Willy Wriggers - Publications

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61 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2016 Kovacs JA, Wriggers W. Spatial Heat Maps from Fast Information Matching of Fast and Slow Degrees of Freedom: Application to Molecular Dynamics Simulations. The Journal of Physical Chemistry. B. PMID 27169521 DOI: 10.1021/acs.jpcb.6b02136  1
2016 Alamo L, Qi D, Wriggers W, Antonio, Zhu J, Bilbao A, Gillilan RE, Hu S, Padrón R. Conserved intramolecular interactions maintain myosin interacting-heads motifs explaining tarantula muscle super-relaxed state structural basis. Journal of Molecular Biology. PMID 26851071 DOI: 10.1016/j.jmb.2016.01.027  1
2015 He J, Zeil S, Hallak H, McKaig K, Kovacs J, Wriggers W. Comparison of an Atomic Model and Its Cryo-EM Image at the Central Axis of a Helix. Proceedings. Ieee International Conference On Bioinformatics and Biomedicine. 2015: 1253-1259. PMID 27280059 DOI: 10.1109/BIBM.2015.7359860  1
2015 Wahle M, Wriggers W. Multi-scale Visualization of Molecular Architecture Using Real-Time Ambient Occlusion in Sculptor. Plos Computational Biology. 11: e1004516. PMID 26505203 DOI: 10.1371/journal.pcbi.1004516  1
2015 Wriggers W, He J. Numerical Geometry of Map and Model Assessment. Journal of Structural Biology. PMID 26416532 DOI: 10.1016/j.jsb.2015.09.011  1
2012 Starosolski Z, Szczepanski M, Wahle M, Rusu M, Wriggers W. Developing a denoising filter for electron microscopy and tomography data in the cloud. Biophysical Reviews. 4: 223-229. PMID 23066432 DOI: 10.1007/s12551-012-0083-x  1
2012 Wriggers W, Olson WK, Dos Remedios CG. Computational opportunities for remote collaboration and capacity building afforded by Web 2.0 and cloud computing. Biophysical Reviews. 4: 153-160. PMID 23066431 DOI: 10.1007/s12551-012-0085-8  1
2012 Rusu M, Bonneau R, Holbrook MR, Watowich SJ, Birmanns S, Wriggers W, Freiberg AN. An assembly model of rift valley Fever virus. Frontiers in Microbiology. 3: 254. PMID 22837754 DOI: 10.3389/fmicb.2012.00254  1
2012 Wriggers W. Conventions and workflows for using Situs. Acta Crystallographica. Section D, Biological Crystallography. 68: 344-51. PMID 22505255 DOI: 10.1107/S0907444911049791  1
2012 Rusu M, Starosolski Z, Wahle M, Rigort A, Wriggers W. Automated tracing of filaments in 3D electron tomography reconstructions using Sculptor and Situs. Journal of Structural Biology. 178: 121-8. PMID 22433493 DOI: 10.1016/j.jsb.2012.03.001  1
2012 Henderson R, Sali A, Baker ML, Carragher B, Devkota B, Downing KH, Egelman EH, Feng Z, Frank J, Grigorieff N, Jiang W, Ludtke SJ, Medalia O, Penczek PA, Rosenthal PB, ... ... Wriggers W, et al. Outcome of the first electron microscopy validation task force meeting. Structure (London, England : 1993). 20: 205-14. PMID 22325770 DOI: 10.1016/j.str.2011.12.014  1
2012 Rusu M, Wriggers W. Evolutionary bidirectional expansion for the tracing of alpha helices in cryo-electron microscopy reconstructions. Journal of Structural Biology. 177: 410-9. PMID 22155667 DOI: 10.1016/j.jsb.2011.11.029  1
2011 Zhang Z, Wriggers W. Polymorphism of the epidermal growth factor receptor extracellular ligand binding domain: the dimer interface depends on domain stabilization. Biochemistry. 50: 2144-56. PMID 21275429 DOI: 10.1021/bi101843s  1
2011 Birmanns S, Rusu M, Wriggers W. Using Sculptor and Situs for simultaneous assembly of atomic components into low-resolution shapes. Journal of Structural Biology. 173: 428-35. PMID 21078392 DOI: 10.1016/j.jsb.2010.11.002  1
