVSEFISFITSEASDKCQKEKRKTVNGEDLLWAMATLGFEDYLEPLKVYLARY 109 69**************************************************************************************** PP NF-YB 91 rele 94 re + GSBRNA2T00116872001 110 REGD 113 *965 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.20.10	1.0E-52	18	128	IPR009072	Histone-fold
SuperFamily	SSF47113	3.26E-40	23	129	IPR009072	Histone-fold
Pfam	PF00808	7.2E-28	26	90	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
PRINTS	PR00615	1.0E-21	54	72	No hit	No description
PROSITE pattern	PS00685	0	57	73	IPR003956	Transcription factor, NFYB/HAP3, conserved site
PRINTS	PR00615	1.0E-21	73	91	No hit	No description
PRINTS	PR00615	1.0E-21	92	110	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0043565	Molecular Function	sequence-specific DNA binding
GO:0046982	Molecular Function	protein heterodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 143 aa Download sequence Send to blast
MADTPSSPAG DGGESGGGSV REQDRYLPIA NISRIMKKAL PPNGKIGKDA KDTVQECVSE 60 FISFITSEAS DKCQKEKRKT VNGEDLLWAM ATLGFEDYLE PLKVYLARYR EGDNKGSGKS 120 GDGSNRDAAA GGVSNEDMPV WF*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1n1j_A	1e-48	19	111	1	93	NF-YB
4awl_B	9e-49	19	111	2	94	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
4csr_A	9e-49	19	111	2	94	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
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Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.2043	0.0	seed

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Ubiquitous. Predominantly expressed in leaves, flowers and siliques. {ECO:0000269\|PubMed:11250072, ECO:0000269\|PubMed:9662544}.

Functional Description ? help Back to Top
Source	Description
UniProt	Component 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.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00116872001

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK353248	1e-127	AK353248.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-27-P17.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013748267.1	3e-99	nuclear transcription factor Y subunit B-1 isoform X2
Swissprot	Q9SLG0	4e-90	NFYB1_ARATH; Nuclear transcription factor Y subunit B-1
TrEMBL	M4CLI7	4e-99	M4CLI7_BRARP; Uncharacterized protein
STRING	Bra005074.1-P	1e-100	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1480	27	94

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G38880.7	3e-72	nuclear factor Y, subunit B1

Publications ? help Back to Top
Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293]