Query 008738
Match_columns 555
No_of_seqs 195 out of 1450
Neff 6.9
Searched_HMMs 46136
Date Thu Mar 28 15:57:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008738.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008738hhsearch_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 4E-188 9E-193 1494.2 55.3 541 1-555 94-635 (635)
2 PTZ00109 DNA gyrase subunit b; 100.0 1E-172 3E-177 1430.6 56.5 542 1-547 187-901 (903)
3 TIGR01058 parE_Gpos DNA topois 100.0 4E-172 9E-177 1422.3 56.0 532 1-548 92-630 (637)
4 PRK05644 gyrB DNA gyrase subun 100.0 8E-164 2E-168 1361.1 56.8 541 1-555 95-638 (638)
5 PRK05559 DNA topoisomerase IV 100.0 4E-163 9E-168 1355.2 56.2 531 1-548 95-628 (631)
6 PRK14939 gyrB DNA gyrase subun 100.0 3E-162 6E-167 1353.2 53.7 541 1-555 95-756 (756)
7 smart00433 TOP2c Topoisomerase 100.0 1E-160 2E-165 1330.6 54.1 531 1-546 59-594 (594)
8 TIGR01055 parE_Gneg DNA topois 100.0 1E-160 3E-165 1331.0 54.5 529 1-546 88-623 (625)
9 TIGR01059 gyrB DNA gyrase, B s 100.0 3E-158 6E-163 1325.4 57.1 542 1-555 88-654 (654)
10 PHA02569 39 DNA topoisomerase 100.0 4E-154 9E-159 1271.3 49.5 484 1-543 108-602 (602)
11 PTZ00108 DNA topoisomerase 2-l 100.0 2E-151 4E-156 1315.3 52.0 515 1-551 120-654 (1388)
12 PLN03128 DNA topoisomerase 2; 100.0 2E-148 5E-153 1282.0 51.5 517 1-551 112-647 (1135)
13 PLN03237 DNA topoisomerase 2; 100.0 6E-145 1E-149 1254.5 51.8 509 1-551 137-672 (1465)
14 KOG0355 DNA topoisomerase type 100.0 3E-105 6E-110 870.4 25.4 514 1-547 112-638 (842)
15 cd03366 TOPRIM_TopoIIA_GyrB TO 100.0 1.3E-59 2.9E-64 407.0 11.2 114 336-450 1-114 (114)
16 cd01030 TOPRIM_TopoIIA_like TO 100.0 2.4E-58 5.3E-63 401.4 10.6 115 336-450 1-115 (115)
17 cd03365 TOPRIM_TopoIIA TOPRIM_ 100.0 4.2E-55 9.2E-60 383.3 8.6 115 336-450 1-120 (120)
18 cd00822 TopoII_Trans_DNA_gyras 100.0 1.1E-42 2.4E-47 330.1 20.6 170 138-308 1-171 (172)
19 PF00204 DNA_gyraseB: DNA gyra 100.0 1.3E-41 2.8E-46 323.8 20.0 168 139-308 1-172 (173)
20 cd03481 TopoIIA_Trans_ScTopoII 100.0 8.3E-32 1.8E-36 249.9 15.2 144 139-290 2-148 (153)
21 PF00986 DNA_gyraseB_C: DNA gy 99.9 3.5E-27 7.6E-32 184.9 6.1 63 480-542 3-65 (65)
22 PRK00095 mutL DNA mismatch rep 99.4 2.3E-11 5.1E-16 137.2 19.2 209 5-251 73-295 (617)
23 PF01751 Toprim: Toprim domain 99.2 1.4E-11 3E-16 106.8 3.7 97 337-448 1-98 (100)
24 cd00329 TopoII_MutL_Trans MutL 98.8 2.1E-08 4.5E-13 86.8 7.7 100 141-258 2-106 (107)
25 TIGR01052 top6b DNA topoisomer 98.6 1.6E-07 3.4E-12 102.4 9.7 109 2-123 84-205 (488)
26 PRK04184 DNA topoisomerase VI 98.3 7.6E-05 1.7E-09 82.5 22.1 109 2-122 94-213 (535)
27 TIGR00585 mutl DNA mismatch re 98.2 6.1E-05 1.3E-09 78.6 16.2 209 6-251 74-301 (312)
28 PRK14939 gyrB DNA gyrase subun 97.7 2.5E-06 5.4E-11 97.7 -3.2 48 485-533 575-623 (756)
29 PRK14867 DNA topoisomerase VI 97.2 0.00095 2.1E-08 75.5 8.8 107 2-122 92-210 (659)
30 COG1389 DNA topoisomerase VI, 96.2 0.2 4.4E-06 54.0 16.1 112 2-123 92-214 (538)
31 cd00188 TOPRIM Topoisomerase-p 92.6 0.13 2.9E-06 40.8 3.6 70 337-432 2-71 (83)
32 PRK14868 DNA topoisomerase VI 87.1 1.8 3.9E-05 50.1 7.7 108 2-122 101-219 (795)
33 PRK05218 heat shock protein 90 86.4 36 0.00079 39.1 17.9 90 21-121 117-210 (613)
34 PRK04017 hypothetical protein; 75.8 0.59 1.3E-05 42.6 -1.1 29 407-435 64-92 (132)
35 cd00823 TopoIIB_Trans TopoIIB_ 74.4 32 0.00069 32.1 9.7 87 166-267 32-124 (151)
36 PF09239 Topo-VIb_trans: Topoi 72.8 43 0.00092 31.5 10.2 85 167-266 42-132 (160)
37 PF10691 DUF2497: Protein of u 65.6 13 0.00028 30.4 4.7 33 262-294 34-67 (73)
38 cd01027 TOPRIM_RNase_M5_like T 59.2 1 2.2E-05 37.5 -2.9 27 408-434 45-71 (81)
39 COG1658 Small primase-like pro 57.0 2.5 5.5E-05 38.3 -0.9 25 405-429 52-76 (127)
40 PF02518 HATPase_c: Histidine 55.4 4.2 9.1E-05 34.8 0.2 20 25-44 73-92 (111)
41 PF13662 Toprim_4: Toprim doma 53.1 2.6 5.5E-05 34.7 -1.5 19 408-426 46-64 (81)
42 cd01028 TOPRIM_TopoIA TOPRIM_T 50.7 11 0.00024 34.5 2.2 25 408-432 91-115 (142)
43 PRK14083 HSP90 family protein; 49.3 32 0.00069 39.4 6.0 90 22-122 103-197 (601)
44 COG0326 HtpG Molecular chapero 46.1 4.4E+02 0.0095 30.4 14.1 60 22-88 118-181 (623)
45 PRK14867 DNA topoisomerase VI 44.4 1.8E+02 0.0039 33.8 10.9 98 167-280 498-613 (659)
46 PRK14868 DNA topoisomerase VI 41.6 2.9E+02 0.0063 32.7 12.0 104 167-281 542-655 (795)
47 TIGR01052 top6b DNA topoisomer 41.0 3E+02 0.0066 30.8 11.8 97 167-279 348-454 (488)
48 cd03363 TOPRIM_TopoIA_TopoI TO 38.1 21 0.00045 32.1 1.9 24 409-432 74-97 (123)
49 PF14484 FISNA: Fish-specific 36.2 20 0.00043 29.3 1.3 14 334-347 29-42 (73)
50 TIGR00334 5S_RNA_mat_M5 ribonu 32.9 29 0.00064 33.2 2.1 23 407-429 46-68 (174)
51 cd03362 TOPRIM_TopoIA_TopoIII 31.3 40 0.00086 31.2 2.7 25 408-432 99-123 (151)
52 cd00818 IleRS_core catalytic c 27.1 2.4E+02 0.0051 29.8 7.9 96 382-496 90-205 (338)
53 cd01026 TOPRIM_OLD TOPRIM_OLD: 26.7 29 0.00062 29.4 0.8 58 338-423 6-70 (97)
54 PRK04031 DNA primase; Provisio 26.6 42 0.00091 36.3 2.1 52 408-476 210-262 (408)
55 cd00075 HATPase_c Histidine ki 24.0 77 0.0017 25.0 2.9 20 20-39 63-82 (103)
56 PF13581 HATPase_c_2: Histidin 23.2 1.2E+02 0.0025 26.4 4.1 50 3-55 69-125 (125)
57 smart00493 TOPRIM topoisomeras 22.0 56 0.0012 25.8 1.6 21 409-429 48-68 (76)
58 PTZ00130 heat shock protein 90 21.9 1.4E+02 0.003 35.5 5.3 94 21-121 178-272 (814)
59 PF13589 HATPase_c_3: Histidin 20.6 60 0.0013 29.3 1.7 31 20-50 67-98 (137)
60 cd03361 TOPRIM_TopoIA_RevGyr T 20.6 65 0.0014 30.6 2.0 25 408-432 119-143 (170)
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=4.3e-188 Score=1494.20 Aligned_cols=541 Identities=54% Similarity=0.916 Sum_probs=513.5
Q ss_pred CEEeeecCCCCCCCCCCceeeccccCCcchhhhhhhcceeEEEEEeCCEEEEEEecCCcCCccceeeccCCCCCCCCceE
Q 008738 1 MIVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTR 80 (555)
Q Consensus 1 ~v~t~lhaGgkF~~~~~~yk~sGGlhGvGasvvNalS~~f~V~v~r~gk~y~q~f~~G~~~~~~~~~~~~~~~~~~~GT~ 80 (555)
+|||+||||||||++ +||+||||||||+|||||||+||+|+|+|+|++|+|+|++|+++++++++. ...++++||+
T Consensus 94 vI~T~LHAGGKFd~~--~YkvSGGLHGVG~SVVNALS~~l~v~v~r~gk~y~q~f~~G~~~~~l~~ig--~~~~~~~GT~ 169 (635)
T COG0187 94 VIFTVLHAGGKFDND--SYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYRQRFERGVPVTPLEVIG--STDTKKTGTK 169 (635)
T ss_pred EEEEeeccCcccCCC--ccEeecCCCccceEEEecccceEEEEEEECCEEEEEEEeCCCcCCCceecc--cCCCCCCccE
Confidence 699999999999998 999999999999999999999999999999999999999999999988661 1235678999
Q ss_pred EEEEeCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEeccccHHHHHHHHhcCCCCCCc-eeE
Q 008738 81 IRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHD-VVG 159 (555)
Q Consensus 81 V~F~PD~~iF~~~~~~~~~~l~~Rl~elA~Ln~gl~I~l~der~~~~~~~~~~f~~~~Gl~dyv~~l~~~~~~~~~-~i~ 159 (555)
|+||||++||++ ..|++++|++|||++|||||||+|+|+|+|.... .. .|||++||++||++++.+++++++ +++
T Consensus 170 V~F~PD~~iF~~-~~f~~~~l~~RlrelA~L~~gl~I~l~d~r~~~~--~~-~~~y~~Gl~~yv~~l~~~k~~l~~~~~~ 245 (635)
T COG0187 170 VRFKPDPEIFGE-TEFDYEILKRRLRELAFLNKGVKITLTDERTGEE--KK-EFHYEGGLKDYVEYLNKGKTPLHEEIFY 245 (635)
T ss_pred EEEEcChHhcCC-cccCHHHHHHHHHHHhccCCCCEEEEEeccCCcc--cc-eeecccHHHHHHHHHhcCCCccccCcee
Confidence 999999999986 6899999999999999999999999999997521 12 599999999999999999999996 566
Q ss_pred EEEeecceEEEEEEeecCCCCCceeeeeeCccccCCCCcchHHHHHHHHHHHHHHHHhcccCCCCCCCCCHhhhhcccEE
Q 008738 160 FRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTC 239 (555)
Q Consensus 160 ~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~k~~~i~~~dIregL~~ 239 (555)
+.++.+++.|||||||+ ++|+++++||||||+|++||||++||++||+++||+|+++++++|+++ ++++||||||++
T Consensus 246 ~~~~~~~~~vEvA~q~~-d~~~e~~~SFvNnI~T~eGGTH~~Gfr~altr~in~y~~~~~~~k~~~--l~g~Diregl~a 322 (635)
T COG0187 246 FNGEKDGIAVEVALQWN-DGYSENILSFVNNIPTREGGTHEAGFRSALTRAINEYAKKKNLLKEGD--LTGDDIREGLTA 322 (635)
T ss_pred cccCccceEEEEEEEEe-cCCceEEEEeecCccCCCCchHHHHHHHHHHHHHHHHHHHhCcCcccC--CCHHHHhhccEE
Confidence 66777789999999999 899999999999999999999999999999999999999999988765 999999999999
Q ss_pred EEEEeecCCCCCCccccccCChhhhhhhhhhhHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccC
Q 008738 240 IISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSS 319 (555)
Q Consensus 240 ~vsv~i~nP~FegQTKekL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~ar~aakkar~~~~~k~~~~~~ 319 (555)
||||+||||+|+||||+||+|++++.+|++++++.|..||++||.+|+.|+++++.+++||+||++||+++|+|+++...
T Consensus 323 viSvki~~PqFegQTK~KL~n~e~~~~V~~~v~~~~~~~l~enp~~a~~i~~k~i~aa~aR~aarkare~~R~k~~~~~~ 402 (635)
T COG0187 323 VISVKIPDPQFEGQTKEKLGNSEVRSIVEKLVSEAFSLFLEENPQEAKKIVEKAIAAAKAREAARKARELTRRKSALDIP 402 (635)
T ss_pred EEEEECCCCCcCcccccccccHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999988999
Q ss_pred CCCCCCCCCCCCCCCCceeEEeeccCCCccccccCCCCceeecccCcccccccccCHHHHhhCHhHHHHHHHhcCCccCC
Q 008738 320 SLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGE 399 (555)
Q Consensus 320 ~lpgKL~dc~~~~~~~~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKiLNv~ka~~~ki~~N~Ei~~li~alG~~~~~~ 399 (555)
.|||||+||++++|++|||||||||||||||||||||+|||||||||||||||+|+.+||++|+||++|++|||||++ .
T Consensus 403 ~LpGKLadC~skd~~~~ELfiVEGDSAGGSAKqgRdR~~QAILPLRGKiLNVeka~~~kil~N~EI~~ii~AlG~g~~-~ 481 (635)
T COG0187 403 GLPGKLADCTSKDPEKSELFLVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIQTIITALGTGIG-K 481 (635)
T ss_pred CCCCcCcccccCCcccceEEEEecCCcchhhhhccCccceEEecccCcchhhhhccHhhhhhhHHHHHHHHHhCCCCC-C
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999994 5
Q ss_pred cCcccccceeeEEEeecCCCCCcchHHhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHHhCCC
Q 008738 400 DFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPS 479 (555)
Q Consensus 400 ~~~~~~LRYgkiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~gk~~~~~~s~~e~~~~~~~~~~ 479 (555)
+||+++||||||||||||||||+|||+|||||||||||+||++||||+|+||||||++|+++.|+|||.|+++.+.++..
T Consensus 482 ~fd~~~LRY~kIiIMTDADvDGaHIrtLLlTfFyr~m~~LIe~G~vyiA~PPLYkv~~~k~~~Y~~~d~E~~~~~~~~~~ 561 (635)
T COG0187 482 DFDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMPPLIENGHVYIAQPPLYKVKKGKKTFYAYDDEELEKLLERLGK 561 (635)
T ss_pred CCChhhCccCcEEEEecCCCChHHHHHHHHHHHHHHhHHHHHcCcEEEEcCceEEEEcCCceeEeCCHHHHHHHHHHhcc
Confidence 59999999999999999999999999999999999999999999999999999999999999999999999999988742
Q ss_pred CCCccceeeeccccCChhhHHhhhcCCCceeEEeeccccHHHHHHHHHHhcCCCchHHHHHHHhccccCCcCCCCC
Q 008738 480 NALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLVNLDHLDI 555 (555)
Q Consensus 480 ~~~~~i~ryKGLGe~~~~~l~et~~~p~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~Rk~~i~~~~~~~~~~~ld~ 555 (555)
.++|+||||||||||||+|||||||||++|+|.||+++|+++|+++|++|||+++++||+||++|+.++ .++||
T Consensus 562 ~~~~~IqRyKGLGEMnp~QLwETTmdP~~R~L~~V~i~da~~ad~~f~~LMGd~ve~Rr~fIe~na~~~--~~~di 635 (635)
T COG0187 562 KKGYEIQRYKGLGEMNPDQLWETTMDPETRRLLQVTIEDADEADEIFSTLMGDKVEPRRNFIEENALFV--ENLDI 635 (635)
T ss_pred cCCceeEeecccCCCCHHHHHHhccCccceeEEEEEcccHHHHHHHHHHHcCCCchHHHHHHHHHhhhh--hhccC
Confidence 258999999999999999999999999999999999999999999999999999999999999999864 55665
No 2
>PTZ00109 DNA gyrase subunit b; Provisional
Probab=100.00 E-value=1.3e-172 Score=1430.62 Aligned_cols=542 Identities=44% Similarity=0.738 Sum_probs=502.4
Q ss_pred CEEeeecCCCCCCCC--------------------------------------CCceeeccccCCcchhhhhhhcceeEE
Q 008738 1 MIVTVLHAGGKFGGS--------------------------------------SSGYSVSGGLHGVGLSVVNALSESLEV 42 (555)
Q Consensus 1 ~v~t~lhaGgkF~~~--------------------------------------~~~yk~sGGlhGvGasvvNalS~~f~V 42 (555)
+|||+|||||||+++ +++|++||||||||+|||||||+||+|
T Consensus 187 ~VlT~LhAGGKF~~~~~~~~~~~~~~~~~d~~~~~k~~~~~~~~~~~~~~~~~~~~YkvSGGLHGVG~SVVNALS~~l~V 266 (903)
T PTZ00109 187 TVLTVLHSGGKFQDTFPKNSRSDKSEDKNDTKSSKKGKSSHVKGPKEAKEKESSQMYEYSSGLHGVGLSVVNALSSFLKV 266 (903)
T ss_pred EEEEEeccCccccCcccccccccccccccccccccccccccccccccccccccCCcceecCcCCCcceeeeeeccCeEEE
Confidence 699999999999873 137999999999999999999999999
Q ss_pred EEEeCCEEEEEEecCCcCCccceeeccCCCCC-CCCceEEEEEeC-ccccccccc-------------CCHHHHHHHHHH
Q 008738 43 TVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSK-DRQGTRIRFWPD-KQVFTTAIQ-------------FDHNTIAGRIRE 107 (555)
Q Consensus 43 ~v~r~gk~y~q~f~~G~~~~~~~~~~~~~~~~-~~~GT~V~F~PD-~~iF~~~~~-------------~~~~~l~~Rl~e 107 (555)
+|+|+|+.|+|+|++|+++.+++++ +.+ .++||+|+|||| ++||+++.. |++++|++||++
T Consensus 267 eV~RdGK~y~q~F~rG~~v~pLkvi----g~~~~~tGT~VtF~PD~~~IF~~~~~~~~~~~~~~~~~~F~~d~L~~RLrE 342 (903)
T PTZ00109 267 DVFKGGKIYSIELSKGKVTKPLSVF----SCPLKKRGTTIHFLPDYKHIFKTHHQHTETEEEEGCKNGFNLDLIKNRIHE 342 (903)
T ss_pred EEEECCEEEEEEeCCCcccCCcccc----CCcCCCCceEEEEEeCcchhcCccccccccccccccccccCHHHHHHHHHH
Confidence 9999999999999999999988755 444 579999999999 999964332 899999999999
Q ss_pred HhhcCCCcEEEEeecCCCCCC--CcceeEeccccHHHHHHHHhcCCCCCC-c--eeEEEEeecceEEEEEEeecCCCCCc
Q 008738 108 LAFLNPKLTIALRKEDSDPEK--NQYNEYFFAGGLEEYVQWLNTDKKPLH-D--VVGFRKDVDGITIDLALQWCSDAYSD 182 (555)
Q Consensus 108 lA~Ln~gl~I~l~der~~~~~--~~~~~f~~~~Gl~dyv~~l~~~~~~~~-~--~i~~~~~~~~~~veval~~s~~~~~~ 182 (555)
+|||||||+|+|+|+|...+. ...+.|+|++||.+||++++.++++++ + ++++.++.+++.|||||+|++++|++
T Consensus 343 lAfLNpGL~I~L~DeR~~~~~~~~~~e~f~~egGi~dfv~~ln~~k~~l~~~~~~I~~~g~~~~i~VEVAlq~s~~~y~e 422 (903)
T PTZ00109 343 LSYLNPGLTFYLVDERIANENNFYPYETIKHEGGTREFLEELIKDKTPLYKDINIISIRGVIKNVNVEVSLSWSLESYTA 422 (903)
T ss_pred HhccCCCcEEEEEecCccccCCcceEEEEEecCCHHHHHHHhcCCCCccCCCCceEEEEeeecCeEEEEEEEecCCCCce
Confidence 999999999999999854210 134679999999999999999888887 3 67787777788999999998557889
Q ss_pred eeeeeeCccccCCCCcchHHHHHHHHHHHHHHHHhcccCCCCCCCCCHhhhhcccEEEEEEeecCCCCCCccccccCChh
Q 008738 183 TMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPE 262 (555)
Q Consensus 183 ~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~k~~~i~~~dIregL~~~vsv~i~nP~FegQTKekL~n~~ 262 (555)
+++||||+|+|+ |||||+||++||+++||+|+++++++|+++.+++++||||||++||||+++||+|+||||++|+|++
T Consensus 423 ~i~SFVNnI~T~-GGTHv~Gfr~ALTr~In~y~kk~~llK~k~~~i~gedIREGLtavISvki~~PqFeGQTK~KLgn~~ 501 (903)
T PTZ00109 423 LIKSFANNVSTT-AGTHIDGFKYAITRCVNGNIKKNGYFKGNFVNIPGEFIREGMTAIISVKLNGAEFDGQTKTKLGNHL 501 (903)
T ss_pred EEEEEECCccCC-CCCHHHHHHHHHHHHHHHHHHHhCcccccCCCCCHHHHhhccEEEEEEeccCCcccCcccccccCHH
Confidence 999999999999 9999999999999999999999998887778999999999999999999999999999999999999
Q ss_pred hhhhhhhhhHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc-cCCCCCCCCCCCCCCCCCceeEEe
Q 008738 263 VRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLR-SSSLPGKLADCSSTTPEESEIFIV 341 (555)
Q Consensus 263 v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~ar~aakkar~~~~~k~~~~-~~~lpgKL~dc~~~~~~~~eL~lv 341 (555)
++.+|+++|.+.|..||++||++++.|+++++++++||++||+||+++|+|+... ...|||||+||+++++++||||||
T Consensus 502 vk~~ve~iv~e~L~~~l~~np~~a~~I~~Ka~~a~~AreaAk~arel~R~K~~~~~~~~lPgKL~DC~s~d~~~~ELfIV 581 (903)
T PTZ00109 502 LKTILESIVFEQLSEILEFEPNLLLAIYNKSLAAKKAFEEAKAAKDLIRQKNNQYYSTILPGKLVDCISDDIERNELFIV 581 (903)
T ss_pred HHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHhhHHHhhhhhcccccCCCCCcccccccCCCcccEEEEE
Confidence 9999999999999999999999999999999999999999999999999987763 456999999999999999999999
Q ss_pred eccCCCccccccCCCCceeecccCcccccccccC-HHHHhhCHhHHHHHHHhcCCccCC---cCcc--------------
Q 008738 342 EGDSAGGSAKQGRDRRFQAILPLRGKILNVERKD-EAAMYKNEEIQNLIRALGLGVKGE---DFKK-------------- 403 (555)
Q Consensus 342 EGDSA~gsa~~gRdr~~qai~PLrGKiLNv~ka~-~~ki~~N~Ei~~li~alG~~~~~~---~~~~-------------- 403 (555)
|||||||||||||||+|||||||||||||||+++ .+||++|+||++||+||||+++.. +||+
T Consensus 582 EGDSAgGSAKqgRdR~~QAILPLRGKILNVeka~~~~kil~N~EI~~Li~alG~gig~~~~~~~dl~~~~~~~~~~~~~~ 661 (903)
T PTZ00109 582 EGESAAGNAKQARNREFQAVLPLKGKILNIEKIKNNKKVFENSEIKLLITSIGLSVNPVTWRQYDLSHGTKASKDESVQN 661 (903)
T ss_pred cccCCCcccccccCccceeecccCCceehhcccccHHHHHhcHHHHHHHHHhCCCCCcccccccCccccccccccccccc
Confidence 9999999999999999999999999999999995 999999999999999999999542 5788
Q ss_pred --------------cccceeeEEEeecCCCCCcchHHhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeC-----------
Q 008738 404 --------------EALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERG----------- 458 (555)
Q Consensus 404 --------------~~LRYgkiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~g----------- 458 (555)
++||||||||||||||||+|||+|||||||||||+||++||||+|+||||||++|
T Consensus 662 ~~~~~~~~~~~~~~~~LRYgKIIIMTDADVDGsHIrtLLLTff~r~~p~Lie~G~vyia~pPLyki~~~~~~~~~~~~~~ 741 (903)
T PTZ00109 662 NNSTLTKKKNSLFDTPLRYGKIILLTDADVDGEHLRILLLTLLYRFCPSLYEHGRVYVACPPLYRITNNRMKQFNVSTKN 741 (903)
T ss_pred ccccccccccccccccCCcCeEEEEeCCCCChhHHHHHHHHHHHHhCHHhhhCCEEEEecCCEEEEEecCcccccccccc
Confidence 9999999999999999999999999999999999999999999999999999985
Q ss_pred -CeEEEeeCHHHHHHHHHhCC-----------------------------------------------------------
Q 008738 459 -KQVQYCYDDAELKKVKSSFP----------------------------------------------------------- 478 (555)
Q Consensus 459 -k~~~~~~s~~e~~~~~~~~~----------------------------------------------------------- 478 (555)
|+.+|+|||+|++++++++.
