Integrative Structural Biology with Hybrid Methods

Haruki Nakamura Osaka University, Institute for Protein Research, Japan Gerard J. Kleywegt European Bioinformat Inst, Prot Data Bank Europe, England Stephen K. Burley Rutgers State University, Center for Integrative Proteomics Research, USA John L. Markley  University of Wisconsin, Biochemistry Department, Natl Magnet Resonance Facil Madison, USA

 Part-1.Introduction and historical background.- Chapter 1.Overall introduction and rationale, with View from computational biology.- Chapter 2.Integrative/Hybrid Methods Structural Biology: Role of Macromolecular Crystallography.- Chapter 3.View from nuclear magnetic resonance spectroscopy.- Part- 2.New experimental tools enabling hybrid methods.- Chapter 4.Complementary use of electron cryomicroscopy and X-ray crystallography: Structural studies of actin and actomyosin filaments.- Chapter 5.Current solution NMR techniques for structure-function studies of proteins and RNA molecules.- Chapter 6.The PA tag: a versatile peptide tagging system in the era of integrative structural biology.- Chapter 7.Small angle scattering and structural biology: Data quality and model validation.- Chapter 8.Structural investigation of proteins and protein complexes by chemical cross-linking/mass spectrometry.- Chapter 9.Prediction of structures and interactions from genome information.- Chapter10.A hybrid approach for protein structure determination combining sparse NMR with evolutionary coupling sequence data (EC-NMR).- Chapter 11.Harnessing the combined power of SAXS and NMR.- Chapter 12.2D Hybrid analysis.- Part-3.New computational tools enabling hybrid methods.- Chapter 13.Hybrid methods for macromolecular modeling by molecular mechanics simulations with experimental data.- Chapter 14.Rigid-body fitting of atomic models on 3D density maps of electron microscopy.- Chapter 15.Hybrid methods for modeling protein structures using molecular dynamics simulations and small-angle X-ray scattering data.- Part-4.Data validation and archives for hybrid methods.- Chapter 16.Archiving pf integrative/hybrid models.