-
1
-
-
84878580683
-
Ribosome structures to near-atomic resolution from thirty thousand cryo-EM particles
-
Bai, X.C., Fernandez, I.S., McMullan, G., Scheres, S.H., Ribosome structures to near-atomic resolution from thirty thousand cryo-EM particles. eLife, 2, 2013, e00461, 10.7554/eLife. 00461.
-
(2013)
eLife
, vol.2
, pp. e00461
-
-
Bai, X.C.1
Fernandez, I.S.2
McMullan, G.3
Scheres, S.H.4
-
2
-
-
33845302057
-
Multi-resolution anchor-point registration of biomolecular assemblies and their components
-
Birmanns, S., Wriggers, W., Multi-resolution anchor-point registration of biomolecular assemblies and their components. J. Struct. Biol. 157 (2007), 271–280, 10.1016/j.jsb.2006.08.008.
-
(2007)
J. Struct. Biol.
, vol.157
, pp. 271-280
-
-
Birmanns, S.1
Wriggers, W.2
-
3
-
-
1942521664
-
Fast fitting of atomic structures to low-resolution electron density maps by surface overlap maximization
-
Ceulemans, H., Russell, R.B., Fast fitting of atomic structures to low-resolution electron density maps by surface overlap maximization. J. Mol. Biol. 338 (2004), 783–793, 10.1016/j.jmb.2004.02.066.
-
(2004)
J. Mol. Biol.
, vol.338
, pp. 783-793
-
-
Ceulemans, H.1
Russell, R.B.2
-
4
-
-
0036297629
-
Multi-resolution contour-based fitting of macromolecular structures
-
Chacon, P., Wriggers, W., Multi-resolution contour-based fitting of macromolecular structures. J. Mol. Biol. 317 (2002), 375–384, 10.1006/jmbi.2002.5438.
-
(2002)
J. Mol. Biol.
, vol.317
, pp. 375-384
-
-
Chacon, P.1
Wriggers, W.2
-
5
-
-
48149088332
-
Video Object Tracking Based on a Chamfer Distance Transform
-
IEEE International Conference on Image Processing, III-357-III-360. doi:10.1109/ICIP.2007.4379320.
-
Chen, Z., Husz, Z.L., Wallace, I., Wallace, A.M., 2007. Video Object Tracking Based on a Chamfer Distance Transform. IEEE International Conference on Image Processing, III-357-III-360. doi:10.1109/ICIP.2007.4379320.
-
(2007)
-
-
Chen, Z.1
Husz, Z.L.2
Wallace, I.3
Wallace, A.M.4
-
6
-
-
33749249600
-
The Relationship Between Precision-Recall and ROC Curves
-
ACM Press pp. 233-240
-
Davis, J., Goadrich, M., The Relationship Between Precision-Recall and ROC Curves. 2006, ACM Press, 10.1145/1143844.1143874 pp. 233-240.
-
(2006)
-
-
Davis, J.1
Goadrich, M.2
-
7
-
-
0035996965
-
Modeling shape and topology of low-resolution density maps of biological macromolecules
-
De-Alarcón, P.A., Pascual-Montano, A., Gupta, A., Carazo, J.M., Modeling shape and topology of low-resolution density maps of biological macromolecules. Biophys. J. 83 (2002), 619–632, 10.1016/S0006-3495(02)75196-5.
-
(2002)
Biophys. J.
, vol.83
, pp. 619-632
-
-
De-Alarcón, P.A.1
Pascual-Montano, A.2
Gupta, A.3
Carazo, J.M.4
-
8
-
-
0346102908
-
Using surface envelopes for discrimination of molecular models
-
Dugan, J.M., Altman, R.B., Using surface envelopes for discrimination of molecular models. Protein Sci. 13 (2004), 15–24, 10.1110/ps.03385504.
-
(2004)
Protein Sci.
