On the structures of filamentous bacteriophage Ff (fd, f1, M13)

European Biophysics Journal

Volumn 37, Issue 4, 2008, Pages 521-527

  Straus, S K ^a   Scott, W R P ^a   Symmons, M F ^b   Marvin, D A ^b  

^a UNIVERSITY OF BRITISH COLUMBIA   (Canada)

^b UNIVERSITY OF CAMBRIDGE   (United Kingdom)

Author keywords

Helix; Cryo electron microscopy; Fibre diffraction; Helical reconstruction; Solid state NMR

Indexed keywords

ALPHA HELIX; ARTICLE; BACTERIOPHAGE; CRYOELECTRON MICROSCOPY; CRYSTAL; INOVIRIDAE; MOLECULAR MODEL; MORPHOLOGY; NONHUMAN; NUCLEAR MAGNETIC RESONANCE; SOLID STATE; X RAY DIFFRACTION;

BACTERIOPHAGE M13; BIOPHYSICS; CAPSID; CRYOELECTRON MICROSCOPY; INOVIRUS; MAGNETIC RESONANCE SPECTROSCOPY; MODELS, BIOLOGICAL; MODELS, MOLECULAR; NANOPARTICLES; PROTEIN CONFORMATION; PROTEIN STRUCTURE, SECONDARY; VIRAL PROTEINS; X-RAY DIFFRACTION;

FILAMENTOUS BACTERIOPHAGE; INOVIRUS;

EID: 41049111431     PISSN: 01757571     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00249-007-0222-7     Document Type: Article

References (32)

