Tbio ATG5 Autophagy protein 5

Protein Summary

Description

Involved in autophagic vesicle formation. Conjugation with ATG12, through a ubiquitin-like conjugating system involving ATG7 as an E1-like activating enzyme and ATG10 as an E2-like conjugating enzyme, is essential for its function. The ATG12-ATG5 conjugate acts as an E3-like enzyme which is required for lipidation of ATG8 family proteins and their association to the vesicle membranes. Involved in mitochondrial quality control after oxidative damage, and in subsequent cellular longevity. Plays a critical role in multiple aspects of lymphocyte development and is essential for both B and T lymphocyte survival and proliferation. Required for optimal processing and presentation of antigens for MHC II. Involved in the maintenance of axon morphology and membrane structures, as well as in normal adipocyte differentiation. Promotes primary ciliogenesis through removal of OFD1 from centriolar satellites and degradation of IFT20 via the autophagic pathway. May play an important role in the apoptotic process, possibly within the modified cytoskeleton. Its expression is a relatively late event in the apoptotic process, occurring downstream of caspase activity. Plays a crucial role in IFN-gamma-induced autophagic cell death by interacting with FADD. (Microbial infection) May act as a proviral factor. In association with ATG12, negatively regulates the innate antiviral immune response by impairing the type I IFN production pathway upon vesicular stomatitis virus (VSV) infection (PubMed:17709747). Required for the translation of incoming hepatitis C virus (HCV) RNA and, thereby, for initiation of HCV replication, but not required once infection is established (PubMed:19666601). The protein encoded by this gene, in combination with autophagy protein 12, functions as an E1-like activating enzyme in a ubiquitin-like conjugating system. The encoded protein is involved in several cellular processes, including autophagic vesicle formation, mitochondrial quality control after oxidative damage, negative regulation of the innate antiviral immune response, lymphocyte development and proliferation, MHC II antigen presentation, adipocyte differentiation, and apoptosis. Several transcript variants encoding different protein isoforms have been found for this gene. [provided by RefSeq, Sep 2015]

Uniprot Accession IDs

• Q9H1Y0
• O60875
• Q5JVR2
• Q68DI4
• Q9H2B8
• Q9HCZ7

Gene Name

• ATG5

Ensembl ID

• ENST00000343245
• ENSP00000343313
• ENSG00000057663
• ENST00000369076
• ENSP00000358072
• ENST00000635758
• ENSP00000490493

Symbol

• APG5L
• ASP
• ASP
• APG5
• APG5L
• hAPG5
• SCAR25
• APG5-LIKE

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
disease perturbation	1
biological process	0.99
kinase perturbation	0.99
transcription factor perturbation	0.94
transcription factor binding site profile	0.89

Protein Classes

PANTHER Classes

Protein / Membrane Traffic Protein / Membrane Trafficking Regulatory Protein / Autophagy Protein 5

DTO Classes

Protein / Transporter / Membrane Trafficking Regulatory Protein / Autophagy Protein 5

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: 1471.1   (req: < 5)

Gene RIFs: 95   (req: <= 3)

Antibodies: 884   (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: 1471.1   (req: >= 5)

Gene RIFs: 95   (req: > 3)

Antibodies: 884   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 33

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)

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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 (247)

Explore Interacting Targets

1 – 10 of 247

• See Interactions on String-DB

ATG3

Tbio

Novelty:  0.00541077

p_int:  0.99999999

p_ni:  7e-9

p_wrong:  2e-9

Score:  0.999

Data Source:  BioPlex,STRINGDB

RAB33B

Tbio

Family:  Enzyme

Novelty:  0.06381712

p_int:  0.999999833

p_ni:  1.67e-7

p_wrong:  1e-9

Score:  0.512

Data Source:  BioPlex,STRINGDB

CCDC12

Tdark

Novelty:  0.52297992

p_int:  0.999999802

p_ni:  1.98e-7

Score:  0.534

Data Source:  BioPlex,STRINGDB

WIPI2

Tbio

Novelty:  0.02685992

p_int:  0.999991799

p_ni:  0.000003865

p_wrong:  0.000004336

Score:  0.992

Data Source:  BioPlex,Reactome,STRINGDB

IKBIP

Tbio

Family:  Enzyme

Novelty:  0.18707639

p_int:  0.999973371

p_ni:  0.000026623

p_wrong:  7e-9

Score:  0.165

Data Source:  BioPlex,STRINGDB

SYCE1

Tbio

Novelty:  0.05038876

p_int:  0.998756131

p_ni:  0.001220201

p_wrong:  0.000023668

Data Source:  BioPlex

CCT2

Tbio

Novelty:  0.01967139

p_int:  0.988746027

p_ni:  0.011239493

p_wrong:  0.00001448

Data Source:  BioPlex

ATG16L1

Tbio

Novelty:  0.0031765

Score:  0.999

Data Source:  Reactome,STRINGDB

ATG12

Tbio

Novelty:  0.00304298

Score:  0.999

Data Source:  Reactome,STRINGDB

ATG7

Tchem

Novelty:  0.00120728

Score:  0.998

Data Source:  STRINGDB

Nearest Tclin Targets

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

Pathways (25)

