1. c.36.1 Thiamin diphosphate-binding fold (THDP-binding) there are two different functional modules of this fold: pyridine-binding (Pyr) and pyrophosphate-binding (PP) modules ! two Pyr and two PP modules assemble together in a conserved heterotetrameric core that binds two THDP coenzyme molecules ! Thiamin diphosphate-binding fold (THDP-binding) 3 layers: a/b/a; parallel beta-sheet of 6 strands, order 213465 1tkb d1tkba2 A:357-374,461-470,503-517,519-527 1tkc d1tkca2 A:357-374,461-470,503-517,519-527 1ay0 d1ay0a2 A:357-374,461-470,503-517,519-527 1trk d1trkb2 B:357-374,461-470,503-517,519-527 2r5n d2r5nb1 B:356-373,454-461,495-509,512-519 1itz d1itzc2 C:367-384,467-475,508-523,525-532 1itz d1itzb2 B:367-384,467-474,508-523,525-532 1itz d1itza2 A:367-384,467-474,508-523,525-532 1t9b d1t9bb3 B:472-488,569-577,621-635,637-645 1t9d d1t9dd3 D:472-488,569-577,621-635,637-645 1n0h d1n0ha3 A:472-488,569-577,621-635,637-645 1t9b d1t9ba3 A:472-488,569-577,621-635,637-645 1t9d d1t9dc3 C:472-488,569-577,621-635,637-645 2r8o d2r8oa1 A:356-373,453-461,495-509,511-519 1t9c d1t9cb3 B:472-488,569-577,621-635,637-645 1t9d d1t9da3 A:472-488,569-577,621-635,637-645 1t9c d1t9ca3 A:472-488,569-577,621-635,637-645 1t9d d1t9db3 B:472-488,569-577,621-635,637-645 1t9a d1t9ab3 B:472-488,569-577,621-635,637-645 1n0h d1n0hb3 B:472-488,569-577,621-635,637-645 1t9a d1t9aa3 A:472-488,569-577,621-635,637-645 1ovm d1ovmd2 D:6-19,93-102,144-160,160-168 1ovm d1ovmc2 C:6-19,93-102,144-160,160-168 1ovm d1ovmb2 B:6-19,93-102,144-160,160-168 1trk d1trka2 A:357-374,462-470,503-518,520-527 1ybh d1ybha3 A:463-476,557-565,617-632,633-641 1ovm d1ovma2 A:6-19,93-102,144-160,160-168 1yhy d1yhya3 A:463-476,557-565,617-632,633-641 1yhz d1yhza3 A:463-476,557-565,617-632,633-641 1z8n d1z8na3 A:463-476,557-565,617-632,633-641 1gpu d1gpub2 B:357-374,462-470,503-518,520-527 2uza d2uzab1 B:9-22,106-114,145-164,165-173 2c42 d2c42b1 B:9-22,106-114,145-164,165-173 1yi0 d1yi0a3 A:463-476,557-565,617-632,633-641 2c3y d2c3ya1 A:9-22,106-114,145-164,165-173 2c3p d2c3pb1 B:9-22,106-114,145-164,165-173 1yi1 d1yi1a3 A:463-476,557-565,617-632,633-641 2c3m d2c3mb1 B:9-22,106-114,145-164,165-173 1jsc d1jscb3 B:472-488,569-577,621-635,637-645 2c3y d2c3yb1 B:9-22,106-114,145-164,165-173 1tka d1tkaa2 A:357-374,462-470,503-518,520-527 1jsc d1jsca3 A:472-488,569-577,621-635,637-645 1kek d1kekb1 B:9-22,106-114,145-164,165-173 1kek d1keka1 A:9-22,106-114,145-164,165-173 2c3u d2c3ua1 A:9-22,106-114,145-164,165-173 2c42 d2c42a1 A:9-22,106-114,145-164,165-173 1pyd d1pyda2 A:5-18,93-101,141-160,160-168 2c3m d2c3ma1 A:9-22,106-114,145-164,165-173 2pda d2pdab1 B:9-22,106-114,145-164,165-173 2pda d2pdaa1 A:9-22,106-114,145-164,165-173 2c3p d2c3pa1 A:9-22,106-114,145-164,165-173 1b0p d1b0pb1 B:9-22,106-114,145-164,165-173 1b0p d1b0pa1 A:9-22,106-114,145-164,165-173 1gpu d1gpua2 A:357-374,461-469,503-518,519-527 2g25 d2g25b1 B:493-509,620-628,662-679,685-692 2uza d2uzaa1 A:9-22,106-114,145-164,165-173 2c3u d2c3ub1 B:9-22,106-114,145-164,165-173 1ngs d1ngsa2 A:357-374,461-470,503-518,519-527 2c3o d2c3ob1 B:9-22,106-114,145-164,165-173 1ngs d1ngsb2 B:357-374,461-470,503-518,519-527 1r9j d1r9jb1 B:351-368,451-460,493-508,509-517 2ez8 d2ez8b3 B:372-384,466-474,518-536,536-544 1tkc d1tkcb2 B:357-374,461-470,503-518,519-527 1ay0 d1ay0a1 A:37-48,179-187,223-238,241-248 2c3o d2c3oa1 A:9-22,106-114,145-164,165-173 1tka d1tkab2 B:357-374,461-470,503-518,519-527 1ay0 d1ay0b2 B:357-374,461-469,503-518,519-527 1r9j d1r9ja1 A:351-368,451-460,493-508,509-517 2g67 d2g67a2 A:113-125,252-260,365-379,383-390 2qtc d2qtca2 A:113-125,252-260,365-379,383-390 2g67 d2g67b2 B:113-125,252-260,365-379,383-390 2qtc d2qtcb2 B:113-125,252-260,365-379,383-390 1rp7 d1rp7a2 A:113-125,252-260,365-379,383-390 2g25 d2g25a2 A:113-125,252-260,365-379,383-390 2g25 d2g25a1 A:493-509,620-627,662-679,685-692 2g28 d2g28a2 A:113-125,252-260,365-379,383-390 1tkc d1tkcb1 B:37-48,179-187,223-238,241-248 1tkb d1tkbb2 B:357-374,461-469,503-518,519-527 2r8o d2r8oa2 A:33-45,177-185,220-235,238-245 2g67 d2g67a1 A:493-509,620-627,662-679,685-692 2r5n d2r5nb2 B:33-45,177-185,220-235,238-245 1tkb d1tkba1 A:37-48,179-187,223-238,241-248 2r8o d2r8ob2 B:33-45,177-185,220-235,238-245 1ngs d1ngsa1 A:37-48,179-187,223-238,241-248 1qgd d1qgdb2 B:33-45,177-185,220-235,238-245 2qta d2qtaa1 A:493-509,620-627,662-679,685-692 1itz d1itzb1 B:45-57,190-198,234-249,252-259 2r8p d2r8pb2 B:33-45,177-185,220-235,238-245 1tkb d1tkbb1 B:37-48,179-187,223-238,241-248 2r8p d2r8pa2 A:33-45,177-185,220-235,238-245 1ngs d1ngsb1 B:37-48,179-187,223-238,241-248 2bp7 d2bp7f1 F:7-24,114-121,152-167,168-175 2qtc d2qtca1 A:493-509,620-627,662-679,685-692 2r5n d2r5na2 A:33-45,177-185,220-235,238-245 2bp7 d2bp7d1 D:7-24,114-121,152-167,168-175 