-
1
-
-
0020998657
-
The elongation factor EF-Tu and its two encoding genes
-
Bosch L., Kraal B., Van der Meide P.H., Duisterwinkel F.J., and Van Noort J.M. The elongation factor EF-Tu and its two encoding genes. Prog. Nucleic Acid Res. Mol. Biol. 30 (1983) 91-9126
-
(1983)
Prog. Nucleic Acid Res. Mol. Biol.
, vol.30
, pp. 91-9126
-
-
Bosch, L.1
Kraal, B.2
Van der Meide, P.H.3
Duisterwinkel, F.J.4
Van Noort, J.M.5
-
2
-
-
1842743704
-
Atypical archaeal tRNA pyrrolysine transcript behaves towards EF-Tu as a typical elongator tRNA
-
Theobald-Dietrich A., Frugier M., Giege R., and Rudinger-Thirion J. Atypical archaeal tRNA pyrrolysine transcript behaves towards EF-Tu as a typical elongator tRNA. Nucleic Acids Res. 32 (2004) 1091-1096
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 1091-1096
-
-
Theobald-Dietrich, A.1
Frugier, M.2
Giege, R.3
Rudinger-Thirion, J.4
-
3
-
-
0028812785
-
Phe, EF-Tu, and a GTP analog
-
Phe, EF-Tu, and a GTP analog. Science 270 (1995) 1464-1472
-
(1995)
Science
, vol.270
, pp. 1464-1472
-
-
Nissen, P.1
Kjeldgaard, M.2
Thirup, S.3
Polekhina, G.4
Reshetnikova, L.5
Clark, B.F.C.6
Nyborg, J.7
-
4
-
-
0033081413
-
Cys-EF-Tu-GDPNP reveals general and specific features in the ternary complex in the tRNA
-
Cys-EF-Tu-GDPNP reveals general and specific features in the ternary complex in the tRNA. Structure 7 (1999) 143-156
-
(1999)
Structure
, vol.7
, pp. 143-156
-
-
Nissen, P.1
Thirup, S.2
Kjeldgaard, M.3
Nyborg, J.4
-
5
-
-
0019162933
-
Unusual modification patterns in the transfer ribonucleic acids of archaebacteria
-
Gupta R., and Woese C.R. Unusual modification patterns in the transfer ribonucleic acids of archaebacteria. Curr. Microbiol. 4 (1980) 245-249
-
(1980)
Curr. Microbiol.
, vol.4
, pp. 245-249
-
-
Gupta, R.1
Woese, C.R.2
-
6
-
-
0024358140
-
Evolutionary relationship of archaebacteria, eubacteria, and eukaryotes inferred from phylogenetic trees of duplicated genes
-
Iwabe N., Kuma K., Hasegawa M., Osawa S., and Miyata T. Evolutionary relationship of archaebacteria, eubacteria, and eukaryotes inferred from phylogenetic trees of duplicated genes. Proc. Natl Acad. Sci. USA 86 (1989) 9355-9359
-
(1989)
Proc. Natl Acad. Sci. USA
, vol.86
, pp. 9355-9359
-
-
Iwabe, N.1
Kuma, K.2
Hasegawa, M.3
Osawa, S.4
Miyata, T.5
-
7
-
-
34548690780
-
Indirect readout of tRNA for aminoacylation
-
Perona J., and Hou Y. Indirect readout of tRNA for aminoacylation. Biochemistry 46 (2007) 10419-10432
-
(2007)
Biochemistry
, vol.46
, pp. 10419-10432
-
-
Perona, J.1
Hou, Y.2
-
8
-
-
0035812828
-
Uniform binding of aminoacyl-tRNAs to elongation factor Tu by thermodynamic compensation
-
LaRiviere F.J., Wolfson A.D., and Uhlenbeck O.C. Uniform binding of aminoacyl-tRNAs to elongation factor Tu by thermodynamic compensation. Science 294 (2001) 165-168
-
(2001)
Science
, vol.294
, pp. 165-168
-
-
LaRiviere, F.J.1
Wolfson, A.D.2
Uhlenbeck, O.C.3
-
9
-
-
2442697841
-
The affinity of elongation factor Tu for an aminoacyl-tRNA is modulated by the esterified amino acid
-
