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Protein

60S ribosomal protein L12-A

Gene

RPL12A

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 68500 molecules/cell in log phase SD medium.1 Publication
There are 2 genes for uL11 in yeast.Curated

GO - Molecular functioni

GO - Biological processi

  • cytoplasmic translation Source: SGD
  • ribosomal large subunit assembly Source: SGD
  • translation Source: GO_Central

Keywordsi

Molecular functionRibonucleoprotein, Ribosomal protein, RNA-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-30172-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 L12-A1 Publication
Alternative name(s):
L15
Large ribosomal subunit protein uL11-A1 Publication
YL23
Gene namesi
Name:RPL12A1 Publication
Synonyms:RPL15B
Ordered Locus Names:YEL054C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome V

Organism-specific databases

SGDiS000000780. RPL12A.

Subcellular locationi

GO - Cellular componenti

  • cytosolic large ribosomal subunit Source: SGD

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi67R → K: Abolishes monomethylation by RMT2. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemoved1 Publication
ChainiPRO_00001044672 – 16560S ribosomal protein L12-AAdd BLAST164

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N,N-dimethylproline; by NTM12 Publications1
Modified residuei4N6,N6,N6-trimethyllysine; by RKM22 Publications1
Modified residuei11N6,N6,N6-trimethyllysine; by RKM21 Publication1
Modified residuei25PhosphoserineCombined sources1
Modified residuei38PhosphoserineCombined sources1
Modified residuei67N5-methylarginine; by RMT22 Publications1
Cross-linki130Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)Combined sources
Cross-linki146Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)Combined sources

Post-translational modificationi

It appears that the main modified species for L12 contains 6 methyl groups, 2 on Pro-2, 3 on Lys-4 and 1 on Arg-67. Although not reproduced with a second method, methylation at Lys-11 cannot be ruled out.4 Publications

Keywords - PTMi

Isopeptide bond, Methylation, Phosphoprotein, Ubl conjugation

Proteomic databases

MaxQBiP0CX53.
PRIDEiP0CX53.

PTM databases

iPTMnetiP0CX53.

Expressioni

Gene expression databases

ExpressionAtlasiP0CX53. 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

BioGridi32476. 102 interactors.
36675. 142 interactors.
IntActiP0CX53. 4 interactors.
MINTiMINT-8285568.

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1K5Ymodel-K13-143[»]
3J16electron microscopy-H1-165[»]
3J77electron microscopy6.20621-165[»]
3J78electron microscopy6.30621-165[»]
4V4Belectron microscopy11.70BK13-143[»]
4V6Ielectron microscopy8.80BJ1-165[»]
4V7Felectron microscopy8.70I1-165[»]
4V7RX-ray4.00DL1-165[»]
5DGEX-ray3.45m21-165[»]
5FL8electron microscopy9.50K1-165[»]
5JCSelectron microscopy9.50K1-165[»]
5JUOelectron microscopy4.00P1-165[»]
5JUPelectron microscopy3.50P1-165[»]
5JUSelectron microscopy4.20P1-165[»]
5JUTelectron microscopy4.00P1-165[»]
5JUUelectron microscopy4.00P1-165[»]
ProteinModelPortaliP0CX53.
SMRiP0CX53.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP0CX53.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

HOGENOMiHOG000082125.
InParanoidiP0CX53.
KOiK02870.
OrthoDBiEOG092C54AQ.

Family and domain databases

CDDicd00349. Ribosomal_L11. 1 hit.
Gene3Di1.10.10.250. 1 hit.
3.30.1550.10. 1 hit.
HAMAPiMF_00736. Ribosomal_L11. 1 hit.
InterProiView protein in InterPro
IPR000911. Ribosomal_L11/L12.
IPR020783. Ribosomal_L11_C.
IPR020785. Ribosomal_L11_CS.
IPR020784. Ribosomal_L11_N.
PANTHERiPTHR11661. PTHR11661. 1 hit.
PfamiView protein in Pfam
PF00298. Ribosomal_L11. 1 hit.
PF03946. Ribosomal_L11_N. 1 hit.
SMARTiView protein in SMART
SM00649. RL11. 1 hit.
SUPFAMiSSF46906. SSF46906. 1 hit.
SSF54747. SSF54747. 1 hit.
PROSITEiView protein in PROSITE
PS00359. RIBOSOMAL_L11. 1 hit.

Sequencei

Sequence statusi: Complete.

