ProLego: tool for extracting and visualizing topological modules in protein structures

BMC Bioinformatics

Table 1 Description of ProLegoDB

Structure Class	Topologies^a	Proteins^b	Domains^c
A	3315	6064	2134
B	2485	3955	1520
Mix AB	1401	48,167	10,754
Total	7201	58,186	14,408

The topology database, ProLegoDB, describes protein topology space. Representative datasets of non-redundant protein chains and domain has been constructed as described in (S1.3). Above table summarises the database with different structure class (A: all-alpha, B: all-beta and mix AB: Alpha-Beta). Number of ^astatistically significant topology group for each structure classes has been shown with table heading of “Topologies”. Number of proteins in the database for each structure class has been reported in the next columns. ^bProtein chains are considered from extracted non- redundant datasets of PDB, whereas ^cDomains are protein entry from curated domain databases of CATH (3.5) and Astral (SCOP v1.75). The maximum pairwise sequence identity between chains are < 40%

ISSN: 1471-2105