Dale T., Sanderson L.E., and Uhlenbeck O.C. The affinity of elongation factor Tu for an aminoacyl-tRNA is modulated by the esterified amino acid. Biochemistry 43 (2004) 6159-6166
-
(2004)
Biochemistry
, vol.43
, pp. 6159-6166
-
-
Dale, T.1
Sanderson, L.E.2
Uhlenbeck, O.C.3
-
10
-
-
34248993209
-
The 51-63 base pair of tRNA confers specificity for binding by EF-Tu
-
Sanderson L.E., and Uhlenbeck O.C. The 51-63 base pair of tRNA confers specificity for binding by EF-Tu. RNA 13 (2007) 835-840
-
(2007)
RNA
, vol.13
, pp. 835-840
-
-
Sanderson, L.E.1
Uhlenbeck, O.C.2
-
11
-
-
32644447756
-
Post-transcriptional nucleotide modification and alternative folding of RNA
-
Helm M. Post-transcriptional nucleotide modification and alternative folding of RNA. Nucleic Acids Res. 34 (2006) 721-733
-
(2006)
Nucleic Acids Res.
, vol.34
, pp. 721-733
-
-
Helm, M.1
-
12
-
-
0019250651
-
4-Thiouridine triggers both growth delay induced by near-ultraviolet light and photoprotection
-
Thomas G., and Favre A. 4-Thiouridine triggers both growth delay induced by near-ultraviolet light and photoprotection. Eur. J. Biochem. 113 (1980) 67-74
-
(1980)
Eur. J. Biochem.
, vol.113
, pp. 67-74
-
-
Thomas, G.1
Favre, A.2
-
14
-
-
0031566427
-
RNA hydration: three nanoseconds of multiple molecular dynamics simulations of the solvated tRNA(Asp) anticodon hairpin
-
Auffinger P., and Westhof E. RNA hydration: three nanoseconds of multiple molecular dynamics simulations of the solvated tRNA(Asp) anticodon hairpin. J. Mol. Biol. 269 (1997) 326-341
-
(1997)
J. Mol. Biol.
, vol.269
, pp. 326-341
-
-
Auffinger, P.1
Westhof, E.2
-
15
-
-
0033935223
-
Pseudouridine in RNA: what, where, how, and why
-
Charette M., and Gray M.W. Pseudouridine in RNA: what, where, how, and why. IUBMB Life 49 (2000) 341-351
-
(2000)
IUBMB Life
, vol.49
, pp. 341-351
-
-
Charette, M.1
Gray, M.W.2
-
16
-
-
0029566314
-
Stabilization of RNA stacking by pseudouridine
-
Davis D.R. Stabilization of RNA stacking by pseudouridine. Nucleic Acids Res. 23 (1995) 5020-5026
-
(1995)
Nucleic Acids Res.
, vol.23
, pp. 5020-5026
-
-
Davis, D.R.1
-
17
-
-
0036303671
-
Solution conformations of unmodified and A(37)N(6)-dimethylallyl modified anticodon stem-loops of Escherichia coli tRNA(Phe)
-
Cabello-Villegas J., Winkler M.E., and Nikonowicz E.P. Solution conformations of unmodified and A(37)N(6)-dimethylallyl modified anticodon stem-loops of Escherichia coli tRNA(Phe). J. Mol. Biol. 319 (2002) 1015-1034
-
(2002)
J. Mol. Biol.
, vol.319
, pp. 1015-1034
-
-
Cabello-Villegas, J.1
Winkler, M.E.2
Nikonowicz, E.P.3
-
18
-
-
0035917812
-
Expanding the genetic code of Escherichia coli
-
Wang L., Brock A., Herberich B., and Schultz P.G. Expanding the genetic code of Escherichia coli. Science 292 (2001) 498-500
-
(2001)
Science
, vol.292
, pp. 498-500
-
-
Wang, L.1
Brock, A.2
Herberich, B.3
Schultz, P.G.4
-
19
-
-
0027976415
-
Discrimination against misacylated tRNA by chloroplast elongation factor Tu
-
Stanzel M., Schon A., and Sprinzl M. Discrimination against misacylated tRNA by chloroplast elongation factor Tu. Eur. J. Biochem. 219 (1994) 435-439
-
(1994)
Eur. J. Biochem.
