1. c.26.2 Adenine nucleotide alpha hydrolases-like share similar mode of ligand (Adenosine group) binding ! can be subdivided into two group with closer relationships within each group than between the groups; the first three families form one group whereas the last two families form the other group !
Adenine nucleotide alpha hydrolase-like core: 3 layers, a/b/a ; parallel beta-sheet of 5 strands, order 32145
1o95 d1o95e_ E:36-54,114-120,145-151,177-183
3clu d3cluc1 C:36-54,114-120,145-151,177-183
1o95 d1o95c_ C:36-54,114-120,145-151,177-183
3cls d3clsc1 C:36-54,114-120,145-151,177-183
1o96 d1o96c_ C:36-53,114-120,145-151,177-183
1o94 d1o94e_ E:36-54,114-120,145-151,177-183
1o94 d1o94c_ C:36-54,114-120,145-151,177-183
1o97 d1o97c_ C:36-54,114-120,145-151,177-183
3clt d3cltc1 C:36-54,114-120,145-151,177-183
3clr d3clrc1 C:36-54,114-120,145-151,177-183
1o96 d1o96q_ Q:36-54,114-120,145-151,177-183
1o96 d1o96a_ A:36-53,114-120,145-151,177-183
1o96 d1o96e_ E:36-53,114-120,145-151,177-183
1t9g d1t9gr_ R:34-48,106-112,136-140,163-169
1efv d1efva1 A:34-48,106-112,136-140,163-169
2a1u d2a1ua1 A:34-48,106-112,136-140,163-169
1efp d1efpb_ B:36-53,115-121,149-154,175-181
2a1t d2a1tr1 R:34-48,106-112,136-140,163-169
1efp d1efpd_ D:36-53,115-121,149-154,175-181
1efv d1efvb_ B:39-56,118-124,152-157,178-184
2a1u d2a1ub1 B:39-56,118-124,152-157,178-184
1t9g d1t9gs_ S:39-56,118-124,152-157,178-184
2a1t d2a1ts1 S:39-56,118-124,152-157,178-184
1o94 d1o94d_ D:15-29,89-95,118-125,150-156
3clu d3clud1 D:15-29,89-95,118-125,150-156
1o96 d1o96d1 D:15-29,89-95,118-125,150-156
3clt d3cltd1 D:15-29,89-95,118-125,150-156
3clr d3clrd1 D:15-29,89-95,118-125,150-156
3cls d3clsd1 D:15-29,89-95,118-125,150-156
1o96 d1o96f1 F:15-29,89-95,118-125,150-156
1o96 d1o96b1 B:15-29,89-95,118-125,150-156
1o96 d1o96z1 Z:15-29,89-95,118-125,150-156
1o97 d1o97d1 D:15-29,89-95,118-125,150-156
1o94 d1o94f_ F:15-29,89-95,118-125,150-156
1efp d1efpa1 A:15-27,85-91,114-119,142-148
1efp d1efpc1 C:15-27,85-91,115-119,142-148
2. b.81.1 Trimeric LpxA-like enzymes superhelical turns are made of three short strands; duplication: the sequence hexapeptide repeats correspond to individual strands !
