-
1
-
-
54049116765
-
Visualization of the hybrid state of tRNA binding promoted by spontaneous ratcheting of the ribosome
-
X. Agirrezabala, J. Lei, J.L. Brunelle, R.F. Ortiz-Meoz, R. Green, and J. Frank Visualization of the hybrid state of tRNA binding promoted by spontaneous ratcheting of the ribosome Mol. Cell 32 2008 190 197
-
(2008)
Mol. Cell
, vol.32
, pp. 190-197
-
-
Agirrezabala, X.1
Lei, J.2
Brunelle, J.L.3
Ortiz-Meoz, R.F.4
Green, R.5
Frank, J.6
-
2
-
-
26844561217
-
Symmetry at the active site of the ribosome: Structural and functional implications
-
I. Agmon, A. Bashan, R. Zarivach, and A. Yonath Symmetry at the active site of the ribosome: structural and functional implications Biol. Chem. 386 2005 833 844
-
(2005)
Biol. Chem.
, vol.386
, pp. 833-844
-
-
Agmon, I.1
Bashan, A.2
Zarivach, R.3
Yonath, A.4
-
3
-
-
84877310529
-
Structures of the human and Drosophila 80S ribosome
-
A.M. Anger, J.-P. Armache, O. Berninghausen, M. Habeck, M. Subklewe, D.N. Wilson, and R. Beckmann Structures of the human and Drosophila 80S ribosome Nature 497 2013 80 85
-
(2013)
Nature
, vol.497
, pp. 80-85
-
-
Anger, A.M.1
Armache, J.-P.2
Berninghausen, O.3
Habeck, M.4
Subklewe, M.5
Wilson, D.N.6
Beckmann, R.7
-
4
-
-
83855162728
-
The structure of the eukaryotic ribosome at 3.0 Å resolution
-
A. Ben-Shem, N. Garreau de Loubresse, S. Melnikov, L. Jenner, G. Yusupova, and M. Yusupov The structure of the eukaryotic ribosome at 3.0 Å resolution Science 334 2011 1524 1529
-
(2011)
Science
, vol.334
, pp. 1524-1529
-
-
Ben-Shem, A.1
Garreau De Loubresse, N.2
Melnikov, S.3
Jenner, L.4
Yusupova, G.5
Yusupov, M.6
-
5
-
-
77956006893
-
The three-dimensional organization of polyribosomes in intact human cells
-
F. Brandt, L.-A. Carlson, F.U. Hartl, W. Baumeister, and K. Grünewald The three-dimensional organization of polyribosomes in intact human cells Mol. Cell 39 2010 560 569
-
(2010)
Mol. Cell
, vol.39
, pp. 560-569
-
-
Brandt, F.1
Carlson, L.-A.2
Hartl, F.U.3
Baumeister, W.4
Grünewald, K.5
-
6
-
-
81755173676
-
Structure and dynamics of the mammalian ribosomal pretranslocation complex
-
T. Budkevich, J. Giesebrecht, R.B. Altman, J.B. Munro, T. Mielke, K.H. Nierhaus, S.C. Blanchard, and C.M.T. Spahn Structure and dynamics of the mammalian ribosomal pretranslocation complex Mol. Cell 44 2011 214 224
-
(2011)
Mol. Cell
, vol.44
, pp. 214-224
-
-
Budkevich, T.1
Giesebrecht, J.2
Altman, R.B.3
Munro, J.B.4
Mielke, T.5
Nierhaus, K.H.6
Blanchard, S.C.7
Spahn, C.M.T.8
-
7
-
-
84903950561
-
Regulation of the mammalian elongation cycle by subunit rolling: A eukaryotic-specific ribosome rearrangement
-
T.V. Budkevich, J. Giesebrecht, E. Behrmann, J. Loerke, D.J.F. Ramrath, T. Mielke, J. Ismer, P.W. Hildebrand, C.-S. Tung, and K.H. Nierhaus Regulation of the mammalian elongation cycle by subunit rolling: a eukaryotic-specific ribosome rearrangement Cell 158 2014 121 131
-
(2014)
Cell
, vol.158
, pp. 121-131
-
-
Budkevich, T.V.1
Giesebrecht, J.2
Behrmann, E.3
Loerke, J.4
Ramrath, D.J.F.5
Mielke, T.6
Ismer, J.7
Hildebrand, P.W.8
Tung, C.-S.9
Nierhaus, K.H.10
-
8
-
-
84877696590
-
Elongation factor Ts directly facilitates the formation and disassembly of the Escherichia coli elongation factor Tu·GTP·aminoacyl-tRNA ternary complex
-
B.J. Burnett, R.B. Altman, R. Ferrao, J.L. Alejo, N. Kaur, J. Kanji, and S.C. Blanchard Elongation factor Ts directly facilitates the formation and disassembly of the Escherichia coli elongation factor Tu·GTP·aminoacyl-tRNA ternary complex J. Biol. Chem. 288 2013 13917 13928
-
(2013)
