Format

Send to:

Choose Destination

MAP1LC3A microtubule associated protein 1 light chain 3 alpha [ Homo sapiens (human) ]

Gene ID: 84557, updated on 10-Dec-2019

Summary

Official Symbol
MAP1LC3Aprovided by HGNC
Official Full Name
microtubule associated protein 1 light chain 3 alphaprovided by HGNC
Primary source
HGNC:HGNC:6838
See related
Ensembl:ENSG00000101460 MIM:601242
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
LC3; LC3A; ATG8E; MAP1ALC3; MAP1BLC3
Summary
MAP1A and MAP1B are microtubule-associated proteins which mediate the physical interactions between microtubules and components of the cytoskeleton. MAP1A and MAP1B each consist of a heavy chain subunit and multiple light chain subunits. The protein encoded by this gene is one of the light chain subunits and can associate with either MAP1A or MAP1B. Two transcript variants encoding different isoforms have been found for this gene. The expression of variant 1 is suppressed in many tumor cell lines, suggesting that may be involved in carcinogenesis. [provided by RefSeq, Feb 2012]
Expression
Ubiquitous expression in brain (RPKM 31.2), fat (RPKM 18.3) and 25 other tissues See more
Orthologs

Genomic context

See MAP1LC3A in Genome Data Viewer
Location:
20q11.22
Exon count:
7
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 20 NC_000020.11 (34546823..34560345)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (33134688..33148149)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene itchy E3 ubiquitin protein ligase Neighboring gene ferredoxin 1 pseudogene 1 Neighboring gene dynein light chain roadblock-type 1 Neighboring gene phosphatidylinositol glycan anchor biosynthesis class U Neighboring gene uncharacterized LOC105372599

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?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 Env gp120 treatment of SH-SY5Y cells increases MAP1LC3A (LC3-II, membrane-associated lipidated form) which indicates induction of autophagy PubMed
env HIV-1 gp120 downregulates the expression of nucleolin and modulates the expression of LC3, leading to autophage and cell death of uninfected CD4 T cells PubMed
Nef nef HIV-1 Nef-treated mesenchymal stem cells downregulates the conversion of LC3I to LC3II, reflecting a decrease in autophagic efflux in cells PubMed
Pr55(Gag) gag HIV-1 Gag fractionates with the cellular cytosol markers LC3A/B and the plasma membrane marker Na-K ATPase in 293T cells PubMed
Tat tat HIV-1 Tat upregulates MAP1LC3A (LC3-II) levels suggesting increased autophagy in primary rat or human fetal brain tissue PubMed
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
vif The domain 144-159 inside the SOCS box-like motif of HIV-1 Vif and the glycine 120 of microtubule-associated protein light chain 3 (LC3) are required for the binding between Vif and LC3 PubMed
vif GST pull-down assay demonstrates that HIV-1 Vif physically interacts with light chain 3 proteins LC3A, LC3B, and LC3C in HEK cells PubMed
capsid gag HIV-1 CA co-localizes with LC3 in Jurkat cells and primary CD4+ T cells PubMed
retropepsin gag-pol HIV-1 protease extensively cleaves microtubule-associated proteins 1 and 2 and completely inhibits microtubule assembly PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Cellular responses to stress, organism-specific biosystem (from REACTOME)
    Cellular responses to stress, organism-specific biosystemCells are subject to external molecular and physical stresses such as foreign molecules that perturb metabolic or signaling processes, and changes in temperature or pH. The ability of cells and tissu...
  • Factors and pathways affecting insulin-like growth factor (IGF1)-Akt signaling, organism-specific biosystem (from WikiPathways)
    Factors and pathways affecting insulin-like growth factor (IGF1)-Akt signaling, organism-specific biosystemThe signaling pathway that involves insulin-like growth factor 1 (IGF1), and a variety of other components that affect the pathway, plays an important role in the regulation of skeletal muscle growth...
  • Ferroptosis, organism-specific biosystem (from KEGG)
    Ferroptosis, organism-specific biosystemFerroptosis is a regulated form of cell death and characterized by a production of reactive oxygen species (ROS) from accumulated iron and lipid peroxidation. It can be induced by experimental compou...
  • Ferroptosis, conserved biosystem (from KEGG)
    Ferroptosis, conserved biosystemFerroptosis is a regulated form of cell death and characterized by a production of reactive oxygen species (ROS) from accumulated iron and lipid peroxidation. It can be induced by experimental compou...
  • Macroautophagy, organism-specific biosystem (from REACTOME)
    Macroautophagy, organism-specific biosystemMacroautophagy (hereafter referred to as autophagy) acts as a buffer against starvation by liberating building materials and energy sources from cellular components. It has additional roles in embryo...
  • Mitophagy, organism-specific biosystem (from REACTOME)
    Mitophagy, organism-specific biosystemMitophagy is a specific form of autophagy where mitochondria are specifically targeted for degradation by autophagolysosomes.. In mammals there are a number of known mechanisms of mitophagy. One insu...
  • Nanoparticle triggered autophagic cell death, organism-specific biosystem (from WikiPathways)
    Nanoparticle triggered autophagic cell death, organism-specific biosystemProgrammed cell death: autophagic cell death. Autophagy (self-eating) is a survival mechanism deployed by cells to cope with conditions of nutrient deprivation. However, unrestrained autophagy can re...
  • Pink/Parkin Mediated Mitophagy, organism-specific biosystem (from REACTOME)
    Pink/Parkin Mediated Mitophagy, organism-specific biosystemThis is the process of selective removal of damaged mitochondria by autophagosomes and subsequent catabolism by lysosomes. In healthy mitochondria, PINK1 is imported to the inner mitochondrial membra...
  • Senescence and Autophagy in Cancer, organism-specific biosystem (from WikiPathways)
    Senescence and Autophagy in Cancer, organism-specific biosystemSenescense and Autophagy Pathways in Cancer

