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Protein

60S ribosomal protein L2-B

Gene

RPL2B

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.1 Publication

Miscellaneous

Present with 4050 molecules/cell in log phase SD medium.1 Publication
There are 2 genes for uL2 in yeast.Curated

GO - Molecular functioni

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

GO - Biological processi

  • cytoplasmic translation Source: SGD

Keywordsi

Molecular functionRibonucleoprotein, Ribosomal protein, RNA-binding, rRNA-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-31294-MONOMER.
ReactomeiR-SCE-156827. L13a-mediated translational silencing of Ceruloplasmin expression.
R-SCE-1799339. SRP-dependent cotranslational protein targeting to membrane.
R-SCE-72689. Formation of a pool of free 40S subunits.
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:
60S ribosomal protein L2-B1 Publication
Alternative name(s):
L5
Large ribosomal subunit protein uL2-B1 Publication
RP8
YL6
Gene namesi
Name:RPL2B1 Publication
Synonyms:RPL5A
Ordered Locus Names:YIL018W
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome IX

Organism-specific databases

SGDiS000001280. RPL2B.

Subcellular locationi

GO - Cellular componenti

  • cytosolic large ribosomal subunit Source: SGD

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemoved2 Publications
ChainiPRO_00004097692 – 25460S ribosomal protein L2-BAdd BLAST253

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Cross-linki46Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)Combined sources
Modified residuei52PhosphoserineCombined sources1
Cross-linki93Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)Combined sources
Modified residuei95PhosphoserineCombined sources1
Cross-linki119Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)Combined sources
Cross-linki145Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)Combined sources
Modified residuei159PhosphoserineCombined sources1
Modified residuei160PhosphoserineCombined sources1
Modified residuei249PhosphoserineCombined sources1

Keywords - PTMi

Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

PRIDEiP0CX46.

PTM databases

iPTMnetiP0CX46.

Expressioni

Gene expression databases

ExpressionAtlasiP0CX46. differential.

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).1 Publication1 Publication

Protein-protein interaction databases

BioGridi31187. 322 interactors.
34970. 50 interactors.
IntActiP0CX46. 2 interactors.
MINTiMINT-617238.

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4V8Telectron microscopy8.10A1-254[»]
4V8Yelectron microscopy4.30BA2-254[»]
4V8Zelectron microscopy6.60BA2-254[»]
ProteinModelPortaliP0CX46.
SMRiP0CX46.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

GeneTreeiENSGT00390000009907.
InParanoidiP0CX46.
KOiK02938.
OrthoDBiEOG092C4DNU.

Family and domain databases

Gene3Di2.30.30.30. 1 hit.
4.10.950.10. 1 hit.
InterProiView protein in InterPro
IPR012340. NA-bd_OB-fold.
IPR022666. Rbsml_prot_L2_RNA-bd_dom.
IPR014722. Rib_L2_dom2.
IPR002171. Ribosomal_L2.
IPR022669. Ribosomal_L2_C.
IPR022671. Ribosomal_L2_CS.
IPR014726. Ribosomal_L2_dom3.
IPR008991. Translation_prot_SH3-like.
PANTHERiPTHR13691. PTHR13691. 1 hit.
PfamiView protein in Pfam
PF00181. Ribosomal_L2. 1 hit.
PF03947. Ribosomal_L2_C. 1 hit.
PIRSFiPIRSF002158. Ribosomal_L2. 1 hit.
SMARTiView protein in SMART
SM01383. Ribosomal_L2. 1 hit.
SM01382. Ribosomal_L2_C. 1 hit.
SUPFAMiSSF50104. SSF50104. 1 hit.
SSF50249. SSF50249. 1 hit.
PROSITEiView protein in PROSITE
PS00467. RIBOSOMAL_L2. 1 hit.

Sequencei

Sequence statusi: Complete.

