-
1
-
-
0030986177
-
Cross-validated maximum likelihood enhances crystallographic simulated annealing refinement
-
Adams P.D., Pannu N.S., Read R.J., Brunger A.T. Cross-validated maximum likelihood enhances crystallographic simulated annealing refinement. Proc. Natl. Acad. Sci. USA. 94:1997;5018-5023
-
(1997)
Proc. Natl. Acad. Sci. USA
, vol.94
, pp. 5018-5023
-
-
Adams, P.D.1
Pannu, N.S.2
Read, R.J.3
Brunger, A.T.4
-
2
-
-
0035896033
-
The crystal structure of dTDP-D-glucose 4,6-dehydratase (RmlB) from Salmonella enterica serovar Typhimurium, the second enzyme in the dTDP-L-rhamnose pathway
-
Allard S.T., Giraud M.F., Whitfield C., Graninger M., Messner P., Naismith J.H. The crystal structure of dTDP-D-glucose 4,6-dehydratase (RmlB) from Salmonella enterica serovar Typhimurium, the second enzyme in the dTDP-L-rhamnose pathway. J. Mol. Biol. 307:2001;283-295
-
(2001)
J. Mol. Biol.
, vol.307
, pp. 283-295
-
-
Allard, S.T.1
Giraud, M.F.2
Whitfield, C.3
Graninger, M.4
Messner, P.5
Naismith, J.H.6
-
3
-
-
0036151285
-
Toward a structural understanding of the dehydratase mechanism
-
Allard S.T., Beis K., Giraud M.F., Hegeman A.D., Gross J.W., Wilmouth R.C., Whitfield C., Graninger M., Messner P., Allen A.G., et al. Toward a structural understanding of the dehydratase mechanism. Structure. 10:2002;81-92
-
(2002)
Structure
, vol.10
, pp. 81-92
-
-
Allard, S.T.1
Beis, K.2
Giraud, M.F.3
Hegeman, A.D.4
Gross, J.W.5
Wilmouth, R.C.6
Whitfield, C.7
Graninger, M.8
Messner, P.9
Allen, A.G.10
-
4
-
-
0020731864
-
Rates of enzyme-catalyzed exchange determined by two-dimensional NMR: A study of glucose 6-phosphate anomerization and isomerization
-
Balaban R.S., Ferretti J.A. Rates of enzyme-catalyzed exchange determined by two-dimensional NMR. a study of glucose 6-phosphate anomerization and isomerization Proc. Natl. Acad. Sci. USA. 80:1983;1241-1245
-
(1983)
Proc. Natl. Acad. Sci. USA
, vol.80
, pp. 1241-1245
-
-
Balaban, R.S.1
Ferretti, J.A.2
-
5
-
-
0030808276
-
6-Phospho-α-D-glucosidase from Fusobacterium mortiferum: Cloning, expression, and assignment to Family 4 of the glycosylhydrolases
-
Bouma C.L., Reizer J., Reizer A., Robrish S.A., Thompson J. 6-Phospho-α-D-glucosidase from Fusobacterium mortiferum. cloning, expression, and assignment to Family 4 of the glycosylhydrolases J. Bacteriol. 179:1997;4129-4137
-
(1997)
J. Bacteriol.
, vol.179
, pp. 4129-4137
-
-
Bouma, C.L.1
Reizer, J.2
Reizer, A.3
Robrish, S.A.4
Thompson, J.5
-
6
-
-
0023140814
-
Crystallographic R factor refinement by molecular dynamics
-
Brunger A.T., Kuriyan J., Karplus M. Crystallographic R factor refinement by molecular dynamics. Science. 235:1987;458-460
-
(1987)
Science
, vol.235
, pp. 458-460
-
-
Brunger, A.T.1
Kuriyan, J.2
Karplus, M.3
-
7
-
-
0037779017
-
Automated crystallographic system for high-throughput protein structure determination
-
Brunzelle J.S., Shafaee P., Yang X., Weigand S., Ren Z., Anderson W.F. Automated crystallographic system for high-throughput protein structure determination. Acta Crystallogr. D Biol. Crystallogr. 59:2003;1138-1144
-
(2003)
Acta Crystallogr. D Biol. Crystallogr.
