1. c.124.1 NagB/RpiA/CoA transferase-like
NagB/RpiA/CoA transferase-like core: 3 layers: a/b/a; parallel or mixed beta-sheet of 6 strands, order 321456
1t9k d1t9kc_ C:28-33,34-45,49-68,72-89,91-109
1t9k d1t9kd_ D:28-33,34-45,49-68,72-89,91-109
1t9k d1t9ka_ A:28-33,34-45,49-68,72-89,91-109
1t9k d1t9kb_ B:28-33,34-45,49-68,72-89,91-109
2a0u d2a0ub1 B:41-45,47-58,62-85,89-109,111-128
2a0u d2a0ua1 A:41-45,47-58,62-85,89-109,111-129
1w2w d1w2w.1 A:31-35,37-48,52-75,87-107,109-126
1w2w d1w2w.4 M:31-35,37-48,52-75,87-107,109-126
1w2w d1w2w.3 I:31-35,37-48,52-75,87-107,109-126
1w2w d1w2w.2 E:31-35,37-48,52-75,87-107,109-126
1t5o d1t5oc_ C:5-9,31-42,46-66,69-89,91-109
1t5o d1t5ob_ B:5-9,31-42,46-66,69-89,91-109
1t5o d1t5oc_ C:25-29,31-42,46-66,69-89,91-109
1t5o d1t5oa_ A:5-9,31-42,46-66,69-89,91-109
1t5o d1t5ob_ B:25-29,31-42,46-66,69-89,91-109
1t5o d1t5od_ D:5-9,31-42,46-66,69-89,91-109
1t5o d1t5oa_ A:25-29,31-42,46-66,69-89,91-109
1t5o d1t5od_ D:25-29,31-42,46-66,69-89,91-109
2. c.45.1 (Phosphotyrosine protein) phosphatases II share with the family I the common active site structure with a circularly permuted topology !
(Phosphotyrosine protein) phosphatases II core: 3 layers, a/b/a; parallel beta-sheet of 4 strands, order 1423
1zvr d1zvra2 A:277-286,422-437,441-456,478-495,501-515
1zsq d1zsqa2 A:277-286,422-437,441-456,478-495,501-515
1lw3 d1lw3a2 A:278-286,422-437,441-456,478-495,501-515
1m7r d1m7rb2 B:277-286,422-437,441-456,478-495,501-515
1m7r d1m7ra2 A:277-286,422-437,441-456,478-495,501-515
3. a.102.1 Six-hairpin glycosidases
alpha/alpha toroid multihelical; up to seven alpha-hairpins are arranged in closed circular array; there may be sequence similarities between different superfamilies
1l1y d1l1yd_ D:63-67,85-104,105-122,253-275,276-299
1l2a d1l2ac_ C:63-67,85-104,105-122,253-275,276-299
1ut9 d1ut9a1 A:609-613,635-661,679-699,700-716,797-816
1l1y d1l1yc_ C:63-67,85-104,105-122,253-275,276-299
1l1y d1l1ya_ A:63-67,85-104,105-122,253-275,276-299
1rq5 d1rq5a1 A:609-613,635-661,679-699,700-716,797-815
2a8z d2a8za1 A:61-65,76-91,92-108,142-161,167-184
2fuz d2fuza1 A:23-28,41-59,60-81,86-105,106-124
2d5j d2d5ja1 A:23-28,41-59,60-81,86-105,106-124
1l2a d1l2ae_ E:63-67,85-104,105-122,253-275,280-299
1l2a d1l2af_ F:63-67,85-104,105-122,253-275,280-299
1l2a d1l2ad_ D:63-67,85-104,105-122,253-275,280-299
