1. d.153.1 N-terminal nucleophile aminohydrolases (Ntn hydrolases) N-terminal residue provides two catalytic groups, nucleophile and proton donor !
Ntn hydrolase-like 4 layers: alpha/beta/beta/alpha; has an unusual sheet-to-sheet packing
1ct9 d1ct9b2 B:12-28,145-151,153-159,160-168,507-515
1ct9 d1ct9d2 D:12-28,145-151,153-159,160-168,507-515
1ct9 d1ct9c2 C:12-28,145-151,153-159,160-168,507-515
1ct9 d1ct9a2 A:12-28,145-151,153-159,160-168,507-515
2. d.129.3 Bet v1-like contains a single copy of this fold with a alpha-beta2 insertion after the first helix; there is a cavity between the beta-sheet and the long C-terminal helix !
TBP-like beta-alpha-beta(4)-alpha
2b24 d2b24c2 C:170-182,239-246,248-255,269-281,281-291
2b24 d2b24e2 E:170-182,239-246,248-255,269-281,281-291
2b24 d2b24a2 A:170-182,239-246,248-255,269-281,281-291
2b1x d2b1xa2 A:170-183,239-246,248-255,269-281,281-291
2b1x d2b1xe2 E:170-183,239-246,248-255,269-281,281-291
2b1x d2b1xc2 C:170-183,239-246,248-255,269-281,281-291
3. d.255.1 Tombusvirus P19 core protein, VP19
Tombusvirus P19 core protein, VP19 beta(2)-alpha-beta(2)-alpha; 2 layers: alpha/beta; antiparallel sheet: order 2134
1rpu d1rpua_ A:9-21,58-66,67-75,91-103,129-147
1rpu d1rpub_ B:8-21,57-66,67-76,91-103,129-147
4. c.117.1 Amidase signature (AS) enzymes
Amidase signature (AS) enzymes possible duplication: the topologies of N- and C-terminal halves are similar; 3 layers: a/b/a; single mixed beta-sheet of 10 strands, order 213549A867 (A=10); strands from 5 to 9 are antiparallel to the rest
1m22 d1m22b_ B:148-158,236-243,259-266,267-279,506-522
1m22 d1m22a_ A:148-158,236-243,259-266,267-279,506-522
2gi3 d2gi3a1 A:92-102,175-180,198-205,206-218,445-460
1m21 d1m21b_ B:148-158,236-241,259-266,267-279,506-522
1m21 d1m21a_ A:148-158,236-241,259-266,267-279,506-522
5. c.94.1 Periplasmic binding protein-like II Similar in architecture to the superfamily I but partly differs in topology !
Periplasmic binding protein-like II consists of two similar intertwined domain with 3 layers (a/b/a) each: duplication ! mixed beta-sheet of 5 strands, order 21354; strand 5 is antiparallel to the rest
1a55 d1a55a_ A:12-28,68-79,251-262,266-284,297-311
2v3q d2v3qa1 A:8-17,81-93,295-306,329-338,343-357
2v3q d2v3qa1 A:8-17,81-93,295-306,309-325,343-357
1pc3 d1pc3b_ B:38-54,96-112,287-298,302-322,335-349
1pc3 d1pc3a_ A:38-54,96-113,287-298,302-322,335-349
6. 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
2ytz d2ytzb1 B:29-47,212-224,225-236,283-297,301-315
2ejt d2ejta1 A:29-47,212-224,225-236,283-298,301-315
2ytz d2ytza1 A:29-47,212-224,225-236,283-298,301-315
2eju d2ejua1 A:29-47,212-224,225-236,283-298,301-315
2dul d2dula1 A:29-47,212-224,225-236,283-298,301-315
1uir d1uira_ A:57-76,218-228,231-241,249-261,268-278
