-
1
-
-
0037435030
-
Mass spectrometry-based proteomics
-
R. Aebersold, and M. Mann Mass spectrometry-based proteomics Nature 422 2003 198 207
-
(2003)
Nature
, vol.422
, pp. 198-207
-
-
Aebersold, R.1
Mann, M.2
-
2
-
-
2942604261
-
Structure determination of macromolecular complexes by experiment and computation
-
J.M. Bujnicki Springer-Verlag Berlin, Heidelberg
-
F. Alber, N. Eswar, and A. Sali Structure determination of macromolecular complexes by experiment and computation J.M. Bujnicki Nucleic Acids and Molecular Biology, Volume 15, Practical Bioinformatics 2004 Springer-Verlag Berlin, Heidelberg 73 96
-
(2004)
Nucleic Acids and Molecular Biology, Volume 15, Practical Bioinformatics
, pp. 73-96
-
-
Alber, F.1
Eswar, N.2
Sali, A.3
-
3
-
-
12144290243
-
Structure-based assembly of protein complexes in yeast
-
P. Aloy, B. Bottcher, H. Ceulemans, C. Leutwein, C. Mellwig, S. Fischer, A.C. Gavin, P. Bork, G. Superti-Furga, L. Serrano, and R.B. Russell Structure-based assembly of protein complexes in yeast Science 303 2004 2026 2029
-
(2004)
Science
, vol.303
, pp. 2026-2029
-
-
Aloy, P.1
Bottcher, B.2
Ceulemans, H.3
Leutwein, C.4
Mellwig, C.5
Fischer, S.6
Gavin, A.C.7
Bork, P.8
Superti-Furga, G.9
Serrano, L.10
Russell, R.B.11
-
4
-
-
0034637111
-
The complete atomic structure of the large ribosomal subunit at 2.4 Å resolution
-
N. Ban, P. Nissen, J. Hansen, P.B. Moore, and T.A. Steitz The complete atomic structure of the large ribosomal subunit at 2.4 Å resolution Science 289 2000 905 920
-
(2000)
Science
, vol.289
, pp. 905-920
-
-
Ban, N.1
Nissen, P.2
Hansen, J.3
Moore, P.B.4
Steitz, T.A.5
-
6
-
-
8844226004
-
Nuclear pore complex structure and dynamics revealed by cryoelectron tomography
-
M. Beck, F. Forster, M. Ecke, J.M. Plitzko, F. Melchior, G. Gerisch, W. Baumeister, and O. Medalia Nuclear pore complex structure and dynamics revealed by cryoelectron tomography Science 306 2004 1387 1390
-
(2004)
Science
, vol.306
, pp. 1387-1390
-
-
Beck, M.1
Forster, F.2
Ecke, M.3
Plitzko, J.M.4
Melchior, F.5
Gerisch, G.6
Baumeister, W.7
Medalia, O.8
-
7
-
-
0022336792
-
Calculation of protein conformations by proton-proton distance constraints. a new efficient algorithm
-
W. Braun, and N. Go Calculation of protein conformations by proton-proton distance constraints. A new efficient algorithm J. Mol. Biol. 186 1985 611 626
-
(1985)
J. Mol. Biol.
, vol.186
, pp. 611-626
-
-
Braun, W.1
Go, N.2
-
8
-
-
0034699519
-
Functional insights from the structure of the 30S ribosomal subunit and its interactions with antibiotics
-
A.P. Carter, W.M. Clemons, D.E. Brodersen, R.J. Morgan-Warren, B.T. Wimberly, and V. Ramakrishnan Functional insights from the structure of the 30S ribosomal subunit and its interactions with antibiotics Nature 407 2000 340 348
-
(2000)
Nature
, vol.407
, pp. 340-348
-
-
Carter, A.P.1
Clemons, W.M.2
Brodersen, D.E.3
Morgan-Warren, R.J.4
Wimberly, B.T.5
Ramakrishnan, V.6
-
9
-
-
0036297629
-
Multi-resolution contour-based fitting of macromolecular structures
-
P. Chacon, and W. Wriggers Multi-resolution contour-based fitting of macromolecular structures J. Mol. Biol. 317 2002 375 384
-
(2002)