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

P0CX53-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPPKFDPNEV KYLYLRAVGG EVGASAALAP KIGPLGLSPK KVGEDIAKAT
60 70 80 90 100
KEFKGIKVTV QLKIQNRQAA ASVVPSASSL VITALKEPPR DRKKDKNVKH
110 120 130 140 150
SGNIQLDEII EIARQMRDKS FGRTLASVTK EILGTAQSVG CRVDFKNPHD
160
IIEGINAGEI EIPEN
Length:165
Mass (Da):17,823
Last modified:June 28, 2011 - v1
Checksum:i0B23A483781DFBE5
GO

Mass spectrometryi

Molecular mass is 17764.712 Da from positions 2 - 106. Determined by ESI. Monoisotopic mass with either 6 methylation modifications or 1 acetylation and 3 methylation modifications.1 Publication

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X51519 Genomic DNA. Translation: CAA35891.1.
U18795 Genomic DNA. Translation: AAB65033.1.
AY693201 Genomic DNA. Translation: AAT93220.1.
BK006939 Genomic DNA. Translation: DAA07600.1.
PIRiS13665.
RefSeqiNP_010706.3. NM_001180726.3.
NP_010860.1. NM_001178869.1.

Genome annotation databases

EnsemblFungiiYDR418W; YDR418W; YDR418W.
YEL054C; YEL054C; YEL054C.
GeneIDi852026.
856656.
KEGGisce:YDR418W.
sce:YEL054C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X51519 Genomic DNA. Translation: CAA35891.1.
U18795 Genomic DNA. Translation: AAB65033.1.
AY693201 Genomic DNA. Translation: AAT93220.1.
BK006939 Genomic DNA. Translation: DAA07600.1.
PIRiS13665.
RefSeqiNP_010706.3. NM_001180726.3.
NP_010860.1. NM_001178869.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1K5Ymodel-K13-143[»]
3J16electron microscopy-H1-165[»]
3J77electron microscopy6.20621-165[»]
3J78electron microscopy6.30621-165[»]
4V4Belectron microscopy11.70BK13-143[»]
4V6Ielectron microscopy8.80BJ1-165[»]
4V7Felectron microscopy8.70I1-165[»]
4V7RX-ray4.00DL1-165[»]
5DGEX-ray3.45m21-165[»]
5FL8electron microscopy9.50K1-165[»]
5JCSelectron microscopy9.50K1-165[»]
5JUOelectron microscopy4.00P1-165[»]
5JUPelectron microscopy3.50P1-165[»]
5JUSelectron microscopy4.20P1-165[»]
5JUTelectron microscopy4.00P1-165[»]
5JUUelectron microscopy4.00P1-165[»]
ProteinModelPortaliP0CX53.
SMRiP0CX53.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi32476. 102 interactors.
36675. 142 interactors.
IntActiP0CX53. 4 interactors.
MINTiMINT-8285568.

PTM databases

iPTMnetiP0CX53.

Proteomic databases

MaxQBiP0CX53.
PRIDEiP0CX53.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYDR418W; YDR418W; YDR418W.
YEL054C; YEL054C; YEL054C.
GeneIDi852026.
856656.
KEGGisce:YDR418W.
sce:YEL054C.

Organism-specific databases

SGDiS000000780. RPL12A.

Phylogenomic databases

HOGENOMiHOG000082125.
InParanoidiP0CX53.
KOiK02870.
OrthoDBiEOG092C54AQ.

Enzyme and pathway databases

BioCyciYEAST:G3O-30172-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

EvolutionaryTraceiP0CX53.
PROiPR:P0CX53.

Gene expression databases

ExpressionAtlasiP0CX53. differential.

Family and domain databases

CDDicd00349. Ribosomal_L11. 1 hit.
Gene3Di1.10.10.250. 1 hit.
3.30.1550.10. 1 hit.
HAMAPiMF_00736. Ribosomal_L11. 1 hit.
InterProiView protein in InterPro
IPR000911. Ribosomal_L11/L12.
IPR020783. Ribosomal_L11_C.
IPR020785. Ribosomal_L11_CS.
IPR020784. Ribosomal_L11_N.
PANTHERiPTHR11661. PTHR11661. 1 hit.
PfamiView protein in Pfam
PF00298. Ribosomal_L11. 1 hit.
PF03946. Ribosomal_L11_N. 1 hit.
SMARTiView protein in SMART
SM00649. RL11. 1 hit.
SUPFAMiSSF46906. SSF46906. 1 hit.
SSF54747. SSF54747. 1 hit.
PROSITEiView protein in PROSITE
PS00359. RIBOSOMAL_L11. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiRL12A_YEAST
AccessioniPrimary (citable) accession number: P0CX53
Secondary accession number(s): D3DLJ6, P05741, P17079
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 28, 2011
Last sequence update: June 28, 2011
Last modified: May 10, 2017
This is version 58 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 V
    Yeast (Saccharomyces cerevisiae) chromosome V: 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.