Query 005028
Match_columns 718
No_of_seqs 223 out of 1718
Neff 6.4
Searched_HMMs 46136
Date Thu Mar 28 16:53:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005028.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005028hhsearch_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 2E-213 4E-218 1751.2 60.5 631 74-718 3-635 (635)
2 PTZ00109 DNA gyrase subunit b; 100.0 7E-198 1E-202 1692.2 60.2 632 75-711 98-902 (903)
3 TIGR01058 parE_Gpos DNA topois 100.0 1E-195 3E-200 1668.3 63.2 621 75-711 3-630 (637)
4 PRK14939 gyrB DNA gyrase subun 100.0 3E-187 7E-192 1610.3 60.6 632 73-718 3-756 (756)
5 PRK05644 gyrB DNA gyrase subun 100.0 9E-187 2E-191 1601.2 63.7 632 73-718 4-638 (638)
6 PRK05559 DNA topoisomerase IV 100.0 3E-186 7E-191 1596.8 63.5 622 73-711 4-628 (631)
7 TIGR01055 parE_Gneg DNA topois 100.0 3E-183 6E-188 1567.7 60.6 618 74-709 1-623 (625)
8 TIGR01059 gyrB DNA gyrase, B s 100.0 3E-180 6E-185 1557.3 63.7 629 77-718 1-654 (654)
9 PHA02569 39 DNA topoisomerase 100.0 2E-175 3E-180 1494.1 56.6 567 80-706 2-602 (602)
10 PTZ00108 DNA topoisomerase 2-l 100.0 5E-172 1E-176 1540.6 60.4 604 79-714 7-654 (1388)
11 smart00433 TOP2c Topoisomerase 100.0 3E-171 6E-176 1466.4 56.1 589 106-709 1-594 (594)
12 PLN03128 DNA topoisomerase 2; 100.0 6E-169 1E-173 1505.5 59.5 602 79-714 4-647 (1135)
13 PLN03237 DNA topoisomerase 2; 100.0 2E-166 4E-171 1484.7 60.9 594 79-714 29-672 (1465)
14 KOG0355 DNA topoisomerase type 100.0 5E-121 1E-125 1029.6 29.7 597 79-709 5-637 (842)
15 cd03366 TOPRIM_TopoIIA_GyrB TO 100.0 4.5E-57 9.8E-62 407.4 11.3 114 499-613 1-114 (114)
16 cd01030 TOPRIM_TopoIIA_like TO 100.0 6.1E-56 1.3E-60 402.3 10.8 115 499-613 1-115 (115)
17 cd03365 TOPRIM_TopoIIA TOPRIM_ 100.0 7E-53 1.5E-57 384.6 8.8 115 499-613 1-120 (120)
18 cd00822 TopoII_Trans_DNA_gyras 100.0 7.3E-41 1.6E-45 329.9 20.2 171 301-472 1-172 (172)
19 PF00204 DNA_gyraseB: DNA gyra 100.0 9.7E-40 2.1E-44 322.6 20.2 169 302-472 1-173 (173)
20 cd03481 TopoIIA_Trans_ScTopoII 100.0 3.3E-30 7.1E-35 248.7 14.5 146 302-459 2-150 (153)
21 PF00986 DNA_gyraseB_C: DNA gy 99.9 1.2E-25 2.7E-30 183.9 5.9 63 643-705 3-65 (65)
22 PRK00095 mutL DNA mismatch rep 99.9 1.6E-21 3.5E-26 227.1 22.7 259 105-414 21-295 (617)
23 TIGR01052 top6b DNA topoisomer 99.9 2.2E-22 4.7E-27 225.2 12.3 282 80-412 2-307 (488)
24 COG1389 DNA topoisomerase VI, 99.9 6.5E-23 1.4E-27 220.9 6.3 256 80-384 10-284 (538)
25 PRK04184 DNA topoisomerase VI 99.8 9E-20 2E-24 206.2 10.7 284 80-412 10-313 (535)
26 PRK14867 DNA topoisomerase VI 99.6 2.8E-15 6.1E-20 172.8 13.3 184 80-285 10-210 (659)
27 TIGR00585 mutl DNA mismatch re 99.6 2.3E-13 4.9E-18 146.9 22.4 260 105-414 21-301 (312)
28 PRK14868 DNA topoisomerase VI 99.5 3.3E-14 7.1E-19 164.3 11.1 251 80-370 20-286 (795)
29 PF01751 Toprim: Toprim domain 99.1 7.3E-11 1.6E-15 106.3 4.4 97 500-611 1-98 (100)
30 COG0323 MutL DNA mismatch repa 99.0 9.6E-10 2.1E-14 128.8 11.0 158 105-285 22-193 (638)
31 PF02518 HATPase_c: Histidine 98.7 4.8E-09 1E-13 95.2 2.8 88 104-208 3-93 (111)
32 cd00329 TopoII_MutL_Trans MutL 98.6 8.1E-08 1.8E-12 86.2 7.4 100 304-421 2-106 (107)
33 PRK05218 heat shock protein 90 98.6 7.6E-06 1.7E-10 96.1 25.2 158 108-284 28-210 (613)
34 KOG1978 DNA mismatch repair pr 98.6 6.8E-08 1.5E-12 110.4 7.9 157 105-286 19-192 (672)
35 PF13589 HATPase_c_3: Histidin 98.5 8.5E-09 1.8E-13 98.3 -1.3 90 108-213 4-98 (137)
36 PRK14083 HSP90 family protein; 98.2 3.3E-06 7.1E-11 98.6 9.1 164 107-285 24-197 (601)
37 KOG1979 DNA mismatch repair pr 98.2 4.1E-06 8.8E-11 94.2 8.2 154 107-285 28-197 (694)
38 COG0326 HtpG Molecular chapero 97.8 0.00032 7E-09 81.0 15.7 125 111-251 32-181 (623)
39 PTZ00272 heat shock protein 83 97.7 6.1E-05 1.3E-09 89.2 8.1 158 109-283 28-206 (701)
40 cd00075 HATPase_c Histidine ki 97.7 9.5E-05 2.1E-09 63.5 6.6 79 107-202 1-82 (103)
41 PRK14939 gyrB DNA gyrase subun 97.6 6.9E-06 1.5E-10 97.7 -3.0 49 648-697 575-624 (756)
42 smart00387 HATPase_c Histidine 97.3 0.00051 1.1E-08 59.9 6.1 84 105-205 4-90 (111)
43 PTZ00130 heat shock protein 90 97.3 0.0009 1.9E-08 80.0 9.9 158 110-284 92-272 (814)
44 KOG1977 DNA mismatch repair pr 97.2 0.00019 4.2E-09 82.3 2.7 170 92-287 12-196 (1142)
45 PF13581 HATPase_c_2: Histidin 97.2 0.0023 5E-08 59.2 9.2 90 106-217 31-124 (125)
46 COG3920 Signal transduction hi 97.0 0.0032 7E-08 65.1 9.1 95 95-220 111-215 (221)
47 PRK04069 serine-protein kinase 96.9 0.003 6.4E-08 61.9 8.1 93 105-214 41-137 (161)
48 TIGR02938 nifL_nitrog nitrogen 96.9 0.0027 5.8E-08 71.1 8.4 81 106-203 387-472 (494)
49 TIGR01386 cztS_silS_copS heavy 96.8 0.0023 5E-08 71.4 6.9 82 106-203 353-437 (457)
50 TIGR01925 spIIAB anti-sigma F 96.7 0.0092 2E-07 56.2 9.6 82 105-206 38-123 (137)
51 PRK11086 sensory histidine kin 96.7 0.0026 5.6E-08 72.8 6.9 77 106-202 433-512 (542)
52 PRK10604 sensor protein RstB; 96.6 0.0047 1E-07 69.6 8.0 80 106-203 319-401 (433)
53 PRK15053 dpiB sensor histidine 96.6 0.0053 1.2E-07 70.8 8.3 81 105-202 431-516 (545)
54 PRK10364 sensor protein ZraS; 96.5 0.0047 1E-07 69.8 7.3 76 106-203 348-426 (457)
55 PRK03660 anti-sigma F factor; 96.5 0.017 3.7E-07 54.9 10.0 83 105-207 38-124 (146)
56 COG3290 CitA Signal transducti 96.5 0.003 6.5E-08 71.9 4.9 78 106-203 427-509 (537)
57 PRK11006 phoR phosphate regulo 96.4 0.0057 1.2E-07 68.6 6.5 83 105-203 316-401 (430)
58 COG2205 KdpD Osmosensitive K+ 96.3 0.0051 1.1E-07 72.9 5.9 117 69-201 725-855 (890)
59 PRK10337 sensor protein QseC; 96.3 0.0078 1.7E-07 67.5 7.2 77 107-203 353-429 (449)
60 PRK11073 glnL nitrogen regulat 96.3 0.012 2.6E-07 63.6 8.1 77 105-202 236-325 (348)
61 TIGR01924 rsbW_low_gc serine-p 96.2 0.034 7.5E-07 54.4 10.0 94 106-216 42-139 (159)
62 PRK10549 signal transduction h 96.0 0.0078 1.7E-07 67.7 5.3 82 106-203 352-436 (466)
63 PRK09303 adaptive-response sen 96.0 0.013 2.8E-07 65.0 6.8 81 105-203 271-355 (380)
64 PRK09835 sensor kinase CusS; P 95.8 0.015 3.2E-07 65.7 6.5 82 105-202 374-458 (482)
65 PRK09467 envZ osmolarity senso 95.8 0.021 4.6E-07 63.6 7.8 78 106-203 331-411 (435)
66 PRK09470 cpxA two-component se 95.8 0.019 4.2E-07 64.2 7.0 79 106-202 353-434 (461)
67 COG4191 Signal transduction hi 95.7 0.025 5.5E-07 65.1 7.4 51 105-155 496-549 (603)
68 PRK11100 sensory histidine kin 95.6 0.024 5.2E-07 63.5 7.1 81 106-203 368-451 (475)
69 PRK11360 sensory histidine kin 95.5 0.038 8.3E-07 63.3 8.5 76 106-203 500-579 (607)
70 TIGR03785 marine_sort_HK prote 95.5 0.021 4.6E-07 68.7 6.4 83 105-203 596-681 (703)
71 TIGR02966 phoR_proteo phosphat 95.4 0.032 6.8E-07 59.0 6.5 82 105-202 228-312 (333)
72 PRK10815 sensor protein PhoQ; 95.3 0.041 8.8E-07 63.3 7.8 75 107-203 379-456 (485)
