1. d.122.1 ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 8-stranded mixed beta-sheet; 2 layers: alpha/beta
1id0 d1id0a_ A:339-356,360-366,375-394,396-406,407-416
1b3q d1b3qb3 B:357-377,379-386,399-416,429-440,441-452
2c2a d2c2aa2 A:328-341,349-356,366-385,392-402,403-414
1gkx d1gkxa2 A:196-217,221-227,235-259,267-275,277-286
1i5c d1i5cb_ B:357-377,379-386,399-416,429-440,441-452
1i58 d1i58a_ A:357-377,379-386,399-416,429-440,441-452
1i5b d1i5ba_ A:357-377,379-386,399-416,429-440,441-452
1i5a d1i5aa_ A:357-377,379-386,399-416,429-440,441-452
1i59 d1i59a_ A:357-377,379-386,399-416,429-440,441-452
1gkz d1gkza2 A:196-217,221-227,235-259,267-275,277-286
1gjv d1gjva2 A:196-217,221-227,235-259,267-275,277-286
1i5c d1i5ca_ A:357-377,379-386,399-416,429-440,441-452
1i5a d1i5ab_ B:357-377,379-386,399-416,429-440,441-452
1i5d d1i5da_ A:357-377,379-386,399-416,429-440,441-452
1i5b d1i5bb_ B:357-377,379-386,399-416,429-440,441-452
1i58 d1i58b_ B:357-377,379-386,395-416,429-440,441-452
1i59 d1i59b_ B:357-377,379-386,395-416,429-440,441-452
1bxd d1bxda_ A:300-314,318-324,333-353,355-364,365-377
1b3q d1b3qa3 A:357-377,379-386,399-416,429-440,441-450
1ysr d1ysrb1 B:305-322,324-329,339-359,361-371,372-381
2ch4 d2ch4a2 A:358-377,379-386,399-416,429-440,441-450
1ys3 d1ys3b1 B:305-322,324-329,339-359,361-371,372-381
1ys3 d1ys3c1 C:305-322,324-329,339-359,361-371,372-381
1ysr d1ysrc1 C:305-322,324-329,339-359,361-371,372-381
1r62 d1r62a_ A:198-214,217-225,234-254,257-269,278-289
1ys3 d1ys3a1 A:305-322,324-329,339-359,361-371,372-381
1ysr d1ysra1 A:305-322,324-329,339-359,361-371,372-381
2ch4 d2ch4b2 B:364-377,379-386,399-416,429-440,441-452
2pnr d2pnrb2 B:192-213,216-225,237-261,268-277,279-288
2pnr d2pnre2 E:192-213,216-225,237-261,268-277,279-288
2pnr d2pnrf2 F:192-213,216-225,237-261,268-277,279-288
2pnr d2pnra2 A:192-213,216-225,237-261,268-277,279-288
1y8n d1y8na2 A:192-213,217-225,237-263,269-277,279-288
1y8p d1y8pa2 A:192-213,217-225,237-263,269-277,279-290
1jm6 d1jm6b2 B:1188-1209,1212-1221,1233-1257,1263-1272,1274-1286
2q8i d2q8ia2 A:192-213,217-225,237-263,269-277,279-291
1y8o d1y8oa2 A:192-213,217-225,237-263,269-277,279-291
1jm6 d1jm6a2 A:1188-1209,1212-1221,1233-1257,1263-1272,1274-1286
2. d.123.1 Sporulation response regulatory protein Spo0B Histidine kinase-like fold lacking the kinase ATP-binding site !
