-
1
-
-
42949164124
-
Improved structures of full-length p97, an AAA ATPase: Implications for mechanisms of nucleotide-dependent conformational change
-
Davies, J. M., Brunger, A. T. & Weis, W. I. Improved structures of full-length p97, an AAA ATPase: implications for mechanisms of nucleotide-dependent conformational change. Structure 16, 715-726 (2008).
-
(2008)
Structure
, vol.16
, pp. 715-726
-
-
Davies, J.M.1
Brunger, A.T.2
Weis, W.I.3
-
2
-
-
41949138317
-
A 7 mm mini-beam improves diffraction data from small or imperfect crystals of macromolecules
-
Sanishvili, R. et al. A 7 mm mini-beam improves diffraction data from small or imperfect crystals of macromolecules. Acta Crystallogr. D 64, 425-435 (2008).
-
(2008)
Acta Crystallogr. D
, vol.64
, pp. 425-435
-
-
Sanishvili, R.1
-
3
-
-
74449093746
-
Three-dimensional structure determination from a single view
-
Raines, K. S. et al. Three-dimensional structure determination from a single view. Nature 463, 214-217 (2010).
-
(2010)
Nature
, vol.463
, pp. 214-217
-
-
Raines, K.S.1
-
4
-
-
34547878369
-
New directions in single-molecule imaging and analysis
-
Moerner, W. E. New directions in single-molecule imaging and analysis. Proc. Natl Acad. Sci. USA 104, 12596-12602 (2007).
-
(2007)
Proc. Natl Acad. Sci. USA
, vol.104
, pp. 12596-12602
-
-
Moerner, W.E.1
-
5
-
-
77951622847
-
Localization registration and distance measurements between single-molecule fluorescent probes with sub-nanometer precision and accuracy
-
submitted
-
Pertsinidis, A., Zhang, Y. & Chu, S. Localization, registration and distance measurements between single-molecule fluorescent probes with sub-nanometer precision and accuracy. Nature (submitted).
-
Nature
-
-
Pertsinidis, A.1
Zhang, Y.2
Chu, S.3
-
6
-
-
0001430702
-
A theory of phase determination for the four types of non-centrosymmetric space groups 1P222 2P22 3P(1)2, 3P(2)2
-
Karle, J. & Hauptman, H. A theory of phase determination for the four types of non-centrosymmetric space groups 1P222, 2P22, 3P(1)2, 3P(2)2. Acta Crystallogr. 9, 635-651 (1956).
-
(1956)
Acta Crystallogr
, vol.9
, pp. 635-651
-
-
Karle, J.1
Hauptman, H.2
-
7
-
-
0001099937
-
Traitement statistique des erreurs dans la determination des structures cristallines
-
Luzzati, V. Traitement statistique des erreurs dans la determination des structures cristallines. Acta Crystallogr. 5, 802-809 (1952).
-
(1952)
Acta Crystallogr.
, vol.5
, pp. 802-809
-
-
Luzzati, V.1
-
8
-
-
0001720577
-
A restrained-parameter thermal-factor refinement procedure
-
Hendrickson, W. A. & Konnert, J. H. A restrained-parameter thermal-factor refinement procedure. Acta Crystallogr. A 36, 344-350 (1980).
-
(1980)
Acta Crystallogr. A
, vol.36
, pp. 344-350
-
-
Hendrickson, W.A.1
Konnert, J.H.2
-
9
-
-
84918314491
-
Refinement of large structures by simultaneous minimization of energy and R factor
-
Jack, A. & Levitt, M. Refinement of large structures by simultaneous minimization of energy and R factor. Acta Crystallogr. A 34, 931-935 (1987).
-
(1987)
Acta Crystallogr. A
, vol.34
, pp. 931-935
-
-
Jack, A.1
Levitt, M.2
-
10
-
-
0000307306
-
On the use of normal modes in the thermal parameter refinement: Theory and application to the bovine pancreatic trypsin inhibitor
-
Diamond, R. On the use of normal modes in the thermal parameter refinement: theory and application to the bovine pancreatic trypsin inhibitor. Acta Crystallogr. A 46, 425-435 (1990).
