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Aliases for ATG4B Gene

Aliases for ATG4B Gene

  • Autophagy Related 4B, Cysteine Peptidase 2 3
  • Autophagy-Related Cysteine Endopeptidase 1 3 4
  • Autophagy-Related Protein 4 Homolog B 3 4
  • AUT-Like 1 Cysteine Endopeptidase 3 4
  • Autophagin-1 3 4
  • HAPG4B 3 4
  • AUTL1 3 4
  • APG4B 3 4
  • ATG4 Autophagy Related 4 Homolog B (S. Cerevisiae) 2
  • APG4 Autophagy 4 Homolog B (S. Cerevisiae) 2
  • ATG4 Autophagy Related 4 Homolog B 3
  • APG4 Autophagy 4 Homolog B 3
  • Cysteine Protease ATG4B 3
  • EC 3.4.22.- 4
  • EC 3.4.22 63
  • KIAA0943 4

External Ids for ATG4B Gene

Previous HGNC Symbols for ATG4B Gene

  • APG4B

Previous GeneCards Identifiers for ATG4B Gene

  • GC02P242297
  • GC02P242225
  • GC02P242578
  • GC02P234345

Summaries for ATG4B Gene

Entrez Gene Summary for ATG4B 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 different isoforms, have been characterized. [provided by RefSeq, Jul 2008]

GeneCards Summary for ATG4B Gene

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

UniProtKB/Swiss-Prot for ATG4B Gene

  • Cysteine protease required for the cytoplasm to vacuole transport (Cvt) and autophagy. Cleaves the C-terminal amino acid of ATG8 family proteins MAP1LC3, GABARAPL1, GABARAPL2 and GABARAP, 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.

Gene Wiki entry for ATG4B Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ATG4B Gene

Genomics for ATG4B Gene

Regulatory Elements for ATG4B Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for ATG4B Gene

Start:
241,637,213 bp from pter
End:
241,673,857 bp from pter
Size:
36,645 bases
Orientation:
Plus strand

Genomic View for ATG4B Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for ATG4B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ATG4B Gene

Proteins for ATG4B Gene

  • Protein details for ATG4B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y4P1-ATG4B_HUMAN
    Recommended name:
    Cysteine protease ATG4B
    Protein Accession:
    Q9Y4P1
    Secondary Accessions:
    • B7WNK2
    • Q53NU4
    • Q6ZUV8
    • Q8WYM9
    • Q96K07
    • Q96K96
    • Q96SZ1
    • Q9Y2F2

    Protein attributes for ATG4B Gene

    Size:
    393 amino acids
    Molecular mass:
    44294 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAA76787.2; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305}; Sequence=BAC86110.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for ATG4B Gene

    Alternative splice isoforms for ATG4B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for ATG4B Gene

Proteomics data for ATG4B Gene at MOPED

Selected DME Specific Peptides for ATG4B Gene

Post-translational modifications for ATG4B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Antibody Products

  • Cell Signaling Technology (CST) Antibodies for ATG4B (ATG4B)

Domains for ATG4B Gene

Protein Domains for ATG4B Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for ATG4B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9Y4P1

UniProtKB/Swiss-Prot:

ATG4B_HUMAN :
  • Q9Y4P1
Family:
  • Belongs to the peptidase C54 family.
genes like me logo Genes that share domains with ATG4B: view

No data available for Gene Families for ATG4B Gene

Function for ATG4B Gene

Molecular function for ATG4B Gene

UniProtKB/Swiss-Prot BiophysicochemicalProperties: Kinetic parameters: KM=5.1 uM for MAP1LC3B {ECO:0000269 PubMed:21177865, ECO:0000269 PubMed:22302004}; KM=5.8 uM for GABARAP {ECO:0000269 PubMed:21177865, ECO:0000269 PubMed:22302004}; KM=4.4 uM for GABARAPL1 {ECO:0000269 PubMed:21177865, ECO:0000269 PubMed:22302004}; KM=6.1 uM for GABARAPL2 {ECO:0000269 PubMed:21177865, ECO:0000269 PubMed:22302004};
UniProtKB/Swiss-Prot EnzymeRegulation: Inhibited by N-ethylmaleimide. Redox-regulated during autophagy since reducing conditions activate ATG4A whereas an oxidizing environment such as the presence of H(2)O(2) inhibits its activity.
UniProtKB/Swiss-Prot Function: Cysteine protease required for the cytoplasm to vacuole transport (Cvt) and autophagy. Cleaves the C-terminal amino acid of ATG8 family proteins MAP1LC3, GABARAPL1, GABARAPL2 and GABARAP, 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 ATG4B Gene

