RPS28 (ribosomal protein S28)

Gene

• Entrez ID: 6234
• Gene name: Ribosomal protein S28
• Gene symbol: RPS28
• Synonyms (NCBI Gene): DBA15, S28, eS28
• Chromosome: 19
• Chromosome location: 19p13.2
• 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
MIRT050253	hsa-miR-25-3p	CLASH	23622248
MIRT049327	hsa-miR-92a-3p	CLASH	23622248
MIRT046092	hsa-miR-125b-5p	CLASH	23622248
MIRT040626	hsa-miR-92b-3p	CLASH	23622248
MIRT039341	hsa-miR-425-5p	CLASH	23622248
MIRT035825	hsa-miR-1307-3p	CLASH	23622248
MIRT295132	hsa-miR-3613-3p	PAR-CLIP	20371350
MIRT559783	hsa-miR-4494	PAR-CLIP	20371350
MIRT295130	hsa-miR-935	PAR-CLIP	20371350
MIRT349294	hsa-miR-4468	PAR-CLIP	20371350
MIRT559782	hsa-miR-4771	PAR-CLIP	20371350
MIRT295135	hsa-miR-6081	PAR-CLIP	20371350
MIRT559781	hsa-miR-25-5p	PAR-CLIP	20371350
MIRT559780	hsa-miR-4504	PAR-CLIP	20371350
MIRT559779	hsa-miR-542-3p	PAR-CLIP	20371350
MIRT295129	hsa-miR-644a	PAR-CLIP	20371350
MIRT295133	hsa-miR-4730	PAR-CLIP	20371350
MIRT295132	hsa-miR-3613-3p	PAR-CLIP	20371350
MIRT559783	hsa-miR-4494	PAR-CLIP	20371350
MIRT349294	hsa-miR-4468	PAR-CLIP	20371350
MIRT559782	hsa-miR-4771	PAR-CLIP	20371350
MIRT295135	hsa-miR-6081	PAR-CLIP	20371350
MIRT559781	hsa-miR-25-5p	PAR-CLIP	20371350
MIRT559780	hsa-miR-4504	PAR-CLIP	20371350
MIRT559779	hsa-miR-542-3p	PAR-CLIP	20371350
MIRT295129	hsa-miR-644a	PAR-CLIP	20371350
MIRT295133	hsa-miR-4730	PAR-CLIP	20371350
MIRT559781	hsa-miR-25-5p	PAR-CLIP	27292025
MIRT559781	hsa-miR-25-5p	PAR-CLIP	27292025
MIRT559781	hsa-miR-25-5p	PAR-CLIP	27292025
MIRT295132	hsa-miR-3613-3p	PAR-CLIP	27292025
MIRT295132	hsa-miR-3613-3p	PAR-CLIP	27292025
MIRT295132	hsa-miR-3613-3p	PAR-CLIP	27292025
MIRT349294	hsa-miR-4468	PAR-CLIP	27292025
MIRT349294	hsa-miR-4468	PAR-CLIP	27292025
MIRT349294	hsa-miR-4468	PAR-CLIP	27292025
MIRT559783	hsa-miR-4494	PAR-CLIP	27292025
MIRT559783	hsa-miR-4494	PAR-CLIP	27292025
MIRT559783	hsa-miR-4494	PAR-CLIP	27292025
MIRT559780	hsa-miR-4504	PAR-CLIP	27292025
MIRT559780	hsa-miR-4504	PAR-CLIP	27292025
MIRT559780	hsa-miR-4504	PAR-CLIP	27292025
MIRT295133	hsa-miR-4730	PAR-CLIP	27292025
