Query 005193
Match_columns 709
No_of_seqs 207 out of 1678
Neff 6.3
Searched_HMMs 46136
Date Thu Mar 28 19:35:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005193.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005193hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0187 GyrB Type IIA topoisom 100.0 1E-214 3E-219 1759.2 59.8 622 74-709 3-635 (635)
2 PTZ00109 DNA gyrase subunit b; 100.0 6E-198 1E-202 1691.1 59.8 622 75-701 98-901 (903)
3 TIGR01058 parE_Gpos DNA topois 100.0 1E-195 3E-200 1666.6 62.1 612 75-702 3-630 (637)
4 PRK14939 gyrB DNA gyrase subun 100.0 6E-187 1E-191 1605.9 59.6 623 73-709 3-756 (756)
5 PRK05644 gyrB DNA gyrase subun 100.0 1E-185 3E-190 1589.4 60.5 623 73-709 4-638 (638)
6 PRK05559 DNA topoisomerase IV 100.0 6E-185 1E-189 1583.3 60.2 613 73-702 4-628 (631)
7 TIGR01055 parE_Gneg DNA topois 100.0 4E-182 9E-187 1555.2 55.8 609 75-701 2-624 (625)
8 TIGR01059 gyrB DNA gyrase, B s 100.0 3E-179 6E-184 1546.1 59.2 620 77-709 1-654 (654)
9 PHA02569 39 DNA topoisomerase 100.0 2E-175 5E-180 1490.7 55.4 558 80-697 2-602 (602)
10 PTZ00108 DNA topoisomerase 2-l 100.0 2E-171 4E-176 1534.1 58.8 596 79-705 7-654 (1388)
11 smart00433 TOP2c Topoisomerase 100.0 2E-169 3E-174 1449.7 51.9 580 106-700 1-594 (594)
12 PLN03128 DNA topoisomerase 2; 100.0 2E-168 4E-173 1499.0 59.7 593 79-705 4-647 (1135)
13 PLN03237 DNA topoisomerase 2; 100.0 1E-165 2E-170 1476.4 58.6 586 78-705 28-672 (1465)
14 KOG0355 DNA topoisomerase type 100.0 1E-119 2E-124 1018.2 29.9 588 79-700 5-637 (842)
15 cd03366 TOPRIM_TopoIIA_GyrB TO 100.0 5.7E-57 1.2E-61 406.8 11.4 114 490-604 1-114 (114)
16 cd01030 TOPRIM_TopoIIA_like TO 100.0 7.6E-56 1.7E-60 401.7 10.8 115 490-604 1-115 (115)
17 cd03365 TOPRIM_TopoIIA TOPRIM_ 100.0 9.4E-53 2E-57 383.7 8.8 115 490-604 1-120 (120)
18 cd00822 TopoII_Trans_DNA_gyras 100.0 1E-41 2.2E-46 335.6 20.3 170 292-462 1-171 (172)
19 PF00204 DNA_gyraseB: DNA gyra 100.0 2.5E-40 5.4E-45 326.3 20.4 168 293-462 1-172 (173)
20 cd03481 TopoIIA_Trans_ScTopoII 100.0 1E-30 2.3E-35 252.0 14.7 147 293-451 2-151 (153)
21 PF00986 DNA_gyraseB_C: DNA gy 99.9 8.7E-26 1.9E-30 184.9 5.9 63 634-696 3-65 (65)
22 PRK00095 mutL DNA mismatch rep 99.7 1.3E-16 2.7E-21 186.0 20.2 275 82-405 3-295 (617)
23 PRK04184 DNA topoisomerase VI 99.3 1.3E-10 2.8E-15 132.2 21.0 182 82-276 12-213 (535)
24 TIGR01052 top6b DNA topoisomer 99.3 1.2E-11 2.7E-16 139.0 11.8 183 81-278 3-206 (488)
25 PF01751 Toprim: Toprim domain 99.1 7.7E-11 1.7E-15 106.1 4.6 97 491-602 1-98 (100)
26 TIGR00585 mutl DNA mismatch re 98.9 2.6E-08 5.7E-13 107.5 16.8 275 82-405 3-301 (312)
27 cd00329 TopoII_MutL_Trans MutL 98.7 4.2E-08 9.1E-13 87.9 7.8 100 295-412 2-106 (107)
28 PRK14867 DNA topoisomerase VI 98.6 6E-08 1.3E-12 112.7 8.7 180 82-276 12-210 (659)
29 COG1389 DNA topoisomerase VI, 98.6 2.9E-06 6.3E-11 93.3 18.0 323 81-437 11-466 (538)
30 PRK14868 DNA topoisomerase VI 97.9 4.2E-05 9.2E-10 89.8 9.5 182 81-276 21-219 (795)
31 PRK14939 gyrB DNA gyrase subun 97.6 5.6E-06 1.2E-10 98.3 -2.9 49 639-688 575-624 (756)
32 PF02518 HATPase_c: Histidine 97.3 2.4E-05 5.1E-10 70.7 -2.3 104 104-242 3-111 (111)
33 PRK05218 heat shock protein 90 96.6 0.24 5.2E-06 58.7 22.3 156 108-275 28-210 (613)
34 PRK14083 HSP90 family protein; 94.7 0.42 9.2E-06 56.4 14.0 159 107-276 24-197 (601)
35 cd00075 HATPase_c Histidine ki 93.1 0.1 2.2E-06 44.3 3.6 78 107-194 1-83 (103)
36 COG0323 MutL DNA mismatch repa 91.7 0.31 6.6E-06 58.0 6.5 159 106-276 23-193 (638)
37 cd00188 TOPRIM Topoisomerase-p 91.0 0.28 6.1E-06 40.4 3.9 70 491-586 2-71 (83)
38 PF13589 HATPase_c_3: Histidin 91.0 0.015 3.3E-07 55.3 -4.4 88 108-204 4-98 (137)
39 smart00387 HATPase_c Histidine 87.7 0.57 1.2E-05 40.2 3.5 83 105-197 4-91 (111)
40 PF09239 Topo-VIb_trans: Topoi 87.1 5.2 0.00011 39.2 9.8 88 321-422 42-134 (160)
41 cd00823 TopoIIB_Trans TopoIIB_ 86.8 6.4 0.00014 38.3 10.2 89 321-423 33-126 (151)
42 COG0326 HtpG Molecular chapero 84.7 14 0.00031 43.7 13.6 149 111-277 32-212 (623)
43 PF13581 HATPase_c_2: Histidin 81.8 5.1 0.00011 36.7 7.1 88 106-209 31-125 (125)
44 PTZ00272 heat shock protein 83 80.7 6 0.00013 47.7 8.9 155 110-274 29-206 (701)
45 KOG1978 DNA mismatch repair pr 78.4 3 6.5E-05 49.2 5.2 156 105-277 19-192 (672)
46 PTZ00130 heat shock protein 90 76.8 5 0.00011 48.9 6.6 155 111-275 93-272 (814)
47 TIGR01925 spIIAB anti-sigma F 76.4 4.9 0.00011 37.5 5.3 33 105-137 38-71 (137)
48 TIGR01052 top6b DNA topoisomer 73.3 31 0.00068 40.0 11.6 99 321-434 348-455 (488)
49 PRK04017 hypothetical protein; 71.7 0.84 1.8E-05 43.5 -1.2 29 561-589 64-92 (132)
50 PRK03660 anti-sigma F factor; 70.0 9.8 0.00021 35.8 5.7 83 106-198 39-124 (146)
51 PRK14867 DNA topoisomerase VI 69.1 37 0.00081 40.7 11.3 100 321-435 498-614 (659)
52 PRK04069 serine-protein kinase 66.2 7.6 0.00016 37.9 4.2 95 105-206 41-138 (161)
53 PRK14868 DNA topoisomerase VI 64.3 53 0.0012 40.0 11.3 104 321-435 542-655 (795)
54 KOG1979 DNA mismatch repair pr 58.0 13 0.00029 43.3 4.7 147 108-276 29-197 (694)
55 COG1658 Small primase-like pro 57.8 2.5 5.5E-05 40.0 -0.8 26 559-584 52-77 (127)
56 PF10691 DUF2497: Protein of u 56.9 21 0.00046 30.7 4.7 33 416-448 34-67 (73)
57 cd01027 TOPRIM_RNase_M5_like T 56.8 1.3 2.8E-05 38.6 -2.7 27 562-588 45-71 (81)
58 COG3920 Signal transduction hi 47.1 53 0.0012 34.0 6.8 100 95-211 111-215 (221)
59 PF14501 HATPase_c_5: GHKL dom 44.5 34 0.00074 30.3 4.3 72 106-194 5-80 (100)
60 TIGR02938 nifL_nitrog nitrogen 44.2 19 0.00042 39.9 3.3 20 106-125 387-406 (494)
61 TIGR01386 cztS_silS_copS heavy 42.8 21 0.00045 39.6 3.2 32 106-139 353-384 (457)
62 PRK10337 sensor protein QseC; 42.4 17 0.00036 40.7 2.4 15 180-194 415-429 (449)
63 TIGR01924 rsbW_low_gc serine-p 42.2 58 0.0013 31.7 5.9 93 107-207 43-139 (159)
64 PRK11086 sensory histidine kin 39.1 16 0.00035 41.7 1.6 33 106-138 433-465 (542)
65 COG3290 CitA Signal transducti 38.9 19 0.00041 41.9 2.1 81 107-196 428-511 (537)
66 PRK10549 signal transduction h 38.3 22 0.00047 39.8 2.6 79 107-194 353-436 (466)
67 PRK10364 sensor protein ZraS; 38.1 20 0.00042 40.5 2.1 74 106-194 348-426 (457)
68 PRK09303 adaptive-response sen 37.9 24 0.00052 39.1 2.7 20 105-124 271-290 (380)
69 PRK11006 phoR phosphate regulo 37.3 34 0.00074 38.2 3.9 30 104-135 315-344 (430)
70 COG2172 RsbW Anti-sigma regula 37.3 62 0.0014 31.3 5.2 91 106-209 40-139 (146)
71 PRK15053 dpiB sensor histidine 37.0 33 0.00071 39.5 3.8 34 105-138 431-466 (545)
72 cd01028 TOPRIM_TopoIA TOPRIM_T 36.8 24 0.00053 33.6 2.3 25 562-586 91-115 (142)
73 TIGR02956 TMAO_torS TMAO reduc 36.3 16 0.00035 45.3 1.2 22 104-125 577-598 (968)
74 PRK15347 two component system 29.8 34 0.00074 42.1 2.5 16 179-194 577-592 (921)
75 PRK09470 cpxA two-component se 26.6 32 0.0007 38.2 1.4 26 106-135 353-378 (461)
76 PF14484 FISNA: Fish-specific 26.6 37 0.00079 29.1 1.4 14 489-502 30-43 (73)
77 cd03363 TOPRIM_TopoIA_TopoI TO 25.0 46 0.001 31.2 1.9 24 563-586 74-97 (123)
78 PRK10604 sensor protein RstB; 24.1 91 0.002 35.0 4.4 17 178-194 385-401 (433)
79 PRK11073 glnL nitrogen regulat 24.0 1.2E+02 0.0026 32.4 5.1 29 105-134 236-264 (348)
80 KOG4518 Hydroxypyruvate isomer 23.0 89 0.0019 32.1 3.5 38 96-133 69-106 (264)
81 TIGR00334 5S_RNA_mat_M5 ribonu 22.9 56 0.0012 32.7 2.1 24 561-584 46-69 (174)
82 PF13662 Toprim_4: Toprim doma 22.1 3 6.5E-05 35.8 -6.2 19 562-580 46-64 (81)
83 PRK09835 sensor kinase CusS; P 21.7 65 0.0014 36.1 2.6 30 105-136 374-403 (482)
84 cd00818 IleRS_core catalytic c 21.1 2.8E+02 0.0061 30.5 7.4 97 536-651 90-206 (338)
85 COG2205 KdpD Osmosensitive K+ 21.0 59 0.0013 39.9 2.1 120 66-193 722-856 (890)
86 KOG1413 N-acetylglucosaminyltr 20.7 36 0.00077 37.7 0.2 79 559-657 165-245 (411)
87 PRK04031 DNA primase; Provisio 20.2 70 0.0015 36.2 2.4 52 561-629 209-261 (408)
88 cd03362 TOPRIM_TopoIA_TopoIII 20.1 85 0.0018 30.3 2.7 26 562-587 99-124 (151)
No 1
>COG0187 GyrB Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair]
Probab=100.00 E-value=1.4e-214 Score=1759.22 Aligned_cols=622 Identities=55% Similarity=0.933 Sum_probs=593.9
Q ss_pred CCCCCcccceeccChhhHhhCCCeeeccCCC-CchhHHHHHHHHhhHHhhccCCCCeEEEEEecCCc---------cccc
Q 005193 74 SKTYGSEQIQVLEGLEAVRKRPAMYIGSTGP-RGLHHLVYEILDNAVDEAQAGYASNIEVALLADNS---------IPID 143 (709)
Q Consensus 74 ~~~Y~~~~Iq~L~glE~VrkRPgMYIGst~~-~GL~hlv~EIldNavDe~~~g~~~~I~V~i~~Dgs---------IPvd 143 (709)
..+|++++||+|+||||||||||||||||+. +||||||||||||||||++||||+.|.|+||+||+ ||||
T Consensus 3 ~~~Y~a~~I~vL~GLEaVRkRPGMYIGst~~~~GLhHlv~EVvDNsiDEalaG~~~~I~V~l~~d~sisV~DnGRGIPvd 82 (635)
T COG0187 3 TNNYDASSIQVLEGLEAVRKRPGMYIGSTGDGRGLHHLVWEVVDNSIDEALAGYADRIDVTLHEDGSISVEDNGRGIPVD 82 (635)
T ss_pred cCcCCHhHceeccCcHHhhcCCCceeccCCCCCcceeeEeEeeechHhHHhhCcCcEEEEEEcCCCeEEEEECCCCCccc
Confidence 4679999999999999999999999999999 99999999999999999999999999999999887 9999
Q ss_pred cCCCCCccceEEEEeeeccCCCCCCCCCceeeccCcccccceeeeeecceeEEEEEeCCEEEEEEccCCCCCcceeeecc
Q 005193 144 LHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVL 223 (709)
Q Consensus 144 ~h~~~g~~~~E~v~t~LhaGgkFd~~~~~ykvsGGlhGvGasvvNAlS~~f~Vev~r~Gk~y~q~f~~G~~~~~l~~~~~ 223 (709)
+||++++|++|+|||+||||||||++ +|||||||||||+|||||||+||+|+|+|+|+.|+|+|++|+++++++.+.
T Consensus 83 iH~~~~~~~vEvI~T~LHAGGKFd~~--~YkvSGGLHGVG~SVVNALS~~l~v~v~r~gk~y~q~f~~G~~~~~l~~ig- 159 (635)
T COG0187 83 IHPKEKVSAVEVIFTVLHAGGKFDND--SYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYRQRFERGVPVTPLEVIG- 159 (635)
T ss_pred cCCCCCCCceEEEEEeeccCcccCCC--ccEeecCCCccceEEEecccceEEEEEEECCEEEEEEEeCCCcCCCceecc-
Confidence 99999999999999999999999998 999999999999999999999999999999999999999999999987662
Q ss_pred CCCCCCCCCeEEEEEcCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCcCcceeEeecccHHHHHHHHhc
Q 005193 224 PVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNT 303 (709)
Q Consensus 224 ~~~~~~~~GT~V~F~PD~~iF~~~~~fd~~~l~~Rl~elA~LnpGL~I~l~der~~~~~~~~e~f~~~~Gl~dyv~~l~~ 303 (709)
.+..+++||+|+||||++||++ ..|++++|++||||+|||||||+|.|+|+|.... .. .|||+|||++||+++++
T Consensus 160 -~~~~~~~GT~V~F~PD~~iF~~-~~f~~~~l~~RlrelA~L~~gl~I~l~d~r~~~~--~~-~~~y~~Gl~~yv~~l~~ 234 (635)
T COG0187 160 -STDTKKTGTKVRFKPDPEIFGE-TEFDYEILKRRLRELAFLNKGVKITLTDERTGEE--KK-EFHYEGGLKDYVEYLNK 234 (635)
T ss_pred -cCCCCCCccEEEEEcChHhcCC-cccCHHHHHHHHHHHhccCCCCEEEEEeccCCcc--cc-eeecccHHHHHHHHHhc
Confidence 1346688999999999999986 5899999999999999999999999999997521 12 59999999999999999
Q ss_pred CCCCCCc-eeEEEEeecCeEEEEEEEEcCCCCCceeeeeeCceecCCCccchHHHHHHHHHHHHHHHhhcccCCCCCCCC
Q 005193 304 DKKPLHD-VVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISL 382 (709)
Q Consensus 304 ~~~~l~~-~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~altr~ln~~~kk~~~~K~k~~~l 382 (709)
+++++|+ ++++..+.+++.|||||||+ ++|+++++||||||+|++||||++||+++|+|+||+|+++.+++|+++ +
T Consensus 235 ~k~~l~~~~~~~~~~~~~~~vEvA~q~~-d~~~e~~~SFvNnI~T~eGGTH~~Gfr~altr~in~y~~~~~~~k~~~--l 311 (635)
T COG0187 235 GKTPLHEEIFYFNGEKDGIAVEVALQWN-DGYSENILSFVNNIPTREGGTHEAGFRSALTRAINEYAKKKNLLKEGD--L 311 (635)
T ss_pred CCCccccCceecccCccceEEEEEEEEe-cCCceEEEEeecCccCCCCchHHHHHHHHHHHHHHHHHHHhCcCcccC--C
Confidence 9999995 66667778899999999999 899999999999999999999999999999999999999999988765 9
Q ss_pred CHhhhccceEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005193 383 SGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARD 462 (709)
Q Consensus 383 ~~~dIregL~~vVsvki~nP~FegQTK~kL~n~ev~~~v~~~v~~~l~~~le~np~~~~~I~~k~~~~~kar~aakkare 462 (709)
+++||||||++||||+||||+|+||||+||+|++++.+|++++++.|..||++||.+++.|+++++.+++||+|||+|||
T Consensus 312 ~g~Diregl~aviSvki~~PqFegQTK~KL~n~e~~~~V~~~v~~~~~~~l~enp~~a~~i~~k~i~aa~aR~aarkare 391 (635)
T COG0187 312 TGDDIREGLTAVISVKIPDPQFEGQTKEKLGNSEVRSIVEKLVSEAFSLFLEENPQEAKKIVEKAIAAAKAREAARKARE 391 (635)
T ss_pred CHHHHhhccEEEEEEECCCCCcCcccccccccHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhccccccCCCCCCCCCCCCCCCCCceEEEeecCCCCccccccCCCCceEeeccCcccccccccCHHHhhhcHhHHHH
Q 005193 463 LVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNL 542 (709)
Q Consensus 463 ~~r~k~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qailPLRGKiLNv~ka~~~ki~~N~Ei~~l 542 (709)
++|+|+.++...|||||+||+++||++|||||||||||||||||||||+|||||||||||||||+++.+||++|+||++|
T Consensus 392 ~~R~k~~~~~~~LpGKLadC~skd~~~~ELfiVEGDSAGGSAKqgRdR~~QAILPLRGKiLNVeka~~~kil~N~EI~~i 471 (635)
T COG0187 392 LTRRKSALDIPGLPGKLADCTSKDPEKSELFLVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIQTI 471 (635)
T ss_pred HHhhhcccccCCCCCcCcccccCCcccceEEEEecCCcchhhhhccCccceEEecccCcchhhhhccHhhhhhhHHHHHH
Confidence 99999989999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhcCCccCCcCccccccceeEEEeecCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHH
Q 005193 543 IRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDA 622 (709)
Q Consensus 543 i~alG~g~~~~~~~~~~LRYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~~G~i~~~~tPL~kv~~gk~~~y~ys~~ 622 (709)
++|||||++ ++||+++||||||||||||||||+|||+|||||||||||+||++||||+|+||||||++||++.|+|||.
T Consensus 472 i~AlG~g~~-~~fd~~~LRY~kIiIMTDADvDGaHIrtLLlTfFyr~m~~LIe~G~vyiA~PPLYkv~~~k~~~Y~~~d~ 550 (635)
T COG0187 472 ITALGTGIG-KDFDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMPPLIENGHVYIAQPPLYKVKKGKKTFYAYDDE 550 (635)
T ss_pred HHHhCCCCC-CCCChhhCccCcEEEEecCCCChHHHHHHHHHHHHHHhHHHHHcCcEEEEcCceEEEEcCCceeEeCCHH
Confidence 999999995 4599999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhCCCCCcccceEeeccccCChhhhHhhhcCccceeeeeeccccHHHHHHHHHHhcCCCchHHHHHHHhccccC
Q 005193 623 ELKKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLV 702 (709)
Q Consensus 623 e~~~~~~~~~~~~~~~iqryKGLGem~~~q~~ett~dp~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~RK~~i~~~~~~~ 702 (709)
|+++.++++...++|+||||||||||||+|||||||||++|+|.||+++|+.+|+++|++|||+++++||+||++|+..
T Consensus 551 E~~~~~~~~~~~~~~~IqRyKGLGEMnp~QLwETTmdP~~R~L~~V~i~da~~ad~~f~~LMGd~ve~Rr~fIe~na~~- 629 (635)
T COG0187 551 ELEKLLERLGKKKGYEIQRYKGLGEMNPDQLWETTMDPETRRLLQVTIEDADEADEIFSTLMGDKVEPRRNFIEENALF- 629 (635)
T ss_pred HHHHHHHHhcccCCceeEeecccCCCCHHHHHHhccCccceeEEEEEcccHHHHHHHHHHHcCCCchHHHHHHHHHhhh-
Confidence 9999998875325899999999999999999999999999999999999999999999999999999999999999986
Q ss_pred CcCCCCC
Q 005193 703 NLDHLDI 709 (709)
Q Consensus 703 ~~~~ld~ 709 (709)
..++||
T Consensus 630 -~~~~di 635 (635)
T COG0187 630 -VENLDI 635 (635)
T ss_pred -hhhccC
Confidence 455665
No 2
>PTZ00109 DNA gyrase subunit b; Provisional
Probab=100.00 E-value=5.8e-198 Score=1691.08 Aligned_cols=622 Identities=46% Similarity=0.756 Sum_probs=582.1
Q ss_pred CCCCcccceeccChhhHhhCCCeeeccCCCCchhHHHHHHHHhhHHhhccCCCCeEEEEEecCCc---------cccccC
Q 005193 75 KTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNS---------IPIDLH 145 (709)
Q Consensus 75 ~~Y~~~~Iq~L~glE~VrkRPgMYIGst~~~GL~hlv~EIldNavDe~~~g~~~~I~V~i~~Dgs---------IPvd~h 145 (709)
.+|++++|++|+||||||||||||||||+.+||||||||||||||||+++|+|+.|+|+||+||+ ||||+|
T Consensus 98 ~~Y~a~~I~vLeGLEaVRkRPGMYIGst~~~GLhhLv~EIlDNSVDE~laG~~~~I~V~i~~DgsItV~DnGRGIPvd~h 177 (903)
T PTZ00109 98 SEYDADDIVVLEGLEAVRKRPGMYIGNTDEKGLHQLLFEILDNSVDEYLAGECNKITVVLHKDGSVEISDNGRGIPCDVS 177 (903)
T ss_pred CCCChHhCeehhccHHHhcCCCceeCCCCCCcceEEEEEEeeccchhhccCCCcEEEEEEcCCCeEEEEeCCcccccccc
Confidence 56999999999999999999999999999999999999999999999999999999999998887 999999
Q ss_pred CCCCccceEEEEeeeccCCCCCCC--------------------------------------CCceeeccCcccccceee
Q 005193 146 PATNKSALETVLTVLHAGGKFGGS--------------------------------------SSGYSVSGGLHGVGLSVV 187 (709)
Q Consensus 146 ~~~g~~~~E~v~t~LhaGgkFd~~--------------------------------------~~~ykvsGGlhGvGasvv 187 (709)
|++|+|++|+|||+|||||||+++ +..|++||||||||+|||
T Consensus 178 ~k~g~s~~E~VlT~LhAGGKF~~~~~~~~~~~~~~~~~d~~~~~k~~~~~~~~~~~~~~~~~~~~YkvSGGLHGVG~SVV 257 (903)
T PTZ00109 178 EKTGKSGLETVLTVLHSGGKFQDTFPKNSRSDKSEDKNDTKSSKKGKSSHVKGPKEAKEKESSQMYEYSSGLHGVGLSVV 257 (903)
T ss_pred ccCCCcceeEEEEEeccCccccCcccccccccccccccccccccccccccccccccccccccCCcceecCcCCCcceeee
Confidence 999999999999999999999874 137999999999999999
Q ss_pred eeecceeEEEEEeCCEEEEEEccCCCCCcceeeeccCCCCC-CCCCeEEEEEcC-ccccccccc-------------CCH
Q 005193 188 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSK-DRQGTRIRFWPD-KQVFTTAIQ-------------FDH 252 (709)
Q Consensus 188 NAlS~~f~Vev~r~Gk~y~q~f~~G~~~~~l~~~~~~~~~~-~~~GT~V~F~PD-~~iF~~~~~-------------fd~ 252 (709)
||||+||+|+|+|+|+.|+|+|++|+++.+++.+ +.+ .++||+|+|||| ++||+++.. |++
T Consensus 258 NALS~~l~VeV~RdGK~y~q~F~rG~~v~pLkvi----g~~~~~tGT~VtF~PD~~~IF~~~~~~~~~~~~~~~~~~F~~ 333 (903)
T PTZ00109 258 NALSSFLKVDVFKGGKIYSIELSKGKVTKPLSVF----SCPLKKRGTTIHFLPDYKHIFKTHHQHTETEEEEGCKNGFNL 333 (903)
T ss_pred eeccCeEEEEEEECCEEEEEEeCCCcccCCcccc----CCcCCCCceEEEEEeCcchhcCccccccccccccccccccCH
Confidence 9999999999999999999999999999988655 333 579999999999 999975333 899
Q ss_pred HHHHHHHHHHhhcCCCcEEEEeecCCCCC--cCcceeEeecccHHHHHHHHhcCCCCCC-c--eeEEEEeecCeEEEEEE
Q 005193 253 NTIAGRIRELAFLNPKLTIALRKEDSDPE--KNQYNEYFFAGGLEEYVQWLNTDKKPLH-D--VVGFRKDVDGITIDLAL 327 (709)
Q Consensus 253 ~~l~~Rl~elA~LnpGL~I~l~der~~~~--~~~~e~f~~~~Gl~dyv~~l~~~~~~l~-~--~i~~~~~~~~~~veval 327 (709)
++|++||+|+|||||||+|+|+|+|.+.+ ....+.|+|+|||.+||++++++++++| + ++++.++.+++.|||||
T Consensus 334 d~L~~RLrElAfLNpGL~I~L~DeR~~~~~~~~~~e~f~~egGi~dfv~~ln~~k~~l~~~~~~I~~~g~~~~i~VEVAl 413 (903)
T PTZ00109 334 DLIKNRIHELSYLNPGLTFYLVDERIANENNFYPYETIKHEGGTREFLEELIKDKTPLYKDINIISIRGVIKNVNVEVSL 413 (903)
T ss_pred HHHHHHHHHHhccCCCcEEEEEecCccccCCcceEEEEEecCCHHHHHHHhcCCCCccCCCCceEEEEeeecCeEEEEEE
Confidence 99999999999999999999999985321 1134679999999999999999988887 3 68888877889999999
Q ss_pred EEcCCCCCceeeeeeCceecCCCccchHHHHHHHHHHHHHHHhhcccCCCCCCCCCHhhhccceEEEEEEeecCCCCCCc
Q 005193 328 QWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQ 407 (709)
Q Consensus 328 ~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~altr~ln~~~kk~~~~K~k~~~l~~~dIregL~~vVsvki~nP~FegQ 407 (709)
||++++|+++++||||+|+|+ ||||++||++||+++||+|+++++++|+++.+++++||||||++||||+|+||+|+||
T Consensus 414 q~s~~~y~e~i~SFVNnI~T~-GGTHv~Gfr~ALTr~In~y~kk~~llK~k~~~i~gedIREGLtavISvki~~PqFeGQ 492 (903)
T PTZ00109 414 SWSLESYTALIKSFANNVSTT-AGTHIDGFKYAITRCVNGNIKKNGYFKGNFVNIPGEFIREGMTAIISVKLNGAEFDGQ 492 (903)
T ss_pred EecCCCCceEEEEEECCccCC-CCCHHHHHHHHHHHHHHHHHHHhCcccccCCCCCHHHHhhccEEEEEEeccCCcccCc
Confidence 998558889999999999999 9999999999999999999999998887778999999999999999999999999999
Q ss_pred cccccCCchhhhhhhhhHHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc-cCCCCCCCCCCCCCC
Q 005193 408 TKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLR-SSSLPGKLADCSSTT 486 (709)
Q Consensus 408 TK~kL~n~ev~~~v~~~v~~~l~~~le~np~~~~~I~~k~~~~~kar~aakkare~~r~k~~~~-~~~lpgKL~Dc~~~~ 486 (709)
||+||+|++++.+|+.+|.+.|..||++||+.++.|++|++++++||++||+||+++|+|+... ...|||||+||+++|
T Consensus 493 TK~KLgn~~vk~~ve~iv~e~L~~~l~~np~~a~~I~~Ka~~a~~AreaAk~arel~R~K~~~~~~~~lPgKL~DC~s~d 572 (903)
T PTZ00109 493 TKTKLGNHLLKTILESIVFEQLSEILEFEPNLLLAIYNKSLAAKKAFEEAKAAKDLIRQKNNQYYSTILPGKLVDCISDD 572 (903)
T ss_pred ccccccCHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHhhHHHhhhhhcccccCCCCCcccccccCC
Confidence 9999999999999999999999999999999999999999999999999999999999987764 466999999999999
Q ss_pred CCCceEEEeecCCCCccccccCCCCceEeeccCcccccccccC-HHHhhhcHhHHHHHHHhcCCccCC---cCcc-----
Q 005193 487 PEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKD-EAAMYKNEEIQNLIRALGLGVKGE---DFKK----- 557 (709)
Q Consensus 487 ~~~~eL~lvEGDSA~Gsak~gRdr~~qailPLRGKiLNv~ka~-~~ki~~N~Ei~~li~alG~g~~~~---~~~~----- 557 (709)
+++|||||||||||||||||||||+|||||||||||||||+++ .+||++|+||++||+|||||++.. +||+
T Consensus 573 ~~~~ELfIVEGDSAgGSAKqgRdR~~QAILPLRGKILNVeka~~~~kil~N~EI~~Li~alG~gig~~~~~~~dl~~~~~ 652 (903)
T PTZ00109 573 IERNELFIVEGESAAGNAKQARNREFQAVLPLKGKILNIEKIKNNKKVFENSEIKLLITSIGLSVNPVTWRQYDLSHGTK 652 (903)
T ss_pred CcccEEEEEcccCCCcccccccCccceeecccCCceehhcccccHHHHHhcHHHHHHHHHhCCCCCcccccccCcccccc
Confidence 9999999999999999999999999999999999999999995 999999999999999999999542 6888
Q ss_pred -----------------------ccccceeEEEeecCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeC--
Q 005193 558 -----------------------EALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERG-- 612 (709)
Q Consensus 558 -----------------------~~LRYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~~G~i~~~~tPL~kv~~g-- 612 (709)
++||||||||||||||||+|||+|||||||||||+||++||||+|+||||||++|
T Consensus 653 ~~~~~~~~~~~~~~~~~~~~~~~~~LRYgKIIIMTDADVDGsHIrtLLLTff~r~~p~Lie~G~vyia~pPLyki~~~~~ 732 (903)
T PTZ00109 653 ASKDESVQNNNSTLTKKKNSLFDTPLRYGKIILLTDADVDGEHLRILLLTLLYRFCPSLYEHGRVYVACPPLYRITNNRM 732 (903)
T ss_pred cccccccccccccccccccccccccCCcCeEEEEeCCCCChhHHHHHHHHHHHHhCHHhhhCCEEEEecCCEEEEEecCc
Confidence 9999999999999999999999999999999999999999999999999999985
Q ss_pred ----------CeEEEeeCHHHHHHHHHhCC--------------------------------------------------
Q 005193 613 ----------KQVQYCYDDAELKKVKSSFP-------------------------------------------------- 632 (709)
Q Consensus 613 ----------k~~~y~ys~~e~~~~~~~~~-------------------------------------------------- 632 (709)
|+.+|+|||+|++++++++.
T Consensus 733 ~~~~~~~~~~k~~~y~~sd~el~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 812 (903)
T PTZ00109 733 KQFNVSTKNSKKYIYTWSDEELNVLIKLLNKDYSSKETTRSVEEKGNAPDLDNEYEDEKLDNKNMRENNVDEVELKTELG 812 (903)
T ss_pred ccccccccccceeEEeCCHHHHHHHHHHhhcccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 77899999999999997651
Q ss_pred -------------------C-CCcccceEeeccccCChhhhHhhhcCccceeeeeeccccHHHHHHHHHHhcCCCchHHH
Q 005193 633 -------------------S-NALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRK 692 (709)
Q Consensus 633 -------------------~-~~~~~iqryKGLGem~~~q~~ett~dp~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~RK 692 (709)
. .++++||||||||||+|+|||||||||++|.|.||+++|+.+|+++|++|||+++++||
T Consensus 813 ~~~~~~~~~~~~~~~~~~~~~~~~~~iqRfKGLGEM~~~qLweTTMdP~~R~L~rv~v~d~~~a~~~~~~LMG~~~~~Rk 892 (903)
T PTZ00109 813 TNVADTEQTDELDINKAFFKFSKHYEIQRFKGLGEMMADQLWETTMDPKKRILIRITVSDAMRASELIFLLMGEDVQSRK 892 (903)
T ss_pred cccccccccccccccccccccCCcccceeeccHhhhhHHHHHHhhhChhhceeeeeeHHHHHHHHHHHHHHhCCCChhhH
Confidence 0 23689999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhcccc
Q 005193 693 ELIQNAANL 701 (709)
Q Consensus 693 ~~i~~~~~~ 701 (709)
+||++|+..