J. Mol. Biol.
, vol.317
, pp. 375-384
-
-
Chacon, P.1
Wriggers, W.2
-
10
-
-
0004116989
-
-
MIT Press Cambridge, Massachusettts
-
T.H. Corman, C.E. Leisersoon, R.L. Rivest, and C. Stein Introduction to Algorithms, Second Edition 2001 MIT Press Cambridge, Massachusettts
-
(2001)
Introduction to Algorithms, Second Edition
-
-
Corman, T.H.1
Leisersoon, C.E.2
Rivest, R.L.3
Stein, C.4
-
11
-
-
0037008997
-
Proteomic analysis of the mammalian nuclear pore complex
-
J.M. Cronshaw, A.N. Krutchinsky, W. Zhang, B.T. Chait, and M.J. Matunis Proteomic analysis of the mammalian nuclear pore complex J. Cell Biol. 158 2002 915 927
-
(2002)
J. Cell Biol.
, vol.158
, pp. 915-927
-
-
Cronshaw, J.M.1
Krutchinsky, A.N.2
Zhang, W.3
Chait, B.T.4
Matunis, M.J.5
-
12
-
-
85030813817
-
PIBASE: A comprehensive database of structurally defined protein domain interfaces
-
in press.
-
Davis, F.P. and Sali, A. (2004). PIBASE: a comprehensive database of structurally defined protein domain interfaces. Bioinformatics, in press.
-
(2004)
Bioinformatics
-
-
Davis, F.P.1
Sali, A.2
-
13
-
-
0017764543
-
Hydrodynamic theory of swimming of flagellated microorganisms
-
J.G. de la Torre, and V.A. Bloomfield Hydrodynamic theory of swimming of flagellated microorganisms Biophys. J. 20 1977 49 67
-
(1977)
Biophys. J.
, vol.20
, pp. 49-67
-
-
De La Torre, J.G.1
Bloomfield, V.A.2
-
14
-
-
1942533523
-
Molecular architecture of the prolate head of bacteriophage T4
-
A. Fokine, P.R. Chipman, P.G. Leiman, V.V. Mesyanzhinov, V.B. Rao, and M.G. Rossmann Molecular architecture of the prolate head of bacteriophage T4 Proc. Natl. Acad. Sci. USA 101 2004 6003 6008
-
(2004)
Proc. Natl. Acad. Sci. USA
, vol.101
, pp. 6003-6008
-
-
Fokine, A.1
Chipman, P.R.2
Leiman, P.G.3
Mesyanzhinov, V.V.4
Rao, V.B.5
Rossmann, M.G.6
-
15
-
-
0036089703
-
Single-particle imaging of macromolecules by cryo-electron microscopy
-
J. Frank Single-particle imaging of macromolecules by cryo-electron microscopy Annu. Rev. Biophys. Biomol. Struct. 31 2002 303 319
-
(2002)
Annu. Rev. Biophys. Biomol. Struct.
