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

GSVIVT01014689001

Common Name

LOC100256650, VIT_19s0015g00580

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: 210aa MW: 23393.1 Da PI: 6.2487

Description

NF-YB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSVIVT01014689001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YB	155.5	9.2e-49	48	140	5	97
NF-YB 5 drflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyrelege 96 ++++Pian++r+m++vlPa+akis+daketvqecvsefisf+tsea+d+c++e rkti+++d++ a+++lGf+dy++pl++yl++yre e+e GSVIVT01014689001 48 EQYMPIANLTRVMRRVLPAHAKISDDAKETVQECVSEFISFITSEANDRCHHELRKTITAEDVIAAMSKLGFDDYIDPLTLYLHRYRESENE 139 789**************************************************************************************998 PP NF-YB 97 k 97 + GSVIVT01014689001 140 R 140 6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.20.10	2.0E-44	48	142	IPR009072	Histone-fold
SuperFamily	SSF47113	4.86E-35	49	144	IPR009072	Histone-fold
Pfam	PF00808	5.1E-23	50	114	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
PRINTS	PR00615	4.7E-15	78	96	No hit	No description
PROSITE pattern	PS00685	0	81	97	IPR003956	Transcription factor, NFYB/HAP3, conserved site
PRINTS	PR00615	4.7E-15	97	115	No hit	No description
PRINTS	PR00615	4.7E-15	116	134	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

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0009010	anatomy	seed
PO:0025501	developmental stage	fruit formation stage

Sequence ? help Back to Top
Protein Sequence Length: 210 aa Download sequence Send to blast
MERDDDQFHG YRRKIPENSS TSALNPGATS SNPIETTAGV GQKQLPMEQY MPIANLTRVM 60 RRVLPAHAKI SDDAKETVQE CVSEFISFIT SEANDRCHHE LRKTITAEDV IAAMSKLGFD 120 DYIDPLTLYL HRYRESENER DRMPLRRGRE YGSLGAAANY GPPPPPWTTL HIGSQQGLYD 180 AAPIVTRDYF KEGSSAGGST SSRLPPEYK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_A	6e-49	48	135	10	97	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT B-6
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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_002265882.1	1e-156	PREDICTED: nuclear transcription factor Y subunit B-1
Swissprot	Q84W66	1e-50	NFYB6_ARATH; Nuclear transcription factor Y subunit B-6
TrEMBL	A0A438ER33	1e-155	A0A438ER33_VITVI; Nuclear transcription factor Y subunit B-6
TrEMBL	D7UAH8	1e-155	D7UAH8_VITVI; Uncharacterized protein
STRING	VIT_19s0015g00580.t01	1e-156	(Vitis vinifera)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Representative plant	OGRP168	17	170

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G47670.1	4e-53	nuclear factor Y, subunit B6

Link Out ? help Back to Top
Phytozome	GSVIVT01014689001
Entrez Gene	100256650

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]