T Consensus 893 ~fI~~n~~~ 901 (903)
T PTZ00109 893 QFIFENSPA 901 (903)
T ss_pred HHHHhhccc
Confidence 999999875
No 3
>TIGR01058 parE_Gpos DNA topoisomerase IV, B subunit, Gram-positive. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation step of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=100.00 E-value=1.2e-195 Score=1666.61 Aligned_cols=612 Identities=49% Similarity=0.815 Sum_probs=580.7
Q ss_pred CCCCcccceeccChhhHhhCCCeeeccCCCCchhHHHHHHHHhhHHhhccCCCCeEEEEEecCCc---------cccccC
Q 005193 75 KTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNS---------IPIDLH 145 (709)
Q Consensus 75 ~~Y~~~~Iq~L~glE~VrkRPgMYIGst~~~GL~hlv~EIldNavDe~~~g~~~~I~V~i~~Dgs---------IPvd~h 145 (709)
.+|++++||+|+|+||||+|||||||||+++||||||||||||||||+++|+|+.|+|+||+||+ |||++|
T Consensus 3 ~~Y~~~~i~~L~glE~VRkRPgMYIGst~~~GL~hlv~EIvdNavDE~~ag~~~~I~V~i~~dgsitV~DnGrGIPv~~h 82 (637)
T TIGR01058 3 SKYNADAIKILEGLDAVRKRPGMYIGSTDSKGLHHLVWEIVDNSVDEVLAGYADNITVTLHKDNSITVQDDGRGIPTGIH 82 (637)
T ss_pred CccCHHHCeeecccHHHhcCCCCeECCCCcchhheehhhhhcchhhhhhcCCCcEEEEEEcCCCeEEEEECCCcccCccc
Confidence 35999999999999999999999999999999999999999999999999999999999998876 999999
Q ss_pred CCCCccceEEEEeeeccCCCCCCCCCceeeccCcccccceeeeeecceeEEEEEeCCEEEEEEccCC-CCCcceeeeccC
Q 005193 146 PATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRG-KPVTTLTCHVLP 224 (709)
Q Consensus 146 ~~~g~~~~E~v~t~LhaGgkFd~~~~~ykvsGGlhGvGasvvNAlS~~f~Vev~r~Gk~y~q~f~~G-~~~~~l~~~~~~ 224 (709)
|++++|++|+|||+||||||||++ +|++||||||||+|||||||+||+|+|+|+|+.|.|+|++| .++.+++.+
T Consensus 83 ~~~~~~~~E~v~t~LhaGgkfd~~--~ykvSGGlhGvG~svvNAlS~~~~V~v~r~gk~~~q~f~~Gg~~~~~l~~~--- 157 (637)
T TIGR01058 83 QDGNISTVETVFTVLHAGGKFDQG--GYKTAGGLHGVGASVVNALSSWLEVTVKRDGQIYQQRFENGGKIVQSLKKI--- 157 (637)
T ss_pred CcCCCccceeEEEEecccCcCCCC--cccccCCcccccccccceeeceEEEEEEECCEEEEEEEecCCcCcCCcccc---
Confidence 999999999999999999999988 99999999999999999999999999999999999999997 788877554
Q ss_pred CCCCCCCCeEEEEEcCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCcCcceeEeecccHHHHHHHHhcC
Q 005193 225 VDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTD 304 (709)
Q Consensus 225 ~~~~~~~GT~V~F~PD~~iF~~~~~fd~~~l~~Rl~elA~LnpGL~I~l~der~~~~~~~~e~f~~~~Gl~dyv~~l~~~ 304 (709)
+.+.++||+|+||||++||++ ..||+++|.+||+|+|||||||+|+|+|+|.+ ..+.|||++||.+|+++++.+
T Consensus 158 -~~~~~~GT~V~F~PD~~iF~~-~~f~~d~l~~RlrelA~Ln~GL~I~l~der~~----~~~~f~~~~Gl~~yv~~l~~~ 231 (637)
T TIGR01058 158 -GTTKKTGTLVHFHPDPTIFKT-TQFNSNIIKERLKESAFLLKKLKLTFTDKRTN----KTTVFFYENGLVDFVDYINET 231 (637)
T ss_pred -cCCCCCceEEEEEeCHHHcCC-CccCHHHHHHHHHHHhccCCCcEEEEEecCCC----ceEEEEcCcCHHHHHHHhcCC
Confidence 445679999999999999974 57999999999999999999999999999854 245699999999999999988
Q ss_pred CCCCCceeEEEEeecCeEEEEEEEEcCCCCCceeeeeeCceecCCCccchHHHHHHHHHHHHHHHhhcccCCCCCCCCCH
Q 005193 305 KKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSG 384 (709)
Q Consensus 305 ~~~l~~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~altr~ln~~~kk~~~~K~k~~~l~~ 384 (709)
+++++++++|.++.+++.||||++|+ ++|+++++||||+|+|++|||||+||+++|+++||+|+++++++|+++.++++
T Consensus 232 k~~l~~~i~~~~~~~~~~vevAl~~~-~~~~e~~~SFvN~I~T~~GGTHv~g~~~aLtr~in~~~~~~~~lK~~~~~i~~ 310 (637)
T TIGR01058 232 KETLSQVTYFEGEKNGIEVEVAFQFN-DGDSENILSFANSVKTKEGGTHENGFKLAITDVINSYARKYNLLKEKDKNLEG 310 (637)
T ss_pred CCcCCccEEEEEEECCcEEEEEEEEc-CCCCeEEEEeECCccCCCCCcHHHHHHHHHHHHHHHHHHHhchhccccccCCh
Confidence 88887888898887889999999999 68888999999999999999999999999999999999998888877789999
Q ss_pred hhhccceEEEEEEeecCC--CCCCccccccCCchhhhhhhhhHHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005193 385 EHVREGLTCIISVRVPNP--EFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARD 462 (709)
Q Consensus 385 ~dIregL~~vVsvki~nP--~FegQTK~kL~n~ev~~~v~~~v~~~l~~~le~np~~~~~I~~k~~~~~kar~aakkare 462 (709)
+||||||++||||++++| +|+||||++|+|++++.+|++++.+.|..||++||+.++.|+++++.+++||+|||++|+
T Consensus 311 ~diregL~~vIsvki~~pnP~FegQTK~kL~n~~v~~~v~~~v~e~l~~~l~~np~~a~~Iiek~~~~a~aR~aa~~ar~ 390 (637)
T TIGR01058 311 SDIREGLSAIISVRIPEELIQFEGQTKSKLFSPEARNVVDEIVQDHLFFFLEENNNDAKLLIDKAIKARDAKEAAKKARE 390 (637)
T ss_pred hhHhhccEEEEEEecCCCcccccCcccccccChhHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999755 999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhc--cccccCCCCCCCCCCCCCCCCCceEEEeecCCCCccccccCCCCceEeeccCcccccccccCHHHhhhcHhHH
Q 005193 463 LVRQK--SVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQ 540 (709)
Q Consensus 463 ~~r~k--~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qailPLRGKiLNv~ka~~~ki~~N~Ei~ 540 (709)
+.|+| +......|||||+||+++++++|||||||||||||||||||||+|||||||||||||||+++.+||++|+||+
T Consensus 391 ~~r~~~k~~~~~~~lpgKL~dc~~~~~~~~eLfivEGDSAggsak~gRdr~~qailPLRGKiLNv~ka~~~ki~~N~Ei~ 470 (637)
T TIGR01058 391 EKKSGKKPKKEKGILSGKLTPAQSKNPAKNELFLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNVEKAKLADILKNEEIN 470 (637)
T ss_pred HHhhccccccccCCCCcccccccCCCCCccEEEEEecCccccccccccccceEEEeccCCcccccccCCHHHHhcchHHH
Confidence 99974 3556667999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcCCccCCcCccccccceeEEEeecCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeC--CeEEEe
Q 005193 541 NLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERG--KQVQYC 618 (709)
Q Consensus 541 ~li~alG~g~~~~~~~~~~LRYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~~G~i~~~~tPL~kv~~g--k~~~y~ 618 (709)
+|++|||||+ +++||+++||||||||||||||||+|||||||||||||||+||++||||+|+||||||++| +++.||
T Consensus 471 ~l~~alG~~~-g~~~~~~~LRY~kIiImTDADvDGsHIr~LLltff~r~~p~Li~~G~v~~~~~Pl~kv~~~~~~~~~y~ 549 (637)
T TIGR01058 471 TIIFCIGTGI-GADFSIKDLKYDKIIIMTDADTDGAHIQVLLLTFFYRYMRPLIELGHVYIALPPLYKLSKKDGKKVKYA 549 (637)
T ss_pred HHHHHhCCCc-CccCCccccccceEEEEeCCCCCcchhHHHHHHHHHHhCHhhccCCeEEEecCCEEEEEeCCCceEEEe
Confidence 9999999999 5779999999999999999999999999999999999999999999999999999999985 678899
Q ss_pred eCHHHHHHHHHhCCCCCcccceEeeccccCChhhhHhhhcCccceeeeeeccccHHHHHHHHHHhcCCCchHHHHHHHhc
Q 005193 619 YDDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNA 698 (709)
Q Consensus 619 ys~~e~~~~~~~~~~~~~~~iqryKGLGem~~~q~~ett~dp~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~RK~~i~~~ 698 (709)
||++|+++|+++. ++|+||||||||||+|+|||||||||++|+|.||+++|+..++.+|++|||+++++||+||+++
T Consensus 550 ~~~~e~~~~~~~~---~~~~i~ryKGLGem~~~~l~ettm~p~~r~l~~v~~~d~~~~~~~~~~lmg~~~~~Rk~~i~~~ 626 (637)
T TIGR01058 550 WSDLELESVKKKL---KNYTLQRYKGLGEMNADQLWETTMNPETRTLVRVKIDDLARAERQINTLMGDKVEPRKKWIEAN 626 (637)
T ss_pred CCHHHHHHHHHhc---CCCCceEECchhhhhHHHHHHHhhCcccceeeEEehhhhhhHHHHHHHHcCCCchHHHHHHHHh
Confidence 9999999999874 4699999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccC
Q 005193 699 ANLV 702 (709)
Q Consensus 699 ~~~~ 702 (709)
+..+
T Consensus 627 ~~~~ 630 (637)
T TIGR01058 627 INFS 630 (637)
T ss_pred hhhh
Confidence 9654
No 4
>PRK14939 gyrB DNA gyrase subunit B; Provisional
Probab=100.00 E-value=6.4e-187 Score=1605.88 Aligned_cols=623 Identities=51% Similarity=0.869 Sum_probs=589.9
Q ss_pred CCCCCCcccceeccChhhHhhCCCeeeccCCC-CchhHHHHHHHHhhHHhhccCCCCeEEEEEecCCc---------ccc
Q 005193 73 VSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGP-RGLHHLVYEILDNAVDEAQAGYASNIEVALLADNS---------IPI 142 (709)
Q Consensus 73 ~~~~Y~~~~Iq~L~glE~VrkRPgMYIGst~~-~GL~hlv~EIldNavDe~~~g~~~~I~V~i~~Dgs---------IPv 142 (709)
.+++|++++||+|+|+||||||||||||||+. +||||||||||||||||+++|||+.|.|+|++||+ ||+
T Consensus 3 ~~~~Y~a~~i~vL~gle~VRkRPgMYIGst~~~~GLhhlv~EivdNaiDE~~AG~a~~I~V~i~~dgsIsV~DnGrGIPv 82 (756)
T PRK14939 3 MSNSYGASSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGIPT 82 (756)
T ss_pred ccCCCCHHHCeEecccHHHhcCCCCeeCCCCCCcchhhhhhHhhcccccccccCCCCEEEEEEcCCCeEEEEEcCCcccC
Confidence 45669999999999999999999999999999 99999999999999999999999999999998776 999
Q ss_pred ccCCCCCccceEEEEeeeccCCCCCCCCCceeeccCcccccceeeeeecceeEEEEEeCCEEEEEEccCCCCCcceeeec
Q 005193 143 DLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHV 222 (709)
Q Consensus 143 d~h~~~g~~~~E~v~t~LhaGgkFd~~~~~ykvsGGlhGvGasvvNAlS~~f~Vev~r~Gk~y~q~f~~G~~~~~l~~~~ 222 (709)
++||++|+|++|++||+|||||||+++ .|++|||+||||+|||||||+||+|+|+|+|+.|+|+|++|+++.+++.+
T Consensus 83 d~h~~~g~~~~Elvlt~lhAggKfd~~--~ykvSgGlhGvG~svvNAlS~~l~v~v~r~gk~~~q~f~~G~~~~~l~~~- 159 (756)
T PRK14939 83 DIHPEEGVSAAEVIMTVLHAGGKFDQN--SYKVSGGLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHGVPVAPLKVV- 159 (756)
T ss_pred CcccccCCchhhheeeeecccCCCCCC--cccccCCccCccceEeehccCeEEEEEEeCCeEEEEEEecCccccCcccc-
Confidence 999999999999999999999999987 99999999999999999999999999999999999999999999887654
Q ss_pred cCCCCCCCCCeEEEEEcCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCcCcceeEeecccHHHHHHHHh
Q 005193 223 LPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLN 302 (709)
Q Consensus 223 ~~~~~~~~~GT~V~F~PD~~iF~~~~~fd~~~l~~Rl~elA~LnpGL~I~l~der~~~~~~~~e~f~~~~Gl~dyv~~l~ 302 (709)
+.+.++||+|+|+||+++|++ ..|++++|.+|++++|||||||+|+|+|+|.+ ..+.|+|+|||.+|+++++
T Consensus 160 ---g~~~~~GT~V~F~PD~~iF~~-~~~~~~~i~~rl~elA~lnpgl~i~l~der~~----~~~~f~~egGi~~fv~~l~ 231 (756)
T PRK14939 160 ---GETDKTGTEVRFWPSPEIFEN-TEFDYDILAKRLRELAFLNSGVRIRLKDERDG----KEEEFHYEGGIKAFVEYLN 231 (756)
T ss_pred ---CCcCCCCcEEEEEECHHHcCC-cccCHHHHHHHHHHHhhcCCCCEEEEeccCCC----ceeEEEeCChHHHHHHHHh
Confidence 445679999999999999964 57999999999999999999999999999864 3568999999999999999
Q ss_pred cCCCCCC-ceeEEEEeecCeEEEEEEEEcCCCCCceeeeeeCceecCCCccchHHHHHHHHHHHHHHHhhcccCCCCCCC
Q 005193 303 TDKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDIS 381 (709)
Q Consensus 303 ~~~~~l~-~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~altr~ln~~~kk~~~~K~k~~~ 381 (709)
.+++++| ++++|.++.+++.||||+||+ ++|+++++||||||+|++||||++||+++|+++||+|+++.++.|+++.+
T Consensus 232 ~~~~~~~~~~i~~~~~~~~~~veval~~~-~~~~e~~~SFvN~I~T~~GGTHv~gf~~altr~in~y~~~~~l~K~~~~~ 310 (756)
T PRK14939 232 RNKTPLHPNIFYFSGEKDGIGVEVALQWN-DSYQENVLCFTNNIPQRDGGTHLAGFRAALTRTINNYIEKEGLAKKAKVS 310 (756)
T ss_pred cCCCcCCCCceEEEeeeCCeEEEEEEEEc-CCCceeEEEEECcccCCCCCCHHHHHHHHHHHHHHHHHHHhCcccccCCC
Confidence 8888887 678888888889999999999 78989999999999999999999999999999999999998888877789
Q ss_pred CCHhhhccceEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHH
Q 005193 382 LSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRAR 461 (709)
Q Consensus 382 l~~~dIregL~~vVsvki~nP~FegQTK~kL~n~ev~~~v~~~v~~~l~~~le~np~~~~~I~~k~~~~~kar~aakkar 461 (709)
++++||||||++||||+++||+|+||||++|+|++++.+|++++.+.|..||++||+.++.|+++++.+++||+||++||
T Consensus 311 l~~~diregl~~vvsvki~~P~FegQTK~kL~n~ev~~~v~~~v~e~l~~~l~~np~~a~~ii~k~~~aa~aR~aa~kar 390 (756)
T PRK14939 311 LTGDDAREGLTAVLSVKVPDPKFSSQTKDKLVSSEVRPAVESLVNEKLSEFLEENPNEAKIIVGKIIDAARAREAARKAR 390 (756)
T ss_pred CCHhHHhhceEEEEEEecCCCcccCchhccccCHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhccccccCCCCCCCCCCCCCCCCCceEEEeecCCCCccccccCCCCceEeeccCcccccccccCHHHhhhcHhHHH
Q 005193 462 DLVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQN 541 (709)
Q Consensus 462 e~~r~k~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qailPLRGKiLNv~ka~~~ki~~N~Ei~~ 541 (709)
++.|||+.++...|||||+||+++||++|||||||||||||||||||||+|||||||||||||||+++.+||++|+||++
T Consensus 391 ~~~rrK~~~~~~~lpgKL~Dc~~~d~~~~eLfivEGDSAgGsAk~gRdr~~qailPLRGKiLNveka~~~kil~N~Ei~~ 470 (756)
T PRK14939 391 ELTRRKGALDIAGLPGKLADCQEKDPALSELYLVEGDSAGGSAKQGRDRKFQAILPLKGKILNVEKARFDKMLSSQEIGT 470 (756)
T ss_pred HHhccccccccCCCCCCccccccCCCCceEEEEEeCCCCccccccccCccceeccccCCccchhccCCHHHHhcCHHHHH
Confidence 99999999888999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhcCCccCCcCccccccceeEEEeecCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCH
Q 005193 542 LIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDD 621 (709)
Q Consensus 542 li~alG~g~~~~~~~~~~LRYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~~G~i~~~~tPL~kv~~gk~~~y~ys~ 621 (709)
||+|||||++.++||+++||||||||||||||||+|||||||||||||||+||++||||+|+||||||++||+++||||+
T Consensus 471 li~alG~gig~~~fd~~~LRY~kIiIMTDADvDGsHIrtLLltff~r~~p~Lie~G~vyia~pPLykv~~gk~~~y~~~~ 550 (756)
T PRK14939 471 LITALGCGIGRDEFNPDKLRYHKIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGHLYIAQPPLYKVKKGKQEQYLKDD 550 (756)
T ss_pred HHHHhCCCCCcccCChhhCCcCeEEEEcCCCCCchHHHHHHHHHHHHhChhhccCCeEEEecCcEEEEecCCeeEecCCH
Confidence 99999999954689999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhCCC-C------------------------------------------------------------------
Q 005193 622 AELKKVKSSFPS-N------------------------------------------------------------------ 634 (709)
Q Consensus 622 ~e~~~~~~~~~~-~------------------------------------------------------------------ 634 (709)
+|+++|+.+++. +
T Consensus 551 ~e~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 630 (756)
T PRK14939 551 EALDDYLIELALEGATLHLADGPAISGEALEKLVKEYRAVRKIIDRLERRYPRAVLEALIYAPALDLDDLADEAAVAALD 630 (756)
T ss_pred HHHHHHHHHhCcCCceeecCCCCcccHHHHHHHHHHHHHHHHHHhHHhccccHHHHHHHHhccccchhhhcchhhhhhcc
Confidence 999999765310 0
Q ss_pred -----------------------------------------------------CcccceEeeccccCChhhhHhhhcCcc
Q 005193 635 -----------------------------------------------------ALYSIQRFKGLGEMMPVQLWETTLNPE 661 (709)
Q Consensus 635 -----------------------------------------------------~~~~iqryKGLGem~~~q~~ett~dp~ 661 (709)
++..||||||||||+|+|+|+|||||.
T Consensus 631 ~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ell~~v~~~gr~g~~Iqr~KgLgEM~~eqL~eTtmdp~ 710 (756)
T PRK14939 631 ADFLTSAEYRRLVELAEKLRGLIEEGAYLERGERKQPVSSFEEALDWLLAEARKGLSIQRYKGLGEMNPEQLWETTMDPE 710 (756)
T ss_pred hhhhcCHHHHHHHHHHHHHHHHhccCcEEEcCCcceecCCHHHHHHHHHhhhccCccccccccHHHhHHHHHHHHhhChh
Confidence 011289999999999999999999999
Q ss_pred ceeeeeeccccHHHHHHHHHHhcCCCchHHHHHHHhccccCCcCCCCC
Q 005193 662 QRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLVNLDHLDI 709 (709)
Q Consensus 662 ~r~l~~v~~~d~~~~~~~f~~lmg~~~~~RK~~i~~~~~~~~~~~ld~ 709 (709)
+|++.|+.++|+..++++|+.|||+.+++||+||+.++. .+++||+
T Consensus 711 ~R~l~~v~led~~~a~~~f~~lMg~~ve~rr~fI~~~a~--~v~~LD~ 756 (756)
T PRK14939 711 NRRLLQVTIEDAIAADEIFTTLMGDEVEPRREFIEENAL--NVANLDV 756 (756)
T ss_pred heeeeeeehhhHHHHHHHHHHHhcCCcchhHHHHHHhhh--hHhhcCC
Confidence 999999999999999999999999999999999999998 3466885
No 5
>PRK05644 gyrB DNA gyrase subunit B; Validated
Probab=100.00 E-value=1.2e-185 Score=1589.40 Aligned_cols=623 Identities=59% Similarity=0.963 Sum_probs=589.3
Q ss_pred CCCCCCcccceeccChhhHhhCCCeeeccCCCCchhHHHHHHHHhhHHhhccCCCCeEEEEEecCCc---------cccc
Q 005193 73 VSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNS---------IPID 143 (709)
Q Consensus 73 ~~~~Y~~~~Iq~L~glE~VrkRPgMYIGst~~~GL~hlv~EIldNavDe~~~g~~~~I~V~i~~Dgs---------IPvd 143 (709)
.+++|++++||+|+|+||||+||||||||++++||||+||||||||+||+++|+|+.|+|+|++||+ ||++
T Consensus 4 ~~~~Y~~~~i~~L~~lE~Vr~RPgMYiGs~~~~gl~~~v~ElvdNaiDe~~ag~a~~I~V~i~~~g~I~V~DnG~GIp~~ 83 (638)
T PRK05644 4 KAQEYDASQIQVLEGLEAVRKRPGMYIGSTGERGLHHLVYEIVDNSIDEALAGYCDHIEVTINEDGSITVTDNGRGIPVD 83 (638)
T ss_pred ccCCCCHHHCeEecchHHHhcCCCceECCCChhhHHhhhHHhhhcccccccCCCCCEEEEEEeCCCcEEEEEeCccccCC
Confidence 3466999999999999999999999999999999999999999999999999999999999998766 9999
Q ss_pred cCCCCCccceEEEEeeeccCCCCCCCCCceeeccCcccccceeeeeecceeEEEEEeCCEEEEEEccCCCCCcceeeecc
Q 005193 144 LHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVL 223 (709)
Q Consensus 144 ~h~~~g~~~~E~v~t~LhaGgkFd~~~~~ykvsGGlhGvGasvvNAlS~~f~Vev~r~Gk~y~q~f~~G~~~~~l~~~~~ 223 (709)
.|+.++++.+|+|||+||||||||++ .|++|||+||+|+++|||||++|+|+++|+|+.|+|+|++|+++.+++.+
T Consensus 84 ~h~~~ki~~~e~i~~~lhag~kfd~~--~yk~s~G~~G~Gls~vnalS~~~~v~t~r~g~~~~~~~~~G~~~~~~~~~-- 159 (638)
T PRK05644 84 IHPKTGKPAVEVVLTVLHAGGKFGGG--GYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYYQEYERGVPVTPLEVI-- 159 (638)
T ss_pred ccCCCCCCchHHheeeecccCccCCC--cccccCCccccchhhhhheeceEEEEEEeCCcEEEEEEECCeEccCcccc--
Confidence 99999999999999999999999998 99999999999999999999999999999999999999999998776544
Q ss_pred CCCCCCCCCeEEEEEcCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCcCcceeEeecccHHHHHHHHhc
Q 005193 224 PVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNT 303 (709)
Q Consensus 224 ~~~~~~~~GT~V~F~PD~~iF~~~~~fd~~~l~~Rl~elA~LnpGL~I~l~der~~~~~~~~e~f~~~~Gl~dyv~~l~~ 303 (709)
+.+.++||+|+|+||+++|+ ...++++.|.+|++++|+|||||+|+|++++.+. ...+.|+|++||.+|+++++.
T Consensus 160 --~~~~~~GT~I~F~Pd~~~F~-~~~~e~~~i~~rl~~~A~l~pgl~i~l~~er~~~--~~~~~f~~~~Gl~dyv~~l~~ 234 (638)
T PRK05644 160 --GETDETGTTVTFKPDPEIFE-TTEFDYDTLATRLRELAFLNKGLKITLTDEREGE--EKEETFHYEGGIKEYVEYLNR 234 (638)
T ss_pred --CCcCCCCcEEEEEECHHHcC-CcccCHHHHHHHHHHHHhhCCCcEEEEEeccCCC--cceeEEEcCCCHHHHHHHHhc
Confidence 34467999999999999996 4579999999999999999999999999998531 235679999999999999998
Q ss_pred CCCCCC-ceeEEEEeecCeEEEEEEEEcCCCCCceeeeeeCceecCCCccchHHHHHHHHHHHHHHHhhcccCCCCCCCC
Q 005193 304 DKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISL 382 (709)
Q Consensus 304 ~~~~l~-~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~altr~ln~~~kk~~~~K~k~~~l 382 (709)
++++++ +++++.++.+++.||||++|+ ++|+++++||||+|+|++|||||+||+++|+++||+|+++++++|+++.++
T Consensus 235 ~~~~~~~~~i~~~~~~~~~~veval~~~-~~~~~~~~SFvN~I~T~~GGTHv~g~~~al~~~l~~~~~k~~~~Kk~~~~i 313 (638)
T PRK05644 235 NKEPLHEEPIYFEGEKDGIEVEVAMQYN-DGYSENILSFANNINTHEGGTHEEGFKTALTRVINDYARKNKLLKEKDDNL 313 (638)
T ss_pred CCCcCCCCCeEEEeeccCeEEEEEEEec-CCCceEEEEEECcccCCCCCCHHHHHHHHHHHHHHHHHHHhCcccccCCCC
Confidence 888887 578887776778999999999 678889999999999999999999999999999999999988877777899
Q ss_pred CHhhhccceEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005193 383 SGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARD 462 (709)
Q Consensus 383 ~~~dIregL~~vVsvki~nP~FegQTK~kL~n~ev~~~v~~~v~~~l~~~le~np~~~~~I~~k~~~~~kar~aakkare 462 (709)
+++|||+||++||||+|+||+|+||||++|+|++++.+|++++.+.|..||++||+.++.|+++++.++++|++++++|+
T Consensus 314 ~~~dIregl~~vVsv~i~nP~F~gQTKekL~~~~v~~~v~~~v~~~l~~~l~~n~~~~~~I~~~~~~~a~~r~~a~~~k~ 393 (638)
T PRK05644 314 TGEDVREGLTAVISVKHPEPQFEGQTKTKLGNSEVRGIVDSVVSEALSEFLEENPNVAKKIVEKAILAARAREAARKARE 393 (638)
T ss_pred ChhHHhhceEEEEEEecCCCcccCcccccccCHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhccccccCCCCCCCCCCCCCCCCCceEEEeecCCCCccccccCCCCceEeeccCcccccccccCHHHhhhcHhHHHH
Q 005193 463 LVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNL 542 (709)
Q Consensus 463 ~~r~k~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qailPLRGKiLNv~ka~~~ki~~N~Ei~~l 542 (709)
..|+|+.++...|||||+||+++++++|||||||||||||||+|||||+||||||||||||||++++.+||++|+||++|
T Consensus 394 ~~r~k~~~~~~~lpgKL~dc~~~~~~~~eLflvEGDSA~gsak~grdr~~qailPLrGKiLNv~~a~~~ki~~N~Ei~~l 473 (638)
T PRK05644 394 LTRRKSALESSSLPGKLADCSSKDPEESELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRAL 473 (638)
T ss_pred HhhcccccccCCCCchhcccccCCCCccEEEEEecCCCccccccccCccceeecccCCceeccccCCHHHHHhCHHHHHH
Confidence 99998888778999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhcCCccCCcCccccccceeEEEeecCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHH
Q 005193 543 IRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDA 622 (709)
Q Consensus 543 i~alG~g~~~~~~~~~~LRYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~~G~i~~~~tPL~kv~~gk~~~y~ys~~ 622 (709)
++|||||+ +++||+++|||||||||||||+||+|||+|||||||||||+||++||||+|+||||||++||++ ||||++
T Consensus 474 ~~alG~~~-~~~~~~~~LRY~kiiImtDaD~DG~HI~~Llltff~~~~p~Li~~G~l~~~~~Pl~kv~~gk~~-~~~~~~ 551 (638)
T PRK05644 474 ITALGTGI-GDDFDISKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGYVYIAQPPLYKIKKGGKE-YAYSDE 551 (638)
T ss_pred HHHhCCCC-CCcCChhhCccCeEEEEeCCCCCchHHHHHHHHHHHHhCHHhccCCeEEEecCCEEEEEeCCeE-eecCHH
Confidence 99999999 5779999999999999999999999999999999999999999999999999999999999988 999999
Q ss_pred HHHHHHHhCCC--CCcccceEeeccccCChhhhHhhhcCccceeeeeeccccHHHHHHHHHHhcCCCchHHHHHHHhccc
Q 005193 623 ELKKVKSSFPS--NALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAAN 700 (709)
Q Consensus 623 e~~~~~~~~~~--~~~~~iqryKGLGem~~~q~~ett~dp~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~RK~~i~~~~~ 700 (709)
||++|+++++. .++|+||||||||||+|+|+|||||||++|.|.+|+++|.+.++++|++|||+++++||+||.+++.
T Consensus 552 e~~~~~~~~~~~~~~~~~i~ryKGLGe~~~~~~~e~~~~~~~r~~~~v~~~d~~~~~~~f~~lmg~~~~~Rk~~i~~~~~ 631 (638)
T PRK05644 552 ELDEILAELKLKGNPKYGIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSILMGDDVEPRREFIEENAK 631 (638)
T ss_pred HHHHHHHHhccccCCCCceeEecCccccCHHHHHHHhcCccceeeeeeccccHHHHHHHHHHHhCCCChHHHHHHHHhhh
Confidence 99999988754 3579999999999999999999999999999999999999999999999999999999999999997
Q ss_pred cCCcCCCCC
Q 005193 701 LVNLDHLDI 709 (709)
Q Consensus 701 ~~~~~~ld~ 709 (709)
. +++|||
T Consensus 632 ~--~~~~d~ 638 (638)
T PRK05644 632 Y--VRNLDI 638 (638)
T ss_pred h--HhhccC
Confidence 4 466875
No 6
>PRK05559 DNA topoisomerase IV subunit B; Reviewed
Probab=100.00 E-value=6.5e-185 Score=1583.27 Aligned_cols=613 Identities=47% Similarity=0.816 Sum_probs=579.3
Q ss_pred CCCCCCcccceeccChhhHhhCCCeeeccCCCCchhHHHHHHHHhhHHhhccCCCCeEEEEEecCCc---------cccc
Q 005193 73 VSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNS---------IPID 143 (709)
Q Consensus 73 ~~~~Y~~~~Iq~L~glE~VrkRPgMYIGst~~~GL~hlv~EIldNavDe~~~g~~~~I~V~i~~Dgs---------IPvd 143 (709)
..++|++++||+|+|+||||+||||||||++.+||||+|+||||||+||+++|+|+.|.|+|++||+ ||++
T Consensus 4 ~~~~y~~~~i~~L~~lE~VrkRP~mYiGs~~~~gl~~lv~EivdNaiDe~~ag~a~~I~V~i~~dg~I~V~DnGrGIP~~ 83 (631)
T PRK05559 4 MTNNYNADSIEVLEGLEPVRKRPGMYIGSTDTRGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADGSVSVRDNGRGIPVG 83 (631)
T ss_pred ccCCCCHHHCeeccchHHHhcCCCceeCCCCCchhhhhhhhhhccccchhhcCCCCEEEEEEeCCCcEEEEEcCCCCCcc
Confidence 3456999999999999999999999999999999999999999999999999999999999998775 9999
Q ss_pred cCCCCCccceEEEEeeeccCCCCCCCCCceeeccCcccccceeeeeecceeEEEEEeCCEEEEEEccCCCCCcceeeecc
Q 005193 144 LHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVL 223 (709)
Q Consensus 144 ~h~~~g~~~~E~v~t~LhaGgkFd~~~~~ykvsGGlhGvGasvvNAlS~~f~Vev~r~Gk~y~q~f~~G~~~~~l~~~~~ 223 (709)
.||.+|+|++|+|||+||||+||+++ .|++|||+||||+|+|||||++|+|+++|+|+.|+|+|++|+++.+++.+
T Consensus 84 ~~~~~~~~~~E~v~t~lhagsKf~~~--~yk~SgGl~GvGls~vNalS~~l~V~s~r~g~~~~~~f~~G~~~~~l~~~-- 159 (631)
T PRK05559 84 IHPEEGKSGVEVILTKLHAGGKFSNK--AYKFSGGLHGVGVSVVNALSSRLEVEVKRDGKVYRQRFEGGDPVGPLEVV-- 159 (631)
T ss_pred cccccCCcchheeeeeccccCccCCc--cccccCcccccchhhhhhheeeEEEEEEeCCeEEEEEEECCcCccCcccc--
Confidence 99999999999999999999999987 89999999999999999999999999999999999999999998887544
Q ss_pred CCCCCCCCCeEEEEEcCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCcCcceeEeecccHHHHHHHHhc
Q 005193 224 PVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNT 303 (709)
Q Consensus 224 ~~~~~~~~GT~V~F~PD~~iF~~~~~fd~~~l~~Rl~elA~LnpGL~I~l~der~~~~~~~~e~f~~~~Gl~dyv~~l~~ 303 (709)
.......+||+|+|+||+++|++ ..++++.|.+||+++|+|||||+|+|+|++ . .+.|+|++||.+|+.+++.
T Consensus 160 ~~~~~~~~GT~V~f~PD~~iF~~-~~~~~~~i~~~l~~~A~lnpgl~i~l~d~~-~-----~~~f~~~~gl~~~v~~~~~ 232 (631)
T PRK05559 160 GTAGKRKTGTRVRFWPDPKIFDS-PKFSPERLKERLRSKAFLLPGLTITLNDER-E-----RQTFHYENGLKDYLAELNE 232 (631)
T ss_pred ccccCCCCCcEEEEEECHHHcCC-cccCHHHHHHHHHHHHhhCCCeEEEEEeCC-c-----eEEEECCccHHHHHHHHhC
Confidence 11222679999999999999964 579999999999999999999999999987 2 3679999999999999998
Q ss_pred CCCCCCc--eeEEEEeecCeEEEEEEEEcCCCCCceeeeeeCceecCCCccchHHHHHHHHHHHHHHHhhcccCCCCCCC
Q 005193 304 DKKPLHD--VVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDIS 381 (709)
Q Consensus 304 ~~~~l~~--~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~altr~ln~~~kk~~~~K~k~~~ 381 (709)
+++++|+ ++++.++.+++.|||||+|+ ++|+++++||||+|+|++|||||+||+++|+++||+|+++++++| ++.+
T Consensus 233 ~~~~i~~~~~i~~~~~~~~~~veval~~~-~~~~~~~~SFvN~I~T~~GGTHv~g~~~al~~~in~~~~~~~l~k-~~~~ 310 (631)
T PRK05559 233 GKETLPEEFVGSFEGEAEGEAVEWALQWT-DEGGENIESYVNLIPTPQGGTHENGFREGLLKAVREFAEKRNLLP-KGKK 310 (631)
T ss_pred CCCccCCCCceEEeeeeccceEEEEEEec-CCCCeEEEEEECcccCCCCCCHHHHHHHHHHHHHHHHHHHhCccc-cccC
Confidence 8888884 78888877889999999999 678889999999999999999999999999999999999988887 6789
Q ss_pred CCHhhhccceEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHH
Q 005193 382 LSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRAR 461 (709)
Q Consensus 382 l~~~dIregL~~vVsvki~nP~FegQTK~kL~n~ev~~~v~~~v~~~l~~~le~np~~~~~I~~k~~~~~kar~aakkar 461 (709)
++++|||+||++||||+|+||+|+||||++|+|++++.+|++++.+.|..||++||++++.|+++++.++++|++ ++|
T Consensus 311 l~~~diregl~~vvsvki~~P~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~a~~ii~k~~~~a~ar~~--~~~ 388 (631)
T PRK05559 311 LEGEDVREGLAAVLSVKIPEPQFEGQTKEKLGSREARRFVSGVVKDAFDLWLNQNPELAEKLAEKAIKAAQARLR--AAK 388 (631)
T ss_pred CChhhHhhceEEEEEEEcCCCcccCcccccccCHhHhhhhhhHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHH--HHH
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999997 488
Q ss_pred HHHhhccccccCCCCCCCCCCCCCCCCCceEEEeecCCCCccccccCCCCceEeeccCcccccccccCHHHhhhcHhHHH
Q 005193 462 DLVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQN 541 (709)
Q Consensus 462 e~~r~k~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qailPLRGKiLNv~ka~~~ki~~N~Ei~~ 541 (709)
++.|+|+.++ ..|||||+||+++++++|||||||||||||||||||||+||||||||||||||++++.+||++|+||++
T Consensus 389 ~~~r~k~~~~-~~lpgKL~dc~~~~~~~~eL~lvEGDSAggsak~grdr~~qailPLRGKiLNv~~a~~~ki~~N~Ei~~ 467 (631)
T PRK05559 389 KVKRKKKTSG-PALPGKLADCTSQDPERTELFLVEGDSAGGSAKQARDREFQAILPLRGKILNTWEASLDDVLANEEIHD 467 (631)
T ss_pred HHhhhccccC-CCCCCcCcccccCCCCCCEEEEEeCCCCccccccccCccceeecccCCeecccccCCHHHHhcChhHHH
Confidence 8888888777 789999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhcCCccCCcCccccccceeEEEeecCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCH
Q 005193 542 LIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDD 621 (709)
Q Consensus 542 li~alG~g~~~~~~~~~~LRYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~~G~i~~~~tPL~kv~~gk~~~y~ys~ 621 (709)
|++|||||+ +++||+++||||||||||||||||+|||||||||||||||+||++||||+|+||||||++||+++|||||
T Consensus 468 l~~alG~~~-~~~~~~~~LRY~kIiImTDaDvDGsHI~~Llltff~~~~p~Li~~G~v~~~~~Pl~kv~~gk~~~y~~~~ 546 (631)
T PRK05559 468 IIVAIGIGP-GDSFDLEDLRYGKIIIMTDADVDGAHIATLLLTFFYRHFPPLVEAGHVYIALPPLYRVDKGKKKIYALDE 546 (631)
T ss_pred HHHHhCCCC-CCccCccccccCeEEEEeCCCCCcchhHHHHHHHHHHhCHhhccCCeEEEecCCEEEEEcCCceEEecCH
Confidence 999999999 5789999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhCC-CCCcccceEeeccccCChhhhHhhhcCccceeeeeeccccHHHHHHHHHHhcCCCchHHHHHHHhccc
Q 005193 622 AELKKVKSSFP-SNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAAN 700 (709)
Q Consensus 622 ~e~~~~~~~~~-~~~~~~iqryKGLGem~~~q~~ett~dp~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~RK~~i~~~~~ 700 (709)
+|+++|+++++ ..++|+||||||||||+|+|+|||||||++|+|.||+++|++.++++|++|||+++++||+||++++.
T Consensus 547 ~e~~~~~~~~~~~~~~~~i~ryKGLGe~~~~~~~e~~~~p~~r~l~~v~~~d~~~~~~~~~~l~g~~~~~Rk~~i~~~~~ 626 (631)
T PRK05559 547 EEKEELLKKLGKKGGKPEIQRFKGLGEMNPDQLWETTMDPETRRLVRVTIDDAEETEKLVDMLMGKKAEPRREWIEENGD 626 (631)
T ss_pred HHHHHHHHHhcccCCCCCceEeCchhhcCHHHHHHHhhCccceeEEEEEccchhhHHHHHHHHhCCCchHHHHHHHHhhh
Confidence 99999998863 23579999999999999999999999999999999999999999999999999999999999999986
Q ss_pred cC
Q 005193 701 LV 702 (709)
Q Consensus 701 ~~ 702 (709)
.+
T Consensus 627 ~~ 628 (631)
T PRK05559 627 FA 628 (631)
T ss_pred hh
Confidence 54
No 7
>TIGR01055 parE_Gneg DNA topoisomerase IV, B subunit, proteobacterial. This protein is active as an alpha(2)beta(2) heterotetramer.
Probab=100.00 E-value=4.2e-182 Score=1555.25 Aligned_cols=609 Identities=37% Similarity=0.626 Sum_probs=562.7
Q ss_pred CCCCcccceeccChhhHhhCCCeeeccCCCCchhHHHHHHHHhhHHhhccCCCCeEEEEEecCCc---------cccccC
Q 005193 75 KTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNS---------IPIDLH 145 (709)
Q Consensus 75 ~~Y~~~~Iq~L~glE~VrkRPgMYIGst~~~GL~hlv~EIldNavDe~~~g~~~~I~V~i~~Dgs---------IPvd~h 145 (709)
++|++++|++|+|||||||||||||||+++ ||+|||||||||||+++|+|+.|.|+|++||+ ||++.|
T Consensus 2 ~~y~~~~i~~L~gle~VRkRPgMYigs~~~---~~lv~ElvdNsiDE~~ag~a~~I~V~i~~d~~I~V~DnGrGIp~~~h 78 (625)
T TIGR01055 2 TNYSAKDIEVLDGLEPVRKRPGMYTDTTRP---NHLVQEVIDNSVDEALAGFASIIMVILHQDQSIEVFDNGRGMPVDIH 78 (625)
T ss_pred CccChhhceeecccHHhhcCCCCeeCCCCc---ceeehhhhhcccchhhcCCCCEEEEEEeCCCeEEEEecCCccCcccc
Confidence 569999999999999999999999999975 99999999999999999999999999997665 999999
Q ss_pred CCCCccceEEEEeeeccCCCCCCCCCceeeccCcccccceeeeeecceeEEEEEeCCEEEEEEccCCCCCcceeeeccCC
Q 005193 146 PATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPV 225 (709)
Q Consensus 146 ~~~g~~~~E~v~t~LhaGgkFd~~~~~ykvsGGlhGvGasvvNAlS~~f~Vev~r~Gk~y~q~f~~G~~~~~l~~~~~~~ 225 (709)
|++|+|++|++||++|||+||+++ .|++|||+||||+++|||||+||+|+++|+|+.|+|+|++|+++.+++.+. .
T Consensus 79 ~~~g~~~~e~v~t~lhagsK~~~~--~~~~SgG~~GvGls~vnalS~~l~v~~~r~g~~~~~~~~~G~~~~~~~~i~--~ 154 (625)
T TIGR01055 79 PKEGVSAVEVILTTLHAGGKFSNK--NYHFSGGLHGVGISVVNALSKRVKIKVYRQGKLYSIAFENGAKVTDLISAG--T 154 (625)
T ss_pred cccCCcHHHHhhhcccccCCCCCC--cceecCCCcchhHHHHHHhcCeEEEEEEECCeEEEEEEECCeEcccccccc--c
Confidence 999999999999999999999988 899999999999999999999999999999999999999999988776441 1
Q ss_pred CCCCCCCeEEEEEcCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCcCcceeEeecccHHHHHHHHhcCC
Q 005193 226 DSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDK 305 (709)
Q Consensus 226 ~~~~~~GT~V~F~PD~~iF~~~~~fd~~~l~~Rl~elA~LnpGL~I~l~der~~~~~~~~e~f~~~~Gl~dyv~~l~~~~ 305 (709)
.....+||+|+||||+++|++ ..|+++.|.+|++++|||||||+|+|+|+|.+ ..+.|+|++||++||++++.++
T Consensus 155 ~~~~~~GT~V~F~PD~~~F~~-~~~e~~~i~~~l~~lA~lnpgi~~~l~der~~----~~~~f~~~~Gi~~yv~~l~~~~ 229 (625)
T TIGR01055 155 CGKRLTGTSVHFTPDPEIFDS-LHFSVSRLYHILRAKAVLCRGVEIEFEDEVNN----TKALWNYPDGLKDYLSEAVNGD 229 (625)
T ss_pred cCCCCCCeEEEEEECHHHCCC-CccCHHHHHHHHHHHHhhCCCcEEEEeecCCC----ceeEEecCchHHHHHHHHhcCC
Confidence 213459999999999999975 57999999999999999999999999999853 2457999999999999999887
Q ss_pred CCCCcee-EEEEeecCeEEEEEEEEcCCCCCceeeeeeCceecCCCccchHHHHHHHHHHHHHHHhhcccCCCCCCCCCH
Q 005193 306 KPLHDVV-GFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSG 384 (709)
Q Consensus 306 ~~l~~~i-~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~altr~ln~~~kk~~~~K~k~~~l~~ 384 (709)
+++++++ ......+++.+||||||+.+.|+++++||||||+|++|||||+||+++|+++||+|++++++.|+ +.++++
T Consensus 230 ~~~~~~~~~~~~~~~~~~ve~al~~~~~~~~~~~~SFvN~I~T~~GGTHv~gf~~alt~~in~~~~~~~~~kk-~~~i~~ 308 (625)
T TIGR01055 230 NTLPPKPFSGNFEGDDEAVEWALLWLPEGGELFMESYVNLIPTPQGGTHVNGLRQGLLDALREFCEMRNNLPR-GVKLTA 308 (625)
T ss_pred CCCCCCceEEEEeeCCceEEEEEEEecCCCCEEEEEeeccccCCCCCCHHHHHHHHHHHHHHHHHHHhCcccc-cCCCCH
Confidence 7776443 33333467889999999855577889999999999999999999999999999999998777654 578999
Q ss_pred hhhccceEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005193 385 EHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLV 464 (709)
Q Consensus 385 ~dIregL~~vVsvki~nP~FegQTK~kL~n~ev~~~v~~~v~~~l~~~le~np~~~~~I~~k~~~~~kar~aakkare~~ 464 (709)
+||||||++||||+|+||+|+||||++|+|++++.+|+++|.+.|..||++||..++.|+++++.+++||+ ++||+..