, vol.219
, pp. 435-439
-
-
Stanzel, M.1
Schon, A.2
Sprinzl, M.3
-
20
-
-
0032573150
-
Thermus thermophilus: a link in evolution of the tRNA-dependent amino acid amidation pathways
-
Becker H.D., and Kern D. Thermus thermophilus: a link in evolution of the tRNA-dependent amino acid amidation pathways. Proc. Natl Acad. Sci. USA 95 (1998) 12832-12837
-
(1998)
Proc. Natl Acad. Sci. USA
, vol.95
, pp. 12832-12837
-
-
Becker, H.D.1
Kern, D.2
-
21
-
-
34250843749
-
Structural elements defining elongation factor Tu mediated suppression of codon ambiguity
-
Roy H., Becker H.D., Mazauric M.-H., and Kern D. Structural elements defining elongation factor Tu mediated suppression of codon ambiguity. Nucleic Acids Res. 35 (2007) 3420-3430
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. 3420-3430
-
-
Roy, H.1
Becker, H.D.2
Mazauric, M.-H.3
Kern, D.4
-
22
-
-
0040559883
-
Quality control mechanisms during translation
-
Ibba M., and Söll D. Quality control mechanisms during translation. Science 286 (1999) 1893-1897
-
(1999)
Science
, vol.286
, pp. 1893-1897
-
-
Ibba, M.1
Söll, D.2
-
23
-
-
20144380970
-
RNA-dependent cysteine biosynthesis in archaea
-
Sauerwald A., Zhu W., Major T.A., Roy H., Palioura S., Jahn D., et al. RNA-dependent cysteine biosynthesis in archaea. Science 307 (2005) 1969-1972
-
(2005)
Science
, vol.307
, pp. 1969-1972
-
-
Sauerwald, A.1
Zhu, W.2
Major, T.A.3
Roy, H.4
Palioura, S.5
Jahn, D.6
-
25
-
-
0030711616
-
Molecular switch in signal transduction: reaction paths of the conformational changes in ras p21
-
Ma J., and Karplus M. Molecular switch in signal transduction: reaction paths of the conformational changes in ras p21. Proc. Natl Acad. Sci. USA 94 (1997) 11905-11910
-
(1997)
Proc. Natl Acad. Sci. USA
, vol.94
, pp. 11905-11910
-
-
Ma, J.1
Karplus, M.2
-
27
-
-
0022086231
-
Molecular-dynamics simulation of phenylalanine transfer RNA. II. Amplitudes, anisotropies, and anharmonicities of atomic motions
-
Prabhakaran M., Harvey S.C., and McCammon J.A. Molecular-dynamics simulation of phenylalanine transfer RNA. II. Amplitudes, anisotropies, and anharmonicities of atomic motions. Biopolymers 24 (1985) 1189-1204
-
(1985)
Biopolymers
, vol.24
, pp. 1189-1204
-
-
Prabhakaran, M.1
Harvey, S.C.2
McCammon, J.A.3
-
28
-
-
33747881376
-
Molecular dynamics simulations of RNA systems
-
Hartmann R.K., Bindereif A., Schön A., and Westhof E. (Eds), Wiley-VCH Verlag, Weinheim, Germany chapt. 34
-
Auffinger P., and Vaiana A. Molecular dynamics simulations of RNA systems. In: Hartmann R.K., Bindereif A., Schön A., and Westhof E. (Eds). Handbook of RNA Biochemistry (2005), Wiley-VCH Verlag, Weinheim, Germany 560-576 chapt. 34
-
(2005)
Handbook of RNA Biochemistry
, pp. 560-576
-
-
Auffinger, P.1
Vaiana, A.2
-
29
-
-
0036280718
-
Molecular dynamics applied to nucleic acids
-
Norberg J., and Nilsson L. Molecular dynamics applied to nucleic acids. Acc. Chem. Res. 35 (2002) 465-472
-
(2002)
Acc. Chem. Res.