MIRT295133	hsa-miR-4730	PAR-CLIP	27292025
MIRT295133	hsa-miR-4730	PAR-CLIP	27292025
MIRT559782	hsa-miR-4771	PAR-CLIP	27292025
MIRT559782	hsa-miR-4771	PAR-CLIP	27292025
MIRT559782	hsa-miR-4771	PAR-CLIP	27292025
MIRT559779	hsa-miR-542-3p	PAR-CLIP	27292025
MIRT559779	hsa-miR-542-3p	PAR-CLIP	27292025
MIRT559779	hsa-miR-542-3p	PAR-CLIP	27292025
MIRT295135	hsa-miR-6081	PAR-CLIP	27292025
MIRT295135	hsa-miR-6081	PAR-CLIP	27292025
MIRT295135	hsa-miR-6081	PAR-CLIP	27292025
MIRT295129	hsa-miR-644a	PAR-CLIP	27292025
MIRT295129	hsa-miR-644a	PAR-CLIP	27292025
MIRT295129	hsa-miR-644a	PAR-CLIP	27292025
MIRT295130	hsa-miR-935	PAR-CLIP	27292025
MIRT295130	hsa-miR-935	PAR-CLIP	27292025
MIRT295130	hsa-miR-935	PAR-CLIP	27292025
MIRT295132	hsa-miR-3613-3p	PAR-CLIP	20371350
MIRT559783	hsa-miR-4494	PAR-CLIP	20371350
MIRT295130	hsa-miR-935	PAR-CLIP	20371350
MIRT349294	hsa-miR-4468	PAR-CLIP	20371350
MIRT559782	hsa-miR-4771	PAR-CLIP	20371350
MIRT295135	hsa-miR-6081	PAR-CLIP	20371350
MIRT559781	hsa-miR-25-5p	PAR-CLIP	20371350
MIRT559780	hsa-miR-4504	PAR-CLIP	20371350
MIRT559779	hsa-miR-542-3p	PAR-CLIP	20371350
MIRT295129	hsa-miR-644a	PAR-CLIP	20371350
MIRT295133	hsa-miR-4730	PAR-CLIP	20371350
MIRT295132	hsa-miR-3613-3p	PAR-CLIP	20371350
MIRT559783	hsa-miR-4494	PAR-CLIP	20371350
MIRT349294	hsa-miR-4468	PAR-CLIP	20371350
MIRT559782	hsa-miR-4771	PAR-CLIP	20371350
MIRT295135	hsa-miR-6081	PAR-CLIP	20371350
MIRT559781	hsa-miR-25-5p	PAR-CLIP	20371350
MIRT559780	hsa-miR-4504	PAR-CLIP	20371350
MIRT559779	hsa-miR-542-3p	PAR-CLIP	20371350
MIRT295129	hsa-miR-644a	PAR-CLIP	20371350
MIRT295133	hsa-miR-4730	PAR-CLIP	20371350
MIRT1317952	hsa-miR-3545-5p	CLIP-seq
MIRT1317953	hsa-miR-3667-5p	CLIP-seq
MIRT1317954	hsa-miR-4480	CLIP-seq
MIRT1317955	hsa-miR-644	CLIP-seq
MIRT2094467	hsa-miR-494	CLIP-seq
MIRT1317955	hsa-miR-644	CLIP-seq
MIRT1317952	hsa-miR-3545-5p	CLIP-seq
MIRT1317953	hsa-miR-3667-5p	CLIP-seq
MIRT1317954	hsa-miR-4480	CLIP-seq
MIRT2094467	hsa-miR-494	CLIP-seq
MIRT1317955	hsa-miR-644	CLIP-seq
MIRT1317952	hsa-miR-3545-5p	CLIP-seq
MIRT1317954	hsa-miR-4480	CLIP-seq

