-
1
-
-
0029633168
-
GROMACS: a message-passing parallel molecular dynamics implementation
-
Berenden H.J.C., et al. GROMACS: a message-passing parallel molecular dynamics implementation. Computer Physics Communications 1995, 91:43-56.
-
(1995)
Computer Physics Communications
, vol.91
, pp. 43-56
-
-
Berenden, H.J.C.1
-
2
-
-
0017751668
-
The Protein Data Bank. A computer-based archival file for macromolecular structures
-
Bernstein F.C., Koetzle T.F., Williams G.J., Meyer E.F., Brice M.D., Rodgers J.R., et al. The Protein Data Bank. A computer-based archival file for macromolecular structures. European Journal of Biochemistry 1977, 80:319-324.
-
(1977)
European Journal of Biochemistry
, vol.80
, pp. 319-324
-
-
Bernstein, F.C.1
Koetzle, T.F.2
Williams, G.J.3
Meyer, E.F.4
Brice, M.D.5
Rodgers, J.R.6
-
3
-
-
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 Research 2003, 31:365-370.
-
(2003)
Nucleic Acids Research
, vol.31
, pp. 365-370
-
-
Boeckmann, B.1
Bairoch, A.2
Apweiler, R.3
Blatter, M.C.4
Estreicher, A.5
Gasteiger, E.6
-
4
-
-
0027180507
-
Verification of protein structures: patterns of non-bonded atomic interactions
-
Colovos C., Yeates T.O. Verification of protein structures: patterns of non-bonded atomic interactions. Protein Science 1993, 9:1511-1519.
-
(1993)
Protein Science
, vol.9
, pp. 1511-1519
-
-
Colovos, C.1
Yeates, T.O.2
-
5
-
-
0024297354
-
Multiple sequence alignment with hierarchical clustering
-
Corpet F. Multiple sequence alignment with hierarchical clustering. Nucleic Acids Research 1988, 16:10881-10890.
-
(1988)
Nucleic Acids Research
, vol.16
, pp. 10881-10890
-
-
Corpet, F.1
-
6
-
-
0030767485
-
VERIFY3D: assessment of protein models with three dimensional profiles
-
Eisenberg D., Lüthy R., Bowie J.U. VERIFY3D: assessment of protein models with three dimensional profiles. Methods in Enzymology 1997, 277:396-404.
-
(1997)
Methods in Enzymology
, vol.277
, pp. 396-404
-
-
Eisenberg, D.1
Lüthy, R.2
Bowie, J.U.3
-
7
-
-
0000388705
-
LINCS: linear constraint solvers for molecular dynamics simulations
-
Hess B., Bekker H., Berendsen H.J.C., Fraaije J.G.E.M. LINCS: linear constraint solvers for molecular dynamics simulations. Journal of Computational Chemistry 1997, 18:1463-1472.
-
(1997)
Journal of Computational Chemistry
, vol.18
, pp. 1463-1472
-
-
Hess, B.1
Bekker, H.2
Berendsen, H.J.C.3
Fraaije, J.G.E.M.4
-
8
-
-
79952427389
-
Preserving the lifesaving power of antimicrobial agents
-
Hughes J.M. Preserving the lifesaving power of antimicrobial agents. JAMA 2011, 305:1027-1028.
-
(2011)
JAMA
, vol.305
, pp. 1027-1028
-
-
Hughes, J.M.1
-
9
-
-
13844312649
-
Zinc-free database of commercially available compounds for virtual screening
-
Irwin J.J., Shoichet B.K. Zinc-free database of commercially available compounds for virtual screening. Journal of Chemical Information and Modeling 2005, 45:177-182.
-
(2005)
Journal of Chemical Information and Modeling
, vol.45
, pp. 177-182
-
-
Irwin, J.J.1
Shoichet, B.K.2
-
10
-
-
70349211752
-
Docking screens: a feasibility study
-
Irwin J.J., Shoichet B.K., Mysinger M.M., Huang N., Colizzi F., Wassam P., et al. docking screens: a feasibility study. Journal of Medicinal Chemistry 2009, 52:5712-5720.
-
(2009)
Journal of Medicinal Chemistry
, vol.52
, pp. 5712-5720
-
-
Irwin, J.J.1
Shoichet, B.K.2
Mysinger, M.M.3
Huang, N.4
Colizzi, F.5
Wassam, P.6
-
12
-
-
84892972563
-
Use of core LPS-specific phage SSU5 as an auxiliary component of a phage cocktail for Salmonella biocontrol
-
Kim M., Kim S., Park B., Ryu S. Use of core LPS-specific phage SSU5 as an auxiliary component of a phage cocktail for Salmonella biocontrol. Applied and Environmental Microbiology 2014, 80:1026-1034.
