1. d.143.1 SAICAR synthase-like shares functional and structural similarities with the ATP-grasp fold and protein kinase superfamilies !
SAICAR synthase-like consists of two alpha+beta subdomains
1bo1 d1bo1a_ A:91-99,113-125,153-164,182-192,193-203
1bo1 d1bo1b_ B:91-99,113-125,153-164,182-192,193-203
2. c.47.1 Thioredoxin-like
Thioredoxin fold core: 3 layers, a/b/a; mixed beta-sheet of 4 strands, order 4312; strand 3 is antiparallel to the rest
1xg8 d1xg8a_ A:-2-5,18-35,54-67,72-77,78-84
1wpi d1wpia1 A:12-21,24-38,65-75,105-114,115-121
1ttz d1ttza_ A:2-8,11-25,37-45,49-54,56-61
1wjk d1wjka_ A:17-23,27-41,56-64,68-73,75-80
1xpv d1xpva_ A:2-8,11-25,37-45,49-54,56-61
3. d.39.1 DLC
DLC core: beta-alpha(2)-beta-X-beta(2); 2 layers: alpha/beta; antiparallel beta-sheet: order 1342
1pwk d1pwka_ A:5-13,14-33,63-70,74-81,82-89
4. c.111.1 Activating enzymes of the ubiquitin-like proteins transfer adenylyl group to the C-terminal carboxyl group of the ubiquitin and MoaD/ThiS-related proteins ! the ATP nucleotide-binding site is similar to that of the NAD-binding Rossmann-folds !
Activating enzymes of the ubiquitin-like proteins 3 layers: a/b/a; mixed beta-sheet of 8 strands, order 32145678; strands 6 and 8 are antiparallel to the rest
1jwb d1jwbb_ B:157-165,172-181,193-214,221-229,230-238
1jw9 d1jw9b_ B:157-165,172-181,193-214,221-229,230-238
1tt5 d1tt5a_ A:158-166,475-486,490-511,518-525,526-533
1yov d1yova1 A:158-166,475-486,490-511,518-525,526-533
3dbl d3dbla1 A:158-166,475-486,490-511,518-525,526-533
3dbh d3dbhc1 C:158-166,475-486,490-511,518-525,526-533
3dbr d3dbra1 A:158-166,475-486,490-511,518-525,526-533
2nvu d2nvua1 A:158-166,475-486,490-511,518-525,526-533
5. e.44.1 2-methylcitrate dehydratase PrpD
2-methylcitrate dehydratase PrpD consists of an all-alpha and alpha+beta domains
1szq d1szqa_ A:316-325,325-334,388-397,403-412,414-424
6. d.104.1 Class II aaRS and biotin synthetases
Class II aaRS and biotin synthetases contains large mixed beta-sheet
1usy d1usya_ A:123-132,198-217,227-235,235-245,246-259
1usy d1usyb_ B:123-132,198-217,227-234,235-245,246-259
1usy d1usyc_ C:123-132,198-217,227-234,235-245,246-259
1usy d1usyd_ D:123-132,198-217,227-235,235-245,246-259
7. d.13.1 HIT-like
HIT-like alpha-beta(3)-alpha-beta(2); 3 layers: alpha/beta/alpha
2pof d2pofb1 B:123-130,147-158,183-191,209-218,220-229
2pof d2pofa1 A:123-130,147-158,183-191,209-218,220-229
8. d.58.32 FAD-linked oxidases, C-terminal domain duplication: contains two subdomains of this fold !
