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

Carubv10024343m

Common Name

CARUB_v10024343mg

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-YB

Protein Properties

Length: 119aa MW: 13387.2 Da PI: 7.4165

Description

NF-YB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10024343m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YB	174.8	9e-55	28	119	1	92
NF-YB 1 vreqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyre 92 vreqdrflPian+srimk+ lP n+ki+kdake+vqecvsefisf+tseasdkcqrekrktingddllwa+atlGfe+y+eplk+yl++yre Carubv10024343m 28 VREQDRFLPIANISRIMKRGLPPNGKIAKDAKEIVQECVSEFISFITSEASDKCQREKRKTINGDDLLWAMATLGFEEYIEPLKLYLMRYRE 119 69*****************************************************************************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.20.10	1.2E-50	26	119	IPR009072	Histone-fold
SuperFamily	SSF47113	1.06E-37	31	119	IPR009072	Histone-fold
Pfam	PF00808	7.2E-28	34	98	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
PRINTS	PR00615	1.7E-21	62	80	No hit	No description
PROSITE pattern	PS00685	0	65	81	IPR003956	Transcription factor, NFYB/HAP3, conserved site
PRINTS	PR00615	1.7E-21	81	99	No hit	No description
PRINTS	PR00615	1.7E-21	100	118	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0043565	Molecular Function	sequence-specific DNA binding
GO:0046982	Molecular Function	protein heterodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 119 aa Download sequence Send to blast
MAESQAKSPG GGGSHESGGD QSPRSLHVRE QDRFLPIANI SRIMKRGLPP NGKIAKDAKE 60 IVQECVSEFI SFITSEASDK CQREKRKTIN GDDLLWAMAT LGFEEYIEPL KLYLMRYRE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4awl_B	5e-48	26	119	1	94	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
4csr_A	5e-48	26	119	1	94	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
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Functional Description ? help Back to Top
Source	Description
UniProt	Component of the NF-Y/HAP transcription factor complex. The NF-Y complex stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10024343m

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	AY070477	1e-146	AY070477.1 Arabidopsis thaliana At2g37060/T2N18.18 mRNA, complete cds.
GenBank	AY091673	1e-146	AY091673.1 Arabidopsis thaliana At2g37060/T2N18.18 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023640153.1	1e-84	nuclear transcription factor Y subunit B-8
Refseq	XP_023640154.1	1e-84	nuclear transcription factor Y subunit B-8
Swissprot	Q8VYK4	2e-81	NFYB8_ARATH; Nuclear transcription factor Y subunit B-8
TrEMBL	R0HVN6	2e-83	R0HVN6_9BRAS; Uncharacterized protein (Fragment)
STRING	Cagra.0666s0039.1.p	5e-84	(Capsella grandiflora)
STRING	XP_006295255.1	4e-84	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1480	27	94

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G37060.3	2e-71	nuclear factor Y, subunit B8

Link Out ? help Back to Top
Phytozome	Carubv10024343m
Entrez Gene	17889072

Publications ? help Back to Top
Zhao H, et al. The Arabidopsis thaliana Nuclear Factor Y Transcription Factors. Front Plant Sci, 2016. 7: p. 2045 [PMID:28119722]