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

Oropetium_20150105_23235A

Organism

Oropetium thomaeum

Taxonomic ID

1148796

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Cynodonteae; Tripogoninae; Oropetium

Family

NF-YB

Protein Properties

Length: 265aa MW: 27244.6 Da PI: 6.3957

Description

NF-YB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Oropetium_20150105_23235A	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YB	162	8.8e-51	58	146	9	97
NF-YB 9 PianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyre 92 ianvsrimk+ lPanakiskdaketvqecvsefisfvt+easdkcqrekrktingddllwa++tlGfe yv plk yl++yre Oropetium_20150105_23235A 58 XIANVSRIMKRSLPANAKISKDAKETVQECVSEFISFVTGEASDKCQREKRKTINGDDLLWAMTTLGFEAYVGPLKSYLNRYRE 141 69******************************************************************************** PP NF-YB 93 legek 97 +egek Oropetium_20150105_23235A 142 AEGEK 146 997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	2.58E-35	59	168	IPR009072	Histone-fold
Pfam	PF00808	1.7E-24	59	120	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
Gene3D	G3DSA:1.10.20.10	1.3E-45	59	150	IPR009072	Histone-fold
PRINTS	PR00615	3.9E-18	84	102	No hit	No description
PROSITE pattern	PS00685	0	87	103	IPR003956	Transcription factor, NFYB/HAP3, conserved site
PRINTS	PR00615	3.9E-18	103	121	No hit	No description
PRINTS	PR00615	3.9E-18	122	140	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: 265 aa Download sequence Send to blast
MKSRKGYAQQ GHLLSPVGSP PSDNESGAAA AAAAAGCAAY GGXXXXXXXX XXXXXXXXIA 60 NVSRIMKRSL PANAKISKDA KETVQECVSE FISFVTGEAS DKCQREKRKT INGDDLLWAM 120 TTLGFEAYVG PLKSYLNRYR EAEGEKAAVL GGARHGDGGA SDDVAGGGGG HIPGGNRGDH 180 DGXXXXXXXX XXHDAHVGLM MGVSVGFSAG GGTSYYSTPA AGTKAYGGEG SAKLVEFDGI 240 AAEEDNGGGV QRGFGGHLNG GVQW*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_A	1e-39	59	141	15	97	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT B-6
Search in ModeBase

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	Oropetium_20150105_23235A

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	AB124648	1e-139	AB124648.1 Oryza sativa Indica Group Hd5 gene for Heading date 5, complete cds, cultivar:Kasalath.
GenBank	AB124649	1e-139	AB124649.1 Oryza sativa Indica Group Hd5 mRNA for Heading date 5, complete cds, cultivar:Kasalath.
GenBank	AY062182	1e-139	AY062182.1 Oryza sativa (indica cultivar-group) HAP3-like transcriptional-activator (HAP3b) mRNA, complete cds.
GenBank	CP012616	1e-139	CP012616.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 8 sequence.
GenBank	CT837794	1e-139	CT837794.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCRA121O04, full insert sequence.
GenBank	KR815350	1e-139	KR815350.1 Oryza sativa days to heading 8 (DTH8) gene, partial cds.
GenBank	KR815351	1e-139	KR815351.1 Oryza sativa days to heading 8 (DTH8) gene, partial cds.
GenBank	LC016712	1e-139	LC016712.1 Oryza sativa Indica Group Hd5 gene for heading date 5, complete cds, cultivar: Qiu Zhao Zong.
GenBank	LC016713	1e-139	LC016713.1 Oryza sativa Indica Group Hd5 gene for heading date 5, complete cds, cultivar: Tupa 121-3.
GenBank	LC016714	1e-139	LC016714.1 Oryza sativa Indica Group Hd5 gene for heading date 5, complete cds, cultivar: Muha.
GenBank	LC016716	1e-139	LC016716.1 Oryza sativa Indica Group Hd5 gene for heading date 5, complete cds, cultivar: Deng Pao Zhai.
GenBank	LC016718	1e-139	LC016718.1 Oryza sativa Indica Group Hd5 gene for heading date 5, complete cds, cultivar: Naba.
GenBank	LC016719	1e-139	LC016719.1 Oryza sativa Indica Group Hd5 gene for heading date 5, complete cds, cultivar: Bei Khe.
GenBank	LC016721	1e-139	LC016721.1 Oryza sativa Indica Group Hd5 gene for heading date 5, complete cds, cultivar: Bleiyo.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002445142.1	1e-97	nuclear transcription factor Y subunit B-11
Swissprot	Q0J7P4	1e-64	HD5_ORYSJ; Nuclear transcription factor Y subunit B-11
TrEMBL	A0A3L6PMD7	5e-98	A0A3L6PMD7_PANMI; Uncharacterized protein
STRING	Sb07g004740.1	4e-97	(Sorghum bicolor)

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	2e-55	nuclear factor Y, subunit B3

Link Out ? help Back to Top
Phytozome	Oropetium_20150105_23235A

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]