Tbio SMG7 Protein SMG7

Protein Summary

Description

Plays a role in nonsense-mediated mRNA decay. Recruits UPF1 to cytoplasmic mRNA decay bodies. Together with SMG5 is thought to provide a link to the mRNA degradation machinery involving exonucleolytic pathways, and to serve as an adapter for UPF1 to protein phosphatase 2A (PP2A), thereby triggering UPF1 dephosphorylation. This gene encodes a protein that is essential for nonsense-mediated mRNA decay (NMD); a process whereby transcripts with premature termination codons are targeted for rapid degradation by a mRNA decay complex. The mRNA decay complex consists, in part, of this protein along with proteins SMG5 and UPF1. The N-terminal domain of this protein is thought to mediate its association with SMG5 or UPF1 while the C-terminal domain interacts with the mRNA decay complex. This protein may therefore couple changes in UPF1 phosphorylation state to the degradation of NMD-candidate transcripts. Alternative splicing results in multiple transcript variants encoding distinct isoforms. [provided by RefSeq, Aug 2011]

Uniprot Accession IDs

• Q92540
• B4DRB2
• E9PCI0
• E9PEH2
• Q5T1Q0
• Q6PIE0
• Q7Z7H9
• Q8IXC1
• Q8IXC2

Gene Name

• SMG7

Ensembl ID

• ENST00000347615
• ENSP00000340766
• ENSG00000116698
• ENST00000507469
• ENSP00000425133
• ENST00000508461
• ENSP00000426915
• ENST00000515829
• ENSP00000421358

Symbol

• C1orf16
• EST1C
• KIAA0250
• EST1C
• SGA56M
• C1orf16

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
transcription factor binding site profile	0.98
histone modification site profile	0.81
transcription factor	0.8
co-expressed gene	0.76
microRNA	0.76

Protein Classes

No PANTHER Classes or DTO Classes found

IDG Development Level Summary

Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 31.83   (req: < 5)

Gene RIFs: 8   (req: <= 3)

Antibodies: 89   (req: <= 50)

Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 31.83   (req: >= 5)

Gene RIFs: 8   (req: > 3)

Antibodies: 89   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 10

Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligand: 0

Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0

Expression Data (0 Tissues)

tutorial

No expression data found

Protein Sequence and Structure

Residue Counts

Protein Sequence

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Related Tools (4)

Target Illumination GWAS Analytics (TIGA)

TIGA scores and ranks GWAS discovered associations according to the quantity and quality of the evidence supporting the association.

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GENEVA

GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.

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GlyGen

GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.

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ARCHS4

ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.

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Approved Drugs (0)

No approved drugs found

Active Ligands (0)

No active ligands found

Protein-Protein Interactions (192)

Explore Interacting Targets

1 – 10 of 192

• See Interactions on String-DB

CRYAA

Tchem

Novelty:  0.01914081

p_int:  0.999900914

p_ni:  0.000099035

p_wrong:  5.1e-8

Data Source:  BioPlex

KLK15

Tbio

Family:  Enzyme

Novelty:  0.00083978

p_int:  0.999489597

p_ni:  0.000510393

p_wrong:  1e-8

Score:  0.332

Data Source:  BioPlex,STRINGDB

NPAS1

Tbio

Family:  TF

Novelty:  0.08014425

p_int:  0.999002021

p_ni:  0.000997952

p_wrong:  2.8e-8

Data Source:  BioPlex

DNA2

Tbio

Family:  Enzyme

Novelty:  0.00195682

p_int:  0.998966973

p_ni:  0.001032952

p_wrong:  7.5e-8

Score:  0.422

Data Source:  BioPlex,STRINGDB

C6orf141

Tdark

Novelty:  1.46022784

p_int:  0.998393677

p_ni:  0.001606306

p_wrong:  1.8e-8

Data Source:  BioPlex

TSNAX

Tbio

Novelty:  0.00888891

p_int:  0.995228655

p_ni:  0.004195097

p_wrong:  0.000576248

Score:  0.223

Data Source:  BioPlex,STRINGDB

CDC16

Tbio

Novelty:  0.00916715

p_int:  0.991595816

p_ni:  0.007036351

p_wrong:  0.001367834

Score:  0.343

Data Source:  BioPlex,STRINGDB

CRYL1

Tbio

Family:  Enzyme

Novelty:  0.04513297

p_int:  0.966081907

p_ni:  0.033910348

p_wrong:  0.000007745

Data Source:  BioPlex

SMG1

Tchem

Family:  Kinase

Novelty:  0.00854339

Score:  0.999

Data Source:  STRINGDB

UPF1

Tbio

Novelty:  0.00311006

Score:  0.999

Data Source:  STRINGDB

Nearest Tclin Targets

Nearest Tclin calculations are only available for targets with KEGG Pathway annotations.

