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Protein

60S ribosomal protein L13-A

Gene

RPL13A

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 3 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 133000 molecules/cell in log phase SD medium.1 Publication
There are 2 genes for eL13 in yeast.Curated

GO - Molecular functioni

GO - Biological processi

  • cytoplasmic translation Source: SGD
  • translation Source: GO_Central

Keywordsi

Molecular functionRibonucleoprotein, Ribosomal protein

Enzyme and pathway databases

BioCyciYEAST:G3O-29491-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
60S ribosomal protein L13-A1 Publication
Alternative name(s):
Large ribosomal subunit protein eL13-A1 Publication
Gene namesi
Name:RPL13A1 Publication
Ordered Locus Names:YDL082W
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome IV

Organism-specific databases

EuPathDBiFungiDB:YDL082W.
SGDiS000002240. RPL13A.

Subcellular locationi

GO - Cellular componenti

  • cytosolic large ribosomal subunit Source: SGD

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001929381 – 19960S ribosomal protein L13-AAdd BLAST199

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei144PhosphothreonineBy similarity1
Modified residuei152PhosphothreonineBy similarity1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiQ12690.
PRIDEiQ12690.
TopDownProteomicsiQ12690.

PTM databases

iPTMnetiQ12690.

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

BioGridi31979. 310 interactors.
IntActiQ12690. 23 interactors.
MINTiMINT-2981666.

Structurei

Secondary structure

1199
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi18 – 20Combined sources3
Beta strandi21 – 24Combined sources4
Helixi25 – 27Combined sources3
Helixi28 – 45Combined sources18
Turni46 – 48Combined sources3
Beta strandi57 – 59Combined sources3
Helixi62 – 65Combined sources4
Beta strandi68 – 71Combined sources4
Helixi77 – 82Combined sources6
Helixi87 – 92Combined sources6
Helixi106 – 121Combined sources16
Beta strandi123 – 125Combined sources3
Beta strandi128 – 130Combined sources3
Turni142 – 144Combined sources3
Beta strandi155 – 157Combined sources3
Helixi166 – 178Combined sources13
Helixi180 – 191Combined sources12

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3J6Xelectron microscopy6.10531-199[»]
3J6Yelectron microscopy6.10531-199[»]
3J77electron microscopy6.20631-199[»]
3J78electron microscopy6.30631-199[»]
3JCTelectron microscopy3.08L1-199[»]
4U3MX-ray3.00M3/m32-199[»]
4U3NX-ray3.20M3/m32-199[»]
4U3UX-ray2.90M3/m32-199[»]
4U4NX-ray3.10M3/m32-199[»]
4U4OX-ray3.60M3/m32-199[»]
4U4QX-ray3.00M3/m32-199[»]
4U4RX-ray2.80M3/m32-199[»]
4U4UX-ray3.00M3/m32-199[»]
4U4YX-ray3.20M3/m32-199[»]
4U4ZX-ray3.10M3/m32-199[»]
4U50X-ray3.20M3/m32-199[»]
4U51X-ray3.20M3/m32-199[»]
4U52X-ray3.00M3/m32-199[»]
4U53X-ray3.30M3/m32-199[»]
4U55X-ray3.20M3/m32-199[»]
4U56X-ray3.45M3/m32-199[»]
4U6FX-ray3.10M3/m32-199[»]
4V7Felectron microscopy8.70K1-199[»]
4V88X-ray3.00BL/DL1-199[»]
4V8Telectron microscopy8.10L1-199[»]
4V8Yelectron microscopy4.30BL2-199[»]
4V8Zelectron microscopy6.60BL2-199[»]
5APNelectron microscopy3.91L1-199[»]
5APOelectron microscopy3.41L1-199[»]
5DATX-ray3.15M3/m32-199[»]
5DC3X-ray3.25M3/m32-199[»]
5DGEX-ray3.45M3/m32-199[»]
5DGFX-ray3.30M3/m32-199[»]
5DGVX-ray3.10M3/m32-199[»]
5FCIX-ray3.40M3/m32-199[»]
5FCJX-ray3.10M3/m32-199[»]
5FL8electron microscopy9.50L1-199[»]
5GAKelectron microscopy3.88N1-199[»]
5H4Pelectron microscopy3.07L1-199[»]
5I4LX-ray3.10M3/m32-195[»]
5JCSelectron microscopy9.50L1-199[»]
5JUOelectron microscopy4.00Q1-199[»]
5JUPelectron microscopy3.50Q1-199[»]
5JUSelectron microscopy4.20Q1-199[»]
5JUTelectron microscopy4.00Q1-199[»]
5JUUelectron microscopy4.00Q1-199[»]
5LYBX-ray3.25M3/m32-195[»]
5M1Jelectron microscopy3.30L52-194[»]
5MC6electron microscopy3.80AJ1-199[»]
5T62electron microscopy3.30N1-199[»]
5T6Relectron microscopy4.50N1-199[»]
5TGAX-ray3.30M3/m32-195[»]
5TGMX-ray3.50M3/m32-195[»]
ProteinModelPortaliQ12690.
SMRiQ12690.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

