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Entry version 72 (08 May 2019)
Sequence version 1 (20 Apr 2010)
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Protein

40S ribosomal protein S4

Gene

Rps4y2

Organism
Rattus norvegicus (Rat)
Status
Unreviewed-Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the ‘protein existence’ evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

  • rRNA binding Source: UniProtKB-UniRule
  • structural constituent of ribosome Source: GO_Central

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionRibonucleoprotein, Ribosomal proteinUniRule annotation, RNA-binding, rRNA-bindingUniRule annotation

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...
Reactomei
R-RNO-156827 L13a-mediated translational silencing of Ceruloplasmin expression
R-RNO-1799339 SRP-dependent cotranslational protein targeting to membrane
R-RNO-6791226 Major pathway of rRNA processing in the nucleolus and cytosol
R-RNO-72649 Translation initiation complex formation
R-RNO-72689 Formation of a pool of free 40S subunits
R-RNO-72695 Formation of the ternary complex, and subsequently, the 43S complex
R-RNO-72702 Ribosomal scanning and start codon recognition
R-RNO-72706 GTP hydrolysis and joining of the 60S ribosomal subunit
R-RNO-975956 Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)
R-RNO-975957 Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
40S ribosomal protein S4UniRule annotation
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: ‘Name’, ‘Synonyms’, ‘Ordered locus names’ and ‘ORF names’.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:Rps4y2Imported
ORF Names:rCG_29848Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiRattus norvegicus (Rat)Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the ‘taxonomic identifier’ or ‘taxid’.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri10116 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeRattus
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000002494 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components. <br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome 4

Organism-specific databases

Rat genome database

More...
RGDi
1590988 Rps4y2

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

Gene expression databases

Bgee dataBase for Gene Expression Evolution

More...
Bgeei
ENSRNOG00000031041 Expressed in 9 organ(s), highest expression level in testis

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
10116.ENSRNOP00000049546

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family_and_domains_section">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini42 – 104S4 RNA-bindingInterPro annotationAdd BLAST63

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the eukaryotic ribosomal protein eS4 family.UniRule annotation

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG0378 Eukaryota
COG1471 LUCA

Ensembl GeneTree

More...
GeneTreei
ENSGT00390000005569

Database of Orthologous Groups

More...
OrthoDBi
1065966at2759

TreeFam database of animal gene trees

More...
TreeFami
TF300612

Family and domain databases

Conserved Domains Database

More...
CDDi
cd06087 KOW_RPS4, 1 hit
cd00165 S4, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
2.30.30.30, 1 hit
2.40.50.740, 1 hit

HAMAP database of protein families

More...
HAMAPi
MF_00485 Ribosomal_S4e, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR032277 40S_S4_C
IPR005824 KOW
IPR041982 KOW_RPS4
IPR014722 Rib_L2_dom2
IPR000876 Ribosomal_S4e
IPR013845 Ribosomal_S4e_central_region
IPR038237 Ribosomal_S4e_central_sf
IPR013843 Ribosomal_S4e_N
IPR018199 Ribosomal_S4e_N_CS
IPR002942 S4_RNA-bd

The PANTHER Classification System

More...
PANTHERi
PTHR11581 PTHR11581, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF16121 40S_S4_C, 1 hit
PF00467 KOW, 1 hit
PF00900 Ribosomal_S4e, 1 hit
PF08071 RS4NT, 1 hit
PF01479 S4, 1 hit

PIRSF; a whole-protein classification database

More...
PIRSFi
PIRSF002116 Ribosomal_S4, 1 hit

ProDom; a protein domain database

More...
ProDomi
View protein in ProDom or Entries sharing at least one domain
PD002667 Ribosomal_S4e_central, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00363 S4, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS00528 RIBOSOMAL_S4E, 1 hit
PS50889 S4, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>.<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

D3ZX01-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MARGPKKHLK RVAAPRHWML DKLTGVFAPR PSAGPHRLRE CLPLAIFLRN
60 70 80 90 100
RLKYALTGDE VKKICMQRLI KVDGKVRTDV AYPAGFMDVI SIDKSGENFR
110 120 130 140 150
LVYDTKGRFA VHRITPEEAK YKLCKVRKVF VGTKGIPHLV THDARTIRYP
160 170 180 190 200
DPLIKVNDTV QISLDSGKIT DAIKFDTGNL CMVTGGANLG RIGIITNRER
210 220 230 240 250
HPGSFDVVHV KDANGNGFAT RLSNIFVIGK GNKPWISLPR GKGIRLTIAE
260
ERDKRLAAKQ SG
Length:262
Mass (Da):29,198
Last modified:April 20, 2010 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i6B973D04DC11BE72
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