Single-stranded left-handed beta-helix superhelix turns are made of parallel beta-strands and (short) turns
1ssm d1ssmd_ D:101-120,148-154,157-163,168-175
1s80 d1s80b_ B:101-120,148-154,157-163,168-175
1s80 d1s80e_ E:101-120,148-154,157-163,168-175
1s80 d1s80d_ D:101-120,148-154,157-163,168-175
1t3d d1t3da_ A:105-124,152-158,161-167,172-179
1s80 d1s80f_ F:101-120,148-154,157-163,168-175
1s80 d1s80a_ A:101-120,148-154,157-163,168-175
1t3d d1t3db_ B:105-124,152-158,161-167,172-179
1sst d1sstc_ C:101-120,148-154,157-163,168-175
1sst d1ssta_ A:101-120,148-154,157-163,168-175
1t3d d1t3dc_ C:105-124,152-158,161-167,172-179
1ssm d1ssmc_ C:101-120,148-154,157-163,168-175
1ssm d1ssmf_ F:101-120,148-154,157-163,168-175
1ssm d1ssme_ E:101-120,148-154,157-163,168-175
1ssm d1ssmb_ B:101-120,148-154,157-163,168-175
1s80 d1s80c_ C:101-120,148-154,157-163,168-175
1ssm d1ssma_ A:101-120,148-154,157-163,168-175
1ssm d1ssmd_ D:101-120,143-149,157-163,163-169
1sst d1sstb_ B:101-120,148-154,157-163,168-175
1s80 d1s80b_ B:101-120,143-149,157-163,163-169
1t3d d1t3dc_ C:105-124,147-153,161-167,167-173
1s80 d1s80c_ C:101-120,143-149,157-163,163-169
1t3d d1t3db_ B:105-124,147-153,161-167,167-173
1t3d d1t3da_ A:105-124,147-153,161-167,167-173
1s80 d1s80f_ F:101-120,143-149,157-163,163-169
1s80 d1s80a_ A:101-120,143-149,157-163,163-169
1s80 d1s80d_ D:101-120,143-149,157-163,163-169
1ssm d1ssmc_ C:101-120,143-149,157-163,163-169
1s80 d1s80e_ E:101-120,143-149,157-163,163-169
1ssq d1ssqd_ D:101-120,143-149,157-163,163-169
1sst d1sstc_ C:101-120,143-149,157-163,163-169
1sst d1ssta_ A:101-120,143-149,157-163,163-169
1ssq d1ssqd_ D:101-120,148-154,157-163,168-175
1ssm d1ssmf_ F:101-120,143-149,157-163,163-169
1sst d1sstb_ B:101-120,143-149,157-163,163-169
1ssm d1ssma_ A:101-120,143-149,157-163,163-169
1ssm d1ssmb_ B:101-120,143-149,157-163,163-169
1ssq d1ssqa_ A:101-120,144-149,157-161,163-169
1ssm d1ssme_ E:101-120,143-149,157-163,163-169
1ssq d1ssqa_ A:101-120,148-154,157-161,168-175
1krr d1krrb_ B:21-39,66-71,75-81,86-91
1kqa d1kqab_ B:21-39,66-71,75-81,86-91
1kru d1kruc_ C:43-56,56-61,65-71,75-81
1krv d1krvb_ B:21-39,66-71,75-81,86-91
1krv d1krva_ A:21-39,66-71,75-81,86-91
1krr d1krrc_ C:21-39,66-71,75-81,86-92
1kqa d1kqac_ C:21-39,66-71,75-81,86-92
1krv d1krvc_ C:21-39,66-71,75-81,86-91
1krr d1krra_ A:21-39,66-71,75-81,86-92
1kqa d1kqaa_ A:21-39,66-71,75-81,86-92
1kru d1kruc_ C:21-39,65-71,75-81,86-92
1krv d1krva_ A:43-56,56-61,66-71,75-81
1kru d1krub_ B:21-39,66-71,75-81,86-92
1krv d1krvb_ B:43-56,56-61,66-71,75-81
1krv d1krvc_ C:43-56,56-61,66-71,75-81
