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ATG4B (autophagy related 4B cysteine peptidase)

Identity

Alias_namesAPG4B
APG4 autophagy 4 homolog B (S. cerevisiae)
ATG4 autophagy related 4 homolog B (S. cerevisiae)
autophagy related 4B, cysteine peptidase
Alias_symbol (synonym)Apg4B
KIAA0943
DKFZp586D1822
AUTL1
Other alias
HGNC (Hugo) ATG4B
LocusID (NCBI) 23192
Atlas_Id 672
Location 2q37.3  [Link to chromosome band 2q37]
Location_base_pair Starts at 241637612 and ends at 241673856 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)		Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
ATG4B (2q37.3) / CHRDL1 (Xq23)ATG4B (2q37.3) / DTYMK (2q37.3)BMPR2 (2q33.1) / ATG4B (2q37.3)
ATG4B 2q37.3 / DTYMK 2q37.3BMPR2 2q33.1 / ATG4B 2q37.3

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 2 ]

Solid Tumors TT_t0202q33q37ID105365 TT_t0202q37q37ID105386

External links

Nomenclature
HGNC (Hugo)ATG4B   20790
Cards
Entrez_Gene (NCBI)ATG4B  23192  autophagy related 4B cysteine peptidase
AliasesAPG4B; AUTL1
GeneCards (Weizmann)ATG4B
Ensembl hg19 (Hinxton)ENSG00000168397 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000168397 [Gene_View]  ENSG00000168397 [Sequence]  chr2:241637612-241673856 [Contig_View]  ATG4B [Vega]
ICGC DataPortalENSG00000168397
TCGA cBioPortalATG4B
AceView (NCBI)ATG4B
Genatlas (Paris)ATG4B
WikiGenes23192
SOURCE (Princeton)ATG4B
Genetics Home Reference (NIH)ATG4B
Genomic and cartography
GoldenPath hg38 (UCSC)ATG4B  -     chr2:241637612-241673856 +  2q37.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)ATG4B  -     2q37.3   [Description]    (hg19-Feb_2009)
GoldenPathATG4B - 2q37.3 [CytoView hg19]  ATG4B - 2q37.3 [CytoView hg38]
ImmunoBaseENSG00000168397
Mapping of homologs : NCBIATG4B [Mapview hg19]  ATG4B [Mapview hg38]
OMIM611338   
Gene and transcription
Genbank (Entrez)AB023160 AB066215 AJ504652 AK027332 AK027462
RefSeq transcript (Entrez)NM_013325 NM_178326
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)ATG4B
Cluster EST : UnigeneHs.283610 [ NCBI ]
CGAP (NCI)Hs.283610
Alternative Splicing GalleryENSG00000168397
Gene ExpressionATG4B [ NCBI-GEO ]   ATG4B [ EBI - ARRAY_EXPRESS ]   ATG4B [ SEEK ]   ATG4B [ MEM ]
Gene Expression Viewer (FireBrowse)ATG4B [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)23192
GTEX Portal (Tissue expression)ATG4B
Human Protein AtlasENSG00000168397-ATG4B [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9Y4P1   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9Y4P1  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9Y4P1
Splice isoforms : SwissVarQ9Y4P1
PhosPhoSitePlusQ9Y4P1
Domains : Interpro (EBI)ATG4B_met    Peptidase_C54   
Domain families : Pfam (Sanger)Peptidase_C54 (PF03416)   
Domain families : Pfam (NCBI)pfam03416   
Conserved Domain (NCBI)ATG4B
DMDM Disease mutations23192
Blocks (Seattle)ATG4B
PDB (RSDB)2CY7    2D1I    2Z0D    2Z0E    2ZZP    5LXH    5LXI   
PDB Europe2CY7    2D1I    2Z0D    2Z0E    2ZZP    5LXH    5LXI   
PDB (PDBSum)2CY7    2D1I    2Z0D    2Z0E    2ZZP    5LXH    5LXI   
PDB (IMB)2CY7    2D1I    2Z0D    2Z0E    2ZZP    5LXH    5LXI   
Structural Biology KnowledgeBase2CY7    2D1I    2Z0D    2Z0E    2ZZP    5LXH    5LXI   
SCOP (Structural Classification of Proteins)2CY7    2D1I    2Z0D    2Z0E    2ZZP    5LXH    5LXI   
CATH (Classification of proteins structures)2CY7    2D1I    2Z0D    2Z0E    2ZZP    5LXH    5LXI   