2iea d2ieaa1 A:493-509,620-627,662-679,685-692 2fwn d2fwna3 A:354-366,447-455,499-513,515-523 1itz d1itza1 A:45-57,190-198,234-249,252-259 1qgd d1qgda2 A:33-45,177-185,220-235,238-245 2g28 d2g28a1 A:493-509,620-627,662-679,685-692 1yno d1ynoa3 A:354-366,447-455,499-513,515-523 2fn3 d2fn3a3 A:354-366,447-455,499-513,515-523 2iea d2ieab1 B:493-509,620-627,662-679,685-692 1l8a d1l8aa2 A:493-509,620-627,662-679,685-692 1itz d1itzc1 C:45-57,190-198,234-249,252-259 2bp7 d2bp7b1 B:7-24,114-121,152-167,168-175 1rp7 d1rp7a1 A:493-509,620-627,662-679,685-692 1pi3 d1pi3a3 A:354-366,447-455,499-513,515-523 1qs0 d1qs0b1 B:7-24,114-121,152-167,168-175 1q6z d1q6za3 A:354-366,447-455,499-513,515-523 2ez9 d2ez9a3 A:372-384,466-474,519-536,536-544 1tkc d1tkca1 A:37-48,179-187,223-238,241-248 2g25 d2g25b2 B:113-125,252-260,365-379,383-390 1l8a d1l8ab2 B:493-509,620-627,662-679,685-692 1trk d1trka1 A:37-48,179-187,223-238,241-248 2ez4 d2ez4b3 B:372-384,466-474,519-536,536-544 2ezu d2ezub3 B:372-384,466-474,519-536,536-544 2ez9 d2ez9b3 B:372-384,466-474,519-536,536-544 2ez8 d2ez8a3 A:372-384,466-474,519-536,536-544 2ezt d2ezta3 A:372-384,466-474,519-536,536-544 1po7 d1po7a3 A:354-366,447-455,499-513,515-523 1pvd d1pvda2 A:5-18,94-103,141-160,161-169 1gpu d1gpua1 A:37-48,179-187,223-238,241-248 2bp7 d2bp7h1 H:7-24,114-121,152-167,168-175 1pox d1poxa3 A:372-384,466-474,519-536,536-544 2ezu d2ezua3 A:372-384,466-474,519-536,536-544 2ez4 d2ez4a3 A:372-384,466-474,519-536,536-544 1trk d1trkb1 B:37-48,179-187,223-238,241-248 1tka d1tkaa1 A:37-48,179-187,223-238,241-248 2ezt d2eztb3 B:372-384,466-474,519-536,536-544 2g28 d2g28b1 B:493-509,621-627,662-679,685-692 1gpu d1gpub1 B:37-48,179-187,223-238,241-248 2iea d2ieaa2 A:113-125,252-260,365-380,383-390 1pox d1poxb3 B:372-384,466-474,519-536,536-544 2qta d2qtab1 B:493-509,621-627,662-679,685-692 1zpd d1zpde2 E:4-17,92-101,140-159,159-168 1rp7 d1rp7b2 B:113-125,252-260,365-379,383-390 1tka d1tkab1 B:37-48,179-187,223-238,241-248 1pow d1powa3 A:372-384,466-474,519-536,536-544 1qgd d1qgda1 A:356-373,454-461,495-510,512-519 2g67 d2g67b1 B:493-509,620-627,662-679,685-692 1l8a d1l8aa1 A:113-125,252-260,365-380,383-390 1zpd d1zpda2 A:4-17,92-101,140-159,159-168 1umc d1umcd1 D:5-22,112-119,150-165,166-173 1mcz d1mczf3 F:354-366,447-455,499-513,515-523 1mcz d1mczk3 K:354-366,447-455,499-513,515-523 1pow d1powb3 B:372-384,466-474,519-536,536-544 2v3w d2v3wb3 B:354-366,447-455,499-513,515-523 1mcz d1mczg3 G:354-366,447-455,499-513,515-523 1mcz d1mczp3 P:354-366,447-455,499-513,515-523 1mcz d1mczi3 I:354-366,447-455,499-513,515-523 1mcz d1mczc3 C:354-366,447-455,499-513,515-523 1mcz d1mczh3 H:354-366,447-455,499-513,515-523 1mcz d1mczj3 J:354-366,447-455,499-513,515-523 1mcz d1mcza3 A:354-366,447-455,499-513,515-523 1mcz d1mczd3 D:354-366,447-455,499-513,515-523 1zpd d1zpdb2 B:4-17,92-101,140-159,159-168 1mcz d1mczb3 B:354-366,447-455,499-513,515-523 1mcz d1mczm3 M:354-366,447-455,499-513,515-523 1um9 d1um9b1 B:5-22,112-119,150-165,166-173 1mcz d1mczl3 L:354-366,447-455,499-513,515-523 1mcz d1mcze3 E:354-366,447-455,499-513,515-523 1mcz d1mczn3 N:354-366,447-455,499-513,515-523 1umc d1umcb1 B:5-22,112-119,150-165,166-173 1zpd d1zpdf2 F:4-17,92-101,140-159,159-168 1mcz d1mczo3 O:354-366,447-455,499-513,515-523 1umb d1umbb1 B:5-22,112-119,150-165,166-173 1ay0 d1ay0b1 B:37-48,179-187,223-238,241-248 1bfd d1bfda3 A:354-366,447-455,499-513,515-523 1umd d1umdb1 B:5-22,112-119,150-165,166-173 2v3w d2v3wd3 D:354-366,447-455,499-513,515-523 1umd d1umdd1 D:5-22,112-119,150-165,166-173 1pvd d1pvdb2 B:5-18,94-102,141-160,161-169 1umb d1umbd1 D:5-22,112-119,150-165,166-173 1um9 d1um9d1 D:5-22,112-119,150-165,166-173 1qgd d1qgdb1 B:356-373,454-461,495-510,512-519 2v3w d2v3wc3 C:354-366,447-455,499-513,515-523 2v3w d2v3wa3 A:354-366,447-455,499-513,515-523 2r5n d2r5na1 A:356-373,453-461,495-510,511-519 2r8p d2r8pb1 B:356-373,453-461,495-510,511-519 2r8o d2r8ob1 B:356-373,453-461,495-510,511-519 1yhz d1yhza2 A:98-111,188-195,227-244,247-255 1yi0 d1yi0a2 A:98-111,187-195,227-244,247-255 2bfc d2bfcb1 B:22-39,129-136,167-181,184-190 2bff d2bffb1 B:22-39,129-136,167-181,184-190 2bew d2bewb1 B:22-39,129-136,167-181,184-190 2bfd d2bfdb1 B:22-39,129-136,167-181,184-190 1v1m d1v1mb1 B:22-39,129-136,167-181,184-190 2r8p d2r8pa1 A:356-373,454-461,495-510,512-519 1v11 d1v11b1 B:22-39,129-136,167-181,184-190 1v16 d1v16b1 B:22-39,129-136,167-181,184-190 1v1r d1v1rb1 B:22-39,129-136,167-181,184-190 1olx d1olxb1 B:22-39,129-136,167-181,184-190 1x80 d1x80b1 B:22-39,129-136,167-181,184-190 1x7y d1x7yb1 B:22-39,129-136,167-181,184-190 1ozh d1ozhb3 B:372-385,466-474,517-532,533-542 2beu d2beub1 B:22-39,129-136,167-181,184-190 1x7z d1x7zb1 B:22-39,129-136,167-181,184-190 1yhy