1kru d1krua_ A:43-56,56-61,66-71,75-81
1kru d1krua_ A:21-39,66-71,75-81,86-92
1kru d1krub_ B:43-56,56-61,66-71,75-81
1kqa d1kqab_ B:43-56,56-61,66-71,75-81
1krr d1krrb_ B:43-56,56-61,66-71,75-81
1z90 d1z90a1 A:361-371,392-397,411-418,418-426
1tdt d1tdta_ A:94-102,102-108,114-120,119-125
1kgt d1kgta_ A:94-102,102-108,114-120,119-125
2tdt d2tdta_ A:94-102,102-108,114-120,119-125
1kgq d1kgqa_ A:94-102,102-108,114-120,119-125
3tdt d3tdta_ A:94-102,102-108,114-120,119-125
2icx d2icxb1 B:361-370,392-397,410-418,418-426
1tdt d1tdtb_ B:94-102,102-108,114-120,119-125
1tdt d1tdtc_ C:94-102,102-108,114-120,119-125
2icy d2icyb1 B:361-371,392-397,410-418,418-426
2icy d2icya1 A:361-371,392-397,410-418,418-426
1z90 d1z90b1 B:361-371,392-397,410-416,420-426
2icx d2icxa1 A:361-371,392-397,410-416,420-426
2q4j d2q4jb1 B:402-411,420-426,427-433,438-444
3. c.68.1 Nucleotide-diphospho-sugar transferases
Nucleotide-diphospho-sugar transferases 3 layers: a/b/a; mixed beta-sheet of 7 strands, order 3214657; strand 6 is antiparallel to the rest
1hm0 d1hm0b2 B:228-251,251-256,265-271,270-277
1hm0 d1hm0a2 A:228-251,251-256,265-271,270-277
1hm9 d1hm9b2 B:228-251,251-256,266-271,270-277
1hm8 d1hm8a2 A:228-251,251-256,266-271,270-277
1hm8 d1hm8b2 B:228-251,251-256,266-271,270-277
1hm9 d1hm9a2 A:228-251,251-256,266-271,270-277
1g97 d1g97a2 A:228-251,251-256,266-271,270-277
1fwy d1fwya2 A:228-251,252-256,263-271,270-277
1g95 d1g95a2 A:228-251,251-256,266-271,270-277
2oi7 d2oi7b2 B:228-251,252-256,263-271,270-277
1fwy d1fwyb2 B:228-251,252-256,263-271,270-277
1fxj d1fxjb2 B:228-251,252-256,263-271,270-277
1fxj d1fxja2 A:228-251,252-256,263-271,270-277
1jvd d1jvdb_ B:417-437,437-443,480-484,500-504
1jv3 d1jv3b_ B:417-437,437-443,462-467,483-487
1jvg d1jvgb_ B:417-437,437-443,479-484,500-504
1vm8 d1vm8a_ A:417-437,437-442,480-484,500-504
1vm8 d1vm8b_ B:417-437,437-443,480-484,500-504
1hm9 d1hm9a2 A:228-251,270-277,283-289,288-294
1hm9 d1hm9b2 B:228-251,270-277,283-289,288-294
1g95 d1g95a2 A:228-251,270-277,283-289,288-294
1hm8 d1hm8a2 A:228-251,270-277,283-289,288-294
1hm8 d1hm8b2 B:228-251,270-277,283-289,288-294
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
1eg7 d1eg7a_ A:1446-1460,1462-1467,1486-1491,1509-1514
1fp7 d1fp7a_ A:1446-1460,1462-1467,1486-1491,1509-1514
1fpm d1fpma_ A:446-460,462-467,486-491,509-514
1eg7 d1eg7b_ B:1446-1460,1463-1467,1486-1491,1510-1514
1fpm d1fpmb_ B:446-460,463-467,486-491,510-514
5. d.11.1 Penicillin-binding protein 2x (pbp-2x), c-terminal domain duplication: consists of 2 subdomains of this fold !
