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

BGIOSGA027462-PA

Common Name

OsI_28226

Organism

Oryza sativa subsp. indica

Taxonomic ID

39946

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; Oryza sativa

Family

NF-YC

Protein Properties

Length: 343aa MW: 38535.3 Da PI: 4.7258

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
BGIOSGA027462-PA	genome	RIS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	145.9	9e-46	173	275	1	101
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifd 90 ql++fw++q +e++t+fk +lPlarikki+kadedvkmi+ eaP+l++kace+fil++tlrsw h+ee rrtl++sd++a++++tdifd BGIOSGA027462-PA 173 QLQAFWADQmaeVEQMTEFKLPNLPLARIKKIMKADEDVKMIAGEAPALFAKACEMFILDMTLRSWQHTEEG-RRTLQRSDVEAVIKKTDIFD 264 89****9777799**************************************************986.78************** PP NF-YC 91 flvdivprdel 101 flvdi+ d++ BGIOSGA027462-PA 265 FLVDIITDDKM 275 ****99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	1.41E-26	153	266	IPR009072	Histone-fold
Pfam	PF00808	7.2E-17	195	256	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
Gene3D	G3DSA:1.10.20.10	3.0E-30	196	270	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: 343 aa Download sequence Send to blast
MAKPGLNDKL RHSGIIDIHF RHHLESTLTT NPFDSPSTRT CSVLDEEPAP WHDRLDGLGG 60 VMVPACSTTT GKERGAGGIE QDEILQQLHR STSLEMDPHS HKKAHEGLIG DNPDAYAVTT 120 YQPVLMVEPS AAAAFPPAPQ VAPAYPVNPM QLPEHQQHAI QQVQQLQQQQ KEQLQAFWAD 180 QMAEVEQMTE FKLPNLPLAR IKKIMKADED VKMIAGEAPA LFAKACEMFI LDMTLRSWQH 240 TEEGRRTLQR SDVEAVIKKT DIFDFLVDII TDDKMKDDGM GFQAASMVSP YTSGGMGFSF 300 DLYPNQHHLA YMWPPQEQQE QWPPQEQQEQ KQKQDSDGGG QDE

Sequence ? help Back to Top

Protein Sequence Length: 343 aa Download sequence Send to blast

MAKPGLNDKL RHSGIIDIHF RHHLESTLTT NPFDSPSTRT CSVLDEEPAP WHDRLDGLGG  60
VMVPACSTTT GKERGAGGIE QDEILQQLHR STSLEMDPHS HKKAHEGLIG DNPDAYAVTT  120
YQPVLMVEPS AAAAFPPAPQ VAPAYPVNPM QLPEHQQHAI QQVQQLQQQQ KEQLQAFWAD  180
QMAEVEQMTE FKLPNLPLAR IKKIMKADED VKMIAGEAPA LFAKACEMFI LDMTLRSWQH  240
TEEGRRTLQR SDVEAVIKKT DIFDFLVDII TDDKMKDDGM GFQAASMVSP YTSGGMGFSF  300
DLYPNQHHLA YMWPPQEQQE QWPPQEQQEQ KQKQDSDGGG QDE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	2e-38	181	270	3	93	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	244	250	RRTLQRS

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Os.18052	0.0	callus

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	1e-126	nuclear transcription factor Y subunit C-4-like
Swissprot	Q655V5	3e-54	NFYC4_ORYSJ; Nuclear transcription factor Y subunit C-4
TrEMBL	A2YSC3	0.0	A2YSC3_ORYSI; Uncharacterized protein
STRING	ONIVA08G06090.1	1e-134	(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	1e-47	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]