1l2a d1l2aa_ A:63-67,85-104,105-122,253-275,280-299
1l2a d1l2ab_ B:63-67,85-104,105-122,253-275,280-299
1l1y d1l1yb_ B:63-67,85-104,105-122,253-275,280-299
1l1y d1l1ye_ E:63-67,85-104,105-122,253-275,280-299
1l1y d1l1yf_ F:63-67,85-104,105-122,253-275,280-299
1vd5 d1vd5a_ A:23-28,41-59,60-81,86-97,106-124
1wu6 d1wu6a1 A:55-60,68-83,84-100,126-145,153-168
1wu4 d1wu4a1 A:55-60,68-83,84-100,126-145,153-168
1wu5 d1wu5a1 A:55-60,68-83,84-100,126-145,153-168
2a8z d2a8za1 A:119-125,142-161,167-184,205-217,218-244
1xwq d1xwqa1 A:119-125,142-161,167-184,205-217,218-244
1h13 d1h13a_ A:119-125,142-161,167-184,205-217,218-244
1xw2 d1xw2a1 A:119-125,142-161,167-184,205-217,218-244
1xwt d1xwta1 A:119-125,142-161,167-184,205-217,218-244
2b4f d2b4fa1 A:119-125,142-161,167-184,205-216,218-244
1h14 d1h14a_ A:119-125,142-161,167-184,205-216,218-244
1h12 d1h12a_ A:119-125,142-161,167-184,205-216,218-244
2d5j d2d5jb1 B:23-28,41-59,60-81,86-105,106-125
1l1y d1l1yb_ B:58-62,85-104,105-122,253-275,280-299
1is9 d1is9a_ A:164-168,185-197,198-220,244-262,263-281
1kwf d1kwfa_ A:196-200,217-229,230-252,276-294,295-313
1l1y d1l1ye_ E:58-62,85-104,105-122,253-275,280-299
1cem d1cema_ A:196-200,217-229,230-252,276-294,295-313
1ayx d1ayxa_ A:49-53,67-86,88-109,143-166,181-203
1clc d1clca1 A:289-295,295-314,317-339,358-375,376-391
1vd5 d1vd5a_ A:34-38,41-59,60-81,86-97,106-124
2p0v d2p0vb1 B:95-100,107-122,125-147,178-197,203-222
2p0v d2p0va1 A:95-100,107-122,125-147,178-197,203-222
2nvp d2nvpa1 A:49-55,62-77,80-102,133-152,158-178
1v7w d1v7wa1 A:551-560,576-587,590-606,642-657,658-670
1v7v d1v7va1 A:551-560,576-587,590-606,642-657,658-670
1v7x d1v7xa1 A:551-560,576-587,590-606,642-657,658-670
4. e.13.1 DNA primase core
DNA primase core 2 domains: (1) alpha+beta; (2) toprim alpha/beta
1eqn d1eqnd_ D:302-309,311-326,367-377,384-403,404-420
1dde d1ddea_ A:302-310,311-329,367-381,384-403,404-420
1eqn d1eqnb_ B:302-309,311-326,367-381,384-403,404-420
5. a.117.1 Ras GEF
Ras GEF multihelical
1nvv d1nvvs_ S:600-605,605-615,620-636,636-650,671-701
1xd4 d1xd4b2 B:600-605,605-615,620-636,636-650,671-701
1xd2 d1xd2c_ C:600-605,605-615,620-636,636-650,671-701
6. c.30.1 PreATP-grasp domain precedes the ATP-grasp domain common to all superfamily members, can contain a substrate-binding function !