HOGENOMiHOG000170452.
InParanoidiQ12690.
KOiK02873.
OMAiRINLALP.
OrthoDBiEOG092C53VP.

Family and domain databases

HAMAPiMF_00499. Ribosomal_L13e. 1 hit.
InterProiView protein in InterPro
IPR034295. Ribosomal_L13_euk.
IPR001380. Ribosomal_L13e.
IPR018256. Ribosomal_L13e_CS.
PANTHERiPTHR11722. PTHR11722. 1 hit.
PfamiView protein in Pfam
PF01294. Ribosomal_L13e. 1 hit.
PROSITEiView protein in PROSITE
PS01104. RIBOSOMAL_L13E. 1 hit.

Sequencei

Sequence statusi: Complete.

Q12690-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAISKNLPIL KNHFRKHWQE RVKVHFDQAG KKVSRRNARA TRAAKIAPRP
60 70 80 90 100
LDLLRPVVRA PTVKYNRKVR AGRGFTLAEV KAAGLTAAYA RTIGIAVDHR
110 120 130 140 150
RQNRNQEIFD ANVQRLKEYQ SKIIVFPRNG KAPEAEQVLS AAATFPIAQP
160 170 180 190
ATDVEARAVQ DNGESAFRTL RLARSEKKFR GIREKRAREK AEAEAEKKK
Length:199
Mass (Da):22,554
Last modified:November 1, 1996 - v1
Checksum:iEA7CC5F1F3C0335A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z74130 Genomic DNA. Translation: CAA98648.1.
BK006938 Genomic DNA. Translation: DAA11777.1.
PIRiS67618.
RefSeqiNP_010201.1. NM_001180141.1.