2011 Wriggers W, Alamo L, Padrón R. Matching structural densities from different biophysical origins with gain and bias. Journal of Structural Biology. 173: 445-50. PMID 20854911 DOI: 10.1016/j.jsb.2010.09.012  1
2010 Shaw DE, Maragakis P, Lindorff-Larsen K, Piana S, Dror RO, Eastwood MP, Bank JA, Jumper JM, Salmon JK, Shan Y, Wriggers W. Atomic-level characterization of the structural dynamics of proteins. Science (New York, N.Y.). 330: 341-6. PMID 20947758 DOI: 10.1126/science.1187409  1
2010 Wriggers W. Using Situs for the integration of multi-resolution structures. Biophysical Reviews. 2: 21-27. PMID 20174447 DOI: 10.1007/s12551-009-0026-3  1
2009 Stember JN, Wriggers W. Bend-twist-stretch model for coarse elastic network simulation of biomolecular motion. The Journal of Chemical Physics. 131: 074112. PMID 19708737 DOI: 10.1063/1.3167410  1
2009 Wriggers W, Stafford KA, Shan Y, Piana S, Maragakis P, Lindorff-Larsen K, Miller PJ, Gullingsrud J, Rendleman CA, Eastwood MP, Dror RO, Shaw DE. Automated event detection and activity monitoring in long molecular dynamics simulations Journal of Chemical Theory and Computation. 5: 2595-2605. DOI: 10.1021/ct900229u  1
2008 Alamo L, Wriggers W, Pinto A, Bártoli F, Salazar L, Zhao FQ, Craig R, Padrón R. Three-dimensional reconstruction of tarantula myosin filaments suggests how phosphorylation may regulate myosin activity. Journal of Molecular Biology. 384: 780-97. PMID 18951904 DOI: 10.1016/j.jmb.2008.10.013  1
2008 Zhang Z, Wriggers W. Coarse-graining protein structures with local multivariate features from molecular dynamics. The Journal of Physical Chemistry. B. 112: 14026-35. PMID 18855436 DOI: 10.1021/jp806291p  1
2008 Rusu M, Birmanns S, Wriggers W. Biomolecular pleiomorphism probed by spatial interpolation of coarse models. Bioinformatics (Oxford, England). 24: 2460-6. PMID 18757874 DOI: 10.1093/bioinformatics/btn461  1
2007 Martin AG, Depoix F, Stohr M, Meissner U, Hagner-Holler S, Hammouti K, Burmester T, Heyd J, Wriggers W, Markl J. Limulus polyphemus hemocyanin: 10 A cryo-EM structure, sequence analysis, molecular modelling and rigid-body fitting reveal the interfaces between the eight hexamers. Journal of Molecular Biology. 366: 1332-50. PMID 17207812 DOI: 10.1016/j.jmb.2006.11.075  1
2007 Birmanns S, Wriggers W. Multi-resolution anchor-point registration of biomolecular assemblies and their components. Journal of Structural Biology. 157: 271-80. PMID 17029847 DOI: 10.1016/j.jsb.2006.08.008  1
2006 Zhang Z, Boyle PC, Lu BY, Chang JY, Wriggers W. Entropic folding pathway of human epidermal growth factor explored by disulfide scrambling and amplified collective motion simulations. Biochemistry. 45: 15269-78. PMID 17176049 DOI: 10.1021/bi0615083  1
2006 Zhang Z, Wriggers W. Local feature analysis: a statistical theory for reproducible essential dynamics of large macromolecules. Proteins. 64: 391-403. PMID 16700056 DOI: 10.1002/prot.20983  1
2006 Wriggers W, Zhang Z, Shah M, Sorensen DC. Simulating nanoscale functional motions of biomolecules Molecular Simulation. 32: 803-815. DOI: 10.1080/08927020600771415  1
2005 Angelini TE, Liang H, Wriggers W, Wong GC. Direct observation of counterion organization in F-actin polyelectrolyte bundles. The European Physical Journal. E, Soft Matter. 16: 389-400. PMID 19177656 DOI: 10.1140/epje/i2004-10097-9  1
2005 Cong Y, Jiang W, Birmanns S, Zhou ZH, Chiu W, Wriggers W. Fast rotational matching of single-particle images. Journal of Structural Biology. 152: 104-12. PMID 16236526 DOI: 10.1016/j.jsb.2005.08.006  1
2005 Wriggers W, Chakravarty S, Jennings PA. Control of protein functional dynamics by peptide linkers. Biopolymers. 80: 736-46. PMID 15880774 DOI: 10.1002/bip.20291  1
