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

GSVIVT01014690001

Common Name

LOC100251442, VIT_19s0015g00590

Organism

Vitis vinifera

Taxonomic ID

29760

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; rosids incertae sedis; Vitales; Vitaceae; Vitis

Family

NF-YB

Protein Properties

Length: 216aa MW: 23867.5 Da PI: 5.566

Description

NF-YB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSVIVT01014690001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YB	144	3.4e-45	47	142	2	97
NF-YB 2 reqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyrel 93 req++++P+a ++r+m++vlPa+a+is++ake++qecv efisf+tsea+d++++e rkti+g+d++ a+++lGf+dy+epl++yl++yr++ GSVIVT01014690001 47 REQEHYMPMAHLTRVMRRVLPAHAQISDQAKESIQECVCEFISFITSEANDRSHHELRKTITGEDIIAAMGKLGFDDYIEPLTLYLHRYRQA 138 89****************************************************************************************** PP NF-YB 94 egek 97 e+e+ GSVIVT01014690001 139 ENER 142 9986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.20.10	2.6E-41	42	143	IPR009072	Histone-fold
SuperFamily	SSF47113	6.2E-32	49	145	IPR009072	Histone-fold
Pfam	PF00808	2.0E-19	53	116	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
PRINTS	PR00615	3.9E-14	80	98	No hit	No description
PRINTS	PR00615	3.9E-14	99	117	No hit	No description
PRINTS	PR00615	3.9E-14	118	136	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0046982	Molecular Function	protein heterodimerization activity

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0025073	anatomy	branch
PO:0028002	developmental stage	sporophyte development stage

Sequence ? help Back to Top
Protein Sequence Length: 216 aa Download sequence Send to blast
METDGDQFHV YRRKFPPNSS NSALTLGSRS SNPINTMAGE GQQQGRREQE HYMPMAHLTR 60 VMRRVLPAHA QISDQAKESI QECVCEFISF ITSEANDRSH HELRKTITGE DIIAAMGKLG 120 FDDYIEPLTL YLHRYRQAEN ERDGRLPLGG AMDYGSLGAT LSYGPPLPPP PPQTLNMGNQ 180 EGLQDAAAIV THNYFEEEAG GAGGSTSSRY PREDK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_A	1e-44	41	137	1	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}.

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	AM483768	0.0	AM483768.2 Vitis vinifera contig VV78X049591.24, whole genome shotgun sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002268482.1	1e-160	PREDICTED: nuclear transcription factor Y subunit beta
Swissprot	Q84W66	9e-45	NFYB6_ARATH; Nuclear transcription factor Y subunit B-6
TrEMBL	D7UAH9	1e-159	D7UAH9_VITVI; Uncharacterized protein
STRING	VIT_19s0015g00590.t01	1e-160	(Vitis vinifera)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G47670.2	7e-45	nuclear factor Y, subunit B6

Link Out ? help Back to Top
Phytozome	GSVIVT01014690001
Entrez Gene	100251442

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]