1. c.8.5 GroEL apical domain-like The "swivelling" beta/beta/alpha domain 3 layers: b/b/a; the central sheet is parallel, and the other one is antiparallel; there are some variations in topology ! this domain is thought to be mobile in most multi-domain proteins known to contain it 1q3s d1q3sh2 H:289-295,317-329,348-356,357-365 1q3s d1q3sc2 C:289-295,317-329,348-356,357-365 1q3s d1q3sd2 D:289-295,317-329,348-356,357-365 1q3s d1q3sg2 G:289-295,317-329,348-356,357-365 1q3s d1q3sa2 A:289-295,317-329,348-356,357-365 1q3r d1q3rb2 B:289-295,317-329,348-356,357-365 1q3s d1q3sf2 F:289-295,317-329,348-356,357-365 1q3s d1q3se2 E:289-295,317-329,348-356,357-365 1q3s d1q3sb2 B:289-295,317-329,348-356,357-365 1q2v d1q2vb2 B:289-295,317-329,348-356,357-365 1q3r d1q3ra2 A:289-295,317-329,348-356,357-365 1q3q d1q3qd2 D:289-295,317-329,348-356,357-365 1q3r d1q3rd2 D:289-295,317-329,348-356,357-365 1q2v d1q2vd2 D:289-295,317-329,348-356,357-365 1ass d1assa_ A:74-80,102-114,133-141,142-150 1q3q d1q3qc2 C:289-295,317-329,348-356,357-365 1q2v d1q2va2 A:289-295,317-329,348-356,357-365 1q3q d1q3qa2 A:289-295,317-329,348-356,357-365 1q3q d1q3qb2 B:289-295,317-329,348-356,357-365 1a6e d1a6eb2 B:287-293,315-327,346-354,355-363 1q2v d1q2vc2 C:289-295,317-329,348-356,357-365 1q3r d1q3rc2 C:289-295,317-329,348-356,357-365 1a6d d1a6db2 B:287-293,315-327,346-354,355-363 1a6e d1a6ea2 A:286-292,314-326,345-353,354-362 1a6d d1a6da2 A:286-292,314-326,345-353,354-362 1gn1 d1gn1b_ B:288-294,316-328,348-356,357-365 1gn1 d1gn1g_ G:288-294,316-328,348-356,357-365 1mnf d1mnfg2 G:246-252,281-297,321-327,328-334 1mnf d1mnff2 F:246-252,281-297,321-327,328-334 1mnf d1mnfl2 L:246-252,281-297,321-327,328-334 1mnf d1mnfa2 A:246-252,281-297,321-327,328-334 1mnf d1mnfc2 C:246-252,281-297,321-327,328-334 1mnf d1mnfh2 H:246-252,281-297,321-327,328-334 1mnf d1mnfd2 D:246-252,281-297,321-327,328-334 1mnf d1mnfn2 N:246-252,281-297,321-327,328-334 1mnf d1mnfe2 E:246-252,281-297,321-327,328-334 1mnf d1mnfb2 B:246-252,281-297,321-327,328-334 1mnf d1mnfm2 M:246-252,281-297,321-327,328-334 1mnf d1mnfi2 I:246-252,281-297,321-327,328-334 1wf4 d1wf4b2 B:245-251,280-296,320-326,327-333 1gml d1gmld_ D:288-294,316-328,348-356,357-365 1gml d1gmlc_ C:288-294,316-328,348-356,357-365 1mnf d1mnfj2 J:246-252,281-297,321-327,328-334 1mnf d1mnfk2 K:246-252,281-297,321-327,328-334 1asx d1asxa_ A:74-79,102-114,133-141,142-150 1kp8 d1kp8n2 N:246-252,281-297,321-327,328-334 1wf4 d1wf4g2 G:245-251,280-296,320-326,327-333 1kp8 d1kp8b2 B:246-252,281-297,321-327,328-334 1kp8 d1kp8d2 D:246-252,281-297,321-327,328-334 1kp8 d1kp8a2 A:246-252,281-297,321-327,328-334 1kp8 d1kp8l2 L:246-252,281-297,321-327,328-334 