Penicillin-binding protein 2x (pbp-2x), c-terminal domain alpha1-beta3; 2 layers: alpha/beta; order 132
2zc4 d2zc4c1 C:645-657,657-664,676-680,683-691
2z2l d2z2lc1 C:645-657,657-664,676-680,683-691
1rp5 d1rp5b1 B:645-657,657-664,676-680,683-691
2zc3 d2zc3c1 C:645-657,657-664,676-680,683-691
6. 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
1bxd d1bxda_ A:300-314,318-324,329-333,355-364
2c2a d2c2aa2 A:328-341,349-356,362-366,392-402
1y8o d1y8oa2 A:192-213,217-225,233-237,269-277
1y8n d1y8na2 A:192-213,217-225,233-237,269-277
1y8p d1y8pa2 A:192-213,217-225,233-237,269-277
2q8i d2q8ia2 A:192-213,217-225,233-237,269-277
2pnr d2pnrb2 B:192-213,216-225,233-237,268-277
2pnr d2pnre2 E:192-213,216-225,233-237,268-277
2pnr d2pnrf2 F:192-213,216-225,233-237,268-277
2pnr d2pnra2 A:192-213,216-225,233-237,268-277
1jm6 d1jm6b2 B:1188-1209,1212-1221,1229-1233,1263-1272
1jm6 d1jm6a2 A:1188-1209,1212-1221,1229-1233,1263-1272
7. c.3.1 FAD/NAD(P)-binding domain
FAD/NAD(P)-binding domain core: 3 layers, b/b/a; central parallel beta-sheet of 5 strands, order 32145; top antiparallel beta-sheet of 3 strands, meander
2gv8 d2gv8b2 B:184-195,197-201,261-266,282-287
2gv8 d2gv8a2 A:184-195,197-201,261-266,282-287
1vqw d1vqwa2 A:186-195,197-201,259-266,282-287
1vqw d1vqwb2 B:186-195,197-201,261-266,282-287
2gvc d2gvce2 E:186-195,197-201,261-266,282-287
2gvc d2gvca2 A:186-195,197-201,261-266,282-287
2gvc d2gvcd2 D:186-195,197-201,261-266,282-287
2gvc d2gvcb2 B:186-195,197-201,261-266,282-287
8. b.126.1 Adsorption protein p2
Adsorption protein p2 multisheet protein containing partial beta-propeller and beta-sandwich regions
1n7u d1n7ua_ A:37-44,43-48,49-58,354-362
List of motif hits that are not present in SCOP but are found in PDB for pattern ID: 166 (enumeration index: query27) of S4
2kui A:504-516,519-526,543-547,550-558
2kui A:436-448,451-458,475-480,483-490
3gvd F:105-124,147-153,161-167,167-173
3gvd H:105-124,147-153,161-167,167-173
3gvd E:105-124,147-153,161-167,167-173
3gvd F:105-124,152-158,161-167,172-179
3gvd B:105-124,152-158,161-167,172-179
3gvd G:105-124,152-158,161-167,172-179
3gvd D:105-124,152-158,161-167,172-179
3gvd D:105-124,147-153,161-167,167-173
3gvd G:105-124,147-153,161-167,167-173
3gvd C:105-124,147-153,161-167,167-173
3gvd L:105-124,147-153,161-167,167-173
3gvd A:105-124,152-158,161-167,172-179
3gvd A:105-124,147-153,161-167,167-173
3gvd I:105-124,152-158,161-167,172-179
3gvd E:105-124,152-158,161-167,172-179
3gvd I:105-124,147-153,161-167,167-173
3gvd J:105-124,147-153,161-167,167-173
3gvd J:105-124,152-158,161-167,172-179
3gvd K:105-124,147-153,161-167,167-173
3gvd K:105-124,152-158,161-167,172-179
3gvd B:105-124,147-153,161-167,167-173
3gvd C:105-124,152-158,161-167,172-179
3gvd H:105-124,152-158,161-167,172-179
3gvd L:105-124,152-158,161-167,172-179
