Modeling and structure function analysis of the putative anchor site of yeast telomerase

Nucleic Acids Research

Volumn 35, Issue 15, 2007, Pages 5213-5222

  Lue, Neal F ^a   Li, Zhaohui ^a  

^a WEILL CORNELL MEDICAL COLLEGE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

TELOMERASE; TELOMERASE REVERSE TRANSCRIPTASE;

AMINO ACID SEQUENCE; ARTICLE; CONTROLLED STUDY; GENETIC CONSERVATION; IN VITRO STUDY; IN VIVO STUDY; MOLECULAR EVOLUTION; MOLECULAR MODEL; MUTAGENESIS; NONHUMAN; POINT MUTATION; PRIORITY JOURNAL; PROTEIN FUNCTION; PROTEIN INTERACTION; PROTEIN PROCESSING; PROTEIN STRUCTURE; SEQUENCE HOMOLOGY; YEAST;

ANIMALS; ELECTROSTATICS; MODELS, MOLECULAR; MUTAGENESIS, SITE-DIRECTED; PROTEIN STRUCTURE, TERTIARY; RNA; SACCHAROMYCES CEREVISIAE PROTEINS; STRUCTURAL HOMOLOGY, PROTEIN; STRUCTURE-ACTIVITY RELATIONSHIP; TELOMERASE; TELOMERE; TETRAHYMENA;

TETRAHYMENA;

EID: 34548570173     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkm531     Document Type: Article

References (41)