, vol.59
, pp. 1138-1144
-
-
Brunzelle, J.S.1
Shafaee, P.2
Yang, X.3
Weigand, S.4
Ren, Z.5
Anderson, W.F.6
-
8
-
-
0016356440
-
Three-dimensional structure of D-glyceraldehyde-3-phosphate dehydrogenase
-
Buehner M., Ford G.C., Olsen K.W., Moras D., Rossmann M.G. Three-dimensional structure of D-glyceraldehyde-3-phosphate dehydrogenase. J. Mol. Biol. 90:1974;25-49
-
(1974)
J. Mol. Biol.
, vol.90
, pp. 25-49
-
-
Buehner, M.1
Ford, G.C.2
Olsen, K.W.3
Moras, D.4
Rossmann, M.G.5
-
9
-
-
0024297354
-
Multiple sequence alignment with hierarchical clustering
-
Corpet F. Multiple sequence alignment with hierarchical clustering. Nucleic Acids Res. 16:1998;10881-10890
-
(1998)
Nucleic Acids Res.
, vol.16
, pp. 10881-10890
-
-
Corpet, F.1
-
10
-
-
0001973467
-
Carbohydrate-active enzymes: An integrated database approach
-
H.J. Gilbert, G.J. Davies, B. Svensson, & B. Henrissat. Cambridge, UK: Royal Society of Chemistry
-
Coutinho P.M., Henrissat B. Carbohydrate-active enzymes. an integrated database approach Gilbert H.J., Davies G.J., Svensson B., Henrissat B. Recent Advances in Carbohydrate Engineering. 1999;3-12 Royal Society of Chemistry, Cambridge, UK
-
(1999)
Recent Advances in Carbohydrate Engineering
, pp. 3-12
-
-
Coutinho, P.M.1
Henrissat, B.2
-
11
-
-
0036922069
-
High throughput methods for gene cloning and expression
-
Dieckman L., Gu M., Stols L., Donnelly M.I., Collart F.R. High throughput methods for gene cloning and expression. Protein Expr. Purif. 25:2002;1-7
-
(2002)
Protein Expr. Purif.
, vol.25
, pp. 1-7
-
-
Dieckman, L.1
Gu, M.2
Stols, L.3
Donnelly, M.I.4
Collart, F.R.5
-
12
-
-
0031045585
-
Preparation of selenomethionyl proteins for phase determination
-
Doublie S. Preparation of selenomethionyl proteins for phase determination. Methods Enzymol. 276:1997;523-530
-
(1997)
Methods Enzymol.
, vol.276
, pp. 523-530
-
-
Doublie, S.1
-
13
-
-
0030294274
-
The structure of lactate dehydrogenase from Plasmodium falciparum reveals a new target for anti-malarial design
-
Dunn C.R., Banfield M.J., Barker J.J., Higham C.W., Moreton K.M., Turgut-Balik D., Brady R.L., Holbrook J.J. The structure of lactate dehydrogenase from Plasmodium falciparum reveals a new target for anti-malarial design. Nat. Struct. Biol. 3:1996;912-915
-
(1996)
Nat. Struct. Biol.
