UniProtKB - Q62625 (MLP3B_RAT)
Microtubule-associated proteins 1A/1B light chain 3B
Map1lc3b
Functioni
Ubiquitin-like modifier involved in formation of autophagosomal vacuoles (autophagosomes). Plays a role in mitophagy which contributes to regulate mitochondrial quantity and quality by eliminating the mitochondria to a basal level to fulfill cellular energy requirements and preventing excess ROS production. In response to cellular stress and upon mitochondria fission, binds C-18 ceramides and anchors autophagolysosomes to outer mitochondrial membranes to eliminate damaged mitochondria. While LC3s are involved in elongation of the phagophore membrane, the GABARAP/GATE-16 subfamily is essential for a later stage in autophagosome maturation. Promotes primary ciliogenesis by removing OFD1 from centriolar satellites via the autophagic pathway. Through its interaction with the reticulophagy receptor TEX264, participates in the remodeling of subdomains of the endoplasmic reticulum into autophagosomes upon nutrient stress, which then fuse with lysosomes for endoplasmic reticulum turnover. Upon nutrient stress, directly recruits cofactor JMY to the phagophore membrane surfaces and promotes JMY's actin nucleation activity and autophagosome biogenesis during autophagy.
By similarityGO - Molecular functioni
- ceramide binding Source: RGD
- microtubule binding Source: RGD
- protein domain specific binding Source: RGD
- tubulin binding Source: RGD
- ubiquitin protein ligase binding Source: RGD
GO - Biological processi
- autophagosome assembly Source: GO_Central
- autophagosome maturation Source: RGD
- autophagy Source: RGD
- autophagy of mitochondrion Source: RGD
- cellular response to nitrogen starvation Source: GO_Central
- cellular response to starvation Source: UniProtKB
- macroautophagy Source: RGD
- mitophagy Source: UniProtKB
- positive regulation of mucus secretion Source: RGD
- positive regulation of protein binding Source: RGD
Keywordsi
Biological process | Autophagy, Ubl conjugation pathway |
Enzyme and pathway databases
Reactomei | R-RNO-1632852, Macroautophagy R-RNO-5205685, PINK1-PRKN Mediated Mitophagy R-RNO-8854214, TBC/RABGAPs R-RNO-8934903, Receptor Mediated Mitophagy R-RNO-9664873, Pexophagy |
Names & Taxonomyi
Protein namesi | Recommended name: Microtubule-associated proteins 1A/1B light chain 3BCuratedAlternative name(s): Autophagy-related protein LC3 B Autophagy-related ubiquitin-like modifier LC3 B MAP1 light chain 3-like protein 2 MAP1A/MAP1B light chain 3 B Short name: MAP1A/MAP1B LC3 B Microtubule-associated protein 1 light chain 3 beta |
Gene namesi | |
Organismi | Rattus norvegicus (Rat) |
Taxonomic identifieri | 10116 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Myomorpha › Muroidea › Muridae › Murinae › Rattus |
Proteomesi |
|
Organism-specific databases
RGDi | 621315, Map1lc3b |
Subcellular locationi
Mitochondrion
- Mitochondrion membrane By similarity; Lipid-anchor By similarity
Cytoskeleton
- cytoskeleton 1 Publication
Other locations
- autophagosome membrane 1 Publication; Lipid-anchor 1 Publication
- Endomembrane system 1 Publication; Lipid-anchor 1 Publication
- Cytoplasmic vesicle By similarity
Note: LC3-II binds to the autophagic membranes. LC3-II localizes with the mitochondrial inner membrane during Parkin-mediated mitophagy (By similarity). Localizes also to discrete punctae along the ciliary axoneme (By similarity).By similarity
Cytoskeleton
- axoneme Source: RGD
- microtubule Source: UniProtKB-KW
- microtubule associated complex Source: RGD
Cytosol
- cytosol Source: GO_Central
Lysosome
- autolysosome Source: RGD
Mitochondrion
- mitochondrion Source: RGD
Other locations
- autophagosome Source: RGD
- autophagosome membrane Source: UniProtKB
- axon Source: RGD
- cytoplasm Source: RGD
- cytoplasmic vesicle Source: UniProtKB
- dendrite Source: RGD
- endomembrane system Source: UniProtKB-SubCell
- membrane Source: RGD
- neuronal cell body Source: RGD
Keywords - Cellular componenti
Cytoplasm, Cytoplasmic vesicle, Cytoskeleton, Membrane, Microtubule, MitochondrionPathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 116 | Q → A: No processing of precursor. 1 Publication | 1 | |
Mutagenesisi | 119 | F → A: No processing of precursor. 1 Publication | 1 | |
Mutagenesisi | 120 | G → A: No processing of precursor. 2 Publications | 1 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000017202 | 1 – 120 | Microtubule-associated proteins 1A/1B light chain 3BAdd BLAST | 120 | |
PropeptideiPRO_0000017203 | 121 – 142 | Removed in mature formAdd BLAST | 22 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Lipidationi | 120 | Phosphatidylethanolamine amidated glycine; alternateBy similarity | 1 | |
Lipidationi | 120 | Phosphatidylserine amidated glycine; alternateBy similarity | 1 |
Post-translational modificationi
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sitei | 120 – 121 | Cleavage; by ATG4B2 Publications | 2 |
Keywords - PTMi
Lipoprotein, PhosphoproteinProteomic databases
jPOSTi | Q62625 |
PRIDEi | Q62625 |
PTM databases
PhosphoSitePlusi | Q62625 |
Expressioni
Tissue specificityi
Gene expression databases
Bgeei | ENSRNOG00000017905, Expressed in brain and 21 other tissues |
ExpressionAtlasi | Q62625, baseline and differential |
Genevisiblei | Q62625, RN |
Interactioni
Subunit structurei
3 different light chains, LC1, LC2 and LC3, can associate with MAP1A and MAP1B proteins (PubMed:7908909).