1kp8 d1kp8f2 F:246-252,281-297,321-327,328-334 1kp8 d1kp8c2 C:246-252,281-297,321-327,328-334 1kp8 d1kp8j2 J:246-252,281-297,321-327,328-334 1kp8 d1kp8g2 G:246-252,281-297,321-327,328-334 1kp8 d1kp8e2 E:246-252,281-297,321-327,328-334 1wf4 d1wf4d2 D:245-251,280-296,320-326,327-333 1kp8 d1kp8k2 K:246-252,281-297,321-327,328-334 1kp8 d1kp8h2 H:246-252,281-297,321-327,328-334 1dkd d1dkdd_ D:246-252,281-297,321-327,328-334 1kp8 d1kp8i2 I:246-252,281-297,321-327,328-334 1dkd d1dkda_ A:246-252,281-297,321-327,328-334 1kp8 d1kp8m2 M:246-252,281-297,321-327,328-334 1wf4 d1wf4c2 C:245-251,280-296,320-326,327-333 1dk7 d1dk7a_ A:246-252,281-297,321-327,328-334 1gn1 d1gn1b_ B:237-243,316-328,348-356,357-365 1we3 d1we3e2 E:245-251,280-296,320-326,327-333 1gn1 d1gn1d_ D:288-294,316-328,348-356,357-367 1gn1 d1gn1g_ G:237-243,316-328,348-356,357-365 1sjp d1sjpb2 B:243-249,278-294,318-324,325-331 1wf4 d1wf4f2 F:245-251,280-296,320-326,327-333 1we3 d1we3f2 F:245-251,280-296,320-326,327-333 1we3 d1we3c2 C:245-251,280-296,320-326,327-333 1wf4 d1wf4a2 A:245-251,280-296,320-326,327-333 1we3 d1we3g2 G:245-251,280-296,320-326,327-333 1pcq d1pcqf2 F:246-252,281-297,321-327,328-334 1pcq d1pcqc2 C:246-252,281-297,321-327,328-334 1pcq d1pcqe2 E:246-252,281-297,321-327,328-334 1pcq d1pcqg2 G:246-252,281-297,321-327,328-334 1pcq d1pcqb2 B:246-252,281-297,321-327,328-334 1pcq d1pcqa2 A:246-252,281-297,321-327,328-334 1pcq d1pcqd2 D:246-252,281-297,321-327,328-334 1gn1 d1gn1f_ F:288-294,316-328,348-356,357-367 1aon d1aonk2 K:246-252,280-297,321-327,328-334 1gn1 d1gn1c_ C:288-294,316-328,348-356,357-367 1we3 d1we3b2 B:245-251,280-296,320-326,327-333 1jon d1jona_ A:246-252,281-297,321-327,328-334 1dkd d1dkdc_ C:246-252,281-297,321-327,328-334 1sjp d1sjpa2 A:243-249,278-294,318-324,325-331 1we3 d1we3d2 D:245-251,280-296,320-326,327-333 1gn1 d1gn1h_ H:288-294,316-328,348-356,357-367 1aon d1aonj2 J:246-252,280-297,321-327,328-334 1srv d1srva_ A:246-252,281-297,321-327,328-334 1gn1 d1gn1e_ E:288-294,316-328,348-356,357-367 1we3 d1we3a2 A:245-251,280-296,320-326,327-333 1aon d1aonl2 L:246-252,280-297,321-327,328-334 1dkd d1dkdb_ B:246-252,281-297,321-327,328-334 1gn1 d1gn1a_ A:288-294,316-328,348-356,357-367 1gml d1gmla_ A:288-294,316-328,348-356,357-367 1gml d1gmlb_ B:288-294,316-328,348-356,357-367 1aon d1aonc2 C:246-252,281-297,321-327,328-334 1j4z d1j4zi2 I:246-252,281-297,321-327,328-334 1kpo d1kpox2 X:246-252,281-297,321-327,328-334 1j4z d1j4zm2 M:246-252,281-297,321-327,328-334 1j4z d1j4zh2 H:246-252,281-297,321-327,328-334 1j4z d1j4zd2 D:246-252,281-297,321-327,328-334 1kpo d1kpos2 S:246-252,281-297,321-327,328-334 1j4z d1j4zg2 