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

XP_009111054.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

NF-YA

Protein Properties

Length: 163aa MW: 18620 Da PI: 10.9862

Description

NF-YA family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009111054.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	CBFB_NFYA	104.8	7.5e-33	26	82	1	58
CBFB_NFYA 1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 ++p+YVNaKQyq+Il+RRq+Rak+e ekkl +ksrkpylheSRh+hA+rRpRg+gGrF XP_009111054.1 26 QDPVYVNAKQYQAILRRRQARAKAELEKKL-IKSRKPYLHESRHQHAIRRPRGNGGRF 82 68**************************.************************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00521	1.5E-35	24	85	IPR001289	Nuclear transcription factor Y subunit A
PROSITE profile	PS51152	36.088	25	85	IPR001289	Nuclear transcription factor Y subunit A
Pfam	PF02045	3.2E-28	28	82	IPR001289	Nuclear transcription factor Y subunit A
PRINTS	PR00616	1.8E-24	28	50	IPR001289	Nuclear transcription factor Y subunit A
PROSITE pattern	PS00686	0	30	50	IPR018362	CCAAT-binding factor, conserved site
PRINTS	PR00616	1.8E-24	59	82	IPR001289	Nuclear transcription factor Y subunit A

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0016602	Cellular Component	CCAAT-binding factor complex
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 163 aa Download sequence Send to blast
MSHEPTYVPY GGMPHSRMPL PPEMAQDPVY VNAKQYQAIL RRRQARAKAE LEKKLIKSRK 60 PYLHESRHQH AIRRPRGNGG RFAKKTNTKA AQQKAGEKRN ACRTQSPTSS SSDQPEAWND 120 ENRTQSKEMQ STACKRRKEA DCSGQQWNII SSNHPSQARL AIK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4awl_A	2e-19	26	82	2	58	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT ALPHA
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bra.20611	5e-95	bud\| flower\| leaf\| root

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in inflorescence, stems, flowers and siliques. {ECO:0000269\|PubMed:11867211}.

Functional Description ? help Back to Top
Source	Description
UniProt	Stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009111054.1

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	BNU33884	1e-146	U33884.1 Brassica napus clone bncbf-b1 CCAAT-binding factor B subunit homolog mRNA, complete cds.
GenBank	BNU33885	1e-146	U33885.1 Brassica napus clone bncbf-b2 CCAAT-binding factor B subunit homolog mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018511878.1	1e-114	PREDICTED: nuclear transcription factor Y subunit A-9-like
Swissprot	Q945M9	9e-89	NFYA9_ARATH; Nuclear transcription factor Y subunit A-9
TrEMBL	A0A078HG42	1e-113	A0A078HG42_BRANA; BnaA01g25500D protein
TrEMBL	M4E559	1e-113	M4E559_BRARP; Uncharacterized protein
STRING	Bra023913.1-P	1e-114	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13268	18	29

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G20910.1	1e-74	nuclear factor Y, subunit A9

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Zhao H, et al. The Arabidopsis thaliana Nuclear Factor Y Transcription Factors. Front Plant Sci, 2016. 7: p. 2045 [PMID:28119722]