, vol.35
, pp. 465-472
-
-
Norberg, J.1
Nilsson, L.2
-
31
-
-
0032907143
-
Molecular dynamics simulations of solvated yeast tRNA(Asp)
-
Auffinger P., Louise-May S., and Westhof E. Molecular dynamics simulations of solvated yeast tRNA(Asp). Biophys. J. 76 (1999) 50-64
-
(1999)
Biophys. J.
, vol.76
, pp. 50-64
-
-
Auffinger, P.1
Louise-May, S.2
Westhof, E.3
-
32
-
-
1242274330
-
A guide to ions and RNA structure
-
Draper D.E. A guide to ions and RNA structure. RNA 10 (2004) 335-343
-
(2004)
RNA
, vol.10
, pp. 335-343
-
-
Draper, D.E.1
-
33
-
-
0032532765
-
Exploration of metal ion binding sites in RNA folds by Brownian-dynamics simulations
-
Hermann T., and Westhof E. Exploration of metal ion binding sites in RNA folds by Brownian-dynamics simulations. Structure 6 (1998) 1303-1314
-
(1998)
Structure
, vol.6
, pp. 1303-1314
-
-
Hermann, T.1
Westhof, E.2
-
34
-
-
0031008575
-
On the calculation of binding free energies using continuum methods: application to MHC class I protein-peptide interactions
-
Froloff N., Windemuth A., and Honig B. On the calculation of binding free energies using continuum methods: application to MHC class I protein-peptide interactions. Protein Sci. 6 (1997) 1293-1301
-
(1997)
Protein Sci.
, vol.6
, pp. 1293-1301
-
-
Froloff, N.1
Windemuth, A.2
Honig, B.3
-
35
-
-
0034521981
-
Calculating structures and free energies of complex molecules: combining molecular mechanics and continuum models
-
Kollman P.A., Massova I., Reyes C., Kuhn B., Huo S., Chong L., et al. Calculating structures and free energies of complex molecules: combining molecular mechanics and continuum models. Acc. Chem. Res. 33 (2000) 889-897
-
(2000)
Acc. Chem. Res.
, vol.33
, pp. 889-897
-
-
Kollman, P.A.1
Massova, I.2
Reyes, C.3
Kuhn, B.4
Huo, S.5
Chong, L.6
-
36
-
-
0035913537
-
Extending the applicability of the nonlinear Poisson-Boltzmann equation: multiple dielectric constants and multivalent ions
-
Rocchia W., Alexov E., and Honig B. Extending the applicability of the nonlinear Poisson-Boltzmann equation: multiple dielectric constants and multivalent ions. J. Phys. Chem. B 105 (2001) 6507-6514
-
(2001)
J. Phys. Chem. B
, vol.105
, pp. 6507-6514
-
-
Rocchia, W.1
Alexov, E.2
Honig, B.3
-
38
-
-
0034646574
-
Structure and thermodynamics of RNA-protein binding: using molecular dynamics and free energy analyses to calculate the free energies of binding and conformational change
-
Reyes C.M., and Kollman P.A. Structure and thermodynamics of RNA-protein binding: using molecular dynamics and free energy analyses to calculate the free energies of binding and conformational change. J. Mol. Biol. 297 (2000) 1145-1158
-
(2000)
J. Mol. Biol.
, vol.297
, pp. 1145-1158
-
-
Reyes, C.M.1
Kollman, P.A.2
-
39
-
-
0043245780
-
Insights into protein-protein binding by binding free energy calculation and free energy decomposition for the Ras-Raf and Ras-RalGDS complexes
-
Gohlke H., Kiel C., and Case D.A. Insights into protein-protein binding by binding free energy calculation and free energy decomposition for the Ras-Raf and Ras-RalGDS complexes. J. Mol. Biol. 330 (2003) 891-913
-
(2003)