73 PRK11644 sensory histidine kin 95.3 0.066 1.4E-06 61.9 9.4 44 106-152 410-456 (495)
74 PRK10755 sensor protein BasS/P 95.2 0.039 8.5E-07 60.0 7.0 77 106-202 247-326 (356)
75 COG3850 NarQ Signal transducti 95.1 0.034 7.4E-07 63.3 6.1 46 107-155 482-530 (574)
76 PRK15347 two component system 95.0 0.036 7.7E-07 68.2 6.5 77 106-203 513-592 (921)
77 PRK10490 sensor protein KdpD; 94.9 0.051 1.1E-06 67.2 7.6 81 105-203 777-860 (895)
78 PRK13560 hypothetical protein; 94.9 0.075 1.6E-06 63.8 8.6 46 107-152 712-762 (807)
79 TIGR02916 PEP_his_kin putative 94.8 0.064 1.4E-06 64.2 7.8 76 105-202 578-657 (679)
80 PRK11466 hybrid sensory histid 94.8 0.06 1.3E-06 66.3 7.5 94 105-219 560-661 (914)
81 PRK11091 aerobic respiration c 94.6 0.055 1.2E-06 65.6 6.6 99 105-219 397-504 (779)
82 COG0642 BaeS Signal transducti 94.6 0.045 9.7E-07 56.8 5.0 46 105-153 227-275 (336)
83 PRK10600 nitrate/nitrite senso 94.5 0.14 3.1E-06 59.8 9.4 43 107-152 470-515 (569)
84 TIGR02956 TMAO_torS TMAO reduc 94.2 0.068 1.5E-06 66.2 6.4 96 104-218 577-681 (968)
85 PRK10618 phosphotransfer inter 94.2 0.12 2.6E-06 63.9 8.2 98 104-219 563-671 (894)
86 PRK13557 histidine kinase; Pro 93.9 0.37 7.9E-06 54.9 11.1 94 106-219 277-393 (540)
87 PRK13837 two-component VirA-li 93.8 0.21 4.5E-06 61.3 9.5 93 105-219 559-674 (828)
88 COG4585 Signal transduction hi 93.7 0.097 2.1E-06 57.8 5.7 47 105-154 278-327 (365)
89 PRK10841 hybrid sensory kinase 93.6 0.11 2.3E-06 64.7 6.4 82 105-203 561-645 (924)
90 PRK10547 chemotaxis protein Ch 93.3 0.15 3.3E-06 60.9 6.7 42 112-153 391-445 (670)
91 PRK11107 hybrid sensory histid 93.2 0.12 2.5E-06 63.6 5.9 81 106-203 408-496 (919)
92 COG2172 RsbW Anti-sigma regula 93.2 0.64 1.4E-05 45.1 9.7 84 106-211 40-130 (146)
93 COG5000 NtrY Signal transducti 92.9 0.15 3.3E-06 59.0 5.7 80 98-197 592-679 (712)
94 PRK13559 hypothetical protein; 92.6 0.43 9.3E-06 51.9 8.6 46 106-151 267-318 (361)
95 PRK09959 hybrid sensory histid 92.4 0.24 5.1E-06 63.1 7.2 98 105-219 827-935 (1197)
96 cd00188 TOPRIM Topoisomerase-p 91.0 0.27 5.8E-06 40.6 3.8 71 500-596 2-72 (83)
97 PF14501 HATPase_c_5: GHKL dom 90.2 2.3 4.9E-05 37.9 9.3 72 106-203 5-80 (100)
98 COG5002 VicK Signal transducti 89.8 0.19 4.1E-06 54.8 2.2 94 90-199 325-422 (459)
99 PRK10935 nitrate/nitrite senso 89.4 0.4 8.6E-06 55.5 4.7 43 107-152 472-518 (565)
100 COG3851 UhpB Signal transducti 89.2 0.54 1.2E-05 51.5 5.1 44 106-152 410-456 (497)
101 COG4192 Signal transduction hi 89.2 0.5 1.1E-05 53.1 4.9 79 105-204 563-645 (673)
102 COG3852 NtrB Signal transducti 88.6 0.87 1.9E-05 49.1 6.0 51 105-155 240-305 (363)
103 KOG0787 Dehydrogenase kinase [ 86.9 0.78 1.7E-05 50.5 4.6 105 86-204 244-359 (414)
104 KOG0020 Endoplasmic reticulum 84.4 1.9 4.2E-05 48.8 6.1 157 109-275 98-275 (785)
105 cd00823 TopoIIB_Trans TopoIIB_ 83.2 10 0.00022 36.9 9.7 87 330-431 33-125 (151)
106 COG4564 Signal transduction hi 82.7 2.3 4.9E-05 46.3 5.6 63 88-153 330-406 (459)
107 COG0643 CheA Chemotaxis protei 82.5 1.1 2.4E-05 54.1 3.6 85 112-198 438-546 (716)
108 PF09239 Topo-VIb_trans: Topoi 82.4 9.7 0.00021 37.4 9.3 86 330-430 42-133 (160)
109 COG2972 Predicted signal trans 80.0 5 0.00011 46.0 7.7 47 107-153 351-402 (456)
110 KOG0019 Molecular chaperone (H 78.3 3 6.4E-05 48.7 5.0 159 109-287 60-239 (656)
111 PRK04017 hypothetical protein; 74.3 0.73 1.6E-05 43.9 -0.9 29 570-598 64-92 (132)
112 COG4251 Bacteriophytochrome (l 73.0 4 8.7E-05 48.0 4.3 98 107-221 637-742 (750)
113 TIGR01052 top6b DNA topoisomer 67.9 51 0.0011 38.3 11.8 98 330-443 348-455 (488)
114 PRK04184 DNA topoisomerase VI 66.7 57 0.0012 38.4 12.0 100 330-444 353-461 (535)
115 COG3275 LytS Putative regulato 65.3 9.1 0.0002 43.8 5.0 44 109-152 459-507 (557)
116 PRK14867 DNA topoisomerase VI 63.6 57 0.0012 39.3 11.4 99 330-444 498-614 (659)
117 COG1389 DNA topoisomerase VI, 60.5 91 0.002 35.9 11.5 100 330-446 357-466 (538)
118 cd01027 TOPRIM_RNase_M5_like T 59.9 1.1 2.4E-05 39.0 -2.7 27 571-597 45-71 (81)
119 COG1658 Small primase-like pro 59.8 2.3 5E-05 40.3 -0.8 25 568-592 52-76 (127)
120 PRK14868 DNA topoisomerase VI 57.0 74 0.0016 38.9 10.8 104 330-444 542-655 (795)
121 PF10691 DUF2497: Protein of u 51.1 30 0.00065 29.8 4.7 33 425-457 34-67 (73)
122 PRK04031 DNA primase; Provisio 48.7 19 0.0004 40.6 3.9 53 570-638 209-261 (408)
123 KOG1413 N-acetylglucosaminyltr 38.2 11 0.00023 41.6 0.0 79 568-666 165-245 (411)
124 COG2865 Predicted transcriptio 37.5 49 0.0011 38.2 5.1 46 108-155 272-318 (467)
125 cd01028 TOPRIM_TopoIA TOPRIM_T 37.1 24 0.00052 33.7 2.3 25 571-595 91-115 (142)
126 KOG4518 Hydroxypyruvate isomer 29.3 61 0.0013 33.2 3.7 38 96-133 69-106 (264)
127 PF14484 FISNA: Fish-specific 27.7 34 0.00073 29.3 1.4 15 497-511 29-43 (73)
128 cd03363 TOPRIM_TopoIA_TopoI TO 25.4 45 0.00098 31.3 1.9 24 572-595 74-97 (123)
129 PF00640 PID: Phosphotyrosine 25.2 1.2E+02 0.0025 28.2 4.8 60 97-157 4-80 (140)
130 TIGR00334 5S_RNA_mat_M5 ribonu 23.6 54 0.0012 32.9 2.1 25 569-593 45-69 (174)
131 PF13662 Toprim_4: Toprim doma 22.0 3.1 6.7E-05 35.7 -6.2 19 571-589 46-64 (81)
132 cd01026 TOPRIM_OLD TOPRIM_OLD: 20.6 45 0.00097 29.6 0.8 58 501-586 6-70 (97)
133 cd03362 TOPRIM_TopoIA_TopoIII 20.1 85 0.0018 30.3 2.7 26 571-596 99-124 (151)
No 1
>COG0187 GyrB Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair]
Probab=100.00 E-value=2e-213 Score=1751.19 Aligned_cols=631 Identities=56% Similarity=0.937 Sum_probs=602.0
Q ss_pred CCCCCcccceeccchhhHhhCCCeeeccCCC-CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCCcEEEEECCCCcccc
Q 005028 74 SKTYGSEQIQVLEGLEAVRKRPAMYIGSTGP-RGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPID 152 (718)
Q Consensus 74 ~~~Y~~~~i~~L~~lE~VrkRPgMYIGs~~~-~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg~isV~DnGrGIPv~ 152 (718)
..+|++++||+|+||||||||||||||||+. +||||||||||||||||++||||+.|.|+||+||+|+|.|||||||++
T Consensus 3 ~~~Y~a~~I~vL~GLEaVRkRPGMYIGst~~~~GLhHlv~EVvDNsiDEalaG~~~~I~V~l~~d~sisV~DnGRGIPvd 82 (635)
T COG0187 3 TNNYDASSIQVLEGLEAVRKRPGMYIGSTGDGRGLHHLVWEVVDNSIDEALAGYADRIDVTLHEDGSISVEDNGRGIPVD 82 (635)
T ss_pred cCcCCHhHceeccCcHHhhcCCCceeccCCCCCcceeeEeEeeechHhHHhhCcCcEEEEEEcCCCeEEEEECCCCCccc
Confidence 4679999999999999999999999999998 999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCccceeeeeeeeccCCCCCCCCCceeeccCccCCchhHHhhcccceEEEEEeCCEEEEEEEecCcccccceeecc
Q 005028 153 LHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVL 232 (718)
Q Consensus 153 ~~~~~g~~~~E~v~t~lhag~kF~~~~~~ykvSGGlhGvG~svvNalS~~~~V~v~r~gk~y~q~f~~G~~~~~l~~~~~ 232 (718)
+||++++|++|+|||+|||||||+++ +|++||||||||+|||||||+||+|+|+|+|+.|+|+|++|+++.++..+..
