U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination
    • Showing Current items.

    RPS3 ribosomal protein S3 [ Homo sapiens (human) ]

    Gene ID: 6188, updated on 29-Oct-2024

    Summary

    Official Symbol
    RPS3provided by HGNC
    Official Full Name
    ribosomal protein S3provided by HGNC
    Primary source
    HGNC:HGNC:10420
    See related
    Ensembl:ENSG00000149273 MIM:600454; AllianceGenome:HGNC:10420
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    S3; uS3
    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 protein that is a component of the 40S subunit, where it forms part of the domain where translation is initiated. The protein belongs to the S3P family of ribosomal proteins. Studies of the mouse and rat proteins have demonstrated that the protein has an extraribosomal role as an endonuclease involved in the repair of UV-induced DNA damage. The protein appears to be located in both the cytoplasm and nucleus but not in the nucleolus. Higher levels of expression of this gene in colon adenocarcinomas and adenomatous polyps compared to adjacent normal colonic mucosa have been observed. This gene is co-transcribed with the small nucleolar RNA genes U15A and U15B, which are located in its first and fifth introns, respectively. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. Multiple alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, May 2012]
    Expression
    Ubiquitous expression in ovary (RPKM 566.1), bone marrow (RPKM 278.4) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See RPS3 in Genome Data Viewer
    Location:
    11q13.4
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (75399518..75422302)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (75329106..75351811)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (75110562..75133346)

    Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3759 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3760 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:74972903-74973402 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:74973761-74974692 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:74976727-74977228 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:74977229-74977728 Neighboring gene trophoblast glycoprotein like Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:74983603-74984104 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:74988922-74989422 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:74991005-74991880 Neighboring gene arrestin beta 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:75002568-75003068 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:75014529-75015343 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:75019873-75020374 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:75024683-75025599 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:75033894-75034520 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:75035773-75036398 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:75037071-75037602 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:75037603-75038135 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5264 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:75041995-75042528 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:75042529-75043062 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:75043063-75043596 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:75044132-75044665 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:75045734-75046268 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:75046269-75046802 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:75051565-75052428 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:75052429-75053292 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3762 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:75057563-75058076 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:75058077-75058590 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5266 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3763 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:75062958-75063913 Neighboring gene microRNA 326 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:75092225-75092873 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5267 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:75111125-75111988 Neighboring gene Sharpr-MPRA regulatory regions 4651 and 6526 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:75118535-75119034 Neighboring gene small nucleolar RNA, C/D box 15A Neighboring gene small nucleolar RNA, C/D box 15B Neighboring gene Sharpr-MPRA regulatory regions 6111 and 12908 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3764 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3765 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:75142886-75143772 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:75151983-75152545 Neighboring gene kelch like family member 35 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:75167384-75167982 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:75171856-75172358 Neighboring gene glycerophosphodiester phosphodiesterase domain containing 5 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:75177195-75177867 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:75178136-75178783 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:75178784-75179430 Neighboring gene uncharacterized LOC105369389

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify ribosomal protein S3 (RPS3), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify ribosomal protein S3 (RPS3), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Nef nef Tandem affinity purification and mass spectrometry analysis identify ribosomal protein S3 (RPS3), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Pr55(Gag) gag HIV-1 Gag interacts with RPS3 as demonstrated by proximity dependent biotinylation proteomics PubMed
    gag Tandem affinity purification and mass spectrometry analysis identify ribosomal protein S3 (RPS3), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ26283, FLJ27450, MGC87870

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    NOT enables DNA N-glycosylase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    NOT enables DNA N-glycosylase activity TAS
    Traceable Author Statement
    more info
    PubMed 
    enables DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables DNA endonuclease activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables DNA-(apurinic or apyrimidinic site) endonuclease activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables DNA-binding transcription factor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables Hsp70 protein binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables Hsp90 protein binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables RNA binding HDA PubMed 
    enables RNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    contributes_to RNA polymerase II transcription regulatory region sequence-specific DNA binding IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables class I DNA-(apurinic or apyrimidinic site) endonuclease activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables damaged DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables enzyme binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables iron-sulfur cluster binding NAS
    Non-traceable Author Statement
    more info
    PubMed 
    enables kinase binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables mRNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables microtubule binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables oxidized purine DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables oxidized pyrimidine DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein kinase A binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein kinase binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein-containing complex binding IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables small ribosomal subunit rRNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables structural constituent of ribosome HDA PubMed 
    enables structural constituent of ribosome IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables structural constituent of ribosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables structural constituent of ribosome NAS
    Non-traceable Author Statement
    more info
    PubMed 
    enables supercoiled DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables tubulin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables ubiquitin-like protein conjugating enzyme binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in DNA damage response IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in DNA repair IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in apoptotic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in base-excision repair IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in cell division IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to hydrogen peroxide IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in cellular response to reactive oxygen species IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in cellular response to tumor necrosis factor IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in chromosome segregation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in cytoplasmic translation IC
    Inferred by Curator
    more info
    PubMed 
    involved_in cytoplasmic translation NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in negative regulation of DNA repair IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of protein ubiquitination IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of translation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of DNA repair IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of JUN kinase activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of NF-kappaB transcription factor activity IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in positive regulation of NF-kappaB transcription factor activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of T cell receptor signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of activated T cell proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of apoptotic signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of apoptotic signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of base-excision repair IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of cysteine-type endopeptidase activity involved in execution phase of apoptosis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of endodeoxyribonuclease activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of interleukin-2 production IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of intrinsic apoptotic signaling pathway in response to DNA damage IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of microtubule polymerization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of non-canonical NF-kappaB signal transduction IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of protein-containing complex assembly IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in response to TNF agonist IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in spindle assembly IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in translation IC
    Inferred by Curator
    more info
    PubMed 
    involved_in translation NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in translational initiation NAS
    Non-traceable Author Statement
    more info
    PubMed 
    Component Evidence Code Pubs
    part_of NF-kappaB complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasm IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    located_in cytoplasm NAS
    Non-traceable Author Statement
    more info
    PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    located_in cytosolic ribosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of cytosolic small ribosomal subunit HDA PubMed 
    part_of cytosolic small ribosomal subunit IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of cytosolic small ribosomal subunit IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of cytosolic small ribosomal subunit NAS
    Non-traceable Author Statement
    more info
    PubMed 
    located_in endoplasmic reticulum IDA
    Inferred from Direct Assay
    more info
     
