RPS3 (ribosomal protein S3)

Gene

• Entrez ID: 6188
• Gene name: Ribosomal protein S3
• Gene symbol: RPS3
• Synonyms (NCBI Gene): S3, uS3
• Chromosome: 11
• Chromosome location: 11q13.4
• Summary: Ribosomes, the organelles 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 pro

miRNA

miRTarBase ID	miRNA	Experiments	Reference
MIRT051120	hsa-miR-16-5p	CLASH	23622248
MIRT047912	hsa-miR-30c-5p	CLASH	23622248
MIRT047193	hsa-miR-182-5p	CLASH	23622248
MIRT046540	hsa-miR-15b-5p	CLASH	23622248
MIRT046540	hsa-miR-15b-5p	CLASH	23622248
MIRT044122	hsa-miR-30e-3p	CLASH	23622248
MIRT043461	hsa-miR-331-3p	CLASH	23622248
MIRT042817	hsa-miR-324-3p	CLASH	23622248
MIRT041288	hsa-miR-193b-3p	CLASH	23622248
MIRT039732	hsa-miR-615-3p	CLASH	23622248
MIRT038586	hsa-miR-106b-3p	CLASH	23622248
MIRT035761	hsa-miR-196b-3p	CLASH	23622248
MIRT060732	hsa-miR-4282	PAR-CLIP	21572407
MIRT551855	hsa-miR-548m	PAR-CLIP	21572407
MIRT060729	hsa-miR-590-3p	PAR-CLIP	21572407
MIRT551854	hsa-miR-6758-5p	PAR-CLIP	21572407
MIRT551853	hsa-miR-6856-5p	PAR-CLIP	21572407
MIRT551852	hsa-miR-6830-3p	PAR-CLIP	21572407
MIRT551851	hsa-miR-4711-3p	PAR-CLIP	21572407
MIRT551850	hsa-miR-4477a	PAR-CLIP	21572407
MIRT551849	hsa-miR-6844	PAR-CLIP	21572407
MIRT060727	hsa-let-7c-3p	PAR-CLIP	21572407
MIRT551848	hsa-let-7a-2-3p	PAR-CLIP	21572407
MIRT551847	hsa-let-7g-3p	PAR-CLIP	21572407
MIRT551846	hsa-miR-493-5p	PAR-CLIP	21572407
MIRT551845	hsa-miR-511-5p	PAR-CLIP	21572407
MIRT551844	hsa-miR-592	PAR-CLIP	21572407
MIRT060730	hsa-miR-1303	PAR-CLIP	21572407
MIRT060732	hsa-miR-4282	PAR-CLIP	21572407
MIRT551855	hsa-miR-548m	PAR-CLIP	21572407
MIRT060729	hsa-miR-590-3p	PAR-CLIP	21572407
MIRT551854	hsa-miR-6758-5p	PAR-CLIP	21572407
MIRT551853	hsa-miR-6856-5p	PAR-CLIP	21572407
MIRT551852	hsa-miR-6830-3p	PAR-CLIP	21572407
MIRT551851	hsa-miR-4711-3p	PAR-CLIP	21572407
MIRT551850	hsa-miR-4477a	PAR-CLIP	21572407
MIRT551849	hsa-miR-6844	PAR-CLIP	21572407
MIRT060727	hsa-let-7c-3p	PAR-CLIP	21572407
MIRT551848	hsa-let-7a-2-3p	PAR-CLIP	21572407
MIRT551847	hsa-let-7g-3p	PAR-CLIP	21572407
MIRT551846	hsa-miR-493-5p	PAR-CLIP	21572407
MIRT551845	hsa-miR-511-5p	PAR-CLIP	21572407
MIRT551844	hsa-miR-592	PAR-CLIP	21572407
MIRT060730	hsa-miR-1303	PAR-CLIP	21572407
MIRT1317977	hsa-miR-22	CLIP-seq
MIRT1317978	hsa-miR-4428	CLIP-seq
MIRT1317979	hsa-miR-4480	CLIP-seq
MIRT1317980	hsa-miR-4725-5p	CLIP-seq
MIRT1317981	hsa-miR-504	CLIP-seq
MIRT1317982	hsa-miR-508-5p	CLIP-seq
MIRT1317983	hsa-miR-511	CLIP-seq
MIRT1317977	hsa-miR-22	CLIP-seq
MIRT1317978	hsa-miR-4428	CLIP-seq
MIRT1317979	hsa-miR-4480	CLIP-seq
MIRT1317980	hsa-miR-4725-5p	CLIP-seq
MIRT1317981	hsa-miR-504	CLIP-seq
MIRT1317982	hsa-miR-508-5p	CLIP-seq
MIRT1317977	hsa-miR-22	CLIP-seq
MIRT1317978	hsa-miR-4428	CLIP-seq
MIRT1317979	hsa-miR-4480	CLIP-seq
MIRT1317980	hsa-miR-4725-5p	CLIP-seq
MIRT1317981	hsa-miR-504	CLIP-seq
MIRT1317982	hsa-miR-508-5p	CLIP-seq
MIRT1317977	hsa-miR-22	CLIP-seq
MIRT1317978	hsa-miR-4428	CLIP-seq
MIRT1317979	hsa-miR-4480	CLIP-seq
MIRT1317982	hsa-miR-508-5p	CLIP-seq