Sporulation response regulatory protein Spo0B core: alpha-beta-alpha-beta(2)-(alpha)-beta(2)
1f51 d1f51a_ A:73-87,90-98,103-125,131-139,145-154
1f51 d1f51c_ C:473-483,490-498,503-525,531-539,545-554
1f51 d1f51d_ D:673-683,690-698,706-725,731-739,745-754
1f51 d1f51b_ B:273-283,290-298,303-325,331-339,345-354
1ixm d1ixma_ A:73-83,90-98,103-125,131-140,145-154
1ixm d1ixmb_ B:273-283,290-298,303-325,331-339,345-354
2ftk d2ftkb1 B:273-283,290-298,306-325,329-339,345-355
2ftk d2ftkc1 C:473-483,490-498,503-525,529-539,545-555
2ftk d2ftkd1 D:673-683,690-698,703-725,729-739,745-755
2ftk d2ftka1 A:73-83,90-98,103-125,129-139,145-155
3. d.320.1 YojJ-like
YojJ-like alpha-beta-X-beta-alpha-beta(2)-alpha-beta(3); 3 layers: a/b/a; 7-stranded mixed beta-sheet, order 2431567; strands 1 and 3 are parallel to each other
2fb5 d2fb5b1 B:76-91,92-100,119-128,136-142,143-152
2fb5 d2fb5c1 C:76-91,92-100,119-128,136-142,143-152
2fb5 d2fb5a1 A:76-91,92-100,119-128,136-142,143-152
4. c.37.1 P-loop containing nucleoside triphosphate hydrolases division into families based on beta-sheet topologies !
P-loop containing nucleoside triphosphate hydrolases 3 layers: a/b/a, parallel or mixed beta-sheets of variable sizes
1qvr d1qvra3 A:758-781,780-787,803-827,831-840,843-849
1qvr d1qvrb3 B:758-781,780-787,803-827,831-840,843-848
1qvr d1qvrc3 C:758-781,780-787,803-827,831-841,842-848
1r6b d1r6bx3 X:654-677,677-683,699-723,728-738,739-749
1ksf d1ksfx3 X:654-677,677-683,699-723,728-738,739-749
1um8 d1um8a_ A:358-371,371-377,394-413,418-424,434-438
5. c.106.1 SurE-like some topological similarity to the N-terminal domain of Glutaminase/Asparaginase family !
SurE-like 3 layers: a/b/a; mixed beta-sheet of 9 strands, order 342156798; strands 3, 8 and 9 are antiparallel to the rest; left-handed crossover connection between strands 6 and 7
1l5x d1l5xb_ B:13-27,121-129,138-160,166-174,231-238
1l5x d1l5xa_ A:13-27,121-129,138-160,166-174,231-238
1ilv d1ilvb_ B:13-27,122-130,135-151,159-167,222-230
1j9j d1j9jb_ B:13-27,122-130,135-150,159-167,222-230
1j9l d1j9lb_ B:13-27,122-130,135-150,159-167,222-230
1ilv d1ilva_ A:13-27,122-130,135-150,159-167,222-230
1j9j d1j9ja_ A:13-27,122-129,135-150,159-166,222-230
1j9l d1j9la_ A:13-27,122-129,135-150,159-166,222-230
1j9k d1j9ka_ A:13-27,122-130,135-150,159-167,222-230
1j9k d1j9kb_ B:13-27,122-130,135-150,159-167,223-230
6. c.89.1 Phosphofructokinase
Phosphofructokinase consists of two non-similar domains, 3 layers (a/b/a) each ! Domain 1 has mixed sheet of 7 strands, order 3214567; strands 3 & 7 are antiparallel to the rest ! Domain 2 has parallel sheet of 4 strands, order 2314
1mto d1mtof_ F:13-31,118-125,257-278,280-288,289-295
4pfk d4pfka_ A:13-31,118-123,257-278,280-288,289-295
1mto d1mtoe_ E:13-31,118-123,257-278,280-288,289-295
1mto d1mtoc_ C:13-31,118-123,257-278,280-288,289-295
3pfk d3pfka_ A:13-31,118-123,257-278,280-288,289-295
1mto d1mtob_ B:13-31,118-123,257-278,280-288,289-295
