RPL3 (ribosomal protein L3)

Gene

• Entrez ID: 6122
• Gene name: Ribosomal protein L3
• Gene symbol: RPL3
• Synonyms (NCBI Gene): ASC-1, L3, TARBP-B, uL3
• Chromosome: 22
• Chromosome location: 22q13.1
• Summary: Ribosomes, the complexes that catalyze protein synthesis, consist of a small 40S subunit and a large 60S subunit. Together these subunits are composed of 4 RNA species and approximately 80 structurally distinct proteins. This gene encodes a ribosomal prot

miRNA

miRTarBase ID	miRNA	Experiments	Reference
MIRT031945	hsa-miR-16-5p	Proteomics	18668040
MIRT049123	hsa-miR-92a-3p	qRT-PCR	23622248
MIRT051787	hsa-let-7c-5p	CLASH	23622248
MIRT049123	hsa-miR-92a-3p	CLASH	23622248
MIRT049123	hsa-miR-92a-3p	CLASH	23622248
MIRT047026	hsa-miR-204-5p	CLASH	23622248
MIRT046052	hsa-miR-125b-5p	CLASH	23622248
MIRT042530	hsa-miR-423-3p	CLASH	23622248
MIRT040684	hsa-miR-92b-3p	CLASH	23622248
MIRT039771	hsa-miR-615-3p	CLASH	23622248
MIRT039771	hsa-miR-615-3p	CLASH	23622248
MIRT039771	hsa-miR-615-3p	CLASH	23622248
MIRT039282	hsa-miR-671-5p	CLASH	23622248
MIRT037436	hsa-miR-744-5p	CLASH	23622248
MIRT036275	hsa-miR-1229-3p	CLASH	23622248
MIRT036120	hsa-miR-1296-5p	CLASH	23622248
MIRT035991	hsa-miR-1301-3p	CLASH	23622248
MIRT035792	hsa-miR-1914-5p	CLASH	23622248
MIRT052681	hsa-miR-1260b	CLASH	23622248
MIRT052681	hsa-miR-1260b	CLASH	23622248
MIRT439739	hsa-miR-218-5p	HITS-CLIP	23212916
MIRT439738	hsa-miR-493-3p	HITS-CLIP	24374217
MIRT439739	hsa-miR-218-5p	HITS-CLIP	23212916
MIRT439738	hsa-miR-493-3p	HITS-CLIP	24374217
MIRT1316736	hsa-miR-3672	CLIP-seq
MIRT1316737	hsa-miR-4461	CLIP-seq
MIRT1316738	hsa-miR-4786-5p	CLIP-seq
MIRT1316739	hsa-miR-769-5p	CLIP-seq
MIRT2094094	hsa-miR-1343	CLIP-seq
MIRT1316736	hsa-miR-3672	CLIP-seq
MIRT2094095	hsa-miR-4326	CLIP-seq
MIRT1316737	hsa-miR-4461	CLIP-seq
MIRT1316738	hsa-miR-4786-5p	CLIP-seq
MIRT1316739	hsa-miR-769-5p	CLIP-seq
MIRT1316736	hsa-miR-3672	CLIP-seq
MIRT1316737	hsa-miR-4461	CLIP-seq
MIRT1316738	hsa-miR-4786-5p	CLIP-seq
MIRT1316739	hsa-miR-769-5p	CLIP-seq
MIRT2094094	hsa-miR-1343	CLIP-seq
MIRT2094095	hsa-miR-4326	CLIP-seq
MIRT1316738	hsa-miR-4786-5p	CLIP-seq
MIRT1316739	hsa-miR-769-5p	CLIP-seq
MIRT2094094	hsa-miR-1343	CLIP-seq
MIRT2094095	hsa-miR-4326	CLIP-seq
MIRT1316738	hsa-miR-4786-5p	CLIP-seq
MIRT1316739	hsa-miR-769-5p	CLIP-seq

Transcription factors

Transcription factor	Regulation	Reference
KHSRP	Unknown	21705779
NPM1	Unknown	21705779

Gene ontology (GO)