Ferredoxin-like alpha+beta sandwich with antiparallel beta-sheet; (beta-alpha-beta)x2
1w1s d1w1sa1 A:284-294,296-305,404-420,425-435,450-461
1w1o d1w1oa1 A:284-294,296-305,404-420,425-435,450-461
1w1r d1w1ra1 A:284-294,296-305,404-420,425-435,450-461
1w1q d1w1qa1 A:284-294,296-305,404-420,425-435,450-461
1i19 d1i19b1 B:308-316,385-408,440-466,472-481,510-520
1i19 d1i19a1 A:308-316,385-408,440-466,472-481,510-520
2i0k d2i0ka1 A:308-316,385-408,440-466,472-481,510-520
9. b.131.1 SPOC domain-like
SPOC domain-like barrel, closed; n=7, S=10; complex topology
1ow1 d1ow1a_ A:3517-3530,3530-3538,3556-3570,3572-3581,3656-3664
10. d.142.1 Glutathione synthetase ATP-binding domain-like
ATP-grasp Consists of two subdomains with different alpha+beta folds ! shares functional and structural similarities with the PIPK and protein kinase superfamilies
2nu7 d2nu7b2 B:103-114,132-141,170-192,192-205,212-219
2nu8 d2nu8b2 B:103-114,132-141,170-192,192-205,212-219
1jkj d1jkjb2 B:103-114,132-141,170-192,192-205,212-219
1jll d1jllb2 B:103-116,132-141,170-192,192-205,212-219
2nua d2nuab2 B:103-117,132-141,170-192,192-205,212-219
1m0t d1m0ta2 A:121-135,190-211,315-323,440-453,454-469
1m0t d1m0tb2 B:1121-1135,1190-1211,1315-1323,1438-1453,1454-1470
1m0w d1m0wb2 B:1121-1137,1190-1210,1315-1323,1438-1453,1454-1475
1m0w d1m0wa2 A:121-137,190-210,315-323,438-453,454-475
List of motif hits that are not present in SCOP but are found in PDB for pattern ID: 825 (enumeration index: query677.733.2224) of S5
3ktb A:3-10,23-40,58-69,73-79,80-86
3ktb D:3-10,23-40,58-69,73-79,80-86
3ktb C:3-10,23-40,58-69,73-79,80-86
2w03 A:208-215,218-228,308-330,340-350,365-371
2w03 B:209-215,218-228,308-330,340-348,365-371
3lwb A:235-246,272-280,291-310,313-323,324-333
2wyo D:112-126,201-223,354-363,492-507,518-534
2wyo C:112-126,201-223,354-363,489-507,518-534
3dcy A:0-11,32-47,222-229,232-246,250-260
2qpm A:284-294,296-305,406-422,425-435,450-461
3fjy B:188-197,215-233,318-326,334-346,347-358
3fjy A:188-196,215-233,318-326,335-346,347-358
2zr2 B:122-130,138-147,312-335,337-344,352-364
2zr2 A:122-130,135-147,312-335,337-344,352-363
2gk9 C:96-104,118-130,155-166,184-194,195-205
2gk9 D:96-104,118-130,155-166,184-194,195-205
2gk9 A:96-104,118-130,155-168,184-194,195-205
3bw7 A:284-294,296-305,404-422,425-435,450-461
3c7m A:19-26,29-52,141-162,164-169,171-175
3c7m B:19-26,29-52,153-162,164-169,171-175
3js8 A:252-260,311-334,366-392,397-407,436-446
3kjm A:285-294,296-305,404-420,425-435,450-461
3oa0 C:149-159,183-195,233-240,242-250,251-257
3oa0 B:149-159,183-195,233-240,242-250,251-257
3oa0 D:149-159,183-195,233-240,242-250,251-257
2ec4 A:56-63,67-80,116-127,132-141,142-152
3dq0 A:284-294,296-305,404-420,425-435,450-461
2gqr A:88-95,98-106,144-170,170-179,197-204
2dq0 B:122-130,138-147,312-335,337-344,352-363
2dq0 A:122-130,135-147,312-335,337-344,352-363
2qkn A:284-294,296-305,404-420,425-435,450-462
2zr3 B:122-130,138-147,312-335,337-344,352-363
2zr3 A:122-130,138-147,312-335,337-344,352-363
3l9u A:22-29,32-42,156-165,167-172,174-178
3l9u A:22-29,41-54,156-165,167-172,174-178
2x3k A:208-215,218-228,308-330,340-350,365-371
3c0p A:284-294,296-305,406-420,425-435,450-461
2rfl E:7-14,61-75,126-135,140-149,158-166
2rfl C:7-14,61-75,126-135,140-148,159-167
2rfl H:7-14,61-75,126-135,140-149,158-166
2rfl H:7-14,32-50,126-135,140-149,158-166
2rfl E:7-14,32-50,126-135,140-149,158-166
2rfl G:7-14,61-76,126-135,140-148,159-166
2rfl A:7-14,32-50,126-135,140-148,159-166
2rfl C:7-14,32-50,126-135,140-148,159-167
2rfl D:7-14,61-75,126-135,140-149,158-166
2rfl F:7-14,32-50,126-135,140-149,158-166
2rfl A:7-14,61-76,126-135,140-148,159-166
2rfl D:7-14,32-50,126-135,140-149,158-166
2rfl B:7-14,32-50,126-135,140-149,158-167
2rfl F:7-14,61-75,126-135,140-149,158-166
2rfl B:7-14,61-76,126-135,140-149,158-167
2rfl G:7-14,32-50,126-135,140-148,159-166
2fgx A:8-14,18-36,47-55,59-65,66-73
3dbr B:185-194,199-208,292-313,320-326,330-336
3dbh F:185-193,199-207,292-313,320-326,330-336