-
1
-
-
0008796214
-
Cold-adapted microorganisms: adaptation strategies and biotechnological potential
-
Bitton G. (Ed), John Wiley and Sons, New York
-
Margesin R., Feller G., Gerday C., and Russel N. Cold-adapted microorganisms: adaptation strategies and biotechnological potential. In: Bitton G. (Ed). The Encyclopedia of Environmental Microbiology (2002), John Wiley and Sons, New York 871-885
-
(2002)
The Encyclopedia of Environmental Microbiology
, pp. 871-885
-
-
Margesin, R.1
Feller, G.2
Gerday, C.3
Russel, N.4
-
2
-
-
10744230827
-
Some like it cold: biocatalysis at low temperatures
-
Georlette D., Blaise V., Collins T., D'Amico S., Gratia E., Hoyoux A., Marx J.C., Sonan G., Feller G., and Gerday C. Some like it cold: biocatalysis at low temperatures. FEMS Microbiol. Rev. 28 (2004) 25-42
-
(2004)
FEMS Microbiol. Rev.
, vol.28
, pp. 25-42
-
-
Georlette, D.1
Blaise, V.2
Collins, T.3
D'Amico, S.4
Gratia, E.5
Hoyoux, A.6
Marx, J.C.7
Sonan, G.8
Feller, G.9
Gerday, C.10
-
4
-
-
0034159939
-
Cold-adapted enzymes: from fundamentals to biotechnology
-
Gerday C., Aittaleb M., Bentahir M., Chessa J.P., Claverie P., Collins T., D'Amico S., Dumont J., Garsoux G., Georlette D., Hoyoux A., Lonhienne T., Meuwis M.A., and Feller G. Cold-adapted enzymes: from fundamentals to biotechnology. Trends Biotechnol. 18 (2000) 103-107
-
(2000)
Trends Biotechnol.
, vol.18
, pp. 103-107
-
-
Gerday, C.1
Aittaleb, M.2
Bentahir, M.3
Chessa, J.P.4
Claverie, P.5
Collins, T.6
D'Amico, S.7
Dumont, J.8
Garsoux, G.9
Georlette, D.10
Hoyoux, A.11
Lonhienne, T.12
Meuwis, M.A.13
Feller, G.14
-
6
-
-
0034973280
-
Protein function at thermal extremes: balancing stability and flexibility
-
Fields P.A. Protein function at thermal extremes: balancing stability and flexibility. Comp. Biochem. Physiol., A. Mol. Integr. Physiol. 129 (2001) 417-431
-
(2001)
Comp. Biochem. Physiol., A. Mol. Integr. Physiol.
, vol.129
, pp. 417-431
-
-
Fields, P.A.1
-
7
-
-
0032530086
-
Hot spots in cold adaptation: localized increases in conformational flexibility in lactate dehydrogenase A4 orthologs of Antarctic notothenioid fishes
-
Fields P.A., and Somero G.N. Hot spots in cold adaptation: localized increases in conformational flexibility in lactate dehydrogenase A4 orthologs of Antarctic notothenioid fishes. Proc. Natl. Acad. Sci. U. S. A. 95 (1998) 11476-11481
-
(1998)
Proc. Natl. Acad. Sci. U. S. A.
, vol.95
, pp. 11476-11481
-
-
Fields, P.A.1
Somero, G.N.2
-
8
-
-
0034615775
-
Directed evolution study of temperature adaptation in a psychrophilic enzyme
-
Miyazaki K., Wintrode P.L., Grayling R.A., Rubingh D.N., and Arnold F.H. Directed evolution study of temperature adaptation in a psychrophilic enzyme. J. Mol. Biol. 297 (2000) 1015-1026
-
(2000)
J. Mol. Biol.
, vol.297
, pp. 1015-1026
-
-
Miyazaki, K.1
Wintrode, P.L.2
Grayling, R.A.3
Rubingh, D.N.4
Arnold, F.H.5
-
9
-
-
23844458318
-
Increased flexibility as a strategy for cold adaptation. A comparative molecular dynamics study of cold- and warm-active uracil DNA glycosylase
-
Olufsen M., Smalas A.O., Moe E., and Brandsdal B.O. Increased flexibility as a strategy for cold adaptation. A comparative molecular dynamics study of cold- and warm-active uracil DNA glycosylase. J. Biol. Chem. 280 (2005) 18042-18048
-
(2005)