J. Biol. Chem.
, vol.288
, pp. 13917-13928
-
-
Burnett, B.J.1
Altman, R.B.2
Ferrao, R.3
Alejo, J.L.4
Kaur, N.5
Kanji, J.6
Blanchard, S.C.7
-
9
-
-
84906545319
-
Direct evidence of an elongation factor-Tu/Ts·GTP·Aminoacyl-tRNA quaternary complex
-
B.J. Burnett, R.B. Altman, A. Ferguson, M.R. Wasserman, Z. Zhou, and S.C. Blanchard Direct evidence of an elongation factor-Tu/Ts·GTP·Aminoacyl-tRNA quaternary complex J. Biol. Chem. 289 2014 23917 23927
-
(2014)
J. Biol. Chem.
, vol.289
, pp. 23917-23927
-
-
Burnett, B.J.1
Altman, R.B.2
Ferguson, A.3
Wasserman, M.R.4
Zhou, Z.5
Blanchard, S.C.6
-
10
-
-
84867219321
-
Motion of transfer RNA from the A/T state into the A-site using docking and simulations
-
T. Caulfield, and B. Devkota Motion of transfer RNA from the A/T state into the A-site using docking and simulations Proteins 80 2012 2489 2500
-
(2012)
Proteins
, vol.80
, pp. 2489-2500
-
-
Caulfield, T.1
Devkota, B.2
-
11
-
-
84859593945
-
A new understanding of the decoding principle on the ribosome
-
N. Demeshkina, L. Jenner, E. Westhof, M. Yusupov, and G. Yusupova A new understanding of the decoding principle on the ribosome Nature 484 2012 256 259
-
(2012)
Nature
, vol.484
, pp. 256-259
-
-
Demeshkina, N.1
Jenner, L.2
Westhof, E.3
Yusupov, M.4
Yusupova, G.5
-
12
-
-
84898979378
-
Structure of the mammalian ribosomal pre-termination complex associated with eRF1.eRF3.GDPNP
-
A. des Georges, Y. Hashem, A. Unbehaun, R.A. Grassucci, D. Taylor, C.U.T. Hellen, T.V. Pestova, and J. Frank Structure of the mammalian ribosomal pre-termination complex associated with eRF1.eRF3.GDPNP Nucleic Acids Res. 42 2014 3409 3418
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. 3409-3418
-
-
Des Georges, A.1
Hashem, Y.2
Unbehaun, A.3
Grassucci, R.A.4
Taylor, D.5
Hellen, C.U.T.6
Pestova, T.V.7
Frank, J.8
-
13
-
-
77952928661
-
Ribosome structure and dynamics during translocation and termination
-
J.A. Dunkle, and J.H.D. Cate Ribosome structure and dynamics during translocation and termination Annu. Rev. Biophys. 39 2010 227 244
-
(2010)
Annu. Rev. Biophys.
, vol.39
, pp. 227-244
-
-
Dunkle, J.A.1
Cate, J.H.D.2
-
14
-
-
80055012207
-
Expanding the proteome: Disordered and alternatively folded proteins
-
H.J. Dyson Expanding the proteome: disordered and alternatively folded proteins Q. Rev. Biophys. 44 2011 467 518
-
(2011)
Q. Rev. Biophys.
, vol.44
, pp. 467-518
-
-
Dyson, H.J.1
-
15
-
-
77954650144
-
Ribosome dynamics and tRNA movement by time-resolved electron cryomicroscopy
-
N. Fischer, A.L. Konevega, W. Wintermeyer, M.V. Rodnina, and H. Stark Ribosome dynamics and tRNA movement by time-resolved electron cryomicroscopy Nature 466 2010 329 333
-
(2010)
Nature
, vol.466
, pp. 329-333
-
-
Fischer, N.1
Konevega, A.L.2
Wintermeyer, W.3
Rodnina, M.V.4
Stark, H.5
-
16
-
-
84883393285
-
Story in a sample- The potential (and limitations) of cryo-electron microscopy applied to molecular machines
-
J. Frank Story in a sample-the potential (and limitations) of cryo-electron microscopy applied to molecular machines Biopolymers 99 2013 832 836
-
(2013)
Biopolymers
, vol.99
, pp. 832-836
-
-
Frank, J.1
-
17
-
-
33845346092
-
The ribosome and the mechanism of protein synthesis
-
J. Frank, and C.M.T. Spahn The ribosome and the mechanism of protein synthesis Rep. Prog. Phys. 69 2006 1383 1417
-
(2006)
Rep. Prog. Phys.
, vol.69
, pp. 1383-1417
-
-
Frank, J.1
Spahn, C.M.T.2
-
18
-
-
0029975088
-
SPIDER and WEB: Processing and visualization of images in 3D electron microscopy and related fields
-
J. Frank, M. Radermacher, P. Penczek, J. Zhu, Y. Li, M. Ladjadj, and A. Leith SPIDER and WEB: processing and visualization of images in 3D electron microscopy and related fields J. Struct. Biol. 116 1996 190 199
-
(1996)