Interacts at microtubules with CABP1 (via EF-hands 1 and 2) but not with calmodulin (PubMed:15095872).
Interacts with FYCO1 (via C-terminus).
Interacts with TP53INP1 and TP53INP2.
Interacts with TBC1D25. Directly interacts with SQSTM1; this interaction leads to MAP1LC3B recruitment to inclusion bodies containing polyubiquitinated protein aggregates and to inclusion body degradation by autophagy (By similarity).
Interacts with ATG4B (PubMed:19322194).
Interacts with MAPK15 and BNIP3.
Interacts with MAPB1, KEAP1, PCM1, OFD1, CEP131, and TECPR2.
Interacts with TBC1D5.
Found in a complex with UBQLN1 and UBQLN2.
Interacts with UBQLN4 (via STI1 1 and 2 domains).
Interacts with UBQLN1 in the presence of UBQLN4.
Interacts with ATG13.
Interacts with RETREG1, RETREG2 and RETREG3 (By similarity).
Interacts with PLCL1; the interaction inhibits autophagosome formation (PubMed:23399561).
Interacts with TRIM16 (By similarity).
Interacts with CRY1 and PER2 (By similarity).
Interacts with the reticulophagy receptor TEX264 (By similarity). Membrane-bound form LC3-II interacts with PHB1 and PHB2; the interaction takes place upon Parkin-mediated mitochondrial damage (By similarity).
Interacts with PJVK; the interaction is direct (By similarity).
Interacts with KBTBD6 and KBTBD7; the interaction is direct (By similarity).
Interacts with AMBRA1 (via LIR motif) (By similarity).
Interacts with JMY; the interaction results in the activation of JYM's nucleation activity in the cytoplasm (By similarity).
Interacts with MOAP1 (via LIR motif) (By similarity).
By similarity4 PublicationsGO - Molecular functioni
- microtubule binding Source: RGD
- protein domain specific binding Source: RGD
- tubulin binding Source: RGD
- ubiquitin protein ligase binding Source: RGD
Protein-protein interaction databases
BioGRIDi | 249213, 5 interactors |
ELMi | Q62625 |
IntActi | Q62625, 7 interactors |
MINTi | Q62625 |
Structurei
Secondary structure
3D structure databases
AlphaFoldDBi | Q62625 |
BMRBi | Q62625 |
SMRi | Q62625 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | Q62625 |
Family & Domainsi
Sequence similaritiesi
Phylogenomic databases
eggNOGi | KOG1654, Eukaryota |
GeneTreei | ENSGT00940000154158 |
HOGENOMi | CLU_119276_1_0_1 |
InParanoidi | Q62625 |
OMAi | EFSHDER |
OrthoDBi | 1508198at2759 |
Family and domain databases
IDEALi | IID50112 |
InterProi | View protein in InterPro IPR004241, Atg8-like IPR029071, Ubiquitin-like_domsf |
PANTHERi | PTHR10969, PTHR10969, 1 hit |
Pfami | View protein in Pfam PF02991, ATG8, 1 hit |
SUPFAMi | SSF54236, SSF54236, 1 hit |
s (2+)i Sequence
Sequence statusi: Complete.
