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

GSBRNA2T00050238001

Common Name

GSBRNA2T00050238001

Organism

Brassica napus

Taxonomic ID

3708

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: 198aa MW: 22197.8 Da PI: 8.7803

Description

NF-YA family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00050238001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	CBFB_NFYA	100.7	1.4e-31	97	153	1	58
CBFB_NFYA 1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 +ep++VNaKQy++Il+RRq+Rakle++++ +ks+kpy+heSRh hA++RpRg+gGrF GSBRNA2T00050238001 97 EEPVFVNAKQYHGILRRRQSRAKLEARNRA-IKSKKPYMHESRHLHAINRPRGCGGRF 153 69**************************.************************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00521	2.3E-35	95	156	IPR001289	Nuclear transcription factor Y subunit A
PROSITE profile	PS51152	37.132	96	156	IPR001289	Nuclear transcription factor Y subunit A
Pfam	PF02045	1.7E-26	98	153	IPR001289	Nuclear transcription factor Y subunit A
PRINTS	PR00616	2.5E-23	99	121	IPR001289	Nuclear transcription factor Y subunit A
PROSITE pattern	PS00686	0	101	121	IPR018362	CCAAT-binding factor, conserved site
PRINTS	PR00616	2.5E-23	130	153	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: 198 aa Download sequence Send to blast
MTSSVHELSD NNESHKKQER PDSQTPPPVP SGPCSESIDT SSVYSEPMAH GLYPYPDPYY 60 RSVFAHQAYL PHPFPGVQMQ LMGMHQQVVP LQCDAVEEPV FVNAKQYHGI LRRRQSRAKL 120 EARNRAIKSK KPYMHESRHL HAINRPRGCG GRFLNAKKKN GDRKEEEEEA TSDENTSEAS 180 SSIRSEKAAM GPNVSRS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4awl_A	2e-20	96	160	1	65	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT ALPHA
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.11290	1e-66	leaf\| seed

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in stems, caulines, and senescent flowers. {ECO:0000269\|PubMed:11250072}.

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	GSBRNA2T00050238001

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	AK353379	0.0	AK353379.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-41-M24.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009143745.1	1e-146	PREDICTED: nuclear transcription factor Y subunit A-4
Refseq	XP_009143746.1	1e-146	PREDICTED: nuclear transcription factor Y subunit A-4
Swissprot	Q8VY64	1e-123	NFYA4_ARATH; Nuclear transcription factor Y subunit A-4
TrEMBL	A0A078H1I0	1e-145	A0A078H1I0_BRANA; BnaA05g09110D protein
TrEMBL	A0A397ZC37	1e-145	A0A397ZC37_BRACM; Uncharacterized protein
TrEMBL	M4CMF9	1e-145	M4CMF9_BRARP; Uncharacterized protein
STRING	Bra005397.1-P	1e-145	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4168	27	56

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G34720.1	1e-111	nuclear factor Y, subunit A4

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] Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] Zhao H, et al. The Arabidopsis thaliana Nuclear Factor Y Transcription Factors. Front Plant Sci, 2016. 7: p. 2045 [PMID:28119722]