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

ORGLA08G0039700.1

Organism

Oryza glaberrima

Taxonomic ID

4538

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-YB

Protein Properties

Length: 293aa MW: 29217.9 Da PI: 6.9945

Description

NF-YB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ORGLA08G0039700.1	genome	AGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YB	177.1	1.7e-55	57	152	2	97
NF-YB 2 reqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyrel 93 +eqdrflPianvsrimk+ lPanakisk+aketvqecvsefisfvt+easdkcqrekrktingddllwa++tlGfe yv plk yl++yre+ ORGLA08G0039700.1 57 KEQDRFLPIANVSRIMKRSLPANAKISKEAKETVQECVSEFISFVTGEASDKCQREKRKTINGDDLLWAMTTLGFEAYVGPLKSYLNRYREA 148 89****************************************************************************************** PP NF-YB 94 egek 97 egek ORGLA08G0039700.1 149 EGEK 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	2.02E-38	59	160	IPR009072	Histone-fold
Pfam	PF00808	8.3E-27	62	126	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
PRINTS	PR00615	5.0E-18	90	108	No hit	No description
PROSITE pattern	PS00685	0	93	109	IPR003956	Transcription factor, NFYB/HAP3, conserved site
PRINTS	PR00615	5.0E-18	109	127	No hit	No description
PRINTS	PR00615	5.0E-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: 293 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 GDGSRVMEFG GIGGEEESGG GGERGFAGHL HGVQWXRLKR NTN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4g91_B	1e-44	57	147	2	92	Transcription factor HapC (Eurofung)
4g92_B	1e-44	57	147	2	92	Transcription factor HapC (Eurofung)
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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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	ORGLA08G0039700.1

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	LC016715	0.0	LC016715.1 Oryza sativa Indica Group Hd5 gene for heading date 5, complete cds, cultivar: Basilanon.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015649101.1	1e-131	nuclear transcription factor Y subunit B-11
Swissprot	Q0J7P4	1e-132	HD5_ORYSJ; Nuclear transcription factor Y subunit B-11
TrEMBL	I1QG46	0.0	I1QG46_ORYGL; Uncharacterized protein
STRING	ORGLA08G0039700.1	0.0	(Oryza glaberrima)

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	8e-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]