T Consensus 83 iH~~~~~~~vEvI~T~LHAGGKFd~~--~YkvSGGLHGVG~SVVNALS~~l~v~v~r~gk~y~q~f~~G~~~~~l~~ig~ 160 (635)
T COG0187 83 IHPKEKVSAVEVIFTVLHAGGKFDND--SYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYRQRFERGVPVTPLEVIGS 160 (635)
T ss_pred cCCCCCCCceEEEEEeeccCcccCCC--ccEeecCCCccceEEEecccceEEEEEEECCEEEEEEEeCCCcCCCceeccc
Confidence 99999999999999999999999998 9999999999999999999999999999999999999999999988875511
Q ss_pred CCCCCCCCceEEEEEeCccccccccccCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEEecccHHHHHHHHhc
Q 005028 233 PVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNT 312 (718)
Q Consensus 233 ~~~~~~~~GT~V~F~PD~~iF~~~~~~d~~~i~~Rl~elA~LnpglkI~l~der~~~~~~~~e~f~~~~Gl~dyv~~l~~ 312 (718)
...+++||+|+|+||+++|++ ..|++++|.+||+++|||||||+|.|+|+|.... .. .|||++||++||++++.
T Consensus 161 --~~~~~~GT~V~F~PD~~iF~~-~~f~~~~l~~RlrelA~L~~gl~I~l~d~r~~~~--~~-~~~y~~Gl~~yv~~l~~ 234 (635)
T COG0187 161 --TDTKKTGTKVRFKPDPEIFGE-TEFDYEILKRRLRELAFLNKGVKITLTDERTGEE--KK-EFHYEGGLKDYVEYLNK 234 (635)
T ss_pred --CCCCCCccEEEEEcChHhcCC-cccCHHHHHHHHHHHhccCCCCEEEEEeccCCcc--cc-eeecccHHHHHHHHHhc
Confidence 345678999999999999986 5799999999999999999999999999997522 12 59999999999999999
Q ss_pred CCCCCCC-eeEEEeccCceEEEEEEEecCCCCCceeeeeccceecCCCcchHHHHHHHHHHHHHHHHhhccCCCCCCCCC
Q 005028 313 DKKPLHD-VVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISL 391 (718)
Q Consensus 313 ~~~~l~~-~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~alt~~in~~~kk~~~~k~k~~~l 391 (718)
+++++|+ ++++..+.+++.|||||||+ ++|+++++||||||+|++||||++||+++|+++||+|+++.+++|+++ +
T Consensus 235 ~k~~l~~~~~~~~~~~~~~~vEvA~q~~-d~~~e~~~SFvNnI~T~eGGTH~~Gfr~altr~in~y~~~~~~~k~~~--l 311 (635)
T COG0187 235 GKTPLHEEIFYFNGEKDGIAVEVALQWN-DGYSENILSFVNNIPTREGGTHEAGFRSALTRAINEYAKKKNLLKEGD--L 311 (635)
T ss_pred CCCccccCceecccCccceEEEEEEEEe-cCCceEEEEeecCccCCCCchHHHHHHHHHHHHHHHHHHHhCcCcccC--C
Confidence 9999996 66667777899999999999 899999999999999999999999999999999999999999988765 9
Q ss_pred CHHHHhhccEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005028 392 SGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARD 471 (718)
Q Consensus 392 ~~~dIregL~~vVsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~~kar~aakkar~ 471 (718)
+++||||||++||||+||||+|+||||+||+|++++.+|++++.+.|..||++||.+++.|+++++.+++||+|||+||+
T Consensus 312 ~g~Diregl~aviSvki~~PqFegQTK~KL~n~e~~~~V~~~v~~~~~~~l~enp~~a~~i~~k~i~aa~aR~aarkare 391 (635)
T COG0187 312 TGDDIREGLTAVISVKIPDPQFEGQTKEKLGNSEVRSIVEKLVSEAFSLFLEENPQEAKKIVEKAIAAAKAREAARKARE 391 (635)
T ss_pred CHHHHhhccEEEEEEECCCCCcCcccccccccHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhccccccCCCCCCCCCCCCCCCCCceEEEeeccCCCccccccCCCCceEecccCcccccccccCHHHHhhChhHHHH
Q 005028 472 LVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNL 551 (718)
Q Consensus 472 ~~r~k~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qailPLrGKiLNv~ka~~~ki~~N~Ei~~l 551 (718)
++|+|+.++...|||||+||+++||++|||||||||||||||||||||+|||||||||||||||+++.+||++|+||++|
T Consensus 392 ~~R~k~~~~~~~LpGKLadC~skd~~~~ELfiVEGDSAGGSAKqgRdR~~QAILPLRGKiLNVeka~~~kil~N~EI~~i 471 (635)
T COG0187 392 LTRRKSALDIPGLPGKLADCTSKDPEKSELFLVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIQTI 471 (635)
T ss_pred HHhhhcccccCCCCCcCcccccCCcccceEEEEecCCcchhhhhccCccceEEecccCcchhhhhccHhhhhhhHHHHHH
Confidence 99999988999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhcCCccCCcCcccccceeeEEEeecCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHH
Q 005028 552 IRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDA 631 (718)
Q Consensus 552 i~~lG~~~~~~~~~~~~LRYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~~G~v~~~~tPL~kv~~gk~~~y~ys~~ 631 (718)
++|||||++. +||+++||||||||||||||||+|||+|||||||||||+||+.||||+|+||||||++||++.|+|||.
T Consensus 472 i~AlG~g~~~-~fd~~~LRY~kIiIMTDADvDGaHIrtLLlTfFyr~m~~LIe~G~vyiA~PPLYkv~~~k~~~Y~~~d~ 550 (635)
T COG0187 472 ITALGTGIGK-DFDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMPPLIENGHVYIAQPPLYKVKKGKKTFYAYDDE 550 (635)
T ss_pred HHHhCCCCCC-CCChhhCccCcEEEEecCCCChHHHHHHHHHHHHHHhHHHHHcCcEEEEcCceEEEEcCCceeEeCCHH
Confidence 9999999954 599999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhCCCCCcccceEeeccCCCChhhHHhhhcCccceeeeeeccccHHHHHHHHHHhcCCCchHHHHHHHhccccC
Q 005028 632 ELKKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLV 711 (718)
Q Consensus 632 E~~~~~~~~~~~~~~~ikryKGLGem~~~ql~ett~dp~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~RK~~i~~~~~~~ 711 (718)
|+++...++...++|+||||||||||||+|||||||||++|+|.||+++|+.+|+++|++|||+++++||+||++|+..+
T Consensus 551 E~~~~~~~~~~~~~~~IqRyKGLGEMnp~QLwETTmdP~~R~L~~V~i~da~~ad~~f~~LMGd~ve~Rr~fIe~na~~~ 630 (635)
T COG0187 551 ELEKLLERLGKKKGYEIQRYKGLGEMNPDQLWETTMDPETRRLLQVTIEDADEADEIFSTLMGDKVEPRRNFIEENALFV 630 (635)
T ss_pred HHHHHHHHhcccCCceeEeecccCCCCHHHHHHhccCccceeEEEEEcccHHHHHHHHHHHcCCCchHHHHHHHHHhhhh
Confidence 99999988742258999999999999999999999999999999999999999999999999999999999999999864
Q ss_pred CccCCCC
Q 005028 712 NLDHLDI 718 (718)
Q Consensus 712 ~~~~ld~ 718 (718)
.++||
T Consensus 631 --~~~di 635 (635)
T COG0187 631 --ENLDI 635 (635)
T ss_pred --hhccC
Confidence 56665
No 2
>PTZ00109 DNA gyrase subunit b; Provisional
Probab=100.00 E-value=6.7e-198 Score=1692.16 Aligned_cols=632 Identities=47% Similarity=0.762 Sum_probs=590.9
Q ss_pred CCCCcccceeccchhhHhhCCCeeeccCCCCchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCCcEEEEECCCCcccccc
Q 005028 75 KTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLH 154 (718)
Q Consensus 75 ~~Y~~~~i~~L~~lE~VrkRPgMYIGs~~~~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg~isV~DnGrGIPv~~~ 154 (718)
.+|++++|++|+||||||||||||||||+.+||||||||||||||||+++|+|+.|.|+|++||+|+|+|||||||+++|
T Consensus 98 ~~Y~a~~I~vLeGLEaVRkRPGMYIGst~~~GLhhLv~EIlDNSVDE~laG~~~~I~V~i~~DgsItV~DnGRGIPvd~h 177 (903)
T PTZ00109 98 SEYDADDIVVLEGLEAVRKRPGMYIGNTDEKGLHQLLFEILDNSVDEYLAGECNKITVVLHKDGSVEISDNGRGIPCDVS 177 (903)