GO ID	Ontology	Definition	Evidence	Reference
GO:0002181	Process	Cytoplasmic translation	IC	23636399
GO:0003723	Function	RNA binding	HDA	22658674, 22681889
GO:0003723	Function	RNA binding	IBA
GO:0003723	Function	RNA binding	TAS
GO:0003735	Function	Structural constituent of ribosome	IBA
GO:0003735	Function	Structural constituent of ribosome	IDA	23636399, 32669547
GO:0003735	Function	Structural constituent of ribosome	IEA
GO:0003735	Function	Structural constituent of ribosome	NAS	12962325
GO:0003735	Function	Structural constituent of ribosome	TAS
GO:0005515	Function	Protein binding	IPI	23349634, 24965446, 25854864, 26100019, 32814053
GO:0005634	Component	Nucleus	HDA	21630459
GO:0005634	Component	Nucleus	IEA
GO:0005730	Component	Nucleolus	HDA	16791210
GO:0005730	Component	Nucleolus	IDA	16963496
GO:0005730	Component	Nucleolus	IEA
GO:0005730	Component	Nucleolus	TAS
GO:0005737	Component	Cytoplasm	HDA	16791210
GO:0005737	Component	Cytoplasm	IEA
GO:0005829	Component	Cytosol	IDA
GO:0005829	Component	Cytosol	TAS
GO:0005840	Component	Ribosome	IEA
GO:0005925	Component	Focal adhesion	HDA	21423176
GO:0006412	Process	Translation	IBA
GO:0006412	Process	Translation	IEA
GO:0006412	Process	Translation	NAS	12962325
GO:0006412	Process	Translation	TAS
GO:0022625	Component	Cytosolic large ribosomal subunit	HDA	12962325
GO:0022625	Component	Cytosolic large ribosomal subunit	IBA
GO:0022625	Component	Cytosolic large ribosomal subunit	IDA	32669547
GO:0022625	Component	Cytosolic large ribosomal subunit	IEA
GO:0022625	Component	Cytosolic large ribosomal subunit	TAS
GO:0022626	Component	Cytosolic ribosome	IDA	32669547
GO:0022626	Component	Cytosolic ribosome	IDA	23636399
GO:0032991	Component	Protein-containing complex	IDA	23349634
GO:0070062	Component	Extracellular exosome	HDA	20458337
GO:0071353	Process	Cellular response to interleukin-4	IEA
GO:1990904	Component	Ribonucleoprotein complex	IEA

Other IDs

• MIM: 604163
• HGNC: 10332
• e!Ensembl: ENSG00000100316

Protein

• UniProt ID: P39023
• Protein name: Large ribosomal subunit protein uL3 (60S ribosomal protein L3) (HIV-1 TAR RNA-binding protein B) (TARBP-B)
• Protein function: Component of the large ribosomal subunit (PubMed:12962325, PubMed:23636399, PubMed:32669547, PubMed:35674491). The ribosome is a large ribonucleoprotein complex responsible for the synthesis of proteins in the cell (PubMed:12962325, PubMed:23636
• PDB: 4UG0, 4V6X, 5AJ0, 5LKS, 5T2C, 6IP5, 6IP6, 6IP8, 6LQM, 6LSR, 6LSS, 6LU8, 6OLE, 6OLF, 6OLG, 6OLI, 6OLZ, 6OM0, 6OM7, 6QZP, 6W6L, 6XA1, 6Y0G, 6Y2L, 6Y57, 6Y6X, 6Z6L, 6Z6M, 6Z6N, 6ZM7, 6ZME, 6ZMI, 6ZMO, 7BHP, 7F5S, 7QVP, 7XNX, 7XNY, 8A3D, 8FKP, 8FKQ, 8FKR, 8FKS, 8FKT, 8FKU, 8FKV, 8FKW, 8FKX, 8FKY, 8FKZ, 8FL0
• Family and domains:

  Pfam

  Accession	ID	Position in sequence	Description	Type
  PF00297	Ribosomal_L3	1 → 375	Ribosomal protein L3	Family

• Sequence:

  MSHRKFSAPRHGSLGFLPRKRSSRHRGKVKSFPKDDPSKPVHLTAFLGYKAGMTHIVREV
  DRPGSKVNKKEVVEAVTIVETPPMVVVGIVGYVETPRGLRTFKTVFAEHISDECKRRFYK
  NWHKSKKKAFTKYCKKWQDEDGKKQLEKDFSSMKKYCQVIRVIAHTQMRLLPLRQKKAHL
  MEIQVNGGTVAEKLDWARERLEQQVPVNQVFGQDEMIDVIGVTKGKGYKGVTSRWHTKKL
  PRKTHRGLRKVACIGAWHPARVAFSVARAGQKGYHHRTEINKKIYKIGQGYLIKDGKLIK
  NNASTDYDLSDKSINPLGGFVHYGEVTNDFVMLKGCVVGTKKRVLTLRKSLLVQTKRRAL
  EKIDLKFIDTTSKFGHGRFQTMEEKKAFMGPLKKDRIAKEEGA

• Sequence length: 403

Pathways

KEGG:

Ribosome
Coronavirus disease - COVID-19

Reactome:

L13a-mediated translational silencing of Ceruloplasmin expression
SRP-dependent cotranslational protein targeting to membrane
Viral mRNA Translation
Major pathway of rRNA processing in the nucleolus and cytosol
Formation of a pool of free 40S subunits
GTP hydrolysis and joining of the 60S ribosomal subunit
Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)
Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)

Associated diseases

Evidence Score:

• ★☆☆☆☆  Gene-disease association found in Text Mining only
• ★★☆☆☆  Found in Text Mining and Unknown/Other Associations
• ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources
• ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants)
• ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)