, vol.13
, pp. 15-24
-
-
Dugan, J.M.1
Altman, R.B.2
-
9
-
-
84862275086
-
Fitting multimeric protein complexes into electron microscopy maps using 3D Zernike descriptors
-
Esquivel-Rodriguez, J., Kihara, D., Fitting multimeric protein complexes into electron microscopy maps using 3D Zernike descriptors. J. Phys. Chem. B 116 (2012), 6854–6861, 10.1021/jp212612t.
-
(2012)
J. Phys. Chem. B
, vol.116
, pp. 6854-6861
-
-
Esquivel-Rodriguez, J.1
Kihara, D.2
-
10
-
-
84938348923
-
A Python library for assessment of three-dimensional electron microscopy density fits
-
Farabella, I., Vasishtan, D., Joseph, A.P., Pandurangan, A.P., Sahota, H., Topf, M., A Python library for assessment of three-dimensional electron microscopy density fits. J. Appl. Crystallogr. 48 (2015), 1314–1323, 10.1107/S1600576715010092.
-
(2015)
J. Appl. Crystallogr.
, vol.48
, pp. 1314-1323
-
-
Farabella, I.1
Vasishtan, D.2
Joseph, A.P.3
Pandurangan, A.P.4
Sahota, H.5
Topf, M.6
-
11
-
-
84941256725
-
Realising the full potential of research data: common challenges in data management, sharing and integration across scientific disciplines
-
Joint working paper by the FP7 ESFRI cluster projects: BioMedBridges, CRISP, DASISH, ENVRI. doi:doi:10.5281/zenodo.7636.
-
Field, L., Suhr, S., Ison, J., Wouter, L., Wittenburg, P., Broeder, D., Hardisty, A., Repo, S., Jenkinson, A., 2013. Realising the full potential of research data: common challenges in data management, sharing and integration across scientific disciplines. Joint working paper by the FP7 ESFRI cluster projects: BioMedBridges, CRISP, DASISH, ENVRI. doi:doi:10.5281/zenodo.7636.
-
(2013)
-
-
Field, L.1
Suhr, S.2
Ison, J.3
Wouter, L.4
Wittenburg, P.5
Broeder, D.6
Hardisty, A.7
Repo, S.8
Jenkinson, A.9
-
12
-
-
33847266703
-
ADP_EM: fast exhaustive multi-resolution docking for high-throughput coverage
-
Garzon, J.I., Kovacs, J., Abagyan, R., Chacon, P., ADP_EM: fast exhaustive multi-resolution docking for high-throughput coverage. Bioinformatics 23 (2007), 427–433, 10.1093/bioinformatics/btl625.
-
(2007)
Bioinformatics
, vol.23
, pp. 427-433
-
-
Garzon, J.I.1
Kovacs, J.2
Abagyan, R.3
Chacon, P.4
-
13
-
-
33845345287
-
Visualizing density maps with UCSF Chimera
-
Goddard, T.D., Huang, C.C., Ferrin, T.E., Visualizing density maps with UCSF Chimera. J. Struct. Biol. 157 (2007), 281–287, 10.1016/j.jsb.2006.06.010.
-
(2007)
J. Struct. Biol.
, vol.157
, pp. 281-287
-
-
Goddard, T.D.1
Huang, C.C.2
Ferrin, T.E.3
-
14
-
-
84893496828
-
Comprehensive structural model of the mechanochemical cycle of a mitotic motor highlights molecular adaptations in the kinesin family
-
Goulet, A., Major, J., Jun, Y., Gross, S.P., Rosenfeld, S.S., Moores, C.A., Comprehensive structural model of the mechanochemical cycle of a mitotic motor highlights molecular adaptations in the kinesin family. Proc. Nat. Acad. Sci. U.S.A. 111 (2014), 1837–1842, 10.1073/pnas.1319848111.
-
(2014)
Proc. Nat. Acad. Sci. U.S.A.