T ss_pred CCCChHhCeehhccHHHhcCCCceeCCCCCCcceEEEEEEeeccchhhccCCCcEEEEEEcCCCeEEEEeCCcccccccc
Confidence 57999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCccceeeeeeeeccCCCCCCC--------------------------------------CCceeeccCccCCchhHH
Q 005028 155 PATNKSALETVLTVLHAGGKFGGS--------------------------------------SSGYSVSGGLHGVGLSVV 196 (718)
Q Consensus 155 ~~~g~~~~E~v~t~lhag~kF~~~--------------------------------------~~~ykvSGGlhGvG~svv 196 (718)
|++|+|++|+|||+|||||||+++ +..|++||||||||+|||
T Consensus 178 ~k~g~s~~E~VlT~LhAGGKF~~~~~~~~~~~~~~~~~d~~~~~k~~~~~~~~~~~~~~~~~~~~YkvSGGLHGVG~SVV 257 (903)
T PTZ00109 178 EKTGKSGLETVLTVLHSGGKFQDTFPKNSRSDKSEDKNDTKSSKKGKSSHVKGPKEAKEKESSQMYEYSSGLHGVGLSVV 257 (903)
T ss_pred ccCCCcceeEEEEEeccCccccCcccccccccccccccccccccccccccccccccccccccCCcceecCcCCCcceeee
Confidence 999999999999999999999874 137999999999999999
Q ss_pred hhcccceEEEEEeCCEEEEEEEecCcccccceeeccCCCCC-CCCceEEEEEeC-ccccccccc-------------cCH
Q 005028 197 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSK-DRQGTRIRFWPD-KQVFTTAIQ-------------FDH 261 (718)
Q Consensus 197 NalS~~~~V~v~r~gk~y~q~f~~G~~~~~l~~~~~~~~~~-~~~GT~V~F~PD-~~iF~~~~~-------------~d~ 261 (718)
||||++|+|+|+|+|+.|+|+|++|+++.++... +.+ .++||+|+|||| ++||+++.. |++
T Consensus 258 NALS~~l~VeV~RdGK~y~q~F~rG~~v~pLkvi----g~~~~~tGT~VtF~PD~~~IF~~~~~~~~~~~~~~~~~~F~~ 333 (903)
T PTZ00109 258 NALSSFLKVDVFKGGKIYSIELSKGKVTKPLSVF----SCPLKKRGTTIHFLPDYKHIFKTHHQHTETEEEEGCKNGFNL 333 (903)
T ss_pred eeccCeEEEEEEECCEEEEEEeCCCcccCCcccc----CCcCCCCceEEEEEeCcchhcCccccccccccccccccccCH
Confidence 9999999999999999999999999999887654 333 579999999999 999975333 899
Q ss_pred HHHHHHHHHHhhcCCCcEEEEeecCCCCC--CCcceeEEecccHHHHHHHHhcCCCCCC-C--eeEEEeccCceEEEEEE
Q 005028 262 NTIAGRIRELAFLNPKLTIALRKEDSDPE--KNQYNEYFFAGGLEEYVQWLNTDKKPLH-D--VVGFRKDVDGITIDLAL 336 (718)
Q Consensus 262 ~~i~~Rl~elA~LnpglkI~l~der~~~~--~~~~e~f~~~~Gl~dyv~~l~~~~~~l~-~--~i~~~~~~~~~~veval 336 (718)
++|.+||+++|||||||+|+|+|+|.+.+ ....+.|+|++||.+||++++.+++++| + ++++.++.+++.|||||
T Consensus 334 d~L~~RLrElAfLNpGL~I~L~DeR~~~~~~~~~~e~f~~egGi~dfv~~ln~~k~~l~~~~~~I~~~g~~~~i~VEVAl 413 (903)
T PTZ00109 334 DLIKNRIHELSYLNPGLTFYLVDERIANENNFYPYETIKHEGGTREFLEELIKDKTPLYKDINIISIRGVIKNVNVEVSL 413 (903)
T ss_pred HHHHHHHHHHhccCCCcEEEEEecCccccCCcceEEEEEecCCHHHHHHHhcCCCCccCCCCceEEEEeeecCeEEEEEE
Confidence 99999999999999999999999985321 0134679999999999999999888886 3 67787777789999999
Q ss_pred EecCCCCCceeeeeccceecCCCcchHHHHHHHHHHHHHHHHhhccCCCCCCCCCCHHHHhhccEEEEEEeecCCCCCCc
Q 005028 337 QWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQ 416 (718)
Q Consensus 337 ~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~alt~~in~~~kk~~~~k~k~~~l~~~dIregL~~vVsvki~nP~FegQ 416 (718)
||++++|+++++||||+|+|+ ||||++||++||+++||.|+++++++|+++.+++++||||||++||||+++||+|+||
T Consensus 414 q~s~~~y~e~i~SFVNnI~T~-GGTHv~Gfr~ALTr~In~y~kk~~llK~k~~~i~gedIREGLtavISvki~~PqFeGQ 492 (903)
T PTZ00109 414 SWSLESYTALIKSFANNVSTT-AGTHIDGFKYAITRCVNGNIKKNGYFKGNFVNIPGEFIREGMTAIISVKLNGAEFDGQ 492 (903)
T ss_pred EecCCCCceEEEEEECCccCC-CCCHHHHHHHHHHHHHHHHHHHhCcccccCCCCCHHHHhhccEEEEEEeccCCcccCc
Confidence 998668889999999999999 9999999999999999999999998887778999999999999999999999999999
Q ss_pred cccccCCchhhhhhhhhHHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc-cCCCCCCCCCCCCCC
Q 005028 417 TKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLR-SSSLPGKLADCSSTT 495 (718)
Q Consensus 417 TKekL~n~ev~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~~kar~aakkar~~~r~k~~~~-~~~lpgKL~Dc~~~~ 495 (718)
||+||+|++++.+|+++|.+.|..||++||+.++.|++|++.+++||+|||+||+++|+|+... ...|||||+||+++|
T Consensus 493 TK~KLgn~~vk~~ve~iv~e~L~~~l~~np~~a~~I~~Ka~~a~~AreaAk~arel~R~K~~~~~~~~lPgKL~DC~s~d 572 (903)
T PTZ00109 493 TKTKLGNHLLKTILESIVFEQLSEILEFEPNLLLAIYNKSLAAKKAFEEAKAAKDLIRQKNNQYYSTILPGKLVDCISDD 572 (903)
T ss_pred ccccccCHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHhhHHHhhhhhcccccCCCCCcccccccCC
Confidence 9999999999999999999999999999999999999999999999999999999999987763 366999999999999
Q ss_pred CCCceEEEeeccCCCccccccCCCCceEecccCcccccccccC-HHHHhhChhHHHHHHHhcCCccCC---cCcc-----
Q 005028 496 PEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKD-EAAMYKNEEIQNLIRALGLGVKGE---DFKK----- 566 (718)
Q Consensus 496 ~~~~eL~lvEGDSA~Gsak~gRdr~~qailPLrGKiLNv~ka~-~~ki~~N~Ei~~li~~lG~~~~~~---~~~~----- 566 (718)
+++|||||||||||||||||||||+|||||||||||||||+++ .+||++|+||++||+|||||++.. +||+
T Consensus 573 ~~~~ELfIVEGDSAgGSAKqgRdR~~QAILPLRGKILNVeka~~~~kil~N~EI~~Li~alG~gig~~~~~~~dl~~~~~ 652 (903)
T PTZ00109 573 IERNELFIVEGESAAGNAKQARNREFQAVLPLKGKILNIEKIKNNKKVFENSEIKLLITSIGLSVNPVTWRQYDLSHGTK 652 (903)
T ss_pred CcccEEEEEcccCCCcccccccCccceeecccCCceehhcccccHHHHHhcHHHHHHHHHhCCCCCcccccccCcccccc
Confidence 9999999999999999999999999999999999999999995 999999999999999999999542 6888
Q ss_pred -----------------------cccceeeEEEeecCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeC--
Q 005028 567 -----------------------EALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERG-- 621 (718)
Q Consensus 567 -----------------------~~LRYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~~G~v~~~~tPL~kv~~g-- 621 (718)
++||||||||||||||||+|||+|||||||||||+||++||||+|+||||||++|
T Consensus 653 ~~~~~~~~~~~~~~~~~~~~~~~~~LRYgKIIIMTDADVDGsHIrtLLLTff~r~~p~Lie~G~vyia~pPLyki~~~~~ 732 (903)
T PTZ00109 653 ASKDESVQNNNSTLTKKKNSLFDTPLRYGKIILLTDADVDGEHLRILLLTLLYRFCPSLYEHGRVYVACPPLYRITNNRM 732 (903)
T ss_pred cccccccccccccccccccccccccCCcCeEEEEeCCCCChhHHHHHHHHHHHHhCHHhhhCCEEEEecCCEEEEEecCc
Confidence 9999999999999999999999999999999999999999999999999999985
Q ss_pred ----------CeEEEeeCHHHHHHHHHhCC--------------------------------------------------
Q 005028 622 ----------KQVQYCYDDAELKKVKSSFP-------------------------------------------------- 641 (718)
Q Consensus 622 ----------k~~~y~ys~~E~~~~~~~~~-------------------------------------------------- 641 (718)
|+.+|+|||+|++++++++.