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
microtubule binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
phosphatidylethanolamine binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
phosphatidylethanolamine binding IDA
Inferred from Direct Assay
more info
PubMed 
phospholipid binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
ubiquitin protein ligase binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ubiquitin protein ligase binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
autophagosome assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
autophagosome assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
autophagosome assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
autophagosome maturation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
autophagosome maturation IDA
Inferred from Direct Assay
more info
PubMed 
autophagosome maturation TAS
Traceable Author Statement
more info
 
autophagy of mitochondrion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
autophagy of mitochondrion IGI
Inferred from Genetic Interaction
more info
PubMed 
cellular response to amino acid starvation IEA
Inferred from Electronic Annotation
more info
 
cellular response to copper ion IEA
Inferred from Electronic Annotation
more info
 
cellular response to hydrogen peroxide IEA
Inferred from Electronic Annotation
more info
 
cellular response to nitrogen starvation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cellular response to starvation IDA
Inferred from Direct Assay
more info
PubMed 
macroautophagy IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
macroautophagy IDA
Inferred from Direct Assay
more info
PubMed 
macroautophagy TAS
Traceable Author Statement
more info
 
response to iron(II) ion IEA
Inferred from Electronic Annotation
more info
 
response to lead ion IEA
Inferred from Electronic Annotation
more info
 
response to morphine IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
autolysosome IDA
Inferred from Direct Assay
more info
PubMed 
autophagosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
autophagosome IDA
Inferred from Direct Assay
more info
PubMed 
autophagosome membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
autophagosome membrane TAS
Traceable Author Statement
more info
 
cytosol IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
 
late endosome IEA
Inferred from Electronic Annotation
more info
 
microtubule IEA
Inferred from Electronic Annotation
more info
 
organelle membrane IDA
Inferred from Direct Assay
more info
PubMed 
synapse IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
microtubule-associated proteins 1A/1B light chain 3A
Names
MAP1 light chain 3-like protein 1
MAP1A/1B light chain 3 A
MAP1A/MAP1B LC3 A
MAP1A/MAP1B light chain 3 A
autophagy-related ubiquitin-like modifier LC3 A
microtubule-associated proteins 1A/1B light chain 3

NCBI Reference Sequences (RefSeq)

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_032514.4NP_115903.1  microtubule-associated proteins 1A/1B light chain 3A isoform a

    See identical proteins and their annotated locations for NP_115903.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the predominant isoform (a).
    Source sequence(s)
    AF276658, BP212418, EL954540
    Consensus CDS
    CCDS13238.1
    UniProtKB/Swiss-Prot
    Q9H492
    Related
    ENSP00000353886.3, ENST00000360668.8
    Conserved Domains (1) summary
    cd17234
    Location:4120
    Ubl_ATG8_MAP1LC3A; ubiquitin-like (Ubl) domain found in microtubule associate protein 1 light chain 3A (MAP1LC3A)
  2. NM_181509.3NP_852610.1  microtubule-associated proteins 1A/1B light chain 3A isoform b

    See identical proteins and their annotated locations for NP_852610.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and coding region compared to variant 1, resulting in an isoform (b) which has a distinct N-terminus compared to isoform a.
    Source sequence(s)
    AF276658, AL118520, BM740344, BP212418
    Consensus CDS
    CCDS13237.1
    UniProtKB/Swiss-Prot
    Q9H492
    Related
    ENSP00000363970.3, ENST00000374837.7
    Conserved Domains (1) summary
    cd01611
    Location:18124
    GABARAP; Ubiquitin domain of GABA-receptor-associated protein

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000020.11 Reference GRCh38.p13 Primary Assembly

    Range
    34546823..34560345
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011529084.2XP_011527386.1  microtubule-associated proteins 1A/1B light chain 3A isoform X1

    See identical proteins and their annotated locations for XP_011527386.1

    Conserved Domains (2) summary
    cd01611
    Location:109222
    GABARAP; Ubiquitin domain of GABA-receptor-associated protein
    pfam01453
    Location:3071
    B_lectin; D-mannose binding lectin
  2. XM_011529083.2XP_011527385.1  microtubule-associated proteins 1A/1B light chain 3A isoform X1

    See identical proteins and their annotated locations for XP_011527385.1

    Conserved Domains (2) summary
    cd01611
    Location:109222
    GABARAP; Ubiquitin domain of GABA-receptor-associated protein
    pfam01453
    Location:3071
    B_lectin; D-mannose binding lectin
  3. XM_011529085.2XP_011527387.1  microtubule-associated proteins 1A/1B light chain 3A isoform X2

    Conserved Domains (1) summary
    cd01611
    Location:68181
    GABARAP; Ubiquitin domain of GABA-receptor-associated protein
Support Center