-
2
-
-
0000567063
-
Synthesis and use of 3-deoxy-D-manno-2-octulosonate (KDO) in Escherichia coli: Potential sites of inhibition
-
(Anderson, L., Unger, F. M., Eds.), American Chemical Society, Washington, D.C.
-
Ray, P. H., Kelsey, J. E., Bigham, E. C., Benedict, C. D., and Miller, T. (1983) Synthesis and use of 3-deoxy-D-manno-2-octulosonate (KDO) in Escherichia coli: Potential sites of inhibition, in ACS Symposium Series (Anderson, L., Unger, F. M., Eds.), pp 141-169, American Chemical Society, Washington, D.C.
-
(1983)
ACS Symposium Series
, pp. 141-169
-
-
Ray, P.H.1
Kelsey, J.E.2
Bigham, E.C.3
Benedict, C.D.4
Miller, T.5
-
3
-
-
0001643728
-
Condensation of arabinose 5-phosphate and phosphorylenol pyruvate by 2-keto-3-deoxyphosphooctonic acid synthetase
-
Levin, D. H., and Racker, E. (1959) Condensation of arabinose 5-phosphate and phosphorylenol pyruvate by 2-keto-3-deoxyphosphooctonic acid synthetase. J. Biol. Chem. 234, 2532-2539.
-
(1959)
J. Biol. Chem.
, vol.234
, pp. 2532-2539
-
-
Levin, D.H.1
Racker, E.2
-
4
-
-
0019917862
-
Isolation and characterization of a temperature-sensitive lethal mutant of Salmonella typhimurium that is conditionally defective in 3-deoxy-D-manno-octulosonate-8-phosphate synthesis
-
Rick, P. D., and Young, D. A. (1982) Isolation and characterization of a temperature-sensitive lethal mutant of Salmonella typhimurium that is conditionally defective in 3-deoxy-D- manno-octulosonate-8-phosphate synthesis. J. Bacteriol. 150, 447-455. (Pubitemid 12011215)
-
(1982)
Journal of Bacteriology
, vol.150
, Issue.2
, pp. 447-455
-
-
Rick, P.D.1
Young, D.A.2
-
5
-
-
0021456264
-
Effect of altered lipid: A synthesis on the synthesis of major proteins of the Salmonella typhimurium outer membrane
-
Rick, P. D., Neumeyer, B. A., and Young, D. A. (1984) Effect of altered lipid: A synthesis on the synthesis of major proteins of the Salmonella typhimurium outer membrane. Rev. Infect. Dis. 6, 455-462.
-
(1984)
Rev. Infect. Dis.
, vol.6
, pp. 455-462
-
-
Rick, P.D.1
Neumeyer, B.A.2
Young, D.A.3
-
6
-
-
0026726753
-
Mechanistic studies of 3-deoxy-D-manno-2-octulosonate-8-phosphate synthase from Escherichia coli
-
Kohen, A., Jakob, A., and Baasov, T. (1992) Mechanistic studies of 3-deoxy-D-manno-2-octulosonate-8-phosphate synthase from Escherichia coli. Eur. J. Biochem. 208, 443-449.
-
(1992)
Eur. J. Biochem.
, vol.208
, pp. 443-449
-
-
Kohen, A.1
Jakob, A.2
Baasov, T.3
-
7
-
-
0027219268
-
Stereochemistry of KDO8P synthase. An efficient synthesis of the 3-fluoro analogs of KDO8P
-
Kohen, A., Berkovich, R., Belakhov, V., and Baasov, T. (1993) Stereochemistry of KDO8P synthase. An efficient synthesis of the 3-fluoro analogs of KDO8P. Bioorg. Med. Chem. Lett. 3, 1577-1582.
-
(1993)
Bioorg. Med. Chem. Lett.