, vol.111
, pp. 1837-1842
-
-
Goulet, A.1
Major, J.2
Jun, Y.3
Gross, S.P.4
Rosenfeld, S.S.5
Moores, C.A.6
-
15
-
-
0028773889
-
Volume changes on protein folding
-
Harpaz, Y., Gerstein, M., Chothia, C., Volume changes on protein folding. Structure 2 (1994), 641–649.
-
(1994)
Structure
, vol.2
, pp. 641-649
-
-
Harpaz, Y.1
Gerstein, M.2
Chothia, C.3
-
16
-
-
84863011711
-
Outcome of the first electron microscopy validation task force meeting
-
Henderson, R., Sali, A., Baker, M.L., Carragher, B., Devkota, B., Downing, K.H., Egelman, E.H., Feng, Z., Frank, J., Grigorieff, N., Jiang, W., Ludtke, S.J., Medalia, O., Penczek, P.A., Rosenthal, P.B., Rossmann, M.G., Schmid, M.F., Schroder, G.F., Steven, A.C., Stokes, D.L., Westbrook, J.D., Wriggers, W., Yang, H., Young, J., Berman, H.M., Chiu, W., Kleywegt, G.J., Lawson, C.L., Outcome of the first electron microscopy validation task force meeting. Structure 20 (2012), 205–214, 10.1016/j.str.2011.12.014.
-
(2012)
Structure
, vol.20
, pp. 205-214
-
-
Henderson, R.1
Sali, A.2
Baker, M.L.3
Carragher, B.4
Devkota, B.5
Downing, K.H.6
Egelman, E.H.7
Feng, Z.8
Frank, J.9
Grigorieff, N.10
Jiang, W.11
Ludtke, S.J.12
Medalia, O.13
Penczek, P.A.14
Rosenthal, P.B.15
Rossmann, M.G.16
Schmid, M.F.17
Schroder, G.F.18
Steven, A.C.19
Stokes, D.L.20
Westbrook, J.D.21
Wriggers, W.22
Yang, H.23
Young, J.24
Berman, H.M.25
Chiu, W.26
Kleywegt, G.J.27
Lawson, C.L.28
more..
-
17
-
-
84961233652
-
Refinement of atomic models in high resolution EM reconstructions using Flex-EM and local assessment
-
Joseph, A.P., Malhotra, S., Burnley, T., Wood, C., Clare, D.K., Winn, M., Topf, M., Refinement of atomic models in high resolution EM reconstructions using Flex-EM and local assessment. Methods 100 (2016), 42–49, 10.1016/j.ymeth.2016.03.007.
-
(2016)
Methods
, vol.100
, pp. 42-49
-
-
Joseph, A.P.1
Malhotra, S.2
Burnley, T.3
Wood, C.4
Clare, D.K.5
Winn, M.6
Topf, M.7
-
18
-
-
58149293674
-
Multiple subunit fitting into a low-resolution density map of a macromolecular complex using a gaussian mixture model
-
Kawabata, T., Multiple subunit fitting into a low-resolution density map of a macromolecular complex using a gaussian mixture model. Biophys. J. 95 (2008), 4643–4658, 10.1529/biophysj.108.137125.
-
(2008)
Biophys. J.
, vol.95
, pp. 4643-4658
-
-
Kawabata, T.1
-
19
-
-
84897000286
-
Biochemistry. The resolution revolution
-
Kuhlbrandt, W., Biochemistry. The resolution revolution. Science 343 (2014), 1443–1444, 10.1126/science.1251652.
-
(2014)
Science
, vol.343
, pp. 1443-1444
-
-
Kuhlbrandt, W.1
-
20
-
-
84887221465
-
Web-based visualisation and analysis of 3D electron-microscopy data from EMDB and PDB
-
Lagerstedt, I., Moore, W.J., Patwardhan, A., Sanz-Garcia, E., Best, C., Swedlow, J.R., Kleywegt, G.J., Web-based visualisation and analysis of 3D electron-microscopy data from EMDB and PDB. J. Struct. Biol. 184 (2013), 173–181, 10.1016/j.jsb.2013.09.021.