, vol.31
, pp. 303-319
-
-
Frank, J.1
-
16
-
-
0038275890
-
Study of the structural dynamics of the E. coli 70S ribosome using real-space refinement
-
H. Gao, J. Sengupta, M. Valle, A. Korostelev, N. Eswar, S.M. Stagg, P.V. Roey, R.K. Agrawal, S.C. Harvey, and A. Sali Study of the structural dynamics of the E. coli 70S ribosome using real-space refinement Cell 113 2003 789 801
-
(2003)
Cell
, vol.113
, pp. 789-801
-
-
Gao, H.1
Sengupta, J.2
Valle, M.3
Korostelev, A.4
Eswar, N.5
Stagg, S.M.6
Roey, P.V.7
Agrawal, R.K.8
Harvey, S.C.9
Sali, A.10
-
17
-
-
0037050026
-
Functional organization of the yeast proteome by systematic analysis of protein complexes
-
A.C. Gavin, M. Bosche, R. Krause, P. Grandi, M. Marzioch, A. Bauer, J. Schultz, J.M. Rick, A.M. Michon, and C.M. Cruciat Functional organization of the yeast proteome by systematic analysis of protein complexes Nature 415 2002 141 147
-
(2002)
Nature
, vol.415
, pp. 141-147
-
-
Gavin, A.C.1
Bosche, M.2
Krause, R.3
Grandi, P.4
Marzioch, M.5
Bauer, A.6
Schultz, J.7
Rick, J.M.8
Michon, A.M.9
Cruciat, C.M.10
-
18
-
-
0038697805
-
Protein-protein docking predictions for the CAPRI experiment
-
J.J. Gray, S.E. Moughon, T. Kortemme, O. Schueler-Furman, K.M. Misura, A.V. Morozov, and D. Baker Protein-protein docking predictions for the CAPRI experiment Proteins 52 2003 118 122
-
(2003)
Proteins
, vol.52
, pp. 118-122
-
-
Gray, J.J.1
Moughon, S.E.2
Kortemme, T.3
Schueler-Furman, O.4
Misura, K.M.5
Morozov, A.V.6
Baker, D.7
-
19
-
-
0030897031
-
Structure of 20S proteasome from yeast at 2.4 Å resolution
-
M. Groll, L. Ditzel, J. Lowe, D. Stock, M. Bochtler, H.D. Bartunik, and R. Huber Structure of 20S proteasome from yeast at 2.4 Å resolution Nature 386 1997 463 471
-
(1997)
Nature
, vol.386
, pp. 463-471
-
-
Groll, M.1
Ditzel, L.2
Lowe, J.3
Stock, D.4
Bochtler, M.5
Bartunik, H.D.6
Huber, R.7
-
20
-
-
0035977093
-
High resolution structure of the large ribosomal subunit from a mesophilic eubacterium
-
J. Harms, F. Schluenzen, R. Zarivach, A. Bashan, S. Gat, I. Agmon, H. Bartels, F. Franceschi, and A. Yonath High resolution structure of the large ribosomal subunit from a mesophilic eubacterium Cell 107 2001 679 688
-
(2001)
Cell
, vol.107
, pp. 679-688
-
-
Harms, J.1
Schluenzen, F.2
Zarivach, R.3
Bashan, A.4
Gat, S.5
Agmon, I.6
Bartels, H.7
Franceschi, F.8
Yonath, A.9
-
21
-
-
0141843643
-
Electron cryo-microscopy shows how strong binding of myosin to actin releases nucleotide
-
K.C. Holmes, I. Angert, F.J. Kull, W. Jahn, and R.R. Schroder Electron cryo-microscopy shows how strong binding of myosin to actin releases nucleotide Nature 425 2003 423 427
-
(2003)
Nature
, vol.425
, pp. 423-427
-
-
Holmes, K.C.1
Angert, I.2
Kull, F.J.3
Jahn, W.4
Schroder, R.R.5
-
22
-
-
0142184341
-
Global analysis of protein localization in budding yeast
-
W.K. Huh, J.V. Falvo, L.C. Gerke, A.S. Carroll, R.W. Howson, J.S. Weissman, and E.K. O'Shea Global analysis of protein localization in budding yeast Nature 425 2003 686 691
-
(2003)
Nature
, vol.425
, pp. 686-691
-
-
Huh, W.K.1
Falvo, J.V.2
Gerke, L.C.3
Carroll, A.S.4
Howson, R.W.5
Weissman, J.S.6
O'Shea, E.K.7
-
24
-
-
0035836765
-
A comprehensive two-hybrid analysis to explore the yeast protein interactome
-
T. Ito, T. Chiba, R. Ozawa, M. Yoshida, M. Hattori, and Y. Sakaki A comprehensive two-hybrid analysis to explore the yeast protein interactome Proc. Natl. Acad. Sci. USA 98 2001 4569 4574
-
(2001)
Proc. Natl. Acad. Sci. USA
, vol.98
, pp. 4569-4574
-
-
Ito, T.1
Chiba, T.2
Ozawa, R.3
Yoshida, M.4
Hattori, M.5
Sakaki, Y.6
-
25
-
-
0345169163
-
Small-angle scattering: A view on the properties, structures and structural changes of biological macromolecules in solution
-
M.H. Koch, P. Vachette, and D.I. Svergun Small-angle scattering: a view on the properties, structures and structural changes of biological macromolecules in solution Q. Rev. Biophys. 36 2003 147 227
-
(2003)