-
(1990)
Acta Crystallogr. A
, vol.46
, pp. 425-435
-
-
Diamond, R.1
-
11
-
-
0022419152
-
Protein normal-mode dynamics: Trypsin inhibitor, crambin, ribonuclease and lysozyme
-
Levitt, M., Sander, C. & Stern, P. S. Protein normal-mode dynamics: trypsin inhibitor, crambin, ribonuclease and lysozyme. J. Mol. Biol. 181, 423-447 (1985).
-
(1985)
J. Mol. Biol.
, vol.181
, pp. 423-447
-
-
Levitt, M.1
Sander, C.2
Stern, P.S.3
-
12
-
-
2342518038
-
On the use of low-frequency normal modes to enforce collective movements in refining macromolecular structural models
-
Delarue, M. & Dumas, P. On the use of low-frequency normal modes to enforce collective movements in refining macromolecular structural models. Proc. Natl Acad. Sci. USA 101, 6957-6962 (2004).
-
(2004)
Proc. Natl Acad. Sci. USA
, vol.101
, pp. 6957-6962
-
-
Delarue, M.1
Dumas, P.2
-
13
-
-
4344716056
-
Normal mode based flexible fitting of high-resolution structure into low-resolution experimental data from cryo-EM
-
Tama, F., Miyashita, O. & Brooks, C. L. III. Normal mode based flexible fitting of high-resolution structure into low-resolution experimental data from cryo-EM. J. Struct. Biol. 147, 315-326 (2004).
-
(2004)
J. Struct. Biol.
, vol.147
, pp. 315-326
-
-
Tama, F.1
Miyashita, O.2
Brooks III, C.L.3
-
14
-
-
36749078686
-
Combining efficient conformational sampling with a deformable elastic network model facilitates structure refinement at low resolution
-
Schröder, G. F., Brunger, A. T. & Levitt, M. Combining efficient conformational sampling with a deformable elastic network model facilitates structure refinement at low resolution. Structure 15, 1630-1641 (2007).
-
(2007)
Structure
, vol.15
, pp. 1630-1641
-
-
Schröder, G.F.1
Brunger, A.T.2
Levitt, M.3
-
15
-
-
0020685129
-
Structure and refinement of penicillopepsin at 1.8 A resolution
-
James, M. N. & Sielecki, A. R. Structure and refinement of penicillopepsin at 1.8 A resolution. J. Mol. Biol. 163, 299-361 (1983).
-
(1983)
J. Mol. Biol.
, vol.163
, pp. 299-361
-
-
James, M.N.1
Sielecki, A.R.2
-
16
-
-
0042622381
-
LGA: A method for finding 3D similarities in protein structures
-
Zemla, A. LGA: a method for finding 3D similarities in protein structures. Nucleic Acids Res. 31, 3370-3374 (2003).
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 3370-3374
-
-
Zemla, A.1
-
17
-
-
13844302894
-
Structure of an unliganded simian immunodeficiency virus gp120 core
-
Chen, B. et al. Structure of an unliganded simian immunodeficiency virus gp120 core. Nature 433, 834-841 (2005).
-
(2005)
Nature
, vol.433
, pp. 834-841
-
-
Chen, B.1
-
18
-
-
33847101745
-
Structural definition of a conserved neutralization epitope on HIV-1 gp120
-
Zhou, T. et al. Structural definition of a conserved neutralization epitope on HIV-1 gp120. Nature 445, 732-737 (2007).
-
(2007)
Nature
, vol.445
, pp. 732-737
-
-
Zhou, T.1
-
19
-
-
36049029967
-
High-resolution structure prediction and the crystallographic phase problem
-
Qian, B. et al. High-resolution structure prediction and the crystallographic phase problem. Nature 450, 259-264 (2007).
-
(2007)
Nature
, vol.450
, pp. 259-264
-
-
Qian, B.1
-
20
-
-
79952608525
-
Accurate bond and angle parameters for X-ray protein structure refinement
-
Engh, R. & Huber, R. Accurate bond and angle parameters for X-ray protein structure refinement. Acta Crystallogr. A 47, 392-400 (1991).
