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Nucleic Acids Research, ISSN 0305-1048, 05/2010, Volume 38, Issue 2, pp. W540 - W544
Small angle X-ray scattering (SAXS) is an increasingly common technique for low-resolution structural characterization of molecules in solution. SAXS... 
BIOLOGICAL MACROMOLECULES | SMALL-ANGLE SCATTERING | ASSEMBLIES | MODELS | BIOCHEMISTRY & MOLECULAR BIOLOGY | NEUTRON-SCATTERING | X-RAY-SCATTERING | PROTEIN COMPLEXES | SOLVENT | Scattering, Small Angle | User-Computer Interface | Software | Internet | X-Ray Diffraction | Index Medicus
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 07/2005, Volume 33, Issue 2, pp. W363 - W367
Here, we describe two freely available web servers for molecular docking. The PatchDock method performs structure prediction of protein-protein and... 
DESOLVATION | BIOCHEMISTRY & MOLECULAR BIOLOGY | PROTEIN-PROTEIN DOCKING | SHAPE COMPLEMENTARITY | ELECTROSTATICS | MOLECULAR-SURFACE RECOGNITION | GENETIC ALGORITHM | CONFORMATIONS | User-Computer Interface | Multiprotein Complexes - chemistry | Algorithms | Ligands | Protein Conformation | Software | Internet | Index Medicus
Journal Article
PLoS Biology, ISSN 1544-9173, 01/2012, Volume 10, Issue 1, pp. e1001244 - e1001244
A set of software tools for building and distributing models of macromolecular assemblies uses an integrative structure modeling approach, which casts the... 
DOCKING | PACKAGE | BIOCHEMISTRY & MOLECULAR BIOLOGY | NUCLEAR-PORE COMPLEX | MOLECULAR ARCHITECTURE | RESOLUTION | BIOLOGY | DYNAMICS | SIMULATION | CRYOEM | EFFICIENT | RIBOSOME | Models, Molecular | Computational Biology - methods | Software | Macromolecular Substances - chemistry | RNA Polymerase II - chemistry | Humans | Studies | Accuracy | RNA polymerase | Experiments | Index Medicus
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 7/2008, Volume 36, Issue suppl_2, pp. W229 - W232
Structural details of protein-protein interactions are invaluable for understanding and deciphering biological mechanisms. Computational docking methods aim to... 
CLUSPRO | DISCRIMINATION | BIOCHEMISTRY & MOLECULAR BIOLOGY | ALGORITHM | FLEXIBLE SIDE-CHAINS | OPTIMIZATION | PROTEIN-PROTEIN DOCKING | PREDICTION | User-Computer Interface | Multiprotein Complexes - chemistry | Algorithms | Models, Molecular | Software | Internet | Protein Interaction Mapping | Index Medicus
Journal Article
Proteins: Structure, Function, and Bioinformatics, ISSN 0887-3585, 03/2008, Volume 70, Issue 4, pp. 1219 - 1227
Journal Article
International Journal of Biomedicine, ISSN 2158-0510, 06/2019, Volume 9, Issue Suppl_1, pp. S16 - S16
Background: Macromolecular assemblies play a major role in cellular processes. Atomic resolution structural characterization of these machineries is necessary... 
atomic resolution structure modeling | EM density map fitting
Journal Article
by Lensink, Marc F and Velankar, Sameer and Kryshtafovych, Aniy and Huang, Shen You and Schneidman-Duhovny, Dina and Sali, Anej and Segura, Joan and Fernandez-Fuentes, Narcis and Viswanath, Shruthi and Elber, Ron and Grudinin, Sergei and Popov, Petr and Neveu, Emilie and Lee, Hasup and Baek, Minkyung and Park, Sangwoo and Heo, Lim and Rie Lee, Gyu and Seok, Chaok and Qin, Sanbo and Zhou, Huan Xiang and Ritchie, David W and Maigret, Bernard and Devignes, Marie Dominique and Ghoorah, Anisah and Torchala, Mieczyslaw and Chaleil, Raphaël A G and Bates, Paul A and Ben-Zeev, Efrat and Eisenstein, Miriam and Negi, Surena S and Weng, Zhiping and Vreven, Thom and Pierce, Brian G and Borrman, Tyler M and Yu, Jinchao and Ochsenbein, Françoise and Guerois, Raphaël and Vangone, Anna|info:eu-repo/dai/nl/370549694 and Garcia Lopes Maia Roigues, João|info:eu-repo/dai/nl/330827391 and van Zundert, Gydo|info:eu-repo/dai/nl/338775285 and Nellen, Mehdi and Xue, Li|info:eu-repo/dai/nl/413576817 and Karaca, Ezgi|info:eu-repo/dai/nl/315554789 and Melquiond, Aien S J|info:eu-repo/dai/nl/31412277X and Visscher, Koen and Kastritis, Panagiotis L.|info:eu-repo/dai/nl/315886668 and Bonvin, Alexane M J J|info:eu-repo/dai/nl/113691238 and Xu, Xianjin and Qiu, Liming and Yan, Chengfei and Li, Jilong and Ma, Zhiwei and Cheng, Jianlin and Zou, Xiaoqin and Shen, Yang and Peterson, Lenna X and Kim, Hyung Rae and Roy, Amit and Han, Xusi and Esquivel-Roiguez, Juan and Kihara, Daisuke and Yu, Xiaofeng and Bruce, Neil J and Fuller, Jonathan C and Wade, Rebecca C and Anishchenko, Ivan and Kunotas, Petras J and Vakser, Ilya A and Imai, Kenichiro and Yamada, Kazunori and Oda, Toshiyuki and Nakamura, Tsukasa and Tomii, Kentaro and Pallara, Chiara and Romero-Durana, Miguel and Jiménez-García, Brian and Moal, Iain H and Férnandez-Recio, Juan and Joung, Jong Young and Kim, Jong Yun and Joo, Keehyoung and Lee, Jooyoung and Kozakov, Dima and Vajda, Sandor and Mottarella, Scott and Hall, David R and Beglov, Dmitri and Mamonov, Artem and Xia, Bing and Bohnuud, Tanggis and Del Carpio, Carlos A and Ichiishi, Eichiro and Marze, Nicholas and Kuroda, Daisuke and Roy Burman, Shourya S and Gray, Jeffrey J and Chermak, Eisse and Cavallo, Luigi and Oliva, Romina and ...
Proteins: Structure function and bioinformatics, ISSN 0887-3585, 2016, Volume 84, Issue S1, pp. 323 - 348
Journal Article
Annual Review of Biochemistry, ISSN 0066-4154, 6/2019, Volume 88, Issue 1, pp. 113 - 135
Journal Article
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 7/2008, Volume 36, Issue suppl_2, pp. W223 - W228
Predicting molecular interactions is a major goal in rational drug design. Pharmacophore, which is the spatial arrangement of features that is essential for a... 
ALIGNMENT | BIOCHEMISTRY & MOLECULAR BIOLOGY | SETS | DRUG DESIGN | SUPERPOSITION | CATALYST | IDENTIFICATION | MOLECULES | GALAHAD | User-Computer Interface | Algorithms | Drug Design | Pharmaceutical Preparations - chemistry | Models, Molecular | Ligands | Software | Internet | Index Medicus
Journal Article