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

Cagra.10399s0005.1.p

Organism

Capsella grandiflora

Taxonomic ID

264402

Taxonomic Lineage

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

Family

NF-YA

Protein Properties

Length: 300aa MW: 32889.2 Da PI: 9.4248

Description

NF-YA family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cagra.10399s0005.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	CBFB_NFYA	105	6.6e-33	161	217	1	58
CBFB_NFYA 1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 +ep++VNaKQyq+Il+RRq+Rak+e ekkl +ksrkpylheSRh+hA+rRpRg+gGrF Cagra.10399s0005.1.p 161 QEPVFVNAKQYQAILRRRQARAKAELEKKL-IKSRKPYLHESRHQHAMRRPRGTGGRF 217 69**************************.************************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00521	6.0E-36	159	220	IPR001289	Nuclear transcription factor Y subunit A
PROSITE profile	PS51152	37.437	160	220	IPR001289	Nuclear transcription factor Y subunit A
Pfam	PF02045	3.1E-28	162	217	IPR001289	Nuclear transcription factor Y subunit A
PRINTS	PR00616	9.3E-24	163	185	IPR001289	Nuclear transcription factor Y subunit A
PROSITE pattern	PS00686	0	165	185	IPR018362	CCAAT-binding factor, conserved site
PRINTS	PR00616	9.3E-24	194	217	IPR001289	Nuclear transcription factor Y subunit A

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010262	Biological Process	somatic embryogenesis
GO:0045892	Biological Process	negative regulation of transcription, DNA-templated
GO:0055046	Biological Process	microgametogenesis
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: 300 aa Download sequence Send to blast
MGIEDMHSKS DTGNKIDSEA HRTSSSSINS VNPWQRAAAA CDANSNVEAG DKPSKSIALE 60 SNGPKSPSGR DDIANKESNV TTSPSSAGDY SDKNQEPLHP CITQPPHPQL VGHTVGWTSS 120 NPYQDPYYAG VMGAYGHHPL GFVPYGGMPH SRMPLPPEIA QEPVFVNAKQ YQAILRRRQA 180 RAKAELEKKL IKSRKPYLHE SRHQHAMRRP RGTGGRFAKK TKTEASQRKA EEKSNGCVTQ 240 SPTSSNSDQA EAWNVEYRKP QGDDMQSSAY NRREEGECSG QQWNSLSSNH PSQARLAIK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4awl_A	9e-19	161	217	2	58	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT ALPHA
Search in ModeBase

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	Cagra.10399s0005.1.p

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	AF412056	0.0	AF412056.1 Arabidopsis thaliana AT3g20910/MFD22_2 mRNA, complete cds.
GenBank	AY087696	0.0	AY087696.1 Arabidopsis thaliana clone 37744 mRNA, complete sequence.
GenBank	AY093971	0.0	AY093971.1 Arabidopsis thaliana AT3g20910/MFD22_2 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023641434.1	0.0	nuclear transcription factor Y subunit A-9 isoform X1
Swissprot	Q945M9	0.0	NFYA9_ARATH; Nuclear transcription factor Y subunit A-9
TrEMBL	R0G6A8	0.0	R0G6A8_9BRAS; Uncharacterized protein
STRING	Cagra.10399s0005.1.p	0.0	(Capsella grandiflora)

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	0.0	nuclear factor Y, subunit A9

Link Out ? help Back to Top
Phytozome	Cagra.10399s0005.1.p

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]