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Escherichia coli K-12 substr. MG1655 Polypeptide: 50S ribosomal subunit protein L16



Gene: rplP Accession Numbers: EG10877 (EcoCyc), b3313, ECK3300

Regulation Summary Diagram: ?

Component of:
50S ribosomal subunit
ribosome (summary available)

Summary:
The L16 protein is a late assembly component of the 50S subunit of the ribosome; ribosomes lacking L16 are translationally active [Franceschi90]. L2 is required for assembly of L16 into the 50S subunit [Romero90].

L16 interacts with tRNA [Remme83, Maimets84, Sumpter90] and can be crosslinked to aminoacylated tRNA in the A and P site [Abdurashidova79, Osswald95]. Conserved residues within L16 were shown to be involved in the translocation of tRNA from the A to the P site [Bock13]. L16 is located within 21 Å of nucleotide C2475 of 23S rRNA, near the peptidyltransferase center [Muralikrishna95]. L16 and a histidine residue within the N-terminal domain of L16 may be important for the correct conformation of the peptidyltransferase center [Baxter80, Baxter87, Tate87]. L16 is important for release factor 2-dependent peptidyl-tRNA hydrolysis [Tate83]. The antibiotics chloramphenicol [Nierhaus73, Pongs73] and virginiamycin S [deBethune78] interact with L16 within the ribosome.

L16 is one of six ribosomal proteins that is completely lost from ribosomes in post-stationary cells [Ramagopal84].

The N-terminal methionine of L16 appears to be methylated [Brosius76, Chen77], and additional posttranslational modifications of the protein are present [Arnold99, Nesterchuk11]. These include phosphorylation [Macek08, Soung09] as well as hydroxylation of the Arg81 residue by ribosomal protein-arginine oxygenase [Ge12].

L16 has RNA chaperone-like activity in an in vitro trans-splicing assay [Semrad04] as well as protein chaperone activity [Kovacs09].

Citations: [Czernilofsky74, Maassen74, Kazemie75, Kazemie76, Dzionara77, Pichon77, Morrison77, Hernandez77, Bernabeu77, Jaskunas77, Teraoka78, Bernabeu78, Baxter78, Spierer79, Adachi79, Marquardt79, Skold81, Guerin81, Schulze82, Moureau83, Maimets, Ganoza85, Yusupov86, Kakegawa86, Walleczek89, Chistyakov89, Redl89, Walleczek89a, RandolphAnderso89, Wower89, Vladimirov90, Sumpter91, Nag91, Agafonov97, Vladimirov00, Lancaster08]

Gene Citations: [Zurawski85]

Locations: cytosol, ribosome

Map Position: [3,446,781 <- 3,447,191] (74.29 centisomes)
Length: 411 bp / 136 aa

Molecular Weight of Polypeptide: 15.281 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0010846 , CGSC:250 , DIP:DIP-35976N , EchoBASE:EB0870 , EcoGene:EG10877 , EcoliWiki:b3313 , Mint:MINT-1302401 , ModBase:P0ADY7 , OU-Microarray:b3313 , PortEco:rplP , PR:PRO_000023822 , Pride:P0ADY7 , Protein Model Portal:P0ADY7 , RefSeq:NP_417772 , RegulonDB:EG10877 , SMR:P0ADY7 , String:511145.b3313 , UniProt:P0ADY7

Relationship Links: InterPro:IN-FAMILY:IPR000114 , InterPro:IN-FAMILY:IPR016180 , InterPro:IN-FAMILY:IPR020798 , Panther:IN-FAMILY:PTHR12220 , PDB:Structure:1P85 , PDB:Structure:1P86 , PDB:Structure:1VS6 , PDB:Structure:1VS8 , PDB:Structure:1VT2 , PDB:Structure:2AW4 , PDB:Structure:2AWB , PDB:Structure:2GYA , PDB:Structure:2GYC , PDB:Structure:2I2T , PDB:Structure:2I2V , PDB:Structure:2J28 , PDB:Structure:2QAM , PDB:Structure:2QAO , PDB:Structure:2QBA , PDB:Structure:2QBC , PDB:Structure:2QBE , PDB:Structure:2QBG , PDB:Structure:2QBI , PDB:Structure:2QBK , PDB:Structure:2QOV , PDB:Structure:2QOX , PDB:Structure:2QOZ , PDB:Structure:2QP1 , PDB:Structure:2RDO , PDB:Structure:2VHM , PDB:Structure:2VHN , PDB:Structure:2WWQ , PDB:Structure:2Z4L , PDB:Structure:2Z4N , PDB:Structure:3BBX , PDB:Structure:3E1B , PDB:Structure:3E1D , PDB:Structure:3FIK , PDB:Structure:3I1N , PDB:Structure:3I1P , PDB:Structure:3I1R , PDB:Structure:3I1T , PDB:Structure:3I20 , PDB:Structure:3I22 , PDB:Structure:3IZT , PDB:Structure:3IZU , PDB:Structure:3J01 , PDB:Structure:3J0T , PDB:Structure:3J0W , PDB:Structure:3J0Y , PDB:Structure:3J11 , PDB:Structure:3J12 , PDB:Structure:3J14 , PDB:Structure:3J19 , PDB:Structure:3J37 , PDB:Structure:3KCR , PDB:Structure:3OAS , PDB:Structure:3OAT , PDB:Structure:3OFC , PDB:Structure:3OFD , PDB:Structure:3OFQ , PDB:Structure:3OFR , PDB:Structure:3OFZ , PDB:Structure:3OG0 , PDB:Structure:3ORB , PDB:Structure:3R8S , PDB:Structure:3R8T , PDB:Structure:3SGF , PDB:Structure:3UOS , PDB:Structure:4GAR , PDB:Structure:4GAU , PDB:Structure:4KIX , PDB:Structure:4KIZ , PDB:Structure:4KJ1 , PDB:Structure:4KJ3 , PDB:Structure:4KJ5 , PDB:Structure:4KJ7 , PDB:Structure:4KJ9 , PDB:Structure:4KJB , Pfam:IN-FAMILY:PF00252 , Prints:IN-FAMILY:PR00060 , Prosite:IN-FAMILY:PS00586 , Prosite:IN-FAMILY:PS00701

