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MAP1LC3B microtubule associated protein 1 light chain 3 beta [ Homo sapiens (human) ]

Gene ID: 81631, updated on 12-Aug-2018

Summary

Official Symbol
MAP1LC3Bprovided by HGNC
Official Full Name
microtubule associated protein 1 light chain 3 betaprovided by HGNC
Primary source
HGNC:HGNC:13352
See related
Ensembl:ENSG00000140941 MIM:609604; Vega:OTTHUMG00000137654
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
LC3B; ATG8F; MAP1LC3B-a; MAP1A/1BLC3
Summary
The product of this gene is a subunit of neuronal microtubule-associated MAP1A and MAP1B proteins, which are involved in microtubule assembly and important for neurogenesis. Studies on the rat homolog implicate a role for this gene in autophagy, a process that involves the bulk degradation of cytoplasmic component. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in bone marrow (RPKM 94.3), brain (RPKM 58.8) and 25 other tissues See more
Orthologs

Genomic context

See MAP1LC3B in Genome Data Viewer
Location:
16q24.2
Exon count:
4
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 16 NC_000016.10 (87392195..87404774)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (87423157..87438380)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101928659 Neighboring gene F-box protein 31 Neighboring gene transfer RNA-Met (CAT) 6-1 Neighboring gene zinc finger CCHC-type containing 14 Neighboring gene nuclear receptor subfamily 3 group C member 1 pseudogene 1 Neighboring gene uncharacterized LOC101928737

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 Jun 15 11:32:44 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
A mega-analysis of genome-wide association studies for major depressive disorder.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Asp asp ASP interacts and colocalizes with LC3b in a punctate manner in COS-7 cells PubMed
asp HIV-1 ASP expression upregulates the levels of two autophagy markers, LC3b and Beclin 1 in COS-7 cells, suggesting ASP activates autophagy in mammalian cells PubMed
Envelope surface glycoprotein gp120 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
Envelope surface glycoprotein gp160, precursor env HIV-1 Env-mediated autophagy induces upregulation of LC3B expression in CD4/X4 HEK 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
gag Protein/protein interactions of virus/autophagy-associated proteins by yeast two-hybrid array reveals the interaction between HIV-1 Gag and microtubule-associated proteins 1A/1B light chain 3B (MAP1LC3B) PubMed
Tat tat HIV-1 Tat co-localizes with microtubule-associated protein 1 light chain 3 beta in neuronal cells PubMed
tat HIV-1 Tat downregulates microtubule-associated protein 1 light chain 3 beta levels in a dose-dependent manner in neuronal cells PubMed
tat HIV-1 Tat upregulates the levels of BAG3 in human glioblastoma cells, and BAG3 silencing results in highly reducing Tat-induced upregulation of LC3-II and increasing the appearance of sub G0/G1 apoptotic cells PubMed
tat HIV-1 Tat suppresses IFN-gamma-induced LC3B protein expression and autophagosome formation through Tat-mediated suppression of STAT1 phosphorylation 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...
  • 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...
  • Membrane Trafficking, organism-specific biosystem (from REACTOME)
    Membrane Trafficking, organism-specific biosystemThe secretory membrane system allows a cell to regulate delivery of newly synthesized proteins, carbohydrates, and lipids to the cell surface, a necessity for growth and homeostasis. The system is ma...
  • 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...
  • 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
  • TBC/RABGAPs, organism-specific biosystem (from REACTOME)
    TBC/RABGAPs, organism-specific biosystemRab GTPases are peripheral membrane proteins involved in membrane trafficking. Often through their indirect interactions with coat components, motors, tethering factors and SNAREs, the Rab GTPases se...
  • Vesicle-mediated transport, organism-specific biosystem (from REACTOME)
    Vesicle-mediated transport, organism-specific biosystemThe transit of proteins and other cargo through the cell requires a cellular transport process in which transported substances are moved in membrane-bounded vesicles. Transported substances are enclo...

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 
protein binding IPI
Inferred from Physical Interaction
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 maturation IDA
Inferred from Direct Assay
more info
PubMed 
autophagosome maturation TAS
Traceable Author Statement
more info
 
autophagy IDA
Inferred from Direct Assay
more info
PubMed 
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 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 IDA
Inferred from Direct Assay
more info
PubMed 
macroautophagy TAS
Traceable Author Statement
more info
 
positive regulation of mucus secretion IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
autolysosome IEA
Inferred from Electronic Annotation
more info
 
autophagosome IDA
Inferred from Direct Assay
more info
PubMed 
autophagosome ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
autophagosome membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
autophagosome membrane TAS
Traceable Author Statement
more info
 
axoneme ISS
Inferred from Sequence or Structural Similarity
more info
 
cytoplasmic vesicle IEA
Inferred from Electronic Annotation
more info
 
cytosol IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
endomembrane system IEA
Inferred from Electronic Annotation
more info
 
intracellular IDA
Inferred from Direct Assay
more info
 
microtubule IEA
Inferred from Electronic Annotation
more info
 
mitochondrion IDA
Inferred from Direct Assay
more info
PubMed 
organelle membrane ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 

General protein information

Preferred Names
microtubule-associated proteins 1A/1B light chain 3B
Names
MAP1 light chain 3-like protein 2
MAP1A/MAP1B LC3 B
MAP1A/MAP1B light chain 3 B
autophagy-related ubiquitin-like modifier LC3 B

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.

Genomic

  1. NG_029030.1 RefSeqGene

    Range
    5001..17580
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_022818.4NP_073729.1  microtubule-associated proteins 1A/1B light chain 3B

    See identical proteins and their annotated locations for NP_073729.1

    Status: REVIEWED

    Source sequence(s)
    AK025556, AL834298, DA577457, DB055844
    Consensus CDS
    CCDS10960.1
    UniProtKB/Swiss-Prot
    Q9GZQ8
    UniProtKB/TrEMBL
    Q658J6
    Related
    ENSP00000268607.5, OTTHUMP00000175009, ENST00000268607.9, OTTHUMT00000269106
    Conserved Domains (1) summary
    cd01611
    Location:7120
    GABARAP; Ubiquitin domain of GABA-receptor-associated protein

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p12 Primary Assembly

    Range
    87392195..87404774
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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