-
(2013)
J. Struct. Biol.
, vol.184
, pp. 173-181
-
-
Lagerstedt, I.1
Moore, W.J.2
Patwardhan, A.3
Sanz-Garcia, E.4
Best, C.5
Swedlow, J.R.6
Kleywegt, G.J.7
-
21
-
-
84924049329
-
Conformational changes during pore formation by the perforin-related protein pleurotolysin
-
Lukoyanova, N., Kondos, S.C., Farabella, I., Law, R.H., Reboul, C.F., Caradoc-Davies, T.T., Spicer, B.A., Kleifeld, O., Traore, D.A., Ekkel, S.M., Voskoboinik, I., Trapani, J.A., Hatfaludi, T., Oliver, K., Hotze, E.M., Tweten, R.K., Whisstock, J.C., Topf, M., Saibil, H.R., Dunstone, M.A., Conformational changes during pore formation by the perforin-related protein pleurotolysin. PLoS Biol., 13, 2015, e1002049, 10.1371/journal.pbio.1002049.
-
(2015)
PLoS Biol.
, vol.13
, pp. e1002049
-
-
Lukoyanova, N.1
Kondos, S.C.2
Farabella, I.3
Law, R.H.4
Reboul, C.F.5
Caradoc-Davies, T.T.6
Spicer, B.A.7
Kleifeld, O.8
Traore, D.A.9
Ekkel, S.M.10
Voskoboinik, I.11
Trapani, J.A.12
Hatfaludi, T.13
Oliver, K.14
Hotze, E.M.15
Tweten, R.K.16
Whisstock, J.C.17
Topf, M.18
Saibil, H.R.19
Dunstone, M.A.20
more..
-
22
-
-
84872024281
-
Cryo-electron microscopy–a primer for the non-microscopist
-
Milne, J.L., Borgnia, M.J., Bartesaghi, A., Tran, E.E., Earl, L.A., Schauder, D.M., Lengyel, J., Pierson, J., Patwardhan, A., Subramaniam, S., Cryo-electron microscopy–a primer for the non-microscopist. FEBS J. 280 (2013), 28–45, 10.1111/febs.12078.
-
(2013)
FEBS J.
, vol.280
, pp. 28-45
-
-
Milne, J.L.1
Borgnia, M.J.2
Bartesaghi, A.3
Tran, E.E.4
Earl, L.A.5
Schauder, D.M.6
Lengyel, J.7
Pierson, J.8
Patwardhan, A.9
Subramaniam, S.10
-
23
-
-
67649869968
-
MM-align: a quick algorithm for aligning multiple-chain protein complex structures using iterative dynamic programming
-
Mukherjee, S., Zhang, Y., MM-align: a quick algorithm for aligning multiple-chain protein complex structures using iterative dynamic programming. Nucleic Acids Res., 37, 2009, e83, 10.1093/nar/gkp318.
-
(2009)
Nucleic Acids Res.
, vol.37
, pp. e83
-
-
Mukherjee, S.1
Zhang, Y.2
-
24
-
-
84894473519
-
Combined approaches to flexible fitting and assessment in virus capsids undergoing conformational change
-
Pandurangan, A.P., Shakeel, S., Butcher, S.J., Topf, M., Combined approaches to flexible fitting and assessment in virus capsids undergoing conformational change. J. Struct. Biol. 185 (2014), 427–439, 10.1016/j.jsb.2013.12.003.
-
(2014)
J. Struct. Biol.
, vol.185
, pp. 427-439
-
-
Pandurangan, A.P.1
Shakeel, S.2
Butcher, S.J.3
Topf, M.4
-
25
-
-
4444221565
-
UCSF Chimera–a visualization system for exploratory research and analysis
-
Pettersen, E.F., Goddard, T.D., Huang, C.C., Couch, G.S., Greenblatt, D.M., Meng, E.C., Ferrin, T.E., UCSF Chimera–a visualization system for exploratory research and analysis. J. Comput. Chem. 25 (2004), 1605–1612, 10.1002/jcc.20084.
