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Table 4 Six classes of zinc fingers used in case study 2 (C2H2 classical, C2H2 variation, THAP, C2HC, Fungal, CCHHC)

From: GSP4PDB: a web tool to visualize, search and explore protein-ligand structural patterns

Zinc Class

Textual Pattern (PROSITE convention)

Hits

Time (s)

C2H2-c

C-x(2,4)-C-x(12)-H-x(2,6)-H

630

1.72

C2H2-v

C-x(2,4)-C-x(3)-[LIVMFYWC]-x(8)-H-x(3,5)-H

554

2.89

THAP

C-x(2,4)-C-x(35,50)-C-x(2)-H

36

1.64

C2HC

C-x(5)-C-x(n)-H-x(6)-C

6

0.83

Fungal

C-x(2)-C-x(6)-C-x(5,12)-C-x(2)-C-x(6,8)-C

28

0.87

CCHHC

C-P-x(1)-P-G-C-x(1)-G-x(1)-G-H-x(7)-H-R-x(4)-C

1

1.14

  1. For each pattern we present the number of results (hits) and the computation time (in seconds)