, vol.3
, pp. 1577-1582
-
-
Kohen, A.1
Berkovich, R.2
Belakhov, V.3
Baasov, T.4
-
8
-
-
0027376956
-
Stereochemistry of 3-deoxyoctulosonate 8-phosphate synthase
-
DOI 10.1021/bi00097a017
-
Dotson, G. D., Nanjappan, P., Reily, M. D., and Woodard, R. W. (1993) Stereochemistry of 3-deoxyoctulosonate 8-phosphate synthase. Biochemistry 32, 12392-12397. (Pubitemid 23357960)
-
(1993)
Biochemistry
, vol.32
, Issue.46
, pp. 12392-12397
-
-
Dotson, G.D.1
Nanjappan, P.2
Reily, M.D.3
Woodard, R.W.4
-
9
-
-
0029015263
-
Overproduction and one-step purification of Escherichia coli 3-deoxy-D- Manno-octulosonic acid 8-phosphate synthase and oxygen transfer studies during catalysis using isotopic-shifted heteronuclear NMR
-
Dotson, G. D., Dua, R. K., Clemens, J. C., Wooten, E. W., and Woodard, R. W. (1995) Overproduction and one-step purification of Escherichia coli 3-deoxy-D- manno-octulosonic acid 8-phosphate synthase and oxygen transfer studies during catalysis using isotopic-shifted heteronuclear NMR. J. Biol. Chem. 270, 13698-13705.
-
(1995)
J. Biol. Chem.
, vol.270
, pp. 13698-13705
-
-
Dotson, G.D.1
Dua, R.K.2
Clemens, J.C.3
Wooten, E.W.4
Woodard, R.W.5
-
10
-
-
0042021429
-
A snapshot of enzyme catalysis using electrospray ionization mass spectrometry
-
DOI 10.1021/ja0354768
-
Li, Z., Sau, A. K., Shen, S., Whitehouse, C., Baasov, T., and Anderson, K. S. (2003) A snapshot of enzyme catalysis using electrospray ionization mass spectrometry. J. Am. Chem. Soc. 125, 9938-9939. (Pubitemid 36994920)
-
(2003)
Journal of the American Chemical Society
, vol.125
, Issue.33
, pp. 9938-9939
-
-
Li, Z.1
Sau, A.K.2
Shen, S.3
Whitehouse, C.4
Baasov, T.5
Anderson, K.S.6
-
11
-
-
0035896523
-
Substrate and metal complexes of 3-deoxy-D-manno-octulosonate 8- phosphate synthase from Aquifex aeolicus at 1.9A resolution: Implications for the condensation mechanism
-
Duewel, H. S., Radaev, S., Wang, J., Woodard, R. W., and Gatti, D. L. (2001) Substrate and metal complexes of 3-deoxy-D-manno-octulosonate 8- phosphate synthase from Aquifex aeolicus at 1.9A resolution: implications for the condensation mechanism. J. Biol. Chem. 276, 8393-8402.
-
(2001)
J. Biol. Chem.
, vol.276
, pp. 8393-8402
-
-
Duewel, H.S.1
Radaev, S.2
Wang, J.3
Woodard, R.W.4
Gatti, D.L.5
-
12
-
-
0035951088
-
Structures of Aquifex aeolicus KDO8P synthase in complex with R5P and PEP, and with a bisubstrate inhibitor: Role of active site water in catalysis
-
DOI 10.1021/bi015568e
-
Wang, J., Duewel, H. S., Woodard, R. W., and Gatti, D. L. (2001) Structures of Aquifex aeolicus KDO8P synthase in complex with R5P and PEP and with a bisubstrate inhibitor: role of active site water in catalysis. Biochemistry 40, 15676-15683. (Pubitemid 34015195)
-
(2001)
Biochemistry
, vol.40
, Issue.51
, pp. 15676-15683
-
-
Wang, J.1
Duewel, H.S.2
Woodard, R.W.3
Gatti, D.L.4
-
13
-
-
34247188488
-
Structural and mechanistic changes along an engineered path from metallo to nonmetallo 3-deoxy-D-manno-octulosonate 8-phosphate synthases
-
DOI 10.1021/bi6024879
-
Kona, F., Xu, X., Martin, P., Kuzmic, P., and Gatti, D. L. (2007) Structural and mechanistic changes along an engineered path from metallo- to nonmetallo- 3-deoxy-D-manno-octulosonate 8-phosphate synthases. Biochemistry 46, 4532-4544. (Pubitemid 46625511)
-
(2007)
Biochemistry
, vol.46
, Issue.15
, pp. 4532-4544
-
-
Kona, F.1
Xu, X.2
Martin, P.3
Kuzmic, P.4
Gatti, D.L.5
-
14
-
-
0024240284
-
3-Deoxy-D-manno-octulosonate-8-phosphate synthase catalyzes the C-O bond cleavage of phosphoenolpyruvate
-
DOI 10.1016/S0006-291X(88)80322-X
-
Hedstrom, L., and Abeles, R. (1988) 3-Deoxy-D-manno-octulosonate-8- phosphate synthase catalyzes the C-O bond cleavage of phosphoenolpyruvate. Biochem. Biophys. Res. Commun. 157, 816-820. (Pubitemid 19021252)
-
(1988)
Biochemical and Biophysical Research Communications
, vol.157
, Issue.2
, pp. 816-820
-
-
Hedstrom, L.1
Abeles, R.2
-
15
-
-
0035097138
-
Aquifex aeolicus 3-deoxy-D-manno-2-octulosonic acid 8-phosphate synthase: A new class of KDO 8-P synthase?
