Skip to main content

Advertisement

Table 1 Proteins used as test data

From: Algorithms for matching partially labelled sequence graphs

PDB Protein Length Domain ends
Used (full) N–C (len)
1aoz Ascorbate oxidase 434 (552) 9–126 (118)
135–301 (167)
378–526 (149)
1lci Luciferase 404 (404) 24–186 (163)
187–355 (164)
359–435 ( 77)
1pkm Pyruvate kinase 367 (390) 41–116 ( 76)
117–388 (172)
409–527 (119)
3ctz Prolyl aminopeptidase 572 (617) 3–160 (158)
161–319 (159)
320–574 (255)
3vqt Translation factor RF3 495 (495) 1–277 (250)
278–389 (105)
390–529 (140)
4rcn Fatty-acid acyl-CoA carboxylase 401 (1972) 3–102 (100)
103–345 (176)
346–470 (125)
  1. Against the protein name and PDB code, the length of the portion used is given with the length of the full chain in parentheses. The three domains used for each protein are specified by their residue numbers in the PDB entry and the length of the domain. (NB: because of missing segments in the PDB structure and omitted segments, the difference in the domain end-points does not necessarily equal the number of residues in the domain)