Psmb9 proteasome 20S subunit beta 9 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Psmb9provided by RGD
Official Full Name: proteasome 20S subunit beta 9provided by RGD
Primary source: RGD:3427
See related: Ensembl:ENSRNOG00000000459 AllianceGenome:RGD:3427
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Lmp2
Summary: Enables proteasome binding activity. Involved in several processes, including cellular response to electrical stimulus; hematopoietic or lymphoid organ development; and response to benzene. Located in cytosol. Part of proteasome complex. Biomarker of breast carcinoma and peptic esophagitis. Human ortholog(s) of this gene implicated in autoimmune disease (multiple); lymphoma; and renal cell carcinoma. Orthologous to human PSMB9 (proteasome 20S subunit beta 9). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 542.7), Spleen (RPKM 443.2) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 20p12

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	20	NC_086038.1 (4668952..4674421)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	20	NC_051355.1 (4667044..4672512)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	20	NC_005119.4 (3973424..3978845, complement)

Chromosome 20 - NC_086038.1 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
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?

LMP2 deficiency causes abnormal metabolism, oxidative stress, neuroinflammation, myelin loss and neurobehavioral dysfunctions.
Title: LMP2 deficiency causes abnormal metabolism, oxidative stress, neuroinflammation, myelin loss and neurobehavioral dysfunctions.
Inhibition of the immunoproteasome LMP2 ameliorates ischemia/hypoxia-induced blood-brain barrier injury through the Wnt/beta-catenin signalling pathway.
Title: Inhibition of the immunoproteasome LMP2 ameliorates ischemia/hypoxia-induced blood-brain barrier injury through the Wnt/β-catenin signalling pathway.
LMP2 contributes to the NO-dependent degradation of CYP2B proteins, and induction of LMP2 may be involved in the potentiation of this degradation by IL-1.
Title: Nitric oxide-dependent CYP2B degradation is potentiated by a cytokine-regulated pathway and utilizes the immunoproteasome subunit LMP2.
LMP7 and LMP2 were detected in thymic epithelial and dendritic cells, in CD68 positive cells (macrophages, monocytes), and in CD90 lymphocytes through pre- and postnatal ontogenesis.
Title: Ontogenesis of rat immune system: Proteasome expression in different cell populations of the developing thymus.
Intracellular HIV-1 Tat protein represses constitutive LMP2 transcription increasing proteasome activity by interfering with the binding of IRF-1 to STAT1
Title: Intracellular HIV-1 Tat protein represses constitutive LMP2 transcription increasing proteasome activity by interfering with the binding of IRF-1 to STAT1.

Submit: New GeneRIF Correction

General gene information

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Markers

RH142199 (e-PCR)
- UniSTS:231449

D17Dgm5 (e-PCR), detects polymorphism
- UniSTS:142116

RH128991 (e-PCR)
- UniSTS:212299

RH94492 (e-PCR)
- UniSTS:119740

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables endopeptidase activity	IBA Inferred from Biological aspect of Ancestor more info
enables proteasome binding	IDA Inferred from Direct Assay more info	PubMed
enables threonine-type endopeptidase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within antigen processing and presentation	ISO Inferred from Sequence Orthology more info
involved_in cellular response to electrical stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to interleukin-1	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to virus	IEP Inferred from Expression Pattern more info	PubMed
involved_in liver development	IEP Inferred from Expression Pattern more info	PubMed
involved_in muscle atrophy	IEP Inferred from Expression Pattern more info	PubMed
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in proteolysis involved in protein catabolic process	IEA Inferred from Electronic Annotation more info
involved_in response to alkaloid	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within response to bacterium	ISO Inferred from Sequence Orthology more info
involved_in response to benzene	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to xenobiotic stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in spleen development	IEP Inferred from Expression Pattern more info	PubMed
involved_in thymus development	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of proteasome complex	IDA Inferred from Direct Assay more info	PubMed
part_of proteasome core complex	IEA Inferred from Electronic Annotation more info
part_of proteasome core complex	ISO Inferred from Sequence Orthology more info
part_of proteasome core complex, beta-subunit complex	IBA Inferred from Biological aspect of Ancestor more info
part_of proteasome core complex, beta-subunit complex	ISS Inferred from Sequence or Structural Similarity more info
part_of spermatoproteasome complex	ISO Inferred from Sequence Orthology more info
part_of spermatoproteasome complex	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: proteasome subunit beta type-9

Names: RING12 protein; large multifunctional protease 2; low molecular mass polypeptide 2; low molecular mass protein 2; macropain chain 7; multicatalytic endopeptidase complex chain 7; proteasome (prosome, macropain) subunit, beta type 9 (large multifunctional peptidase 2); proteasome (prosome, macropain) subunit, beta type, 9; proteasome chain 7; proteasome subunit beta 9; proteasome subunit beta-1i; proteosome (prosome, macropain) subunit, beta type 9; really interesting new gene 12 protein

NP_036840.2

EC 3.4.25.1

XP_038954351.1

EC 3.4.25.1

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_012708.2 → NP_036840.2 proteasome subunit beta type-9

See identical proteins and their annotated locations for NP_036840.2

Status: VALIDATED

Source sequence(s)

BC091161, BP500440, D10757

UniProtKB/Swiss-Prot

P28077

UniProtKB/TrEMBL

A0A023IKC9, A0A023ILN9, Q6MGA6

Related

ENSRNOP00000000532.4, ENSRNOT00000000532.8

Conserved Domains (1) summary

cd03762
Location:21 → 207

proteasome_beta_type_6; proteasome beta type-6 subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that ...

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_086038.1 Reference GRCr8

Range

4668952..4674421

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039098423.2 → XP_038954351.1 proteasome subunit beta type-9 isoform X1

Conserved Domains (1) summary

cl00467
Location:21 → 163

Ntn_hydrolase; The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a ...