T Consensus 742 ~k~~~y~~sd~el~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 821 (903)
T PTZ00109 742 SKKYIYTWSDEELNVLIKLLNKDYSSKETTRSVEEKGNAPDLDNEYEDEKLDNKNMRENNVDEVELKTELGTNVADTEQT 821 (903)
T ss_pred cceeEEeCCHHHHHHHHHHhhccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 77899999999999997651
Q ss_pred ----------C-CCCccceeeeccccCChhhHHhhhcCCCceeEEeeccccHHHHHHHHHHhcCCCchHHHHHHHhcccc
Q 008738 479 ----------S-NALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANL 547 (555)
Q Consensus 479 ----------~-~~~~~i~ryKGLGe~~~~~l~et~~~p~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~Rk~~i~~~~~~ 547 (555)
. .++++||||||||||+|+|||||||||++|+|+||+++|+..|+++|++|||+++++||+||++|+..
T Consensus 822 ~~~~~~~~~~~~~~~~~iqRfKGLGEM~~~qLweTTMdP~~R~L~rv~v~d~~~a~~~~~~LMG~~~~~Rk~fI~~n~~~ 901 (903)
T PTZ00109 822 DELDINKAFFKFSKHYEIQRFKGLGEMMADQLWETTMDPKKRILIRITVSDAMRASELIFLLMGEDVQSRKQFIFENSPA 901 (903)
T ss_pred ccccccccccccCCcccceeeccHhhhhHHHHHHhhhChhhceeeeeeHHHHHHHHHHHHHHhCCCChhhHHHHHhhccc
Confidence 0 13589999999999999999999999999999999999999999999999999999999999999864
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=4e-172 Score=1422.32 Aligned_cols=532 Identities=47% Similarity=0.788 Sum_probs=501.9
Q ss_pred CEEeeecCCCCCCCCCCceeeccccCCcchhhhhhhcceeEEEEEeCCEEEEEEecCC-cCCccceeeccCCCCCCCCce
Q 008738 1 MIVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRG-KPVTTLTCHVLPVDSKDRQGT 79 (555)
Q Consensus 1 ~v~t~lhaGgkF~~~~~~yk~sGGlhGvGasvvNalS~~f~V~v~r~gk~y~q~f~~G-~~~~~~~~~~~~~~~~~~~GT 79 (555)
+|||+||||||||++ +||+||||||||+|||||||+||+|+|+|+|+.|.|+|++| .|+.+++.+ +.+.++||
T Consensus 92 ~v~t~LhaGgkfd~~--~ykvSGGlhGvG~svvNAlS~~~~V~v~r~gk~~~q~f~~Gg~~~~~l~~~----~~~~~~GT 165 (637)
T TIGR01058 92 TVFTVLHAGGKFDQG--GYKTAGGLHGVGASVVNALSSWLEVTVKRDGQIYQQRFENGGKIVQSLKKI----GTTKKTGT 165 (637)
T ss_pred eEEEEecccCcCCCC--cccccCCcccccccccceeeceEEEEEEECCEEEEEEEecCCcCcCCcccc----cCCCCCce
Confidence 589999999999998 99999999999999999999999999999999999999997 778777654 45567999
Q ss_pred EEEEEeCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEeccccHHHHHHHHhcCCCCCCceeE
Q 008738 80 RIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVG 159 (555)
Q Consensus 80 ~V~F~PD~~iF~~~~~~~~~~l~~Rl~elA~Ln~gl~I~l~der~~~~~~~~~~f~~~~Gl~dyv~~l~~~~~~~~~~i~ 159 (555)
+|+||||++||++ ..|++++|.+||+++|||||||+|+|+|+|.+ ..+.|||++||.+|+++++.++++++++++
T Consensus 166 ~V~F~PD~~iF~~-~~f~~d~l~~RlrelA~Ln~GL~I~l~der~~----~~~~f~~~~Gl~~yv~~l~~~k~~l~~~i~ 240 (637)
T TIGR01058 166 LVHFHPDPTIFKT-TQFNSNIIKERLKESAFLLKKLKLTFTDKRTN----KTTVFFYENGLVDFVDYINETKETLSQVTY 240 (637)
T ss_pred EEEEEeCHHHcCC-CccCHHHHHHHHHHHhccCCCcEEEEEecCCC----ceEEEEcCcCHHHHHHHhcCCCCcCCccEE
Confidence 9999999999974 57999999999999999999999999999854 245699999999999999988887777888
Q ss_pred EEEeecceEEEEEEeecCCCCCceeeeeeCccccCCCCcchHHHHHHHHHHHHHHHHhcccCCCCCCCCCHhhhhcccEE
Q 008738 160 FRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTC 239 (555)
Q Consensus 160 ~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~k~~~i~~~dIregL~~ 239 (555)
+.++.+++.|||||+|+ ++|+++++||||+|+|++|||||+||++||+++||+|+++++++|+++.+++++|||+||++
T Consensus 241 ~~~~~~~~~vevAl~~~-~~~~e~~~SFvN~I~T~~GGTHv~g~~~aLtr~in~~~~~~~~lK~~~~~i~~~diregL~~ 319 (637)
T TIGR01058 241 FEGEKNGIEVEVAFQFN-DGDSENILSFANSVKTKEGGTHENGFKLAITDVINSYARKYNLLKEKDKNLEGSDIREGLSA 319 (637)
T ss_pred EEEEECCcEEEEEEEEc-CCCCeEEEEeECCccCCCCCcHHHHHHHHHHHHHHHHHHHhchhccccccCChhhHhhccEE
Confidence 88877789999999999 68889999999999999999999999999999999999999888877789999999999999
Q ss_pred EEEEeecCC--CCCCccccccCChhhhhhhhhhhHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc--cc
Q 008738 240 IISVRVPNP--EFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQK--SV 315 (555)
Q Consensus 240 ~vsv~i~nP--~FegQTKekL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~ar~aakkar~~~~~k--~~ 315 (555)
||||++++| +|+||||++|+|++++.+|++++.+.|..||++||+.++.|+++++.+++||+||++||++.|+| +.
T Consensus 320 vIsvki~~pnP~FegQTK~kL~n~~v~~~v~~~v~e~l~~~l~~np~~a~~Iiek~~~~a~aR~aa~~ar~~~r~~~k~~ 399 (637)
T TIGR01058 320 IISVRIPEELIQFEGQTKSKLFSPEARNVVDEIVQDHLFFFLEENNNDAKLLIDKAIKARDAKEAAKKAREEKKSGKKPK 399 (637)
T ss_pred EEEEecCCCcccccCcccccccChhHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc
Confidence 999999755 99999999999999999999999999999999999999999999999999999999999999874 35
Q ss_pred cccCCCCCCCCCCCCCCCCCceeEEeeccCCCccccccCCCCceeecccCcccccccccCHHHHhhCHhHHHHHHHhcCC
Q 008738 316 LRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLG 395 (555)
Q Consensus 316 ~~~~~lpgKL~dc~~~~~~~~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKiLNv~ka~~~ki~~N~Ei~~li~alG~~ 395 (555)
.....|||||+||++++|++|||||||||||||||||||||+|||||||||||||||+++.++|++|+||++|++||||+
T Consensus 400 ~~~~~lpgKL~dc~~~~~~~~eLfivEGDSAggsak~gRdr~~qailPLRGKiLNv~ka~~~ki~~N~Ei~~l~~alG~~ 479 (637)
T TIGR01058 400 KEKGILSGKLTPAQSKNPAKNELFLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNVEKAKLADILKNEEINTIIFCIGTG 479 (637)
T ss_pred cccCCCCcccccccCCCCCccEEEEEecCccccccccccccceEEEeccCCcccccccCCHHHHhcchHHHHHHHHhCCC
Confidence 56667999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCcCcccccceeeEEEeecCCCCCcchHHhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeC--CeEEEeeCHHHHHHH
Q 008738 396 VKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERG--KQVQYCYDDAELKKV 473 (555)
Q Consensus 396 ~~~~~~~~~~LRYgkiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~g--k~~~~~~s~~e~~~~ 473 (555)
+ +++||+++||||||||||||||||+|||||||||||||||+||++||||+|+||||||++| ++++||||++|+++|
T Consensus 480 ~-g~~~~~~~LRY~kIiImTDADvDGsHIr~LLltff~r~~p~Li~~G~v~~~~~Pl~kv~~~~~~~~~y~~~~~e~~~~ 558 (637)
T TIGR01058 480 I-GADFSIKDLKYDKIIIMTDADTDGAHIQVLLLTFFYRYMRPLIELGHVYIALPPLYKLSKKDGKKVKYAWSDLELESV 558 (637)
T ss_pred c-CccCCccccccceEEEEeCCCCCcchhHHHHHHHHHHhCHhhccCCeEEEecCCEEEEEeCCCceEEEeCCHHHHHHH
Confidence 9 5689999999999999999999999999999999999999999999999999999999984 678899999999999
Q ss_pred HHhCCCCCCccceeeeccccCChhhHHhhhcCCCceeEEeeccccHHHHHHHHHHhcCCCchHHHHHHHhccccC
Q 008738 474 KSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLV 548 (555)
Q Consensus 474 ~~~~~~~~~~~i~ryKGLGe~~~~~l~et~~~p~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~Rk~~i~~~~~~~ 548 (555)
++++ ++|+||||||||||+|+|||||||||++|+|+||+++|++.++++|++|||+++++||+||++|+..+
T Consensus 559 ~~~~---~~~~i~ryKGLGem~~~~l~ettm~p~~r~l~~v~~~d~~~~~~~~~~lmg~~~~~Rk~~i~~~~~~~ 630 (637)
T TIGR01058 559 KKKL---KNYTLQRYKGLGEMNADQLWETTMNPETRTLVRVKIDDLARAERQINTLMGDKVEPRKKWIEANINFS 630 (637)
T ss_pred HHhc---CCCCceEECchhhhhHHHHHHHhhCcccceeeEEehhhhhhHHHHHHHHcCCCchHHHHHHHHhhhhh
Confidence 9874 47999999999999999999999999999999999999999999999999999999999999999654
No 4
>PRK05644 gyrB DNA gyrase subunit B; Validated
Probab=100.00 E-value=7.8e-164 Score=1361.07 Aligned_cols=541 Identities=57% Similarity=0.945 Sum_probs=509.3
Q ss_pred CEEeeecCCCCCCCCCCceeeccccCCcchhhhhhhcceeEEEEEeCCEEEEEEecCCcCCccceeeccCCCCCCCCceE
Q 008738 1 MIVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTR 80 (555)
Q Consensus 1 ~v~t~lhaGgkF~~~~~~yk~sGGlhGvGasvvNalS~~f~V~v~r~gk~y~q~f~~G~~~~~~~~~~~~~~~~~~~GT~ 80 (555)
+|||+||||||||++ +|++|||+||||+|+|||||++|+|+++|+|+.|.|+|++|+++.+++.+ +.+.++||+
T Consensus 95 ~i~~~lhag~kfd~~--~yk~s~G~~G~Gls~vnalS~~~~v~t~r~g~~~~~~~~~G~~~~~~~~~----~~~~~~GT~ 168 (638)
T PRK05644 95 VVLTVLHAGGKFGGG--GYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYYQEYERGVPVTPLEVI----GETDETGTT 168 (638)
T ss_pred HheeeecccCccCCC--cccccCCccccchhhhhheeceEEEEEEeCCcEEEEEEECCeEccCcccc----CCcCCCCcE
Confidence 489999999999998 99999999999999999999999999999999999999999998776544 444679999
Q ss_pred EEEEeCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEeccccHHHHHHHHhcCCCCCC-ceeE
Q 008738 81 IRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH-DVVG 159 (555)
Q Consensus 81 V~F~PD~~iF~~~~~~~~~~l~~Rl~elA~Ln~gl~I~l~der~~~~~~~~~~f~~~~Gl~dyv~~l~~~~~~~~-~~i~ 159 (555)
|+|+||+++|+ +..++++.|.+|++++|+|||||+|+|++++.+. ...+.|+|++||.+|+++++.++++++ ++++
T Consensus 169 I~F~Pd~~~F~-~~~~e~~~i~~rl~~~A~l~pgl~i~l~~er~~~--~~~~~f~~~~Gl~dyv~~l~~~~~~~~~~~i~ 245 (638)
T PRK05644 169 VTFKPDPEIFE-TTEFDYDTLATRLRELAFLNKGLKITLTDEREGE--EKEETFHYEGGIKEYVEYLNRNKEPLHEEPIY 245 (638)
T ss_pred EEEEECHHHcC-CcccCHHHHHHHHHHHHhhCCCcEEEEEeccCCC--cceeEEEcCCCHHHHHHHHhcCCCcCCCCCeE
Confidence 99999999996 4689999999999999999999999999998542 135679999999999999998888887 5787
Q ss_pred EEEeecceEEEEEEeecCCCCCceeeeeeCccccCCCCcchHHHHHHHHHHHHHHHHhcccCCCCCCCCCHhhhhcccEE
Q 008738 160 FRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTC 239 (555)
Q Consensus 160 ~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~k~~~i~~~dIregL~~ 239 (555)
+.++.++++|||||+|+ ++|+++++||||+|+|++|||||+||+++|+++||+|+++++++|+++.+++++|||+||++
T Consensus 246 ~~~~~~~~~veval~~~-~~~~~~~~SFvN~I~T~~GGTHv~g~~~al~~~l~~~~~k~~~~Kk~~~~i~~~dIregl~~ 324 (638)
T PRK05644 246 FEGEKDGIEVEVAMQYN-DGYSENILSFANNINTHEGGTHEEGFKTALTRVINDYARKNKLLKEKDDNLTGEDVREGLTA 324 (638)
T ss_pred EEeeccCeEEEEEEEec-CCCceEEEEEECcccCCCCCCHHHHHHHHHHHHHHHHHHHhCcccccCCCCChhHHhhceEE
Confidence 87766778999999999 67888999999999999999999999999999999999998887776789999999999999
Q ss_pred EEEEeecCCCCCCccccccCChhhhhhhhhhhHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccC
Q 008738 240 IISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSS 319 (555)
Q Consensus 240 ~vsv~i~nP~FegQTKekL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~ar~aakkar~~~~~k~~~~~~ 319 (555)
||||+|+||+|+||||++|+|++++.+|++++.+.|..||++||+.++.|+++++.++++|++++++|+..|+|+.....
T Consensus 325 vVsv~i~nP~F~gQTKekL~~~~v~~~v~~~v~~~l~~~l~~n~~~~~~I~~~~~~~a~~r~~a~~~k~~~r~k~~~~~~ 404 (638)
T PRK05644 325 VISVKHPEPQFEGQTKTKLGNSEVRGIVDSVVSEALSEFLEENPNVAKKIVEKAILAARAREAARKARELTRRKSALESS 404 (638)
T ss_pred EEEEecCCCcccCcccccccCHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHHhHHHhhcccccccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999988888778
Q ss_pred CCCCCCCCCCCCCCCCceeEEeeccCCCccccccCCCCceeecccCcccccccccCHHHHhhCHhHHHHHHHhcCCccCC
Q 008738 320 SLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGE 399 (555)
Q Consensus 320 ~lpgKL~dc~~~~~~~~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKiLNv~ka~~~ki~~N~Ei~~li~alG~~~~~~ 399 (555)
.|||||+||++++|++|||||||||||||||+|||||+|||||||||||||||+++.++|++|+||++|++||||++ +.
T Consensus 405 ~lpgKL~dc~~~~~~~~eLflvEGDSA~gsak~grdr~~qailPLrGKiLNv~~a~~~ki~~N~Ei~~l~~alG~~~-~~ 483 (638)
T PRK05644 405 SLPGKLADCSSKDPEESELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALGTGI-GD 483 (638)
T ss_pred CCCchhcccccCCCCccEEEEEecCCCccccccccCccceeecccCCceeccccCCHHHHHhCHHHHHHHHHhCCCC-CC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999 56
Q ss_pred cCcccccceeeEEEeecCCCCCcchHHhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHHhCCC
Q 008738 400 DFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPS 479 (555)
Q Consensus 400 ~~~~~~LRYgkiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~gk~~~~~~s~~e~~~~~~~~~~ 479 (555)
+||+++|||||||||||||+||+||++|||||||||||+||++||||+|+||||||++||++ ||||++||++|+++++.
T Consensus 484 ~~~~~~LRY~kiiImtDaD~DG~HI~~Llltff~~~~p~Li~~G~l~~~~~Pl~kv~~gk~~-~~~~~~e~~~~~~~~~~ 562 (638)
T PRK05644 484 DFDISKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGYVYIAQPPLYKIKKGGKE-YAYSDEELDEILAELKL 562 (638)
T ss_pred cCChhhCccCeEEEEeCCCCCchHHHHHHHHHHHHhCHHhccCCeEEEecCCEEEEEeCCeE-eecCHHHHHHHHHHhcc
Confidence 79999999999999999999999999999999999999999999999999999999999988 99999999999988753
Q ss_pred --CCCccceeeeccccCChhhHHhhhcCCCceeEEeeccccHHHHHHHHHHhcCCCchHHHHHHHhccccCCcCCCCC
Q 008738 480 --NALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLVNLDHLDI 555 (555)
Q Consensus 480 --~~~~~i~ryKGLGe~~~~~l~et~~~p~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~Rk~~i~~~~~~~~~~~ld~ 555 (555)
.++|+||||||||||+|+|+|||||||++|.|.+|+++|.+.++++|++|||+++++||+||.+|+.. +++|||
T Consensus 563 ~~~~~~~i~ryKGLGe~~~~~~~e~~~~~~~r~~~~v~~~d~~~~~~~f~~lmg~~~~~Rk~~i~~~~~~--~~~~d~ 638 (638)
T PRK05644 563 KGNPKYGIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSILMGDDVEPRREFIEENAKY--VRNLDI 638 (638)
T ss_pred ccCCCCceeEecCccccCHHHHHHHhcCccceeeeeeccccHHHHHHHHHHHhCCCChHHHHHHHHhhhh--HhhccC
Confidence 35799999999999999999999999999999999999999999999999999999999999999974 466875
No 5
>PRK05559 DNA topoisomerase IV subunit B; Reviewed
Probab=100.00 E-value=4.3e-163 Score=1355.18 Aligned_cols=531 Identities=46% Similarity=0.793 Sum_probs=499.0
Q ss_pred CEEeeecCCCCCCCCCCceeeccccCCcchhhhhhhcceeEEEEEeCCEEEEEEecCCcCCccceeeccCCCCCCCCceE
Q 008738 1 MIVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTR 80 (555)
Q Consensus 1 ~v~t~lhaGgkF~~~~~~yk~sGGlhGvGasvvNalS~~f~V~v~r~gk~y~q~f~~G~~~~~~~~~~~~~~~~~~~GT~ 80 (555)
+|||+|||||||+++ .|++|||+||||+|+|||||++|+|+++|+|+.|.|+|++|+++.+++.+ .......+||+
T Consensus 95 ~v~t~lhagsKf~~~--~yk~SgGl~GvGls~vNalS~~l~V~s~r~g~~~~~~f~~G~~~~~l~~~--~~~~~~~~GT~ 170 (631)
T PRK05559 95 VILTKLHAGGKFSNK--AYKFSGGLHGVGVSVVNALSSRLEVEVKRDGKVYRQRFEGGDPVGPLEVV--GTAGKRKTGTR 170 (631)
T ss_pred eeeeeccccCccCCc--cccccCcccccchhhhhhheeeEEEEEEeCCeEEEEEEECCcCccCcccc--ccccCCCCCcE
Confidence 589999999999988 99999999999999999999999999999999999999999998877544 11112579999
Q ss_pred EEEEeCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEeccccHHHHHHHHhcCCCCCCc--ee
Q 008738 81 IRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHD--VV 158 (555)
Q Consensus 81 V~F~PD~~iF~~~~~~~~~~l~~Rl~elA~Ln~gl~I~l~der~~~~~~~~~~f~~~~Gl~dyv~~l~~~~~~~~~--~i 158 (555)
|+|+||+++|+ +..++++.|.+||+++|+|||||+|+|+|++ . .+.|+|++||.+|+.+++.+++++++ ++
T Consensus 171 V~f~PD~~iF~-~~~~~~~~i~~~l~~~A~lnpgl~i~l~d~~-~-----~~~f~~~~gl~~~v~~~~~~~~~i~~~~~i 243 (631)
T PRK05559 171 VRFWPDPKIFD-SPKFSPERLKERLRSKAFLLPGLTITLNDER-E-----RQTFHYENGLKDYLAELNEGKETLPEEFVG 243 (631)
T ss_pred EEEEECHHHcC-CcccCHHHHHHHHHHHHhhCCCeEEEEEeCC-c-----eEEEECCccHHHHHHHHhCCCCccCCCCce
Confidence 99999999996 4579999999999999999999999999987 2 46799999999999999988778874 78
Q ss_pred EEEEeecceEEEEEEeecCCCCCceeeeeeCccccCCCCcchHHHHHHHHHHHHHHHHhcccCCCCCCCCCHhhhhcccE
Q 008738 159 GFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLT 238 (555)
Q Consensus 159 ~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~k~~~i~~~dIregL~ 238 (555)
+++++.+++.|||||+|+ ++|+++++||||+|+|++|||||+||++||+++||+|+++++++| ++.+++++|||+||+
T Consensus 244 ~~~~~~~~~~veval~~~-~~~~~~~~SFvN~I~T~~GGTHv~g~~~al~~~in~~~~~~~l~k-~~~~l~~~diregl~ 321 (631)
T PRK05559 244 SFEGEAEGEAVEWALQWT-DEGGENIESYVNLIPTPQGGTHENGFREGLLKAVREFAEKRNLLP-KGKKLEGEDVREGLA 321 (631)
T ss_pred EEeeeeccceEEEEEEec-CCCCeEEEEEECcccCCCCCCHHHHHHHHHHHHHHHHHHHhCccc-cccCCChhhHhhceE
Confidence 888777789999999999 678889999999999999999999999999999999999998887 678999999999999
Q ss_pred EEEEEeecCCCCCCccccccCChhhhhhhhhhhHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccc
Q 008738 239 CIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRS 318 (555)
Q Consensus 239 ~~vsv~i~nP~FegQTKekL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~ar~aakkar~~~~~k~~~~~ 318 (555)
+||||+|+||+|+||||++|+|++++.+|++++++.|..||++||++++.|+++++.++++|++ ++|++.|+|..+.