Q. Rev. Biophys.
, vol.36
, pp. 147-227
-
-
Koch, M.H.1
Vachette, P.2
Svergun, D.I.3
-
26
-
-
0036306530
-
Evidence for an internal entropy contribution to phosphoryl transfer: A study of domain closure, backbone flexibility, and the catalytic cycle of cAMP-dependent protein kinase
-
F. Li, M. Gangal, C. Juliano, E. Gorfain, S.S. Taylor, and D.A. Johnson Evidence for an internal entropy contribution to phosphoryl transfer: a study of domain closure, backbone flexibility, and the catalytic cycle of cAMP-dependent protein kinase J. Mol. Biol. 315 2002 459 469
-
(2002)
J. Mol. Biol.
, vol.315
, pp. 459-469
-
-
Li, F.1
Gangal, M.2
Juliano, C.3
Gorfain, E.4
Taylor, S.S.5
Johnson, D.A.6
-
27
-
-
0028094855
-
A quantitative model of the Escherichia coli 16 S RNA in the 30 S ribosomal subunit
-
A. Malhotra, and S.C. Harvey A quantitative model of the Escherichia coli 16 S RNA in the 30 S ribosomal subunit J. Mol. Biol. 240 1994 308 340
-
(1994)
J. Mol. Biol.
, vol.240
, pp. 308-340
-
-
Malhotra, A.1
Harvey, S.C.2
-
28
-
-
0037044862
-
Macromolecular architecture in eukaryotic cells visualized by cryoelectron tomography
-
O. Medalia, I. Weber, A.S. Frangakis, D. Nicastro, G. Gerisch, and W. Baumeister Macromolecular architecture in eukaryotic cells visualized by cryoelectron tomography Science 298 2002 1209 1213
-
(2002)
Science
, vol.298
, pp. 1209-1213
-
-
Medalia, O.1
Weber, I.2
Frangakis, A.S.3
Nicastro, D.4
Gerisch, G.5
Baumeister, W.6
-
29
-
-
0037435022
-
Protein analysis on a proteomic scale
-
E. Phizicky, P.I. Bastiaens, H. Zhu, M. Snyder, and S. Fields Protein analysis on a proteomic scale Nature 422 2003 208 215
-
(2003)
Nature
, vol.422
, pp. 208-215
-
-
Phizicky, E.1
Bastiaens, P.I.2
Zhu, H.3
Snyder, M.4
Fields, S.5
-
30
-
-
0034695924
-
The yeast nuclear pore complex: Composition, architecture, and transport mechanism
-
M.P. Rout, J.D. Aitchison, A. Suprapto, K. Hjertaas, Y. Zhao, and B.T. Chait The yeast nuclear pore complex: composition, architecture, and transport mechanism J. Cell Biol. 148 2000 635 651
-
(2000)
J. Cell Biol.
, vol.148
, pp. 635-651
-
-
Rout, M.P.1
Aitchison, J.D.2
Suprapto, A.3
Hjertaas, K.4
Zhao, Y.5
Chait, B.T.6
-
31
-
-
2942582560
-
A structural perspective on protein-protein interactions
-
R.B. Russell, F. Alber, P. Aloy, F.P. Davis, D. Korkin, M. Pichaud, M. Topf, and A. Sali A structural perspective on protein-protein interactions Curr. Opin. Struct. Biol. 14 2004 313 324
-
(2004)
Curr. Opin. Struct. Biol.