T Consensus 309 ~diregl~~vVsvki~~P~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~a~~i~~k~~~~a~ar~--~~a~~~~ 386 (625)
T TIGR01055 309 EDIWDRCSYVLSIKMQDPQFAGQTKERLSSRQVAKFVSGVIKDAFDLWLNQNVQLAEHLAEHAISSAQRRK--RAAKKVV 386 (625)
T ss_pred HHHhhccEEEEEEeccCCcccCcccccccCHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHH--HHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999997 7788877
Q ss_pred hhccccccCCCCCCCCCCCCCCCCCceEEEeecCCCCccccccCCCCceEeeccCcccccccccCHHHhhhcHhHHHHHH
Q 005193 465 RQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIR 544 (709)
Q Consensus 465 r~k~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qailPLRGKiLNv~ka~~~ki~~N~Ei~~li~ 544 (709)
| |+.++...|||||+||+++||++|||||||||||||||||||||+|||||||||||||||+++.+||++|+||++||+
T Consensus 387 r-k~~~~~~~lpgKL~dc~~~~~~~~eLfivEGDSA~gsak~grdr~~qailPLRGKiLNv~ka~~~ki~~N~Ei~~li~ 465 (625)
T TIGR01055 387 R-KKLTSGPALPGKLADCTRQDLEGTELFLVEGDSAGGSAKQARDREYQAILPLWGKILNTWEVSLDKVLNSQEIHDIEV 465 (625)
T ss_pred h-cccccCCCCCccccccccCCCCceEEEEEecCCCCccccccCCcceeEEeccCCceeecccCCHHHhhcCHHHHHHHH
Confidence 6 446677889999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhcCCccCCcCccccccceeEEEeecCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHHHH
Q 005193 545 ALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAEL 624 (709)
Q Consensus 545 alG~g~~~~~~~~~~LRYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~~G~i~~~~tPL~kv~~gk~~~y~ys~~e~ 624 (709)
|||||++ ++ ++++||||||||||||||||+|||+|||||||||||+||++||||+|+||||||++||++.|+|+|.|+
T Consensus 466 alG~g~~-~~-~~~~LRY~kiiImTDADvDG~HI~~LLltff~r~~p~Li~~G~vy~~~~Pl~kv~~gk~~~y~~~e~e~ 543 (625)
T TIGR01055 466 ALGIDPD-SN-DLSQLRYGKICILADADSDGLHIATLLCALFFLHFPKLVEEGHVYVAKPPLYRIDLSKEVYYALDEEEK 543 (625)
T ss_pred HhCCCcc-cc-cccccccceEEEEeCCCCCcchhHHHHHHHHHHhCHhhccCCeEEEEeCCEEEEecCCceEEcCCHHHH
Confidence 9999995 44 599999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhCCC-CCcccceEeeccccCChhhhHhhhcCccceeeeeeccccHHH--HHHHHHHhcCCC-chHHHHHHHhccc
Q 005193 625 KKVKSSFPS-NALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAE--ANVVFSSLMGAR-VDTRKELIQNAAN 700 (709)
Q Consensus 625 ~~~~~~~~~-~~~~~iqryKGLGem~~~q~~ett~dp~~r~l~~v~~~d~~~--~~~~f~~lmg~~-~~~RK~~i~~~~~ 700 (709)
+++.+++++ .++|+||||||||||+|+|||||||||++|+|.+|+++|+.. ++++|++|||++ +++||+||++++.
T Consensus 544 ~~~~~~~~~~~~~~~i~ryKGLGe~~~~~~~e~~~~p~~r~l~~v~~~~~~~~~~~~~~~~lmg~~~~~~Rk~~i~~~~~ 623 (625)
T TIGR01055 544 EKLLYKLKKKKGKPNVQRFKGLGEMNPAQLRETTMDPNTRRLVQLTLDDVQDQRVDKIMDMLLAKKRSEDRFNWLQEKGD 623 (625)
T ss_pred HHHHHhhcccCCCcceeEecccchhhHHHHHHHhhCccceecccccccchhhhhHHHHHHHHhCCCCCchhHHHHHhccc
Confidence 999876643 246999999999999999999999999999999999999864 899999999999 9999999999986
Q ss_pred c
Q 005193 701 L 701 (709)
Q Consensus 701 ~ 701 (709)
.
T Consensus 624 ~ 624 (625)
T TIGR01055 624 Q 624 (625)
T ss_pred C
Confidence 3
No 8
>TIGR01059 gyrB DNA gyrase, B subunit. This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV. Proteins scoring above the noise cutoff for this model and below the trusted cutoff for topoisomerase IV models probably should be designated GyrB.
Probab=100.00 E-value=2.8e-179 Score=1546.09 Aligned_cols=620 Identities=55% Similarity=0.933 Sum_probs=587.7
Q ss_pred CCcccceeccChhhHhhCCCeeeccCCCCchhHHHHHHHHhhHHhhccCCCCeEEEEEecCCc---------cccccCCC
Q 005193 77 YGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNS---------IPIDLHPA 147 (709)
Q Consensus 77 Y~~~~Iq~L~glE~VrkRPgMYIGst~~~GL~hlv~EIldNavDe~~~g~~~~I~V~i~~Dgs---------IPvd~h~~ 147 (709)
|++++||+|+|+||||+||||||||++++||||+|+|||+||+||+++|+|+.|.|+|++||+ ||++.|+.
T Consensus 1 Y~~~~i~~L~~lE~vr~RP~mYiGs~~~~gl~~vv~Elv~NaiDe~~ag~a~~I~V~i~~~g~I~V~DnG~GIp~~~h~~ 80 (654)
T TIGR01059 1 YDASSIKVLEGLEAVRKRPGMYIGSTGETGLHHLVYEVVDNSIDEAMAGYCDTINVTINDDGSVTVEDNGRGIPVDIHPE 80 (654)
T ss_pred CChHHCeEecchHHHhcCCCceeCCCCcchHHhhhHHhhhccccccccCCCCEEEEEEeCCCcEEEEEeCCCcCccccCc
Confidence 999999999999999999999999999999999999999999999999999999999998765 99999999
Q ss_pred CCccceEEEEeeeccCCCCCCCCCceeeccCcccccceeeeeecceeEEEEEeCCEEEEEEccCCCCCcceeeeccCCCC
Q 005193 148 TNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDS 227 (709)
Q Consensus 148 ~g~~~~E~v~t~LhaGgkFd~~~~~ykvsGGlhGvGasvvNAlS~~f~Vev~r~Gk~y~q~f~~G~~~~~l~~~~~~~~~ 227 (709)
++++.+|+||++|||||||+++ .|++|||+||+|++++||||+||+|+++|+|+.|+|+|++|+++.+++.. +.
T Consensus 81 ~ki~~~e~i~~~l~ag~kf~~~--~~k~s~G~~G~gl~~inalS~~l~v~~~~~g~~~~~~~~~G~~~~~l~~~----~~ 154 (654)
T TIGR01059 81 EGISAVEVVLTVLHAGGKFDKD--SYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFERGIPLGPLEVV----GE 154 (654)
T ss_pred CCCCchHHheeeecccCccCCC--cceecCCccchhHHHHHHhcCeEEEEEEECCeEEEEEEeCCCcccCceec----cC
Confidence 9999999999999999999988 99999999999999999999999999999999999999999999876544 34
Q ss_pred CCCCCeEEEEEcCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCcCcceeEeecccHHHHHHHHhcCCCC
Q 005193 228 KDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKP 307 (709)
Q Consensus 228 ~~~~GT~V~F~PD~~iF~~~~~fd~~~l~~Rl~elA~LnpGL~I~l~der~~~~~~~~e~f~~~~Gl~dyv~~l~~~~~~ 307 (709)
..++||+|+|+|||++|. ...++++.|.+|++++|+|||||+|.|++++.+. ...+.|+|++||.+|+++++.++++
T Consensus 155 ~~~~GT~V~F~pdp~~F~-~~~~e~~~i~~rl~~~A~l~pgl~i~l~~er~~~--~~~~~f~~~~Gl~~yv~~l~~~~~~ 231 (654)
T TIGR01059 155 TKKTGTTVRFWPDPEIFE-TTEFDFDILAKRLRELAFLNSGVKISLEDERDGK--GKSVTFHYEGGIKSFVKYLNRNKEP 231 (654)
T ss_pred CCCCCcEEEEEEChHHhC-CcccCHHHHHHHHHHhhccCCCeEEEEEeecCCC--CceeEEEcCCcHHHHHHHHhcCCCc
Confidence 567999999999999997 4579999999999999999999999999998531 2356899999999999999988888
Q ss_pred CC-ceeEEEEeecCeEEEEEEEEcCCCCCceeeeeeCceecCCCccchHHHHHHHHHHHHHHHhhcccCCCCCCCCCHhh
Q 005193 308 LH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEH 386 (709)
Q Consensus 308 l~-~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~altr~ln~~~kk~~~~K~k~~~l~~~d 386 (709)
++ ++++|.++.++++||||++|+ ++|+++++||||+|+|++|||||+||+++|+++||+|++++++.|+++.+++++|
T Consensus 232 l~~~~i~~~~~~~~~~veva~~~~-~~~~~~~~SFvN~I~T~~GGTHv~g~~~al~~~i~~~~~~~~l~K~~~~~i~~~d 310 (654)
T TIGR01059 232 LHEEIIYIKGEKEGIEVEVALQWN-DGYSENILSFVNNINTREGGTHLEGFRSALTRVINSYAKNNKLLKESKPNLTGED 310 (654)
T ss_pred CCCCCeEEEecccCeEEEEEEEec-CCCceeEEEEECcccCCCCCcHHHHHHHHHHHHHHHHHHHhCcccccCCCCCHHH
Confidence 86 678888877789999999999 6788899999999999999999999999999999999999888887778999999
Q ss_pred hccceEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 005193 387 VREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQ 466 (709)
Q Consensus 387 IregL~~vVsvki~nP~FegQTK~kL~n~ev~~~v~~~v~~~l~~~le~np~~~~~I~~k~~~~~kar~aakkare~~r~ 466 (709)
||+||++||||+|+||+|+||||++|+|++++.+|.+++.+.|..||++||+.++.|+++++.++++|++++++|++.|+
T Consensus 311 iregl~~vvsv~i~~P~F~gQTK~kL~~~~v~~~v~~~v~~~l~~~l~~n~~~a~~iv~k~~~~a~~r~~a~~~k~~~r~ 390 (654)
T TIGR01059 311 IREGLTAVISVKVPDPQFEGQTKTKLGNSEVRSIVESLVYEKLTEFFEENPQEAKAIVEKAILAAQAREAARKARELTRR 390 (654)
T ss_pred HhhccEEEEEEecCCCcccCcccccccChhHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHhHHHhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCCCCCCCCCCCCCCCCceEEEeecCCCCccccccCCCCceEeeccCcccccccccCHHHhhhcHhHHHHHHHh
Q 005193 467 KSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRAL 546 (709)
Q Consensus 467 k~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qailPLRGKiLNv~ka~~~ki~~N~Ei~~li~al 546 (709)
|+..+...|||||+||+++||++|||||||||||||||||||||+|||||||||||||||+++.+||++|+||++|++||
T Consensus 391 k~~~~~~~lpgKL~dc~~~~~~~~eL~lvEGDSA~gsak~gRd~~~qai~PLrGKiLNv~~~~~~ki~~n~Ei~~l~~~l 470 (654)
T TIGR01059 391 KSALDSGGLPGKLADCSSKDPSKSELYIVEGDSAGGSAKQGRDRKFQAILPLRGKILNVEKARLDKILSNQEIGAIITAL 470 (654)
T ss_pred ccccccCCCCcCccCcccCCCCCCEEEEEecCCCCcccccccccccccccccCCccchhccCCHHHHhhChHHHHHHHHh
Confidence 88877888999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCccCCcCccccccceeEEEeecCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeE-----------
Q 005193 547 GLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQV----------- 615 (709)
Q Consensus 547 G~g~~~~~~~~~~LRYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~~G~i~~~~tPL~kv~~gk~~----------- 615 (709)
|||+ +++||+++|||||||||||||+||+|||+|||||||||||+||++||||+|+||||||++||++
T Consensus 471 G~~~-~~~~~~~~LrY~kiiImtDaD~DG~HI~~Lll~ff~~~~p~Li~~g~~~~~~~Pl~kv~~g~~~~~~~~~~~~~~ 549 (654)
T TIGR01059 471 GCGI-GKDFDLEKLRYHKIIIMTDADVDGSHIRTLLLTFFYRYMRPLIENGYVYIAQPPLYKVKKGKKERYIKDDKEKEL 549 (654)
T ss_pred CCCc-cccccccccccceEEEEeCCCCCcchhHHHHHHHHHHhcHhhccCCeEEEecCCEEEEEeCCeeeecccchhhhc
Confidence 9999 5789999999999999999999999999999999999999999999999999999999999988
Q ss_pred ----------EEeeCHHHHHHHHHhCCC---CCcccceEeeccccCChhhhHhhhcCccceeeeeeccccHHHHHHHHHH
Q 005193 616 ----------QYCYDDAELKKVKSSFPS---NALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSS 682 (709)
Q Consensus 616 ----------~y~ys~~e~~~~~~~~~~---~~~~~iqryKGLGem~~~q~~ett~dp~~r~l~~v~~~d~~~~~~~f~~ 682 (709)
.||||++|+++|++.++. +++|+||||||||||+|+|+|||||||++|+|.|++++|+..++++|++
T Consensus 550 ~~~~~~~~~e~Y~~dd~e~e~~l~~l~~~~~~~~~~IqryKGLGem~~~~l~ettmdp~~R~l~~v~l~d~~~~~~~f~~ 629 (654)
T TIGR01059 550 VGEALEDLRALYIYSDKEKEEAKTQIPVHEGRKGIEIQRYKGLGEMNADQLWETTMDPESRTLLKVTIEDAVEADRIFST 629 (654)
T ss_pred cccccccccceecCCHHHHHHHHHhccccccCCCcceeeeCchhhcCHHHHHHHhcCcccceeeeeecchHHHHHHHHHH
Confidence 899999999999987631 3579999999999999999999999999999999999999999999999
Q ss_pred hcCCCchHHHHHHHhccccCCcCCCCC
Q 005193 683 LMGARVDTRKELIQNAANLVNLDHLDI 709 (709)
Q Consensus 683 lmg~~~~~RK~~i~~~~~~~~~~~ld~ 709 (709)
|||+++++||+||++++.. .++||+
T Consensus 630 lmg~~~~~Rk~~I~~~~~~--~~~ld~ 654 (654)
T TIGR01059 630 LMGDEVEPRREFIEANALD--VKNLDV 654 (654)
T ss_pred HhCCCchHHHHHHHHhhhh--HhhcCC
Confidence 9999999999999999873 455775
No 9
>PHA02569 39 DNA topoisomerase II large subunit; Provisional
Probab=100.00 E-value=2.2e-175 Score=1490.73 Aligned_cols=558 Identities=30% Similarity=0.476 Sum_probs=511.7
Q ss_pred ccceeccChhhHhhCCCeeeccCCC-----------------CchhHHHHHHHHhhHHhhcc---CCCCeEEEEEecCCc
Q 005193 80 EQIQVLEGLEAVRKRPAMYIGSTGP-----------------RGLHHLVYEILDNAVDEAQA---GYASNIEVALLADNS 139 (709)
Q Consensus 80 ~~Iq~L~glE~VrkRPgMYIGst~~-----------------~GL~hlv~EIldNavDe~~~---g~~~~I~V~i~~Dgs 139 (709)
++||+|+|+||||+|||||||||++ +||||||||||||||||+++ |+|+.|+|+|| ||+
T Consensus 2 ~~i~~L~~lE~Vr~RPgmYIGs~~~~~~~~~~~~~~~~~~~~~GL~hi~~EIldNavDe~~~~~~g~~~~I~V~i~-dgs 80 (602)
T PHA02569 2 DEFKVLSDREHILKRPGMYIGSVAYEAHERFLFGKFTQVEYVPGLVKIIDEIIDNSVDEAIRTNFKFANKIDVTIK-NNQ 80 (602)
T ss_pred CceeEccchHHHhcCCCceeCCCCcccccceeecccccccccccceeeeehhhhhhhhhhhccCCCCCcEEEEEEc-CCE
Confidence 6899999999999999999999998 99999999999999999999 99999999999 776
Q ss_pred ---------cccccCCC-CC--ccceEEEEeeeccCCCCCCCCCceeeccCcccccceeeeeecceeEEEEEeCCEEEEE
Q 005193 140 ---------IPIDLHPA-TN--KSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQ 207 (709)
Q Consensus 140 ---------IPvd~h~~-~g--~~~~E~v~t~LhaGgkFd~~~~~ykvsGGlhGvGasvvNAlS~~f~Vev~r~Gk~y~q 207 (709)
|||++|++ +| +|++|+|||+|||||||| + +|++||||||||+|||||||+||+|+|+|+|+.|+|
T Consensus 81 isV~dnGrGIPv~~h~~~~g~~~~~~E~i~t~LhaGgkFd-~--~ykvSGGlhGVG~svvNaLS~~~~V~v~~~~~~~~q 157 (602)
T PHA02569 81 VTVSDNGRGIPQAMVTTPEGEEIPGPVAAWTRTKAGSNFD-D--TNRVTGGMNGVGSSLTNFFSVLFIGETCDGKNEVTV 157 (602)
T ss_pred EEEEECCCcccCCcccccccccccceEEEEEeeccccccC-C--cceeeCCcCCccceeeeccchhhheEEEcCCEEEEE
Confidence 99999986 56 899999999999999994 5 799999999999999999999999999999999999
Q ss_pred EccCCCCCcceeeeccCCCCCCCCCeEEEEEcCcccccccccCC---HHHHHHHHHHHhhcCCCcEEEEeecCCCCCcCc
Q 005193 208 KYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFD---HNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQ 284 (709)
Q Consensus 208 ~f~~G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~~~~fd---~~~l~~Rl~elA~LnpGL~I~l~der~~~~~~~ 284 (709)
+|++|+++.+++. +.+.++||+|+||||++||++ ..|| +++|.+||+|+|||||||+|+|+|+|.+
T Consensus 158 ~f~~G~~~~~~~~-----~~~~~~GT~V~F~PD~~iF~~-~~~~~~~~~~l~~Rl~elA~Ln~Gl~I~l~der~~----- 226 (602)
T PHA02569 158 NCSNGAENISWST-----KPGKGKGTSVTFIPDFSHFEV-NGLDQQYLDIILDRLQTLAVVFPDIKFTFNGKKVS----- 226 (602)
T ss_pred EecCCcccCCccc-----CCCCCCccEEEEEECHHHhCC-CccCccHHHHHHHHHHHHhcCCCCCEEEEEecCCC-----
Confidence 9999998877632 445679999999999999975 4576 7899999999999999999999999842
Q ss_pred ceeEeecccHHHHHHHHhcCCCCCCceeEEEEeecCeEEEEEEEEcCCCCCceeeeeeCceecCCCccchHHHHHHHHHH
Q 005193 285 YNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRT 364 (709)
Q Consensus 285 ~e~f~~~~Gl~dyv~~l~~~~~~l~~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~altr~ 364 (709)
+||.+||++++. +++++.. + .||||++|+.++| +++||||||+|++|||||+||+++|+++
T Consensus 227 -------~g~~~yv~~~~~------~~i~~~~--~--~veva~~~~~~~~--~~~SFvN~I~T~~GGTHv~gf~~altr~ 287 (602)
T PHA02569 227 -------GKFKKYAKQFGD------DTIVQEN--D--NVSIALAPSPDGF--RQLSFVNGLHTKNGGHHVDCVMDDICEE 287 (602)
T ss_pred -------CCHHHHHHHhCC------CCeEEec--C--cEEEEEEecCCCc--EEEEEECcccCCCCCCHHHHHHHHHHHH
Confidence 699999999953 2345532 2 5899999985566 4799999999999999999999999999
Q ss_pred HHHHHhhcccCCCCCCCCCHhhhccceEEEEEEe-ecCCCCCCccccccCCc--hhhhhhhhhHHHHHHHHHhhChHHHH
Q 005193 365 LNSLGKKSKTVKDKDISLSGEHVREGLTCIISVR-VPNPEFEGQTKTRLGNP--EVRKVVDQSVQEYLTEYLELHPDVLD 441 (709)
Q Consensus 365 ln~~~kk~~~~K~k~~~l~~~dIregL~~vVsvk-i~nP~FegQTK~kL~n~--ev~~~v~~~v~~~l~~~le~np~~~~ 441 (709)
||+|++++ ++.+++++||||||++||||+ ++||+|+||||++|+|+ +++..| +++.+.|..||++||.+++
T Consensus 288 in~~~~kk-----~~~~l~~~diregL~avVsvk~i~~P~FegQTK~kL~~~~~~~~~~v-~~~~~~l~~~l~~n~~~~~ 361 (602)
T PHA02569 288 LIPMIKKK-----HKIEVTKARVKECLTIVLFVRNMSNPRFDSQTKERLTSPFGEIRNHI-DLDYKKIAKQILKTEAIIM 361 (602)
T ss_pred HHHHHHhc-----ccCCCCHHHHHhCCEEEEEEeccCCCcccCcccccccCChHHhccce-eehHHHHHHHHHHCHHHHH
Confidence 99999762 235799999999999999998 99999999999999999 799999 9999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHH---HHHhhcccc-ccCCCCCCCCCCCCCCCCCceEEEeecCCCCccccccCCCCceEeec
Q 005193 442 SILSKSLSALKAALAAKRAR---DLVRQKSVL-RSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILP 517 (709)
Q Consensus 442 ~I~~k~~~~~kar~aakkar---e~~r~k~~~-~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qailP 517 (709)
.|+++++.+++||++++++| ++.|+|... ....|||| |++|||||||||||||||+|||||+||||||
T Consensus 362 ~i~~~a~~~~~ar~a~~~~k~~k~~~r~k~~~~~~a~lpGk--------~~~~eL~ivEGDSAggsAk~~RdR~~qaIlP 433 (602)
T PHA02569 362 PIIEAALARKLAAEKAAETKAAKKAKKAKVAKHIKANLIGK--------DAETTLFLTEGDSAIGYLIEVRDEELHGGYP 433 (602)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhhhhhhccccccccCCCCCC--------CCCceEEEEecCCCCcccccccCccceeecc
Confidence 99999999999999886443 666666554 46788998 7899999999999999999999999999999
Q ss_pred cCcccccccccCHHHhhhcHhHHHHHHHhcCCccCCcCccccccceeEEEeecCCCCC-chhhhhHHHHHHHHHHHhhhc
Q 005193 518 LRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDG-AHIRTLLLTFFYRYQKTLFDE 596 (709)
Q Consensus 518 LRGKiLNv~ka~~~ki~~N~Ei~~li~alG~g~~~~~~~~~~LRYgkIiImTDaDvDG-~HI~~Llltff~~~~p~Li~~ 596 (709)
||||||||++++.+||++|+||++|++|||||+ +++|+ +|||||||||||||||| +|||||||||||| ||+||++
T Consensus 434 LRGKiLNV~ka~~~ki~~N~Ei~~li~alG~g~-g~~~~--~LRY~kIiImTDADvDG~sHIr~LLltff~~-~p~Li~~ 509 (602)
T PHA02569 434 LRGKVLNTWGMSYADILKNKELFDICAITGLVL-GEKAE--NMNYKNIAIMTDADVDGKGSIYPLLLAFFSR-WPELFEQ 509 (602)
T ss_pred cCCcccchhhCCHHHhhcchhHHHHHHHhCCCc-Ccccc--ccccCcEEEEecCCCcchHHHHHHHHHHHHh-chhhccC
Confidence 999999999999999999999999999999999 46664 99999999999999999 9999999999999 9999999
Q ss_pred CcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHHhCCCCCcccceEeeccccCChhhhHhhhcCccceeeeeeccccHHHH
Q 005193 597 GCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEA 676 (709)
Q Consensus 597 G~i~~~~tPL~kv~~gk~~~y~ys~~e~~~~~~~~~~~~~~~iqryKGLGem~~~q~~ett~dp~~r~l~~v~~~d~~~~ 676 (709)
||||+|+||||||++||+++||||++||++|++++ ++|+||||||||||+|+|+|||||||+ |.+++++| .+
T Consensus 510 G~v~~~~~Pl~kv~~gk~~~~~~~~~e~~~~~~~~---~~~~i~~yKGLGe~~~~~~~e~~~~p~---l~~~~~~d--~~ 581 (602)
T PHA02569 510 GRIRFVKTPVIIAQVGKETKWFYSLDEFEKAKDSL---KKWSIRYIKGLGSLRKSEYRRVINNPV---YDVVVLPD--DW 581 (602)
T ss_pred CeEEEecCCEEEEEcCCeeEEecCHHHHHHHHHhc---CCcceEEeccCCCCCHHHHHHHhcCcc---cEEEecCc--hH
Confidence 99999999999999999999999999999999865 369999999999999999999999998 77888887 37
Q ss_pred HHHHHHhcCCCchHHHHHHHh
Q 005193 677 NVVFSSLMGARVDTRKELIQN 697 (709)
Q Consensus 677 ~~~f~~lmg~~~~~RK~~i~~ 697 (709)
+++|++|||+++++||+||++
T Consensus 582 ~~~~~~l~g~~~~~Rk~wi~~ 602 (602)
T PHA02569 582 KELFEMLFGDDADLRKDWMSQ 602 (602)
T ss_pred HHHHHHHhCCCchHHHHHhhC
Confidence 899999999999999999974
No 10
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=100.00 E-value=1.7e-171 Score=1534.07 Aligned_cols=596 Identities=26% Similarity=0.363 Sum_probs=536.8
Q ss_pred cccceeccChhhHhhCCCeeeccCCC-----------------------CchhHHHHHHHHhhHHhhc----cCCCCeEE
Q 005193 79 SEQIQVLEGLEAVRKRPAMYIGSTGP-----------------------RGLHHLVYEILDNAVDEAQ----AGYASNIE 131 (709)
Q Consensus 79 ~~~Iq~L~glE~VrkRPgMYIGst~~-----------------------~GL~hlv~EIldNavDe~~----~g~~~~I~ 131 (709)
++.||+|+|+||||+||||||||++. +||||||||||||||||++ +|+|+.|+
T Consensus 7 ~~~yq~L~~lEhVr~RP~mYIGS~~~~~~~~wv~~~~~~~m~~~~v~~vpGL~ki~dEIldNAvDe~~r~~~~g~~~~I~ 86 (1388)
T PTZ00108 7 EERYQKKTQIEHILLRPDTYIGSIETQTEDMWVYDEEKNRMVYKTITYVPGLYKIFDEILVNAADNKARDKGGHRMTYIK 86 (1388)
T ss_pred HHhhhcccchhHHhcCCCceeCCCCccccceeeecccccccccccccccchhhhhHHHHhhhhhhhhcccCCCCCccEEE
Confidence 56799999999999999999999998 7999999999999999999 58999999
Q ss_pred EEEecC-Cc---------cccccCCCCCccceEEEEeeeccCCCCCCCCCceeeccCcccccceeeeeecceeEEEEEeC
Q 005193 132 VALLAD-NS---------IPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRD 201 (709)
Q Consensus 132 V~i~~D-gs---------IPvd~h~~~g~~~~E~v~t~LhaGgkFd~~~~~ykvsGGlhGvGasvvNAlS~~f~Vev~r~ 201 (709)
|+||+| |+ |||++|+++|+|+||+|||+||||||||++ +|++||||||||+|||||||++|+|+|+|+
T Consensus 87 V~i~~d~g~IsV~dnGrGIPv~~h~~~~~~~pElIft~L~aGgkfdd~--~yKvSGGlhGVGasvvNalS~~f~Vev~r~ 164 (1388)
T PTZ00108 87 VTIDEENGEISVYNDGEGIPVQIHKEHKIYVPEMIFGHLLTSSNYDDT--EKRVTGGRNGFGAKLTNIFSTKFTVECVDS 164 (1388)
T ss_pred EEEeccCCeEEEEecCCcccCCCCCCCCCccceEEEEEeeccccCCCC--ceeeecccccCCccccccccceEEEEEEEC
Confidence 999987 65 999999999999999999999999999988 999999999999999999999999999999
Q ss_pred --CEEEEEEccCCCCCcceeeeccCCCCCCCCCeEEEEEcCcccccccccCCHHH---HHHHHHHHhhcCCCcEEEEeec
Q 005193 202 --GMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNT---IAGRIRELAFLNPKLTIALRKE 276 (709)
Q Consensus 202 --Gk~y~q~f~~G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~~~~fd~~~---l~~Rl~elA~LnpGL~I~l~de 276 (709)
|+.|+|+|++||.+...+.+ ..+...++||+|+||||+++|++ ..||+++ |.+||+|+|||||||+|+|+|+
T Consensus 165 ~~gk~y~q~f~~Gm~~~~~p~i--~~~~~~~~GT~VtF~PD~~iF~~-~~fd~d~~~ll~~Rl~dlA~ln~GLkI~lnde 241 (1388)
T PTZ00108 165 KSGKKFKMTWTDNMSKKSEPRI--TSYDGKKDYTKVTFYPDYAKFGM-TEFDDDMLRLLKKRVYDLAGCFGKLKVYLNGE 241 (1388)
T ss_pred CCCCEEEEEecCCCcCCCCCcc--CCCCCCCCceEEEEEeCHHHcCC-CccChHHHHHHHHHHHHHhcCCCCcEEEEeCc
Confidence 99999999999844332233 11212279999999999999985 4799998 9999999999999999999998
Q ss_pred CCCCCcCcceeEeecccHHHHHHHHhcCCCCCCceeE-EEEeecCeEEEEEEEEcCCCCCceeeeeeCceecCCCccchH
Q 005193 277 DSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVG-FRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIE 355 (709)
Q Consensus 277 r~~~~~~~~e~f~~~~Gl~dyv~~l~~~~~~l~~~i~-~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~ 355 (709)
+.+. .++.+|++++..+..+++++++ +.++.+++.||||++|+ + ++++++||||+|+|++|||||+
T Consensus 242 r~gi-----------~~F~~y~~ly~~~~~~~~~~~~~~~~~~~~~~~eVal~~s-~-~~~~~~SFVN~I~T~~GGTHv~ 308 (1388)
T PTZ00108 242 RIAI-----------KSFKDYVDLYLPDGEEGKKPPYPFVYTSVNGRWEVVVSLS-D-GQFQQVSFVNSICTTKGGTHVN 308 (1388)
T ss_pred cccH-----------HHHHHHHHhhccCCccCCCCceeeeccccCceEEEEEEEe-C-CCceEEEEEcccccCCCCCHHH
Confidence 7420 2344444444655555555544 56666788999999999 4 5678999999999999999999
Q ss_pred HHHHHHHHHHHHHHhhcccCCCCCCCCCHhhhccceEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhh
Q 005193 356 GVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLEL 435 (709)
Q Consensus 356 g~~~altr~ln~~~kk~~~~K~k~~~l~~~dIregL~~vVsvki~nP~FegQTK~kL~n~ev~~~v~~~v~~~l~~~le~ 435 (709)
||+++|+++||+|++++ |+++.+++++|||+||++||||+|+||+|+||||++|+|++++.++...+.+.|..||++
T Consensus 309 g~~~alt~~i~~~~k~k---kk~~~~i~~~dIregl~~~Vs~~i~nP~FdsQTKekL~~~~~~~~~~~~v~e~l~~~l~~ 385 (1388)
T PTZ00108 309 YILDQLISKLQEKAKKK---KKKGKEIKPNQIKNHLWVFVNCLIVNPSFDSQTKETLTTKPSKFGSTCELSEKLIKYVLK 385 (1388)
T ss_pred HHHHHHHHHHHHHHHHh---cccCCCCCHHHHHhCcEEEEEEecCCCccCCcccccccChhhHHHHHHHHHHHHHHHHhh
Confidence 99999999999999873 344578999999999999999999999999999999999999999999999999999987
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCC---CCCCCCceEEEeecCCCCcccccc---CC
Q 005193 436 HPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCS---STTPEESEIFIVEGDSAGGSAKQG---RD 509 (709)
Q Consensus 436 np~~~~~I~~k~~~~~kar~aakkare~~r~k~~~~~~~lpgKL~Dc~---~~~~~~~eL~lvEGDSA~Gsak~g---Rd 509 (709)
..|+++++.++++|++|+++|++.++| ...... |+||+||+ ++++++|||||||||||||||+|| ||
T Consensus 386 -----~~Ivekil~~a~aR~aa~~ak~~~~~K-~~~~~~-ipKL~Dc~~aG~k~~~~ceL~lvEGDSAggsAk~Gl~vrd 458 (1388)
T PTZ00108 386 -----SPILENIVEWAQAKLAAELNKKMKAGK-KSRILG-IPKLDDANDAGGKNSEECTLILTEGDSAKALALAGLSVVG 458 (1388)
T ss_pred -----hHHHHHHHHHHHHHHHHHHHHHHhhhh-hhcccC-chhhhhcccccCCChhhcEEEEEecCcccchhhhcccccC
Confidence 359999999999999999999988877 333334 45999999 689999999999999999999999 79
Q ss_pred CCceEeeccCcccccccccCHHHhhhcHhHHHHHHHhcCCccCCcCccccccceeEEEeecCCCCCchhhhhHHHHHHHH
Q 005193 510 RRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRY 589 (709)
Q Consensus 510 r~~qailPLRGKiLNv~ka~~~ki~~N~Ei~~li~alG~g~~~~~~~~~~LRYgkIiImTDaDvDG~HI~~Llltff~~~ 589 (709)
|+||||||||||||||++++.+||++|+||++|++|||||++.++||+++|||||||||||||+||+|||||||||||||
T Consensus 459 R~~qaVfPLRGKiLNV~kas~~ki~~N~EI~~li~aLGlg~g~~y~d~~~LRYgkIiIMTDADvDGsHIr~LLlnff~~~ 538 (1388)
T PTZ00108 459 RDYYGVFPLRGKLLNVRDASLKQLMNNKEIQNLFKILGLDIGKKYEDPKGLRYGSLMIMTDQDHDGSHIKGLLINMIHHF 538 (1388)
T ss_pred ccceeeeccCCcccccccccHhhhhccHHHHHHHHHhCCCcCccccccccCCCCeEEEEeCCCCCccHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999655589999999999999999999999999999999999
Q ss_pred HHHhhh-cCcEEEecCCeEEEEe-CCeEEEeeCHHHHHHHHHhCCCCCcccceEeeccccCChhhhHhhhcCccceeeee
Q 005193 590 QKTLFD-EGCIYVGVPPLYKVER-GKQVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQ 667 (709)
Q Consensus 590 ~p~Li~-~G~i~~~~tPL~kv~~-gk~~~y~ys~~e~~~~~~~~~~~~~~~iqryKGLGem~~~q~~ett~dp~~r~l~~ 667 (709)
||+||+ +||||+|+||||||++ ||+++||||++||++|+++++ .++|+||||||||||+|+|+|||||||+ |++++
T Consensus 539 ~p~Li~~~Gfl~~~~tPl~kv~k~gk~~~~fys~~E~e~~~~~~~-~~~~~IkyyKGLGe~~~~e~~eyf~~~~-r~~i~ 616 (1388)
T PTZ00108 539 WPSLLKNPGFLKEFITPIVKATKKGNQVISFFTIPDFEKWKQTVG-LKGWKIKYYKGLGTSTDKEGKEYFSNID-KHRIR 616 (1388)
T ss_pred hHHhcccCCEEEEecCCEEEEEECCceeEEecCHHHHHHHHHHcC-CCCCccccccchhhcCHHHHHHHhcccC-ceEEE
Confidence 999999 9999999999999999 999999999999999999875 4579999999999999999999999999 77899
Q ss_pred eccccHHHHHHHHHHhcCCC-chHHHHHHHhccccCCcC
Q 005193 668 LVIEDAAEANVVFSSLMGAR-VDTRKELIQNAANLVNLD 705 (709)
Q Consensus 668 v~~~d~~~~~~~f~~lmg~~-~~~RK~~i~~~~~~~~~~ 705 (709)
++++|+ .++.+|+++||++ +++||+||.++++..+++
T Consensus 617 ~~~~~~-~~~~~idl~fgk~~a~~RK~wi~~~~~~~~~d 654 (1388)
T PTZ00108 617 FVYVDD-SDDDSIDLAFSKKRVEDRKEWITNYKGGTYVD 654 (1388)
T ss_pred EecCCc-cHHHHHHHHhCCCChHHHHHHHHhhCcccccc
Confidence 998876 5788999999986 999999999999876654
No 11
>smart00433 TOP2c TopoisomeraseII. Eukaryotic DNA topoisomerase II, GyrB, ParE
Probab=100.00 E-value=1.5e-169 Score=1449.69 Aligned_cols=580 Identities=52% Similarity=0.838 Sum_probs=544.9
Q ss_pred chhHHHHHHHHhhHHhhccCCCCeEEEEEecCCc---------cccccCCCCCccceEEEEeeeccCCCCCCCCCceeec
Q 005193 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLADNS---------IPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVS 176 (709)
Q Consensus 106 GL~hlv~EIldNavDe~~~g~~~~I~V~i~~Dgs---------IPvd~h~~~g~~~~E~v~t~LhaGgkFd~~~~~ykvs 176 (709)
||||+|+|||||||||+++|+|+.|+|+|++||+ ||++.|++++++++|+|||++|||||||++ +|++|
T Consensus 1 GL~~~v~ElvdNAiD~~~~g~at~I~V~i~~~g~I~V~DnG~GIp~~~h~~~~~~~~e~v~~~lhag~kfd~~--~~k~s 78 (594)
T smart00433 1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDD--AYKVS 78 (594)
T ss_pred CceEEEeeehhcccchhccCCCCEEEEEEeCCCeEEEEEeCCceeCCccCcCCCCcHHHhhhhhcccCCCCCC--Ccccc
Confidence 8999999999999999999999999999998765 999999999999999999999999999988 99999
Q ss_pred cCcccccceeeeeecceeEEEEEeCCEEEEEEccC-CCCCcceeeeccCCCCCCCCCeEEEEEcCcccccccccCCHHHH
Q 005193 177 GGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSR-GKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTI 255 (709)
Q Consensus 177 GGlhGvGasvvNAlS~~f~Vev~r~Gk~y~q~f~~-G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~~~~fd~~~l 255 (709)
||+||||+|+|||||++|+|+|+|+|+.|+|+|++ |.++++++.. +.+.++||+|+|+||+++|.....++++.|
T Consensus 79 ~G~~G~Gls~vnalS~~l~v~~~~~g~~~~~~~~~~G~~~~~~~~~----~~~~~~GT~V~F~Pd~~~F~~~~~~~~~~i 154 (594)
T smart00433 79 GGLHGVGASVVNALSTEFEVEVARDGKEYKQSFSNNGKPLSEPKII----GDTKKDGTKVTFKPDLEIFGMTTDDDFELL 154 (594)
T ss_pred CCcccchHHHHHHhcCceEEEEEeCCcEEEEEEeCCCeECccceec----CCCCCCCcEEEEEECHHHhCCcccchHHHH
Confidence 99999999999999999999999999999999987 8887766443 334579999999999999975446899999
Q ss_pred HHHHHHHhhcCCCcEEEEeecCCCCCcCcceeEeecccHHHHHHHHhcCCCCCC-ceeEEEEeecCeEEEEEEEEcCCCC
Q 005193 256 AGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAY 334 (709)
Q Consensus 256 ~~Rl~elA~LnpGL~I~l~der~~~~~~~~e~f~~~~Gl~dyv~~l~~~~~~l~-~~i~~~~~~~~~~veval~~s~~~~ 334 (709)
.+|++++|+|||||+|+|+|++.+ .+++|+|++||.+||++++.++++++ +++++.++.+++.|||||+|+ ++|
T Consensus 155 ~~rl~~~A~l~pgl~i~l~der~~----~~~~f~~~~Gl~~yv~~~~~~~~~~~~~~i~~~~~~~~~~veval~~~-~~~ 229 (594)
T smart00433 155 KRRLRELAFLNKGVKITLNDERSD----EEETFLFEGGIKDYVELLNKNKELLSPEPTYIEGEKDNIRVEVAFQYT-DGY 229 (594)
T ss_pred HHHHHHHHhcCCCcEEEEeccCCC----cceEEECCCCHHHHHHHHhCCCCcccCCCeEEEEEeCCcEEEEEEEcc-CCC
Confidence 999999999999999999999853 24679999999999999998888886 678888877889999999999 678
Q ss_pred CceeeeeeCceecCCCccchHHHHHHHHHHHHHHHhhcccCCCCCCCCCHhhhccceEEEEEEeecCCCCCCccccccCC
Q 005193 335 SDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGN 414 (709)
Q Consensus 335 ~~~~~SFVN~I~T~~GGTHv~g~~~altr~ln~~~kk~~~~K~k~~~l~~~dIregL~~vVsvki~nP~FegQTK~kL~n 414 (709)
+++++||||+|+|++|||||+||+++|+++||+|++++++.|+ .+++++|||+||++||||+++||+|+||||++|+|
T Consensus 230 ~~~~~SFvN~I~T~~GGTHv~g~~~al~~~i~~~~~~~~~~k~--~~i~~~diregl~~vIsvki~~P~FegQTK~kL~n 307 (594)
T smart00433 230 SENIVSFVNNIATTEGGTHENGFKDALTRVINEYAKKKKKLKE--KNIKGEDVREGLTAFISVKIPEPQFEGQTKEKLGT 307 (594)
T ss_pred CcEEEEEECCccCCCCCcHHHHHHHHHHHHHHHHHHHhCcccc--CCCChhhHhhCeEEEEEEEEchheecccccccccC
Confidence 8899999999999999999999999999999999999887764 78999999999999999999999999999999999
Q ss_pred chhhhhhhhhHHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCCCCCCCCceEEE
Q 005193 415 PEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCSSTTPEESEIFI 494 (709)
Q Consensus 415 ~ev~~~v~~~v~~~l~~~le~np~~~~~I~~k~~~~~kar~aakkare~~r~k~~~~~~~lpgKL~Dc~~~~~~~~eL~l 494 (709)
++++.+|++++.+.|..||++||..++.|+++++.++++|++|+++|++.|+| ..+...|||||+||+++++++|||||
T Consensus 308 ~~~~~~v~~~v~~~l~~~l~~n~~~a~~ii~k~~~~a~ar~~a~~~~~~~r~k-~~~~~~l~~KL~dc~~~~~~~~eL~i 386 (594)
T smart00433 308 SEVRFGVEKIVSECLLSFLEENPVEASKIVEKVLLAAKARAAAKKARELTRKK-KLSKISLPGKLADASSAGPKKCELFL 386 (594)
T ss_pred hhHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHhHHHhccc-ccccccccccccccccCCCCCcEEEE
Confidence 99999999999999999999999999999999999999999999999999988 66778899999999999999999999
Q ss_pred eecCCCCccccccCCCCceEeeccCcccccccccCHHHhhhcHhHHHHHHHhcCCccCCcCccccccceeEEEeecCCCC
Q 005193 495 VEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVD 574 (709)
Q Consensus 495 vEGDSA~Gsak~gRdr~~qailPLRGKiLNv~ka~~~ki~~N~Ei~~li~alG~g~~~~~~~~~~LRYgkIiImTDaDvD 574 (709)
||||||||||||||||+|||||||||||||||+++.+||++|+||++||+|||||+ +++||+++|||||||||||||||
T Consensus 387 vEGDSA~gsak~grdr~~qailPLrGKiLNv~~~~~~ki~~N~Ei~~li~alG~~~-~~~~~~~~LRY~kIiImtDaDvD 465 (594)
T smart00433 387 VEGDSAGGSAKSGRDRDFQAILPLRGKLLNVEKASLDKILKNEEIQALITALGLGI-GKDFDIEKLRYGKIIIMTDADVD 465 (594)
T ss_pred EecCCCccccccccCccceeecccCCeecchhhccHHHHhhCHHHHHHHHHhCCCc-CcccCccccccceEEEEeCCCCC
Confidence 99999999999999999999999999999999999999999999999999999999 57799999999999999999999
Q ss_pred CchhhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCe--EEEeeCHHHHHHHHHhCCC-CCcccceEeeccccCChh
Q 005193 575 GAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQ--VQYCYDDAELKKVKSSFPS-NALYSIQRFKGLGEMMPV 651 (709)
Q Consensus 575 G~HI~~Llltff~~~~p~Li~~G~i~~~~tPL~kv~~gk~--~~y~ys~~e~~~~~~~~~~-~~~~~iqryKGLGem~~~ 651 (709)
|+|||||||||||||||+||++||||+|+||||||++|++ +.+||+++|+++|+..... .++|+||||||||||+|+
T Consensus 466 G~HI~~Llltff~r~~p~Li~~G~vy~~~~Pl~ki~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~ryKGLGe~~~~ 545 (594)
T smart00433 466 GSHIKGLLLTFFYRYMPPLIEAGFVYIAIPPLYKVTKGKKKYVYSFYSLDEYEKWLETKGGNKSKYEIQRYKGLGEMNAD 545 (594)
T ss_pred cchhHHHHHHHHHHhChhhhhCCeEEEecCCEEEEEeCCcceEEeehhhHHHHHHHHhhhccCCCccceeccccccCCHH
Confidence 9999999999999999999999999999999999999986 5678888899999865432 457999999999999999
Q ss_pred hhHhhhcCccceeeeeeccccHHHHHHHHHHhcCCCchHHHHHHHhccc
Q 005193 652 QLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAAN 700 (709)
Q Consensus 652 q~~ett~dp~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~RK~~i~~~~~ 700 (709)
|+|||||||++|+|.+|+++|+..++.+|++|||+++++||+||++++.