    located_in extracellular exosome HDA PubMed 
    located_in focal adhesion HDA PubMed 
    located_in membrane HDA PubMed 
    located_in mitochondrial inner membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in mitochondrial matrix IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in mitotic spindle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in postsynaptic density EXP
    Inferred from Experiment
    more info
    PubMed 
    is_active_in postsynaptic density IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of ribonucleoprotein complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in ribosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in ruffle membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    small ribosomal subunit protein uS3
    Names
    40S ribosomal protein S3
    IMR-90 ribosomal protein S3
    NP_000996.2
    NP_001243731.1
    NP_001247435.1
    NP_001247436.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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)

    1. NM_001005.5NP_000996.2  small ribosomal subunit protein uS3 isoform 1

      See identical proteins and their annotated locations for NP_000996.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) and variant 2 both encode the same protein (isoform 1).
      Source sequence(s)
      AP000744, BC034149, CB241053
      Consensus CDS
      CCDS8236.1
      UniProtKB/Swiss-Prot
      B2R7N5, J3KN86, P23396, Q498B5, Q8NI95
      UniProtKB/TrEMBL
      E9PL09
      Related
      ENSP00000434643.1, ENST00000531188.6
      Conserved Domains (1) summary
      PTZ00084
      Location:4216
      PTZ00084; 40S ribosomal protein S3; Provisional
    2. NM_001256802.2NP_001243731.1  small ribosomal subunit protein uS3 isoform 1

      See identical proteins and their annotated locations for NP_001243731.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 3' UTR compared to variant 1. Variants 1 and 2 both encode the same protein (isoform 1).
      Source sequence(s)
      AA976344, AW134501, BC034149
      Consensus CDS
      CCDS8236.1
      UniProtKB/Swiss-Prot
      B2R7N5, J3KN86, P23396, Q498B5, Q8NI95
      UniProtKB/TrEMBL
      E9PL09
      Related
      ENSP00000436971.1, ENST00000527446.5
      Conserved Domains (1) summary
      PTZ00084
      Location:4216
      PTZ00084; 40S ribosomal protein S3; Provisional
    3. NM_001260506.2NP_001247435.1  small ribosomal subunit protein uS3 isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) has two additional segments, one in the coding region and one in the 3' UTR, compared to variant 1. The resulting isoform (2) is longer and has an additional segment in the central region, compared to isoform 1.
      Source sequence(s)
      AP000744, BM831460, BM928330, BQ645330, CB241053, DW448503
      Consensus CDS
      CCDS58161.1
      UniProtKB/TrEMBL
      E9PL09
      Related
      ENSP00000278572.6, ENST00000278572.10
      Conserved Domains (1) summary
      PTZ00084
      Location:4232
      PTZ00084; 40S ribosomal protein S3; Provisional
    4. NM_001260507.2NP_001247436.1  small ribosomal subunit protein uS3 isoform 3

      See identical proteins and their annotated locations for NP_001247436.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) lacks an exon in the 5' region, which results in a downstream start codon, compared to variant 1. The resulting isoform (3) has a shorter N-terminus, compared to isoform 1.
      Source sequence(s)
      AP000744, BC013231, BE797417, BM831460, CB241053
      UniProtKB/TrEMBL
      E9PSF4
      Related
      ENSP00000416745.2, ENST00000422465.6
      Conserved Domains (1) summary
      PTZ00084
      Location:190
      PTZ00084; 40S ribosomal protein S3; Provisional

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

      Range
      75399518..75422302
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060935.1 Alternate T2T-CHM13v2.0

      Range
      75329106..75351811
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)