MAP1LC3B

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MAP1LC3B
Protein MAP1LC3B PDB 1ugm.png
Available structures
PDBOrtholog search: PDBe RCSB
Identifiers
AliasesMAP1LC3B, ATG8F, LC3B, MAP1A/1BLC3, MAP1LC3B-a, microtubule associated protein 1 light chain 3 beta
External IDsOMIM: 609604 MGI: 1914693 HomoloGene: 69359 GeneCards: MAP1LC3B
Gene location (Human)
Chromosome 16 (human)
Chr.Chromosome 16 (human)[1]
Chromosome 16 (human)
Genomic location for MAP1LC3B
Genomic location for MAP1LC3B
Band16q24.2Start87,383,953 bp[1]
End87,404,779 bp[1]
RNA expression pattern
PBB GE MAP1LC3B 208785 s at fs.png

PBB GE MAP1LC3B 208786 s at fs.png
More reference expression data
Orthologs
SpeciesHumanMouse
Entrez
Ensembl
UniProt
RefSeq (mRNA)

NM_022818

NM_026160
NM_001364358

RefSeq (protein)

NP_073729

NP_080436
NP_001351287

Location (UCSC)Chr 16: 87.38 – 87.4 MbChr 8: 121.59 – 121.6 Mb
PubMed search[3][4]
Wikidata
View/Edit HumanView/Edit Mouse

Microtubule-associated proteins 1A/1B light chain 3B (hereafter referred to as LC3) is a protein that in humans is encoded by the MAP1LC3B gene.[5] LC3 is a central protein in the autophagy pathway where it functions in autophagy substrate selection and autophagosome biogenesis. LC3 is the most widely used marker of autophagosomes.[6]

Discovery[edit]

LC3 was originally identified as a microtubule associated protein in rat brain.[7] However it was later found that the primary function of LC3 is in autophagy, a process that involves the bulk degradation of cytoplasmic components.

The ATG8 protein family[edit]

MAP1LC3B is a member of the highly conserved ATG8 protein family. ATG8 proteins are present in all known eukaryotic organisms. The animal ATG8 family comprises three subfamilies: (i) microtubule-associated protein 1 light chain 3 (MAP1LC3); (ii) Golgi-associated ATPase enhancer of 16 kDa (GATE-16); and (iii) γ-amino-butyric acid receptor-associate protein (GABARAP). MAP1LC3B is one of the four genes in the MAP1LC3 subfamily (others include MAP1LC3A, MAP1LC3C, and MAP1LC3B2).[8]

Function[edit]

Cytoplasmic LC3[edit]

Newly synthesized LC3's C-terminus is hydrolyzed by a cysteine protease called ATG4B exposing Gly120, termed LC3-I.[9] LC3-I, through a series of ubiquitin-like reactions involving enzymes ATG7, ATG3, and ATG12-ATG5-ATG16, becomes conjugated to the head group of the lipid phosphatidylethanolamine.[10] The lipid modified form of LC3, referred to as LC3-II, is believed to be involved in autophagosome membrane expansion and fusion events.[11] However, the exact role of LC3 in the autophagic pathway is still discussed, and the question of whether LC3 is required for autophagy is debated since knockdown of MAP1LC3B is compensated by the other members of the MAP1LC3 subfamily. Previous studies showed that MAP1LC3B knock out mice develop normally, possibly due to a then unknown compensatory mechanism.[12] Further work, however, demonstrated that LC3 is required for autophagy by simultaneously down-regulating all of the MAP1LC3 subfamily members.[13] While yet another study argues that MAP1LC3 knockdown does to not affect bulk autophagy, whereas its GABARAP family members are crucial for the process.[14][14] LC3 also functions—together with autophagy receptors (e.g. SQSTM1)--in the selective capture of cargo for autophagic degradation.[15] Independent of autophagosomes, a single soluble LC3 is associated with an approximately 500 kDa complex in the cytoplasm.[16]

Nuclear LC3[edit]

The importance of the nuclear functions of autophagy proteins should not be underestimated. A large pool of LC3 is present in the nucleus of a variety of different cell types.[17] In response to starvation, nuclear LC3 is deacetylated and trafficked out of the nucleus into the cytoplasm where it functions in autophagy.[18] Nuclear LC3 interacts with lamin B1, and participates in the degradation of nuclear lamina.[19] LC3 is also enriched in nucleoli via its triple arginine motif, and associates with a number of different nuclear and nucleolar constituents including: MAP1B, tubulin, and several ribosomal proteins.[20]

Structure[edit]

LC3 shares structural homology with ubiquitin, and therefore has been termed a ubiquitin-like protein.[21] LC3 has a LDS (LIR docking site)/hydrophobic binding interface in the N terminus which interacts with LIR (LC3 Interacting Region) containing proteins.[16] This domain is rich in hydrophobic amino acids, the mutation of which impairs the ability of LC3 binding with LIR containing proteins, many of which are autophagy cargo adapter proteins. For example, sequestosome (SQSTM1) interacts with Phe 52 and Leu53 aminoacids present in hydrophobic binding interface of LC3 and any mutation of these amino acids prevents LC3 interaction with SQSTM1.