G:246-252,281-297,321-327,328-334 1pf9 d1pf9m2 M:246-252,281-297,321-327,328-334 1j4z d1j4za2 A:246-252,281-297,321-327,328-334 1kpo d1kpow2 W:246-252,281-297,321-327,328-334 1j4z d1j4zc2 C:246-252,281-297,321-327,328-334 1kpo d1kpou2 U:246-252,281-297,321-327,328-334 1kpo d1kpo12 1:246-252,281-297,321-327,328-334 1kpo d1kpoy2 Y:246-252,281-297,321-327,328-334 1j4z d1j4ze2 E:246-252,281-297,321-327,328-334 1pf9 d1pf9l2 L:246-252,281-297,321-327,328-334 1kpo d1kpoo2 O:246-252,281-297,321-327,328-334 1j4z d1j4zk2 K:246-252,281-297,321-327,328-334 1kpo d1kpor2 R:246-252,281-297,321-327,328-334 1kpo d1kpot2 T:246-252,281-297,321-327,328-334 1pf9 d1pf9i2 I:246-252,281-297,321-327,328-334 1kpo d1kpoz2 Z:246-252,281-297,321-327,328-334 1j4z d1j4zn2 N:246-252,281-297,321-327,328-334 1kpo d1kpop2 P:246-252,281-297,321-327,328-334 1j4z d1j4zj2 J:246-252,281-297,321-327,328-334 1kpo d1kpoq2 Q:246-252,281-297,321-327,328-334 1pf9 d1pf9h2 H:246-252,281-297,321-327,328-334 1j4z d1j4zb2 B:246-252,281-297,321-327,328-334 1kpo d1kpo22 2:246-252,281-297,321-327,328-334 1j4z d1j4zl2 L:246-252,281-297,321-327,328-334 1j4z d1j4zf2 F:246-252,281-297,321-327,328-334 1kpo d1kpov2 V:246-252,281-297,321-327,328-334 1pf9 d1pf9n2 N:246-252,281-297,321-327,328-334 1pf9 d1pf9k2 K:246-252,281-297,321-327,328-334 1pf9 d1pf9j2 J:246-252,281-297,321-327,328-334 1gn1 d1gn1d_ D:237-243,316-328,348-356,357-367 1pcq d1pcqk2 K:246-252,281-297,321-327,328-334 1pcq d1pcqm2 M:246-252,281-297,321-327,328-334 1iok d1iokd2 D:246-251,281-297,321-327,328-334 1pcq d1pcqi2 I:246-252,281-297,321-327,328-334 1iok d1ioke2 E:246-251,281-297,321-327,328-334 1iok d1iokc2 C:246-251,281-297,321-327,328-334 1iok d1iokg2 G:246-251,281-297,321-327,328-334 1iok d1iokb2 B:246-251,281-297,321-327,328-334 1iok d1iokf2 F:246-251,281-297,321-327,328-334 1iok d1ioka2 A:246-251,281-297,321-327,328-334 1pcq d1pcqn2 N:246-252,281-297,321-327,328-334 1pcq d1pcqh2 H:246-252,281-297,321-327,328-334 1pcq d1pcqj2 J:246-252,281-297,321-327,328-334 1pcq d1pcql2 L:246-252,281-297,321-327,328-334 1gn1 d1gn1c_ C:237-243,316-328,348-356,357-367 1gn1 d1gn1e_ E:237-243,316-328,348-356,357-367 1aon d1aona2 A:246-252,281-297,321-327,328-334 1gn1 d1gn1f_ F:237-243,316-328,348-356,357-367 1aon d1aonb2 B:246-252,281-297,321-327,328-334 1aon d1aonn2 N:246-252,281-297,321-327,328-334 1gn1 d1gn1a_ A:237-243,316-328,348-356,357-367 1aon d1aonh2 H:246-252,281-297,321-327,328-334 1gn1 d1gn1h_ H:237-243,316-328,348-356,357-367 1aon d1aoni2 I:246-252,281-297,321-327,328-334 1aon d1aonm2 M:246-252,281-297,321-327,328-334 1gml d1gmld_ D:237-242,316-328,348-356,357-365 1gml d1gmlc_ C:237-242,316-328,348-356,357-365 