, vol.3
, pp. 912-915
-
-
Dunn, C.R.1
Banfield, M.J.2
Barker, J.J.3
Higham, C.W.4
Moreton, K.M.5
Turgut-Balik, D.6
Brady, R.L.7
Holbrook, J.J.8
-
14
-
-
0030729838
-
An extensively modified version of MolScript that includes generally enhanced coloring capabilities
-
Esnouf R.M. An extensively modified version of MolScript that includes generally enhanced coloring capabilities. J. Mol. Graph. Model. 15:1997;132-134
-
(1997)
J. Mol. Graph. Model.
, vol.15
, pp. 132-134
-
-
Esnouf, R.M.1
-
15
-
-
0032961270
-
ESPript: Analysis of multiple sequence alignments in PostScript
-
Gouet P., Courcelle E., Stuart D.I., Metoz F. ESPript. analysis of multiple sequence alignments in PostScript Bioinformatics. 15:1999;305-308
-
(1999)
Bioinformatics
, vol.15
, pp. 305-308
-
-
Gouet, P.1
Courcelle, E.2
Stuart, D.I.3
Metoz, F.4
-
16
-
-
0031473847
-
SWISS-MODEL and the Swiss-PdbViewer: An environment for comparative protein modeling
-
Guex N., Peitsch M.C. SWISS-MODEL and the Swiss-PdbViewer. an environment for comparative protein modeling Electrophoresis. 18:1997;2714-2723
-
(1997)
Electrophoresis
, vol.18
, pp. 2714-2723
-
-
Guex, N.1
Peitsch, M.C.2
-
17
-
-
0027302991
-
Crystal structure of a ternary complex of Escherichia coli malate dehydrogenase citrate and NAD at 1.9 Å resolution
-
Hall M.D., Banaszak L.J. Crystal structure of a ternary complex of Escherichia coli malate dehydrogenase citrate and NAD at 1.9 Å resolution. J. Mol. Biol. 232:1993;213-222
-
(1993)
J. Mol. Biol.
, vol.232
, pp. 213-222
-
-
Hall, M.D.1
Banaszak, L.J.2
-
18
-
-
0035094475
-
Geometry of metal-ligand interactions in proteins
-
Harding M.M. Geometry of metal-ligand interactions in proteins. Acta Crystallogr. D Biol. Crystallogr. 57:2001;401-411
-
(2001)
Acta Crystallogr. D Biol. Crystallogr.
, vol.57
, pp. 401-411
-
-
Harding, M.M.1
-
19
-
-
0027440362
-
Protein structure comparison by alignment of distance matrices
-
Holm L., Sander C. Protein structure comparison by alignment of distance matrices. J. Mol. Biol. 233:1993;123-138
-
(1993)
J. Mol. Biol.
, vol.233
, pp. 123-138
-
-
Holm, L.1
Sander, C.2
-
20
-
-
84979146389
-
Stereochemistry and the mechanism of enzymatic reactions
-
Koshland D.E. Stereochemistry and the mechanism of enzymatic reactions. Biol. Rev. Cam. Phil. Soc. 28:1953;416-436
-
(1953)
Biol. Rev. Cam. Phil. Soc.
, vol.28
, pp. 416-436
-
-
Koshland, D.E.1
-
21
-
-
0026244229
-
MOLSCRIPT - A program to produce both detailed and schematic plots of protein structures
-
Kraulis P.J. MOLSCRIPT - a program to produce both detailed and schematic plots of protein structures. J. Appl. Crystallogr. 24:1991;946-950
-
(1991)
J. Appl. Crystallogr.
, vol.24
, pp. 946-950
-
-
Kraulis, P.J.1
-
22
-
-
0030690274
-
Sequencing and functional annotation of the Bacillus subtilis genes in the 200 kb rrnB-dnaB region
-
Lapidus A., Galleron N., Sorokin A., Ehrlich S.D. Sequencing and functional annotation of the Bacillus subtilis genes in the 200 kb rrnB-dnaB region. Microbiol. 143:1997;3431-3441
-
(1997)
Microbiol.