-
Birck, M. R., and Woodard, R. W. (2001) Aquifex aeolicus 3-deoxy-D-manno-2-octulosonic acid 8-phosphate synthase: a new class of KDO 8-P synthase? J Mol Evol 52, 205-214.
-
(2001)
J Mol Evol
, vol.52
, pp. 205-214
-
-
Birck, M.R.1
Woodard, R.W.2
-
16
-
-
0034725580
-
A metal bridge between two enzyme families. 3-deoxy-D-manno-octulosonate 8-phosphate synthase from Aquifex aeolicus requires a divalent metal for activity
-
Duewel, H. S., and Woodard, R. W. (2000) A metal bridge between two enzyme families. 3-deoxy-D-manno-octulosonate 8-phosphate synthase from Aquifex aeolicus requires a divalent metal for activity. J Biol Chem 275, 22824-22831.
-
(2000)
J Biol Chem
, vol.275
, pp. 22824-22831
-
-
Duewel, H.S.1
Woodard, R.W.2
-
17
-
-
0036440978
-
Function of His185 in Aquifex aeolicus 3-deoxy-D-manno-octulosonate 8-phosphate synthase
-
DOI 10.1016/S0022-2836(02)01096-3
-
Wang, J., Duewel, H. S., Stuckey, J. A., Woodard, R. W., and Gatti, D. L. (2002) Function of His-185 in Aquifex aeolicus 3-deoxy-D-manno-octulosonate 8- phosphate synthase. J. Mol. Biol. 324, 205-214. (Pubitemid 35379021)
-
(2002)
Journal of Molecular Biology
, vol.324
, Issue.2
, pp. 205-214
-
-
Wang, J.1
Duewel, H.S.2
Stuckey, J.A.3
Woodard, R.W.4
Gatti, D.L.5
-
18
-
-
24944536083
-
The catalytic and conformational cycle of Aquifex aeolicus KDO8P synthase: Role of the L7 loop
-
DOI 10.1021/bi051095q
-
Xu, X., Kona, F., Wang, J., Lu, J., Stemmler, T., and Gatti, D. L. (2005) The catalytic and conformational cycle of Aquifex aeolicus KDO8P synthase: role of the L7 loop. Biochemistry 44, 12434-12444. (Pubitemid 41324335)
-
(2005)
Biochemistry
, vol.44
, Issue.37
, pp. 12434-12444
-
-
Xu, X.1
Kona, F.2
Wang, J.3
Lu, J.4
Stemmler, T.5
Gatti, D.L.6
-
19
-
-
7244231234
-
A reciprocal single mutation affects the metal requirement of 3-deoxy-D-manno-2-octulosonate-8-phosphate (KDO8P) synthases from aquifex pyrophilus and Escherichia coli
-
DOI 10.1074/jbc.M404561200
-
Shulami, S., Furdui, C., Adir, N., Shoham, Y., Anderson, K. S., and Baasov, T. (2004) A reciprocal single mutation affects the metal requirement of 3-deoxy-D-manno-2-octulosonate-8-phosphate (KDO8P) synthases from Aquifex pyrophilus and Escherichia coli. J. Biol. Chem. 279, 45110-45120. (Pubitemid 39430926)
-
(2004)
Journal of Biological Chemistry
, vol.279
, Issue.43
, pp. 45110-45120
-
-
Shulami, S.1
Furdui, C.2
Adir, N.3
Shoham, Y.4
Anderson, K.S.5
Baasov, T.6
-
20
-
-
0028905817
-
Analysis of enzyme progress curves by nonlinear regression
-
Duggleby, R. G. (1995) Analysis of enzyme progress curves by nonlinear regression. Methods Enzymol. 249, 61-90.
-
(1995)
Methods Enzymol.
, vol.249
, pp. 61-90
-
-
Duggleby, R.G.1
-
21
-
-
0026719686
-
Global analysis of biochemical and biophysical data
-
Beechem, J. M. (1992) Global analysis of biochemical and biophysical data. Methods Enzymol. 210, 37-54.