T Consensus 733 ~~~~~~~~~~k~~~y~~sd~el~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 812 (903)
T PTZ00109 733 KQFNVSTKNSKKYIYTWSDEELNVLIKLLNKDYSSKETTRSVEEKGNAPDLDNEYEDEKLDNKNMRENNVDEVELKTELG 812 (903)
T ss_pred ccccccccccceeEEeCCHHHHHHHHHHhhcccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 77899999999999987651
Q ss_pred -------------------C-CCcccceEeeccCCCChhhHHhhhcCccceeeeeeccccHHHHHHHHHHhcCCCchHHH
Q 005028 642 -------------------S-NALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRK 701 (718)
Q Consensus 642 -------------------~-~~~~~ikryKGLGem~~~ql~ett~dp~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~RK 701 (718)
. .++++||||||||||+|+|||||||||++|.|+||+++|+.+|+++|++|||+++++||
T Consensus 813 ~~~~~~~~~~~~~~~~~~~~~~~~~~iqRfKGLGEM~~~qLweTTMdP~~R~L~rv~v~d~~~a~~~~~~LMG~~~~~Rk 892 (903)
T PTZ00109 813 TNVADTEQTDELDINKAFFKFSKHYEIQRFKGLGEMMADQLWETTMDPKKRILIRITVSDAMRASELIFLLMGEDVQSRK 892 (903)
T ss_pred cccccccccccccccccccccCCcccceeeccHhhhhHHHHHHhhhChhhceeeeeeHHHHHHHHHHHHHHhCCCChhhH
Confidence 0 23689999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhccccC
Q 005028 702 ELIQNAANLV 711 (718)
Q Consensus 702 ~~i~~~~~~~ 711 (718)
+||++|+..+
T Consensus 893 ~fI~~n~~~~ 902 (903)
T PTZ00109 893 QFIFENSPAF 902 (903)
T ss_pred HHHHhhcccC
Confidence 9999998753
No 3
>TIGR01058 parE_Gpos DNA topoisomerase IV, B subunit, Gram-positive. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation step of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=100.00 E-value=1.4e-195 Score=1668.33 Aligned_cols=621 Identities=49% Similarity=0.821 Sum_probs=589.1
Q ss_pred CCCCcccceeccchhhHhhCCCeeeccCCCCchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCCcEEEEECCCCcccccc
Q 005028 75 KTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLH 154 (718)
Q Consensus 75 ~~Y~~~~i~~L~~lE~VrkRPgMYIGs~~~~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg~isV~DnGrGIPv~~~ 154 (718)
.+|++++||+|+|+||||+||||||||++++|||||+|||||||+||+++|+|+.|.|+|++||+|+|+|||||||+++|
T Consensus 3 ~~Y~~~~i~~L~glE~VRkRPgMYIGst~~~GL~hlv~EIvdNavDE~~ag~~~~I~V~i~~dgsitV~DnGrGIPv~~h 82 (637)
T TIGR01058 3 SKYNADAIKILEGLDAVRKRPGMYIGSTDSKGLHHLVWEIVDNSVDEVLAGYADNITVTLHKDNSITVQDDGRGIPTGIH 82 (637)
T ss_pred CccCHHHCeeecccHHHhcCCCCeECCCCcchhheehhhhhcchhhhhhcCCCcEEEEEEcCCCeEEEEECCCcccCccc
Confidence 45999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCccceeeeeeeeccCCCCCCCCCceeeccCccCCchhHHhhcccceEEEEEeCCEEEEEEEecC-cccccceeeccC
Q 005028 155 PATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRG-KPVTTLTCHVLP 233 (718)
Q Consensus 155 ~~~g~~~~E~v~t~lhag~kF~~~~~~ykvSGGlhGvG~svvNalS~~~~V~v~r~gk~y~q~f~~G-~~~~~l~~~~~~ 233 (718)
|.+++|++|+|||+||||||||++ +|++|||+||||+|||||||++|+|+|+|+|+.|.|+|++| .|+.++...
T Consensus 83 ~~~~~~~~E~v~t~LhaGgkfd~~--~ykvSGGlhGvG~svvNAlS~~~~V~v~r~gk~~~q~f~~Gg~~~~~l~~~--- 157 (637)
T TIGR01058 83 QDGNISTVETVFTVLHAGGKFDQG--GYKTAGGLHGVGASVVNALSSWLEVTVKRDGQIYQQRFENGGKIVQSLKKI--- 157 (637)
T ss_pred CcCCCccceeEEEEecccCcCCCC--cccccCCcccccccccceeeceEEEEEEECCEEEEEEEecCCcCcCCcccc---
Confidence 999999999999999999999987 99999999999999999999999999999999999999997 777776543
Q ss_pred CCCCCCCceEEEEEeCccccccccccCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEEecccHHHHHHHHhcC
Q 005028 234 VDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTD 313 (718)
Q Consensus 234 ~~~~~~~GT~V~F~PD~~iF~~~~~~d~~~i~~Rl~elA~LnpglkI~l~der~~~~~~~~e~f~~~~Gl~dyv~~l~~~ 313 (718)
+...++||+|+|+||++||++ ..|++++|.+||+++|||||||+|+|+|++.+ ..+.|||++||.+|+++++.+
T Consensus 158 -~~~~~~GT~V~F~PD~~iF~~-~~f~~d~l~~RlrelA~Ln~GL~I~l~der~~----~~~~f~~~~Gl~~yv~~l~~~ 231 (637)
T TIGR01058 158 -GTTKKTGTLVHFHPDPTIFKT-TQFNSNIIKERLKESAFLLKKLKLTFTDKRTN----KTTVFFYENGLVDFVDYINET 231 (637)
T ss_pred -cCCCCCceEEEEEeCHHHcCC-CccCHHHHHHHHHHHhccCCCcEEEEEecCCC----ceEEEEcCcCHHHHHHHhcCC
Confidence 445679999999999999974 57999999999999999999999999999864 235699999999999999988
Q ss_pred CCCCCCeeEEEeccCceEEEEEEEecCCCCCceeeeeccceecCCCcchHHHHHHHHHHHHHHHHhhccCCCCCCCCCCH
Q 005028 314 KKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSG 393 (718)
Q Consensus 314 ~~~l~~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~alt~~in~~~kk~~~~k~k~~~l~~ 393 (718)
+++++++++|.++.+++.||||+||+ ++|+++++||||+|+|++|||||+||+++|+++||+|+++.+++|+++.++++
T Consensus 232 k~~l~~~i~~~~~~~~~~vevAl~~~-~~~~e~~~SFvN~I~T~~GGTHv~g~~~aLtr~in~~~~~~~~lK~~~~~i~~ 310 (637)
T TIGR01058 232 KETLSQVTYFEGEKNGIEVEVAFQFN-DGDSENILSFANSVKTKEGGTHENGFKLAITDVINSYARKYNLLKEKDKNLEG 310 (637)
T ss_pred CCcCCccEEEEEEECCcEEEEEEEEc-CCCCeEEEEeECCccCCCCCcHHHHHHHHHHHHHHHHHHHhchhccccccCCh
Confidence 88887888888777789999999998 68889999999999999999999999999999999999999888877789999
Q ss_pred HHHhhccEEEEEEeecCC--CCCCccccccCCchhhhhhhhhHHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005028 394 EHVREGLTCIISVRVPNP--EFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARD 471 (718)
Q Consensus 394 ~dIregL~~vVsvki~nP--~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~~kar~aakkar~ 471 (718)
+|||+||++||||++++| +|+||||++|+|++++.+|++++.+.|..||++||+.++.|+++++.+++||+|||+||+
T Consensus 311 ~diregL~~vIsvki~~pnP~FegQTK~kL~n~~v~~~v~~~v~e~l~~~l~~np~~a~~Iiek~~~~a~aR~aa~~ar~ 390 (637)
T TIGR01058 311 SDIREGLSAIISVRIPEELIQFEGQTKSKLFSPEARNVVDEIVQDHLFFFLEENNNDAKLLIDKAIKARDAKEAAKKARE 390 (637)
T ss_pred hhHhhccEEEEEEecCCCcccccCcccccccChhHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999755 999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhc--cccccCCCCCCCCCCCCCCCCCceEEEeeccCCCccccccCCCCceEecccCcccccccccCHHHHhhChhHH
Q 005028 472 LVRQK--SVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQ 549 (718)
Q Consensus 472 ~~r~k--~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qailPLrGKiLNv~ka~~~ki~~N~Ei~ 549 (718)
+.|+| +......|||||+||+++++++|||||||||||||||||||||+|||||||||||||||+++.+||++|+||+
T Consensus 391 ~~r~~~k~~~~~~~lpgKL~dc~~~~~~~~eLfivEGDSAggsak~gRdr~~qailPLRGKiLNv~ka~~~ki~~N~Ei~ 470 (637)
T TIGR01058 391 EKKSGKKPKKEKGILSGKLTPAQSKNPAKNELFLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNVEKAKLADILKNEEIN 470 (637)
T ss_pred HHhhccccccccCCCCcccccccCCCCCccEEEEEecCccccccccccccceEEEeccCCcccccccCCHHHHhcchHHH
Confidence 99974 3555667999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcCCccCCcCcccccceeeEEEeecCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeC--CeEEEe
Q 005028 550 NLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERG--KQVQYC 627 (718)
Q Consensus 550 ~li~~lG~~~~~~~~~~~~LRYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~~G~v~~~~tPL~kv~~g--k~~~y~ 627 (718)
+|++|||||+ +++||+++||||||||||||||||+|||||||||||||||+||++||||+|+||||||++| ++++||
T Consensus 471 ~l~~alG~~~-g~~~~~~~LRY~kIiImTDADvDGsHIr~LLltff~r~~p~Li~~G~v~~~~~Pl~kv~~~~~~~~~y~ 549 (637)
T TIGR01058 471 TIIFCIGTGI-GADFSIKDLKYDKIIIMTDADTDGAHIQVLLLTFFYRYMRPLIELGHVYIALPPLYKLSKKDGKKVKYA 549 (637)