J. Mol. Biol.
, vol.330
, pp. 891-913
-
-
Gohlke, H.1
Kiel, C.2
Case, D.A.3
-
40
-
-
33749442647
-
MultiSeq: unifying sequence and structure data for evolutionary analysis
-
Roberts E., Eargle J., Wright D., and Luthey-Schulten Z. MultiSeq: unifying sequence and structure data for evolutionary analysis. BMC Bioinf. 7 (2006) 382
-
(2006)
BMC Bioinf.
, vol.7
, pp. 382
-
-
Roberts, E.1
Eargle, J.2
Wright, D.3
Luthey-Schulten, Z.4
-
42
-
-
13844284979
-
Evolutionary profiles from the QR factorization of multiple sequence alignments
-
Sethi A., O'Donoghue P., and Luthey-Schulten Z. Evolutionary profiles from the QR factorization of multiple sequence alignments. Proc. Natl Acad. Sci. USA 102 (2005) 4045-4050
-
(2005)
Proc. Natl Acad. Sci. USA
, vol.102
, pp. 4045-4050
-
-
Sethi, A.1
O'Donoghue, P.2
Luthey-Schulten, Z.3
-
44
-
-
0031804156
-
Compilation of tRNA sequences and sequences of tRNA genes
-
Sprinzl M., Horn C., Brown M., Ioudovitch A., and Steinberg S. Compilation of tRNA sequences and sequences of tRNA genes. Nucleic Acids Res. 26 (1998) 148-153
-
(1998)
Nucleic Acids Res.
, vol.26
, pp. 148-153
-
-
Sprinzl, M.1
Horn, C.2
Brown, M.3
Ioudovitch, A.4
Steinberg, S.5
-
45
-
-
0021153752
-
Halobacterium volcanii tRNAs. Identification of 41 tRNAs covering all amino acids, and the sequences of 33 class I tRNAs
-
Gupta R. Halobacterium volcanii tRNAs. Identification of 41 tRNAs covering all amino acids, and the sequences of 33 class I tRNAs. J. Biol. Chem. 259 (1984) 9461-9471
-
(1984)
J. Biol. Chem.
, vol.259
, pp. 9461-9471
-
-
Gupta, R.1
-
46
-
-
0027291262
-
Recognition of tRNA(Cys) by Escherichia coli cysteinyl-tRNA synthetase
-
Komatsoulis G.A., and Abelson J. Recognition of tRNA(Cys) by Escherichia coli cysteinyl-tRNA synthetase. Biochemistry 32 (1993) 7435-7444
-
(1993)
Biochemistry
, vol.32
, pp. 7435-7444
-
-
Komatsoulis, G.A.1
Abelson, J.2
-
47
-
-
0037133662
-
The tRNA specificity of Thermus thermophilus EF-Tu
-
Asahara H., and Uhlenbeck O.C. The tRNA specificity of Thermus thermophilus EF-Tu. Proc. Natl Acad. Sci. USA 99 (2002) 3499-3504
-
(2002)
Proc. Natl Acad. Sci. USA
, vol.99
, pp. 3499-3504
-
-
Asahara, H.1
Uhlenbeck, O.C.2
-
48
-
-
4344685227
-
Global ribosome motions revealed with elastic network model
-
Wang Y., Rader A.J., Bahar I., and Jernigan R.L. Global ribosome motions revealed with elastic network model. J. Struct. Biol. 147 (2004) 302-314
-
(2004)
J. Struct. Biol.
, vol.147
, pp. 302-314
-
-
Wang, Y.1
Rader, A.J.2
Bahar, I.3
Jernigan, R.L.4
-
49
-
-
34249870122
-
Mechanism for expanding the decoding capacity of transfer RNAs by modification of uridines
-
Weixlbaumer A., Murphy IV F.V., Dziergowska A., Malkiewicz A., Vendeix F.A.P., Agris P.F., and Ramakrishnan V. Mechanism for expanding the decoding capacity of transfer RNAs by modification of uridines. Nat. Struct. Mol. Biol. 14 (2007) 498-502
-
(2007)
Nat. Struct. Mol. Biol.