1. Autexier,C. and Lue,N.F. (2006) The structure and function of telomerase reverse transcriptase. Annu. Rev. Biochem., 75, 493-517.
2. Cech,T. (2004) Beginning to understand the end of the chromosome. Cell, 116, 273-279.
3. Collins,K. (2006) The biogenesis and regulation of telomerase holoenzymes. Nat. Rev. Mol. Cell Biol., 7, 484-494.
4. Blackburn,E.H. (2005) Telomeres and telomerase: Their mechanisms of action and the effects of altering their functions. FEBS Lett., 579, 859-862.
5. Theimer,C.A. and Feigon,J. (2006) Structure and function of telomerase RNA. Curr. Opin. Struct. Biol., 16, 307-318.
6. Greider,C. (1991) Telomerase is processive. Mol. Cell. Biol., 11, 4572-4580.
7. Lue,N. (2004) Adding to the ends: What makes telomerase processive and how important is it? Bioessays, 26, 955-962.
8. Teixeira,M., Arneric,M., Sperisen,P. and Lingner,J. (2004) Telomere length homeostasis is achieved via a switch between telomerase-extendible and -nonextendible States. Cell, 117, 323-335.
9. Marcand,S., Brevet,V., Mann,C. and Gilson,E. (2000) Cell cycle restriction of telomere elongation. Curr. Biol., 10, 487-490.
10. Collins,K. (1999) Ciliate telomerase biochemistry. Annu. Rev. Biochem., 68, 187-218.
11. Lee,M. and Blackburn,E.H. (1993) Sequence-specific DNA primer effects on telomerase polymerization activity. Mol. Cell. Biol., 13, 6586-6599.
12. Collins,K. and Greider,C.W. (1993) Tetrahymena telomerase catalyzes nucleolytic cleavage and nonprocessive elongation. Genes Dev., 7, 1364-1376.
13. Harrington,L.A. and Greider,C.W. (1991) Telomerase primer specificity and chromosome healing. Nature, 353, 451-454.
14. Beattie,T.L., Zhou,W., Robinson,M.O. and Harrington,L. (2000) Polymerization defects within human telomerase are distinct from telomerase RNA and TEP1 binding. Mol. Biol. Cell, 11, 3329-3340.
15. Lue,N. (2005) A physical and functional constituent of telomerase anchor site. J. Biol. Chem., 280, 26586-26591.
16. Moriarty,T.J., Ward,R.J., Taboski,M.A. and Autexier,C. (2005) An anchor site-type defect in human telomerase that disrupts telomere length maintenance and cellular immortalization. Mol. Biol. Cell, 16 3152-3161.
17. Jacobs,S.A., Podell,E.R. and Cech,T.R. (2006) Crystal structure of the essential N-terminal domain of telomerase reverse transcriptase. Nat. Struct. Mol. Biol., 13, 218-225.
18. Xia,J., Peng,Y., Mian,I.S. and Lue,N.F. (2000) Identification of functionally important domains in the N-terminal region of telomerase reverse transcriptase. Mol. Cell. Biol., 20, 5196-5207.
19. Ji,H., Platts,M.H., Dharamsi,L.M. and Friedman,K.L. (2005) Regulation of telomere length by an N-terminal region of the yeast telomerase reverse transcriptase. Mol. Cell. Biol., 25, 9103-9114.
20. Altschul,S.F., Madden,T.L., Schaffer,A.A., Zhang,J., Zhang,Z., Miller,W. and Lipman,D.J. (1997) Gapped BLAST and PSI-BLAST: A new generation of protein database search programs. Nucleic Acids Res., 25, 3389-3402.
21. Thompson,J.D., Higgins,D.G. and Gibson,T.J. (1994) CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res., 22, 4673-4680.
22. Sippl,M.J. (1993) Recognition of errors in three-dimensional structures of proteins. Proteins, 17, 355-362.
23. Luthy,R., Bowie,J.U. and Eisenberg,D. (1992) Assessment of protein models with three-dimensional profiles. Nature, 356, 83-85.
24. Bowie,J.U., Luthy,R. and Eisenberg,D. (1991) A method to identify protein sequences that fold into a known three-dimensional structure. Science, 253, 164-170.
25. Honig,B. and Nicholls,A. (1995) Classical electrostatics in biology and chemistry. Science, 268, 1144-1149.
26. Nicholls,A., Sharp,K.A. and Honig,B. (1991) Protein folding and association: Insights from the interfacial and thermodynamic properties of hydrocarbons. Proteins, 11, 281-296.
27. Lue,N., Lin,Y. and Mian,I. (2003) A conserved telomerase motif within the catalytic domain of telomerase reverse transcriptase is specifically required for repeat addition processivity. Mol. Cell. Biol., 23 8440-8449.
28. Venclovas,C. (2001) Comparative modeling of CASP4 target proteins: combining results of sequence search with three-dimensional structure assessment. Proteins, (Suppl. 5), 47-54.
29. Liu,G., Li,Z., Chiang,Y., Acton,T., Montelione,G.T., Murray,D. and Szyperski,T. (2005) High-quality homology models derived from NMR and X-ray structures of E. coli proteins YgdK and Suf E suggest that all members of the YgdK/Suf E protein family are enhancers of cysteine desulfurases. Protein Sci., 14, 1597-1608.
30. Herve du Penhoat,C., Atreya,H.S., Shen,Y., Liu,G., Acton,T.B., Xiao,R., Li,Z., Murray,D., Montelione,G.T. et al. (2004) The NMR solution structure of the 30S ribosomal protein S27e encoded in gene RS27_ARCFU of Archaeoglobus fulgidis reveals a novel protein fold. Protein Sci. 13, 1407-1416.
31. Petrey,D., Xiang,Z., Tang,C.L., Xie,L., Gimpelev,M., Mitros,T., Soto,C.S., Goldsmith-Fischman,S., Kernytsky,A. et al. (2003) Using multiple structure alignments, fast model building, and energetic analysis in fold recognition and homology modeling. Proteins, 53(Suppl. 6), 430-435.
32. Wallner,B. and Elofsson,A. (2005) All are not equal: A benchmark of different homology modeling programs. Protein Sci., 14, 1315-1327.
33. Bosoy,D. and Lue,N. (2004) Yeast telomerase is capable of limited repeat addition processivity. Nucleic Acids Res., 32, 93-101.
34. Moriarty,T., Marie-Egyptienne,D. and Autexier,C. (2004) Functional organization of repeat addition processivity and DNA synthesis determinants in the human telomerase multimer. Mol. Cell. Biol., 24, 3720-3733.
35. Lai,C., Miller,M. and Collins,K. (2002) Template boundary definition in Tetrahymena telomerase. Genes Dev., 16, 415-420.
36. Lai,C.K., Mitchell,J.R. and Collins,K. (2001) RNA binding domain of telomerase reverse transcriptase. Mol. Cell. Biol., 21, 990-1000.
37. Collins,K. and Gandhi,L. (1998) The reverse transcriptase component of the Tetrahymena telomerase ribonucleoprotein complex. Proc. Natl Acad. Sci. USA, 95, 8485-8490.
38. Hardy,C., Schultz,C. and Collins,K. (2001) Requirements for the dGTP-dependent repeat addition processivity of recombinant Tetrahymena telomerase. J. Biol. Chem., 276, 4863-4871.
39. Bryan,T.M., Goodrich,K.J. and Cech,T.R. (2000) A mutant of tetrahymena telomerase reverse transcriptase with increased processivity. J. Biol. Chem., 275, 24199-24207.
40. Cunningham,D.D. and Collins,K. (2005) Biological and biochemical functions of RNA in the tetrahymena telomerase holoenzyme. Mol. Cel. Biol., 25, 4442-4454.
41. Peng,Y., Mian,I.S. and Lue,N.F. (2001) Analysis of telomerase processivity: Mechanistic similarity to HIV-1 reverse transcriptase and role in telomere maintenance. Mol. Cell, 7, 1201-1211.