T ss_pred HHHHHhCCCc-CccCCccccccceEEEEeCCCCCcchhHHHHHHHHHHhCHhhccCCeEEEecCCEEEEEeCCCceEEEe
Confidence 9999999999 5679999999999999999999999999999999999999999999999999999999985 678899
Q ss_pred eCHHHHHHHHHhCCCCCcccceEeeccCCCChhhHHhhhcCccceeeeeeccccHHHHHHHHHHhcCCCchHHHHHHHhc
Q 005028 628 YDDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNA 707 (718)
Q Consensus 628 ys~~E~~~~~~~~~~~~~~~ikryKGLGem~~~ql~ett~dp~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~RK~~i~~~ 707 (718)
||++||++|+++. ++|+||||||||||+|+|||||||||++|+|.||+++|+..++.+|++|||+++++||+||++|
T Consensus 550 ~~~~e~~~~~~~~---~~~~i~ryKGLGem~~~~l~ettm~p~~r~l~~v~~~d~~~~~~~~~~lmg~~~~~Rk~~i~~~ 626 (637)
T TIGR01058 550 WSDLELESVKKKL---KNYTLQRYKGLGEMNADQLWETTMNPETRTLVRVKIDDLARAERQINTLMGDKVEPRKKWIEAN 626 (637)
T ss_pred CCHHHHHHHHHhc---CCCCceEECchhhhhHHHHHHHhhCcccceeeEEehhhhhhHHHHHHHHcCCCchHHHHHHHHh
Confidence 9999999999874 4799999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccC
Q 005028 708 ANLV 711 (718)
Q Consensus 708 ~~~~ 711 (718)
+..+
T Consensus 627 ~~~~ 630 (637)
T TIGR01058 627 INFS 630 (637)
T ss_pred hhhh
Confidence 9654
No 4
>PRK14939 gyrB DNA gyrase subunit B; Provisional
Probab=100.00 E-value=3.3e-187 Score=1610.34 Aligned_cols=632 Identities=52% Similarity=0.873 Sum_probs=598.5
Q ss_pred CCCCCCcccceeccchhhHhhCCCeeeccCCC-CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCCcEEEEECCCCccc
Q 005028 73 VSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGP-RGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPI 151 (718)
Q Consensus 73 ~~~~Y~~~~i~~L~~lE~VrkRPgMYIGs~~~-~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg~isV~DnGrGIPv 151 (718)
.+.+|++++||+|+|+||||||||||||||+. +||||+|||||||||||++||+|+.|.|+|++||+|+|+|||||||+
T Consensus 3 ~~~~Y~a~~i~vL~gle~VRkRPgMYIGst~~~~GLhhlv~EivdNaiDE~~AG~a~~I~V~i~~dgsIsV~DnGrGIPv 82 (756)
T PRK14939 3 MSNSYGASSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGIPT 82 (756)
T ss_pred ccCCCCHHHCeEecccHHHhcCCCCeeCCCCCCcchhhhhhHhhcccccccccCCCCEEEEEEcCCCeEEEEEcCCcccC
Confidence 45669999999999999999999999999999 99999999999999999999999999999999999999999999999
Q ss_pred cccCCCCccceeeeeeeeccCCCCCCCCCceeeccCccCCchhHHhhcccceEEEEEeCCEEEEEEEecCcccccceeec
Q 005028 152 DLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHV 231 (718)
Q Consensus 152 ~~~~~~g~~~~E~v~t~lhag~kF~~~~~~ykvSGGlhGvG~svvNalS~~~~V~v~r~gk~y~q~f~~G~~~~~l~~~~ 231 (718)
++||++|+|++|++||++||||||+++ .|++|||+||||+++|||||+||+|+++|+|+.|+|+|++|+++.++..+
T Consensus 83 d~h~~~g~~~~Elvlt~lhAggKfd~~--~ykvSgGlhGvG~svvNAlS~~l~v~v~r~gk~~~q~f~~G~~~~~l~~~- 159 (756)
T PRK14939 83 DIHPEEGVSAAEVIMTVLHAGGKFDQN--SYKVSGGLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHGVPVAPLKVV- 159 (756)
T ss_pred CcccccCCchhhheeeeecccCCCCCC--cccccCCccCccceEeehccCeEEEEEEeCCeEEEEEEecCccccCcccc-
Confidence 999999999999999999999999987 89999999999999999999999999999999999999999998877554
Q ss_pred cCCCCCCCCceEEEEEeCccccccccccCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEEecccHHHHHHHHh
Q 005028 232 LPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLN 311 (718)
Q Consensus 232 ~~~~~~~~~GT~V~F~PD~~iF~~~~~~d~~~i~~Rl~elA~LnpglkI~l~der~~~~~~~~e~f~~~~Gl~dyv~~l~ 311 (718)
+.+.++||+|+|+||+++|+. ..|+++.|.+|++++|||||||+|+|+|++.+ ..+.|+|++||.+|+++++
T Consensus 160 ---g~~~~~GT~V~F~PD~~iF~~-~~~~~~~i~~rl~elA~lnpgl~i~l~der~~----~~~~f~~egGi~~fv~~l~ 231 (756)
T PRK14939 160 ---GETDKTGTEVRFWPSPEIFEN-TEFDYDILAKRLRELAFLNSGVRIRLKDERDG----KEEEFHYEGGIKAFVEYLN 231 (756)
T ss_pred ---CCcCCCCcEEEEEECHHHcCC-cccCHHHHHHHHHHHhhcCCCCEEEEeccCCC----ceeEEEeCChHHHHHHHHh
Confidence 444679999999999999964 57999999999999999999999999999864 3467999999999999999
Q ss_pred cCCCCCC-CeeEEEeccCceEEEEEEEecCCCCCceeeeeccceecCCCcchHHHHHHHHHHHHHHHHhhccCCCCCCCC
Q 005028 312 TDKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDIS 390 (718)
Q Consensus 312 ~~~~~l~-~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~alt~~in~~~kk~~~~k~k~~~ 390 (718)
.++.+++ +++++.++.+++.||||+||+ ++|+++++||||||+|++||||++||+++|+++||+|+++.++.|+++.+
T Consensus 232 ~~~~~~~~~~i~~~~~~~~~~veval~~~-~~~~e~~~SFvN~I~T~~GGTHv~gf~~altr~in~y~~~~~l~K~~~~~ 310 (756)
T PRK14939 232 RNKTPLHPNIFYFSGEKDGIGVEVALQWN-DSYQENVLCFTNNIPQRDGGTHLAGFRAALTRTINNYIEKEGLAKKAKVS 310 (756)
T ss_pred cCCCcCCCCceEEEeeeCCeEEEEEEEEc-CCCceeEEEEECcccCCCCCCHHHHHHHHHHHHHHHHHHHhCcccccCCC
Confidence 8888887 578888887889999999998 78999999999999999999999999999999999999998888877789
Q ss_pred CCHHHHhhccEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005028 391 LSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRAR 470 (718)
Q Consensus 391 l~~~dIregL~~vVsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~~kar~aakkar 470 (718)
++++||||||++||||+++||+|+||||++|+|++++.+|++++.+.|..||++||+.++.|+++++.+++||+||++||
T Consensus 311 l~~~diregl~~vvsvki~~P~FegQTK~kL~n~ev~~~v~~~v~e~l~~~l~~np~~a~~ii~k~~~aa~aR~aa~kar 390 (756)
T PRK14939 311 LTGDDAREGLTAVLSVKVPDPKFSSQTKDKLVSSEVRPAVESLVNEKLSEFLEENPNEAKIIVGKIIDAARAREAARKAR 390 (756)
T ss_pred CCHhHHhhceEEEEEEecCCCcccCchhccccCHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhccccccCCCCCCCCCCCCCCCCCceEEEeeccCCCccccccCCCCceEecccCcccccccccCHHHHhhChhHHH
Q 005028 471 DLVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQN 550 (718)
Q Consensus 471 ~~~r~k~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qailPLrGKiLNv~ka~~~ki~~N~Ei~~ 550 (718)
++.|||+.++...|||||+||+++||++|||||||||||||||||||||+|||||||||||||||+++.+||++|+||++
T Consensus 391 ~~~rrK~~~~~~~lpgKL~Dc~~~d~~~~eLfivEGDSAgGsAk~gRdr~~qailPLRGKiLNveka~~~kil~N~Ei~~ 470 (756)
T PRK14939 391 ELTRRKGALDIAGLPGKLADCQEKDPALSELYLVEGDSAGGSAKQGRDRKFQAILPLKGKILNVEKARFDKMLSSQEIGT 470 (756)
T ss_pred HHhccccccccCCCCCCccccccCCCCceEEEEEeCCCCccccccccCccceeccccCCccchhccCCHHHHhcCHHHHH
Confidence 99999998888899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhcCCccCCcCcccccceeeEEEeecCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCH
Q 005028 551 LIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDD 630 (718)
Q Consensus 551 li~~lG~~~~~~~~~~~~LRYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~~G~v~~~~tPL~kv~~gk~~~y~ys~ 630 (718)
||+|||||++.++||+++||||||||||||||||+|||||||||||||||+||++||||+|+||||||++||+++||||+
T Consensus 471 li~alG~gig~~~fd~~~LRY~kIiIMTDADvDGsHIrtLLltff~r~~p~Lie~G~vyia~pPLykv~~gk~~~y~~~~ 550 (756)
T PRK14939 471 LITALGCGIGRDEFNPDKLRYHKIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGHLYIAQPPLYKVKKGKQEQYLKDD 550 (756)
T ss_pred HHHHhCCCCCcccCChhhCCcCeEEEEcCCCCCchHHHHHHHHHHHHhChhhccCCeEEEecCcEEEEecCCeeEecCCH
Confidence 99999999954689999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhCCC--------------------------------------------------------------------
Q 005028 631 AELKKVKSSFPS-------------------------------------------------------------------- 642 (718)
Q Consensus 631 ~E~~~~~~~~~~-------------------------------------------------------------------- 642 (718)
+||++|+.+++.
