1. a.65.1 Annexin duplication: consists of four domains of the same fold ! Annexin 5 helices; folded leaf, closed 1ycn d1ycnb_ B:83-99,103-114,132-141,263-277 1ycn d1ycna_ A:83-99,103-114,132-141,263-277 2q4c d2q4ca1 A:83-99,103-114,132-141,263-277 2q4c d2q4cb1 B:83-99,103-114,132-141,263-277 1dm5 d1dm5f_ F:85-101,104-115,134-144,263-276 1dm5 d1dm5c_ C:85-101,104-115,134-144,263-276 1aow d1aowa_ A:85-100,104-116,134-144,263-279 1anx d1anxa_ A:87-103,106-118,136-146,265-278 1dm5 d1dm5b_ B:85-101,104-115,134-144,263-276 1m9i d1m9ia2 A:435-451,454-465,484-494,618-631 1avh d1avha_ A:87-104,106-117,136-146,265-278 1dm5 d1dm5e_ E:85-101,104-115,134-144,263-276 1hak d1hakb_ B:87-102,106-118,136-145,265-278 1anx d1anxc_ C:87-103,106-117,136-146,265-278 1ann d1anna_ A:85-100,104-115,134-144,263-279 1m9i d1m9ia1 A:92-108,111-122,141-150,270-283 1i4a d1i4aa_ A:85-99,104-116,116-132,263-279 1anw d1anwa_ A:87-101,106-117,136-145,265-278 1hve d1hvea_ A:87-101,106-118,136-145,265-277 1bc0 d1bc0a_ A:85-100,104-116,134-144,263-276 1a8b d1a8ba_ A:85-99,104-116,134-143,263-276 1n44 d1n44a_ A:85-99,104-115,134-143,263-277 1hve d1hvea_ A:87-101,106-118,118-134,265-277 1bc1 d1bc1a_ A:85-100,104-116,134-144,263-276 1dm5 d1dm5d_ D:85-100,104-115,134-144,263-276 1aii d1aiia_ A:91-105,110-122,140-150,269-282 1dk5 d1dk5b_ B:491-504,510-522,522-538,666-680 1aow d1aowa_ A:85-100,104-116,116-132,263-279 1bc3 d1bc3a_ A:85-100,104-115,134-144,263-276 1aei d1aeif_ F:85-100,104-115,134-144,263-276 1dm5 d1dm5a_ A:85-100,104-115,134-144,263-276 1aei d1aeia_ A:85-100,104-115,134-144,263-276 1aei d1aeic_ C:85-100,104-115,134-144,263-276 1aei d1aeie_ E:85-100,104-115,134-144,263-276 1n41 d1n41a_ A:85-99,104-116,116-132,263-276 1aei d1aeid_ D:85-100,104-115,134-144,263-276 1hvd d1hvda_ A:87-101,106-117,136-145,265-278 1avr d1avra_ A:87-101,106-117,118-134,265-278 1hvf d1hvfa_ A:87-101,106-117,118-134,265-278 1aei d1aeib_ B:85-100,104-115,134-144,263-276 1bcy d1bcya_ A:85-99,104-116,116-132,263-276 1a8a d1a8aa_ A:85-99,104-115,134-143,263-276 1avc d1avca2 A:435-449,454-465,484-494,618-631 1n42 d1n42a_ A:85-99,104-116,116-132,263-276 1hvf d1hvfa_ A:87-101,106-117,136-145,265-278 2ie7 d2ie7a1 A:85-99,104-115,134-144,263-276 1avr d1avra_ A:87-101,106-117,136-145,265-278 1a8b d1a8ba_ A:85-99,104-116,116-132,263-276 1hm6 d1hm6b_ B:114-128,133-144,145-161,292-304 1axn d1axna_ A:91-105,110-122,140-150,269-282 1hm6 d1hm6a_ A:114-128,133-144,145-161,292-304 2ie6 d2ie6a1 A:85-99,104-115,134-144,263-276 1aii d1aiia_ A:91-105,110-122,122-138,269-282 1hvd d1hvda_ A:87-101,106-117,118-134,265-278 1xjl d1xjla_ A:105-119,124-135,136-152,284-297 1bcz d1bcza_ A:85-99,104-116,116-132,263-276 1hak d1hakb_ B:87-102,106-118,118-134,265-278 1avh d1avhb_ B:87-102,106-117,136-146,265-278 1avc d1avca1 A:92-107,111-122,141-151,270-283 1avc d1avca2 A:435-449,454-465,466-482,618-631 1xjl d1xjla_ A:105-119,124-135,154-164,284-297 1xjl d1xjlb_ B:105-119,124-135,136-152,284-297 1dk5 d1dk5a_ A:91-105,110-122,140-150,266-281 2ran d2rana_ A:85-99,104-115,116-132,263-276 1axn d1axna_ A:91-105,110-122,122-138,269-282 1w7b d1w7ba_ A:105-119,124-135,154-164,284-297 1hm6 d1hm6b_ B:114-128,133-144,163-173,292-304 