Crossref journal-article
Springer Science and Business Media LLC
Nature (297)
Bibliography

Abrescia, N. G. A., Cockburn, J. J. B., Grimes, J. M., Sutton, G. C., Diprose, J. M., Butcher, S. J., Fuller, S. D., San Martín, C., Burnett, R. M., Stuart, D. I., Bamford, D. H., & Bamford, J. K. H. (2004). Insights into assembly from structural analysis of bacteriophage PRD1. Nature, 432(7013), 68–74.

Authors 12
  1. Nicola G. A. Abrescia (first)
  2. Joseph J. B. Cockburn (additional)
  3. Jonathan M. Grimes (additional)
  4. Geoffrey C. Sutton (additional)
  5. Jonathan M. Diprose (additional)
  6. Sarah J. Butcher (additional)
  7. Stephen D. Fuller (additional)
  8. Carmen San Martín (additional)
  9. Roger M. Burnett (additional)
  10. David I. Stuart (additional)
  11. Dennis H. Bamford (additional)
  12. Jaana K. H. Bamford (additional)
References 49 Referenced 245
  1. Bamford, J. K. et al. Diffraction quality crystals of PRD1, a 66-MDa dsDNA virus with an internal membrane. J. Struct. Biol. 139, 103–112 (2002) (10.1016/S1047-8477(02)00562-2) / J. Struct. Biol. by JK Bamford (2002)
  2. Rydman, P. S. et al. Bacteriophage PRD1 contains a labile receptor-binding structure at each vertex. J. Mol. Biol. 291, 575–587 (1999) (10.1006/jmbi.1999.2978) / J. Mol. Biol. by PS Rydman (1999)
  3. Rydman, P. S., Bamford, J. K. & Bamford, D. H. A minor capsid protein P30 is essential for bacteriophage PRD1 capsid assembly. J. Mol. Biol. 313, 785–795 (2001) (10.1006/jmbi.2001.5068) / J. Mol. Biol. by PS Rydman (2001)
  4. Mindich, L., Bamford, D., McGraw, T. & Mackenzie, G. Assembly of bacteriophage PRD1: particle formation with wild-type and mutant viruses. J. Virol. 44, 1021–1030 (1982) (10.1128/JVI.44.3.1021-1030.1982) / J. Virol. by L Mindich (1982)
  5. Stromsten, N. J., Bamford, D. H. & Bamford, J. K. The unique vertex of bacterial virus PRD1 is connected to the viral internal membrane. J. Virol. 77, 6314–6321 (2003) (10.1128/JVI.77.11.6314-6321.2003) / J. Virol. by NJ Stromsten (2003)
  6. Gowen, B., Bamford, J. K., Bamford, D. H. & Fuller, S. D. The tailless icosahedral membrane virus PRD1 localizes the proteins involved in genome packaging and injection at a unique vertex. J. Virol. 77, 7863–7871 (2003) (10.1128/JVI.77.14.7863-7871.2003) / J. Virol. by B Gowen (2003)
  7. Bamford, D. H., Caldentey, J. & Bamford, J. K. Bacteriophage PRD1: a broad host range dsDNA tectivirus with an internal membrane. Adv. Virus Res. 45, 281–319 (1995) (10.1016/S0065-3527(08)60064-0) / Adv. Virus Res. by DH Bamford (1995)
  8. Grahn, A. M., Daugelavicius, R. & Bamford, D. H. Sequential model of phage PRD1 DNA delivery: active involvement of the viral membrane. Mol. Microbiol. 46, 1199–1209 (2002) (10.1046/j.1365-2958.2002.03250.x) / Mol. Microbiol. by AM Grahn (2002)
  9. Grahn, A. M., Daugelavicius, R. & Bamford, D. H. The small viral membrane-associated protein P32 is involved in bacteriophage PRD1 DNA entry. J. Virol. 76, 4866–4872 (2002) (10.1128/JVI.76.10.4866-4872.2002) / J. Virol. by AM Grahn (2002)
  10. Butcher, S. J., Bamford, D. H. & Fuller, S. D. DNA packaging orders the membrane of bacteriophage PRD1. EMBO J. 14, 6078–6086 (1995) (10.1002/j.1460-2075.1995.tb00298.x) / EMBO J. by SJ Butcher (1995)
