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

ORGLA02G0264000.1

Organism

Oryza glaberrima

Taxonomic ID

4538

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: 254aa MW: 27117.2 Da PI: 6.7339

Description

NF-YB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ORGLA02G0264000.1	genome	AGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YB	172.5	4.6e-54	31	126	2	97
NF-YB 2 reqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyrel 93 reqdr++Pianv+rim++vlPa+akis+daket+qecvse+isf+t+ea+++cqre+rkti+++d+lwa++ lGf+dyvepl vyl++yre+ ORGLA02G0264000.1 31 REQDRLMPIANVIRIMRRVLPAHAKISDDAKETIQECVSEYISFITGEANERCQREQRKTITAEDVLWAMSRLGFDDYVEPLGVYLHRYREF 122 89****************************************************************************************** PP NF-YB 94 egek 97 ege+ ORGLA02G0264000.1 123 EGES 126 *986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.20.10	1.4E-48	28	128	IPR009072	Histone-fold
SuperFamily	SSF47113	5.28E-38	33	134	IPR009072	Histone-fold
Pfam	PF00808	3.9E-25	37	100	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
PRINTS	PR00615	2.6E-16	64	82	No hit	No description
PROSITE pattern	PS00685	0	67	83	IPR003956	Transcription factor, NFYB/HAP3, conserved site
PRINTS	PR00615	2.6E-16	83	101	No hit	No description
PRINTS	PR00615	2.6E-16	102	120	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: 254 aa Download sequence Send to blast
MEAGYPGAAA NGAAADGNGG AQQAAAAPAI REQDRLMPIA NVIRIMRRVL PAHAKISDDA 60 KETIQECVSE YISFITGEAN ERCQREQRKT ITAEDVLWAM SRLGFDDYVE PLGVYLHRYR 120 EFEGESRGVG VGVGAARGDH HHGHVGGMLK SRAQGSMVTH HDMQMHAAMY GGGAVPPPPH 180 PPPHHHAFHQ LMPPHHGQYA PPYDMYGGEH GMAAYYGGMY APGSGGDGSG SSGSGGAGTP 240 QTVNFEHQHP FGYK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_A	2e-61	29	121	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	ORGLA02G0264000.1

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	AB288036	0.0	AB288036.1 Oryza sativa Japonica Group OsHAP3E mRNA for HAP3 subunit of HAP complex, complete cds.
GenBank	AK107861	0.0	AK107861.1 Oryza sativa Japonica Group cDNA clone:002-134-B07, full insert sequence.
GenBank	AP004179	0.0	AP004179.3 Oryza sativa Japonica Group genomic DNA, chromosome 2, BAC clone:OJ1124_G07.
GenBank	AP014958	0.0	AP014958.1 Oryza sativa Japonica Group DNA, chromosome 2, cultivar: Nipponbare, complete sequence.
GenBank	CP012610	0.0	CP012610.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 2 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015624920.1	0.0	nuclear transcription factor Y subunit B-10
Swissprot	Q84W66	5e-66	NFYB6_ARATH; Nuclear transcription factor Y subunit B-6
TrEMBL	A0A0D3F9X8	0.0	A0A0D3F9X8_9ORYZ; Uncharacterized protein
TrEMBL	A0A0D9YXN0	0.0	A0A0D9YXN0_9ORYZ; Uncharacterized protein
TrEMBL	A0A0E0GCI9	0.0	A0A0E0GCI9_ORYNI; Uncharacterized protein
TrEMBL	I1P3T4	0.0	I1P3T4_ORYGL; Uncharacterized protein
TrEMBL	Q84N51	0.0	Q84N51_ORYSI; Leafy cotyledon 1
STRING	OGLUM02G31550.1	0.0	(Oryza glumipatula)
STRING	ONIVA02G33960.1	0.0	(Oryza nivara)
STRING	ORGLA02G0264000.1	0.0	(Oryza glaberrima)
STRING	OBART02G30860.1	0.0	(Oryza barthii)

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	2e-62	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]