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P0ADY7

- RL16_ECOLI

UniProt

P0ADY7 - RL16_ECOLI

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Protein
50S ribosomal protein L16
Gene
rplP, b3313, JW3275
Organism
Escherichia coli (strain K12)
Status
Reviewed - Annotation score: 4 out of 5 - Experimental evidence at protein leveli

Functioni

This protein binds directly to 23S ribosomal RNA and is located at the A site of the peptidyltransferase center. It contacts the A and P site tRNAs. It has an essential role in subunit assembly, which is not well understood.UniRule annotation

GO - Molecular functioni

  1. rRNA binding Source: UniProtKB-HAMAP
  2. structural constituent of ribosome Source: InterPro
  3. tRNA binding Source: UniProtKB-KW
Complete GO annotation...

GO - Biological processi

  1. translation Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein, Ribosomal protein

Keywords - Ligandi

RNA-binding, rRNA-binding, tRNA-binding

Enzyme and pathway databases

BioCyciEcoCyc:EG10877-MONOMER.
ECOL316407:JW3275-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
50S ribosomal protein L16
Gene namesi
Name:rplP
Ordered Locus Names:b3313, JW3275
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
ProteomesiUP000000318: Chromosome, UP000000625: Chromosome

Organism-specific databases

EcoGeneiEG10877. rplP.

Subcellular locationi

GO - Cellular componenti

  1. cytosolic large ribosomal subunit Source: EcoCyc
Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 13613650S ribosomal protein L16UniRule annotation
PRO_0000062101Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei1 – 11N-methylmethionineUniRule annotation
Modified residuei81 – 811(3R)-3-hydroxyarginineUniRule annotation

Post-translational modificationi

Is hydroxylated on Arg-81 by YcfD. The modification is nearly suppressed when E.coli is grown in anoxia.UniRule annotation

Keywords - PTMi

Hydroxylation, Methylation

Proteomic databases

PaxDbiP0ADY7.
PRIDEiP0ADY7.

PTM databases

PhosSiteiP0810431.

Expressioni

Gene expression databases

GenevestigatoriP0ADY7.

Interactioni

Subunit structurei

Part of the 50S ribosomal subunit. Cross-links to the A and P site tRNAs.1 Publication

Protein-protein interaction databases

DIPiDIP-35976N.
IntActiP0ADY7. 34 interactions.
MINTiMINT-1302401.
STRINGi511145.b3313.

Structurei

Secondary structure

Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi8 – 103
Beta strandi28 – 347
Beta strandi39 – 424
Helixi43 – 5715
Beta strandi59 – 613
Beta strandi63 – 653
Beta strandi71 – 755
Beta strandi82 – 854
Beta strandi93 – 964
Beta strandi101 – 1055
Helixi110 – 12112
Beta strandi124 – 1263
Beta strandi129 – 1324