, vol.143
, pp. 3431-3441
-
-
Lapidus, A.1
Galleron, N.2
Sorokin, A.3
Ehrlich, S.D.4
-
23
-
-
0037042303
-
α-1,4-Glucan lyase performs a trans-elimination via a nucleophilic displacement followed by a syn-elimination
-
Lee S.S., Yu S., Withers S.G. α-1,4-Glucan lyase performs a trans-elimination via a nucleophilic displacement followed by a syn-elimination. J. Am. Chem. Soc. 124:2002;4948-4949
-
(2002)
J. Am. Chem. Soc.
, vol.124
, pp. 4948-4949
-
-
Lee, S.S.1
Yu, S.2
Withers, S.G.3
-
25
-
-
1442323777
-
High-resolution crystal structure of Arthrobacter aurescens chondroitin AC lyase: An enzyme-substrate complex defines the catalytic mechanism
-
Lunin V.V., Li Y., Linhardt R.J., Miyazono H., Kyogashima M., Kaneko T., Bell A.W., Cygler M. High-resolution crystal structure of Arthrobacter aurescens chondroitin AC lyase. an enzyme-substrate complex defines the catalytic mechanism J. Mol. Biol. 337:2004;367-386
-
(2004)
J. Mol. Biol.
, vol.337
, pp. 367-386
-
-
Lunin, V.V.1
Li, Y.2
Linhardt, R.J.3
Miyazono, H.4
Kyogashima, M.5
Kaneko, T.6
Bell, A.W.7
Cygler, M.8
-
26
-
-
0032790081
-
XtalView/Xfit - A versatile program for manipulating atomic coordinates and electron density
-
McRee D.E. XtalView/Xfit - a versatile program for manipulating atomic coordinates and electron density. J. Struct. Biol. 125:1999;156-165
-
(1999)
J. Struct. Biol.
, vol.125
, pp. 156-165
-
-
McRee, D.E.1
-
27
-
-
0025338715
-
The bacterial phosphoenol-pyruvate: Glycose phosphotransferase system
-
Meadow N.D., Fox D.K., Roseman S. The bacterial phosphoenol-pyruvate. glycose phosphotransferase system Annu. Rev. Biochem. 59:1990;497-542
-
(1990)
Annu. Rev. Biochem.
, vol.59
, pp. 497-542
-
-
Meadow, N.D.1
Fox, D.K.2
Roseman, S.3
-
28
-
-
0030815133
-
Raster3D: Photorealistic molecular graphics
-
Merritt E.A., Bacon D.J. Raster3D. photorealistic molecular graphics Methods Enzymol. 277:1997;505-524
-
(1997)
Methods Enzymol.
, vol.277
, pp. 505-524
-
-
Merritt, E.A.1
Bacon, D.J.2
-
30
-
-
0031059866
-
Processing of X-ray diffraction data collected in oscillation mode
-
Otwinowski Z., Minor W. Processing of X-ray diffraction data collected in oscillation mode. Methods Enzymol. 276:1997;307-326
-
(1997)
Methods Enzymol.
, vol.276
, pp. 307-326
-
-
Otwinowski, Z.1
Minor, W.2
-
31
-
-
0037165653
-
+ binding by the Thermotoga maritima α-glucosidase AglA, a member of glycoside hydrolase family 4
-
+ binding by the Thermotoga maritima α-glucosidase AglA, a member of glycoside hydrolase family 4. FEBS Lett. 517:2002;267-271
-
(2002)
FEBS Lett.
, vol.517
, pp. 267-271
-
-
Raasch, C.1
Armbrecht, M.2
Streit, W.3
Höcker, B.4
Sträter, N.5
Liebl, W.6
-
32
-
-
0036926615
-
A new vector for high-throughput, ligation-independent cloning encoding a tobacco etch virus protease cleavage site
-
Stols L., Gu M., Dieckman L., Raffen R., Collart F.R., Donnelly M.I. A new vector for high-throughput, ligation-independent cloning encoding a tobacco etch virus protease cleavage site. Protein Expr. Purif. 25:2002;8-15
-
(2002)
Protein Expr. Purif.