  11. Benson, S. D., Bamford, J. K., Bamford, D. H. & Burnett, R. M. Viral evolution revealed by bacteriophage PRD1 and human adenovirus coat protein structures. Cell 98, 825–833 (1999) (10.1016/S0092-8674(00)81516-0) / Cell by SD Benson (1999)
  12. Belnap, D. M. & Steven, A. C. ‘Deja vu all over again’: the similar structures of bacteriophage PRD1 and adenovirus. Trends Microbiol. 8, 91–93 (2000) (10.1016/S0966-842X(00)01704-2) / Trends Microbiol. by DM Belnap (2000)
  13. Bamford, D. H., Burnett, R. M. & Stuart, D. I. Evolution of viral structure. Theor. Popul. Biol. 61, 461–470 (2002) (10.1006/tpbi.2002.1591) / Theor. Popul. Biol. by DH Bamford (2002)
  14. Yan, X. et al. Structure and assembly of large lipid-containing dsDNA viruses. Nature Struct. Biol. 7, 101–103 (2000) (10.1038/72360) / Nature Struct. Biol. by X Yan (2000)
  15. Nandhagopal, N. et al. The structure and evolution of the major capsid protein of a large, lipid-containing DNA virus. Proc. Natl Acad. Sci. USA 99, 14758–14763 (2002) (10.1073/pnas.232580699) / Proc. Natl Acad. Sci. USA by N Nandhagopal (2002)
  16. San Martín, C. et al. Combined EM/X-ray imaging yields a quasi-atomic model of the adenovirus-related bacteriophage PRD1 and shows key capsid and membrane interactions. Structure 9, 917–930 (2001) (10.1016/S0969-2126(01)00642-6) / Structure by C San Martín (2001)
  17. San Martín, C. et al. Minor proteins, mobile arms and membrane-capsid interactions in the bacteriophage PRD1 capsid. Nature Struct. Biol. 9, 756–763 (2002) (10.1038/nsb837) / Nature Struct. Biol. by C San Martín (2002)
  18. Cockburn, J. J., Bamford, J. K., Grimes, J. M., Bamford, D. H. & Stuart, D. I. Crystallization of the membrane-containing bacteriophage PRD1 in quartz capillaries by vapour diffusion. Acta Crystallogr. D 59, 538–540 (2003) (10.1107/S0907444902023491) / Acta Crystallogr. D by JJ Cockburn (2003)
  19. Cockburn, J. J. et al. Membrane structure and interactions with protein and DNA in bacteriophage PRD1. Nature doi:10.1038/nature03053 (this issue) (10.1038/nature03053)
  20. Benson, S. D., Bamford, J. K., Bamford, D. H. & Burnett, R. M. The X-ray crystal structure of P3, the major coat protein of the lipid-containing bacteriophage PRD1, at 1.65 Å resolution. Acta Crystallogr. D 58, 39–59 (2002) (10.1107/S0907444901017279) / Acta Crystallogr. D by SD Benson (2002)
  21. Li, X., Romero, P., Rani, M., Dunker, A. K. & Obradovic, Z. Predicting protein disorder for N-, C-, and internal regions. Genome Informatics 10, 30–40 (1999) / Genome Informatics by X Li (1999)
  22. Stuart, D. I., Levine, M., Muirhead, H. & Stammers, D. K. Crystal structure of cat muscle pyruvate kinase at a resolution of 2.6 Å. J. Mol. Biol. 134, 109–142 (1979) (10.1016/0022-2836(79)90416-9) / J. Mol. Biol. by DI Stuart (1979)
  23. Liddington, R. C. et al. Structure of simian virus 40 at 3.8 Å resolution. Nature 354, 278–284 (1991) (10.1038/354278a0) / Nature by RC Liddington (1991)
  24. Grimes, J. M. et al. The atomic structure of the bluetongue virus core. Nature 395, 470–478 (1998) (10.1038/26694) / Nature by JM Grimes (1998)
  25. Chiu, W., Burnett, R. M. & Garcea, R. L. in Structural Biology of Viruses (eds Chiu, W., Burnett, R. M. & Garcea, R. L.) 209–238 (Oxford Univ. Press, New York, 1997) / Structural Biology of Viruses by W Chiu (1997)