, vol.14
, pp. 498-502
-
-
Weixlbaumer, A.1
Murphy IV, F.V.2
Dziergowska, A.3
Malkiewicz, A.4
Vendeix, F.A.P.5
Agris, P.F.6
Ramakrishnan, V.7
-
50
-
-
0034637161
-
The structural basis of ribosome activity in peptide bond synthesis
-
Nissen P., Hansen J., Ban N., Moore P.B., and Steitz T.A. The structural basis of ribosome activity in peptide bond synthesis. Science 289 (2000) 920-930
-
(2000)
Science
, vol.289
, pp. 920-930
-
-
Nissen, P.1
Hansen, J.2
Ban, N.3
Moore, P.B.4
Steitz, T.A.5
-
51
-
-
67049156092
-
Ionic solvation in aqueous and nonaqueous solutions
-
Ohtaki H. Ionic solvation in aqueous and nonaqueous solutions. Monatsh. Chem. 132 (2001) 1237-1268
-
(2001)
Monatsh. Chem.
, vol.132
, pp. 1237-1268
-
-
Ohtaki, H.1
-
52
-
-
0032707625
-
Calculating the electrostatic properties of RNA provides new insights into molecular interactions and function
-
Chin K., Sharp K.A., Honig B., and Pyle A.M. Calculating the electrostatic properties of RNA provides new insights into molecular interactions and function. Nat. Struct. Biol. 6 (1999) 1055-1061
-
(1999)
Nat. Struct. Biol.
, vol.6
, pp. 1055-1061
-
-
Chin, K.1
Sharp, K.A.2
Honig, B.3
Pyle, A.M.4
-
54
-
-
0001351515
-
Estimation of absolute and relative entropies of macromolecules using the covariance matrix
-
Schlitter J. Estimation of absolute and relative entropies of macromolecules using the covariance matrix. Chem. Phys. Lett. 215 (1993) 617-621
-
(1993)
Chem. Phys. Lett.
, vol.215
, pp. 617-621
-
-
Schlitter, J.1
-
55
-
-
0017393059
-
Ternary complex formation between elongation factor Tu, GTP and aminoacyl-tRNA: an equilibrium study
-
Pingoud A., Urbanke C., Krauss G., Peters F., and Maass G. Ternary complex formation between elongation factor Tu, GTP and aminoacyl-tRNA: an equilibrium study. Eur. J. Biochem. 78 (1977) 403-409
-
(1977)
Eur. J. Biochem.
, vol.78
, pp. 403-409
-
-
Pingoud, A.1
Urbanke, C.2
Krauss, G.3
Peters, F.4
Maass, G.5
-
56
-
-
3242876311
-
BLAST: at the core of a powerful and diverse set of sequence analysis tools
-
McGinnis S., and Madden T.L. BLAST: at the core of a powerful and diverse set of sequence analysis tools. Nucleic Acids Res. 32 (2004) W20-W25
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
McGinnis, S.1
Madden, T.L.2
-
57
-
-
0037255072
-
The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003
-
Boeckmann B., Bairoch A., Apweiler R., Blatter M.-C., Estreicher A., Gasteiger E., et al. The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003. Nucleic Acids Res. 31 (2003) 365-370
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 365-370
-
-
Boeckmann, B.1
Bairoch, A.2
Apweiler, R.3
Blatter, M.-C.4
Estreicher, A.5
Gasteiger, E.6
-
58
-
-
0033957466
-
Database resources of the National Center for Biotechnology Information
-
Wheeler D.L., Chappey C., Lash A.E., Leipe D.D., Madden T.L., Schuler G.D., et al. Database resources of the National Center for Biotechnology Information. Nucleic Acids Res. 28 (2000) 10-14
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 10-14
-
-
Wheeler, D.L.1
Chappey, C.2
Lash, A.E.3
Leipe, D.D.4
Madden, T.L.5
Schuler, G.D.6
-
59
-
-
0033954256
-
The Protein Data Bank
-
Berman H.M., Westbrook J., Feng Z., Gilliland G., Bhat T.N., Weissig H., et al. The Protein Data Bank. Nucleic Acids Res. 28 (2000) 235-242
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 235-242
-
-
Berman, H.M.1
Westbrook, J.2
Feng, Z.3
Gilliland, G.4
Bhat, T.N.5
Weissig, H.6
-
60
-
-
0027968068
-
CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
-
Thompson J.D., Higgins D.G., and Gibson T.J. 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 (1994) 4673-4680
-
(1994)
Nucleic Acids Res.