J. Biol. Chem.
, vol.280
, pp. 18042-18048
-
-
Olufsen, M.1
Smalas, A.O.2
Moe, E.3
Brandsdal, B.O.4
-
10
-
-
0037342768
-
Crystal structures of a psychrophilic metalloprotease reveal new insights into catalysis by cold-adapted proteases
-
Aghajari N., Van Petegem F., Villeret V., Chessa J.P., Gerday C., Hasen R., and Van Beeuman J. Crystal structures of a psychrophilic metalloprotease reveal new insights into catalysis by cold-adapted proteases. Proteins 50 (2003) 636-647
-
(2003)
Proteins
, vol.50
, pp. 636-647
-
-
Aghajari, N.1
Van Petegem, F.2
Villeret, V.3
Chessa, J.P.4
Gerday, C.5
Hasen, R.6
Van Beeuman, J.7
-
11
-
-
0037470085
-
The structure of a cold-adapted family 8 xylanase at 1.3 Å resolution, structural adaptations to cold and investigation of the active site
-
Van Petegem F., Collins T., Meuwis M.A., Gerday C., Feller G., and Van Beeuman J. The structure of a cold-adapted family 8 xylanase at 1.3 Å resolution, structural adaptations to cold and investigation of the active site. J. Biol. Chem. 278 (2003) 7531-7539
-
(2003)
J. Biol. Chem.
, vol.278
, pp. 7531-7539
-
-
Van Petegem, F.1
Collins, T.2
Meuwis, M.A.3
Gerday, C.4
Feller, G.5
Van Beeuman, J.6
-
12
-
-
0035983513
-
The 1.9 Å crystal structure of heat-labile shrimp alkaline phosphatase
-
de Backer M., McSweeney S., Rasmussen H.B., Riise B.W., Lindley P., and Hough E. The 1.9 Å crystal structure of heat-labile shrimp alkaline phosphatase. J. Mol. Biol. 318 (2002) 1265-1274
-
(2002)
J. Mol. Biol.
, vol.318
, pp. 1265-1274
-
-
de Backer, M.1
McSweeney, S.2
Rasmussen, H.B.3
Riise, B.W.4
Lindley, P.5
Hough, E.6
-
13
-
-
0028033122
-
Cold adaptation of enzymes: structural comparison between salmon and bovine trypsins
-
Smalas A.O., Heimstad E.S., Hordvik A., Willassen N.P., and Male R. Cold adaptation of enzymes: structural comparison between salmon and bovine trypsins. Proteins 20 (1994) 149-166
-
(1994)
Proteins
, vol.20
, pp. 149-166
-
-
Smalas, A.O.1
Heimstad, E.S.2
Hordvik, A.3
Willassen, N.P.4
Male, R.5
-
14
-
-
0029187318
-
Structure of native pancreatic elastase from North Atlantic salmon at 1.61 Å resolution
-
Berglund G.I., Willassen N.P., Horvik A., and Smalas A.O. Structure of native pancreatic elastase from North Atlantic salmon at 1.61 Å resolution. Acta Crystallogr., D Biol. Crystallogr. D 51 (1995) 925-937
-
(1995)
Acta Crystallogr., D Biol. Crystallogr. D
, vol.51
, pp. 925-937
-
-
Berglund, G.I.1
Willassen, N.P.2
Horvik, A.3
Smalas, A.O.4
-
15
-
-
0034765691
-
Crystallization and preliminary X-ray diffraction analysis of a cold-adapted uracil-DNA glycosylase from Atlantic cod (Gadus morhua)
-
Leiros I., Lanes O., Sundheim O., Helland R., Smalas A.O., and Willassen N.P. Crystallization and preliminary X-ray diffraction analysis of a cold-adapted uracil-DNA glycosylase from Atlantic cod (Gadus morhua). Acta Crystallogr., Sect. D: Biol. Crystallogr. 57 (2001) 1706-1708
-
(2001)
Acta Crystallogr., Sect. D: Biol. Crystallogr.