-
(2014)
Applied and Environmental Microbiology
, vol.80
, pp. 1026-1034
-
-
Kim, M.1
Kim, S.2
Park, B.3
Ryu, S.4
-
13
-
-
34249703449
-
Structural and functional characterization of enantiomeric glutamic acid derivatives as potential transition state analogue inhibitors of MurD ligase
-
Kotnik M., Humljan J., Contreras-Martel C., Oblak M., Kristan K., Hervé M., et al. Structural and functional characterization of enantiomeric glutamic acid derivatives as potential transition state analogue inhibitors of MurD ligase. Journal of Molecular Biology 2007, 370:107-115.
-
(2007)
Journal of Molecular Biology
, vol.370
, pp. 107-115
-
-
Kotnik, M.1
Humljan, J.2
Contreras-Martel, C.3
Oblak, M.4
Kristan, K.5
Hervé, M.6
-
15
-
-
84870593406
-
In situ probing of newly synthesized peptidoglycan in live bacteria with fluorescent d-amino acids
-
Kuru E., Hughes H.V., Brown P.J., Hall E., Tekkam S., Cava F., et al. In situ probing of newly synthesized peptidoglycan in live bacteria with fluorescent d-amino acids. Angewandte Chemie International Edition in English 2012, 51:12519-12523.
-
(2012)
Angewandte Chemie International Edition in English
, vol.51
, pp. 12519-12523
-
-
Kuru, E.1
Hughes, H.V.2
Brown, P.J.3
Hall, E.4
Tekkam, S.5
Cava, F.6
-
16
-
-
0000243829
-
PROCHECK-a program to check the steriochemical quality of protein structures
-
Laskowski R.A., MacArthur M.N., Moss D.S., Thorton J.M. PROCHECK-a program to check the steriochemical quality of protein structures. Journal of Applied Crystallography 1993, 26:283-291.
-
(1993)
Journal of Applied Crystallography
, vol.26
, pp. 283-291
-
-
Laskowski, R.A.1
MacArthur, M.N.2
Moss, D.S.3
Thorton, J.M.4
-
17
-
-
0035789518
-
GROMACS 3.0: a package for molecular simulation and trajectory analysis
-
Lindahl E., et al. GROMACS 3.0: a package for molecular simulation and trajectory analysis. Journal of Molecular Modeling 2001, 7:306-317.
-
(2001)
Journal of Molecular Modeling
, vol.7
, pp. 306-317
-
-
Lindahl, E.1
-
18
-
-
0035289779
-
Experimental and computational approaches to estimate solubility and permeability in drug discovery and development setting
-
Lipinski C.A., Lombardo F., Dominy B.W., Feeney P.J. Experimental and computational approaches to estimate solubility and permeability in drug discovery and development setting. Advanced Drug Delivery Reviews 2001, 46:3-26.
-
(2001)
Advanced Drug Delivery Reviews
, vol.46
, pp. 3-26
-
-
Lipinski, C.A.1
Lombardo, F.2
Dominy, B.W.3
Feeney, P.J.4
-
19
-
-
0031965676
-
Flexible ligand docking using conformational ensembles
-
Lorber D.M., Shoichet B.K. Flexible ligand docking using conformational ensembles. Protein Science 1998, 7:938-950.
-
(1998)
Protein Science
, vol.7
, pp. 938-950
-
-
Lorber, D.M.1
Shoichet, B.K.2
-
20
-
-
79960284952
-
Transpeptidase-mediated incorporation of d-amino acids into bacterial peptidoglycan
-
Lupoli T.J., Tsukamoto H., Doud E.H., Wang T.S., Walker S., Kahne D. Transpeptidase-mediated incorporation of d-amino acids into bacterial peptidoglycan. Journal of the American Chemical Society 2011, 133:10748-10751.
-
(2011)
Journal of the American Chemical Society
, vol.133
, pp. 10748-10751
-
-
Lupoli, T.J.1
Tsukamoto, H.2
Doud, E.H.3
Wang, T.S.4
Walker, S.5
Kahne, D.6
-
21
-
-
77749282898
-
The global burden of nontyphoidal salmonella gastroenteritis
-
Majowicz S.E., Musto J., Scallan E., Angulo F.J., Kirk M., Brien S.J., et al. The global burden of nontyphoidal salmonella gastroenteritis. Clinical Infectious Diseases 2010, 50:882-889.
-
(2010)
Clinical Infectious Diseases
, vol.50
, pp. 882-889
-
-
Majowicz, S.E.1
Musto, J.2
Scallan, E.3
Angulo, F.J.4
Kirk, M.5
Brien, S.J.6
-
22
-
-
0035950182
-
Complete genome sequence of Salmonella enterica serovar Typhimurium LT2
-
McClelland M., Sanderson K.E., Spieth J., Clifton S.W., Latreille P., Courtney L., et al. Complete genome sequence of Salmonella enterica serovar Typhimurium LT2. Nature 2001, 413:852-856.
-
(2001)
Nature
, vol.413
, pp. 852-856
-
-
McClelland, M.1
Sanderson, K.E.2
Spieth, J.3
Clifton, S.W.4
Latreille, P.5
Courtney, L.6
-
23
-
-
0021191674
-
Insertion and fate of the cell wall in Bacillus subtilis
-
Mobley H.L., Koch A.L., Doyle R.J., Streips U.N. Insertion and fate of the cell wall in Bacillus subtilis. Journal of Bacteriology 1984, 58:169-179.