T Consensus 322 ~vvsvki~~P~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~a~~ii~k~~~~a~ar~~--~~~~~~r~k~~~~- 398 (631)
T PRK05559 322 AVLSVKIPEPQFEGQTKEKLGSREARRFVSGVVKDAFDLWLNQNPELAEKLAEKAIKAAQARLR--AAKKVKRKKKTSG- 398 (631)
T ss_pred EEEEEEcCCCcccCcccccccCHhHhhhhhhHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHH--HHHHHhhhccccC-
Confidence 9999999999999999999999999999999999999999999999999999999999999997 4788888887776
Q ss_pred CCCCCCCCCCCCCCCCCceeEEeeccCCCccccccCCCCceeecccCcccccccccCHHHHhhCHhHHHHHHHhcCCccC
Q 008738 319 SSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKG 398 (555)
Q Consensus 319 ~~lpgKL~dc~~~~~~~~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKiLNv~ka~~~ki~~N~Ei~~li~alG~~~~~ 398 (555)
..|||||+||++++|++|||||||||||||||+|||||+||||||||||||||++|+.+||++|+||++|++|||||+ +
T Consensus 399 ~~lpgKL~dc~~~~~~~~eL~lvEGDSAggsak~grdr~~qailPLRGKiLNv~~a~~~ki~~N~Ei~~l~~alG~~~-~ 477 (631)
T PRK05559 399 PALPGKLADCTSQDPERTELFLVEGDSAGGSAKQARDREFQAILPLRGKILNTWEASLDDVLANEEIHDIIVAIGIGP-G 477 (631)
T ss_pred CCCCCcCcccccCCCCCCEEEEEeCCCCccccccccCccceeecccCCeecccccCCHHHHhcChhHHHHHHHhCCCC-C
Confidence 789999999999999999999999999999999999999999999999999999999999999999999999999999 5
Q ss_pred CcCcccccceeeEEEeecCCCCCcchHHhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHHhCC
Q 008738 399 EDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFP 478 (555)
Q Consensus 399 ~~~~~~~LRYgkiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~gk~~~~~~s~~e~~~~~~~~~ 478 (555)
.+||+++||||||||||||||||+|||+|||||||||||+||++||||+|+||||||++||+++||||++|+++|+++++
T Consensus 478 ~~~~~~~LRY~kIiImTDaDvDGsHI~~Llltff~~~~p~Li~~G~v~~~~~Pl~kv~~gk~~~y~~~~~e~~~~~~~~~ 557 (631)
T PRK05559 478 DSFDLEDLRYGKIIIMTDADVDGAHIATLLLTFFYRHFPPLVEAGHVYIALPPLYRVDKGKKKIYALDEEEKEELLKKLG 557 (631)
T ss_pred CccCccccccCeEEEEeCCCCCcchhHHHHHHHHHHhCHhhccCCeEEEecCCEEEEEcCCceEEecCHHHHHHHHHHhc
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999998863
Q ss_pred -CCCCccceeeeccccCChhhHHhhhcCCCceeEEeeccccHHHHHHHHHHhcCCCchHHHHHHHhccccC
Q 008738 479 -SNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLV 548 (555)
Q Consensus 479 -~~~~~~i~ryKGLGe~~~~~l~et~~~p~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~Rk~~i~~~~~~~ 548 (555)
..++|+||||||||||+|+|||||||||++|+|++|+++|++.++++|++|||+++++||+||++|+..+
T Consensus 558 ~~~~~~~i~ryKGLGe~~~~~~~e~~~~p~~r~l~~v~~~d~~~~~~~~~~l~g~~~~~Rk~~i~~~~~~~ 628 (631)
T PRK05559 558 KKGGKPEIQRFKGLGEMNPDQLWETTMDPETRRLVRVTIDDAEETEKLVDMLMGKKAEPRREWIEENGDFA 628 (631)
T ss_pred ccCCCCCceEeCchhhcCHHHHHHHhhCccceeEEEEEccchhhHHHHHHHHhCCCchHHHHHHHHhhhhh
Confidence 2357999999999999999999999999999999999999988999999999999999999999998653
No 6
>PRK14939 gyrB DNA gyrase subunit B; Provisional
Probab=100.00 E-value=2.8e-162 Score=1353.22 Aligned_cols=541 Identities=50% Similarity=0.852 Sum_probs=509.8
Q ss_pred CEEeeecCCCCCCCCCCceeeccccCCcchhhhhhhcceeEEEEEeCCEEEEEEecCCcCCccceeeccCCCCCCCCceE
Q 008738 1 MIVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTR 80 (555)
Q Consensus 1 ~v~t~lhaGgkF~~~~~~yk~sGGlhGvGasvvNalS~~f~V~v~r~gk~y~q~f~~G~~~~~~~~~~~~~~~~~~~GT~ 80 (555)
+|||+|||||||+++ .|++|||+||||+|||||||+||+|+|+|+|+.|+|+|++|+++.+++.+ +.+.++||+
T Consensus 95 lvlt~lhAggKfd~~--~ykvSgGlhGvG~svvNAlS~~l~v~v~r~gk~~~q~f~~G~~~~~l~~~----g~~~~~GT~ 168 (756)
T PRK14939 95 VIMTVLHAGGKFDQN--SYKVSGGLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHGVPVAPLKVV----GETDKTGTE 168 (756)
T ss_pred heeeeecccCCCCCC--cccccCCccCccceEeehccCeEEEEEEeCCeEEEEEEecCccccCcccc----CCcCCCCcE
Confidence 589999999999998 99999999999999999999999999999999999999999999887655 445679999
Q ss_pred EEEEeCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEeccccHHHHHHHHhcCCCCCC-ceeE
Q 008738 81 IRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH-DVVG 159 (555)
Q Consensus 81 V~F~PD~~iF~~~~~~~~~~l~~Rl~elA~Ln~gl~I~l~der~~~~~~~~~~f~~~~Gl~dyv~~l~~~~~~~~-~~i~ 159 (555)
|+|+||+++|+ ...|++++|.+|++++|||||||+|+|+|+|.+ ..+.|+|++||.+|+++++.++++++ ++++
T Consensus 169 V~F~PD~~iF~-~~~~~~~~i~~rl~elA~lnpgl~i~l~der~~----~~~~f~~egGi~~fv~~l~~~~~~~~~~~i~ 243 (756)
T PRK14939 169 VRFWPSPEIFE-NTEFDYDILAKRLRELAFLNSGVRIRLKDERDG----KEEEFHYEGGIKAFVEYLNRNKTPLHPNIFY 243 (756)
T ss_pred EEEEECHHHcC-CcccCHHHHHHHHHHHhhcCCCCEEEEeccCCC----ceeEEEeCChHHHHHHHHhcCCCcCCCCceE
Confidence 99999999996 457999999999999999999999999999964 35689999999999999998888887 5788
Q ss_pred EEEeecceEEEEEEeecCCCCCceeeeeeCccccCCCCcchHHHHHHHHHHHHHHHHhcccCCCCCCCCCHhhhhcccEE
Q 008738 160 FRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTC 239 (555)
Q Consensus 160 ~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~k~~~i~~~dIregL~~ 239 (555)
+.++.+++.|||||||+ ++|+++++||||||+|++|||||+||++||+++||+|++++++.|+++.+++++||||||++
T Consensus 244 ~~~~~~~~~veval~~~-~~~~e~~~SFvN~I~T~~GGTHv~gf~~altr~in~y~~~~~l~K~~~~~l~~~diregl~~ 322 (756)
T PRK14939 244 FSGEKDGIGVEVALQWN-DSYQENVLCFTNNIPQRDGGTHLAGFRAALTRTINNYIEKEGLAKKAKVSLTGDDAREGLTA 322 (756)
T ss_pred EEeeeCCeEEEEEEEEc-CCCceeEEEEECcccCCCCCCHHHHHHHHHHHHHHHHHHHhCcccccCCCCCHhHHhhceEE
Confidence 88887889999999999 68999999999999999999999999999999999999998888877789999999999999
Q ss_pred EEEEeecCCCCCCccccccCChhhhhhhhhhhHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccC
Q 008738 240 IISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSS 319 (555)
Q Consensus 240 ~vsv~i~nP~FegQTKekL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~ar~aakkar~~~~~k~~~~~~ 319 (555)
||||+++||+|+||||++|+|++++.+|++++.+.|..||++||..++.|+++++.+++||+||++||++.|||+++...
T Consensus 323 vvsvki~~P~FegQTK~kL~n~ev~~~v~~~v~e~l~~~l~~np~~a~~ii~k~~~aa~aR~aa~kar~~~rrK~~~~~~ 402 (756)
T PRK14939 323 VLSVKVPDPKFSSQTKDKLVSSEVRPAVESLVNEKLSEFLEENPNEAKIIVGKIIDAARAREAARKARELTRRKGALDIA 402 (756)
T ss_pred EEEEecCCCcccCchhccccCHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999988888
Q ss_pred CCCCCCCCCCCCCCCCceeEEeeccCCCccccccCCCCceeecccCcccccccccCHHHHhhCHhHHHHHHHhcCCccCC
Q 008738 320 SLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGE 399 (555)
Q Consensus 320 ~lpgKL~dc~~~~~~~~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKiLNv~ka~~~ki~~N~Ei~~li~alG~~~~~~ 399 (555)
.|||||+||+++||++|||||||||||||||||||||+|||||||||||||||+|+.+||++|+||++||+|||||++.+
T Consensus 403 ~lpgKL~Dc~~~d~~~~eLfivEGDSAgGsAk~gRdr~~qailPLRGKiLNveka~~~kil~N~Ei~~li~alG~gig~~ 482 (756)
T PRK14939 403 GLPGKLADCQEKDPALSELYLVEGDSAGGSAKQGRDRKFQAILPLKGKILNVEKARFDKMLSSQEIGTLITALGCGIGRD 482 (756)
T ss_pred CCCCCccccccCCCCceEEEEEeCCCCccccccccCccceeccccCCccchhccCCHHHHhcCHHHHHHHHHhCCCCCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999546
Q ss_pred cCcccccceeeEEEeecCCCCCcchHHhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHHhCCC
Q 008738 400 DFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPS 479 (555)
Q Consensus 400 ~~~~~~LRYgkiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~gk~~~~~~s~~e~~~~~~~~~~ 479 (555)
+||+++||||||||||||||||+|||+|||||||||||+||++||||+|+||||||++||++.||||++|+++|+.+++.
T Consensus 483 ~fd~~~LRY~kIiIMTDADvDGsHIrtLLltff~r~~p~Lie~G~vyia~pPLykv~~gk~~~y~~~~~e~~~~l~~~~~ 562 (756)
T PRK14939 483 EFNPDKLRYHKIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGHLYIAQPPLYKVKKGKQEQYLKDDEALDDYLIELAL 562 (756)
T ss_pred cCChhhCCcCeEEEEcCCCCCchHHHHHHHHHHHHhChhhccCCeEEEecCcEEEEecCCeeEecCCHHHHHHHHHHhCc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999765310
Q ss_pred --------------------------------------------------------------------------------
Q 008738 480 -------------------------------------------------------------------------------- 479 (555)
Q Consensus 480 -------------------------------------------------------------------------------- 479 (555)
T Consensus 563 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~ 642 (756)
T PRK14939 563 EGATLHLADGPAISGEALEKLVKEYRAVRKIIDRLERRYPRAVLEALIYAPALDLDDLADEAAVAALDADFLTSAEYRRL 642 (756)
T ss_pred CCceeecCCCCcccHHHHHHHHHHHHHHHHHHhHHhccccHHHHHHHHhccccchhhhcchhhhhhcchhhhcCHHHHHH
Confidence
Q ss_pred ----------------------------------------CCCccceeeeccccCChhhHHhhhcCCCceeEEeeccccH
Q 008738 480 ----------------------------------------NALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDA 519 (555)
Q Consensus 480 ----------------------------------------~~~~~i~ryKGLGe~~~~~l~et~~~p~~r~l~~v~~~d~ 519 (555)
.++..||||||||||+|+|+|+|||||.+|++.|+.++|+
T Consensus 643 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ell~~v~~~gr~g~~Iqr~KgLgEM~~eqL~eTtmdp~~R~l~~v~led~ 722 (756)
T PRK14939 643 VELAEKLRGLIEEGAYLERGERKQPVSSFEEALDWLLAEARKGLSIQRYKGLGEMNPEQLWETTMDPENRRLLQVTIEDA 722 (756)
T ss_pred HHHHHHHHHHhccCcEEEcCCcceecCCHHHHHHHHHhhhccCccccccccHHHhHHHHHHHHhhChhheeeeeeehhhH
Confidence 0012289999999999999999999999999999999999
Q ss_pred HHHHHHHHHhcCCCchHHHHHHHhccccCCcCCCCC
Q 008738 520 AEANVVFSSLMGARVDTRKELIQNAANLVNLDHLDI 555 (555)
Q Consensus 520 ~~~~~~f~~lmg~~~~~Rk~~i~~~~~~~~~~~ld~ 555 (555)
..++++|+.|||+.+++|++||+.++.. +++||+
T Consensus 723 ~~a~~~f~~lMg~~ve~rr~fI~~~a~~--v~~LD~ 756 (756)
T PRK14939 723 IAADEIFTTLMGDEVEPRREFIEENALN--VANLDV 756 (756)
T ss_pred HHHHHHHHHHhcCCcchhHHHHHHhhhh--HhhcCC
Confidence 9999999999999999999999999983 466885
No 7
>smart00433 TOP2c TopoisomeraseII. Eukaryotic DNA topoisomerase II, GyrB, ParE
Probab=100.00 E-value=1.1e-160 Score=1330.57 Aligned_cols=531 Identities=51% Similarity=0.834 Sum_probs=496.2
Q ss_pred CEEeeecCCCCCCCCCCceeeccccCCcchhhhhhhcceeEEEEEeCCEEEEEEecC-CcCCccceeeccCCCCCCCCce
Q 008738 1 MIVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSR-GKPVTTLTCHVLPVDSKDRQGT 79 (555)
Q Consensus 1 ~v~t~lhaGgkF~~~~~~yk~sGGlhGvGasvvNalS~~f~V~v~r~gk~y~q~f~~-G~~~~~~~~~~~~~~~~~~~GT 79 (555)
+|||+||||||||++ +|++|||+||||+|+|||||++|+|+|+|+|+.|.|+|++ |.++.+++.. +.+.++||
T Consensus 59 ~v~~~lhag~kfd~~--~~k~s~G~~G~Gls~vnalS~~l~v~~~~~g~~~~~~~~~~G~~~~~~~~~----~~~~~~GT 132 (594)
T smart00433 59 VIFTVLHAGGKFDDD--AYKVSGGLHGVGASVVNALSTEFEVEVARDGKEYKQSFSNNGKPLSEPKII----GDTKKDGT 132 (594)
T ss_pred HhhhhhcccCCCCCC--CccccCCcccchHHHHHHhcCceEEEEEeCCcEEEEEEeCCCeECccceec----CCCCCCCc
Confidence 479999999999998 9999999999999999999999999999999999999987 7777766543 34557999
Q ss_pred EEEEEeCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEeccccHHHHHHHHhcCCCCCC-cee
Q 008738 80 RIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH-DVV 158 (555)
Q Consensus 80 ~V~F~PD~~iF~~~~~~~~~~l~~Rl~elA~Ln~gl~I~l~der~~~~~~~~~~f~~~~Gl~dyv~~l~~~~~~~~-~~i 158 (555)
+|+|+||+++|.....++++.|.+|++++|+|||||+|+|+|++.. ..++|+|++||.+|+++++.++++++ +++
T Consensus 133 ~V~F~Pd~~~F~~~~~~~~~~i~~rl~~~A~l~pgl~i~l~der~~----~~~~f~~~~Gl~~yv~~~~~~~~~~~~~~i 208 (594)
T smart00433 133 KVTFKPDLEIFGMTTDDDFELLKRRLRELAFLNKGVKITLNDERSD----EEETFLFEGGIKDYVELLNKNKELLSPEPT 208 (594)
T ss_pred EEEEEECHHHhCCcccchHHHHHHHHHHHHhcCCCcEEEEeccCCC----cceEEECCCCHHHHHHHHhCCCCcccCCCe
Confidence 9999999999975447899999999999999999999999999854 34679999999999999998887776 667
Q ss_pred EEEEeecceEEEEEEeecCCCCCceeeeeeCccccCCCCcchHHHHHHHHHHHHHHHHhcccCCCCCCCCCHhhhhcccE
Q 008738 159 GFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLT 238 (555)
Q Consensus 159 ~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~k~~~i~~~dIregL~ 238 (555)
++.++.+++.|||||+|+ ++|+++++||||+|+|++|||||+||+++|+++||+|+++++++|+ .+++++|||+||+
T Consensus 209 ~~~~~~~~~~veval~~~-~~~~~~~~SFvN~I~T~~GGTHv~g~~~al~~~i~~~~~~~~~~k~--~~i~~~diregl~ 285 (594)
T smart00433 209 YIEGEKDNIRVEVAFQYT-DGYSENIVSFVNNIATTEGGTHENGFKDALTRVINEYAKKKKKLKE--KNIKGEDVREGLT 285 (594)
T ss_pred EEEEEeCCcEEEEEEEcc-CCCCcEEEEEECCccCCCCCcHHHHHHHHHHHHHHHHHHHhCcccc--CCCChhhHhhCeE
Confidence 777777788999999999 5788999999999999999999999999999999999999887754 7899999999999
Q ss_pred EEEEEeecCCCCCCccccccCChhhhhhhhhhhHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccc
Q 008738 239 CIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRS 318 (555)
Q Consensus 239 ~~vsv~i~nP~FegQTKekL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~ar~aakkar~~~~~k~~~~~ 318 (555)
+||||+++||+||||||++|+|++++.+|++++++.+..||++||..++.|+++++.++++|++|+++|++.|+| ....
T Consensus 286 ~vIsvki~~P~FegQTK~kL~n~~~~~~v~~~v~~~l~~~l~~n~~~a~~ii~k~~~~a~ar~~a~~~~~~~r~k-~~~~ 364 (594)
T smart00433 286 AFISVKIPEPQFEGQTKEKLGTSEVRFGVEKIVSECLLSFLEENPVEASKIVEKVLLAAKARAAAKKARELTRKK-KLSK 364 (594)
T ss_pred EEEEEEEchheecccccccccChhHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHhHHHhccc-cccc
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999888 6677
Q ss_pred CCCCCCCCCCCCCCCCCceeEEeeccCCCccccccCCCCceeecccCcccccccccCHHHHhhCHhHHHHHHHhcCCccC
Q 008738 319 SSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKG 398 (555)
Q Consensus 319 ~~lpgKL~dc~~~~~~~~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKiLNv~ka~~~ki~~N~Ei~~li~alG~~~~~ 398 (555)
..|||||+||+++++++|||||||||||||||++||||+|||||||||||||||+++.++|++|+||++|++|||||+ +
T Consensus 365 ~~l~~KL~dc~~~~~~~~eL~ivEGDSA~gsak~grdr~~qailPLrGKiLNv~~~~~~ki~~N~Ei~~li~alG~~~-~ 443 (594)
T smart00433 365 ISLPGKLADASSAGPKKCELFLVEGDSAGGSAKSGRDRDFQAILPLRGKLLNVEKASLDKILKNEEIQALITALGLGI-G 443 (594)
T ss_pred ccccccccccccCCCCCcEEEEEecCCCccccccccCccceeecccCCeecchhhccHHHHhhCHHHHHHHHHhCCCc-C
Confidence 889999999999999999999999999999999999999999999999999999999999999999999999999999 5
Q ss_pred CcCcccccceeeEEEeecCCCCCcchHHhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCe--EEEeeCHHHHHHHHHh
Q 008738 399 EDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQ--VQYCYDDAELKKVKSS 476 (555)
Q Consensus 399 ~~~~~~~LRYgkiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~gk~--~~~~~s~~e~~~~~~~ 476 (555)
.+||+++||||||||||||||||+|||+|||||||||||+||++||||+|+||||||++|++ +.+||+++|+.+|+..
T Consensus 444 ~~~~~~~LRY~kIiImtDaDvDG~HI~~Llltff~r~~p~Li~~G~vy~~~~Pl~ki~~g~~~~~~~~~~~~~~~~~~~~ 523 (594)
T smart00433 444 KDFDIEKLRYGKIIIMTDADVDGSHIKGLLLTFFYRYMPPLIEAGFVYIAIPPLYKVTKGKKKYVYSFYSLDEYEKWLET 523 (594)
T ss_pred cccCccccccceEEEEeCCCCCcchhHHHHHHHHHHhChhhhhCCeEEEecCCEEEEEeCCcceEEeehhhHHHHHHHHh
Confidence 67999999999999999999999999999999999999999999999999999999999986 5678889999999875
Q ss_pred CCC-CCCccceeeeccccCChhhHHhhhcCCCceeEEeeccccHHHHHHHHHHhcCCCchHHHHHHHhccc
Q 008738 477 FPS-NALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAAN 546 (555)
Q Consensus 477 ~~~-~~~~~i~ryKGLGe~~~~~l~et~~~p~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~Rk~~i~~~~~ 546 (555)
... .++|+||||||||||+|+|+|||||||++|+|.+|+++|+..++++|++|||+++++||+||++|++
T Consensus 524 ~~~~~~~~~i~ryKGLGe~~~~~~~e~~~~p~~r~l~~v~~~d~~~~~~~~~~l~g~~~~~Rk~~i~~~~~ 594 (594)
T smart00433 524 KGGNKSKYEIQRYKGLGEMNADQLWETTMDPERRTLLFVTLDDADEADLIFSALMGDKVEPRKEWIEENAP 594 (594)
T ss_pred hhccCCCccceeccccccCCHHHHHHHhcCccceeEEEEEcCchhhHHHHHHHHcCCCchHHHHHHHhhCC
Confidence 331 4579999999999999999999999999999999999999888999999999999999999999874
No 8
>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=1.3e-160 Score=1330.95 Aligned_cols=529 Identities=35% Similarity=0.594 Sum_probs=487.4
Q ss_pred CEEeeecCCCCCCCCCCceeeccccCCcchhhhhhhcceeEEEEEeCCEEEEEEecCCcCCccceeeccCCCCC--CCCc
Q 008738 1 MIVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSK--DRQG 78 (555)
Q Consensus 1 ~v~t~lhaGgkF~~~~~~yk~sGGlhGvGasvvNalS~~f~V~v~r~gk~y~q~f~~G~~~~~~~~~~~~~~~~--~~~G 78 (555)
+|||+|||||||+++ .|++|||+||||+|+|||||+||+|+++|+|+.|+|+|++|+++.+++.+ +.. ..+|
T Consensus 88 ~v~t~lhagsK~~~~--~~~~SgG~~GvGls~vnalS~~l~v~~~r~g~~~~~~~~~G~~~~~~~~i----~~~~~~~~G 161 (625)
T TIGR01055 88 VILTTLHAGGKFSNK--NYHFSGGLHGVGISVVNALSKRVKIKVYRQGKLYSIAFENGAKVTDLISA----GTCGKRLTG 161 (625)
T ss_pred HhhhcccccCCCCCC--cceecCCCcchhHHHHHHhcCeEEEEEEECCeEEEEEEECCeEccccccc----cccCCCCCC
Confidence 579999999999988 99999999999999999999999999999999999999999998777644 222 4599
Q ss_pred eEEEEEeCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEeccccHHHHHHHHhcCCCCCCcee
Q 008738 79 TRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVV 158 (555)
Q Consensus 79 T~V~F~PD~~iF~~~~~~~~~~l~~Rl~elA~Ln~gl~I~l~der~~~~~~~~~~f~~~~Gl~dyv~~l~~~~~~~~~~i 158 (555)
|+|+|+||+++|++ ..|+++.|.+|++++|||||||+|+|+|+|.. ..+.|+|++||++|+++++.+++++++++
T Consensus 162 T~V~F~PD~~~F~~-~~~e~~~i~~~l~~lA~lnpgi~~~l~der~~----~~~~f~~~~Gi~~yv~~l~~~~~~~~~~~ 236 (625)
T TIGR01055 162 TSVHFTPDPEIFDS-LHFSVSRLYHILRAKAVLCRGVEIEFEDEVNN----TKALWNYPDGLKDYLSEAVNGDNTLPPKP 236 (625)
T ss_pred eEEEEEECHHHCCC-CccCHHHHHHHHHHHHhhCCCcEEEEeecCCC----ceeEEecCchHHHHHHHHhcCCCCCCCCc
Confidence 99999999999974 57999999999999999999999999999854 24579999999999999988877776443
Q ss_pred -EEEEeecceEEEEEEeecCCCCCceeeeeeCccccCCCCcchHHHHHHHHHHHHHHHHhcccCCCCCCCCCHhhhhccc
Q 008738 159 -GFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGL 237 (555)
Q Consensus 159 -~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~k~~~i~~~dIregL 237 (555)
......+++.++|||+|+.+.|+++++||||||+|++|||||+||++||+++||+|++++++.|+ +.+++++|||+||
T Consensus 237 ~~~~~~~~~~~ve~al~~~~~~~~~~~~SFvN~I~T~~GGTHv~gf~~alt~~in~~~~~~~~~kk-~~~i~~~diregl 315 (625)
T TIGR01055 237 FSGNFEGDDEAVEWALLWLPEGGELFMESYVNLIPTPQGGTHVNGLRQGLLDALREFCEMRNNLPR-GVKLTAEDIWDRC 315 (625)
T ss_pred eEEEEeeCCceEEEEEEEecCCCCEEEEEeeccccCCCCCCHHHHHHHHHHHHHHHHHHHhCcccc-cCCCCHHHHhhcc
Confidence 33333467789999999865677889999999999999999999999999999999998877654 5789999999999
Q ss_pred EEEEEEeecCCCCCCccccccCChhhhhhhhhhhHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc
Q 008738 238 TCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLR 317 (555)
Q Consensus 238 ~~~vsv~i~nP~FegQTKekL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~ar~aakkar~~~~~k~~~~ 317 (555)
++||||+|+||+|+||||++|+|++++.+|++++.+.|..||++||..++.|+++++.++++|+ ++||+..| |+.+.
T Consensus 316 ~~vVsvki~~P~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~a~~i~~k~~~~a~ar~--~~a~~~~r-k~~~~ 392 (625)
T TIGR01055 316 SYVLSIKMQDPQFAGQTKERLSSRQVAKFVSGVIKDAFDLWLNQNVQLAEHLAEHAISSAQRRK--RAAKKVVR-KKLTS 392 (625)
T ss_pred EEEEEEeccCCcccCcccccccCHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHH--HHHHHHhh-ccccc
Confidence 9999999999999999999999999999999999999999999999999999999999999997 77888766 44667
Q ss_pred cCCCCCCCCCCCCCCCCCceeEEeeccCCCccccccCCCCceeecccCcccccccccCHHHHhhCHhHHHHHHHhcCCcc
Q 008738 318 SSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVK 397 (555)
Q Consensus 318 ~~~lpgKL~dc~~~~~~~~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKiLNv~ka~~~ki~~N~Ei~~li~alG~~~~ 397 (555)
...|||||+||++++|++|||||||||||||||+|||||+|||||||||||||||+++.+||++|+||++|++|||||++
T Consensus 393 ~~~lpgKL~dc~~~~~~~~eLfivEGDSA~gsak~grdr~~qailPLRGKiLNv~ka~~~ki~~N~Ei~~li~alG~g~~ 472 (625)
T TIGR01055 393 GPALPGKLADCTRQDLEGTELFLVEGDSAGGSAKQARDREYQAILPLWGKILNTWEVSLDKVLNSQEIHDIEVALGIDPD 472 (625)
T ss_pred CCCCCccccccccCCCCceEEEEEecCCCCccccccCCcceeEEeccCCceeecccCCHHHhhcCHHHHHHHHHhCCCcc
Confidence 78899999999999999999999999999999999999999999999999999999999999999999999999999994
Q ss_pred CCcCcccccceeeEEEeecCCCCCcchHHhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHHhC
Q 008738 398 GEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSF 477 (555)
Q Consensus 398 ~~~~~~~~LRYgkiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~gk~~~~~~s~~e~~~~~~~~ 477 (555)
.+ ++++||||||||||||||||+|||+|||||||||||+||++||||+|+||||||++||+++|+|+|.|++++++++
T Consensus 473 -~~-~~~~LRY~kiiImTDADvDG~HI~~LLltff~r~~p~Li~~G~vy~~~~Pl~kv~~gk~~~y~~~e~e~~~~~~~~ 550 (625)
T TIGR01055 473 -SN-DLSQLRYGKICILADADSDGLHIATLLCALFFLHFPKLVEEGHVYVAKPPLYRIDLSKEVYYALDEEEKEKLLYKL 550 (625)
T ss_pred -cc-cccccccceEEEEeCCCCCcchhHHHHHHHHHHhCHhhccCCeEEEEeCCEEEEecCCceEEcCCHHHHHHHHHhh
Confidence 44 5999999999999999999999999999999999999999999999999999999999999999999999998765
Q ss_pred CC-CCCccceeeeccccCChhhHHhhhcCCCceeEEeeccccHHH--HHHHHHHhcCCC-chHHHHHHHhccc
Q 008738 478 PS-NALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAE--ANVVFSSLMGAR-VDTRKELIQNAAN 546 (555)
Q Consensus 478 ~~-~~~~~i~ryKGLGe~~~~~l~et~~~p~~r~l~~v~~~d~~~--~~~~f~~lmg~~-~~~Rk~~i~~~~~ 546 (555)
++ .++|+||||||||||+|+|||||||||++|+|++|+++|++. ++++|++|||++ +++||+||++|+.
