Free for academic non-profit institutions. Other users need a Commercial license

Aliases for ATG4B Gene

Aliases for ATG4B Gene

  • Autophagy Related 4B Cysteine Peptidase 2 3
  • Autophagy Related 4B, Cysteine Peptidase 2 3 5
  • 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
  • APG4B 3 4
  • AUTL1 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
  • 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 and Cellular Senescence. GO annotations related to this gene include peptidase activity and cysteine-type peptidase 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

Enhancers for ATG4B Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around ATG4B on UCSC Golden Path with GeneCards custom track

Promoters for ATG4B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around ATG4B on UCSC Golden Path with GeneCards custom track

Genomic Location for ATG4B Gene

Chromosome:
2
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

Genes around ATG4B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ATG4B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
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)
  • Abcam antibodies for ATG4B

Domains & Families for ATG4B Gene

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

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
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

  • Taconic Biosciences Mouse Models for ATG4B

miRNA for ATG4B Gene

miRTarBase miRNAs that target ATG4B

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets 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 4
lysosome 2
vacuole 2
cytoskeleton 1
extracellular 1
mitochondrion 1
nucleus 1
peroxisome 1
plasma membrane 1

No data available for Gene Ontology (GO) - Cellular Components for ATG4B Gene

Pathways & Interactions for ATG4B Gene

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

Pathways by source for ATG4B Gene

1 GeneTex pathway for ATG4B Gene
2 Reactome pathways for ATG4B Gene
1 KEGG pathway for ATG4B Gene
1 R&D Systems pathway for ATG4B Gene

SIGNOR curated interactions for ATG4B Gene

Gene Ontology (GO) - Biological Process for ATG4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000422 mitophagy IBA --
GO:0006501 C-terminal protein lipidation IBA --
GO:0006508 proteolysis IEA,IDA 15169837
GO:0006612 protein targeting to membrane IBA --
GO:0006914 autophagy IEA,IGI 12446702
genes like me logo Genes that share ontologies with ATG4B: view

Drugs & Compounds for ATG4B Gene

(8) Drugs for ATG4B Gene - From: ApexBio

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Nimodipine Approved Pharma Potentiation, Activator 21
Omeprazole Approved, Investigational Pharma Activator H+,K+-ATPase inhibitor 327
Nocodazole Experimental Pharma Tubulin production inhibitor,anti-neoplastic agent, Microtubule inhibitor 0
Chloroquine diphosphate Pharma Antimalarial drug 142
Dexamethasone (DHAP) Pharma Glucocorticoidan;ti-inflammatory 0

(8) ApexBio Compounds for ATG4B Gene

Compound Action Cas Number
Chloroquine diphosphate Antimalarial drug 50-63-5
Dexamethasone (DHAP) Glucocorticoidan;ti-inflammatory 1950-02-2
Divalproex Sodium Epilepsy/migraines/bipolar disorder medicine 76584-70-8
Nimodipine 66085-59-4
Nocodazole Tubulin production inhibitor,anti-neoplastic agent 31430-18-9
Omeprazole H+,K+-ATPase inhibitor 73590-58-6
Sulfacetamide Sodium Sulfonamide antibiotic 127-56-0
Trifluoperazine 2HCl 440-17-5
genes like me logo Genes that share compounds with ATG4B: view

Transcripts for ATG4B Gene

Unigene Clusters for ATG4B Gene

Autophagy related 4B, cysteine peptidase:
Representative Sequences:

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for ATG4B Gene

This gene is overexpressed in Peripheral blood mononuclear cells (14.2), Monocytes (9.9), and Testis (7.6).

Integrated Proteomics: protein expression in normal tissues and cell lines 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 expression patterns with ATG4B: view

Protein tissue co-expression partners for ATG4B Gene

- Elite partner

Primer Products

No data available for 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
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
chimpanzee
(Pan troglodytes)
Mammalia ATG4B 35
  • 99.24 (n)
  • 99.24 (a)
ATG4B 36
  • 99 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Atg4b 35
  • 85.86 (n)
  • 91.52 (a)
oppossum
(Monodelphis domestica)
Mammalia ATG4B 36
  • 88 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia ATG4B 36
  • 87 (a)
OneToOne
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
tropical clawed frog
(Silurana tropicalis)
Amphibia atg4b 35
  • 71.61 (n)
  • 76.82 (a)
African clawed frog
(Xenopus laevis)
Amphibia Xl.14362 35
zebrafish
(Danio rerio)
Actinopterygii atg4b 35
  • 69.64 (n)
  • 73.98 (a)
atg4b 36
  • 74 (a)
OneToOne
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.12299 35
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
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.881 35
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 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
rs7601000 - 241,671,358(+) GGAGC(A/T)GCAGC reference, missense
rs3190329 -- 241,673,731(+) GGGAC(A/C)CCTTG utr-variant-3-prime
rs3209928 -- 241,673,072(+) GACAG(C/T)CAGGC downstream-variant-500B, utr-variant-3-prime
rs6747920 -- 241,660,354(+) TCTTC(A/G)TCGTC intron-variant
rs6749008 -- 241,640,779(+) ggctc(A/G)ggtgc intron-variant

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

Variation tolerance for ATG4B Gene

Residual Variation Intolerance Score: 80.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.55; 64.93% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for ATG4B Gene

Disorders for ATG4B Gene

Relevant External Links for ATG4B

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
ATG4B

No disorders were found for ATG4B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas 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 67
  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 23
  3. HIV-1 viral infectivity factor interacts with microtubule-associated protein light chain 3 and inhibits autophagy. (PMID: 25490467) Borel S. … Biard-Piechaczyk M. (AIDS 2015) 3
  4. [The expression, purification and characterization of human His-ATG4B protein]. (PMID: 25652856) Huang R. … Ye Q. (Xi Bao Yu Fen Zi Mian Yi Xue Za Zhi 2015) 3
  5. Autophagy modulates the effects of bis-anthracycline WP631 on p53-deficient prostate cancer cells. (PMID: 25689150) Mansilla S. … Portugal J. (J. Cell. Mol. Med. 2015) 3

Products for ATG4B Gene

Sources for ATG4B Gene

Content