1oel d1oelf2 F:246-252,281-297,321-326,326-334 1oel d1oeld2 D:246-252,281-297,321-326,326-334 1oel d1oelb2 B:246-252,281-297,321-326,326-334 1oel d1oelg2 G:246-252,281-297,321-326,326-334 1oel d1oele2 E:246-252,281-297,321-326,326-334 1oel d1oela2 A:246-252,281-297,321-326,326-334 1oel d1oelc3 C:246-252,281-297,321-326,326-334 1aon d1aonk2 K:273-278,280-297,321-327,328-334 1aon d1aonc2 C:272-278,281-297,321-327,328-334 1grl d1grld2 D:245-253,281-297,321-326,327-334 1grl d1grla2 A:245-253,281-297,321-326,327-334 1grl d1grle2 E:245-253,281-297,321-326,327-334 1grl d1grlf2 F:245-253,281-297,321-326,327-334 1grl d1grlg2 G:245-253,281-297,321-326,327-334 1grl d1grlb2 B:245-253,281-297,321-326,327-334 1grl d1grlc2 C:245-253,281-297,321-326,327-334 1aon d1aonn2 N:273-278,281-297,321-327,328-334 1aon d1aonb2 B:272-278,281-297,321-327,328-334 1a6e d1a6eb2 B:308-313,315-327,346-354,355-363 1pcq d1pcqe2 E:272-278,281-297,321-327,328-334 1q3s d1q3sd2 D:310-315,317-329,348-356,357-365 1wf4 d1wf4b2 B:271-277,280-296,320-326,327-333 1wf4 d1wf4d2 D:271-277,280-296,320-326,327-333 1q3s d1q3sa2 A:310-315,317-329,348-356,357-365 1dk7 d1dk7a_ A:272-278,281-297,321-327,328-334 1aon d1aona2 A:272-278,281-297,321-327,328-334 1kp8 d1kp8n2 N:272-278,281-297,321-327,328-334 1mnf d1mnff2 F:272-278,281-297,321-327,328-334 1kp8 d1kp8b2 B:272-278,281-297,321-327,328-334 1kp8 d1kp8k2 K:272-278,281-297,321-327,328-334 1kp8 d1kp8a2 A:272-278,281-297,321-327,328-334 1kp8 d1kp8l2 L:272-278,281-297,321-327,328-334 1kp8 d1kp8j2 J:272-278,281-297,321-327,328-334 1dkd d1dkda_ A:272-278,281-297,321-327,328-334 1kp8 d1kp8m2 M:272-278,281-297,321-327,328-334 1mnf d1mnfg2 G:272-278,281-297,321-327,328-334 1mnf d1mnfe2 E:272-278,281-297,321-327,328-334 1kp8 d1kp8c2 C:272-278,281-297,321-327,328-334 1mnf d1mnfa2 A:272-278,281-297,321-327,328-334 1kp8 d1kp8f2 F:272-278,281-297,321-327,328-334 1mnf d1mnfn2 N:272-278,281-297,321-327,328-334 1ass d1assa_ A:95-100,102-114,133-141,142-150 1we3 d1we3d2 D:271-277,280-296,320-326,327-333 1kp8 d1kp8e2 E:272-278,281-297,321-327,328-334 1mnf d1mnfh2 H:272-278,281-297,321-327,328-334 1kp8 d1kp8d2 D:272-278,281-297,321-327,328-334 1kp8 d1kp8i2 I:272-278,281-297,321-327,328-334 1mnf d1mnfb2 B:272-278,281-297,321-327,328-334 1mnf d1mnfl2 L:272-278,281-297,321-327,328-334 1mnf d1mnfd2 D:272-278,281-297,321-327,328-334 1wf4 d1wf4f2 F:271-277,280-296,320-326,327-333 1mnf d1mnfm2 M:272-278,281-297,321-327,328-334 1q3s d1q3se2 E:310-315,317-329,348-356,357-365 1a6d d1a6db2 B:308-313,315-327,346-354,355-363 1mnf d1mnfj2 J:272-278,281-297,321-327,328-334 1kp8 d1kp8h2 H:272-278,281-297,321-327,328-334 1q3s d1q3sb2 