J. Struct. Biol.
, vol.116
, pp. 190-199
-
-
Frank, J.1
Radermacher, M.2
Penczek, P.3
Zhu, J.4
Li, Y.5
Ladjadj, M.6
Leith, A.7
-
19
-
-
0026320866
-
The energy landscapes and motions of proteins
-
H. Frauenfelder, S.G. Sligar, and P.G. Wolynes The energy landscapes and motions of proteins Science 254 1991 1598 1603
-
(1991)
Science
, vol.254
, pp. 1598-1603
-
-
Frauenfelder, H.1
Sligar, S.G.2
Wolynes, P.G.3
-
20
-
-
0034598935
-
Solution structure of the E. Coli 70S ribosome at 11.5 A resolution
-
I.S. Gabashvili, R.K. Agrawal, C.M. Spahn, R.A. Grassucci, D.I. Svergun, J. Frank, and P. Penczek Solution structure of the E. coli 70S ribosome at 11.5 A resolution Cell 100 2000 537 549
-
(2000)
Cell
, vol.100
, pp. 537-549
-
-
Gabashvili, I.S.1
Agrawal, R.K.2
Spahn, C.M.3
Grassucci, R.A.4
Svergun, D.I.5
Frank, J.6
Penczek, P.7
-
21
-
-
77954814800
-
Conformational sampling of aminoacyl-tRNA during selection on the bacterial ribosome
-
P. Geggier, R. Dave, M.B. Feldman, D.S. Terry, R.B. Altman, J.B. Munro, and S.C. Blanchard Conformational sampling of aminoacyl-tRNA during selection on the bacterial ribosome J. Mol. Biol. 399 2010 576 595
-
(2010)
J. Mol. Biol.
, vol.399
, pp. 576-595
-
-
Geggier, P.1
Dave, R.2
Feldman, M.B.3
Terry, D.S.4
Altman, R.B.5
Munro, J.B.6
Blanchard, S.C.7
-
22
-
-
84859420147
-
Structure of transfer RNAs: Similarity and variability
-
R. Giegé, F. Jühling, J. Pütz, P. Stadler, C. Sauter, and C. Florentz Structure of transfer RNAs: similarity and variability Wiley Interdiscip. Rev. RNA 3 2012 37 61
-
(2012)
Wiley Interdiscip. Rev. RNA
, vol.3
, pp. 37-61
-
-
Giegé, R.1
Jühling, F.2
Pütz, J.3
Stadler, P.4
Sauter, C.5
Florentz, C.6
-
23
-
-
84870928681
-
Rotation of the head of the 30S ribosomal subunit during mRNA translocation
-
Z. Guo, and H.F. Noller Rotation of the head of the 30S ribosomal subunit during mRNA translocation Proc. Natl. Acad. Sci. USA 109 2012 20391 20394
-
(2012)
Proc. Natl. Acad. Sci. USA
, vol.109
, pp. 20391-20394
-
-
Guo, Z.1
Noller, H.F.2
-
25
-
-
0000359208
-
Kinetic proofreading: A new mechanism for reducing errors in biosynthetic processes requiring high specificity
-
J.J. Hopfield Kinetic proofreading: a new mechanism for reducing errors in biosynthetic processes requiring high specificity Proc. Natl. Acad. Sci. USA 71 1974 4135 4139
-
(1974)
Proc. Natl. Acad. Sci. USA
, vol.71
, pp. 4135-4139
-
-
Hopfield, J.J.1
-
27
-
-
55949134736
-
Structure of ratcheted ribosomes with tRNAs in hybrid states
-
P. Julián, A.L. Konevega, S.H.W. Scheres, M. Lázaro, D. Gil, W. Wintermeyer, M.V. Rodnina, and M. Valle Structure of ratcheted ribosomes with tRNAs in hybrid states Proc. Natl. Acad. Sci. USA 105 2008 16924 16927
-
(2008)
Proc. Natl. Acad. Sci. USA
, vol.105
, pp. 16924-16927
-
-
Julián, P.1
Konevega, A.L.2
Scheres, S.H.W.3
Lázaro, M.4
Gil, D.5
Wintermeyer, W.6
Rodnina, M.V.7
Valle, M.8
-
28
-
-
4344569647
-
The contribution of metal ions to the structural stability of the large ribosomal subunit
-
D.J. Klein, P.B. Moore, and T.A. Steitz The contribution of metal ions to the structural stability of the large ribosomal subunit RNA 10 2004 1366 1379
-
(2004)
RNA
, vol.10
, pp. 1366-1379
-
-
Klein, D.J.1
Moore, P.B.2
Steitz, T.A.3
-
29
-
-
81555219350
-
Crystal structure of the eukaryotic 60S ribosomal subunit in complex with initiation factor 6
-
S. Klinge, F. Voigts-Hoffmann, M. Leibundgut, S. Arpagaus, and N. Ban Crystal structure of the eukaryotic 60S ribosomal subunit in complex with initiation factor 6 Science 334 2011 941 948
-
(2011)
Science
, vol.334
, pp. 941-948
-
-
Klinge, S.1
Voigts-Hoffmann, F.2
Leibundgut, M.3
Arpagaus, S.4
Ban, N.5
-
32
-
-
84861908221
-
One core, two shells: Bacterial and eukaryotic ribosomes
-
S. Melnikov, A. Ben-Shem, N. Garreau de Loubresse, L. Jenner, G. Yusupova, and M. Yusupov One core, two shells: bacterial and eukaryotic ribosomes Nat. Struct. Mol. Biol. 19 2012 560 567
-
(2012)
Nat. Struct. Mol. Biol.
, vol.19
, pp. 560-567
-
-
Melnikov, S.1
Ben-Shem, A.2
Garreau De Loubresse, N.3
Jenner, L.4
Yusupova, G.5
Yusupov, M.6
-
33
-
-
84861381646
-
How should we think about the ribosome?