-
(1984)
Journal of Bacteriology
, vol.58
, pp. 169-179
-
-
Mobley, H.L.1
Koch, A.L.2
Doyle, R.J.3
Streips, U.N.4
-
25
-
-
34249904963
-
Targeted molecular dynamics simulation studies of binding and conformational changes in E. coli MurD
-
Perdih A., Kotnik M., Hodoscek M., Solmajer T. Targeted molecular dynamics simulation studies of binding and conformational changes in E. coli MurD. Proteins 2007, 68:243-254.
-
(2007)
Proteins
, vol.68
, pp. 243-254
-
-
Perdih, A.1
Kotnik, M.2
Hodoscek, M.3
Solmajer, T.4
-
26
-
-
84555223675
-
MurD ligase from Escherichia coli: C-terminal domain closing motion
-
Perdih A., Solmajer T. MurD ligase from Escherichia coli: C-terminal domain closing motion. Computational and Theoretical Chemistry 2012, 979:73-81.
-
(2012)
Computational and Theoretical Chemistry
, vol.979
, pp. 73-81
-
-
Perdih, A.1
Solmajer, T.2
-
27
-
-
84858077472
-
The Pfam protein families database
-
Punta M., Coggill P.C., Eberhardt R.Y., Mistry J., Tate J., Boursnell C., et al. The Pfam protein families database. Nucleic Acids Research 2012, 40:D290-D301.
-
(2012)
Nucleic Acids Research
, vol.40
, pp. D290-D301
-
-
Punta, M.1
Coggill, P.C.2
Eberhardt, R.Y.3
Mistry, J.4
Tate, J.5
Boursnell, C.6
-
28
-
-
0027136282
-
Comparative protein modeling by satisfaction of spatial restraints
-
Sali A., Blundell T.L. Comparative protein modeling by satisfaction of spatial restraints. Journal of Molecular Biology 1993, 5:779-815.
-
(1993)
Journal of Molecular Biology
, vol.5
, pp. 779-815
-
-
Sali, A.1
Blundell, T.L.2
-
29
-
-
0008819754
-
The GROMOS bimolecular simulation program package
-
Scott W.R.P., Hunenberger P.H., Tironi I.G., Mark A.E., Billeter S.R., Fennon J., et al. The GROMOS bimolecular simulation program package. Journal of Physical Chemistry A 1999, 103.
-
(1999)
Journal of Physical Chemistry A
, vol.103
-
-
Scott, W.R.P.1
Hunenberger, P.H.2
Tironi, I.G.3
Mark, A.E.4
Billeter, S.R.5
Fennon, J.6
-
30
-
-
84926460755
-
-
Version 1.5.0.4 Schrödinger, LLC
-
The PyMOL Molecular Graphics System, Version 1.5.0.4 Schrödinger, LLC, 2011.
-
(2011)
-
-
-
31
-
-
80052925406
-
Novel 2-thioxothiazolidin-4-one inhibitors of bacterial MurD ligase targeting D-Glu- and diphosphate-binding sites
-
Tomašić T., Kovač A., Simčič M., Blanot D., Grdadolnik S.G., Gobec S., et al. Novel 2-thioxothiazolidin-4-one inhibitors of bacterial MurD ligase targeting D-Glu- and diphosphate-binding sites. European Journal of Medicinal Chemistry 2011, 46:3964-3975.
-
(2011)
European Journal of Medicinal Chemistry
, vol.46
, pp. 3964-3975
-
-
Tomašić, T.1
Kovač, A.2
Simčič, M.3
Blanot, D.4
Grdadolnik, S.G.5
Gobec, S.6
-
33
-
-
34547566446
-
ProSA-web: interactive web service for the recognition of errors in three-dimensional structures of proteins
-
W407-10
-
Wiederstein M., Sippl M.J. ProSA-web: interactive web service for the recognition of errors in three-dimensional structures of proteins. Nucleic Acids Research 2007, W407-10.
-
(2007)
Nucleic Acids Research
-
-
Wiederstein, M.1
Sippl, M.J.2
-
34
-
-
84877145670
-
Cooperation of the multidrug efflux pump and lipopolysaccharides in the intrinsic antibiotic resistance of Salmonella enterica serovar Typhimurium
-
Yamasaki S., Nagasawa S., Fukushima A., Hayashi-Nishino M., Nishino K. Cooperation of the multidrug efflux pump and lipopolysaccharides in the intrinsic antibiotic resistance of Salmonella enterica serovar Typhimurium. Journal of Antimicrobial Chemotherapy 2013, 68:1066-1070.
-
(2013)
Journal of Antimicrobial Chemotherapy
, vol.68
, pp. 1066-1070
-
-
Yamasaki, S.1
Nagasawa, S.2
Fukushima, A.3
Hayashi-Nishino, M.4
Nishino, K.5
|