1a8a d1a8aa_ A:85-99,104-115,116-132,263-276 1xjl d1xjlb_ B:105-119,124-135,154-164,284-297 1w7b d1w7ba_ A:105-119,124-135,136-152,284-297 1g5n d1g5na_ A:85-99,104-115,116-132,263-276 1bcw d1bcwa_ A:85-99,104-115,116-132,263-276 1bcz d1bcza_ A:85-99,104-116,134-144,263-276 1hvg d1hvga_ A:87-101,106-117,118-134,265-278 1ain d1aina_ A:87-101,106-117,118-134,265-281 1anw d1anwb_ B:87-101,106-117,136-146,265-278 1ala d1alaa_ A:87-101,106-117,118-134,265-278 1mcx d1mcxa_ A:114-128,133-144,145-161,292-308 1i4a d1i4aa_ A:85-99,104-116,134-144,263-279 1hak d1haka_ A:87-103,106-117,136-146,265-278 1bcy d1bcya_ A:85-99,104-116,134-144,263-276 1hm6 d1hm6a_ A:114-128,133-144,163-173,292-304 1n42 d1n42a_ A:85-99,104-116,134-144,263-276 1hvg d1hvga_ A:87-101,106-117,136-146,265-278 1n41 d1n41a_ A:85-99,104-116,134-144,263-276 1anx d1anxb_ B:90-103,106-117,136-146,265-278 1n00 d1n00a_ A:88-103,108-118,137-147,267-277 2ran d2rana_ A:85-99,104-115,134-144,263-276 1ann d1anna_ A:85-100,104-115,116-132,263-279 1sav d1sava_ A:87-101,106-117,136-146,265-278 1n44 d1n44a_ A:85-99,104-115,116-132,263-277 3brx d3brxa1 A:88-102,107-119,137-147,265-277 3brx d3brxa1 A:88-102,107-119,119-135,265-277 1bcw d1bcwa_ A:85-99,104-115,134-144,263-276 1ain d1aina_ A:87-101,106-117,136-146,265-281 1g5n d1g5na_ A:85-99,104-115,134-144,263-276 1dk5 d1dk5a_ A:91-105,110-122,122-138,266-281 1m9i d1m9ia2 A:435-451,454-465,466-482,618-631 1ala d1alaa_ A:87-101,106-117,136-146,265-278 1mcx d1mcxa_ A:114-128,133-144,163-173,292-308 1avc d1avca1 A:92-107,111-122,123-139,270-283 1bc1 d1bc1a_ A:85-100,104-116,116-132,263-276 1hak d1haka_ A:87-103,106-117,118-134,265-278 1dk5 d1dk5b_ B:491-504,510-522,540-550,666-680 1sav d1sava_ A:87-101,106-117,119-134,265-278 1anw d1anwa_ A:87-101,106-117,118-134,265-278 1m9i d1m9ia1 A:92-108,111-122,123-139,270-283 1dm5 d1dm5d_ D:85-100,104-115,116-132,263-276 1anx d1anxa_ A:87-103,106-118,118-134,265-278 1bc0 d1bc0a_ A:85-100,104-116,116-132,263-276 1avh d1avhb_ B:87-102,106-117,118-134,265-278 1anw d1anwb_ B:87-101,106-117,118-134,265-278 1avh d1avha_ A:87-104,106-117,118-134,265-278 1dm5 d1dm5a_ A:85-100,104-115,116-132,263-276 1aei d1aeic_ C:85-100,104-115,116-132,263-276 2q4c d2q4ca1 A:83-99,103-114,114-130,263-277 1aei d1aeif_ F:85-100,104-115,116-132,263-276 2ie6 d2ie6a1 A:85-99,104-115,116-132,263-276 2ie7 d2ie7a1 A:85-99,104-115,116-132,263-276 1aei d1aeid_ D:85-100,104-115,116-132,263-276 1aei d1aeib_ B:85-100,104-115,116-132,263-276 1ycn d1ycna_ A:83-99,103-114,114-130,263-277 1ycn d1ycnb_ B:83-99,103-114,114-130,263-277 1dm5 d1dm5f_ F:85-101,104-115,116-132,263-276 1aei d1aeie_ E:85-100,104-115,116-132,263-276 1aei d1aeia_ A:85-100,104-115,116-132,263-276 2q4c d2q4cb1 B:83-99,103-114,114-130,263-277 1anx d1anxc_ C:87-103,106-117,118-134,265-278 1dm5 d1dm5c_ C:85-101,104-115,116-132,263-276 1bc3 d1bc3a_ A:85-100,104-115,116-132,263-276 1dm5 d1dm5b_ B:85-101,104-115,116-132,263-276 1dm5 d1dm5e_ E:85-101,104-115,116-132,263-276 1n00 d1n00a_ A:88-103,108-118,119-135,267-277 3. a.81.1 N-terminal domain of DnaB helicase N-terminal domain of DnaB helicase 6 helices: array 1b79 d1b79a_ A:29-44,46-54,61-78,117-127 1b79 d1b79c_ C:29-44,46-54,61-78,117-127 1b79 d1b79d_ D:29-44,46-54,61-78,117-128 1b79 d1b79b_ B:29-44,46-54,61-78,117-128 5. f.1.1 Colicin Toxins' membrane translocation domains multi-helical domains of various folds which is thought to unfold in the membrane 1rh1 d1rh1a2 A:341-359,365-380,478-498,498-511 1col d1cola_ A:31-49,55-70,168-188,188-201 1a87 d1a87a_ A:215-232,239-253,351-372,371-387 1col d1colb_ B:31-49,55-69,168-188,188-201 1cii d1ciia1 A:468-485,489-501,597-614,613-624 1col d1colb_ B:55-69,75-89,109-128,168-188 1rh1 d1rh1a2 A:365-380,385-399,417-438,478-498 7. e.18.1 HydB/Nqo4-like HydB/Nqo4-like 3 domains: (1) all-alpha; (2&3) alpha+beta 1e3d d1e3db_ B:262-275,376-389,390-405,413-432 1e3d d1e3dd_ D:262-275,376-389,390-405,413-432 1frf d1frfl_ L:265-278,383-396,397-412,420-439 1wul d1wull1 L:272-285,385-398,399-414,422-455 1wui d1wuil1 L:272-285,385-398,399-414,422-455 1ubh d1ubhl_ L:272-285,385-398,399-414,422-455 1wuj d1wujl1 L:272-285,385-398,399-414,422-455 1ubj d1ubjl_ L:272-285,385-398,399-414,422-455 1wuh d1wuhl1 L:272-285,385-398,399-414,422-455 1wuk d1wukl1 L:272-285,385-398,399-414,422-455 1ubr d1ubrl_ L:272-285,385-398,399-414,422-455 1ubm d1ubml_ L:272-285,385-398,399-414,422-455 1ubo d1ubol_ L:272-285,385-398,399-414,422-455 1ubt d1ubtl_ L:272-285,385-398,399-414,422-455 1ubk d1ubkl_ L:272-285,385-398,399-414,422-455 1ubu d1ubul_ L:272-285,385-398,399-414,422-455 1h2a d1h2al_ L:272-285,385-398,399-414,422-455 1ubl d1ubll_ L:272-285,385-398,399-414,422-455 1h2r d1h2rl_ L:272-285,385-398,399-414,422-455 1yq9 d1yq9h1 H:256-269,369-382,383-398,406-439 2frv d2frvf_ F:256-269,369-382,383-398,406-439 2frv d2frvl_ L:256-269,369-382,383-398,406-439 2frv d2frvh_ H:256-269,369-382,383-398,406-439 2frv d2frvj_ J:256-269,369-382,383-398,406-439 2frv d2frvd_ D:256-269,369-382,383-398,406-439 2frv d2frvb_ B:256-269,369-382,383-398,406-439 1yq9 d1yq9i1 I:256-269,369-382,383-398,406-439 1frv d1frvb_ B:256-269,370-382,383-398,406-439 1frv d1frvd_ D:256-269,370-382,383-398,406-439 11. f.49.1 Proton glutamate symport protein Proton glutamate symport protein multihelical membrane protein; partial structural duplication in the C-terminal region; oligomeric state: trimer 2nww d2nwwb1 B:73-108,277-293,295-311,389-416 1xfh d1xfhc_ C:73-108,277-293,295-311,389-416 1xfh d1xfha_ A:73-108,277-293,295-311,389-416 2nww d2nwwc1 C:73-108,277-293,295-311,389-416 2nww d2nwwa1 A:73-108,277-293,295-311,389-416 2nwx d2nwxc1 C:73-108,277-293,295-307,389-416 2nwx d2nwxb1 B:73-108,277-293,295-307,389-416 2nwx d2nwxa1 A:73-108,277-293,295-307,389-416 1xfh d1xfhb_ B:73-108,277-293,301-311,389-416 1xfh d1xfha_ A:42-70,73-108,150-171,295-311 1xfh d1xfhc_ C:42-70,73-108,150-171,295-311 2nww d2nwwc1 C:43-70,73-108,150-171,295-311 2nww d2nwwb1 B:42-70,73-108,150-171,295-311 2nww d2nwwa1 A:42-70,73-108,150-171,295-311 12. a.102.2 Seven-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 1g6i d1g6ia_ A:34-58,81-98,101-120,497-514 1dl2 d1dl2a_ A:34-58,81-98,101-120,497-514 1x9d d1x9da1 A:247-269,288-302,303-318,657-673 1fmi d1fmia_ A:247-269,288-302,303-318,657-674 1fo3 d1fo3a_ A:247-269,288-302,303-318,657-674 1fo2 d1fo2a_ A:247-269,288-302,303-318,657-674 1hcu