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Aliases for ATG4C Gene

Aliases for ATG4C Gene

  • Autophagy Related 4C, Cysteine Peptidase 2 3
  • Autophagy-Related Cysteine Endopeptidase 3 3 4
  • Autophagy-Related Protein 4 Homolog C 3 4
  • AUT-Like 3 Cysteine Endopeptidase 3 4
  • Autophagin-3 3 4
  • APG4C 3 4
  • AUTL1 3 4
  • AUTL3 3 4
  • AUT (S. Cerevisiae)-Like 1, Cysteine Endopeptidase; AUT-Like 1, Cysteine Endopeptidase (S. Cerevisiae) 2
  • ATG4 Autophagy Related 4 Homolog C (S. Cerevisiae) 2
  • APG4 Autophagy 4 Homolog C (S. Cerevisiae) 2
  • ATG4 Autophagy Related 4 Homolog C 3
  • AUT-Like 1, Cysteine Endopeptidase 3
  • APG4 Autophagy 4 Homolog C 3
  • Cysteine Protease ATG4C 3
  • EC 3.4.22.- 4
  • EC 3.4.22 64
  • APG4-C 3

External Ids for ATG4C Gene

Previous Symbols for ATG4C Gene

  • AUTL1
  • APG4C

Summaries for ATG4C Gene

Entrez Gene Summary for ATG4C Gene

  • Autophagy is the process by which endogenous proteins and damaged organelles are destroyed intracellularly. Autophagy is postulated to be essential for cell homeostasis and cell remodeling during differentiation, metamorphosis, non-apoptotic cell death, and aging. Reduced levels of autophagy have been described in some malignant tumors, and a role for autophagy in controlling the unregulated cell growth linked to cancer has been proposed. This gene encodes a member of the autophagin protein family. The encoded protein is also designated as a member of the C-54 family of cysteine proteases. Alternate transcriptional splice variants, encoding the same protein, have been characterized. [provided by RefSeq, Jul 2008]

GeneCards Summary for ATG4C Gene

ATG4C (Autophagy Related 4C, Cysteine Peptidase) is a Protein Coding gene. Diseases associated with ATG4C include dependent personality disorder. Among its related pathways are Regulation of autophagy. GO annotations related to this gene include peptidase activity and cysteine-type endopeptidase activity. An important paralog of this gene is ATG4B.

UniProtKB/Swiss-Prot for ATG4C Gene

  • Cysteine protease required for the cytoplasm to vacuole transport (Cvt) and autophagy. Is not essential for autophagy development under normal conditions but is required for a proper autophagic response under stressful conditions such as prolonged starvation (By similarity). Cleaves the C-terminal amino acid of ATG8 family proteins MAP1LC3 and GABARAPL2, to reveal a C-terminal glycine. Exposure of the glycine at the C-terminus is essential for ATG8 proteins conjugation to phosphatidylethanolamine (PE) and insertion to membranes, which is necessary for autophagy. Has also an activity of delipidating enzyme for the PE-conjugated forms.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ATG4C Gene

Genomics for ATG4C Gene

Genomic Location for ATG4C Gene

Start:
62,784,106 bp from pter
End:
62,865,513 bp from pter
Size:
81,408 bases
Orientation:
Plus strand

Genomic View for ATG4C Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for ATG4C Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ATG4C Gene

No data available for Regulatory Elements for ATG4C Gene

Proteins for ATG4C Gene

  • Protein details for ATG4C Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96DT6-ATG4C_HUMAN
    Recommended name:
    Cysteine protease ATG4C
    Protein Accession:
    Q96DT6
    Secondary Accessions:
    • A6NLR8
    • D3DQ58
    • Q96K04

    Protein attributes for ATG4C Gene

    Size:
    458 amino acids
    Molecular mass:
    52497 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAB55356.1; Type=Frameshift; Positions=420; Evidence={ECO:0000305};

neXtProt entry for ATG4C Gene

Proteomics data for ATG4C Gene at MOPED

Selected DME Specific Peptides for ATG4C Gene

Post-translational modifications for ATG4C Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for ATG4C Gene

Domains for ATG4C Gene

Protein Domains for ATG4C Gene

InterPro:
ProtoNet:

UniProtKB/Swiss-Prot:

ATG4C_HUMAN
Family:
  • Belongs to the peptidase C54 family.:
    • Q96DT6
genes like me logo Genes that share domains with ATG4C: view

No data available for Gene Families for ATG4C Gene

Function for ATG4C Gene

Molecular function for ATG4C Gene

UniProtKB/Swiss-Prot BiophysicochemicalProperties: Kinetic parameters: KM=47.5 uM for MAP1LC3B {ECO:0000269 PubMed:21177865}; KM=12.4 uM for GABARAPL2 {ECO:0000269 PubMed:21177865};
UniProtKB/Swiss-Prot EnzymeRegulation: Inhibited by N-ethylmaleimide
UniProtKB/Swiss-Prot Function: Cysteine protease required for the cytoplasm to vacuole transport (Cvt) and autophagy. Is not essential for autophagy development under normal conditions but is required for a proper autophagic response under stressful conditions such as prolonged starvation (By similarity). Cleaves the C-terminal amino acid of ATG8 family proteins MAP1LC3 and GABARAPL2, to reveal a C-terminal glycine. Exposure of the glycine at the C-terminus is essential for ATG8 proteins conjugation to phosphatidylethanolamine (PE) and insertion to membranes, which is necessary for autophagy. Has also an activity of delipidating enzyme for the PE-conjugated forms.

Enzyme Numbers (IUBMB) for ATG4C Gene

Gene Ontology (GO) - Molecular Function for ATG4C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004197 cysteine-type endopeptidase activity IMP 12446702
GO:0008233 peptidase activity IDA 12446702
GO:0008234 cysteine-type peptidase activity --
genes like me logo Genes that share ontologies with ATG4C: view
genes like me logo Genes that share phenotypes with ATG4C: view

Animal Models for ATG4C Gene

MGI Knock Outs for ATG4C:

miRNA for ATG4C Gene

miRTarBase miRNAs that target ATG4C

No data available for Transcription Factor Targeting and HOMER Transcription for ATG4C Gene

Localization for ATG4C Gene

Subcellular locations from UniProtKB/Swiss-Prot for ATG4C Gene

Cytoplasm.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for ATG4C Gene COMPARTMENTS Subcellular localization image for ATG4C gene
Compartment Confidence
extracellular 5
cytosol 4
lysosome 2
nucleus 2
vacuole 2
endoplasmic reticulum 1

Gene Ontology (GO) - Cellular Components for ATG4C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IDA 12446702
GO:0005737 cytoplasm ISS 12446702
GO:0005829 cytosol ISS 12446702
genes like me logo Genes that share ontologies with ATG4C: view

Pathways for ATG4C Gene

SuperPathways for ATG4C Gene

Superpath Contained pathways
1 Regulation of autophagy
genes like me logo Genes that share pathways with ATG4C: view

Pathways by source for ATG4C Gene

1 KEGG pathway for ATG4C Gene

Gene Ontology (GO) - Biological Process for ATG4C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000045 autophagic vacuole assembly IGI 12446702
GO:0000422 mitochondrion degradation IBA --
GO:0006501 C-terminal protein lipidation IBA --
GO:0006508 proteolysis IDA 12446702
GO:0006612 protein targeting to membrane ISS 12446702
genes like me logo Genes that share ontologies with ATG4C: view

Transcripts for ATG4C Gene

Unigene Clusters for ATG4C Gene

Autophagy related 4C, cysteine peptidase:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for ATG4C Gene

ExUns: 1 ^ 2a · 2b · 2c · 2d · 2e ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7 ^ 8a · 8b · 8c ^ 9a · 9b · 9c ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15
SP1: - - -
SP2: - - - -
SP3: - - - -
SP4: - - -
SP5: - - - - - - - -
SP6: - - - -
SP7: - -
SP8: -
SP9: - -

Relevant External Links for ATG4C Gene

GeneLoc Exon Structure for
ATG4C
ECgene alternative splicing isoforms for
ATG4C

Expression for ATG4C Gene

mRNA expression in normal human tissues for ATG4C Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for ATG4C Gene