, vol.57
, pp. 1706-1708
-
-
Leiros, I.1
Lanes, O.2
Sundheim, O.3
Helland, R.4
Smalas, A.O.5
Willassen, N.P.6
-
17
-
-
0033946342
-
A DNA ligase from the psychrophile Pseudoalteromonas haloplanktis gives insights into the adaptation of proteins to low temperatures
-
Georlette D., Jonsson Z.O., Van Petegem F., Chessa J., Van Beeumen J., Hubscher U., and Gerday C. A DNA ligase from the psychrophile Pseudoalteromonas haloplanktis gives insights into the adaptation of proteins to low temperatures. Eur. J. Biochem. 267 (2000) 3502-3512
-
(2000)
Eur. J. Biochem.
, vol.267
, pp. 3502-3512
-
-
Georlette, D.1
Jonsson, Z.O.2
Van Petegem, F.3
Chessa, J.4
Van Beeumen, J.5
Hubscher, U.6
Gerday, C.7
-
18
-
-
0005492283
-
Structural comparison of psychrophilic and mesophilic trypsins. Elucidating the molecular basis of cold-adaptation
-
Leiros H.K., Willassen N.P., and Smalas A.O. Structural comparison of psychrophilic and mesophilic trypsins. Elucidating the molecular basis of cold-adaptation. Eur. J. Biochem. 267 (2000) 1039-1049
-
(2000)
Eur. J. Biochem.
, vol.267
, pp. 1039-1049
-
-
Leiros, H.K.1
Willassen, N.P.2
Smalas, A.O.3
-
19
-
-
4043175563
-
Different roles of electrostatics in heat and in cold: adaptation by citrate synthase
-
Kumar S., and Nussinov R. Different roles of electrostatics in heat and in cold: adaptation by citrate synthase. Chembiochem 5 (2004) 280-290
-
(2004)
Chembiochem
, vol.5
, pp. 280-290
-
-
Kumar, S.1
Nussinov, R.2
-
20
-
-
0032521220
-
Structural adaptations of the cold-active citrate synthase from an Antarctic bacterium
-
Russell R.J., Gerike U., Danson M.J., Hough D.W., and Taylor G.L. Structural adaptations of the cold-active citrate synthase from an Antarctic bacterium. Structure 6 (1998) 351-361
-
(1998)
Structure
, vol.6
, pp. 351-361
-
-
Russell, R.J.1
Gerike, U.2
Danson, M.J.3
Hough, D.W.4
Taylor, G.L.5
-
21
-
-
0036568335
-
Comparative structural analysis of psychrophilic and meso- and thermophilic enzymes
-
Gianese G., Bossa F., and Pascarella S. Comparative structural analysis of psychrophilic and meso- and thermophilic enzymes. Proteins 47 (2002) 236-249
-
(2002)
Proteins
, vol.47
, pp. 236-249
-
-
Gianese, G.1
Bossa, F.2
Pascarella, S.3
-
22
-
-
0034997442
-
Structural adaptation of enzymes to low temperatures
-
Gianese G., Argos P., and Pascarella S. Structural adaptation of enzymes to low temperatures. Protein Eng. 14 (2001) 141-148
-
(2001)
Protein Eng.
, vol.14
, pp. 141-148
-
-
Gianese, G.1
Argos, P.2
Pascarella, S.3
-
23
-
-
33747770055
-
Effects of calcium binding on structure and autolysis regulation in trypsins. A molecular dynamics investigation
-
Papaleo E., Fantucci P., and De Gioia L. Effects of calcium binding on structure and autolysis regulation in trypsins. A molecular dynamics investigation. J. Chem. Theory and Comput. 1 (2005) 1286-1297
-
(2005)