-
P.B. Moore How should we think about the ribosome? Annu. Rev. Biophys. 41 2012 1 19
-
(2012)
Annu. Rev. Biophys.
, vol.41
, pp. 1-19
-
-
Moore, P.B.1
-
35
-
-
84923374731
-
The molecular structure of the left-handed supra-molecular helix of eukaryotic polyribosomes
-
A.G. Myasnikov, Z.A. Afonina, J.-F. Ménétret, V.A. Shirokov, A.S. Spirin, and B.P. Klaholz The molecular structure of the left-handed supra-molecular helix of eukaryotic polyribosomes Nat. Commun. 5 2014 5294
-
(2014)
Nat. Commun.
, vol.5
, pp. 5294
-
-
Myasnikov, A.G.1
Afonina, Z.A.2
Ménétret, J.-F.3
Shirokov, V.A.4
Spirin, A.S.5
Klaholz, B.P.6
-
36
-
-
0038403669
-
Insights into the decoding mechanism from recent ribosome structures
-
J.M. Ogle, A.P. Carter, and V. Ramakrishnan Insights into the decoding mechanism from recent ribosome structures Trends Biochem. Sci. 28 2003 259 266
-
(2003)
Trends Biochem. Sci.
, vol.28
, pp. 259-266
-
-
Ogle, J.M.1
Carter, A.P.2
Ramakrishnan, V.3
-
37
-
-
0032535207
-
Complete kinetic mechanism of elongation factor Tu-dependent binding of aminoacyl-tRNA to the A site of the E. Coli ribosome
-
T. Pape, W. Wintermeyer, and M.V. Rodnina Complete kinetic mechanism of elongation factor Tu-dependent binding of aminoacyl-tRNA to the A site of the E. coli ribosome EMBO J. 17 1998 7490 7497
-
(1998)
EMBO J.
, vol.17
, pp. 7490-7497
-
-
Pape, T.1
Wintermeyer, W.2
Rodnina, M.V.3
-
38
-
-
0033168212
-
Induced fit in initial selection and proofreading of aminoacyl-tRNA on the ribosome
-
T. Pape, W. Wintermeyer, and M. Rodnina Induced fit in initial selection and proofreading of aminoacyl-tRNA on the ribosome EMBO J. 18 1999 3800 3807
-
(1999)
EMBO J.
, vol.18
, pp. 3800-3807
-
-
Pape, T.1
Wintermeyer, W.2
Rodnina, M.3
-
39
-
-
84894283594
-
CTER-rapid estimation of CTF parameters with error assessment
-
P.A. Penczek, J. Fang, X. Li, Y. Cheng, J. Loerke, and C.M.T. Spahn CTER-rapid estimation of CTF parameters with error assessment Ultramicroscopy 140 2014 9 19
-
(2014)
Ultramicroscopy
, vol.140
, pp. 9-19
-
-
Penczek, P.A.1
Fang, J.2
Li, X.3
Cheng, Y.4
Loerke, J.5
Spahn, C.M.T.6
-
40
-
-
79551680953
-
Dynamics of the translational machinery
-
A. Petrov, G. Kornberg, S. O'Leary, A. Tsai, S. Uemura, and J.D. Puglisi Dynamics of the translational machinery Curr. Opin. Struct. Biol. 21 2011 137 145
-
(2011)
Curr. Opin. Struct. Biol.
, vol.21
, pp. 137-145
-
-
Petrov, A.1
Kornberg, G.2
O'Leary, S.3
Tsai, A.4
Uemura, S.5
Puglisi, J.D.6
-
41
-
-
84904434651
-
Cryoelectron microscopic structures of eukaryotic translation termination complexes containing eRF1-eRF3 or eRF1-ABCE1
-
A. Preis, A. Heuer, C. Barrio-Garcia, A. Hauser, D.E. Eyler, O. Berninghausen, R. Green, T. Becker, and R. Beckmann Cryoelectron microscopic structures of eukaryotic translation termination complexes containing eRF1-eRF3 or eRF1-ABCE1 Cell Rep. 8 2014 59 65
-
(2014)
Cell Rep.
, vol.8
, pp. 59-65
-
-
Preis, A.1
Heuer, A.2
Barrio-Garcia, C.3
Hauser, A.4
Eyler, D.E.5
Berninghausen, O.6
Green, R.7
Becker, T.8
Beckmann, R.9
-
42
-
-
84890506631
-
Life at low Reynolds number
-
E.M. Purcell Life at low Reynolds number Am. J. Physiol. 45 1977 3 11
-
(1977)
Am. J. Physiol.