T Consensus 551 ~e~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 630 (756)
T PRK14939 551 EALDDYLIELALEGATLHLADGPAISGEALEKLVKEYRAVRKIIDRLERRYPRAVLEALIYAPALDLDDLADEAAVAALD 630 (756)
T ss_pred HHHHHHHHHhCcCCceeecCCCCcccHHHHHHHHHHHHHHHHHHhHHhccccHHHHHHHHhccccchhhhcchhhhhhcc
Confidence 999999765310
Q ss_pred ----------------------------------------------------CCcccceEeeccCCCChhhHHhhhcCcc
Q 005028 643 ----------------------------------------------------NALYSIQRFKGLGEMMPVQLWETTLNPE 670 (718)
Q Consensus 643 ----------------------------------------------------~~~~~ikryKGLGem~~~ql~ett~dp~ 670 (718)
.++..||||||||||+|+|+|+|||||.
T Consensus 631 ~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ell~~v~~~gr~g~~Iqr~KgLgEM~~eqL~eTtmdp~ 710 (756)
T PRK14939 631 ADFLTSAEYRRLVELAEKLRGLIEEGAYLERGERKQPVSSFEEALDWLLAEARKGLSIQRYKGLGEMNPEQLWETTMDPE 710 (756)
T ss_pred hhhhcCHHHHHHHHHHHHHHHHhccCcEEEcCCcceecCCHHHHHHHHHhhhccCccccccccHHHhHHHHHHHHhhChh
Confidence 0011289999999999999999999999
Q ss_pred ceeeeeeccccHHHHHHHHHHhcCCCchHHHHHHHhccccCCccCCCC
Q 005028 671 QRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLVNLDHLDI 718 (718)
Q Consensus 671 ~r~l~~v~~~d~~~~~~~f~~lmg~~~~~RK~~i~~~~~~~~~~~ld~ 718 (718)
+|++.|+.++|+..++++|+.|||+.+++||+||+.++.. +++||+
T Consensus 711 ~R~l~~v~led~~~a~~~f~~lMg~~ve~rr~fI~~~a~~--v~~LD~ 756 (756)
T PRK14939 711 NRRLLQVTIEDAIAADEIFTTLMGDEVEPRREFIEENALN--VANLDV 756 (756)
T ss_pred heeeeeeehhhHHHHHHHHHHHhcCCcchhHHHHHHhhhh--HhhcCC
Confidence 9999999999999999999999999999999999999983 466885
No 5
>PRK05644 gyrB DNA gyrase subunit B; Validated
Probab=100.00 E-value=9.2e-187 Score=1601.20 Aligned_cols=632 Identities=59% Similarity=0.968 Sum_probs=597.9
Q ss_pred CCCCCCcccceeccchhhHhhCCCeeeccCCCCchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCCcEEEEECCCCcccc
Q 005028 73 VSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPID 152 (718)
Q Consensus 73 ~~~~Y~~~~i~~L~~lE~VrkRPgMYIGs~~~~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg~isV~DnGrGIPv~ 152 (718)
.+++|++++||+|+++||||+||||||||++++||||+|+|||+||+||+++|+|+.|.|+|+.+|+|+|+|||||||++
T Consensus 4 ~~~~Y~~~~i~~L~~lE~Vr~RPgMYiGs~~~~gl~~~v~ElvdNaiDe~~ag~a~~I~V~i~~~g~I~V~DnG~GIp~~ 83 (638)
T PRK05644 4 KAQEYDASQIQVLEGLEAVRKRPGMYIGSTGERGLHHLVYEIVDNSIDEALAGYCDHIEVTINEDGSITVTDNGRGIPVD 83 (638)
T ss_pred ccCCCCHHHCeEecchHHHhcCCCceECCCChhhHHhhhHHhhhcccccccCCCCCEEEEEEeCCCcEEEEEeCccccCC
Confidence 34669999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCccceeeeeeeeccCCCCCCCCCceeeccCccCCchhHHhhcccceEEEEEeCCEEEEEEEecCcccccceeecc
Q 005028 153 LHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVL 232 (718)
Q Consensus 153 ~~~~~g~~~~E~v~t~lhag~kF~~~~~~ykvSGGlhGvG~svvNalS~~~~V~v~r~gk~y~q~f~~G~~~~~l~~~~~ 232 (718)
.|+.+|++.+|+|||++||||||+++ .|++|||+||+|++++||||++|+|+++|+|+.|.|+|++|+++.++..+
T Consensus 84 ~h~~~ki~~~e~i~~~lhag~kfd~~--~yk~s~G~~G~Gls~vnalS~~~~v~t~r~g~~~~~~~~~G~~~~~~~~~-- 159 (638)
T PRK05644 84 IHPKTGKPAVEVVLTVLHAGGKFGGG--GYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYYQEYERGVPVTPLEVI-- 159 (638)
T ss_pred ccCCCCCCchHHheeeecccCccCCC--cccccCCccccchhhhhheeceEEEEEEeCCcEEEEEEECCeEccCcccc--
Confidence 99999999999999999999999987 89999999999999999999999999999999999999999998766443
Q ss_pred CCCCCCCCceEEEEEeCccccccccccCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEEecccHHHHHHHHhc
Q 005028 233 PVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNT 312 (718)
Q Consensus 233 ~~~~~~~~GT~V~F~PD~~iF~~~~~~d~~~i~~Rl~elA~LnpglkI~l~der~~~~~~~~e~f~~~~Gl~dyv~~l~~ 312 (718)
+....+||+|+|+||+.+|+ ...++++.|.+|++++|+|||||+|+|++++.+. ...+.|+|++||.+|+++++.
T Consensus 160 --~~~~~~GT~I~F~Pd~~~F~-~~~~e~~~i~~rl~~~A~l~pgl~i~l~~er~~~--~~~~~f~~~~Gl~dyv~~l~~ 234 (638)
T PRK05644 160 --GETDETGTTVTFKPDPEIFE-TTEFDYDTLATRLRELAFLNKGLKITLTDEREGE--EKEETFHYEGGIKEYVEYLNR 234 (638)
T ss_pred --CCcCCCCcEEEEEECHHHcC-CcccCHHHHHHHHHHHHhhCCCcEEEEEeccCCC--cceeEEEcCCCHHHHHHHHhc
Confidence 33467999999999999995 4579999999999999999999999999998532 135679999999999999998
Q ss_pred CCCCCC-CeeEEEeccCceEEEEEEEecCCCCCceeeeeccceecCCCcchHHHHHHHHHHHHHHHHhhccCCCCCCCCC
Q 005028 313 DKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISL 391 (718)
Q Consensus 313 ~~~~l~-~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~alt~~in~~~kk~~~~k~k~~~l 391 (718)
++++++ +++.+.++.++++||||++|+ ++|+++++||||+|+|++|||||+||+++|+++||+|+++.+++|+++.++
T Consensus 235 ~~~~~~~~~i~~~~~~~~~~veval~~~-~~~~~~~~SFvN~I~T~~GGTHv~g~~~al~~~l~~~~~k~~~~Kk~~~~i 313 (638)
T PRK05644 235 NKEPLHEEPIYFEGEKDGIEVEVAMQYN-DGYSENILSFANNINTHEGGTHEEGFKTALTRVINDYARKNKLLKEKDDNL 313 (638)
T ss_pred CCCcCCCCCeEEEeeccCeEEEEEEEec-CCCceEEEEEECcccCCCCCCHHHHHHHHHHHHHHHHHHHhCcccccCCCC
Confidence 888886 578777766778999999999 678889999999999999999999999999999999999988877767899
Q ss_pred CHHHHhhccEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005028 392 SGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARD 471 (718)
Q Consensus 392 ~~~dIregL~~vVsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~~kar~aakkar~ 471 (718)
+++|||+||++||||+|+||+|+||||++|+|++++.+|++++.+.|..||++||+.++.|+++++.++++|++++++|+
T Consensus 314 ~~~dIregl~~vVsv~i~nP~F~gQTKekL~~~~v~~~v~~~v~~~l~~~l~~n~~~~~~I~~~~~~~a~~r~~a~~~k~ 393 (638)
T PRK05644 314 TGEDVREGLTAVISVKHPEPQFEGQTKTKLGNSEVRGIVDSVVSEALSEFLEENPNVAKKIVEKAILAARAREAARKARE 393 (638)
T ss_pred ChhHHhhceEEEEEEecCCCcccCcccccccCHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhccccccCCCCCCCCCCCCCCCCCceEEEeeccCCCccccccCCCCceEecccCcccccccccCHHHHhhChhHHHH
Q 005028 472 LVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNL 551 (718)
Q Consensus 472 ~~r~k~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qailPLrGKiLNv~ka~~~ki~~N~Ei~~l 551 (718)
..|+|+......|||||+||+++++++|||||||||||||||||||||+|||||||||||||||+++.+||++|+||++|
T Consensus 394 ~~r~k~~~~~~~lpgKL~dc~~~~~~~~eLflvEGDSA~gsak~grdr~~qailPLrGKiLNv~~a~~~ki~~N~Ei~~l 473 (638)
T PRK05644 394 LTRRKSALESSSLPGKLADCSSKDPEESELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRAL 473 (638)
T ss_pred HhhcccccccCCCCchhcccccCCCCccEEEEEecCCCccccccccCccceeecccCCceeccccCCHHHHHhCHHHHHH
Confidence 99988887778899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhcCCccCCcCcccccceeeEEEeecCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHH
Q 005028 552 IRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDA 631 (718)
Q Consensus 552 i~~lG~~~~~~~~~~~~LRYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~~G~v~~~~tPL~kv~~gk~~~y~ys~~ 631 (718)
++|||||+ +++||+++|||||||||||||+||+||++|||||||||||+||++||||+|+||||||++||++ ||||++
T Consensus 474 ~~alG~~~-~~~~~~~~LRY~kiiImtDaD~DG~HI~~Llltff~~~~p~Li~~G~l~~~~~Pl~kv~~gk~~-~~~~~~ 551 (638)
T PRK05644 474 ITALGTGI-GDDFDISKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGYVYIAQPPLYKIKKGGKE-YAYSDE 551 (638)
T ss_pred HHHhCCCC-CCcCChhhCccCeEEEEeCCCCCchHHHHHHHHHHHHhCHHhccCCeEEEecCCEEEEEeCCeE-eecCHH
Confidence 99999999 5779999999999999999999999999999999999999999999999999999999999988 999999
Q ss_pred HHHHHHHhCCC--CCcccceEeeccCCCChhhHHhhhcCccceeeeeeccccHHHHHHHHHHhcCCCchHHHHHHHhccc
Q 005028 632 ELKKVKSSFPS--NALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAAN 709 (718)
Q Consensus 632 E~~~~~~~~~~--~~~~~ikryKGLGem~~~ql~ett~dp~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~RK~~i~~~~~ 709 (718)
||++|+++++. .++|+||||||||||+|+|+|||||||++|.|.+|+++|.+.++++|++|||+++++||+||++++.