Reactome (10)

KEGG (9)

WikiPathways (6)

Autophagy (R-HSA-9612973)

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5

1 – 5 of 10

Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Autophagy	109 targets	R-HSA-9612973
Reactome	Cellular responses to external stimuli	487 targets	R-HSA-8953897
Reactome	DDX58/IFIH1-mediated induction of interferon-alpha/beta	77 targets	R-HSA-168928
Reactome	Immune System	2246 targets	R-HSA-168256
Reactome	Innate Immune System	1188 targets	R-HSA-168249

Name	Explore in Pharos	Explore in Source
Autophagy	109 targets	R-HSA-9612973
Cellular responses to external stimuli	487 targets	R-HSA-8953897
DDX58/IFIH1-mediated induction of interferon-alpha/beta	77 targets	R-HSA-168928
Immune System	2246 targets	R-HSA-168256
Innate Immune System	1188 targets	R-HSA-168249

Viral Interactions (0)

No viral interactions found

Gene Ontology Terms (42)

Components (9)

Processes (33)

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Items per page:

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1 – 9 of 9

GO Term	Evidence	Assigned by
autophagosome	Inferred from Direct Assay (IDA)	MGI
membrane	Inferred from Direct Assay (IDA)	MGI
Atg12-Atg5-Atg16 complex	Inferred from Biological aspect of Ancestor (IBA)	GO_Central
axoneme	Inferred from Sequence or structural Similarity (ISS)	UniProtKB
cytoplasm	Inferred from Sequence or structural Similarity (ISS)	UniProtKB
phagophore assembly site membrane	Inferred from Sequence or structural Similarity (ISS)	UniProtKB
cytosol	Traceable Author Statement (TAS)	Reactome
phagocytic vesicle membrane	Traceable Author Statement (TAS)	Reactome
mitochondria-associated endoplasmic reticulum membrane	Inferred from Electronic Annotation (IEA)	Ensembl

Disease Associations (null)

No disease associations found

GWAS Traits (20)

• Explore on Target Illumination GWAS Analytics (TIGA)

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5

1 – 5 of 20

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
systemic lupus erythematosus	EFO_0002690	8	5	0	1.2	94.6
Crohn's disease	EFO_0000384	3	2	0	1.1	92.2
systemic scleroderma	EFO_0000717	4	4	1	1.1	89.9
rheumatoid arthritis	EFO_0000685	2	2	0	1.1	83.6
balding measurement	EFO_0007825	1	2	2		82.9

• Explore on Target Illumination GWAS Analytics (TIGA)

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GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
systemic lupus erythematosus	EFO_0002690	0	1.2	94.6
Crohn's disease	EFO_0000384	0	1.1	92.2
systemic scleroderma	EFO_0000717	1	1.1	89.9
rheumatoid arthritis	EFO_0000685	0	1.1	83.6
balding measurement	EFO_0007825	2		82.9

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UniProt Keyword Find Similar Targets

No Header	No Header
3D-structure
Acetylation
Alternative splicing
Apoptosis
Autophagy
Complete proteome
Cytoplasm
Disease mutation
Immunity
Isopeptide bond

GWAS Trait Find Similar Targets

No Header	No Header
acne
allergic disease
balding measurement
childhood onset asthma
Crohn's disease
eosinophil count
eosinophil percentage of leukocytes
inflammatory bowel disease
lymphocyte count
lymphocyte percentage of leukocytes

MGI Phenotype Find Similar Targets

No Header	No Header
behavior/neurological phenotype
cardiovascular system phenotype
cellular phenotype
digestive/alimentary phenotype
endocrine/exocrine gland phenotype
growth/size/body region phenotype
hearing/vestibular/ear phenotype
hematopoietic system phenotype
homeostasis/metabolism phenotype
immune system phenotype

IDG Resources

No IDG generated resources found

Orthologs (17)

1 – 5 of 17

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	autophagy related 5	VGNC:2644	462905
Macaque	autophagy related 5		696874
Mouse	autophagy related 5	MGI:1277186	11793
Rat	autophagy related 5	RGD:1359580	365601
Dog	autophagy related 5	VGNC:38226	610868

Species	Name	OMA	EggNOG	Inparanoid
Chimp	autophagy related 5
Macaque	autophagy related 5
Mouse	autophagy related 5
Rat	autophagy related 5
Dog	autophagy related 5

Publication Statistics

PubMed Score 1471.10

PubMed score by year

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PubTator Score 513.48

PubTator score by year

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Related Publications

Text Mined References (133)

GeneRif Annotations (95)

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PMID	Year	Title