Protein environment of the sense codon of the template in the A site of the human ribosome as inferred from crosslinking to oligoribonucleotide derivatives

Molekulyarnaya Biologiya

Volumn 38, Issue 3, 2004, Pages 493-500

  Molotkov, M V ^a   Graifer, D M ^a   Meshchaninova, M I ^a   Repkova, M N ^a   Ven'yaminova, A G ^a   Karpova, G G ^a  

^a INSTITUTE OF CHEMICAL BIOLOGY AND FUNDAMENTAL MEDICINE   (Russian Federation)

Author keywords

[No Author keywords available]

Indexed keywords

AZIDE; MESSENGER RNA; OLIGORIBONUCLEOTIDE; PERFLUOROARYLAZIDO DERIVATIVE; PHENYLALANINE; RIBOSOME RNA; TRANSFER RNA; UNCLASSIFIED DRUG; RNA;

ARTICLE; CODON; CROSS LINKING; DNA MODIFICATION; DNA PROTEIN COMPLEX; GENE IDENTIFICATION; GENETIC ANALYSIS; HUMAN; IRRADIATION; NUCLEOTIDE SEQUENCE; PROTEIN TARGETING; RIBOSOME SUBUNIT; ULTRAVIOLET RADIATION; CHEMISTRY; DNA TEMPLATE; GENETICS; RIBOSOME; TWO DIMENSIONAL GEL ELECTROPHORESIS;

BACTERIA (MICROORGANISMS); EUKARYOTA;

CODON; ELECTROPHORESIS, GEL, TWO-DIMENSIONAL; HUMANS; OLIGORIBONUCLEOTIDES; RIBOSOMES; RNA; TEMPLATES, GENETIC;

EID: 6944225746     PISSN: 00268984     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (27)

1. Yusupova G.Zh., Yusupov M.M., Cate J.H.D., Noller H.F. 2001. The path of messenger RNA through the ribosome. Cell. 106, 233-241.
2. Ramakrishnan V. 2002. Ribosome structure and the mechanism of translation. Cell. 108, 557-572.
3. Ogle J.M., Carter A.P., Ramakrishnan V. 2003. Insights into the decoding mechanism from recent ribosome structures. Trends Biochem. Sci. 28, 259-66.
4. Demeshkina N., Laletina E., Meschaninova M., Ven'yaminova A., Graifer D., Karpova G. 2003. Positioning of mRNA codons with respect to 18S rRNA at the P and E sites of human ribosome. Biochim. Biophys. Acta. 1621, 39-46.
5. Wool I.G., Chan Y.-L., Glueck A. 1996. Mammalian ribosomes: the structure and the evolution of the proteins. In: Translational control. Eds Hershey J.W.B., Matthews M.B., Sonenberg N. N.Y.: Cold Spring Harbor Laboratory Press, pp. 685-732.
6. Otto G.A., Lukavsky P.J., Lancaster A.M., Sarnow P., Puglisi J.D. 2002. Ribosomal proteins mediate the hepatitis C virus IRES-HeLa 40S interaction. RNA. 8, 913-923.
7. Takahashi Y., Mitsuma T., Hirayama S., Odani S. 2002. Identification of the ribosomal proteins in the vicinity of globin mRNA in the 4OS initiation complex. J. Biochem. 132, 705-711.
8. Matasova N.B., Myltseva S.V., Zenkova M.A., Graifer D.M., Vladimirov S.N., Karpova G.G. 1991. Isolation of ribosomal subunits containing intact rRNA from human placenta. Estimation of functional activity of 80S ribosomes. Analyt. Biochem. 198, 219-223.
9. Bulygin K.N., Graifer D.M., Repkova M.N., Smolenskaya I.A., Veniyaminova A.G., Karpova G.G. 1997. Nucleotide G-1207 of 18S rRNA is an essential component of the human 80S ribosomal decoding center. RNA. 3, 1480-1485.
10. Bulygin, K.N., Repkova, M.N., Ven'yaminova, A.G., Graifer, D.M., Karpova, G.G., Frolova, L.Yu. and Kisselev, L.L. 2002. Positioning of the mRNA stop signal with respect to polypeptide chain release factors and ribosomal proteins in 80S ribosomes. FEBS Lett. 514, 96-101.
11. Madjar J.-J., Arpin M., Buisson M., Reboud J.-P. 1979. Spot position of rat liver ribosomal proteins by four different two-dimensional electrophoresis in polyacrylamide gel. Mol. Gen. Genet. 171, 121-134.
12. Vladimirov S.N., Babkina G.T., Venijaminova A.G., Gimautdinova O.I., Zenkova M.A., Karpova G.G. 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, 245-256.
13. Baranov P.V., Kubarenko A.V., Gurvich O.L., Shamolina T.A., Brimacombe R. 1999. The Database of ribosomal cross-links: an update. Nucleic Acids Res. 27, 184-185.
14. Wojtech E., Brimacombe R., Hackel A., Prochnow D., Fasold H. 1994. Cross-linking of nucleic acids to proteins. Modified poly(A) as mRNA for Escherichia coli ribosomes. Eur. J. Biochem. 223, 799-803.
15. Brodersen D.E., Clemons W.M.Jr., Carter A.P., Wimberly B.T., Ramakrishnan V. 2002. Crystal structure of the 30S ribosomal subunit from Thermus thermophilus: structure of the proteins and their interactions with 16S rRNA. J. Mol. Biol. 316, 725-768.
16. Collatz E., Ulbrich N., Tsurugi K., Lightfpot H.N., MacKinlay W., Lin A., Wool I. 1977. Isolation of eukaryotic ribosomal proteins. J. Biol. Chem. 252, 9071-9080.
17. Malygin A.A., Shaulo D.D., Karpova G.G. 2000. Proteins S7, S10, S16 and S19 of the human 40S ribosomal subunit are most resistant to dissociation by salt. Biochim. Biophys. Acta. 1494, 213-216.
18. Vladimirov S.N., Ivanov A.V., Karpova G.G., Musolyamov A.Kh., Egorov TsA., Thiede B., Wittman-Liebold B., Otto A. 1996. Characterization of the human small ribosomal subunit proteins by N-terminal and internal sequencing and mass spectrometry. Eur. J. Biochem. 239, 144-149.