SOURCE GeneReport for Unigene cluster for ATG4C Gene Hs.7353

mRNA Expression by UniProt/SwissProt for ATG4C Gene

Q96DT6-ATG4C_HUMAN
Tissue specificity: Highly expressed in skeletal muscle, heart, liver and testis.
genes like me logo Genes that share expressions with ATG4C: view

Orthologs for ATG4C Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for ATG4C Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ATG4C 36
  • 100 (n)
  • 100 (a)
ATG4C 37
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia ATG4C 36
  • 93.52 (n)
  • 94.32 (a)
ATG4C 37
  • 94 (a)
OneToOne
dog
(Canis familiaris)
Mammalia ATG4C 36
  • 94.1 (n)
  • 94.54 (a)
ATG4C 37
  • 95 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Atg4c 36
  • 87.92 (n)
  • 90.39 (a)
Atg4c 16
Atg4c 37
  • 90 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia ATG4C 37
  • 85 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia ATG4C 37
  • 83 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Atg4c 36
  • 85.88 (n)
  • 89.52 (a)
chicken
(Gallus gallus)
Aves ATG4C 36
  • 80.35 (n)
  • 82.53 (a)
ATG4C 37
  • 82 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia ATG4C 37
  • 76 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.1688 36
tropical clawed frog
(Silurana tropicalis)
Amphibia atg4c 36
  • 73.07 (n)
  • 71.65 (a)
zebrafish
(Danio rerio)
Actinopterygii atg4c 36
  • 64.75 (n)
  • 60.84 (a)
atg4c 37
  • 59 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG6194 37
  • 27 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea atg-4.2 37
  • 22 (a)
ManyToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes ATG4 37
  • 21 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.753 37
  • 29 (a)
OneToMany
Species with no ortholog for ATG4C:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for ATG4C Gene

ENSEMBL:
Gene Tree for ATG4C (if available)
TreeFam:
Gene Tree for ATG4C (if available)

Paralogs for ATG4C Gene

Paralogs for ATG4C Gene

Selected SIMAP similar genes for ATG4C Gene using alignment to 5 proteins:

genes like me logo Genes that share paralogs with ATG4C: view

Variants for ATG4C Gene

Sequence variations from dbSNP and Humsavar for ATG4C Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type MAF
rs943696 -- 62,806,467(+) TATTT(A/G)TGATT intron-variant
rs1333733 -- 62,856,890(+) ACAGT(A/G)AAACC intron-variant
rs1333735 -- 62,861,628(+) ACACA(C/G)AGAGA intron-variant
rs1333736 -- 62,861,764(+) ATATC(A/T)TTTTT intron-variant
rs1360677 -- 62,863,273(+) GAAGG(C/T)CATTT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for ATG4C Gene

Variant ID Type Subtype PubMed ID
nsv830015 CNV Gain 17160897

Relevant External Links for ATG4C Gene

HapMap Linkage Disequilibrium report
ATG4C

Disorders for ATG4C Gene

(3) University of Copenhagen DISEASES for ATG4C Gene

Relevant External Links for ATG4C

Genetic Association Database (GAD)
ATG4C
Human Genome Epidemiology (HuGE) Navigator
ATG4C
genes like me logo Genes that share disorders with ATG4C: view

No data available for UniProtKB/Swiss-Prot for ATG4C Gene

Publications for ATG4C Gene

  1. Human autophagins, a family of cysteine proteinases potentially implicated in cell degradation by autophagy. (PMID: 12446702) Marino G. … Lopez-Otin C. (J. Biol. Chem. 2003) 2 3 4 23
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  4. Genome-wide association study of anthropometric traits and evidence of interactions with age and study year in Filipino women. (PMID: 20966902) Croteau-Chonka D.C. … Mohlke K.L. (Obesity (Silver Spring) 2011) 3 49
  5. Six new loci associated with blood low-density lipoprotein cholesterol, high-density lipoprotein cholesterol or triglycerides in humans. (PMID: 18193044) Kathiresan S. … Orho-Melander M. (Nat. Genet. 2008) 3 49

Products for ATG4C Gene

Sources for ATG4C Gene

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