1uir d1uirb_ B:57-76,218-228,231-241,249-261,268-278
7. i.7.1 Reovirus components
Reovirus components
1ej6 d1ej6c_ C:58-72,219-226,230-237,528-548,896-912
List of motif hits that are not present in SCOP but are found in PDB for pattern ID: 1016 (enumeration index: query724) of S5
2gbx E:164-174,239-245,247-254,274-283,283-292
2gbx C:164-174,238-245,247-254,274-283,283-292
2dc0 B:1098-1108,1181-1186,1204-1211,1212-1225,1418-1434
2dc0 A:98-108,181-186,204-211,212-225,418-433
2gbw A:164-174,239-245,247-254,274-283,283-292
2gbw E:164-174,239-245,247-254,274-283,283-292
2gbw C:164-174,239-245,247-254,274-283,283-292
3axs A:29-51,207-218,219-229,286-301,304-321
2gga A:244-259,260-270,298-308,425-434,433-444
2gg4 A:244-259,260-270,298-308,425-434,433-444
2gg6 A:244-259,260-270,298-308,425-434,433-444
2pqc A:244-259,260-270,298-308,425-434,433-444
2pqd A:244-259,260-270,298-308,425-434,433-444
3anx B:57-76,218-228,231-241,249-261,268-278
3anx A:57-76,218-228,231-241,249-261,268-278
3h0r P:98-108,181-186,204-211,212-224,454-470
3h0r M:98-108,181-186,204-211,212-224,454-470
3h0r V:98-108,181-186,204-211,212-224,454-470
3h0r J:98-108,181-186,204-211,212-224,454-470
3kfu H:92-102,175-182,198-205,206-219,443-459
3kfu E:92-102,175-182,198-205,206-219,443-459
2ckf C:164-174,238-245,247-254,274-283,283-292
2ckf A:164-174,238-245,247-254,274-283,283-292
2ckf E:164-174,239-245,247-255,274-283,283-292
3axt A:29-51,207-218,219-229,286-301,304-321
2jg7 G:10-17,34-43,44-54,95-108,194-213
2jg7 B:7-17,34-43,44-54,95-108,194-213
2jg7 C:10-17,34-43,44-54,95-108,194-213
2jg7 D:7-17,34-43,44-54,95-108,194-213
2jg7 F:7-17,34-43,44-54,95-108,194-213
2jg7 E:10-17,34-43,44-54,95-108,194-213
2jg7 H:7-17,34-43,44-54,95-108,194-213
2jg7 A:10-17,34-43,44-54,95-108,194-213
2j6l D:12-19,35-45,46-57,97-110,196-215
2j6l H:12-19,35-45,46-57,97-110,196-215
2j6l G:12-19,35-45,46-57,97-110,196-215
2j6l F:12-19,35-45,46-57,97-110,196-215
2j6l C:12-19,35-45,46-57,97-110,196-215
2j6l B:12-19,35-45,46-57,97-110,196-215
2j6l E:12-19,35-45,46-57,97-110,196-215
2j6l A:9-19,35-45,46-57,97-110,196-215
3h0l M:98-108,181-186,204-211,212-224,454-470
3h0l G:98-108,181-186,204-211,212-224,454-470
2ggd A:244-259,260-270,298-308,425-434,433-444
3o4f E:57-76,214-222,230-238,246-258,265-275
3o4f H:57-76,214-222,230-238,246-258,265-275
3o4f C:57-76,214-222,230-238,246-258,265-275
3o4f D:57-76,214-222,230-238,246-258,265-275
3o4f G:57-76,214-222,230-238,246-258,265-275
3o4f F:57-76,214-222,230-238,246-258,265-275
3o4f A:57-76,214-222,230-238,246-258,265-275
3o4f B:57-76,214-222,230-238,246-258,265-275
3h0m G:98-108,181-186,204-211,212-224,454-470
3h0m M:98-108,181-186,204-211,212-224,454-470
3al0 A:92-102,175-180,198-205,206-218,445-461
2pqb A:244-259,260-270,298-308,425-434,433-444