T Consensus 546 ~~~e~~~~p~~r~l~~v~~~d~~~~~~~~~~l~g~~~~~Rk~~i~~~~~ 594 (594)
T smart00433 546 QLWETTMDPERRTLLFVTLDDADEADLIFSALMGDKVEPRKEWIEENAP 594 (594)
T ss_pred HHHHHhcCccceeEEEEEcCchhhHHHHHHHHcCCCchHHHHHHHhhCC
Confidence 9999999999999999999999888899999999999999999999873
No 12
>PLN03128 DNA topoisomerase 2; Provisional
Probab=100.00 E-value=1.9e-168 Score=1498.96 Aligned_cols=593 Identities=25% Similarity=0.370 Sum_probs=527.5
Q ss_pred cccceeccChhhHhhCCCeeeccCCC---------------------CchhHHHHHHHHhhHHhhcc-CCCCeEEEEEec
Q 005193 79 SEQIQVLEGLEAVRKRPAMYIGSTGP---------------------RGLHHLVYEILDNAVDEAQA-GYASNIEVALLA 136 (709)
Q Consensus 79 ~~~Iq~L~glE~VrkRPgMYIGst~~---------------------~GL~hlv~EIldNavDe~~~-g~~~~I~V~i~~ 136 (709)
++.||+|+++||||+|||||||||++ +|||||||||||||+||+++ |+|+.|+|+||+
T Consensus 4 ~~~yqk~s~lEhV~~RP~mYIGS~~~~~~~~wv~~~~~~~~~~v~~vpGL~ki~dEIldNAvDe~~~~g~~~~I~V~i~~ 83 (1135)
T PLN03128 4 EETYQKKTQLEHILLRPDTYIGSTEKHTQTLWVYEGGEMVNREVTYVPGLYKIFDEILVNAADNKQRDPSMDSLKVDIDV 83 (1135)
T ss_pred HHhhhhhcchhHHhcCCCCeeCCCCCccceeeEecccceeeeccccchhHHHHHHHHHHHHHHHhhhcCCCcEEEEEEEc
Confidence 46799999999999999999999998 79999999999999999964 999999999998
Q ss_pred -CCc---------cccccCCCCCccceEEEEeeeccCCCCCCCCCceeeccCcccccceeeeeecceeEEEEE--eCCEE
Q 005193 137 -DNS---------IPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVW--RDGME 204 (709)
Q Consensus 137 -Dgs---------IPvd~h~~~g~~~~E~v~t~LhaGgkFd~~~~~ykvsGGlhGvGasvvNAlS~~f~Vev~--r~Gk~ 204 (709)
||+ |||++||++|+|+||+|||+||||||||++ +|++||||||||+|||||||+||+|+|+ |+|+.
T Consensus 84 ~dgsIsV~DnGrGIPv~ih~~~g~~~~ElIft~LhaGgkFdd~--~ykvSGGlhGvGasvvNaLS~~f~Vev~d~r~gk~ 161 (1135)
T PLN03128 84 EQNTISVYNNGKGIPVEIHKEEGVYVPELIFGHLLTSSNFDDN--EKKTTGGRNGYGAKLANIFSTEFTVETADGNRGKK 161 (1135)
T ss_pred CCCeEEEEecCccccCCCCCCCCCccceEEEEeeccccccCCc--cceeeccccCCCCeEEEeecCeEEEEEEECCCCeE
Confidence 566 999999999999999999999999999988 9999999999999999999999999999 89999
Q ss_pred EEEEccCCCCCcceeeeccCCCCCCCCCeEEEEEcCcccccccccCCHH---HHHHHHHHHh-hcCCCcEEEEeecCCCC
Q 005193 205 YHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHN---TIAGRIRELA-FLNPKLTIALRKEDSDP 280 (709)
Q Consensus 205 y~q~f~~G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~~~~fd~~---~l~~Rl~elA-~LnpGL~I~l~der~~~ 280 (709)
|+|+|++||++.+++.+ ..+..+++||+|+||||+++|++ ..||++ ++.+|++|+| ||||||+|+|+|+|..
T Consensus 162 y~q~f~~G~~~~~~p~i--~~~~~~~~GT~ItF~PD~~iF~~-~~fd~d~~~~l~kRl~elAa~Ln~GlkI~Lnder~~- 237 (1135)
T PLN03128 162 YKQVFTNNMSVKSEPKI--TSCKASENWTKITFKPDLAKFNM-TRLDEDVVALMSKRVYDIAGCLGKKLKVELNGKKLP- 237 (1135)
T ss_pred EEEEeCCCcccCCCcee--ccCCCCCCceEEEEEECHHHcCC-CccChHHHHHHHHHHHHHHHhCCCCcEEEEecCCCC-
Confidence 99999999999887654 22223469999999999999985 469977 5899999999 9999999999999853
Q ss_pred CcCcceeEeecccHHHHHHHH-hcCCCCCCceeEEEEeecCeEEEEEEEEcCCCCCceeeeeeCceecCCCccchHHHHH
Q 005193 281 EKNQYNEYFFAGGLEEYVQWL-NTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKA 359 (709)
Q Consensus 281 ~~~~~e~f~~~~Gl~dyv~~l-~~~~~~l~~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~ 359 (709)
.+||++||+++ +.++++.+.++.+.++ +..||||++|++ + +++++||||||+|++|||||+||++
T Consensus 238 ----------~~G~~dyv~~~~~~~~~~~~~~i~~~~~--~~~~eva~~~s~-~-~~~~~SFVN~I~T~~GGTHv~g~~~ 303 (1135)
T PLN03128 238 ----------VKSFQDYVGLYLGPNSREDPLPRIYEKV--NDRWEVCVSLSD-G-SFQQVSFVNSIATIKGGTHVDYVAD 303 (1135)
T ss_pred ----------CCCHHHHHHHHhcCCCCCCCCCeEEEec--CceEEEEEEEcC-C-CceEEEEECcEecCCCCchHHHHHH
Confidence 37999999964 4444333445666554 456999999995 4 5679999999999999999999999
Q ss_pred HHHHHHHHHHhhcccCCCCCCCCCHhhhccceEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhChHH
Q 005193 360 SLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDV 439 (709)
Q Consensus 360 altr~ln~~~kk~~~~K~k~~~l~~~dIregL~~vVsvki~nP~FegQTK~kL~n~ev~~~v~~~v~~~l~~~le~np~~ 439 (709)
+|++.+++++++++ | ++.+++++||||||++||||+|+||+|+||||++|+|++++.+|++.+.+.|..||+
T Consensus 304 ~i~~~i~~~~~kk~--K-~~~~l~~~diregL~~vIs~ki~nP~FesQTKekL~s~~~~~~v~~~v~e~~~~~l~----- 375 (1135)
T PLN03128 304 QIVKHIQEKVKKKN--K-NATHVKPFQIKNHLWVFVNCLIENPTFDSQTKETLTTRPSSFGSKCELSEEFLKKVE----- 375 (1135)
T ss_pred HHHHHHHHHHHHcc--C-CCCCCCHHHHHhCcEEEEEEecCCCcccCcccccccChhHHHHHHHHHHHHHHHHHh-----
Confidence 99999999987754 2 245799999999999999999999999999999999999999999999999999995
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCC---CCCCCCceEEEeecCCCCcccccc---CCCCce
Q 005193 440 LDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCS---STTPEESEIFIVEGDSAGGSAKQG---RDRRFQ 513 (709)
Q Consensus 440 ~~~I~~k~~~~~kar~aakkare~~r~k~~~~~~~lpgKL~Dc~---~~~~~~~eL~lvEGDSA~Gsak~g---Rdr~~q 513 (709)
...|+++++.+++||++|+++|+..++|+.+ ..+ +||+||+ +++|++|||||||||||||||||| |||+||
T Consensus 376 ~~~Ivekil~~a~aR~aa~~~k~~~~kk~~~--~~i-pKL~Dc~~ag~k~~~~ceLflvEGDSAggsAk~Gl~~rdR~~q 452 (1135)
T PLN03128 376 KCGVVENILSWAQFKQQKELKKKDGAKRQRL--TGI-PKLDDANDAGGKKSKDCTLILTEGDSAKALAMSGLSVVGRDHY 452 (1135)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhccCCC--CCC-cccccccccCCCChhHcEEEEEecCCCCcchhhcccccCccce
Confidence 3478889999999999999999888777432 234 4999997 899999999999999999999999 999999
Q ss_pred EeeccCcccccccccCHHHhhhcHhHHHHHHHhcCCccCCcC---ccccccceeEEEeecCCCCCchhhhhHHHHHHHHH
Q 005193 514 AILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDF---KKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQ 590 (709)
Q Consensus 514 ailPLRGKiLNv~ka~~~ki~~N~Ei~~li~alG~g~~~~~~---~~~~LRYgkIiImTDaDvDG~HI~~Llltff~~~~ 590 (709)
|||||||||||||+|+.+||++|+||++|++|||||++ ++| |+++|||||||||||||+||+||||||||||||||
T Consensus 453 aIlPLRGKiLNV~ka~~~ki~~N~EI~~li~alG~~~g-~~~~~~d~~~LRYgkIiIMTDaDvDGsHIr~LLltff~~~~ 531 (1135)
T PLN03128 453 GVFPLRGKLLNVREASHKQIMKNAEITNIKQILGLQFG-KTYDEENTKSLRYGHLMIMTDQDHDGSHIKGLIINFFHSFW 531 (1135)
T ss_pred eeeccCCceeccccCCHHHHhcchHHHHHHHHhCCCcC-ccccccChhhcccCeEEEEeCCCCCcchhHHHHHHHHHHhC
Confidence 99999999999999999999999999999999999995 556 99999999999999999999999999999999999
Q ss_pred HHhhhc-CcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHHhCCCC-CcccceEeeccccCChhhhHhhhcCccceeeeee
Q 005193 591 KTLFDE-GCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSN-ALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQL 668 (709)
Q Consensus 591 p~Li~~-G~i~~~~tPL~kv~~gk~~~y~ys~~e~~~~~~~~~~~-~~~~iqryKGLGem~~~q~~ett~dp~~r~l~~v 668 (709)
|+||+. ||||+|+||||||++||+++||||++||++|++++++. ++|+||||||||||+|+|+||||+|+.++... +
T Consensus 532 p~Li~~~G~l~~~~tPl~kv~~gk~~~~~~s~~e~~~~~~~~~~~~~~~~ikyyKGLGe~~~~e~~e~f~~~~~~~~~-f 610 (1135)
T PLN03128 532 PSLLKIPGFLVEFITPIVKATKGGKSLSFYTMPEYEAWKESLEGETKGWTIKYYKGLGTSTSEEAKEYFSNLDIHKKE-F 610 (1135)
T ss_pred HHhhccCCeEEEccCCEEEEEcCCeeEecCCHHHHHHHHHhhcccCCCccceeecccccCCHHHHHHHHHhHHHhEEE-E
Confidence 999997 99999999999999999999999999999999887543 47999999999999999999999999887543 3
Q ss_pred ccccHHHHHHHHHHhcC-CCchHHHHHHHhccccCCcC
Q 005193 669 VIEDAAEANVVFSSLMG-ARVDTRKELIQNAANLVNLD 705 (709)
Q Consensus 669 ~~~d~~~~~~~f~~lmg-~~~~~RK~~i~~~~~~~~~~ 705 (709)
.+.+. ..+++++++|+ +++++||+||.++.+..+++
T Consensus 611 ~~~~~-~~~~~i~~aF~k~~~~~RK~Wl~~~~~~~~~d 647 (1135)
T PLN03128 611 LWQSD-EDGDLIDMAFSKKRVEDRKIWLNNYEPGTFLD 647 (1135)
T ss_pred EeCCC-CcHHHHHHhcCCCcHHHHHHHHHhCCCCcccc
Confidence 33221 12346666666 66999999999987766553
No 13
>PLN03237 DNA topoisomerase 2; Provisional
Probab=100.00 E-value=9.7e-166 Score=1476.44 Aligned_cols=586 Identities=25% Similarity=0.389 Sum_probs=506.2
Q ss_pred CcccceeccChhhHhhCCCeeeccCC---------------------CCchhHHHHHHHHhhHHhhcc-CCCCeEEEEEe
Q 005193 78 GSEQIQVLEGLEAVRKRPAMYIGSTG---------------------PRGLHHLVYEILDNAVDEAQA-GYASNIEVALL 135 (709)
Q Consensus 78 ~~~~Iq~L~glE~VrkRPgMYIGst~---------------------~~GL~hlv~EIldNavDe~~~-g~~~~I~V~i~ 135 (709)
-++.||+|+|+||||+|||||||||+ .+|||||||||||||+||+++ |+|+.|+|+||
T Consensus 28 ~~~~Yqkls~lEhVr~RP~mYIGSt~~~~~~~wv~~~~~m~~~~v~~vpGL~kifdEIldNAvDe~~r~g~~~~I~V~I~ 107 (1465)
T PLN03237 28 IEEMYQKKSQLEHILLRPDTYIGSIEKHTQTLWVYETDKMVQRSVTYVPGLYKIFDEILVNAADNKQRDPKMDSLRVVID 107 (1465)
T ss_pred HHHhhhccccchHHhcCCCCEeCCCCcccceeeeeccccceeeeccccchhhhhHHHHhhhhHhHHhhcCCCCEEEEEEE
Confidence 46679999999999999999999999 599999999999999999955 99999999999
Q ss_pred -cCCc---------cccccCCCCCccceEEEEeeeccCCCCCCCCCceeeccCcccccceeeeeecceeEEEEE--eCCE
Q 005193 136 -ADNS---------IPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVW--RDGM 203 (709)
Q Consensus 136 -~Dgs---------IPvd~h~~~g~~~~E~v~t~LhaGgkFd~~~~~ykvsGGlhGvGasvvNAlS~~f~Vev~--r~Gk 203 (709)
+||+ |||++|+++|+|+||+|||+||||||||++ +|++||||||||+|||||||+||+|+|+ ++|+
T Consensus 108 ~~~gsIsV~DnGRGIPV~iH~~eg~~~pElIft~LhAGgkFdd~--~yKvSGGlhGVGasvvNaLS~~f~Vev~Dg~~gk 185 (1465)
T PLN03237 108 VEQNLISVYNNGDGVPVEIHQEEGVYVPEMIFGHLLTSSNYDDN--EKKTTGGRNGYGAKLTNIFSTEFVIETADGKRQK 185 (1465)
T ss_pred cCCCEEEEEecCccccCCCCCCCCCccceEEEEeeeccccCCCC--cceeeccccccCccccccccCeeEEEEEECCCCe
Confidence 4455 999999999999999999999999999988 9999999999999999999999999999 5689
Q ss_pred EEEEEccC--CCCCcceeeeccCCCCCCCCCeEEEEEcCcccccccccCCHHHH---HHHHHHHh-hcCCCcEEEEeecC
Q 005193 204 EYHQKYSR--GKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTI---AGRIRELA-FLNPKLTIALRKED 277 (709)
Q Consensus 204 ~y~q~f~~--G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~~~~fd~~~l---~~Rl~elA-~LnpGL~I~l~der 277 (709)
+|+|+|++ |.+..|+ + ..+.+.++||+|+||||++||++ ..||+++| .+|++||| ||||||+|+|+|+|
T Consensus 186 ~y~Q~f~~nmG~~~~p~--i--~~~~~~~~GT~VtF~PD~eiF~~-~~fd~D~l~~~~rRlrdLAa~LnkGlkI~LndeR 260 (1465)
T PLN03237 186 KYKQVFSNNMGKKSEPV--I--TKCKKSENWTKVTFKPDLAKFNM-THLEDDVVALMKKRVVDIAGCLGKTVKVELNGKR 260 (1465)
T ss_pred EEEEEEeCCCCccCCce--e--ccCCCCCCceEEEEEECHHHhCC-ceEcHHHHHHHHHHHHHHHhccCCCcEEEEEecC
Confidence 99999999 5555553 2 11333479999999999999985 47999987 58999999 99999999999998
Q ss_pred CCCCcCcceeEeecccHHHHHHHHhcC----CCCCCceeEEEEeecCeEEEEEEEEcCCCCCceeeeeeCceecCCCccc
Q 005193 278 SDPEKNQYNEYFFAGGLEEYVQWLNTD----KKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTH 353 (709)
Q Consensus 278 ~~~~~~~~e~f~~~~Gl~dyv~~l~~~----~~~l~~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTH 353 (709)
.+ .+||++||+++... +.+.+.++ +.+ .+..|||||+|++ + +++++||||||+|++||||
T Consensus 261 ~~-----------~~G~kdYV~~yl~~~~k~k~~~~~~i-~e~--~~~~~EVAl~~sd-~-~~~~~SFVNnI~T~~GGTH 324 (1465)
T PLN03237 261 IP-----------VKSFSDYVDLYLESANKSRPENLPRI-YEK--VNDRWEVCVSLSE-G-QFQQVSFVNSIATIKGGTH 324 (1465)
T ss_pred CC-----------CCCHHHHHHHHhhcccccCCCCCCcc-Eec--CCCeEEEEEEEeC-C-CceEEEEECcccCCCCCcH
Confidence 53 26999999965432 12333333 433 4677999999994 5 4789999999999999999
Q ss_pred hHHHHHHHHHHHHHHHhhcccCCCCCCCCCHhhhccceEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHH---
Q 005193 354 IEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLT--- 430 (709)
Q Consensus 354 v~g~~~altr~ln~~~kk~~~~K~k~~~l~~~dIregL~~vVsvki~nP~FegQTK~kL~n~ev~~~v~~~v~~~l~--- 430 (709)
|+||+++|++.|+++++++ +++.+++++||||||++||||+|+||+|+||||++|+|+++. +...+.
T Consensus 325 v~g~~~aIt~~l~~~~~kK----~k~~~l~~~DIregL~a~IsvkI~nP~FesQTKekLtn~~~~------f~s~l~l~~ 394 (1465)
T PLN03237 325 VDYVTNQIANHVMEAVNKK----NKNANIKAHNVKNHLWVFVNALIDNPAFDSQTKETLTLRQSS------FGSKCELSE 394 (1465)
T ss_pred HHHHHHHHHHHHHHHHHhc----cCCCCCCHHHHHhCcEEEEEEeCCCCccCCcccCcccChHHH------HHHHhccCH
Confidence 9999999999999998753 334689999999999999999999999999999999998854 445555
Q ss_pred HHHhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc--ccCCCCCCCCCCC---CCCCCCceEEEeecCCCCcccc
Q 005193 431 EYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVL--RSSSLPGKLADCS---STTPEESEIFIVEGDSAGGSAK 505 (709)
Q Consensus 431 ~~le~np~~~~~I~~k~~~~~kar~aakkare~~r~k~~~--~~~~lpgKL~Dc~---~~~~~~~eL~lvEGDSA~Gsak 505 (709)
.|++ +..+..|+++++.++++ |++|++.|+|... ....+| ||+||+ ++++++|||||||||||||||+
T Consensus 395 ~flk--~~~~~~Ivekil~~A~a----k~arel~k~k~~k~~~~~~ip-KL~Dc~~aG~kd~~~ceLfLvEGDSAgGsAk 467 (1465)
T PLN03237 395 DFLK--KVMKSGIVENLLSWADF----KQSKELKKTDGAKTTRVTGIP-KLEDANEAGGKNSEKCTLILTEGDSAKALAV 467 (1465)
T ss_pred HHHh--HHHHHHHHHHHHHHHHH----HHHHHHHhhhcccccccCCCc-ccccccccccCCccccEEEEEecCcCCchhh
Confidence 6665 44667799999988765 5667777766442 333455 999998 6999999999999999999999
Q ss_pred ccC---CCCceEeeccCcccccccccCHHHhhhcHhHHHHHHHhcCCccCCcCccccccceeEEEeecCCCCCchhhhhH
Q 005193 506 QGR---DRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLL 582 (709)
Q Consensus 506 ~gR---dr~~qailPLRGKiLNv~ka~~~ki~~N~Ei~~li~alG~g~~~~~~~~~~LRYgkIiImTDaDvDG~HI~~Ll 582 (709)
||| ||+||||||||||||||++++.+||++|+||++||+|||||++.++||+++|||||||||||||+||+||||||
T Consensus 468 ~GR~vvdR~~qaIlPLRGKILNV~kAs~~kil~N~EI~~ii~aLGlgig~~y~d~~~LRYgkIiIMTDADvDGsHIrgLL 547 (1465)
T PLN03237 468 AGLSVVGRNYYGVFPLRGKLLNVREASHKQIMNNAEIENIKQILGLQHGKQYESVKSLRYGHLMIMTDQDHDGSHIKGLL 547 (1465)
T ss_pred hhhcccCccceeeeccCCceehhccCcHHhhhcchHHHHHHHHhCCCcCcccCcccccccCcEEEEeCCCCCccHHHHHH
Confidence 999 79999999999999999999999999999999999999999965557999999999999999999999999999
Q ss_pred HHHHHHHHHHhhh-cCcEEEecCCeEEEEe-CCeEEEeeCHHHHHHHHHhCCC-CCcccceEeeccccCChhhhHhhhcC
Q 005193 583 LTFFYRYQKTLFD-EGCIYVGVPPLYKVER-GKQVQYCYDDAELKKVKSSFPS-NALYSIQRFKGLGEMMPVQLWETTLN 659 (709)
Q Consensus 583 ltff~~~~p~Li~-~G~i~~~~tPL~kv~~-gk~~~y~ys~~e~~~~~~~~~~-~~~~~iqryKGLGem~~~q~~ett~d 659 (709)
|||||+|||+||+ .||||+|+||||||++ ||+++||||++||++|++++++ .++|+||||||||||+|+|+||||.|
T Consensus 548 LtFF~r~~P~Li~~~Gfl~~~~tPL~Kv~~~gk~~~~fys~~E~e~w~~~~~~~~~~~~IkyYKGLGe~~~~e~keyf~~ 627 (1465)
T PLN03237 548 INFIHSFWPSLLKVPSFLVEFITPIVKATRRGKKVLSFYSMPEYEEWKESLGGNATGWSIKYYKGLGTSTAKEGKEYFKN 627 (1465)
T ss_pred HHHHHHhhHHhcccCCEEEEecCCeEEEEECCCeeEeecCHHHHHHHHHHhcccCCceeeEeeccCCCCCHHHHHHHHHh
Confidence 9999999999999 8999999999999999 9999999999999999998653 35799999999999999999999999
Q ss_pred ccceeeeeeccccHHHHHHHHHHhcCC-CchHHHHHHHhccccCCcC
Q 005193 660 PEQRMLKQLVIEDAAEANVVFSSLMGA-RVDTRKELIQNAANLVNLD 705 (709)
Q Consensus 660 p~~r~l~~v~~~d~~~~~~~f~~lmg~-~~~~RK~~i~~~~~~~~~~ 705 (709)
.+++.+. +.+.+.. .+.+|++.|++ ++++||+||.++.+..+++
T Consensus 628 ~~~h~~~-f~~~~~~-~~~~i~laF~k~~~d~RK~Wl~~~~~~~~ld 672 (1465)
T PLN03237 628 LGKHKKD-FVWEDEQ-DGDAIELAFSKKKIEARKNWLRQYEPGTHLD 672 (1465)
T ss_pred HHhceEE-EEECCCC-cHHHHHHHhCCccHHHHHHHHHhCCCCcccc
Confidence 9887653 4332211 23456666665 5999999999987766553
No 14
>KOG0355 consensus DNA topoisomerase type II [Chromatin structure and dynamics]
Probab=100.00 E-value=1e-119 Score=1018.23 Aligned_cols=588 Identities=30% Similarity=0.411 Sum_probs=514.5
Q ss_pred cccceeccChhhHhhCCCeeeccCCC---------------------CchhHHHHHHHHhhHHhhccC-CCCeEEEEEec
Q 005193 79 SEQIQVLEGLEAVRKRPAMYIGSTGP---------------------RGLHHLVYEILDNAVDEAQAG-YASNIEVALLA 136 (709)
Q Consensus 79 ~~~Iq~L~glE~VrkRPgMYIGst~~---------------------~GL~hlv~EIldNavDe~~~g-~~~~I~V~i~~ 136 (709)
++.||+.+.+|||++||+.||||+++ |||+||++||++||+| .+++ .|+.|.|+||+
T Consensus 5 ~~~yqkks~~ehiL~rPdtyig~ve~~~~~~wv~~~e~~k~~~~t~~pGl~ki~dEilvNaad-k~rd~~m~~i~v~i~~ 83 (842)
T KOG0355|consen 5 EDIYQKKSQLEHILLRPDTYIGSVEPTEQLMWVYDMEKRKMVQRTYVPGLYKIFDEILVNAAD-KQRDPKMNTIKVTIDK 83 (842)
T ss_pred HHHHhhhhhhhhhhcCCcccccccccceeEEeeeccccCceeEeecCCcHHHHHHHHhhcccc-cccCCCcceeEEEEcc
Confidence 35789999999999999999999985 7999999999999999 8887 48899999996
Q ss_pred ---------CCc-cccccCCCCCccceEEEEeeeccCCCCCCCCCceeeccCcccccceeeeeecceeEEEEE--eCCEE
Q 005193 137 ---------DNS-IPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVW--RDGME 204 (709)
Q Consensus 137 ---------Dgs-IPvd~h~~~g~~~~E~v~t~LhaGgkFd~~~~~ykvsGGlhGvGasvvNAlS~~f~Vev~--r~Gk~ 204 (709)
+|+ ||++.||.+++++||+||++|||++|||++ +-|++||+||||++|+|+||..|.+||. +.++.
T Consensus 84 e~~~isv~nnGkGIPv~~H~~ek~yvpelifg~Lltssny~d~--ekK~tggrngygakLcniFs~~f~~Et~d~~~~~~ 161 (842)
T KOG0355|consen 84 EKNEISVYNNGKGIPVTIHKVEKVYVPELIFGNLLTSSNYDDD--EKKVTGGRNGYGAKLCNIFSTEFTVETADREYKMA 161 (842)
T ss_pred CCCEEEEEeCCCcceeeecccccccchHHHHhhhhhccccCCC--ccccccCCCccceeeeeeccccceeeeeehHhHHH
Confidence 455 999999999999999999999999999999 8899999999999999999999999995 58899
Q ss_pred EEEEccCCCCCcceeeeccCCCCCCCCCeEEEEEcCcccccccccCCHHH---HHHHHHHHhhcCCCcEEEEeecCCCCC
Q 005193 205 YHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNT---IAGRIRELAFLNPKLTIALRKEDSDPE 281 (709)
Q Consensus 205 y~q~f~~G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~~~~fd~~~---l~~Rl~elA~LnpGL~I~l~der~~~~ 281 (709)
|+|+|.+||+.+..+.++.. .++.||+|||+||.+.|.++ ++|.|+ +.+|++++|....++++.+|++++.
T Consensus 162 ~kQ~w~~nm~~~~~~~i~~~---~~~~yTkitF~PDl~~F~m~-eLD~Div~l~~rr~~d~a~~~~~vkv~ln~~~~~-- 235 (842)
T KOG0355|consen 162 FKQTWINNMTRDEEPKIVPS---TDEDYTKITFSPDLEKFKMK-ELDDDIVALMARRAYDLAGSVKSVKVELNGKNIP-- 235 (842)
T ss_pred HHHhhhcCCcccCCceeecC---CCCCcceEEeCcChHhcCch-hhcchHHHhHHhhhhhhcccccceeeeecCCCCc--
Confidence 99999999999887776433 34459999999999999986 688775 5899999998779999999999864
Q ss_pred cCcceeEeecccHHHHHHHHhcCCCCCCceeEEEEeecCeEEEEEEEEcCCCCCceeeeeeCceecCCCccchHHHHHHH
Q 005193 282 KNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASL 361 (709)
Q Consensus 282 ~~~~e~f~~~~Gl~dyv~~l~~~~~~l~~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al 361 (709)
-+|+.+||..+.+ ..+..++.....+..+-+||||++-+..+|+ ++||||+|+|.+|||||+++++++
T Consensus 236 ---------~~~f~~yv~~~~~-~~~~~~~~~~ihe~~~~RwEv~~a~s~~~fq--qisfvNsI~T~kGGThVd~V~D~i 303 (842)
T KOG0355|consen 236 ---------VKGFYDYVKMYLE-VLWLNDDLKPLHEVLNFRWEVALALSDVGFQ--QVSFVNSIATTKGGTHVDYVVDQI 303 (842)
T ss_pred ---------cchHHHHHhhccc-cccccCcchhhhcccchHHHHhhhccccccc--eeeeecceeecCCCcccchhhhhH
Confidence 2699999999886 3332222222233445568888888865665 599999999999999999999999
Q ss_pred HHHHHHHHhhcccCCCCCCCCCHhhhccceEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhChHHHH
Q 005193 362 TRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLD 441 (709)
Q Consensus 362 tr~ln~~~kk~~~~K~k~~~l~~~dIregL~~vVsvki~nP~FegQTK~kL~n~ev~~~v~~~v~~~l~~~le~np~~~~ 441 (709)
++.|+...++++.. ++.++++.+|+++|+++|+|.|+||.|+||||++|+++..+..+.+.+++.+.+.+.+++ +++
T Consensus 304 v~~l~~vvkKk~~~--~~~svk~f~vkn~L~vfVN~lIENPtFesQTke~lt~~~~~fgs~~elsek~~k~~~~~~-i~e 380 (842)
T KOG0355|consen 304 VAKLIDVVKKKKVK--KDISVKPFQVKNHLWVFVNCLIENPTFESQTKERLTLRPKRFGSDCELSEKFTKAIELKG-VVE 380 (842)
T ss_pred HHHHHHHhcccccc--cccccchhhhhcceEEEEEEEecCccccccchhhcccccccccceEeehhHHHHHHHhCc-hHH
Confidence 99999998876543 457899999999999999999999999999999999999999999999999999999999 999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCC---CCCCCCceEEEeecCCCCcccc---ccCCCCceEe
Q 005193 442 SILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCS---STTPEESEIFIVEGDSAGGSAK---QGRDRRFQAI 515 (709)
Q Consensus 442 ~I~~k~~~~~kar~aakkare~~r~k~~~~~~~lpgKL~Dc~---~~~~~~~eL~lvEGDSA~Gsak---~gRdr~~qai 515 (709)
.|++++..+.+...+.+++++..+.+ .+ .||.|++ .+.+..|+|+++|||||+..|. +..+|++++|
T Consensus 381 sils~s~~~~~~dL~kk~~~~~s~~e------~I-~KleDa~~ag~k~s~kctlIltEgdsaksLavsGl~vvgRd~~gV 453 (842)
T KOG0355|consen 381 SILSKSLNKYKDDLAKKRGKLTSRSK------GI-PKLEDANDAGTKTSEKCTLILTEGDSAKSLAVSGLSVVGRDYYGV 453 (842)
T ss_pred HHHHHHHHHHHHhhhhhhhhhhcccc------ch-hHhhhcccccccccccceeEEeccccchhheecccccccceeEee
Confidence 99999988887776666665433333 23 3888876 3578899999999999975444 4467888999
Q ss_pred eccCcccccccccCHHHhhhcHhHHHHHHHhcCCccCCcCccccccceeEEEeecCCCCCchhhhhHHHHHHHHHHHhhh
Q 005193 516 LPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFD 595 (709)
Q Consensus 516 lPLRGKiLNv~ka~~~ki~~N~Ei~~li~alG~g~~~~~~~~~~LRYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~ 595 (709)
||||||+|||++++.+++++|+||++|+.+||+.....+|+.++|||||+|||||||+||+||+||||||||+|||+|++
T Consensus 454 fplrgklLNv~e~s~kqilkn~EI~aIikIlgl~~~~~y~~~eslryg~~mimtDQd~dgshikgllInf~~~~~psl~~ 533 (842)
T KOG0355|consen 454 FPLRGKLLNVREASHKQILKNAEINAIIKILGLQYKKKYFDVESLRYGKLMIMTDQDHDGSHIKGLLINFIHHFWPSLLQ 533 (842)
T ss_pred cccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccccchhheEeeeccccccchHHHHHHHHHHHhhHHhhc
Confidence 99999999999999999999999999999999999888999999999999999999999999999999999999999999
Q ss_pred cCcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHHhCCCCCcccceEeeccccCChhhhHhhhcCccceeeeeeccc--cH
Q 005193 596 EGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIE--DA 673 (709)
Q Consensus 596 ~G~i~~~~tPL~kv~~gk~~~y~ys~~e~~~~~~~~~~~~~~~iqryKGLGem~~~q~~ett~dp~~r~l~~v~~~--d~ 673 (709)
.+||+.|+|||+|+++|++..+|||++||++|++..+.+++|+||||||||||+++|+||||+|+++|++...... |.