-
(1992)
Methods Enzymol.
, vol.210
, pp. 37-54
-
-
Beechem, J.M.1
-
22
-
-
0029902679
-
Program DYNAFIT for the analysis of enzyme kinetic data: Application to HIV proteinase
-
Kuzmic, P. (1996) Program DYNAFIT for the analysis of enzyme kinetic data: application to HIV proteinase. Anal. Biochem. 237, 260-273.
-
(1996)
Anal. Biochem.
, vol.237
, pp. 260-273
-
-
Kuzmic, P.1
-
23
-
-
33845368513
-
COPASI - A COmplex PAthway SImulator
-
Hoops, S., Sahle, S., Gauges, R., Lee, C., Pahle, J., Simus, N., Singhal, M., Xu, L., Mendes, P., and Kummer, U. (2006) COPASI - a COmplex PAthway SImulator. Bioinformatics 22, 3067-3074.
-
(2006)
Bioinformatics
, vol.22
, pp. 3067-3074
-
-
Hoops, S.1
Sahle, S.2
Gauges, R.3
Lee, C.4
Pahle, J.5
Simus, N.6
Singhal, M.7
Xu, L.8
Mendes, P.9
Kummer, U.10
-
24
-
-
0033600866
-
Functional and biochemical characterization of a recombinant 3-deoxy-D-manno-octulosonic acid 8-phosphate synthase from the hyperthermophilic bacterium Aquifex aeolicus
-
DOI 10.1006/bbrc.1999.1361
-
Duewel, H. S., Sheflyan, G. Y., and Woodard, R. W. (1999) Functional and biochemical characterization of a recombinant 3-deoxy-D- manno-octulosonic acid 8-phosphate synthase from the hyperthermophilic bacterium Aquifex aeolicus. Biochem. Biophys. Res. Commun. 263, 346-351. (Pubitemid 29467198)
-
(1999)
Biochemical and Biophysical Research Communications
, vol.263
, Issue.2
, pp. 346-351
-
-
Duewel, H.S.1
Sheflyan, G.Y.2
Woodard, R.W.3
-
25
-
-
0031059866
-
Processing of X-ray diffraction data collected in oscillation mode
-
DOI 10.1016/S0076-6879(97)76066-X
-
Otwinowski, Z., and Minor, W. (1997) Processing of X-ray diffraction data collected in oscillation mode. Methods Enzymol. 276, 307-326. (Pubitemid 27085611)
-
(1997)
Methods in Enzymology
, vol.276
, pp. 307-326
-
-
Otwinowski, Z.1
Minor, W.2
-
26
-
-
79952608525
-
Accurate bond and angle parameters for X-ray protein structure refinement
-
Engh, R. A., and Huber, R. (1991) Accurate bond and angle parameters for X-ray protein structure refinement. Acta Cryst. Allogr. A47 392-400.
-
(1991)
Acta Cryst. Allogr.
, vol.A47
, pp. 392-400
-
-
Engh, R.A.1
Huber, R.2
-
27
-
-
0030986177
-
Cross-validated maximum likelihood enhances crystallographic simulated annealing refinement
-
DOI 10.1073/pnas.94.10.5018
-
Adams, P. D., Pannu, N. S., Read, R. J., and Brunger, A. T. (1997) Cross-validated maximum likelihood enhances crystallographic simulated annealing refinement. Proc. Natl. Acad. Sci. U.S.A. 94, 5018-5023. (Pubitemid 27214728)
-
(1997)
Proceedings of the National Academy of Sciences of the United States of America
, vol.94
, Issue.10
, pp. 5018-5023
-
-
Adams, P.D.1
Pannu, N.S.2
Read, R.J.3
Brunger, A.T.4
-
28
-
-
0017100947
-
Theoretical studies of enzymic reactions: Dielectric, electrostatic and steric stabilization of the carbonium ion in the reaction of lysozyme
-
Warshel, A., and Levitt, M. (1976) Theoretical studies of enzymic reactions: dielectric, electrostatic and steric stabilization of the carbonium ion in the reaction of lysozyme. J. Mol. Biol. 103, 227-249.
-
(1976)
J. Mol. Biol.
, vol.103
, pp. 227-249
-
-
Warshel, A.1
Levitt, M.2
-
29
-
-
0000728542
-
Microscopic and semimicroscopic calculations of electrostatic energies in proteins by the POLARIS and ENZYMIX Programs
-
Lee, F. S., Chu, Z. T., and Warshel, A. (1993) Microscopic and semimicroscopic calculations of electrostatic energies in proteins by the POLARIS and ENZYMIX Programs, J. Comput. Chem. 14, 161-185.