Gene ontology (GO)

GO ID	Ontology	Definition	Evidence	Reference
GO:0000977	Function	RNA polymerase II transcription regulatory region sequence-specific DNA binding	IMP	18045535
GO:0002181	Process	Cytoplasmic translation	IC	23636399
GO:0002181	Process	Cytoplasmic translation	NAS	25901680
GO:0003677	Function	DNA binding	IDA	18610840
GO:0003677	Function	DNA binding	IEA
GO:0003684	Function	Damaged DNA binding	IDA	14706345, 15518571, 16737853, 17560175, 18610840
GO:0003723	Function	RNA binding	HDA	22658674, 22681889
GO:0003723	Function	RNA binding	IDA	20217897
GO:0003723	Function	RNA binding	IEA
GO:0003729	Function	MRNA binding	IDA	18464793
GO:0003735	Function	Structural constituent of ribosome	HDA	15883184
GO:0003735	Function	Structural constituent of ribosome	IBA
GO:0003735	Function	Structural constituent of ribosome	IDA	23636399
GO:0003735	Function	Structural constituent of ribosome	IEA
GO:0003735	Function	Structural constituent of ribosome	NAS	1712897
GO:0003906	Function	DNA-(apurinic or apyrimidinic site) endonuclease activity	IDA	7775413, 15707971, 16737853, 18610840, 19059439
GO:0003906	Function	DNA-(apurinic or apyrimidinic site) endonuclease activity	IEA
GO:0004520	Function	DNA endonuclease activity	IDA	15707971, 20605787
GO:0005515	Function	Protein binding	IPI	15161933, 18045535, 18274552, 19059439, 19656744, 20041225, 20618440, 21145461, 21146485, 21399639, 22113938, 22244329, 22510408, 23911537, 24423872, 24457201, 24725412, 24965446, 25609649, 26526615, 28065601, 28132843, 30021884, 31046837, 32296183, 32814053, 33961781, 35271311, 392
GO:0005634	Component	Nucleus	IBA
GO:0005634	Component	Nucleus	IDA	14988002, 16814409, 17560175, 18045535, 19059439, 19460357, 20041225
GO:0005634	Component	Nucleus	IEA
GO:0005634	Component	Nucleus	IMP	21399639, 21871177
GO:0005654	Component	Nucleoplasm	TAS
GO:0005730	Component	Nucleolus	IDA	19460357
GO:0005730	Component	Nucleolus	IEA
GO:0005737	Component	Cytoplasm	IDA	14988002, 19059439, 20217897
GO:0005737	Component	Cytoplasm	IEA
GO:0005737	Component	Cytoplasm	IMP	21871177
GO:0005737	Component	Cytoplasm	NAS	25901680
GO:0005739	Component	Mitochondrion	IEA
GO:0005743	Component	Mitochondrial inner membrane	IDA	23911537
GO:0005743	Component	Mitochondrial inner membrane	IEA
GO:0005759	Component	Mitochondrial matrix	IDA	23911537
GO:0005783	Component	Endoplasmic reticulum	IDA
GO:0005819	Component	Spindle	IEA
GO:0005829	Component	Cytosol	IDA	16814409, 17560175, 18045535
GO:0005829	Component	Cytosol	TAS
GO:0005840	Component	Ribosome	IDA	19059439, 19460357, 20217897
GO:0005840	Component	Ribosome	IEA
GO:0005856	Component	Cytoskeleton	IEA
GO:0005886	Component	Plasma membrane	IDA	22510408
GO:0005925	Component	Focal adhesion	HDA	21423176
GO:0006281	Process	DNA repair	IEA
GO:0006281	Process	DNA repair	IMP	19059439
GO:0006284	Process	Base-excision repair	IDA	15518571
GO:0006412	Process	Translation	IC	8706699
GO:0006412	Process	Translation	IEA
GO:0006412	Process	Translation	NAS	1712897
GO:0006413	Process	Translational initiation	NAS	15883184
GO:0006417	Process	Regulation of translation	IEA
GO:0006915	Process	Apoptotic process	IEA
GO:0006974	Process	DNA damage response	IEA
GO:0006974	Process	DNA damage response	IEP	17560175
GO:0007059	Process	Chromosome segregation	IMP	23131551
GO:0008017	Function	Microtubule binding	IDA	23131551
GO:0010628	Process	Positive regulation of gene expression	IMP	20605787
GO:0014069	Component	Postsynaptic density	EXP	21170055
GO:0014069	Component	Postsynaptic density	IDA	21170055
GO:0015631	Function	Tubulin binding	IDA	23131551
GO:0015935	Component	Small ribosomal subunit	IEA
GO:0016020	Component	Membrane	HDA	19946888
GO:0016020	Component	Membrane	IEA
GO:0016829	Function	Lyase activity	IEA
GO:0017148	Process	Negative regulation of translation	IDA	20217897