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1P85electron microscopy12.30K1-136[»]
1P86electron microscopy11.50K1-136[»]
1VS6X-ray3.46M1-136[»]
1VS8X-ray3.46M1-136[»]
1VT2X-ray3.30M1-136[»]
2AW4X-ray3.46M1-136[»]
2AWBX-ray3.46M1-136[»]
2GYAelectron microscopy15.00K3-133[»]
2GYCelectron microscopy15.00K3-133[»]
2I2TX-ray3.22M1-136[»]
2I2VX-ray3.22M1-136[»]
2J28electron microscopy8.00M1-136[»]
2QAMX-ray3.21M1-136[»]
2QAOX-ray3.21M1-136[»]
2QBAX-ray3.54M1-136[»]
2QBCX-ray3.54M1-136[»]
2QBEX-ray3.30M1-136[»]
2QBGX-ray3.30M1-136[»]
2QBIX-ray4.00M1-136[»]
2QBKX-ray4.00M1-136[»]
2QOVX-ray3.93M1-136[»]
2QOXX-ray3.93M1-136[»]
2QOZX-ray3.50M1-136[»]
2QP1X-ray3.50M1-136[»]
2RDOelectron microscopy9.10M1-136[»]
2VHMX-ray3.74M1-136[»]
2VHNX-ray3.74M1-136[»]
2WWQelectron microscopy5.80M1-136[»]
2Z4LX-ray4.45M1-136[»]
2Z4NX-ray4.45M1-136[»]
3BBXelectron microscopy10.00M1-136[»]
3E1Belectron microscopy-F1-136[»]
3E1Delectron microscopy-F1-136[»]
3FIKelectron microscopy6.70M1-136[»]
3I1NX-ray3.19M1-136[»]
3I1PX-ray3.19M1-136[»]
3I1RX-ray3.81M1-136[»]
3I1TX-ray3.81M1-136[»]
3I20X-ray3.71M1-136[»]
3I22X-ray3.71M1-136[»]
3IZTelectron microscopy-N1-136[»]
3IZUelectron microscopy-N1-136[»]
3J01electron microscopy-M1-136[»]
3J0Telectron microscopy12.10O1-136[»]
3J0Welectron microscopy14.70O1-136[»]
3J0Yelectron microscopy13.50O1-136[»]
3J11electron microscopy13.10O1-136[»]
3J12electron microscopy11.50O1-136[»]
3J14electron microscopy11.50O1-136[»]
3J19electron microscopy8.30M1-136[»]
3J37electron microscopy9.80Q1-136[»]
3J4Xelectron microscopy12.00M1-136[»]
3J50electron microscopy20.00M1-136[»]
3J51electron microscopy17.00M1-136[»]
3J52electron microscopy12.00M1-136[»]
3J54electron microscopy13.00M1-136[»]
3J56electron microscopy15.00M1-136[»]
3J58electron microscopy17.00M1-136[»]
3J5Aelectron microscopy12.00M1-136[»]
3J5Celectron microscopy17.00M1-136[»]
3J5Eelectron microscopy17.00M1-136[»]
3J5Gelectron microscopy20.00M1-136[»]
3J5Ielectron microscopy15.00M1-136[»]
3J5Kelectron microscopy9.00M1-136[»]
3J5Lelectron microscopy6.60M1-136[»]
3J5Oelectron microscopy6.80M1-136[»]
3J5Uelectron microscopy7.60O1-136[»]
3J5Welectron microscopy7.60P1-136[»]
3KCRelectron microscopy-M1-136[»]
3OASX-ray3.25M1-136[»]
3OATX-ray3.25M1-136[»]
3OFCX-ray3.19M1-136[»]
3OFDX-ray3.19M1-136[»]
3OFQX-ray3.10M1-136[»]
3OFRX-ray3.10M1-136[»]
3OFZX-ray3.29M1-136[»]
3OG0X-ray3.29M1-136[»]
3ORBX-ray3.30M1-136[»]
3R8SX-ray3.00M1-136[»]
3R8TX-ray3.00M1-136[»]
3SGFX-ray3.20Q1-136[»]
3UOSX-ray3.70Q1-136[»]
4CSUelectron microscopy5.50M1-136[»]
4GARX-ray3.30M1-136[»]
4GAUX-ray3.30M1-136[»]
4KIXX-ray2.90M1-136[»]
4KIZX-ray2.90M1-136[»]
4KJ1X-ray2.90M1-136[»]
4KJ3X-ray2.90M1-136[»]
4KJ5X-ray2.90M1-136[»]
4KJ7X-ray2.90M1-136[»]
4KJ9X-ray2.90M1-136[»]
4KJBX-ray2.90M1-136[»]
ProteinModelPortaliP0ADY7.
SMRiP0ADY7. Positions 1-136.

Miscellaneous databases

EvolutionaryTraceiP0ADY7.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0197.
HOGENOMiHOG000164573.
KOiK02878.
OMAiLKTTFVT.
OrthoDBiEOG6WHNWS.
PhylomeDBiP0ADY7.

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.

