Lamp2 lysosomal-associated membrane protein 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Lamp2provided by RGD
Official Full Name: lysosomal-associated membrane protein 2provided by RGD
Primary source: RGD:2990
See related: EnsemblRapid:ENSRNOG00000000164 AllianceGenome:RGD:2990
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable enzyme binding activity and protein domain specific binding activity. Involved in chaperone-mediated autophagy. Acts upstream of or within protein targeting to lysosome involved in chaperone-mediated autophagy. Located in endosome; lysosomal matrix; and lysosomal membrane. Colocalizes with membrane raft. Used to study Danon disease; cholestasis; chronic conjunctivitis; cognitive disorder; and hypertrophic cardiomyopathy. Biomarker of myocardial infarction and sciatic neuropathy. Human ortholog(s) of this gene implicated in Danon disease and hypertrophic cardiomyopathy. Orthologous to human LAMP2 (lysosomal associated membrane protein 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Liver (RPKM 802.8), Kidney (RPKM 670.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: Xq35

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	X	NC_086039.1 (122038734..122087745, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	X	NC_051356.1 (117173097..117222090, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	X	NC_005120.4 (124722628..124766079, complement)

Chromosome X - NC_086039.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

our data indicate that cardiac arrest and return of spontaneous circulation injury impairs autophagosome clearance partially through a reactive oxygen species-induced decline in LAMP2 and increase in Beclin-1, leading to increased neuronal cell death
Title: The roles of oxidative stress and Beclin-1 in the autophagosome clearance impairment triggered by cardiac arrest.
Lamp2-deficient rats exhibited greater similarity to DD patients in terms of onset and multisystem lesions than did mouse models, and these rats could be used as a valuable animal model for DD.
Title: Characterisation of Lamp2-deficient rats for potential new animal model of Danon disease.
Expression of Beclin-1 and LAMP-2 in Rat Hippocampus under Conditions of Simulated Gravity Overload in the Caudocranial Vector
Title: Expression of Beclin-1 and LAMP-2 in Rat Hippocampus under Conditions of Simulated Gravity Overload in the Caudocranial Vector.
In rat spermatogenic cells AGO2 colocalizes with the lysosomal membrane protein LAMP2 in small vesicles that contact and surround chromatoid bodies.
Title: Argonaute2 Protein in Rat Spermatogenic Cells Is Localized to Nuage Structures and LAMP2-Positive Vesicles Surrounding Chromatoid Bodies.
On prolonged exposure to indomethacin (6-24 h), there was a decrease of LAMP-2 expression in enterocytes coupled with accumulation of ALPs and LDs with fewer autolysosomes in addition to an elevation of lipoapoptosis.
Title: Indomethacin suppresses LAMP-2 expression and induces lipophagy and lipoapoptosis in rat enterocytes via the ER stress pathway.
Chaperone-mediated autophagy is increased in rats with pilocarpine-induced status epilepticus through upregulation of de novo synthesis of lysosome-associated membrane protein 2a.
Title: Vitamin E inhibits activated chaperone-mediated autophagy in rats with status epilepticus.
Impaired autolysosome formation correlates with Lamp-2 depletion: role of apoptosis, autophagy, and necrosis in pancreatitis.
Title: Impaired autolysosome formation correlates with Lamp-2 depletion: role of apoptosis, autophagy, and necrosis in pancreatitis.
Results show that LAMP-2A organizes at the lysosomal membrane into protein complexes of different sizes.
Title: The chaperone-mediated autophagy receptor organizes in dynamic protein complexes at the lysosomal membrane.
results support that changes in the dynamic distribution of LAMP-2A into and out of discrete microdomains of the lysosomal membrane contribute to regulate CMA
Title: Lysosome membrane lipid microdomains: novel regulators of chaperone-mediated autophagy.

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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