2q8h A:224-245,248-257,265-269,299-308
3d8v A:240-263,282-289,294-301,300-307
3d8v A:240-263,263-268,277-283,282-289
2vd4 A:228-251,252-256,263-271,270-277
2w5t A:272-281,289-293,506-513,521-526
2q8f A:224-245,248-257,265-269,299-308
3p47 A:127-146,169-175,183-189,189-195
3p47 A:127-146,174-180,183-189,194-201
3s61 B:175-182,186-190,316-326,347-352
3s61 A:175-182,186-190,316-326,347-352
3a0x A:610-623,630-638,643-647,669-680
2v0k A:228-251,252-256,263-271,270-277
3gue A:418-427,435-443,444-450,455-462
3gue A:376-386,407-412,431-435,435-443
3gue B:376-386,407-412,431-435,435-443
3gue B:418-427,435-443,444-450,455-461
3d2r A:199-220,224-233,240-244,275-284
3d2r B:199-220,224-232,240-244,275-283
3oh3 A:509-518,528-535,536-541,546-552
3srt B:41-54,54-58,64-69,73-79
3srt B:17-37,64-69,73-79,84-90
3srt A:17-37,64-69,73-79,84-90
3srt A:41-54,54-58,64-69,73-79
3hjj B:43-55,55-59,66-71,75-81
3hjj C:43-55,55-59,66-71,74-81
3hjj A:18-42,66-71,74-81,86-92
3hjj C:18-42,66-71,74-81,86-92
3hjj A:43-55,55-59,66-71,74-81
3s5w A:175-182,186-190,316-326,347-352
3s5w B:175-182,186-190,316-326,347-352
3bxy A:94-102,102-108,114-120,119-125
3a0z A:610-623,630-638,643-647,669-680
3a0z B:610-623,630-638,643-647,669-680
2e0a B:199-220,224-233,240-244,275-284
2e0a A:199-220,224-233,240-244,275-284
3q1x A:127-146,169-175,183-189,189-195
3q1x A:127-146,174-180,183-189,194-201
3f1x A:154-173,201-207,210-216,221-228
3f1x A:154-173,196-202,210-216,216-222
3nz2 H:19-39,64-69,72-79,84-90
3nz2 G:19-39,64-69,73-79,84-90
3nz2 I:19-39,64-69,73-79,84-90
3nz2 C:19-39,64-69,73-79,84-90
3nz2 A:41-54,53-59,64-69,73-79
3nz2 J:19-39,64-69,73-79,84-90
3nz2 B:19-39,64-69,73-79,84-90
3nz2 A:19-39,64-69,73-79,84-90
3nz2 B:41-54,54-59,64-69,73-79
3nz2 E:41-54,54-59,64-69,73-79
3nz2 I:41-54,53-59,64-69,73-79
3nz2 F:19-39,64-69,73-79,84-90
3nz2 L:19-39,64-69,73-79,84-90
3nz2 K:19-39,64-69,73-79,84-90
3nz2 L:41-54,53-59,64-69,73-79
3nz2 G:41-54,53-59,64-69,73-79
3nz2 E:19-39,64-69,73-79,84-90
3nz2 H:41-54,54-59,64-69,72-79
3nz2 F:41-54,54-59,64-69,73-79
3nz2 D:19-39,64-69,73-79,84-90
3nz2 K:41-54,53-59,64-69,73-79
3eg4 A:101-109,109-115,121-127,127-132
2zdy B:199-220,224-232,240-244,275-284
2zdy A:199-220,224-233,240-244,275-284
3a0y A:610-623,630-638,643-647,669-679
3a0y B:610-623,630-638,643-647,669-679
2bu5 A:188-209,212-221,229-233,263-272
2ic7 C:18-38,65-70,74-80,85-91
2ic7 B:42-55,55-59,65-70,74-80
2ic7 C:42-55,55-59,65-70,74-80
2ic7 B:18-38,65-70,74-80,85-91
2ic7 A:18-38,65-70,74-80,85-91
2ic7 A:42-55,55-59,65-70,74-80
2oef A:423-432,440-448,449-455,460-466
2oef A:381-391,412-417,436-440,440-448
3ih5 B:15-33,90-96,120-131,162-168
3ih5 C:15-33,90-96,120-131,162-168
3ih5 A:15-33,90-96,120-131,162-168
3ih5 D:15-33,90-96,120-130,162-168
3gos C:94-102,102-108,114-120,119-125
3gos A:94-102,102-108,114-120,119-125