d1yhya2 A:98-111,187-195,227-244,247-255 1ozh d1ozhb2 B:12-25,99-108,140-157,160-168 1x7w d1x7wb1 B:22-39,129-136,167-181,184-190 1ols d1olsb1 B:22-39,129-136,167-181,184-190 1ozh d1ozhc3 C:372-385,466-474,517-532,533-542 1wci d1wcib1 B:22-39,129-136,167-181,184-190 1ozh d1ozhd3 D:372-385,466-474,517-532,533-542 1ozf d1ozfb3 B:372-385,466-474,517-532,533-542 1ozh d1ozhc2 C:12-25,99-108,140-157,160-168 1upc d1upcb2 B:13-26,99-108,141-159,161-169 2dji d2djia3 A:367-379,461-469,513-530,531-539 1olu d1olub1 B:22-39,129-136,167-181,184-190 2bev d2bevb1 B:22-39,129-136,167-181,184-190 2c31 d2c31a3 A:376-392,471-479,521-536,537-545 1dtw d1dtwb1 B:22-39,129-136,167-181,184-190 1ozf d1ozfb2 B:12-25,99-108,140-157,160-168 1upc d1upce2 E:13-26,99-108,141-159,161-169 2ji6 d2ji6a3 A:376-392,471-479,521-536,537-545 1u5b d1u5bb1 B:22-39,129-136,167-181,184-190 1v5e d1v5ea3 A:367-379,461-469,513-530,531-539 1ozg d1ozga2 A:12-25,99-108,140-157,160-168 2ozl d2ozlb1 B:4-21,111-118,149-164,165-171 1t9c d1t9cb2 B:93-106,181-190,222-239,242-250 1t9b d1t9ba2 A:93-106,181-190,222-239,242-250 1t9d d1t9dc2 C:93-106,181-190,222-239,242-250 1ni4 d1ni4b1 B:4-21,111-118,149-164,165-171 1upc d1upcf2 F:13-26,99-108,141-159,161-169 1ozg d1ozgb3 B:372-385,466-474,517-532,533-542 1ozh d1ozha2 A:12-25,99-108,140-157,160-168 1upc d1upcd2 D:13-26,99-108,141-159,161-169 1x7x d1x7xb1 B:22-39,129-136,167-181,184-190 2ji8 d2ji8b3 B:376-392,471-479,521-536,537-545 1ni4 d1ni4d1 D:4-21,111-118,149-164,165-171 2jib d2jibb3 B:376-392,471-479,521-536,537-545 2ozl d2ozld1 D:4-21,111-118,149-164,165-171 1upa d1upad2 D:13-26,99-108,141-159,161-169 1ozh d1ozhd2 D:12-25,99-108,140-157,160-168 1ovm d1ovmc3 C:361-373,454-462,506-520,522-530 1v5g d1v5ga3 A:367-379,461-469,513-530,531-539 1upa d1upaa2 A:13-26,99-108,141-159,161-169 1v5f d1v5fa3 A:367-379,461-469,513-530,531-539 1upb d1upbd2 D:13-26,99-108,141-159,161-169 1qpb d1qpbb2 B:5-18,93-102,144-160,160-169 1t9d d1t9db2 B:93-106,181-190,222-239,242-250 2jib d2jiba3 A:376-392,471-479,521-536,537-545 2iht d2ihta2 A:13-26,99-108,141-159,161-169 2iht d2ihtd2 D:13-26,99-108,141-159,161-169 1t9a d1t9ab2 B:93-106,181-190,222-239,242-250 1ovm d1ovmd3 D:361-373,454-462,506-520,522-530 1v5g d1v5ga2 A:7-20,98-106,137-156,157-165 1upb d1upba2 A:13-26,99-108,141-159,161-169 1t9a d1t9aa2 A:93-106,181-190,222-239,242-250 2ji8 d2ji8a3 A:376-392,471-479,521-536,537-545 1upa d1upab2 B:13-26,99-108,141-159,161-169 1ozf d1ozfa2 A:12-25,99-108,140-157,160-168 1upc d1upcc2 C:13-26,99-108,141-159,161-169 1t9c d1t9ca2 A:93-106,181-190,222-239,242-250 1v5f d1v5fa2 A:7-20,98-106,137-156,157-165 2ji9 d2ji9b3 B:376-392,471-479,521-536,537-545 1n0h d1n0hb2 B:93-106,181-190,222-239,242-250 2dji d2djia2 A:7-20,98-106,137-156,157-165 1v5e d1v5ea2 A:7-20,98-106,137-156,157-165 1umc d1umcc_ C:73-85,196-204,239-257,259-267 1n0h d1n0ha2 A:93-106,181-190,222-239,242-250 2c31 d2c31b3 B:376-392,471-479,521-536,537-545 1upa d1upac2 C:13-26,99-108,141-159,161-169 1yi1 d1yi1a2 A:98-111,186-195,227-244,247-255 1ovm d1ovma3 A:361-373,454-462,506-520,522-530 1t9d d1t9da2 A:93-106,181-190,222-239,242-250 2ji6 d2ji6b3 B:376-392,471-479,521-536,537-545 1t9b d1t9bb2 B:93-106,181-190,222-239,242-250 1upc d1upce3 E:383-400,482-490,535-550,551-559 2ji7 d2ji7b3 B:376-392,471-479,521-536,537-545 1ybh d1ybha2 A:98-111,186-195,227-244,247-255 2ihu d2ihua2 A:13-26,99-108,141-159,161-169 1upc d1upca2 A:13-26,99-108,141-159,161-169 1upb d1upbc2 C:13-26,99-108,141-159,161-169 1ozf d1ozfa3 A:372-385,466-474,517-532,533-542 1ozg d1ozga3 A:372-385,466-474,517-532,533-542 2ji7 d2ji7a3 A:376-392,471-479,521-536,537-545 1umb d1umbc_ C:73-85,196-204,239-257,259-267 1z8n d1z8na2 A:98-111,186-195,227-244,247-255 1ovm d1ovmb3 B:361-373,454-462,506-520,522-530 2ihv d2ihvd2 D:13-26,99-108,141-159,161-169 2iht d2ihtc2 C:13-26,99-108,141-159,161-169 1t9d d1t9dd2 D:93-106,181-190,222-239,242-250 1upb d1upbb2 B:13-26,99-108,141-159,161-169 1umc d1umca_ A:73-85,196-204,239-257,259-267 1umd d1umdc_ C:73-85,196-204,239-257,259-267 2ihv d2ihvb2 B:13-26,99-108,141-159,161-169 1ozg d1ozgb2 B:12-25,99-108,140-157,160-168 2ji9 d2ji9a3 A:376-392,471-479,521-536,537-545 1zpd d1zpdb3 B:366-378,457-467,514-529,530-539 1zpd d1zpda3 A:366-378,457-467,514-529,530-539 1zpd d1zpdf3 F:366-378,457-467,514-529,530-539 2iht d2ihtb2 B:13-26,99-108,141-159,161-169 1w88 d1w88a_ A:81-93,194-202,237-255,257-265 1ozh d1ozha3 A:372-385,466-474,517-532,533-542 1umd d1umda_ A:73-85,196-204,239-257,259-267 1w88 d1w88c_ C:81-93,194-202,237-255,257-265 2ihv d2ihva2 A:13-26,99-108,141-159,161-169 1umb d1umba_ A:73-85,196-204,239-257,259-267 2ihv d2ihvb3 B:383-400,482-490,535-550,551-559 1zpd d1zpde3 E:366-378,457-467,514-529,530-539 1upc d1upcd3 D:383-400,482-490,535-550,551-559 