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

RrC12404_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

NF-YB

Protein Properties

Length: 168aa MW: 17924.8 Da PI: 6.3545

Description

NF-YB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC12404_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YB	188.1	6.2e-59	20	115	2	97
NF-YB 2 reqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyrelegek 97 reqdrflPianvsrimkk+lPanakiskdaketvqecvsefisfvt+easdkcqrekrktingddllwa++tlGfedyveplkvyl+kyrelege+ RrC12404_p1 20 REQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASDKCQREKRKTINGDDLLWAMTTLGFEDYVEPLKVYLQKYRELEGER 115 89*******************************************************************************************997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.20.10	8.3E-55	16	125	IPR009072	Histone-fold
SuperFamily	SSF47113	1.41E-40	22	119	IPR009072	Histone-fold
Pfam	PF00808	4.6E-28	25	89	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
PRINTS	PR00615	4.7E-22	53	71	No hit	No description
PROSITE pattern	PS00685	0	56	72	IPR003956	Transcription factor, NFYB/HAP3, conserved site
PRINTS	PR00615	4.7E-22	72	90	No hit	No description
PRINTS	PR00615	4.7E-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: 168 aa Download sequence Send to blast
MADSDNDSGG HKDGGSASSR EQDRFLPIAN VSRIMKKALP ANAKISKDAK ETVQECVSEF 60 ISFVTGEASD KCQREKRKTI NGDDLLWAMT TLGFEDYVEP LKVYLQKYRE LEGERMTTGR 120 QGDKEGGGGG GNGSSGGGGY NWGGGMYGGV VTMGHHHQGH VYGGSGIN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_A	1e-49	14	110	1	97	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT B-6
Search in ModeBase

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.

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	KC787662	0.0	KC787662.1 Brassica napus transcription factor subunit NF-YB3A (NF-YB3A) gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018486647.1	1e-118	PREDICTED: nuclear transcription factor Y subunit B-3
Swissprot	O23310	7e-87	NFYB3_ARATH; Nuclear transcription factor Y subunit B-3
TrEMBL	A0A1J3G450	7e-96	A0A1J3G450_NOCCA; Nuclear transcription factor Y subunit B-3 (Fragment)
STRING	Bo5g126550.1	4e-96	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM255	28	229

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G14540.1	1e-86	nuclear factor Y, subunit B3

Publications ? help Back to Top
Han X, et al. Overexpression of the poplar NF-YB7 transcription factor confers drought tolerance and improves water-use efficiency in Arabidopsis. J. Exp. Bot., 2013. 64(14): p. 4589-601 [PMID:24006421] Hwang YH, et al. Functional conservation of rice OsNF-YB/YC and Arabidopsis AtNF-YB/YC proteins in the regulation of flowering time. Plant Cell Rep., 2016. 35(4): p. 857-65 [PMID:26754793] Hossain MA, et al. Identification of Novel Components of the Unfolded Protein Response in Arabidopsis. Front Plant Sci, 2016. 7: p. 650 [PMID:27242851] Zhao H, et al. The Arabidopsis thaliana Nuclear Factor Y Transcription Factors. Front Plant Sci, 2016. 7: p. 2045 [PMID:28119722]