Gene-Reaction Schematic: ?

Genetic Regulation Schematic: ?

GO Terms:

Biological Process: GO:0006412 - translation Inferred by computational analysis [GOA06, GOA01]
Molecular Function: GO:0000049 - tRNA binding Inferred from experiment Inferred by computational analysis [UniProtGOA11, Remme83]
GO:0019843 - rRNA binding Inferred from experiment Inferred by computational analysis [UniProtGOA11, GOA06, GOA01, Stoffler71]
GO:0003723 - RNA binding Inferred by computational analysis [UniProtGOA11]
GO:0003735 - structural constituent of ribosome Inferred by computational analysis [GOA01]
Cellular Component: GO:0022625 - cytosolic large ribosomal subunit Inferred from experiment [Hindennach71]
GO:0005622 - intracellular Inferred by computational analysis [GOA01]
GO:0005829 - cytosol Inferred by computational analysis [DiazMejia09]
GO:0005840 - ribosome Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0030529 - ribonucleoprotein complex Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell structure ribosomes
information transfer protein related ribosomal proteins
information transfer protein related translation

Essentiality data for rplP knockouts: ?

Growth Medium Growth? T (°C) O2 pH Osm/L Growth Observations
LB enriched Yes 37 Aerobic 6.95   Yes [Gerdes03, Comment 1]
LB Lennox No 37 Aerobic 7   No [Baba06, Comment 2]

Credits:
Last-Curated ? 27-Feb-2014 by Keseler I , SRI International


Subunit of: 50S ribosomal subunit

Synonyms: ribosome, large subunit

Subunit composition of 50S ribosomal subunit = [RrlA][RrfA][RplA][RplB][RplC][RplD][RplE][RplF][(RplJ)([RplL]2)2][RplI][RplK][RplM][RplN][RplO][RplP][RplQ][RplR][RplS][RplT][RplU][RplV][RplW][RplX][RplY][RpmA][RpmB][RpmC][RpmD][RpmE][RpmF][RpmG][RpmH][RpmI][RpmJ]
         23S ribosomal RNA (rrlA) = RrlA (extended summary available)
         5S ribosomal RNA (rrfA) = RrfA (extended summary available)
         50S ribosomal subunit protein L1 = RplA (extended summary available)
         50S ribosomal subunit protein L2 = RplB (summary available)
         50S ribosomal subunit protein L3 = RplC (summary available)
         50S ribosomal subunit protein L4 = RplD (extended summary available)
         50S ribosomal subunit protein L5 = RplE (summary available)
         50S ribosomal subunit protein L6 = RplF (summary available)
         50S ribosomal protein complex L8 = (RplJ)([RplL]2)2 (summary available)
                 50S ribosomal subunit protein L10 = RplJ (extended summary available)
                 50S ribosomal subunit protein L7/L12 dimer = (RplL)2
                         50S ribosomal subunit protein L12 = RplL
         50S ribosomal subunit protein L9 = RplI (summary available)
         50S ribosomal subunit protein L11 = RplK (extended summary available)
         50S ribosomal subunit protein L13 = RplM (extended summary available)
         50S ribosomal subunit protein L14 = RplN (extended summary available)
         50S ribosomal subunit protein L15 = RplO (summary available)
         50S ribosomal subunit protein L16 = RplP (extended summary available)
         50S ribosomal subunit protein L17 = RplQ (summary available)
         50S ribosomal subunit protein L18 = RplR (extended summary available)
         50S ribosomal subunit protein L19 = RplS (extended summary available)
         50S ribosomal subunit protein L20 = RplT (extended summary available)
         50S ribosomal subunit protein L21 = RplU (summary available)
         50S ribosomal subunit protein L22 = RplV (extended summary available)
         50S ribosomal subunit protein L23 = RplW (extended summary available)
         50S ribosomal subunit protein L24 = RplX (summary available)
         50S ribosomal subunit protein L25 = RplY (summary available)
         50S ribosomal subunit protein L27 = RpmA (extended summary available)
         50S ribosomal subunit protein L28 = RpmB (summary available)
         50S ribosomal subunit protein L29 = RpmC (summary available)
         50S ribosomal subunit protein L30 = RpmD (summary available)
         50S ribosomal subunit protein L31 = RpmE (summary available)
         50S ribosomal subunit protein L32 = RpmF (summary available)
         50S ribosomal subunit protein L33 = RpmG (summary available)
         50S ribosomal subunit protein L34 = RpmH (summary available)
         50S ribosomal subunit protein L35 = RpmI (summary available)
         50S ribosomal subunit protein L36 = RpmJ (summary available)

