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

Seita.4G268300.1.p

Common Name

LOC101776080, SETIT_007127mg

Organism

Setaria italica

Taxonomic ID

4555

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria

Family

NF-YC

Protein Properties

Length: 257aa MW: 28493.1 Da PI: 4.7999

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Seita.4G268300.1.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	176	3.6e-55	81	185	1	102
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdi 88 ql++fw+++ ie++tdfknh+lPlarikki+kadedv+misaeaPv+++kace+fileltlrsw+h+eenkrrtl+k+diaaa+trtdi Seita.4G268300.1.p 81 QLQQFWAERladIEQTTDFKNHTLPLARIKKIMKADEDVRMISAEAPVVFAKACEIFILELTLRSWMHTEENKRRTLQKNDIAAAITRTDI 171 89***98888*************************************************************************** PP NF-YC 89 fdflvdivprdelk 102 +dflvdivprde+k Seita.4G268300.1.p 172 YDFLVDIVPRDEMK 185 *********975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	1.36E-34	44	175	IPR009072	Histone-fold
Gene3D	G3DSA:1.10.20.10	1.3E-37	95	167	IPR009072	Histone-fold
Pfam	PF00808	6.1E-21	103	166	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain

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

Sequence ? help Back to Top
Protein Sequence Length: 257 aa Download sequence Send to blast
MEPSSQPQPA MGVAAGGSQE YPAPAYPPAA TIAAPSAVPP AGLQPGQPFP ANPAQMSAQH 60 QIVYQQAQQF HQQLQQQQQR QLQQFWAERL ADIEQTTDFK NHTLPLARIK KIMKADEDVR 120 MISAEAPVVF AKACEIFILE LTLRSWMHTE ENKRRTLQKN DIAAAITRTD IYDFLVDIVP 180 RDEMKEEGVG LPRAGLPPMG APADAYPYYY MPQQQVPGAG MVYGAQQGHP VTYLWQEPQE 240 QQEQPPEDQQ PLHGSG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	1e-57	92	181	6	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	153	159	RRTLQKN

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in the regulation of flowering time under long day (LD) conditions. Functions as repressor of flowering, independently of HD1 and GHD7. Controls flowering time by negatively regulating the expression of EHD1 and HD3A (PubMed:26542958). Component of the NF-Y/HAP transcription factor complex (By similarity). {ECO:0000250, ECO:0000269\|PubMed:26542958}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Seita.4G268300.1.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Circadian-regulation under long day (LD) conditions. Expression increases in the middle of daytime, peaks around the end of the light period and gradually decreases during the dark period and beginning of daylight. {ECO:0000269\|PubMed:26542958}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004966318.1	0.0	nuclear transcription factor Y subunit C-4
Swissprot	Q655V5	1e-134	NFYC4_ORYSJ; Nuclear transcription factor Y subunit C-4
TrEMBL	K3XYW9	0.0	K3XYW9_SETIT; Uncharacterized protein
STRING	Si007127m	0.0	(Setaria italica)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP2703	37	90

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G56170.2	3e-66	nuclear factor Y, subunit C2

Link Out ? help Back to Top
Phytozome	Seita.4G268300.1.p
Entrez Gene	101776080

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Kim SK, et al. OsNF-YC2 and OsNF-YC4 proteins inhibit flowering under long-day conditions in rice. Planta, 2016. 243(3): p. 563-76 [PMID:26542958]