T Consensus 534 ~~fleefitpi~k~~~~~~~~~fys~pey~kw~~~~~~~~~~~ikyykglgts~~~e~keyf~~~~~h~~~F~~~~~~d~ 613 (842)
T KOG0355|consen 534 IPFLEEFITPIVKATKGKQEVSFYSLPEYEKWKKNTDNWKSWKIKYYKGLGTSTSKEAKEYFSDLDRHRILFKYDGGIDD 613 (842)
T ss_pred CCcceecCCcceEeccCCcceeeeccHHHHHHHhcCccccccceEEeecCCcccHHHHHHHhcCcchheEEEeccCcchH
Confidence 9999999999999999999999999999999999988778999999999999999999999999999987654332 33
Q ss_pred HHHHHHHHHhcCCCchHHHHHHHhccc
Q 005193 674 AEANVVFSSLMGARVDTRKELIQNAAN 700 (709)
Q Consensus 674 ~~~~~~f~~lmg~~~~~RK~~i~~~~~ 700 (709)
+.+++.|+ .++.++||+||.++.+
T Consensus 614 ~~i~~af~---k~k~~~rk~wL~~~~~ 637 (842)
T KOG0355|consen 614 EAIDMAFS---KKKIDARKEWLRKYMP 637 (842)
T ss_pred HHHhhhcc---cccHHHHHHHHHHHhH
Confidence 33444554 4679999999999876
No 15
>cd03366 TOPRIM_TopoIIA_GyrB TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. DNA gyrase is more effective at relaxing supercoils than decatentating DNA. DNA gyrase in addition inserts negative supercoils in the presence of ATP. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleava
Probab=100.00 E-value=5.7e-57 Score=406.85 Aligned_cols=114 Identities=73% Similarity=1.166 Sum_probs=112.1
Q ss_pred ceEEEeecCCCCccccccCCCCceEeeccCcccccccccCHHHhhhcHhHHHHHHHhcCCccCCcCccccccceeEEEee
Q 005193 490 SEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILT 569 (709)
Q Consensus 490 ~eL~lvEGDSA~Gsak~gRdr~~qailPLRGKiLNv~ka~~~ki~~N~Ei~~li~alG~g~~~~~~~~~~LRYgkIiImT 569 (709)
|||||||||||||||||||||+||||||||||||||||++.+|+++|+||++|++|||||+ +++||+++|||+||||||
T Consensus 1 ~eL~lvEGDSAggsak~gRdr~~qailPLrGKiLNv~ka~~~ki~~n~Ei~~li~alG~g~-~~~~~~~~lrY~kiiimt 79 (114)
T cd03366 1 SELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALGTGI-GEDFDLEKLRYHKIIIMT 79 (114)
T ss_pred CEEEEEeCCCCccccccccCcCceEEeccCCccchHhhccHHHHhcChHHHHHHHHhCCCC-CCCCChhhCCcCeEEEEe
Confidence 8999999999999999999999999999999999999999999999999999999999999 478999999999999999
Q ss_pred cCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecC
Q 005193 570 DADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVP 604 (709)
Q Consensus 570 DaDvDG~HI~~Llltff~~~~p~Li~~G~i~~~~t 604 (709)
|||+||+||++|||||||||||+|+++||||+++|
T Consensus 80 DaD~DG~hI~~Llltff~~~~p~Li~~G~vyia~p 114 (114)
T cd03366 80 DADVDGAHIRTLLLTFFFRYMRPLIENGHVYIAQP 114 (114)
T ss_pred CCCCCchHHHHHHHHHHHHHhHHHHhCCeEEEecC
Confidence 99999999999999999999999999999999987
No 16
>cd01030 TOPRIM_TopoIIA_like TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=100.00 E-value=7.6e-56 Score=401.67 Aligned_cols=115 Identities=64% Similarity=1.060 Sum_probs=113.1
Q ss_pred ceEEEeecCCCCccccccCCCCceEeeccCcccccccccCHHHhhhcHhHHHHHHHhcCCccCCcCccccccceeEEEee
Q 005193 490 SEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILT 569 (709)
Q Consensus 490 ~eL~lvEGDSA~Gsak~gRdr~~qailPLRGKiLNv~ka~~~ki~~N~Ei~~li~alG~g~~~~~~~~~~LRYgkIiImT 569 (709)
|||||||||||||||+|||||+||||||||||||||||++.+|+++|+||++|++||||+++.+++|+++|||+||||||
T Consensus 1 ~eL~lvEGDSA~gsak~gR~~~~qailPLrGKiLNv~ka~~~k~~~n~Ei~~l~~alG~~~~~~~~~~~~lrY~kiiimt 80 (115)
T cd01030 1 CELILVEGDSAGGSAKQGRDRVFQAVFPLRGKILNVEKASLKKILKNEEIQNIIKALGLGIGKDDFDLDKLRYGKIIIMT 80 (115)
T ss_pred CEEEEEecCCcchhhhhhcCcccEEEeccCCeeccHhcCCHHHHhcChHHHHHHHHhCCCCCcccCChhhcCcCeEEEEe
Confidence 89999999999999999999999999999999999999999999999999999999999997678999999999999999
Q ss_pred cCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecC
Q 005193 570 DADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVP 604 (709)
Q Consensus 570 DaDvDG~HI~~Llltff~~~~p~Li~~G~i~~~~t 604 (709)
|||+||+||++|||||||||||+|+++||||+|+|
T Consensus 81 DaD~DG~hI~~Llltff~~~~p~Li~~G~v~~~~~ 115 (115)
T cd01030 81 DADVDGSHIRTLLLTFFYRFWPSLLENGFLYIAQT 115 (115)
T ss_pred CCCCCccHhHHHHHHHHHHHhhHhhhCCEEEEeeC
Confidence 99999999999999999999999999999999987
No 17
>cd03365 TOPRIM_TopoIIA TOPRIM_TopoIIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofact
Probab=100.00 E-value=9.4e-53 Score=383.71 Aligned_cols=115 Identities=35% Similarity=0.597 Sum_probs=110.5
Q ss_pred ceEEEeecCCCCccccccC---CCCceEeeccCcccccccccCHHHhhhcHhHHHHHHHhcCCccC-CcCccccccceeE
Q 005193 490 SEIFIVEGDSAGGSAKQGR---DRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKG-EDFKKEALRYHKI 565 (709)
Q Consensus 490 ~eL~lvEGDSA~Gsak~gR---dr~~qailPLRGKiLNv~ka~~~ki~~N~Ei~~li~alG~g~~~-~~~~~~~LRYgkI 565 (709)
||||||||||||||||||| ||+||||||||||||||+|++.+|+++|+||++|++|||||++. +++|+++|||+||
T Consensus 1 ~eLflvEGDSA~gsak~gr~~~dr~~qailPLrGKiLNv~ka~~~ki~~n~Ei~~li~alG~g~~~~~~~~~~~lrY~ki 80 (120)
T cd03365 1 CTLILTEGDSAKALAVAGLSVVGRDYYGVFPLRGKLLNVREASHKQIMENAEIQNIKKILGLQHGKSDYESTKSLRYGRL 80 (120)
T ss_pred CEEEEEeCCCchhhHHhhhccCCCceEEEeccCCccchhhcCCHHHHhcCHHHHHHHHHhCCCCCcccccccccCCcCeE
Confidence 8999999999999999999 89999999999999999999999999999999999999999964 3489999999999
Q ss_pred EEeecCCCCCchhhhhHHHHHHHHHHHhhhc-CcEEEecC
Q 005193 566 IILTDADVDGAHIRTLLLTFFYRYQKTLFDE-GCIYVGVP 604 (709)
Q Consensus 566 iImTDaDvDG~HI~~Llltff~~~~p~Li~~-G~i~~~~t 604 (709)
|||||||+||+||++|||||||||||+||++ |||+.+.|
T Consensus 81 iimtDaD~DG~hI~~Llltff~r~~p~Li~~~~fi~~~~t 120 (120)
T cd03365 81 MIMTDQDHDGSHIKGLLINFIHSFWPSLLKIPGFLVEFIT 120 (120)
T ss_pred EEEeCCCCCccHHHHHHHHHHHHHhHHHhcCCCHHHHhcC
Confidence 9999999999999999999999999999997 99988765
No 18
>cd00822 TopoII_Trans_DNA_gyrase TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are heterodimers composed of two subunits. The type IIA enzymes are the predominant form of topoisomerase and are found in some bacteriophages, viruses and archaea, and in all bacteria and eukaryotes. All type IIA topoisomerases are related to each other at amino acid sequence level, though their oligomeric organization sometimes differs. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. TopoIIA enzymes also catenate/ decatenate duplex rings. E.coli DNA gyrase is a
Probab=100.00 E-value=1e-41 Score=335.55 Aligned_cols=170 Identities=48% Similarity=0.851 Sum_probs=162.6
Q ss_pred ccHHHHHHHHhcCCCCCC-ceeEEEEeecCeEEEEEEEEcCCCCCceeeeeeCceecCCCccchHHHHHHHHHHHHHHHh
Q 005193 292 GGLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGK 370 (709)
Q Consensus 292 ~Gl~dyv~~l~~~~~~l~-~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~altr~ln~~~k 370 (709)
|||.+||++++++++++| ++++|.++.+++.|||||+|+ ++|+++++||||+|+|++||||++||+++|+++||+|++
T Consensus 1 gGl~~fl~~l~~~~~~l~~~~i~~~~~~~~~~veva~~~~-~~~~~~~~sfvN~i~T~~GGTH~~g~~~~l~~~i~~~~~ 79 (172)
T cd00822 1 GGLKDFVEELNKDKEPLHEEPIYIEGEKDGVEVEVALQWT-DSYSENILSFVNNIPTPEGGTHETGFRAALTRAINDYAK 79 (172)
T ss_pred CCHHHHHHHHhCCCCcCCCCCeEEEEEecceEEEEEEEEe-CCCCeEEEEeECcccCCCCCCHHHHHHHHHHHHHHHHHH
Confidence 699999999999999997 788898887889999999999 678899999999999999999999999999999999999
Q ss_pred hcccCCCCCCCCCHhhhccceEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhChHHHHHHHHHHHHH
Q 005193 371 KSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSA 450 (709)
Q Consensus 371 k~~~~K~k~~~l~~~dIregL~~vVsvki~nP~FegQTK~kL~n~ev~~~v~~~v~~~l~~~le~np~~~~~I~~k~~~~ 450 (709)
+++++|+++.+++++||++||++||+|+++||+|+||||++|+|++++.+|+++|.+.|..||++||+.++.|+++++.+
T Consensus 80 ~~~~~k~~~~~~~~~di~~~l~~vvsv~~~~P~F~gQTK~kL~~~~v~~~v~~~v~~~l~~~l~~n~~~a~~i~~k~~~~ 159 (172)
T cd00822 80 KNNLLKKKDVKLTGDDIREGLTAVISVKVPEPQFEGQTKDKLGNSEVRSIVESAVREALEEWLEENPEEAKKILEKAILA 159 (172)
T ss_pred HhCcccccCCCCCHHHHHhCcEEEEEEEcCCCccCCcccccccCHhHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
Confidence 98888776689999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHH
Q 005193 451 LKAALAAKRARD 462 (709)
Q Consensus 451 ~kar~aakkare 462 (709)
+++|++++++|+
T Consensus 160 ~~aR~aa~~ar~ 171 (172)
T cd00822 160 AKAREAARKARE 171 (172)
T ss_pred HHHHHHHHHhhc
Confidence 999999999986
No 19
>PF00204 DNA_gyraseB: DNA gyrase B; InterPro: IPR013506 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. Type IIA topoisomerases together manage chromosome integrity and topology in cells. Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively; this topoisomerase II forms a homodimer that is equivalent to the bacterial heterotetramer. There are four functional domains in topoisomerase II: domain 1 (N-terminal of gyrB) is an ATPase, domain 2 (C-terminal of gyrB) is responsible for subunit interactions, domain 3 (N-terminal of gyrA) is responsible for the breaking-rejoining function through its capacity to form protein-DNA bridges, and domain 4 (C-terminal of gyrA) is able to non-specifically bind DNA []. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication []. Topoisomerase IV consists of two polypeptide subunits, parE and parC, where parC is homologous to gyrA and parE is homologous to gyrB. This entry represents the second domain found in subunit B (gyrB and parE) of bacterial gyrase and topoisomerase IV, and the equivalent N-terminal region in eukaryotic topoisomerase II composed of a single polypeptide. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 3LPS_A 3LNU_A 1KIJ_B 1EI1_B 1S16_B 1QZR_B 1PVG_A 3CWV_B 1ZXN_A 1ZXM_B ....
Probab=100.00 E-value=2.5e-40 Score=326.30 Aligned_cols=168 Identities=43% Similarity=0.817 Sum_probs=153.1
Q ss_pred cHHHHHHHHhcCCCCCC-ceeEEEEee--cC-eEEEEEEEEcCCCCCceeeeeeCceecCCCccchHHHHHHHHHHHHHH
Q 005193 293 GLEEYVQWLNTDKKPLH-DVVGFRKDV--DG-ITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSL 368 (709)
Q Consensus 293 Gl~dyv~~l~~~~~~l~-~~i~~~~~~--~~-~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~altr~ln~~ 368 (709)
||.||+++++.+++++| +++++.++. ++ +.|+||++|+ +++.+.++||||+|+|++||||++||+++|+++|++|
T Consensus 1 G~~dyv~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~va~~~~-~~~~~~~~SfvN~i~T~~GGtHv~g~~~~i~~~i~~~ 79 (173)
T PF00204_consen 1 GFKDYVKLLNKDKEPLHPEPIYFEGEDKENDRWEVEVAFQWT-SGYDEKIVSFVNNIPTPEGGTHVDGFKDAITKAINDY 79 (173)
T ss_dssp SHHHHHHHHCTTS-BSSSSEEEEEEEEE-TTTEEEEEEEEEB-SSSSCEEEEEETTEE-TTEBHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHhcCCCcCCCCCeEEEEEeccCCcEEEEEEEEec-CCCceeeeeeeccccccccccHHHHHHHHHHHHHHHh
Confidence 89999999999988888 578888776 55 9999999999 6677799999999999999999999999999999999
Q ss_pred HhhcccCCCCCCCCCHhhhccceEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhChHHHHHHHHHHH
Q 005193 369 GKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSL 448 (709)
Q Consensus 369 ~kk~~~~K~k~~~l~~~dIregL~~vVsvki~nP~FegQTK~kL~n~ev~~~v~~~v~~~l~~~le~np~~~~~I~~k~~ 448 (709)
+++++++|++. +++++||++||++||+|+|+||+|+||||++|+|++++..|++++.+.|..||++||++++.|+++++
T Consensus 80 ~~k~~~~k~~~-~i~~~di~~~l~~vv~~~i~nP~F~gQTK~~L~~~~~~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~ 158 (173)
T PF00204_consen 80 AKKKNKLKKKD-KITPEDIREGLTAVVSVKIPNPQFEGQTKEKLTNPEVRSIVEKAVSEKLEKWLEKNPEIAKAIIEKAL 158 (173)
T ss_dssp HHHTTCCCTTT-GSSHHHHHTTEEEEEEEEESSG-BSSTTTTSB--HHHHHHHHHHHHHHHHHHHHC-HHHHHHHHHHHH
T ss_pred HhhhCcccccc-ccchhhcccccEEEEEEEEecccccccccceeeHHHhhhhhhhhhHHHHHHHHHHCHHHHHHHHHHHH
Confidence 99998887665 99999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHH
Q 005193 449 SALKAALAAKRARD 462 (709)
Q Consensus 449 ~~~kar~aakkare 462 (709)
.++++|+++|+|||
T Consensus 159 ~~~~~r~~ak~are 172 (173)
T PF00204_consen 159 QAAKAREAAKKARE 172 (173)
T ss_dssp HHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHhcC
Confidence 99999999999987
No 20
>cd03481 TopoIIA_Trans_ScTopoIIA TopoIIA_Trans_ScTopoIIA: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topo IIA. S. cerevisiae Topo IIA is a homodimer encoded by a single gene. The type IIA enzymes are the predominant form of topoisomerase and are found in some bacteriophages, viruses and archaea, and in all bacteria and eukaryotes. All type IIA topoisomerases are related to each other at amino acid sequence level, though their oligomeric organization sometimes differs. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. TopoIIA enzymes also catenate/ decatenate duplex rings. This transducer domain is homologous to t
Probab=99.97 E-value=1e-30 Score=251.96 Aligned_cols=147 Identities=22% Similarity=0.272 Sum_probs=117.8
Q ss_pred cHHHHHHHHhcCCCCC---CceeEEEEeecCeEEEEEEEEcCCCCCceeeeeeCceecCCCccchHHHHHHHHHHHHHHH
Q 005193 293 GLEEYVQWLNTDKKPL---HDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLG 369 (709)
Q Consensus 293 Gl~dyv~~l~~~~~~l---~~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~altr~ln~~~ 369 (709)
+|++|++++..+..+. ..++.+ +..+-+|||||+|++ + +++++||||+|+|++||||++||+++|+++|++|+
T Consensus 2 ~f~~Y~~ly~~~~~~~~~~~~~~~~--~~~~~~veva~~~s~-~-~~~~~SFvN~I~T~~GGTHv~g~~~~lt~~i~~~~ 77 (153)
T cd03481 2 SFKDYVKLYLKDANKEDGPPPPVVY--EPVNDRWEVAVALSD-G-QFQQVSFVNSIATTKGGTHVDYVADQIVKKLDEVV 77 (153)
T ss_pred CHHHHHHHHhcccccccCCCCCeEe--ccCCCcEEEEEEEcC-C-CcEEEEEECCcCCCCCCchHHHHHHHHHHHHHHHH
Confidence 6899999986442110 123322 332346999999994 4 68899999999999999999999999999999999
Q ss_pred hhcccCCCCCCCCCHhhhccceEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhChHHHHHHHHHHHH
Q 005193 370 KKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLS 449 (709)
Q Consensus 370 kk~~~~K~k~~~l~~~dIregL~~vVsvki~nP~FegQTK~kL~n~ev~~~v~~~v~~~l~~~le~np~~~~~I~~k~~~ 449 (709)
++++ | ++.+++++|||+||++||+|+++||+|+||||++|+|++-.......+.+.|.+|+.++ .|+++++.
T Consensus 78 ~kk~--k-~~~~i~~~dire~l~~vvs~~i~~P~FegQTK~kL~s~~~~~~~~~~~~~~~~~~~~k~-----~ii~~i~~ 149 (153)
T cd03481 78 KKKN--K-GGINVKPFQVKNHLWIFVNCLIENPSFDSQTKETLTTKPKSFGSKCELSEKFLKKAVKS-----GIVESVLS 149 (153)
T ss_pred HHcC--C-CCCCcCHHHHhcCeEEEEEEecCCCccCCcccccccCcccccccccccCHHHHHHHHHc-----hHHHHHHH
Confidence 8765 2 34689999999999999999999999999999999999855555558899999999876 56666654
Q ss_pred HH
Q 005193 450 AL 451 (709)
Q Consensus 450 ~~ 451 (709)
++
T Consensus 150 ~a 151 (153)
T cd03481 150 WA 151 (153)
T ss_pred HH
Confidence 43
No 21
>PF00986 DNA_gyraseB_C: DNA gyrase B subunit, carboxyl terminus The Prosite motif does not match this Pfam entry.; InterPro: IPR002288 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. Type IIA topoisomerases together manage chromosome integrity and topology in cells. Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively; this topoisomerase II forms a homodimer that is equivalent to the bacterial heterotetramer. There are four functional domains in topoisomerase II: domain 1 (N-terminal of gyrB) is an ATPase, domain 2 (C-terminal of gyrB) is responsible for subunit interactions, domain 3 (N-terminal of gyrA) is responsible for the breaking-rejoining function through its capacity to form protein-DNA bridges, and domain 4 (C-terminal of gyrA) is able to non-specifically bind DNA []. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication []. Topoisomerase IV consists of two polypeptide subunits, parE and parC, where parC is homologous to gyrA and parE is homologous to gyrB. This entry represents the C-terminal region (C-terminal part of domain 2) of subunit B found in topoisomerase II (gyrB) and topoisomerase IV (parE), which are primarily of bacterial origin. It does not include the topoisomerase II enzymes composed of a single polypeptide, as are found in most eukaryotes. This region is involved in subunit interaction, which accounts for the difference between subunit B and single polypeptide topoisomerase II. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 3LTN_D 3RAF_C 3FOF_C 3RAE_C 3KSA_D 3RAD_C 3FOE_D 3KSB_D 3K9F_D 2XCT_D ....
Probab=99.92 E-value=8.7e-26 Score=184.87 Aligned_cols=63 Identities=56% Similarity=0.893 Sum_probs=60.0
Q ss_pred CCcccceEeeccccCChhhhHhhhcCccceeeeeeccccHHHHHHHHHHhcCCCchHHHHHHH
Q 005193 634 NALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQ 696 (709)
Q Consensus 634 ~~~~~iqryKGLGem~~~q~~ett~dp~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~RK~~i~ 696 (709)
.++++||||||||||||+|||||||||++|+|.||+++|+.+++++|+.|||+++++||+||+
T Consensus 3 ~~~~~I~RfKGLGEM~p~qL~eTTmdP~~R~L~~V~i~d~~~~~~~~~~LMG~~v~~Rr~fIe 65 (65)
T PF00986_consen 3 KKKVEIQRFKGLGEMNPDQLWETTMDPETRRLIRVTIEDAEEADELFEMLMGKNVEPRREFIE 65 (65)
T ss_dssp TTTTEEEESSSGGGS-HHHHHHHHTSTTTTEEEEEEHCCHHHHHHHHHHHHSSTHHHHHHHHH
T ss_pred CCCceeEEecccccCCHHHHHHHccCccceEEEEEEECCHHHHHHHHHHHcCCCcHHHHHHhC
Confidence 457999999999999999999999999999999999999999999999999999999999996
No 22
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=99.72 E-value=1.3e-16 Score=185.98 Aligned_cols=275 Identities=17% Similarity=0.202 Sum_probs=186.9
Q ss_pred ceeccChhhHhhCCCeeeccCCCCchhHHHHHHHHhhHHhhccCCCCeEEEEEecCCc--cccccCCCCCccc--eEEEE
Q 005193 82 IQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNS--IPIDLHPATNKSA--LETVL 157 (709)
Q Consensus 82 Iq~L~glE~VrkRPgMYIGst~~~GL~hlv~EIldNavDe~~~g~~~~I~V~i~~Dgs--IPvd~h~~~g~~~--~E~v~ 157 (709)
|+.|+.--.=+.+.|-.| ..+..+|+|+|+||+| || |+.|.|+++.+|. |-|.. ...|++. ++.++
T Consensus 3 I~~L~~~v~~~IaAgevI-----~~~~svvkElveNsiD---Ag-at~I~v~i~~~g~~~i~V~D-nG~Gi~~~~~~~~~ 72 (617)
T PRK00095 3 IQLLPPQLANQIAAGEVV-----ERPASVVKELVENALD---AG-ATRIDIEIEEGGLKLIRVRD-NGCGISKEDLALAL 72 (617)
T ss_pred ceECCHHHHHHhcCcCcc-----cCHHHHHHHHHHHHHh---CC-CCEEEEEEEeCCeEEEEEEE-cCCCCCHHHHHHHh
Confidence 444444333333444443 4568899999999999 67 8999999987773 44432 2344432 34555
Q ss_pred eeeccCCCCCCCCCcee-eccCcccccceeeeeecceeEEEEEeC--CEEEEEEccCCCCCcceeeeccCCCCCCCCCeE
Q 005193 158 TVLHAGGKFGGSSSGYS-VSGGLHGVGLSVVNALSESLEVTVWRD--GMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTR 234 (709)
Q Consensus 158 t~LhaGgkFd~~~~~yk-vsGGlhGvGasvvNAlS~~f~Vev~r~--Gk~y~q~f~~G~~~~~l~~~~~~~~~~~~~GT~ 234 (709)
+ .|+++|+..-+.-|+ .|.|.+|.|++.++++| +++|+++++ +..|.+.|++|..+... .....+||+
T Consensus 73 ~-~~~tsKi~~~~dl~~~~t~GfrGeAL~sI~~vs-~l~i~s~~~~~~~~~~~~~~~G~~~~~~-------~~~~~~GT~ 143 (617)
T PRK00095 73 A-RHATSKIASLDDLEAIRTLGFRGEALPSIASVS-RLTLTSRTADAAEGWQIVYEGGEIVEVK-------PAAHPVGTT 143 (617)
T ss_pred h-ccCCCCCCChhHhhccccCCcchhHHHhhhhce-EEEEEEecCCCCceEEEEecCCcCccee-------cccCCCCCE
Confidence 5 789999976322555 57899999999999999 799999986 67899999999764321 112469999
Q ss_pred EEEE------cCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCcCcceeEeec--ccHHHHHHHHhcCCC
Q 005193 235 IRFW------PDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFA--GGLEEYVQWLNTDKK 306 (709)
Q Consensus 235 V~F~------PD~~iF~~~~~fd~~~l~~Rl~elA~LnpGL~I~l~der~~~~~~~~e~f~~~--~Gl~dyv~~l~~~~~ 306 (709)
|+++ |+..+|-.....+++.|.++++.+|++||++.+.|.+.. ...|++. +++.+++..+....
T Consensus 144 V~v~~LF~n~P~Rrkflk~~~~e~~~i~~~v~~~Al~~p~i~f~l~~~~-------~~~~~~~~~~~~~~~i~~i~g~~- 215 (617)
T PRK00095 144 IEVRDLFFNTPARRKFLKSEKTELGHIDDVVNRLALAHPDVAFTLTHNG-------KLVLQTRGAGQLLQRLAAILGRE- 215 (617)
T ss_pred EEechhhccCcHHHHhccCcHHHHHHHHHHHHHHhhcCCCcEEEEEECC-------EEEEEeCCCCCHHHHHHHHhCHH-
Confidence 9997 999999533346678899999999999999999999863 2457776 57888888765432
Q ss_pred CCCceeEEEEeecCeEEE--EEE-EEcCCCCCceeeeeeCceecCCCccchHHHHHHHHHHHHHHHhhcccCCCCCCCCC
Q 005193 307 PLHDVVGFRKDVDGITID--LAL-QWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLS 383 (709)
Q Consensus 307 ~l~~~i~~~~~~~~~~ve--val-~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~altr~ln~~~kk~~~~K~k~~~l~ 383 (709)
.....+.+..+.+++.++ ++. .|+ ......++.|||+.++.. ..|.++|++..+... .+
T Consensus 216 ~~~~l~~~~~~~~~~~i~g~is~p~~~-~~~~~~~~~fvN~R~v~~---------~~l~~ai~~~y~~~~-~~------- 277 (617)
T PRK00095 216 FAENALPIDAEHGDLRLSGYVGLPTLS-RANRDYQYLFVNGRYVRD---------KLLNHAIRQAYHDLL-PR------- 277 (617)
T ss_pred hHhheEEEeccCCCEEEEEEEeCcccc-cCCCcceEEEECCcEecC---------HHHHHHHHHHHHHhc-cC-------
Confidence 122344555555667777 444 344 344567899999999863 344555544332211 01
Q ss_pred HhhhccceEEEEEEeecCCCCC
Q 005193 384 GEHVREGLTCIISVRVPNPEFE 405 (709)
Q Consensus 384 ~~dIregL~~vVsvki~nP~Fe 405 (709)
...-.+++++.++.-.+|
T Consensus 278 ----~~~P~~~l~i~~~~~~~D 295 (617)
T PRK00095 278 ----GRYPAFVLFLELDPHQVD 295 (617)
T ss_pred ----CCCcEEEEEEEeChHhcc
Confidence 112368888888755555
No 23
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=99.30 E-value=1.3e-10 Score=132.18 Aligned_cols=182 Identities=19% Similarity=0.303 Sum_probs=124.8
Q ss_pred ceeccChhhHhhCCCeeeccCCCCchhHHHHHHHHhhHHhhcc-CCCCeEEEEEec----CCc--cccccCCCCCcc--c
Q 005193 82 IQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQA-GYASNIEVALLA----DNS--IPIDLHPATNKS--A 152 (709)
Q Consensus 82 Iq~L~glE~VrkRPgMYIGst~~~GL~hlv~EIldNavDe~~~-g~~~~I~V~i~~----Dgs--IPvd~h~~~g~~--~ 152 (709)
.+.++--|--+|++.|--=+...++|.+++.|+|+||+|..-. |....|.|.+.. ++. |-|.. ...|++ .
T Consensus 12 ~~~~s~aEfF~kn~~~~gf~~p~~~L~qVLkNLIeNAIDa~~~~gilp~I~I~I~~~~~~~~~~~I~V~D-NG~GIp~e~ 90 (535)
T PRK04184 12 FREISVAEFFEKNKELLGFDNPARALYTTVKELVDNSLDACEEAGILPDIKIEIKRVDEGKDHYRVTVED-NGPGIPPEE 90 (535)
T ss_pred hhhCCHHHHHHhCccceeecCCHHHHHHHHHHHHHHHHHHhhhcCCCceEEEEEEEccCCCcEEEEEEEc-CCCCCCHHH
Confidence 6677788999999999866666689999999999999997654 444456666652 121 22211 111221 2
Q ss_pred eEEEEeeeccCCCCCCCCCceeeccCcccccceeeeeecce-----eEEEEEeCCE--EEEEEcc----CCCCCcceeee
Q 005193 153 LETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSES-----LEVTVWRDGM--EYHQKYS----RGKPVTTLTCH 221 (709)
Q Consensus 153 ~E~v~t~LhaGgkFd~~~~~ykvsGGlhGvGasvvNAlS~~-----f~Vev~r~Gk--~y~q~f~----~G~~~~~l~~~ 221 (709)
.+.+|+.+++++||... ..+.|.+|+|++.++.+|+. +.|++..++. .|+.++. ++.+.......
T Consensus 91 l~~iF~~f~~~SK~~~~----~~s~G~~GLGLsiv~~isq~~~G~~I~V~S~~~~g~~~~~~~l~id~~kn~g~i~~~~~ 166 (535)
T PRK04184 91 IPKVFGKLLYGSKFHNL----RQSRGQQGIGISAAVLYAQMTTGKPVRVISSTGGSKKAYYFELKIDTKKNEPIILEREE 166 (535)
T ss_pred HHHHhhhhhcccccccc----ccCCCCCCcchHHHHHHHHHhcCCcEEEEEecCCCceEEEEEEEecccccCCeeccccc
Confidence 34578888889988642 34567899999999999985 6777776543 5777774 22221100000
Q ss_pred ccCCCCCCCCCeEEEEEcCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeec
Q 005193 222 VLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKE 276 (709)
Q Consensus 222 ~~~~~~~~~~GT~V~F~PD~~iF~~~~~fd~~~l~~Rl~elA~LnpGL~I~l~de 276 (709)
......+||+|++.++...+. ....+...++.+|..||+++|.|.+-
T Consensus 167 ---~~~~~~~GT~V~V~l~~~~~~-----~~~~I~e~i~r~Al~nP~~~~~l~~~ 213 (535)
T PRK04184 167 ---VDWDRWHGTRVELEIEGDWYR-----AKQRIYEYLKRTAIVNPHARITFKDP 213 (535)
T ss_pred ---cCCCCCCCEEEEEEECCcChh-----hHHHHHHHHHHHHHhCCCeEEEEEeC
Confidence 012456899999998766552 26789999999999999999999854
No 24
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=99.29 E-value=1.2e-11 Score=139.04 Aligned_cols=183 Identities=22% Similarity=0.303 Sum_probs=129.0
Q ss_pred cceeccChhhHhhCCCeeeccC-CCCchhHHHHHHHHhhHHhhcc-CCCCeEEEEEecCC----ccccccCCCCCcc--c
Q 005193 81 QIQVLEGLEAVRKRPAMYIGST-GPRGLHHLVYEILDNAVDEAQA-GYASNIEVALLADN----SIPIDLHPATNKS--A 152 (709)
Q Consensus 81 ~Iq~L~glE~VrkRPgMYIGst-~~~GL~hlv~EIldNavDe~~~-g~~~~I~V~i~~Dg----sIPvd~h~~~g~~--~ 152 (709)
+.+.++--|--+|++.|= |-. ...+|.+++.|+|+||+|.... |....|.|.+...+ .|-|.. ...|++ -
T Consensus 3 ~~~~~s~aEFF~kN~~~~-Gf~~~~~~L~~VlkELVeNAIDA~~~~g~~p~I~V~i~~~g~~~~~I~V~D-NG~GIp~ed 80 (488)
T TIGR01052 3 KFREMSVAEFFRKNKHML-GYSGKIRSLTTVIHELVTNSLDACEEAGILPDIKVEIEKIGKDHYKVTVED-NGPGIPEEY 80 (488)
T ss_pred cccccCHHHHHHhCCccc-cccCCHHHHHHHHHHHHHHHHHHhhccCCCceEEEEEEECCCceEEEEEEE-CCCCCCHHH
Confidence 345667778888888885 433 3578999999999999998753 44446666665311 122211 112221 1
Q ss_pred eEEEEeeeccCCCCCCCCCceeeccCcccccceeeeeecce-----eEEEEEeCCEEE--EEEcc------CCCCCccee
Q 005193 153 LETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSES-----LEVTVWRDGMEY--HQKYS------RGKPVTTLT 219 (709)
Q Consensus 153 ~E~v~t~LhaGgkFd~~~~~ykvsGGlhGvGasvvNAlS~~-----f~Vev~r~Gk~y--~q~f~------~G~~~~~l~ 219 (709)
++.+|..+|+|+||... ..+.|.+|+|+++++++|+. ++|+++++|..+ +++|. .|..+...+
T Consensus 81 l~~iF~rf~~tsK~~~~----~~s~G~~GlGLs~~~~isq~~~G~~i~V~S~~~g~~~~~~~~~~id~~~n~G~i~~~~~ 156 (488)
T TIGR01052 81 IPKVFGKMLAGSKFHRI----IQSRGQQGIGISGAVLYSQMTTGKPVKVISSTGGEIYVYKMKLKIDVQKNEGEIVEKGE 156 (488)
T ss_pred HHhhhhhccccCccccc----cccCCCccEehhHHHHHHHHcCCceEEEEEecCCceEEEEEEEEecccccCCeecceee
Confidence 23589999999999643 56778899999999999996 899999888765 77773 455444332
Q ss_pred eeccCCCCCCCCCeEEEEEcCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCC
Q 005193 220 CHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDS 278 (709)
Q Consensus 220 ~~~~~~~~~~~~GT~V~F~PD~~iF~~~~~fd~~~l~~Rl~elA~LnpGL~I~l~der~ 278 (709)
. +....+||+|+++||.... .+....+..+|+.+|.+||+++|.|.+...
T Consensus 157 -~----~~~~~~GT~V~v~f~~~~~----r~~k~~i~e~l~~~Al~nP~~~i~l~~~~~ 206 (488)
T TIGR01052 157 -W----NKPGWRGTRIELEFKGVSY----RRSKQGVYEYLRRTAVANPHAKIVLVDPDG 206 (488)
T ss_pred -c----CCCCCCceEEEEEECCcee----eccHHHHHHHHHHHHhhCCCeEEEEEeCCC
Confidence 1 2222579999999766542 134578999999999999999999998753
No 25
>PF01751 Toprim: Toprim domain; InterPro: IPR006171 This is a conserved region from DNA primase. This corresponds to the Toprim (topoisomerase-primase) domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR/M DNA repair proteins []. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase 2.7.7.6 from EC is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division []. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases []. Type II DNA topoisomerases catalyse the relaxation of DNA supercoiling by causing transient double strand breaks.; PDB: 2ZJT_A 3IG0_A 3M4I_A 3NUH_B 1GKU_B 1GL9_C 3PWT_A 1CY4_A 1ECL_A 1CY7_A ....
Probab=99.09 E-value=7.7e-11 Score=106.08 Aligned_cols=97 Identities=22% Similarity=0.327 Sum_probs=86.0
Q ss_pred eEEEeecCCCCccccccCCCCceEeeccCcccccccccCHHH-hhhcHhHHHHHHHhcCCccCCcCccccccceeEEEee
Q 005193 491 EIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAA-MYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILT 569 (709)
Q Consensus 491 eL~lvEGDSA~Gsak~gRdr~~qailPLRGKiLNv~ka~~~k-i~~N~Ei~~li~alG~g~~~~~~~~~~LRYgkIiImT 569 (709)
|||||||+|+.....++.....+.|+|+.|+++|....+... ..+++.|+.|.+.+ .+|+.|||+|
T Consensus 1 ~liIvE~ps~a~~i~~~l~~~~~~v~~~~Ghl~~~~~~~~~~~~~~~~~i~~l~~~~-------------~~~~~iiiat 67 (100)
T PF01751_consen 1 ELIIVEKPSDAKAIAKALGGEEYIVIATSGHLLELAKPEDYDPKDKKKQIKNLKKLL-------------KKADEIIIAT 67 (100)
T ss_dssp EEEEESSHHHHHHHHHHSSTTTEEEEEESSSSEESTTSSHHHCHTTHHHHHHHHHHH-------------HSCSEEEEEC
T ss_pred CEEEEeCHHHHHHHHHHcCCCCEEEEEeCCcccccccccccccccccccchhhHHHh-------------hhccEeeecC
Confidence 699999999999888888877799999999999999987665 88889999999887 4688999999
Q ss_pred cCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEe
Q 005193 570 DADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVG 602 (709)
Q Consensus 570 DaDvDG~HI~~Llltff~~~~p~Li~~G~i~~~ 602 (709)
|+|.+|.||...++.++...+|.+ .+++++-
T Consensus 68 D~D~EGe~Ia~~i~~~~~~~~~~~--~~R~~~~ 98 (100)
T PF01751_consen 68 DPDREGELIAWEIIELLGKNNPKL--IKRVWFS 98 (100)
T ss_dssp -SSHHHHHHHHHHHHHHHHHSHHH--TTEEEEE
T ss_pred CCChHHHHHHHHHHHHHhHhCCCc--CCEEEEe
Confidence 999999999999999999999999 6777653
No 26
>TIGR00585 mutl DNA mismatch repair protein MutL. All proteins in this family for which the functions are known are involved in the process of generalized mismatch repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.92 E-value=2.6e-08 Score=107.49 Aligned_cols=275 Identities=14% Similarity=0.194 Sum_probs=162.2
Q ss_pred ceeccChhhHhhCCCeeeccCCCCchhHHHHHHHHhhHHhhccCCCCeEEEEEecCCc--cccccCCCCCccc--eEEEE
Q 005193 82 IQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNS--IPIDLHPATNKSA--LETVL 157 (709)
Q Consensus 82 Iq~L~glE~VrkRPgMYIGst~~~GL~hlv~EIldNavDe~~~g~~~~I~V~i~~Dgs--IPvd~h~~~g~~~--~E~v~ 157 (709)
|+.|+.--.=+.+.+-.| ..+..++.|+|+||+|. | ++.|.|.+..+|. |-|.. ...|++. ++.++
T Consensus 3 I~~l~~~~~~~i~s~~~i-----~~~~~~l~eLi~Na~dA---~-a~~I~i~~~~~~~~~i~V~D-nG~Gi~~~~l~~~~ 72 (312)
T TIGR00585 3 IKPLPPELVNKIAAGEVI-----ERPASVVKELVENSLDA---G-ATRIDVEIEEGGLKLIEVSD-NGSGIDKEDLPLAC 72 (312)
T ss_pred CeECCHHHHHHHhCcCch-----hhHHHHHHHHHHHHHHC---C-CCEEEEEEEeCCEEEEEEEe-cCCCCCHHHHHHHh
Confidence 455555333334554443 45688999999999992 3 4688888876653 33321 2344443 33443
Q ss_pred eeeccCCCCCCC-CCceeeccCcccccceeeeeecceeEEEEEe---CCEEEEEEccCCCCCcceeeeccCCCCCCCCCe
Q 005193 158 TVLHAGGKFGGS-SSGYSVSGGLHGVGLSVVNALSESLEVTVWR---DGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGT 233 (709)
Q Consensus 158 t~LhaGgkFd~~-~~~ykvsGGlhGvGasvvNAlS~~f~Vev~r---~Gk~y~q~f~~G~~~~~l~~~~~~~~~~~~~GT 233 (709)
..++.+|+... +.....+-|.+|.|++..+++| +++|+++. ++..|.+. .+|..+.+.. ....++||
T Consensus 73 -~~~~tsk~~~~~~~~~~~~~G~rG~al~si~~~s-~~~i~S~~~~~~~~~~~~~-~~g~~~~~~~------~~~~~~GT 143 (312)
T TIGR00585 73 -ERHATSKIQSFEDLERIETLGFRGEALASISSVS-RLTITTKTSAADGLAWQAL-LEGGMIEEIK------PAPRPVGT 143 (312)
T ss_pred -hCCCcCCCCChhHhhcccccCccchHHHHHHhhC-cEEEEEeecCCCcceEEEE-ECCCcCcccc------cccCCCcc
Confidence 34556666532 1134567799999999999999 79999974 44566666 4555433321 22457999
Q ss_pred EEEEE------cCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCcCcceeEee----cccHHHH-HHHHh
Q 005193 234 RIRFW------PDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFF----AGGLEEY-VQWLN 302 (709)
Q Consensus 234 ~V~F~------PD~~iF~~~~~fd~~~l~~Rl~elA~LnpGL~I~l~der~~~~~~~~e~f~~----~~Gl~dy-v~~l~ 302 (709)
+|++. |+...|-......++.+..+++.+|.++|++++.+..... ..+.+ .+.+.+. +..+-
T Consensus 144 tV~v~~lf~n~p~r~~~~~~~~~~~~~i~~~l~~~al~~p~i~f~l~~~~~-------~~~~~~~~~~~~~~~~~i~~v~ 216 (312)
T TIGR00585 144 TVEVRDLFYNLPVRRKFLKSPKKEFRKILDLLNRYALIHPDVSFSLTHDGK-------KVLQLSTKPNQSLKERRIRSVF 216 (312)
T ss_pred EEEEchhhccCchhhhhccCcHHHHHHHHHHHHHHhhcCCCeEEEEEECCE-------EEEEEcCCCCCCHHHHHHHHHh
Confidence 99999 9998885333345678999999999999999999987531 12222 2346663 44333
Q ss_pred cCCCCCCceeEEE-EeecCeEEEEEEEEcCC---CCCce-eeeeeCceecCCCccchHHHHHHHHHHHHHHHhhcccCCC
Q 005193 303 TDKKPLHDVVGFR-KDVDGITIDLALQWCSD---AYSDT-MLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKD 377 (709)
Q Consensus 303 ~~~~~l~~~i~~~-~~~~~~~veval~~s~~---~~~~~-~~SFVN~I~T~~GGTHv~g~~~altr~ln~~~kk~~~~K~ 377 (709)
.... ....+.+. .+.+++.++.-+. ... ..... ++-|||+=+=.. ..|.++|++..+.... +
T Consensus 217 G~~~-~~~l~~~~~~~~~~~~v~G~is-~p~~~~~~~~~~q~ifvNgR~v~~---------~~l~k~I~~~y~~~~~-~- 283 (312)
T TIGR00585 217 GTAV-LSKLFPLLEWEDGDLQLEGFIS-EPNVTRSRRSGWQFLFINGRPVEL---------KLLLKAIREVYHEYLP-K- 283 (312)
T ss_pred ChHh-HhhceeeecccCCCEEEEEEEc-CcccccCCCCcceEEEECCcEecc---------hHHHHHHHHHHHHhcc-C-
Confidence 2211 11112222 2345566653322 111 11123 799999866321 2355666554443221 0
Q ss_pred CCCCCCHhhhccceEEEEEEeecCCCCC
Q 005193 378 KDISLSGEHVREGLTCIISVRVPNPEFE 405 (709)
Q Consensus 378 k~~~l~~~dIregL~~vVsvki~nP~Fe 405 (709)
...-.+++++.+|.-.+|
T Consensus 284 ----------~~~P~~vL~i~~p~~~iD 301 (312)
T TIGR00585 284 ----------GQYPVFVLNLEIDPELVD 301 (312)
T ss_pred ----------CCCcEEEEEEEEChHHcc
Confidence 123378889988865555
No 27
>cd00329 TopoII_MutL_Trans MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. The GyrB dimerizes in response to ATP binding, and is homologous to the N-terminal half of eukaryotic Topo II and the ATPase fragment of MutL. Type II DNA topoisomerases catalyze the ATP-dependent transport of one DNA duplex through another, in the process generating transient double strand breaks via covalent attachments to both DNA strands at the 5' positions. Included in this group are proteins similar to human MLH1 and PMS2. MLH1 forms a heterodimer with PMS2 which functions in meiosis and in DNA mismatch
Probab=98.70 E-value=4.2e-08 Score=87.86 Aligned_cols=100 Identities=23% Similarity=0.437 Sum_probs=76.9
Q ss_pred HHHHHHHhcCCCCCCceeEEEEeecCeEEEEEEEEcCC--CCCceeeeeeCceecCCCccchHHHHHHHHHHHHHHHhhc
Q 005193 295 EEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSD--AYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKS 372 (709)
Q Consensus 295 ~dyv~~l~~~~~~l~~~i~~~~~~~~~~veval~~s~~--~~~~~~~SFVN~I~T~~GGTHv~g~~~altr~ln~~~kk~ 372 (709)
++++..+.+.+. ....+.+..+..++.++++++|... .....+++|||+.++..||+|..++.+++.+.++
T Consensus 2 ~~~i~~~~g~~~-~~~~~~~~~~~~~~~v~g~l~~~~~~~~~~~~~~~fvN~r~v~~~~~~~~~i~~~~~~~~~------ 74 (107)
T cd00329 2 KDRLAEILGDKV-ADKLIYVEGESDGFRVEGAISYPDSGRSSKDRQFSFVNGRPVREGGTHVKAVREAYTRALN------ 74 (107)
T ss_pred HhHHHHHhCHHh-HhhcEEEeccCCCEEEEEEEeCCccCcccCCcEEEEEcCeEEcCCHHHHHHHHHHHHHHhc------
Confidence 345555554332 1234455555567899999998843 1456799999999998899999999999998775
Q ss_pred ccCCCCCCCCCHhhhccceEEEEEEeecC--CCCC-Ccccccc
Q 005193 373 KTVKDKDISLSGEHVREGLTCIISVRVPN--PEFE-GQTKTRL 412 (709)
Q Consensus 373 ~~~K~k~~~l~~~dIregL~~vVsvki~n--P~Fe-gQTK~kL 412 (709)
+++++....++|+++++. |.|. +|||+++
T Consensus 75 -----------~~~~~~~p~~vl~i~~~~~~~d~nv~p~K~~v 106 (107)
T cd00329 75 -----------GDDVRRYPVAVLSLKIPPSLVDVNVHPTKEEV 106 (107)
T ss_pred -----------ccCCCCCCEEEEEEEeChHHeeeCCCCCcccc
Confidence 455678889999999999 9999 9999976
No 28
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=98.64 E-value=6e-08 Score=112.67 Aligned_cols=180 Identities=19% Similarity=0.203 Sum_probs=118.5
Q ss_pred ceeccChhhHhhCCCeeeccCCCCchhHHHHHHHHhhHHhhcc-CCCCeEEEEEecCCc----cccccCCCCCcc--ceE
Q 005193 82 IQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQA-GYASNIEVALLADNS----IPIDLHPATNKS--ALE 154 (709)
Q Consensus 82 Iq~L~glE~VrkRPgMYIGst~~~GL~hlv~EIldNavDe~~~-g~~~~I~V~i~~Dgs----IPvd~h~~~g~~--~~E 154 (709)
.+..+--|--+|+..|+-=+....+|.+++.|+|+||+|.... +....|.|.+..+|. |-|... ..|++ -.+
T Consensus 12 ~~~~S~aEFF~kNk~~lGf~~~~r~L~~VVkELVeNAIDA~~~~g~~p~I~V~I~~~g~~~~~I~V~DN-G~GIp~e~l~ 90 (659)
T PRK14867 12 FKEHSISEFFRKNKHMLGYSGKLRSMTTIIHELVTNSLDACEEAEILPDIKVEIEKLGSDHYKVAVEDN-GPGIPPEFVP 90 (659)
T ss_pred HHHhHHHHHHhhCCeeeechhHHHHHHHHHHHHHHHHHHHhhccCCCceEEEEEEECCCcEEEEEEEee-CeeCCHHHHh
Confidence 3455667778999999754444578999999999999998753 444567777764321 333211 11221 234
Q ss_pred EEEeeeccCCCCCCCCCceeeccCcccccceeeeeeccee-----EEEEE-eCCEEEEEEccC------CCCCcceeeec
Q 005193 155 TVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESL-----EVTVW-RDGMEYHQKYSR------GKPVTTLTCHV 222 (709)
Q Consensus 155 ~v~t~LhaGgkFd~~~~~ykvsGGlhGvGasvvNAlS~~f-----~Vev~-r~Gk~y~q~f~~------G~~~~~l~~~~ 222 (709)
.+|..+|+|+||.. +..+.|..|.|++++.++|+.. .++.+ .+|..|.+.+.- |..+.. . .