Component of: ribosome (summary available)

Relationship Links: PDB:Structure:1P85 , PDB:Structure:1P86 , PDB:Structure:2AW4 , PDB:Structure:2AWB

Credits:
Created 02-Jun-2006 by Keseler I , SRI International


Subunit of: ribosome

Subunit composition of ribosome = [(RrsA)(RpsA)(RpsB)(RpsC)(RpsD)(RpsE)(RpsF)(RpsG)(RpsH)(RpsI)(RpsJ)(RpsK)(RpsL)(RpsM)(RpsN)(RpsO)(RpsP)(RpsQ)(RpsR)(RpsS)(RpsT)(RpsU)(Sra)][(RrlA)(RrfA)(RplA)(RplB)(RplC)(RplD)(RplE)(RplF)([RplJ][(RplL)2]2)(RplI)(RplK)(RplM)(RplN)(RplO)(RplP)(RplQ)(RplR)(RplS)(RplT)(RplU)(RplV)(RplW)(RplX)(RplY)(RpmA)(RpmB)(RpmC)(RpmD)(RpmE)(RpmF)(RpmG)(RpmH)(RpmI)(RpmJ)]
         30S ribosomal subunit = (RrsA)(RpsA)(RpsB)(RpsC)(RpsD)(RpsE)(RpsF)(RpsG)(RpsH)(RpsI)(RpsJ)(RpsK)(RpsL)(RpsM)(RpsN)(RpsO)(RpsP)(RpsQ)(RpsR)(RpsS)(RpsT)(RpsU)(Sra) (summary available)
                 16S ribosomal RNA (rrsA) = RrsA (extended summary available)
                 30S ribosomal subunit protein S1 = RpsA (extended summary available)
                 30S ribosomal subunit protein S2 = RpsB (summary available)
                 30S ribosomal subunit protein S3 = RpsC (summary available)
                 30S ribosomal subunit protein S4 = RpsD (extended summary available)
                 30S ribosomal subunit protein S5 = RpsE (extended summary available)
                 30S ribosomal subunit protein S6 = RpsF (extended summary available)
                 30S ribosomal subunit protein S7 = RpsG (extended summary available)
                 30S ribosomal subunit protein S8 = RpsH (extended summary available)
                 30S ribosomal subunit protein S9 = RpsI (extended summary available)
                 30S ribosomal subunit protein S10 = RpsJ (extended summary available)
                 30S ribosomal subunit protein S11 = RpsK (summary available)
                 30S ribosomal subunit protein S12 = RpsL (extended summary available)
                 30S ribosomal subunit protein S13 = RpsM (extended summary available)
                 30S ribosomal subunit protein S14 = RpsN (summary available)
                 30S ribosomal subunit protein S15 = RpsO (extended summary available)
                 30S ribosomal subunit protein S16 = RpsP (summary available)
                 30S ribosomal subunit protein S17 = RpsQ (summary available)
                 30S ribosomal subunit protein S18 = RpsR (extended summary available)
                 30S ribosomal subunit protein S19 = RpsS (summary available)
                 30S ribosomal subunit protein S20 = RpsT (extended summary available)
                 30S ribosomal subunit protein S21 = RpsU (summary available)
                 30S ribosomal subunit protein S22 = Sra (summary available)
         50S ribosomal subunit = (RrlA)(RrfA)(RplA)(RplB)(RplC)(RplD)(RplE)(RplF)([RplJ][(RplL)2]2)(RplI)(RplK)(RplM)(RplN)(RplO)(RplP)(RplQ)(RplR)(RplS)(RplT)(RplU)(RplV)(RplW)(RplX)(RplY)(RpmA)(RpmB)(RpmC)(RpmD)(RpmE)(RpmF)(RpmG)(RpmH)(RpmI)(RpmJ)
                 23S ribosomal RNA (rrlA) = RrlA (extended summary available)
                 5S ribosomal RNA (rrfA) = RrfA (extended summary available)
                 50S ribosomal subunit protein L1 = RplA (extended summary available)
                 50S ribosomal subunit protein L2 = RplB (summary available)
                 50S ribosomal subunit protein L3 = RplC (summary available)
                 50S ribosomal subunit protein L4 = RplD (extended summary available)
                 50S ribosomal subunit protein L5 = RplE (summary available)
                 50S ribosomal subunit protein L6 = RplF (summary available)
                 50S ribosomal protein complex L8 = (RplJ)([RplL]2)2 (summary available)
                         50S ribosomal subunit protein L10 = RplJ (extended summary available)
                         50S ribosomal subunit protein L7/L12 dimer = (RplL)2
                                 50S ribosomal subunit protein L12 = RplL
                 50S ribosomal subunit protein L9 = RplI (summary available)
                 50S ribosomal subunit protein L11 = RplK (extended summary available)
                 50S ribosomal subunit protein L13 = RplM (extended summary available)
                 50S ribosomal subunit protein L14 = RplN (extended summary available)
                 50S ribosomal subunit protein L15 = RplO (summary available)
                 50S ribosomal subunit protein L16 = RplP (extended summary available)
                 50S ribosomal subunit protein L17 = RplQ (summary available)
                 50S ribosomal subunit protein L18 = RplR (extended summary available)
                 50S ribosomal subunit protein L19 = RplS (extended summary available)
                 50S ribosomal subunit protein L20 = RplT (extended summary available)
                 50S ribosomal subunit protein L21 = RplU (summary available)
                 50S ribosomal subunit protein L22 = RplV (extended summary available)
                 50S ribosomal subunit protein L23 = RplW (extended summary available)
                 50S ribosomal subunit protein L24 = RplX (summary available)
                 50S ribosomal subunit protein L25 = RplY (summary available)
                 50S ribosomal subunit protein L27 = RpmA (extended summary available)
                 50S ribosomal subunit protein L28 = RpmB (summary available)
                 50S ribosomal subunit protein L29 = RpmC (summary available)
                 50S ribosomal subunit protein L30 = RpmD (summary available)
                 50S ribosomal subunit protein L31 = RpmE (summary available)
                 50S ribosomal subunit protein L32 = RpmF (summary available)
                 50S ribosomal subunit protein L33 = RpmG (summary available)
                 50S ribosomal subunit protein L34 = RpmH (summary available)
                 50S ribosomal subunit protein L35 = RpmI (summary available)
                 50S ribosomal subunit protein L36 = RpmJ (summary available)

