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.1718s0015.1.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-YB

Protein Properties

Length: 157aa MW: 16866.8 Da PI: 6.1171

Description

NF-YB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cagra.1718s0015.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YB	188.3	5.2e-59	20	115	2	97
NF-YB 2 reqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyr 91 reqdrflPianvsrimkk+lPanakiskdaketvqecvsefisf+t+easdkcqrekrktingddllwa++tlGfedyveplk+yl+kyr Cagra.1718s0015.1.p 20 REQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFITGEASDKCQREKRKTINGDDLLWAMTTLGFEDYVEPLKIYLQKYR 109 89************************************************************************************** PP NF-YB 92 elegek 97 e+egek Cagra.1718s0015.1.p 110 EVEGEK 115 **97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.20.10	2.5E-56	15	126	IPR009072	Histone-fold
SuperFamily	SSF47113	4.19E-42	22	126	IPR009072	Histone-fold
Pfam	PF00808	3.4E-28	25	89	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
PRINTS	PR00615	6.4E-22	53	71	No hit	No description
PROSITE pattern	PS00685	0	56	72	IPR003956	Transcription factor, NFYB/HAP3, conserved site
PRINTS	PR00615	6.4E-22	72	90	No hit	No description
PRINTS	PR00615	6.4E-22	91	109	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: 157 aa Download sequence Send to blast
MADSDNDSGG HKDGGNASTR EQDRFLPIAN VSRIMKKALP ANAKISKDAK ETVQECVSEF 60 ISFITGEASD KCQREKRKTI NGDDLLWAMT TLGFEDYVEP LKIYLQKYRE VEGEKTTTAG 120 RQGDKEGGGA GSGSGGAPMY GGGMVPMGHQ FSHHFS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_A	2e-50	14	110	1	97	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT B-6
Search in ModeBase

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	Cagra.1718s0015.1.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	AK117818	1e-166	AK117818.1 Arabidopsis thaliana At4g14540 mRNA for putative CCAAT-binding transcription factor subunit A(CBF-A), complete cds, clone: RAFL18-01-N02.
GenBank	AL161539	1e-166	AL161539.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 39.
GenBank	BT003684	1e-166	BT003684.1 Arabidopsis thaliana At4g14540 mRNA, complete cds.
GenBank	CP002687	1e-166	CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
GenBank	Z97336	1e-166	Z97336.1 Arabidopsis thaliana DNA chromosome 4, ESSA I FCA contig fragment No. 1.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006285415.1	1e-114	nuclear transcription factor Y subunit B-3
Swissprot	O23310	1e-100	NFYB3_ARATH; Nuclear transcription factor Y subunit B-3
TrEMBL	R0H453	1e-113	R0H453_9BRAS; Uncharacterized protein
STRING	Cagra.1718s0015.1.p	1e-113	(Capsella grandiflora)
STRING	XP_006285415.1	1e-113	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM255	28	229

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G14540.1	2e-94	nuclear factor Y, subunit B3

Link Out ? help Back to Top
Phytozome	Cagra.1718s0015.1.p

Publications ? help Back to Top
Han X, et al. Overexpression of the poplar NF-YB7 transcription factor confers drought tolerance and improves water-use efficiency in Arabidopsis. J. Exp. Bot., 2013. 64(14): p. 4589-601 [PMID:24006421] Hwang YH, et al. Functional conservation of rice OsNF-YB/YC and Arabidopsis AtNF-YB/YC proteins in the regulation of flowering time. Plant Cell Rep., 2016. 35(4): p. 857-65 [PMID:26754793] Hossain MA, et al. Identification of Novel Components of the Unfolded Protein Response in Arabidopsis. Front Plant Sci, 2016. 7: p. 650 [PMID:27242851] Zhao H, et al. The Arabidopsis thaliana Nuclear Factor Y Transcription Factors. Front Plant Sci, 2016. 7: p. 2045 [PMID:28119722]