, vol.45
, pp. 3-11
-
-
Purcell, E.M.1
-
43
-
-
79951510534
-
Crystal structure of the eukaryotic 40S ribosomal subunit in complex with initiation factor 1
-
J. Rabl, M. Leibundgut, S.F. Ataide, A. Haag, and N. Ban Crystal structure of the eukaryotic 40S ribosomal subunit in complex with initiation factor 1 Science 331 2011 730 736
-
(2011)
Science
, vol.331
, pp. 730-736
-
-
Rabl, J.1
Leibundgut, M.2
Ataide, S.F.3
Haag, A.4
Ban, N.5
-
44
-
-
78649873931
-
Head swivel on the ribosome facilitates translocation by means of intra-subunit tRNA hybrid sites
-
A.H. Ratje, J. Loerke, A. Mikolajka, M. Brünner, P.W. Hildebrand, A.L. Starosta, A. Dönhöfer, S.R. Connell, P. Fucini, and T. Mielke Head swivel on the ribosome facilitates translocation by means of intra-subunit tRNA hybrid sites Nature 468 2010 713 716
-
(2010)
Nature
, vol.468
, pp. 713-716
-
-
Ratje, A.H.1
Loerke, J.2
Mikolajka, A.3
Brünner, M.4
Hildebrand, P.W.5
Starosta, A.L.6
Dönhöfer, A.7
Connell, S.R.8
Fucini, P.9
Mielke, T.10
-
45
-
-
78650434685
-
A flexible loop in yeast ribosomal protein L11 coordinates P-site tRNA binding
-
M.H.J. Rhodin, and J.D. Dinman A flexible loop in yeast ribosomal protein L11 coordinates P-site tRNA binding Nucleic Acids Res. 38 2010 8377 8389
-
(2010)
Nucleic Acids Res.
, vol.38
, pp. 8377-8389
-
-
Rhodin, M.H.J.1
Dinman, J.D.2
-
47
-
-
33747873906
-
Energy landscape of the ribosomal decoding center
-
K.Y. Sanbonmatsu Energy landscape of the ribosomal decoding center Biochimie 88 2006 1053 1059
-
(2006)
Biochimie
, vol.88
, pp. 1053-1059
-
-
Sanbonmatsu, K.Y.1
-
48
-
-
0142178293
-
Structures of deacylated tRNA mimics bound to the e site of the large ribosomal subunit
-
T.M. Schmeing, P.B. Moore, and T.A. Steitz Structures of deacylated tRNA mimics bound to the E site of the large ribosomal subunit RNA 9 2003 1345 1352
-
(2003)
RNA
, vol.9
, pp. 1345-1352
-
-
Schmeing, T.M.1
Moore, P.B.2
Steitz, T.A.3
-
49
-
-
70350588648
-
The crystal structure of the ribosome bound to EF-Tu and aminoacyl-tRNA
-
T.M. Schmeing, R.M. Voorhees, A.C. Kelley, Y.-G. Gao, F.V. Murphy 4th, J.R. Weir, and V. Ramakrishnan The crystal structure of the ribosome bound to EF-Tu and aminoacyl-tRNA Science 326 2009 688 694
-
(2009)
Science
, vol.326
, pp. 688-694
-
-
Schmeing, T.M.1
Voorhees, R.M.2
Kelley, A.C.3
Gao, Y.-G.4
Murphy, F.V.5
Weir, J.R.6
Ramakrishnan, V.7
-
50
-
-
62649162306
-
GTPase activation of elongation factor EF-Tu by the ribosome during decoding
-
J.-C. Schuette, F.V. Murphy 4th, A.C. Kelley, J.R. Weir, J. Giesebrecht, S.R. Connell, J. Loerke, T. Mielke, W. Zhang, and P.A. Penczek GTPase activation of elongation factor EF-Tu by the ribosome during decoding EMBO J. 28 2009 755 765
-
(2009)
EMBO J.
, vol.28
, pp. 755-765
-
-
Schuette, J.-C.1
Murphy, F.V.2
Kelley, A.C.3
Weir, J.R.4
Giesebrecht, J.5
Connell, S.R.6
Loerke, J.7
Mielke, T.8
Zhang, W.9
Penczek, P.A.10
-
51
-
-
33749354360
-
Structure of the 70S ribosome complexed with mRNA and tRNA
-
M. Selmer, C.M. Dunham, F.V. Murphy 4th, A. Weixlbaumer, S. Petry, A.C. Kelley, J.R. Weir, and V. Ramakrishnan Structure of the 70S ribosome complexed with mRNA and tRNA Science 313 2006 1935 1942
-
(2006)
Science
, vol.313
, pp. 1935-1942
-
-
Selmer, M.1
Dunham, C.M.2
Murphy, F.V.3
Weixlbaumer, A.4
Petry, S.5
Kelley, A.C.6
Weir, J.R.7
Ramakrishnan, V.8
-
52
-
-
70349884311
-
Exploring conformational modes of macromolecular assemblies by multiparticle cryo-EM
-
C.M.T. Spahn, and P.A. Penczek Exploring conformational modes of macromolecular assemblies by multiparticle cryo-EM Curr. Opin. Struct. Biol. 19 2009 623 631
-
(2009)
Curr. Opin. Struct. Biol.
, vol.19
, pp. 623-631
-
-
Spahn, C.M.T.1
Penczek, P.A.2
-
53
-
-
1842576803
-
Domain movements of elongation factor eEF2 and the eukaryotic 80S ribosome facilitate tRNA translocation
-
C.M.T. Spahn, M.G. Gomez-Lorenzo, R.A. Grassucci, R. Jørgensen, G.R. Andersen, R. Beckmann, P.A. Penczek, J.P.G. Ballesta, and J. Frank Domain movements of elongation factor eEF2 and the eukaryotic 80S ribosome facilitate tRNA translocation EMBO J. 23 2004 1008 1019
-
(2004)
EMBO J.
