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Protein

40S ribosomal protein S4, Y isoform 1

Gene

RPS4Y1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

GO - Molecular functioni

  • RNA binding Source: ProtInc
  • rRNA binding Source: UniProtKB-KW
  • structural constituent of ribosome Source: UniProtKB

GO - Biological processi

  • multicellular organism development Source: UniProtKB
  • nuclear-transcribed mRNA catabolic process, nonsense-mediated decay Source: Reactome
  • rRNA processing Source: Reactome
  • SRP-dependent cotranslational protein targeting to membrane Source: Reactome
  • translation Source: UniProtKB
  • translational initiation Source: Reactome
  • viral transcription Source: Reactome
Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein, Ribosomal protein

Keywords - Ligandi

RNA-binding, rRNA-binding

Enzyme and pathway databases

BioCyciZFISH:ENSG00000129824-MONOMER.
ReactomeiR-HSA-156827. L13a-mediated translational silencing of Ceruloplasmin expression.
R-HSA-156902. Peptide chain elongation.
R-HSA-1799339. SRP-dependent cotranslational protein targeting to membrane.
R-HSA-192823. Viral mRNA Translation.
R-HSA-2408557. Selenocysteine synthesis.
R-HSA-6791226. Major pathway of rRNA processing in the nucleolus and cytosol.
R-HSA-72649. Translation initiation complex formation.
R-HSA-72689. Formation of a pool of free 40S subunits.
R-HSA-72695. Formation of the ternary complex, and subsequently, the 43S complex.
R-HSA-72702. Ribosomal scanning and start codon recognition.
R-HSA-72706. GTP hydrolysis and joining of the 60S ribosomal subunit.
R-HSA-72764. Eukaryotic Translation Termination.
R-HSA-975956. Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC).
R-HSA-975957. Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).

Names & Taxonomyi

Protein namesi
Recommended name:
40S ribosomal protein S4, Y isoform 1
Gene namesi
Name:RPS4Y1
Synonyms:RPS4Y
ORF Names:PRO2646
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome Y

Organism-specific databases

HGNCiHGNC:10425. RPS4Y1.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: Reactome
  • cytosolic small ribosomal subunit Source: UniProtKB
  • membrane Source: UniProtKB
  • nucleoplasm Source: Reactome
  • nucleus Source: UniProtKB
  • polysome Source: UniProtKB
Complete GO annotation...

Pathology & Biotechi

Organism-specific databases

DisGeNETi6192.
OpenTargetsiENSG00000129824.
PharmGKBiPA34840.

Polymorphism and mutation databases

BioMutaiRPS4Y1.
DMDMi133948.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001308121 – 26340S ribosomal protein S4, Y isoform 1Add BLAST263

Proteomic databases

EPDiP22090.
MaxQBiP22090.
PaxDbiP22090.
PeptideAtlasiP22090.
PRIDEiP22090.

PTM databases

iPTMnetiP22090.
PhosphoSitePlusiP22090.
SwissPalmiP22090.

Expressioni

Gene expression databases

BgeeiENSG00000129824.
CleanExiHS_RPS4Y1.
ExpressionAtlasiP22090. baseline and differential.
GenevisibleiP22090. HS.

Organism-specific databases

HPAiHPA000857.

Interactioni

Protein-protein interaction databases

BioGridi112106. 8 interactors.
IntActiP22090. 5 interactors.
MINTiMINT-3009664.
STRINGi9606.ENSP00000250784.

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5AJ0electron microscopy3.50BE1-263[»]
5FLXelectron microscopy3.90E1-263[»]
ProteinModelPortaliP22090.
SMRiP22090.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini42 – 104S4 RNA-bindingAdd BLAST63

Sequence similaritiesi

Belongs to the ribosomal protein S4e family.Curated
Contains 1 S4 RNA-binding domain.Curated

Phylogenomic databases

eggNOGiKOG0378. Eukaryota.
COG1471. LUCA.
GeneTreeiENSGT00390000005569.
HOGENOMiHOG000231325.
HOVERGENiHBG000935.
InParanoidiP22090.
KOiK02987.
OMAiVITHREH.
OrthoDBiEOG091G0MYF.
PhylomeDBiP22090.
TreeFamiTF300612.