Summary:
The ribosome is a complex machinery that translates the genetic code.

A crystal structure of the E. coli ribosome has been determined at 3.5 Å resolution [Schuwirth05]. Additional crystal structures of the ribosome with tRNA bound in two functionally distinct states reveal how a ratchet-like motion of the small and large subunits contributes to translocation, termination of translation, and ribosome recycling [Zhang09, Dunkle11].

Approximately eight molecules of Zn2+ are bound to the ribosome; therefore, it appears that a large fraction of intracellular Zn2+ is ribosome-associated [Hensley11].

Selected reviews: [Ramakrishnan02, Yonath05, Ogle05, Kaczanowska07]

Citations: [Kuhlenkoetter11]

Relationship Links: PDB:Structure:3R8N , PDB:Structure:3R8O , PDB:Structure:3R8S , PDB:Structure:3R8T

Credits:
Created 15-Jun-2006 by Keseler I , SRI International


Sequence Features

Feature Class Location Citations Comment
Methylation-Modification 1
[UniProt10]
UniProt: N-methylmethionine;
Arginine-derivative-Modification 81
[UniProt11]
UniProt: Arginine derivative.


Gene Local Context (not to scale): ?

Transcription Unit:

Notes:

History:
10/20/97 Gene b3313 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG10877; confirmed by SwissProt match.


References

Abdurashidova79: Abdurashidova GG, Turchinsky MF, Aslanov KA, Budowsky EI (1979). "Polynucleotide-protein interactions in the translation system. Identification of proteins interacting with tRNA in the A- and P-sites of E. coli ribosomes." Nucleic Acids Res 6(12);3891-909. PMID: 386278

Adachi79: Adachi K, Sells BH (1979). "The effect of magnesium starvation on the dissociation of ribosomal proteins from Escherichia coli K-12 ribosomes." Biochim Biophys Acta 563(1);163-70. PMID: 387084

Agafonov97: Agafonov DE, Kolb VA, Spirin AS (1997). "Proteins on ribosome surface: measurements of protein exposure by hot tritium bombardment technique." Proc Natl Acad Sci U S A 94(24);12892-7. PMID: 9371771

Arnold99: Arnold RJ, Reilly JP (1999). "Observation of Escherichia coli ribosomal proteins and their posttranslational modifications by mass spectrometry." Anal Biochem 269(1);105-12. PMID: 10094780

Baba06: Baba T, Ara T, Hasegawa M, Takai Y, Okumura Y, Baba M, Datsenko KA, Tomita M, Wanner BL, Mori H (2006). "Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection." Mol Syst Biol 2;2006.0008. PMID: 16738554

Baxter78: Baxter RM, Zahid ND (1978). "The modification of the peptidyl transferase activity of 50-S ribosomal subunits, LiC1-split proteins and L16 ribosomal protein by ethoxyformic anhydride." Eur J Biochem 91(1);49-56. PMID: 363428

Baxter80: Baxter RM, White VT, Zahid ND (1980). "The modification of the peptidyltransferase activity of 50-S ribosomal subunits, LiCl-split proteins and L16 ribosomal protein by pyridoxal phosphate." Eur J Biochem 110(1);161-6. PMID: 6254759

Baxter87: Baxter RM, Ganoza MC, Zahid N, Chung DG (1987). "Reconstruction of peptidyltransferase activity on 50S and 70S ribosomal particles by peptide fragments of protein L16." Eur J Biochem 163(3);473-9. PMID: 3549294

