1. d.104.1 Class II aaRS and biotin synthetases
Class II aaRS and biotin synthetases contains large mixed beta-sheet
1wqw d1wqwa2 A:33-41,57-67,74-94,152-175,174-186
1x01 d1x01a2 A:33-41,57-67,71-94,152-175,174-186
2dkg d2dkgb2 B:33-41,57-67,71-94,152-175,174-186
2dto d2dtoa2 A:33-41,57-67,71-94,152-175,174-186
2zgw d2zgwa2 A:33-41,57-67,71-94,152-175,174-186
2e41 d2e41a2 A:33-41,57-67,71-94,152-175,174-186
2dti d2dtia2 A:33-41,57-67,71-94,152-175,174-186
2dkg d2dkga2 A:33-41,57-67,71-94,152-175,174-186
2e64 d2e64b2 B:33-41,57-67,71-94,152-175,174-186
2dto d2dtob2 B:33-41,57-67,71-94,152-175,174-186
1x01 d1x01b2 B:33-41,57-67,71-94,152-175,174-186
2e64 d2e64a2 A:33-41,57-67,71-94,152-175,174-186
2e41 d2e41b2 B:33-41,57-67,71-94,152-175,174-186
2fyk d2fyka2 A:33-41,57-67,71-94,152-175,174-186
1wqw d1wqwb2 B:33-41,57-67,71-94,152-175,174-186
1wpy d1wpya2 A:33-41,57-67,71-94,152-175,174-186
2fyk d2fykb2 B:33-41,57-67,71-94,152-175,174-186
1wpy d1wpyb2 B:33-41,57-67,71-94,152-175,174-186
2dti d2dtib2 B:33-41,57-67,71-94,152-175,174-186
1wq7 d1wq7b2 B:34-41,57-67,71-94,152-175,174-186
2ejf d2ejfa2 A:33-41,57-67,71-94,152-175,174-186
2dth d2dthb2 B:33-41,57-67,71-94,152-175,174-186
2dth d2dtha2 A:33-41,57-67,71-94,152-175,174-186
1wq7 d1wq7a2 A:33-41,57-67,71-94,152-175,174-186
2ejf d2ejfb2 B:35-41,57-67,71-94,152-175,174-186
1hxd d1hxda3 A:103-111,129-142,145-165,234-257,256-269
2zgw d2zgwb2 B:33-41,57-67,77-94,152-175,174-186
1bib d1biba3 A:103-111,129-140,145-165,234-257,256-269
1wnl d1wnlb2 B:33-41,57-67,77-94,152-175,174-186
1bia d1biaa3 A:103-111,129-140,145-165,234-257,256-269
1wnl d1wnla2 A:33-41,57-67,71-81,152-175,174-186
2. d.87.1 FAD/NAD-linked reductases, dimerisation (C-terminal) domain both first two domains are of same beta/beta/alpha fold !
CO dehydrogenase flavoprotein C-domain-like core: beta(3,4)-alpha(3); alpha+beta sandwich
1q1r d1q1rb3 B:360-368,369-378,379-393,397-404,407-422
1q1w d1q1wb3 B:360-368,369-378,379-393,397-404,407-423
1q1w d1q1wa3 A:360-368,369-378,379-393,397-404,407-423
1q1r d1q1ra3 A:360-368,369-378,379-393,397-404,407-422
1d7y d1d7ya3 A:351-359,360-369,370-384,388-395,397-405
1f3p d1f3pa3 A:351-359,360-369,370-384,388-395,397-405
3. b.82.4 Regulatory protein AraC
Double-stranded beta-helix one turn of helix is made by two pairs of antiparallel strands linked with short turns ! has appearance of a sandwich of distinct architecture and jelly-roll topology
2aac d2aacb_ B:40-52,69-77,101-110,123-144,145-168
2ara d2araa_ A:40-52,69-77,101-110,123-143,145-167
2arc d2arca_ A:40-52,69-77,101-110,123-143,145-167
1xja d1xjab_ B:40-51,69-77,101-110,123-143,145-168
1xja d1xjac_ C:40-52,69-76,101-110,123-144,145-168
2aac d2aaca_ A:40-52,69-77,101-110,123-143,145-168
2arc d2arcb_ B:40-52,69-77,101-110,123-143,145-170
1xja d1xjaa_ A:40-52,69-77,101-110,123-143,145-170
1xja d1xjad_ D:39-52,69-77,101-110,123-143,145-171
1xja d1xjae_ E:40-51,69-76,101-110,123-143,145-169
4. d.92.1 Metalloproteases ("zincins"), catalytic domain
Zincin-like contains mixed beta sheet with connection over free side of the sheet
5tln d5tlna_ A:112-117,118-123,136-154,158-181,259-275
5. a.39.1 EF-hand Duplication: consists of two EF-hand units: each is made of two helices connected with calcium-binding loop !