PreATP-grasp domain 3 layers: a/b/a; parallel or mixed beta-sheet of 4 to 6 strands ! possible rudiment form of Rossmann-fold domain
2r7n d2r7na1 A:42-48,75-86,92-100,100-109,115-125
7. c.87.1 UDP-Glycosyltransferase/glycogen phosphorylase
UDP-Glycosyltransferase/glycogen phosphorylase consists of two non-similar domains with 3 layers (a/b/a) each ! domain 1: parallel beta-sheet of 7 strands, order 3214567 ! domain 2: parallel beta-sheet of 6 strands, order 321456
1ahp d1ahpb_ B:300-307,307-326,328-339,356-365,364-387
1ahp d1ahpa_ A:300-307,307-326,328-339,356-365,364-387
1e4o d1e4oa_ A:300-307,307-326,328-339,356-365,364-387
1e4o d1e4ob_ B:300-307,307-326,328-339,356-365,364-387
2asv d2asvb1 B:300-307,307-326,328-339,356-365,364-387
1l5w d1l5wb_ B:300-307,307-326,328-339,356-365,364-387
1l5v d1l5vb_ B:300-307,307-326,328-339,356-365,364-387
2av6 d2av6b1 B:300-307,307-326,328-339,356-365,364-387
1l5v d1l5va_ A:300-307,307-326,328-339,356-365,364-387
1l6i d1l6ia_ A:300-307,307-326,328-339,356-365,364-387
1l6i d1l6ib_ B:300-307,307-326,328-339,356-365,364-387
8. c.26.1 Nucleotidylyl transferase
Adenine nucleotide alpha hydrolase-like core: 3 layers, a/b/a ; parallel beta-sheet of 5 strands, order 32145
1nuq d1nuqb_ B:4-14,92-106,135-144,149-160,171-180
1nuu d1nuub_ B:4-14,92-106,135-144,149-160,171-180
1nuq d1nuqa_ A:4-14,92-105,135-144,149-160,171-180
1nus d1nusb_ B:4-14,92-106,135-144,149-160,171-180
1nuu d1nuua_ A:4-14,92-105,135-144,149-160,171-180
1nup d1nupa_ A:4-14,92-105,135-144,149-160,171-180
1nur d1nura_ A:4-14,92-105,135-145,149-160,171-180
List of motif hits that are not present in SCOP but are found in PDB for pattern ID: 882 (enumeration index: query1424.1865) of S5
3qde B:581-585,600-615,651-666,667-679,718-733
3qde A:581-585,601-615,651-666,667-679,718-733
2jjb A:264-268,334-356,357-380,402-412,415-431
2jjb B:264-268,334-356,357-380,402-412,415-431
1z1w A:472-477,489-500,504-522,525-539,541-559
1z1w A:484-489,489-500,504-522,525-539,541-559
2q2e A:248-253,256-268,291-299,306-320,324-338
3qxq A:160-164,184-195,195-214,240-255,258-269
3qry A:47-53,60-72,78-100,132-151,157-177
3qry B:47-52,60-72,78-100,132-151,157-177
3cf6 E:480-486,486-498,501-524,524-538,544-571
3p2c B:98-106,113-128,131-153,185-204,210-229
3p2c A:98-106,113-128,131-153,185-204,210-229
2ahg A:23-28,41-59,60-81,86-105,106-124
2ahg B:23-28,41-59,60-81,86-105,106-124
2cqt B:588-592,614-628,664-679,680-692,731-746
2cqt A:588-592,614-628,664-679,680-692,731-746
2vn7 A:33-37,51-70,71-91,124-146,155-173
3mdj C:608-613,615-628,632-650,653-667,669-691
3mdj B:608-613,615-628,632-650,653-667,669-691
3mdj A:608-613,615-628,632-650,653-667,669-691
2wwy B:316-322,394-406,419-431,433-449,538-553
2wwy A:316-322,394-406,419-431,433-449,538-553
3ehr B:35-42,75-84,85-96,108-117,118-129
3ehr A:35-42,75-84,85-96,108-117,118-129
2drr A:55-60,68-83,84-100,126-145,153-168
2dro A:55-60,68-83,84-100,126-145,153-168
1z5h B:472-477,489-500,504-522,525-539,541-560
1z5h A:472-477,489-500,504-522,525-539,541-560
1z5h A:484-488,489-500,504-522,525-539,541-560
1z5h B:484-488,489-500,504-522,525-539,541-560
