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    RPS3A ribosomal protein S3A [ Homo sapiens (human) ]

    Gene ID: 6189, updated on 3-Nov-2024

    Summary

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    Official Symbol
    RPS3Aprovided by HGNC
    Official Full Name
    ribosomal protein S3Aprovided by HGNC
    Primary source
    HGNC:HGNC:10421
    See related
    Ensembl:ENSG00000145425 MIM:180478; AllianceGenome:HGNC:10421
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    S3A; eS1; FTE1; MFTL
    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. The protein belongs to the S3AE family of ribosomal proteins. It is located in the cytoplasm. Disruption of the gene encoding rat ribosomal protein S3a, also named v-fos transformation effector protein, in v-fos-transformed rat cells results in reversion of the transformed phenotype. This gene is co-transcribed with the U73A and U73B small nucleolar RNA genes, which are located in its fourth and third introns, respectively. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. Alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, May 2012]
    Expression
    Ubiquitous expression in ovary (RPKM 854.6), bone marrow (RPKM 571.2) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See RPS3A in Genome Data Viewer
    Location:
    4q31.3
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (151099628..151104642)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (154423512..154428526)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (152020780..152025794)

    Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene LPS responsive beige-like anchor protein Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:151908831-151909345 Neighboring gene LRBA intron ENCODE-defined enhancer Neighboring gene RNA, 5S ribosomal pseudogene 168 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22016 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22017 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:151936707-151937304 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22018 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22019 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr4:152020037-152021236 Neighboring gene uncharacterized LOC107986196 Neighboring gene adenylate kinase 4 pseudogene 6 Neighboring gene Sharpr-MPRA regulatory region 3738 Neighboring gene small nucleolar RNA, C/D box U73B Neighboring gene small nucleolar RNA, C/D box 73A Neighboring gene uncharacterized LOC105377485 Neighboring gene SH3 domain containing 19

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Human ribosomal protein S3a: cloning of the cDNA and primary structure of the protein. Metspalu A, et al. Gene, 1992 Oct 1. PMID 1398113
    2. Characterization of human ribosomal S3a gene expression during adenosine 3':5' cyclic monophosphate induced neuroendocrine differentiation of LNCaP cells. Regulation of S3a gene expression in LNCaP. Goodin JL, et al. Mol Biol Rep, 2002 Sep. PMID 12463423
    3. Esculentoside A specifically binds to ribosomal protein S3a and impairs LPS-induced signaling in macrophages. Li YH, et al. Int Immunopharmacol, 2018 Jan. PMID 29169044
    4. Human ribosomal protein eS1 is engaged in cellular events related to processing and functioning of U11 snRNA. Gopanenko AV, et al. Nucleic Acids Res, 2017 Sep 6. PMID 28666385, Free PMC Article
    5. [The NOLA2 and RPS3A genes as highly informative markers for human squamous cell lung cancer]. Slizhikova DK, et al. Bioorg Khim, 2005 Mar-Apr. PMID 15889794

    See all (305) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. RPS3a as an essential component for LPS-mediated pro-inflammatory signaling
      Title: Esculentoside A specifically binds to ribosomal protein S3a and impairs LPS-induced signaling in macrophages.
    2. Ribosomal protein eS1 is engaged in cellular events related to processing and functioning of U11 snRNA.
      Title: Human ribosomal protein eS1 is engaged in cellular events related to processing and functioning of U11 snRNA.
    3. Results suggest that RPS3a, via extra-ribosomal chaperoning function for HBx, contributes to virally induced oncogenesis by enhancing HBx-induced NF-kappaB signaling pathway.
      Title: RPS3a over-expressed in HBV-associated hepatocellular carcinoma enhances the HBx-induced NF-κB signaling via its novel chaperoning function.
    4. Variants in the RPS3A homologue are associated with late-onset Alzheimer disease and implicate this gene, adjacent genes, or other functional variants (e.g., noncoding RNAs) in the pathogenesis of this disorder.
      Title: A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease.
    5. regulation of ribosomal S3a gene expression during cyclic amp induced neuroendocrine differentiation of LNCaP cells
      Title: Characterization of human ribosomal S3a gene expression during adenosine 3':5' cyclic monophosphate induced neuroendocrine differentiation of LNCaP cells. Regulation of S3a gene expression in LNCaP.
    6. RPS3A expression in patients with squamous cell lung cancer increased by 70% which makes it a highly informative marker of squamous cell lung cancer
      Title: [The NOLA2 and RPS3A genes as highly informative markers for human squamous cell lung cancer].
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    Biological, clinical and population relevance of 95 loci for blood lipids.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    HIV-1 interactions

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    Protein interactions

    Protein Gene Interaction Pubs
    Rev rev HIV-1 Rev interacting protein, ribosomal protein S3A (RPS3A), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells PubMed
    retropepsin gag-pol Positional proteomics analysis identifies the cleavage of human ribosomal protein S3A (RPS3A) at amino acid residues 66-67 and 69-70 by the HIV-1 protease PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC23240

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables RNA binding NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    enables mRNA 5'-UTR binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables structural constituent of ribosome HDA PubMed 
    enables structural constituent of ribosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in ribosomal small subunit biogenesis IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in translation IC
    Inferred by Curator
    more info
    		 PubMed 
    involved_in translation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in translation NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in translational initiation TAS
    Traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm HDA PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		  
    located_in cytosol ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    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 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 nucleolus HDA PubMed 
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
    		  
    located_in nucleus HDA PubMed 
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of ribonucleoprotein complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of small-subunit processome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in synapse IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    small ribosomal subunit protein eS1
    Names
    40S ribosomal protein S3a
    fte-1
    v-fos transformation effector protein 1
    NP_000997.1
    NP_001254628.1

    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)

    1. NM_001006.5 → NP_000997.1  small ribosomal subunit protein eS1 isoform 1

      See identical proteins and their annotated locations for NP_000997.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      BC001708, CA441711
      Consensus CDS
      CCDS3775.1
      UniProtKB/Swiss-Prot
      B2R4D4, D3DP05, P33443, P49241, P61247
      UniProtKB/TrEMBL
      A8K4W0, Q6NXR8
      Related
      ENSP00000346050.3, ENST00000274065.9
      Conserved Domains (1) summary
      pfam01015
      Location:21 → 221
      Ribosomal_S3Ae; Ribosomal S3Ae family

    2. NM_001267699.2 → NP_001254628.1  small ribosomal subunit protein eS1 isoform 2

      See identical proteins and their annotated locations for NP_001254628.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an internal coding exon and differs at the 3' end compared to variant 1, which results in a frame-shift, and a shorter isoform (2) with a distinct C-terminus compared to isoform 1.
      Source sequence(s)
      AI038646, AK296121, AK308947, CN315189
      UniProtKB/TrEMBL
      B7Z3M5
      Related
      ENST00000507485.1
      Conserved Domains (1) summary
      cl00821
      Location:21 → 50
      Ribosomal_S3Ae; Ribosomal S3Ae family

    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_000004.12 Reference GRCh38.p14 Primary Assembly

      Range
      151099628..151104642
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p14 PATCHES

    Genomic

    1. NW_025791772.1 Reference GRCh38.p14 PATCHES

      Range
      36359..41373
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060928.1 Alternate T2T-CHM13v2.0

      Range
      154423512..154428526
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P61247.2 GenPept UniProtKB/Swiss-Prot:P61247

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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