, vol.23
, pp. 1008-1019
-
-
Spahn, C.M.T.1
Gomez-Lorenzo, M.G.2
Grassucci, R.A.3
Jørgensen, R.4
Andersen, G.R.5
Beckmann, R.6
Penczek, P.A.7
Ballesta, J.P.G.8
Frank, J.9
-
54
-
-
38449098012
-
In vitro and tissue culture methods for analysis of translation initiation on the endoplasmic reticulum
-
S.B. Stephens, and C.V. Nicchitta In vitro and tissue culture methods for analysis of translation initiation on the endoplasmic reticulum Methods Enzymol. 431 2007 47 60
-
(2007)
Methods Enzymol.
, vol.431
, pp. 47-60
-
-
Stephens, S.B.1
Nicchitta, C.V.2
-
55
-
-
59049096394
-
Ribosome-induced changes in elongation factor Tu conformation control GTP hydrolysis
-
E. Villa, J. Sengupta, L.G. Trabuco, J. LeBarron, W.T. Baxter, T.R. Shaikh, R.A. Grassucci, P. Nissen, M. Ehrenberg, K. Schulten, and J. Frank Ribosome-induced changes in elongation factor Tu conformation control GTP hydrolysis Proc. Natl. Acad. Sci. USA 106 2009 1063 1068
-
(2009)
Proc. Natl. Acad. Sci. USA
, vol.106
, pp. 1063-1068
-
-
Villa, E.1
Sengupta, J.2
Trabuco, L.G.3
Lebarron, J.4
Baxter, W.T.5
Shaikh, T.R.6
Grassucci, R.A.7
Nissen, P.8
Ehrenberg, M.9
Schulten, K.10
Frank, J.11
-
56
-
-
84878924244
-
Structural basis of the translational elongation cycle
-
R.M. Voorhees, and V. Ramakrishnan Structural basis of the translational elongation cycle Annu. Rev. Biochem. 82 2013 203 236
-
(2013)
Annu. Rev. Biochem.
, vol.82
, pp. 203-236
-
-
Voorhees, R.M.1
Ramakrishnan, V.2
-
58
-
-
84903310310
-
Structure of the mammalian ribosome-Sec61 complex to 3.4 Å resolution
-
R.M. Voorhees, I.S. Fernández, S.H.W. Scheres, and R.S. Hegde Structure of the mammalian ribosome-Sec61 complex to 3.4 Å resolution Cell 157 2014 1632 1643
-
(2014)
Cell
, vol.157
, pp. 1632-1643
-
-
Voorhees, R.M.1
Fernández, I.S.2
Scheres, S.H.W.3
Hegde, R.S.4
-
59
-
-
77952717308
-
Accommodation of aminoacyl-tRNA into the ribosome involves reversible excursions along multiple pathways
-
P.C. Whitford, P. Geggier, R.B. Altman, S.C. Blanchard, J.N. Onuchic, and K.Y. Sanbonmatsu Accommodation of aminoacyl-tRNA into the ribosome involves reversible excursions along multiple pathways RNA 16 2010 1196 1204
-
(2010)
RNA
, vol.16
, pp. 1196-1204
-
-
Whitford, P.C.1
Geggier, P.2
Altman, R.B.3
Blanchard, S.C.4
Onuchic, J.N.5
Sanbonmatsu, K.Y.6
-
60
-
-
33845484606
-
The E-site story: The importance of maintaining two tRNAs on the ribosome during protein synthesis
-
D.N. Wilson, and K.H. Nierhaus The E-site story: the importance of maintaining two tRNAs on the ribosome during protein synthesis Cell. Mol. Life Sci. 63 2006 2725 2737
-
(2006)
Cell. Mol. Life Sci.
, vol.63
, pp. 2725-2737
-
-
Wilson, D.N.1
Nierhaus, K.H.2
-
61
-
-
76449098262
-
PHENIX: A comprehensive Python-based system for macromolecular structure solution
-
P.D. Adams, P.V. Afonine, G. Bunkóczi, V.B. Chen, I.W. Davis, N. Echols, J.J. Headd, L.-W. Hung, G.J. Kapral, and R.W. Grosse-Kunstleve PHENIX: a comprehensive Python-based system for macromolecular structure solution Acta Crystallogr. D Biol. Crystallogr. 66 2010 213 221
-
(2010)
Acta Crystallogr. D Biol. Crystallogr.
, vol.66
, pp. 213-221
-
-
Adams, P.D.1
Afonine, P.V.2
Bunkóczi, G.3
Chen, V.B.4
Davis, I.W.5
Echols, N.6
Headd, J.J.7
Hung, L.-W.8
Kapral, G.J.9
Grosse-Kunstleve, R.W.10
-
62
-
-
33845449481
-
SIGNATURE: A single-particle selection system for molecular electron microscopy
-
J.Z. Chen, and N. Grigorieff SIGNATURE: a single-particle selection system for molecular electron microscopy J. Struct. Biol. 157 2007 168 173
-
(2007)
J. Struct. Biol.
, vol.157
, pp. 168-173
-
-
Chen, J.Z.1
Grigorieff, N.2
-
63
-
-
74549178560
-
MolProbity: All-atom structure validation for macromolecular crystallography
-
V.B. Chen, W.B. Arendall 3rd, J.J. Headd, D.A. Keedy, R.M. Immormino, G.J. Kapral, L.W. Murray, J.S. Richardson, and D.C. Richardson MolProbity: all-atom structure validation for macromolecular crystallography Acta Crystallogr. D Biol. Crystallogr. 66 2010 12 21
-
(2010)
Acta Crystallogr. D Biol. Crystallogr.
