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

BGIOSGA027569-PA

Common Name

OsI_28002

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-YB

Protein Properties

Length: 296aa MW: 29462.4 Da PI: 6.7838

Description

NF-YB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
BGIOSGA027569-PA	genome	RIS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YB	177	1.8e-55	57	152	2	97
NF-YB 2 reqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyrele 94 +eqdrflPianvsrimk+ lPanakisk+aketvqecvsefisfvt+easdkcqrekrktingddllwa++tlGfe yv plk yl++yre+e BGIOSGA027569-PA 57 KEQDRFLPIANVSRIMKRSLPANAKISKEAKETVQECVSEFISFVTGEASDKCQREKRKTINGDDLLWAMTTLGFEAYVGPLKSYLNRYREAE 149 89******************************************************************************************* PP NF-YB 95 gek 97 gek BGIOSGA027569-PA 150 GEK 152 997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.20.10	3.3E-51	54	154	IPR009072	Histone-fold
SuperFamily	SSF47113	2.17E-38	59	160	IPR009072	Histone-fold
Pfam	PF00808	8.5E-27	62	126	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
PRINTS	PR00615	5.2E-18	90	108	No hit	No description
PROSITE pattern	PS00685	0	93	109	IPR003956	Transcription factor, NFYB/HAP3, conserved site
PRINTS	PR00615	5.2E-18	109	127	No hit	No description
PRINTS	PR00615	5.2E-18	128	146	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0043565	Molecular Function	sequence-specific DNA binding
GO:0046982	Molecular Function	protein heterodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 296 aa Download sequence Send to blast
MKSRKSYGHL LSPVGSPPSD NESGAAAAAA AAGGGGCGSS AGYVVYGGGG GGDSPAKEQD 60 RFLPIANVSR IMKRSLPANA KISKEAKETV QECVSEFISF VTGEASDKCQ REKRKTINGD 120 DLLWAMTTLG FEAYVGPLKS YLNRYREAEG EKAAVLGGAG GAAAARHGEG GCCGGGGGAD 180 GVVIDGHSPL AGGLSHSHHG HQQQDGGGDV GLMMGGGAAG VGYNAGAGST TTAFYAPAAT 240 AASGNKAYCG GDGSRVMEFE GIGGEEESGG GGGGGERGFA GHLHGVQWFR LKRSTN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4g91_B	2e-44	57	147	2	92	Transcription factor HapC (Eurofung)
4g92_B	2e-44	57	147	2	92	Transcription factor HapC (Eurofung)
Search in ModeBase

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	37542674	0.0

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in roots, culms, nodes, leaf blades, leaf sheaths and young panicles. {ECO:0000269\|PubMed:20566706}.

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:20566706, PubMed:21148627). Regulates plant height by promoting cell elongation in the internodes (PubMed:20566706). Component of the NF-Y/HAP transcription factor complex (By similarity). {ECO:0000250, ECO:0000269\|PubMed:20566706, ECO:0000269\|PubMed:21148627}.

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_015649101.1	1e-133	nuclear transcription factor Y subunit B-11
Swissprot	Q0J7P4	1e-135	HD5_ORYSJ; Nuclear transcription factor Y subunit B-11
TrEMBL	A2YRQ7	0.0	A2YRQ7_ORYSI; Uncharacterized protein
STRING	ORUFI03G11670.1	1e-133	(Oryza rufipogon)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP201	38	331

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G14540.1	9e-56	nuclear factor Y, subunit B3

Publications ? help Back to Top
Yan WH, et al. A major QTL, Ghd8, plays pleiotropic roles in regulating grain productivity, plant height, and heading date in rice. Mol Plant, 2011. 4(2): p. 319-30 [PMID:21148627] Dai X, et al. LHD1, an allele of DTH8/Ghd8, controls late heading date in common wild rice (Oryza rufipogon). J Integr Plant Biol, 2012. 54(10): p. 790-9 [PMID:22963226] 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]