2005 Angelini TE, Sanders LK, Liang H, Wriggers W, Tang JX, Wong GCL. Structure and dynamics of condensed multivalent ions within polyelectrolyte bundles: A combined x-ray diffraction and solid-state NMR study Journal of Physics Condensed Matter. 17: S1123-S1135. DOI: 10.1088/0953-8984/17/14/001  1
2004 Arai R, Wriggers W, Nishikawa Y, Nagamune T, Fujisawa T. Conformations of variably linked chimeric proteins evaluated by synchrotron X-ray small-angle scattering. Proteins. 57: 829-38. PMID 15390267 DOI: 10.1002/prot.20244  1
2004 Wriggers W. Spanning the length scales of biomolecular simulation. Structure (London, England : 1993). 12: 1-2. PMID 14725756 DOI: 10.1016/j.str.2003.12.005  1
2004 Wriggers W, Chacón P, Kovacs JA, Tama F, Birmanns S. Topology representing neural networks reconcile biomolecular shape, structure, and dynamics Neurocomputing. 56: 365-379. DOI: 10.1016/j.neucom.2003.09.007  1
2003 Birmanns S, Wriggers W. Interactive fitting augmented by force-feedback and virtual reality. Journal of Structural Biology. 144: 123-31. PMID 14643215 DOI: 10.1016/j.jsb.2003.09.018  1
2003 Cong Y, Kovacs JA, Wriggers W. 2D fast rotational matching for image processing of biophysical data. Journal of Structural Biology. 144: 51-60. PMID 14643208 DOI: 10.1016/j.jsb.2003.09.017  1
2003 Opalka N, Chlenov M, Chacon P, Rice WJ, Wriggers W, Darst SA. Structure and function of the transcription elongation factor GreB bound to bacterial RNA polymerase. Cell. 114: 335-45. PMID 12914698 DOI: 10.1016/S0092-8674(03)00600-7  1
2003 Kovacs JA, Chacón P, Cong Y, Metwally E, Wriggers W. Fast rotational matching of rigid bodies by fast Fourier transform acceleration of five degrees of freedom. Acta Crystallographica. Section D, Biological Crystallography. 59: 1371-6. PMID 12876338 DOI: 10.1107/S0907444903011247  1
2003 Angelini TE, Liang H, Wriggers W, Wong GC. Like-charge attraction between polyelectrolytes induced by counterion charge density waves. Proceedings of the National Academy of Sciences of the United States of America. 100: 8634-7. PMID 12853566 DOI: 10.1073/pnas.1533355100  1
2003 Chacón P, Tama F, Wriggers W. Mega-Dalton biomolecular motion captured from electron microscopy reconstructions. Journal of Molecular Biology. 326: 485-92. PMID 12559916 DOI: 10.1016/S0022-2836(02)01426-2  1
2002 Tama F, Wriggers W, Brooks CL. Exploring global distortions of biological macromolecules and assemblies from low-resolution structural information and elastic network theory. Journal of Molecular Biology. 321: 297-305. PMID 12144786 DOI: 10.1016/S0022-2836(02)00627-7  1
2002 Yao X, Nguyen V, Wriggers W, Rubenstein PA. Regulation of yeast actin behavior by interaction of charged residues across the interdomain cleft. The Journal of Biological Chemistry. 277: 22875-82. PMID 11940592 DOI: 10.1074/jbc.M201685200  1
2002 Chacón P, Wriggers W. Multi-resolution contour-based fitting of macromolecular structures. Journal of Molecular Biology. 317: 375-84. PMID 11922671 DOI: 10.1006/jmbi.2002.5438  1
2002 Darst SA, Opalka N, Chacon P, Polyakov A, Richter C, Zhang G, Wriggers W. Conformational flexibility of bacterial RNA polymerase. Proceedings of the National Academy of Sciences of the United States of America. 99: 4296-301. PMID 11904365 DOI: 10.1073/pnas.052054099  1
2001 Wriggers W, Chacón P. Modeling tricks and fitting techniques for multiresolution structures Structure. 9: 779-788. PMID 11566128 DOI: 10.1016/S0969-2126(01)00648-7  1
2001 Wriggers W, Birmanns S. Using Situs for flexible and rigid-body fitting of multiresolution single-molecule data Journal of Structural Biology. 133: 193-202. PMID 11472090 DOI: 10.1006/jsbi.2000.4350  1