6pfk d6pfka_ A:13-31,118-123,257-278,280-288,289-295
6pfk d6pfkc_ C:13-31,118-123,257-278,280-288,289-295
2pfk d2pfka_ A:13-31,118-123,257-278,280-288,289-295
1pfk d1pfkb_ B:13-31,118-123,257-278,280-288,289-295
1pfk d1pfka_ A:13-31,118-125,257-278,281-288,289-295
6pfk d6pfkb_ B:13-31,118-123,257-278,280-288,289-295
2pfk d2pfkb_ B:13-31,118-123,257-278,280-288,289-296
1mto d1mtoh_ H:13-31,118-123,257-278,280-288,289-296
1mto d1mtod_ D:13-31,118-123,257-278,280-288,289-295
1mto d1mtog_ G:13-31,118-123,257-278,280-288,289-295
1mto d1mtoa_ A:13-31,118-123,257-278,281-288,289-295
6pfk d6pfkd_ D:13-31,118-123,257-278,281-288,289-295
2pfk d2pfkd_ D:13-31,117-123,257-278,280-288,289-295
2pfk d2pfkc_ C:13-31,117-123,257-278,280-288,289-295
1kzh d1kzha_ A:86-103,196-204,436-457,459-467,475-482
2f48 d2f48b1 B:86-103,196-202,436-457,459-467,475-481
2f48 d2f48a1 A:86-103,196-202,436-457,459-467,475-482
1kzh d1kzhb_ B:86-103,196-202,436-457,459-467,475-481
7. c.52.1 Restriction endonuclease-like
Restriction endonuclease-like core: 3 layers, a/b/a; mixed beta-sheet of 5 strands, order 12345; strands 2 &, in some families, 5 are antiparallel to the rest
1odg d1odga_ A:23-36,109-116,126-141,144-149,150-155
1vsr d1vsra_ A:25-36,109-115,126-141,144-149,150-155
1cw0 d1cw0a_ A:22-36,109-115,126-141,144-149,150-155
8. c.2.1 NAD(P)-binding Rossmann-fold domains
NAD(P)-binding Rossmann-fold domains core: 3 layers, a/b/a; parallel beta-sheet of 6 strands, order 321456 ! The nucleotide-binding modes of this and the next two folds/superfamilies are similar
1b14 d1b14b_ B:15-29,173-182,213-228,230-238,239-244
1b14 d1b14a_ A:15-29,173-182,213-228,230-238,239-244
1a4u d1a4ub_ B:15-29,173-182,213-228,230-238,239-244
1a4u d1a4ua_ A:15-29,173-182,213-228,230-238,239-244
1sby d1sbyb1 B:15-29,173-182,213-228,230-238,239-244
1b16 d1b16b_ B:15-29,173-182,213-228,230-238,239-244
1mg5 d1mg5a_ A:16-30,174-183,214-229,231-239,240-245
1b15 d1b15a_ A:15-29,173-182,213-228,230-238,239-244
1sby d1sbya1 A:15-29,173-182,213-228,230-238,239-244
1b15 d1b15b_ B:15-29,173-182,213-228,230-238,239-244
1b16 d1b16a_ A:15-29,173-182,213-228,230-238,239-244
1b2l d1b2la_ A:15-29,173-182,213-228,230-238,239-244
9. c.66.1 S-adenosyl-L-methionine-dependent methyltransferases
S-adenosyl-L-methionine-dependent methyltransferases core: 3 layers, a/b/a; mixed beta-sheet of 7 strands, order 3214576; strand 7 is antiparallel to the rest
2bh2 d2bh2a2 A:96-113,117-121,390-405,406-415,423-431
2bh2 d2bh2b2 B:96-113,117-121,390-405,406-415,423-431
1uwv d1uwva2 A:96-113,117-121,390-405,406-415,424-431
List of motif hits that are not present in SCOP but are found in PDB for pattern ID: 1037 (enumeration index: query2216) of S5
3a0x A:610-623,630-638,647-667,669-680,681-690
3c21 A:22-35,36-44,64-75,77-82,85-91
3c21 B:22-35,36-44,64-75,76-82,85-91
2hig B:111-128,219-225,388-409,413-419,420-426
2bu7 A:188-209,212-221,233-257,263-272,274-286