B:310-315,317-329,348-356,357-365 1mnf d1mnfk2 K:272-278,281-297,321-327,328-334 1kp8 d1kp8g2 G:272-278,281-297,321-327,328-334 1mnf d1mnfc2 C:272-278,281-297,321-327,328-334 1q3s d1q3sh2 H:310-315,317-329,348-356,357-365 1mnf d1mnfi2 I:272-278,281-297,321-327,328-334 1we3 d1we3b2 B:271-277,280-296,320-326,327-333 1wf4 d1wf4a2 A:271-277,280-296,320-326,327-333 1q3s d1q3sf2 F:310-315,317-329,348-356,357-365 1a6d d1a6da2 A:307-312,314-326,345-353,354-362 1we3 d1we3f2 F:271-277,280-296,320-326,327-333 1q3s d1q3sc2 C:310-315,317-329,348-356,357-365 1we3 d1we3g2 G:271-277,280-296,320-326,327-333 1a6e d1a6ea2 A:307-312,314-326,345-353,354-362 1q3s d1q3sg2 G:310-315,317-329,348-356,357-365 1we3 d1we3c2 C:271-277,280-296,320-326,327-333 1q3r d1q3rb2 B:310-315,317-329,348-356,357-365 1we3 d1we3a2 A:271-277,280-296,320-326,327-333 1sjp d1sjpb2 B:269-275,278-294,318-324,325-331 1wf4 d1wf4g2 G:271-277,280-296,320-326,327-333 1q3r d1q3rc2 C:310-315,317-329,348-356,357-365 1dkd d1dkdb_ B:272-278,281-297,321-327,328-334 1wf4 d1wf4c2 C:271-277,280-296,320-326,327-333 1q2v d1q2vd2 D:310-315,317-329,348-356,357-365 1q2v d1q2vb2 B:310-315,317-329,348-356,357-365 1dkd d1dkdc_ C:272-278,281-297,321-327,328-334 1gml d1gmla_ A:237-242,316-328,348-356,357-367 1gml d1gmlb_ B:237-242,316-328,348-356,357-367 1asx d1asxa_ A:95-100,102-114,133-141,142-150 1q2v d1q2va2 A:310-315,317-329,348-356,357-365 1q3q d1q3qb2 B:310-315,317-329,348-356,357-365 1q3q d1q3qc2 C:310-315,317-329,348-356,357-365 1jon d1jona_ A:272-278,281-297,321-327,328-334 1q2v d1q2vc2 C:310-315,317-329,348-356,357-365 1q3r d1q3rd2 D:310-315,317-329,348-356,357-365 1q3r d1q3ra2 A:310-315,317-329,348-356,357-365 1q3q d1q3qa2 A:310-315,317-329,348-356,357-365 1pcq d1pcqm2 M:272-278,281-297,321-327,328-334 1q3q d1q3qd2 D:310-315,317-329,348-356,357-365 1aon d1aonl2 L:272-278,280-297,321-327,328-334 1srv d1srva_ A:272-278,281-297,321-327,328-334 1gn1 d1gn1b_ B:309-314,316-328,348-356,357-365 1gn1 d1gn1g_ G:309-314,316-328,348-356,357-365 1pf9 d1pf9m2 M:272-278,281-297,321-327,328-334 1pf9 d1pf9k2 K:272-278,281-297,321-327,328-334 1pf9 d1pf9i2 I:272-278,281-297,321-327,328-334 1pf9 d1pf9n2 N:272-278,281-297,321-327,328-334 1pf9 d1pf9l2 L:272-278,281-297,321-327,328-334 1pf9 d1pf9h2 H:272-278,281-297,321-327,328-334 1gml d1gmld_ D:309-314,316-328,348-356,357-365 1gml d1gmlc_ C:309-314,316-328,348-356,357-365 1gn1 d1gn1f_ F:309-314,316-328,348-356,357-367 1gn1 d1gn1d_ D:309-314,316-328,348-356,357-367 1gn1 d1gn1h_ H:309-314,316-328,348-356,357-367 1gn1 d1gn1c_ C:309-314,316-328,348-356,357-367 1gn1 d1gn1a_ A:309-314,316-328,348-356,357-367 1gn1 d1gn1e_ E:309-314,316-328,348-356,357-367 1gml