, vol.25
, pp. 8-15
-
-
Stols, L.1
Gu, M.2
Dieckman, L.3
Raffen, R.4
Collart, F.R.5
Donnelly, M.I.6
-
34
-
-
0034673977
-
Crystallographic evidence for Tyr 157 functioning as the active site base in human UDP-galactose 4-epimerase
-
Thoden J.B., Wohlers T.M., Fridovich-Keil J.L., Holden H.M. Crystallographic evidence for Tyr 157 functioning as the active site base in human UDP-galactose 4-epimerase. Biochemistry. 39:2000;5691-5701
-
(2000)
Biochemistry
, vol.39
, pp. 5691-5701
-
-
Thoden, J.B.1
Wohlers, T.M.2
Fridovich-Keil, J.L.3
Holden, H.M.4
-
35
-
-
0029002443
-
Purification from Fusobacterium mortiferum ATCC-25557 of a 6-phosphoryl-O-α-D-glucopyranosyl:6-phosphoglucohydrolase that hydrolyzes maltose-6′-phosphate and related phospho-α-D-glucosides
-
Thompson J., Gentry-Weeks C.R., Nguyen N.Y., Folk J.E., Robrish S.A. Purification from Fusobacterium mortiferum ATCC-25557 of a 6-phosphoryl-O- α-D-glucopyranosyl:6-phosphoglucohydrolase that hydrolyzes maltose-6′-phosphate and related phospho-α-D-glucosides. J. Bacteriol. 177:1995;2505-2512
-
(1995)
J. Bacteriol.
, vol.177
, pp. 2505-2512
-
-
Thompson, J.1
Gentry-Weeks, C.R.2
Nguyen, N.Y.3
Folk, J.E.4
Robrish, S.A.5
-
36
-
-
0032538629
-
The gene glvA of Bacillus subtilis 168 encodes a metal-requiring, NAD(H)-dependent 6-phospho-α-glucosidase - Assignment to Family 4 of the glycosylhydrolase superfamily
-
Thompson J., Pikis A., Ruvinov S.B., Henrissat B., Yamamoto H., Sekiguchi J. The gene glvA of Bacillus subtilis 168 encodes a metal-requiring, NAD(H)-dependent 6-phospho-α-glucosidase - assignment to Family 4 of the glycosylhydrolase superfamily. J. Biol. Chem. 273:1998;27347-27356
-
(1998)
J. Biol. Chem.
, vol.273
, pp. 27347-27356
-
-
Thompson, J.1
Pikis, A.2
Ruvinov, S.B.3
Henrissat, B.4
Yamamoto, H.5
Sekiguchi, J.6
-
37
-
-
0032726299
-
Cellobiose-6-phosphate hydrolase (CelF) of Escherichia coli: Characterization and assignment to the unusual Family 4 of glycosylhydrolases
-
Thompson J., Ruvinov S.B., Freedberg D.I., Hall B.G. Cellobiose-6- phosphate hydrolase (CelF) of Escherichia coli. characterization and assignment to the unusual Family 4 of glycosylhydrolases J. Bacteriol. 181:1999;7339-7345
-
(1999)
J. Bacteriol.
, vol.181
, pp. 7339-7345
-
-
Thompson, J.1
Ruvinov, S.B.2
Freedberg, D.I.3
Hall, B.G.4
-
38
-
-
0035813174
-
Metabolism of sucrose and its five linkage-isomeric α-D-glucosyl-D- fructoses by Klebsiella pneumoniae - Participation and properties of sucrose-6-phosphate hydrolase and phospho-α-glucosidase
-
a
-
Thompson J., Robrish S.A., Immel S., Lichtenthaler F.W., Hall B.G., Pikis A. Metabolism of sucrose and its five linkage-isomeric α-D-glucosyl-D- fructoses by Klebsiella pneumoniae - participation and properties of sucrose-6-phosphate hydrolase and phospho-α-glucosidase. J. Biol. Chem. 276:2001;37415-37425. a
-
(2001)