Family and domain databases

HAMAPiMF_00485. Ribosomal_S4e. 1 hit.
InterProiIPR032277. 40S_S4_C.
IPR005824. KOW.
IPR000876. Ribosomal_S4e.
IPR013845. Ribosomal_S4e_central_region.
IPR013843. Ribosomal_S4e_N.
IPR018199. Ribosomal_S4e_N_CS.
IPR002942. S4_RNA-bd.
[Graphical view]
PANTHERiPTHR11581. PTHR11581. 1 hit.
PfamiPF16121. 40S_S4_C. 1 hit.
PF00467. KOW. 1 hit.
PF00900. Ribosomal_S4e. 1 hit.
PF08071. RS4NT. 1 hit.
[Graphical view]
PIRSFiPIRSF002116. Ribosomal_S4. 1 hit.
ProDomiPD002667. Ribosomal_S4e_central. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SMARTiSM00363. S4. 1 hit.
[Graphical view]
PROSITEiPS00528. RIBOSOMAL_S4E. 1 hit.
PS50889. S4. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P22090-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MARGPKKHLK RVAAPKHWML DKLTGVFAPR PSTGPHKLRE CLPLIVFLRN
60 70 80 90 100
RLKYALTGDE VKKICMQRFI KIDGKVRVDV TYPAGFMDVI SIEKTGEHFR
110 120 130 140 150
LVYDTKGRFA VHRITVEEAK YKLCKVRKIT VGVKGIPHLV THDARTIRYP
160 170 180 190 200
DPVIKVNDTV QIDLGTGKII NFIKFDTGNL CMVIGGANLG RVGVITNRER
210 220 230 240 250
HPGSFDVVHV KDANGNSFAT RLSNIFVIGN GNKPWISLPR GKGIRLTVAE
260
ERDKRLATKQ SSG
Length:263
Mass (Da):29,456
Last modified:January 23, 2007 - v2
Checksum:i3B5D6F1ECFCB120A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M58459 mRNA. Translation: AAA63256.1.
AF041427 Genomic DNA. Translation: AAB96967.1.
AF116711 mRNA. Translation: AAF71131.1.
AK292819 mRNA. Translation: BAF85508.1.
CH471115 Genomic DNA. Translation: EAX02771.1.
BC010286 mRNA. Translation: AAH10286.1.
CCDSiCCDS14773.1.
PIRiA36338. R3HU4Y.
RefSeqiNP_000999.1. NM_001008.3.
UniGeneiHs.282376.

Genome annotation databases

EnsembliENST00000250784; ENSP00000250784; ENSG00000129824.
GeneIDi6192.
KEGGihsa:6192.
UCSCiuc004fqi.4. human.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M58459 mRNA. Translation: AAA63256.1.
AF041427 Genomic DNA. Translation: AAB96967.1.
AF116711 mRNA. Translation: AAF71131.1.
AK292819 mRNA. Translation: BAF85508.1.
CH471115 Genomic DNA. Translation: EAX02771.1.
BC010286 mRNA. Translation: AAH10286.1.
CCDSiCCDS14773.1.
PIRiA36338. R3HU4Y.
RefSeqiNP_000999.1. NM_001008.3.
UniGeneiHs.282376.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5AJ0electron microscopy3.50BE1-263[»]
5FLXelectron microscopy3.90E1-263[»]
ProteinModelPortaliP22090.
SMRiP22090.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi112106. 8 interactors.
IntActiP22090. 5 interactors.
MINTiMINT-3009664.
STRINGi9606.ENSP00000250784.

