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Protein

50S ribosomal protein L16

Gene

rplP

Organism
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Binds the 5S and 23S rRNAs and is also seen to make contacts with the A and P site tRNAs. Interacts with A site tRNA mimics, and is probably one of the key factors, along with a helix of the 23S rRNA, in positioning tRNA stems in the peptidyl-transferase center.

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein, Ribosomal protein

Keywords - Ligandi

RNA-binding, rRNA-binding, tRNA-binding

Enzyme and pathway databases

BioCyciDRAD243230:GH46-328-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
50S ribosomal protein L16
Gene namesi
Name:rplP
Ordered Locus Names:DR_0318
OrganismiDeinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
Taxonomic identifieri243230 [NCBI]
Taxonomic lineageiBacteriaDeinococcus-ThermusDeinococciDeinococcalesDeinococcaceaeDeinococcus
Proteomesi
  • UP000002524 Componenti: Chromosome I

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methionineiRemoved
Chaini2 – 14114050S ribosomal protein L16PRO_0000062093Add
BLAST

Proteomic databases

PRIDEiQ9RXJ5.

Interactioni

Subunit structurei

Part of the 50S ribosomal subunit. Contacts the CTC protein (RL25).6 Publications

Protein-protein interaction databases

STRINGi243230.DR_0318.

Structurei

Secondary structure

1
141
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi29 – 368Combined sources
Beta strandi40 – 434Combined sources
Helixi44 – 5815Combined sources
Beta strandi63 – 664Combined sources
Beta strandi72 – 743Combined sources
Beta strandi78 – 803Combined sources
Beta strandi84 – 863Combined sources
Helixi89 – 913Combined sources
Beta strandi92 – 954Combined sources
Beta strandi102 – 1098Combined sources
Helixi111 – 12313Combined sources
Beta strandi125 – 1273Combined sources
Beta strandi129 – 1324Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1GS2model-K6-135[»]
1NJMX-ray3.60K1-141[»]
1NJPX-ray3.50K1-141[»]
1NKWX-ray3.10K1-141[»]
1NWXX-ray3.50K1-141[»]
1NWYX-ray3.30K1-141[»]
1SM1X-ray3.42K1-141[»]
1XBPX-ray3.50K1-141[»]
1Y69X-ray3.33K1-141[»]
2ZJPX-ray3.70J1-141[»]
2ZJQX-ray3.30J1-141[»]
2ZJRX-ray2.91J1-141[»]
3CF5X-ray3.30J1-141[»]
3DLLX-ray3.50J1-141[»]
3PIOX-ray3.25J1-141[»]
3PIPX-ray3.45J1-141[»]
4IO9X-ray3.20J1-141[»]
4IOAX-ray3.20J1-141[»]
4IOCX-ray3.60J1-141[»]
4U67X-ray3.65J1-141[»]
4V49X-ray8.70K7-130[»]
4V4AX-ray9.50K7-130[»]
4V4GX-ray11.50N7-130[»]
4WFNX-ray3.54J1-141[»]
5DM6X-ray2.90J5-140[»]
5DM7X-ray3.00J5-140[»]
ProteinModelPortaliQ9RXJ5.
SMRiQ9RXJ5. Positions 5-140.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9RXJ5.

Family & Domainsi

Sequence similaritiesi

Belongs to the ribosomal protein L16P family.Curated

Phylogenomic databases

eggNOGiENOG4108R70. Bacteria.
COG0197. LUCA.
HOGENOMiHOG000164573.
InParanoidiQ9RXJ5.
KOiK02878.
OMAiKGAVEYW.
OrthoDBiEOG6WHNWS.

Family and domain databases

Gene3Di3.90.1170.10. 1 hit.
HAMAPiMF_01342. Ribosomal_L16.
InterProiIPR016180. Ribosomal_L10e/L16.
IPR000114. Ribosomal_L16.
IPR020798. Ribosomal_L16_CS.
[Graphical view]
PANTHERiPTHR12220. PTHR12220. 1 hit.
PfamiPF00252. Ribosomal_L16. 1 hit.
[Graphical view]
PRINTSiPR00060. RIBOSOMALL16.
SUPFAMiSSF54686. SSF54686. 1 hit.
TIGRFAMsiTIGR01164. rplP_bact. 1 hit.
PROSITEiPS00586. RIBOSOMAL_L16_1. 1 hit.
PS00701. RIBOSOMAL_L16_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q9RXJ5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLLPKRTKFR KQFRGRMTGD AKGGDYVAFG DYGLIAMEPA WIKSNQIEAC
60 70 80 90 100
RIVMSRHFRR GGKIYIRIFP DKPVTKKPAE TRMGKGKGAV EYWVSVVKPG
110 120 130 140
RVMFEVAGVT EEQAKEAFRL AGHKLPIQTK MVKREVYDEA Q
Length:141
Mass (Da):16,095
Last modified:January 23, 2007 - v3
Checksum:iF6666E00FF79FA5B
GO

Sequence cautioni

The sequence AAF09899.1 differs from that shown. Reason: Erroneous initiation. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000513 Genomic DNA. Translation: AAF09899.1. Different initiation.
PIRiF75534.
RefSeqiNP_294041.1. NC_001263.1.
WP_010886963.1. NC_001263.1.