Genome annotation databases

EnsemblFungiiYDL082W; YDL082W; YDL082W.
GeneIDi851477.
KEGGisce:YDL082W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z74130 Genomic DNA. Translation: CAA98648.1.
BK006938 Genomic DNA. Translation: DAA11777.1.
PIRiS67618.
RefSeqiNP_010201.1. NM_001180141.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3J6Xelectron microscopy6.10531-199[»]
3J6Yelectron microscopy6.10531-199[»]
3J77electron microscopy6.20631-199[»]
3J78electron microscopy6.30631-199[»]
3JCTelectron microscopy3.08L1-199[»]
4U3MX-ray3.00M3/m32-199[»]
4U3NX-ray3.20M3/m32-199[»]
4U3UX-ray2.90M3/m32-199[»]
4U4NX-ray3.10M3/m32-199[»]
4U4OX-ray3.60M3/m32-199[»]
4U4QX-ray3.00M3/m32-199[»]
4U4RX-ray2.80M3/m32-199[»]
4U4UX-ray3.00M3/m32-199[»]
4U4YX-ray3.20M3/m32-199[»]
4U4ZX-ray3.10M3/m32-199[»]
4U50X-ray3.20M3/m32-199[»]
4U51X-ray3.20M3/m32-199[»]
4U52X-ray3.00M3/m32-199[»]
4U53X-ray3.30M3/m32-199[»]
4U55X-ray3.20M3/m32-199[»]
4U56X-ray3.45M3/m32-199[»]
4U6FX-ray3.10M3/m32-199[»]
4V7Felectron microscopy8.70K1-199[»]
4V88X-ray3.00BL/DL1-199[»]
4V8Telectron microscopy8.10L1-199[»]
4V8Yelectron microscopy4.30BL2-199[»]
4V8Zelectron microscopy6.60BL2-199[»]
5APNelectron microscopy3.91L1-199[»]
5APOelectron microscopy3.41L1-199[»]
5DATX-ray3.15M3/m32-199[»]
5DC3X-ray3.25M3/m32-199[»]
5DGEX-ray3.45M3/m32-199[»]
5DGFX-ray3.30M3/m32-199[»]
5DGVX-ray3.10M3/m32-199[»]
5FCIX-ray3.40M3/m32-199[»]
5FCJX-ray3.10M3/m32-199[»]
5FL8electron microscopy9.50L1-199[»]
5GAKelectron microscopy3.88N1-199[»]
5H4Pelectron microscopy3.07L1-199[»]
5I4LX-ray3.10M3/m32-195[»]
5JCSelectron microscopy9.50L1-199[»]
5JUOelectron microscopy4.00Q1-199[»]
5JUPelectron microscopy3.50Q1-199[»]
5JUSelectron microscopy4.20Q1-199[»]
5JUTelectron microscopy4.00Q1-199[»]
5JUUelectron microscopy4.00Q1-199[»]
5LYBX-ray3.25M3/m32-195[»]
5M1Jelectron microscopy3.30L52-194[»]
5MC6electron microscopy3.80AJ1-199[»]
5T62electron microscopy3.30N1-199[»]
5T6Relectron microscopy4.50N1-199[»]
5TGAX-ray3.30M3/m32-195[»]
5TGMX-ray3.50M3/m32-195[»]
ProteinModelPortaliQ12690.
SMRiQ12690.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi31979. 310 interactors.
IntActiQ12690. 23 interactors.
MINTiMINT-2981666.

PTM databases

iPTMnetiQ12690.

Proteomic databases

MaxQBiQ12690.
PRIDEiQ12690.
TopDownProteomicsiQ12690.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYDL082W; YDL082W; YDL082W.
GeneIDi851477.
KEGGisce:YDL082W.

Organism-specific databases

EuPathDBiFungiDB:YDL082W.
SGDiS000002240. RPL13A.

Phylogenomic databases

HOGENOMiHOG000170452.
InParanoidiQ12690.
KOiK02873.
OMAiRINLALP.
OrthoDBiEOG092C53VP.

Enzyme and pathway databases

BioCyciYEAST:G3O-29491-MONOMER.

Miscellaneous databases

PROiPR:Q12690.

Family and domain databases

HAMAPiMF_00499. Ribosomal_L13e. 1 hit.
InterProiView protein in InterPro
IPR034295. Ribosomal_L13_euk.
IPR001380. Ribosomal_L13e.
IPR018256. Ribosomal_L13e_CS.
PANTHERiPTHR11722. PTHR11722. 1 hit.
PfamiView protein in Pfam
PF01294. Ribosomal_L13e. 1 hit.
PROSITEiView protein in PROSITE
PS01104. RIBOSOMAL_L13E. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiRL13A_YEAST
AccessioniPrimary (citable) accession number: Q12690
Secondary accession number(s): D6VRR7
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1996
Last modified: May 10, 2017
This is version 139 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, 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 IV
    Yeast (Saccharomyces cerevisiae) chromosome IV: 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.