, vol.22
, pp. 4673-4680
-
-
Thompson, J.D.1
Higgins, D.G.2
Gibson, T.J.3
-
61
-
-
13844266306
-
Evolutionary profiles derived from the QR factorization of multiple structural alignments gives an economy of information
-
O'Donoghue P., and Luthey-Schulten Z. Evolutionary profiles derived from the QR factorization of multiple structural alignments gives an economy of information. J. Mol. Biol. 346 (2005) 875-894
-
(2005)
J. Mol. Biol.
, vol.346
, pp. 875-894
-
-
O'Donoghue, P.1
Luthey-Schulten, Z.2
-
62
-
-
33644873697
-
The Integrated Microbial Genomes (IMG) database
-
Markowitz V.M., Korzeniewski F., Palaniappan K., Szeto E., Werner G., Padki A., et al. The Integrated Microbial Genomes (IMG) database. Nucleic Acids Res. 34 (2006) D344-D348
-
(2006)
Nucleic Acids Res.
, vol.34
-
-
Markowitz, V.M.1
Korzeniewski, F.2
Palaniappan, K.3
Szeto, E.4
Werner, G.5
Padki, A.6
-
63
-
-
0030854739
-
tRNAscan-SE: A program for improved detection of transfer RNA genes in genomic sequence
-
Lowe T.M., and Eddy S.R. tRNAscan-SE: A program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res. 25 (1997) 955-964
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 955-964
-
-
Lowe, T.M.1
Eddy, S.R.2
-
65
-
-
0348244547
-
All-atom empirical force field for nucleic acids: I. Parameter optimization based on small molecule and condensed phase macromolecular target data
-
Foloppe N., and MacKerrell Jr. A.D. All-atom empirical force field for nucleic acids: I. Parameter optimization based on small molecule and condensed phase macromolecular target data. J. Comput. Chem. 21 (2000) 86-104
-
(2000)
J. Comput. Chem.
, vol.21
, pp. 86-104
-
-
Foloppe, N.1
MacKerrell Jr., A.D.2
-
66
-
-
33846823909
-
Particle mesh Ewald: An N·log(N) method for Ewald sums in large systems
-
Darden T., York D., and Pedersen L. Particle mesh Ewald: An N·log(N) method for Ewald sums in large systems. J. Chem. Phys. 89 (1993) 10089-10092
-
(1993)
J. Chem. Phys.
, vol.89
, pp. 10089-10092
-
-
Darden, T.1
York, D.2
Pedersen, L.3
-
67
-
-
27344436659
-
Scalable molecular dynamics with NAMD
-
Phillips J.C., Braun R., Wang W., Gumbart J., Tajkhorshid E., Villa E., et al. Scalable molecular dynamics with NAMD. J. Comput. Chem. 26 (2005) 1781-1802
-
(2005)
