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

    Gene ID: 81631, updated on 3-Nov-2024

    Summary

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    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; AllianceGenome:HGNC:13352
    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
    mouse all
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    Genomic context

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    See MAP1LC3B in Genome Data Viewer
    Location:
    16q24.2
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (87392336..87404774)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (93463228..93475656)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (87425942..87438380)

    Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene C16orf95 divergent transcript Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87364853-87365354 Neighboring gene F-box protein 31 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:87379751-87380306 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87380307-87380861 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87386425-87386966 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:87399801-87400302 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87403399-87404245 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7833 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:87417185-87417838 Neighboring gene uncharacterized LOC124903747 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:87417839-87418490 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11321 Neighboring gene tRNA-Met (anticodon CAT) 6-1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:87424900-87425858 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7837 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7836 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11322 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr16:87440788-87441987 Neighboring gene zinc finger CCHC-type containing 14 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87456781-87457290 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87457291-87457798 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87458817-87459326 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87460343-87460850 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87468667-87469584 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87486642-87487142 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr16:87490779-87491978 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:87502852-87503437 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:87503438-87504022 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87504708-87505665 Neighboring gene nuclear receptor subfamily 3 group C member 1 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7838 Neighboring gene ZCCHC14 divergent transcript

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues 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

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    Related articles in PubMed

    1. Inhibition of microtubule-associated protein 1 light chain 3B via small-interfering RNA or 3-methyladenine impairs hypoxia-induced HO8910PM and HO8910 epithelial ovarian cancer cell migration and invasion and is associated with RhoA and alterations of the actin cytoskeleton. Tang Z, et al. Oncol Rep, 2015 Mar. PMID 25607473
    2. Punctate LC3B expression is a common feature of solid tumors and associated with proliferation, metastasis, and poor outcome. Lazova R, et al. Clin Cancer Res, 2012 Jan 15. PMID 22080440, Free PMC Article
    3. Correlation of altered expression of the autophagy marker LC3B with poor prognosis in astrocytoma. Winardi D, et al. Biomed Res Int, 2014. PMID 24900981, Free PMC Article
    4. Expression and Content of Protein LC3B in Gastric Cancer Tissue, Relationship with Expression of mTOR, AMPK in Gastric Cancer Tissue and HER2 and PD-L1 Status of the Tumor. Spirina LV, et al. Bull Exp Biol Med, 2021 Dec. PMID 34855092
    5. Size, stoichiometry, and organization of soluble LC3-associated complexes. Kraft LJ, et al. Autophagy, 2014 May. PMID 24646892, Free PMC Article

    See all (300) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. LC3B drives transcription-associated homologous recombination via direct interaction with R-loops.
      Title: LC3B drives transcription-associated homologous recombination via direct interaction with R-loops.
    2. Linc00673-V3 positively regulates autophagy by promoting Smad3-mediated LC3B transcription in NSCLC.
      Title: Linc00673-V3 positively regulates autophagy by promoting Smad3-mediated LC3B transcription in NSCLC.
    3. Identifying CTH and MAP1LC3B as ferroptosis biomarkers for prognostic indication in gastric cancer decoding.
      Title: Identifying CTH and MAP1LC3B as ferroptosis biomarkers for prognostic indication in gastric cancer decoding.
    4. Immunohistochemical Expression of Autophagy-Related Marker (LC3B) and Stem Cell Marker (CD44) in Molecular Subtypes of Breast Cancer.
      Title: Immunohistochemical Expression of Autophagy-Related Marker (LC3B) and Stem Cell Marker (CD44) in Molecular Subtypes of Breast Cancer.
    5. LC3B is lipidated to large lipid droplets during prolonged starvation for noncanonical autophagy.
      Title: LC3B is lipidated to large lipid droplets during prolonged starvation for noncanonical autophagy.
    6. Alterations of ATG4A and LC3B in neurons derived from Alzheimer's disease patients.
      Title: Alterations of ATG4A and LC3B in neurons derived from Alzheimer's disease patients.
    7. Superenhancers activate the autophagy-related genes Beclin1 and LC3B to drive metastasis and drug resistance in osteosarcoma.
      Title: Superenhancers activate the autophagy-related genes Beclin1 and LC3B to drive metastasis and drug resistance in osteosarcoma.
    8. SQSTM1 and its MAP1LC3B-binding domain induce forced mitophagy to degrade mitochondrial carryover during mitochondrial replacement therapy.
      Title: SQSTM1 and its MAP1LC3B-binding domain induce forced mitophagy to degrade mitochondrial carryover during mitochondrial replacement therapy.
    9. [Expression and significance of microtubule associated protein 1 light chain 3B, p62 and Beclin1 in lesion tissues of oral lichen planus patients].
      Title: [Expression and significance of microtubule associated protein 1 light chain 3B, p62 and Beclin1 in lesion tissues of oral lichen planus patients].
    10. The effect of MiR-497 on the expression of target genes BCL-2 and LC3B on cardiomyocytes injured by hypoxia/reoxygenation.
      Title: The effect of MiR-497 on the expression of target genes BCL-2 and LC3B on cardiomyocytes injured by hypoxia/reoxygenation.
    Submit: New GeneRIF Correction See all GeneRIFs (119)

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

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

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    HIV-1 interactions

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    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 PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables ceramide binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables microtubule binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables phosphatidylethanolamine binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables phosphatidylethanolamine binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables ubiquitin protein ligase binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin protein ligase binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in autophagosome assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in autophagosome assembly IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in autophagosome maturation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in autophagosome maturation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in autophagy IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in cellular response to nitrogen starvation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in cellular response to starvation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in macroautophagy IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in mitophagy IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mitophagy IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in mitophagy IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in autophagosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in autophagosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    is_active_in autophagosome membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in autophagosome membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in autophagosome membrane TAS
    Traceable Author Statement
    more info
    		  
    located_in axoneme ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytoplasmic vesicle IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol TAS
    Traceable Author Statement
    more info
    		  
    located_in endomembrane system IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in intracellular membrane-bounded organelle IDA
    Inferred from Direct Assay
    more info
    		  
    located_in microtubule IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in mitochondrial membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in mitochondrion IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in organelle membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 

    General protein information

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    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)

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    NEW Try the new Transcript table

    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_029030.2 RefSeqGene

      Range
      5002..17440
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_022818.5 → NP_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)
      AC010531
      Consensus CDS
      CCDS10960.1
      UniProtKB/Swiss-Prot
      Q6NW02, Q9GZQ8
      UniProtKB/TrEMBL
      Q658J6
      Related
      ENSP00000268607.5, ENST00000268607.10
      Conserved Domains (1) summary
      cd17235
      Location:5 → 119
      Ubl_ATG8_MAP1LC3B; ubiquitin-like (Ubl) domain found in microtubule associate protein 1 light chain 3B (MAP1LC3B)

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000016.10 Reference GRCh38.p14 Primary Assembly

      Range
      87392336..87404774
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060940.1 Alternate T2T-CHM13v2.0

      Range
      93463228..93475656
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9GZQ8.3 GenPept UniProtKB/Swiss-Prot:Q9GZQ8

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
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