2qtc d2qtcb1 B:493-509,620-627,662-680,685-692 1upb d1upbd3 D:383-400,482-490,535-550,551-559 1w88 d1w88g_ G:81-93,194-202,237-255,257-265 1upb d1upbc3 C:383-400,482-490,535-550,551-559 1jsc d1jscb2 B:93-106,181-190,222-239,242-250 1upa d1upac3 C:383-400,482-490,535-550,551-559 1jsc d1jsca2 A:93-106,181-190,222-239,242-250 1upc d1upcc3 C:383-400,482-490,535-550,551-559 2ihv d2ihvd3 D:383-400,482-490,535-550,551-559 2iht d2ihtd3 D:383-400,482-490,535-550,551-559 1qpb d1qpba2 A:5-18,93-103,141-160,160-170 1upa d1upad3 D:383-400,482-490,535-550,551-559 1upa d1upab3 B:383-400,482-490,535-550,551-559 2iht d2ihtb3 B:383-400,482-490,535-550,551-559 1w85 d1w85c_ C:81-92,194-202,237-255,257-265 1upc d1upcb3 B:383-400,482-490,535-550,551-559 2iht d2ihtc3 C:383-400,482-490,535-550,551-559 1upb d1upba3 A:383-400,482-490,535-550,551-559 1upa d1upaa3 A:383-400,482-490,535-550,551-559 1w88 d1w88e_ E:81-93,194-202,237-255,257-265 1upc d1upcf3 F:383-400,482-490,535-550,551-559 1w85 d1w85g_ G:81-92,194-202,237-255,257-265 1w85 d1w85e_ E:81-92,194-202,237-255,257-265 2iht d2ihta3 A:383-400,482-490,535-550,551-559 1w85 d1w85a_ A:81-92,194-202,237-255,257-265 1upb d1upbb3 B:383-400,482-490,535-550,551-559 1pow d1powb2 B:12-25,102-110,142-161,161-169 2ihu d2ihua3 A:383-400,482-490,535-550,551-559 1rp7 d1rp7b1 B:493-509,621-627,662-680,685-692 1pyd d1pydb2 B:5-18,94-103,141-160,161-170 2fn3 d2fn3a2 A:3-16,89-99,131-148,151-160 1w88 d1w88d1 D:4-21,111-119,149-164,165-173 1upc d1upca3 A:383-400,482-490,535-550,551-560 2v3w d2v3wb2 B:3-16,89-100,131-148,151-160 1w88 d1w88b1 B:4-21,111-119,149-164,165-173 2v3w d2v3wd2 D:3-16,89-100,131-148,151-160 1w85 d1w85b1 B:4-21,111-119,149-164,165-173 1w85 d1w85h1 H:4-21,111-119,149-164,165-173 1w88 d1w88f1 F:4-21,111-119,149-164,165-173 1w85 d1w85f1 F:4-21,111-119,149-164,165-173 2ihv d2ihva3 A:383-399,482-490,535-550,551-559 1ni4 d1ni4c_ C:68-80,188-196,229-247,249-257 1w85 d1w85d1 D:4-21,111-119,149-164,165-173 1mcz d1mczk2 K:3-16,89-98,131-148,151-159 1x7w d1x7wa_ A:92-104,213-222,257-276,276-285 1w88 d1w88h1 H:4-21,111-119,149-164,165-173 1x7y d1x7ya_ A:92-104,213-222,257-276,276-285 1mcz d1mczo2 O:3-16,89-98,131-148,151-159 1mcz d1mczb2 B:3-16,89-98,131-148,151-159 1mcz d1mczi2 I:3-16,89-98,131-148,151-159 1mcz d1mczg2 G:3-16,89-98,131-148,151-159 1mcz d1mczc2 C:3-16,89-98,131-148,151-159 1q6z d1q6za2 A:3-16,89-100,131-148,151-160 2ozl d2ozlc1 C:68-80,188-196,229-247,249-257 1po7 d1po7a2 A:3-16,89-100,131-148,151-160 1olu d1olua_ A:92-104,212-222,257-276,276-285 1mcz d1mcza2 A:3-16,89-100,131-148,151-160 1mcz d1mczj2 J:3-16,89-100,131-148,151-160 1mcz d1mczn2 N:3-16,89-100,131-148,151-160 1mcz d1mczh2 H:3-16,89-100,131-148,151-160 1mcz d1mczl2 L:3-16,89-100,131-148,151-160 1mcz d1mcze2 E:3-16,89-100,131-148,151-160 1mcz d1mczf2 F:3-16,89-100,131-148,151-160 1mcz d1mczd2 D:3-16,89-100,131-148,151-160 1mcz d1mczm2 M:3-16,89-100,131-148,151-160 1mcz d1mczp2 P:3-16,89-100,131-148,151-160 2ozl d2ozla1 A:68-80,188-196,229-247,249-257 1bfd d1bfda2 A:3-16,89-100,131-148,151-160 2ezt d2eztb2 B:12-25,102-111,142-161,161-170 2bfc d2bfca1 A:92-104,212-222,257-276,276-285 2c3o d2c3oa2 A:815-829,983-991,1045-1060,1061-1069 2c3o d2c3ob2 B:815-829,983-991,1045-1060,1061-1069 1ik6 d1ik6a1 A:9-26,116-124,154-169,170-178 1b0p d1b0pa2 A:815-829,983-991,1045-1060,1061-1069 2v3w d2v3wa2 A:3-16,89-100,131-149,151-160 2c3y d2c3ya2 A:815-829,983-991,1045-1060,1061-1069 2v3w d2v3wc2 C:3-16,89-100,131-149,151-160 2ez8 d2ez8b2 B:12-25,102-111,142-161,161-170 2uza d2uzab2 B:815-829,983-991,1045-1060,1061-1069 2ezt d2ezta2 A:12-25,102-111,142-161,161-170 2c3m d2c3mb2 B:815-829,983-991,1045-1060,1061-1069 2ezu d2ezub2 B:12-25,102-111,142-161,161-170 2ez4 d2ez4a2 A:12-25,102-111,142-161,161-170 1x7x d1x7xa_ A:92-104,212-222,257-276,276-285 2ez8 d2ez8a2 A:12-25,102-111,142-161,161-170 2ez4 d2ez4b2 B:12-25,102-111,142-161,161-170 2bfb d2bfba1 A:92-104,212-222,257-276,276-285 2c3y d2c3yb2 B:815-829,983-991,1045-1060,1061-1069 2c42 d2c42b2 B:815-829,983-991,1045-1060,1061-1069 2bfe d2bfea1 A:92-104,212-222,257-276,276-285 2c3p d2c3pa2 A:815-829,983-991,1045-1060,1061-1069 2c3p d2c3pb2 B:815-829,983-991,1045-1060,1061-1069 1pox d1poxb2 B:12-25,102-111,142-161,161-170 2c3u d2c3ua2 A:815-829,983-991,1045-1060,1061-1069 1pox d1poxa2 A:12-25,102-111,142-161,161-170 2ezu d2ezua2 A:12-25,102-111,142-161,161-170 1kek d1keka2 A:815-829,983-991,1045-1060,1061-1069 1b0p d1b0pb2 B:815-829,983-991,1045-1060,1061-1069 2uza d2uzaa2 A:815-829,983-991,1045-1060,1061-1069 2c3m d2c3ma2 A:815-829,983-991,1045-1060,1061-1069 1pow d1powa2 A:12-25,102-112,142-161,161-170 2c42 d2c42a2 A:815-829,983-991,1045-1060,1061-1069 1um9 d1um9c_ C:73-85,196-205,239-257,259-268 1kek d1kekb2 