J. Biol. Chem.
, vol.276
, pp. 37415-37425
-
-
Thompson, J.1
Robrish, S.A.2
Immel, S.3
Lichtenthaler, F.W.4
Hall, B.G.5
Pikis, A.6
-
39
-
-
0035932526
-
Phosphorylation and metabolism of sucrose and its five linkage-isomeric α-D-glucosyl-D-fructoses by Klebsiella pneumoniae
-
b
-
Thompson J., Robrish S.A., Pikis A., Brust A., Lichtenthaler F.W. Phosphorylation and metabolism of sucrose and its five linkage-isomeric α-D-glucosyl-D-fructoses by Klebsiella pneumoniae. Carbohydr. Res. 331:2001;149-161. b
-
(2001)
Carbohydr. Res.
, vol.331
, pp. 149-161
-
-
Thompson, J.1
Robrish, S.A.2
Pikis, A.3
Brust, A.4
Lichtenthaler, F.W.5
-
40
-
-
13044263110
-
Crystallization and preliminary X-ray analysis of the 6-phospho-α-glucosidase from Bacillus subtilis
-
Varrot A., Yamamoto H., Sekiguchi J., Thompson J., Davies G.J. Crystallization and preliminary X-ray analysis of the 6-phospho-α- glucosidase from Bacillus subtilis. Acta Crystallogr. D Biol. Crystallogr. 55:1999;1212-1214
-
(1999)
Acta Crystallogr. D Biol. Crystallogr.
, vol.55
, pp. 1212-1214
-
-
Varrot, A.1
Yamamoto, H.2
Sekiguchi, J.3
Thompson, J.4
Davies, G.J.5
-
41
-
-
0016285069
-
The β-glucoside system of Escherichia coli. IV. Purification and properties of phospho-β-glucosidases a and B
-
Wilson G., Fox C.F. The β-glucoside system of Escherichia coli. IV. Purification and properties of phospho-β-glucosidases A and B. J. Biol. Chem. 249:1974;5586-5598
-
(1974)
J. Biol. Chem.
, vol.249
, pp. 5586-5598
-
-
Wilson, G.1
Fox, C.F.2
-
42
-
-
0034891768
-
Regulation of the glv operon in Bacillus subtilis: YfiA (GlvR) is a positive regulator of the operon that is repressed through CcpA and cre
-
Yamamoto H., Serizawa M., Thompson J., Sekiguchi J. Regulation of the glv operon in Bacillus subtilis. YfiA (GlvR) is a positive regulator of the operon that is repressed through CcpA and cre J. Bacteriol. 183:2001;5110-5121
-
(2001)
J. Bacteriol.
, vol.183
, pp. 5110-5121
-
-
Yamamoto, H.1
Serizawa, M.2
Thompson, J.3
Sekiguchi, J.4
-
43
-
-
3142761743
-
An unusual mechanism of glycoside hydrolysis involving redox and elimination steps by a family 4 β-glycosidase from Thermotoga maritima
-
Yip V.L.Y., Varrot A., Davies G.J., Rajan S.S., Yang X., Thompson J., Anderson W.F., Withers S.G. An unusual mechanism of glycoside hydrolysis involving redox and elimination steps by a family 4 β-glycosidase from Thermotoga maritima. J. Am. Chem. Soc. 126:2004;8354-8355
-
(2004)
J. Am. Chem. Soc.
, vol.126
, pp. 8354-8355
-
-
Yip, V.L.Y.1
Varrot, A.2
Davies, G.J.3
Rajan, S.S.4
Yang, X.5
Thompson, J.6
Anderson, W.F.7
Withers, S.G.8
-
44
-
-
0033963529
-
Glycosidase mechanisms: Anatomy of a finely tuned catalyst
-
Zechel D.L., Withers S.G. Glycosidase mechanisms. anatomy of a finely tuned catalyst Acc. Chem. Res. 33:2000;11-18
-
(2000)
Acc. Chem. Res.
, vol.33
, pp. 11-18
-
-
Zechel, D.L.1
Withers, S.G.2
|