Gene Ontology (GO) - Molecular Function for ATG4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004175 endopeptidase activity IDA 18387192
GO:0004197 cysteine-type endopeptidase activity IBA --
GO:0005515 protein binding IPI 15187094
GO:0008233 peptidase activity --
GO:0008234 cysteine-type peptidase activity IDA 15169837
genes like me logo Genes that share ontologies with ATG4B: view
genes like me logo Genes that share phenotypes with ATG4B: view

Animal Model Products

CRISPR Products

miRNA for ATG4B Gene

miRTarBase miRNAs that target ATG4B

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for ATG4B

In Situ Assay Products

Flow Cytometry Products

No data available for Animal Models , Transcription Factor Targeting and HOMER Transcription for ATG4B Gene

Localization for ATG4B Gene

Subcellular locations from UniProtKB/Swiss-Prot for ATG4B Gene

Cytoplasm.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for ATG4B Gene COMPARTMENTS Subcellular localization image for ATG4B gene
Compartment Confidence
cytosol 2
vacuole 2
cytoskeleton 1
extracellular 1
lysosome 1
nucleus 1
peroxisome 1
plasma membrane 1

Gene Ontology (GO) - Cellular Components for ATG4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm ISS 12446702
GO:0005829 cytosol IBA --
genes like me logo Genes that share ontologies with ATG4B: view

Pathways for ATG4B Gene

SuperPathways for ATG4B Gene

Superpath Contained pathways
1 Regulation of autophagy
genes like me logo Genes that share pathways with ATG4B: view

Pathways by source for ATG4B Gene

1 KEGG pathway for ATG4B Gene

PCR Array Products

  • Pathway & Disease-focused RT² Profiler PCR Arrays

Gene Ontology (GO) - Biological Process for ATG4B 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 15169837
GO:0006612 protein targeting to membrane IBA --
genes like me logo Genes that share ontologies with ATG4B: view

Transcripts for ATG4B Gene

Unigene Clusters for ATG4B Gene

Autophagy related 4B, cysteine peptidase:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for ATG4B

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for ATG4B Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5a · 5b ^ 6a · 6b ^ 7 ^ 8a · 8b · 8c · 8d ^ 9a · 9b ^ 10a · 10b ^ 11a · 11b · 11c ^ 12a · 12b ^
SP1: - - - - - - - - - -
SP2: - - - - - - - - - -
SP3: - - - - - - - - - -
SP4: - - - - - - - - -
SP5: - - - - - - -
SP6: - - - - - - - - - -
SP7: - - - - - - - - - - -
SP8: - - -
SP9: - - - -
SP10: - - - -
SP11: - - -
SP12: - - -
SP13: - -
SP14: -
SP15: -
SP16:

ExUns: 13a · 13b · 13c · 13d · 13e ^ 14a · 14b · 14c
SP1: - -
SP2: - - -
SP3: -
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:
SP13:
SP14: - - -
SP15:
SP16:

Relevant External Links for ATG4B Gene

GeneLoc Exon Structure for
ATG4B
ECgene alternative splicing isoforms for
ATG4B

Expression for ATG4B Gene

mRNA expression in normal human tissues for ATG4B Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for ATG4B Gene

SOURCE GeneReport for Unigene cluster for ATG4B Gene Hs.283610

mRNA Expression by UniProt/SwissProt for ATG4B Gene

Q9Y4P1-ATG4B_HUMAN
Tissue specificity: Mainly expressed in the skeletal muscle, followed by brain, heart, liver and pancreas.
genes like me logo Genes that share expressions with ATG4B: view