J. Chem. Theory and Comput.
, vol.1
, pp. 1286-1297
-
-
Papaleo, E.1
Fantucci, P.2
De Gioia, L.3
-
24
-
-
2642569349
-
Probing flexibility and "induced-fit" phenomena in aldose reductase by comparative crystal structure analysis and molecular dynamics simulations
-
Sotriffer C.A., Kramer O., and Klebe G. Probing flexibility and "induced-fit" phenomena in aldose reductase by comparative crystal structure analysis and molecular dynamics simulations. Proteins 56 (2004) 52-66
-
(2004)
Proteins
, vol.56
, pp. 52-66
-
-
Sotriffer, C.A.1
Kramer, O.2
Klebe, G.3
-
25
-
-
3142689719
-
Characterization of the conformational state and flexibility of HIV-1 glycoprotein gp120 core domain
-
Pan Y., Ma B., Keskin O., and Nussinov R. Characterization of the conformational state and flexibility of HIV-1 glycoprotein gp120 core domain. J. Biol. Chem. 279 (2004) 30523-30530
-
(2004)
J. Biol. Chem.
, vol.279
, pp. 30523-30530
-
-
Pan, Y.1
Ma, B.2
Keskin, O.3
Nussinov, R.4
-
26
-
-
1442328108
-
Advances in biomolecular simulations: methodology and recent applications
-
Norberg J., and Nilsson L. Advances in biomolecular simulations: methodology and recent applications. Q. Rev. Biophys. 36 (2003) 257-306
-
(2003)
Q. Rev. Biophys.
, vol.36
, pp. 257-306
-
-
Norberg, J.1
Nilsson, L.2
-
27
-
-
0034979318
-
Biomolecular simulations: recent developments in force fields, simulations of enzyme-catalysis, protein-ligand, protein-protein and protein-nucleic acid noncovalent interactions
-
Wang W., Donini O., Reyes C.M., and Kollman P.A. Biomolecular simulations: recent developments in force fields, simulations of enzyme-catalysis, protein-ligand, protein-protein and protein-nucleic acid noncovalent interactions. Annu. Rev. Biophys. Biomol. Struct. 30 (2001) 211-243
-
(2001)
Annu. Rev. Biophys. Biomol. Struct.
, vol.30
, pp. 211-243
-
-
Wang, W.1
Donini, O.2
Reyes, C.M.3
Kollman, P.A.4
-
29
-
-
0033426952
-
Comparative molecular dynamics of mesophilic and psycrophilic protein homologues studied by 1.2 ns simulations
-
Brandsdal B.O., Heimstad E.S., Sylte I., and Smalas A.O. Comparative molecular dynamics of mesophilic and psycrophilic protein homologues studied by 1.2 ns simulations. J. Biomol. Struct. Dyn. 17 (1999) 493-506
-
(1999)
J. Biomol. Struct. Dyn.
, vol.17
, pp. 493-506
-
-
Brandsdal, B.O.1
Heimstad, E.S.2
Sylte, I.3
Smalas, A.O.4
-
30
-
-
0032102873
-
Purification and characterization of pancreatic elastase from North Atlantic salmon (Salmo salar)
-
Berglund G.I., Smalas A.O., Outzen H., and Willassen N.P. Purification and characterization of pancreatic elastase from North Atlantic salmon (Salmo salar). Mol. Mar. Biol. Biotechnol. 7 (1998) 105-114
-
(1998)
Mol. Mar. Biol. Biotechnol.
, vol.7
, pp. 105-114
-
-
Berglund, G.I.1
Smalas, A.O.2
Outzen, H.3
Willassen, N.P.4
-
31
-
-
33747796384
-
-
D. van der Spoel, A.R. van Buuren, E. Apol, P.J. Meulenhoff, D.P. Tieleman, A.L.T.M. Sijbers, B. Hess, K.A. Feenstra, E. Lindhal, R. van Drunen, H.J.C. Berendsen, Gromacs User Manual version 3.1.1, Internet: www.gromacs.org, (2002).
-
-
-
-
32
-
-
0030977946
-
High-pressure krypton gas and statistical heavy-atom refinement: a successful combination of tools for macromolecular structure determination
-
Schiltz M., Shepard W., Fourme R., Prange T., de la Fortelle E., and Bricogne G. High-pressure krypton gas and statistical heavy-atom refinement: a successful combination of tools for macromolecular structure determination. Acta Crystallogr., Sect. D: Biol. Crystallogr. 53 (1997) 78-92
-
(1997)
Acta Crystallogr., Sect. D: Biol. Crystallogr.
