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

GSBRNA2T00079089001

Common Name

GSBRNA2T00079089001

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: 165aa MW: 18071.5 Da PI: 5.0285

Description

NF-YB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00079089001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YB	173.8	1.8e-54	19	111	1	93
NF-YB 1 vreqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkky 90 vre+dr+lPian+srimk++lP n+ki+kdak+tvqecvsefisf+tseasdkcq+ekrkt+ng+dllwa++tlGfedy+eplkvyl++y GSBRNA2T00079089001 19 VREHDRYLPIANISRIMKRALPPNGKIGKDAKDTVQECVSEFISFITSEASDKCQKEKRKTVNGEDLLWAMSTLGFEDYLEPLKVYLARY 108 589*************************************************************************************** PP NF-YB 91 rel 93 re+ GSBRNA2T00079089001 109 REV 111 *98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.20.10	1.1E-50	17	111	IPR009072	Histone-fold
SuperFamily	SSF47113	3.59E-38	23	111	IPR009072	Histone-fold
Pfam	PF00808	2.3E-27	25	89	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
PRINTS	PR00615	7.2E-22	53	71	No hit	No description
PROSITE pattern	PS00685	0	56	72	IPR003956	Transcription factor, NFYB/HAP3, conserved site
PRINTS	PR00615	7.2E-22	72	90	No hit	No description
PRINTS	PR00615	7.2E-22	91	109	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: 165 aa Download sequence Send to blast
MANTTTSPDG DGGESGGSVR EHDRYLPIAN ISRIMKRALP PNGKIGKDAK DTVQECVSEF 60 ISFITSEASD KCQKEKRKTV NGEDLLWAMS TLGFEDYLEP LKVYLARYRE VSYISLLLLS 120 SCYVRLILSF HLPVYVAETI LLLHGDSNNR DAAGGVSGEE LPVV*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1n1j_A	2e-47	18	110	1	93	NF-YB
4awl_B	2e-47	18	110	2	94	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
4csr_A	2e-47	18	110	2	94	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
4g91_B	2e-47	19	110	1	92	Transcription factor HapC (Eurofung)
4g92_B	2e-47	19	110	1	92	Transcription factor HapC (Eurofung)
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.2043	1e-107	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	GSBRNA2T00079089001

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-116	AK353248.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-27-P17.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001189705.1	7e-79	nuclear factor Y, subunit B1
Refseq	NP_001323550.1	7e-79	nuclear factor Y, subunit B1
Swissprot	Q9SLG0	3e-77	NFYB1_ARATH; Nuclear transcription factor Y subunit B-1
TrEMBL	A0A078FNH2	1e-117	A0A078FNH2_BRANA; BnaC03g21730D protein
STRING	AT2G38880.8	3e-78	(Arabidopsis thaliana)

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
AT2G38880.8	1e-70	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]