d1hcud_ D:12-35,55-69,70-84,450-466 1nxc d1nxca_ A:191-217,240-254,255-270,605-622 2ri8 d2ri8b1 B:2036-2060,2080-2094,2095-2109,2466-2482 2ri9 d2ri9b1 B:2036-2060,2080-2094,2095-2109,2466-2482 2ri9 d2ri9a1 A:1036-1060,1080-1094,1095-1109,1466-1482 1kkt d1kkta_ A:36-60,80-94,95-109,466-482 1krf d1krfa_ A:36-60,80-94,95-109,466-482 1kre d1kreb_ B:36-60,80-94,95-109,466-482 1kre d1krea_ A:36-60,80-94,95-109,466-482 2ri8 d2ri8a1 A:1036-1060,1080-1094,1095-1109,1466-1482 1kkt d1kktb_ B:36-60,80-94,95-109,466-482 1krf d1krfb_ B:36-60,80-94,95-109,466-482 1hcu d1hcub_ B:12-35,55-69,70-85,450-466 1hcu d1hcua_ A:12-35,55-69,70-85,450-466 1hcu d1hcuc_ C:12-35,55-69,70-85,450-466 13. e.29.1 beta and beta-prime subunits of DNA dependent RNA-polymerase The catalytic site is formed by the association of two double-psi beta-barrel domains, one from each subunit ! beta and beta-prime subunits of DNA dependent RNA-polymerase Multidomain subunits of complex domain organization 1ynj d1ynjc1 C:192-201,203-212,216-225,300-316 2nvz d2nvza1 A:959-972,982-998,1027-1036,1038-1057 1ynn d1ynnc1 C:192-201,203-212,216-225,300-316 2gho d2ghoc1 C:192-201,203-212,215-225,300-316 2o5i d2o5ic1 C:192-201,203-216,215-225,300-316 2ppb d2ppbm1 M:192-201,203-216,215-225,300-316 2ppb d2ppbc1 C:192-201,203-216,215-225,300-316 2o5i d2o5im1 M:192-201,203-216,215-225,300-316 2o5j d2o5jm1 M:192-201,203-216,215-225,300-316 2o5j d2o5jc1 C:192-201,203-216,215-225,300-316 1zyr d1zyrc1 C:192-201,203-213,215-225,300-316 2cw0 d2cw0m1 M:192-201,203-213,215-225,300-316 2a69 d2a69m1 M:192-201,203-213,215-225,300-316 2a69 d2a69c1 C:192-201,203-213,215-225,300-316 1zyr d1zyrm1 M:192-201,203-213,215-225,300-316 2a6h d2a6hc1 C:192-201,203-213,215-225,300-316 2a6h d2a6hm1 M:192-201,203-213,215-225,300-316 2be5 d2be5m1 M:192-201,203-213,215-225,300-316 2a6e d2a6ec1 C:192-201,203-213,215-225,300-316 2be5 d2be5c1 C:192-201,203-213,215-225,300-316 2a68 d2a68c1 C:192-201,203-213,215-225,300-316 2a68 d2a68m1 M:192-201,203-213,215-225,300-316 2a6e d2a6em1 M:192-201,203-213,215-225,300-316 2ja5 d2ja5b1 B:281-290,293-303,307-322,370-391 2r92 d2r92b1 B:281-290,293-303,307-322,370-391 1twh d1twhb_ B:281-290,293-303,307-322,370-391 2ja6 d2ja6b1 B:281-290,293-303,307-322,370-391 1smy d1smyc_ C:192-201,203-213,215-225,300-316 1smy d1smym_ M:192-201,203-213,215-225,300-316 2ja8 d2ja8b1 B:281-290,293-303,307-322,370-391 2b8k d2b8kb1 B:281-290,293-303,307-322,370-391 1twf d1twfb_ B:281-290,293-303,307-322,370-391 1i6h d1i6hb_ B:281-290,293-303,307-322,370-391 1twg d1twgb_ B:281-290,293-303,307-322,370-391 2e2i d2e2ib1 B:281-290,293-303,307-322,370-391 1iw7 d1iw7c_ C:192-201,203-213,215-225,300-316 2ja7 d2ja7b1 B:281-290,293-303,307-322,370-391 1iw7 d1iw7m_ M:192-201,203-213,215-225,300-316 2b63 d2b63b1 B:281-290,293-303,307-322,370-391 2ja7 d2ja7n1 N:281-290,293-303,307-322,370-391 2nvq d2nvqb1 B:281-290,293-303,307-322,370-391 1twa d1twab_ B:281-290,293-303,307-322,370-391 1twc d1twcb_ B:281-290,293-303,307-322,370-391 2r93 d2r93b1 B:281-290,293-303,307-322,370-391 1i50 d1i50b_ B:281-290,293-303,307-322,370-391 2vum d2vumb1 B:281-290,293-303,307-322,370-391 2r7z d2r7zb1 B:281-290,293-303,307-322,370-391 