1. Banner DW, Nave C, Marvin DA (1981) Structure of the protein and DNA in fd filamentous bacterial virus. Nature 289:814-816
2. Brünger AT (1992) X-PLOR Version 3.1, Yale University Press, New Haven
3. Bryan RK, Bansal M, Folkhard W, Nave C, Marvin DA (1983) Maximum-entropy calculation of the electron density at 4 Å resolution of Pf1 filamentous bacteriophage. Proc Natl Acad Sci USA 80:4728-4731
4. Collaborative Computational Project, Number 4 (1994) The CCP4 suite: programs for protein Crystallography. Acta Crystallogr Sect D 50:760-763
5. Egelman EH (2000) A robust algorithm for the reconstruction of helical filaments using single-particle methods. Ultramicroscopy 85:225-234
6. Egelman EH (2007) The iterative helical real space reconstruction method: Surmounting the problems posed by real polymers. J Struct Biol 157:83-94
7. Glucksman MJ, Bhattacharjee S, Makowski L (1992) Three-dimensional structure of a cloning vector. X-ray diffraction studies of filamentous bacteriophage M13 at 7 Å resolution. J Mol Biol 226:455-470
8. Goldbourt A, Gross BJ, Day LA, McDermott AE (2007) Filamentous phage studied by magic-angle spinning NMR: resonance assignment and secondary structure of the coat protein in Pf1. J Am Chem Soc 129:2338-2344
9. Gonzalez A, Nave C, Marvin DA (1995) Pf1 filamentous bacteriophage: Refinement of a molecular model by simulated annealing using 3.3 Å resolution X-ray fibre diffraction data. Acta Crystallogr Sect D 51:792-804
10. Hadzi D (1988) Proton transfers in biological mechanisms. J Mol Struct 177:1-21
11. Marvin DA (1966) X-ray diffraction and electron microscope studies on the structure of the small filamentous bacteriophage fd. J Mol Biol 15:8-17
12. Marvin DA (1990) Model-building studies of Inovirus: genetic variations on a geometric theme. Int J Biol Macromol 12:125-138
13. Marvin DA (1998) Filamentous phage structure, infection and assembly. Curr Opin Struct Biol 8:150-158
14. Marvin DA, Wachtel EJ (1976) Structure and assembly of filamentous bacterial viruses. Philos Trans R Soc Lond Series B 276:81-98
15. Marvin DA, Wiseman RL, Wachtel EJ (1974a) Filamentous bacterial viruses. XI. Molecular architecture of the class II (Pf1, Xf) virion. J Mol Biol 82:121-138
16. Marvin DA, Pigram WJ, Wiseman RL, Wachtel EJ, Marvin FJ (1974b) Filamentous bacterial viruses. XII. Molecular architecture of the class I (fd, If1, IKe) virion. J Mol Biol 88:581-600
17. Marvin DA, Bryan RK, Nave C (1987) Pf1 Inovirus: Electron density distribution calculated by a maximum entropy algorithm from native fibre diffraction data to 3 Å resolution and single isomorphous replacement data to 5 Å resolution. J Mol Biol 193:315-343
18. Marvin DA, Hale RD, Nave C, Helmer-Citterich M (1994) Molecular models and structural comparisons of native and mutant class I filamentous bacteriophages Ff (fd, f1, M13), If1 and IKe. J Mol Biol 235:260-286
19. Marvin DA, Welsh LC, Symmons MF, Scott WRP, Straus SK (2006) Molecular structure of fd (f1, M13) filamentous bacteriophage refined with respect to X-ray fibre diffraction and solid-state NMR data supports specific models of phage assembly at the bacterial membrane. J Mol Biol 355:294-309
20. Nave C, Brown RS, Fowler AG, Ladner JE, Marvin DA, Provencher SW, Tsugita A, Armstrong J, Perham RN (1981) Pf1 filamentous bacterial virus. X-ray fibre diffraction analysis of two heavy-atom derivatives. J Mol Biol 149:675-707
21. Russel M, Model P (2006) Filamentous phage. In: Calendar RL (ed) The bacteriophages, 2nd edn. Oxford University Press, USA, pp 146-160
22. Specthrie L, Greenberg J, Glucksman MJ, Diaz J, Makowski L (1987) Structural responsiveness of filamentous bacteriophage Pf1: Comparison of virion structure in fibers and solution. Biophys J 52:199-214
23. 1H dipolar correlation solid state NMR experiments. J Biomol NMR 26:283-295
24. Symmons MF, Welsh LC, Nave C, Marvin DA, Perham RN (1995) Matching electrostatic charge between DNA and coat protein in filamentous bacteriophage. Fibre diffraction of charge-deletion mutants. J Mol Biol 245:86-91
25. Thiriot DS, Nevzorov AA, Zagyanskiy L, Wu CH, Opella SJ (2004) Structure of the coat protein in Pf1 bacteriophage determined by solid-state NMR spectroscopy. J Mol Biol 341:869-879
26. Wang H, Stubbs G (1993) Molecular dynamics in refinement against fiber diffraction data. Acta Crystallogr Sect A 49:504-513
27. Wang YA, Yu X, Overman S, Tsuboi M, Thomas GJ Jr, Egelman EH (2006) The structure of a filamentous bacteriophage. J Mol Biol 361:209-215
28. Webster RE (2001) Filamentous phage biology. In: Barbas CF III, Burton DR, Scott JK Silverman GJ (eds) Phage display: a laboratory manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, pp 1.1-1.37
29. Welsh LC, Symmons MF, Nave C, Perham RN, Marseglia EA, Marvin DA (1996) Evidence for tilted smectic liquid crystalline packing of fd Inovirus from X-ray fiber diffraction. Macromolecules 29:7075-7083
30. Welsh LC, Symmons MF, Marvin DA (2000) The molecular structure and structural transition of the α-helical capsid in filamentous bacteriophage Pf1. Acta Crystallogr Sect D 56:137-150
31. Wen ZQ, Overman SA, Thomas GJ Jr (1997) Structure and interactions of the single-stranded DNA genome of filamentous virus fd: Investigation by ultraviolet resonance Raman spectroscopy. Biochemistry 36:7810-7820
32. Zeri AC, Mesleh MF, Nevzorov AA, Opella SJ (2003) Structure of the coat protein in fd filamentous bacteriophage particles determined by solid-state NMR spectroscopy. Proc Natl Acad Sci USA 100:6458-6463