Unknown / Other Associations
Phenotype Name	Clinical Significance	Source	Evidence Score
ANKYLOSING SPONDYLITIS	—	GWAS catalog	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
BILIARY LIVER CIRRHOSIS	—	GWAS catalog	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
CARCINOMA	—	CTD	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
COLOR VISION DISORDER	—	GWAS catalog	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
COLORECTAL CANCER	—	GWAS catalog	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
CROHN'S DISEASE	—	GWAS catalog	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
DEGENERATION OF MACULA AND POSTERIOR POLE	—	GWAS catalog	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
HYPOTHYROIDISM	—	GWAS catalog	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
INFLAMMATORY BOWEL DISEASE	—	GWAS catalog	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
MACULAR DEGENERATION	—	GWAS catalog	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
OVARIAN CANCER	—	GWAS catalog	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
OVARIAN CARCINOMA	—	GWAS catalog	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
PRIMARY BILIARY CIRRHOSIS	—	GWAS catalog	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
PSORIASIS	—	GWAS catalog	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
RETINOPATHY	—	GWAS catalog	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
RHEUMATOID ARTHRITIS	—	GWAS catalog	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
SCLEROSING CHOLANGITIS	—	GWAS catalog	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
SYSTEMIC LUPUS ERYTHEMATOSUS	—	GWAS catalog	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
ULCERATIVE COLITIS	—	GWAS catalog	★★☆☆☆ Found in Text Mining + Unknown/Other Associations

Associations from Text Mining
Disease Name	Disease (Merged)	Source	PMID	Relationship Type	Evidence Score
Anaplastic carcinoma	Anaplastic Carcinoma	CTD_human_DG	16316942		★☆☆☆☆ Found in Text Mining only
Autoimmune Diseases	Autoimmune disease	Pubtator	12974759	Associate	★☆☆☆☆ Found in Text Mining only
Breast Carcinoma	Breast Carcinoma	BEFREE	9597010		★☆☆☆☆ Found in Text Mining only
Breast Neoplasms	Breast neoplasm	Pubtator	27926932, 36308067	Associate	★☆☆☆☆ Found in Text Mining only
Carcinogenesis	Carcinogenesis	Pubtator	32987560	Associate	★☆☆☆☆ Found in Text Mining only
Carcinoma	Carcinoma	CTD_human_DG	16316942		★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Carcinoma Hepatocellular	Hepatocellular carcinoma	Pubtator	36378050	Associate	★☆☆☆☆ Found in Text Mining only
Carcinoma, Spindle-Cell	Carcinoma	CTD_human_DG	16316942		★☆☆☆☆ Found in Text Mining only
Colon Carcinoma	Colon Carcinoma	BEFREE	27835895		★☆☆☆☆ Found in Text Mining only
Colorectal Neoplasms	Colorectal neoplasm	Pubtator	27385096, 27835895, 35127345	Associate	★☆☆☆☆ Found in Text Mining only
Congenital myopathy (disorder)	Congenital myopathy	BEFREE	31794073		★☆☆☆☆ Found in Text Mining only
Cystinuria	Cystinuria	BEFREE	15458438		★☆☆☆☆ Found in Text Mining only
Glioblastoma	Glioblastoma	Pubtator	29687002	Associate	★☆☆☆☆ Found in Text Mining only
Glioblastoma Multiforme	Glioblastoma	BEFREE	31306660		★☆☆☆☆ Found in Text Mining only
Glioma	Glioma	Pubtator	32987560	Associate	★☆☆☆☆ Found in Text Mining only
Intervertebral disc disease	Intervertebral disc disease	Pubtator	33761671	Associate	★☆☆☆☆ Found in Text Mining only
Liver Cirrhosis Biliary	Liver cirrhosis	Pubtator	28425483	Associate	★☆☆☆☆ Found in Text Mining only
Lung Neoplasms	Lung neoplasms	Pubtator	26636733, 27924828	Associate	★☆☆☆☆ Found in Text Mining only
Malignant neoplasm of lung	Lung Cancer	BEFREE	27924828		★☆☆☆☆ Found in Text Mining only
Malignant Neoplasms	Malignant Neoplasm	BEFREE	27385096		★☆☆☆☆ Found in Text Mining only
Malignant tumor of colon	Colonic Neoplasms	BEFREE	27835895		★☆☆☆☆ Found in Text Mining only
Multiple Sclerosis	Multiple sclerosis	Pubtator	23077530	Associate	★☆☆☆☆ Found in Text Mining only
Myopathy	Myopathy	BEFREE	27008887, 31794073		★☆☆☆☆ Found in Text Mining only
Neoplasms	Neoplasms	BEFREE	27835895		★☆☆☆☆ Found in Text Mining only
Neuromuscular Diseases	Neuromuscular Diseases	BEFREE	28218388		★☆☆☆☆ Found in Text Mining only
Polycystic Ovary Syndrome	Polycystic Ovary Syndrome	BEFREE	23683262		★☆☆☆☆ Found in Text Mining only
Primary biliary cirrhosis	Biliary Cirrhosis	GWASDB_DG	21399635		★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Schizophrenia	Schizophrenia	BEFREE	18400471		★☆☆☆☆ Found in Text Mining only
Spinal Muscular Atrophy	Spinal Muscular Atrophy	BEFREE	30398641, 31794073		★☆☆☆☆ Found in Text Mining only
Thyroid Neoplasms	Thyroid cancer	Pubtator	37745716	Associate	★☆☆☆☆ Found in Text Mining only
Undifferentiated carcinoma	Carcinoma	CTD_human_DG	16316942		★☆☆☆☆ Found in Text Mining only