P0ADY7-1 [UniParc]FASTAAdd to Basket

« Hide

MLQPKRTKFR KMHKGRNRGL AQGTDVSFGS FGLKAVGRGR LTARQIEAAR    50
RAMTRAVKRQ GKIWIRVFPD KPITEKPLAV RMGKGKGNVE YWVALIQPGK 100
VLYEMDGVPE ELAREAFKLA AAKLPIKTTF VTKTVM 136
Length:136
Mass (Da):15,281
Last modified:July 21, 1986 - v1
Checksum:i445A9B167F7564D1
GO

Mass spectrometryi

Molecular mass is 15326.2 Da from positions 1 - 136. Determined by MALDI. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X02613 Genomic DNA. Translation: CAA26467.1.
U18997 Genomic DNA. Translation: AAA58110.1.
U00096 Genomic DNA. Translation: AAC76338.1.
AP009048 Genomic DNA. Translation: BAE77978.1.
M12490 Genomic DNA. Translation: AAA83901.1.
PIRiI23129. R5EC16.
RefSeqiNP_417772.1. NC_000913.3.
YP_492119.1. NC_007779.1.

Genome annotation databases

EnsemblBacteriaiAAC76338; AAC76338; b3313.
BAE77978; BAE77978; BAE77978.
GeneIDi12934115.
947806.
KEGGiecj:Y75_p3863.
eco:b3313.
PATRICi32122058. VBIEscCol129921_3406.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X02613 Genomic DNA. Translation: CAA26467.1 .
U18997 Genomic DNA. Translation: AAA58110.1 .
U00096 Genomic DNA. Translation: AAC76338.1 .
AP009048 Genomic DNA. Translation: BAE77978.1 .
M12490 Genomic DNA. Translation: AAA83901.1 .
PIRi I23129. R5EC16.
RefSeqi NP_417772.1. NC_000913.3.
YP_492119.1. NC_007779.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1P85 electron microscopy 12.30 K 1-136 [» ]
1P86 electron microscopy 11.50 K 1-136 [» ]
1VS6 X-ray 3.46 M 1-136 [» ]
1VS8 X-ray 3.46 M 1-136 [» ]
1VT2 X-ray 3.30 M 1-136 [» ]
2AW4 X-ray 3.46 M 1-136 [» ]
2AWB X-ray 3.46 M 1-136 [» ]
2GYA electron microscopy 15.00 K 3-133 [» ]
2GYC electron microscopy 15.00 K 3-133 [» ]
2I2T X-ray 3.22 M 1-136 [» ]
2I2V X-ray 3.22 M 1-136 [» ]
2J28 electron microscopy 8.00 M 1-136 [» ]
2QAM X-ray 3.21 M 1-136 [» ]
2QAO X-ray 3.21 M 1-136 [» ]
2QBA X-ray 3.54 M 1-136 [» ]
2QBC X-ray 3.54 M 1-136 [» ]
2QBE X-ray 3.30 M 1-136 [» ]
2QBG X-ray 3.30 M 1-136 [» ]
2QBI X-ray 4.00 M 1-136 [» ]
2QBK X-ray 4.00 M 1-136 [» ]
2QOV X-ray 3.93 M 1-136 [» ]
2QOX X-ray 3.93 M 1-136 [» ]
2QOZ X-ray 3.50 M 1-136 [» ]
2QP1 X-ray 3.50 M 1-136 [» ]
2RDO electron microscopy 9.10 M 1-136 [» ]
2VHM X-ray 3.74 M 1-136 [» ]
2VHN X-ray 3.74 M 1-136 [» ]
2WWQ electron microscopy 5.80 M 1-136 [» ]
2Z4L X-ray 4.45 M 1-136 [» ]
2Z4N X-ray 4.45 M 1-136 [» ]
3BBX electron microscopy 10.00 M 1-136 [» ]
3E1B electron microscopy - F 1-136 [» ]
3E1D electron microscopy - F 1-136 [» ]
3FIK electron microscopy 6.70 M 1-136 [» ]
3I1N X-ray 3.19 M 1-136 [» ]
3I1P X-ray 3.19 M 1-136 [» ]
3I1R X-ray 3.81 M 1-136 [» ]
3I1T X-ray 3.81 M 1-136 [» ]