  26. Caldentey, J., Tuma, R. & Bamford, D. H. Assembly of bacteriophage PRD1 spike complex: role of the multidomain protein P5. Biochemistry 39, 10566–10573 (2000) (10.1021/bi000711+) / Biochemistry by J Caldentey (2000)
  27. Sokolova, A. et al. Solution structure of bacteriophage PRD1 vertex complex. J. Biol. Chem. 276, 46187–46195 (2001) (10.1074/jbc.M106848200) / J. Biol. Chem. by A Sokolova (2001)
  28. Xu, L., Benson, S. D., Butcher, S. J., Bamford, D. H. & Burnett, R. M. The receptor binding protein P2 of PRD1, a virus targeting antibiotic-resistant bacteria, has a novel fold suggesting multiple functions. Structure 11, 309–322 (2003) (10.1016/S0969-2126(03)00023-6) / Structure by L Xu (2003)
  29. Jaatinen, S., Viitanen, S., Bamford, D. H. & Bamford, J. K. The integral membrane protein P16 of bacteriophage PRD1 stabilizes the adsorption vertex structure. J. Virol. 78, 9790–9797 (2004) (10.1128/JVI.78.18.9790-9797.2004) / J. Virol. by S Jaatinen (2004)
  30. Luo, C., Butcher, S. & Bamford, D. H. Isolation of a phospholipid-free protein shell of bacteriophage PRD1, an Escherichia coli virus with an internal membrane. Virology 194, 564–569 (1993) (10.1006/viro.1993.1295) / Virology by C Luo (1993)
  31. Stewart, P. L., Fuller, S. D. & Burnett, R. M. Difference imaging of adenovirus: bridging the resolution gap between X-ray crystallography and electron microscopy. EMBO J. 12, 2589–2599 (1993) (10.1002/j.1460-2075.1993.tb05919.x) / EMBO J. by PL Stewart (1993)
  32. Bamford, D. & Mindich, L. Structure of the lipid-containing bacteriophage PRD1: disruption of wild-type and nonsense mutant phage particles with guanidine hydrochloride. J. Virol. 44, 1031–1038 (1982) (10.1128/JVI.44.3.1031-1038.1982) / J. Virol. by D Bamford (1982)
  33. Bamford, J. K. et al. Genome organization of membrane-containing bacteriophage PRD1. Virology 183, 658–676 (1991) (10.1016/0042-6822(91)90995-N) / Virology by JK Bamford (1991)
  34. Rydman, P. S. & Bamford, D. H. Bacteriophage PRD1 DNA entry uses a viral membrane-associated transglycosylase activity. Mol. Microbiol. 37, 356–363 (2000) (10.1046/j.1365-2958.2000.01996.x) / Mol. Microbiol. by PS Rydman (2000)
  35. Rydman, P. S. & Bamford, D. H. The lytic enzyme of bacteriophage PRD1 is associated with the viral membrane. J. Bacteriol. 184, 104–110 (2002) (10.1128/JB.184.1.104-110.2002) / J. Bacteriol. by PS Rydman (2002)
  36. Thuman-Commike, P. A. et al. Mechanism of scaffolding-directed virus assembly suggested by comparison of scaffolding-containing and scaffolding-lacking P22 procapsids. Biophys. J. 76, 3267–3277 (1999) (10.1016/S0006-3495(99)77479-5) / Biophys. J. by PA Thuman-Commike (1999)
  37. Morais, M. C. et al. Bacteriophage phi29 scaffolding protein gp7 before and after prohead assembly. Nature Struct. Biol. 10, 572–576 (2003) (10.1038/nsb939) / Nature Struct. Biol. by MC Morais (2003)
  38. Journet, L., Agrain, C., Broz, P. & Cornelis, G. R. The needle length of bacterial injectisomes is determined by a molecular ruler. Science 302, 1757–1760 (2003) (10.1126/science.1091422) / Science by L Journet (2003)
  39. Burnett, R. M. The structure of the adenovirus capsid. II. The packing symmetry of hexon and its implications for viral architecture. J. Mol. Biol. 185, 125–143 (1985) (10.1016/0022-2836(85)90187-1) / J. Mol. Biol. by RM Burnett (1985)