, vol.14
, pp. 313-324
-
-
Russell, R.B.1
Alber, F.2
Aloy, P.3
Davis, F.P.4
Korkin, D.5
Pichaud, M.6
Topf, M.7
Sali, A.8
-
32
-
-
0027136282
-
Comparative protein modelling by satisfaction of spatial restraints
-
A. Sali, and T.L. Blundell Comparative protein modelling by satisfaction of spatial restraints J. Mol. Biol. 234 1993 779 815
-
(1993)
J. Mol. Biol.
, vol.234
, pp. 779-815
-
-
Sali, A.1
Blundell, T.L.2
-
33
-
-
0037435031
-
From words to literature in structural proteomics
-
A. Sali, R. Glaeser, T. Earnest, and W. Baumeister From words to literature in structural proteomics Nature 422 2003 216 225
-
(2003)
Nature
, vol.422
, pp. 216-225
-
-
Sali, A.1
Glaeser, R.2
Earnest, T.3
Baumeister, W.4
-
36
-
-
12844256969
-
Structural characterization of components of protein assemblies by comparative modeling and electron cryo-microscopy
-
M. Topf, M.L. Baker, B. John, W. Chiu, and A. Sali Structural characterization of components of protein assemblies by comparative modeling and electron cryo-microscopy J. Struct. Biol. 149 2005 191 203
-
(2005)
J. Struct. Biol.
, vol.149
, pp. 191-203
-
-
Topf, M.1
Baker, M.L.2
John, B.3
Chiu, W.4
Sali, A.5
-
37
-
-
0242669340
-
A modular cross-linking approach for exploring protein interactions
-
M. Trester-Zedlitz, K. Kamada, S.K. Burley, D. Fenyo, B.T. Chait, and T.W. Muir A modular cross-linking approach for exploring protein interactions J. Am. Chem. Soc. 125 2003 2416 2425
-
(2003)
J. Am. Chem. Soc.
, vol.125
, pp. 2416-2425
-
-
Trester-Zedlitz, M.1
Kamada, K.2
Burley, S.K.3
Fenyo, D.4
Chait, B.T.5
Muir, T.W.6
-
38
-
-
0035442412
-
The use of FRET imaging microscopy to detect protein-protein interactions and protein conformational changes in vivo
-
K. Truong, and M. Ikura The use of FRET imaging microscopy to detect protein-protein interactions and protein conformational changes in vivo Curr. Opin. Struct. Biol. 11 2001 573 578
-
(2001)
Curr. Opin. Struct. Biol.
, vol.11
, pp. 573-578
-
-
Truong, K.1
Ikura, M.2
-
39
-
-
0034628508
-
A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae
-
P. Uetz, L. Giot, G. Cagney, T.A. Mansfield, R.S. Judson, J.R. Knight, D. Lockshon, V. Narayan, M. Srinivasan, and P. Pochart A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae Nature 403 2000 623 627
-
(2000)
Nature
, vol.403
, pp. 623-627
-
-
Uetz, P.1
Giot, L.2
Cagney, G.3
Mansfield, T.A.4
Judson, R.S.5
Knight, J.R.6
Lockshon, D.7
Narayan, V.8
Srinivasan, M.9
Pochart, P.10
-
40
-
-
0036601150
-
Computational methods for the prediction of protein interactions
-
A. Valencia, and F. Pazos Computational methods for the prediction of protein interactions Curr. Opin. Struct. Biol. 12 2002 368 373
-
(2002)
Curr. Opin. Struct. Biol.
, vol.12
, pp. 368-373
-
-
Valencia, A.1
Pazos, F.2
-
41
-
-
0032779888
-
Quantitative fitting of atomic models into observed densities derived by electron microscopy
-
N. Volkmann, and D. Hanein Quantitative fitting of atomic models into observed densities derived by electron microscopy J. Struct. Biol. 125 1999 176 184
-
(1999)
J. Struct. Biol.
, vol.125
, pp. 176-184
-
-
Volkmann, N.1
Hanein, D.2
-
42
-
-
0026350498
-
Systematic mutational analyses of protein-protein interfaces
-
J.A. Wells Systematic mutational analyses of protein-protein interfaces Methods Enzymol. 202 1991 390 411
-
(1991)
Methods Enzymol.
