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

ONIVA05G20380.1

Organism

Oryza nivara

Taxonomic ID

4536

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: 84aa MW: 8158.02 Da PI: 7.3637

Description

NF-YB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ONIVA05G20380.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YB	87.5	1.5e-27	36	84	1	49
NF-YB 1 vreqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtse 49 vreqdrflPian+srimkk++Pan+ki+kdaketvqecvsefisf+tse ONIVA05G20380.1 36 VREQDRFLPIANISRIMKKAIPANGKIAKDAKETVQECVSEFISFITSE 84 69*********************************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	1.08E-17	19	84	IPR009072	Histone-fold
Gene3D	G3DSA:1.10.20.10	2.9E-25	34	84	IPR009072	Histone-fold
Pfam	PF00808	4.4E-17	42	84	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046982	Molecular Function	protein heterodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 84 aa Download sequence Send to blast
MADGPGSPGG GGGSHESGSP RGGGGGGGGG GGGGGVREQD RFLPIANISR IMKKAIPANG 60 KIAKDAKETV QECVSEFISF ITSE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1n1j_A	2e-23	35	84	1	50	NF-YB
4awl_B	2e-23	35	84	2	51	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
4csr_A	2e-23	35	84	2	51	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
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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. May regulate the expression of photosynthetic genes, and may be involved in chloroplast and amyloplast development. {ECO:0000269\|PubMed:14617083}.

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	AC108500	1e-140	AC108500.3 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OJ1280_A04, complete sequence.
GenBank	AP014961	1e-140	AP014961.1 Oryza sativa Japonica Group DNA, chromosome 5, cultivar: Nipponbare, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015639303.1	2e-51	nuclear transcription factor Y subunit B-3
Refseq	XP_015639304.1	2e-51	nuclear transcription factor Y subunit B-3
Refseq	XP_015639305.1	2e-51	nuclear transcription factor Y subunit B-3
Swissprot	Q60EQ4	1e-52	NFYB3_ORYSJ; Nuclear transcription factor Y subunit B-3
TrEMBL	B7EQX8	3e-50	B7EQX8_ORYSJ; cDNA clone:J023121O11, full insert sequence
TrEMBL	I1PWE8	3e-50	I1PWE8_ORYGL; Uncharacterized protein
STRING	ORGLA05G0169600.1	6e-51	(Oryza glaberrima)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP18750	5	9

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G38880.7	1e-28	nuclear factor Y, subunit B1

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Cheng CH, et al. A fine physical map of the rice chromosome 5. Mol. Genet. Genomics, 2005. 274(4): p. 337-45 [PMID:16261349]