T Consensus 551 ~~~~~~~~i~ryKGLGe~~~~~~~e~~~~p~~r~l~~v~~~~~~~~~~~~~~~~lmg~~~~~~Rk~~i~~~~~ 623 (625)
T TIGR01055 551 KKKKGKPNVQRFKGLGEMNPAQLRETTMDPNTRRLVQLTLDDVQDQRVDKIMDMLLAKKRSEDRFNWLQEKGD 623 (625)
T ss_pred cccCCCcceeEecccchhhHHHHHHHhhCccceecccccccchhhhhHHHHHHHHhCCCCCchhHHHHHhccc
Confidence 43 246999999999999999999999999999999999999864 899999999999 9999999999985
No 9
>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=2.6e-158 Score=1325.40 Aligned_cols=542 Identities=53% Similarity=0.917 Sum_probs=510.2
Q ss_pred CEEeeecCCCCCCCCCCceeeccccCCcchhhhhhhcceeEEEEEeCCEEEEEEecCCcCCccceeeccCCCCCCCCceE
Q 008738 1 MIVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTR 80 (555)
Q Consensus 1 ~v~t~lhaGgkF~~~~~~yk~sGGlhGvGasvvNalS~~f~V~v~r~gk~y~q~f~~G~~~~~~~~~~~~~~~~~~~GT~ 80 (555)
+|||+|||||||+++ +|++|||+||+|+++|||||+||+|+++|+|+.|+|+|++|+++.+++.. +.+..+||+
T Consensus 88 ~i~~~l~ag~kf~~~--~~k~s~G~~G~gl~~inalS~~l~v~~~~~g~~~~~~~~~G~~~~~l~~~----~~~~~~GT~ 161 (654)
T TIGR01059 88 VVLTVLHAGGKFDKD--SYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFERGIPLGPLEVV----GETKKTGTT 161 (654)
T ss_pred HheeeecccCccCCC--cceecCCccchhHHHHHHhcCeEEEEEEECCeEEEEEEeCCCcccCceec----cCCCCCCcE
Confidence 479999999999998 99999999999999999999999999999999999999999999877544 445679999
Q ss_pred EEEEeCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEeccccHHHHHHHHhcCCCCCC-ceeE
Q 008738 81 IRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH-DVVG 159 (555)
Q Consensus 81 V~F~PD~~iF~~~~~~~~~~l~~Rl~elA~Ln~gl~I~l~der~~~~~~~~~~f~~~~Gl~dyv~~l~~~~~~~~-~~i~ 159 (555)
|+|+|||++|. +..++++.|.+|++++|+|||||+|+|+++|... .+.+.|+|++||.+|+++++.++++++ ++++
T Consensus 162 V~F~pdp~~F~-~~~~e~~~i~~rl~~~A~l~pgl~i~l~~er~~~--~~~~~f~~~~Gl~~yv~~l~~~~~~l~~~~i~ 238 (654)
T TIGR01059 162 VRFWPDPEIFE-TTEFDFDILAKRLRELAFLNSGVKISLEDERDGK--GKSVTFHYEGGIKSFVKYLNRNKEPLHEEIIY 238 (654)
T ss_pred EEEEEChHHhC-CcccCHHHHHHHHHHhhccCCCeEEEEEeecCCC--CceeEEEcCCcHHHHHHHHhcCCCcCCCCCeE
Confidence 99999999997 5689999999999999999999999999998531 135689999999999999988888876 6788
Q ss_pred EEEeecceEEEEEEeecCCCCCceeeeeeCccccCCCCcchHHHHHHHHHHHHHHHHhcccCCCCCCCCCHhhhhcccEE
Q 008738 160 FRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTC 239 (555)
Q Consensus 160 ~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~k~~~i~~~dIregL~~ 239 (555)
+.++.++++||||++|+ ++|+++++||||+|+|++|||||+||++||+++||+|+++++++|+++.+++++|||+||++
T Consensus 239 ~~~~~~~~~veva~~~~-~~~~~~~~SFvN~I~T~~GGTHv~g~~~al~~~i~~~~~~~~l~K~~~~~i~~~diregl~~ 317 (654)
T TIGR01059 239 IKGEKEGIEVEVALQWN-DGYSENILSFVNNINTREGGTHLEGFRSALTRVINSYAKNNKLLKESKPNLTGEDIREGLTA 317 (654)
T ss_pred EEecccCeEEEEEEEec-CCCceeEEEEECcccCCCCCcHHHHHHHHHHHHHHHHHHHhCcccccCCCCCHHHHhhccEE
Confidence 88776788999999999 67889999999999999999999999999999999999998888877789999999999999
Q ss_pred EEEEeecCCCCCCccccccCChhhhhhhhhhhHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccC
Q 008738 240 IISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSS 319 (555)
Q Consensus 240 ~vsv~i~nP~FegQTKekL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~ar~aakkar~~~~~k~~~~~~ 319 (555)
||||+|+||+|+||||++|+|++++.+|.+++.+.|..||++||+.++.|+++++.++++|++++++|++.|+|+.....
T Consensus 318 vvsv~i~~P~F~gQTK~kL~~~~v~~~v~~~v~~~l~~~l~~n~~~a~~iv~k~~~~a~~r~~a~~~k~~~r~k~~~~~~ 397 (654)
T TIGR01059 318 VISVKVPDPQFEGQTKTKLGNSEVRSIVESLVYEKLTEFFEENPQEAKAIVEKAILAAQAREAARKARELTRRKSALDSG 397 (654)
T ss_pred EEEEecCCCcccCcccccccChhHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHhHHHhhcccccccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999998887778
Q ss_pred CCCCCCCCCCCCCCCCceeEEeeccCCCccccccCCCCceeecccCcccccccccCHHHHhhCHhHHHHHHHhcCCccCC
Q 008738 320 SLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGE 399 (555)
Q Consensus 320 ~lpgKL~dc~~~~~~~~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKiLNv~ka~~~ki~~N~Ei~~li~alG~~~~~~ 399 (555)
.|||||+||++++|++|||||||||||||||++||||+|||||||||||||||+++.++|++|+||++|++||||++ +.
T Consensus 398 ~lpgKL~dc~~~~~~~~eL~lvEGDSA~gsak~gRd~~~qai~PLrGKiLNv~~~~~~ki~~n~Ei~~l~~~lG~~~-~~ 476 (654)
T TIGR01059 398 GLPGKLADCSSKDPSKSELYIVEGDSAGGSAKQGRDRKFQAILPLRGKILNVEKARLDKILSNQEIGAIITALGCGI-GK 476 (654)
T ss_pred CCCcCccCcccCCCCCCEEEEEecCCCCcccccccccccccccccCCccchhccCCHHHHhhChHHHHHHHHhCCCc-cc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999 57
Q ss_pred cCcccccceeeEEEeecCCCCCcchHHhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeE------------------
Q 008738 400 DFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQV------------------ 461 (555)
Q Consensus 400 ~~~~~~LRYgkiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~gk~~------------------ 461 (555)
+||+++|||||||||||||+||+||++|||||||||||+||++||||+|+||||||++||++
T Consensus 477 ~~~~~~LrY~kiiImtDaD~DG~HI~~Lll~ff~~~~p~Li~~g~~~~~~~Pl~kv~~g~~~~~~~~~~~~~~~~~~~~~ 556 (654)
T TIGR01059 477 DFDLEKLRYHKIIIMTDADVDGSHIRTLLLTFFYRYMRPLIENGYVYIAQPPLYKVKKGKKERYIKDDKEKELVGEALED 556 (654)
T ss_pred cccccccccceEEEEeCCCCCcchhHHHHHHHHHHhcHhhccCCeEEEecCCEEEEEeCCeeeecccchhhhcccccccc
Confidence 89999999999999999999999999999999999999999999999999999999999988
Q ss_pred ---EEeeCHHHHHHHHHhCC---CCCCccceeeeccccCChhhHHhhhcCCCceeEEeeccccHHHHHHHHHHhcCCCch
Q 008738 462 ---QYCYDDAELKKVKSSFP---SNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVD 535 (555)
Q Consensus 462 ---~~~~s~~e~~~~~~~~~---~~~~~~i~ryKGLGe~~~~~l~et~~~p~~r~l~~v~~~d~~~~~~~f~~lmg~~~~ 535 (555)
.||||++|+++|++.++ ..++|+||||||||||+|+|+|||||||++|+|.|++++|+..++++|++|||++++
T Consensus 557 ~~e~Y~~dd~e~e~~l~~l~~~~~~~~~~IqryKGLGem~~~~l~ettmdp~~R~l~~v~l~d~~~~~~~f~~lmg~~~~ 636 (654)
T TIGR01059 557 LRALYIYSDKEKEEAKTQIPVHEGRKGIEIQRYKGLGEMNADQLWETTMDPESRTLLKVTIEDAVEADRIFSTLMGDEVE 636 (654)
T ss_pred ccceecCCHHHHHHHHHhccccccCCCcceeeeCchhhcCHHHHHHHhcCcccceeeeeecchHHHHHHHHHHHhCCCch
Confidence 89999999999998763 134799999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhccccCCcCCCCC
Q 008738 536 TRKELIQNAANLVNLDHLDI 555 (555)
Q Consensus 536 ~Rk~~i~~~~~~~~~~~ld~ 555 (555)
+||+||++++.. .++||+
T Consensus 637 ~Rk~~I~~~~~~--~~~ld~ 654 (654)
T TIGR01059 637 PRREFIEANALD--VKNLDV 654 (654)
T ss_pred HHHHHHHHhhhh--HhhcCC
Confidence 999999999973 455775
No 10
>PHA02569 39 DNA topoisomerase II large subunit; Provisional
Probab=100.00 E-value=4e-154 Score=1271.31 Aligned_cols=484 Identities=29% Similarity=0.455 Sum_probs=440.2
Q ss_pred CEEeeecCCCCCCCCCCceeeccccCCcchhhhhhhcceeEEEEEeCCEEEEEEecCCcCCccceeeccCCCCCCCCceE
Q 008738 1 MIVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTR 80 (555)
Q Consensus 1 ~v~t~lhaGgkF~~~~~~yk~sGGlhGvGasvvNalS~~f~V~v~r~gk~y~q~f~~G~~~~~~~~~~~~~~~~~~~GT~ 80 (555)
||||+|||||||| + +||+||||||||+|||||||+||+|+|+|+|+.|+|+|++|+++.+++ . +.+.++||+
T Consensus 108 ~i~t~LhaGgkFd-~--~ykvSGGlhGVG~svvNaLS~~~~V~v~~~~~~~~q~f~~G~~~~~~~-~----~~~~~~GT~ 179 (602)
T PHA02569 108 AAWTRTKAGSNFD-D--TNRVTGGMNGVGSSLTNFFSVLFIGETCDGKNEVTVNCSNGAENISWS-T----KPGKGKGTS 179 (602)
T ss_pred EEEEeeccccccC-C--cceeeCCcCCccceeeeccchhhheEEEcCCEEEEEEecCCcccCCcc-c----CCCCCCccE
Confidence 6899999999994 5 799999999999999999999999999999999999999999887763 2 445679999
Q ss_pred EEEEeCcccccccccCC---HHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEeccccHHHHHHHHhcCCCCCCce
Q 008738 81 IRFWPDKQVFTTAIQFD---HNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDV 157 (555)
Q Consensus 81 V~F~PD~~iF~~~~~~~---~~~l~~Rl~elA~Ln~gl~I~l~der~~~~~~~~~~f~~~~Gl~dyv~~l~~~~~~~~~~ 157 (555)
|+||||++||++ ..|+ +++|.+||+|+|||||||+|+|+|+|.+ +||.+|+++++. ++
T Consensus 180 V~F~PD~~iF~~-~~~~~~~~~~l~~Rl~elA~Ln~Gl~I~l~der~~------------~g~~~yv~~~~~------~~ 240 (602)
T PHA02569 180 VTFIPDFSHFEV-NGLDQQYLDIILDRLQTLAVVFPDIKFTFNGKKVS------------GKFKKYAKQFGD------DT 240 (602)
T ss_pred EEEEECHHHhCC-CccCccHHHHHHHHHHHHhcCCCCCEEEEEecCCC------------CCHHHHHHHhCC------CC
Confidence 999999999975 4676 7899999999999999999999999832 699999999853 24
Q ss_pred eEEEEeecceEEEEEEeecCCCCCceeeeeeCccccCCCCcchHHHHHHHHHHHHHHHHhcccCCCCCCCCCHhhhhccc
Q 008738 158 VGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGL 237 (555)
Q Consensus 158 i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~k~~~i~~~dIregL 237 (555)
++++. + .|+||++|+.++| +++||||||+|++|||||+||++||+++||+|+++. ++.+++++||||||
T Consensus 241 i~~~~--~--~veva~~~~~~~~--~~~SFvN~I~T~~GGTHv~gf~~altr~in~~~~kk-----~~~~l~~~diregL 309 (602)
T PHA02569 241 IVQEN--D--NVSIALAPSPDGF--RQLSFVNGLHTKNGGHHVDCVMDDICEELIPMIKKK-----HKIEVTKARVKECL 309 (602)
T ss_pred eEEec--C--cEEEEEEecCCCc--EEEEEECcccCCCCCCHHHHHHHHHHHHHHHHHHhc-----ccCCCCHHHHHhCC
Confidence 55532 2 5899999985566 479999999999999999999999999999999762 23579999999999
Q ss_pred EEEEEEe-ecCCCCCCccccccCCh--hhhhhhhhhhHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHH---HHHh
Q 008738 238 TCIISVR-VPNPEFEGQTKTRLGNP--EVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRAR---DLVR 311 (555)
Q Consensus 238 ~~~vsv~-i~nP~FegQTKekL~n~--~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~ar~aakkar---~~~~ 311 (555)
++||||+ ++||+|+||||++|+|+ +++.+| +++.+.|..||++||.+++.|+++++.+++||+++++++ +..|
T Consensus 310 ~avVsvk~i~~P~FegQTK~kL~~~~~~~~~~v-~~~~~~l~~~l~~n~~~~~~i~~~a~~~~~ar~a~~~~k~~k~~~r 388 (602)
T PHA02569 310 TIVLFVRNMSNPRFDSQTKERLTSPFGEIRNHI-DLDYKKIAKQILKTEAIIMPIIEAALARKLAAEKAAETKAAKKAKK 388 (602)
T ss_pred EEEEEEeccCCCcccCcccccccCChHHhccce-eehHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhh
Confidence 9999998 99999999999999999 689999 999999999999999999999999999999999886443 6666
Q ss_pred hcccc-ccCCCCCCCCCCCCCCCCCceeEEeeccCCCccccccCCCCceeecccCcccccccccCHHHHhhCHhHHHHHH
Q 008738 312 QKSVL-RSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIR 390 (555)
Q Consensus 312 ~k~~~-~~~~lpgKL~dc~~~~~~~~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKiLNv~ka~~~ki~~N~Ei~~li~ 390 (555)
+|... ....|||| |++|||||||||||||||+|||||+|||||||||||||||+|+.+||++|+||++|++
T Consensus 389 ~k~~~~~~a~lpGk--------~~~~eL~ivEGDSAggsAk~~RdR~~qaIlPLRGKiLNV~ka~~~ki~~N~Ei~~li~ 460 (602)
T PHA02569 389 AKVAKHIKANLIGK--------DAETTLFLTEGDSAIGYLIEVRDEELHGGYPLRGKVLNTWGMSYADILKNKELFDICA 460 (602)
T ss_pred ccccccccCCCCCC--------CCCceEEEEecCCCCcccccccCccceeecccCCcccchhhCCHHHhhcchhHHHHHH
Confidence 66554 35778888 7899999999999999999999999999999999999999999999999999999999
Q ss_pred HhcCCccCCcCcccccceeeEEEeecCCCCC-cchHHhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHHH
Q 008738 391 ALGLGVKGEDFKKEALRYHKIIILTDADVDG-AHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAE 469 (555)
Q Consensus 391 alG~~~~~~~~~~~~LRYgkiiimtDaD~DG-~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~gk~~~~~~s~~e 469 (555)
|||||+ +.+|+ +|||||||||||||||| ||||||||||||| ||+||++||||+|+||||||++||+++||||++|
T Consensus 461 alG~g~-g~~~~--~LRY~kIiImTDADvDG~sHIr~LLltff~~-~p~Li~~G~v~~~~~Pl~kv~~gk~~~~~~~~~e 536 (602)
T PHA02569 461 ITGLVL-GEKAE--NMNYKNIAIMTDADVDGKGSIYPLLLAFFSR-WPELFEQGRIRFVKTPVIIAQVGKETKWFYSLDE 536 (602)
T ss_pred HhCCCc-Ccccc--ccccCcEEEEecCCCcchHHHHHHHHHHHHh-chhhccCCeEEEecCCEEEEEcCCeeEEecCHHH
Confidence 999999 45664 99999999999999999 9999999999999 9999999999999999999999999999999999
Q ss_pred HHHHHHhCCCCCCccceeeeccccCChhhHHhhhcCCCceeEEeeccccHHHHHHHHHHhcCCCchHHHHHHHh
Q 008738 470 LKKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQN 543 (555)
Q Consensus 470 ~~~~~~~~~~~~~~~i~ryKGLGe~~~~~l~et~~~p~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~Rk~~i~~ 543 (555)
|++|++++ ++|+||||||||||+|+|+|||||||+ |.+++++|. ++++|++|||+++++||+||.+
T Consensus 537 ~~~~~~~~---~~~~i~~yKGLGe~~~~~~~e~~~~p~---l~~~~~~d~--~~~~~~~l~g~~~~~Rk~wi~~ 602 (602)
T PHA02569 537 FEKAKDSL---KKWSIRYIKGLGSLRKSEYRRVINNPV---YDVVVLPDD--WKELFEMLFGDDADLRKDWMSQ 602 (602)
T ss_pred HHHHHHhc---CCcceEEeccCCCCCHHHHHHHhcCcc---cEEEecCch--HHHHHHHHhCCCchHHHHHhhC
Confidence 99999865 369999999999999999999999998 778888884 7899999999999999999964
No 11
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=100.00 E-value=2.1e-151 Score=1315.32 Aligned_cols=515 Identities=25% Similarity=0.358 Sum_probs=463.7
Q ss_pred CEEeeecCCCCCCCCCCceeeccccCCcchhhhhhhcceeEEEEEeC--CEEEEEEecCCcCCccceeeccCCCCC-C-C
Q 008738 1 MIVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRD--GMEYHQKYSRGKPVTTLTCHVLPVDSK-D-R 76 (555)
Q Consensus 1 ~v~t~lhaGgkF~~~~~~yk~sGGlhGvGasvvNalS~~f~V~v~r~--gk~y~q~f~~G~~~~~~~~~~~~~~~~-~-~ 76 (555)
||||+||||||||++ +||+||||||||||||||||++|+|+|+|+ |+.|+|+|++||.+...+++ ++. . +
T Consensus 120 lIft~L~aGgkfdd~--~yKvSGGlhGVGasvvNalS~~f~Vev~r~~~gk~y~q~f~~Gm~~~~~p~i----~~~~~~~ 193 (1388)
T PTZ00108 120 MIFGHLLTSSNYDDT--EKRVTGGRNGFGAKLTNIFSTKFTVECVDSKSGKKFKMTWTDNMSKKSEPRI----TSYDGKK 193 (1388)
T ss_pred EEEEEeeccccCCCC--ceeeecccccCCccccccccceEEEEEEECCCCCEEEEEecCCCcCCCCCcc----CCCCCCC
Confidence 699999999999998 999999999999999999999999999999 99999999999854322233 222 3 7
Q ss_pred CceEEEEEeCcccccccccCCHHH---HHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEeccccHHHHHHHH---hcC
Q 008738 77 QGTRIRFWPDKQVFTTAIQFDHNT---IAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWL---NTD 150 (555)
Q Consensus 77 ~GT~V~F~PD~~iF~~~~~~~~~~---l~~Rl~elA~Ln~gl~I~l~der~~~~~~~~~~f~~~~Gl~dyv~~l---~~~ 150 (555)
+||+|+|+||++||++ ..|++++ |.+||+|+|||||||+|+|+|+|. |+.+|++++ +.+
T Consensus 194 ~GT~VtF~PD~~iF~~-~~fd~d~~~ll~~Rl~dlA~ln~GLkI~lnder~--------------gi~~F~~y~~ly~~~ 258 (1388)
T PTZ00108 194 DYTKVTFYPDYAKFGM-TEFDDDMLRLLKKRVYDLAGCFGKLKVYLNGERI--------------AIKSFKDYVDLYLPD 258 (1388)
T ss_pred CceEEEEEeCHHHcCC-CccChHHHHHHHHHHHHHhcCCCCcEEEEeCccc--------------cHHHHHHHHHhhccC
Confidence 9999999999999985 4799998 999999999999999999999873 455555554 555
Q ss_pred CCCCCceeE-EEEeecceEEEEEEeecCCCCCceeeeeeCccccCCCCcchHHHHHHHHHHHHHHHHhcccCCCCCCCCC
Q 008738 151 KKPLHDVVG-FRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLS 229 (555)
Q Consensus 151 ~~~~~~~i~-~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~k~~~i~ 229 (555)
..++.++++ +.++.++.+|||||+|++ ++++++||||||+|++|||||+||+++|+++|++|++++ |+++.+++
T Consensus 259 ~~~~~~~~~~~~~~~~~~~~eVal~~s~--~~~~~~SFVN~I~T~~GGTHv~g~~~alt~~i~~~~k~k---kk~~~~i~ 333 (1388)
T PTZ00108 259 GEEGKKPPYPFVYTSVNGRWEVVVSLSD--GQFQQVSFVNSICTTKGGTHVNYILDQLISKLQEKAKKK---KKKGKEIK 333 (1388)
T ss_pred CccCCCCceeeeccccCceEEEEEEEeC--CCceEEEEEcccccCCCCCHHHHHHHHHHHHHHHHHHHh---cccCCCCC
Confidence 555544444 555656789999999994 578899999999999999999999999999999999863 33457899
Q ss_pred HhhhhcccEEEEEEeecCCCCCCccccccCChhhhhhhhhhhHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008738 230 GEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDL 309 (555)
Q Consensus 230 ~~dIregL~~~vsv~i~nP~FegQTKekL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~ar~aakkar~~ 309 (555)
++|||+||++||||+|+||+|+||||++|+|++++.++.+.+.+.|..||.+ ..|+++++.++++|++++++|++
T Consensus 334 ~~dIregl~~~Vs~~i~nP~FdsQTKekL~~~~~~~~~~~~v~e~l~~~l~~-----~~Ivekil~~a~aR~aa~~ak~~ 408 (1388)
T PTZ00108 334 PNQIKNHLWVFVNCLIVNPSFDSQTKETLTTKPSKFGSTCELSEKLIKYVLK-----SPILENIVEWAQAKLAAELNKKM 408 (1388)
T ss_pred HHHHHhCcEEEEEEecCCCccCCcccccccChhhHHHHHHHHHHHHHHHHhh-----hHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999987 35888999999999999999998
Q ss_pred HhhccccccCCCCCCCCCCC---CCCCCCceeEEeeccCCCcccccc---CCCCceeecccCcccccccccCHHHHhhCH
Q 008738 310 VRQKSVLRSSSLPGKLADCS---STTPEESEIFIVEGDSAGGSAKQG---RDRRFQAILPLRGKILNVERKDEAAMYKNE 383 (555)
Q Consensus 310 ~~~k~~~~~~~lpgKL~dc~---~~~~~~~eL~lvEGDSA~gsa~~g---Rdr~~qai~PLrGKiLNv~ka~~~ki~~N~ 383 (555)
.++| ..... .|+||+||+ ++++++|||||||||||||||++| |||+|||||||||||||||+|+.++|++|+
