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

RrC463_p9

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

NF-YA

Protein Properties

Length: 255aa MW: 27938.9 Da PI: 6.909

Description

NF-YA family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC463_p9	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	CBFB_NFYA	93.1	3.4e-29	170	225	1	58
CBFB_NFYA 1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 +ep+YVNaKQyq+Il+RR++Rak+e e+k ++ kpylheSRhkhA+rR+R+sgGrF RrC463_p9 170 QEPVYVNAKQYQGILRRRKARAKAELERKA--TNGKPYLHESRHKHAMRRARASGGRF 225 69************************99..899********************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00521	1.7E-29	168	228	IPR001289	Nuclear transcription factor Y subunit A
PROSITE profile	PS51152	33.077	169	228	IPR001289	Nuclear transcription factor Y subunit A
Pfam	PF02045	6.6E-26	171	225	IPR001289	Nuclear transcription factor Y subunit A
PRINTS	PR00616	3.8E-22	172	194	IPR001289	Nuclear transcription factor Y subunit A
PROSITE pattern	PS00686	0	174	194	IPR018362	CCAAT-binding factor, conserved site
PRINTS	PR00616	3.8E-22	202	225	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: 255 aa Download sequence Send to blast
MESNSGRGNE AEVNHNDAGQ QHQPMMYAEP WWKSNSFGVD RPSLVPSKSS SLEECPDGSE 60 SNDVHSAASE DDGACKDSQA PTSSPSVDNH GTEGNDPAQL AAPVGNMHCQ GQQLVQPPEL 120 VGHYIACVPN PYQDPYYGGM VGSYGHQQLG FHPYPGMPGE RTALPLDVTQ EPVYVNAKQY 180 QGILRRRKAR AKAELERKAT NGKPYLHESR HKHAMRRARA SGGRFAKKTE AEVAAEREKE 240 KGVLQQPTLQ ALNRL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4awl_A	2e-14	169	225	1	58	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT ALPHA
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	209	218	RHKHAMRRAR

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}.

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	AK317299	1e-101	AK317299.1 Arabidopsis thaliana AT5G12840 mRNA, complete cds, clone: RAFL21-66-A21.
GenBank	BT025801	1e-101	BT025801.1 Arabidopsis thaliana At5g12840 mRNA, complete cds.
GenBank	Y13720	1e-101	Y13720.1 Arabidopsis thaliana mRNA for Hap2a transcription factor.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018476841.1	1e-158	PREDICTED: nuclear transcription factor Y subunit A-1-like isoform X2
Swissprot	Q9LXV5	1e-118	NFYA1_ARATH; Nuclear transcription factor Y subunit A-1
TrEMBL	V4LN10	1e-121	V4LN10_EUTSA; Uncharacterized protein
STRING	XP_006399770.1	1e-122	(Eutrema salsugineum)

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	1e-102	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]