3I20 X-ray 3.71 M 1-136 [» ]
3I22 X-ray 3.71 M 1-136 [» ]
3IZT electron microscopy - N 1-136 [» ]
3IZU electron microscopy - N 1-136 [» ]
3J01 electron microscopy - M 1-136 [» ]
3J0T electron microscopy 12.10 O 1-136 [» ]
3J0W electron microscopy 14.70 O 1-136 [» ]
3J0Y electron microscopy 13.50 O 1-136 [» ]
3J11 electron microscopy 13.10 O 1-136 [» ]
3J12 electron microscopy 11.50 O 1-136 [» ]
3J14 electron microscopy 11.50 O 1-136 [» ]
3J19 electron microscopy 8.30 M 1-136 [» ]
3J37 electron microscopy 9.80 Q 1-136 [» ]
3J4X electron microscopy 12.00 M 1-136 [» ]
3J50 electron microscopy 20.00 M 1-136 [» ]
3J51 electron microscopy 17.00 M 1-136 [» ]
3J52 electron microscopy 12.00 M 1-136 [» ]
3J54 electron microscopy 13.00 M 1-136 [» ]
3J56 electron microscopy 15.00 M 1-136 [» ]
3J58 electron microscopy 17.00 M 1-136 [» ]
3J5A electron microscopy 12.00 M 1-136 [» ]
3J5C electron microscopy 17.00 M 1-136 [» ]
3J5E electron microscopy 17.00 M 1-136 [» ]
3J5G electron microscopy 20.00 M 1-136 [» ]
3J5I electron microscopy 15.00 M 1-136 [» ]
3J5K electron microscopy 9.00 M 1-136 [» ]
3J5L electron microscopy 6.60 M 1-136 [» ]
3J5O electron microscopy 6.80 M 1-136 [» ]
3J5U electron microscopy 7.60 O 1-136 [» ]
3J5W electron microscopy 7.60 P 1-136 [» ]
3KCR electron microscopy - M 1-136 [» ]
3OAS X-ray 3.25 M 1-136 [» ]
3OAT X-ray 3.25 M 1-136 [» ]
3OFC X-ray 3.19 M 1-136 [» ]
3OFD X-ray 3.19 M 1-136 [» ]
3OFQ X-ray 3.10 M 1-136 [» ]
3OFR X-ray 3.10 M 1-136 [» ]
3OFZ X-ray 3.29 M 1-136 [» ]
3OG0 X-ray 3.29 M 1-136 [» ]
3ORB X-ray 3.30 M 1-136 [» ]
3R8S X-ray 3.00 M 1-136 [» ]
3R8T X-ray 3.00 M 1-136 [» ]
3SGF X-ray 3.20 Q 1-136 [» ]
3UOS X-ray 3.70 Q 1-136 [» ]
4CSU electron microscopy 5.50 M 1-136 [» ]
4GAR X-ray 3.30 M 1-136 [» ]
4GAU X-ray 3.30 M 1-136 [» ]
4KIX X-ray 2.90 M 1-136 [» ]
4KIZ X-ray 2.90 M 1-136 [» ]
4KJ1 X-ray 2.90 M 1-136 [» ]
4KJ3 X-ray 2.90 M 1-136 [» ]
4KJ5 X-ray 2.90 M 1-136 [» ]
4KJ7 X-ray 2.90 M 1-136 [» ]
4KJ9 X-ray 2.90 M 1-136 [» ]
4KJB X-ray 2.90 M 1-136 [» ]
ProteinModelPortali P0ADY7.
SMRi P0ADY7. Positions 1-136.
ModBasei Search...

Protein-protein interaction databases

DIPi DIP-35976N.
IntActi P0ADY7. 34 interactions.
MINTi MINT-1302401.
STRINGi 511145.b3313.

Chemistry

ChEMBLi CHEMBL2363135.

PTM databases

PhosSitei P0810431.

Proteomic databases

PaxDbi P0ADY7.
PRIDEi P0ADY7.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAC76338 ; AAC76338 ; b3313 .
BAE77978 ; BAE77978 ; BAE77978 .
GeneIDi 12934115.
947806.
KEGGi ecj:Y75_p3863.
eco:b3313.
PATRICi 32122058. VBIEscCol129921_3406.

Organism-specific databases

EchoBASEi EB0870.
EcoGenei EG10877. rplP.