-
(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
-
26
-
-
77952581453
-
Quantitative analysis of cryo-EM density map segmentation by watershed and scale-space filtering, and fitting of structures by alignment to regions
-
Pintilie, G.D., Zhang, J., Goddard, T.D., Chiu, W., Gossard, D.C., 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, 10.1016/j.jsb.2010.03.007.
-
(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
-
27
-
-
84893839858
-
Neutralizing antibodies can initiate genome release from human enterovirus 71
-
Plevka, P., Lim, P.Y., Perera, R., Cardosa, J., Suksatu, A., Kuhn, R.J., Rossmann, M.G., Neutralizing antibodies can initiate genome release from human enterovirus 71. Proc. Nat. Acad. Sci. U.S.A. 111 (2014), 2134–2139, 10.1073/pnas.1320624111.
-
(2014)
Proc. Nat. Acad. Sci. U.S.A.
, vol.111
, pp. 2134-2139
-
-
Plevka, P.1
Lim, P.Y.2
Perera, R.3
Cardosa, J.4
Suksatu, A.5
Kuhn, R.J.6
Rossmann, M.G.7
-
28
-
-
36749059956
-
Assessment of CASP7 predictions in the high accuracy template-based modeling category
-
Read, R.J., Chavali, G., Assessment of CASP7 predictions in the high accuracy template-based modeling category. Proteins 69:Suppl 8 (2007), 27–37, 10.1002/prot.21662.
-
(2007)
Proteins
, vol.69
, pp. 27-37
-
-
Read, R.J.1
Chavali, G.2
-
29
-
-
0033776245
-
Docking structures of domains into maps from cryo-electron microscopy using local correlation
-
Roseman, A.M., Docking structures of domains into maps from cryo-electron microscopy using local correlation. Acta crystallogr. Sect D: Biol. Crystallogr. 56 (2000), 1332–1340.
-
(2000)
Acta crystallogr. Sect D: Biol. Crystallogr.
, vol.56
, pp. 1332-1340
-
-
Roseman, A.M.1
-
31
-
-
84870799495
-
FOLD-EM: automated fold recognition in medium- and low-resolution (4–15 A) electron density maps
-
Saha, M., Morais, M.C., FOLD-EM: automated fold recognition in medium- and low-resolution (4–15 A) electron density maps. Bioinformatics 28 (2012), 3265–3273, 10.1093/bioinformatics/bts616.
-
(2012)
Bioinformatics
, vol.28
, pp. 3265-3273
-
-
Saha, M.1
Morais, M.C.2
-
32
-
-
77954209541
-
MOTIF-EM: an automated computational tool for identifying conserved regions in CryoEM structures
-
Saha, M., Levitt, M., Chiu, W., MOTIF-EM: an automated computational tool for identifying conserved regions in CryoEM structures. Bioinformatics 26 (2010), i301–i309, 10.1093/bioinformatics/btq195.
-
(2010)
Bioinformatics
, vol.26
, pp. i301-i309
-
-
Saha, M.1
Levitt, M.2
Chiu, W.3
-
33
-
-
84870777217
-
A method for integrative structure determination of protein-protein complexes
-
Schneidman-Duhovny, D., Rossi, A., Avila-Sakar, A., Kim, S.J., Velazquez-Muriel, J., Strop, P., Liang, H., Krukenberg, K.A., Liao, M., Kim, H.M., Sobhanifar, S., Dotsch, V., Rajpal, A., Pons, J., Agard, D.A., Cheng, Y., Sali, A., A method for integrative structure determination of protein-protein complexes. Bioinformatics 28 (2012), 3282–3289, 10.1093/bioinformatics/bts628.
