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

Lj6g3v1880170.1

Organism

Lotus japonicus

Taxonomic ID

34305

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus

Family

NF-YC

Protein Properties

Length: 235aa MW: 26666.6 Da PI: 7.7519

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Lj6g3v1880170.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	143.4	5.2e-45	39	139	2	100
NF-YC 2 lksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdfl 92 + +fw++q ie+++df nh+lPlarikki+kad++vkmi+aeaP+llskace+fi elt r+w++aeenkrrtl ksd a+a++rtd++dfl Lj6g3v1880170.1 39 IDNFWKTQsqeIENTNDF-NHALPLARIKKIMKADDEVKMIAAEAPILLSKACEMFIKELTTRAWVNAEENKRRTLLKSDFASAISRTDVYDFL 131 5689997778888888.89********************************************************************* PP NF-YC 93 vdivprde 100 vdivpr+e Lj6g3v1880170.1 132 VDIVPRNE 139 ****97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	4.19E-28	24	131	IPR009072	Histone-fold
Gene3D	G3DSA:1.10.20.10	8.6E-34	60	137	IPR009072	Histone-fold
Pfam	PF00808	1.6E-19	60	122	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046982	Molecular Function	protein heterodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 235 aa Download sequence Send to blast
MTTNTQIAGG SSSSCYPRGQ LYPHQQIHQL QQQHLERRID NFWKTQSQEI ENTNDFNHAL 60 PLARIKKIMK ADDEVKMIAA EAPILLSKAC EMFIKELTTR AWVNAEENKR RTLLKSDFAS 120 AISRTDVYDF LVDIVPRNET MEHDVYAGIG MPPMRGNVAN VVQNVPPPLG PPHPYYYMPS 180 PASQHFGAAI PPRMVMARPP FAHPIYMQQP PYPYGLQVMH PAPQNLMMKN SPDSD

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	2e-42	45	137	2	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Ubiquitous. {ECO:0000269\|PubMed:11250072, ECO:0000269\|PubMed:9662544}.
Uniprot	TISSUE SPECIFICITY: Ubiquitous. Present in etiolated seedlings. {ECO:0000269\|PubMed:11250072, ECO:0000269\|PubMed:17322342, ECO:0000269\|PubMed:9662544}.

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}.
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	Lj6g3v1880170.1

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AP004960	0.0	AP004960.1 Lotus japonicus genomic DNA, chromosome 6, clone: LjT19B18, TM0139, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018846875.1	2e-57	PREDICTED: nuclear transcription factor Y subunit C-9-like
Refseq	XP_018846876.1	2e-57	PREDICTED: nuclear transcription factor Y subunit C-9-like
Swissprot	Q8LCG7	3e-50	NFYC2_ARATH; Nuclear transcription factor Y subunit C-2
Swissprot	Q9SMP0	3e-50	NFYC1_ARATH; Nuclear transcription factor Y subunit C-1
TrEMBL	A0A2I4GSK3	4e-56	A0A2I4GSK3_JUGRE; nuclear transcription factor Y subunit C-9-like
STRING	XP_008351229.1	2e-54	(Malus domestica)
STRING	XP_008390839.1	2e-54	(Malus domestica)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1257	34	108

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G48590.1	6e-50	nuclear factor Y, subunit C1

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] Li S, et al. HEAT-INDUCED TAS1 TARGET1 Mediates Thermotolerance via HEAT STRESS TRANSCRIPTION FACTOR A1a-Directed Pathways in Arabidopsis. Plant Cell, 2014. 26(4): p. 1764-1780 [PMID:24728648] 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] Mei X, et al. Identification and characterization of paternal-preferentially expressed gene NF-YC8 in maize endosperm. Mol. Genet. Genomics, 2015. 290(5): p. 1819-31 [PMID:25851237] Baud S, et al. Deciphering the Molecular Mechanisms Underpinning the Transcriptional Control of Gene Expression by Master Transcriptional Regulators in Arabidopsis Seed. Plant Physiol., 2016. 171(2): p. 1099-112 [PMID:27208266] 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]