2wqk B:14-28,121-129,134-153,157-166,225-233
2wqk A:14-28,121-129,134-153,157-166,225-233
2pmf A:308-317,318-323,349-367,372-378,388-397
3o8n A:27-45,156-162,306-327,333-340,341-347
3o8n B:412-430,520-528,669-695,707-715,716-722
3o8n A:412-430,520-528,669-696,707-715,716-722
3o8n B:27-45,156-162,306-327,333-340,341-348
3pxi C:715-738,740-744,760-784,790-798,799-807
3pxi A:715-738,740-744,760-784,790-798,799-807
3pxi B:715-738,740-744,760-784,790-798,799-807
2e0a A:199-220,224-233,244-268,275-284,285-294
2e0a B:199-220,224-233,244-268,275-284,285-297
3a0y B:610-623,630-638,647-667,669-679,681-690
3a0y A:610-623,630-638,647-667,669-679,681-691
3jz3 A:312-325,332-341,349-368,370-380,381-388
3jz3 B:312-325,332-341,349-368,371-380,381-388
1zxx A:13-31,117-125,257-278,280-288,289-295
3ehf D:245-261,262-266,276-299,301-311,312-321
3ehf A:245-261,262-266,276-299,301-311,312-321
3zxo A:455-468,472-480,486-505,511-520,522-533
3zxo B:455-468,472-480,486-504,511-520,522-531
2q5h A:308-317,318-323,349-367,372-378,388-397
2zdx B:199-219,224-233,244-268,275-284,285-297
2zdx A:199-219,224-232,244-268,275-283,285-294
3crk B:196-217,221-229,241-265,272-280,282-294
3crk A:196-217,221-229,241-265,272-280,282-294
2bu5 A:188-209,212-221,233-257,263-272,274-286
2e69 B:13-27,122-130,137-155,159-166,220-228
2e69 A:13-27,122-130,137-156,159-166,220-228
2e69 D:13-27,122-130,137-155,159-166,220-228
2e69 C:13-27,122-130,137-156,159-166,220-228
3a0t A:610-623,630-638,647-667,669-679,681-690
3cgy A:340-357,361-367,376-396,397-407,408-417
3cgy C:340-357,361-367,376-395,397-407,408-417
3cgy B:340-357,361-367,376-395,397-407,408-417
3cgz B:340-357,361-367,376-395,397-407,408-417
3cgz A:340-357,361-367,376-395,397-407,408-417
3cgz C:340-357,361-367,376-395,397-407,408-417
3c23 A:22-35,36-44,64-75,76-82,85-91
3c23 B:22-35,36-44,64-75,76-82,85-91
3hte E:332-345,346-351,367-387,392-398,409-413
3hte B:332-345,346-351,367-387,393-398,409-413
3hte C:332-345,346-351,367-387,393-398,409-413
3hte A:332-345,346-351,367-387,393-398,409-413
3hte D:332-345,346-351,380-390,393-398,409-413
3hte F:332-345,346-351,367-387,393-398,409-413
2pme A:308-317,318-323,349-367,372-378,388-397
3c1z A:22-35,36-44,64-75,76-82,85-91
3c1z B:22-35,36-44,64-75,76-82,85-91
3gie B:245-261,262-266,276-299,301-311,312-321
3gie A:245-261,262-266,276-299,301-311,312-321
3c1y A:22-35,36-44,64-75,76-82,85-91
3c1y B:22-35,35-44,64-75,76-82,85-91
3mjv B:35-46,157-165,169-183,187-193,194-204
3mjv A:35-46,157-165,169-183,187-193,194-204
3opy E:222-240,352-357,501-522,528-535,536-542
3opy B:193-211,324-331,474-495,501-508,509-515
3opy A:610-628,719-727,872-892,934-942,943-949
3opy A:222-240,352-357,501-522,528-535,536-542
3opy D:193-211,324-331,474-495,501-508,509-515
3opy F:583-601,693-701,846-868,890-896,899-905
3opy E:610-628,719-727,872-892,934-942,943-949
3opy H:193-211,324-331,474-495,501-508,509-515
