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_009125864.1

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: 240aa MW: 26536.2 Da PI: 6.8001

Description

NF-YA family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009125864.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	CBFB_NFYA	94.8	9.8e-30	151	206	1	58
CBFB_NFYA 1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 +ep+YVNaKQy++Il+RR++Rak+e e+k+ +rkpylheSRhkhA++R R+sgGrF XP_009125864.1 151 QEPVYVNAKQYEGILRRRKARAKAELERKV--INRKPYLHESRHKHAMKRVRASGGRF 206 69*************************9..89*********************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00521	1.4E-31	149	209	IPR001289	Nuclear transcription factor Y subunit A
PROSITE profile	PS51152	34	150	209	IPR001289	Nuclear transcription factor Y subunit A
Pfam	PF02045	6.4E-26	152	206	IPR001289	Nuclear transcription factor Y subunit A
PRINTS	PR00616	7.2E-23	153	175	IPR001289	Nuclear transcription factor Y subunit A
PROSITE pattern	PS00686	0	155	175	IPR018362	CCAAT-binding factor, conserved site
PRINTS	PR00616	7.2E-23	183	206	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: 240 aa Download sequence Send to blast
MQSKSGGRGN EEEVNQQQPM MMYPDPWWKN NSFGGVLPQE RPSGSESNDV HSPSEDDGGP 60 CKDSQAATSP PPPPVDNHGE EGNDPTHSMD DQQVVQPPEL VGHYIACVPN PYQDAYYGGM 120 MGAYGHHQPL GFRPYPGMAR ERTALPLDTT QEPVYVNAKQ YEGILRRRKA RAKAELERKV 180 INRKPYLHES RHKHAMKRVR ASGGRFAKKS EAEAAEDAAA ARRERSSATN SSGSEQPVDS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4awl_A	1e-15	150	206	1	58	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT ALPHA
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	190	199	RHKHAMKRVR

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Ubiquitous. {ECO:0000269\|PubMed:11250072, ECO:0000269\|PubMed:9662544}.

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_009125864.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009125864.1	1e-179	PREDICTED: nuclear transcription factor Y subunit A-1-like isoform X1
Swissprot	Q9LXV5	1e-116	NFYA1_ARATH; Nuclear transcription factor Y subunit A-1
TrEMBL	M4E3M5	1e-178	M4E3M5_BRARP; Uncharacterized protein
STRING	Bra023378.1-P	1e-179	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5946	26	46

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G12840.3	2e-82	nuclear factor Y, subunit A1

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] Siriwardana CL, et al. NUCLEAR FACTOR Y, Subunit A (NF-YA) Proteins Positively Regulate Flowering and Act Through FLOWERING LOCUS T. PLoS Genet., 2016. 12(12): p. e1006496 [PMID:27977687] Zhao H, et al. The Arabidopsis thaliana Nuclear Factor Y Transcription Factors. Front Plant Sci, 2016. 7: p. 2045 [PMID:28119722]