-
(2012)
Bioinformatics
, vol.28
, pp. 3282-3289
-
-
Schneidman-Duhovny, D.1
Rossi, A.2
Avila-Sakar, A.3
Kim, S.J.4
Velazquez-Muriel, J.5
Strop, P.6
Liang, H.7
Krukenberg, K.A.8
Liao, M.9
Kim, H.M.10
Sobhanifar, S.11
Dotsch, V.12
Rajpal, A.13
Pons, J.14
Agard, D.A.15
Cheng, Y.16
Sali, A.17
-
34
-
-
60649101018
-
A method for the alignment of heterogeneous macromolecules from electron microscopy
-
Shatsky, M., Hall, R.J., Brenner, S.E., Glaeser, R.M., A method for the alignment of heterogeneous macromolecules from electron microscopy. J. Struct. Biol. 166 (2009), 67–78, 10.1016/j.jsb.2008.12.008.
-
(2009)
J. Struct. Biol.
, vol.166
, pp. 67-78
-
-
Shatsky, M.1
Hall, R.J.2
Brenner, S.E.3
Glaeser, R.M.4
-
35
-
-
0032762144
-
An overlap invariant entropy measure of 3D medical image alignment
-
Studholme, C., Hill, D.L.G., Hawkes, D.J., An overlap invariant entropy measure of 3D medical image alignment. Pattern Recognit. 32 (1999), 71–86, 10.1016/S0031-3203(98)00091-0.
-
(1999)
Pattern Recognit.
, vol.32
, pp. 71-86
-
-
Studholme, C.1
Hill, D.L.G.2
Hawkes, D.J.3
-
36
-
-
84941185462
-
The choice of a class interval
-
Sturges, H.A., The choice of a class interval. J. Am. Stat. Assoc. 21 (1926), 65–66, 10.1080/01621459.1926.10502161.
-
(1926)
J. Am. Stat. Assoc.
, vol.21
, pp. 65-66
-
-
Sturges, H.A.1
-
37
-
-
25844459522
-
Combining electron microscopy and comparative protein structure modeling
-
Topf, M., Sali, A., Combining electron microscopy and comparative protein structure modeling. Curr. Opin. Struct. Biol. 15 (2005), 578–585, 10.1016/j.sbi.2005.08.001.
-
(2005)
Curr. Opin. Struct. Biol.
, vol.15
, pp. 578-585
-
-
Topf, M.1
Sali, A.2
-
38
-
-
38949092920
-
Protein structure fitting and refinement guided by cryo-EM density
-
Topf, M., Lasker, K., Webb, B., Wolfson, H., Chiu, W., Sali, A., Protein structure fitting and refinement guided by cryo-EM density. Structure 16 (2008), 295–307, 10.1016/j.str.2007.11.016.
-
(2008)
Structure
, vol.16
, pp. 295-307
-
-
Topf, M.1
Lasker, K.2
Webb, B.3
Wolfson, H.4
Chiu, W.5
Sali, A.6
-
39
-
-
42949089487
-
Flexible fitting of atomic structures into electron microscopy maps using molecular dynamics
-
Trabuco, L.G., Villa, E., Mitra, K., Frank, J., Schulten, K., Flexible fitting of atomic structures into electron microscopy maps using molecular dynamics. Structure 16 (2008), 673–683, 10.1016/j.str.2008.03.005.
-
(2008)
Structure
, vol.16
, pp. 673-683
-
-
Trabuco, L.G.1
Villa, E.2
Mitra, K.3
Frank, J.4
Schulten, K.5
-
40
-
-
85009349446
-
The DisVis and PowerFit web servers: explorative and integrative modeling of biomolecular complexes
-
van Zundert, G.C., Trellet, M., Schaarschmidt, J., Kurkcuoglu, Z., David, M., Verlato, M., Rosato, A., Bonvin, A.M., The DisVis and PowerFit web servers: explorative and integrative modeling of biomolecular complexes. J. Mol. Biol. 429 (2017), 399–407, 10.1016/j.jmb.2016.11.032.