1k83 d1k83b_ B:281-290,293-303,307-322,370-391 3cqz d3cqzb1 B:281-290,293-303,307-322,370-391 2e2j d2e2jb1 B:281-290,293-303,307-322,370-391 2yu9 d2yu9b1 B:281-290,293-303,307-322,370-391 2nvy d2nvyb1 B:281-290,293-303,307-322,370-391 2nvt d2nvtb1 B:281-290,293-303,307-322,370-391 2nvx d2nvxb1 B:281-290,293-303,307-322,370-391 2nvz d2nvzb1 B:281-290,293-303,307-322,370-391 2e2h d2e2hb1 B:281-290,293-303,314-325,370-391 2e2i d2e2ia1 A:959-972,982-998,1015-1027,1038-1057 1twf d1twfa_ A:959-972,982-998,1015-1027,1038-1057 2nvz d2nvza1 A:959-972,982-998,1015-1027,1038-1057 1i6h d1i6ha_ A:959-972,982-998,1015-1027,1038-1057 2b63 d2b63a1 A:959-972,982-998,1015-1027,1038-1057 2e2h d2e2ha1 A:959-972,982-998,1015-1027,1038-1057 2nvx d2nvxa1 A:959-972,982-998,1015-1027,1038-1057 1twh d1twha_ A:959-972,982-998,1015-1027,1038-1057 2e2j d2e2ja1 A:959-972,982-997,1015-1027,1038-1057 2ja6 d2ja6a1 A:959-972,982-998,1015-1027,1038-1058 2ja5 d2ja5a1 A:959-972,982-998,1015-1027,1038-1058 2ja8 d2ja8a1 A:959-972,982-998,1015-1027,1038-1058 2b8k d2b8ka1 A:959-972,982-998,1015-1027,1038-1058 1i6v d1i6vc_ C:192-201,203-213,216-225,302-316 17. 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 3tf4 d3tf4a1 A:5-21,62-81,87-109,426-445 3tf4 d3tf4b1 B:5-21,62-81,87-109,426-445 1ga2 d1ga2b1 B:5-21,62-81,87-109,426-441 1g87 d1g87b1 B:5-21,62-81,87-109,426-441 1kfg d1kfgb1 B:5-21,62-81,87-109,426-441 1js4 d1js4b1 B:5-21,62-81,87-109,430-445 1k72 d1k72b1 B:5-21,62-81,87-109,426-441 4tf4 d4tf4b1 B:5-21,62-81,87-109,430-445 1tf4 d1tf4b1 B:5-21,62-81,87-109,431-445 1tf4 d1tf4a1 A:5-21,62-81,87-109,431-445 1js4 d1js4a1 A:5-21,62-81,88-109,431-445 1ga2 d1ga2a1 A:5-21,62-81,87-109,426-441 4tf4 d4tf4a1 A:5-21,62-81,88-109,430-445 1k72 d1k72a1 A:5-21,62-81,87-109,426-441 1g87 d1g87a1 A:5-21,62-81,88-109,426-441 1kfg d1kfga1 A:5-21,62-81,88-109,426-441 1clc d1clca1 A:137-154,205-224,242-259,557-572 1v7v d1v7va1 A:319-332,347-359,362-378,709-724 1v7x d1v7xa1 A:319-332,347-359,362-378,709-724 1v7w d1v7wa1 A:319-332,347-359,362-378,709-724 1is9 d1is9a_ A:23-39,61-76,77-92,338-354 1v5c d1v5ca_ A:71-91,120-135,138-156,411-427 1kwf d1kwfa_ A:51-71,93-108,109-124,370-386 1v5d d1v5da_ A:71-91,120-135,138-156,411-427 1v5d d1v5db_ B:71-91,120-135,138-156,411-427 1cem d1cema_ A:51-71,93-108,109-124,370-386 2afa d2afaa1 A:8-30,51-69,70-89,383-393 2afa d2afad1 D:8-30,51-69,70-89,383-393 2afa d2afae1 E:8-30,51-69,70-89,383-393 2afa d2afac1 C:8-30,51-69,70-89,383-393 2afa d2afaf1 F:8-30,51-69,70-89,383-393 2afa d2afab1 B:8-30,51-69,70-89,383-393 2fuz d2fuza1 A:1-21,41-59,60-81,350-367 2d5j d2d5jb1 B:1-21,41-59,60-81,350-367 1vd5 d1vd5a_ A:1-21,41-59,60-81,350-367 1lf9 d1lf9b1 B:295-309,341-356,357-376,652-669 1lf9 d1lf9a1 A:295-309,341-356,357-376,652-669 2d5j d2d5ja1 A:1-21,41-59,60-81,350-367 1rq5 d1rq5a1 A:306-323,390-412,434-452,797-815 1lf6 d1lf6b1 B:295-309,341-356,357-376,652-669 1lf6 d1lf6a1 A:295-309,341-356,357-376,652-669 1dog d1doga_ A:1-23,52-70,71-91,415-431 3gly d3glya_ A:1-23,52-70,71-91,415-431 1agm d1agma_ A:1-23,52-70,71-91,415-431 1glm d1glma_ A:1-23,52-70,71-91,415-431 1gah d1gaha_ A:1-23,52-70,71-91,415-431 1ut9 d1ut9a1 A:306-323,390-412,434-452,797-816 