Table 2: Comparison of domain definitions for the 55-protein dataset

(Jones et al., 1998) from various resources and crystallographers' definition

PDB code$

CRYST#

CATH

3Dee

SCOP

DALI

Domain Parser

DIAL4

1bbhA

1gmpA

1gox-

1rcb-

1wsyA

2ccyA

2cyp-

2had-

2stv-

3chy-

3dfr-

5fbpA

8atcA

1rbp-

1brd-

1tlk-

1fxiA

1ofv-

 

1ppn-

2azaA

1tie-

1snc-

1aak-

1bbpA

4blmA

1sgt-

5p21-

3cla-

1ula-

1gmfA

1ace-

1gky-

1pyp-

2rn2-

1wsyB

1ezm-

1fnr-

1lap-

1rveA

2tmvP

1rht-

3gapA

8atcB

1pfkA

3cd4-

4gcr-

3pgk-

1vsgA

1gpb-

1phh-

1atnA

8adh-

8acn-

3grs-

2pmgA

1

1

1

1

1

1

2

2

1

1

1

2

2

1

1

1

1

1

 

2

1

1

1

1

1

1

2

1

1

1

1

1

1

1

1

2

2

2

2

1

1

2

2

2

2

2

2

2

2

2

3

4

2

3

3

4

1

1

1

1

1

1

2

1*

1

1

1

2

2

1

-

1

1

1

 

1*

1

1

1

1

1

1

2

1

1

1

1

1

2*

1

1

2

2

2

2

1

1

2

2

2

2

2

2

2

2

2

2*

-

2

4*

3

4

1

1

1

1

1

1

2

1*

1

1

1

2

2

1

1

1

1

1

 

2

1

1

1

1

1

2*

2

1

1

1

1

1

2*

1

1

2

2

2

2

1

1

2

2

2

2

2

2

2

2

2

1*

2*

2

4*

3

4

1

1

1

1

1

1

1*

1*

1

1

1

1*

2

1

1

1

1

1

 

1*

1

1

1

1

1

1

1*

1

1

1

1

1

1

1

1

1*

1*

2

2

1

1

2

2

2

1*

2

2

1*

1*

1*

2*

2*

2

2*

3

4

1

1

1

1

1

1

1*

1*

1

1

1

4*

2

1

3*

1

1

1

 

1*

1

1

1

1

1

1

1*

1

1

1

1

2*

2*

3*

1

1*

2

2

2

3*

2*

2

-

2

2

2

2

2

2

5*

3

3*

2

5*

4*

4

1

1

1

1

1

1

1*

1*

1

1

2*

2

2

1

1

1

1

1

 

1*

1

1

1

1

1

1

1*

1

1

1

1

1

2*

2*

1

1*

2

2

2

1

1

2

1*

2

2

2

2

2

2

2

2*

4

2

2*

3

4

1

1

1

1

1

1

2

1*

1

1

1

2

2

1

1

1

1

1

 

1*

1

1

1

1

1

1

1*

1

1

1

1

1

1

1

1

2

2

2

2

1

1

2

2

2

2

2

2

2

2

2

3

4

2

2*

3

4

 

$ Protein Data Bank (Berman et al., 2000) code

# Crystallographers' definition

* Domain definition differs from that of crystallographers

- Domain definition data not immediately available