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

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; 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

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_000016.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.
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.
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.
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.
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.
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.
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.
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.
[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].
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 EBI GWAS CatalogPubMed

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
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

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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

SHGC-60567 (e-PCR)
- UniSTS:31761

RH70752 (e-PCR)
- UniSTS:88384

D16F298S2 (e-PCR)
- UniSTS:157826

GDB:451550 (e-PCR)
- UniSTS:99504

D16S2663 (e-PCR)
- UniSTS:52212

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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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

NG_029030.2 RefSeqGene

Range

5002..17440

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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)