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

OB06G20060.1

Organism

Oryza brachyantha

Taxonomic ID

4533

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

NF-YB

Protein Properties

Length: 183aa MW: 20237.5 Da PI: 4.3056

Description

NF-YB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OB06G20060.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YB	155.5	8.9e-49	22	116	1	95
NF-YB 1 vreqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyreleg 95 vreqd ++Pianv+rim++vlP +akis+dake++qecvsefisfvt+ea+d+c+re+rkt++++dl+wa+ lGf+dyv pl vyl++ re eg OB06G20060.1 22 VREQDCLMPIANVIRIMRRVLPPHAKISDDAKEVIQECVSEFISFVTGEANDRCHREHRKTVTAEDLVWAMDRLGFDDYVPPLGVYLRRMRESEG 116 58******************************************************************************************997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.20.10	1.6E-45	19	119	IPR009072	Histone-fold
SuperFamily	SSF47113	2.95E-35	25	119	IPR009072	Histone-fold
Pfam	PF00808	1.7E-24	29	92	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
PRINTS	PR00615	3.9E-13	56	74	No hit	No description
PROSITE pattern	PS00685	0	59	75	IPR003956	Transcription factor, NFYB/HAP3, conserved site
PRINTS	PR00615	3.9E-13	75	93	No hit	No description
PRINTS	PR00615	3.9E-13	94	112	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: 183 aa Download sequence Send to blast
MEPAFANGGP PPEQQPAPAM VVREQDCLMP IANVIRIMRR VLPPHAKISD DAKEVIQECV 60 SEFISFVTGE ANDRCHREHR KTVTAEDLVW AMDRLGFDDY VPPLGVYLRR MRESEGGGPW 120 DNGKAMSDRD RQRQVTWGLV ATMTTAGSDH GDRGKVISGE GDDDSDDGID GDDEPVADAR 180 MED

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_A	2e-50	20	113	4	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	OB06G20060.1

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	AB288035	1e-128	AB288035.1 Oryza sativa Japonica Group OsHAP3D mRNA for HAP3 subunit of HAP complex, complete cds.
GenBank	AK109660	1e-128	AK109660.1 Oryza sativa Japonica Group cDNA clone:002-141-E08, full insert sequence.
GenBank	AP004791	1e-128	AP004791.3 Oryza sativa Japonica Group genomic DNA, chromosome 6, PAC clone:P0491D10.
GenBank	AP014962	1e-128	AP014962.1 Oryza sativa Japonica Group DNA, chromosome 6, cultivar: Nipponbare, complete sequence.
GenBank	AY062183	1e-128	AY062183.1 Oryza sativa HAP3 transcriptional-activator (LEC1A) mRNA, complete cds.
GenBank	CP012614	1e-128	CP012614.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 6 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006656887.1	1e-82	PREDICTED: nuclear transcription factor Y subunit B-6-like
Swissprot	Q84W66	3e-49	NFYB6_ARATH; Nuclear transcription factor Y subunit B-6
TrEMBL	J3MDB2	1e-131	J3MDB2_ORYBR; Uncharacterized protein
STRING	OB06G20060.1	1e-132	(Oryza brachyantha)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP201	38	331

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G47670.2	1e-51	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]