Bernabeu77: Bernabeu C, Vazquez D, Ballesta JP (1977). "The involvement of protein L16 on ribosomal peptidyl transferase activity." Eur J Biochem 79(2);469-72. PMID: 336360

Bernabeu78: Bernabeu C, Vazquez D, Ballesta JP (1978). "Proteins associated with rRNA in the Escherichia coli ribosome." Biochim Biophys Acta 518(2);290-7. PMID: 350280

Bock13: Bock LV, Blau C, Schroder GF, Davydov II, Fischer N, Stark H, Rodnina MV, Vaiana AC, Grubmuller H (2013). "Energy barriers and driving forces in tRNA translocation through the ribosome." Nat Struct Mol Biol 20(12);1390-6. PMID: 24186064

Brosius76: Brosius J, Chen R (1976). "The primary structure of protein L16 located at the peptidyltransferase center of Escherichia coli ribosomes." FEBS Lett 68(1);105-9. PMID: 786730

Chen77: Chen R, Brosius J, Wittmann-Liebold B (1977). "Occurrence of methylated amino acids as N-termini of proteins from Escherichia coli ribosomes." J Mol Biol 111(2);173-81. PMID: 323502

Chistyakov89: Chistyakov PG, Venjaminova AG, Vladimirov SN, Graifer DM, Kazakov SA, Karpova GG (1989). "Differences in 23 S rRNA-protein neighbourhood in Escherichia coli 70 S ribosomes and 70 S initiation complex. Probing by bifunctional Pt(II)-containing reagent." FEBS Lett 246(1-2);197-201. PMID: 2495985

Czernilofsky74: Czernilofsky AP, Collatz EE, Stoffler G, Kuechler E (1974). "Proteins at the tRNA binding sites of Escherichia coli ribosomes." Proc Natl Acad Sci U S A 71(1);230-4. PMID: 4589893

deBethune78: de Bethune MP, Nierhaus KH (1978). "Characterisation of the binding of virginiamycin S to Escherichia coli ribosomes." Eur J Biochem 86(1);187-91. PMID: 95947

DiazMejia09: Diaz-Mejia JJ, Babu M, Emili A (2009). "Computational and experimental approaches to chart the Escherichia coli cell-envelope-associated proteome and interactome." FEMS Microbiol Rev 33(1);66-97. PMID: 19054114

Dunkle11: Dunkle JA, Wang L, Feldman MB, Pulk A, Chen VB, Kapral GJ, Noeske J, Richardson JS, Blanchard SC, Cate JH (2011). "Structures of the bacterial ribosome in classical and hybrid states of tRNA binding." Science 332(6032);981-4. PMID: 21596992

Dzionara77: Dzionara M, Robinson SM, Wittmann-Liebold B (1977). "Prediction for secondary structures of ten proteins from the 50S subunit of the Escherichia coli ribosome." J Supramol Struct 7(2);191-204. PMID: 340794

Franceschi90: Franceschi FJ, Nierhaus KH (1990). "Ribosomal proteins L15 and L16 are mere late assembly proteins of the large ribosomal subunit. Analysis of an Escherichia coli mutant lacking L15." J Biol Chem 265(27);16676-82. PMID: 2204629

Ganoza85: Ganoza MC, Zahid N, Baxter RM (1985). "Stimulation of peptidyltransferase reactions by a soluble protein." Eur J Biochem 146(2);287-94. PMID: 3881259

Ge12: Ge W, Wolf A, Feng T, Ho CH, Sekirnik R, Zayer A, Granatino N, Cockman ME, Loenarz C, Loik ND, Hardy AP, Claridge TD, Hamed RB, Chowdhury R, Gong L, Robinson CV, Trudgian DC, Jiang M, Mackeen MM, McCullagh JS, Gordiyenko Y, Thalhammer A, Yamamoto A, Yang M, Liu-Yi P, Zhang Z, Schmidt-Zachmann M, Kessler BM, Ratcliffe PJ, Preston GM, Coleman ML, Schofield CJ (2012). "Oxygenase-catalyzed ribosome hydroxylation occurs in prokaryotes and humans." Nat Chem Biol 8(12);960-2. PMID: 23103944

Gerdes03: Gerdes SY, Scholle MD, Campbell JW, Balazsi G, Ravasz E, Daugherty MD, Somera AL, Kyrpides NC, Anderson I, Gelfand MS, Bhattacharya A, Kapatral V, D'Souza M, Baev MV, Grechkin Y, Mseeh F, Fonstein MY, Overbeek R, Barabasi AL, Oltvai ZN, Osterman AL (2003). "Experimental determination and system level analysis of essential genes in Escherichia coli MG1655." J Bacteriol 185(19);5673-84. PMID: 13129938

GOA01: GOA, DDB, FB, MGI, ZFIN (2001). "Gene Ontology annotation through association of InterPro records with GO terms."

GOA06: GOA, SIB (2006). "Electronic Gene Ontology annotations created by transferring manual GO annotations between orthologous microbial proteins."

