Main References

All users should cite:
  1. Fox NK, Brenner SE, Chandonia JM. 2014. SCOPe: Structural Classification of Proteins—extended, integrating SCOP and ASTRAL data and classification of new structures. Nucleic Acids Research 42:D304-309. doi: 10.1093/nar/gkt1240. [PDF].
Newer features of SCOPe are described in:
  1. Chandonia JM, Fox NK, Brenner SE. 2019. SCOPe: classification of large macromolecular structures in the structural classification of proteins—extended database. Nucleic Acids Research gky1134. doi: 10.1093/nar/gky1134. [PDF], and
  2. Chandonia JM, Fox NK, Brenner SE. 2017. SCOPe: Manual Curation and Artifact Removal in the Structural Classification of Proteins—extended Database. Journal of Molecular Biology 429: 348-355. doi: 10.1016/j.jmb.2016.11.023. [PDF].
Users of SCOP (version 1) releases should cite:
  1. Murzin AG, Brenner SE, Hubbard TJP, Chothia C. 1995. SCOP: a structural classification of proteins database for the investigation of sequences and structures. Journal of Molecular Biology 247:536-540. [PDF].

Additional References

This paper discusses the principles behind SCOP and how to use it:
  1. Brenner SE, Chothia C, Hubbard TJP, Murzin AG. 1996. Understanding protein structure: Using SCOP for fold interpretation. Chap. 37 in: Doolittle RF, ed. Computer Methods for Macromolecular Sequence Analysis. Methods in Enzymology. Vol. 266. Orlando, FL: Academic Press. 635-643. [PDF].
This paper discusses how people have used SCOP and SCOPe in recent years:
  1. Fox NK, Brenner SE, Chandonia JM. 2015. The value of protein structure classification information—surveying the scientific literature. Proteins. doi: 10.1002/prot.24915. [PDF].
Further development of SCOP is described in:
  1. Lo Conte L, Brenner SE, Hubbard TJP, Chothia C, Murzin AG. 2002. SCOP database in 2002: refinements accommodate structural genomics. Nucleic Acids Research 30: 264-267. [PDF],
  2. Andreeva A, Howorth D, Brenner SE, Hubbard TJP, Chothia C, Murzin AG. 2004. SCOP database in 2004: refinements integrate structure and sequence family data. Nucleic Acids Research 32:D226-D229. [PDF], and
  3. Andreeva A, Howorth D, Chandonia JM, Brenner SE, Hubbard TJP, Chothia C, Murzin AG. 2008. Data growth and its impact on the SCOP database: new developments. Nucleic Acids Research 36:D419-425. [PDF].
Additional documentation about the ASTRAL sequences and subsets:
  1. Chandonia JM, Hon G, Walker NS, Lo Conte L, Koehl P, Levitt M, Brenner SE. 2004. The ASTRAL compendium in 2004. Nucleic Acids Research 32:D189-D192. [PDF],
  2. Chandonia JM, Walker NS, Lo Conte L, Koehl P, Levitt M, Brenner SE. 2002. ASTRAL compendium enhancements. Nucleic Acids Research 30:260-263. [PDF], and
  3. Brenner SE, Koehl P, Levitt M. 2000. The ASTRAL compendium for sequence and structure analysis. Nucleic Acids Research 28:254-256. [PDF]
A description of the trends in SCOP classification of newly solved protein structures:
  1. Chandonia JM, Brenner SE. 2006. The impact of structural genomics: expectations and outcomes. Science 311:347-51. [PDF]|[Supplementary Info].
Older SCOP references:
  1. Hubbard TJP, Murzin AG, Brenner SE, Chothia C. 1997. SCOP: a structural classification of proteins database. Nucleic Acids Research 25:236-239. [PDF],
  2. Hubbard TJP, Ailey B, Brenner SE, Murzin AG, Chothia C. 1998. SCOP, Structural Classification of Proteins database: applications to evaluation of the effectiveness of sequence alignment methods and statistics of protein structural data. Acta Crystallographica D54:1147-1154. [PDF],
  3. Hubbard TJP, Ailey B, Brenner SE, Murzin AG, Chothia C. 1999. SCOP: a structural classification of proteins database. Nucleic Acids Research 27:254-256. [PDF], and
  4. Lo Conte L, Ailey B, Hubbard TJP, Brenner SE, Murzin AG, Chothia C. 2000. SCOP: a structural classification of proteins database. Nucleic Acids Research 28:257-259. [PDF].