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ATG4B autophagy related 4B cysteine peptidase [ Homo sapiens (human) ]

Gene ID: 23192, updated on 17-Jul-2021

Summary

Official Symbol
ATG4Bprovided by HGNC
Official Full Name
autophagy related 4B cysteine peptidaseprovided by HGNC
Primary source
HGNC:HGNC:20790
See related
Ensembl:ENSG00000168397 MIM:611338
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
APG4B; AUTL1
Summary
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]
Expression
Ubiquitous expression in testis (RPKM 14.5), duodenum (RPKM 12.3) and 25 other tissues See more
Orthologs
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Genomic context

See ATG4B in Genome Data Viewer
Location:
2q37.3
Exon count:
16
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 2 NC_000002.12 (241637659..241673857)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (242577108..242613272)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105373975 Neighboring gene BCL2 family apoptosis regulator BOK Neighboring gene RNA, 5S ribosomal pseudogene 122 Neighboring gene THAP domain containing 4 Neighboring gene deoxythymidylate kinase Neighboring gene inhibitor of growth family member 5

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
Identification of 23 new prostate cancer susceptibility loci using the iCOGS custom genotyping array.
GeneReviews: Not available

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Vif vif HIV-1 Vif binds more strongly to autophagy-related protein 4 (ATG4)-cleaved form I (LC3-I) than to ATG4-cleaved form II (LC3-II) in an A3G-independent manner PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC1353

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables cysteine-type endopeptidase activity TAS
Traceable Author Statement
more info
 
enables cysteine-type peptidase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables endopeptidase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables scaffold protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in autophagy IDA
Inferred from Direct Assay
more info
PubMed 
involved_in macroautophagy TAS
Traceable Author Statement
more info
 
involved_in positive regulation of protein catabolic process IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within protein delipidation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in protein transport IEA
Inferred from Electronic Annotation
more info
 
involved_in proteolysis IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
located_in cytosol TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
cysteine protease ATG4B
Names
APG4 autophagy 4 homolog B
ATG4 autophagy related 4 homolog B
AUT-like 1 cysteine endopeptidase
autophagin-1
autophagy-related cysteine endopeptidase 1
autophagy-related protein 4 homolog B
hAPG4B
NP_037457.3
NP_847896.1
XP_005247049.2
XP_005247050.2
XP_005247052.1
XP_005247053.1
XP_016859126.1
XP_016859127.1
XP_016859128.1
XP_016859129.1
XP_024308533.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_013325.5NP_037457.3  cysteine protease ATG4B isoform a

    See identical proteins and their annotated locations for NP_037457.3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) is the predominant transcript and it encodes the longer isoform (a).
    Source sequence(s)
    AK123425, AK125277, AL080168, BC000719
    Consensus CDS
    CCDS46564.1
    UniProtKB/Swiss-Prot
    Q9Y4P1
    UniProtKB/TrEMBL
    B3KVU2
    Related
    ENSP00000384259.3, ENST00000404914.8
    Conserved Domains (1) summary
    pfam03416
    Location:40335
    Peptidase_C54; Peptidase family C54
  2. NM_178326.3NP_847896.1  cysteine protease ATG4B isoform b

    See identical proteins and their annotated locations for NP_847896.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the 3' coding region, compared to variant 1, that causes a frameshift. The resulting isoform (b) is shorter and has a distinct C-terminus compared to isoform a.
    Source sequence(s)
    AK027763, AK125277, AL080168, AL133638
    Consensus CDS
    CCDS46565.1
    UniProtKB/Swiss-Prot
    Q9Y4P1
    Related
    ENSP00000383964.3, ENST00000405546.7
    Conserved Domains (1) summary
    pfam03416
    Location:40335
    Peptidase_C54; Peptidase family C54

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p13 Primary Assembly

    Range
    241637659..241673857
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005246992.4XP_005247049.2  cysteine protease ATG4B isoform X1

    Conserved Domains (1) summary
    pfam03416
    Location:40335
    Peptidase_C54; Peptidase family C54
  2. XM_005246993.3XP_005247050.2  cysteine protease ATG4B isoform X7

    See identical proteins and their annotated locations for XP_005247050.2

    Related
    ENSP00000384661.1, ENST00000402096.5
    Conserved Domains (1) summary
    pfam03416
    Location:40335
    Peptidase_C54; Peptidase family C54
  3. XM_024452765.1XP_024308533.1  cysteine protease ATG4B isoform X6

    Conserved Domains (1) summary
    pfam03416
    Location:1205
    Peptidase_C54; Peptidase family C54
  4. XM_017003639.2XP_016859128.1  cysteine protease ATG4B isoform X4

    Conserved Domains (1) summary
    pfam03416
    Location:1261
    Peptidase_C54; Peptidase family C54
  5. XM_005246996.2XP_005247053.1  cysteine protease ATG4B isoform X5

    Conserved Domains (1) summary
    pfam03416
    Location:1261
    Peptidase_C54; Peptidase family C54
  6. XM_005246995.4XP_005247052.1  cysteine protease ATG4B isoform X4

    Related
    ENST00000482507.5
    Conserved Domains (1) summary
    pfam03416
    Location:1261
    Peptidase_C54; Peptidase family C54
  7. XM_017003640.1XP_016859129.1  cysteine protease ATG4B isoform X5

    Conserved Domains (1) summary
    pfam03416
    Location:1261
    Peptidase_C54; Peptidase family C54
  8. XM_017003637.1XP_016859126.1  cysteine protease ATG4B isoform X2

  9. XM_017003638.1XP_016859127.1  cysteine protease ATG4B isoform X3

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