Phylogenomic databases

eggNOGi COG0197.
HOGENOMi HOG000164573.
KOi K02878.
OMAi LKTTFVT.
OrthoDBi EOG6WHNWS.
PhylomeDBi P0ADY7.

Enzyme and pathway databases

BioCyci EcoCyc:EG10877-MONOMER.
ECOL316407:JW3275-MONOMER.

Miscellaneous databases

EvolutionaryTracei P0ADY7.
PROi P0ADY7.

Gene expression databases

Genevestigatori P0ADY7.

Family and domain databases

Gene3Di 3.90.1170.10. 1 hit.
HAMAPi MF_01342. Ribosomal_L16.
InterProi IPR016180. Ribosomal_L10e/L16.
IPR000114. Ribosomal_L16.
IPR020798. Ribosomal_L16_CS.
[Graphical view ]
PANTHERi PTHR12220. PTHR12220. 1 hit.
Pfami PF00252. Ribosomal_L16. 1 hit.
[Graphical view ]
PRINTSi PR00060. RIBOSOMALL16.
SUPFAMi SSF54686. SSF54686. 1 hit.
TIGRFAMsi TIGR01164. rplP_bact. 1 hit.
PROSITEi PS00586. RIBOSOMAL_L16_1. 1 hit.
PS00701. RIBOSOMAL_L16_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "The primary structure of protein L16 located at the peptidyltransferase center of Escherichia coli ribosomes."
    Brosius J., Chen R.
    FEBS Lett. 68:105-109(1976) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE.
    Strain: K.
  2. "Structure of the Escherichia coli S10 ribosomal protein operon."
    Zurawski G., Zurawski S.M.
    Nucleic Acids Res. 13:4521-4526(1985) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  4. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  5. "DNA sequence of the promoter region for the alpha ribosomal protein operon in Escherichia coli."
    Post L.E., Arfsten A.E., Davis G.R., Nomura M.
    J. Biol. Chem. 255:4653-4659(1980) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 65-80.
  6. "Incorporation of six additional proteins to complete the assembly map of the 50 S subunit from Escherichia coli ribosomes."
    Herold M., Nierhaus K.H.
    J. Biol. Chem. 262:8826-8833(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: ASSEMBLY MAP OF THE 50S SUBUNIT.
    Strain: K12.
  7. "The ribosomal neighbourhood of the central fold of tRNA: cross-links from position 47 of tRNA located at the A, P or E site."
    Osswald M., Doering T., Brimacombe R.
    Nucleic Acids Res. 23:4635-4641(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: CROSS-LINKING TO THE TRNA CENTRAL FOLD.
    Strain: MRE-600.
  8. "Observation of Escherichia coli ribosomal proteins and their posttranslational modifications by mass spectrometry."
    Arnold R.J., Reilly J.P.
    Anal. Biochem. 269:105-112(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: MASS SPECTROMETRY.
    Strain: K12 / ATCC 25404 / DSM 5698 / NCIMB 11290.
  9. "Study of the structural dynamics of the E. coli 70S ribosome using real-space refinement."
    Gao H., Sengupta J., Valle M., Korostelev A., Eswar N., Stagg S.M., Van Roey P., Agrawal R.K., Harvey S.C., Sali A., Chapman M.S., Frank J.
    Cell 113:789-801(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: STRUCTURE BY ELECTRON MICROSCOPY (11.50 ANGSTROMS).
    Strain: MRE-600.
  10. Cited for: HYDROXYLATION AT ARG-81 BY YCFD.
    Strain: K12.
  11. Cited for: X-RAY CRYSTALLOGRAPHY (3.46 ANGSTROMS) OF 2 DIFFERENT RIBOSOME STRUCTURES.
    Strain: MRE-600.

Entry informationi

Entry nameiRL16_ECOLI
AccessioniPrimary (citable) accession number: P0ADY7
Secondary accession number(s): P02414, Q2M6X8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 21, 1986
Last sequence update: July 21, 1986
Last modified: September 3, 2014
This is version 90 of the entry and version 1 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. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. Ribosomal proteins
    Ribosomal proteins families and list of entries
  4. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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