Gene ontology (GO)

GO ID	Ontology	Definition	Evidence	Reference
GO:0000028	Process	Ribosomal small subunit assembly	IBA
GO:0002181	Process	Cytoplasmic translation	IC	23636399
GO:0002181	Process	Cytoplasmic translation	IDA	25957688
GO:0002181	Process	Cytoplasmic translation	NAS	25901680
GO:0003723	Function	RNA binding	HDA	22658674, 22681889
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	IMP	18697920
GO:0005515	Function	Protein binding	IPI	25416956, 32296183
GO:0005634	Component	Nucleus	IEA
GO:0005654	Component	Nucleoplasm	TAS
GO:0005730	Component	Nucleolus	IEA
GO:0005737	Component	Cytoplasm	IEA
GO:0005737	Component	Cytoplasm	NAS	25901680
GO:0005783	Component	Endoplasmic reticulum	IEA
GO:0005791	Component	Rough endoplasmic reticulum	IEA
GO:0005829	Component	Cytosol	IEA
GO:0005829	Component	Cytosol	TAS
GO:0005840	Component	Ribosome	IDA	25957688
GO:0005840	Component	Ribosome	IEA
GO:0006364	Process	RRNA processing	IMP	18697920
GO:0006412	Process	Translation	IC	8706699, 15883184
GO:0006412	Process	Translation	IEA
GO:0015935	Component	Small ribosomal subunit	HDA	15883184
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, 23636399
GO:0022627	Component	Cytosolic small ribosomal subunit	IEA
GO:0022627	Component	Cytosolic small ribosomal subunit	NAS	25901680
GO:0030490	Process	Maturation of SSU-rRNA	IBA
GO:0032040	Component	Small-subunit processome	IDA	34516797
GO:0042254	Process	Ribosome biogenesis	IMP	24942156
GO:0042274	Process	Ribosomal small subunit biogenesis	IDA	34516797
GO:0042274	Process	Ribosomal small subunit biogenesis	IMP	18697920
GO:0045202	Component	Synapse	IEA
GO:0070062	Component	Extracellular exosome	HDA	20458337
GO:0098556	Component	Cytoplasmic side of rough endoplasmic reticulum membrane	ISS
GO:1990904	Component	Ribonucleoprotein complex	IEA

Other IDs

• MIM: 603685
• HGNC: 10418
• e!Ensembl: ENSG00000233927

Protein

• UniProt ID: P62857
• Protein name: Small ribosomal subunit protein eS28 (40S ribosomal protein S28)
• Protein function: Component of the small ribosomal subunit (PubMed:23636399, PubMed:25901680, PubMed:25957688). The ribosome is a large ribonucleoprotein complex responsible for the synthesis of proteins in the cell (PubMed:23636399, PubMed:25901680, PubMed:25957
• PDB: 4UG0, 4V6X, 5A2Q, 5AJ0, 5FLX, 5LKS, 5OA3, 5T2C, 5VYC, 6FEC, 6G18, 6G4S, 6G4W, 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
• Family and domains:

  Pfam

  Accession	ID	Position in sequence	Description	Type
  PF01200	Ribosomal_S28e	7 → 68	Ribosomal protein S28e	Family

• Sequence:

  MDTSRVQPIKLARVTKVLGRTGSQGQCTQVRVEFMDDTSRSIIRNVKGPVREGDVLTLLE
  SEREARRLR

• Sequence length: 69

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
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)

Causal
Phenotype Name	Clinical Significance	dbSNP ID	RCV Accession	Evidence Score
Diamond-Blackfan anemia 15 with mandibulofacial dysostosis	Pathogenic	rs786203997	RCV000167573	★★★★☆ ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)

Unknown / Other Associations
Phenotype Name	Clinical Significance	Source	Evidence Score
ANEMIA, DIAMOND-BLACKFAN	—	Disgenet	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
DIAMOND-BLACKFAN ANEMIA	—	GWAS catalog, Orphanet GWAS catalog, Orphanet	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Malignant lymphoma, large B-cell, diffuse	Benign	ClinVar	★★☆☆☆ Found in Text Mining + Unknown/Other Associations
RPS28-related disorder	Likely benign	ClinVar	★★☆☆☆ Found in Text Mining + Unknown/Other Associations