T Consensus 409 ~~~K-~~~~~-~ipKL~Dc~~aG~k~~~~ceL~lvEGDSAggsAk~Gl~vrdR~~qaVfPLRGKiLNV~kas~~ki~~N~ 486 (1388)
T PTZ00108 409 KAGK-KSRIL-GIPKLDDANDAGGKNSEECTLILTEGDSAKALALAGLSVVGRDYYGVFPLRGKLLNVRDASLKQLMNNK 486 (1388)
T ss_pred hhhh-hhccc-CchhhhhcccccCCChhhcEEEEEecCcccchhhhcccccCccceeeeccCCcccccccccHhhhhccH
Confidence 8777 33333 445999998 689999999999999999999999 799999999999999999999999999999
Q ss_pred hHHHHHHHhcCCccCCcCcccccceeeEEEeecCCCCCcchHHhHHHHHHHHHHHhhh-cCcEEEecCCeEEEEe-CCeE
Q 008738 384 EIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFD-EGCIYVGVPPLYKVER-GKQV 461 (555)
Q Consensus 384 Ei~~li~alG~~~~~~~~~~~~LRYgkiiimtDaD~DG~HI~~Llltff~~~~p~Li~-~g~v~~~~tPl~kv~~-gk~~ 461 (555)
||++|++||||+++.+++|+++|||||||||||||+||+|||||||||||||||+||+ +||||+|+||||||++ |+++
T Consensus 487 EI~~li~aLGlg~g~~y~d~~~LRYgkIiIMTDADvDGsHIr~LLlnff~~~~p~Li~~~Gfl~~~~tPl~kv~k~gk~~ 566 (1388)
T PTZ00108 487 EIQNLFKILGLDIGKKYEDPKGLRYGSLMIMTDQDHDGSHIKGLLINMIHHFWPSLLKNPGFLKEFITPIVKATKKGNQV 566 (1388)
T ss_pred HHHHHHHHhCCCcCccccccccCCCCeEEEEeCCCCCccHHHHHHHHHHHHhhHHhcccCCEEEEecCCEEEEEECCcee
Confidence 9999999999999655589999999999999999999999999999999999999999 9999999999999999 9999
Q ss_pred EEeeCHHHHHHHHHhCCCCCCccceeeeccccCChhhHHhhhcCCCceeEEeeccccHHHHHHHHHHhcCCC-chHHHHH
Q 008738 462 QYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGAR-VDTRKEL 540 (555)
Q Consensus 462 ~~~~s~~e~~~~~~~~~~~~~~~i~ryKGLGe~~~~~l~et~~~p~~r~l~~v~~~d~~~~~~~f~~lmg~~-~~~Rk~~ 540 (555)
+||||++||++|+++++ .++|+||||||||||+|+|+|||||||+ |++++|+++|+ .++++|+++||++ +++||+|
T Consensus 567 ~~fys~~E~e~~~~~~~-~~~~~IkyyKGLGe~~~~e~~eyf~~~~-r~~i~~~~~~~-~~~~~idl~fgk~~a~~RK~w 643 (1388)
T PTZ00108 567 ISFFTIPDFEKWKQTVG-LKGWKIKYYKGLGTSTDKEGKEYFSNID-KHRIRFVYVDD-SDDDSIDLAFSKKRVEDRKEW 643 (1388)
T ss_pred EEecCHHHHHHHHHHcC-CCCCccccccchhhcCHHHHHHHhcccC-ceEEEEecCCc-cHHHHHHHHhCCCChHHHHHH
Confidence 99999999999999875 4579999999999999999999999999 77899998887 4789999999986 9999999
Q ss_pred HHhccccCCcC
Q 008738 541 IQNAANLVNLD 551 (555)
Q Consensus 541 i~~~~~~~~~~ 551 (555)
|.++++..++|
T Consensus 644 i~~~~~~~~~d 654 (1388)
T PTZ00108 644 ITNYKGGTYVD 654 (1388)
T ss_pred HHhhCcccccc
Confidence 99999987764
No 12
>PLN03128 DNA topoisomerase 2; Provisional
Probab=100.00 E-value=2.4e-148 Score=1281.96 Aligned_cols=517 Identities=24% Similarity=0.356 Sum_probs=453.7
Q ss_pred CEEeeecCCCCCCCCCCceeeccccCCcchhhhhhhcceeEEEEE--eCCEEEEEEecCCcCCccceeeccCCCCCCCCc
Q 008738 1 MIVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVW--RDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQG 78 (555)
Q Consensus 1 ~v~t~lhaGgkF~~~~~~yk~sGGlhGvGasvvNalS~~f~V~v~--r~gk~y~q~f~~G~~~~~~~~~~~~~~~~~~~G 78 (555)
||||+||||||||++ +||+||||||||||||||||+||+|+|+ |+|++|+|+|++||++.+++++ .....+++|
T Consensus 112 lIft~LhaGgkFdd~--~ykvSGGlhGvGasvvNaLS~~f~Vev~d~r~gk~y~q~f~~G~~~~~~p~i--~~~~~~~~G 187 (1135)
T PLN03128 112 LIFGHLLTSSNFDDN--EKKTTGGRNGYGAKLANIFSTEFTVETADGNRGKKYKQVFTNNMSVKSEPKI--TSCKASENW 187 (1135)
T ss_pred EEEEeeccccccCCc--cceeeccccCCCCeEEEeecCeEEEEEEECCCCeEEEEEeCCCcccCCCcee--ccCCCCCCc
Confidence 699999999999998 9999999999999999999999999999 8999999999999998877655 112224699
Q ss_pred eEEEEEeCcccccccccCCHH---HHHHHHHHHh-hcCCCcEEEEeecCCCCCCCcceeEeccccHHHHHHHH-hcCCCC
Q 008738 79 TRIRFWPDKQVFTTAIQFDHN---TIAGRIRELA-FLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWL-NTDKKP 153 (555)
Q Consensus 79 T~V~F~PD~~iF~~~~~~~~~---~l~~Rl~elA-~Ln~gl~I~l~der~~~~~~~~~~f~~~~Gl~dyv~~l-~~~~~~ 153 (555)
|+|+|+||++||++ ..|+++ +|.+|++|+| ||||||+|+|+|+|.. .+||.+||+++ +.++++
T Consensus 188 T~ItF~PD~~iF~~-~~fd~d~~~~l~kRl~elAa~Ln~GlkI~Lnder~~-----------~~G~~dyv~~~~~~~~~~ 255 (1135)
T PLN03128 188 TKITFKPDLAKFNM-TRLDEDVVALMSKRVYDIAGCLGKKLKVELNGKKLP-----------VKSFQDYVGLYLGPNSRE 255 (1135)
T ss_pred eEEEEEECHHHcCC-CccChHHHHHHHHHHHHHHHhCCCCcEEEEecCCCC-----------CCCHHHHHHHHhcCCCCC
Confidence 99999999999985 479987 5899999999 9999999999999843 26999999964 444433
Q ss_pred CCceeEEEEeecceEEEEEEeecCCCCCceeeeeeCccccCCCCcchHHHHHHHHHHHHHHHHhcccCCCCCCCCCHhhh
Q 008738 154 LHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHV 233 (555)
Q Consensus 154 ~~~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~k~~~i~~~dI 233 (555)
...++.++++ +.+||||++|++ + +++++||||||+|++|||||+||+++|++.+++++++++ | ++.+++++||
T Consensus 256 ~~~~i~~~~~--~~~~eva~~~s~-~-~~~~~SFVN~I~T~~GGTHv~g~~~~i~~~i~~~~~kk~--K-~~~~l~~~di 328 (1135)
T PLN03128 256 DPLPRIYEKV--NDRWEVCVSLSD-G-SFQQVSFVNSIATIKGGTHVDYVADQIVKHIQEKVKKKN--K-NATHVKPFQI 328 (1135)
T ss_pred CCCCeEEEec--CceEEEEEEEcC-C-CceEEEEECcEecCCCCchHHHHHHHHHHHHHHHHHHcc--C-CCCCCCHHHH
Confidence 3345666554 346999999995 4 567999999999999999999999999999999997754 2 2457999999
Q ss_pred hcccEEEEEEeecCCCCCCccccccCChhhhhhhhhhhHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 008738 234 REGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQK 313 (555)
Q Consensus 234 regL~~~vsv~i~nP~FegQTKekL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~ar~aakkar~~~~~k 313 (555)
|+||++||||+|+||+|+||||++|+|++++.+|++++++.|..||. +..|+++++.++++|++++++|+..++|
T Consensus 329 regL~~vIs~ki~nP~FesQTKekL~s~~~~~~v~~~v~e~~~~~l~-----~~~Ivekil~~a~aR~aa~~~k~~~~kk 403 (1135)
T PLN03128 329 KNHLWVFVNCLIENPTFDSQTKETLTTRPSSFGSKCELSEEFLKKVE-----KCGVVENILSWAQFKQQKELKKKDGAKR 403 (1135)
T ss_pred HhCcEEEEEEecCCCcccCcccccccChhHHHHHHHHHHHHHHHHHh-----hHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 99999999999999999999999999999999999999999999995 3478888888999999999888877776
Q ss_pred cccccCCCCCCCCCCC---CCCCCCceeEEeeccCCCcccccc---CCCCceeecccCcccccccccCHHHHhhCHhHHH
Q 008738 314 SVLRSSSLPGKLADCS---STTPEESEIFIVEGDSAGGSAKQG---RDRRFQAILPLRGKILNVERKDEAAMYKNEEIQN 387 (555)
Q Consensus 314 ~~~~~~~lpgKL~dc~---~~~~~~~eL~lvEGDSA~gsa~~g---Rdr~~qai~PLrGKiLNv~ka~~~ki~~N~Ei~~ 387 (555)
+.. ..+ +||+||+ +++|++|||||||||||||||+|| |||+|||||||||||||||+|+.+||++|+||++
T Consensus 404 ~~~--~~i-pKL~Dc~~ag~k~~~~ceLflvEGDSAggsAk~Gl~~rdR~~qaIlPLRGKiLNV~ka~~~ki~~N~EI~~ 480 (1135)
T PLN03128 404 QRL--TGI-PKLDDANDAGGKKSKDCTLILTEGDSAKALAMSGLSVVGRDHYGVFPLRGKLLNVREASHKQIMKNAEITN 480 (1135)
T ss_pred CCC--CCC-cccccccccCCCChhHcEEEEEecCCCCcchhhcccccCccceeeeccCCceeccccCCHHHHhcchHHHH
Confidence 432 234 4999997 899999999999999999999999 9999999999999999999999999999999999
Q ss_pred HHHHhcCCccCCcC---cccccceeeEEEeecCCCCCcchHHhHHHHHHHHHHHhhhc-CcEEEecCCeEEEEeCCeEEE
Q 008738 388 LIRALGLGVKGEDF---KKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDE-GCIYVGVPPLYKVERGKQVQY 463 (555)
Q Consensus 388 li~alG~~~~~~~~---~~~~LRYgkiiimtDaD~DG~HI~~Llltff~~~~p~Li~~-g~v~~~~tPl~kv~~gk~~~~ 463 (555)
|++||||+++ .+| |+++|||||||||||||+||||||||||||||||||+||+. ||||+|+||||||++|++++|
T Consensus 481 li~alG~~~g-~~~~~~d~~~LRYgkIiIMTDaDvDGsHIr~LLltff~~~~p~Li~~~G~l~~~~tPl~kv~~gk~~~~ 559 (1135)
T PLN03128 481 IKQILGLQFG-KTYDEENTKSLRYGHLMIMTDQDHDGSHIKGLIINFFHSFWPSLLKIPGFLVEFITPIVKATKGGKSLS 559 (1135)
T ss_pred HHHHhCCCcC-ccccccChhhcccCeEEEEeCCCCCcchhHHHHHHHHHHhCHHhhccCCeEEEccCCEEEEEcCCeeEe
Confidence 9999999994 556 99999999999999999999999999999999999999996 999999999999999999999
Q ss_pred eeCHHHHHHHHHhCCCC-CCccceeeeccccCChhhHHhhhcCCCceeEEeeccccHHHHHHHHHHhcC-CCchHHHHHH
Q 008738 464 CYDDAELKKVKSSFPSN-ALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMG-ARVDTRKELI 541 (555)
Q Consensus 464 ~~s~~e~~~~~~~~~~~-~~~~i~ryKGLGe~~~~~l~et~~~p~~r~l~~v~~~d~~~~~~~f~~lmg-~~~~~Rk~~i 541 (555)
|||++||++|++++++. ++|+||||||||||+|+|+||||+|++.+....+..+|. .++++++.|+ +++++||+||
T Consensus 560 ~~s~~e~~~~~~~~~~~~~~~~ikyyKGLGe~~~~e~~e~f~~~~~~~~~f~~~~~~--~~~~i~~aF~k~~~~~RK~Wl 637 (1135)
T PLN03128 560 FYTMPEYEAWKESLEGETKGWTIKYYKGLGTSTSEEAKEYFSNLDIHKKEFLWQSDE--DGDLIDMAFSKKRVEDRKIWL 637 (1135)
T ss_pred cCCHHHHHHHHHhhcccCCCccceeecccccCCHHHHHHHHHhHHHhEEEEEeCCCC--cHHHHHHhcCCCcHHHHHHHH
Confidence 99999999999987543 479999999999999999999999998875433222221 2345555555 6799999999
Q ss_pred HhccccCCcC
Q 008738 542 QNAANLVNLD 551 (555)
Q Consensus 542 ~~~~~~~~~~ 551 (555)
.++.+..++|
T Consensus 638 ~~~~~~~~~d 647 (1135)
T PLN03128 638 NNYEPGTFLD 647 (1135)
T ss_pred HhCCCCcccc
Confidence 9998877664
No 13
>PLN03237 DNA topoisomerase 2; Provisional
Probab=100.00 E-value=6.4e-145 Score=1254.52 Aligned_cols=509 Identities=23% Similarity=0.375 Sum_probs=432.3
Q ss_pred CEEeeecCCCCCCCCCCceeeccccCCcchhhhhhhcceeEEEEE--eCCEEEEEEecCC--cCCccceeeccCCCCCCC
Q 008738 1 MIVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVW--RDGMEYHQKYSRG--KPVTTLTCHVLPVDSKDR 76 (555)
Q Consensus 1 ~v~t~lhaGgkF~~~~~~yk~sGGlhGvGasvvNalS~~f~V~v~--r~gk~y~q~f~~G--~~~~~~~~~~~~~~~~~~ 76 (555)
||||+||||||||++ +||+||||||||||||||||+||+|+|+ ++|++|+|+|++| .+..|+ + ..+.+++
T Consensus 137 lIft~LhAGgkFdd~--~yKvSGGlhGVGasvvNaLS~~f~Vev~Dg~~gk~y~Q~f~~nmG~~~~p~--i--~~~~~~~ 210 (1465)
T PLN03237 137 MIFGHLLTSSNYDDN--EKKTTGGRNGYGAKLTNIFSTEFVIETADGKRQKKYKQVFSNNMGKKSEPV--I--TKCKKSE 210 (1465)
T ss_pred EEEEeeeccccCCCC--cceeeccccccCccccccccCeeEEEEEECCCCeEEEEEEeCCCCccCCce--e--ccCCCCC
Confidence 699999999999988 9999999999999999999999999999 5689999999994 444442 2 1122347
Q ss_pred CceEEEEEeCcccccccccCCHHHH---HHHHHHHh-hcCCCcEEEEeecCCCCCCCcceeEeccccHHHHHHHHhcC--
Q 008738 77 QGTRIRFWPDKQVFTTAIQFDHNTI---AGRIRELA-FLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTD-- 150 (555)
Q Consensus 77 ~GT~V~F~PD~~iF~~~~~~~~~~l---~~Rl~elA-~Ln~gl~I~l~der~~~~~~~~~~f~~~~Gl~dyv~~l~~~-- 150 (555)
+||+|+||||++||++ ..|++++| .+|++||| ||||||+|+|+|+|.+ .+||++||+++...
T Consensus 211 ~GT~VtF~PD~eiF~~-~~fd~D~l~~~~rRlrdLAa~LnkGlkI~LndeR~~-----------~~G~kdYV~~yl~~~~ 278 (1465)
T PLN03237 211 NWTKVTFKPDLAKFNM-THLEDDVVALMKKRVVDIAGCLGKTVKVELNGKRIP-----------VKSFSDYVDLYLESAN 278 (1465)
T ss_pred CceEEEEEECHHHhCC-ceEcHHHHHHHHHHHHHHHhccCCCcEEEEEecCCC-----------CCCHHHHHHHHhhccc
Confidence 9999999999999985 57999987 58999999 9999999999999853 25999999965432
Q ss_pred --CCCCCceeEEEEeecceEEEEEEeecCCCCCceeeeeeCccccCCCCcchHHHHHHHHHHHHHHHHhcccCCCCCCCC
Q 008738 151 --KKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISL 228 (555)
Q Consensus 151 --~~~~~~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~k~~~i 228 (555)
+++.+++ .+++ .+.+|||||+|++ + +++++||||||+|++|||||+||+++|++.|++|++++ .++.++
T Consensus 279 k~k~~~~~~-i~e~--~~~~~EVAl~~sd-~-~~~~~SFVNnI~T~~GGTHv~g~~~aIt~~l~~~~~kK----~k~~~l 349 (1465)
T PLN03237 279 KSRPENLPR-IYEK--VNDRWEVCVSLSE-G-QFQQVSFVNSIATIKGGTHVDYVTNQIANHVMEAVNKK----NKNANI 349 (1465)
T ss_pred ccCCCCCCc-cEec--CCCeEEEEEEEeC-C-CceEEEEECcccCCCCCcHHHHHHHHHHHHHHHHHHhc----cCCCCC
Confidence 1233333 3433 4567999999995 4 47899999999999999999999999999999999763 234689
Q ss_pred CHhhhhcccEEEEEEeecCCCCCCccccccCChhhhhhhhhhhHHHHH---HHHhhCHHHHHHHHHHHHHHHHHHHHHHH
Q 008738 229 SGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLT---EYLELHPDVLDSILSKSLSALKAALAAKR 305 (555)
Q Consensus 229 ~~~dIregL~~~vsv~i~nP~FegQTKekL~n~~v~~~v~~~v~~~l~---~~l~~n~~~~~~i~~~~~~~~~ar~aakk 305 (555)
+++|||+||++||||+|+||+|+||||++|+|+++. +...+. .|++ +..+..|+++++.++++ ++
T Consensus 350 ~~~DIregL~a~IsvkI~nP~FesQTKekLtn~~~~------f~s~l~l~~~flk--~~~~~~Ivekil~~A~a----k~ 417 (1465)
T PLN03237 350 KAHNVKNHLWVFVNALIDNPAFDSQTKETLTLRQSS------FGSKCELSEDFLK--KVMKSGIVENLLSWADF----KQ 417 (1465)
T ss_pred CHHHHHhCcEEEEEEeCCCCccCCcccCcccChHHH------HHHHhccCHHHHh--HHHHHHHHHHHHHHHHH----HH
Confidence 999999999999999999999999999999998754 344554 5664 34667799999887765 45
Q ss_pred HHHHHhhcccc--ccCCCCCCCCCCC---CCCCCCceeEEeeccCCCccccccC---CCCceeecccCcccccccccCHH
Q 008738 306 ARDLVRQKSVL--RSSSLPGKLADCS---STTPEESEIFIVEGDSAGGSAKQGR---DRRFQAILPLRGKILNVERKDEA 377 (555)
Q Consensus 306 ar~~~~~k~~~--~~~~lpgKL~dc~---~~~~~~~eL~lvEGDSA~gsa~~gR---dr~~qai~PLrGKiLNv~ka~~~ 377 (555)
++++.|+++.. ....+| ||+||+ +++|++|||||||||||||||+||| ||+|||||||||||||||+|+.+
T Consensus 418 arel~k~k~~k~~~~~~ip-KL~Dc~~aG~kd~~~ceLfLvEGDSAgGsAk~GR~vvdR~~qaIlPLRGKILNV~kAs~~ 496 (1465)
T PLN03237 418 SKELKKTDGAKTTRVTGIP-KLEDANEAGGKNSEKCTLILTEGDSAKALAVAGLSVVGRNYYGVFPLRGKLLNVREASHK 496 (1465)
T ss_pred HHHHHhhhcccccccCCCc-ccccccccccCCccccEEEEEecCcCCchhhhhhcccCccceeeeccCCceehhccCcHH
Confidence 66776665442 233445 999998 6899999999999999999999999 89999999999999999999999
Q ss_pred HHhhCHhHHHHHHHhcCCccCCcCcccccceeeEEEeecCCCCCcchHHhHHHHHHHHHHHhhh-cCcEEEecCCeEEEE
Q 008738 378 AMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFD-EGCIYVGVPPLYKVE 456 (555)
Q Consensus 378 ki~~N~Ei~~li~alG~~~~~~~~~~~~LRYgkiiimtDaD~DG~HI~~Llltff~~~~p~Li~-~g~v~~~~tPl~kv~ 456 (555)
||++|+||++|++|||||++..++|+++|||||||||||||+||||||||||||||+|||+||+ .||||+|+||||||+
T Consensus 497 kil~N~EI~~ii~aLGlgig~~y~d~~~LRYgkIiIMTDADvDGsHIrgLLLtFF~r~~P~Li~~~Gfl~~~~tPL~Kv~ 576 (1465)
T PLN03237 497 QIMNNAEIENIKQILGLQHGKQYESVKSLRYGHLMIMTDQDHDGSHIKGLLINFIHSFWPSLLKVPSFLVEFITPIVKAT 576 (1465)
T ss_pred hhhcchHHHHHHHHhCCCcCcccCcccccccCcEEEEeCCCCCccHHHHHHHHHHHHhhHHhcccCCEEEEecCCeEEEE
Confidence 9999999999999999999655579999999999999999999999999999999999999999 899999999999999
Q ss_pred e-CCeEEEeeCHHHHHHHHHhCCC-CCCccceeeeccccCChhhHHhhhcCCCceeEEeeccccHHHHHHHHHHhcC-CC
Q 008738 457 R-GKQVQYCYDDAELKKVKSSFPS-NALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMG-AR 533 (555)
Q Consensus 457 ~-gk~~~~~~s~~e~~~~~~~~~~-~~~~~i~ryKGLGe~~~~~l~et~~~p~~r~l~~v~~~d~~~~~~~f~~lmg-~~ 533 (555)
+ ||+++||||++||++|++++++ .++|+||||||||||+|+|+||||.|.+.|.+..+..+|. .+.+|++.|+ ++
T Consensus 577 ~~gk~~~~fys~~E~e~w~~~~~~~~~~~~IkyYKGLGe~~~~e~keyf~~~~~h~~~f~~~~~~--~~~~i~laF~k~~ 654 (1465)
T PLN03237 577 RRGKKVLSFYSMPEYEEWKESLGGNATGWSIKYYKGLGTSTAKEGKEYFKNLGKHKKDFVWEDEQ--DGDAIELAFSKKK 654 (1465)
T ss_pred ECCCeeEeecCHHHHHHHHHHhcccCCceeeEeeccCCCCCHHHHHHHHHhHHhceEEEEECCCC--cHHHHHHHhCCcc
Confidence 9 9999999999999999998653 3479999999999999999999999999886533322221 1345555555 55
Q ss_pred chHHHHHHHhccccCCcC
Q 008738 534 VDTRKELIQNAANLVNLD 551 (555)
Q Consensus 534 ~~~Rk~~i~~~~~~~~~~ 551 (555)
+++||+||.++.+.+++|
T Consensus 655 ~d~RK~Wl~~~~~~~~ld 672 (1465)
T PLN03237 655 IEARKNWLRQYEPGTHLD 672 (1465)
T ss_pred HHHHHHHHHhCCCCcccc
Confidence 999999999998887664
No 14
>KOG0355 consensus DNA topoisomerase type II [Chromatin structure and dynamics]
Probab=100.00 E-value=2.9e-105 Score=870.41 Aligned_cols=514 Identities=30% Similarity=0.409 Sum_probs=443.8
Q ss_pred CEEeeecCCCCCCCCCCceeeccccCCcchhhhhhhcceeEEEEE--eCCEEEEEEecCCcCCccceeeccCCCCCCCCc
Q 008738 1 MIVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVW--RDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQG 78 (555)
Q Consensus 1 ~v~t~lhaGgkF~~~~~~yk~sGGlhGvGasvvNalS~~f~V~v~--r~gk~y~q~f~~G~~~~~~~~~~~~~~~~~~~G 78 (555)
|||+.|||++|||++ +.|++||+|||||+|+|+||+.|.|||. +.++.|+|+|.+||+....+.++ ...++.|
T Consensus 112 lifg~Lltssny~d~--ekK~tggrngygakLcniFs~~f~~Et~d~~~~~~~kQ~w~~nm~~~~~~~i~---~~~~~~y 186 (842)
T KOG0355|consen 112 LIFGNLLTSSNYDDD--EKKVTGGRNGYGAKLCNIFSTEFTVETADREYKMAFKQTWINNMTRDEEPKIV---PSTDEDY 186 (842)
T ss_pred HHHhhhhhccccCCC--ccccccCCCccceeeeeeccccceeeeeehHhHHHHHHhhhcCCcccCCceee---cCCCCCc
Confidence 589999999999998 8899999999999999999999999996 57899999999999998876663 2344569
Q ss_pred eEEEEEeCcccccccccCCHHH---HHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEeccccHHHHHHHHhcCCCCCC
Q 008738 79 TRIRFWPDKQVFTTAIQFDHNT---IAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH 155 (555)
Q Consensus 79 T~V~F~PD~~iF~~~~~~~~~~---l~~Rl~elA~Ln~gl~I~l~der~~~~~~~~~~f~~~~Gl~dyv~~l~~~~~~~~ 155 (555)
|+|||+||.+.|.++ .+|.|+ +.+|++++|....++++.+|+++... +|+.+|++.+.+ ...+.
