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

Itr_sc000728.1_g00006.1

Organism

Ipomoea trifida

Taxonomic ID

35884

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea

Family

NF-YC

Protein Properties

Length: 259aa MW: 28795.6 Da PI: 5.9293

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Itr_sc000728.1_g00006.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	175.9	4e-55	82	185	1	101
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaav 83 ql+ fw++q ie+++dfknh+lPlarikki+kadedv+misaeaPv++++ace+fileltlr+w+h+eenkrrtl+k+diaaa+ Itr_sc000728.1_g00006.1 82 QLQGFWANQyqeIEQVSDFKNHSLPLARIKKIMKADEDVRMISAEAPVVFARACEMFILELTLRAWNHTEENKRRTLQKNDIAAAI 167 799***99999********************************************************************* PP NF-YC 84 trtdifdflvdivprdel 101 trtdifdflvdivpr++l Itr_sc000728.1_g00006.1 168 TRTDIFDFLVDIVPREDL 185 *************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	5.37E-34	76	176	IPR009072	Histone-fold
Pfam	PF00808	2.6E-22	104	167	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
Gene3D	G3DSA:1.10.20.10	2.8E-38	105	182	IPR009072	Histone-fold

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0005829	Cellular Component	cytosol
GO:0046982	Molecular Function	protein heterodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 259 aa Download sequence Send to blast
MDQHGNGQPP PGMGVVTTSA SMPYGAPSFQ ANQMTGPPLA TSVGPIQSPQ NVGLPASSSQ 60 MAPHQLAYQH IHQQQQQQLQ QQLQGFWANQ YQEIEQVSDF KNHSLPLARI KKIMKADEDV 120 RMISAEAPVV FARACEMFIL ELTLRAWNHT EENKRRTLQK NDIAAAITRT DIFDFLVDIV 180 PREDLKDEVL ASIPRGTLPV GGPAELPYYY MQAQSAPQVG TSGMYMGKPV DQAPYGQQPR 240 PYMAQPMWPQ QQQQPPSDS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	1e-61	90	182	3	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	154	160	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 (By similarity). Interacts with REF6 to directly regulate SOC1 transcription in response to flowering signals from photoperiod and gibberellic acid pathways (PubMed:25105952). {ECO:0000250, ECO:0000269\|PubMed:25105952}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019198298.1	1e-166	PREDICTED: nuclear transcription factor Y subunit C-9-like isoform X1
Refseq	XP_019198299.1	1e-166	PREDICTED: nuclear transcription factor Y subunit C-9-like isoform X1
Refseq	XP_019198300.1	1e-166	PREDICTED: nuclear transcription factor Y subunit C-9-like isoform X1
Swissprot	Q8L4B2	5e-89	NFYC9_ARATH; Nuclear transcription factor Y subunit C-9
TrEMBL	A0A484K8N9	1e-149	A0A484K8N9_9ASTE; Uncharacterized protein
STRING	XP_009590081.1	1e-135	(Nicotiana tomentosiformis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA3422	24	47

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G08970.4	5e-84	nuclear factor Y, subunit C9

Publications ? help Back to Top
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] Liu X, et al. The NF-YC-RGL2 module integrates GA and ABA signalling to regulate seed germination in Arabidopsis. Nat Commun, 2016. 7: p. 12768 [PMID:27624486] Myers ZA, et al. NUCLEAR FACTOR Y, Subunit C (NF-YC) Transcription Factors Are Positive Regulators of Photomorphogenesis in Arabidopsis thaliana. PLoS Genet., 2016. 12(9): p. e1006333 [PMID:27685091] 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] Gnesutta N, et al. CONSTANS Imparts DNA Sequence Specificity to the Histone Fold NF-YB/NF-YC Dimer. Plant Cell, 2017. 29(6): p. 1516-1532 [PMID:28526714] Bi C,Ma Y,Wang XF,Zhang DP Overexpression of the transcription factor NF-YC9 confers abscisic acid hypersensitivity in Arabidopsis. Plant Mol. Biol., 2017. 95(4-5): p. 425-439 [PMID:28924726] Liu X, et al. Temporal-Specific Interaction of NF-YC and CURLY LEAF during the Floral Transition Regulates Flowering. Plant Physiol., 2018. 177(1): p. 105-114 [PMID:29599268]