Guerin81: Guerin MF, Hayes DH, Nierhaus KH (1981). "Effects of partial deproteinization on the functional properties of 50S ribosomal subunits of E. coli." Biochimie 63(8-9);699-707. PMID: 7030408

Hensley11: Hensley MP, Tierney DL, Crowder MW (2011). "Zn(II) binding to Escherichia coli 70S ribosomes." Biochemistry 50(46);9937-9. PMID: 22026583

Hernandez77: Hernandez F, Vazquez D, Ballesta JP (1977). "Functional roles of 50-S ribosomal proteins." Eur J Biochem 78(1);267-72. PMID: 334534

Hindennach71: Hindennach I, Kaltschmidt E, Wittmann HG (1971). "Ribosomal proteins. Isolation of proteins from 50S ribosomal subunits of Escherichia coli." Eur J Biochem 23(1);12-6. PMID: 4942547

Jaskunas77: Jaskunas SR, Fallon AM, Nomura M (1977). "Identification and organization of ribosomal protein genes of Escherichia coli carried by lambdafus2 transducing phage." J Biol Chem 252(20);7323-36. PMID: 332690

Kaczanowska07: Kaczanowska M, Ryden-Aulin M (2007). "Ribosome biogenesis and the translation process in Escherichia coli." Microbiol Mol Biol Rev 71(3);477-94. PMID: 17804668

Kakegawa86: Kakegawa T, Sato E, Hirose S, Igarashi K (1986). "Polyamine binding sites on Escherichia coli ribosomes." Arch Biochem Biophys 251(2);413-20. PMID: 3541786

Kazemie75: Kazemie M (1975). "The importance of Escherichia coli ribosomal proteins L1, L11 and L16 for the association of ribosomal subunits and the formation of the 70-S initiation complex." Eur J Biochem 58(2);501-10. PMID: 1102306

Kazemie76: Kazemie M (1976). "Binding of aminoacyl-tRNA to reconstituted subparticles of Escherichia coli large ribosomal subunits." Eur J Biochem 67(2);373-8. PMID: 786630

Kovacs09: Kovacs D, Rakacs M, Agoston B, Lenkey K, Semrad K, Schroeder R, Tompa P (2009). "Janus chaperones: assistance of both RNA- and protein-folding by ribosomal proteins." FEBS Lett 583(1);88-92. PMID: 19071121

Kuhlenkoetter11: Kuhlenkoetter S, Wintermeyer W, Rodnina MV (2011). "Different substrate-dependent transition states in the active site of the ribosome." Nature 476(7360);351-4. PMID: 21804565

Lancaster08: Lancaster L, Lambert NJ, Maklan EJ, Horan LH, Noller HF (2008). "The sarcin-ricin loop of 23S rRNA is essential for assembly of the functional core of the 50S ribosomal subunit." RNA 14(10);1999-2012. PMID: 18755834

Maassen74: Maassen JA, Moller W (1974). "Identification by photo-affinity labeling of the proteins in Escherichia coli ribosomes involved in elongation factor G-dependent GDP binding." Proc Natl Acad Sci U S A 71(4);1277-80. PMID: 4598298

Macek08: Macek B, Gnad F, Soufi B, Kumar C, Olsen JV, Mijakovic I, Mann M (2008). "Phosphoproteome analysis of E. coli reveals evolutionary conservation of bacterial Ser/Thr/Tyr phosphorylation." Mol Cell Proteomics 7(2);299-307. PMID: 17938405

Maimets: Maimets TO, Ustav MB, Remme IaL, Villems RL "[Protein L16 of the Escherichia coli ribosome: possible role in protein biosynthesis]." Mol Biol (Mosk) 18(6);1597-605. PMID: 6084168

Maimets84: Maimets T, Remme J, Villems R (1984). "Ribosomal protein L16 binds to the 3'-end of transfer RNA." FEBS Lett 166(1);53-6. PMID: 6363130

Marquardt79: Marquardt O, Roth HE, Wystup G, Nierhaus KH (1979). "Binding of Escherichia coli ribosomal proteins to 23S RNA under reconstitution conditions for the 50S subunit." Nucleic Acids Res 6(11);3641-50. PMID: 386275

Morrison77: Morrison CA, Tischendorf G, Stoffler G, Garrett RA (1977). "Accessibility of proteins in 50S ribosomal subunits of Escherichia coli to antibodies: an ultracentrifugation study." Mol Gen Genet 151(3);245-52. PMID: 68433

Moureau83: Moureau P, Di Giambattista M, Cocito C (1983). "The lasting ribosome alteration produced by virginiamycin M disappears upon removal of certain ribosomal proteins." Biochim Biophys Acta 739(2);164-72. PMID: 6402016

Muralikrishna95: Muralikrishna P, Cooperman BS (1995). "Ribosomal components neighboring the 2475 loop in Escherichia coli 50S subunits." Biochemistry 34(1);115-21. PMID: 7529559

Nag91: Nag B, Glitz DG, Tewari DS, Traut RR (1991). "Probing the functional role and localization of Escherichia coli ribosomal protein L16 with a monoclonal antibody." J Biol Chem 266(17);11116-21. PMID: 2040621

Nesterchuk11: Nesterchuk MV, Sergiev PV, Dontsova OA (2011). "Posttranslational Modifications of Ribosomal Proteins in Escherichia coli." Acta Naturae 3(2);22-33. PMID: 22649682