-
(1993)
J. Comput. Chem.
, vol.14
, pp. 161-185
-
-
Lee, F.S.1
Chu, Z.T.2
Warshel, A.3
-
30
-
-
0000189651
-
Density-functional thermochemistry III. The role of exact exchange
-
Becke, A. D. (1993) Density-functional thermochemistry III. The role of exact exchange. J. Chem. Phys. 98, 5648-5652.
-
(1993)
J. Chem. Phys.
, vol.98
, pp. 5648-5652
-
-
Becke, A.D.1
-
31
-
-
33751157732
-
Ab initio calculation of vibrational absorption and circular dichroism spectra using density functional force fields
-
Stephens, P. J., Devlin, F. J., Chabalowski, C. F., and Frisch, M. J. (1994) Ab initio calculation of vibrational absorption and circular dichroism spectra using density functional force fields. J. Phys. Chem. 98, 11623-11627.
-
(1994)
J. Phys. Chem.
, vol.98
, pp. 11623-11627
-
-
Stephens, P.J.1
Devlin, F.J.2
Chabalowski, C.F.3
Frisch, M.J.4
-
32
-
-
33845328066
-
A new local density functional for main-group thermochemistry, transition metal bonding, thermochemical kinetics, and noncovalent interactions
-
Zhao, Y., and Truhlar, D. G. (2006) A new local density functional for main-group thermochemistry, transition metal bonding, thermochemical kinetics, and noncovalent interactions. J. Chem. Phys. 125, 194101-194118.
-
(2006)
J. Chem. Phys.
, vol.125
, pp. 194101-194118
-
-
Zhao, Y.1
Truhlar, D.G.2
-
33
-
-
33645941402
-
The OPLS force field for proteins. Energy minimizations for crystals of cyclic peptides and crambin
-
Jorgensen, W. L., and Tirado-Rives, J. (1988) The OPLS force field for proteins. Energy minimizations for crystals of cyclic peptides and crambin. J. Am. Chem. Soc. 110, 1657-1666.
-
(1988)
J. Am. Chem. Soc.
, vol.110
, pp. 1657-1666
-
-
Jorgensen, W.L.1
Tirado-Rives, J.2
-
34
-
-
0001420061
-
Mixed ab initio QM/MM modeling using frozen orbitals and tests with alanine dipeptide and tetrapeptide
-
Dean, M., and Philipp, R. A. F. (1999) Mixed ab initio QM/MM modeling using frozen orbitals and tests with alanine dipeptide and tetrapeptide. J. Comput. Chem. 20, 1468-1494. (Pubitemid 129651764)
-
(1999)
Journal of Computational Chemistry
, vol.20
, Issue.14
, pp. 1468-1494
-
-
Philipp, D.M.1
Friesner, R.A.2
-
35
-
-
0000097150
-
Natural Bond Orbital Methods
-
von Ragué Schleyer, P., Schreiner, P. R., Allinger, N. L., Clark, T., Gasteiger, J. , Kollman, P. A., Schaefer III, H. F., Ed., John Wiley & Sons, Chichester, UK
-
Weinhold, F. (1998) Natural Bond Orbital Methods, in Encyclopedia of Computational Chemistry (von Ragué Schleyer, P., Schreiner, P. R., Allinger, N. L., Clark, T., Gasteiger, J. , Kollman, P. A., Schaefer III, H. F., Ed.), pp 1792-1811, John Wiley & Sons, Chichester, UK.
-
(1998)
Encyclopedia of Computational Chemistry
, pp. 1792-1811
-
-
Weinhold, F.1
-
36
-
-
84986513644
-
A combined quantum mechanical and molecular mechanical potential for molecular dynamics simulations
-
Field, M. J., Bash, P. A., and Karplus, M. (1990) A combined quantum mechanical and molecular mechanical potential for molecular dynamics simulations. J. Comput. Chem. 11, 700-733.
-
(1990)
J. Comput. Chem.
, vol.11
, pp. 700-733
-
-
Field, M.J.1
Bash, P.A.2
Karplus, M.3
-
37
-
-
33947472850
-
A schematic method of deriving the rate laws for enzyme-catalyzed reactions
-
King, E. L., and Altman, C. (1956) A schematic method of deriving the rate laws for enzyme-catalyzed reactions. J. Phys. Chem. 60, 1375-1378.