GO:0019104	Function	DNA N-glycosylase activity	IDA	18610840
GO:0019104	Function	DNA N-glycosylase activity	TAS	15707971
GO:0019899	Function	Enzyme binding	IPI	15518571, 18973764, 19460357
GO:0019900	Function	Kinase binding	IPI	20605787
GO:0019901	Function	Protein kinase binding	IPI	15950189, 21871177
GO:0022626	Component	Cytosolic ribosome	IDA	23636399
GO:0022626	Component	Cytosolic ribosome	IEA
GO:0022627	Component	Cytosolic small ribosomal subunit	HDA	15883184
GO:0022627	Component	Cytosolic small ribosomal subunit	IBA
GO:0022627	Component	Cytosolic small ribosomal subunit	IDA	8706699
GO:0022627	Component	Cytosolic small ribosomal subunit	IEA
GO:0022627	Component	Cytosolic small ribosomal subunit	NAS	25901680
GO:0030544	Function	Hsp70 protein binding	IDA	23911537
GO:0031116	Process	Positive regulation of microtubule polymerization	IMP	23131551
GO:0031334	Process	Positive regulation of protein-containing complex assembly	IEA
GO:0031334	Process	Positive regulation of protein-containing complex assembly	IMP	18045535
GO:0031397	Process	Negative regulation of protein ubiquitination	IDA	19656744
GO:0032079	Process	Positive regulation of endodeoxyribonuclease activity	IDA	18973764
GO:0032357	Function	Oxidized purine DNA binding	IDA	14706345
GO:0032358	Function	Oxidized pyrimidine DNA binding	IDA	19656744
GO:0032587	Component	Ruffle membrane	IDA	16814409
GO:0032743	Process	Positive regulation of interleukin-2 production	IMP	18045535
GO:0034614	Process	Cellular response to reactive oxygen species	IDA	23911537
GO:0042104	Process	Positive regulation of activated T cell proliferation	IMP	18045535
GO:0042981	Process	Regulation of apoptotic process	IMP	20605787
GO:0044390	Function	Ubiquitin-like protein conjugating enzyme binding	IPI	21968017
GO:0044877	Function	Protein-containing complex binding	IMP	18045535
GO:0045202	Component	Synapse	IEA
GO:0045738	Process	Negative regulation of DNA repair	IMP	17049931
GO:0045739	Process	Positive regulation of DNA repair	IDA	23911537
GO:0050862	Process	Positive regulation of T cell receptor signaling pathway	IMP	18045535
GO:0051018	Function	Protein kinase A binding	IPI	16814409
GO:0051092	Process	Positive regulation of NF-kappaB transcription factor activity	IGI	18045535
GO:0051092	Process	Positive regulation of NF-kappaB transcription factor activity	IMP	18045535
GO:0051225	Process	Spindle assembly	IMP	23131551
GO:0051301	Process	Cell division	IEA
GO:0051536	Function	Iron-sulfur cluster binding	NAS	11911468
GO:0051879	Function	Hsp90 protein binding	IDA	23911537
GO:0061481	Process	Response to TNF agonist	IDA	20041225
GO:0070062	Component	Extracellular exosome	HDA	20458337
GO:0070181	Function	Small ribosomal subunit rRNA binding	IDA	18610840
GO:0070301	Process	Cellular response to hydrogen peroxide	IDA	23911537
GO:0071159	Component	NF-kappaB complex	IDA	18045535
GO:0071356	Process	Cellular response to tumor necrosis factor	IMP	18045535
GO:0072686	Component	Mitotic spindle	IDA	23131551
GO:0097100	Function	Supercoiled DNA binding	IDA	15707971
GO:0140078	Function	Class I DNA-(apurinic or apyrimidinic site) endonuclease activity	IEA
GO:0140297	Function	DNA-binding transcription factor binding	IPI	20605787
GO:1901224	Process	Positive regulation of non-canonical NF-kappaB signal transduction	IDA	20041225
GO:1902231	Process	Positive regulation of intrinsic apoptotic signaling pathway in response to DNA damage	IMP	22510408
GO:1905053	Process	Positive regulation of base-excision repair	IDA	18973764
GO:1990904	Component	Ribonucleoprotein complex	IDA	17289661
GO:1990904	Component	Ribonucleoprotein complex	IEA
GO:2001235	Process	Positive regulation of apoptotic signaling pathway	IBA
GO:2001235	Process	Positive regulation of apoptotic signaling pathway	IDA	14988002