J. Comput. Chem.
, vol.26
, pp. 1781-1802
-
-
Phillips, J.C.1
Braun, R.2
Wang, W.3
Gumbart, J.4
Tajkhorshid, E.5
Villa, E.6
-
68
-
-
0033551859
-
Insights into editing from an Ile-tRNA synthetase structure with tRNAIle and mupirocin
-
Silvian L.F., Wang J., and Steitz T.A. Insights into editing from an Ile-tRNA synthetase structure with tRNAIle and mupirocin. Science 285 (1999) 1074-1077
-
(1999)
Science
, vol.285
, pp. 1074-1077
-
-
Silvian, L.F.1
Wang, J.2
Steitz, T.A.3
-
69
-
-
0008875663
-
Structural analysis of spermine and magnesium ion binding to yeast phenylalanine transfer RNA
-
Quigley G.J., Teeter M.M., and Rich A. Structural analysis of spermine and magnesium ion binding to yeast phenylalanine transfer RNA. Proc. Natl Acad. Sci. USA 75 (1978) 64-68
-
(1978)
Proc. Natl Acad. Sci. USA
, vol.75
, pp. 64-68
-
-
Quigley, G.J.1
Teeter, M.M.2
Rich, A.3
-
70
-
-
0016732394
-
tRNA conformation and magnesium binding. A study of a yeast phenylalanine-specific tRNA by a fluorescent indicator and differential melting curves
-
Römer R., and Hach R. tRNA conformation and magnesium binding. A study of a yeast phenylalanine-specific tRNA by a fluorescent indicator and differential melting curves. Eur. J. Biochem. 55 (1975) 271-284
-
(1975)
Eur. J. Biochem.
, vol.55
, pp. 271-284
-
-
Römer, R.1
Hach, R.2
-
71
-
-
84988103838
-
Empirical energy functions for energy minimization and dynamics of nucleic acids
-
Nilsson L., and Karplus M. Empirical energy functions for energy minimization and dynamics of nucleic acids. J. Comput. Chem. 7 (1986) 591-616
-
(1986)
J. Comput. Chem.
, vol.7
, pp. 591-616
-
-
Nilsson, L.1
Karplus, M.2
-
72
-
-
84893169025
-
General atomic and molecular electronic structure system
-
Schmidt M.W., Baldridge K.K., Boatz J.A., Elbert S.T., Gordon M.S., Jensen J.H., et al. General atomic and molecular electronic structure system. J. Comput. Chem. 14 (1993) 1347-1363
-
(1993)
J. Comput. Chem.
, vol.14
, pp. 1347-1363
-
-
Schmidt, M.W.1
Baldridge, K.K.2
Boatz, J.A.3
Elbert, S.T.4
Gordon, M.S.5
Jensen, J.H.6
-
73
-
-
0035964342
-
Electrostatics of nanosystems: application to microtubules and the ribosome
-
Baker N.A., Sept D., Joseph S., Holst M.J., and McCammon J.A. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl Acad. Sci. USA 98 (2001) 10037-10041
-
(2001)
Proc. Natl Acad. Sci. USA
, vol.98
, pp. 10037-10041
-
-
Baker, N.A.1
Sept, D.2
Joseph, S.3
Holst, M.J.4
McCammon, J.A.5
-
74
-
-
0034323089
-
Absolute entropies from molecular dynamics simulation trajectories
-
Schafer A., Mark A.E., and van Gunsteren W.F. Absolute entropies from molecular dynamics simulation trajectories. J. Chem. Phys. 113 (2000) 7809-7817
-
(2000)
J. Chem. Phys.
, vol.113
, pp. 7809-7817
-
-
Schafer, A.1
Mark, A.E.2
van Gunsteren, W.F.3
-
75
-
-
0035828630
-
On the calculation of entropy from covariance matrices of the atomic fluctuations
-
Anricrioaei I., and Karplus M. On the calculation of entropy from covariance matrices of the atomic fluctuations. J. Chem. Phys. 115 (2001) 6289-6292
-
(2001)
J. Chem. Phys.
, vol.115
, pp. 6289-6292
-
-
Anricrioaei, I.1
Karplus, M.2
-
76
-
-
33749172039
-
Software news and updates. Carma: a molecular dynamics analysis program
-
Glykos N.M. Software news and updates. Carma: a molecular dynamics analysis program. J. Comput. Chem. 27 (2006) 1765-1768
-
(2006)
J. Comput. Chem.
, vol.27
, pp. 1765-1768
-
-
Glykos, N.M.1
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