-
(1956)
J. Phys. Chem.
, vol.60
, pp. 1375-1378
-
-
King, E.L.1
Altman, C.2
-
40
-
-
50549155520
-
The kinetics of enzyme-catalyzed reactions with two or more substrates or products. III. Prediction of initial velocity and inhibition patterns by inspection
-
Cleland, W. W. (1963) The kinetics of enzyme-catalyzed reactions with two or more substrates or products. III. Prediction of initial velocity and inhibition patterns by inspection. Biochim. Biophys. Acta 67, 188-196.
-
(1963)
Biochim. Biophys. Acta
, vol.67
, pp. 188-196
-
-
Cleland, W.W.1
-
43
-
-
0030574065
-
Molecular control analysis: Control within proteins and molecular processes
-
Brown, G. C., Westerhoff, H. V., and Kholodenko, B. N. (1996) Molecular control analysis: control within proteins and molecular processes. J. Theor. Biol. 182, 389-396.
-
(1996)
J. Theor. Biol.
, vol.182
, pp. 389-396
-
-
Brown, G.C.1
Westerhoff, H.V.2
Kholodenko, B.N.3
-
44
-
-
0029935382
-
Influence of phosphoenolpyruvate on the dynamic behavior of phosphofructokinase of Escherichia coli
-
Diaz Ricci, J. C. (1996) Influence of phosphoenolpyruvate on the dynamic behavior of phosphofructokinase of Escherichia coli. J. Theor. Biol. 178, 145-150.
-
(1996)
J. Theor. Biol.
, vol.178
, pp. 145-150
-
-
Diaz Ricci, J.C.1
-
45
-
-
0004212736
-
-
(Ingraham, G. L., Maaloe, O., and Neidhardt, F. C., Eds.), Sinauer Association, Inc., Sunderland, MA
-
Maaloe, O. (1983) Growth of the Bacterial Cell, (Ingraham, G. L., Maaloe, O., and Neidhardt, F. C., Eds.), Sinauer Association, Inc., Sunderland, MA.
-
(1983)
Growth of the Bacterial Cell
-
-
Maaloe, O.1
-
46
-
-
0000588956
-
Stability of polyatomic molecules in degenerate electronic states. i. orbital degeneracy
-
Jahn, H. A., and Teller, E. (1937) Stability of polyatomic molecules in degenerate electronic states. i. orbital degeneracy, Proc. R. Soc. London, Ser. A 161, 220-235.
-
(1937)
Proc. R. Soc. London, Ser. A
, vol.161
, pp. 220-235
-
-
Jahn, H.A.1
Teller, E.2
-
48
-
-
22544458784
-
Crystal structures of Escherichia coli KDO8P synthase complexes reveal the source of catalytic irreversibility
-
DOI 10.1016/j.jmb.2005.06.021, PII S0022283605006716
-
Vainer, R., Belakhov, V., Rabkin, E., Baasov, T., and Adir, N. (2005) Crystal structures of Escherichia coli KDO8P synthase complexes reveal the source of catalytic irreversibility. J. Mol. Biol. 351, 641-652. (Pubitemid 41021946)
-
(2005)
Journal of Molecular Biology
, vol.351
, Issue.3
, pp. 641-652
-
-
Vainer, R.1
Belakhov, V.2
Rabkin, E.3
Baasov, T.4
Adir, N.5
-
49
-
-
0036667496
-
Quantum chemical geometry optimizations in proteins using crystallographic raw data
-
Ryde, U., Olsen, L., and Nilsson, K. (2002) Quantum chemical geometry optimizations in proteins using crystallographic raw data. J. Comput. Chem. 23, 1058-1070.
-
(2002)
J. Comput. Chem.
, vol.23
, pp. 1058-1070
-
-
Ryde, U.1
Olsen, L.2
Nilsson, K.3
-
50
-
-
0037305552
-
On the evaluation and optimization of protein X-ray structures for pKa calculations
-
DOI 10.1110/ps.0229903
-
Nielsen, J. E., and McCammon, J. A. (2003) On the evaluation and optimization of protein X-ray structures for pKa calculations. Protein Sci. 12, 313-326. (Pubitemid 36120344)
-
(2003)
Protein Science
, vol.12
, Issue.2
, pp. 313-326
-
-
Nielsen, J.E.1
McCammon, J.A.2
-
51
-
-
0035451052
-
What are the dielectric constants of proteins and how to validate electrostatic models?