-
(2017)
J. Mol. Biol.
, vol.429
, pp. 399-407
-
-
van Zundert, G.C.1
Trellet, M.2
Schaarschmidt, J.3
Kurkcuoglu, Z.4
David, M.5
Verlato, M.6
Rosato, A.7
Bonvin, A.M.8
-
41
-
-
79954417945
-
Scoring functions for cryoEM density fitting
-
Vasishtan, D., Topf, M., Scoring functions for cryoEM density fitting. J. Struct. Biol. 174 (2011), 333–343, 10.1016/j.jsb.2011.01.012.
-
(2011)
J. Struct. Biol.
, vol.174
, pp. 333-343
-
-
Vasishtan, D.1
Topf, M.2
-
42
-
-
10044224795
-
SPI-EM: towards a tool for predicting CATH superfamilies in 3D-EM maps
-
Velazquez-Muriel, J.A., Sorzano, C.O., Scheres, S.H., Carazo, J.M., SPI-EM: towards a tool for predicting CATH superfamilies in 3D-EM maps. J. Mol. Biol. 345 (2005), 759–771, 10.1016/j.jmb.2004.11.005.
-
(2005)
J. Mol. Biol.
, vol.345
, pp. 759-771
-
-
Velazquez-Muriel, J.A.1
Sorzano, C.O.2
Scheres, S.H.3
Carazo, J.M.4
-
43
-
-
84899908212
-
Finding the right fit: chiseling structures out of cryo-electron microscopy maps
-
Villa, E., Lasker, K., Finding the right fit: chiseling structures out of cryo-electron microscopy maps. Curr. Opin. Struct. Biol. 25 (2014), 118–125, 10.1016/j.sbi.2014.04.001.
-
(2014)
Curr. Opin. Struct. Biol.
, vol.25
, pp. 118-125
-
-
Villa, E.1
Lasker, K.2
-
44
-
-
0032779888
-
Quantitative fitting of atomic models into observed densities derived by electron microscopy
-
Volkmann, N., Hanein, D., Quantitative fitting of atomic models into observed densities derived by electron microscopy. J. Struct. Biol. 125 (1999), 176–184, 10.1006/jsbi.1998.4074.
-
(1999)
J. Struct. Biol.
, vol.125
, pp. 176-184
-
-
Volkmann, N.1
Hanein, D.2
-
45
-
-
84862863609
-
Real-space refinement with DireX: from global fitting to side-chain improvements
-
Wang, Z., Schroder, G.F., Real-space refinement with DireX: from global fitting to side-chain improvements. Biopolymers 97 (2012), 687–697, 10.1002/bip.22046.
-
(2012)
Biopolymers
, vol.97
, pp. 687-697
-
-
Wang, Z.1
Schroder, G.F.2
-
46
-
-
79960906785
-
BCL::EM-Fit: rigid body fitting of atomic structures into density maps using geometric hashing and real space refinement
-
Woetzel, N., Lindert, S., Stewart, P.L., Meiler, J., BCL::EM-Fit: rigid body fitting of atomic structures into density maps using geometric hashing and real space refinement. J. Struct. Biol. 175 (2011), 264–276, 10.1016/j.jsb.2011.04.016.
-
(2011)
J. Struct. Biol.
, vol.175
, pp. 264-276
-
-
Woetzel, N.1
Lindert, S.2
Stewart, P.L.3
Meiler, J.4
-
47
-
-
84860290256
-
Conventions and workflows for using Situs
-
Wriggers, W., Conventions and workflows for using Situs. Acta Crystallogr. Sect D: Biol. Crystallogr. 68 (2012), 344–351, 10.1107/S0907444911049791.
-
(2012)
Acta Crystallogr. Sect D: Biol. Crystallogr.
, vol.68
, pp. 344-351
-
-
Wriggers, W.1
-
48
-
-
77951961719
-
How significant is a protein structure similarity with TM-score = 0.5?
