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

RrC2292_p7

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: 224aa MW: 24912.8 Da PI: 6.7909

Description

NF-YB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC2292_p7	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YB	172.6	4.2e-54	51	145	1	95
NF-YB 1 vreqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyreleg 95 vreqdrf+Pianv+rim+++lPa+akis+d+ket+qecvse+isfvt+ea+++cqre+rkti+++d+lwa+++lGf+dy+epl++yl++yreleg RrC2292_p7 51 VREQDRFMPIANVIRIMRRILPAHAKISDDSKETIQECVSEYISFVTGEANERCQREQRKTITAEDVLWAMSKLGFDDYIEPLTLYLHRYRELEG 145 69*******************************************************************************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.20.10	1.5E-49	47	149	IPR009072	Histone-fold
SuperFamily	SSF47113	1.22E-37	54	156	IPR009072	Histone-fold
Pfam	PF00808	9.8E-25	57	121	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
PRINTS	PR00615	7.9E-17	85	103	No hit	No description
PROSITE pattern	PS00685	0	88	104	IPR003956	Transcription factor, NFYB/HAP3, conserved site
PRINTS	PR00615	7.9E-17	104	122	No hit	No description
PRINTS	PR00615	7.9E-17	123	141	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009738	Biological Process	abscisic acid-activated signaling pathway
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0033613	Molecular Function	activating transcription factor binding
GO:0043565	Molecular Function	sequence-specific DNA binding
GO:0046982	Molecular Function	protein heterodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 224 aa Download sequence Send to blast
MERGGFHGYG KLNTTNNPAK FLMAESSSMQ LSELNHPNKT ANGVGEEECT VREQDRFMPI 60 ANVIRIMRRI LPAHAKISDD SKETIQECVS EYISFVTGEA NERCQREQRK TITAEDVLWA 120 MSKLGFDDYI EPLTLYLHRY RELEGGDRGG VSYNAGGSVS MTNGMVVKRT NGIEYGAYGG 180 TMPGIHMAYR HQNGFVYNGN EPNSRMGGGS SSASSVFPTQ QQKY

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_A	3e-65	50	142	5	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. Plays a role in the regulation of the embryogenesis. Involved in the abscisic acid (ABA) signaling pathway. {ECO:0000269\|PubMed:12509518, ECO:0000269\|PubMed:17322342}.

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	EU371727	1e-146	EU371727.1 Brassica napus leafy cotyledon 1-like protein (L1L) gene, complete cds.
GenBank	KC787667	1e-146	KC787667.1 Brassica napus transcription factor subunit NF-YB6B (NF-YB6B) gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018456756.1	1e-157	PREDICTED: nuclear transcription factor Y subunit B-6-like
Refseq	XP_018456757.1	1e-157	PREDICTED: nuclear transcription factor Y subunit B-6-like
Refseq	XP_018456758.1	1e-157	PREDICTED: nuclear transcription factor Y subunit B-6-like
Refseq	XP_018456759.1	1e-157	PREDICTED: nuclear transcription factor Y subunit B-6-like
Swissprot	Q84W66	1e-118	NFYB6_ARATH; Nuclear transcription factor Y subunit B-6
TrEMBL	A0A078FT61	1e-120	A0A078FT61_BRANA; BnaA06g35340D protein
TrEMBL	A0A397Z814	1e-120	A0A397Z814_BRACM; Uncharacterized protein
TrEMBL	M4E818	1e-120	M4E818_BRARP; Uncharacterized protein
STRING	Bra024924.1-P	1e-121	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM9896	26	36

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G47670.1	1e-119	nuclear factor Y, subunit B6

Publications ? help Back to Top
Jia H,McCarty DR,Suzuki M Distinct roles of LAFL network genes in promoting the embryonic seedling fate in the absence of VAL repression. Plant Physiol., 2013. 163(3): p. 1293-305 [PMID:24043445] Kim HU, et al. Ectopic overexpression of castor bean LEAFY COTYLEDON2 (LEC2) in Arabidopsis triggers the expression of genes that encode regulators of seed maturation and oil body proteins in vegetative tissues. FEBS Open Bio, 2013. 4: p. 25-32 [PMID:24363987] Gnesutta N,Saad D,Chaves-Sanjuan A,Mantovani R,Nardini M Crystal Structure of the Arabidopsis thaliana L1L/NF-YC3 Histone-fold Dimer Reveals Specificities of the LEC1 Family of NF-Y Subunits in Plants. Mol Plant, 2017. 10(4): p. 645-648 [PMID:27871811] Li D, et al. MYB89 Transcription Factor Represses Seed Oil Accumulation. Plant Physiol., 2017. 173(2): p. 1211-1225 [PMID:27932421] Zhao H, et al. The Arabidopsis thaliana Nuclear Factor Y Transcription Factors. Front Plant Sci, 2016. 7: p. 2045 [PMID:28119722] Han JD, et al. Evolutionary Analysis of the LAFL Genes Involved in the Land Plant Seed Maturation Program. Front Plant Sci, 2017. 8: p. 439 [PMID:28421087]