-
DOI 10.1002/prot.1106
-
Schutz, C. N., and Warshel, A. (2001) What are the dielectric constants of proteins and how to validate electrostatic models? Proteins: Struct., Funct., Genetics 44, 400-417. (Pubitemid 32768578)
-
(2001)
Proteins: Structure, Function and Genetics
, vol.44
, Issue.4
, pp. 400-417
-
-
Schutz, C.N.1
Warshel, A.2
-
52
-
-
0003569570
-
-
Oxford University Press, New York
-
Parr, R. G., and Yang, W. (1989) Density-functional Theory of Atoms and Molecules, Vol.16, Oxford University Press, New York.
-
(1989)
Density-functional Theory of Atoms and Molecules
, vol.16
-
-
Parr, R.G.1
Yang, W.2
-
53
-
-
0038661201
-
Conceptual density functional theory
-
Geerlings, P., De Proft, F., and Langenaeker, W. (2003) Conceptual density functional theory. Chem. Rev. 103, 1793-1874.
-
(2003)
Chem. Rev.
, vol.103
, pp. 1793-1874
-
-
Geerlings, P.1
De Proft, F.2
Langenaeker, W.3
-
54
-
-
33746218430
-
The performance of hybrid DFT for mechanisms involving transition metal complexes in enzymes
-
DOI 10.1007/s00775-006-0137-2
-
Siegbahn, P. (2006) The performance of hybrid DFT for mechanisms involving transition metal complexes in enzymes. J. Biol. Inorg. Chem. 11, 695-701. (Pubitemid 44100464)
-
(2006)
Journal of Biological Inorganic Chemistry
, vol.11
, Issue.6
, pp. 695-701
-
-
Siegbahn, P.E.M.1
-
55
-
-
33846103838
-
Performance of density functionals for first row transition metal systems
-
Jensen, K. P., Roos, B. O., and Ryde, U. (2007) Performance of density functionals for first row transition metal systems. J. Chem. Phys. 126, 014103-014114.
-
(2007)
J. Chem. Phys.
, vol.126
, pp. 14103-14114
-
-
Jensen, K.P.1
Roos, B.O.2
Ryde, U.3
-
56
-
-
4243553426
-
Density-functional exchange-energy approximation with correct asymptotic behavior
-
Becke, A. D. (1988) Density-functional exchange-energy approximation with correct asymptotic behavior. Phys. ReV. A: At., Mol., Opt. Phys. 38, 3098.
-
(1988)
Phys. ReV. A: At., Mol., Opt. Phys.
, vol.38
, pp. 3098
-
-
Becke, A.D.1
-
57
-
-
0000216001
-
Accurate spin-dependent electron liquid correlation energies for local spin density calculations: A critical analysis
-
Vosko, S. H., Wilk, L., and Nusair, M. (1980) Accurate spin-dependent electron liquid correlation energies for local spin density calculations: a critical analysis. Can. J. Phys. 58, 1200-1211.
-
(1980)
Can. J. Phys.
, vol.58
, pp. 1200-1211
-
-
Vosko, S.H.1
Wilk, L.2
Nusair, M.3
-
58
-
-
0345491105
-
Development of the Colle-Salvetti correlation-energy formula into a functional of the electron density
-
Lee, C., Yang, W., and Parr, R. G. (1988) Development of the Colle-Salvetti correlation-energy formula into a functional of the electron density. Phys. Rev. B: Condens., Matter Mater. Phys. 37, 785.
-
(1988)
Phys. Rev. B: Condens., Matter Mater. Phys.
, vol.37
, pp. 785
-
-
Lee, C.1
Yang, W.2
Parr, R.G.3
-
59
-
-
0035730848
-
Reparameterization of hybrid functionals based on energy differences of states of different multiplicity
-
Reiher, M., Salomon, O., and Artur Hess, B. (2001) Reparameterization of hybrid functionals based on energy differences of states of different multiplicity. Theor. Chem. Acc. 107, 48-55.
-
(2001)
Theor. Chem. Acc.
, vol.107
, pp. 48-55
-
-
Reiher, M.1
Salomon, O.2
Artur Hess, B.3
-
60
-
-
40549127108
-
Density functionals with broad applicability in chemistry
-
Zhao, Y., and Truhlar, D. G. (2008) Density functionals with broad applicability in chemistry. Acc. Chem. Res. 41, 157-167.