Pathways (4)

Reactome (3)

KEGG (1)

Metabolism of RNA (R-HSA-8953854)

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5

1 – 3 of 3

Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Metabolism of RNA	686 targets	R-HSA-8953854
Reactome	Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)	117 targets	R-HSA-975957
Reactome	Nonsense-Mediated Decay (NMD)	117 targets	R-HSA-927802

Name	Explore in Pharos	Explore in Source
Metabolism of RNA	686 targets	R-HSA-8953854
Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)	117 targets	R-HSA-975957
Nonsense-Mediated Decay (NMD)	117 targets	R-HSA-927802

Viral Interactions (0)

No viral interactions found

Gene Ontology Terms (15)

Functions (5)

Components (5)

Processes (5)

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10

1 – 5 of 5

GO Term	Evidence	Assigned by
protein phosphatase 2A binding	Inferred from Direct Assay (IDA)	HGNC
telomeric DNA binding	Inferred from Direct Assay (IDA)	BHF-UCL
ribonuclease activity	Inferred from Biological aspect of Ancestor (IBA)	GO_Central
ribonucleoprotein complex binding	Inferred from Biological aspect of Ancestor (IBA)	GO_Central
telomerase RNA binding	Inferred from Biological aspect of Ancestor (IBA)	GO_Central

Disease Associations (null)

No disease associations found

GWAS Traits (10)

• Explore on Target Illumination GWAS Analytics (TIGA)

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5

1 – 5 of 10

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
systemic lupus erythematosus	EFO_0002690	6	3	0	2	97.2
celiac disease	EFO_0001060	1	1	0	1.4	66.8
systemic scleroderma	EFO_0000717	1	1	0	1.4	63.7
rheumatoid arthritis	EFO_0000685	1	1	0	1.4	63.7
myositis	EFO_0000783	1	1	0	1.4	63.7

• Explore on Target Illumination GWAS Analytics (TIGA)

Items per page:

5

1 – 5 of 10

GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
systemic lupus erythematosus	EFO_0002690	0	2	97.2
celiac disease	EFO_0001060	0	1.4	66.8
systemic scleroderma	EFO_0000717	0	1.4	63.7
rheumatoid arthritis	EFO_0000685	0	1.4	63.7
myositis	EFO_0000783	0	1.4	63.7

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UniProt Keyword Find Similar Targets

No Header	No Header
3D-structure
Acetylation
Alternative splicing
Complete proteome
Cytoplasm
Nonsense-mediated mRNA decay
Nucleus
Phosphoprotein
Polymorphism
Reference proteome

GWAS Trait Find Similar Targets

No Header	No Header
BMI-adjusted hip circumference
celiac disease
intelligence
leukocyte count
myeloid white cell count
myositis
neutrophil count
rheumatoid arthritis
systemic lupus erythematosus
systemic scleroderma

IDG Resources

No IDG generated resources found

Orthologs (14)

1 – 5 of 14

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	SMG7, nonsense mediated mRNA decay factor	VGNC:1556	457572
Macaque	SMG7, nonsense mediated mRNA decay factor		717603
Mouse	Smg-7 homolog, nonsense mediated mRNA decay factor (C. elegans)	MGI:2682334	226517
Rat	SMG7 nonsense mediated mRNA decay factor	RGD:1310761	360855
Dog	SMG7, nonsense mediated mRNA decay factor	VGNC:46557	480035

Species	Name	OMA	EggNOG	Inparanoid
Chimp	SMG7, nonsense mediated mRNA decay factor
Macaque	SMG7, nonsense mediated mRNA decay factor
Mouse	Smg-7 homolog, nonsense mediated mRNA decay factor (C. elegans)
Rat	SMG7 nonsense mediated mRNA decay factor
Dog	SMG7, nonsense mediated mRNA decay factor

Publication Statistics

PubMed Score 31.83

PubMed score by year

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PubTator Score 11.19

PubTator score by year

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Related Publications

Text Mined References (27)

GeneRif Annotations (8)

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PMID	Year	Title