-
Xu, J., Zhang, Y., How significant is a protein structure similarity with TM-score = 0.5?. Bioinformatics 26 (2010), 889–895, 10.1093/bioinformatics/btq066.
-
(2010)
Bioinformatics
, vol.26
, pp. 889-895
-
-
Xu, J.1
Zhang, Y.2
-
49
-
-
84902438336
-
Architecture of the nitric-oxide synthase holoenzyme reveals large conformational changes and a calmodulin-driven release of the FMN domain
-
Yokom, A.L., Morishima, Y., Lau, M., Su, M., Glukhova, A., Osawa, Y., Southworth, D.R., Architecture of the nitric-oxide synthase holoenzyme reveals large conformational changes and a calmodulin-driven release of the FMN domain. J. Biol. Chem. 289 (2014), 16855–16865, 10.1074/jbc.M114.564005.
-
(2014)
J. Biol. Chem.
, vol.289
, pp. 16855-16865
-
-
Yokom, A.L.1
Morishima, Y.2
Lau, M.3
Su, M.4
Glukhova, A.5
Osawa, Y.6
Southworth, D.R.7
-
50
-
-
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 (2003), 3370–3374.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 3370-3374
-
-
Zemla, A.1
-
51
-
-
38049001118
-
STRALCP–structure alignment-based clustering of proteins
-
Zemla, A., Geisbrecht, B., Smith, J., Lam, M., Kirkpatrick, B., Wagner, M., Slezak, T., Zhou, C.E., STRALCP–structure alignment-based clustering of proteins. Nucleic Acids Res., 35, 2007, e150, 10.1093/nar/gkm1049.
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. e150
-
-
Zemla, A.1
Geisbrecht, B.2
Smith, J.3
Lam, M.4
Kirkpatrick, B.5
Wagner, M.6
Slezak, T.7
Zhou, C.E.8
-
52
-
-
57449087244
-
Crystal structure of CD155 and electron microscopic studies of its complexes with polioviruses
-
Zhang, P., Mueller, S., Morais, M.C., Bator, C.M., Bowman, V.D., Hafenstein, S., Wimmer, E., Rossmann, M.G., Crystal structure of CD155 and electron microscopic studies of its complexes with polioviruses. Proc. Nat. Acad. Sci. U.S.A. 105 (2008), 18284–18289, 10.1073/pnas.0807848105.
-
(2008)
Proc. Nat. Acad. Sci. U.S.A.
, vol.105
, pp. 18284-18289
-
-
Zhang, P.1
Mueller, S.2
Morais, M.C.3
Bator, C.M.4
Bowman, V.D.5
Hafenstein, S.6
Wimmer, E.7
Rossmann, M.G.8
-
53
-
-
77954209615
-
A fast mathematical programming procedure for simultaneous fitting of assembly components into cryoEM density maps
-
Zhang, S., Vasishtan, D., Xu, M., Topf, M., Alber, F., A fast mathematical programming procedure for simultaneous fitting of assembly components into cryoEM density maps. Bioinformatics 26 (2010), i261–i268, 10.1093/bioinformatics/btq201.
-
(2010)
Bioinformatics
, vol.26
, pp. i261-i268
-
-
Zhang, S.1
Vasishtan, D.2
Xu, M.3
Topf, M.4
Alber, F.5
-
54
-
-
10344232638
-
Scoring function for automated assessment of protein structure template quality
-
Zhang, Y., Skolnick, J., Scoring function for automated assessment of protein structure template quality. Proteins 57 (2004), 702–710, 10.1002/prot.20264.
-
(2004)
Proteins
, vol.57
, pp. 702-710
-
-
Zhang, Y.1
Skolnick, J.2
-
55
-
-
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 (2005), 2302–2309, 10.1093/nar/gki524.
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 2302-2309
-
-
Zhang, Y.1
Skolnick, J.2
|