3opy D:583-601,693-701,846-868,890-896,899-905
3opy C:610-628,719-727,872-892,934-942,943-949
3opy F:193-211,324-331,474-495,501-508,509-515
3opy G:610-628,719-727,872-892,934-942,943-949
3opy G:222-240,352-357,501-522,528-535,536-542
3opy H:583-601,693-701,846-868,890-896,899-905
3opy B:583-601,693-701,846-868,890-896,899-905
3opy C:222-240,352-357,501-522,528-535,536-542
3mjc B:35-46,157-165,169-183,187-193,194-204
3mjc A:35-46,157-165,169-183,187-193,194-204
2e6e B:13-27,123-129,137-155,159-166,220-228
2e6e C:13-27,122-130,137-156,159-166,220-228
2e6e A:13-28,122-130,137-155,159-166,220-228
2e6e D:13-28,123-129,137-155,159-166,221-228
2zkj B:199-220,224-233,244-268,275-284,285-294
2zkj A:199-220,224-233,244-268,275-284,285-297
3a0w B:610-623,630-638,647-667,669-679,681-691
3a0w A:610-623,630-638,647-667,669-680,681-690
3mjs A:35-46,157-165,169-183,187-193,194-204
3mjs B:35-46,157-165,169-183,187-193,194-204
3mje B:35-46,157-165,169-183,187-193,194-204
3mje A:35-46,157-165,169-183,187-193,194-204
3d2r B:199-220,224-232,244-268,275-283,285-294
3d2r A:199-220,224-233,244-268,275-284,285-294
2bu8 A:188-209,213-221,233-257,264-272,274-283
3dge A:328-341,349-356,366-385,392-402,403-412
3dge B:328-341,349-356,366-385,392-402,403-412
3gig B:241-261,262-266,276-299,301-311,312-321
3gig A:245-261,262-266,276-299,301-311,312-321
3o8l A:27-45,156-162,306-327,333-340,341-347
3o8l B:412-430,520-528,669-695,707-715,716-722
3o8l A:412-430,520-528,669-696,707-715,716-722
3o8l B:27-45,156-162,306-328,333-340,341-347
3crl A:196-217,221-229,241-265,272-280,282-291
3crl B:196-217,221-229,241-265,272-280,282-294
2zt7 A:308-317,318-323,349-367,372-378,387-397
3o8o B:208-226,338-344,489-510,517-523,524-530
3o8o G:217-235,346-352,496-517,523-530,531-537
3o8o E:217-235,346-352,496-517,523-530,531-537
3o8o A:605-623,714-720,867-893,923-931,932-938
3o8o B:598-616,708-716,861-883,906-914,915-921
3o8o D:208-226,338-344,489-510,517-523,524-530
3o8o A:217-235,346-352,496-517,523-530,531-537
3o8o C:217-235,346-352,496-517,523-530,531-537
3o8o H:208-226,338-344,489-510,517-523,524-530
3o8o G:605-623,714-722,867-893,923-931,932-938
3o8o D:598-616,708-716,861-883,906-914,915-921
3o8o F:598-616,708-716,861-883,906-914,915-921
3o8o H:598-616,708-716,861-883,906-914,915-921
3o8o C:605-623,714-722,867-893,923-931,932-938
3o8o E:605-623,714-722,867-893,923-931,932-938
3o8o F:208-226,338-344,489-510,517-523,524-530
2v4n A:13-27,119-127,130-149,154-162,220-227
3mjt A:35-46,157-165,169-183,187-193,194-204
3mjt B:35-46,157-165,169-183,187-193,194-204
2e6b B:13-27,122-130,137-156,159-166,220-228
2e6b A:13-27,122-130,137-156,159-166,220-228
2e6b D:13-27,123-130,137-155,159-166,220-228
2e6b C:13-27,122-130,137-156,159-166,220-228
3a0z B:610-623,630-638,647-667,669-680,681-691
3a0z A:610-623,630-638,647-667,669-680,681-691
3ehj B:245-261,262-266,276-299,301-311,312-321
3ehj A:245-261,262-266,276-299,301-311,312-321
