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.0134s0008.1.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-YC

Protein Properties

Length: 235aa MW: 25317.6 Da PI: 4.832

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cagra.0134s0008.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	178.2	7.6e-56	43	147	1	102
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtd 87 ql+ fw++q ie+++dfknh+lPlarikki+kadedv+misaeaP+l++kacelfilelt+rswlhaeenkrrtl+k+diaaa+trtd Cagra.0134s0008.1.p 43 QLQLFWTYQrqeIEQVNDFKNHQLPLARIKKIMKADEDVRMISAEAPILFAKACELFILELTIRSWLHAEENKRRTLQKNDIAAAITRTD 132 79***998899************************************************************************* PP NF-YC 88 ifdflvdivprdelk 102 ifdflvdivprde+k Cagra.0134s0008.1.p 133 IFDFLVDIVPRDEIK 147 **********975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	6.2E-34	24	137	IPR009072	Histone-fold
Pfam	PF00808	1.6E-20	65	128	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
Gene3D	G3DSA:1.10.20.10	6.9E-37	66	143	IPR009072	Histone-fold

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0046982	Molecular Function	protein heterodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 235 aa Download sequence Send to blast
MDNNQQPPPS AATGIPPPPG TTISAAGGGG ASYHHLLQQQ QQQLQLFWTY QRQEIEQVND 60 FKNHQLPLAR IKKIMKADED VRMISAEAPI LFAKACELFI LELTIRSWLH AEENKRRTLQ 120 KNDIAAAITR TDIFDFLVDI VPRDEIKDEA AVLGGGMVAP PTASGMPYYY PPMGQPAVPG 180 GMMIGRPAMD PSGVYVQPPS QAWQSVWQTS AGTGDDVSYG SGGSTGQGNL DGQG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	4e-55	51	143	3	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	115	121	RRTLQKN

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.0134s0008.1.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	AY092997	0.0	AY092997.1 Arabidopsis thaliana transcription factor Hap5a (At3g48590) mRNA, complete cds.
GenBank	BT001206	0.0	BT001206.1 Arabidopsis thaliana transcription factor Hap5a (At3g48590) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006290279.1	1e-172	nuclear transcription factor Y subunit C-1
Swissprot	Q9SMP0	1e-130	NFYC1_ARATH; Nuclear transcription factor Y subunit C-1
TrEMBL	R0FL35	1e-171	R0FL35_9BRAS; Uncharacterized protein
STRING	Cagra.0134s0008.1.p	1e-173	(Capsella grandiflora)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM478	28	160

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G48590.1	1e-121	nuclear factor Y, subunit C1

Link Out ? help Back to Top
Phytozome	Cagra.0134s0008.1.p

Publications ? help Back to Top
Shi H,Chan ZL AtHAP5A modulates freezing stress resistance in Arabidopsis independent of the CBF pathway. Plant Signal Behav, 2015. [PMID:24831307] Shi H,Chan ZL AtHAP5A modulates freezing stress resistance in Arabidopsis independent of the CBF pathway. Plant Signal Behav, 2014. 9(7): p. e29109 [PMID:25763489] Tang Y, et al. Arabidopsis NF-YCs Mediate the Light-Controlled Hypocotyl Elongation via Modulating Histone Acetylation. Mol Plant, 2017. 10(2): p. 260-273 [PMID:27876642] Zhao H, et al. The Arabidopsis thaliana Nuclear Factor Y Transcription Factors. Front Plant Sci, 2016. 7: p. 2045 [PMID:28119722]