T Consensus 187 TkitF~PDl~~F~m~-eLD~Div~l~~rr~~d~a~~~~~vkv~ln~~~~~~-----------~~f~~yv~~~~~-~~~~~ 253 (842)
T KOG0355|consen 187 TKITFSPDLEKFKMK-ELDDDIVALMARRAYDLAGSVKSVKVELNGKNIPV-----------KGFYDYVKMYLE-VLWLN 253 (842)
T ss_pred ceEEeCcChHhcCch-hhcchHHHhHHhhhhhhcccccceeeeecCCCCcc-----------chHHHHHhhccc-ccccc
Confidence 999999999999986 788775 58999999998899999999998653 589999998886 32322
Q ss_pred ceeEEEEeecceEEEEEEeecCCCCCceeeeeeCccccCCCCcchHHHHHHHHHHHHHHHHhcccCCCCCCCCCHhhhhc
Q 008738 156 DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVRE 235 (555)
Q Consensus 156 ~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~k~~~i~~~dIre 235 (555)
++....++..+-+||||++-++.+|+ ++||||+|+|.+|||||+++++++++.|+..+++.+.. ++.++++.+|++
T Consensus 254 ~~~~~ihe~~~~RwEv~~a~s~~~fq--qisfvNsI~T~kGGThVd~V~D~iv~~l~~vvkKk~~~--~~~svk~f~vkn 329 (842)
T KOG0355|consen 254 DDLKPLHEVLNFRWEVALALSDVGFQ--QVSFVNSIATTKGGTHVDYVVDQIVAKLIDVVKKKKVK--KDISVKPFQVKN 329 (842)
T ss_pred CcchhhhcccchHHHHhhhccccccc--eeeeecceeecCCCcccchhhhhHHHHHHHHhcccccc--cccccchhhhhc
Confidence 22111123334568888888866665 59999999999999999999999999999999876542 457899999999
Q ss_pred ccEEEEEEeecCCCCCCccccccCChhhhhhhhhhhHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 008738 236 GLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSV 315 (555)
Q Consensus 236 gL~~~vsv~i~nP~FegQTKekL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~ar~aakkar~~~~~k~~ 315 (555)
+|+++|||.|+||+|+||||+.|+++..+..+.+.+++.+...+.+++ +++.|++++..+.+...+.+.+++..+.+
T Consensus 330 ~L~vfVN~lIENPtFesQTke~lt~~~~~fgs~~elsek~~k~~~~~~-i~esils~s~~~~~~dL~kk~~~~~s~~e-- 406 (842)
T KOG0355|consen 330 HLWVFVNCLIENPTFESQTKERLTLRPKRFGSDCELSEKFTKAIELKG-VVESILSKSLNKYKDDLAKKRGKLTSRSK-- 406 (842)
T ss_pred ceEEEEEEEecCccccccchhhcccccccccceEeehhHHHHHHHhCc-hHHHHHHHHHHHHHHhhhhhhhhhhcccc--
Confidence 999999999999999999999999999999999999999999999998 99999999988777666555555333332
Q ss_pred cccCCCCCCCCCCC---CCCCCCceeEEeeccCCCccccc---cCCCCceeecccCcccccccccCHHHHhhCHhHHHHH
Q 008738 316 LRSSSLPGKLADCS---STTPEESEIFIVEGDSAGGSAKQ---GRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLI 389 (555)
Q Consensus 316 ~~~~~lpgKL~dc~---~~~~~~~eL~lvEGDSA~gsa~~---gRdr~~qai~PLrGKiLNv~ka~~~ki~~N~Ei~~li 389 (555)
.+| ||.|++ .+.+..|+|+++|||||...|.. ..+|++++|||||||+|||++++.+++++|+||++|+
T Consensus 407 ----~I~-KleDa~~ag~k~s~kctlIltEgdsaksLavsGl~vvgRd~~gVfplrgklLNv~e~s~kqilkn~EI~aIi 481 (842)
T KOG0355|consen 407 ----GIP-KLEDANDAGTKTSEKCTLILTEGDSAKSLAVSGLSVVGRDYYGVFPLRGKLLNVREASHKQILKNAEINAII 481 (842)
T ss_pred ----chh-HhhhcccccccccccceeEEeccccchhheecccccccceeEeecccccchhhhHHHHHHHHHHHHHHHHHH
Confidence 234 898875 45888999999999999755544 4578899999999999999999999999999999999
Q ss_pred HHhcCCccCCcCcccccceeeEEEeecCCCCCcchHHhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHHH
Q 008738 390 RALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAE 469 (555)
Q Consensus 390 ~alG~~~~~~~~~~~~LRYgkiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~gk~~~~~~s~~e 469 (555)
.+||++....+|+.++|||||+|||||||+|||||+||||||||+|||+|++.+||+.|+|||+|+++|++..+|||++|
T Consensus 482 kIlgl~~~~~y~~~eslryg~~mimtDQd~dgshikgllInf~~~~~psl~~~~fleefitpi~k~~~~~~~~~fys~pe 561 (842)
T KOG0355|consen 482 KILGLQYKKKYFDVESLRYGKLMIMTDQDHDGSHIKGLLINFIHHFWPSLLQIPFLEEFITPIVKATKGKQEVSFYSLPE 561 (842)
T ss_pred HHHHHHHhhhhccccccchhheEeeeccccccchHHHHHHHHHHHhhHHhhcCCcceecCCcceEeccCCcceeeeccHH
Confidence 99999998888999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhCCCCCCccceeeeccccCChhhHHhhhcCCCceeEEeecc--ccHHHHHHHHHHhcCCCchHHHHHHHhcccc
Q 008738 470 LKKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVI--EDAAEANVVFSSLMGARVDTRKELIQNAANL 547 (555)
Q Consensus 470 ~~~~~~~~~~~~~~~i~ryKGLGe~~~~~l~et~~~p~~r~l~~v~~--~d~~~~~~~f~~lmg~~~~~Rk~~i~~~~~~ 547 (555)
|++|++..++++.|.||||||||||+++|+||||+|+++|++..... .|.+.++..|. .+..++||+||.++++.
T Consensus 562 y~kw~~~~~~~~~~~ikyykglgts~~~e~keyf~~~~~h~~~F~~~~~~d~~~i~~af~---k~k~~~rk~wL~~~~~~ 638 (842)
T KOG0355|consen 562 YEKWKKNTDNWKSWKIKYYKGLGTSTSKEAKEYFSDLDRHRILFKYDGGIDDEAIDMAFS---KKKIDARKEWLRKYMPE 638 (842)
T ss_pred HHHHHhcCccccccceEEeecCCcccHHHHHHHhcCcchheEEEeccCcchHHHHhhhcc---cccHHHHHHHHHHHhHH
Confidence 99999987777789999999999999999999999999997655432 23333455554 46799999999999873
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=1.3e-59 Score=407.03 Aligned_cols=114 Identities=73% Similarity=1.166 Sum_probs=112.1
Q ss_pred ceeEEeeccCCCccccccCCCCceeecccCcccccccccCHHHHhhCHhHHHHHHHhcCCccCCcCcccccceeeEEEee
Q 008738 336 SEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILT 415 (555)
Q Consensus 336 ~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKiLNv~ka~~~ki~~N~Ei~~li~alG~~~~~~~~~~~~LRYgkiiimt 415 (555)
|||||||||||||||+|||||+|||||||||||||||+++.+|+++|+||++|++||||++ +.++|+++|||+||||||
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 cCCCCCcchHHhHHHHHHHHHHHhhhcCcEEEecC
Q 008738 416 DADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVP 450 (555)
Q Consensus 416 DaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~t 450 (555)
|||+||+||++|||||||||||+||++||||+++|
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 99999999999999999999999999999999997
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=2.4e-58 Score=401.44 Aligned_cols=115 Identities=64% Similarity=1.060 Sum_probs=112.9
Q ss_pred ceeEEeeccCCCccccccCCCCceeecccCcccccccccCHHHHhhCHhHHHHHHHhcCCccCCcCcccccceeeEEEee
Q 008738 336 SEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILT 415 (555)
Q Consensus 336 ~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKiLNv~ka~~~ki~~N~Ei~~li~alG~~~~~~~~~~~~LRYgkiiimt 415 (555)
|||||||||||||||+|||||++||||||||||||||+++.+|+++|+||++|++||||+++..++|+++|||+||||||
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 89999999999999999999999999999999999999999999999999999999999996578999999999999999
Q ss_pred cCCCCCcchHHhHHHHHHHHHHHhhhcCcEEEecC
Q 008738 416 DADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVP 450 (555)
Q Consensus 416 DaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~t 450 (555)
|||+||+||++|||||||||||+|+++||||+|+|
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=4.2e-55 Score=383.34 Aligned_cols=115 Identities=35% Similarity=0.597 Sum_probs=110.3
Q ss_pred ceeEEeeccCCCccccccC---CCCceeecccCcccccccccCHHHHhhCHhHHHHHHHhcCCccC-CcCcccccceeeE
Q 008738 336 SEIFIVEGDSAGGSAKQGR---DRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKG-EDFKKEALRYHKI 411 (555)
Q Consensus 336 ~eL~lvEGDSA~gsa~~gR---dr~~qai~PLrGKiLNv~ka~~~ki~~N~Ei~~li~alG~~~~~-~~~~~~~LRYgki 411 (555)
|||||||||||||||+||| ||++|||||||||||||++++.+|+++|+||++|++||||+++. +++|+++|||+||
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 89999999999999999999999999999999999999999954 3489999999999
Q ss_pred EEeecCCCCCcchHHhHHHHHHHHHHHhhhc-CcEEEecC
Q 008738 412 IILTDADVDGAHIRTLLLTFFYRYQKTLFDE-GCIYVGVP 450 (555)
Q Consensus 412 iimtDaD~DG~HI~~Llltff~~~~p~Li~~-g~v~~~~t 450 (555)
|||||||+||+||++|||||||||||+||++ |||+.+.|
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 99988865
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=1.1e-42 Score=330.10 Aligned_cols=170 Identities=48% Similarity=0.851 Sum_probs=161.9
Q ss_pred ccHHHHHHHHhcCCCCCC-ceeEEEEeecceEEEEEEeecCCCCCceeeeeeCccccCCCCcchHHHHHHHHHHHHHHHH
Q 008738 138 GGLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGK 216 (555)
Q Consensus 138 ~Gl~dyv~~l~~~~~~~~-~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~k 216 (555)
+||.+||++++.++++++ +++++.++.+++.|||||+|+ ++|+++++||||+|+|++||||++||+++|+++|++|++
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 599999999999998897 688888877789999999999 578899999999999999999999999999999999999
Q ss_pred hcccCCCCCCCCCHhhhhcccEEEEEEeecCCCCCCccccccCChhhhhhhhhhhHHHHHHHHhhCHHHHHHHHHHHHHH
Q 008738 217 KSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSA 296 (555)
Q Consensus 217 k~~~~k~k~~~i~~~dIregL~~~vsv~i~nP~FegQTKekL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~ 296 (555)
+++++|+++.+++++||+++|+++|+|+++||+|+||||++|+|++++.+|++++.+.|..||++||+.++.|+++++.+
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 99888776689999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHH
Q 008738 297 LKAALAAKRARD 308 (555)
Q Consensus 297 ~~ar~aakkar~ 308 (555)
+++|++++++|+
T Consensus 160 ~~aR~aa~~ar~ 171 (172)
T cd00822 160 AKAREAARKARE 171 (172)
T ss_pred HHHHHHHHHhhc
Confidence 999999999886
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=1.3e-41 Score=323.78 Aligned_cols=168 Identities=43% Similarity=0.817 Sum_probs=152.4
Q ss_pred cHHHHHHHHhcCCCCCC-ceeEEEEee--cc-eEEEEEEeecCCCCCceeeeeeCccccCCCCcchHHHHHHHHHHHHHH
Q 008738 139 GLEEYVQWLNTDKKPLH-DVVGFRKDV--DG-ITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSL 214 (555)
Q Consensus 139 Gl~dyv~~l~~~~~~~~-~~i~~~~~~--~~-~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~ 214 (555)
||.||+++++.++++++ +++++.++. ++ +.|+||++|+ +++.+.++||||+|+|++|||||+||+++|+++|++|
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 89999999999988887 578888765 54 9999999999 5677799999999999999999999999999999999
Q ss_pred HHhcccCCCCCCCCCHhhhhcccEEEEEEeecCCCCCCccccccCChhhhhhhhhhhHHHHHHHHhhCHHHHHHHHHHHH
Q 008738 215 GKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSL 294 (555)
Q Consensus 215 ~kk~~~~k~k~~~i~~~dIregL~~~vsv~i~nP~FegQTKekL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~ 294 (555)
+++++++|++. +++++||++||++||+|+|+||+|+||||++|+|++++..|.+++.+.|..||++||++++.|+++++
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 99999887665 99999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHH
Q 008738 295 SALKAALAAKRARD 308 (555)
Q Consensus 295 ~~~~ar~aakkar~ 308 (555)
.++++|+++++|||
T Consensus 159 ~~~~~r~~ak~are 172 (173)
T PF00204_consen 159 QAAKAREAAKKARE 172 (173)
T ss_dssp HHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHhcC
Confidence 99999999999986
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=8.3e-32 Score=249.90 Aligned_cols=144 Identities=22% Similarity=0.295 Sum_probs=115.5
Q ss_pred cHHHHHHHHhcCCCCC---CceeEEEEeecceEEEEEEeecCCCCCceeeeeeCccccCCCCcchHHHHHHHHHHHHHHH
Q 008738 139 GLEEYVQWLNTDKKPL---HDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLG 215 (555)
Q Consensus 139 Gl~dyv~~l~~~~~~~---~~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~ 215 (555)
+|++|++++..+..+. .+++.++ .-+-+|||||+|++ + +++++||||+|+|++|||||+||+++|+++|++|+
T Consensus 2 ~f~~Y~~ly~~~~~~~~~~~~~~~~~--~~~~~veva~~~s~-~-~~~~~SFvN~I~T~~GGTHv~g~~~~lt~~i~~~~ 77 (153)
T cd03481 2 SFKDYVKLYLKDANKEDGPPPPVVYE--PVNDRWEVAVALSD-G-QFQQVSFVNSIATTKGGTHVDYVADQIVKKLDEVV 77 (153)
T ss_pred CHHHHHHHHhcccccccCCCCCeEec--cCCCcEEEEEEEcC-C-CcEEEEEECCcCCCCCCchHHHHHHHHHHHHHHHH
Confidence 6899999886432110 1233333 22346999999994 4 68899999999999999999999999999999999
Q ss_pred HhcccCCCCCCCCCHhhhhcccEEEEEEeecCCCCCCccccccCChhhhhhhhhhhHHHHHHHHhhCHHHHHHHH
Q 008738 216 KKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSIL 290 (555)
Q Consensus 216 kk~~~~k~k~~~i~~~dIregL~~~vsv~i~nP~FegQTKekL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~ 290 (555)
++++ | ++.+++++|||+||++||+|+++||+|+||||++|+|++-.......+.+.|.+|+.++ .+++.|+
T Consensus 78 ~kk~--k-~~~~i~~~dire~l~~vvs~~i~~P~FegQTK~kL~s~~~~~~~~~~~~~~~~~~~~k~-~ii~~i~ 148 (153)
T cd03481 78 KKKN--K-GGINVKPFQVKNHLWIFVNCLIENPSFDSQTKETLTTKPKSFGSKCELSEKFLKKAVKS-GIVESVL 148 (153)
T ss_pred HHcC--C-CCCCcCHHHHhcCeEEEEEEecCCCccCCcccccccCcccccccccccCHHHHHHHHHc-hHHHHHH
Confidence 8765 2 24689999999999999999999999999999999999855555558899999999876 3444333
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=99.94 E-value=3.5e-27 Score=184.87 Aligned_cols=63 Identities=56% Similarity=0.893 Sum_probs=60.0
Q ss_pred CCCccceeeeccccCChhhHHhhhcCCCceeEEeeccccHHHHHHHHHHhcCCCchHHHHHHH
Q 008738 480 NALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQ 542 (555)
Q Consensus 480 ~~~~~i~ryKGLGe~~~~~l~et~~~p~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~Rk~~i~ 542 (555)
.++++||||||||||||+|||||||||++|+|+||+++|+++++++|+.|||+++++||+||+
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 357999999999999999999999999999999999999999999999999999999999996
No 22
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=99.36 E-value=2.3e-11 Score=137.19 Aligned_cols=209 Identities=14% Similarity=0.172 Sum_probs=144.8
Q ss_pred eecCCCCCCCCCCcee-eccccCCcchhhhhhhcceeEEEEEeC--CEEEEEEecCCcCCccceeeccCCCCCCCCceEE
Q 008738 5 VLHAGGKFGGSSSGYS-VSGGLHGVGLSVVNALSESLEVTVWRD--GMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRI 81 (555)
Q Consensus 5 ~lhaGgkF~~~~~~yk-~sGGlhGvGasvvNalS~~f~V~v~r~--gk~y~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V 81 (555)
..||++|+..-++-|. .|.|.+|.|++.++++| +++|+++++ +..|.+.|++|..+... .....+||+|
T Consensus 73 ~~~~tsKi~~~~dl~~~~t~GfrGeAL~sI~~vs-~l~i~s~~~~~~~~~~~~~~~G~~~~~~-------~~~~~~GT~V 144 (617)
T PRK00095 73 ARHATSKIASLDDLEAIRTLGFRGEALPSIASVS-RLTLTSRTADAAEGWQIVYEGGEIVEVK-------PAAHPVGTTI 144 (617)
T ss_pred hccCCCCCCChhHhhccccCCcchhHHHhhhhce-EEEEEEecCCCCceEEEEecCCcCccee-------cccCCCCCEE
Confidence 3799999986333566 58999999999999999 799999986 67799999999664211 1224699999
Q ss_pred EEE------eCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEecc--ccHHHHHHHHhcCCCC
Q 008738 82 RFW------PDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFA--GGLEEYVQWLNTDKKP 153 (555)
Q Consensus 82 ~F~------PD~~iF~~~~~~~~~~l~~Rl~elA~Ln~gl~I~l~der~~~~~~~~~~f~~~--~Gl~dyv~~l~~~~~~ 153 (555)
+++ |+..+|-......+..|.++++.+|++||++++.|.+.. ...|++. +++.+++..+.+.. .
T Consensus 145 ~v~~LF~n~P~Rrkflk~~~~e~~~i~~~v~~~Al~~p~i~f~l~~~~-------~~~~~~~~~~~~~~~i~~i~g~~-~ 216 (617)
T PRK00095 145 EVRDLFFNTPARRKFLKSEKTELGHIDDVVNRLALAHPDVAFTLTHNG-------KLVLQTRGAGQLLQRLAAILGRE-F 216 (617)
T ss_pred EechhhccCcHHHHhccCcHHHHHHHHHHHHHHhhcCCCcEEEEEECC-------EEEEEeCCCCCHHHHHHHHhCHH-h
Confidence 997 999999433346677899999999999999999999864 3457776 57888888765432 1
Q ss_pred CCceeEEEEeecceEEE--EEE-eecCCCCCceeeeeeCccccCCCCcchHHHHHHHHHHHHHHHHhcccCCCCCCCCCH
Q 008738 154 LHDVVGFRKDVDGITID--LAL-QWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSG 230 (555)
Q Consensus 154 ~~~~i~~~~~~~~~~ve--val-~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~k~~~i~~ 230 (555)
....+.+..+.+++.++ ++. .|+ ......++.|||+.++.. ..|.++|++..+... .+
T Consensus 217 ~~~l~~~~~~~~~~~i~g~is~p~~~-~~~~~~~~~fvN~R~v~~---------~~l~~ai~~~y~~~~-~~-------- 277 (617)
T PRK00095 217 AENALPIDAEHGDLRLSGYVGLPTLS-RANRDYQYLFVNGRYVRD---------KLLNHAIRQAYHDLL-PR-------- 277 (617)
T ss_pred HhheEEEeccCCCEEEEEEEeCcccc-cCCCcceEEEECCcEecC---------HHHHHHHHHHHHHhc-cC--------
Confidence 12344455455566776 444 343 344567899999999863 234555544332211 01
Q ss_pred hhhhcccEEEEEEeecCCCCC
Q 008738 231 EHVREGLTCIISVRVPNPEFE 251 (555)
Q Consensus 231 ~dIregL~~~vsv~i~nP~Fe 251 (555)
...-.+++++.++.-.+|
T Consensus 278 ---~~~P~~~l~i~~~~~~~D 295 (617)
T PRK00095 278 ---GRYPAFVLFLELDPHQVD 295 (617)
T ss_pred ---CCCcEEEEEEEeChHhcc
Confidence 112278888888755555
No 23
>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=99.18 E-value=1.4e-11 Score=106.76 Aligned_cols=97 Identities=22% Similarity=0.327 Sum_probs=85.6
Q ss_pred eeEEeeccCCCccccccCCCCceeecccCcccccccccCHHH-HhhCHhHHHHHHHhcCCccCCcCcccccceeeEEEee
Q 008738 337 EIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAA-MYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILT 415 (555)
Q Consensus 337 eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKiLNv~ka~~~k-i~~N~Ei~~li~alG~~~~~~~~~~~~LRYgkiiimt 415 (555)
|||||||+|+..+..++.+...+.|+|+.|.++|....+... ..+++.++.|.+.+ .+|..|||+|
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 699999999999888888877799999999999999977655 78888899998887 4688999999
Q ss_pred cCCCCCcchHHhHHHHHHHHHHHhhhcCcEEEe
Q 008738 416 DADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVG 448 (555)
Q Consensus 416 DaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~ 448 (555)
|+|.+|.||...++.++...+|.+ ..++++-
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 24
>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=98.77 E-value=2.1e-08 Score=86.75 Aligned_cols=100 Identities=23% Similarity=0.437 Sum_probs=76.1
Q ss_pred HHHHHHHhcCCCCCCceeEEEEeecceEEEEEEeecCC--CCCceeeeeeCccccCCCCcchHHHHHHHHHHHHHHHHhc
Q 008738 141 EEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSD--AYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKS 218 (555)
Q Consensus 141 ~dyv~~l~~~~~~~~~~i~~~~~~~~~~veval~~s~~--~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~ 218 (555)
.+++..+.+.+. ....+.+..+..++++++++++... .....+++|||+.++..||+|..++.+++.+.++
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 1234455545566889999988742 1456799999999998899999999999988775
Q ss_pred ccCCCCCCCCCHhhhhcccEEEEEEeecC--CCCC-Ccccccc
Q 008738 219 KTVKDKDISLSGEHVREGLTCIISVRVPN--PEFE-GQTKTRL 258 (555)
Q Consensus 219 ~~~k~k~~~i~~~dIregL~~~vsv~i~n--P~Fe-gQTKekL 258 (555)
+++++....++|++.++. |.|. +|||+.+
T Consensus 75 -----------~~~~~~~p~~vl~i~~~~~~~d~nv~p~K~~v 106 (107)
T cd00329 75 -----------GDDVRRYPVAVLSLKIPPSLVDVNVHPTKEEV 106 (107)
T ss_pred -----------ccCCCCCCEEEEEEEeChHHeeeCCCCCcccc
Confidence 455777889999999999 9999 9999976
No 25
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=98.59 E-value=1.6e-07 Score=102.37 Aligned_cols=109 Identities=25% Similarity=0.303 Sum_probs=84.1
Q ss_pred EEeeecCCCCCCCCCCceeeccccCCcchhhhhhhcce-----eEEEEEeCCEEE--EEEec------CCcCCccceeec
Q 008738 2 IVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSES-----LEVTVWRDGMEY--HQKYS------RGKPVTTLTCHV 68 (555)
Q Consensus 2 v~t~lhaGgkF~~~~~~yk~sGGlhGvGasvvNalS~~-----f~V~v~r~gk~y--~q~f~------~G~~~~~~~~~~ 68 (555)
+|..+|+|+||.+. ..+.|.+|+|+++++++|+. ++|++.++|..+ .++|. .|..+...+ .
T Consensus 84 iF~rf~~tsK~~~~----~~s~G~~GlGLs~~~~isq~~~G~~i~V~S~~~g~~~~~~~~~~id~~~n~G~i~~~~~-~- 157 (488)
T TIGR01052 84 VFGKMLAGSKFHRI----IQSRGQQGIGISGAVLYSQMTTGKPVKVISSTGGEIYVYKMKLKIDVQKNEGEIVEKGE-W- 157 (488)
T ss_pred hhhhccccCccccc----cccCCCccEehhHHHHHHHHcCCceEEEEEecCCceEEEEEEEEecccccCCeecceee-c-
Confidence 57889999999754 56778999999999999986 899999888765 77774 454443321 1
Q ss_pred cCCCCCCCCceEEEEEeCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecC
Q 008738 69 LPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKED 123 (555)
Q Consensus 69 ~~~~~~~~~GT~V~F~PD~~iF~~~~~~~~~~l~~Rl~elA~Ln~gl~I~l~der 123 (555)
+....+||+|+++||.... .+....+.++|+.+|.+||+++|.|.+..