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EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
AABR07062550 Genomic DNA No translation available.
CH473964 Genomic DNA Translation: EDM01382.1

NCBI Reference Sequences

More...
RefSeqi
NP_001103082.1, NM_001109612.1

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...
Ensembli
ENSRNOT00000043543; ENSRNOP00000049546; ENSRNOG00000031041

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
690845

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
rno:690845

UCSC genome browser

More...
UCSCi
RGD:1590988 rat

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AABR07062550 Genomic DNA No translation available.
CH473964 Genomic DNA Translation: EDM01382.1
RefSeqiNP_001103082.1, NM_001109612.1

3D structure databases

Database of comparative protein structure models

More...
ModBasei
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

SWISS-MODEL Interactive Workspace

More...
SWISS-MODEL-Workspacei
Submit a new modelling project...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000049546

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000043543; ENSRNOP00000049546; ENSRNOG00000031041
GeneIDi690845
KEGGirno:690845
UCSCiRGD:1590988 rat

Organism-specific databases

Comparative Toxicogenomics Database

More...
CTDi
140032
RGDi1590988 Rps4y2

Phylogenomic databases

eggNOGiKOG0378 Eukaryota
COG1471 LUCA
GeneTreeiENSGT00390000005569
OrthoDBi1065966at2759
TreeFamiTF300612

Enzyme and pathway databases

ReactomeiR-RNO-156827 L13a-mediated translational silencing of Ceruloplasmin expression
R-RNO-1799339 SRP-dependent cotranslational protein targeting to membrane
R-RNO-6791226 Major pathway of rRNA processing in the nucleolus and cytosol
R-RNO-72649 Translation initiation complex formation
R-RNO-72689 Formation of a pool of free 40S subunits
R-RNO-72695 Formation of the ternary complex, and subsequently, the 43S complex
R-RNO-72702 Ribosomal scanning and start codon recognition
R-RNO-72706 GTP hydrolysis and joining of the 60S ribosomal subunit
R-RNO-975956 Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)
R-RNO-975957 Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)

Gene expression databases

BgeeiENSRNOG00000031041 Expressed in 9 organ(s), highest expression level in testis

Family and domain databases

CDDicd06087 KOW_RPS4, 1 hit
cd00165 S4, 1 hit
Gene3Di2.30.30.30, 1 hit
2.40.50.740, 1 hit
HAMAPiMF_00485 Ribosomal_S4e, 1 hit
InterProiView protein in InterPro
IPR032277 40S_S4_C
IPR005824 KOW
IPR041982 KOW_RPS4
IPR014722 Rib_L2_dom2
IPR000876 Ribosomal_S4e
IPR013845 Ribosomal_S4e_central_region
IPR038237 Ribosomal_S4e_central_sf
IPR013843 Ribosomal_S4e_N
IPR018199 Ribosomal_S4e_N_CS
IPR002942 S4_RNA-bd
PANTHERiPTHR11581 PTHR11581, 1 hit
PfamiView protein in Pfam
PF16121 40S_S4_C, 1 hit
PF00467 KOW, 1 hit
PF00900 Ribosomal_S4e, 1 hit
PF08071 RS4NT, 1 hit
PF01479 S4, 1 hit
PIRSFiPIRSF002116 Ribosomal_S4, 1 hit
ProDomiView protein in ProDom or Entries sharing at least one domain
PD002667 Ribosomal_S4e_central, 1 hit
SMARTiView protein in SMART
SM00363 S4, 1 hit
PROSITEiView protein in PROSITE
PS00528 RIBOSOMAL_S4E, 1 hit
PS50889 S4, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the ‘Entry information’ section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiD3ZX01_RAT
<p>This subsection of the ‘Entry information’ section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called ‘Primary (citable) accession number’.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: D3ZX01
<p>This subsection of the ‘Entry information’ section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification (‘Last modified’). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/TrEMBL: April 20, 2010
Last sequence update: April 20, 2010
Last modified: May 8, 2019
This is version 72 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the ‘Entry information’ section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiUnreviewed (UniProtKB/TrEMBL)

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Complete proteome, Proteomics identificationCombined sources, Reference proteomeImported
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