2bu2 A:188-209,213-221,233-257,264-272,274-283
2btz A:188-209,212-221,233-257,263-272,274-283
3hws D:332-345,346-351,380-391,393-398,409-413
3hws B:332-345,346-351,367-387,392-398,409-413
3hws F:332-345,346-351,380-391,392-398,409-413
3hws A:332-345,346-351,380-391,393-398,409-413
3hws C:332-345,346-351,380-391,393-398,409-413
3hws E:332-345,346-351,380-391,392-398,409-413
3d36 B:275-288,295-302,310-330,332-343,344-355
3d36 A:275-288,295-302,310-330,332-343,344-355
3ty2 B:24-38,129-136,142-161,166-173,232-240
3ty2 A:24-38,129-136,142-161,166-173,232-240
2e6c A:13-27,122-130,137-156,159-166,220-228
2e6c C:13-27,122-130,137-156,159-166,220-228
2e6c D:13-27,122-130,137-155,159-166,220-228
2e6c B:13-27,122-130,137-155,159-166,220-228
3gif A:245-261,262-266,276-299,301-311,312-321
2v4o C:13-27,119-127,130-149,154-162,220-228
2v4o A:13-28,119-127,130-149,154-162,220-228
2v4o D:13-27,119-127,130-149,154-162,220-228
2v4o B:13-27,119-127,130-149,154-162,221-228
2zt5 A:308-317,318-323,349-367,372-378,388-397
2zt8 A:308-317,318-323,349-367,372-378,387-397
3f5m A:111-128,219-225,388-409,413-419,420-426
3f5m B:111-128,219-225,388-409,412-419,420-426
3f5m D:111-128,219-225,388-409,412-419,420-426
3f5m C:111-128,219-225,388-409,411-419,420-426
3qlj A:16-30,193-202,227-240,247-255,256-272
3qlj F:16-30,193-202,227-240,247-255,256-272
3qlj D:16-30,193-202,227-240,247-255,256-272
3qlj C:16-30,193-202,227-240,247-255,256-272
2zdy A:199-220,224-233,244-268,275-284,285-294
2zdy B:199-220,224-232,244-268,275-284,285-297
2e6h A:13-27,122-130,137-155,159-166,220-228
2e6h D:13-27,123-130,137-155,159-166,220-228
2e6h B:13-27,122-130,137-155,159-166,220-228
2e6h C:13-27,122-130,137-156,159-166,220-228
3ehg A:245-261,262-266,276-299,301-311,312-321
3ehh B:245-261,262-266,276-299,301-311,312-321
3ehh A:245-261,262-266,276-299,301-311,312-321
2q5i A:308-317,318-323,349-367,372-378,388-397
2q8h A:224-245,248-257,269-293,299-308,310-322
2bu6 A:188-209,213-221,233-257,264-272,274-285
2q8g A:224-245,249-258,269-293,300-309,310-319
3k2q B:15-33,134-142,307-328,330-342,343-353
3k2q C:15-33,134-142,307-328,330-340,344-353
3a0r A:610-623,630-638,647-667,669-680,681-691
2q8f A:224-245,248-257,269-293,299-308,310-319
3bt7 A:7-30,34-38,325-341,340-349,357-365
3bt7 B:7-30,34-38,325-341,340-349,357-365
2e6g J:13-27,122-130,137-156,159-166,221-228
2e6g E:13-27,122-130,137-155,159-166,220-228
2e6g G:13-27,122-130,137-156,159-165,220-228
2e6g H:13-27,122-130,137-155,159-166,220-228
2e6g K:13-27,123-130,137-156,159-165,220-228
2e6g D:13-27,123-130,137-155,159-166,220-228
2e6g F:13-27,123-130,137-156,159-166,220-228
2e6g A:13-27,122-130,137-155,159-165,220-228
2e6g C:13-27,123-130,137-155,159-166,220-228
2e6g B:13-27,122-130,137-155,159-166,221-228
2e6g I:13-27,122-130,137-155,159-166,220-228
2e6g L:13-27,122-129,137-155,159-166,220-228
2zt6 A:308-317,318-323,349-367,372-378,388-397
2vh1 A:166-185,206-213,215-227,238-247,250-259