, vol.53
, pp. 78-92
-
-
Schiltz, M.1
Shepard, W.2
Fourme, R.3
Prange, T.4
de la Fortelle, E.5
Bricogne, G.6
-
33
-
-
0029187318
-
Structure of native pancreatic elastase from North Atlantic salmon at 1.61 Å resolution
-
Berglund G.I., Willassen N.P., Hordvik A., and Smalas A.O. Structure of native pancreatic elastase from North Atlantic salmon at 1.61 Å resolution. Acta Crystallogr., Sect. D: Biol. Crystallogr. 51 (1995) 925-937
-
(1995)
Acta Crystallogr., Sect. D: Biol. Crystallogr.
, vol.51
, pp. 925-937
-
-
Berglund, G.I.1
Willassen, N.P.2
Hordvik, A.3
Smalas, A.O.4
-
34
-
-
0003633496
-
-
Reidel, Dordrecht
-
Berendsen H.J.C., Postma J.P.M., van Gusteren W.F., and Hermans J. Interaction Models for Water in Relation to Protein Hydratation (1981), Reidel, Dordrecht 331-342
-
(1981)
Interaction Models for Water in Relation to Protein Hydratation
, pp. 331-342
-
-
Berendsen, H.J.C.1
Postma, J.P.M.2
van Gusteren, W.F.3
Hermans, J.4
-
35
-
-
33750587438
-
Molecular dynamics with coupling to an external bath
-
Berendsen H.J.C., Postma J.P.M., van Gusteren W.F., Di Nola A., and Haak J.R. Molecular dynamics with coupling to an external bath. J. Chem. Phys. 81 (1984) 3684-3690
-
(1984)
J. Chem. Phys.
, vol.81
, pp. 3684-3690
-
-
Berendsen, H.J.C.1
Postma, J.P.M.2
van Gusteren, W.F.3
Di Nola, A.4
Haak, J.R.5
-
37
-
-
33846823909
-
Particle mesh Ewald. An N.log(N) method for Ewald sums in large systems
-
Darden T.A., York D.M., and Pedersen L.G. Particle mesh Ewald. An N.log(N) method for Ewald sums in large systems. J. Chem. Phys. 98 (1993) 10089-10092
-
(1993)
J. Chem. Phys.
, vol.98
, pp. 10089-10092
-
-
Darden, T.A.1
York, D.M.2
Pedersen, L.G.3
-
38
-
-
0015680655
-
Clustering using a similarity measure based on shared nearest neighbours
-
Jarvis R.A., and Patrick E.A. Clustering using a similarity measure based on shared nearest neighbours. IEE Trans. Comp. 11 (1973) 1025-1034
-
(1973)
IEE Trans. Comp.
, vol.11
, pp. 1025-1034
-
-
Jarvis, R.A.1
Patrick, E.A.2
-
39
-
-
0020997912
-
Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features
-
Kabsch W., and Sander C. Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features. Biopolymers 22 (1983) 2577-2637
-
(1983)
Biopolymers
, vol.22
, pp. 2577-2637
-
-
Kabsch, W.1
Sander, C.2
-
41
-
-
33646719091
-
Model-free approach to the interpretation of Nuclear Magnetic Resonance Relaxation in Macromolecules: 1. Theory and Range of Validity
-
Lipari G., and Szabo A. Model-free approach to the interpretation of Nuclear Magnetic Resonance Relaxation in Macromolecules: 1. Theory and Range of Validity. J. Am. Chem. Soc. 104 (1982) 4546-4559
-
(1982)
J. Am. Chem. Soc.
, vol.104
, pp. 4546-4559
-
-
Lipari, G.1
Szabo, A.2
-
42
-
-
0032479048
-
Molecular dynamics of Staphylococcal nuclease: comparison simulation with 15N and 13C NMR Relaxation Data
-
Chatfield D.C., Szabo A., and Brooks B.R. Molecular dynamics of Staphylococcal nuclease: comparison simulation with 15N and 13C NMR Relaxation Data. J. Am. Chem. Soc. 120 (1998) 5301-5311
-
(1998)