Other IDs

• MIM: 600454
• HGNC: 10420
• e!Ensembl: ENSG00000149273

Protein

• UniProt ID: P23396
• Protein name: Small ribosomal subunit protein uS3 (40S ribosomal protein S3) (EC 4.2.99.18)
• Protein function: Component of the small ribosomal subunit (PubMed:23636399, PubMed:8706699). The ribosome is a large ribonucleoprotein complex responsible for the synthesis of proteins in the cell (PubMed:23636399, PubMed:8706699). Has endonuclease activity and
• PDB: 1WH9, 4UG0, 4V6X, 5A2Q, 5AJ0, 5FLX, 5LKS, 5OA3, 5T2C, 5VYC, 6FEC, 6G51, 6G53, 6G5H, 6G5I, 6IP5, 6IP6, 6IP8, 6OLE, 6OLF, 6OLG, 6OLI, 6OLZ, 6OM0, 6OM7, 6QZP, 6XA1, 6Y0G, 6Y2L, 6Y57, 6YBS, 6Z6L, 6Z6M, 6Z6N, 6ZLW, 6ZM7, 6ZME, 6ZMI, 6ZMO, 6ZMT, 6ZMW, 6ZN5, 6ZOJ, 6ZOL, 6ZON, 6ZP4, 6ZUO, 6ZV6, 6ZVH, 6ZVJ, 6ZXD
• Family and domains:

  Pfam

  Accession	ID	Position in sequence	Description	Type
  PF07650	KH_2	20 → 96	KH domain	Domain
  PF00189	Ribosomal_S3_C	105 → 188	Ribosomal protein S3, C-terminal domain	Domain

• Sequence:

  MAVQISKKRKFVADGIFKAELNEFLTRELAEDGYSGVEVRVTPTRTEIIILATRTQNVLG
  EKGRRIRELTAVVQKRFGFPEGSVELYAEKVATRGLCAIAQAESLRYKLLGGLAVRRACY
  GVLRFIMESGAKGCEVVVSGKLRGQRAKSMKFVDGLMIHSGDPVNYYVDTAVRHVLLRQG
  VLGIKVKIMLPWDPTGKIGPKKPLPDHVSIVEPKDEILPTTPISEQKGGKPEPPAMPQPV
  PTA

• Sequence length: 243

Pathways

KEGG:

Ribosome
Pathogenic Escherichia coli infection
Salmonella infection
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
Translation initiation complex formation
Formation of a pool of free 40S subunits
Formation of the ternary complex, and subsequently, the 43S complex
Ribosomal scanning and start codon recognition
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
Acute myeloid leukemia	Benign	ClinVar	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Cervical cancer	Benign	ClinVar	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
CHROMOSOMAL INSTABILITY	—	CTD	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Clear cell carcinoma of kidney	Benign	ClinVar	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Colon adenocarcinoma	Benign	ClinVar	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Colorectal cancer	Benign	ClinVar	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Familial cancer of breast	Benign	ClinVar	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Gastric cancer	Benign	ClinVar	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Lung cancer	Benign	ClinVar	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
MAJOR DEPRESSIVE DISORDER	—	GWAS catalog	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Malignant tumor of esophagus	Benign	ClinVar	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Melanoma	Benign	ClinVar CTD	★★★☆☆ Reported in Unknown/Other Associations (≥2 sources)
Nonpapillary renal cell carcinoma	Benign	ClinVar	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Ovarian serous cystadenocarcinoma	Benign	ClinVar	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Sarcoma	Benign	ClinVar	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Uterine carcinosarcoma	Benign	ClinVar	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Uterine corpus endometrial carcinoma	Benign	ClinVar	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Uveal melanoma	Benign	ClinVar	★★☆☆☆ Found in Text Mining + Unknown/Other Associations