DXWox28 (e-PCR)
- UniSTS:517841

AA819641 (e-PCR)
- UniSTS:243450

BE107180 (e-PCR)
- UniSTS:246780

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables enzyme binding	IEA Inferred from Electronic Annotation more info
enables enzyme binding	ISO Inferred from Sequence Orthology more info
enables ion channel inhibitor activity	IEA Inferred from Electronic Annotation more info
enables ion channel inhibitor activity	ISO Inferred from Sequence Orthology more info
enables ion channel inhibitor activity	ISS Inferred from Sequence or Structural Similarity more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein domain specific binding	IEA Inferred from Electronic Annotation more info
enables protein domain specific binding	ISO Inferred from Sequence Orthology more info
enables signaling adaptor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in autophagosome maturation	IBA Inferred from Biological aspect of Ancestor more info
involved_in autophagosome maturation	IEA Inferred from Electronic Annotation more info
involved_in autophagosome maturation	ISO Inferred from Sequence Orthology more info
involved_in autophagosome maturation	ISS Inferred from Sequence or Structural Similarity more info
involved_in autophagy	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
involved_in cellular response to starvation	IBA Inferred from Biological aspect of Ancestor more info
involved_in cellular response to starvation	IEA Inferred from Electronic Annotation more info
involved_in cellular response to starvation	ISO Inferred from Sequence Orthology more info
involved_in cellular response to starvation	ISS Inferred from Sequence or Structural Similarity more info
involved_in chaperone-mediated autophagy	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within chaperone-mediated autophagy	ISO Inferred from Sequence Orthology more info
involved_in chaperone-mediated autophagy	ISO Inferred from Sequence Orthology more info
involved_in lysosomal lumen acidification	IEA Inferred from Electronic Annotation more info
involved_in lysosomal lumen acidification	ISO Inferred from Sequence Orthology more info
involved_in lysosomal lumen acidification	ISS Inferred from Sequence or Structural Similarity more info
involved_in lysosomal protein catabolic process	IEA Inferred from Electronic Annotation more info
involved_in lysosomal protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in lysosomal protein catabolic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in muscle cell cellular homeostasis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within muscle cell cellular homeostasis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of NLRP3 inflammasome complex assembly	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of protein-containing complex assembly	ISO Inferred from Sequence Orthology more info
involved_in protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in protein stabilization	IEA Inferred from Electronic Annotation more info
involved_in protein stabilization	ISO Inferred from Sequence Orthology more info
involved_in protein stabilization	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein targeting	ISO Inferred from Sequence Orthology more info
involved_in protein targeting	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein targeting to lysosome involved in chaperone-mediated autophagy	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein targeting to lysosome involved in chaperone-mediated autophagy	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within protein targeting to lysosome involved in chaperone-mediated autophagy	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within protein targeting to lysosome involved in chaperone-mediated autophagy	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein targeting to lysosome involved in chaperone-mediated autophagy	ISO Inferred from Sequence Orthology more info
involved_in protein targeting to lysosome involved in chaperone-mediated autophagy	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of protein stability	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in autolysosome	IEA Inferred from Electronic Annotation more info
located_in autolysosome	ISO Inferred from Sequence Orthology more info
is_active_in autophagosome membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in autophagosome membrane	IEA Inferred from Electronic Annotation more info
located_in autophagosome membrane	ISO Inferred from Sequence Orthology more info
part_of chaperone-mediated autophagy translocation complex	ISO Inferred from Sequence Orthology more info
part_of chaperone-mediated autophagy translocation complex	ISS Inferred from Sequence or Structural Similarity more info
located_in endosome	IDA Inferred from Direct Assay more info	PubMed
located_in endosome membrane	IEA Inferred from Electronic Annotation more info
located_in extracellular exosome	IEA Inferred from Electronic Annotation more info
located_in extracellular exosome	ISO Inferred from Sequence Orthology more info
located_in extracellular space	ISO Inferred from Sequence Orthology more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in late endosome	ISO Inferred from Sequence Orthology more info
is_active_in late endosome membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in late endosome membrane	IEA Inferred from Electronic Annotation more info
located_in late endosome membrane	ISO Inferred from Sequence Orthology more info
located_in lysosomal matrix	IDA Inferred from Direct Assay more info	PubMed
is_active_in lysosomal membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in lysosomal membrane	IDA Inferred from Direct Assay more info	PubMed
located_in lysosomal membrane	IEA Inferred from Electronic Annotation more info
is_active_in lysosomal membrane	ISO Inferred from Sequence Orthology more info
located_in lysosomal membrane	ISO Inferred from Sequence Orthology more info
located_in lysosomal membrane	TAS Traceable Author Statement more info
is_active_in lysosome	ISO Inferred from Sequence Orthology more info
located_in lysosome	ISO Inferred from Sequence Orthology more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in membrane raft	IMP Inferred from Mutant Phenotype more info	PubMed
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
located_in phagocytic vesicle membrane	IEA Inferred from Electronic Annotation more info
located_in phagocytic vesicle membrane	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in platelet dense granule membrane	IEA Inferred from Electronic Annotation more info
located_in platelet dense granule membrane	ISO Inferred from Sequence Orthology more info
located_in trans-Golgi network	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: lysosome-associated membrane glycoprotein 2

Names: CD107 antigen-like family member B; LAMP-2; LGP-110; LGP-96; LGP-B; lysosomal membrane glycoprotein 2; lysosomal membrane glycoprotein type B; lysosome-associated membrane protein 2

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)

NM_017068.3 → NP_058764.3 lysosome-associated membrane glycoprotein 2 precursor

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000021

UniProtKB/Swiss-Prot

F1LLX8, P17046, Q6P6W1

UniProtKB/TrEMBL

A6JMK3

Related

ENSRNOP00000000177.3, ENSRNOT00000000177.7

Conserved Domains (1) summary

pfam01299
Location:219 → 359

Lamp; Lysosome-associated membrane glycoprotein (Lamp)

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086039.1 Reference GRCr8

Range

122038734..122087745 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039099490.2 → XP_038955418.1 lysosome-associated membrane glycoprotein 2 isoform X1

UniProtKB/TrEMBL

A0A8I6ACM0, A0A8I6AHB3, A6JMK1

Related

ENSRNOP00000092818.1, ENSRNOT00000107735.2

Conserved Domains (1) summary

pfam01299
Location:219 → 359

Lamp; Lysosome-associated membrane glycoprotein (Lamp)
XM_006257486.5 → XP_006257548.1 lysosome-associated membrane glycoprotein 2 isoform X2

UniProtKB/TrEMBL

A0A8I6AMZ0, A6JMK4

Related

ENSRNOP00000095159.1, ENSRNOT00000099330.3

Conserved Domains (1) summary

pfam01299
Location:107 → 411

Lamp; Lysosome-associated membrane glycoprotein (Lamp)