3on6 A:95-100,107-122,125-147,178-197,203-222
3on6 B:95-100,107-122,125-147,178-197,203-222
3a3v A:55-60,68-83,84-100,126-145,153-168
3ehq B:35-44,75-84,85-96,108-117,118-129
3qfy B:588-592,614-628,664-679,680-692,731-746
3b39 A:302-310,311-326,367-381,384-403,404-420
2wyn C:264-268,334-356,357-380,402-412,415-431
2wyn A:264-268,334-356,357-380,402-412,415-431
2drs A:55-60,68-83,84-100,126-145,153-168
3qfz A:588-592,614-628,664-679,680-692,731-746
2yf0 A:196-204,341-356,360-375,395-412,418-432
2dfj A:30-39,44-56,64-76,94-105,128-146
3qg0 B:588-592,614-628,664-679,680-692,731-746
3qg0 A:588-592,614-628,664-679,680-692,731-746
3i3n A:164-170,169-184,185-200,204-216,217-232
3i3n B:164-170,169-184,185-200,204-216,217-232
3nnb A:166-170,179-200,227-236,238-256,257-273
3qsp B:47-53,60-72,78-100,132-151,157-177
3qsp A:47-53,60-72,78-100,132-151,157-177
3qt3 A:49-55,62-77,80-102,133-152,158-178
3h7l C:337-342,363-378,380-406,442-460,462-482
3h7l A:337-342,363-379,380-406,442-457,462-482
3h7l B:337-342,363-379,380-406,442-460,462-482
2fv0 B:23-28,41-59,60-81,86-105,106-124
2fv0 A:23-28,41-59,60-81,86-105,106-124
2fv0 A:34-38,41-59,60-81,86-105,106-124
3acs A:588-592,614-628,664-679,680-692,731-746
3acs B:588-592,614-628,664-679,680-692,731-746
2v1x A:316-322,394-406,419-431,435-449,538-553
2yd0 A:608-613,612-628,632-650,653-667,669-691
3qnf B:608-613,612-628,632-650,653-667,669-691
3qnf C:608-613,612-628,632-650,653-667,669-691
3qnf A:608-613,612-628,632-650,653-667,669-691
3qt9 A:49-55,62-77,80-102,133-152,158-178
2ahf A:23-28,41-59,60-81,86-105,106-124
2ahf B:23-28,41-59,60-81,86-105,106-124
3etu A:137-142,206-217,245-264,276-292,301-322
3etu A:137-142,206-217,245-264,265-277,301-322
2yrf B:31-36,37-48,52-71,75-95,97-114
2yrf A:31-36,37-48,52-72,75-95,97-114
2byv E:479-486,486-498,504-524,524-538,544-571
2fv1 A:23-28,41-59,60-81,86-105,106-124
2fv1 B:23-28,41-59,60-81,86-105,106-124
3pvm A:1064-1068,1075-1094,1096-1112,1132-1156,1161-1182
3pvm C:1064-1068,1075-1094,1096-1112,1132-1156,1161-1182
3qpf A:47-52,60-72,78-100,132-151,157-177
3qpf B:47-52,60-72,78-100,132-151,157-177
3p8c B:725-729,735-757,783-803,832-844,844-874
3prx A:1064-1068,1075-1094,1096-1112,1132-1156,1161-1182
3prx C:1064-1068,1075-1090,1096-1112,1132-1156,1161-1182
2qyu A:328-335,355-363,367-386,395-406,411-434
2cqs B:588-592,614-628,664-679,680-692,731-746
2cqs A:588-592,614-628,664-679,680-692,731-746
3jux A:303-307,325-346,694-706,742-781,785-816
3etv A:149-154,218-229,257-276,288-304,313-334
3etv A:149-154,218-229,257-276,277-289,313-334
2drq A:55-60,68-83,84-100,126-145,153-168
3q7j B:472-477,489-500,504-522,525-539,541-560
3q7j B:484-488,489-500,504-522,525-539,541-560
3q7j A:472-477,489-500,504-522,525-539,541-559
3q7j A:484-488,489-500,504-522,525-539,541-559
2ipc A:269-275,297-315,810-823,862-899,905-936
2ipc B:269-275,297-315,810-823,862-899,905-936
2ipc C:269-275,297-315,810-823,862-899,905-936
2yvk C:31-36,37-48,52-72,75-95,97-114
2yvk B:31-36,37-48,52-72,75-95,97-114
2yvk A:10-15,37-48,52-72,75-95,97-114
2yvk A:31-36,37-48,52-72,75-95,97-114
2yvk D:31-36,37-48,52-72,75-95,97-114