T Consensus 158 ---~~~~~~GT~V~v~f~~~~~----r~~k~~i~e~l~~~Al~nP~~~i~l~~~~ 205 (488)
T TIGR01052 158 ---NKPGWRGTRIELEFKGVSY----RRSKQGVYEYLRRTAVANPHAKIVLVDPD 205 (488)
T ss_pred ---CCCCCCceEEEEEECCcee----eccHHHHHHHHHHHHhhCCCeEEEEEeCC
Confidence 2222579999999776542 23457899999999999999999999864
No 26
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=98.32 E-value=7.6e-05 Score=82.51 Aligned_cols=109 Identities=21% Similarity=0.331 Sum_probs=76.4
Q ss_pred EEeeecCCCCCCCCCCceeeccccCCcchhhhhhhcce-----eEEEEEeCCE--EEEEEec----CCcCCccceeeccC
Q 008738 2 IVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSES-----LEVTVWRDGM--EYHQKYS----RGKPVTTLTCHVLP 70 (555)
Q Consensus 2 v~t~lhaGgkF~~~~~~yk~sGGlhGvGasvvNalS~~-----f~V~v~r~gk--~y~q~f~----~G~~~~~~~~~~~~ 70 (555)
+|..+++|+||.+. ..+.|.+|+|+++++.+|+. +.|++..++. .|..++. .+.+...... +
T Consensus 94 iF~~f~~~SK~~~~----~~s~G~~GLGLsiv~~isq~~~G~~I~V~S~~~~g~~~~~~~l~id~~kn~g~i~~~~---~ 166 (535)
T PRK04184 94 VFGKLLYGSKFHNL----RQSRGQQGIGISAAVLYAQMTTGKPVRVISSTGGSKKAYYFELKIDTKKNEPIILERE---E 166 (535)
T ss_pred Hhhhhhcccccccc----ccCCCCCCcchHHHHHHHHHhcCCcEEEEEecCCCceEEEEEEEecccccCCeecccc---c
Confidence 46667788888642 34668899999999999985 6777776543 5777774 2222110000 0
Q ss_pred CCCCCCCceEEEEEeCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeec
Q 008738 71 VDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKE 122 (555)
Q Consensus 71 ~~~~~~~GT~V~F~PD~~iF~~~~~~~~~~l~~Rl~elA~Ln~gl~I~l~de 122 (555)
......+||+|++.++...+. ....+.+.++.+|.+||+++|.|.+-
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 012446899999998776552 26789999999999999999999853
No 27
>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=98.15 E-value=6.1e-05 Score=78.55 Aligned_cols=209 Identities=12% Similarity=0.175 Sum_probs=122.4
Q ss_pred ecCCCCCCCC-CCceeeccccCCcchhhhhhhcceeEEEEEe---CCEEEEEEecCCcCCccceeeccCCCCCCCCceEE
Q 008738 6 LHAGGKFGGS-SSGYSVSGGLHGVGLSVVNALSESLEVTVWR---DGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRI 81 (555)
Q Consensus 6 lhaGgkF~~~-~~~yk~sGGlhGvGasvvNalS~~f~V~v~r---~gk~y~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V 81 (555)
.|+.+|+... +.....+-|.+|.|++..+++| .++|+++. ++..|.+. .+|..+.+.. ....++||+|
T Consensus 74 ~~~tsk~~~~~~~~~~~~~G~rG~al~si~~~s-~~~i~S~~~~~~~~~~~~~-~~g~~~~~~~------~~~~~~GTtV 145 (312)
T TIGR00585 74 RHATSKIQSFEDLERIETLGFRGEALASISSVS-RLTITTKTSAADGLAWQAL-LEGGMIEEIK------PAPRPVGTTV 145 (312)
T ss_pred CCCcCCCCChhHhhcccccCccchHHHHHHhhC-cEEEEEeecCCCcceEEEE-ECCCcCcccc------cccCCCccEE
Confidence 4566776542 1234567899999999999999 79999974 34556666 4555333321 2345799999
Q ss_pred EEE------eCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEec---cccHHHH-HHHHhcCC
Q 008738 82 RFW------PDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFF---AGGLEEY-VQWLNTDK 151 (555)
Q Consensus 82 ~F~------PD~~iF~~~~~~~~~~l~~Rl~elA~Ln~gl~I~l~der~~~~~~~~~~f~~---~~Gl~dy-v~~l~~~~ 151 (555)
++. |+...|-......++.+..+++.+|.++|++++.+.+... ...... ...+.+. +..+-+..
T Consensus 146 ~v~~lf~n~p~r~~~~~~~~~~~~~i~~~l~~~al~~p~i~f~l~~~~~------~~~~~~~~~~~~~~~~~i~~v~G~~ 219 (312)
T TIGR00585 146 EVRDLFYNLPVRRKFLKSPKKEFRKILDLLNRYALIHPDVSFSLTHDGK------KVLQLSTKPNQSLKERRIRSVFGTA 219 (312)
T ss_pred EEchhhccCchhhhhccCcHHHHHHHHHHHHHHhhcCCCeEEEEEECCE------EEEEEcCCCCCCHHHHHHHHHhChH
Confidence 999 9998874333344678999999999999999999988531 111121 1345663 44333221
Q ss_pred CCCCceeEEE-EeecceEEEEEEeecCC---CCCce-eeeeeCccccCCCCcchHHHHHHHHHHHHHHHHhcccCCCCCC
Q 008738 152 KPLHDVVGFR-KDVDGITIDLALQWCSD---AYSDT-MLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDI 226 (555)
Q Consensus 152 ~~~~~~i~~~-~~~~~~~veval~~s~~---~~~~~-~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~k~~ 226 (555)
. ....+.+. .+..++.++.-+. ... ..... ++-|||+=+-.. ..|.++|++..+.... +
T Consensus 220 ~-~~~l~~~~~~~~~~~~v~G~is-~p~~~~~~~~~~q~ifvNgR~v~~---------~~l~k~I~~~y~~~~~-~---- 283 (312)
T TIGR00585 220 V-LSKLFPLLEWEDGDLQLEGFIS-EPNVTRSRRSGWQFLFINGRPVEL---------KLLLKAIREVYHEYLP-K---- 283 (312)
T ss_pred h-HhhceeeecccCCCEEEEEEEc-CcccccCCCCcceEEEECCcEecc---------hHHHHHHHHHHHHhcc-C----
Confidence 1 11112222 2334555553221 111 11123 799999865321 2255666554433210 0
Q ss_pred CCCHhhhhcccEEEEEEeecCCCCC
Q 008738 227 SLSGEHVREGLTCIISVRVPNPEFE 251 (555)
Q Consensus 227 ~i~~~dIregL~~~vsv~i~nP~Fe 251 (555)
...-++++++.+|.-..|
T Consensus 284 -------~~~P~~vL~i~~p~~~iD 301 (312)
T TIGR00585 284 -------GQYPVFVLNLEIDPELVD 301 (312)
T ss_pred -------CCCcEEEEEEEEChHHcc
Confidence 113388899988765555
No 28
>PRK14939 gyrB DNA gyrase subunit B; Provisional
Probab=97.74 E-value=2.5e-06 Score=97.65 Aligned_cols=48 Identities=13% Similarity=0.077 Sum_probs=45.4
Q ss_pred ceeeeccccCChhhHH-hhhcCCCceeEEeeccccHHHHHHHHHHhcCCC
Q 008738 485 IQRFKGLGEMMPVQLW-ETTLNPEQRMLKQLVIEDAAEANVVFSSLMGAR 533 (555)
Q Consensus 485 i~ryKGLGe~~~~~l~-et~~~p~~r~l~~v~~~d~~~~~~~f~~lmg~~ 533 (555)
||| ||||||+|+|+| ||||||.+|++.++.++|+.+++.+|+.+||+.
T Consensus 575 ~~~-~~l~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~ 623 (756)
T PRK14939 575 ISG-EALEKLVKEYRAVRKIIDRLERRYPRAVLEALIYAPALDLDDLADE 623 (756)
T ss_pred ccH-HHHHHHHHHHHHHHHHHhHHhccccHHHHHHHHhccccchhhhcch
Confidence 789 999999999999 999999999999999999988999999999954
No 29
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=97.23 E-value=0.00095 Score=75.46 Aligned_cols=107 Identities=21% Similarity=0.234 Sum_probs=72.0
Q ss_pred EEeeecCCCCCCCCCCceeeccccCCcchhhhhhhccee-----EEEEE-eCCEEEEEEecC------CcCCccceeecc
Q 008738 2 IVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESL-----EVTVW-RDGMEYHQKYSR------GKPVTTLTCHVL 69 (555)
Q Consensus 2 v~t~lhaGgkF~~~~~~yk~sGGlhGvGasvvNalS~~f-----~V~v~-r~gk~y~q~f~~------G~~~~~~~~~~~ 69 (555)
+|..+|+|+||.. +..|.|.+|.|++++.++|+.. .+.+. .+|..|.+.+.- |..+.. .
T Consensus 92 iFerF~atSK~~~----~~qS~G~rG~GLa~a~~vsql~~G~pI~I~S~~g~G~~f~i~L~i~i~~n~G~I~~~-~---- 162 (659)
T PRK14867 92 VFGKMLAGSKMHR----LIQSRGQQGIGAAGVLLFSQITTGKPLKITTSTGDGKIHEMEIKMSVEKNEGDIVSH-K---- 162 (659)
T ss_pred hhccccccCcccc----eeccCCCCcccHHHHHHHHHHhcCCcEEEEEEcCCCEEEEEEEEEEecccCCeeccc-c----
Confidence 6788999999953 4678889999999999999875 66665 467766666532 222211 0
Q ss_pred CCCCCCCCceEEEEEeCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeec
Q 008738 70 PVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKE 122 (555)
Q Consensus 70 ~~~~~~~~GT~V~F~PD~~iF~~~~~~~~~~l~~Rl~elA~Ln~gl~I~l~de 122 (555)
......+||+|+|.-. ..|-.. . ...+...++.+|..||++.|.|.+.
T Consensus 163 -~~~~~~~GT~Ie~~V~-dLFynR-~--E~~i~e~l~r~ALanP~i~f~l~~~ 210 (659)
T PRK14867 163 -VREGFWRGTRVEGEFK-EVTYNR-R--EQGPFEYLRRISLSTPHAKITLKDP 210 (659)
T ss_pred -cCCCCCCCcEEEEEEe-eceech-h--hHHHHHHHHHHHHhCCCcEEEEEeC
Confidence 0123468999996211 122111 0 1127899999999999999999875
No 30
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=96.15 E-value=0.2 Score=53.96 Aligned_cols=112 Identities=21% Similarity=0.305 Sum_probs=72.8
Q ss_pred EEeeecCCCCCCCCCCceeeccccCCcchhhhhhhccee-----EEEEEeC--CEEEEEEe----cCCcCCccceeeccC
Q 008738 2 IVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESL-----EVTVWRD--GMEYHQKY----SRGKPVTTLTCHVLP 70 (555)
Q Consensus 2 v~t~lhaGgkF~~~~~~yk~sGGlhGvGasvvNalS~~f-----~V~v~r~--gk~y~q~f----~~G~~~~~~~~~~~~ 70 (555)
||+++.+|+||.-. +.|=|.-|.|+|.+-.+|+.- .|.+.-. ++.|...- ..|.|..-.. .. .
T Consensus 92 vFGk~LygSKfh~~----~QsRGqqGiGis~avLysQmTtGkPv~V~s~T~~s~~~~~~~l~id~~kNEp~Iv~r-~~-~ 165 (538)
T COG1389 92 VFGKMLYGSKFHRN----IQSRGQQGIGISAAVLYSQMTTGKPVRVISSTGDSGTAYEYELKIDVQKNEPEIVER-GE-V 165 (538)
T ss_pred HHHHHhccchhhhh----hhccccccccHHHHHHHHHhcCCCceEEEecCCCCcceEEEEEEecCCCCcchhhhc-cc-c
Confidence 68999999999644 789999999999999999764 4444433 45544433 2344421110 00 0
Q ss_pred CCCCCCCceEEEEEeCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecC
Q 008738 71 VDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKED 123 (555)
Q Consensus 71 ~~~~~~~GT~V~F~PD~~iF~~~~~~~~~~l~~Rl~elA~Ln~gl~I~l~der 123 (555)
......+||+|.-.-+-...... . .-+..-|+..|..||--+|.|.|--
T Consensus 166 ~~~~~~hGT~Vel~~~~~~~~~~-~---qgi~eYlkrtaiinPhA~I~l~dPd 214 (538)
T COG1389 166 ENPGGWHGTRVELELKGVWYRAK-R---QGIYEYLKRTAIINPHARIVLKDPD 214 (538)
T ss_pred cCCCCCCceEEEEEecccchhhc-c---cCHHHHHHHHhhcCCceEEEEECCC
Confidence 12234699999877655443211 1 1145667889999999999999854
No 31
>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=92.64 E-value=0.13 Score=40.82 Aligned_cols=70 Identities=36% Similarity=0.435 Sum_probs=46.7
Q ss_pred eeEEeeccCCCccccccCCCCceeecccCcccccccccCHHHHhhCHhHHHHHHHhcCCccCCcCcccccceeeEEEeec
Q 008738 337 EIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTD 416 (555)
Q Consensus 337 eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKiLNv~ka~~~ki~~N~Ei~~li~alG~~~~~~~~~~~~LRYgkiiimtD 416 (555)
.++||||.+-.-+..+.... ...++++.|+..+ .-...+...++. +.+|+|++|
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 58999999987666665543 3588999998776 111222222211 578999999
Q ss_pred CCCCCcchHHhHHHHH
Q 008738 417 ADVDGAHIRTLLLTFF 432 (555)
Q Consensus 417 aD~DG~HI~~Llltff 432 (555)
.|..|..+...+....
T Consensus 56 ~D~~g~~~~~~~~~~~ 71 (83)
T cd00188 56 ADREGEAIALRLLELL 71 (83)
T ss_pred CChhHHHHHHHHHHHH
Confidence 9999986655554443
No 32
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=87.07 E-value=1.8 Score=50.13 Aligned_cols=108 Identities=21% Similarity=0.326 Sum_probs=69.3
Q ss_pred EEeeecCCCCCCCCCCceeeccccCCcchhhhhhhcce-----eEEEEEeCCE--E--EEEEecCC--cCCccceeeccC
Q 008738 2 IVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSES-----LEVTVWRDGM--E--YHQKYSRG--KPVTTLTCHVLP 70 (555)
Q Consensus 2 v~t~lhaGgkF~~~~~~yk~sGGlhGvGasvvNalS~~-----f~V~v~r~gk--~--y~q~f~~G--~~~~~~~~~~~~ 70 (555)
||..++.+.||... ..+-|..|.|++++=++|.. +.|++..++. - |.+....| .|..-....
T Consensus 101 IFerf~~tSKf~~~----~~srG~rG~GLglai~~sqlt~GgpI~I~S~~~~~~~g~~~~L~Id~gkNep~I~~~~~--- 173 (795)
T PRK14868 101 VFGKLLYGSRFHAR----EQSRGQQGIGISAAVLYSQLTSGKPAKITSRTQGSEEAQYFELIIDTDTNEPEISVEET--- 173 (795)
T ss_pred Hhhhhccccccccc----ccCCCCCceehHHHHHHHHHcCCCcEEEEeCCCCCCceeEEEEEEecCCCccceeccee---
Confidence 34455567787643 23456789999999999985 7888765432 2 34444433 332100111
Q ss_pred CCCCCCCceEEEEEeCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeec
Q 008738 71 VDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKE 122 (555)
Q Consensus 71 ~~~~~~~GT~V~F~PD~~iF~~~~~~~~~~l~~Rl~elA~Ln~gl~I~l~de 122 (555)
......+||+|+-. +|.. . .-...+...++.+|..||.++|.|.+.
T Consensus 174 ~~~~~~~GT~IeV~----Lf~N-~-pAR~kI~eyl~r~Al~nP~a~f~l~~~ 219 (795)
T PRK14868 174 TTWDRPHGTRIELE----MEAN-M-RARQQLHDYIKHTAVVNPHARIELREP 219 (795)
T ss_pred cccCCCCceEEEEE----EEcc-C-chhhhHHHHHHHHHhhCCCeEEEEEEC
Confidence 02235689999987 5652 1 123458889999999999999999875
No 33
>PRK05218 heat shock protein 90; Provisional
Probab=86.41 E-value=36 Score=39.06 Aligned_cols=90 Identities=20% Similarity=0.233 Sum_probs=56.6
Q ss_pred eccccCCcchhhhhhhcceeEEEEEeCC---EEEEEEecCCcCCccceeeccCCCCCCCCceEEEEEeCcccccccccCC
Q 008738 21 VSGGLHGVGLSVVNALSESLEVTVWRDG---MEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFD 97 (555)
Q Consensus 21 ~sGGlhGvGasvvNalS~~f~V~v~r~g---k~y~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~PD~~iF~~~~~~~ 97 (555)
-.-|..|||.-.+=+++.+++|.++..| .-+..+...|.. -.+.. .....+||+|+..+.++- +.-.+
T Consensus 117 ~~iG~fGiGf~S~f~va~~v~V~Sr~~~~~~~~~~w~~~g~~~-~~i~~-----~~~~~~GT~I~l~Lk~~~---~e~~e 187 (613)
T PRK05218 117 QLIGQFGVGFYSAFMVADKVTVITRSAGPAAEAVRWESDGEGE-YTIEE-----IEKEERGTEITLHLKEDE---DEFLD 187 (613)
T ss_pred ccccccCcCchhhhhccCEEEEEEcCCCCCCceEEEEEeCCce-eEEeE-----CCCCCCCcEEEEEECcch---hhhcC
Confidence 3569999999888888899999998755 335555543332 12211 112368999998765542 11135
Q ss_pred HHHHHHHHHHHh-hcCCCcEEEEee
Q 008738 98 HNTIAGRIRELA-FLNPKLTIALRK 121 (555)
Q Consensus 98 ~~~l~~Rl~elA-~Ln~gl~I~l~d 121 (555)
...|+.-++..| |+ +..|+|++
T Consensus 188 ~~~i~~li~kys~~l--~~PI~~~~ 210 (613)
T PRK05218 188 EWRIRSIIKKYSDFI--PVPIKLEK 210 (613)
T ss_pred HHHHHHHHHHHHhcC--CCCEEEec
Confidence 667888888887 33 33366654
No 34
>PRK04017 hypothetical protein; Provisional
Probab=75.76 E-value=0.59 Score=42.60 Aligned_cols=29 Identities=34% Similarity=0.540 Sum_probs=25.0
Q ss_pred ceeeEEEeecCCCCCcchHHhHHHHHHHH
Q 008738 407 RYHKIIILTDADVDGAHIRTLLLTFFYRY 435 (555)
Q Consensus 407 RYgkiiimtDaD~DG~HI~~Llltff~~~ 435 (555)
.+..|||+||.|-=|..|+..|...|..+
T Consensus 64 ~~r~VIILTD~D~~GekIr~~l~~~l~~~ 92 (132)
T PRK04017 64 RGKEVIILTDFDRKGEELAKKLSEYLQGY 92 (132)
T ss_pred cCCeEEEEECCCcchHHHHHHHHHHHHhC
Confidence 46689999999999999999998877654
No 35
>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=74.43 E-value=32 Score=32.09 Aligned_cols=87 Identities=18% Similarity=0.418 Sum_probs=54.8
Q ss_pred ceEEEEEEeecCCC---CCceeeeeeCccccC-CCCcchHHHHHHHHHHHHHHH-HhcccCCCCCCCCCHhhhhcccEEE
Q 008738 166 GITIDLALQWCSDA---YSDTMLGYANSIRTI-DGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVREGLTCI 240 (555)
Q Consensus 166 ~~~veval~~s~~~---~~~~~~SFVN~I~T~-~GGTHv~g~~~al~~~in~~~-kk~~~~k~k~~~i~~~dIregL~~~ 240 (555)
-..||+|+.|.-+. -.-+++-|+|-|+-. +.|. .++|+++...- +..++-.. + ..-+.++
T Consensus 32 PFiVEagiayGG~~~~~~~~~i~RfANRVPLlf~~g~------cvit~av~~i~W~~Ygi~~~------~---~~p~~v~ 96 (151)
T cd00823 32 PFIVEVGIAYGGDIPADEKVELLRFANRVPLLYDAGA------CVITKAVESINWKRYGLEQP------G---QGPLVVL 96 (151)
T ss_pred CeEEEEeeeecCccCCCCCceEEEEcccCceeecccc------hHHHHHHHhCChhhcCcCCC------C---CCCEEEE
Confidence 34589999996221 124699999999863 4444 33455554332 22222111 0 2357899
Q ss_pred EEEeecCCCCCCccccccCC-hhhhhhh
Q 008738 241 ISVRVPNPEFEGQTKTRLGN-PEVRKVV 267 (555)
Q Consensus 241 vsv~i~nP~FegQTKekL~n-~~v~~~v 267 (555)
|++-.++--|.|-.|+...+ ||+..-+
T Consensus 97 Vhi~St~VPfts~~KeaIadvpEI~~EI 124 (151)
T cd00823 97 VHVASTKVPFTSEGKEAIADIPEIEEEI 124 (151)
T ss_pred EEEeecCCCcCCcchhhhcCCHHHHHHH
Confidence 99999999999999999886 5544333
No 36
>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=72.78 E-value=43 Score=31.55 Aligned_cols=85 Identities=15% Similarity=0.314 Sum_probs=50.7
Q ss_pred eEEEEEEeecCCC---CCceeeeeeCcccc-CCCCcchHHHHHHHHHHHHHHHH-hcccCCCCCCCCCHhhhhcccEEEE
Q 008738 167 ITIDLALQWCSDA---YSDTMLGYANSIRT-IDGGTHIEGVKASLTRTLNSLGK-KSKTVKDKDISLSGEHVREGLTCII 241 (555)
Q Consensus 167 ~~veval~~s~~~---~~~~~~SFVN~I~T-~~GGTHv~g~~~al~~~in~~~k-k~~~~k~k~~~i~~~dIregL~~~v 241 (555)
..||+|+.|.-+. -.-.++-|+|-|+- .+.|. .++++++.+.-= ..++ ...+ ..-+.++|
T Consensus 42 FiVEagiayGG~~~~~~~~~ilRfANRVPLly~~g~------cvit~av~~i~W~~Y~l--------~~~~-~~p~~v~V 106 (160)
T PF09239_consen 42 FIVEAGIAYGGEIPPEGKIEILRFANRVPLLYDQGS------CVITKAVKSINWKRYGL--------DQPG-NGPLVVFV 106 (160)
T ss_dssp EEEEEEEEESTTS-SCSS-EEEEEETTEEE-STGCC------SHHHHHHHHS-GCCCT----------SSS--CSEEEEE
T ss_pred EEEEEehhhccCCCCCCCceEEEEccCCceeecCCc------hHHHHHHHhCCchhcCc--------CCCC-CCCEEEEE
Confidence 5689999997211 23468999999985 34444 345666654321 2222 1111 34578999
Q ss_pred EEeecCCCCCCccccccCC-hhhhhh
Q 008738 242 SVRVPNPEFEGQTKTRLGN-PEVRKV 266 (555)
Q Consensus 242 sv~i~nP~FegQTKekL~n-~~v~~~ 266 (555)
++-.++--|.|-.||...+ +|+..-
T Consensus 107 hi~ST~VPfts~~KeaIa~~pEI~~E 132 (160)
T PF09239_consen 107 HIASTKVPFTSEGKEAIADVPEIEKE 132 (160)
T ss_dssp EEEESS--BSSTTSSSB---HHHHHH
T ss_pred EEeecccCccccchhhhcCcHHHHHH
Confidence 9999999999999999883 444433
No 37
>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=65.58 E-value=13 Score=30.41 Aligned_cols=33 Identities=15% Similarity=0.503 Sum_probs=26.8
Q ss_pred hhhhhhhhhhHHHHHHHHhhC-HHHHHHHHHHHH
Q 008738 262 EVRKVVDQSVQEYLTEYLELH-PDVLDSILSKSL 294 (555)
Q Consensus 262 ~v~~~v~~~v~~~l~~~l~~n-~~~~~~i~~~~~ 294 (555)
.+-..|..++...|..||++| |.+++.++++-+
T Consensus 34 TlE~lvremLRPmLkeWLD~nLP~lVErlVr~EI 67 (73)
T PF10691_consen 34 TLEDLVREMLRPMLKEWLDENLPGLVERLVREEI 67 (73)
T ss_pred cHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence 456678888899999999999 898888886444
No 38
>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=59.20 E-value=1 Score=37.50 Aligned_cols=27 Identities=41% Similarity=0.655 Sum_probs=23.8
Q ss_pred eeeEEEeecCCCCCcchHHhHHHHHHH
Q 008738 408 YHKIIILTDADVDGAHIRTLLLTFFYR 434 (555)
Q Consensus 408 YgkiiimtDaD~DG~HI~~Llltff~~ 434 (555)
+..|||+||.|-=|..|+.-+...+-.
T Consensus 45 ~~~VIiltD~D~aG~~i~~~~~~~l~~ 71 (81)
T cd01027 45 YRGVIILTDPDRKGEKIRKKLSEYLSG 71 (81)
T ss_pred CCEEEEEECCCHHHHHHHHHHHHHhcc
Confidence 789999999999999999988777643
No 39
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=57.05 E-value=2.5 Score=38.27 Aligned_cols=25 Identities=48% Similarity=0.699 Sum_probs=21.6
Q ss_pred ccceeeEEEeecCCCCCcchHHhHH
Q 008738 405 ALRYHKIIILTDADVDGAHIRTLLL 429 (555)
Q Consensus 405 ~LRYgkiiimtDaD~DG~HI~~Lll 429 (555)
.++|..|||+||.|.=|.-||--|.
T Consensus 52 ~~~~k~VIILTD~D~~Ge~Irk~l~ 76 (127)
T COG1658 52 AQKYKGVIILTDPDRKGERIRKKLK 76 (127)
T ss_pred hhccCCEEEEeCCCcchHHHHHHHH
Confidence 3578889999999999999998763
No 40
>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=55.39 E-value=4.2 Score=34.80 Aligned_cols=20 Identities=30% Similarity=0.481 Sum_probs=17.5
Q ss_pred cCCcchhhhhhhcceeEEEE
Q 008738 25 LHGVGLSVVNALSESLEVTV 44 (555)
Q Consensus 25 lhGvGasvvNalS~~f~V~v 44 (555)
-||+|+.+++.+++.+..++
T Consensus 73 g~GlGL~~~~~~~~~~~g~l 92 (111)
T PF02518_consen 73 GHGLGLYIVKQIAERHGGEL 92 (111)
T ss_dssp SSSHHHHHHHHHHHHTTEEE
T ss_pred CCChHHHHHHHHHHHCCCEE
Confidence 39999999999999987764
No 41
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=53.11 E-value=2.6 Score=34.66 Aligned_cols=19 Identities=26% Similarity=0.375 Sum_probs=14.7
Q ss_pred eeeEEEeecCCCCCcchHH
Q 008738 408 YHKIIILTDADVDGAHIRT 426 (555)
Q Consensus 408 YgkiiimtDaD~DG~HI~~ 426 (555)
+.+|||++|.|..|--...