  40. Sambrook, J. & Russell, D. W. Molecular Cloning: a Laboratory Manual 3rd edn (Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York, 2001) / Molecular Cloning: a Laboratory Manual by J Sambrook (2001)
  41. Otwinowski, Z. & Minor, W. Processing of X-ray diffraction data collected in oscillation mode. Methods Enzymol. 276, 307–326 (1997) (10.1016/S0076-6879(97)76066-X) / Methods Enzymol. by Z Otwinowski (1997)
  42. Collaborative Computational Project, Number 4. The CCP 4 suite: programs for protein crystallography. Acta Crystallogr. D 50, 760–763 (1994) (10.1107/S0907444994003112) / Acta Crystallogr. D by Collaborative Computational Project (1994)
  43. Brunger, A. T. X-PLOR, Version 3.1: A system for X-ray crystallography and NMR (Yale Univ. Press, New Haven, Connecticut, 1992) / X-PLOR, Version 3.1: A system for X-ray crystallography and NMR by AT Brunger (1992)
  44. DeLano, W. L. & Brunger, A. T. The direct rotation function – rotational Patterson correlation search applied to molecular replacement. Acta Crystallogr. D 51, 740–748 (1995) (10.1107/S0907444995001284) / Acta Crystallogr. D by WL DeLano (1995)
  45. Diprose, J. M. et al. Translocation portals for the substrates and products of a viral transcription complex: the bluetongue virus core. EMBO J. 20, 7229–7239 (2001) (10.1093/emboj/20.24.7229) / EMBO J. by JM Diprose (2001)
  46. Jones, T. A., Zou, J. Y., Cowan, S. W. & Kjeldgaard, M. Improved methods for building protein models in electron density maps and the location of errors in these models. Acta Crystallogr. A 47, 110–119 (1991) (10.1107/S0108767390010224) / Acta Crystallogr. A by TA Jones (1991)
  47. Sonnhammer, E. L. L., von Heijne, G. & Krogh, A. in Proc. Sixth International Conference on Intelligent Systems for Molecular Biology (ed. Glasgow, J.) 175–182 (AAAI Press, Menlo Park, California, 1998) / Proc. Sixth International Conference on Intelligent Systems for Molecular Biology by ELL Sonnhammer (1998)
  48. Esnouf, R. M. Polyalanine reconstruction from Cα positions using the program CALPHA can aid initial phasing of data by molecular replacement procedures. Acta Crystallogr. D 53, 665–672 (1997) (10.1107/S0907444997005829) / Acta Crystallogr. D by RM Esnouf (1997)
  49. Frishman, D. & Argos, P. Seventy-five percent accuracy in protein secondary structure prediction. Proteins 27, 329–335 (1997) (10.1002/(SICI)1097-0134(199703)27:3<329::AID-PROT1>3.0.CO;2-8) / Proteins by D Frishman (1997)
Dates
Type When
Created 20 years, 10 months ago (Nov. 3, 2004, 1:33 p.m.)
Deposited 2 years, 3 months ago (May 18, 2023, 2:28 p.m.)
Indexed 1 month ago (Aug. 5, 2025, 8:53 a.m.)
Issued 20 years, 10 months ago (Nov. 1, 2004)
Published 20 years, 10 months ago (Nov. 1, 2004)
Published Print 20 years, 10 months ago (Nov. 1, 2004)
Funders 0

None

@article{Abrescia_2004, title={Insights into assembly from structural analysis of bacteriophage PRD1}, volume={432}, ISSN={1476-4687}, url={http://dx.doi.org/10.1038/nature03056}, DOI={10.1038/nature03056}, number={7013}, journal={Nature}, publisher={Springer Science and Business Media LLC}, author={Abrescia, Nicola G. A. and Cockburn, Joseph J. B. and Grimes, Jonathan M. and Sutton, Geoffrey C. and Diprose, Jonathan M. and Butcher, Sarah J. and Fuller, Stephen D. and San Martín, Carmen and Burnett, Roger M. and Stuart, David I. and Bamford, Dennis H. and Bamford, Jaana K. H.}, year={2004}, month=nov, pages={68–74} }