-
(1991)
Acta Crystallogr. A
, vol.47
, pp. 392-400
-
-
Engh, R.1
Huber, R.2
-
21
-
-
84944813822
-
A multisolution method of phase determination by combined maximization of entropy and likelihood. I. Theory, algorithms and strategy
-
Bricogne, G. & Gilmore, C. J. A multisolution method of phase determination by combined maximization of entropy and likelihood. I. Theory, algorithms and strategy. Acta Crystallogr. A 46, 284-297 (1990).
-
(1990)
Acta Crystallogr. A
, vol.46
, pp. 284-297
-
-
Bricogne, G.1
Gilmore, C.J.2
-
22
-
-
0000649842
-
Improved structure refinement through maximum likelihood
-
Pannu, S. N. & Read, R. J. Improved structure refinement through maximum likelihood. Acta Crystallogr. A 52, 659-668 (1996).
-
(1996)
Acta Crystallogr. A
, vol.52
, pp. 659-668
-
-
Pannu, S.N.1
Read, R.J.2
-
23
-
-
0032212015
-
Incorporation of prior phase information strengthens maximum-likelihood structure refinement
-
Pannu, N. S., Murshudov, G. N., Dodson, E. J. & Read, R. J. Incorporation of prior phase information strengthens maximum-likelihood structure refinement. Acta Crystallogr. D 54, 1285-1294 (1998).
-
(1998)
Acta Crystallogr. D
, vol.54
, pp. 1285-1294
-
-
Pannu, N.S.1
Murshudov, G.N.2
Dodson, E.J.3
Read, R.J.4
-
24
-
-
0014675222
-
Refinement of protein conformations using a macromolecular energy minimization procedure
-
Levitt, M. & Lifson, S. Refinement of protein conformations using a macromolecular energy minimization procedure. J. Mol. Biol. 46, 269-279 (1969).
-
(1969)
J. Mol. Biol.
, vol.46
, pp. 269-279
-
-
Levitt, M.1
Lifson, S.2
-
25
-
-
0028070557
-
Torsion angle dynamics: Reduced variable conformational sampling enhances crystallographic structure refinement
-
Rice, L. M. & Brunger, A. T. Torsion angle dynamics: reduced variable conformational sampling enhances crystallographic structure refinement. Proteins 19, 277-290 (1994).
-
(1994)
Proteins
, vol.19
, pp. 277-290
-
-
Rice, L.M.1
Brunger, A.T.2
-
26
-
-
0026754015
-
Accurate modeling of protein conformation by automatic segment matching
-
Levitt, M. Accurate modeling of protein conformation by automatic segment matching. J. Mol. Biol. 226, 507-533 (1992).
-
(1992)
J. Mol. Biol.
, vol.226
, pp. 507-533
-
-
Levitt, M.1
-
27
-
-
0027136282
-
Comparative protein modelling by satisfaction of spatial restraints
-
Sali, A. & Blundell, T. L. Comparative protein modelling by satisfaction of spatial restraints. J. Mol. Biol. 234, 779-815 (1993).
-
(1993)
J. Mol. Biol.
, vol.234
, pp. 779-815
-
-
Sali, A.1
Blundell, T.L.2
-
28
-
-
0001549117
-
A structure-factor least squares refinement procedure for macromolecular structures using constrained and restrained parameters
-
Sussman, J. L., Holbrook, S. R., Church, G. M. & Kim, S. H. A structure-factor least squares refinement procedure for macromolecular structures using constrained and restrained parameters. Acta Crystallogr. A 33, 800-804 (1977).
-
(1977)
Acta Crystallogr. A
, vol.33
, pp. 800-804
-
-
Sussman, J.L.1
Holbrook, S.R.2
Church, G.M.3
Kim, S.H.4
-
29
-
-
3242886389
-
MOLPROBITY: Structure validation and all-atom contact analysis for nucleic acids and their complexes
-
Web Server issue
-
Davis, I. W., Murray, L. W., Richardson, J. S. & Richardson, D. C. MOLPROBITY: structure validation and all-atom contact analysis for nucleic acids and their complexes. Nucleic Acids Res. 32 (Web Server issue), W615-W619 (2004).