d1gmla_ A:309-314,316-328,348-356,357-367 1gml d1gmlb_ B:309-314,316-328,348-356,357-367 1sjp d1sjpa2 A:269-274,278-294,318-324,325-331 29. c.1.30 CutC-like TIM beta/alpha-barrel contains parallel beta-sheet barrel, closed; n=8, S=8; strand order 12345678 ! the first seven superfamilies have similar phosphate-binding sites 1twd d1twda_ A:2-9,10-21,199-204,226-231 1x7i d1x7ia1 A:2-9,10-21,199-205,225-231 1x8c d1x8ca1 A:2-9,10-21,199-205,225-231 1x7i d1x7ib1 B:2-9,10-21,199-205,225-231 1x8c d1x8cb1 B:2-9,10-21,199-205,225-231 1twd d1twdb_ B:2-9,10-21,199-205,225-231 30. c.85.1 FucI/AraA N-terminal and middle domains FucI/AraA N-terminal and middle domains consists of two domains of similar topology, 3 layers (a/b/a) each ! Domain 1 (1-173) has parallel beta-sheet of 5 strands, order 21345 ! Domain 2 (174-355) has parallel beta-sheet of 4 strands, order 2134 2hxg d2hxgb2 B:301-305,308-323,327-331,449-456 2hxg d2hxga2 A:301-305,308-323,327-331,449-456 2ajt d2ajtc2 C:301-305,308-323,326-331,449-456 1fui d1fuif2 F:333-337,339-354,357-367,527-534 1fui d1fuib2 B:333-337,339-354,357-367,527-534 1fui d1fuid2 D:333-337,339-354,357-367,527-534 1fui d1fuic2 C:333-337,339-354,357-367,527-534 1fui d1fuia2 A:333-337,339-354,357-367,527-534 1fui d1fuie2 E:333-337,339-354,357-367,527-534 2ajt d2ajta2 A:301-306,308-323,326-331,449-456 42. d.197.1 Protein-L-isoaspartyl O-methyltransferase, C-terminal domain Protein-L-isoaspartyl O-methyltransferase, C-terminal domain beta-alpha-beta(4)-alpha-beta(2); 3 layers: beta/alpha/beta; buried helix 1dl5 d1dl5b2 B:168-179,236-249,250-255,256-263 1dl5 d1dl5a2 A:168-179,236-249,250-255,256-263 43. c.153.1 YerB-like YerB-like 3 layers: b/b/a; central mixed beta-sheet of 9 strands, order 541329678; strands 3 and 7 are antiparallel to the rest; an unusual "over the other end" connection between strands 3 and 4 2psb d2psba1 A:52-60,86-97,236-243,244-251 49. b.67.3 Apyrase distorted propeller with an alpha helix inserted between the second and third blades ! 5-bladed beta-propeller consists of five 4-stranded beta-sheet motifs; meander 2h2n d2h2na1 A:176-183,192-204,208-221,222-235 1s1d d1s1da_ A:176-183,191-204,208-221,222-235 1s18 d1s18a_ A:176-183,191-204,208-221,222-236 1s18 d1s18b_ B:176-183,191-204,208-221,222-236 1s1d d1s1db_ B:176-183,191-204,208-221,222-236 2h2n d2h2nb1 B:176-183,192-204,208-221,222-236 50. e.72.1 SSO1389-like SSO1389-like 2 domains; d1: [alpha/beta, central parallel beta-sheet of 6 strands, order 321456, Rossmann-like]; d2: [alpha+beta, cluster of helices and a small 4-stranded beta-sheet] 2i71 d2i71b1 B:84-89,98-118,251-257,258-264 2i71 d2i71a1 A:84-89,98-118,251-257,258-264