T Consensus 91 ~iFerF~atSK~~~----~~qS~G~rG~GLa~a~~vsql~~G~pI~I~S~~g~G~~f~i~L~i~i~~n~G~I~~~-~-~- 163 (659)
T PRK14867 91 KVFGKMLAGSKMHR----LIQSRGQQGIGAAGVLLFSQITTGKPLKITTSTGDGKIHEMEIKMSVEKNEGDIVSH-K-V- 163 (659)
T ss_pred hhhccccccCcccc----eeccCCCCcccHHHHHHHHHHhcCCcEEEEEEcCCCEEEEEEEEEEecccCCeeccc-c-c-
Confidence 68999999999953 4677888999999999999885 66665 367766666532 222221 0 0
Q ss_pred cCCCCCCCCCeEEEEEcCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeec
Q 005193 223 LPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKE 276 (709)
Q Consensus 223 ~~~~~~~~~GT~V~F~PD~~iF~~~~~fd~~~l~~Rl~elA~LnpGL~I~l~de 276 (709)
.....+||+|+|.-. ..|-... .. .+...++.+|..||++.|.|.+.
T Consensus 164 ---~~~~~~GT~Ie~~V~-dLFynR~--E~-~i~e~l~r~ALanP~i~f~l~~~ 210 (659)
T PRK14867 164 ---REGFWRGTRVEGEFK-EVTYNRR--EQ-GPFEYLRRISLSTPHAKITLKDP 210 (659)
T ss_pred ---CCCCCCCcEEEEEEe-eceechh--hH-HHHHHHHHHHHhCCCcEEEEEeC
Confidence 123468999996211 1221110 11 27899999999999999999875
No 29
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=98.55 E-value=2.9e-06 Score=93.27 Aligned_cols=323 Identities=21% Similarity=0.348 Sum_probs=193.8
Q ss_pred cceeccChhhHhhCCCeeeccCC-CCchhHHHHHHHHhhHHhhc-cCCCCeEEEEEec------------CCc-cccccC
Q 005193 81 QIQVLEGLEAVRKRPAMYIGSTG-PRGLHHLVYEILDNAVDEAQ-AGYASNIEVALLA------------DNS-IPIDLH 145 (709)
Q Consensus 81 ~Iq~L~glE~VrkRPgMYIGst~-~~GL~hlv~EIldNavDe~~-~g~~~~I~V~i~~------------Dgs-IPvd~h 145 (709)
..+.++-.|--||++.|- |=.+ .++|...|.|.|+||.|-.- +|---.|.|.|.. ||. ||-..-
T Consensus 11 ~~re~SvAEFF~kNk~ml-Gf~~p~RsL~~tv~ElV~NSLDA~eeaGILPdI~v~I~~~~~d~y~v~veDNGpGIP~e~I 89 (538)
T COG1389 11 KFRELSVAEFFRKNKEML-GFDGPIRSLTTTVHELVTNSLDACEEAGILPDIKVEIERIGKDHYKVIVEDNGPGIPEEQI 89 (538)
T ss_pred hhhhcCHHHHHHhCHHhc-CCCCchhHHHHHHHHHHhcchhhHHhcCCCCceEEEEEecCCceEEEEEecCCCCCChhHh
Confidence 356788889999999985 4443 48999999999999999765 3655667777664 333 555433
Q ss_pred CCCCccceEEEEeeeccCCCCCCCCCceeeccCcccccceeeeeeccee-----EEEEEeC--CEEEEEEc----cCCCC
Q 005193 146 PATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESL-----EVTVWRD--GMEYHQKY----SRGKP 214 (709)
Q Consensus 146 ~~~g~~~~E~v~t~LhaGgkFd~~~~~ykvsGGlhGvGasvvNAlS~~f-----~Vev~r~--Gk~y~q~f----~~G~~ 214 (709)
| .||+.+++|+||.- .+.|-|.-|+|+|.+-.+|+.- +|.+.-. ++.|...- ..|.|
T Consensus 90 P--------kvFGk~LygSKfh~----~~QsRGqqGiGis~avLysQmTtGkPv~V~s~T~~s~~~~~~~l~id~~kNEp 157 (538)
T COG1389 90 P--------KVFGKMLYGSKFHR----NIQSRGQQGIGISAAVLYSQMTTGKPVRVISSTGDSGTAYEYELKIDVQKNEP 157 (538)
T ss_pred H--------HHHHHHhccchhhh----hhhccccccccHHHHHHHHHhcCCCceEEEecCCCCcceEEEEEEecCCCCcc
Confidence 3 38999999999963 3789999999999999999764 4444433 44444333 23333
Q ss_pred CcceeeeccCCCCCCCCCeEEEEEcCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCCCC--------C--cCc
Q 005193 215 VTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDP--------E--KNQ 284 (709)
Q Consensus 215 ~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~~~~fd~~~l~~Rl~elA~LnpGL~I~l~der~~~--------~--~~~ 284 (709)
..-.. .. .......+||+|.-.-+....... . .-+..-|+..|..||--+|.|+|-..+. + .+.
T Consensus 158 ~Iv~r-~~-~~~~~~~hGT~Vel~~~~~~~~~~-~---qgi~eYlkrtaiinPhA~I~l~dPdG~~~vf~r~t~~lP~pP 231 (538)
T COG1389 158 EIVER-GE-VENPGGWHGTRVELELKGVWYRAK-R---QGIYEYLKRTAIINPHARIVLKDPDGNLVVFPRSTDKLPKPP 231 (538)
T ss_pred hhhhc-cc-ccCCCCCCceEEEEEecccchhhc-c---cCHHHHHHHHhhcCCceEEEEECCCCcEEEeccchhhCCCCc
Confidence 21100 00 012344699999887665544311 1 1145667889999999999999865420 0 001
Q ss_pred ceeEeeccc---------------------------------HHHHHHHHh--cCC------------------------
Q 005193 285 YNEYFFAGG---------------------------------LEEYVQWLN--TDK------------------------ 305 (709)
Q Consensus 285 ~e~f~~~~G---------------------------------l~dyv~~l~--~~~------------------------ 305 (709)
.+.--++-| .++++++.. .++
T Consensus 232 ~E~kPHP~gvd~~~L~~M~~~T~~~tv~~fL~sef~rig~~ta~e~~e~~g~~~~~~p~~L~~~~~~eea~~lv~a~~~~ 311 (538)
T COG1389 232 KEIKPHPHGVDLDTLKKMAHRTRRSTVREFLVSEFSRIGEKTADELLEYAGFDPDKKPRELTKKKTREEAEKLVEAFKKM 311 (538)
T ss_pred cccCCCCccccHHHHHHHHHHhhhhhHHHHHHHHHHHhhhhhHHHHHHHhcCCcccCHHHhhcccCHHHHHHHHHHHHhC
Confidence 111111111 112222111 000
Q ss_pred ----------CCCCc-ee----------EEEEe-------e--cCeEEEEEEEEcCC---CCCceeeeeeCceec-CCCc
Q 005193 306 ----------KPLHD-VV----------GFRKD-------V--DGITIDLALQWCSD---AYSDTMLGYANSIRT-IDGG 351 (709)
Q Consensus 306 ----------~~l~~-~i----------~~~~~-------~--~~~~veval~~s~~---~~~~~~~SFVN~I~T-~~GG 351 (709)
.|+.+ .+ .|... . .-..||||+.|-.+ +....+.-|+|-|+- .+-|
T Consensus 312 ~fm~Pptd~LsPIGee~ie~gLk~~~~pefv~avTRkPkvy~G~pFiVEvgiAYGG~i~~~e~~~llRyANrvPLlyd~g 391 (538)
T COG1389 312 KFMAPPTDGLSPIGEELIEKGLKSILNPEFVAAVTRKPKVYRGHPFIVEVGIAYGGNIPGGEKPLLLRYANRVPLLYDAG 391 (538)
T ss_pred cccCCCccccCcccHHHHHHHHHHhcCchheeeeccCccccCCCceEEEEEeeccCCCCCCcchhhhhhcccCceeeecC
Confidence 01100 00 01100 1 22579999999732 112348899999984 2333
Q ss_pred cchHHHHHHHHHHHHHHHhhcccCCCCCCCCCHhhhccceEEEEEEeecCCCCCCccccccC-CchhhhhhhhhH---HH
Q 005193 352 THIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLG-NPEVRKVVDQSV---QE 427 (709)
Q Consensus 352 THv~g~~~altr~ln~~~kk~~~~K~k~~~l~~~dIregL~~vVsvki~nP~FegQTK~kL~-n~ev~~~v~~~v---~~ 427 (709)
. .+++++|.++- .++. ++...+ --|.++|+|--+|--|.|--|+... .|++..-+...+ ..
T Consensus 392 ~------cv~tk~V~~i~-WkrY------gl~~~~--aplvvlVhv~St~VPyts~gKqsIa~vpeIe~Eir~Al~evaR 456 (538)
T COG1389 392 S------CVITKVVESID-WKRY------GLDQPD--APLVVLVHVASTNVPYTSAGKQSIADVPEIENEIRLALMEVAR 456 (538)
T ss_pred c------chhhHhhhhcc-ceec------CcCCCC--CcEEEEEEecccCCCcCCccchhccccHHHHHHHHHHHHHHHH
Confidence 3 45677775542 2221 222222 5789999999999999999999998 566555554443 45
Q ss_pred HHHHHHhhCh
Q 005193 428 YLTEYLELHP 437 (709)
Q Consensus 428 ~l~~~le~np 437 (709)
.|..||....
T Consensus 457 kL~~yLsrk~ 466 (538)
T COG1389 457 KLKLYLSRKR 466 (538)
T ss_pred HHHHHHHHHH
Confidence 7888887643
No 30
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=97.87 E-value=4.2e-05 Score=89.83 Aligned_cols=182 Identities=21% Similarity=0.277 Sum_probs=118.3
Q ss_pred cceeccChhhHhhCCCeeeccCCCCchhHHHHHHHHhhHHhhccCC-CCeEEEEEecCCc---cccccCCCCCcc--ceE
Q 005193 81 QIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGY-ASNIEVALLADNS---IPIDLHPATNKS--ALE 154 (709)
Q Consensus 81 ~Iq~L~glE~VrkRPgMYIGst~~~GL~hlv~EIldNavDe~~~g~-~~~I~V~i~~Dgs---IPvd~h~~~g~~--~~E 154 (709)
+.+.++--|-..+++.|.--+.+...|..++.|+|+||+|-.-.+. .-.|.|.+..+|. |-|..+ ..|++ -++
T Consensus 21 ~~~~iS~aEfF~kN~~~lgfD~d~r~L~tVLkNLIeNALDAs~~~gilp~I~V~Ie~~g~~v~I~VeDN-G~GIp~EdLp 99 (795)
T PRK14868 21 SQREISIAEFFEKNKHMLGFDSGARGLVTAVKEAVDNALDATEEAGILPDIYVEIEEVGDYYRLVVEDN-GPGITKEQIP 99 (795)
T ss_pred hccccceeeecccCcceeeccCCHHHHHHHHHHHHHHHHHhCcccCCCceEEEEEEECCCEEEEEEEEc-CCCCCHHHHH
Confidence 4456666777888888887777778899999999999999754321 1246666654332 333221 22322 234
Q ss_pred EEEeeeccCCCCCCCCCceeeccCcccccceeeeeecce-----eEEEEEeCCE--E--EEEEccCCC--CCcceeeecc
Q 005193 155 TVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSES-----LEVTVWRDGM--E--YHQKYSRGK--PVTTLTCHVL 223 (709)
Q Consensus 155 ~v~t~LhaGgkFd~~~~~ykvsGGlhGvGasvvNAlS~~-----f~Vev~r~Gk--~--y~q~f~~G~--~~~~l~~~~~ 223 (709)
.+|..++.++||... ..+-|..|.|++++=++|.. +.|++..++. - |.+....|. |..-....
T Consensus 100 ~IFerf~~tSKf~~~----~~srG~rG~GLglai~~sqlt~GgpI~I~S~~~~~~~g~~~~L~Id~gkNep~I~~~~~-- 173 (795)
T PRK14868 100 KVFGKLLYGSRFHAR----EQSRGQQGIGISAAVLYSQLTSGKPAKITSRTQGSEEAQYFELIIDTDTNEPEISVEET-- 173 (795)
T ss_pred HHhhhhccccccccc----ccCCCCCceehHHHHHHHHHcCCCcEEEEeCCCCCCceeEEEEEEecCCCccceeccee--
Confidence 688888888888643 23446689999999999986 6788775432 2 344444332 32100111
Q ss_pred CCCCCCCCCeEEEEEcCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeec
Q 005193 224 PVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKE 276 (709)
Q Consensus 224 ~~~~~~~~GT~V~F~PD~~iF~~~~~fd~~~l~~Rl~elA~LnpGL~I~l~de 276 (709)
......+||+|+-. +|... .-...+...++.+|..||.+.|.|.+.
T Consensus 174 -~~~~~~~GT~IeV~----Lf~N~--pAR~kI~eyl~r~Al~nP~a~f~l~~~ 219 (795)
T PRK14868 174 -TTWDRPHGTRIELE----MEANM--RARQQLHDYIKHTAVVNPHARIELREP 219 (795)
T ss_pred -cccCCCCceEEEEE----EEccC--chhhhHHHHHHHHHhhCCCeEEEEEEC
Confidence 01245789999987 56521 113448889999999999999999875
No 31
>PRK14939 gyrB DNA gyrase subunit B; Provisional
Probab=97.62 E-value=5.6e-06 Score=98.34 Aligned_cols=49 Identities=12% Similarity=0.076 Sum_probs=45.7
Q ss_pred ceEeeccccCChhhhH-hhhcCccceeeeeeccccHHHHHHHHHHhcCCCc
Q 005193 639 IQRFKGLGEMMPVQLW-ETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARV 688 (709)
Q Consensus 639 iqryKGLGem~~~q~~-ett~dp~~r~l~~v~~~d~~~~~~~f~~lmg~~~ 688 (709)
||| ||||||+|+|+| ||||||.+|++.++.++|+.+++.+|+.+||+++
T Consensus 575 ~~~-~~l~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~ 624 (756)
T PRK14939 575 ISG-EALEKLVKEYRAVRKIIDRLERRYPRAVLEALIYAPALDLDDLADEA 624 (756)
T ss_pred ccH-HHHHHHHHHHHHHHHHHhHHhccccHHHHHHHHhccccchhhhcchh
Confidence 788 999999999999 9999999999999999999889999999999643
No 32
>PF02518 HATPase_c: Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; InterPro: IPR003594 This domain is found in several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases [], heat shock protein HSP90 [, , ], phytochrome-like ATPases and DNA mismatch repair proteins. The fold of this domain consists of two layers, alpha/beta, which contains an 8-stranded mixed beta-sheet. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0005524 ATP binding; PDB: 3JZ3_A 3DGE_A 2C2A_A 2BU5_A 2BU8_A 2BU6_A 2BU7_A 2BU2_A 2BTZ_A 3K99_D ....
Probab=97.31 E-value=2.4e-05 Score=70.73 Aligned_cols=104 Identities=28% Similarity=0.460 Sum_probs=65.9
Q ss_pred CCchhHHHHHHHHhhHHhhccCCCCeEEEEEecCCc---cccccCCCCCcc--ceEEEEeeeccCCCCCCCCCceeeccC
Q 005193 104 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNS---IPIDLHPATNKS--ALETVLTVLHAGGKFGGSSSGYSVSGG 178 (709)
Q Consensus 104 ~~GL~hlv~EIldNavDe~~~g~~~~I~V~i~~Dgs---IPvd~h~~~g~~--~~E~v~t~LhaGgkFd~~~~~ykvsGG 178 (709)
+..|.++++|+|+||+|.+..+ ..|.|.+..++. |-|.. ...|++ .+|.+|..+.++.+ + .+..+|
T Consensus 3 ~~~l~~il~~ll~Na~~~~~~~--~~I~i~~~~~~~~~~i~i~d-~G~gi~~~~l~~~~~~~~~~~~---~--~~~~~g- 73 (111)
T PF02518_consen 3 PDRLRQILSELLDNAIKHSPEG--GKIDITIEEDDDHLSIEISD-NGVGIPPEELEKLFEPFFTSDK---S--ETSISG- 73 (111)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHT--SEEEEEEEEETTEEEEEEEE-SSSSTTHHHHHHHCSTTSHSSS---S--SGGSSS-
T ss_pred HHHHHHHHHHHHHHHHHHhcCC--CEEEEEEEEecCeEEEEEEe-ccccccccccccchhhcccccc---c--ccccCC-
Confidence 4578999999999999999986 677777776433 22211 111222 23344444433333 2 223333
Q ss_pred cccccceeeeeecceeEEEEEeCCEEEEEEccCCCCCcceeeeccCCCCCCCCCeEEEEEcCcc
Q 005193 179 LHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQ 242 (709)
Q Consensus 179 lhGvGasvvNAlS~~f~Vev~r~Gk~y~q~f~~G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~~ 242 (709)
||+|+.+++.+++.+..+++-. +....||+|+|+.+.+
T Consensus 74 -~GlGL~~~~~~~~~~~g~l~~~-------------------------~~~~~gt~v~~~~p~~ 111 (111)
T PF02518_consen 74 -HGLGLYIVKQIAERHGGELTIE-------------------------SSEGGGTTVTFTLPLE 111 (111)
T ss_dssp -SSHHHHHHHHHHHHTTEEEEEE-------------------------EETTTEEEEEEEEEGS
T ss_pred -CChHHHHHHHHHHHCCCEEEEE-------------------------EcCCCcEEEEEEEECc
Confidence 9999999999999988875421 1225688888887753
No 33
>PRK05218 heat shock protein 90; Provisional
Probab=96.62 E-value=0.24 Score=58.72 Aligned_cols=156 Identities=19% Similarity=0.230 Sum_probs=89.1
Q ss_pred hHHHHHHHHhhHHhhcc--------------CCCCeEEEEEecCCc-cccccCCCCCccceEE---EEeeeccCC-----
Q 005193 108 HHLVYEILDNAVDEAQA--------------GYASNIEVALLADNS-IPIDLHPATNKSALET---VLTVLHAGG----- 164 (709)
Q Consensus 108 ~hlv~EIldNavDe~~~--------------g~~~~I~V~i~~Dgs-IPvd~h~~~g~~~~E~---v~t~LhaGg----- 164 (709)
.-.+.|+|.||.|-..+ .....|.|.++++|. |-|.. ...|++.-|+ +.++-.+|.
T Consensus 28 ~v~lRELiqNA~DA~~k~r~~~~~~~~~~~~~~~~~I~I~~d~~~~~i~I~D-nG~GMt~eel~~~l~~ia~Sg~~~f~~ 106 (613)
T PRK05218 28 EIFLRELISNASDAIDKLRFEALTDPALYEGDGDLKIRISFDKEARTLTISD-NGIGMTREEVIENLGTIAKSGTKEFLE 106 (613)
T ss_pred hHHHHHHHhCHHHHHHHHHHHhccCccccCCCCCcEEEEEEcCCCCeEEEEE-CCCCCCHHHHHHHHHhhccccchhHHH
Confidence 55789999999996421 123468888887665 33321 2445543332 222223332
Q ss_pred CCCCCCCceeeccCcccccceeeeeecceeEEEEEeCC---EEEEEEccCCCCCcceeeeccCCCCCCCCCeEEEEEcCc
Q 005193 165 KFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDG---MEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDK 241 (709)
Q Consensus 165 kFd~~~~~ykvsGGlhGvGasvvNAlS~~f~Vev~r~G---k~y~q~f~~G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~ 241 (709)
+..++...-.-.-|..|+|.--+=+++.+++|+++..| .-|..+...|.. -.+.. .....+||+|+..+..
T Consensus 107 k~~~~~~~~~~~iG~fGiGf~S~f~va~~v~V~Sr~~~~~~~~~~w~~~g~~~-~~i~~-----~~~~~~GT~I~l~Lk~ 180 (613)
T PRK05218 107 KLKGDQKKDSQLIGQFGVGFYSAFMVADKVTVITRSAGPAAEAVRWESDGEGE-YTIEE-----IEKEERGTEITLHLKE 180 (613)
T ss_pred HhhcccccccccccccCcCchhhhhccCEEEEEEcCCCCCCceEEEEEeCCce-eEEeE-----CCCCCCCcEEEEEECc
Confidence 22111001123458999999888788899999998755 345555543332 22211 1223689999987655
Q ss_pred ccccccccCCHHHHHHHHHHHh-hcCCCcEEEEee
Q 005193 242 QVFTTAIQFDHNTIAGRIRELA-FLNPKLTIALRK 275 (709)
Q Consensus 242 ~iF~~~~~fd~~~l~~Rl~elA-~LnpGL~I~l~d 275 (709)
+- +.-++...|..-++..| |+ +.-|++++
T Consensus 181 ~~---~e~~e~~~i~~li~kys~~l--~~PI~~~~ 210 (613)
T PRK05218 181 DE---DEFLDEWRIRSIIKKYSDFI--PVPIKLEK 210 (613)
T ss_pred ch---hhhcCHHHHHHHHHHHHhcC--CCCEEEec
Confidence 42 11145677888888887 33 33366655
No 34
>PRK14083 HSP90 family protein; Provisional
Probab=94.74 E-value=0.42 Score=56.43 Aligned_cols=159 Identities=16% Similarity=0.190 Sum_probs=87.3
Q ss_pred hhHHHHHHHHhhHHhhcc--C----CCCeEEEEE-ecCCc-cccccCCCCCccceE--EEEeeeccCCCCCCC--CCcee
Q 005193 107 LHHLVYEILDNAVDEAQA--G----YASNIEVAL-LADNS-IPIDLHPATNKSALE--TVLTVLHAGGKFGGS--SSGYS 174 (709)
Q Consensus 107 L~hlv~EIldNavDe~~~--g----~~~~I~V~i-~~Dgs-IPvd~h~~~g~~~~E--~v~t~LhaGgkFd~~--~~~yk 174 (709)
-...+.|+|.||.|-... . ..-.|.|++ +.++. |-|.. ...|++.-| -.|+.+-++++-+.. ... .
T Consensus 24 ~~iflrELiqNA~DA~~~~~~~~~~~~~~I~I~~~d~~~~~l~I~D-nGiGmt~eel~~~l~~ig~S~k~~~~~~~~~-~ 101 (601)
T PRK14083 24 PRVYVRELLQNAVDAITARRALDPTAPGRIRIELTDAGGGTLIVED-NGIGLTEEEVHEFLATIGRSSKRDENLGFAR-N 101 (601)
T ss_pred cHHHHHHHHHhHHHHHHhhhccCCCCCceEEEEEccCCCcEEEEEe-CCCCCCHHHHHHHHhhhccchhhhhhhcccc-c
Confidence 367899999999997543 1 123688877 44332 32221 233443322 234444445553310 001 1
Q ss_pred eccCcccccceeeeeecceeEEEEEeCCEEEEEEccC-CCCCcceeeeccCCCCCCCCCeEEEEEcCc--ccccccccCC
Q 005193 175 VSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSR-GKPVTTLTCHVLPVDSKDRQGTRIRFWPDK--QVFTTAIQFD 251 (709)
Q Consensus 175 vsGGlhGvGasvvNAlS~~f~Vev~r~Gk~y~q~f~~-G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~--~iF~~~~~fd 251 (709)
-.-|..|||..-+=+++++.+|+++..+......|+. |...-.+... + .....+||+|+..+.. .-| ++
T Consensus 102 ~~IG~FGIGf~S~F~vad~v~V~Tr~~~~~~~~~W~~~~~g~y~i~~~--~-~~~~~~GT~I~L~l~~d~~~~-----~~ 173 (601)
T PRK14083 102 DFLGQFGIGLLSCFLVADEIVVVSRSAKDGPAVEWRGKADGTYSVRKL--E-TERAEPGTTVYLRPRPDAEEW-----LE 173 (601)
T ss_pred ccccccccceEEEEEecCEEEEEeccCCCCceEEEEECCCCceEEEeC--C-CCCCCCCCEEEEEecCchhhh-----cc
Confidence 2348999999999999999999997653222233431 2211122111 1 3345799999998643 322 34
Q ss_pred HHHHHHHHHHHhhcCCCcEEEEeec
Q 005193 252 HNTIAGRIRELAFLNPKLTIALRKE 276 (709)
Q Consensus 252 ~~~l~~Rl~elA~LnpGL~I~l~de 276 (709)
.+.+++-++..+-. ...-|+++++
T Consensus 174 ~~~i~~li~~ys~~-i~~pI~l~~~ 197 (601)
T PRK14083 174 RETVEELAKKYGSL-LPVPIRVEGE 197 (601)
T ss_pred HHHHHHHHHHHhcc-CCCCcccCCc
Confidence 55565555554422 2366777764
No 35
>cd00075 HATPase_c Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins
Probab=93.10 E-value=0.1 Score=44.28 Aligned_cols=78 Identities=26% Similarity=0.419 Sum_probs=41.8
Q ss_pred hhHHHHHHHHhhHHhhccCCCCeEEEEEecCCc---cccccCCCCCccc--eEEEEeeeccCCCCCCCCCceeeccCccc
Q 005193 107 LHHLVYEILDNAVDEAQAGYASNIEVALLADNS---IPIDLHPATNKSA--LETVLTVLHAGGKFGGSSSGYSVSGGLHG 181 (709)
Q Consensus 107 L~hlv~EIldNavDe~~~g~~~~I~V~i~~Dgs---IPvd~h~~~g~~~--~E~v~t~LhaGgkFd~~~~~ykvsGGlhG 181 (709)
|.+++.|+|+||++.... ....|.|.+..++. |-+.. ...+.+. .+-.+.. |... ..+...+.+|
T Consensus 1 l~~~~~~ll~Na~~~~~~-~~~~v~i~~~~~~~~~~v~i~d-~g~g~~~~~~~~~~~~------~~~~--~~~~~~~~~g 70 (103)
T cd00075 1 LQQVLLNLLSNAIKHTPE-GGGRITISVERDGDHLEIRVED-NGPGIPEEDLERIFER------FSDG--SRSRKGGGTG 70 (103)
T ss_pred CHHHHHHHHHHHHHhCcC-CCCeEEEEEEecCCEEEEEEEe-CCCCCCHHHHHHHhhh------hhcC--CCCCCCCccc
Confidence 468999999999998664 13356665554332 11110 0111110 0111111 1111 2344566799
Q ss_pred ccceeeeeeccee
Q 005193 182 VGLSVVNALSESL 194 (709)
Q Consensus 182 vGasvvNAlS~~f 194 (709)
+|+++++.+...+
T Consensus 71 ~gl~~~~~~~~~~ 83 (103)
T cd00075 71 LGLSIVKKLVELH 83 (103)
T ss_pred cCHHHHHHHHHHc
Confidence 9999999999843
No 36
>COG0323 MutL DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]
Probab=91.71 E-value=0.31 Score=58.04 Aligned_cols=159 Identities=18% Similarity=0.305 Sum_probs=91.1
Q ss_pred chhHHHHHHHHhhHHhhccCCCCeEEEEEecCCc--cccccCCCCCccceEE-EEeeeccCCCCCCCCCce-eeccCccc
Q 005193 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLADNS--IPIDLHPATNKSALET-VLTVLHAGGKFGGSSSGY-SVSGGLHG 181 (709)
Q Consensus 106 GL~hlv~EIldNavDe~~~g~~~~I~V~i~~Dgs--IPvd~h~~~g~~~~E~-v~t~LhaGgkFd~~~~~y-kvsGGlhG 181 (709)
...-.|.|+|+||+|-- ++.|.|.++..|. |=|-. ...|+..-|+ +...=||-+|-.+.+.-+ -.|=|-=|
T Consensus 23 rPaSVVKELVENSlDAG----At~I~I~ve~gG~~~I~V~D-NG~Gi~~~Dl~la~~rHaTSKI~~~~DL~~I~TlGFRG 97 (638)
T COG0323 23 RPASVVKELVENSLDAG----ATRIDIEVEGGGLKLIRVRD-NGSGIDKEDLPLALLRHATSKIASLEDLFRIRTLGFRG 97 (638)
T ss_pred cHHHHHHHHHhcccccC----CCEEEEEEccCCccEEEEEE-CCCCCCHHHHHHHHhhhccccCCchhHHHHhhccCccH
Confidence 34668999999999943 6889998887554 33321 1333332221 123346666755432111 22335555
Q ss_pred ccceeeeeecceeEEEEEe-CCEEEEEEccCCCCCc-ceeeeccCCCCCCCCCeEEEEE------cCcccccccccCCHH
Q 005193 182 VGLSVVNALSESLEVTVWR-DGMEYHQKYSRGKPVT-TLTCHVLPVDSKDRQGTRIRFW------PDKQVFTTAIQFDHN 253 (709)
Q Consensus 182 vGasvvNAlS~~f~Vev~r-~Gk~y~q~f~~G~~~~-~l~~~~~~~~~~~~~GT~V~F~------PD~~iF~~~~~fd~~ 253 (709)
=-++..-.. .+++++++. +...+.|.+-.|.... .++ .....-||+|.-. |=...|-.+..-.+.
T Consensus 98 EAL~SIasV-srlti~Srt~~~~~~~~~~~~g~~~~~~~~------p~a~~~GTtVeV~dLF~NtPaRrKflks~~~E~~ 170 (638)
T COG0323 98 EALASIASV-SRLTITSRTAEASEGTQIYAEGGGMEVTVK------PAAHPVGTTVEVRDLFYNTPARRKFLKSEKTEFG 170 (638)
T ss_pred HHHHHHHhh-heeEEEeecCCcCceEEEEecCCccccccc------CCCCCCCCEEEehHhhccChHHHHhhcccHHHHH
Confidence 444433333 357777774 4455566665554433 321 1234459999853 444444222222355
Q ss_pred HHHHHHHHHhhcCCCcEEEEeec
Q 005193 254 TIAGRIRELAFLNPKLTIALRKE 276 (709)
Q Consensus 254 ~l~~Rl~elA~LnpGL~I~l~de 276 (709)
.|..-++.+|-.+|.+.++|...
T Consensus 171 ~i~~vv~r~ALahp~I~F~l~~~ 193 (638)
T COG0323 171 HITELINRYALAHPDISFSLSHN 193 (638)
T ss_pred HHHHHHHHHHhcCCCeEEEEEEC
Confidence 68889999999999999999765
No 37
>cd00188 TOPRIM Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from bacterial and archaea, and bacterial DNA repair proteins of the RecR/M family. This domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases and in strand joining in topoisomerases and, as a general acid in strand cleavage by topisomerases and nucleases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=91.03 E-value=0.28 Score=40.43 Aligned_cols=70 Identities=36% Similarity=0.435 Sum_probs=46.4
Q ss_pred eEEEeecCCCCccccccCCCCceEeeccCcccccccccCHHHhhhcHhHHHHHHHhcCCccCCcCccccccceeEEEeec
Q 005193 491 EIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTD 570 (709)
Q Consensus 491 eL~lvEGDSA~Gsak~gRdr~~qailPLRGKiLNv~ka~~~ki~~N~Ei~~li~alG~g~~~~~~~~~~LRYgkIiImTD 570 (709)
.++||||++-.-+..+.... ...++++.|+..+ .....+...++. +.+|+|++|
T Consensus 2 ~viivEg~~d~~~l~~~~~~-~~~~~~~~G~~~~------------~~~~~~~~~~~~-------------~~~v~i~~D 55 (83)
T cd00188 2 KLIIVEGPSDALALAQAGGY-GGAVVALGGHALN------------KTRELLKRLLGE-------------AKEVIIATD 55 (83)
T ss_pred EEEEEecHHHHHHHHHHcCC-CEEEEEEccEEcH------------HHHHHHHHHhcC-------------CCEEEEEcC
Confidence 58999999987666555443 3688999998776 111222222211 578999999
Q ss_pred CCCCCchhhhhHHHHH
Q 005193 571 ADVDGAHIRTLLLTFF 586 (709)
Q Consensus 571 aDvDG~HI~~Llltff 586 (709)
.|..|..+...+....
T Consensus 56 ~D~~g~~~~~~~~~~~ 71 (83)
T cd00188 56 ADREGEAIALRLLELL 71 (83)
T ss_pred CChhHHHHHHHHHHHH
Confidence 9999986655554443
No 38
>PF13589 HATPase_c_3: Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; PDB: 3IED_A 2XCM_B 2JKI_B 3OPD_A 2O1V_B 2GQP_A 2O1W_C 1YT2_A 1TC6_A 2H8M_B ....
Probab=90.97 E-value=0.015 Score=55.28 Aligned_cols=88 Identities=25% Similarity=0.334 Sum_probs=52.0
Q ss_pred hHHHHHHHHhhHHhhccCCCCeEEEEEecCC----ccccccCCCCCccce--EEEEeeeccCCCCCCCCCceeeccCccc
Q 005193 108 HHLVYEILDNAVDEAQAGYASNIEVALLADN----SIPIDLHPATNKSAL--ETVLTVLHAGGKFGGSSSGYSVSGGLHG 181 (709)
Q Consensus 108 ~hlv~EIldNavDe~~~g~~~~I~V~i~~Dg----sIPvd~h~~~g~~~~--E~v~t~LhaGgkFd~~~~~ykvsGGlhG 181 (709)
.+.+.|+|+||+|-. ++.|.|.++.+. .|-|.. ...|++.- +- +..+..+.+.+. .-..+-|.+|
T Consensus 4 ~~al~ElI~Ns~DA~----a~~I~I~i~~~~~~~~~i~I~D-nG~Gm~~~~l~~-~~~~g~s~k~~~---~~~~~~G~~G 74 (137)
T PF13589_consen 4 EDALRELIDNSIDAG----ATNIKISIDEDKKGERYIVIED-NGEGMSREDLES-FFRIGRSSKKSE---KDRQSIGRFG 74 (137)
T ss_dssp THHHHHHHHHHHHHH----HHHEEEEEEEETTTTTEEEEEE-SSS---HHHHHH-HTTCHHTHHHHH---HHGGGGGGGT
T ss_pred HHHHHHHHHHHHHcc----CCEEEEEEEcCCCCCcEEEEEE-CCcCCCHHHHHH-hccccCCCCCch---hhhhcCCCcc
Confidence 678999999999943 456888887652 133322 23444422 22 222333333210 0134679999
Q ss_pred ccce-eeeeecceeEEEEEeCCEE
Q 005193 182 VGLS-VVNALSESLEVTVWRDGME 204 (709)
Q Consensus 182 vGas-vvNAlS~~f~Vev~r~Gk~ 204 (709)
+|++ .+..++..++|++...|..
T Consensus 75 ~G~k~A~~~~~~~~~v~S~~~~~~ 98 (137)
T PF13589_consen 75 IGLKLAIFSLGDRVEVISKTNGES 98 (137)
T ss_dssp SGCGGGGGGTEEEEEEEEESTTSS
T ss_pred eEHHHHHHHhcCEEEEEEEECCCC
Confidence 9944 5678999999999876543
No 39
>smart00387 HATPase_c Histidine kinase-like ATPases. Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Probab=87.71 E-value=0.57 Score=40.20 Aligned_cols=83 Identities=27% Similarity=0.341 Sum_probs=45.2
Q ss_pred CchhHHHHHHHHhhHHhhccCCCCeEEEEEecCCc---cccccCCCCCccc--eEEEEeeeccCCCCCCCCCceeeccCc
Q 005193 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADNS---IPIDLHPATNKSA--LETVLTVLHAGGKFGGSSSGYSVSGGL 179 (709)
Q Consensus 105 ~GL~hlv~EIldNavDe~~~g~~~~I~V~i~~Dgs---IPvd~h~~~g~~~--~E~v~t~LhaGgkFd~~~~~ykvsGGl 179 (709)
.-|.+++.|+++||++....+ ..|.|.+..++. |-|.. ...|... .+-++..++.+.. .+...+.
T Consensus 4 ~~l~~~~~~l~~n~~~~~~~~--~~v~i~~~~~~~~~~i~i~d-~g~g~~~~~~~~~~~~~~~~~~-------~~~~~~~ 73 (111)
T smart00387 4 DRLRQVLSNLLDNAIKYTPEG--GRITVTLERDGDHLEITVED-NGPGIPPEDLEKIFEPFFRTDG-------RSRKIGG 73 (111)
T ss_pred HHHHHHHHHHHHHHHhcCCCC--CeEEEEEEEcCCEEEEEEEe-CCCCCCHHHHHHHhcCeEECCC-------CCCCCCc
Confidence 347889999999999976653 345555554322 22211 1111110 1112222211110 1233556
Q ss_pred ccccceeeeeecceeEEE
Q 005193 180 HGVGLSVVNALSESLEVT 197 (709)
Q Consensus 180 hGvGasvvNAlS~~f~Ve 197 (709)
+|+|+++++.++..+..+
T Consensus 74 ~g~gl~~~~~~~~~~~g~ 91 (111)
T smart00387 74 TGLGLSIVKKLVELHGGE 91 (111)
T ss_pred ccccHHHHHHHHHHcCCE
Confidence 999999999999988544
No 40
>PF09239 Topo-VIb_trans: Topoisomerase VI B subunit, transducer; InterPro: IPR015320 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. This entry represents subunit B of topoisomerase VI, an ATP-dependent type IIB enzyme. Members of this family adopt a structure consisting of a four-stranded beta-sheet backed by three alpha-helices, the last of which is over 50 amino acids long and extends from the body of the protein by several turns. This domain has been proposed to mediate intersubunit communication by structurally transducing signals from the ATP binding and hydrolysis domains to the DNA binding and cleavage domains of the gyrase holoenzyme []. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0006265 DNA topological change, 0005694 chromosome; PDB: 2ZBK_F 2HKJ_A 1Z5B_A 1Z5C_B 1MX0_F 1Z5A_A 1MU5_A 1Z59_A 2Q2E_B.