Associations from Text Mining
Disease Name	Disease (Merged)	Source	PMID	Relationship Type	Evidence Score
Alzheimer Disease	Alzheimer disease	Pubtator	35766008, 37925455	Associate	★☆☆☆☆ Found in Text Mining only
Asthma	Asthma	BEFREE	28093718		★☆☆☆☆ Found in Text Mining only
Carcinoma Hepatocellular	Hepatocellular carcinoma	Pubtator	40264052	Associate	★☆☆☆☆ Found in Text Mining only
Carcinoma Ovarian Epithelial	Epithelial ovarian carcinoma	Pubtator	35951361	Associate	★☆☆☆☆ Found in Text Mining only
Cerebral Infarction	Ischemic stroke	Pubtator	40696650	Associate	★☆☆☆☆ Found in Text Mining only
Chronic Obstructive Airway Disease	Chronic Obstructive Pulmonary Disease	BEFREE	30195775		★☆☆☆☆ Found in Text Mining only
Colorectal Neoplasms	Colorectal neoplasm	Pubtator	36567344	Associate	★☆☆☆☆ Found in Text Mining only
Coronary Artery Disease	Coronary artery disease	Pubtator	38267845	Associate	★☆☆☆☆ Found in Text Mining only
Degenerative polyarthritis	Arthritis	BEFREE	30298554		★☆☆☆☆ Found in Text Mining only
Diabetes Mellitus Type 1	Diabetes mellitus, type 1	Pubtator	12950147	Associate	★☆☆☆☆ Found in Text Mining only
Diabetes Mellitus Type 2	Diabetes mellitus, type 2	Pubtator	12950147	Associate	★☆☆☆☆ Found in Text Mining only
Gastroschisis	Gastroschisis	Pubtator	31075877	Associate	★☆☆☆☆ Found in Text Mining only
Glioblastoma	Glioblastoma	BEFREE	29371697		★☆☆☆☆ Found in Text Mining only
Glioblastoma Multiforme	Glioblastoma	BEFREE	29371697		★☆☆☆☆ Found in Text Mining only
Hepatomegaly	Hepatomegaly	Pubtator	37603533	Associate	★☆☆☆☆ Found in Text Mining only
Kidney Diseases	Kidney disease	Pubtator	37603533	Associate	★☆☆☆☆ Found in Text Mining only
Liver carcinoma	Liver carcinoma	BEFREE	30517713		★☆☆☆☆ Found in Text Mining only
Liver Failure	Liver failure	Pubtator	37603533	Associate	★☆☆☆☆ Found in Text Mining only
Malignant Neoplasms	Malignant Neoplasm	BEFREE	27384988, 30420357, 30819254		★☆☆☆☆ Found in Text Mining only
melanoma	Melanoma	CTD_human_DG	22535842		★★★☆☆ Reported in Unknown/Other Associations (≥2 sources)
melanoma	Melanoma	BEFREE	26336993		★★★☆☆ Reported in Unknown/Other Associations (≥2 sources)
Necrosis	Necrosis	Pubtator	37603533	Associate	★☆☆☆☆ Found in Text Mining only
Neoplasms	Neoplasms	BEFREE	30819254		★☆☆☆☆ Found in Text Mining only
Non-Small Cell Lung Carcinoma	Lung carcinoma	BEFREE	29371697		★☆☆☆☆ Found in Text Mining only
Osteoarthritis	Osteoarthritis	Pubtator	30298554, 39796139	Associate	★☆☆☆☆ Found in Text Mining only
Osteosarcoma	Osteosarcoma	BEFREE	25449781		★☆☆☆☆ Found in Text Mining only
Teratozoospermia	Teratozoospermia	BEFREE	29901159		★☆☆☆☆ Found in Text Mining only
Teratozoospermia	Teratozoospermia	Pubtator	29901159	Associate	★☆☆☆☆ Found in Text Mining only
Triple Negative Breast Neoplasms	Triple negative breast cancer	Pubtator	35313339, 35616135	Associate	★☆☆☆☆ Found in Text Mining only
Werner Syndrome	Werner Syndrome	BEFREE	21210717		★☆☆☆☆ Found in Text Mining only
Xeroderma Pigmentosum	Xeroderma pigmentosum	Pubtator	33464383	Associate	★☆☆☆☆ Found in Text Mining only