Nierhaus73: Nierhaus D, Nierhaus KH (1973). "Identification of the chloramphenicol-binding protein in Escherichia coli ribosomes by partial reconstitution." Proc Natl Acad Sci U S A 70(8);2224-8. PMID: 4365366

Ogle05: Ogle JM, Ramakrishnan V (2005). "Structural insights into translational fidelity." Annu Rev Biochem 74;129-77. PMID: 15952884

Olins81: Olins PO, Nomura M (1981). "Regulation of the S10 ribosomal protein operon in E. coli: nucleotide sequence at the start of the operon." Cell 1981;26(2 Pt 2);205-11. PMID: 7037196

Osswald95: Osswald M, Doring T, Brimacombe R (1995). "The ribosomal neighbourhood of the central fold of tRNA: cross-links from position 47 of tRNA located at the A, P or E site." Nucleic Acids Res 23(22);4635-41. PMID: 8524654

Pichon77: Pichon JL, Coeroli C, Marchis-Mouren G (1977). "Studies on ribosomal protein biosynthesis in an RNA polymerase temperature sensitive E. coli mutant." Mol Gen Genet 150(3);257-64. PMID: 321934

Pongs73: Pongs O, Bald R, Erdmann VA (1973). "Identification of chloramphenicol-binding protein in Escherichia coli ribosomes by affinity labeling." Proc Natl Acad Sci U S A 70(8);2229-33. PMID: 4599619

Ramagopal84: Ramagopal S (1984). "Metabolic changes in ribosomes of Escherichia coli during prolonged culture in different media." Eur J Biochem 140(2);353-61. PMID: 6201363

Ramakrishnan02: Ramakrishnan V (2002). "Ribosome structure and the mechanism of translation." Cell 108(4);557-72. PMID: 11909526

RandolphAnderso89: Randolph-Anderson BL, Gillham NW, Boynton JE (1989). "Electrophoretic and immunological comparisons of chloroplast and prokaryotic ribosomal proteins reveal that certain families of large subunit proteins are evolutionarily conserved." J Mol Evol 29(1);68-88. PMID: 2504932

Redl89: Redl B, Walleczek J, Stoffler-Meilicke M, Stoffler G (1989). "Immunoblotting analysis of protein-protein crosslinks within the 50S ribosomal subunit of Escherichia coli. A study using dimethylsuberimidate as crosslinking reagent." Eur J Biochem 181(2);351-6. PMID: 2653827

Remme83: Remme J, Maimets T, Ustav M, Villems R (1983). "The interaction of ribosomal protein L16 and its fragments with tRNA." FEBS Lett 153(2);267-9. PMID: 6352325

Romero90: Romero DP, Arredondo JA, Traut RR (1990). "Identification of a region of Escherichia coli ribosomal protein L2 required for the assembly of L16 into the 50 S ribosomal subunit." J Biol Chem 265(30);18185-91. PMID: 2211695

Schulze82: Schulze H, Nierhaus KH (1982). "Minimal set of ribosomal components for reconstitution of the peptidyltransferase activity." EMBO J 1(5);609-13. PMID: 6765232

Schuwirth05: Schuwirth BS, Borovinskaya MA, Hau CW, Zhang W, Vila-Sanjurjo A, Holton JM, Cate JH (2005). "Structures of the bacterial ribosome at 3.5 A resolution." Science 310(5749);827-34. PMID: 16272117

Semrad04: Semrad K, Green R, Schroeder R (2004). "RNA chaperone activity of large ribosomal subunit proteins from Escherichia coli." RNA 10(12);1855-60. PMID: 15525706

Skold81: Skold SE (1981). "RNA-protein complexes identified by crosslinking of polysomes." Biochimie 63(1);53-60. PMID: 6163479

Soung09: Soung GY, Miller JL, Koc H, Koc EC (2009). "Comprehensive analysis of phosphorylated proteins of Escherichia coli ribosomes." J Proteome Res 8(7);3390-402. PMID: 19469554

Spierer79: Spierer P, Wang CC, Marsh TL, Zimmermann RA (1979). "Cooperative interactions among protein and RNA components of the 50S ribosomal subunit of Escherichia coli." Nucleic Acids Res 6(4);1669-82. PMID: 109811

Stoffler71: Stoffler G, Daya L, Rak KH, Garrett RA (1971). "Ribosomal proteins. XXVI. The number of specific protein binding sites on 16 s and 23 s RNA of Escherichia coli." J Mol Biol 62(2);411-4. PMID: 4944932

Sumpter90: Sumpter VG, Tate WP, Nierhaus KH (1990). "The complex between ribosomal proteins and aminoacyl-tRNA: the interactions and hydrolytic activities are not confined to the proteins L2 and L16 of Escherichia coli ribosomes." Biochim Biophys Acta 1048(2-3);265-9. PMID: 2182127

Sumpter91: Sumpter VG, Tate WP, Nowotny P, Nierhaus KH (1991). "Modification of histidine residues on proteins from the 50S subunit of the Escherichia coli ribosome. Effects on subunit assembly and peptidyl transferase centre activity." Eur J Biochem 196(2);255-60. PMID: 1706660

Tate83: Tate WP, Schulze H, Nierhaus KH (1983). "The importance of the Escherichia coli ribosomal protein L16 for the reconstitution of the peptidyl-tRNA hydrolysis activity of peptide chain termination." J Biol Chem 258(21);12810-5. PMID: 6355096

