RPS3A ribosomal protein S3A [Homo sapiens (human)] - Gene

Summary

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

Location:: 4q31.3

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	4	NC_000004.12 (151099628..151104642)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	4	NC_060928.1 (154423512..154428526)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	4	NC_000004.11 (152020780..152025794)

Chromosome 4 - NC_000004.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.
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.
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.
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.
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.
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].

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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 EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

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

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D4S2325 (e-PCR)
- UniSTS:33148

SHGC-59322 (e-PCR)
- UniSTS:1924

GDB:554881 (e-PCR)
- UniSTS:157662

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables RNA binding	HDA more info	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 more info	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 more info	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 more info	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 more info	PubMed
located_in focal adhesion	HDA more info	PubMed
located_in nucleolus	HDA more info	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 more info	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

EC 3.6.5.3

NP_001254628.1

EC 3.6.5.3

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)

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
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