B:815-829,983-991,1045-1060,1061-1069 2c3u d2c3ub2 B:815-829,983-991,1045-1060,1061-1069 1um9 d1um9a_ A:73-85,196-205,239-257,259-268 2pda d2pdab2 B:815-829,983-991,1045-1060,1061-1069 2pda d2pdaa2 A:815-829,983-991,1045-1060,1061-1069 2ez9 d2ez9b2 B:12-25,102-112,142-161,161-171 2ez9 d2ez9a2 A:12-25,102-112,142-161,161-171 1yno d1ynoa2 A:3-16,91-100,131-148,151-160 2fwn d2fwna2 A:3-16,91-100,131-148,151-160 1pi3 d1pi3a2 A:3-16,91-100,131-148,151-160 1u5b d1u5ba_ A:92-104,213-223,257-276,276-286 2jib d2jibb2 B:11-24,98-108,141-158,161-170 2ji6 d2ji6a2 A:11-24,98-108,141-158,161-170 2ji9 d2ji9a2 A:11-24,98-108,141-158,161-170 2jib d2jiba2 A:11-24,98-108,141-158,161-170 2ji6 d2ji6b2 B:11-24,98-108,141-158,161-170 1ni4 d1ni4a_ A:65-80,188-196,229-247,249-257 2ji8 d2ji8a2 A:11-24,98-108,141-158,161-170 2ji9 d2ji9b2 B:11-24,98-108,141-158,161-170 2ji7 d2ji7a2 A:11-24,98-108,141-158,161-170 2c31 d2c31a2 A:11-24,98-108,141-158,161-170 1x80 d1x80a_ A:89-104,213-222,257-276,276-285 1v11 d1v11a_ A:89-104,213-222,257-276,276-285 2ji7 d2ji7b2 B:11-24,98-108,141-158,161-170 1r9j d1r9jb2 B:26-45,177-185,221-236,239-246 1v16 d1v16a_ A:89-104,213-222,257-276,276-285 2bfd d2bfda1 A:89-104,213-222,257-276,276-285 2ji8 d2ji8b2 B:11-24,98-108,141-158,161-170 1r9j d1r9ja2 A:26-45,177-185,221-236,239-246 1v1r d1v1ra_ A:89-104,213-222,257-276,276-285 2c31 d2c31b2 B:11-24,98-108,141-158,161-170 1v1m d1v1ma_ A:89-104,212-222,257-276,276-285 2g28 d2g28b2 B:106-125,252-260,365-379,383-390 2bff d2bffa1 A:89-104,213-222,257-276,276-285 2bp7 d2bp7e1 E:109-124,234-243,278-296,298-307 1x7z d1x7za_ A:89-104,213-222,257-276,276-285 1qs0 d1qs0a_ A:109-124,234-243,278-296,298-307 2qta d2qtaa2 A:106-125,252-260,365-379,383-390 2bp7 d2bp7g1 G:109-124,234-243,278-296,298-307 1olx d1olxa_ A:89-104,213-222,257-276,276-285 1ols d1olsa_ A:89-104,212-222,257-276,276-285 1l8a d1l8ab1 B:106-125,252-260,365-379,383-390 2bp7 d2bp7c1 C:109-124,234-243,278-296,298-307 2iea d2ieab2 B:106-125,252-260,365-379,383-390 2qta d2qtab2 B:106-125,252-260,365-379,383-390 2bp7 d2bp7a1 A:109-124,234-243,278-296,298-307 2bew d2bewa1 A:89-104,213-223,257-276,276-286 1dtw d1dtwa_ A:89-104,213-223,257-276,276-286 2bev d2beva1 A:89-104,213-223,257-276,276-286 2beu d2beua1 A:89-104,213-223,257-276,276-286 1wci d1wcia1 A:89-104,213-223,257-276,276-286 2dji d2djia2 A:29-41,98-106,137-156,157-165 1v5f d1v5fa2 A:32-39,98-106,137-156,157-165 2. c.1.6 PLP-binding barrel circular permutation of the canonical fold: begins with an alpha helix and ends with a beta-strand ! TIM beta/alpha-barrel contains parallel beta-sheet barrel, closed; n=8, S=8; strand order 12345678 ! the first seven superfamilies have similar phosphate-binding sites 1bd0 d1bd0b2 B:14-29,32-39,203-211,216-221 1epv d1epva2 A:14-29,32-39,203-211,216-221 1ftx d1ftxa2 A:14-29,32-39,203-211,216-221 1sft d1sfta2 A:14-29,32-39,203-211,216-221 1bd0 d1bd0a2 A:14-29,32-39,203-211,216-221 2sfp d2sfpa2 A:14-29,32-39,203-211,216-221 1niu d1niua2 A:14-29,32-39,203-211,216-221 1l6g d1l6ga2 A:14-29,32-39,203-211,216-221 1ftx d1ftxb2 B:14-29,32-39,203-211,216-221 1l6g d1l6gb2 B:14-29,32-39,203-211,216-221 2sfp d2sfpb2 B:14-29,32-39,203-211,216-221 1l6f d1l6fa2 A:14-29,32-39,203-211,216-221 1l6f d1l6fb2 B:14-29,32-39,203-211,216-221 1vft d1vfta2 A:14-29,31-37,208-216,221-226 1niu d1niub2 B:14-29,32-39,203-211,216-221 1epv d1epvb2 B:14-29,32-39,203-211,216-221 1sft d1sftb2 B:14-29,32-39,203-211,216-221 1vfs d1vfsa2 A:14-29,31-38,208-216,221-226 1vft d1vftb2 B:1014-1029,1031-1037,1208-1216,1221-1226 1vfs d1vfsb2 B:1014-1029,1031-1037,1208-1216,1221-1226 1vfh d1vfha2 A:14-29,31-38,208-216,221-226 1rcq d1rcqa2 A:10-25,26-33,192-200,205-210 1ct5 d1ct5a_ A:8-33,42-48,226-234,236-241 1b54 d1b54a_ A:8-33,42-48,226-234,236-241 1tuf d1tufa2 A:51-66,75-82,277-293,299-306 1tuf d1tufb2 B:51-66,75-82,277-297,299-306 1twi d1twia2 A:51-66,75-82,277-297,299-306 1hkv d1hkva2 A:47-62,66-71,271-291,295-302 1twi d1twib2 B:51-66,75-80,277-297,299-305 1twi d1twic2 C:51-66,75-80,277-297,299-305 1twi d1twid2 D:51-66,75-80,277-297,299-305 1hkv d1hkvb2 B:47-62,66-71,271-291,295-301 1hkw d1hkwa2 A:47-62,66-71,271-291,295-301 1hkw d1hkwb2 B:47-62,66-71,271-291,295-301 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 d2fb5a1 A:76-91,92-100,119-128,136-142 2fb5 d2fb5b1 B:76-91,92-100,119-128,136-142 2fb5 d2fb5c1 C:76-91,92-100,119-128,136-142 7. 