Post-translational regulation[edit]

References[edit]

  1. ^ a b c GRCh38: Ensembl release 89: ENSG00000140941 - Ensembl, May 2017
  2. ^ a b c GRCm38: Ensembl release 89: ENSMUSG00000031812 - Ensembl, May 2017
  3. ^ "Human PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
  4. ^ "Mouse PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
  5. ^ "Entrez Gene: MAP1LC3B microtubule-associated protein 1 light chain 3 beta".
  6. ^ Klionsky DJ, Abdelmohsen K, Abe A, Abedin MJ, Abeliovich H, Acevedo Arozena A, et al. (Jan 2016). "Guidelines for the use and interpretation of assays for monitoring autophagy (3rd edition)". Autophagy. 12 (1): 1–222. doi:10.1080/15548627.2015.1100356. PMC 4835977. PMID 26799652.
  7. ^ Mann SS, Hammarback JA (April 1994). "Molecular characterization of light chain 3. A microtubule binding subunit of MAP1A and MAP1B". The Journal of Biological Chemistry. 269 (15): 11492–7. PMID 7908909.
  8. ^ Shpilka T, Weidberg H, Pietrokovski S, Elazar Z (July 2011). "Atg8: an autophagy-related ubiquitin-like protein family". Genome Biology. 12 (7): 226. doi:10.1186/gb-2011-12-7-226. PMC 3218822. PMID 21867568.
  9. ^ Kirisako T, Ichimura Y, Okada H, Kabeya Y, Mizushima N, Yoshimori T, Ohsumi M, Takao T, Noda T, Ohsumi Y (October 2000). "The reversible modification regulates the membrane-binding state of Apg8/Aut7 essential for autophagy and the cytoplasm to vacuole targeting pathway". The Journal of Cell Biology. 151 (2): 263–76. doi:10.1083/jcb.151.2.263. PMC 2192639. PMID 11038174.
  10. ^ Ohsumi Y (March 2001). "Molecular dissection of autophagy: two ubiquitin-like systems". Nature Reviews. Molecular Cell Biology. 2 (3): 211–6. doi:10.1038/35056522. PMID 11265251.
  11. ^ Weidberg H, Shpilka T, Shvets E, Abada A, Shimron F, Elazar Z (April 2011). "LC3 and GATE-16 N termini mediate membrane fusion processes required for autophagosome biogenesis". Developmental Cell. 20 (4): 444–54. doi:10.1016/j.devcel.2011.02.006. PMID 21497758.
  12. ^ Cann GM, Guignabert C, Ying L, Deshpande N, Bekker JM, Wang L, Zhou B, Rabinovitch M (January 2008). "Developmental expression of LC3alpha and beta: absence of fibronectin or autophagy phenotype in LC3beta knockout mice". Developmental Dynamics. 237 (1): 187–95. doi:10.1002/dvdy.21392. PMID 18069693.
  13. ^ Weidberg H, Shvets E, Shpilka T, Shimron F, Shinder V, Elazar Z (June 2010). "LC3 and GATE-16/GABARAP subfamilies are both essential yet act differently in autophagosome biogenesis". The EMBO Journal. 29 (11): 1792–802. doi:10.1038/emboj.2010.74. PMC 2885923. PMID 20418806.
  14. ^ a b Szalai P, Hagen LK, Sætre F, Luhr M, Sponheim M, Øverbye A, Mills IG, Seglen PO, Engedal N (April 2015). "Autophagic bulk sequestration of cytosolic cargo is independent of LC3, but requires GABARAPs". Experimental Cell Research. 333 (1): 21–38. doi:10.1016/j.yexcr.2015.02.003. PMID 25684710.
  15. ^ Johansen T, Lamark T (March 2011). "Selective autophagy mediated by autophagic adapter proteins". Autophagy. 7 (3): 279–96. doi:10.4161/auto.7.3.14487. PMC 3060413. PMID 21189453.
  16. ^ a b Kraft LJ, Nguyen TA, Vogel SS, Kenworthy AK (May 2014). "Size, stoichiometry, and organization of soluble LC3-associated complexes". Autophagy. 10 (5): 861–77. doi:10.4161/auto.28175. PMC 4768459. PMID 24646892.
  17. ^ Drake KR, Kang M, Kenworthy AK (March 2010). "Nucleocytoplasmic distribution and dynamics of the autophagosome marker EGFP-LC3". PLoS One. 5 (3): e9806. doi:10.1371/journal.pone.0009806. PMC 2843706. PMID 20352102.
  18. ^ Huang R, Xu Y, Wan W, Shou X, Qian J, You Z, Liu B, Chang C, Zhou T, Lippincott-Schwartz J, Liu W (February 2015). "Deacetylation of nuclear LC3 drives autophagy initiation under starvation". Molecular Cell. 57 (3): 456–66. doi:10.1016/j.molcel.2014.12.013. PMID 25601754.
  19. ^ Dou Z, Xu C, Donahue G, Shimi T, Pan JA, Zhu J, Ivanov A, Capell BC, Drake AM, Shah PP, Catanzaro JM, Ricketts MD, Lamark T, Adam SA, Marmorstein R, Zong WX, Johansen T, Goldman RD, Adams PD, Berger SL (November 2015). "Autophagy mediates degradation of nuclear lamina". Nature. 527 (7576): 105–9. doi:10.1038/nature15548. PMC 4824414. PMID 26524528.
  20. ^ Kraft LJ, Manral P, Dowler J, Kenworthy AK (April 2016). "Nuclear LC3 Associates with Slowly Diffusing Complexes that Survey the Nucleolus". Traffic. 17 (4): 369–99. doi:10.1111/tra.12372. PMC 4975375. PMID 26728248.
  21. ^ Kouno T, Mizuguchi M, Tanida I, Ueno T, Kanematsu T, Mori Y, Shinoda H, Hirata M, Kominami E, Kawano K (July 2005). "Solution structure of microtubule-associated protein light chain 3 and identification of its functional subdomains". The Journal of Biological Chemistry. 280 (26): 24610–7. doi:10.1074/jbc.M413565200. PMID 15857831.

Further reading[edit]

External links[edit]

  • Overview of all the structural information available in the PDB for UniProt: Q9GZQ8 (Microtubule-associated proteins 1A/1B light chain 3B (MAP1LC3B)) at the PDBe-KB.