, vol.202
, pp. 390-411
-
-
Wells, J.A.1
-
43
-
-
0031604505
-
Three-dimensional architecture of the isolated yeast nuclear pore complex: Functional and evolutionary implications
-
Q. Yang, M.P. Rout, and C.W. Akey Three-dimensional architecture of the isolated yeast nuclear pore complex: functional and evolutionary implications Mol. Cell 1 1998 223 234
-
(1998)
Mol. Cell
, vol.1
, pp. 223-234
-
-
Yang, Q.1
Rout, M.P.2
Akey, C.W.3
-
44
-
-
0042238051
-
Complete atomic model of the bacterial flagellar filament by electron cryomicroscopy
-
K. Yonekura, S. Maki-Yonekura, and K. Namba Complete atomic model of the bacterial flagellar filament by electron cryomicroscopy Nature 424 2003 643 650
-
(2003)
Nature
, vol.424
, pp. 643-650
-
-
Yonekura, K.1
Maki-Yonekura, S.2
Namba, K.3
-
45
-
-
0034705128
-
High throughput protein fold identification by using experimental constraints derived from intramolecular cross-links and mass spectrometry
-
M.M. Young, N. Tang, J.C. Hempel, C.M. Oshiro, E.W. Taylor, I.D. Kuntz, B.W. Gibson, and G. Dollinger High throughput protein fold identification by using experimental constraints derived from intramolecular cross-links and mass spectrometry Proc. Natl. Acad. Sci. USA 97 2000 5802 5806
-
(2000)
Proc. Natl. Acad. Sci. USA
, vol.97
, pp. 5802-5806
-
-
Young, M.M.1
Tang, N.2
Hempel, J.C.3
Oshiro, C.M.4
Taylor, E.W.5
Kuntz, I.D.6
Gibson, B.W.7
Dollinger, G.8
-
46
-
-
0029984352
-
Mapping protein-protein interactions by affinity-directed mass spectrometry
-
Y. Zhao, T.W. Muir, S.B. Kent, E. Tischer, J.M. Scardina, and B.T. Chait Mapping protein-protein interactions by affinity-directed mass spectrometry Proc. Natl. Acad. Sci. USA 93 1996 4020 4024
-
(1996)
Proc. Natl. Acad. Sci. USA
, vol.93
, pp. 4020-4024
-
-
Zhao, Y.1
Muir, T.W.2
Kent, S.B.3
Tischer, E.4
Scardina, J.M.5
Chait, B.T.6
-
47
-
-
0033578701
-
Crystal structure of Thermus aquaticus core RNA polymerase at 3.3 Å resolution
-
G. Zhang, E.A. Campbell, L. Minakhin, C. Richter, K. Severinov, and S.A. Darst Crystal structure of Thermus aquaticus core RNA polymerase at 3.3 Å resolution Cell 98 1999 811 824
-
(1999)
Cell
, vol.98
, pp. 811-824
-
-
Zhang, G.1
Campbell, E.A.2
Minakhin, L.3
Richter, C.4
Severinov, K.5
Darst, S.A.6
-
48
-
-
0242574743
-
Visualization of membrane protein domains by cryo-electron microscopy of dengue virus
-
W. Zhang, P.R. Chipman, J. Corver, P.R. Johnson, Y. Zhang, S. Mukhopadhyay, T.S. Baker, J.H. Strauss, M.G. Rossmann, and R.J. Kuhn Visualization of membrane protein domains by cryo-electron microscopy of dengue virus Nat. Struct. Biol. 10 2003 907 912
-
(2003)
Nat. Struct. Biol.
, vol.10
, pp. 907-912
-
-
Zhang, W.1
Chipman, P.R.2
Corver, J.3
Johnson, P.R.4
Zhang, Y.5
Mukhopadhyay, S.6
Baker, T.S.7
Strauss, J.H.8
Rossmann, M.G.9
Kuhn, R.J.10
|