3gos C:24-41,108-113,114-120,124-131
3gos B:94-102,102-108,114-120,120-125
2w5q A:272-281,289-293,507-513,521-526
3uk1 B:135-158,393-400,423-428,428-433
3uk1 A:135-158,393-400,423-428,428-433
3dj4 A:240-263,282-289,295-301,300-307
3dj4 A:240-263,263-268,277-283,282-289
3oh2 A:509-518,528-535,536-541,546-552
3dge A:328-341,349-356,362-366,392-402
3oh1 A:509-518,528-535,536-541,546-552
2bu7 A:188-209,212-221,229-233,263-272
2qkx A:240-263,282-289,295-301,300-307
2qkx A:240-263,263-268,277-283,282-289
3fet D:9-21,68-74,99-104,127-132
3fet A:9-21,68-74,97-104,127-132
2q8g A:224-245,249-258,265-269,300-309
3oh4 A:509-518,528-535,536-541,546-552
3ogz A:509-518,528-535,536-541,546-552
2w0v A:228-251,252-256,263-271,270-277
2btz A:188-209,212-221,229-233,263-272
2zdx A:199-219,224-232,240-244,275-283
2zdx B:199-219,224-233,240-244,275-284
2v0l A:228-251,252-256,263-271,270-277
2oeg A:381-391,412-417,436-440,440-448
2oeg A:423-432,440-448,449-455,460-466
3crl B:196-217,221-229,237-241,272-280
3crl A:196-217,221-229,237-241,272-280
3crk B:196-217,221-229,237-241,272-280
3crk A:196-217,221-229,237-241,272-280
2v0h A:228-251,252-256,263-271,270-277
3mc4 B:107-126,150-155,163-167,169-175
3mc4 A:107-126,154-160,163-169,174-181
3mc4 A:107-126,149-155,163-169,169-175
3mc4 B:107-126,154-160,163-167,174-181
2bu8 A:188-209,213-221,229-233,264-272
2v0i A:228-251,252-256,263-271,270-277
2p2o D:18-38,65-70,74-80,85-91
2p2o F:18-38,65-70,74-80,85-91
2p2o C:18-38,65-70,74-80,85-91
2p2o B:42-55,55-59,65-70,74-80
2p2o C:42-55,55-59,65-70,74-80
2p2o B:18-38,65-70,74-80,85-91
2p2o A:18-38,65-70,74-80,85-91
2p2o A:42-55,55-59,65-70,74-80
2p2o D:42-55,55-59,65-70,74-80
2p2o E:18-38,65-70,74-80,85-91
2p2o E:42-55,54-59,65-70,74-80
2p2o F:42-55,55-59,65-70,74-80
3do6 B:429-443,445-450,469-474,490-497
3do6 A:429-443,445-450,469-474,490-497
2w0w A:228-251,252-256,263-271,270-277
3tk8 B:133-141,141-147,153-159,158-164
3tk8 A:133-141,141-147,153-159,158-164
3tk8 C:133-141,141-147,153-159,158-164
3dk5 A:240-263,263-268,277-283,282-289
3dk5 A:240-263,282-289,295-301,300-307
3a0r A:610-623,630-638,643-647,669-680
3igj A:43-55,55-59,66-71,75-81
3igj C:43-55,55-59,66-71,75-81
3igj B:43-55,55-59,66-71,74-81
3oc9 A:342-362,362-367,372-376,391-396
3a0t A:610-623,630-638,643-647,669-679
3p1b A:127-146,174-180,183-189,194-201
3p1b A:127-146,169-175,183-189,189-195
2v0j A:228-251,252-256,263-271,270-277
3foq A:240-263,263-268,277-283,282-289
3a0w A:610-623,630-638,643-647,669-680
3a0w B:610-623,630-638,643-647,669-679
2bu2 A:188-209,213-221,229-233,264-272
3oh0 A:509-518,528-535,536-541,546-552
3ftt A:18-38,65-70,74-80,85-91
3d98 A:240-263,263-268,277-283,282-289
3d98 A:240-263,282-289,294-301,300-307
2zkj B:199-220,224-233,240-244,275-284
2zkj A:199-220,224-233,240-244,275-284
2bu6 A:188-209,213-221,229-233,264-272