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Davis, I.W.1
Murray, L.W.2
Richardson, J.S.3
Richardson, D.C.4
-
30
-
-
0014116254
-
Minimization of polypeptide energy. I. Preliminary structures of bovine pancreatic ribonuclease S-peptide
-
Gibson, K. D. & Scheraga, H. A. Minimization of polypeptide energy. I. Preliminary structures of bovine pancreatic ribonuclease S-peptide. Proc. Natl Acad. Sci. USA 58, 420-427 (1967).
-
(1967)
Proc. Natl Acad. Sci. USA
, vol.58
, pp. 420-427
-
-
Gibson, K.D.1
Scheraga, H.A.2
-
31
-
-
0021095856
-
Protein folding by restrained energy minimization and molecular dynamics
-
Levitt, M. Protein folding by restrained energy minimization and molecular dynamics. J. Mol. Biol. 170, 723-764 (1983).
-
(1983)
J. Mol. Biol.
, vol.170
, pp. 723-764
-
-
Levitt, M.1
-
32
-
-
3543012707
-
Crystallography & NMR system: A new software suite for macromolecular structure determination
-
Brunger, A. T. et al. Crystallography & NMR system: a new software suite for macromolecular structure determination. Acta Crystallogr. D 54, 905-921 (1998).
-
(1998)
Acta Crystallogr. D
, vol.54
, pp. 905-921
-
-
Brunger, A.T.1
-
33
-
-
0024279342
-
Crystallographic refinement by simulated annealing. Application to a 2.8 A resolution structure of aspartate aminotransferase
-
Brunger, A. T. Crystallographic refinement by simulated annealing. Application to a 2.8 A resolution structure of aspartate aminotransferase. J. Mol. Biol. 203, 803-816 (1988).
-
(1988)
J. Mol. Biol.
, vol.203
, pp. 803-816
-
-
Brunger, A.T.1
-
34
-
-
37049014272
-
Version 1.2 of the Crystallography and NMR system
-
Brunger, A. T. Version 1.2 of the Crystallography and NMR system. Nature Protocols 2, 2728-2733 (2007).
-
(2007)
Nature Protocols
, vol.2
, pp. 2728-2733
-
-
Brunger, A.T.1
-
35
-
-
0021767550
-
The active site of aspartic proteinases
-
Pearl, L. & Blundell, T. The active site of aspartic proteinases. FEBS Lett. 174, 96-101 (1984).
-
(1984)
FEBS Lett.
, vol.174
, pp. 96-101
-
-
Pearl, L.1
Blundell, T.2
-
36
-
-
0032942076
-
Extending the limits of molecular replacement through combined simulated annealing and maximum-likelihood refinement
-
Adams, P. D., Pannu, N. S., Read, R. J. & Brunger, A. T. Extending the limits of molecular replacement through combined simulated annealing and maximum-likelihood refinement. Acta Crystallogr. D 55, 181-190 (1999).
-
(1999)
Acta Crystallogr. D
, vol.55
, pp. 181-190
-
-
Adams, P.D.1
Pannu, N.S.2
Read, R.J.3
Brunger, A.T.4
-
37
-
-
0021919480
-
Rapid and sensitive protein similarity searches
-
Lipman, D. J. & Pearson, W. R. Rapid and sensitive protein similarity searches. Science 227, 1435-1441 (1985).
-
(1985)
Science
, vol.227
, pp. 1435-1441
-
-
Lipman, D.J.1
Pearson, W.R.2
-
38
-
-
17644392830
-
TM-align: A protein structure alignment algorithm based on the TM-score
-
Zhang, Y. & Skolnick, J. TM-align: a protein structure alignment algorithm based on the TM-score. Nucleic Acids Res. 33, 2302-2309 (2005).
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 2302-2309
-
-
Zhang, Y.1
Skolnick, J.2
|