Table 1.

Parameters of Structure Alignments

Figure	Query	Target	T	L	QC	TC	S	Sr	Er	Is	P
1A	3izx,A	3iyl,W	b	216	17	20	180	2.97	3.09	14	0
1B	3izx,A	3iyl,W	b	139	11	13	118	2.84	2.94	14	0
1C	3izx,A	3iyl,W	c	634	49	60	380	5.01	5.59	12	0
2A	1hxm,AB	3qcv,HL	b	223	51	51	203	2.12	2.21	25	0
2B	1hxm,AB	3qcv,HL	b	179	41	41	158	2.47	2.56	25	0
3AB	2i9p,ABCD	3fwn,AB	c	641	55	69	497	3.53	3.83	19	1
3AC	2i9p,ABCD	3i83,AB	c	406	35	68	294	3.97	4.28	12	1
3BC	3fwn,AB	3i83,AB	c	260	28	44	178	4.31	4.87	13	2
4C	1k28@1	1y12@1	b	339	12	35	289	2.79	2.92	8	0
5A	1k28@1	1dab,A	c	321	12	60	243	3.69	3.95	10	0
6A	2pol@1	1plq@1	c	645	83	88	549	2.81	2.94	10	0
6C	1plq,A(1:127)	1plq,A(128:258)	b	114	87	90	103	2.21	2.30	14	0
6D	1plq,A(1:127)	2gia,A(72:217)	b	97	72	76	85	2.60	2.70	11	5
7A	3bkn,A	2za6,A	b	152	89	94	136	2.33	2.42	16	0
7B	3bkn@1	2za6@1	c	3649	89	94	3202	2.53	2.61	17	0
8A	2buk,A	1vb4,A	c	115	59	63	94	3.13	3.27	4	0
8B	2buk@1,Aaxyz	1vb4@1,Aaxyz	c	354	36	38	252	4.09	4.37	7	0

Figure, the respective figure and panel; Query, name of the query structure consisting of the PDB code and chain identifier(s) with optional residue numbers in parentheses (from N to C terminus), where the @ sign and the associated number refer to the biological unit as defined in the respective PDB file; Target, name of the target structure (same encoding rules as for the query); T, alignment type (basic, b, or composite, c); L, alignment length; Q_c, query cover; T_c, target cover; S, similarity; Sr, average distance error; E_r, root-mean-square error; I_s, fraction of pairs of identical residues; P, number of permutations. The numeric parameters are defined in the main text.