EF Hand-like core: 4 helices; array of 2 hairpins, opened
1qxp d1qxpb2 B:516-520,637-641,641-653,660-683,882-893
1qxp d1qxpa2 A:515-520,637-641,641-653,660-683,882-893
6. i.23.1 clathrin assemblies
clathrin assemblies
1w63 d1w63v_ V:4-11,64-72,76-96,106-119,127-136
1w63 d1w63p_ P:4-11,64-72,76-96,106-119,127-136
1w63 d1w63o_ O:4-11,64-72,76-96,106-119,127-136
1w63 d1w63n_ N:4-11,64-72,76-96,106-119,127-136
1w63 d1w63r_ R:4-11,64-72,76-96,106-119,127-136
1w63 d1w63m_ M:4-11,64-72,76-96,106-119,127-136
2vgl d2vgls1 S:1-10,64-72,76-96,106-118,127-142
1w63 d1w63s_ S:1-10,64-72,76-96,106-119,127-148
1w63 d1w63t_ T:1-10,64-72,76-96,106-119,127-148
1w63 d1w63q_ Q:1-10,64-72,76-96,106-119,127-148
1w63 d1w63x_ X:1-10,64-72,76-96,106-119,127-148
1w63 d1w63u_ U:1-10,64-72,76-96,106-119,127-148
1w63 d1w63w_ W:1-10,64-72,76-96,106-119,127-148
7. d.51.1 Eukaryotic type KH-domain (KH-domain type I) Prokaryotic and eukaryotic domains share a KH-motif but have different topologies !
Eukaryotic type KH-domain (KH-domain type I) beta-alpha(2)-beta(2)-alpha; 2 layers: alpha/beta
2nn6 d2nn6h3 H:193-198,200-207,227-248,252-267,272-293
8. a.172.1 Helical scaffold and wing domains of SecA
Helical scaffold and wing domains of SecA multihelical; consists of 2 all-alpha subdomains
1m74 d1m74a2 A:220-226,349-356,600-620,704-738,747-778
1m6n d1m6na2 A:220-226,349-356,600-620,704-738,747-778
1tf2 d1tf2a2 A:220-225,350-356,571-621,704-738,747-778
9. d.112.1 Phoshotransferase/anion transport protein
Phoshotransferase/anion transport protein beta-alpha(2)-beta(3)-alpha(3); 3 layers, alpha/beta/alpha; mixed sheet: order 1342; loop crossing
1hyn d1hynq_ Q:239-247,261-271,291-301,303-318,327-351
1hyn d1hynr_ R:239-248,261-271,291-301,303-318,327-350
10. d.128.1 Glutamine synthetase/guanido kinase
Glutamine synthetase/guanido kinase duplication: common core consists of two beta-alpha-beta2-alpha repeats
1r8g d1r8gb_ B:11-26,133-141,157-166,246-268,327-341
1tt4 d1tt4a_ A:11-26,133-141,157-166,246-268,325-341
1tt4 d1tt4b_ B:11-26,133-141,157-166,246-268,325-341
1r8g d1r8ga_ A:12-26,133-141,157-166,246-268,326-341
List of motif hits that are not present in SCOP but are found in PDB for pattern ID: 679 (enumeration index: query2607) of S5
3bfm A:36-45,46-55,59-82,154-176,177-189
2e10 B:33-41,57-67,71-94,152-175,174-186
2e10 A:33-41,57-67,77-94,152-175,174-186
2hf6 A:12-21,74-82,86-106,117-130,138-149
3ty4 A:103-111,120-128,156-181,301-317,318-336
3ty4 B:103-111,120-128,156-181,301-317,318-336
2ibm A:220-226,349-356,571-620,703-738,744-778
2yvg A:351-359,360-369,370-384,388-395,398-406
3iyu Y:688-695,696-700,723-735,737-747,748-760
2r0g A:279-283,298-302,306-329,332-364,399-406
2fsi B:222-228,369-376,620-670,755-793,798-829
2gwc E:101-114,244-250,267-276,393-411,471-486
2gwc A:101-114,244-250,267-276,393-411,471-486