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 4899999999999864333
No 42
>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=50.72 E-value=11 Score=34.48 Aligned_cols=25 Identities=28% Similarity=0.423 Sum_probs=21.8
Q ss_pred eeeEEEeecCCCCCcchHHhHHHHH
Q 008738 408 YHKIIILTDADVDGAHIRTLLLTFF 432 (555)
Q Consensus 408 YgkiiimtDaD~DG~HI~~Llltff 432 (555)
...|||+||+|--|-+|.-.+++++
T Consensus 91 ~d~iiiAtD~DrEGE~I~~~i~~~~ 115 (142)
T cd01028 91 ADEIVLATDPDREGELIAWEILEVL 115 (142)
T ss_pred CCEEEEcCCCCcchHHHHHHHHHHh
Confidence 3689999999999999988877665
No 43
>PRK14083 HSP90 family protein; Provisional
Probab=49.34 E-value=32 Score=39.42 Aligned_cols=90 Identities=16% Similarity=0.235 Sum_probs=54.8
Q ss_pred ccccCCcchhhhhhhcceeEEEEEeCCEEEEEEec---CCcCCccceeeccCCCCCCCCceEEEEEeCc--ccccccccC
Q 008738 22 SGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYS---RGKPVTTLTCHVLPVDSKDRQGTRIRFWPDK--QVFTTAIQF 96 (555)
Q Consensus 22 sGGlhGvGasvvNalS~~f~V~v~r~gk~y~q~f~---~G~~~~~~~~~~~~~~~~~~~GT~V~F~PD~--~iF~~~~~~ 96 (555)
-.|..|||...+=+++...+|.++..+......|+ +|.. .+.. .+ .....+||+|+..+.+ .-| +
T Consensus 103 ~IG~FGIGf~S~F~vad~v~V~Tr~~~~~~~~~W~~~~~g~y--~i~~--~~-~~~~~~GT~I~L~l~~d~~~~-----~ 172 (601)
T PRK14083 103 FLGQFGIGLLSCFLVADEIVVVSRSAKDGPAVEWRGKADGTY--SVRK--LE-TERAEPGTTVYLRPRPDAEEW-----L 172 (601)
T ss_pred cccccccceEEEEEecCEEEEEeccCCCCceEEEEECCCCce--EEEe--CC-CCCCCCCCEEEEEecCchhhh-----c
Confidence 45999999999999999999999764322233343 2322 1211 11 2345799999988743 322 3
Q ss_pred CHHHHHHHHHHHhhcCCCcEEEEeec
Q 008738 97 DHNTIAGRIRELAFLNPKLTIALRKE 122 (555)
Q Consensus 97 ~~~~l~~Rl~elA~Ln~gl~I~l~de 122 (555)
+.+.|++-++..+-.- ..-|+++++
T Consensus 173 ~~~~i~~li~~ys~~i-~~pI~l~~~ 197 (601)
T PRK14083 173 ERETVEELAKKYGSLL-PVPIRVEGE 197 (601)
T ss_pred cHHHHHHHHHHHhccC-CCCcccCCc
Confidence 4455655555554332 366777764
No 44
>COG0326 HtpG Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=46.09 E-value=4.4e+02 Score=30.41 Aligned_cols=60 Identities=22% Similarity=0.330 Sum_probs=41.1
Q ss_pred ccccCCcchhhhhhhcceeEEEEEeCC--EEEEEEec-CCcCCccceeeccCCCCCCC-CceEEEEEeCcc
Q 008738 22 SGGLHGVGLSVVNALSESLEVTVWRDG--MEYHQKYS-RGKPVTTLTCHVLPVDSKDR-QGTRIRFWPDKQ 88 (555)
Q Consensus 22 sGGlhGvGasvvNalS~~f~V~v~r~g--k~y~q~f~-~G~~~~~~~~~~~~~~~~~~-~GT~V~F~PD~~ 88 (555)
-.|.=|||.--+=+.+.+.+|.+...| ..| .|+ .|...-.+..+ ...+ +||+|+-.+-+.
T Consensus 118 lIGQFGVGFYSaFmVAdkV~V~T~~~~~~~~~--~W~S~g~g~ytv~~~-----~~~~~~GT~I~L~Lk~~ 181 (623)
T COG0326 118 LIGQFGVGFYSAFMVADKVTVITRSAGEDEAY--HWESDGEGEYTVEDI-----DKEPRRGTEITLHLKEE 181 (623)
T ss_pred ccccccchhhheeeeeeeEEEEeccCCCCcce--EEEEcCCCceEEeec-----cCCCCCCcEEEEEECCc
Confidence 469999999988899999999998765 344 553 45554434322 2334 599998876543
No 45
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=44.35 E-value=1.8e+02 Score=33.77 Aligned_cols=98 Identities=13% Similarity=0.302 Sum_probs=62.5
Q ss_pred eEEEEEEeecCC---CC----CceeeeeeCccccC-CCCcchHHHHHHHHHHHHHHH-HhcccCCCCCCCCCHhhhhc-c
Q 008738 167 ITIDLALQWCSD---AY----SDTMLGYANSIRTI-DGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVRE-G 236 (555)
Q Consensus 167 ~~veval~~s~~---~~----~~~~~SFVN~I~T~-~GGTHv~g~~~al~~~in~~~-kk~~~~k~k~~~i~~~dIre-g 236 (555)
..||+|+.|.-+ .- .-.+.-|+|-||-. +.|. .++|+++...- +..++-. .-. =
T Consensus 498 FiVE~giayGG~~~~~~~~~~~~~i~RfANrvPLly~~g~------c~~t~~v~~i~W~~Y~l~~----------~~~~p 561 (659)
T PRK14867 498 FAVEVGLAYGGNAGRQGDEGRKMEIMRFSNHVPLLFDTSG------CGLTNAVKSVNWRRYGLRS----------DEDAP 561 (659)
T ss_pred EEEEEeeecCCcCCCCCccCCcceEEEeeccCceeecCcc------cHHHHHHHhCChhhcCcCC----------CCCCC
Confidence 468999999722 11 22699999999864 3343 34566664432 2223211 111 2
Q ss_pred cEEEEEEeecCCCCCCccccccC-----ChhhhhhhhhhhH---HHHHHHHh
Q 008738 237 LTCIISVRVPNPEFEGQTKTRLG-----NPEVRKVVDQSVQ---EYLTEYLE 280 (555)
Q Consensus 237 L~~~vsv~i~nP~FegQTKekL~-----n~~v~~~v~~~v~---~~l~~~l~ 280 (555)
++++|++-.++--|.|-.|+.+. .||+..-+..++. ..|..||.
T Consensus 562 ~~v~vhv~St~vPfts~~Keaia~~~~~~~eI~~Ei~lAl~~~~r~L~~~l~ 613 (659)
T PRK14867 562 ITVFVNLISTHIPYTSAGKQAIACSEEENEEIFNEIRQALMICARELEKYIS 613 (659)
T ss_pred EEEEEEEeecCCCCCCccHHHhhccCCCChHHHHHHHHHHHHHHHHHHHHHH
Confidence 78999999999999999999998 6776665555443 34555554
No 46
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=41.62 E-value=2.9e+02 Score=32.67 Aligned_cols=104 Identities=16% Similarity=0.344 Sum_probs=63.6
Q ss_pred eEEEEEEeecCCCC---CceeeeeeCccccC-CCCcchHHHHHHHHHHHHHHH-HhcccCCCCCCCCCHhhhhc-ccEEE
Q 008738 167 ITIDLALQWCSDAY---SDTMLGYANSIRTI-DGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVRE-GLTCI 240 (555)
Q Consensus 167 ~~veval~~s~~~~---~~~~~SFVN~I~T~-~GGTHv~g~~~al~~~in~~~-kk~~~~k~k~~~i~~~dIre-gL~~~ 240 (555)
..||+|+.|.-+.- .-.+.-|+|-||-. +.|. .++++++...- +..|+-..++. -+-. =++++
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------CATTDVVKSIGWRNYGLDQPGGS-----GLPNGPAVIM 610 (795)
T ss_pred eEEEEEeecCCcCCCCCCceEEEecccCceeecccc------cHHHHHHHhCChhhcCcCCCCCC-----CCCCCCEEEE
Confidence 56999999972211 23589999999864 2343 34566664432 23333222211 1111 26899
Q ss_pred EEEeecCCCCCCccccccCC-hhhhhhhhhhhH---HHHHHHHhh
Q 008738 241 ISVRVPNPEFEGQTKTRLGN-PEVRKVVDQSVQ---EYLTEYLEL 281 (555)
Q Consensus 241 vsv~i~nP~FegQTKekL~n-~~v~~~v~~~v~---~~l~~~l~~ 281 (555)
|++-..+--|.|-.|+.+.+ |++..-++..+. ..|..||.+
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 99999999999999999965 665555544433 356666643
No 47
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=41.03 E-value=3e+02 Score=30.78 Aligned_cols=97 Identities=19% Similarity=0.406 Sum_probs=60.3
Q ss_pred eEEEEEEeecCCCC---CceeeeeeCccccC-CCCcchHHHHHHHHHHHHHHH-HhcccCCCCCCCCCHhhhhc-ccEEE
Q 008738 167 ITIDLALQWCSDAY---SDTMLGYANSIRTI-DGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVRE-GLTCI 240 (555)
Q Consensus 167 ~~veval~~s~~~~---~~~~~SFVN~I~T~-~GGTHv~g~~~al~~~in~~~-kk~~~~k~k~~~i~~~dIre-gL~~~ 240 (555)
..||+|+.|.-+.- .-+++-|+|-|+-. +.|. .++++++...- +..++ + ++-. -+.++
T Consensus 348 fiVE~~iayGg~~~~~~~~~i~RfaNrvPLl~~~g~------~~~t~~v~~i~w~~Y~~-~---------~~~~~p~~v~ 411 (488)
T TIGR01052 348 FIVEVGIAYGGNIGRRSEPEILRYANKVPLLYDAGS------CVLTKAVKSINWKRYGI-R---------DFPSAPLVVL 411 (488)
T ss_pred eEEEEeeecCCcCCCCCceeEEEecccCceeecccc------cHHHHHHHhCChhhcCC-C---------CCCCCCEEEE
Confidence 56999999972211 24599999999864 3444 44566664432 22222 1 1221 37899
Q ss_pred EEEeecCCCCCCccccccCC-hhhhhhhhhhhH---HHHHHHH
Q 008738 241 ISVRVPNPEFEGQTKTRLGN-PEVRKVVDQSVQ---EYLTEYL 279 (555)
Q Consensus 241 vsv~i~nP~FegQTKekL~n-~~v~~~v~~~v~---~~l~~~l 279 (555)
|++-.++--|.|-.|+...+ ||+..-+..++. ..|..||
T Consensus 412 vhi~St~vPf~s~~Ke~ia~~~ei~~ei~~al~~~~r~L~~~l 454 (488)
T TIGR01052 412 VNLASTNVPYTSTGKQSVADIPEIYNEIRLALMEVARRLRLYL 454 (488)
T ss_pred EEEeecCCCCCCcchhhhcCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999964 565554444432 3455554
No 48
>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=38.07 E-value=21 Score=32.06 Aligned_cols=24 Identities=29% Similarity=0.390 Sum_probs=19.8
Q ss_pred eeEEEeecCCCCCcchHHhHHHHH
Q 008738 409 HKIIILTDADVDGAHIRTLLLTFF 432 (555)
Q Consensus 409 gkiiimtDaD~DG~HI~~Llltff 432 (555)
..|||.||+|..|.+|.-.++..+
T Consensus 74 ~eiiiAtD~drEGe~i~~~i~~~~ 97 (123)
T cd03363 74 DEIYLATDPDREGEAIAWHLAEVL 97 (123)
T ss_pred CEEEEcCCCCcchHHHHHHHHHHc
Confidence 369999999999999987665554
No 49
>PF14484 FISNA: Fish-specific NACHT associated domain
Probab=36.17 E-value=20 Score=29.28 Aligned_cols=14 Identities=36% Similarity=0.567 Sum_probs=11.9
Q ss_pred CCceeEEeeccCCC
Q 008738 334 EESEIFIVEGDSAG 347 (555)
Q Consensus 334 ~~~eL~lvEGDSA~ 347 (555)
--++||||||+|.+
T Consensus 29 iYTeLyIteg~~~~ 42 (73)
T PF14484_consen 29 IYTELYITEGGSGE 42 (73)
T ss_pred hceeeeEeccCCCc
Confidence 35889999999975
No 50
>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=32.95 E-value=29 Score=33.17 Aligned_cols=23 Identities=39% Similarity=0.599 Sum_probs=19.7
Q ss_pred ceeeEEEeecCCCCCcchHHhHH
Q 008738 407 RYHKIIILTDADVDGAHIRTLLL 429 (555)
Q Consensus 407 RYgkiiimtDaD~DG~HI~~Lll 429 (555)
...-|||+||+|.-|-.||..|.
T Consensus 46 ~~rgVIIfTDpD~~GekIRk~i~ 68 (174)
T TIGR00334 46 KKQGVIILTDPDFPGEKIRKKIE 68 (174)
T ss_pred hcCCEEEEeCCCCchHHHHHHHH
Confidence 45679999999999999998764
No 51
>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=31.29 E-value=40 Score=31.17 Aligned_cols=25 Identities=36% Similarity=0.514 Sum_probs=21.1
Q ss_pred eeeEEEeecCCCCCcchHHhHHHHH
Q 008738 408 YHKIIILTDADVDGAHIRTLLLTFF 432 (555)
Q Consensus 408 YgkiiimtDaD~DG~HI~~Llltff 432 (555)
...|||+||+|--|.+|.-.++..+
T Consensus 99 ad~ii~atD~DrEGE~I~~~i~~~~ 123 (151)
T cd03362 99 ADEIVIATDADREGELIGREILEYA 123 (151)
T ss_pred CCeEEEccCCCccccHHHHHHHHHh
Confidence 3679999999999999988776655
No 52
>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=27.05 E-value=2.4e+02 Score=29.77 Aligned_cols=96 Identities=19% Similarity=0.210 Sum_probs=59.0
Q ss_pred CHhHHHHHHHhcCCccCCcCcccccceeeEEEeecCCCCCcchHHhHHHHHHHHHHHhhhcCcEEEecCCeE-EEEeCCe
Q 008738 382 NEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLY-KVERGKQ 460 (555)
Q Consensus 382 N~Ei~~li~alG~~~~~~~~~~~~LRYgkiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~-kv~~gk~ 460 (555)
.+++.+.++.||+...-+.+ +-| .|-.|+. ....++-.|+++|+||....|.+ .+..-.+
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 36778888999995421111 122 1223544 34566778899999998888763 3333345
Q ss_pred EEEeeCHHHHHHHHHh----C---------------CCCCCccceeeeccccCCh
Q 008738 461 VQYCYDDAELKKVKSS----F---------------PSNALYSIQRFKGLGEMMP 496 (555)
Q Consensus 461 ~~~~~s~~e~~~~~~~----~---------------~~~~~~~i~ryKGLGe~~~ 496 (555)
..||+...++.+.+.+ . .+...|.|.|=-++|.--|
T Consensus 151 ~qwf~~l~~~~~~l~~~~~~~~~~P~~~~~~~~~~l~~l~dw~iSR~~~WGip~P 205 (338)
T cd00818 151 PQWFIRVTKIKDRLLEANDKVNWIPEWVKNRFGNWLENRRDWCISRQRYWGTPIP 205 (338)
T ss_pred CeEEEEcHHHHHHHHHHHhcCcEECHHHHHHHHHHHhcchhcceeeecccCceee
Confidence 6688876666554432 1 1234577888888888665
No 53
>cd01026 TOPRIM_OLD TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as RNase activity, consists of an N-terminal ABC-type ATPase domain and a C-terminal Toprim domain; the nuclease activity of OLD is stimulated by ATP, though the ATPase activity is not DNA-dependent. Functional details on OLD are scant and further experimentation is required to define the relationship between the ATPase and Toprim nuclease domains. 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 acid in strand cleavage by nucleases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=26.71 E-value=29 Score=29.43 Aligned_cols=58 Identities=36% Similarity=0.503 Sum_probs=37.6
Q ss_pred eEEeeccCCCcc----cc---ccCCCCceeecccCcccccccccCHHHHhhCHhHHHHHHHhcCCccCCcCcccccceee
Q 008738 338 IFIVEGDSAGGS----AK---QGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHK 410 (555)
Q Consensus 338 L~lvEGDSA~gs----a~---~gRdr~~qai~PLrGKiLNv~ka~~~ki~~N~Ei~~li~alG~~~~~~~~~~~~LRYgk 410 (555)
.+||||+|=-.. +. ..++...-.|.|..|| |+... ..++..+|. +
T Consensus 6 vIlVEG~tE~~~l~~~~~~~~~~~~~~~i~ii~~gG~--~~~~~-----------~~ll~~~~i---------------~ 57 (97)
T cd01026 6 VILVEGDSEEILLPALAKKLGLDLDEAGISIIPVGGK--NFKPF-----------IKLLNALGI---------------P 57 (97)
T ss_pred EEEEecHHHHHHHHHHHHHhCCCHHHCCEEEEEeCCc--chHHH-----------HHHHHHcCC---------------C
Confidence 689999997532 11 1233445678888887 65332 245555544 5
Q ss_pred EEEeecCCCCCcc
Q 008738 411 IIILTDADVDGAH 423 (555)
Q Consensus 411 iiimtDaD~DG~H 423 (555)
+.+++|.|..+.+
T Consensus 58 ~~vi~D~D~~~~~ 70 (97)
T cd01026 58 VAVLTDLDAKRNE 70 (97)
T ss_pred EEEEEeCCCCCCc
Confidence 7899999998876
No 54
>PRK04031 DNA primase; Provisional
Probab=26.63 E-value=42 Score=36.32 Aligned_cols=52 Identities=25% Similarity=0.305 Sum_probs=33.3
Q ss_pred eeeEEEeecCCCCCcchHHhHHHHHHHHHHHhhhcC-cEEEecCCeEEEEeCCeEEEeeCHHHHHHHHHh
Q 008738 408 YHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEG-CIYVGVPPLYKVERGKQVQYCYDDAELKKVKSS 476 (555)
Q Consensus 408 YgkiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g-~v~~~~tPl~kv~~gk~~~~~~s~~e~~~~~~~ 476 (555)
-..|++++|.|.-|--|+-.| ++.+ +.|++.-| .|+.. --++.++..+.+..
T Consensus 210 ~~~Vil~~DgD~aGe~I~k~l-----------~~v~~~d~VaraP-----~G~dV-E~ls~eeI~kAL~~ 262 (408)
T PRK04031 210 KKTVTAFLDGDRGGELILKEL-----------LQVADIDYVARAP-----PGKEV-EELTKKEIAKALRN 262 (408)
T ss_pred CCCEEEEECCCHHHHHHHHHH-----------HhhcceeEEecCC-----CCCCh-hhCCHHHHHHHHHh
Confidence 568999999999997664433 3323 67888888 55433 33456565555543
No 55
>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=24.01 E-value=77 Score=25.03 Aligned_cols=20 Identities=50% Similarity=0.690 Sum_probs=16.7
Q ss_pred eeccccCCcchhhhhhhcce
Q 008738 20 SVSGGLHGVGLSVVNALSES 39 (555)
Q Consensus 20 k~sGGlhGvGasvvNalS~~ 39 (555)
+...+.+|+|+++++.++..
T Consensus 63 ~~~~~~~g~gl~~~~~~~~~ 82 (103)
T cd00075 63 SRKGGGTGLGLSIVKKLVEL 82 (103)
T ss_pred CCCCCccccCHHHHHHHHHH
Confidence 45667899999999999984
No 56
>PF13581 HATPase_c_2: Histidine kinase-like ATPase domain
Probab=23.20 E-value=1.2e+02 Score=26.35 Aligned_cols=50 Identities=18% Similarity=0.186 Sum_probs=35.8
Q ss_pred EeeecCCCCCCCCCCce-------eeccccCCcchhhhhhhcceeEEEEEeCCEEEEEEe
Q 008738 3 VTVLHAGGKFGGSSSGY-------SVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKY 55 (555)
Q Consensus 3 ~t~lhaGgkF~~~~~~y-------k~sGGlhGvGasvvNalS~~f~V~v~r~gk~y~q~f 55 (555)
+++...|..|+-. .+ .......|.|+.+++.|+..+.+ ...+|+..+++|
T Consensus 69 i~v~D~G~~~d~~--~~~~~~~~~~~~~~~~G~Gl~li~~l~D~~~~-~~~~gn~v~l~k 125 (125)
T PF13581_consen 69 ISVRDNGPGFDPE--QLPQPDPWEPDSLREGGRGLFLIRSLMDEVDY-REDGGNTVTLRK 125 (125)
T ss_pred EEEEECCCCCChh--hccCcccccCCCCCCCCcCHHHHHHHHcEEEE-ECCCeEEEEEEC
Confidence 4556667668754 11 15677889999999999999999 455666666553
No 57
>smart00493 TOPRIM topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins.
Probab=22.03 E-value=56 Score=25.80 Aligned_cols=21 Identities=33% Similarity=0.474 Sum_probs=17.0
Q ss_pred eeEEEeecCCCCCcchHHhHH
Q 008738 409 HKIIILTDADVDGAHIRTLLL 429 (555)
Q Consensus 409 gkiiimtDaD~DG~HI~~Lll 429 (555)
.+|||++|.|..|..+.--+.
T Consensus 48 ~~Iii~~D~D~~G~~~~~~i~ 68 (76)
T smart00493 48 KEVILATDPDREGEAIAWKLA 68 (76)
T ss_pred CEEEEEcCCChhHHHHHHHHH
Confidence 579999999999987765543
No 58
>PTZ00130 heat shock protein 90; Provisional
Probab=21.92 E-value=1.4e+02 Score=35.47 Aligned_cols=94 Identities=17% Similarity=0.177 Sum_probs=55.1
Q ss_pred eccccCCcchhhhhhhcceeEEEEEeCC-EEEEEEecCCcCCccceeeccCCCCCCCCceEEEEEeCcccccccccCCHH
Q 008738 21 VSGGLHGVGLSVVNALSESLEVTVWRDG-MEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHN 99 (555)
Q Consensus 21 ~sGGlhGvGasvvNalS~~f~V~v~r~g-k~y~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~PD~~iF~~~~~~~~~ 99 (555)
---|+.|||.-.+=.++...+|+++..| .-|..+. .|...-.+. ..+.+.+..+||+|+..+...- ..-++..
T Consensus 178 ~lIGQFGVGFYSaFmVAdkV~V~Trs~~~~~~~W~s-~g~g~y~I~--e~~~~~~~~rGT~I~LhLked~---~efl~~~ 251 (814)
T PTZ00130 178 SLIGQFGVGFYSAFLVADKVIVYTKNNNDEQYIWES-TADAKFTIY--KDPRGSTLKRGTRISLHLKEDA---TNLMNDK 251 (814)
T ss_pred ccccccccchhheeeecCEEEEEEcCCCCceEEEEE-CCCCcEEEE--ECCCCCCCCCCcEEEEEECCch---hhhccHH
Confidence 4679999999888899999999998643 2333222 232211121 1122334479999998875432 1113556
Q ss_pred HHHHHHHHHhhcCCCcEEEEee
Q 008738 100 TIAGRIRELAFLNPKLTIALRK 121 (555)
Q Consensus 100 ~l~~Rl~elA~Ln~gl~I~l~d 121 (555)
.|+.-++..+-.. ..-|++++
T Consensus 252 ~ik~likkYS~fI-~~PI~l~~ 272 (814)
T PTZ00130 252 KLVDLISKYSQFI-QYPIYLLH 272 (814)
T ss_pred HHHHHHHHhhccC-CCCEEEcc
Confidence 6666666666322 24466654
No 59
>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=20.65 E-value=60 Score=29.31 Aligned_cols=31 Identities=26% Similarity=0.335 Sum_probs=24.4
Q ss_pred eeccccCCcc-hhhhhhhcceeEEEEEeCCEE
Q 008738 20 SVSGGLHGVG-LSVVNALSESLEVTVWRDGME 50 (555)
Q Consensus 20 k~sGGlhGvG-asvvNalS~~f~V~v~r~gk~ 50 (555)
+.+-|.+|+| ...+..++..++|.+...|..
T Consensus 67 ~~~~G~~G~G~k~A~~~~~~~~~v~S~~~~~~ 98 (137)
T PF13589_consen 67 RQSIGRFGIGLKLAIFSLGDRVEVISKTNGES 98 (137)
T ss_dssp GGGGGGGTSGCGGGGGGTEEEEEEEEESTTSS
T ss_pred hhcCCCcceEHHHHHHHhcCEEEEEEEECCCC
Confidence 3478999999 555788999999999876543
No 60
>cd03361 TOPRIM_TopoIA_RevGyr TopoIA_RevGyr : The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to the ATP-dependent reverse gyrase found in archaea and thermophilic bacteria. 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. 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 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=20.55 E-value=65 Score=30.57 Aligned_cols=25 Identities=24% Similarity=0.367 Sum_probs=20.4
Q ss_pred eeeEEEeecCCCCCcchHHhHHHHH
Q 008738 408 YHKIIILTDADVDGAHIRTLLLTFF 432 (555)
Q Consensus 408 YgkiiimtDaD~DG~HI~~Llltff 432 (555)
-..|||.||+|-.|..|.-.++..+
T Consensus 119 ~~~iiiatD~drEGe~I~~~i~~~~ 143 (170)
T cd03361 119 VDEVLIATDPDTEGEKIAWDVYLAL 143 (170)
T ss_pred CCEEEEecCCCccHHHHHHHHHHHh
Confidence 3479999999999999887776554
Done!