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

Rsa1.0_00977.1_g00014.1

Organism

Raphanus sativus

Taxonomic ID

3726

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: 28574.4 Da PI: 9.5405

Description

NF-YA family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00977.1_g00014.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	CBFB_NFYA	106.4	2.4e-33	117	173	1	58
CBFB_NFYA 1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 +ep+YVNaKQy++I++RRq+Rak+e ekkl +ksrkpylheSRh+hA+rRpRg+gGrF Rsa1.0_00977.1_g00014.1 117 QEPVYVNAKQYEAIMRRRQARAKAELEKKL-IKSRKPYLHESRHQHAMRRPRGTGGRF 173 69**************************.************************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00521	8.1E-37	115	176	IPR001289	Nuclear transcription factor Y subunit A
PROSITE profile	PS51152	38.085	116	176	IPR001289	Nuclear transcription factor Y subunit A
Pfam	PF02045	7.3E-29	118	173	IPR001289	Nuclear transcription factor Y subunit A
PRINTS	PR00616	4.0E-24	119	141	IPR001289	Nuclear transcription factor Y subunit A
PROSITE pattern	PS00686	0	121	141	IPR018362	CCAAT-binding factor, conserved site
PRINTS	PR00616	4.0E-24	150	173	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
MHSKSDVSEV HHHHTSSNGS KSPSNRDESG NKEESLVTTS PQQSGGDNSE KSQEPVHPGT 60 TPPPPHPQLV SHAVGWTSSN LYQDPYYAGM MGAYPLAYVP YGGMPHSRMQ LPPEMAQEPV 120 YVNAKQYEAI MRRRQARAKA ELEKKLIKSR KPYLHESRHQ HAMRRPRGTG GRFAKKSNTD 180 DSRKKAGEKN SACPTQSPTS SNSDQPEAWS DEYRTHQSEE MQSSGYKRRE EADCLGQQWN 240 NISSNHPSQA RLAIK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4awl_A	5e-19	117	180	2	65	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	Rsa1.0_00977.1_g00014.1

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	0.0	U33884.1 Brassica napus clone bncbf-b1 CCAAT-binding factor B subunit homolog mRNA, complete cds.
GenBank	BNU33885	0.0	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_018487136.1	0.0	PREDICTED: nuclear transcription factor Y subunit A-9-like isoform X1
Swissprot	Q945M9	1e-131	NFYA9_ARATH; Nuclear transcription factor Y subunit A-9
TrEMBL	A0A398A9G7	1e-142	A0A398A9G7_BRACM; Uncharacterized protein
STRING	Bra001806.1-P	1e-136	(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-124	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]