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

ONIVA08G06090.1

Organism

Oryza nivara

Taxonomic ID

4536

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

NF-YC

Protein Properties

Length: 402aa MW: 44936.4 Da PI: 5.2695

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ONIVA08G06090.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	151.4	1.7e-47	231	334	1	101
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdf 91 ql++fw++q +e++t+fk +lPlarikki+kadedvkmi+ eaP+l++kace+fil++tlrsw h+ee +rrtl++sd++a++++tdifdf ONIVA08G06090.1 231 QLQAFWADQmaeVEQMTEFKLPNLPLARIKKIMKADEDVKMIAGEAPALFAKACEMFILDMTLRSWQHTEEGRRRTLQRSDVEAVIKKTDIFDF 324 89****9777799*************************************************************************** PP NF-YC 92 lvdivprdel 101 lvdi+ d++ ONIVA08G06090.1 325 LVDIITDDKM 334 ***99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.60.40.760	2.4E-6	1	42	IPR007117	Expansin, cellulose-binding-like domain
Pfam	PF01357	8.9E-5	2	40	IPR007117	Expansin, cellulose-binding-like domain
SuperFamily	SSF49590	3.27E-7	2	61	IPR007117	Expansin, cellulose-binding-like domain
SuperFamily	SSF47113	6.87E-29	211	325	IPR009072	Histone-fold
Pfam	PF00808	1.6E-18	253	315	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
Gene3D	G3DSA:1.10.20.10	1.9E-32	254	329	IPR009072	Histone-fold

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: 402 aa Download sequence Send to blast
MLVKYEDLDG DVVQVDLMES KSAYGGAIGV WTPMRESWGS ASAATPARPF VTNNVIPANW 60 SRIAPSLPPS PLPRRPRSLR ARPLLRLSRL GLFLCPRLPD ATLAALTAAP SISAVDISCS 120 RGFLLLRFCV GFWGGVLAME MILQQLHRST SLEMDPHSHK KAHEGLIGDN PDAYAVTTYQ 180 PVLMVEPSAA AAFPPAPQVA PAYPVNPMQL PEHQQHAIQQ VQQLQQQQKE QLQAFWADQM 240 AEVEQMTEFK LPNLPLARIK KIMKADEDVK MIAGEAPALF AKACEMFILD MTLRSWQHTE 300 EGRRRTLQRS DVEAVIKKTD IFDFLVDIIT DDKMKDDGMG FQAASMVSPY TSGGMGFSFD 360 LYPNQHHLAY MWPPQEQQEQ WPPQEQQEQK QKQDSDGGGQ DE

Sequence ? help Back to Top

Protein Sequence Length: 402 aa Download sequence Send to blast

MLVKYEDLDG DVVQVDLMES KSAYGGAIGV WTPMRESWGS ASAATPARPF VTNNVIPANW  60
SRIAPSLPPS PLPRRPRSLR ARPLLRLSRL GLFLCPRLPD ATLAALTAAP SISAVDISCS  120
RGFLLLRFCV GFWGGVLAME MILQQLHRST SLEMDPHSHK KAHEGLIGDN PDAYAVTTYQ  180
PVLMVEPSAA AAFPPAPQVA PAYPVNPMQL PEHQQHAIQQ VQQLQQQQKE QLQAFWADQM  240
AEVEQMTEFK LPNLPLARIK KIMKADEDVK MIAGEAPALF AKACEMFILD MTLRSWQHTE  300
EGRRRTLQRS DVEAVIKKTD IFDFLVDIIT DDKMKDDGMG FQAASMVSPY TSGGMGFSFD  360
LYPNQHHLAY MWPPQEQQEQ WPPQEQQEQK QKQDSDGGGQ DE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	3e-40	239	329	3	93	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	303	309	RRTLQRS

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}.

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	CP012616	0.0	CP012616.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 8 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015649457.1	0.0	nuclear transcription factor Y subunit C-4-like
Swissprot	Q655V5	3e-55	NFYC4_ORYSJ; Nuclear transcription factor Y subunit C-4
TrEMBL	A0A0E0I8D3	0.0	A0A0E0I8D3_ORYNI; Nuclear transcription factor Y subunit C
STRING	ONIVA08G06090.1	0.0	(Oryza nivara)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP16977	11	12

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G56170.2	4e-49	nuclear factor Y, subunit C2

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]