1gai d1gaia_ A:1-23,52-70,71-91,415-431 2nvp d2nvpa1 A:25-44,62-77,80-102,408-426 2p0v d2p0va1 A:69-88,107-122,125-147,454-472 2p0v d2p0vb1 B:69-88,107-122,125-147,454-472 2fba d2fbaa1 A:17-38,67-86,88-109,471-492 2f6d d2f6da1 A:17-38,67-86,88-109,471-492 1fp3 d1fp3a_ A:1-31,54-73,77-96,379-402 1fp3 d1fp3b_ B:1-31,54-73,77-96,379-402 18. c.138.1 Indigoidine synthase A-like Indigoidine synthase A-like core: 3 layers, a/b/a; parallel beta-sheet of 7 strands, order 2134756 1vkm d1vkmb_ B:17-26,26-45,63-74,258-284 1vkm d1vkmf_ F:17-26,26-45,63-74,258-284 1vkm d1vkma_ A:17-26,26-45,63-74,258-284 1vkm d1vkmd_ D:17-26,26-45,63-74,258-284 1vkm d1vkme_ E:17-26,26-45,63-74,258-284 1vkm d1vkmc_ C:17-26,26-45,63-74,258-284 23. e.28.1 Reovirus inner layer core protein p3 Reovirus inner layer core protein p3 large protein without apparent domain division; has a number of all-alpha regions and one all beta domain near the C-end 2btv d2btva_ A:274-282,632-645,645-654,662-673 2btv d2btva_ A:122-143,595-625,632-645,678-694 2btv d2btvb_ B:274-282,632-644,645-656,662-673 1uf2 d1uf2b_ B:114-130,663-687,695-712,748-772 2btv d2btvb_ B:122-143,590-625,632-644,678-694 1uf2 d1uf2a_ A:115-136,663-687,695-712,748-772 24. a.110.1 Aldehyde ferredoxin oxidoreductase, C-terminal domains Aldehyde ferredoxin oxidoreductase, C-terminal domains multihelical; consists of two all-alpha domains 1aor d1aorb1 B:213-232,471-492,494-501,502-515 1aor d1aora1 A:213-232,471-492,494-501,502-515 1b25 d1b25d1 D:211-229,467-489,491-499,501-514 1b4n d1b4na1 A:211-229,467-489,491-499,501-514 1b4n d1b4nc1 C:211-229,467-489,491-499,501-514 1b25 d1b25a1 A:211-229,467-489,491-499,501-514 1b4n d1b4nb1 B:211-229,467-489,491-499,501-514 1b25 d1b25b1 B:211-229,467-489,491-499,501-514 1b25 d1b25c1 C:211-229,467-489,491-499,501-514 1b4n d1b4nd1 D:211-229,467-489,491-499,501-514 25. a.29.15 DsbB-like contains an extra helix in a long loop between helices 3 and 4 Bromodomain-like 4 helices; bundle; minor mirror variant of up-and-down topology 2hi7 d2hi7b1 B:14-37,41-62,114-126,142-162 27. a.102.6 LanC-like comprises seven hairpins alpha/alpha toroid multihelical; up to seven alpha-hairpins are arranged in closed circular array; there may be sequence similarities between different superfamilies 2g02 d2g02a1 A:7-27,42-54,58-81,381-395 2g0d d2g0da1 A:7-27,42-54,58-81,381-395 30. a.115.1 A virus capsid protein alpha-helical domain this domain is interrupted by a jelly-roll beta-sandwich domain ! A virus capsid protein alpha-helical domain multihelical; three-helical bundle in the core is surrounded by non-conserved helices 2btv d2btvt1 T:54-74,262-272,275-290,303-324 2btv d2btvr1 R:54-74,262-272,275-290,303-324 2btv d2btvc1 C:54-74,262-272,275-290,303-324 2btv d2btvg1 G:54-74,262-272,275-290,303-324 2btv d2btvj1 J:54-74,262-272,275-290,303-324 2btv d2btvh1 H:54-74,262-272,275-290,303-324 1bvp d1bvp61 6:54-74,262-272,275-290,303-324 1bvp d1bvp31 3:54-74,262-272,275-290,303-324 1bvp d1bvp11 1:54-74,262-272,275-290,303-324 1bvp d1bvp21 2:54-74,262-272,275-290,303-324 1bvp d1bvp41 4:54-74,262-272,275-290,303-324 1bvp d1bvp51 5:54-74,262-272,275-290,303-324 2btv d2btvi1 I:54-74,262-272,275-290,303-324 