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

P0CX46-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGRVIRNQRK GAGSIFTSHT RLRQGAAKLR TLDYAERHGY IRGIVKQIVH
60 70 80 90 100
DSGRGAPLAK VVFRDPYKYR LREEIFIANE GVHTGQFIYA GKKASLNVGN
110 120 130 140 150
VLPLGSVPEG TIVSNVEEKP GDRGALARAS GNYVIIIGHN PDENKTRVRL
160 170 180 190 200
PSGAKKVISS DARGVIGVIA GGGRVDKPLL KAGRAFHKYR LKRNSWPKTR
210 220 230 240 250
GVAMNPVDHP HGGGNHQHIG KASTISRGAV SGQKAGLIAA RRTGLLRGSQ

KTQD
Length:254
Mass (Da):27,408
Last modified:June 28, 2011 - v1
Checksum:i5159A980574DF05A
GO

Mass spectrometryi

Molecular mass is 27277.347 Da from positions 2 - 254. Determined by ESI. Average mass.1 Publication

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U17360 mRNA. Translation: AAA92284.1.
Z46881 Genomic DNA. Translation: CAA86974.1.
BK006942 Genomic DNA. Translation: DAA08527.1.
PIRiS50243.
RefSeqiNP_012246.1. NM_001179368.1.
NP_116688.3. NM_001180030.3.

Genome annotation databases

EnsemblFungiiYFR031C-A; YFR031C-A; YFR031C-A.
YIL018W; YIL018W; YIL018W.
GeneIDi850590.
854794.
KEGGisce:YFR031C-A.
sce:YIL018W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U17360 mRNA. Translation: AAA92284.1.
Z46881 Genomic DNA. Translation: CAA86974.1.
BK006942 Genomic DNA. Translation: DAA08527.1.
PIRiS50243.
RefSeqiNP_012246.1. NM_001179368.1.
NP_116688.3. NM_001180030.3.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4V8Telectron microscopy8.10A1-254[»]
4V8Yelectron microscopy4.30BA2-254[»]
4V8Zelectron microscopy6.60BA2-254[»]
ProteinModelPortaliP0CX46.
SMRiP0CX46.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi31187. 322 interactors.
34970. 50 interactors.
IntActiP0CX46. 2 interactors.
MINTiMINT-617238.

PTM databases

iPTMnetiP0CX46.

Proteomic databases

PRIDEiP0CX46.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYFR031C-A; YFR031C-A; YFR031C-A.
YIL018W; YIL018W; YIL018W.
GeneIDi850590.
854794.
KEGGisce:YFR031C-A.
sce:YIL018W.

Organism-specific databases

SGDiS000001280. RPL2B.

Phylogenomic databases

GeneTreeiENSGT00390000009907.
InParanoidiP0CX46.
KOiK02938.
OrthoDBiEOG092C4DNU.

Enzyme and pathway databases

BioCyciYEAST:G3O-31294-MONOMER.
ReactomeiR-SCE-156827. L13a-mediated translational silencing of Ceruloplasmin expression.
R-SCE-1799339. SRP-dependent cotranslational protein targeting to membrane.
R-SCE-72689. Formation of a pool of free 40S subunits.
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:P0CX46.

Gene expression databases

ExpressionAtlasiP0CX46. differential.

Family and domain databases

Gene3Di2.30.30.30. 1 hit.
4.10.950.10. 1 hit.
InterProiView protein in InterPro
IPR012340. NA-bd_OB-fold.
IPR022666. Rbsml_prot_L2_RNA-bd_dom.
IPR014722. Rib_L2_dom2.
IPR002171. Ribosomal_L2.
IPR022669. Ribosomal_L2_C.
IPR022671. Ribosomal_L2_CS.
IPR014726. Ribosomal_L2_dom3.
IPR008991. Translation_prot_SH3-like.
PANTHERiPTHR13691. PTHR13691. 1 hit.
PfamiView protein in Pfam
PF00181. Ribosomal_L2. 1 hit.
PF03947. Ribosomal_L2_C. 1 hit.
PIRSFiPIRSF002158. Ribosomal_L2. 1 hit.
SMARTiView protein in SMART
SM01383. Ribosomal_L2. 1 hit.
SM01382. Ribosomal_L2_C. 1 hit.
SUPFAMiSSF50104. SSF50104. 1 hit.
SSF50249. SSF50249. 1 hit.
PROSITEiView protein in PROSITE
PS00467. RIBOSOMAL_L2. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiRL2B_YEAST
AccessioniPrimary (citable) accession number: P0CX46
Secondary accession number(s): D6VTR2, P05736
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 28, 2011
Last sequence update: June 28, 2011
Last modified: April 12, 2017
This is version 55 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

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