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

Carubv10024092m

Common Name

CARUB_v10024092mg

Organism

Capsella rubella

Taxonomic ID

81985

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: 200aa MW: 22312.7 Da PI: 8.9799

Description

NF-YA family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10024092m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	CBFB_NFYA	100.3	1.9e-31	97	153	1	58
CBFB_NFYA 1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 +ep++VNaKQy++Il+RRq+Rakle++++ +ks+kpy+heSRh hA+rRpRg+gGrF Carubv10024092m 97 EEPVFVNAKQYHGILRRRQSRAKLEARERA-IKSKKPYMHESRHLHAIRRPRGCGGRF 153 69*************************9.************************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00521	5.0E-35	95	156	IPR001289	Nuclear transcription factor Y subunit A
PROSITE profile	PS51152	36.622	96	156	IPR001289	Nuclear transcription factor Y subunit A
Pfam	PF02045	2.1E-26	98	153	IPR001289	Nuclear transcription factor Y subunit A
PRINTS	PR00616	9.8E-24	99	121	IPR001289	Nuclear transcription factor Y subunit A
PROSITE pattern	PS00686	0	101	121	IPR018362	CCAAT-binding factor, conserved site
PRINTS	PR00616	9.8E-24	130	153	IPR001289	Nuclear transcription factor Y subunit A

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0045892	Biological Process	negative regulation of transcription, DNA-templated
GO:0048510	Biological Process	regulation of timing of transition from vegetative to reproductive phase
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: 200 aa Download sequence Send to blast
MTSSVHELSD KNDSTGKQER SDSQSRPPAP SGRSSESVDT NSVYSEPMAH GLYPYPDPYY 60 RSVFAQQAYL PHPYPGVQLQ LMGMQQPGVP LQCDAVEEPV FVNAKQYHGI LRRRQSRAKL 120 EARERAIKSK KPYMHESRHL HAIRRPRGCG GRFLNAKKKN GDHKEEEEEE TSDENTSEAS 180 SSLRSEKLAM AASAPNGRS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4awl_A	3e-20	96	166	1	71	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	Carubv10024092m

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	AY072414	0.0	AY072414.1 Arabidopsis thaliana putative CCAAT-binding transcription factor subunit (At2g34720) mRNA, complete cds.
GenBank	AY114711	0.0	AY114711.1 Arabidopsis thaliana putative CCAAT-binding transcription factor subunit (At2g34720) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006295021.1	1e-146	nuclear transcription factor Y subunit A-4
Refseq	XP_006295022.1	1e-146	nuclear transcription factor Y subunit A-4
Refseq	XP_023639853.1	1e-146	nuclear transcription factor Y subunit A-4
Swissprot	Q8VY64	1e-133	NFYA4_ARATH; Nuclear transcription factor Y subunit A-4
TrEMBL	R0HRJ3	1e-145	R0HRJ3_9BRAS; Uncharacterized protein
STRING	Cagra.3346s0024.1.p	1e-146	(Capsella grandiflora)
STRING	XP_006295021.1	1e-146	(Capsella rubella)

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-122	nuclear factor Y, subunit A4

Link Out ? help Back to Top
Phytozome	Carubv10024092m
Entrez Gene	17888321

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]