Probab=87.10 E-value=5.2 Score=39.25 Aligned_cols=88 Identities=16% Similarity=0.342 Sum_probs=53.2
Q ss_pred eEEEEEEEEcCCC---CCceeeeeeCceec-CCCccchHHHHHHHHHHHHHHHhhcccCCCCCCCCCHhhhccceEEEEE
Q 005193 321 ITIDLALQWCSDA---YSDTMLGYANSIRT-IDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIIS 396 (709)
Q Consensus 321 ~~veval~~s~~~---~~~~~~SFVN~I~T-~~GGTHv~g~~~altr~ln~~~kk~~~~K~k~~~l~~~dIregL~~vVs 396 (709)
..||+|+.|--+. -.-.++-|+|-|+- .+.|. .++|+++.+. ..++. .+...+ ..-+.++|+
T Consensus 42 FiVEagiayGG~~~~~~~~~ilRfANRVPLly~~g~------cvit~av~~i-~W~~Y------~l~~~~-~~p~~v~Vh 107 (160)
T PF09239_consen 42 FIVEAGIAYGGEIPPEGKIEILRFANRVPLLYDQGS------CVITKAVKSI-NWKRY------GLDQPG-NGPLVVFVH 107 (160)
T ss_dssp EEEEEEEEESTTS-SCSS-EEEEEETTEEE-STGCC------SHHHHHHHHS--GCCC------T--SSS--CSEEEEEE
T ss_pred EEEEEehhhccCCCCCCCceEEEEccCCceeecCCc------hHHHHHHHhC-Cchhc------CcCCCC-CCCEEEEEE
Confidence 4589999997221 13468999999984 45554 5667777643 23221 122221 356789999
Q ss_pred EeecCCCCCCccccccCC-chhhhhhh
Q 005193 397 VRVPNPEFEGQTKTRLGN-PEVRKVVD 422 (709)
Q Consensus 397 vki~nP~FegQTK~kL~n-~ev~~~v~ 422 (709)
+--++--|.|-.|+...+ +|+..-|.
T Consensus 108 i~ST~VPfts~~KeaIa~~pEI~~Ei~ 134 (160)
T PF09239_consen 108 IASTKVPFTSEGKEAIADVPEIEKEIR 134 (160)
T ss_dssp EEESS--BSSTTSSSB---HHHHHHHH
T ss_pred EeecccCccccchhhhcCcHHHHHHHH
Confidence 999999999999999983 55444333
No 41
>cd00823 TopoIIB_Trans TopoIIB_Trans: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIB family of DNA topoisomerases similar to Sulfolobus shibatae topoisomerase VI (topoVI). The sole representative of the Type IIB family is topo VI. Topo VI enzymes are heterotetramers found in archaea and plants. S. shibatae topoVI relaxes both positive and negative supercoils, and in addition has a strong decatenase activity. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes.
Probab=86.84 E-value=6.4 Score=38.31 Aligned_cols=89 Identities=17% Similarity=0.369 Sum_probs=55.9
Q ss_pred eEEEEEEEEcCCC---CCceeeeeeCceec-CCCccchHHHHHHHHHHHHHHHhhcccCCCCCCCCCHhhhccceEEEEE
Q 005193 321 ITIDLALQWCSDA---YSDTMLGYANSIRT-IDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIIS 396 (709)
Q Consensus 321 ~~veval~~s~~~---~~~~~~SFVN~I~T-~~GGTHv~g~~~altr~ln~~~kk~~~~K~k~~~l~~~dIregL~~vVs 396 (709)
..||+|+.|--+. -.-+++-|+|-|+- .+.|. .++|+++... ..++. .+.... ..-+.++|+
T Consensus 33 FiVEagiayGG~~~~~~~~~i~RfANRVPLlf~~g~------cvit~av~~i-~W~~Y------gi~~~~-~~p~~v~Vh 98 (151)
T cd00823 33 FIVEVGIAYGGDIPADEKVELLRFANRVPLLYDAGA------CVITKAVESI-NWKRY------GLEQPG-QGPLVVLVH 98 (151)
T ss_pred eEEEEeeeecCccCCCCCceEEEEcccCceeecccc------hHHHHHHHhC-Chhhc------CcCCCC-CCCEEEEEE
Confidence 4589999996321 12478999999984 45554 4455555432 22111 111111 346789999
Q ss_pred EeecCCCCCCccccccCC-chhhhhhhh
Q 005193 397 VRVPNPEFEGQTKTRLGN-PEVRKVVDQ 423 (709)
Q Consensus 397 vki~nP~FegQTK~kL~n-~ev~~~v~~ 423 (709)
+--++--|.|-.|+...+ ||+..-+..
T Consensus 99 i~St~VPfts~~KeaIadvpEI~~EIrl 126 (151)
T cd00823 99 VASTKVPFTSEGKEAIADIPEIEEEIKL 126 (151)
T ss_pred EeecCCCcCCcchhhhcCCHHHHHHHHH
Confidence 999999999999999986 555444433
No 42
>COG0326 HtpG Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=84.69 E-value=14 Score=43.65 Aligned_cols=149 Identities=22% Similarity=0.300 Sum_probs=81.8
Q ss_pred HHHHHHhhHHhhcc-------CC-------CCeEEEEEecCCc-cccccCCCCCccceE---EEEeeeccCCC-CC----
Q 005193 111 VYEILDNAVDEAQA-------GY-------ASNIEVALLADNS-IPIDLHPATNKSALE---TVLTVLHAGGK-FG---- 167 (709)
Q Consensus 111 v~EIldNavDe~~~-------g~-------~~~I~V~i~~Dgs-IPvd~h~~~g~~~~E---~v~t~LhaGgk-Fd---- 167 (709)
+.|+|.||.|-.-. +. --.|.|..|+|.. +-+... .-|+..-| .+=|.-.+|.+ |-
T Consensus 32 LRELISNAsDAidKlr~~al~~~~~~~~~~~~~I~i~~Dk~~kTLtI~DN-GIGMT~~Ev~~~LgTIAkSgT~~F~~~l~ 110 (623)
T COG0326 32 LRELISNASDAIDKLRFEALSDPELGEGDSDLRIRISFDKDNKTLTISDN-GIGMTKDEVIENLGTIAKSGTKEFLESLS 110 (623)
T ss_pred HHHHHhhhHHHHHHHHHHhccCccccCCCCCceEEEEEcccCCEEEEEeC-CCCCCHHHHHHHHHHhhhccHHHHHHHhc
Confidence 69999999995432 21 2357888887644 322211 22232222 22233333332 11
Q ss_pred CCCCceeeccCcccccceeeeeecceeEEEEEeCC--EEEEEEcc-CCCCCcceeeeccCCCCCCC-CCeEEEEEcCccc
Q 005193 168 GSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDG--MEYHQKYS-RGKPVTTLTCHVLPVDSKDR-QGTRIRFWPDKQV 243 (709)
Q Consensus 168 ~~~~~ykvsGGlhGvGasvvNAlS~~f~Vev~r~G--k~y~q~f~-~G~~~~~l~~~~~~~~~~~~-~GT~V~F~PD~~i 243 (709)
.+ ..-.---|.=|||.--+=+.+.+.+|.+...| ..| .|+ .|...-.+..+ .... +||+|+-.+-++-
T Consensus 111 ~~-~~~~~lIGQFGVGFYSaFmVAdkV~V~T~~~~~~~~~--~W~S~g~g~ytv~~~-----~~~~~~GT~I~L~Lk~~e 182 (623)
T COG0326 111 ED-QKDSDLIGQFGVGFYSAFMVADKVTVITRSAGEDEAY--HWESDGEGEYTVEDI-----DKEPRRGTEITLHLKEEE 182 (623)
T ss_pred cc-cccccccccccchhhheeeeeeeEEEEeccCCCCcce--EEEEcCCCceEEeec-----cCCCCCCcEEEEEECCch
Confidence 11 00122358999999999999999999998765 344 564 56665444333 2334 5999988765543
Q ss_pred --ccccccCCHHHHHHHHHHHh--hc-CCCcEEEEeecC
Q 005193 244 --FTTAIQFDHNTIAGRIRELA--FL-NPKLTIALRKED 277 (709)
Q Consensus 244 --F~~~~~fd~~~l~~Rl~elA--~L-npGL~I~l~der 277 (709)
|- + .-||+++. |. +=.+-|++.+++
T Consensus 183 ~efl-----~----~~rl~~ivkkYSd~i~~PI~~~~~~ 212 (623)
T COG0326 183 DEFL-----E----EWRLREIVKKYSDHIAYPIYIEGEK 212 (623)
T ss_pred HHHh-----h----hhHHHHHHHHHhcccccceEEeeec
Confidence 42 1 23444444 21 224567777644
No 43
>PF13581 HATPase_c_2: Histidine kinase-like ATPase domain
Probab=81.76 E-value=5.1 Score=36.66 Aligned_cols=88 Identities=23% Similarity=0.247 Sum_probs=52.7
Q ss_pred chhHHHHHHHHhhHHhhccCCC-CeEEEEEecCCc-cccccCCCCCccceEEEEeeeccCCCCCCCC-----CceeeccC
Q 005193 106 GLHHLVYEILDNAVDEAQAGYA-SNIEVALLADNS-IPIDLHPATNKSALETVLTVLHAGGKFGGSS-----SGYSVSGG 178 (709)
Q Consensus 106 GL~hlv~EIldNavDe~~~g~~-~~I~V~i~~Dgs-IPvd~h~~~g~~~~E~v~t~LhaGgkFd~~~-----~~ykvsGG 178 (709)
-+.-.+.|++.||+..+..+.. ..|.|.+..+.. |-+.+. -.|..|+-.. ..-.....
T Consensus 31 ~~~lav~E~~~Nav~H~~~~~~~~~v~v~~~~~~~~l~i~v~---------------D~G~~~d~~~~~~~~~~~~~~~~ 95 (125)
T PF13581_consen 31 DLELAVSEALTNAVEHGYPGDPDGPVDVRLEVDPDRLRISVR---------------DNGPGFDPEQLPQPDPWEPDSLR 95 (125)
T ss_pred HHHHHHHHHHHHHHHHcCCCCCCcEEEEEEEEcCCEEEEEEE---------------ECCCCCChhhccCcccccCCCCC
Confidence 3556789999999999887643 567776554333 222111 1122232110 00003345
Q ss_pred cccccceeeeeecceeEEEEEeCCEEEEEEc
Q 005193 179 LHGVGLSVVNALSESLEVTVWRDGMEYHQKY 209 (709)
Q Consensus 179 lhGvGasvvNAlS~~f~Vev~r~Gk~y~q~f 209 (709)
..|.|+.+++.|+..+.+ ...+|+.-+++|
T Consensus 96 ~~G~Gl~li~~l~D~~~~-~~~~gn~v~l~k 125 (125)
T PF13581_consen 96 EGGRGLFLIRSLMDEVDY-REDGGNTVTLRK 125 (125)
T ss_pred CCCcCHHHHHHHHcEEEE-ECCCeEEEEEEC
Confidence 579999999999999998 455666666554
No 44
>PTZ00272 heat shock protein 83 kDa (Hsp83); Provisional
Probab=80.69 E-value=6 Score=47.72 Aligned_cols=155 Identities=21% Similarity=0.309 Sum_probs=81.1
Q ss_pred HHHHHHHhhHHhhcc------------CCCCe--EEEEEecCCc-cccccCCCCCcc---ceEEEEeeeccCCC-CCC--
Q 005193 110 LVYEILDNAVDEAQA------------GYASN--IEVALLADNS-IPIDLHPATNKS---ALETVLTVLHAGGK-FGG-- 168 (709)
Q Consensus 110 lv~EIldNavDe~~~------------g~~~~--I~V~i~~Dgs-IPvd~h~~~g~~---~~E~v~t~LhaGgk-Fd~-- 168 (709)
.+.|+|.||.|-.-. +.... |.|..+.++. +-|.. ..-|++ +.+.+.|..++|.+ |-.
T Consensus 29 flRELIsNA~DA~~k~r~~~l~~~~~~~~~~~~~I~i~~d~~~~~L~I~D-nGiGMt~edl~~~LgtIa~SGt~~f~~~~ 107 (701)
T PTZ00272 29 FLRELISNASDACDKIRYQSLTDPSVLGESPRLCIRVVPDKENKTLTVED-NGIGMTKADLVNNLGTIARSGTKAFMEAL 107 (701)
T ss_pred hHHHHHhhHHHHHHHHHHHhcCCchhcCCCCceEEEEEEcCCCCEEEEEE-CCCCCCHHHHHHHhhhhhhcchHHHHHHh
Confidence 368999999996321 11223 4444443332 21111 112222 22334444555555 310
Q ss_pred CCCceeeccCcccccceeeeeecceeEEEEEeCC-EEEEEEccCCCCCcceeeeccCCCCCCCCCeEEEEEcCccccccc
Q 005193 169 SSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDG-MEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 247 (709)
Q Consensus 169 ~~~~ykvsGGlhGvGasvvNAlS~~f~Vev~r~G-k~y~q~f~~G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~~ 247 (709)
....-.-.-|..|||.-.+=.+++..+|+++..+ .-|..+. +|...-.+... + .....+||+|+-.+..+--
T Consensus 108 ~~~~~~~~iGqFGvGfyS~Fmvad~V~V~Srs~~~~~~~W~s-~~~g~y~i~~~--~-~~~~~~GT~I~L~Lk~d~~--- 180 (701)
T PTZ00272 108 EAGGDMSMIGQFGVGFYSAYLVADRVTVTSKNNSDESYVWES-SAGGTFTITST--P-ESDMKRGTRITLHLKEDQM--- 180 (701)
T ss_pred hccCCccccCCCCcceEEEEEeccEEEEEEecCCCceEEEEE-CCCCcEEEEeC--C-CCCCCCCCEEEEEECCchH---
Confidence 0001123568999999999999999999987543 3344443 33322222211 1 2234689999887765421
Q ss_pred ccCCHHHHHHHHHHHh-hcCCCcEEEEe
Q 005193 248 IQFDHNTIAGRIRELA-FLNPKLTIALR 274 (709)
Q Consensus 248 ~~fd~~~l~~Rl~elA-~LnpGL~I~l~ 274 (709)
.-++...|+.-++.-+ |+. .-|++.
T Consensus 181 ef~~~~~i~~li~kYs~fi~--~PI~l~ 206 (701)
T PTZ00272 181 EYLEPRRLKELIKKHSEFIG--YDIELM 206 (701)
T ss_pred HhccHHHHHHHHHHhccccC--cceEEe
Confidence 1145566666666655 442 456664
No 45
>KOG1978 consensus DNA mismatch repair protein - MLH2/PMS1/Pms2 family [Replication, recombination and repair]
Probab=78.44 E-value=3 Score=49.20 Aligned_cols=156 Identities=21% Similarity=0.294 Sum_probs=98.7
Q ss_pred CchhHHHHHHHHhhHHhhccCCCCeEEEEEecCCc--cccccCCCCCccceE-EEEeeeccCCC---CCCCCCceeeccC
Q 005193 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADNS--IPIDLHPATNKSALE-TVLTVLHAGGK---FGGSSSGYSVSGG 178 (709)
Q Consensus 105 ~GL~hlv~EIldNavDe~~~g~~~~I~V~i~~Dgs--IPvd~h~~~g~~~~E-~v~t~LhaGgk---Fd~~~~~ykvsGG 178 (709)
.+|.-.|.|+|+||+|.- |+.|.|.+.+-|. |-|.. ...|+.+.- -.|+.-|.-+| |.|- .-.++=|
T Consensus 19 ~sl~sAVKELvENSiDAG----AT~I~I~~kdyG~d~IEV~D-NG~GI~~~n~~~l~lkh~TSKi~~f~Dl--~~l~T~G 91 (672)
T KOG1978|consen 19 TSLVSAVKELVENSIDAG----ATAIDIKVKDYGSDSIEVSD-NGSGISATDFEGLALKHTTSKIVSFADL--AVLFTLG 91 (672)
T ss_pred ccHHHHHHHHHhcCcccC----CceeeEecCCCCcceEEEec-CCCCCCccchhhhhhhhhhhcccchhhh--hhhhhhh
Confidence 467788999999999954 7789998888776 66643 344554332 12555565555 5444 4467778
Q ss_pred cccccceeeeeecceeEEEEEeC-CEEEEEEcc-CCCCCcceeeeccCCCCCCCCCeEEEEEcCcccccc----------
Q 005193 179 LHGVGLSVVNALSESLEVTVWRD-GMEYHQKYS-RGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTT---------- 246 (709)
Q Consensus 179 lhGvGasvvNAlS~~f~Vev~r~-Gk~y~q~f~-~G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~---------- 246 (709)
--|=-+|...|+|.-+..+...+ ..-.+..|- .|.-.... ......||+|.- ...|.+
T Consensus 92 FRGEALSsLCa~~dv~I~Trt~~~~vgt~l~~Dh~G~I~~k~-------~~ar~~GTTV~v---~~LF~tLPVR~kef~r 161 (672)
T KOG1978|consen 92 FRGEALSSLCALGDVMISTRSHSAKVGTRLVYDHDGHIIQKK-------PVARGRGTTVMV---RQLFSTLPVRRKEFQR 161 (672)
T ss_pred hHHHHHHhhhhccceEEEEeeccCccceeEEEccCCceeeec-------cccCCCCCEEEH---hhhcccCCCchHHhhc
Confidence 88888888889998888876643 222344443 23332111 235678999984 244432
Q ss_pred cccCCHHHHHHHHHHHhhcCCCcEEEEeecC
Q 005193 247 AIQFDHNTIAGRIRELAFLNPKLTIALRKED 277 (709)
Q Consensus 247 ~~~fd~~~l~~Rl~elA~LnpGL~I~l~der 277 (709)
.+.-.++.+..-+.-.|-+++++++.....-
T Consensus 162 ~~Kref~k~i~li~~y~li~~~ir~~~~n~t 192 (672)
T KOG1978|consen 162 NIKRKFVKLISLIQAYALISTAIKFLVSNST 192 (672)
T ss_pred chhhhhhhHHhhHHHHHhhcccceeeeeecc
Confidence 1122344566677777888999998776543
No 46
>PTZ00130 heat shock protein 90; Provisional
Probab=76.77 E-value=5 Score=48.86 Aligned_cols=155 Identities=19% Similarity=0.257 Sum_probs=83.3
Q ss_pred HHHHHHhhHHhhcc------------CC--CCeEEEEEecCCc-cccccCCCCCccce---EEEEeeeccCCC-C----C
Q 005193 111 VYEILDNAVDEAQA------------GY--ASNIEVALLADNS-IPIDLHPATNKSAL---ETVLTVLHAGGK-F----G 167 (709)
Q Consensus 111 v~EIldNavDe~~~------------g~--~~~I~V~i~~Dgs-IPvd~h~~~g~~~~---E~v~t~LhaGgk-F----d 167 (709)
+.|+|.||.|-.-. +. .-.|.|..|.++. |-|.. ..-|+.-- +-+.|..++|.+ | .
T Consensus 93 LRELISNAsDAldKlr~~~lt~~~~~~~~~~~~I~I~~D~~~~tLtI~D-nGIGMT~eEl~~nLgTIA~Sgt~~F~~~l~ 171 (814)
T PTZ00130 93 LRELISNAADALEKIRFLSLSDESVLGEEKKLEIRISANKEKNILSITD-TGIGMTKEDLINNLGTIAKSGTSNFLEAIS 171 (814)
T ss_pred eehHhhhHHHHHHHHHHHHcCCchhcCCCCCceEEEEECCCCCEEEEEE-CCCCCCHHHHHHHhhhhcccccHHHHHHhh
Confidence 58999999995421 11 1245555554443 32221 12344332 333455555533 3 1
Q ss_pred CCCCceeeccCcccccceeeeeecceeEEEEEeCC-EEEEEEccCCCCCcceeeeccCCCCCCCCCeEEEEEcCcccccc
Q 005193 168 GSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDG-MEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTT 246 (709)
Q Consensus 168 ~~~~~ykvsGGlhGvGasvvNAlS~~f~Vev~r~G-k~y~q~f~~G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~ 246 (709)
.. ..-.---|..|||.--+=.+++..+|+++..| ..|..+. .|...-.+... +.+....+||+|+..+..+-
T Consensus 172 ~~-~~~~~lIGQFGVGFYSaFmVAdkV~V~Trs~~~~~~~W~s-~g~g~y~I~e~--~~~~~~~rGT~I~LhLked~--- 244 (814)
T PTZ00130 172 KS-GGDMSLIGQFGVGFYSAFLVADKVIVYTKNNNDEQYIWES-TADAKFTIYKD--PRGSTLKRGTRISLHLKEDA--- 244 (814)
T ss_pred cc-CCCcccccccccchhheeeecCEEEEEEcCCCCceEEEEE-CCCCcEEEEEC--CCCCCCCCCcEEEEEECCch---
Confidence 10 01123569999999888889999999998643 3344332 23322222211 11234479999998876432
Q ss_pred cccCCHHHHHHHHHHHh-hcCCCcEEEEee
Q 005193 247 AIQFDHNTIAGRIRELA-FLNPKLTIALRK 275 (709)
Q Consensus 247 ~~~fd~~~l~~Rl~elA-~LnpGL~I~l~d 275 (709)
..-++...|+.-++.-+ |+. .-|++++
T Consensus 245 ~efl~~~~ik~likkYS~fI~--~PI~l~~ 272 (814)
T PTZ00130 245 TNLMNDKKLVDLISKYSQFIQ--YPIYLLH 272 (814)
T ss_pred hhhccHHHHHHHHHHhhccCC--CCEEEcc
Confidence 11245666776666666 443 4566654
No 47
>TIGR01925 spIIAB anti-sigma F factor. This model describes the SpoIIAB anti-sigma F factor. Sigma F regulates spore development in B subtilis. SpoIIAB binds to sigma F, preventing formation of the transcription complex at the promoter. SpoIIAA (anti-anti-sigma F factor) binds to SpoIIAB to inhibit association with sigma F, however SpoIIAB can phosphorylate SpoIIAA, causing disassociation of the SpoIIAA/B complex. The SpoIIE phosphatase dephosphorylates SpoIIAA.
Probab=76.43 E-value=4.9 Score=37.48 Aligned_cols=33 Identities=12% Similarity=0.151 Sum_probs=22.4
Q ss_pred CchhHHHHHHHHhhHHhhcc-CCCCeEEEEEecC
Q 005193 105 RGLHHLVYEILDNAVDEAQA-GYASNIEVALLAD 137 (709)
Q Consensus 105 ~GL~hlv~EIldNavDe~~~-g~~~~I~V~i~~D 137 (709)
..+..++.|++.||+..+.. .....|.|++..+
T Consensus 38 ~~l~~~l~eli~Nai~h~~~~~~~~~I~v~~~~~ 71 (137)
T TIGR01925 38 TDIKTAVSEAVTNAIIHGYEENCEGVVYISATIE 71 (137)
T ss_pred HHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEe
Confidence 46778899999999975433 2235677766543
No 48
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=73.30 E-value=31 Score=39.96 Aligned_cols=99 Identities=17% Similarity=0.372 Sum_probs=62.9
Q ss_pred eEEEEEEEEcCCCC---CceeeeeeCceec-CCCccchHHHHHHHHHHHHHHHhhcccCCCCCCCCCHhhhc-cceEEEE
Q 005193 321 ITIDLALQWCSDAY---SDTMLGYANSIRT-IDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVR-EGLTCII 395 (709)
Q Consensus 321 ~~veval~~s~~~~---~~~~~SFVN~I~T-~~GGTHv~g~~~altr~ln~~~kk~~~~K~k~~~l~~~dIr-egL~~vV 395 (709)
..||+|+.|--+.- .-+++-|+|-|+- .+.|. .++|+++... .+++. .+. ++- .-+.++|
T Consensus 348 fiVE~~iayGg~~~~~~~~~i~RfaNrvPLl~~~g~------~~~t~~v~~i-~w~~Y------~~~--~~~~~p~~v~v 412 (488)
T TIGR01052 348 FIVEVGIAYGGNIGRRSEPEILRYANKVPLLYDAGS------CVLTKAVKSI-NWKRY------GIR--DFPSAPLVVLV 412 (488)
T ss_pred eEEEEeeecCCcCCCCCceeEEEecccCceeecccc------cHHHHHHHhC-Chhhc------CCC--CCCCCCEEEEE
Confidence 56999999973211 2368999999984 34554 5666766442 22221 111 122 2478999
Q ss_pred EEeecCCCCCCccccccCC-chhhhhhhhhHH---HHHHHHHh
Q 005193 396 SVRVPNPEFEGQTKTRLGN-PEVRKVVDQSVQ---EYLTEYLE 434 (709)
Q Consensus 396 svki~nP~FegQTK~kL~n-~ev~~~v~~~v~---~~l~~~le 434 (709)
++--.+--|.|-.|+...+ ||+..-|...+. .+|..||.
T Consensus 413 hi~St~vPf~s~~Ke~ia~~~ei~~ei~~al~~~~r~L~~~l~ 455 (488)
T TIGR01052 413 NLASTNVPYTSTGKQSVADIPEIYNEIRLALMEVARRLRLYLS 455 (488)
T ss_pred EEeecCCCCCCcchhhhcCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999964 666555544432 35555554
No 49
>PRK04017 hypothetical protein; Provisional
Probab=71.67 E-value=0.84 Score=43.51 Aligned_cols=29 Identities=34% Similarity=0.540 Sum_probs=25.1
Q ss_pred cceeEEEeecCCCCCchhhhhHHHHHHHH
Q 005193 561 RYHKIIILTDADVDGAHIRTLLLTFFYRY 589 (709)
Q Consensus 561 RYgkIiImTDaDvDG~HI~~Llltff~~~ 589 (709)
.+..|||+||.|-=|..|+..+...|..+
T Consensus 64 ~~r~VIILTD~D~~GekIr~~l~~~l~~~ 92 (132)
T PRK04017 64 RGKEVIILTDFDRKGEELAKKLSEYLQGY 92 (132)
T ss_pred cCCeEEEEECCCcchHHHHHHHHHHHHhC
Confidence 46689999999999999999998877654
No 50
>PRK03660 anti-sigma F factor; Provisional
Probab=69.98 E-value=9.8 Score=35.79 Aligned_cols=83 Identities=13% Similarity=0.223 Sum_probs=41.3
Q ss_pred chhHHHHHHHHhhHHhhccCCC-CeEEEEEecCCc-cccccC-CCCCccceEEEEeeeccCCCCCCCCCceeeccCcccc
Q 005193 106 GLHHLVYEILDNAVDEAQAGYA-SNIEVALLADNS-IPIDLH-PATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGV 182 (709)
Q Consensus 106 GL~hlv~EIldNavDe~~~g~~-~~I~V~i~~Dgs-IPvd~h-~~~g~~~~E~v~t~LhaGgkFd~~~~~ykvsGGlhGv 182 (709)
-+.-++.|++.||+..+..+.. ..|.|.+..++. +=+.+. ...|.+..+-++. +|-.. . -..+.+|+
T Consensus 39 ~l~~~l~eli~Nai~h~~~~~~~~~i~i~~~~~~~~l~i~I~D~G~g~~~~~~~~~------~~~~~--~--~~~~~~Gl 108 (146)
T PRK03660 39 EIKTAVSEAVTNAIIHGYENNPDGVVYIEVEIEEEELEITVRDEGKGIEDIEEAMQ------PLYTT--K--PELERSGM 108 (146)
T ss_pred hHHHHHHHHHHHHHHHhcCCCCCCEEEEEEEECCCEEEEEEEEccCCCChHHHhhC------CCccc--C--CCCCCccc
Confidence 3556789999999977655332 456666553322 111111 1112111111111 11111 0 01133699
Q ss_pred cceeeeeecceeEEEE
Q 005193 183 GLSVVNALSESLEVTV 198 (709)
Q Consensus 183 GasvvNAlS~~f~Vev 198 (709)
|++++..+...+.++.
T Consensus 109 GL~i~~~~~~~i~~~~ 124 (146)
T PRK03660 109 GFTVMESFMDEVEVES 124 (146)
T ss_pred cHHHHHHhCCeEEEEe
Confidence 9999988877665543
No 51
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=69.14 E-value=37 Score=40.75 Aligned_cols=100 Identities=14% Similarity=0.297 Sum_probs=64.6
Q ss_pred eEEEEEEEEcCC---CC----CceeeeeeCceecC-CCccchHHHHHHHHHHHHHHHhhcccCCCCCCCCCHhhhcc-ce
Q 005193 321 ITIDLALQWCSD---AY----SDTMLGYANSIRTI-DGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVRE-GL 391 (709)
Q Consensus 321 ~~veval~~s~~---~~----~~~~~SFVN~I~T~-~GGTHv~g~~~altr~ln~~~kk~~~~K~k~~~l~~~dIre-gL 391 (709)
..||+|+.|--+ .- .-.++-|+|-||-. +.|. .++|+++... .+++. .+. +.-. -+
T Consensus 498 FiVE~giayGG~~~~~~~~~~~~~i~RfANrvPLly~~g~------c~~t~~v~~i-~W~~Y------~l~--~~~~~p~ 562 (659)
T PRK14867 498 FAVEVGLAYGGNAGRQGDEGRKMEIMRFSNHVPLLFDTSG------CGLTNAVKSV-NWRRY------GLR--SDEDAPI 562 (659)
T ss_pred EEEEEeeecCCcCCCCCccCCcceEEEeeccCceeecCcc------cHHHHHHHhC-Chhhc------CcC--CCCCCCE
Confidence 458999999632 11 23699999999843 3444 5566666443 22221 111 1112 37
Q ss_pred EEEEEEeecCCCCCCccccccC-----CchhhhhhhhhHH---HHHHHHHhh
Q 005193 392 TCIISVRVPNPEFEGQTKTRLG-----NPEVRKVVDQSVQ---EYLTEYLEL 435 (709)
Q Consensus 392 ~~vVsvki~nP~FegQTK~kL~-----n~ev~~~v~~~v~---~~l~~~le~ 435 (709)
+++|++--++--|.|-.|+.+. +||+..-+...+. ..|..||.+
T Consensus 563 ~v~vhv~St~vPfts~~Keaia~~~~~~~eI~~Ei~lAl~~~~r~L~~~l~~ 614 (659)
T PRK14867 563 TVFVNLISTHIPYTSAGKQAIACSEEENEEIFNEIRQALMICARELEKYISR 614 (659)
T ss_pred EEEEEEeecCCCCCCccHHHhhccCCCChHHHHHHHHHHHHHHHHHHHHHHH
Confidence 8999999999999999999998 6777666655543 466666653
No 52
>PRK04069 serine-protein kinase RsbW; Provisional
Probab=66.21 E-value=7.6 Score=37.86 Aligned_cols=95 Identities=20% Similarity=0.187 Sum_probs=48.5
Q ss_pred CchhHHHHHHHHhhHHhhccCC-CCeEEEEEecCCc-cccccCCCCCccc-eEEEEeeeccCCCCCCCCCceeeccCccc
Q 005193 105 RGLHHLVYEILDNAVDEAQAGY-ASNIEVALLADNS-IPIDLHPATNKSA-LETVLTVLHAGGKFGGSSSGYSVSGGLHG 181 (709)
Q Consensus 105 ~GL~hlv~EIldNavDe~~~g~-~~~I~V~i~~Dgs-IPvd~h~~~g~~~-~E~v~t~LhaGgkFd~~~~~ykvsGGlhG 181 (709)
..+.-.+.|++.|||..+..+. ...|.|++..++. +=+.+. ..|... ++.+.. +-+.|....+. ....-+|
T Consensus 41 ~~l~lav~Ea~~Nai~Hg~~~~~~~~I~I~~~~~~~~l~i~V~-D~G~g~d~~~~~~---~~~p~~~~~~~--~~~~~~G 114 (161)
T PRK04069 41 EDMKIAVSEACTNAVQHAYKEDEVGEIHIRFEIYEDRLEIVVA-DNGVSFDYETLKS---KLGPYDISKPI--EDLREGG 114 (161)
T ss_pred HHHHHHHHHHHHHHHHhccCCCCCCeEEEEEEEECCEEEEEEE-ECCcCCChHHhcc---ccCCCCCCCcc--cccCCCc
Confidence 3466789999999999987653 3456666654322 222211 111110 010000 00111100000 1111258
Q ss_pred ccceeeeeecceeEEEEEeCCEEEE
Q 005193 182 VGLSVVNALSESLEVTVWRDGMEYH 206 (709)
Q Consensus 182 vGasvvNAlS~~f~Vev~r~Gk~y~ 206 (709)
.|+.++..|+..+.+.. .+|...+
T Consensus 115 ~GL~li~~l~d~v~~~~-~~G~~v~ 138 (161)
T PRK04069 115 LGLFLIETLMDDVTVYK-DSGVTVS 138 (161)
T ss_pred eeHHHHHHHHHhEEEEc-CCCcEEE
Confidence 99999999999987764 3555443
No 53
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=64.33 E-value=53 Score=40.04 Aligned_cols=104 Identities=17% Similarity=0.371 Sum_probs=64.3
Q ss_pred eEEEEEEEEcCCCC---CceeeeeeCceecC-CCccchHHHHHHHHHHHHHHH-hhcccCCCCCCCCCHhhhcc-ceEEE
Q 005193 321 ITIDLALQWCSDAY---SDTMLGYANSIRTI-DGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVRE-GLTCI 394 (709)
Q Consensus 321 ~~veval~~s~~~~---~~~~~SFVN~I~T~-~GGTHv~g~~~altr~ln~~~-kk~~~~K~k~~~l~~~dIre-gL~~v 394 (709)
..||+|+.|--+.- .-.++-|+|-||-. +.|. .++|++|...- +..++-..+ ++.+-+ -++++
T Consensus 542 FiVEagiAYGG~~~~~g~~~i~RfANRVPLly~~ga------c~iT~~v~~i~Wr~Ygl~q~~-----g~g~p~~P~~v~ 610 (795)
T PRK14868 542 FIVEAGIAYGGEIDSEGSVDVMRFANRVPLVYQRGA------CATTDVVKSIGWRNYGLDQPG-----GSGLPNGPAVIM 610 (795)
T ss_pred eEEEEEeecCCcCCCCCCceEEEecccCceeecccc------cHHHHHHHhCChhhcCcCCCC-----CCCCCCCCEEEE
Confidence 56999999973211 23689999999843 3443 45666664432 222221111 111222 37899
Q ss_pred EEEeecCCCCCCccccccCC-chhhhhhhhhHH---HHHHHHHhh
Q 005193 395 ISVRVPNPEFEGQTKTRLGN-PEVRKVVDQSVQ---EYLTEYLEL 435 (709)
Q Consensus 395 Vsvki~nP~FegQTK~kL~n-~ev~~~v~~~v~---~~l~~~le~ 435 (709)
|+|--.|--|.|-.|+.+.+ ||+..-++..+. ..|+.||.+
T Consensus 611 VhvaST~VPfts~sKeaIA~vpEI~~EI~lAl~~~aR~Lk~yl~k 655 (795)
T PRK14868 611 VHVASTNVPFTSESKDAIANVPEIEDEIELAIREAARELKSYLNK 655 (795)
T ss_pred EEEeecCCCCCCcchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999975 666555554443 466666653
No 54
>KOG1979 consensus DNA mismatch repair protein - MLH1 family [Replication, recombination and repair]
Probab=57.96 E-value=13 Score=43.33 Aligned_cols=147 Identities=24% Similarity=0.397 Sum_probs=79.6
Q ss_pred hHHHHHHHHhhHHhhccCCCCeEEEEEecCCc--cccccCCCCCcc--ceEEEEeeeccCC---CCCCCC--CceeeccC
Q 005193 108 HHLVYEILDNAVDEAQAGYASNIEVALLADNS--IPIDLHPATNKS--ALETVLTVLHAGG---KFGGSS--SGYSVSGG 178 (709)
Q Consensus 108 ~hlv~EIldNavDe~~~g~~~~I~V~i~~Dgs--IPvd~h~~~g~~--~~E~v~t~LhaGg---kFd~~~--~~ykvsGG 178 (709)
...+.|.|.||+|-. ++.|.|.+-+.|- +-+.. ..+|+- =+. ++|+=++-+ ||.|-. +.| |
T Consensus 29 ~NAlKEliENSLDA~----ST~I~V~vk~GGLKLlQisD-nG~GI~reDl~-ilCeRftTSKL~kFEDL~~lsTy----G 98 (694)
T KOG1979|consen 29 VNALKELIENSLDAN----STSIDVLVKDGGLKLLQISD-NGSGIRREDLP-ILCERFTTSKLTKFEDLFSLSTY----G 98 (694)
T ss_pred HHHHHHHHhccccCC----CceEEEEEecCCeEEEEEec-CCCccchhhhH-HHHHHhhhhhcchhHHHHhhhhc----C
Confidence 567899999999943 5678888876554 33311 122221 011 233333334 455421 122 3
Q ss_pred cccccceeeeeec--ceeEEEEEe-CCE-EEEEEccCCCCCcceeeeccCCCCCCCCCeEEEEEcCcccc-ccc-----c
Q 005193 179 LHGVGLSVVNALS--ESLEVTVWR-DGM-EYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVF-TTA-----I 248 (709)
Q Consensus 179 lhGvGasvvNAlS--~~f~Vev~r-~Gk-~y~q~f~~G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF-~~~-----~ 248 (709)
.-|=-++- +| .+.+|++.+ +|+ -|+..|.+|.-..+.+ +..+++||+|+-. ..| ++. .
T Consensus 99 FRGEALAS---iShVA~VtV~TK~~~~~cayrasY~DGkm~~~pK------pcAgk~GT~I~ve---dLFYN~~~Rrkal 166 (694)
T KOG1979|consen 99 FRGEALAS---ISHVAHVTVTTKTAEGKCAYRASYRDGKMIATPK------PCAGKQGTIITVE---DLFYNMPTRRKAL 166 (694)
T ss_pred ccHHHHhh---hhheeEEEEEEeecCceeeeEEEeeccccccCCC------CccCCCceEEEeh---HhhccCHHHHHHh
Confidence 33432221 22 244555554 444 4999999998864432 2246799999853 223 110 0
Q ss_pred c---CCHHHHHHHHHHHhhcCCCcEEEEeec
Q 005193 249 Q---FDHNTIAGRIRELAFLNPKLTIALRKE 276 (709)
Q Consensus 249 ~---fd~~~l~~Rl~elA~LnpGL~I~l~de 276 (709)
. -++..|..-+-..|.-||++.+.+...
T Consensus 167 ~~~~EE~~ki~dlv~ryAIHn~~VsFs~rk~ 197 (694)
T KOG1979|consen 167 RNHAEEYRKIMDLVGRYAIHNPRVSFSLRKQ 197 (694)
T ss_pred cCcHHHHHHHHHHHHHHheeCCCcceEEeec
Confidence 1 113345555666777899999988764
No 55
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=57.77 E-value=2.5 Score=40.04 Aligned_cols=26 Identities=46% Similarity=0.671 Sum_probs=22.2
Q ss_pred cccceeEEEeecCCCCCchhhhhHHH
Q 005193 559 ALRYHKIIILTDADVDGAHIRTLLLT 584 (709)
Q Consensus 559 ~LRYgkIiImTDaDvDG~HI~~Lllt 584 (709)
.++|..|||+||.|.=|.-||--|.-
T Consensus 52 ~~~~k~VIILTD~D~~Ge~Irk~l~~ 77 (127)
T COG1658 52 AQKYKGVIILTDPDRKGERIRKKLKE 77 (127)
T ss_pred hhccCCEEEEeCCCcchHHHHHHHHH
Confidence 35788899999999999999987643
No 56
>PF10691 DUF2497: Protein of unknown function (DUF2497) ; InterPro: IPR019632 Members of this family belong to the Alphaproteobacteria. The function of the family is not known.
Probab=56.93 E-value=21 Score=30.65 Aligned_cols=33 Identities=15% Similarity=0.503 Sum_probs=26.9
Q ss_pred hhhhhhhhhHHHHHHHHHhhC-hHHHHHHHHHHH
Q 005193 416 EVRKVVDQSVQEYLTEYLELH-PDVLDSILSKSL 448 (709)
Q Consensus 416 ev~~~v~~~v~~~l~~~le~n-p~~~~~I~~k~~ 448 (709)
-+...|...+...|++||++| |..++.++++-+
T Consensus 34 TlE~lvremLRPmLkeWLD~nLP~lVErlVr~EI 67 (73)
T PF10691_consen 34 TLEDLVREMLRPMLKEWLDENLPGLVERLVREEI 67 (73)
T ss_pred cHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence 366778888899999999998 888888887544
No 57
>cd01027 TOPRIM_RNase_M5_like TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low G+C Gram-positive bacteria. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=56.81 E-value=1.3 Score=38.57 Aligned_cols=27 Identities=41% Similarity=0.655 Sum_probs=23.6
Q ss_pred ceeEEEeecCCCCCchhhhhHHHHHHH
Q 005193 562 YHKIIILTDADVDGAHIRTLLLTFFYR 588 (709)
Q Consensus 562 YgkIiImTDaDvDG~HI~~Llltff~~ 588 (709)
+..|||+||.|-=|..|+.-+...+-.