, vol.66
, pp. 12-21
-
-
Chen, V.B.1
Arendall, W.B.2
Headd, J.J.3
Keedy, D.A.4
Immormino, R.M.5
Kapral, G.J.6
Murray, L.W.7
Richardson, J.S.8
Richardson, D.C.9
-
64
-
-
84871957573
-
Correcting pervasive errors in RNA crystallography through enumerative structure prediction
-
F.-C. Chou, P. Sripakdeevong, S.M. Dibrov, T. Hermann, and R. Das Correcting pervasive errors in RNA crystallography through enumerative structure prediction Nat. Methods 10 2013 74 76
-
(2013)
Nat. Methods
, vol.10
, pp. 74-76
-
-
Chou, F.-C.1
Sripakdeevong, P.2
Dibrov, S.M.3
Hermann, T.4
Das, R.5
-
66
-
-
84875116452
-
Crystal structure of 70S ribosome with both cognate tRNAs in the e and P sites representing an authentic elongation complex
-
S. Feng, Y. Chen, and Y.-G. Gao Crystal structure of 70S ribosome with both cognate tRNAs in the E and P sites representing an authentic elongation complex PLoS ONE 8 2013 e58829
-
(2013)
PLoS ONE
, vol.8
, pp. e58829
-
-
Feng, S.1
Chen, Y.2
Gao, Y.-G.3
-
67
-
-
33845296470
-
SPARX, a new environment for Cryo-EM image processing
-
M. Hohn, G. Tang, G. Goodyear, P.R. Baldwin, Z. Huang, P.A. Penczek, C. Yang, R.M. Glaeser, P.D. Adams, and S.J. Ludtke SPARX, a new environment for Cryo-EM image processing J. Struct. Biol. 157 2007 47 55
-
(2007)
J. Struct. Biol.
, vol.157
, pp. 47-55
-
-
Hohn, M.1
Tang, G.2
Goodyear, G.3
Baldwin, P.R.4
Huang, Z.5
Penczek, P.A.6
Yang, C.7
Glaeser, R.M.8
Adams, P.D.9
Ludtke, S.J.10
-
70
-
-
84894623755
-
Quantifying the local resolution of cryo-EM density maps
-
A. Kucukelbir, F.J. Sigworth, and H.D. Tagare Quantifying the local resolution of cryo-EM density maps Nat. Methods 11 2014 63 69
-
(2014)
Nat. Methods
, vol.11
, pp. 63-69
-
-
Kucukelbir, A.1
Sigworth, F.J.2
Tagare, H.D.3
-
71
-
-
0000243829
-
PROCHECK: A program to check the stereochemical quality of protein structures
-
R.A. Laskowski, M.W. MacArthur, D.S. Moss, and J.M. Thornton PROCHECK: a program to check the stereochemical quality of protein structures J. Appl. Cryst. 26 1993 283 291
-
(1993)
J. Appl. Cryst.
, vol.26
, pp. 283-291
-
-
Laskowski, R.A.1
Macarthur, M.W.2
Moss, D.S.3
Thornton, J.M.4
-
72
-
-
0037441653
-
Structure validation by Calpha geometry: Phi,psi and Cbeta deviation
-
S.C. Lovell, I.W. Davis, W.B. Arendall 3rd, P.I.W. de Bakker, J.M. Word, M.G. Prisant, J.S. Richardson, and D.C. Richardson Structure validation by Calpha geometry: phi,psi and Cbeta deviation Proteins 50 2003 437 450
-
(2003)
Proteins
, vol.50
, pp. 437-450
-
-
Lovell, S.C.1
Davis, I.W.2
Arendall, W.B.3
De Bakker, P.I.W.4
Word, J.M.5
Prisant, M.G.6
Richardson, J.S.7
Richardson, D.C.8
-
73
-
-
0038441501
-
Accurate determination of local defocus and specimen tilt in electron microscopy
-
J.A. Mindell, and N. Grigorieff Accurate determination of local defocus and specimen tilt in electron microscopy J. Struct. Biol. 142 2003 334 347
-
(2003)
J. Struct. Biol.
, vol.142
, pp. 334-347
-
-
Mindell, J.A.1
Grigorieff, N.2
-
75
-
-
33646042904
-
A method of focused classification, based on the bootstrap 3D variance analysis, and its application to EF-G-dependent translocation
-
P.A. Penczek, J. Frank, and C.M.T. Spahn A method of focused classification, based on the bootstrap 3D variance analysis, and its application to EF-G-dependent translocation J. Struct. Biol. 154 2006 184 194
-
(2006)
