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MAP1LC3C microtubule associated protein 1 light chain 3 gamma [ Homo sapiens (human) ]

Gene ID: 440738, updated on 14-Nov-2024

Summary

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Official Symbol
MAP1LC3Cprovided by HGNC
Official Full Name
microtubule associated protein 1 light chain 3 gammaprovided by HGNC
Primary source
HGNC:HGNC:13353
See related
Ensembl:ENSG00000197769 MIM:609605; AllianceGenome:HGNC:13353
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
LC3C; ATG8J
Summary
Autophagy is a highly regulated bulk degradation process that plays an important role in cellular maintenance and development. MAP1LC3C is an ortholog of the yeast autophagosome protein Atg8 (He et al., 2003 [PubMed 12740394]).[supplied by OMIM, Nov 2010]
Expression
Biased expression in placenta (RPKM 3.9), lung (RPKM 1.9) and 9 other tissues See more
Orthologs
all
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Genomic context

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See MAP1LC3C in Genome Data Viewer
Location:
1q43
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (241995490..242001393, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (241407557..241413464, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (242158792..242162400, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene beclin 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:242153743-242154242 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:242162385-242162910 Neighboring gene cofilin 1 pseudogene 4 Neighboring gene NANOG hESC enhancer GRCh37_chr1:242172315-242172816 Neighboring gene RNA, U6 small nuclear 1139, pseudogene Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:242220644-242221384 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:242223521-242224022 Neighboring gene tubulin beta 8 class VIII pseudogene 6

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Reticulophagy mediated by the V-ATPase-ATG16L1-LC3C axis.
    Title: Reticulophagy mediated by the V-ATPase-ATG16L1-LC3C axis.
  2. Microtubule-associated protein MAP1LC3C regulates lysosomal exocytosis and induces zinc reprogramming in renal cancer cells.
    Title: Microtubule-associated protein MAP1LC3C regulates lysosomal exocytosis and induces zinc reprogramming in renal cancer cells.
  3. ATG5 selectively engages virus-tethered BST2/tetherin in an LC3C-associated pathway.
    Title: ATG5 selectively engages virus-tethered BST2/tetherin in an LC3C-associated pathway.
  4. PGM5P3-AS1 regulates MAP1LC3C to promote cell ferroptosis and thus inhibiting the malignant progression of triple-negative breast cancer.
    Title: PGM5P3-AS1 regulates MAP1LC3C to promote cell ferroptosis and thus inhibiting the malignant progression of triple-negative breast cancer.
  5. TFG binds LC3C to regulate ULK1 localization and autophagosome formation.
    Title: TFG binds LC3C to regulate ULK1 localization and autophagosome formation.
  6. Selective MAP1LC3C (LC3C) autophagy requires noncanonical regulators and the C-terminal peptide.
    Title: Selective MAP1LC3C (LC3C) autophagy requires noncanonical regulators and the C-terminal peptide.
  7. Autophagy-Related Protein MAP1LC3C Plays a Crucial Role in Odontogenic Differentiation of Human Dental Pulp Cells.
    Title: Autophagy-Related Protein MAP1LC3C Plays a Crucial Role in Odontogenic Differentiation of Human Dental Pulp Cells.
  8. LC3C mediates selective autophagy of the MET RTK, inhibiting cancer cell invasion.
    Title: LC3C mediates selective autophagy of the MET RTK, inhibiting cancer cell invasion.
  9. Novel Insights into the Cellular Localization and Regulation of the Autophagosomal Proteins LC3A, LC3B and LC3C.
    Title: Novel Insights into the Cellular Localization and Regulation of the Autophagosomal Proteins LC3A, LC3B and LC3C.
  10. Solution structure of the autophagy-related protein LC3C reveals a polyproline II motif on a mobile tether with phosphorylation site.
    Title: Solution structure of the autophagy-related protein LC3C reveals a polyproline II motif on a mobile tether with phosphorylation site.
Submit: New GeneRIF Correction See all GeneRIFs (18)

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

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
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
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 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 aggrephagy IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in autophagosome assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
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 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 protein exit from endoplasmic reticulum IMP
Inferred from Mutant Phenotype
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 TAS
Traceable Author Statement
more info
  
located_in cytoplasmic ribonucleoprotein granule IDA
Inferred from Direct Assay
more info
  
located_in cytoplasmic vesicle IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol TAS
Traceable Author Statement
more info
  
located_in endomembrane system IEA
Inferred from Electronic Annotation
more info
  
located_in microtubule IEA
Inferred from Electronic Annotation
more info
  
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 3C
Names
LC3-like protein 2
MAP1 light chain 3-like protein 2
MAP1 light chain 3-like protein 3
MAP1A/MAP1B LC3 C
MAP1A/MAP1B light chain 3 C
autophagy-related protein LC3 C
autophagy-related ubiquitin-like modifier LC3 C

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_001004343.3 → NP_001004343.1  microtubule-associated proteins 1A/1B light chain 3C

    See identical proteins and their annotated locations for NP_001004343.1

    Status: VALIDATED

    Source sequence(s)
    AF276659, BC127722, BX571673, CN260933
    Consensus CDS
    CCDS31074.1
    UniProtKB/Swiss-Prot
    A0PJY8, A2RUP0, Q9BXW4
    Related
    ENSP00000349785.3, ENST00000357246.4
    Conserved Domains (1) summary
    cd01611
    Location:13 → 126
    GABARAP; Ubiquitin domain of GABA-receptor-associated protein

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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    241995490..242001393 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005273139.4 → XP_005273196.1  microtubule-associated proteins 1A/1B light chain 3C isoform X1

    See identical proteins and their annotated locations for XP_005273196.1

    UniProtKB/Swiss-Prot
    A0PJY8, A2RUP0, Q9BXW4
    Conserved Domains (1) summary
    cd01611
    Location:13 → 126
    GABARAP; Ubiquitin domain of GABA-receptor-associated protein

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    241407557..241413464 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054336691.1 → XP_054192666.1  microtubule-associated proteins 1A/1B light chain 3C isoform X1

    UniProtKB/Swiss-Prot
    A0PJY8, A2RUP0, Q9BXW4
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9BXW4.1 GenPept UniProtKB/Swiss-Prot:Q9BXW4

Gene LinkOut

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