2btv d2btvs1 S:54-74,262-272,275-290,303-324 2btv d2btvq1 Q:54-74,262-272,275-290,303-324 2btv d2btve1 E:54-74,262-272,275-290,303-324 2btv d2btvf1 F:54-74,262-272,275-290,303-324 2btv d2btvd1 D:54-74,262-272,275-290,303-324 2btv d2btvp1 P:54-74,262-272,275-290,303-324 1uf2 d1uf2d1 D:56-75,324-340,339-362,393-418 1uf2 d1uf2h1 H:56-75,324-340,339-362,393-418 1uf2 d1uf2r1 R:56-75,324-340,339-362,393-418 1uf2 d1uf2g1 G:56-75,324-340,339-362,393-418 1uf2 d1uf2s1 S:56-75,324-340,339-362,393-418 1uf2 d1uf2c1 C:56-75,324-340,340-362,393-418 1uf2 d1uf2p1 P:56-75,324-340,339-362,393-418 1uf2 d1uf2t1 T:56-75,324-340,339-362,393-418 1uf2 d1uf2f1 F:56-75,324-340,340-362,393-418 1uf2 d1uf2i1 I:56-75,324-340,340-362,393-418 1uf2 d1uf2q1 Q:56-75,324-340,340-362,393-418 1uf2 d1uf2j1 J:56-75,324-340,339-362,393-418 1uf2 d1uf2e1 E:56-75,324-340,340-362,393-418 49. d.163.1 DNA breaking-rejoining enzymes DNA breaking-rejoining enzymes core: alpha3-beta3-alpha4; one side of beta-sheet is exposed 1p4e d1p4ed2 D:153-170,171-189,240-253,302-319 1p4e d1p4ec2 C:153-170,171-189,240-253,302-319 1m6x d1m6xc2 C:153-170,171-189,240-253,302-319 1m6x d1m6xd2 D:153-169,171-189,240-253,302-319 1p4e d1p4eb2 B:153-169,171-189,240-253,302-319 1m6x d1m6xa2 A:153-170,171-189,240-253,302-319 1m6x d1m6xb2 B:153-169,171-189,240-253,302-319 1p4e d1p4ea2 A:153-170,171-189,240-252,302-319 1flo d1flod2 D:153-170,171-189,240-253,302-319 1flo d1floc2 C:153-170,171-189,240-253,302-319 1flo d1flob2 B:153-170,171-189,240-253,302-319 1flo d1floa2 A:153-169,171-189,240-253,302-319 1xo0 d1xo0b2 B:138-152,154-171,214-229,287-303 1crx d1crxb2 B:138-152,154-171,214-229,287-303 5crx d5crxb2 B:138-152,154-171,214-229,287-303 1kbu d1kbub2 B:138-152,154-171,214-229,287-303 1pvq d1pvqb2 B:138-152,154-171,214-229,287-303 1pvr d1pvrb2 B:138-152,154-171,214-229,287-303 4crx d4crxb2 B:138-152,154-171,214-229,287-303 1f44 d1f44a2 A:138-152,154-171,214-229,287-303 1ma7 d1ma7b2 B:138-152,154-171,214-229,287-303 1drg d1drga2 A:138-152,154-171,214-229,287-303 1xns d1xnsa2 A:138-150,154-171,214-229,287-303 2hoi d2hoih2 H:138-152,154-171,214-229,287-303 1pvp d1pvpa2 A:138-152,154-171,214-229,287-303 1pvp d1pvpb2 B:138-152,154-171,214-229,287-303 4crx d4crxa2 A:138-152,154-171,214-229,287-303 2crx d2crxb2 B:138-152,154-171,214-229,287-303 2hoi d2hoib2 B:138-152,154-171,214-229,287-303 1ouq d1ouqf2 F:138-152,154-171,214-229,287-303 3crx d3crxb2 B:138-153,154-171,214-229,287-303 3crx d3crxa2 A:138-152,154-171,214-229,287-303 5crx d5crxa2 A:138-152,154-171,214-229,287-303 1ma7 d1ma7a2 A:138-152,154-171,214-229,287-303 1q3u d1q3ub2 B:138-152,154-171,214-229,287-303 1crx d1crxa2 A:138-152,154-171,214-229,287-303 1q3u d1q3uf2 F:138-152,154-171,214-229,287-303 1q3v d1q3vf2 F:138-152,154-171,214-229,287-303 1xns d1xnsb2 B:138-153,154-171,214-229,287-303 2hoi d2hoig2 G:138-152,154-171,214-229,287-303 2crx d2crxa2 A:138-152,154-171,214-229,287-303 1nzb d1nzba2 A:138-152,154-171,214-229,287-303 1q3u d1q3ua2 A:138-152,154-171,214-229,287-303 1pvq d1pvqa2 A:138-152,154-171,214-229,287-303 1xo0 d1xo0a2 A:138-152,154-171,214-229,287-303 1nzb d1nzbf2 F:138-152,154-171,214-229,287-303 1q3v d1q3va2 