Tate87: Tate WP, Sumpter VG, Trotman CN, Herold M, Nierhaus KH (1987). "The peptidyltransferase centre of the Escherichia coli ribosome. The histidine of protein L16 affects the reconstitution and control of the active centre but is not essential for release-factor-mediated peptidyl-tRNA hydrolysis and peptide bond formation." Eur J Biochem 165(2);403-8. PMID: 3297687

Teraoka78: Teraoka H, Nierhaus KH (1978). "Protein L16 induces a conformational change when incorporated into a L16-deficient core derived from Escherichia coli ribosomes." FEBS Lett 88(2);223-6. PMID: 348495

UniProt10: UniProt Consortium (2010). "UniProt version 2010-11 released on 2010-11-02 00:00:00." Database.

UniProt11: UniProt Consortium (2011). "UniProt version 2011-11 released on 2011-11-22 00:00:00." Database.

UniProtGOA11: UniProt-GOA (2011). "Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries."

Vladimirov00: Vladimirov SN, Druzina Z, Wang R, Cooperman BS (2000). "Identification of 50S components neighboring 23S rRNA nucleotides A2448 and U2604 within the peptidyl transferase center of Escherichia coli ribosomes." Biochemistry 39(1);183-93. PMID: 10625493

Vladimirov90: Vladimirov SN, Babkina GT, Venijaminova AG, Gimautdinova OI, Zenkova MA, Karpova GG (1990). "Structural arrangement of the decoding site of Escherichia coli ribosomes as revealed from the data on affinity labelling of ribosomes by analogs of mRNA--derivatives of oligoribonucleotides." Biochim Biophys Acta 1048(2-3);245-56. PMID: 2182126

Walleczek89: Walleczek J, Redl B, Stoffler-Meilicke M, Stoffler G (1989). "Protein-protein cross-linking of the 50 S ribosomal subunit of Escherichia coli using 2-iminothiolane. Identification of cross-links by immunoblotting techniques." J Biol Chem 264(7);4231-7. PMID: 2645289

Walleczek89a: Walleczek J, Martin T, Redl B, Stoffler-Meilicke M, Stoffler G (1989). "Comparative cross-linking study on the 50S ribosomal subunit from Escherichia coli." Biochemistry 28(9);4099-105. PMID: 2665813

Wower89: Wower J, Hixson SS, Zimmermann RA (1989). "Labeling the peptidyltransferase center of the Escherichia coli ribosome with photoreactive tRNA(Phe) derivatives containing azidoadenosine at the 3' end of the acceptor arm: a model of the tRNA-ribosome complex." Proc Natl Acad Sci U S A 86(14);5232-6. PMID: 2664777

Yonath05: Yonath A (2005). "Antibiotics targeting ribosomes: resistance, selectivity, synergism and cellular regulation." Annu Rev Biochem 74;649-79. PMID: 16180279

Yusupov86: Yusupov MM, Spirin AS (1986). "Are there proteins between the ribosomal subunits? Hot tritium bombardment experiments." FEBS Lett 197(1-2);229-33. PMID: 3512304

Zhang09: Zhang W, Dunkle JA, Cate JH (2009). "Structures of the ribosome in intermediate states of ratcheting." Science 325(5943);1014-7. PMID: 19696352

Zurawski85: Zurawski G, Zurawski SM (1985). "Structure of the Escherichia coli S10 ribosomal protein operon." Nucleic Acids Res 1985;13(12);4521-6. PMID: 3892488

Other References Related to Gene Regulation

Cerretti83: Cerretti DP, Dean D, Davis GR, Bedwell DM, Nomura M (1983). "The spc ribosomal protein operon of Escherichia coli: sequence and cotranscription of the ribosomal protein genes and a protein export gene." Nucleic Acids Res 1983;11(9);2599-616. PMID: 6222285

Lemke11: Lemke JJ, Sanchez-Vazquez P, Burgos HL, Hedberg G, Ross W, Gourse RL (2011). "Direct regulation of Escherichia coli ribosomal protein promoters by the transcription factors ppGpp and DksA." Proc Natl Acad Sci U S A 108(14);5712-7. PMID: 21402902

Salmon03: Salmon K, Hung SP, Mekjian K, Baldi P, Hatfield GW, Gunsalus RP (2003). "Global gene expression profiling in Escherichia coli K12. The effects of oxygen availability and FNR." J Biol Chem 278(32);29837-55. PMID: 12754220

Salmon05: Salmon KA, Hung SP, Steffen NR, Krupp R, Baldi P, Hatfield GW, Gunsalus RP (2005). "Global gene expression profiling in Escherichia coli K12: effects of oxygen availability and ArcA." J Biol Chem 280(15);15084-96. PMID: 15699038

Sha95: Sha Y, Lindahl L, Zengel JM (1995). "Role of NusA in L4-mediated attenuation control of the S10 r-protein operon of Escherichia coli." J Mol Biol 245(5);474-85. PMID: 7844821


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Please cite the following article in publications resulting from the use of EcoCyc: Nucleic Acids Research 41:D605-12 2013
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