2gwc F:101-114,244-250,267-276,393-411,471-486
2gwc B:101-114,244-250,267-276,393-411,471-486
2gwc H:101-114,244-250,267-276,393-411,471-486
2gwc D:101-114,244-250,267-276,393-411,471-486
2gwc C:101-114,244-250,267-276,393-411,471-486
2gwc G:101-114,244-250,267-276,393-411,471-486
2deq A:33-41,57-67,71-94,152-175,174-186
2deq B:33-41,57-67,71-94,152-175,174-186
2xa7 M:3-10,62-70,74-94,104-117,125-133
2xa7 S:1-10,64-72,76-96,106-118,127-142
2gr0 A:351-359,360-369,370-384,388-395,398-406
2cgh B:54-62,80-90,94-118,182-204,205-216
2cgh A:54-62,80-90,94-117,182-204,205-216
2fsh B:222-228,369-376,620-670,755-792,798-829
2fsh A:222-228,369-376,620-670,755-794,798-829
2yvf A:351-359,360-369,370-384,388-395,398-406
2djz A:33-41,57-67,71-94,152-175,174-186
2djz B:33-41,57-67,71-94,152-175,174-186
3jv2 A:220-225,350-356,571-620,704-738,747-778
3jv2 B:220-225,350-356,600-620,704-738,747-778
3fjp A:26-33,50-58,65-86,149-172,172-184
2hni B:33-41,57-67,71-94,152-175,174-186
2hni A:33-41,57-67,71-94,152-175,174-186
2fsg B:222-228,369-376,620-670,755-792,798-829
2fsg A:222-228,369-376,620-670,755-789,798-829
2e1h B:33-41,57-67,74-94,152-175,174-186
2e1h A:33-41,57-67,71-94,152-175,174-186
2gr3 A:351-359,360-369,370-384,388-395,398-406
2jkr I:1-10,64-72,76-96,106-118,127-142
2jkr S:1-10,64-72,76-96,106-118,127-142
2gr2 A:351-359,360-369,370-384,388-395,398-406
2dxu A:33-41,57-67,71-94,152-175,174-186
2dxu B:33-41,57-67,71-94,152-175,174-186
2e65 A:33-41,57-67,71-94,152-175,174-186
2e65 B:33-41,57-67,71-94,152-175,174-186
3l2z A:54-62,80-90,94-117,182-204,205-216
3l2z B:54-62,80-90,94-118,182-204,205-216
2dxt A:33-41,57-67,71-94,152-175,174-186
2dxt B:33-41,57-67,71-94,152-175,174-186
2ejg A:33-41,57-67,71-94,152-175,174-186
2ejg B:33-41,57-67,71-94,152-175,174-186
2vda A:222-226,372-376,620-670,755-789,798-830
2gr1 A:351-359,360-369,370-384,388-395,398-406
2dzc B:33-41,57-67,71-94,152-175,174-186
2dzc A:33-41,57-67,71-94,152-175,174-186
3l1a B:54-60,80-90,94-117,182-204,205-216
3l1a A:54-62,80-91,94-118,182-204,205-216
2gqw A:351-359,360-369,370-384,388-395,398-406
2fsf A:222-228,369-376,620-670,755-789,798-829
2fsf B:222-228,369-376,620-670,755-792,798-829
2yvj A:348-359,360-369,370-384,388-395,398-406
2yvj P:349-359,360-369,370-384,388-395,398-406
3nzt A:8-22,134-143,172-181,324-342,402-419
3ty3 B:103-111,120-128,156-181,301-317,318-336
3ty3 A:103-111,120-128,156-181,301-317,318-336
3iyl W:43-48,57-62,62-69,80-104,114-128
3lb8 A:360-368,369-378,379-393,397-404,407-419
3lb8 B:360-368,369-378,379-393,397-404,407-418
2dve A:33-41,57-67,71-94,152-175,174-186
2dve B:33-41,57-67,71-94,152-175,174-186
2jkt I:1-10,64-72,76-96,106-119,127-142
2jkt S:1-10,64-72,76-96,106-119,127-142
2dz9 A:33-41,57-67,71-94,152-175,174-186
2dz9 B:33-41,57-67,71-94,152-175,174-186
2vgl M:3-10,62-70,74-94,104-117,125-134