A:138-152,154-171,214-229,287-303 2hof d2hofb2 B:138-153,154-171,214-229,287-303 1kbu d1kbua2 A:138-152,154-171,214-229,287-303 2hoi d2hoia2 A:138-153,154-171,214-229,287-303 1q3u d1q3ue2 E:138-152,154-171,214-229,287-303 1nzb d1nzbb2 B:138-152,154-171,214-229,287-303 1pvr d1pvra2 A:138-152,154-171,214-229,287-303 1q3v d1q3vb2 B:138-152,154-171,214-229,287-303 2hof d2hofa2 A:138-152,154-171,214-229,287-303 1nzb d1nzbe2 E:138-152,154-171,214-229,287-303 1ouq d1ouqa2 A:138-153,154-171,214-229,287-303 1ouq d1ouqb2 B:138-152,154-171,214-229,287-303 1q3v d1q3ve2 E:138-152,154-171,214-229,287-303 1ouq d1ouqe2 E:138-152,154-171,214-229,287-303 52. a.119.1 Lipoxigenase Lipoxigenase multihelical ! large nearly all-alpha domain 1fgq d1fgqa1 A:254-266,473-519,534-548,740-756 1rrl d1rrlb1 B:272-284,491-538,553-567,759-775 1fgt d1fgta1 A:254-266,473-519,534-548,740-756 1ik3 d1ik3a1 A:272-283,491-538,553-567,759-775 3bnb d3bnba1 A:254-266,472-519,534-548,740-756 2sbl d2sbla1 A:254-266,473-519,534-548,740-756 2sbl d2sblb1 B:254-266,473-519,534-548,740-756 1rrh d1rrha1 A:272-283,491-538,553-567,759-775 1fgo d1fgoa1 A:254-266,473-519,534-548,740-756 1hu9 d1hu9a1 A:272-283,492-538,553-567,759-775 1lnh d1lnha1 A:272-284,491-538,553-567,759-775 1fgr d1fgra1 A:254-266,473-519,534-548,740-756 3bne d3bnea1 A:254-266,473-519,534-548,740-756 3bnd d3bnda1 A:254-266,473-519,534-548,740-756 1yge d1ygea1 A:254-265,473-519,534-548,740-756 1no3 d1no3a1 A:272-284,491-538,553-567,759-775 1rrl d1rrla1 A:272-284,491-538,553-567,759-775 3bnc d3bnca1 A:254-266,473-519,534-548,740-756 1f8n d1f8na1 A:254-265,473-519,534-548,740-756 1n8q d1n8qa1 A:272-283,492-538,553-567,759-775 1fgm d1fgma1 A:254-266,473-519,534-548,740-757 1jnq d1jnqa1 A:272-283,492-538,553-567,759-775 57. f.54.1 SNF-like SNF-like 12 transmembrane helices; duplication: consists of two structurally similar halves 2q6h d2q6ha1 A:136-153,274-307,307-318,320-335 2qju d2qjua1 A:136-153,274-307,307-319,318-335 2qb4 d2qb4a1 A:136-153,274-307,307-319,318-335 2q72 d2q72a1 A:136-153,274-307,307-319,318-335 58. e.10.1 Prokaryotic type I DNA topoisomerase duplication: the protein chain passing through the domains 2-4 makes two structural repeats ! The active site is formed by the toprim and "winged helix" domains (domains 1 and 4); these two domains are also found in the type II topoisomerase (DNA gyrase A) and in the alpha subunit of topoisomerase IV ! Prokaryotic type I DNA topoisomerase 4 domains: (1) Toprim alpha/beta; (2&4) "winged helix"-like; (3) barrel: n=6, S=8 1d6m d1d6ma_ A:196-216,492-503,524-539,567-584 1cy1 d1cy1a_ A:194-214,478-490,493-508,539-556 1cy0 d1cy0a_ A:194-214,478-490,493-508,539-556 1cy4 d1cy4a_ A:194-214,478-490,493-508,539-556 1cy2 d1cy2a_ A:194-214,478-490,493-508,539-556 1ecl d1ecla_ A:194-214,478-490,493-508,539-556 1cy7 d1cy7a_ A:194-214,478-490,493-508,539-556 1mw9 d1mw9x_ X:194-214,478-490,493-508,539-556 1cy8 d1cy8a_ A:194-214,478-490,493-508,539-556 1gl9 d1gl9b3 B:714-733,957-969,972-987,1018-1035 1gl9 d1gl9c3 C:714-735,957-969,972-987,1018-1035 1cy6 d1cy6a_ A:194-214,478-490,493-508,539-556 1gku d1gkub3 B:714-734,957-969,972-987,1018-1035 1mw8 d1mw8x_ X:194-214,478-490,499-508,539-556