T Consensus 45 ~~~VIiltD~D~aG~~i~~~~~~~l~~ 71 (81)
T cd01027 45 YRGVIILTDPDRKGEKIRKKLSEYLSG 71 (81)
T ss_pred CCEEEEEECCCHHHHHHHHHHHHHhcc
Confidence 789999999999999999988776643
No 58
>COG3920 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=47.15 E-value=53 Score=33.96 Aligned_cols=100 Identities=24% Similarity=0.310 Sum_probs=60.3
Q ss_pred CCeeeccCCCCchhHHHHHHHHhhHHhhccC-CCCeEEEEEecCCccccccCCCCCccceEEEEeeeccCCCCCCCCCce
Q 005193 95 PAMYIGSTGPRGLHHLVYEILDNAVDEAQAG-YASNIEVALLADNSIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 173 (709)
Q Consensus 95 PgMYIGst~~~GL~hlv~EIldNavDe~~~g-~~~~I~V~i~~DgsIPvd~h~~~g~~~~E~v~t~LhaGgkFd~~~~~y 173 (709)
|..+++....-.|.=+|.|++.||+-.+.-+ ....|.|++..++.-. ..++++---|+-+..+
T Consensus 111 ~~~~l~~d~A~~Lgliv~EL~tNa~Khaf~~~~~G~I~I~~~~~~~~~------------~~~l~v~deg~G~~~~---- 174 (221)
T COG3920 111 PNVFLDPDTAVPLGLIVHELVTNALKHAFLSRPGGEIRITLSREGDGG------------RFLLTVWDEGGGPPVE---- 174 (221)
T ss_pred CceEECchhhHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEEEEcCCCC------------eEEEEEEECCCCCCCC----
Confidence 3455555555678889999999999987764 5667877776533200 1122222223333222
Q ss_pred eeccCcccccceeeeeec-ceeEEE--EE-eCCEEEEEEccC
Q 005193 174 SVSGGLHGVGLSVVNALS-ESLEVT--VW-RDGMEYHQKYSR 211 (709)
Q Consensus 174 kvsGGlhGvGasvvNAlS-~~f~Ve--v~-r~Gk~y~q~f~~ 211 (709)
... ...|+|..+|+.+- +.+.-. .+ .+|-.|.++|..
T Consensus 175 ~~~-~~~g~G~~Lv~~lv~~q~~g~~~~~~~~Gt~~~i~~~~ 215 (221)
T COG3920 175 APL-SRGGFGLQLVERLVPEQLGGELEDERPDGTEFRLRFPL 215 (221)
T ss_pred CCC-CCCCcHHHHHHHHHHHHcCCeEEEEcCCCEEEEEEEec
Confidence 011 46899999999998 444333 33 357888887753
No 59
>PF14501 HATPase_c_5: GHKL domain
Probab=44.46 E-value=34 Score=30.25 Aligned_cols=72 Identities=25% Similarity=0.350 Sum_probs=43.2
Q ss_pred chhHHHHHHHHhhHHhhccCC-CCeEEEEEecCC-c--cccccCCCCCccceEEEEeeeccCCCCCCCCCceeeccCccc
Q 005193 106 GLHHLVYEILDNAVDEAQAGY-ASNIEVALLADN-S--IPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHG 181 (709)
Q Consensus 106 GL~hlv~EIldNavDe~~~g~-~~~I~V~i~~Dg-s--IPvd~h~~~g~~~~E~v~t~LhaGgkFd~~~~~ykvsGGlhG 181 (709)
-|..|+--+||||++.+..-. ...|.|.+...+ . |-+. .+..+ +. .++. ..+..++-||
T Consensus 5 dl~~il~nlldNAiea~~~~~~~~~I~i~~~~~~~~~~i~i~-N~~~~----~~--------~~~~----~~~~~~~~~G 67 (100)
T PF14501_consen 5 DLCRILGNLLDNAIEACKKYEDKRFISISIREENGFLVIIIE-NSCEK----EI--------EKLE----SSSSKKKGHG 67 (100)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCcEEEEEEEecCCEEEEEEE-ECCCC----cc--------cccc----ccccCCCCCC
Confidence 367888899999998877644 667888887643 3 2222 11111 10 1111 1134567799
Q ss_pred ccceeeeeeccee
Q 005193 182 VGLSVVNALSESL 194 (709)
Q Consensus 182 vGasvvNAlS~~f 194 (709)
+|++-|..+-+..
T Consensus 68 ~GL~~v~~i~~~y 80 (100)
T PF14501_consen 68 IGLKNVKKILEKY 80 (100)
T ss_pred cCHHHHHHHHHHC
Confidence 9999887665544
No 60
>TIGR02938 nifL_nitrog nitrogen fixation negative regulator NifL. NifL is a modulator of the nitrogen fixation positive regulator protein NifA, and is therefore a negative regulator. It binds NifA. NifA and NifL are encoded by adjacent genes.
Probab=44.16 E-value=19 Score=39.94 Aligned_cols=20 Identities=25% Similarity=0.414 Sum_probs=16.0
Q ss_pred chhHHHHHHHHhhHHhhccC
Q 005193 106 GLHHLVYEILDNAVDEAQAG 125 (709)
Q Consensus 106 GL~hlv~EIldNavDe~~~g 125 (709)
-|..++.++|.||++....+
T Consensus 387 ~l~~vl~Nl~~NAik~~~~~ 406 (494)
T TIGR02938 387 QLRSLFKALVDNAIEAMNIK 406 (494)
T ss_pred HHHHHHHHHHHHHHHHhhcc
Confidence 37889999999999976544
No 61
>TIGR01386 cztS_silS_copS heavy metal sensor kinase. Members of this family contain a sensor histidine kinase domain (Pfam:PF00512) and a domain found in bacterial signal proteins (Pfam:PF00672). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc.
Probab=42.77 E-value=21 Score=39.62 Aligned_cols=32 Identities=16% Similarity=0.259 Sum_probs=19.2
Q ss_pred chhHHHHHHHHhhHHhhccCCCCeEEEEEecCCc
Q 005193 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLADNS 139 (709)
Q Consensus 106 GL~hlv~EIldNavDe~~~g~~~~I~V~i~~Dgs 139 (709)
-|..++.++|+||++...+ ...|.|.+..++.
T Consensus 353 ~l~~~~~nll~Nai~~~~~--~~~I~i~~~~~~~ 384 (457)
T TIGR01386 353 MFRRAISNLLSNALRHTPD--GGTITVRIERRSD 384 (457)
T ss_pred HHHHHHHHHHHHHHHcCCC--CceEEEEEEecCC
Confidence 3556666666666665433 3467777776554
No 62
>PRK10337 sensor protein QseC; Provisional
Probab=42.43 E-value=17 Score=40.66 Aligned_cols=15 Identities=33% Similarity=0.629 Sum_probs=12.9
Q ss_pred ccccceeeeeeccee
Q 005193 180 HGVGLSVVNALSESL 194 (709)
Q Consensus 180 hGvGasvvNAlS~~f 194 (709)
+|+|+++|..+.+.+
T Consensus 415 ~GlGL~iv~~i~~~~ 429 (449)
T PRK10337 415 SGLGLSIVRRIAKLH 429 (449)
T ss_pred cchHHHHHHHHHHHc
Confidence 899999998887765
No 63
>TIGR01924 rsbW_low_gc serine-protein kinase RsbW. This model describes the anti-sigma B factor also known as serine-protein kinase RsbW. Sigma B controls the general stress regulon in B subtilis and is activated by cell stresses such as stationary phase and heat shock. RsbW binds to sigma B and prevents formation of the transcription complex at the promoter. RsbV (anti-anti-sigma factor) binds to RsbW to inhibit association with sigma B, however RsbW can phosphorylate RsbV, causing disassociation of the RsbV/RsbW complex. Low ATP level or environmental stress causes the dephosphorylation of RsbV.
Probab=42.19 E-value=58 Score=31.68 Aligned_cols=93 Identities=22% Similarity=0.250 Sum_probs=48.6
Q ss_pred hhHHHHHHHHhhHHhhccCC-CCeEEEEEecCCc---cccccCCCCCccceEEEEeeeccCCCCCCCCCceeeccCcccc
Q 005193 107 LHHLVYEILDNAVDEAQAGY-ASNIEVALLADNS---IPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGV 182 (709)
Q Consensus 107 L~hlv~EIldNavDe~~~g~-~~~I~V~i~~Dgs---IPvd~h~~~g~~~~E~v~t~LhaGgkFd~~~~~ykvsGGlhGv 182 (709)
+.-.+.|++.||+..+..+. ...|.|++..++. |-|..+ ..|.. ++.+ .. .-+.++-..+.-.- .-+|.
T Consensus 43 l~lav~Ea~~Nai~ha~~~~~~~~I~I~~~~~~~~l~i~V~D~-G~gfd-~~~~-~~--~~~~~~~~~~~~~~--~~~G~ 115 (159)
T TIGR01924 43 LKIAVSEACTNAVKHAYKEGENGEIGISFHIYEDRLEIIVSDQ-GDSFD-MDTF-KQ--SLGPYDGSEPIDDL--REGGL 115 (159)
T ss_pred HHHHHHHHHHHHHHhccCCCCCCeEEEEEEEeCCEEEEEEEEc-ccccC-chhh-cc--ccCCCCCCCCcccC--CCCcc
Confidence 55689999999999987643 4567776654333 222211 11111 1100 00 00111110000001 12589
Q ss_pred cceeeeeecceeEEEEEeCCEEEEE
Q 005193 183 GLSVVNALSESLEVTVWRDGMEYHQ 207 (709)
Q Consensus 183 GasvvNAlS~~f~Vev~r~Gk~y~q 207 (709)
|+.++..|+..+.++- .+|...++
T Consensus 116 GL~Li~~L~D~v~~~~-~~G~~l~l 139 (159)
T TIGR01924 116 GLFLIETLMDEVEVYE-DSGVTVAM 139 (159)
T ss_pred CHHHHHHhccEEEEEe-CCCEEEEE
Confidence 9999999999888874 45554443
No 64
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=39.10 E-value=16 Score=41.67 Aligned_cols=33 Identities=21% Similarity=0.317 Sum_probs=23.3
Q ss_pred chhHHHHHHHHhhHHhhccCCCCeEEEEEecCC
Q 005193 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLADN 138 (709)
Q Consensus 106 GL~hlv~EIldNavDe~~~g~~~~I~V~i~~Dg 138 (709)
-|..++.++++||++.........|.|++..++
T Consensus 433 ~l~~vl~nLl~NAi~~~~~~~~~~I~i~~~~~~ 465 (542)
T PRK11086 433 ELITILGNLIENALEAVGGEEGGEISVSLHYRN 465 (542)
T ss_pred HHHHHHHHHHHHHHHHhhcCCCcEEEEEEEEcC
Confidence 477889999999998654444456777766543
No 65
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=38.90 E-value=19 Score=41.87 Aligned_cols=81 Identities=27% Similarity=0.353 Sum_probs=51.7
Q ss_pred hhHHHHHHHHhhHHhhccCC-CCeEEEEEecCCc-cccccCCCCCccceEEEEeeeccCCCCCCCCCceeecc-Cccccc
Q 005193 107 LHHLVYEILDNAVDEAQAGY-ASNIEVALLADNS-IPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSG-GLHGVG 183 (709)
Q Consensus 107 L~hlv~EIldNavDe~~~g~-~~~I~V~i~~Dgs-IPvd~h~~~g~~~~E~v~t~LhaGgkFd~~~~~ykvsG-GlhGvG 183 (709)
+-.|+--+||||.|-..++. ..+|.+.|+.+|. +-+.. ..+|.-++|-+.-. =|+. .|.+-+ +-||+|
T Consensus 428 litIlGNLidNA~eA~~~~~~~k~I~l~i~~~~~~lvieV-~D~G~GI~~~~~~~-----iFe~---G~Stk~~~~rGiG 498 (537)
T COG3290 428 LVTILGNLIDNALEALLAPEENKEIELSLSDRGDELVIEV-ADTGPGIPPEVRDK-----IFEK---GVSTKNTGGRGIG 498 (537)
T ss_pred HHHHHHHHHHHHHHHhhccCCCcEEEEEEEecCCEEEEEE-eCCCCCCChHHHHH-----HHhc---CccccCCCCCchh
Confidence 45567788899999877554 4789999998877 22221 23444444433222 2433 455555 779999
Q ss_pred ceeeeeecceeEE
Q 005193 184 LSVVNALSESLEV 196 (709)
Q Consensus 184 asvvNAlS~~f~V 196 (709)
+.+|-.+-+++.-
T Consensus 499 L~Lvkq~V~~~~G 511 (537)
T COG3290 499 LYLVKQLVERLGG 511 (537)
T ss_pred HHHHHHHHHHcCc
Confidence 9999887766543
No 66
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional
Probab=38.30 E-value=22 Score=39.80 Aligned_cols=79 Identities=19% Similarity=0.304 Sum_probs=37.1
Q ss_pred hhHHHHHHHHhhHHhhccCCCCeEEEEEecCCc---cccccCCCCCccc--eEEEEeeeccCCCCCCCCCceeeccCccc
Q 005193 107 LHHLVYEILDNAVDEAQAGYASNIEVALLADNS---IPIDLHPATNKSA--LETVLTVLHAGGKFGGSSSGYSVSGGLHG 181 (709)
Q Consensus 107 L~hlv~EIldNavDe~~~g~~~~I~V~i~~Dgs---IPvd~h~~~g~~~--~E~v~t~LhaGgkFd~~~~~ykvsGGlhG 181 (709)
+..++.++|+||+.....+ ..|.|.+..++. |-|.. ...|++. .+-+|...+.+.+ +..+.+ |-+|
T Consensus 353 l~qvl~nll~NAi~~~~~~--~~I~i~~~~~~~~~~i~V~D-~G~Gi~~e~~~~lf~~~~~~~~-----~~~~~~-~g~G 423 (466)
T PRK10549 353 LMQLFNNLLENSLRYTDSG--GSLHISAEQRDKTLRLTFAD-SAPGVSDEQLQKLFERFYRTEG-----SRNRAS-GGSG 423 (466)
T ss_pred HHHHHHHHHHHHHHhCCCC--CEEEEEEEEcCCEEEEEEEe-cCCCcCHHHHHHhccCcccCCC-----CcCCCC-CCCc
Confidence 5566777777777654332 356665554332 22211 1122221 1123333322211 111223 3479
Q ss_pred ccceeeeeeccee
Q 005193 182 VGLSVVNALSESL 194 (709)
Q Consensus 182 vGasvvNAlS~~f 194 (709)
+|+++|.-+-+.+
T Consensus 424 lGL~iv~~i~~~~ 436 (466)
T PRK10549 424 LGLAICLNIVEAH 436 (466)
T ss_pred HHHHHHHHHHHHc
Confidence 9999887666654
No 67
>PRK10364 sensor protein ZraS; Provisional
Probab=38.08 E-value=20 Score=40.45 Aligned_cols=74 Identities=20% Similarity=0.342 Sum_probs=37.2
Q ss_pred chhHHHHHHHHhhHHhhccCCCCeEEEEEecCCc---cccccCCCCCcc--ceEEEEeeeccCCCCCCCCCceeeccCcc
Q 005193 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLADNS---IPIDLHPATNKS--ALETVLTVLHAGGKFGGSSSGYSVSGGLH 180 (709)
Q Consensus 106 GL~hlv~EIldNavDe~~~g~~~~I~V~i~~Dgs---IPvd~h~~~g~~--~~E~v~t~LhaGgkFd~~~~~ykvsGGlh 180 (709)
-|..++..+|+||++..-. ...|.|.+..++. |-|.. ...|++ ..+-+|.. | |...++-+
T Consensus 348 ~l~~il~NLl~NA~k~~~~--~~~I~i~~~~~~~~~~i~V~D-~G~Gi~~~~~~~if~~------~------~~~k~~g~ 412 (457)
T PRK10364 348 RLTQVLLNLYLNAIQAIGQ--HGVISVTASESGAGVKISVTD-SGKGIAADQLEAIFTP------Y------FTTKAEGT 412 (457)
T ss_pred HHHHHHHHHHHHHHHhcCC--CCeEEEEEEEeCCeEEEEEEE-CCCCCCHHHHHHHhCc------c------ccCCCCCC
Confidence 4667777788888875432 3456666554332 22221 111221 11122221 1 11222338
Q ss_pred cccceeeeeeccee
Q 005193 181 GVGLSVVNALSESL 194 (709)
Q Consensus 181 GvGasvvNAlS~~f 194 (709)
|+|+++|.-+-+.+
T Consensus 413 GlGL~iv~~~v~~~ 426 (457)
T PRK10364 413 GLGLAVVHNIVEQH 426 (457)
T ss_pred cccHHHHHHHHHHC
Confidence 99999988777663
No 68
>PRK09303 adaptive-response sensory kinase; Validated
Probab=37.91 E-value=24 Score=39.08 Aligned_cols=20 Identities=20% Similarity=0.459 Sum_probs=13.9
Q ss_pred CchhHHHHHHHHhhHHhhcc
Q 005193 105 RGLHHLVYEILDNAVDEAQA 124 (709)
Q Consensus 105 ~GL~hlv~EIldNavDe~~~ 124 (709)
.-|.+++..+|+||+.....
T Consensus 271 ~~l~qvl~NLl~NAik~~~~ 290 (380)
T PRK09303 271 ERIRQVLLNLLDNAIKYTPE 290 (380)
T ss_pred HHHHHHHHHHHHHHHhcCCC
Confidence 34677888888888875443
No 69
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=37.33 E-value=34 Score=38.23 Aligned_cols=30 Identities=23% Similarity=0.352 Sum_probs=19.4
Q ss_pred CCchhHHHHHHHHhhHHhhccCCCCeEEEEEe
Q 005193 104 PRGLHHLVYEILDNAVDEAQAGYASNIEVALL 135 (709)
Q Consensus 104 ~~GL~hlv~EIldNavDe~~~g~~~~I~V~i~ 135 (709)
+.-|.+++..+|+||++....| ..|.|.+.
T Consensus 315 ~~~l~~vl~NLl~NAik~~~~~--~~I~i~~~ 344 (430)
T PRK11006 315 EDQLRSAISNLVYNAVNHTPEG--THITVRWQ 344 (430)
T ss_pred HHHHHHHHHHHHHHHHhcCCCC--CeEEEEEE
Confidence 3457788888999988865433 34555443
No 70
>COG2172 RsbW Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]
Probab=37.28 E-value=62 Score=31.32 Aligned_cols=91 Identities=27% Similarity=0.239 Sum_probs=54.7
Q ss_pred chhHHHHHHHHhhHHhhccCCC--CeEE--EEEecCCc-cccccCCCCCccceEEEEeeeccCCCCCCCCCceeeccCc-
Q 005193 106 GLHHLVYEILDNAVDEAQAGYA--SNIE--VALLADNS-IPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGL- 179 (709)
Q Consensus 106 GL~hlv~EIldNavDe~~~g~~--~~I~--V~i~~Dgs-IPvd~h~~~g~~~~E~v~t~LhaGgkFd~~~~~ykvsGGl- 179 (709)
=+...+.|.+.|+|..+.++-. ..|. +++++|.. |-|-.+ ..+...++..+.. .|...+++
T Consensus 40 ~l~~av~E~~~N~v~Ha~~~~~~~g~I~i~~~~~~~~~~i~i~D~-G~~~~~~~~~~~~------------~~~~~~~~~ 106 (146)
T COG2172 40 DLAIAVSEALTNAVKHAYKLDPSEGEIRIEVSLDDGKLEIRIWDQ-GPGIEDLEESLGP------------GDTTAEGLQ 106 (146)
T ss_pred HHHHHHHHHHHHHHHHHhhcCCCCceEEEEEEEcCCeEEEEEEeC-CCCCCCHHHhcCC------------CCCCCcccc
Confidence 3567789999999999998543 3444 44444443 222211 1222223322221 13444554
Q ss_pred -ccccceeeeeecceeEEEEEeCC--EEEEEEc
Q 005193 180 -HGVGLSVVNALSESLEVTVWRDG--MEYHQKY 209 (709)
Q Consensus 180 -hGvGasvvNAlS~~f~Vev~r~G--k~y~q~f 209 (709)
.|+|+-+++-+...|.++-..+| ....+.+
T Consensus 107 ~~G~Gl~l~~~~~D~~~~~~~~~~~~~~~~~~~ 139 (146)
T COG2172 107 EGGLGLFLAKRLMDEFSYERSEDGRNRLTKITL 139 (146)
T ss_pred cccccHHHHhhhheeEEEEeccCCceEEEEEEe
Confidence 68999999999999999977776 3444444
No 71
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=37.00 E-value=33 Score=39.51 Aligned_cols=34 Identities=21% Similarity=0.259 Sum_probs=23.7
Q ss_pred CchhHHHHHHHHhhHHhhccC--CCCeEEEEEecCC
Q 005193 105 RGLHHLVYEILDNAVDEAQAG--YASNIEVALLADN 138 (709)
Q Consensus 105 ~GL~hlv~EIldNavDe~~~g--~~~~I~V~i~~Dg 138 (709)
.-|..++.++|+||++..... ....|.|.+..++
T Consensus 431 ~~l~~vl~nLl~NAi~~~~~~~~~~~~i~i~~~~~~ 466 (545)
T PRK15053 431 TEFAAIVGNLLDNAFEASLRSDEGNKIVELFLSDEG 466 (545)
T ss_pred HHHHHHHHHHHHHHHHHHhhCCCCCceEEEEEEECC
Confidence 457889999999999986532 2356766665443
No 72
>cd01028 TOPRIM_TopoIA TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli topisomerases I and III, eukaryotic topoisomerase III and, ATP-dependent reverse gyrase found in archaea and thermophilic bacteria. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA. These enzymes cleave one strand of the DNA duplex, covalently link to the 5' phosphoryl end of the DNA break and allow the other strand of the duplex to pass through the gap. Reverse gyrase is also able to insert positive supercoils in the presence of ATP and negative supercoils in the presence of AMPPNP. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general b
Probab=36.77 E-value=24 Score=33.64 Aligned_cols=25 Identities=28% Similarity=0.423 Sum_probs=21.8
Q ss_pred ceeEEEeecCCCCCchhhhhHHHHH
Q 005193 562 YHKIIILTDADVDGAHIRTLLLTFF 586 (709)
Q Consensus 562 YgkIiImTDaDvDG~HI~~Llltff 586 (709)
...|||.||+|--|-+|.-.++.++
T Consensus 91 ~d~iiiAtD~DrEGE~I~~~i~~~~ 115 (142)
T cd01028 91 ADEIVLATDPDREGELIAWEILEVL 115 (142)
T ss_pred CCEEEEcCCCCcchHHHHHHHHHHh
Confidence 3689999999999999988877666
No 73
>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS. This protein, TorS, is part of a regulatory system for the torCAD operon that encodes the pterin molybdenum cofactor-containing enzyme trimethylamine-N-oxide (TMAO) reductase (TorA), a cognate chaperone (TorD), and a penta-haem cytochrome (TorC). TorS works together with the inducer-binding protein TorT and the response regulator TorR. TorS contains histidine kinase ATPase (pfam02518), HAMP (pfam00672), phosphoacceptor (pfam00512), and phosphotransfer (pfam01627) domains and a response regulator receiver domain (pfam00072).
Probab=36.30 E-value=16 Score=45.27 Aligned_cols=22 Identities=14% Similarity=0.350 Sum_probs=16.6
Q ss_pred CCchhHHHHHHHHhhHHhhccC
Q 005193 104 PRGLHHLVYEILDNAVDEAQAG 125 (709)
Q Consensus 104 ~~GL~hlv~EIldNavDe~~~g 125 (709)
+.-|..++..+|.||+.....|
T Consensus 577 ~~~l~~il~nLi~NAik~~~~g 598 (968)
T TIGR02956 577 GPRIRQVLINLVGNAIKFTDRG 598 (968)
T ss_pred HHHHHHHHHHHHHHHHhhCCCC
Confidence 4567889999999999865443
No 74
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=29.77 E-value=34 Score=42.10 Aligned_cols=16 Identities=25% Similarity=0.598 Sum_probs=12.9
Q ss_pred cccccceeeeeeccee
Q 005193 179 LHGVGLSVVNALSESL 194 (709)
Q Consensus 179 lhGvGasvvNAlS~~f 194 (709)
-.|+|+++|+-+.+.+
T Consensus 577 g~GLGL~i~~~~~~~~ 592 (921)
T PRK15347 577 GTGLGLTIASSLAKMM 592 (921)
T ss_pred CCchHHHHHHHHHHHc
Confidence 3799999998777765
No 75
>PRK09470 cpxA two-component sensor protein; Provisional
Probab=26.56 E-value=32 Score=38.24 Aligned_cols=26 Identities=31% Similarity=0.369 Sum_probs=16.6
Q ss_pred chhHHHHHHHHhhHHhhccCCCCeEEEEEe
Q 005193 106 GLHHLVYEILDNAVDEAQAGYASNIEVALL 135 (709)
Q Consensus 106 GL~hlv~EIldNavDe~~~g~~~~I~V~i~ 135 (709)
-|.+++.++|+||+... .+.|.|.+.
T Consensus 353 ~l~~~l~nli~NA~~~~----~~~i~i~~~ 378 (461)
T PRK09470 353 ALASALENIVRNALRYS----HTKIEVAFS 378 (461)
T ss_pred HHHHHHHHHHHHHHHhC----CCcEEEEEE
Confidence 36777888888888653 234555544
No 76
>PF14484 FISNA: Fish-specific NACHT associated domain
Probab=26.55 E-value=37 Score=29.14 Aligned_cols=14 Identities=36% Similarity=0.553 Sum_probs=11.9
Q ss_pred CceEEEeecCCCCc
Q 005193 489 ESEIFIVEGDSAGG 502 (709)
Q Consensus 489 ~~eL~lvEGDSA~G 502 (709)
=++||||||+|.+-
T Consensus 30 YTeLyIteg~~~~v 43 (73)
T PF14484_consen 30 YTELYITEGGSGEV 43 (73)
T ss_pred ceeeeEeccCCCcc
Confidence 48899999999863
No 77
>cd03363 TOPRIM_TopoIA_TopoI TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA duplex, covalently linking to the 5' phosphoryl end of the DNA break and, allowing the other strand of the duplex to pass through the gap. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general base in strand joining and, as a general acid in strand cleavage. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=25.01 E-value=46 Score=31.19 Aligned_cols=24 Identities=29% Similarity=0.390 Sum_probs=19.8
Q ss_pred eeEEEeecCCCCCchhhhhHHHHH
Q 005193 563 HKIIILTDADVDGAHIRTLLLTFF 586 (709)
Q Consensus 563 gkIiImTDaDvDG~HI~~Llltff 586 (709)
..|||.||+|..|.+|.-.++..+
T Consensus 74 ~eiiiAtD~drEGe~i~~~i~~~~ 97 (123)
T cd03363 74 DEIYLATDPDREGEAIAWHLAEVL 97 (123)
T ss_pred CEEEEcCCCCcchHHHHHHHHHHc
Confidence 369999999999999987665554
No 78
>PRK10604 sensor protein RstB; Provisional
Probab=24.12 E-value=91 Score=35.03 Aligned_cols=17 Identities=29% Similarity=0.683 Sum_probs=12.8
Q ss_pred Ccccccceeeeeeccee
Q 005193 178 GLHGVGLSVVNALSESL 194 (709)
Q Consensus 178 GlhGvGasvvNAlS~~f 194 (709)
|-+|+|+++|.-+.+++
T Consensus 385 ~g~GLGL~ivk~i~~~~ 401 (433)
T PRK10604 385 GGCGLGLAIVHSIALAM 401 (433)
T ss_pred CCccchHHHHHHHHHHC
Confidence 34799999888776655
No 79
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=23.99 E-value=1.2e+02 Score=32.45 Aligned_cols=29 Identities=14% Similarity=0.240 Sum_probs=18.3
Q ss_pred CchhHHHHHHHHhhHHhhccCCCCeEEEEE
Q 005193 105 RGLHHLVYEILDNAVDEAQAGYASNIEVAL 134 (709)
Q Consensus 105 ~GL~hlv~EIldNavDe~~~g~~~~I~V~i 134 (709)
.-|..++..+|+||++... .....|.|.+
T Consensus 236 ~~l~~vl~nLl~NA~~~~~-~~~~~i~i~~ 264 (348)
T PRK11073 236 DQIEQVLLNIVRNALQALG-PEGGTITLRT 264 (348)
T ss_pred HHHHHHHHHHHHHHHHHhc-cCCCeEEEEE
Confidence 4577888888888887642 2234455443
No 80
>KOG4518 consensus Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]
Probab=22.97 E-value=89 Score=32.09 Aligned_cols=38 Identities=21% Similarity=0.197 Sum_probs=34.4
Q ss_pred CeeeccCCCCchhHHHHHHHHhhHHhhccCCCCeEEEE
Q 005193 96 AMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVA 133 (709)
Q Consensus 96 gMYIGst~~~GL~hlv~EIldNavDe~~~g~~~~I~V~ 133 (709)
+|..|++..+|-.+.|.+-||-|||-+.+=-|.+|.+.
T Consensus 69 ~~~~G~~svpg~~k~FR~~Ld~ai~yAkalgC~rIHlm 106 (264)
T KOG4518|consen 69 DGFRGLASVPGAKKEFRKSLDTAIEYAKALGCCRIHLM 106 (264)
T ss_pred hhccCcccCCchHHHHHHHHHHHHHHHHHhCCceEEEe
Confidence 58999999999999999999999999988778887766
No 81
>TIGR00334 5S_RNA_mat_M5 ribonuclease M5. This family of orthologous proteins shows a weak but significant similarity to the central region of the DnaG-type DNA primase. The region of similarity is termed the Toprim (topoisomerase-primase) domain and is also shared by RecR, OLD family nucleases, and type IA and II topoisomerases.
Probab=22.86 E-value=56 Score=32.74 Aligned_cols=24 Identities=38% Similarity=0.574 Sum_probs=20.3
Q ss_pred cceeEEEeecCCCCCchhhhhHHH
Q 005193 561 RYHKIIILTDADVDGAHIRTLLLT 584 (709)
Q Consensus 561 RYgkIiImTDaDvDG~HI~~Lllt 584 (709)
...-|||+||+|-=|-.||..|.-
T Consensus 46 ~~rgVIIfTDpD~~GekIRk~i~~ 69 (174)
T TIGR00334 46 KKQGVIILTDPDFPGEKIRKKIEQ 69 (174)
T ss_pred hcCCEEEEeCCCCchHHHHHHHHH
Confidence 456799999999999999987643
No 82
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=22.08 E-value=3 Score=35.81 Aligned_cols=19 Identities=26% Similarity=0.375 Sum_probs=14.8
Q ss_pred ceeEEEeecCCCCCchhhh
Q 005193 562 YHKIIILTDADVDGAHIRT 580 (709)
Q Consensus 562 YgkIiImTDaDvDG~HI~~ 580 (709)
+.+|||++|.|..|--...
T Consensus 46 ~~~Vii~~D~D~~G~~~a~ 64 (81)
T PF13662_consen 46 VKEVIIAFDNDKAGEKAAQ 64 (81)
T ss_dssp -SEEEEEEESSHHHHHHHH
T ss_pred CceEEEEeCcCHHHHHHHH
Confidence 4899999999999964433
No 83
>PRK09835 sensor kinase CusS; Provisional
Probab=21.74 E-value=65 Score=36.12 Aligned_cols=30 Identities=27% Similarity=0.286 Sum_probs=18.8
Q ss_pred CchhHHHHHHHHhhHHhhccCCCCeEEEEEec
Q 005193 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLA 136 (709)
Q Consensus 105 ~GL~hlv~EIldNavDe~~~g~~~~I~V~i~~ 136 (709)
.-|.+++.++|+||+.....+ ..|.|.+..
T Consensus 374 ~~l~~vl~nll~Na~~~~~~~--~~I~i~~~~ 403 (482)
T PRK09835 374 LMLRRAISNLLSNALRYTPAG--EAITVRCQE 403 (482)
T ss_pred HHHHHHHHHHHHHHHhcCCCC--CeEEEEEEE
Confidence 346777788888877754433 356665543
No 84
>cd00818 IleRS_core catalytic core domain of isoleucyl-tRNA synthetases. Isoleucine amino-acyl tRNA synthetases (IleRS) catalytic core domain . This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. IleRS has an insertion in the core domain, which is subject to both deletions and rearrangements. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids.
Probab=21.13 E-value=2.8e+02 Score=30.47 Aligned_cols=97 Identities=21% Similarity=0.272 Sum_probs=59.6
Q ss_pred cHhHHHHHHHhcCCccCCcCccccccceeEEEeecCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecCCe-EEEEeCCe
Q 005193 536 NEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPL-YKVERGKQ 614 (709)
Q Consensus 536 N~Ei~~li~alG~g~~~~~~~~~~LRYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~~G~i~~~~tPL-~kv~~gk~ 614 (709)
.+++.+.+..||+...-..+ +-| .|-.|+. ....++..|+++|+||....|. |.+..-..
T Consensus 90 ~~~~~~~~~~lgi~~~~~~~-----------~~T---~~~~~~~-----~v~~~f~~L~~~G~iY~~~~~v~~~v~~~~~ 150 (338)
T cd00818 90 VDEQEEQFQRLGVWVDWENP-----------YKT---MDPEYME-----SVWWVFKQLHEKGLLYRGYKVVPWPLIYRAT 150 (338)
T ss_pred HHHHHHHHHHhCceecCCCC-----------eEC---CCHHHHH-----HHHHHHHHHHHCCCEeccCCeeeeEEEEEec
Confidence 46778888999985421111 122 1223544 4456677899999999988876 34444445
Q ss_pred EEEeeCHHHHHHHHHh----C---C------------CCCcccceEeeccccCChh
Q 005193 615 VQYCYDDAELKKVKSS----F---P------------SNALYSIQRFKGLGEMMPV 651 (709)
Q Consensus 615 ~~y~ys~~e~~~~~~~----~---~------------~~~~~~iqryKGLGem~~~ 651 (709)
..||++..++.+.+.+ . | +...|.|.|=-++|.--|-
T Consensus 151 ~qwf~~l~~~~~~l~~~~~~~~~~P~~~~~~~~~~l~~l~dw~iSR~~~WGip~P~ 206 (338)
T cd00818 151 PQWFIRVTKIKDRLLEANDKVNWIPEWVKNRFGNWLENRRDWCISRQRYWGTPIPV 206 (338)
T ss_pred CeEEEEcHHHHHHHHHHHhcCcEECHHHHHHHHHHHhcchhcceeeecccCceeeE
Confidence 6788877766654433 1 1 2335778887788876663
No 85
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=20.97 E-value=59 Score=39.86 Aligned_cols=120 Identities=18% Similarity=0.254 Sum_probs=68.3
Q ss_pred cccccCCCCCCCCcccceecc--ChhhHhhCCCeeeccCC-CCch------hHHHHHHHHhhHHhhcc--CCCCeEEEEE
Q 005193 66 EAFKENPVSKTYGSEQIQVLE--GLEAVRKRPAMYIGSTG-PRGL------HHLVYEILDNAVDEAQA--GYASNIEVAL 134 (709)
Q Consensus 66 ~~~~~~~~~~~Y~~~~Iq~L~--glE~VrkRPgMYIGst~-~~GL------~hlv~EIldNavDe~~~--g~~~~I~V~i 134 (709)
+-.+++..+-.++-..+.-+= -+++++||..-|-=.++ +..| -.|+-.+|-|-+||+.+ +.+++|.|..
T Consensus 722 TRi~sG~~~l~~~~~~veEvVg~Al~r~~k~~~~~~i~v~~~~dl~li~~D~~LieQVLiNLleNA~Kyap~~s~I~I~~ 801 (890)
T COG2205 722 TRLQSGGVNLKLDWVLVEEVVGEALQRLRKRFTGHKIVVSVPVDLPLIHVDSPLIEQVLINLLENALKYAPPGSEIRINA 801 (890)
T ss_pred HHHhcCCcccccchhhHHHHHHHHHHHhhhhcCCceEEEecCCCCceEecCHHHHHHHHHHHHHHHHhhCCCCCeEEEEE
Confidence 334455555555554443332 26667776554432222 2221 25678888888888875 6777777766
Q ss_pred ecCCc-ccccc-CCCCCcc--ceEEEEeeeccCCCCCCCCCceeeccCcccccceeeeeecce
Q 005193 135 LADNS-IPIDL-HPATNKS--ALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSES 193 (709)
Q Consensus 135 ~~Dgs-IPvd~-h~~~g~~--~~E~v~t~LhaGgkFd~~~~~ykvsGGlhGvGasvvNAlS~~ 193 (709)
..++- |-++. ....|++ -.|.||.....|+|+++. .| -|+|+++|-.+=+.
T Consensus 802 ~~~~~~v~~~V~DeGpGIP~~~~~~IFD~F~r~~~~~~~-------~G-~GLGLsIc~~iv~a 856 (890)
T COG2205 802 GVERENVVFSVIDEGPGIPEGELERIFDKFYRGNKESAT-------RG-VGLGLAICRGIVEA 856 (890)
T ss_pred EEecceEEEEEEeCCCCCChhHHHHhhhhhhcCCCCCCC-------CC-ccccHHHHHHHHHH
Confidence 54433 22221 1122332 245799999999998652 23 48899988766443
No 86
>KOG1413 consensus N-acetylglucosaminyltransferase I [Carbohydrate transport and metabolism]
Probab=20.66 E-value=36 Score=37.71 Aligned_cols=79 Identities=28% Similarity=0.526 Sum_probs=43.5
Q ss_pred cccceeEEEeecCCCCCchhhhhHHHHHHHHHHHhhh--cCcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHHhCCCCCc
Q 005193 559 ALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFD--EGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNAL 636 (709)
Q Consensus 559 ~LRYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~--~G~i~~~~tPL~kv~~gk~~~y~ys~~e~~~~~~~~~~~~~ 636 (709)
.-||+.+||..|- .| +..-||.|+..-+. +|. |-|..|+ +|++.-....+....+.-.
T Consensus 165 ~~~~s~vii~eDD-l~-------iapDFF~YF~~t~~llk~D-----~siwcvs-------aWNDNGk~~~Id~~~~~~l 224 (411)
T KOG1413|consen 165 VFRESRVIITEDD-LN-------IAPDFFSYFRNTIILLKGD-----PSIWCVS-------AWNDNGKKQTIDSTRPSLL 224 (411)
T ss_pred hcCCceeEEecch-hh-------hhhHHHHHHHHHHHHHhcC-----CceEEee-------eeccCCCcccccccccchh
Confidence 3469999999873 22 34456666554331 222 2233332 2333322222222111223
Q ss_pred ccceEeeccccCChhhhHhhh
Q 005193 637 YSIQRFKGLGEMMPVQLWETT 657 (709)
Q Consensus 637 ~~iqryKGLGem~~~q~~ett 657 (709)
|.-.-|+|||=|...++|+--
T Consensus 225 YRtDFFpGLGWml~~~~W~EL 245 (411)
T KOG1413|consen 225 YRTDFFPGLGWMLTKKLWEEL 245 (411)
T ss_pred hhccccccchHHHHHHHHHhh
Confidence 666789999999999999843
No 87
>PRK04031 DNA primase; Provisional
Probab=20.24 E-value=70 Score=36.16 Aligned_cols=52 Identities=27% Similarity=0.329 Sum_probs=32.4
Q ss_pred cceeEEEeecCCCCCchhhhhHHHHHHHHHHHhhhcC-cEEEecCCeEEEEeCCeEEEeeCHHHHHHHHH
Q 005193 561 RYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEG-CIYVGVPPLYKVERGKQVQYCYDDAELKKVKS 629 (709)
Q Consensus 561 RYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~~G-~i~~~~tPL~kv~~gk~~~y~ys~~e~~~~~~ 629 (709)
+-.+|++++|-|.-|--|+--|+ +-+ +.|++.-| .|+.+ --++-++..+.+.
T Consensus 209 k~~~Vil~~DgD~aGe~I~k~l~-----------~v~~~d~VaraP-----~G~dV-E~ls~eeI~kAL~ 261 (408)
T PRK04031 209 KKKTVTAFLDGDRGGELILKELL-----------QVADIDYVARAP-----PGKEV-EELTKKEIAKALR 261 (408)
T ss_pred cCCCEEEEECCCHHHHHHHHHHH-----------hhcceeEEecCC-----CCCCh-hhCCHHHHHHHHH
Confidence 35689999999999976644332 223 66888888 56443 2234555554443
No 88
>cd03362 TOPRIM_TopoIA_TopoIII TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA duplex, covalently linking to the 5' phosphoryl end of the DNA break and, allowing the other strand of the duplex to pass through the gap. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general base in strand joining and, as a general acid in strand cleavage. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=20.14 E-value=85 Score=30.28 Aligned_cols=26 Identities=35% Similarity=0.468 Sum_probs=21.4
Q ss_pred ceeEEEeecCCCCCchhhhhHHHHHH
Q 005193 562 YHKIIILTDADVDGAHIRTLLLTFFY 587 (709)
Q Consensus 562 YgkIiImTDaDvDG~HI~~Llltff~ 587 (709)
...|||.||+|--|.+|--.++..+-
T Consensus 99 ad~ii~atD~DrEGE~I~~~i~~~~~ 124 (151)
T cd03362 99 ADEIVIATDADREGELIGREILEYAK 124 (151)
T ss_pred CCeEEEccCCCccccHHHHHHHHHhC
Confidence 35799999999999999887766553
Done!