The mechanism and pathway of pH induced swelling in cowpea chlorotic mottle virus

Journal of Molecular Biology

Volumn 318, Issue 3, 2002, Pages 733-747

  Tama, Florence ^a   Brooks III, Charles L ^a  

^a SCRIPPS RESEARCH INSTITUTE   (United States)

Author keywords

Association energies; CCMV; Icosahedral virus; Normal mode; Swelling phenomenon

Indexed keywords

CAPSID PROTEIN; METAL ION;

ARTICLE; CALCULATION; CONTROLLED STUDY; CRYOELECTRON MICROSCOPY; NONHUMAN; PH; PLANT VIRUS; PRIORITY JOURNAL; R FACTOR; TITRIMETRY; VIRUS CAPSID;

COWPEA CHLOROTIC MOTTLE VIRUS;

EID: 0036307741     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0022-2836(02)00135-3     Document Type: Article

References (58)

1. Structures of the native and swollen forms of cowpea chlorotic mottle virus determined by X-ray crystallography and cryoelectron microscopy
2. Physical principles in the construction of regular viruses
3. Formation of an infectious nucleoprotein from protein and nucleic acid isolated from a small spherical virus
4. A study of the self assembly process in a small spherical virus: Formation of organized structures from protein subunits in vitro
5. Stabilizing effect of divalent metal ions on virions of southern bean mosaic virus
6. Structure and assembly of turnip crinkle virus II. Mechanism of reassembly in vitro
7. Metal-free southern bean mosaic virus crystals
8. Structure of the expanded state of tomato bushy stunt virus
9. Oligomeric rearrangement of tick-borne encephalitis virus envelope proteins induced by an acidic pH
10. African swine fever virus is enveloped by a two-membraned collapsed cisterna derived from the endoplasmic reticulum
11. Structural maturation of the transmissible gastroenteritis coronavirus
12. Large conformational changes in the maturation of a simple RNA virus, Nudaurelia capensis omega virus (N omega V)
13. Theoretical studies of viral capsid proteins
14. Dynamics of a small globular proteins in terms of low-frequency vibrational modes
15. Harmonic dynamics of proteins: Normal mode and fluctuations in bovine pancreatic trypsin inhibitor
16. Protein normal-mode dynamics: Trypsin inhibitor, crambin, ribonuclease and lysozyme
17. Variational calculation of the normal modes of a large macromolecule: Methods and some initial results
18. Normal modes for specific motions of macromolecules: Application to the hinge-bending mode of lysozyme
19. Normal mode analysis of human lysozyme: Study of the relative motion of the two domains and characterization of the harmonic motion
20. Deoxymyoglobin studied by the conformational normal mode analysis. 2. The conformational change upon oxygenation
21. Deoxymyoglobin studied by the conformational normal mode analysis. 1. Dynamics of globin and the heme-globin interaction
22. Hinge-bending motion in citrate synthase arising from normal mode calculations
23. Computation of low-frequency normal-modes in macromolecules: Improvements to the method of diagonalization in a mixed basis and application to hemoglobin
24. Motions in hemoglobin studied by normal mode analysis and energy minimization: Evidence for the existence of tertiary T-like, quaternary R-like intermediate structures
25. Harmonic-analysis of large systems. 1. Methodology
26. The normal modes of the gramicidin-A dimer channel
27. Normal-modes of symmetrical protein assemblies: Application to the tobacco mosaic-virus protein disk
28. Normal-mode analysis of oligomeric proteins: Reduction of the memory requirement by consideration of rigid geometry and molecular symmetry
29. Normal mode analysis of large systems with icosahedral symmetry: Application to (Dialanine)(60) in full and reduced basis set implementations
30. Direct evaluation of thermal fluctuations in proteins using a single-parameter harmonic potential
31. Conformational change of proteins arising from normal mode calculations
32. Large amplitude elastic motions in proteins from a single-parameter, atomic analysis
33. New approach for determining low-frequency normal-modes in macromolecules
34. Building-block approach for determining low-frequency normal modes of macromolecules
35. Functional implications of quasi-equivalence in a T = 3 icosahedral animal virus established by cryoelectron microscopy and X-ray crystallography
36. Energetics of quasiequivalence: Computational analysis of protein-protein interactions in icosahedral viruses
37. Quasi-equivalent viruses: A paradigm for protein assemblies
38. The self-assembly of spherical plant viruses
39. Virus particle exporer (VIPER): A website for virus capsid structures and their computational analyses
40. A theoretical model successfully identifies features of hepatitis B virus capsid assembly
41. Mechanism of capsid assembly for an icosahedral plant virus
42. Virion swelling is not required for cotranslational disassembly of cowpea chlorotic mottle virus in vitro
43. The structure of cucumber mosaic virus and comparison to cowpea chlorotic mottle virus
44. The structure of cucumber mosaic virus: Cryoelectron microscopy, X-ray crystallography, and sequence analysis
45. CHARMM: A program for macromolecular energy, minimization and dynamics calculation
46. Calculation of the free-energy of association for protein complexes
47. Sequence-structure matching in globular proteins: Application to super-secondary and tertiary structure determination
48. as of ionizable groups in proteins: Atomic detail from a continuum electrostatic model
49. Protonation of interacting residues in a protein by a Monte-Carlo method: Application to lysozyme and the photosynthetic reaction center of Rhodobacter sphaeroides
50. a values of ionizable groups in bacteriorhodopsin
51. On the pH-dependence of protein stability
52. Multigrid solution of the nonlinear Poisson-Boltzmann equation and calculation of titration curves
53. Prediction of pH-dependent properties of proteins
54. Conformation and hydrogen ion titration of proteins: A continuum electrostatic model with conformational flexibility
55. Electrostatic models for computing protonation and redox equilibria in proteins
56. The determinants of pK(a)s in proteins