J. Am. Chem. Soc.
, vol.120
, pp. 5301-5311
-
-
Chatfield, D.C.1
Szabo, A.2
Brooks, B.R.3
-
44
-
-
0345411345
-
Hierarchy of structure loss in MD simulations of src SH3 domain unfolding
-
Tsai J., Levitt M., and Baker D. Hierarchy of structure loss in MD simulations of src SH3 domain unfolding. J. Mol. Biol. 291 (1999) 215-225
-
(1999)
J. Mol. Biol.
, vol.291
, pp. 215-225
-
-
Tsai, J.1
Levitt, M.2
Baker, D.3
-
45
-
-
41349089279
-
Convergence of sampling in protein simulations
-
031910/1-031910/10
-
Hess B. Convergence of sampling in protein simulations. Phys. Rev. E 652 (2002) 031910/1-031910/10
-
(2002)
Phys. Rev. E
, vol.652
-
-
Hess, B.1
-
46
-
-
0034886834
-
Conformational study of proteins by SAXS and EDXD: the case of trypsin and trypsinogen
-
Caracciolo G., Amiconi G., Bencivenni L., Boumis G., Caminiti R., Finocchiaro E., Maras B., Paolinelli C., and Congiu Castellano A. Conformational study of proteins by SAXS and EDXD: the case of trypsin and trypsinogen. Eur. Biophys. J. 30 (2001) 163-170
-
(2001)
Eur. Biophys. J.
, vol.30
, pp. 163-170
-
-
Caracciolo, G.1
Amiconi, G.2
Bencivenni, L.3
Boumis, G.4
Caminiti, R.5
Finocchiaro, E.6
Maras, B.7
Paolinelli, C.8
Congiu Castellano, A.9
-
47
-
-
0029092698
-
Fluctuations and cross-correlation analysis of protein motions observed in nanosecond molecular dynamics simulations
-
Hunenberger P.H., Mark A.E., and van Gusteren W.F. Fluctuations and cross-correlation analysis of protein motions observed in nanosecond molecular dynamics simulations. J. Mol. Biol. 252 (1995) 492-503
-
(1995)
J. Mol. Biol.
, vol.252
, pp. 492-503
-
-
Hunenberger, P.H.1
Mark, A.E.2
van Gusteren, W.F.3
-
48
-
-
0000053123
-
Protein flexibility in solution and in crystals
-
Eastman P., Pellegrini M., and Doniach S. Protein flexibility in solution and in crystals. J. Chem. Phys 110 (1999) 10142-10151
-
(1999)
J. Chem. Phys
, vol.110
, pp. 10142-10151
-
-
Eastman, P.1
Pellegrini, M.2
Doniach, S.3
-
49
-
-
0034736285
-
Psychrophilic enzymes: revisiting the thermodynamic parameters of activation may explain local flexibility
-
Lonhienne T., Gerday C., and Feller G. Psychrophilic enzymes: revisiting the thermodynamic parameters of activation may explain local flexibility. Bioch. Biophys. Acta 1543 (2000) 1-10
-
(2000)
Bioch. Biophys. Acta
, vol.1543
, pp. 1-10
-
-
Lonhienne, T.1
Gerday, C.2
Feller, G.3
-
50
-
-
0026520770
-
Methods and algorithms for statistical analysis of protein sequences
-
Brendel V., Bucher P., Nourbakhsh I., Blaisdell B.E., and Karlin S. Methods and algorithms for statistical analysis of protein sequences. Proc. Natl. Acad. Sci. U. S. A. 89 (1992) 2002-2006
-
(1992)
Proc. Natl. Acad. Sci. U. S. A.
, vol.89
, pp. 2002-2006
-
-
Brendel, V.1
Bucher, P.2
Nourbakhsh, I.3
Blaisdell, B.E.4
Karlin, S.5
-
51
-
-
0023723196
-
Oligopeptide biases in protein sequences and their use in predicting protein coding regions in nucleotide sequences
-
McCaldon P., and Argos P. Oligopeptide biases in protein sequences and their use in predicting protein coding regions in nucleotide sequences. Proteins 4 (1988) 99-122
-
(1988)
Proteins
, vol.4
, pp. 99-122
-
-
McCaldon, P.1
Argos, P.2
|