PTM databases

iPTMnetiP22090.
PhosphoSitePlusiP22090.
SwissPalmiP22090.

Polymorphism and mutation databases

BioMutaiRPS4Y1.
DMDMi133948.

Proteomic databases

EPDiP22090.
MaxQBiP22090.
PaxDbiP22090.
PeptideAtlasiP22090.
PRIDEiP22090.

Protocols and materials databases

DNASUi6192.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000250784; ENSP00000250784; ENSG00000129824.
GeneIDi6192.
KEGGihsa:6192.
UCSCiuc004fqi.4. human.

Organism-specific databases

CTDi6192.
DisGeNETi6192.
GeneCardsiRPS4Y1.
HGNCiHGNC:10425. RPS4Y1.
HPAiHPA000857.
MIMi470000. gene.
neXtProtiNX_P22090.
OpenTargetsiENSG00000129824.
PharmGKBiPA34840.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0378. Eukaryota.
COG1471. LUCA.
GeneTreeiENSGT00390000005569.
HOGENOMiHOG000231325.
HOVERGENiHBG000935.
InParanoidiP22090.
KOiK02987.
OMAiVITHREH.
OrthoDBiEOG091G0MYF.
PhylomeDBiP22090.
TreeFamiTF300612.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000129824-MONOMER.
ReactomeiR-HSA-156827. L13a-mediated translational silencing of Ceruloplasmin expression.
R-HSA-156902. Peptide chain elongation.
R-HSA-1799339. SRP-dependent cotranslational protein targeting to membrane.
R-HSA-192823. Viral mRNA Translation.
R-HSA-2408557. Selenocysteine synthesis.
R-HSA-6791226. Major pathway of rRNA processing in the nucleolus and cytosol.
R-HSA-72649. Translation initiation complex formation.
R-HSA-72689. Formation of a pool of free 40S subunits.
R-HSA-72695. Formation of the ternary complex, and subsequently, the 43S complex.
R-HSA-72702. Ribosomal scanning and start codon recognition.
R-HSA-72706. GTP hydrolysis and joining of the 60S ribosomal subunit.
R-HSA-72764. Eukaryotic Translation Termination.
R-HSA-975956. Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC).
R-HSA-975957. Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).

Miscellaneous databases

ChiTaRSiRPS4Y1. human.
GeneWikiiRPS4Y1.
GenomeRNAii6192.
PROiP22090.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000129824.
CleanExiHS_RPS4Y1.
ExpressionAtlasiP22090. baseline and differential.
GenevisibleiP22090. HS.

Family and domain databases

HAMAPiMF_00485. Ribosomal_S4e. 1 hit.
InterProiIPR032277. 40S_S4_C.
IPR005824. KOW.
IPR000876. Ribosomal_S4e.
IPR013845. Ribosomal_S4e_central_region.
IPR013843. Ribosomal_S4e_N.
IPR018199. Ribosomal_S4e_N_CS.
IPR002942. S4_RNA-bd.
[Graphical view]
PANTHERiPTHR11581. PTHR11581. 1 hit.
PfamiPF16121. 40S_S4_C. 1 hit.
PF00467. KOW. 1 hit.
PF00900. Ribosomal_S4e. 1 hit.
PF08071. RS4NT. 1 hit.
[Graphical view]
PIRSFiPIRSF002116. Ribosomal_S4. 1 hit.
ProDomiPD002667. Ribosomal_S4e_central. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SMARTiSM00363. S4. 1 hit.
[Graphical view]
PROSITEiPS00528. RIBOSOMAL_S4E. 1 hit.
PS50889. S4. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRS4Y1_HUMAN
AccessioniPrimary (citable) accession number: P22090
Secondary accession number(s): A8K9V4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 1, 1991
Last sequence update: January 23, 2007
Last modified: November 30, 2016
This is version 160 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome Y
    Human chromosome Y: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. Ribosomal proteins
    Ribosomal proteins families and list of entries
  5. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.