Genome annotation databases

EnsemblBacteriaiAAF09899; AAF09899; DR_0318.
GeneIDi1798664.
KEGGidra:DR_0318.
PATRICi21628134. VBIDeiRad64572_0484.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000513 Genomic DNA. Translation: AAF09899.1. Different initiation.
PIRiF75534.
RefSeqiNP_294041.1. NC_001263.1.
WP_010886963.1. NC_001263.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1GS2model-K6-135[»]
1NJMX-ray3.60K1-141[»]
1NJPX-ray3.50K1-141[»]
1NKWX-ray3.10K1-141[»]
1NWXX-ray3.50K1-141[»]
1NWYX-ray3.30K1-141[»]
1SM1X-ray3.42K1-141[»]
1XBPX-ray3.50K1-141[»]
1Y69X-ray3.33K1-141[»]
2ZJPX-ray3.70J1-141[»]
2ZJQX-ray3.30J1-141[»]
2ZJRX-ray2.91J1-141[»]
3CF5X-ray3.30J1-141[»]
3DLLX-ray3.50J1-141[»]
3PIOX-ray3.25J1-141[»]
3PIPX-ray3.45J1-141[»]
4IO9X-ray3.20J1-141[»]
4IOAX-ray3.20J1-141[»]
4IOCX-ray3.60J1-141[»]
4U67X-ray3.65J1-141[»]
4V49X-ray8.70K7-130[»]
4V4AX-ray9.50K7-130[»]
4V4GX-ray11.50N7-130[»]
4WFNX-ray3.54J1-141[»]
5DM6X-ray2.90J5-140[»]
5DM7X-ray3.00J5-140[»]
ProteinModelPortaliQ9RXJ5.
SMRiQ9RXJ5. Positions 5-140.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi243230.DR_0318.

Proteomic databases

PRIDEiQ9RXJ5.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAF09899; AAF09899; DR_0318.
GeneIDi1798664.
KEGGidra:DR_0318.
PATRICi21628134. VBIDeiRad64572_0484.

Phylogenomic databases

eggNOGiENOG4108R70. Bacteria.
COG0197. LUCA.
HOGENOMiHOG000164573.
InParanoidiQ9RXJ5.
KOiK02878.
OMAiKGAVEYW.
OrthoDBiEOG6WHNWS.

Enzyme and pathway databases

BioCyciDRAD243230:GH46-328-MONOMER.

Miscellaneous databases

EvolutionaryTraceiQ9RXJ5.

Family and domain databases

Gene3Di3.90.1170.10. 1 hit.
HAMAPiMF_01342. Ribosomal_L16.
InterProiIPR016180. Ribosomal_L10e/L16.
IPR000114. Ribosomal_L16.
IPR020798. Ribosomal_L16_CS.
[Graphical view]
PANTHERiPTHR12220. PTHR12220. 1 hit.
PfamiPF00252. Ribosomal_L16. 1 hit.
[Graphical view]
PRINTSiPR00060. RIBOSOMALL16.
SUPFAMiSSF54686. SSF54686. 1 hit.
TIGRFAMsiTIGR01164. rplP_bact. 1 hit.
PROSITEiPS00586. RIBOSOMAL_L16_1. 1 hit.
PS00701. RIBOSOMAL_L16_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.
  2. "High resolution structure of the large ribosomal subunit from a mesophilic eubacterium."
    Harms J., Schluenzen F., Zarivach R., Bashan A., Gat S., Agmon I., Bartels H., Franceschi F., Yonath A.
    Cell 107:679-688(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.1 ANGSTROMS) OF THE 50S SUBUNIT, PROTEIN SEQUENCE OF 1-6.
    Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.
  3. "Structural basis for the interaction of antibiotics with the peptidyl transferase centre in eubacteria."
    Schluenzen F., Zarivach R., Harms J., Bashan A., Tocilj A., Albrecht R., Yonath A., Franceschi F.
    Nature 413:814-821(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.1 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH FIVE ANTIBIOTICS.
    Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.
  4. "Structural basis of the ribosomal machinery for peptide bond formation, translocation, and nascent chain progression."
    Bashan A., Agmon I., Zarivach R., Schluenzen F., Harms J., Berisio R., Bartels H., Franceschi F., Auerbach T., Hansen H.A., Kossoy E., Kessler M., Yonath A.
    Mol. Cell 11:91-102(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.5 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH TRNA MIMICS.
    Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.
  5. "Structural basis for the antibiotic activity of ketolides and azalides."
    Schluenzen F., Harms J.M., Franceschi F., Hansen H.A., Bartels H., Zarivach R., Yonath A.
    Structure 11:329-338(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.3 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH MODIFIED MACROLIDE ANTIBIOTICS.
    Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.
  6. "Structural insight into the role of the ribosomal tunnel in cellular regulation."
    Berisio R., Schluenzen F., Harms J., Bashan A., Auerbach T., Baram D., Yonath A.
    Nat. Struct. Biol. 10:366-370(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.4 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH TROLEANDOMYCIN.
    Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.
  7. "Alterations at the peptidyl transferase centre of the ribosome induced by the synergistic action of the streptogramins dalfopristin and quinupristin."
    Harms J.M., Schluenzen F., Fucini P., Bartels H., Yonath A.
    BMC Biol. 2:4-4(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.4 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH THE STREPTOGRAMINS QUINUPRISTIN AND DALFOPRISTIN.
    Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.
  8. "Inhibition of peptide bond formation by pleuromutilins: the structure of the 50S ribosomal subunit from Deinococcus radiodurans in complex with tiamulin."
    Schluenzen F., Pyetan E., Fucini P., Yonath A., Harms J.M.
    Mol. Microbiol. 54:1287-1294(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.5 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH TIAMULIN.
    Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.

Entry informationi

Entry nameiRL16_DEIRA
AccessioniPrimary (citable) accession number: Q9RXJ5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 15, 2004
Last sequence update: January 23, 2007
Last modified: February 17, 2016
This is version 107 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic 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

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.