Free Standard AU & NZ Shipping For All Book Orders Over $80!
Register      Login
Australian Journal of Chemistry Australian Journal of Chemistry Society
An international journal for chemical science
Shopping Cart: ( empty )
You are here: Home > Journals > CH > CH14199 > Fulltext
RESEARCH FRONT
Contents Vol 67(12)

What’s in a Name? Moving Towards a Limited Vocabulary for Macromolecular Crystallisation

Janet Newman A C , Thomas S. Peat A and G. Paul Savage B
+ Author Affiliations
- Author Affiliations

A CSIRO Manufacturing Flagship, 343 Royal Parade, Parkville, Vic. 3052, Australia.

B CSIRO Manufacturing Flagship, Private Bag 10, Clayton South MDC, Vic. 3169, Australia.

C Corresponding author. Email: janet.newman@csiro.au

Australian Journal of Chemistry 67(12) 1813-1817 https://doi.org/10.1071/CH14199
Submitted: 1 April 2014  Accepted: 17 June 2014   Published: 23 July 2014

Abstract

This paper discusses the need for a systematic and standard naming nomenclature within the field of macromolecular crystallisation, and presents a set of rules and standard names which provides a start towards this end. The field of protein crystallisation is populated by biologists and chemists, and the dictionary in use needs to be unambiguous to both disciplines, yet must have useability as the most fundamental tenet if it is going to be widely adopted.


References

[1]  F. C. Bernstein, T. F. Koetzle, G. J. B. Williams, E. F. Meyer, M. D. Brice, J. R. Rodgers, O. Kennard, T. Shimanouchi, M. Tasumi, J. Mol. Biol. 1977, 112, 535.
         | Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DyaE2sXkvVert7o%3D&md5=e2630465ef660207beb112df506e5299CAS | 875032PubMed |

[2]  H. Berman, K. Henrick, H. Nakamura, J. L. Markley, Nucleic Acids Res. 2007, 35, D301.
         | Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD2sXivFKmtQ%3D%3D&md5=272dd4bba7fa47720ea44fe03e129d8dCAS | 17142228PubMed |

[3]  R. Giegé, FEBS J. 2013, 280, 6456.
         | Crossref | GoogleScholarGoogle Scholar | 24165393PubMed |

[4]  W. Halliburton, Q. J. Microsc. Sci. 1887, 2, 181.

[5]  Nobel Lectures in Chemistry [Online] 1999 (World Scientific: Hackensack, NJ). Available at: http://www.nobelprize.org/nobel_prizes/chemistry/laureates/1962/kendrew-lecture.pdf (accessed 14 July 2014).

[6]  N. Asherie, Methods 2004, 34, 266.
         | Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD2cXmvFCrs7w%3D&md5=61d0934fcffc59976dd23d4abe677545CAS | 15325646PubMed |

[7]  P. G. Vekilov, Cryst. Growth Des. 2010, 10, 5007.
         | Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BC3cXhsVaisrnO&md5=7a76ff63ea91751a92130fcfd7bd6fa3CAS | 21132117PubMed |

[8]  T. Bergfors, J. Struct. Biol. 2003, 142, 66.
         | Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD3sXjtVKisb0%3D&md5=d82f7f0e1a56cc9019b5465592a6de1cCAS | 12718920PubMed |

[9]  A. McPherson, J. A. Gavira, Acta Crystallogr., Sect. F: Struct. Biol. Cryst. Commun. 2014, 70, 2.
         | Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BC2cXhsVCisLo%3D&md5=c6c17354adba4c6fe4c5b700ff8cbadbCAS |

[10]  S. Buchala, J. C. Wilson, Acta Crystallogr., Sect. D: Biol. Crystallogr. 2008, 64, 823.
         | Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD1cXoslCntLw%3D&md5=4aea0e3f43ce77adb7685627b90b2e1eCAS |

[11]  C. Cumbaa, I. Jurisica, J. Struct. Funct. Genomics 2005, 6, 195.
         | Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD2MXhtVylt73O&md5=a5c3122a3f201964e20baf28257d3487CAS | 16211519PubMed |

[12]  M. Bern, D. Goldberg, R. C. Stevens, P. Kuhn, J. Appl. Cryst. 2004, 37, 279.
         | Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD2cXitVagtb4%3D&md5=a2c4a710c801b8c339a7e4ae9006c4b2CAS |

