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

XP_013611129.1

Organism

Brassica oleracea

Taxonomic ID

3712

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: 243aa MW: 27557.3 Da PI: 8.5881

Description

NF-YB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013611129.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YB	174.7	9.6e-55	87	183	1	97
NF-YB 1 vreqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyreleg 95 vreqdrf+Pianv+rim+++lPa+akis+d+ket+qecvse+isfvt+ea+++cqre+rkti+++d+lwa+++lGf+dy+epl++yl++yreleg XP_013611129.1 87 VREQDRFMPIANVIRIMRRILPAHAKISDDSKETIQECVSEYISFVTGEANERCQREQRKTITAEDVLWAMSKLGFDDYIEPLTLYLHRYRELEG 181 69********************************************************************************************* PP NF-YB 96 ek 97 ++ XP_013611129.1 182 DR 183 97 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	82	184	IPR009072	Histone-fold
SuperFamily	SSF47113	6.2E-37	90	183	IPR009072	Histone-fold
Pfam	PF00808	1.1E-24	93	157	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
PRINTS	PR00615	9.6E-17	121	139	No hit	No description
PROSITE pattern	PS00685	0	124	140	IPR003956	Transcription factor, NFYB/HAP3, conserved site
PRINTS	PR00615	9.6E-17	140	158	No hit	No description
PRINTS	PR00615	9.6E-17	159	177	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: 243 aa Download sequence Send to blast
MLTLASTFLF FFLSLFLFLF SSNAQTQARV SLKKGYGTRR LPWLRQVLPQ HHHQSRGKLL 60 MAESGMQLSE LNQPTKTADG GQEECTVREQ DRFMPIANVI RIMRRILPAH AKISDDSKET 120 IQECVSEYIS FVTGEANERC QREQRKTITA EDVLWAMSKL GFDDYIEPLT LYLHRYRELE 180 GDRGVNCGAG SVSMTNGMVV KRPNGTMAEY GAYMAPYHYR HQNGFAYSGN EPNSKMGGSS 240 SSF

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_A	3e-64	86	178	5	97	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT B-6
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed primarily during seed development. {ECO:0000269\|PubMed:12509518}.
Uniprot	TISSUE SPECIFICITY: Expressed in roots, flowers and developing siliques. Present in etiolated seedlings. {ECO:0000269\|PubMed:11250072, ECO:0000269\|PubMed:12509518, ECO:0000269\|PubMed:17322342}.

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_013611129.1

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	AC155343	0.0	AC155343.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH077A05, complete sequence.
GenBank	EU371727	0.0	EU371727.1 Brassica napus leafy cotyledon 1-like protein (L1L) gene, complete cds.
GenBank	KC787667	0.0	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_013611129.1	0.0	PREDICTED: nuclear transcription factor Y subunit B-6-like isoform X1
Refseq	XP_013611130.1	0.0	PREDICTED: nuclear transcription factor Y subunit B-6-like isoform X1
Swissprot	Q84W66	1e-116	NFYB6_ARATH; Nuclear transcription factor Y subunit B-6
TrEMBL	A0A0D3E7A5	1e-138	A0A0D3E7A5_BRAOL; Uncharacterized protein
STRING	Bo9g069720.1	1e-139	(Brassica oleracea)

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-118	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]