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 1f51 d1f51c_ C:473-483,490-498,503-525,531-539 1f51 d1f51d_ D:673-683,690-698,706-725,731-739 1f51 d1f51b_ B:273-283,290-298,303-325,331-339 1ixm d1ixma_ A:73-83,90-98,103-125,131-140 1ixm d1ixmb_ B:273-283,290-298,303-325,331-339 2ftk d2ftkb1 B:273-283,290-298,306-325,329-339 2ftk d2ftkd1 D:673-683,690-698,703-725,729-739 2ftk d2ftkc1 C:473-483,490-498,503-525,529-539 2ftk d2ftka1 A:73-83,90-98,103-125,129-139 10. d.68.2 EPT/RTPC-like IF3-like beta-alpha-beta-alpha-beta(2); 2 layers; mixed sheet 1243, strand 4 is antiparallel to the rest 1rf4 d1rf4b_ B:19-33,33-41,194-204,222-229 1rf4 d1rf4c_ C:19-33,33-41,194-204,222-229 1rf4 d1rf4a_ A:19-33,33-41,194-204,222-229 1rf4 d1rf4d_ D:19-33,33-41,194-204,222-229 1rf6 d1rf6b_ B:19-33,33-41,194-204,222-229 1rf6 d1rf6a_ A:19-33,33-41,194-204,222-229 1uae d1uaea_ A:21-36,35-43,188-202,221-228 1ejd d1ejdb_ B:21-36,35-43,188-202,221-228 1ryw d1rywb_ B:21-36,35-43,188-202,221-228 1ybg d1ybga1 A:21-36,35-43,188-202,221-228 1dlg d1dlgb_ B:21-36,35-43,188-202,221-228 1ybg d1ybgc1 C:21-36,35-43,188-202,221-228 1ryw d1rywe_ E:21-36,35-43,188-202,221-228 1ryw d1rywc_ C:21-36,35-43,188-202,221-228 1ryw d1rywg_ G:21-36,35-43,188-202,221-228 1q3g d1q3gy_ Y:21-36,35-43,188-202,221-228 1q3g d1q3ge_ E:21-36,35-43,188-202,221-228 1q3g d1q3gb_ B:21-36,35-43,188-202,221-228 1q3g d1q3gf_ F:21-36,35-43,188-202,221-228 1q3g d1q3gi_ I:21-36,35-43,188-202,221-228 1q3g d1q3gd_ D:21-36,35-43,188-202,221-228 1q3g d1q3gl_ L:21-36,35-43,188-202,221-228 1q3g d1q3gg_ G:21-36,35-43,188-202,221-228 1ybg d1ybgb1 B:21-36,35-43,188-202,221-228 1q3g d1q3gw_ W:21-36,35-43,188-202,221-228 1q3g d1q3gk_ K:21-36,35-43,188-202,221-228 1q3g d1q3gh_ H:21-36,35-43,188-202,221-228 1ryw d1rywf_ F:21-36,35-43,188-202,221-228 1q3g d1q3gj_ J:21-36,35-43,188-202,221-228 1q3g d1q3gc_ C:21-36,35-43,188-202,221-228 1ybg d1ybgd1 D:21-36,35-43,188-202,221-228 1q3g d1q3gx_ X:21-36,35-43,188-202,221-228 1ryw d1rywh_ H:21-36,35-43,188-202,221-228 1ejd d1ejda_ A:21-36,35-43,188-202,221-228 1naw d1nawb_ B:21-36,35-43,188-202,221-228 1q3g d1q3gz_ Z:21-36,35-43,188-202,221-228 1ryw d1rywd_ D:21-36,35-43,188-202,221-228 1q3g d1q3ga_ A:21-36,35-43,188-202,221-228 1ejc d1ejca_ A:21-36,35-43,188-202,221-228 1ryw d1rywa_ A:21-36,35-43,188-202,221-228 1dlg d1dlga_ A:21-36,35-43,188-202,221-228 1eyn d1eyna_ A:21-35,35-43,188-202,221-228 1rf6 d1rf6c_ C:19-34,33-41,194-204,222-229 1naw d1nawa_ A:21-36,35-43,188-202,221-228 1rf6 d1rf6d_ D:19-34,33-41,194-204,222-229 1a2n d1a2na_ A:21-35,35-43,188-202,221-228 1rf5 d1rf5d_ D:19-33,33-41,194-204,222-229 1rf5 d1rf5b_ B:19-34,33-41,194-204,222-229 1rf5 d1rf5a_ A:19-34,33-41,194-204,222-229 1rf5 d1rf5c_ C:19-34,33-41,194-204,222-229 1eps d1epsa_ A:21-35,37-43,198-212,235-239 1x8t d1x8ta1 A:21-35,36-43,197-212,235-239 1mi4 d1mi4a_ A:21-35,37-43,197-212,235-239 1x8r d1x8ra1 A:21-35,37-43,197-212,235-239 1g6s d1g6sa_ A:21-35,36-43,197-212,235-239 1g6t d1g6ta_ A:21-35,37-43,197-212,235-239 2pq9 d2pq9a1 A:21-35,37-43,197-212,235-239 2aa9 d2aa9a1 A:21-35,36-43,197-212,235-239 1p89 d1p89a_ A:25-35,35-43,197-212,231-239 1p88 d1p88a_ A:25-36,38-43,197-212,231-239 1q36 d1q36a_ A:21-36,37-43,197-212,235-239 2aay d2aaya1 A:21-36,36-43,197-212,235-239 14. c.154.1 CdCA1 repeat-like CdCA1 repeat-like contains two parallel beta-strands of four strands each; the sheets contact each other with edges at a right angle 3boh d3boha1 A:15-27,28-34,196-212,215-222 3boh d3bohb1 B:15-27,28-34,196-212,215-222 3boj d3boja1 A:15-27,28-34,196-212,215-222 3boe d3boea1 A:225-237,238-244,406-422,425-432 3boc d3boca1 A:225-237,238-244,406-422,425-432 3bob d3boba1 A:225-237,238-244,406-422,425-432 15. 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 1l5x d1l5xa_ A:13-27,121-129,138-160,166-174 1j9j d1j9jb_ B:13-27,122-130,135-150,159-167 1j9l d1j9lb_ B:13-27,122-130,135-150,159-167 1j9l d1j9la_ A:13-27,122-129,135-150,159-166 1j9j d1j9ja_ A:13-27,122-129,135-150,159-166 1ilv d1ilva_ A:13-27,122-130,135-150,159-167 1j9k d1j9kb_ B:13-27,122-130,135-150,159-167 1j9k d1j9ka_ A:13-27,122-130,135-150,159-167 1ilv d1ilvb_ B:13-27,122-130,135-151,159-167 22. 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 4pfk d4pfka_ A:13-31,118-123,257-278,280-288 1mto d1mtoc_ C:13-31,118-123,257-278,280-288 1mto d1mtoe_ E:13-31,118-123,257-278,280-288 3pfk d3pfka_ A:13-31,118-123,257-278,280-288 1mto d1mtof_ F:13-31,118-125,257-278,280-288 1mto d1mtob_ B:13-31,118-123,257-278,280-288 2pfk d2pfka_ A:13-31,118-123,257-278,280-288 6pfk d6pfka_ A:13-31,118-123,257-278,280-288 2pfk d2pfkb_ B:13-31,118-123,257-278,280-288 6pfk d6pfkc_ C:13-31,118-123,257-278,280-288 1pfk d1pfkb_ B:13-31,118-123,257-278,280-288 1mto d1mtoh_ H:13-31,118-123,257-278,280-288 6pfk d6pfkb_ B:13-31,118-123,257-278,280-288 1mto d1mtod_ D:13-31,118-123,257-278,280-288 1mto d1mtog_ G:13-31,118-123,257-278,280-288 1pfk d1pfka_ A:13-31,118-125,257-278,281-288 1mto d1mtoa_ A:13-31,118-123,257-278,281-288 6pfk d6pfkd_ D:13-31,118-123,257-278,281-288 1kzh d1kzha_ A:86-103,196-204,436-457,459-467 2pfk d2pfkd_ D:13-31,117-123,257-278,280-288 2pfk d2pfkc_ C:13-31,117-123,257-278,280-288 2f48 d2f48b1 B:86-103,196-202,436-457,459-467 2f48 d2f48a1 A:86-103,196-202,436-457,459-467 1kzh d1kzhb_ B:86-103,196-202,436-457,459-467 24. c.123.1 CoA-transferase family III (CaiB/BaiF) CoA-transferase family III (CaiB/BaiF) consist of two different alpha/beta domains; N-terminal domain has a SurE-like topology with a left-handed beta-alpha-beta unit 1q6y d1q6ya_ A:18-32,120-127,168-193,194-201 1xk6 d1xk6d1 D:23-32,117-124,166-191,192-199 1pt8 d1pt8a_ A:16-30,118-125,166-191,192-199 1xk6 d1xk6a1 A:23-32,117-124,166-191,192-199 1pqy d1pqya_ A:18-32,120-127,168-193,194-201 1pt8 d1pt8b_ B:16-30,118-125,166-191,192-199 1pt5 d1pt5b_ B:16-30,118-125,166-191,192-199 1pt7 d1pt7b_ B:16-30,118-125,166-191,192-199 1xk7 d1xk7b1 B:23-32,117-124,166-191,192-199 1pt7 d1pt7a_ A:16-30,118-125,166-191,192-199 1pt5 d1pt5a_ A:16-30,118-125,166-191,192-199 1q7e d1q7ea_ A:18-32,120-127,168-193,194-201 1xa3 d1xa3b_ B:23-32,117-124,166-191,192-199 1xa3 d1xa3a_ A:22-37,117-124,166-191,192-199 1xk7 d1xk7c1 C:22-37,117-124,166-191,192-199 1xk7 d1xk7a1 A:22-37,117-124,166-191,192-199 1xk6 d1xk6c1 C:22-37,117-124,166-191,192-199 1xk6 d1xk6b1 B:22-37,117-124,166-191,192-199 2vjm d2vjma1 A:16-30,118-125,166-191,192-199 2vjk d2vjka1 A:16-30,118-125,166-191,192-199 1p5r d1p5ra_ A:16-30,118-125,166-191,192-199 1xvt d1xvta1 A:22-37,117-124,166-191,192-199 1vgr d1vgrb_ B:16-30,118-125,166-191,192-199 1t4c d1t4cb_ B:16-30,118-125,166-191,192-199 2vjk d2vjkb1 B:16-30,118-125,166-191,192-199 1vgq d1vgqa_ A:16-30,118-125,166-191,192-199 1t3z d1t3zb_ B:16-30,118-125,166-191,192-199 2vjl d2vjla1 A:16-30,118-125,166-191,192-199 2vjl d2vjlb1 B:16-30,118-125,166-191,192-199 1vgq d1vgqb_ B:16-30,118-125,166-191,192-199 1p5r d1p5rb_ B:16-30,118-125,166-191,192-199 1vgr d1vgra_ A:16-30,118-125,166-191,192-199 1t4c d1t4ca_ A:16-30,118-125,166-191,192-199 1xa4 d1xa4b_ B:22-37,117-124,166-191,192-199 1p5h d1p5hb_ B:16-30,118-125,166-191,192-199 1p5h d1p5ha_ A:16-30,118-125,166-191,192-199 1t3z d1t3za_ A:16-30,118-125,166-191,192-199 1xa4 d1xa4a_ A:23-37,117-124,166-191,192-199 1xvv d1xvva1 A:23-37,117-124,166-191,192-199 1xvu d1xvua1 A:23-37,117-124,166-191,192-199 2gce d2gcea1 A:16-30,105-112,151-179,180-187 1x74 d1x74b1 B:16-30,105-112,151-179,180-187 1x74 d1x74c1 C:16-30,105-112,151-179,180-187 2gci d2gcid1 D:16-30,105-112,151-179,180-187 2gce d2gceb1 B:16-30,105-112,151-179,180-187 2gci d2gcic1 C:16-30,105-112,151-179,180-187 2gd0 d2gd0b1 B:16-30,105-112,151-179,180-187 1x74 d1x74a1 A:16-30,105-112,151-179,180-187 1x74 d1x74d1 D:16-30,105-112,151-179,180-187 2gce d2gced1 D:16-30,105-112,151-179,180-187 2gd0 d2gd0c1 C:16-30,105-112,151-179,180-187 2gd0 d2gd0a1 A:16-30,105-112,151-179,180-187 2gd0 d2gd0d1 D:16-30,105-112,151-179,180-187 2gd6 d2gd6a1 A:16-30,105-112,151-179,180-187 2gce d2gcec1 C:16-30,105-112,151-179,180-187 2gd6 d2gd6d1 D:16-30,105-112,151-179,180-187 2gd6 d2gd6b1 B:16-30,105-112,151-179,180-187 2gd2 d2gd2c1 C:16-30,105-112,151-179,180-187 2gd2 d2gd2b1 B:16-30,105-112,151-179,180-187 2gd2 d2gd2a1 A:16-30,105-112,151-179,180-187 2gd6 d2gd6c1 C:16-30,105-112,151-179,180-187 2gd2 d2gd2d1 D:16-30,105-112,151-179,180-187 2gci d2gcib1 B:16-30,105-112,151-179,180-187 2gci d2gcia1 A:16-30,105-112,151-179,180-187 25. c.1.23 FAD-linked oxidoreductase distinct cofactor-binding mode from both FMN- and NAD(P)-linked TIM-barrel oxidoreductases; families are related by a circular permutation ! TIM beta/alpha-barrel contains parallel beta-sheet barrel, closed; n=8, S=8; strand order 12345678 ! the first seven superfamilies have similar phosphate-binding sites 2fzm d2fzma2 A:264-279,279-287,517-524,536-544 2fzn d2fzna2 A:264-279,280-287,517-524,536-544 1tj2 d1tj2a2 A:264-279,279-287,517-524,536-544 1tiw d1tiwa2 A:264-279,279-287,517-524,536-544 1k87 d1k87a2 A:264-279,280-287,517-524,536-544 1tj0 d1tj0a2 A:264-279,280-287,517-524,536-544 1tj1 d1tj1a2 A:264-279,279-287,517-524,536-544 27. c.1.17 Nicotinate/Quinolinate PRTase C-terminal domain-like incomplete beta/alpha barrel with parallel beta-sheet of 7 strands ! TIM beta/alpha-barrel contains parallel beta-sheet barrel, closed; n=8, S=8; strand order 12345678 ! the first seven superfamilies have similar phosphate-binding sites 2i14 d2i14a1 A:101-127,130-135,272-280,284-290 2i14 d2i14c1 C:1101-1127,1130-1135,1272-1280,1284-1290 2i14 d2i14b1 B:501-527,530-535,672-680,684-690 2i14 d2i14d1 D:1501-1527,1530-1535,1672-1680,1684-1690 2i14 d2i14e1 E:2101-2127,2130-2135,2272-2280,2284-2290 2i14 d2i14f1 F:2501-2527,2530-2535,2672-2680,2684-2690 1o4u d1o4ub1 B:90-116,118-122,238-247,251-256 1ytd d1ytda1 A:105-131,133-139,274-285,287-293 1o4u d1o4ua1 A:90-116,118-122,238-247,251-256 1vlp d1vlpc2 C:155-171,173-178,331-346,347-355 1vlp d1vlpd2 