[13]  C. G. Walker, J. Foadi, J. Wilson, J. Appl. Cryst. 2007, 40, 418.
         | Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD2sXltlKqtLs%3D&md5=3ebdcad47594708697e2ffab9d39ec89CAS |

[14]  M. J. Gabanyi, P. D. Adams, K. Arnold, L. Bordoli, L. G. Carter, J. Flippen-Andersen, L. Gifford, J. Haas, A. Kouranov, W. A. McLaughlin, D. I. Micallef, W. Minor, R. Shah, T. Schwede, Y.-P. Tao, J. D. Westbrook, M. Zimmerman, H. M. Berman, J. Struct. Funct. Genomics 2011, 12, 45.
         | Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BC3MXotVaqtLc%3D&md5=777c1bae2f66867d8eb0b476c851e08cCAS | 21472436PubMed |

[15]  T. S. Peat, J. A. Christopher, J. Newman, Acta Crystallogr., Sect. D: Biol. Crystallogr. 2005, 61, 1662.
         | Crossref | GoogleScholarGoogle Scholar |

[16]  J. Newman, D. R. Burton, S. Caria, S. Desbois, C. L. Gee, V. J. Fazio, M. Kvansakul, B. Marshall, G. Mills, V. Richter, S. A. Seabrook, M. Wu, T. S. Peat, Acta Crystallogr., Sect. F: Struct. Biol. Cryst. Commun. 2013, 69, 712.
         | Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BC3sXhtVKhsr%2FL&md5=f90e6032322df765bd671a8eaade62c6CAS |

[17]  J. D. Westbrook, P. E. Bourne, Bioinformatics 2000, 16, 159.
         | Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD3cXktVyitr0%3D&md5=675e6f0a81fdcd0705b572805520e7c2CAS | 10842738PubMed |

[18]  J. Newman, Acta Crystallogr., Sect. D: Biol. Crystallogr. 2004, 60, 610.
         | Crossref | GoogleScholarGoogle Scholar |

[19]  M. Tung, D. T. Gallagher, Acta Crystallogr., Sect. D: Biol. Crystallogr. 2009, 65, 18.
         | Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD1MXmvVGlsg%3D%3D&md5=9bdd148785d95584d3cc07f5c58a0151CAS |

[20]  L. R. Offermann, J. Z. He, N. J. Mank, W. T. Booth, M. Chruszcz, J. Struct. Funct. Genomics 2014, 15, 13.
         | Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BC2cXht1ersrk%3D&md5=85189112303bbc20099fd2e62227a198CAS | 24452510PubMed |

[21]  J. Newman, Methods 2011, 55, 73.
         | Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BC3MXhtlaqt73L&md5=e09a56c0d298464d746866f03bbb9396CAS | 21571072PubMed |

[22]  J. Newman, V. J. Fazio, B. Lawson, T. S. Peat, Cryst. Growth Des. 2010, 10, 2785.
         | Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BC3cXlslylsb4%3D&md5=c5a3ae5ef8503927e8f16880b20f66edCAS |

[23]  J. Hastings, P. de Matos, A. Dekker, M. Ennis, B. Harsha, N. Kale, V. Muthukrishnan, G. Owen, S. Turner, M. Williams, C. Steinbeck, Nucleic Acids Res. 2013, 41, D456.
         | Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BC38XhvV2ktrjE&md5=50662328b0f68c28f7aaf641d6b4c620CAS | 23180789PubMed |

[24]  D. Weininger, J. Chem. Inf. Comput. Sci. 1988, 28, 31.
         | Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DyaL1cXnsVeqsA%3D%3D&md5=d9f905e815e5af56c59f29dcb0ab625bCAS |

[25]  S. Heller, A. McNaught, S. Stein, D. Tchekhovskoi, I. Pletnev, J. Cheminf. 2013, 5, 7.
         | Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BC3sXlvVyhtLw%3D&md5=a98b8a15b1d2588d185c42b558d1b1f6CAS |

[26]  W. D. Ihlenfeldt, E. E. Bolton, S. H. Bryant, J. Cheminf.s 2009, 1, 20.
         | Crossref | GoogleScholarGoogle Scholar |

[27]  S. J. Nelson, K. Zeng, J. Kilbourne, T. Powell, R. Moore, J. Am. Med. Inform. Assoc. 2011, 18, 441.
         | Crossref | GoogleScholarGoogle Scholar | 21515544PubMed |