J. Struct. Biol.
, vol.154
, pp. 184-194
-
-
Penczek, P.A.1
Frank, J.2
Spahn, C.M.T.3
-
76
-
-
4444221565
-
UCSF Chimera - A visualization system for exploratory research and analysis
-
E.F. Pettersen, T.D. Goddard, C.C. Huang, G.S. Couch, D.M. Greenblatt, E.C. Meng, and T.E. Ferrin UCSF Chimera - a visualization system for exploratory research and analysis J. Comput. Chem. 25 2004 1605 1612
-
(2004)
J. Comput. Chem.
, vol.25
, pp. 1605-1612
-
-
Pettersen, E.F.1
Goddard, T.D.2
Huang, C.C.3
Couch, G.S.4
Greenblatt, D.M.5
Meng, E.C.6
Ferrin, T.E.7
-
77
-
-
77952581453
-
Quantitative analysis of cryo-EM density map segmentation by watershed and scale-space filtering, and fitting of structures by alignment to regions
-
G.D. Pintilie, J. Zhang, T.D. Goddard, W. Chiu, and D.C. Gossard Quantitative analysis of cryo-EM density map segmentation by watershed and scale-space filtering, and fitting of structures by alignment to regions J. Struct. Biol. 170 2010 427 438
-
(2010)
J. Struct. Biol.
, vol.170
, pp. 427-438
-
-
Pintilie, G.D.1
Zhang, J.2
Goddard, T.D.3
Chiu, W.4
Gossard, D.C.5
-
78
-
-
80054078476
-
Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega
-
F. Sievers, A. Wilm, D. Dineen, T.J. Gibson, K. Karplus, W. Li, R. Lopez, H. McWilliam, M. Remmert, and J. Söding Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega Mol. Syst. Biol. 7 2011 539
-
(2011)
Mol. Syst. Biol.
, vol.7
, pp. 539
-
-
Sievers, F.1
Wilm, A.2
Dineen, D.3
Gibson, T.J.4
Karplus, K.5
Li, W.6
Lopez, R.7
McWilliam, H.8
Remmert, M.9
Söding, J.10
-
79
-
-
20544468931
-
Automated molecular microscopy: The new Leginon system
-
C. Suloway, J. Pulokas, D. Fellmann, A. Cheng, F. Guerra, J. Quispe, S. Stagg, C.S. Potter, and B. Carragher Automated molecular microscopy: the new Leginon system J. Struct. Biol. 151 2005 41 60
-
(2005)
J. Struct. Biol.
, vol.151
, pp. 41-60
-
-
Suloway, C.1
Pulokas, J.2
Fellmann, D.3
Cheng, A.4
Guerra, F.5
Quispe, J.6
Stagg, S.7
Potter, C.S.8
Carragher, B.9
-
80
-
-
0032922193
-
SFCHECK: A unified set of procedures for evaluating the quality of macromolecular structure-factor data and their agreement with the atomic model
-
A.A. Vaguine, J. Richelle, and S.J. Wodak SFCHECK: a unified set of procedures for evaluating the quality of macromolecular structure-factor data and their agreement with the atomic model Acta Crystallogr. D Biol. Crystallogr. 55 1999 191 205
-
(1999)
Acta Crystallogr. D Biol. Crystallogr.
, vol.55
, pp. 191-205
-
-
Vaguine, A.A.1
Richelle, J.2
Wodak, S.J.3
-
81
-
-
66149157000
-
Insights into substrate stabilization from snapshots of the peptidyl transferase center of the intact 70S ribosome
-
R.M. Voorhees, A. Weixlbaumer, D. Loakes, A.C. Kelley, and V. Ramakrishnan Insights into substrate stabilization from snapshots of the peptidyl transferase center of the intact 70S ribosome Nat. Struct. Mol. Biol. 16 2009 528 533
-
(2009)
Nat. Struct. Mol. Biol.
, vol.16
, pp. 528-533
-
-
Voorhees, R.M.1
Weixlbaumer, A.2
Loakes, D.3
Kelley, A.C.4
Ramakrishnan, V.5
-
82
-
-
65449188232
-
Jalview Version 2 - A multiple sequence alignment editor and analysis workbench
-
A.M. Waterhouse, J.B. Procter, D.M.A. Martin, M. Clamp, and G.J. Barton Jalview Version 2 - a multiple sequence alignment editor and analysis workbench Bioinformatics 25 2009 1189 1191
-
(2009)
Bioinformatics
, vol.25
, pp. 1189-1191
-
-
Waterhouse, A.M.1
Procter, J.B.2
Martin, D.M.A.3
Clamp, M.4
Barton, G.J.5
-
83
-
-
79953737180
-
Overview of the CCP4 suite and current developments
-
M.D. Winn, C.C. Ballard, K.D. Cowtan, E.J. Dodson, P. Emsley, P.R. Evans, R.M. Keegan, E.B. Krissinel, A.G.W. Leslie, and A. McCoy Overview of the CCP4 suite and current developments Acta Crystallogr. D Biol. Crystallogr. 67 2011 235 242
-
(2011)
Acta Crystallogr. D Biol. Crystallogr.
, vol.67
, pp. 235-242
-
-
Winn, M.D.1
Ballard, C.C.2
Cowtan, K.D.3
Dodson, E.J.4
Emsley, P.5
Evans, P.R.6
Keegan, R.M.7
Krissinel, E.B.8
Leslie, A.G.W.9
McCoy, A.10
|