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Protein

40S ribosomal protein S9-B

Gene

RPS9B

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Component of the ribosome, a large ribonucleoprotein complex responsible for the synthesis of proteins in the cell. The small ribosomal subunit (SSU) binds messenger RNAs (mRNAs) and translates the encoded message by selecting cognate aminoacyl-transfer RNA (tRNA) molecules. The large subunit (LSU) contains the ribosomal catalytic site termed the peptidyl transferase center (PTC), which catalyzes the formation of peptide bonds, thereby polymerizing the amino acids delivered by tRNAs into a polypeptide chain. The nascent polypeptides leave the ribosome through a tunnel in the LSU and interact with protein factors that function in enzymatic processing, targeting, and the membrane insertion of nascent chains at the exit of the ribosomal tunnel (PubMed:22096102). uS4 is involved in nucleolar processing of pre-18S ribosomal RNA and ribosome assembly (PubMed:15590835).1 Publication1 Publication

Miscellaneous

Present with 63300 molecules/cell in log phase SD medium.1 Publication
There are 2 genes for uS4 in yeast.Curated

GO - Molecular functioni

  • rRNA binding Source: GO_Central
  • structural constituent of ribosome Source: SGD

GO - Biological processi

  • maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Source: SGD
  • positive regulation of translational fidelity Source: SGD
  • translation Source: InterPro

Keywordsi

Molecular functionRibonucleoprotein, Ribosomal protein, RNA-binding, rRNA-binding
Biological processRibosome biogenesis, rRNA processing

Enzyme and pathway databases

BioCyciYEAST:G3O-29132-MONOMER.
ReactomeiR-SCE-156827. L13a-mediated translational silencing of Ceruloplasmin expression.
R-SCE-1799339. SRP-dependent cotranslational protein targeting to membrane.
R-SCE-6791226. Major pathway of rRNA processing in the nucleolus and cytosol.
R-SCE-72689. Formation of a pool of free 40S subunits.
R-SCE-72695. Formation of the ternary complex, and subsequently, the 43S complex.
R-SCE-72702. Ribosomal scanning and start codon recognition.
R-SCE-72706. GTP hydrolysis and joining of the 60S ribosomal subunit.
R-SCE-975956. Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC).
R-SCE-975957. Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).

Names & Taxonomyi

Protein namesi
Recommended name:
40S ribosomal protein S9-B1 Publication
Alternative name(s):
RP21
S13
Small ribosomal subunit protein uS4-B1 Publication
YP28
YS11
Gene namesi
Name:RPS9B1 Publication
Synonyms:RPS13B, SUP46
Ordered Locus Names:YBR189W
ORF Names:YBR1317
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome II

Organism-specific databases

EuPathDBiFungiDB:YBR189W.
SGDiS000000393. RPS9B.

Subcellular locationi

GO - Cellular componenti

  • cytosolic small ribosomal subunit Source: SGD
  • nucleolus Source: UniProtKB-SubCell
  • small-subunit processome Source: SGD

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemoved1 Publication
ChainiPRO_00001327042 – 19540S ribosomal protein S9-BAdd BLAST194

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Cross-linki180Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)Combined sources
Modified residuei184PhosphoserineCombined sources1

Keywords - PTMi

Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

MaxQBiP05755.
PRIDEiP05755.
TopDownProteomicsiP05755.

PTM databases

iPTMnetiP05755.

Interactioni

Subunit structurei

Component of the small ribosomal subunit (SSU). Mature yeast ribosomes consist of a small (40S) and a large (60S) subunit. The 40S small subunit contains 1 molecule of ribosomal RNA (18S rRNA) and 33 different proteins (encoded by 57 genes). The large 60S subunit contains 3 rRNA molecules (25S, 5.8S and 5S rRNA) and 46 different proteins (encoded by 81 genes) (PubMed:9559554, PubMed:22096102). Interacts with snoRNA U3. uS11 interacts with MPP10. Component of the ribosomal small subunit (SSU) processome composed of at least 40 protein subunits and snoRNA U3 (PubMed:15590835).1 Publication2 Publications

Protein-protein interaction databases

BioGridi32887. 112 interactors.
IntActiP05755. 30 interactors.
MINTiMINT-8285141.

Structurei

3D structure databases

ProteinModelPortaliP05755.
SMRiP05755.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini107 – 181S4 RNA-bindingPROSITE-ProRule annotationAdd BLAST75

Sequence similaritiesi

Phylogenomic databases

GeneTreeiENSGT00550000074829.
HOGENOMiHOG000194525.
InParanoidiP05755.
KOiK02997.
OMAiNQKKATG.
OrthoDBiEOG092C4UYC.