SuperfamilyQ9Y4P1
Human Protein Atlas [tissue]ENSG00000168397-ATG4B [tissue]
Peptide AtlasQ9Y4P1
HPRD16499
IPIIPI00554649   IPI00746254   IPI00941681   IPI00647200   IPI00787501   IPI01018366   IPI00937313   IPI00470477   IPI00892636   IPI00892755   IPI00894423   IPI00894144   IPI00894238   IPI00893720   
Protein Interaction databases
DIP (DOE-UCLA)Q9Y4P1
IntAct (EBI)Q9Y4P1
FunCoupENSG00000168397
BioGRIDATG4B
STRING (EMBL)ATG4B
ZODIACATG4B
Ontologies - Pathways
QuickGOQ9Y4P1
Ontology : AmiGOautophagosome assembly  endopeptidase activity  cysteine-type endopeptidase activity  protein binding  cytosol  proteolysis  autophagy  cysteine-type peptidase activity  protein transport  macroautophagy  positive regulation of protein catabolic process  protein delipidation  protein delipidation  
Ontology : EGO-EBIautophagosome assembly  endopeptidase activity  cysteine-type endopeptidase activity  protein binding  cytosol  proteolysis  autophagy  cysteine-type peptidase activity  protein transport  macroautophagy  positive regulation of protein catabolic process  protein delipidation  protein delipidation  
Pathways : KEGGRegulation of autophagy   
NDEx NetworkATG4B
Atlas of Cancer Signalling NetworkATG4B
Wikipedia pathwaysATG4B
Orthology - Evolution
OrthoDB23192
GeneTree (enSembl)ENSG00000168397
Phylogenetic Trees/Animal Genes : TreeFamATG4B
HOGENOMQ9Y4P1
Homologs : HomoloGeneATG4B
Homology/Alignments : Family Browser (UCSC)ATG4B
Gene fusions - Rearrangements
Fusion : MitelmanATG4B/DTYMK [2q37.3/2q37.3]  
Fusion : MitelmanBMPR2/ATG4B [2q33.1/2q37.3]  [t(2;2)(q33;q37)]  
Fusion PortalATG4B 2q37.3 DTYMK 2q37.3 GBM
Fusion PortalBMPR2 2q33.1 ATG4B 2q37.3 LUSC
Fusion : QuiverATG4B
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerATG4B [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)ATG4B
dbVarATG4B
ClinVarATG4B
1000_GenomesATG4B 
Exome Variant ServerATG4B
ExAC (Exome Aggregation Consortium)ENSG00000168397
GNOMAD BrowserENSG00000168397
Varsome BrowserATG4B
Genetic variants : HAPMAP23192
Genomic Variants (DGV)ATG4B [DGVbeta]
DECIPHERATG4B [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisATG4B 
Mutations
ICGC Data PortalATG4B 
TCGA Data PortalATG4B 
Broad Tumor PortalATG4B
OASIS PortalATG4B [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICATG4B  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DATG4B
Mutations and Diseases : HGMDATG4B
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch ATG4B
DgiDB (Drug Gene Interaction Database)ATG4B
DoCM (Curated mutations)ATG4B (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)ATG4B (select a term)
intoGenATG4B
Cancer3DATG4B(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM611338   
Orphanet
DisGeNETATG4B
MedgenATG4B
Genetic Testing Registry ATG4B
NextProtQ9Y4P1 [Medical]
TSGene23192
GENETestsATG4B
Target ValidationATG4B
Huge Navigator ATG4B [HugePedia]
snp3D : Map Gene to Disease23192
BioCentury BCIQATG4B
ClinGenATG4B
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD23192
Chemical/Pharm GKB GenePA134898340
Clinical trialATG4B
Miscellaneous
canSAR (ICR)ATG4B (select the gene name)
DataMed IndexATG4B
Probes
Litterature
PubMed59 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineATG4B
EVEXATG4B
GoPubMedATG4B
iHOPATG4B
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Jan 27 14:32:19 CET 2020
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