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for ATG4B Gene

Orthologs for ATG4B Gene

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

Orthologs for ATG4B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ATG4B 35
  • 99.24 (n)
  • 99.24 (a)
ATG4B 36
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia ATG4B 35
  • 85.58 (n)
  • 90.59 (a)
ATG4B 36
  • 90 (a)
OneToOne
dog
(Canis familiaris)
Mammalia ATG4B 35
  • 89.32 (n)
  • 94.87 (a)
ATG4B 36
  • 94 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Atg4b 35
  • 87.62 (n)
  • 94.66 (a)
Atg4b 16
Atg4b 36
  • 95 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia ATG4B 36
  • 88 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia ATG4B 36
  • 87 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Atg4b 35
  • 85.86 (n)
  • 91.52 (a)
chicken
(Gallus gallus)
Aves ATG4B 35
  • 78.49 (n)
  • 85.71 (a)
ATG4B 36
  • 85 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia ATG4B 36
  • 86 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.14362 35
tropical clawed frog
(Silurana tropicalis)
Amphibia atg4b 35
  • 71.61 (n)
  • 76.82 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.12299 35
zebrafish
(Danio rerio)
Actinopterygii atg4b 35
  • 69.64 (n)
  • 73.98 (a)
atg4b 36
  • 74 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta Atg4 36
  • 39 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea atg-4.1 36
  • 32 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes ATG4 36
  • 20 (a)
OneToMany
bread mold
(Neurospora crassa)
Ascomycetes NCU02433 35
  • 47.73 (n)
  • 40.15 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes atg4 35
  • 44.31 (n)
  • 38.15 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.881 35
sea squirt
(Ciona savignyi)
Ascidiacea CSA.2997 36
  • 45 (a)
OneToMany
Species with no ortholog for ATG4B:
  • 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)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • 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)
  • 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 ATG4B Gene

ENSEMBL:
Gene Tree for ATG4B (if available)
TreeFam:
Gene Tree for ATG4B (if available)

Paralogs for ATG4B Gene

Paralogs for ATG4B Gene

genes like me logo Genes that share paralogs with ATG4B: view

Variants for ATG4B Gene

Sequence variations from dbSNP and Humsavar for ATG4B Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type MAF
rs7421 -- 241,672,519(-) AGAAC(A/G)CTCTG utr-variant-3-prime
rs7740 -- 241,673,718(-) ACATT(A/C)CCACT utr-variant-3-prime
rs7943 -- 241,673,674(-) GGACG(C/T)GGAGC utr-variant-3-prime
rs1130905 -- 241,673,369(+) AAGTA(G/T)CTTTG utr-variant-3-prime
rs1130906 -- 241,673,494(+) GAGCC(A/G)GAGAT utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for ATG4B Gene

Variant ID Type Subtype PubMed ID
nsv876226 CNV Loss 21882294
dgv4493n71 CNV Loss 21882294
nsv876229 CNV Loss 21882294
dgv4494n71 CNV Loss 21882294
dgv4495n71 CNV Loss 21882294
dgv165e55 CNV Loss 17911159
dgv4496n71 CNV Loss 21882294
nsv508901 CNV Insertion 20534489
nsv876242 CNV Loss 21882294
dgv4497n71 CNV Loss 21882294
esv2722014 CNV Deletion 23290073
esv2722015 CNV Deletion 23290073
esv2722016 CNV Deletion 23290073

Relevant External Links for ATG4B Gene

HapMap Linkage Disequilibrium report
ATG4B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ATG4B Gene

Disorders for ATG4B Gene

No disorders were found for ATG4B Gene.

No data available for UniProtKB/Swiss-Prot for ATG4B Gene

Publications for ATG4B 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. HsAtg4B/HsApg4B/autophagin-1 cleaves the carboxyl termini of three human Atg8 homologues and delipidates microtubule-associated protein light chain 3- and GABAA receptor-associated protein-phospholipid conjugates. (PMID: 15187094) Tanida I. … Kominami E. (J. Biol. Chem. 2004) 3 4 23
  3. Prediction of the coding sequences of unidentified human genes. XIII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10231032) Nagase T. … Ohara O. (DNA Res. 1999) 3 4
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  5. LC3, GABARAP and GATE16 localize to autophagosomal membrane depending on form-II formation. (PMID: 15169837) Kabeya Y. … Yoshimori T. (J. Cell Sci. 2004) 3 4

Products for ATG4B Gene

Sources for ATG4B Gene

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