D:155-171,173-178,331-346,347-355 1vlp d1vlpa2 A:155-171,173-178,331-346,347-355 1vlp d1vlpb2 B:155-171,173-178,331-346,347-355 1ybe d1ybea1 A:168-194,197-201,348-360,363-370 1ybe d1ybeb1 B:168-194,197-202,348-360,363-371 1qpq d1qpqe1 E:2103-2129,2133-2138,2252-2263,2265-2270 1qpo d1qpoe1 E:2103-2129,2133-2138,2252-2263,2265-2270 1qpq d1qpqb1 B:603-629,633-638,752-763,765-770 1qpr d1qprb1 B:103-129,133-138,252-263,265-270 1qpr d1qprf1 F:103-129,133-138,252-263,265-270 1qpr d1qprd1 D:103-129,133-138,252-263,265-270 1qpr d1qpre1 E:103-129,133-138,252-263,265-270 1qpq d1qpqd1 D:1603-1629,1633-1638,1752-1763,1765-1770 1qpq d1qpqf1 F:2603-2629,2633-2638,2752-2763,2765-2770 1qpo d1qpof1 F:2603-2629,2633-2638,2752-2763,2765-2770 1qpo d1qpod1 D:1603-1629,1633-1638,1752-1763,1765-1770 1qpq d1qpqc1 C:1103-1129,1133-1138,1252-1263,1265-1270 1qpr d1qprc1 C:103-129,133-138,252-263,265-270 1qpn d1qpne1 E:2103-2129,2133-2138,2252-2263,2265-2270 1qpn d1qpnf1 F:2603-2629,2633-2638,2752-2763,2765-2770 1qpq d1qpqa1 A:103-129,133-138,252-263,265-270 1qpn d1qpnd1 D:1603-1629,1633-1638,1752-1763,1765-1770 1qpo d1qpob1 B:603-629,633-638,752-763,765-770 1qpr d1qpra1 A:103-129,133-138,252-263,265-270 1qpn d1qpna1 A:103-129,133-138,252-263,265-270 1qpo d1qpoc1 C:1103-1129,1133-1138,1252-1263,1265-1270 1qpo d1qpoa1 A:103-129,133-138,252-263,265-270 1qpn d1qpnc1 C:1103-1129,1133-1138,1252-1263,1265-1270 2f7f d2f7fa1 A:127-153,155-160,296-307,311-316 1qpn d1qpnb1 B:603-629,633-638,752-763,765-770 1qap d1qapb1 B:116-142,146-151,262-273,275-280 29. d.261.1 Hypothetical protein PH1602 Hypothetical protein PH1602 complex alpha+beta fold; contains a region of similarity to the ferredoxin-like fold 1uc2 d1uc2a_ A:420-432,433-438,439-447,476-481 1uc2 d1uc2b_ B:420-432,433-438,439-447,476-481 36. c.127.1 F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD) the sheet topology is similar to those of the Periplasmic binding protein-like I domains ! F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD) 3 layers: a/b/a; parallel beta-sheet of 6 strands, order 213456 1u6j d1u6ji1 I:14-26,114-120,152-171,179-184 1u6j d1u6jc1 C:14-26,114-120,152-171,179-184 1u6i d1u6ii1 I:14-26,114-120,152-171,179-184 1u6i d1u6ic1 C:14-26,114-120,152-171,179-184 1u6i d1u6ia1 A:14-26,114-120,152-171,180-184 1u6i d1u6ig1 G:14-26,114-120,152-171,180-184 1u6i d1u6if1 F:14-26,114-120,152-171,180-184 1u6j d1u6jg1 G:14-26,114-120,152-171,180-184 1u6j d1u6ja1 A:14-26,114-120,152-171,180-184 1u6j d1u6jb1 B:14-26,114-120,152-171,180-184 1u6j d1u6jf1 F:14-26,114-120,152-171,180-184 1u6j d1u6jh1 H:14-26,114-120,152-171,180-184 1u6k d1u6ka1 A:14-26,114-120,152-171,180-184 1qv9 d1qv9a_ A:14-26,114-120,152-171,180-184 1u6i d1u6il1 L:14-26,114-120,152-171,180-184 1u6j d1u6jd1 D:14-26,114-120,152-171,180-184 1u6j d1u6jj1 J:14-26,114-120,152-171,180-184 1u6i d1u6ik1 K:14-26,114-120,152-171,180-184 1u6i d1u6ie1 E:14-26,114-120,152-171,180-184 1u6j d1u6jk1 K:14-26,114-120,152-171,180-184 1u6j d1u6je1 E:14-26,114-120,152-171,180-184 1qv9 d1qv9b_ B:14-26,114-120,152-171,180-184 1u6k d1u6kb1 B:14-26,114-120,152-171,180-184 1u6j d1u6jl1 L:14-26,114-120,152-171,180-184 1u6i d1u6id1 D:14-26,114-120,152-171,180-184 1u6i d1u6ij1 J:14-26,114-120,152-171,180-184 1u6k d1u6kc1 C:14-26,114-120,152-171,180-184 1qv9 d1qv9c_ C:14-26,114-120,152-171,180-184 1u6j d1u6jd1 D:14-26,114-120,133-152,180-184 1u6j d1u6jk1 K:14-26,114-120,133-152,180-184 1u6j d1u6je1 E:14-26,114-120,133-152,180-184 1u6j d1u6jj1 J:14-26,114-120,133-152,180-184 1u6i d1u6if1 F:14-26,114-120,133-152,180-184 1u6i d1u6ig1 G:14-26,114-120,133-152,180-184 1u6i d1u6id1 D:14-26,114-120,133-152,180-184 1u6i d1u6ia1 A:14-26,114-120,133-152,180-184 1u6i d1u6ij1 J:14-26,114-120,133-152,180-184 1u6j d1u6jg1 G:14-26,114-120,133-152,180-184 1u6j d1u6jf1 F:14-26,114-120,133-152,180-184 1u6i d1u6ie1 E:14-26,114-120,133-152,180-184 1u6j d1u6ja1 A:14-26,114-120,133-152,180-184 1u6i d1u6ik1 K:14-26,114-120,133-152,180-184 1u6j d1u6jb1 B:14-26,114-120,133-152,180-184 1u6j d1u6jh1 H:14-26,114-120,133-152,180-184 1qv9 d1qv9b_ B:14-26,114-120,133-152,180-184 1u6k d1u6kb1 B:14-26,114-120,133-152,180-184 1u6i d1u6ii1 I:14-26,114-120,133-152,179-184 1u6i d1u6ic1 C:14-26,114-120,133-152,179-184 1qv9 d1qv9c_ C:14-26,114-120,133-152,180-184 1u6k d1u6kc1 C:14-26,114-120,133-152,180-184 1u6k d1u6ka1 A:14-26,114-120,133-152,180-184 1qv9 d1qv9a_ A:14-26,114-120,133-152,180-184 1u6j d1u6ji1 I:14-26,114-120,133-152,179-184 1u6j d1u6jc1 C:14-26,114-120,133-152,179-184 1u6i d1u6il1 L:14-26,114-120,133-152,180-184 46. c.145.1 NadA-like NadA-like duplication; consists of three similar domains related by pseudo threefold symmetry; 3 layers, a/b/a; parallel beta sheet, order: 2134 1wzu d1wzua1 A:58-70,104-110,113-120,140-144