: The displayed sequence is further processed into a mature form. Sequence processingi
This entry describes 2 produced by isoformsialternative splicing. AlignAdd to basketThis entry has 2 described isoforms and 1 potential isoform that is computationally mapped.Show allAlign All
This isoform has been chosen as the sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. canonicali
10 20 30 40 50
MPSEKTFKQR RSFEQRVEDV RLIREQHPTK IPVIIERYKG EKQLPVLDKT
60 70 80 90 100
KFLVPDHVNM SELIKIIRRR LQLNANQAFF LLVNGHSMVS VSTPISEVYE
110 120 130 140
SERDEDGFLY MVYASQETFG TALAVTYMSA LKATATGREP CL
Computationally mapped potential isoform sequencesi
There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basketQ7TQ75 | Q7TQ75_RAT | Microtubule-associated proteins 1A/... | Map1lc3b LOC100363716, Map1lc3b2 | 416 | Annotation score: |
Alternative sequence
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Alternative sequenceiVSP_012092 | 126 – 142 | Missing in isoform 2. 3 PublicationsAdd BLAST | 17 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U05784 mRNA Translation: AAA20645.1 AY206669 mRNA Translation: AAP42561.1 AY392036 mRNA Translation: AAQ94605.1 BC058144 mRNA Translation: AAH58144.1 BC083556 mRNA Translation: AAH83556.1 |
PIRi | A53624 |
RefSeqi | NP_074058.2, NM_022867.2 [Q62625-2] XP_017456840.1, XM_017601351.1 [Q62625-1] |
Genome annotation databases
GeneIDi | 64862 |
KEGGi | rno:64862 |
UCSCi | RGD:621315, rat [Q62625-1] |
Keywords - Coding sequence diversityi
Alternative splicingSimilar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U05784 mRNA Translation: AAA20645.1 AY206669 mRNA Translation: AAP42561.1 AY392036 mRNA Translation: AAQ94605.1 BC058144 mRNA Translation: AAH58144.1 BC083556 mRNA Translation: AAH83556.1 |
PIRi | A53624 |
RefSeqi | NP_074058.2, NM_022867.2 [Q62625-2] XP_017456840.1, XM_017601351.1 [Q62625-1] |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
1UGM | X-ray | 2.05 | A | 1-120 | [»] | |
2K6Q | NMR | - | A | 1-120 | [»] | |
2Z0D | X-ray | 1.90 | B | 1-120 | [»] | |
2Z0E | X-ray | 1.90 | B | 1-124 | [»] | |
2ZZP | X-ray | 2.05 | B | 1-124 | [»] | |
AlphaFoldDBi | Q62625 | |||||
BMRBi | Q62625 | |||||
SMRi | Q62625 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 249213, 5 interactors |
ELMi | Q62625 |
IntActi | Q62625, 7 interactors |
MINTi | Q62625 |
PTM databases
PhosphoSitePlusi | Q62625 |
Proteomic databases
jPOSTi | Q62625 |
PRIDEi | Q62625 |
Genome annotation databases
GeneIDi | 64862 |
KEGGi | rno:64862 |
UCSCi | RGD:621315, rat [Q62625-1] |
Organism-specific databases
CTDi | 81631 |
RGDi | 621315, Map1lc3b |
Phylogenomic databases
eggNOGi | KOG1654, Eukaryota |
GeneTreei | ENSGT00940000154158 |
HOGENOMi | CLU_119276_1_0_1 |
InParanoidi | Q62625 |
OMAi | EFSHDER |
OrthoDBi | 1508198at2759 |
Enzyme and pathway databases
Reactomei | R-RNO-1632852, Macroautophagy R-RNO-5205685, PINK1-PRKN Mediated Mitophagy R-RNO-8854214, TBC/RABGAPs R-RNO-8934903, Receptor Mediated Mitophagy R-RNO-9664873, Pexophagy |
Miscellaneous databases
EvolutionaryTracei | Q62625 |
PROi | PR:Q62625 |
Gene expression databases
Bgeei | ENSRNOG00000017905, Expressed in brain and 21 other tissues |
ExpressionAtlasi | Q62625, baseline and differential |
Genevisiblei | Q62625, RN |
Family and domain databases
IDEALi | IID50112 |
InterProi | View protein in InterPro IPR004241, Atg8-like IPR029071, Ubiquitin-like_domsf |
PANTHERi | PTHR10969, PTHR10969, 1 hit |
Pfami | View protein in Pfam PF02991, ATG8, 1 hit |
SUPFAMi | SSF54236, SSF54236, 1 hit |
MobiDBi | Search... |
Entry informationi
Entry namei | MLP3B_RAT | |
Accessioni | Q62625Primary (citable) accession number: Q62625 Secondary accession number(s): Q6XVN7 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | July 15, 1998 |
Last sequence update: | January 23, 2007 | |
Last modified: | May 25, 2022 | |
This is version 170 of the entry and version 3 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Chordata Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structure, Direct protein sequencing, Reference proteomeDocuments
- PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families