Associations from Text Mining
Disease Name	Disease (Merged)	Source	PMID	Relationship Type	Evidence Score
Aase Smith syndrome 2	Aase-Smith syndrome	ORPHANET_DG	24942156		★☆☆☆☆ Found in Text Mining only
Acute leukemia	Leukemia	HPO_DG			★☆☆☆☆ Found in Text Mining only
Agranulocytosis	Agranulocytosis	HPO_DG			★☆☆☆☆ Found in Text Mining only
Anemia, Diamond-Blackfan	Anemia	ORPHANET_DG	24942156		★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Anemia, Diamond-Blackfan	Anemia	GENOMICS_ENGLAND_DG	28297620		★★☆☆☆ Found in Text Mining + Unknown/Other Associations
Anemia, Macrocytic	Anemia	HPO_DG			★☆☆☆☆ Found in Text Mining only
Blackfan-Diamond anemia	Blackfan-Diamond Anemia	Orphanet			★☆☆☆☆ Found in Text Mining only
Bone Marrow failure syndromes	Bone marrow failure syndrome	BEFREE	29954325		★☆☆☆☆ Found in Text Mining only
Cerebral Infarction	Ischemic stroke	Pubtator	39290696	Associate	★☆☆☆☆ Found in Text Mining only
Congenital diaphragmatic hernia	Congenital diaphragmatic hernia	HPO_DG			★☆☆☆☆ Found in Text Mining only
Congenital Epicanthus	Congenital Epicanthus	HPO_DG			★☆☆☆☆ Found in Text Mining only
Congenital small ears	Microtia	HPO_DG			★☆☆☆☆ Found in Text Mining only
DIAMOND-BLACKFAN ANEMIA 15 WITH MANDIBULOFACIAL DYSOSTOSIS	Diamond-Blackfan Anemia With Mandibulofacial Dysostosis	GENOMICS_ENGLAND_DG	24942156		★★★★☆ ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
DIAMOND-BLACKFAN ANEMIA 15 WITH MANDIBULOFACIAL DYSOSTOSIS	Diamond-Blackfan Anemia With Mandibulofacial Dysostosis	CTD_human_DG			★★★★☆ ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
DIAMOND-BLACKFAN ANEMIA 15 WITH MANDIBULOFACIAL DYSOSTOSIS	Diamond-Blackfan Anemia With Mandibulofacial Dysostosis	CLINVAR_DG			★★★★☆ ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Dwarfism	Dwarfism	HPO_DG			★☆☆☆☆ Found in Text Mining only
Global developmental delay	Developmental Delay	HPO_DG			★☆☆☆☆ Found in Text Mining only
Hearing Loss, Mixed Conductive-Sensorineural	Hearing Loss	HPO_DG			★☆☆☆☆ Found in Text Mining only
Hematologic Neoplasms	Hematologic Neoplasms	BEFREE	29954325		★☆☆☆☆ Found in Text Mining only
Hypertension	Hypertension	Pubtator	32888289	Associate	★☆☆☆☆ Found in Text Mining only
Mandibulofacial Dysostosis	Mandibulofacial dysostosis	Pubtator	24942156	Associate	★☆☆☆☆ Found in Text Mining only
Micrognathism	Micrognathism	HPO_DG			★☆☆☆☆ Found in Text Mining only
Migraine Disorders	Migraine	HPO_DG			★☆☆☆☆ Found in Text Mining only
Multiple Myeloma	Multiple myeloma	Pubtator	35536760	Associate	★☆☆☆☆ Found in Text Mining only
Osteoarthritis	Osteoarthritis	Pubtator	29344651	Associate	★☆☆☆☆ Found in Text Mining only
Osteosarcoma	Osteosarcoma	Pubtator	36618348	Associate	★☆☆☆☆ Found in Text Mining only
Posteriorly rotated ear	Posteriorly Rotated Ear	HPO_DG			★☆☆☆☆ Found in Text Mining only
Squamous Cell Carcinoma of Head and Neck	Squamous cell carcinoma	Pubtator	34585646	Associate	★☆☆☆☆ Found in Text Mining only
Stroke	Stroke	Pubtator	39290696	Associate	★☆☆☆☆ Found in Text Mining only