-
(2008)
Acc. Chem. Res.
, vol.41
, pp. 157-167
-
-
Zhao, Y.1
Truhlar, D.G.2
-
61
-
-
84926111067
-
Perturbation theory for orbitals in the Hartree-Fock framework: The donor-acceptor paradigm
-
Cambridge University Press, Cambridge
-
Weinhold, F., and Landis, C. R. (2005) Perturbation theory for orbitals in the Hartree-Fock framework: the donor-acceptor paradigm., in Valency and Bonding. A natural bond orbital donor-acceptor perspective, Cambridge University Press, Cambridge.
-
(2005)
Valency and Bonding. A Natural Bond Orbital Donor-acceptor Perspective
-
-
Weinhold, F.1
Landis, C.R.2
-
62
-
-
51949098009
-
MESPEUS: A Database of the Geometry of Metal Sites in Proteins
-
submitted
-
Hsin, K., Sheng, Y., Harding, M. M., Taylor, P., and Walkinshaw, M. D. (2008) MESPEUS: A Database of the Geometry of Metal Sites in Proteins, J. Appl. Cryst. Allorgr. submitted.
-
(2008)
J. Appl. Cryst. Allorgr.
-
-
Hsin, K.1
Sheng, Y.2
Harding, M.M.3
Taylor, P.4
Walkinshaw, M.D.5
-
63
-
-
0014251790
-
Metalloenzymes: The entatic nature of their active sites
-
Vallee, B. L., and Williams, R. J. (1968) Metalloenzymes: the entatic nature of their active sites. Proc. Natl. Acad. Sci. U.S.A. 59, 498-505.
-
(1968)
Proc. Natl. Acad. Sci. U.S.A.
, vol.59
, pp. 498-505
-
-
Vallee, B.L.1
Williams, R.J.2
-
64
-
-
0028822917
-
Energised (entatic) States of Groups and of Secondary Structures in Proteins and Metalloproteins
-
Robert, J. P. W. (1995) Energised (entatic) States of Groups and of Secondary Structures in Proteins and Metalloproteins. Eur. J. Biochem. 234, 363-381.
-
(1995)
Eur. J. Biochem.
, vol.234
, pp. 363-381
-
-
Robert, J.P.W.1
-
65
-
-
0033785376
-
Copper coordination in blue proteins
-
Gray, H. B., Malmstrom, B. G., and Williams, R. J. (2000) Copper coordination in blue proteins. J. Biol. Inorg. Chem. 5, 551-559.
-
(2000)
J. Biol. Inorg. Chem.
, vol.5
, pp. 551-559
-
-
Gray, H.B.1
Malmstrom, B.G.2
Williams, R.J.3
-
68
-
-
33748633480
-
Electrostatic basis for enzyme catalysis
-
DOI 10.1021/cr0503106
-
Warshel, A., Sharma, P. K., Kato, M., Xiang, Y., Liu, H., and Olsson, M. H. (2006) Electrostatic basis for enzyme catalysis. Chem. Rev. 106, 3210-3235. (Pubitemid 44376933)
-
(2006)
Chemical Reviews
, vol.106
, Issue.8
, pp. 3210-3235
-
-
Warshel, A.1
Sharma, P.K.2
Kato, M.3
Xiang, Y.4
Liu, H.5
Olsson, M.H.M.6
-
69
-
-
0030606884
-
The cupric geometry of blue copper proteins is not strained
-
DOI 10.1006/jmbi.1996.0484
-
Ryde, U., Olsson, M. H. M., Pierloot, K., and Roos, B. O. (1996) The cupric geometry of blue copper proteins is not strained. J. Mol. Biol. 261, 586-596. (Pubitemid 26335948)
-
(1996)
Journal of Molecular Biology
, vol.261
, Issue.4
, pp. 586-596
-
-
Ryde, U.1
Olsson, M.H.M.2
Pierloot, K.3
Roos, B.O.4
-
70
-
-
0033788007
-
On the role of strain in blue copper proteins
-
Ryde, U., Olsson, M. H., Roos, B. O., De Kerpel, J. O., and Pierloot, K. (2000) On the role of strain in blue copper proteins. J. Biol. Inorg. Chem. 5, 565-574.
-
(2000)
J. Biol. Inorg. Chem.
, vol.5
, pp. 565-574
-
-
Ryde, U.1
Olsson, M.H.2
Roos, B.O.3
De Kerpel, J.O.4
Pierloot, K.5
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