2001 Wriggers W, Chacón P. Using Situs for the registration of protein structures with low-resolution bead models from x-ray solution scattering Journal of Applied Crystallography. 34: 773-776. DOI: 10.1107/S0021889801012869  1
2000 Wriggers W, Agrawal RK, Drew DL, McCammon A, Frank J. Domain motions of EF-G bound to the 70S ribosome: insights from a hand-shaking between multi-resolution structures. Biophysical Journal. 79: 1670-8. PMID 10969026 DOI: 10.1016/S0006-3495(00)76416-2  1
2000 Kim E, Wriggers W, Phillips M, Kokabi K, Rubenstein PA, Reisler E. Cross-linking constraints on F-actin structure. Journal of Molecular Biology. 299: 421-9. PMID 10860749 DOI: 10.1006/jmbi.2000.3727  1
2000 Xing J, Wriggers W, Jefferson GM, Stein R, Cheung HC, Rosenfeld SS. Kinesin has three nucleotide-dependent conformations. Implications for strain-dependent release. The Journal of Biological Chemistry. 275: 35413-23. PMID 10852922 DOI: 10.1074/jbc.M004232200  1
1999 Yao X, Grade S, Wriggers W, Rubenstein PA. His(73), often methylated, is an important structural determinant for actin. A mutagenic analysis of HIS(73) of yeast actin. The Journal of Biological Chemistry. 274: 37443-9. PMID 10601317 DOI: 10.1074/jbc.274.52.37443  1
1999 Wriggers W, Schulten K. Investigating a back door mechanism of actin phosphate release by steered molecular dynamics Proteins: Structure, Function and Genetics. 35: 262-273. PMID 10223297 DOI: 10.1002/(SICI)1097-0134(19990501)35:2<262::AID-PROT11>3.0.CO;2-N  1
1999 Wriggers W, Milligan RA, McCammon JA. Situs: A package for docking crystal structures into low-resolution maps from electron microscopy Journal of Structural Biology. 125: 185-195. PMID 10222274 DOI: 10.1006/jsbi.1998.4080  1
1998 Wriggers W, Milligan RA, Schulten K, McCammon JA. Self-organizing neural networks bridge the biomolecular resolution gap Journal of Molecular Biology. 284: 1247-1254. PMID 9878345 DOI: 10.1006/jmbi.1998.2232  1
1998 Wriggers W, Tang JX, Azuma T, Marks PW, Janmey PA. Cofilin and gelsolin segment-1: Molecular dynamics simulation and biochemical analysis predict a similar actin binding mode Journal of Molecular Biology. 282: 921-932. PMID 9753544 DOI: 10.1006/jmbi.1998.2048  1
1998 Wriggers W, Schulten K. Nucleotide-dependent movements of the kinesin motor domain predicted by simulated annealing Biophysical Journal. 75: 646-661. PMID 9675167 DOI: 10.1016/S0006-3495(98)77555-1  1
1998 Wriggers W, Mehler E, Pitici F, Weinstein H, Schulten K. Structure and dynamics of calmodulin in solution Biophysical Journal. 74: 1622-1639. PMID 9545028 DOI: 10.1016/S0006-3495(98)77876-2  1
1997 Phillips JC, Wriggers W, Li Z, Jonas A, Schulten K. Predicting the structure of apolipoprotein A-I in reconstituted high-density lipoprotein disks. Biophysical Journal. 73: 2337-46. PMID 9370429 DOI: 10.1016/S0006-3495(97)78264-X  1
1997 Wriggers W, Schulten K. Protein domain movements: Detection of rigid domains and visualization of hinges in comparisons of atomic coordinates Proteins: Structure, Function and Genetics. 29: 1-14. PMID 9294863 DOI: 10.1002/(SICI)1097-0134(199709)29:1<1::AID-PROT1>3.0.CO;2-J  1
1997 Wriggers W, Schulten K. Stability and dynamics of G-actin: Back-door water diffusion and behavior of a subdomain 3/4 loop Biophysical Journal. 73: 624-639. PMID 9251782 DOI: 10.1016/S0006-3495(97)78098-6  1
1996 Balsera MA, Wriggers W, Oono Y, Schulten K. Principal component analysis and long time protein dynamics Journal of Physical Chemistry. 100: 2567-2572.  1
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