Family and domain databases

Gene3Di3.10.290.10. 1 hit.
InterProiView protein in InterPro
IPR022801. Ribosomal_S4/S9.
IPR005710. Ribosomal_S4/S9_euk/arc.
IPR001912. Ribosomal_S4/S9_N.
IPR018079. Ribosomal_S4_CS.
IPR002942. S4_RNA-bd.
PANTHERiPTHR11831. PTHR11831. 1 hit.
PfamiView protein in Pfam
PF01479. S4. 1 hit.
SMARTiView protein in SMART
SM01390. Ribosomal_S4. 1 hit.
SM00363. S4. 1 hit.
TIGRFAMsiTIGR01018. uS4_arch. 1 hit.
PROSITEiView protein in PROSITE
PS00632. RIBOSOMAL_S4. 1 hit.
PS50889. S4. 1 hit.

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P05755-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPRAPRTYSK TYSTPKRPYE SSRLDAELKL AGEFGLKNKR EIYRISFQLS
60 70 80 90 100
KIRRAARDLL TRDEKDPKRL FEGNALIRRL VRVGVLSEDK KKLDYVLALK
110 120 130 140 150
VEDFLERRLQ TQVYKLGLAK SVHHARVLIT QRHIAVGKQI VNIPSFMVRL
160 170 180 190
DSEKHIDFAP TSPFGGARPG RVARRNAARK AEASGEAAEE AEDEE
Length:195
Mass (Da):22,299
Last modified:January 23, 2007 - v4
Checksum:iF5BDCEA167003813
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti20 – 22ESS → QSB AA sequence (PubMed:6814480).Curated3

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M88650 Genomic DNA. Translation: AAB59327.1.
U02073 Genomic DNA. Translation: AAB60283.1.
Z36058 Genomic DNA. Translation: CAA85151.1.
BK006936 Genomic DNA. Translation: DAA07304.1.
PIRiS31287.
RefSeqiNP_009748.3. NM_001178537.3.

Genome annotation databases

EnsemblFungiiYBR189W; YBR189W; YBR189W.
GeneIDi852487.
KEGGisce:YBR189W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M88650 Genomic DNA. Translation: AAB59327.1.
U02073 Genomic DNA. Translation: AAB60283.1.
Z36058 Genomic DNA. Translation: CAA85151.1.
BK006936 Genomic DNA. Translation: DAA07304.1.
PIRiS31287.
RefSeqiNP_009748.3. NM_001178537.3.

3D structure databases

ProteinModelPortaliP05755.
SMRiP05755.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi32887. 112 interactors.
IntActiP05755. 30 interactors.
MINTiMINT-8285141.

PTM databases

iPTMnetiP05755.

Proteomic databases

MaxQBiP05755.
PRIDEiP05755.
TopDownProteomicsiP05755.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYBR189W; YBR189W; YBR189W.
GeneIDi852487.
KEGGisce:YBR189W.

Organism-specific databases

EuPathDBiFungiDB:YBR189W.
SGDiS000000393. RPS9B.

Phylogenomic databases

GeneTreeiENSGT00550000074829.
HOGENOMiHOG000194525.
InParanoidiP05755.
KOiK02997.
OMAiNQKKATG.
OrthoDBiEOG092C4UYC.

Enzyme and pathway databases

BioCyciYEAST:G3O-29132-MONOMER.
ReactomeiR-SCE-156827. L13a-mediated translational silencing of Ceruloplasmin expression.
R-SCE-1799339. SRP-dependent cotranslational protein targeting to membrane.
R-SCE-6791226. Major pathway of rRNA processing in the nucleolus and cytosol.
R-SCE-72689. Formation of a pool of free 40S subunits.
R-SCE-72695. Formation of the ternary complex, and subsequently, the 43S complex.
R-SCE-72702. Ribosomal scanning and start codon recognition.
R-SCE-72706. GTP hydrolysis and joining of the 60S ribosomal subunit.
R-SCE-975956. Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC).
R-SCE-975957. Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).

Miscellaneous databases

PROiPR:P05755.

Family and domain databases

Gene3Di3.10.290.10. 1 hit.
InterProiView protein in InterPro
IPR022801. Ribosomal_S4/S9.
IPR005710. Ribosomal_S4/S9_euk/arc.
IPR001912. Ribosomal_S4/S9_N.
IPR018079. Ribosomal_S4_CS.
IPR002942. S4_RNA-bd.
PANTHERiPTHR11831. PTHR11831. 1 hit.
PfamiView protein in Pfam
PF01479. S4. 1 hit.
SMARTiView protein in SMART
SM01390. Ribosomal_S4. 1 hit.
SM00363. S4. 1 hit.
TIGRFAMsiTIGR01018. uS4_arch. 1 hit.
PROSITEiView protein in PROSITE
PS00632. RIBOSOMAL_S4. 1 hit.
PS50889. S4. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiRS9B_YEAST
AccessioniPrimary (citable) accession number: P05755
Secondary accession number(s): D6VQI4
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1988
Last sequence update: January 23, 2007
Last modified: May 10, 2017
This is version 165 of the entry and version 4 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Ribosomal proteins
    Ribosomal proteins families and list of entries
  2. SIMILARITY comments
    Index of protein domains and families
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome II
    Yeast (Saccharomyces cerevisiae) chromosome II: entries and gene names

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.