T Consensus 552 e~~~~~~~~~~~~~~~~~i~ryKGLGe~~~~~~~e~~~~~~~r~~~~v~~~d~~~~~~~f~~lmg~~~~~Rk~~i~~~~~ 631 (638)
T PRK05644 552 ELDEILAELKLKGNPKYGIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSILMGDDVEPRREFIEENAK 631 (638)
T ss_pred HHHHHHHHhccccCCCCceeEecCccccCHHHHHHHhcCccceeeeeeccccHHHHHHHHHHHhCCCChHHHHHHHHhhh
Confidence 99999988754 3579999999999999999999999999999999999999999999999999999999999999997
Q ss_pred cCCccCCCC
Q 005028 710 LVNLDHLDI 718 (718)
Q Consensus 710 ~~~~~~ld~ 718 (718)
. +++|||
T Consensus 632 ~--~~~~d~ 638 (638)
T PRK05644 632 Y--VRNLDI 638 (638)
T ss_pred h--HhhccC
Confidence 4 466875
No 6
>PRK05559 DNA topoisomerase IV subunit B; Reviewed
Probab=100.00 E-value=3.1e-186 Score=1596.84 Aligned_cols=622 Identities=48% Similarity=0.823 Sum_probs=587.8
Q ss_pred CCCCCCcccceeccchhhHhhCCCeeeccCCCCchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCCcEEEEECCCCcccc
Q 005028 73 VSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPID 152 (718)
Q Consensus 73 ~~~~Y~~~~i~~L~~lE~VrkRPgMYIGs~~~~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg~isV~DnGrGIPv~ 152 (718)
.+.+|++++||+|+++||||+||||||||++.+||+|+|+||||||+||+++|+|+.|.|+|++||+|+|+|||||||++
T Consensus 4 ~~~~y~~~~i~~L~~lE~VrkRP~mYiGs~~~~gl~~lv~EivdNaiDe~~ag~a~~I~V~i~~dg~I~V~DnGrGIP~~ 83 (631)
T PRK05559 4 MTNNYNADSIEVLEGLEPVRKRPGMYIGSTDTRGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADGSVSVRDNGRGIPVG 83 (631)
T ss_pred ccCCCCHHHCeeccchHHHhcCCCceeCCCCCchhhhhhhhhhccccchhhcCCCCEEEEEEeCCCcEEEEEcCCCCCcc
Confidence 45669999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCccceeeeeeeeccCCCCCCCCCceeeccCccCCchhHHhhcccceEEEEEeCCEEEEEEEecCcccccceeecc
Q 005028 153 LHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVL 232 (718)
Q Consensus 153 ~~~~~g~~~~E~v~t~lhag~kF~~~~~~ykvSGGlhGvG~svvNalS~~~~V~v~r~gk~y~q~f~~G~~~~~l~~~~~ 232 (718)
.||.+|+|+||++||+|||||||+++ .|++|||+||||+++|||||++|+|+++|+|+.|.|+|++|+++.++...
T Consensus 84 ~~~~~~~~~~E~v~t~lhagsKf~~~--~yk~SgGl~GvGls~vNalS~~l~V~s~r~g~~~~~~f~~G~~~~~l~~~-- 159 (631)
T PRK05559 84 IHPEEGKSGVEVILTKLHAGGKFSNK--AYKFSGGLHGVGVSVVNALSSRLEVEVKRDGKVYRQRFEGGDPVGPLEVV-- 159 (631)
T ss_pred cccccCCcchheeeeeccccCccCCc--cccccCcccccchhhhhhheeeEEEEEEeCCeEEEEEEECCcCccCcccc--
Confidence 99999999999999999999999987 89999999999999999999999999999999999999999998876433
Q ss_pred CCCCCCCCceEEEEEeCccccccccccCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEEecccHHHHHHHHhc
Q 005028 233 PVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNT 312 (718)
Q Consensus 233 ~~~~~~~~GT~V~F~PD~~iF~~~~~~d~~~i~~Rl~elA~LnpglkI~l~der~~~~~~~~e~f~~~~Gl~dyv~~l~~ 312 (718)
.......+||+|+|+||+++|++ ..++++.|.+||+++|+|||||+|+|+|++ . .+.|+|++||.+|+.+++.
T Consensus 160 ~~~~~~~~GT~V~f~PD~~iF~~-~~~~~~~i~~~l~~~A~lnpgl~i~l~d~~-~-----~~~f~~~~gl~~~v~~~~~ 232 (631)
T PRK05559 160 GTAGKRKTGTRVRFWPDPKIFDS-PKFSPERLKERLRSKAFLLPGLTITLNDER-E-----RQTFHYENGLKDYLAELNE 232 (631)
T ss_pred ccccCCCCCcEEEEEECHHHcCC-cccCHHHHHHHHHHHHhhCCCeEEEEEeCC-c-----eEEEECCccHHHHHHHHhC
Confidence 11112679999999999999964 579999999999999999999999999987 2 3679999999999999998
Q ss_pred CCCCCCC--eeEEEeccCceEEEEEEEecCCCCCceeeeeccceecCCCcchHHHHHHHHHHHHHHHHhhccCCCCCCCC
Q 005028 313 DKKPLHD--VVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDIS 390 (718)
Q Consensus 313 ~~~~l~~--~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~alt~~in~~~kk~~~~k~k~~~ 390 (718)
+++++++ ++++.++.+++.||||++|+ ++|+++++||||+|+|++|||||+||+++|+++||+|+++++++| ++.+
T Consensus 233 ~~~~i~~~~~i~~~~~~~~~~veval~~~-~~~~~~~~SFvN~I~T~~GGTHv~g~~~al~~~in~~~~~~~l~k-~~~~ 310 (631)
T PRK05559 233 GKETLPEEFVGSFEGEAEGEAVEWALQWT-DEGGENIESYVNLIPTPQGGTHENGFREGLLKAVREFAEKRNLLP-KGKK 310 (631)
T ss_pred CCCccCCCCceEEeeeeccceEEEEEEec-CCCCeEEEEEECcccCCCCCCHHHHHHHHHHHHHHHHHHHhCccc-cccC
Confidence 8888874 78888777789999999998 678889999999999999999999999999999999999998887 5789
Q ss_pred CCHHHHhhccEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005028 391 LSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRAR 470 (718)
Q Consensus 391 l~~~dIregL~~vVsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~~kar~aakkar 470 (718)
++++|||+||++||||+++||+|+||||++|+|++++.+|++++.+.|..||++||++++.|+++++.++++|++ ++|
T Consensus 311 l~~~diregl~~vvsvki~~P~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~a~~ii~k~~~~a~ar~~--~~~ 388 (631)
T PRK05559 311 LEGEDVREGLAAVLSVKIPEPQFEGQTKEKLGSREARRFVSGVVKDAFDLWLNQNPELAEKLAEKAIKAAQARLR--AAK 388 (631)
T ss_pred CChhhHhhceEEEEEEEcCCCcccCcccccccCHhHhhhhhhHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHH--HHH
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999997 488
Q ss_pred HHHhhccccccCCCCCCCCCCCCCCCCCceEEEeeccCCCccccccCCCCceEecccCcccccccccCHHHHhhChhHHH
Q 005028 471 DLVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQN 550 (718)
Q Consensus 471 ~~~r~k~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qailPLrGKiLNv~ka~~~ki~~N~Ei~~ 550 (718)
++.|+|..+. ..|||||+||+++++++|||||||||||||||||||||+|||||||||||||||+++.+||++|+||++
T Consensus 389 ~~~r~k~~~~-~~lpgKL~dc~~~~~~~~eL~lvEGDSAggsak~grdr~~qailPLRGKiLNv~~a~~~ki~~N~Ei~~ 467 (631)
T PRK05559 389 KVKRKKKTSG-PALPGKLADCTSQDPERTELFLVEGDSAGGSAKQARDREFQAILPLRGKILNTWEASLDDVLANEEIHD 467 (631)
T ss_pred HHhhhccccC-CCCCCcCcccccCCCCCCEEEEEeCCCCccccccccCccceeecccCCeecccccCCHHHHhcChhHHH
Confidence 8888887777 789999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhcCCccCCcCcccccceeeEEEeecCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCH
Q 005028 551 LIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDD 630 (718)
Q Consensus 551 li~~lG~~~~~~~~~~~~LRYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~~G~v~~~~tPL~kv~~gk~~~y~ys~ 630 (718)
|++|||||+ +++||+++||||||||||||||||+|||||||||||||||+||++||||+|+||||||++||+++|||||
T Consensus 468 l~~alG~~~-~~~~~~~~LRY~kIiImTDaDvDGsHI~~Llltff~~~~p~Li~~G~v~~~~~Pl~kv~~gk~~~y~~~~ 546 (631)
T PRK05559 468 IIVAIGIGP-GDSFDLEDLRYGKIIIMTDADVDGAHIATLLLTFFYRHFPPLVEAGHVYIALPPLYRVDKGKKKIYALDE 546 (631)
T ss_pred HHHHhCCCC-CCccCccccccCeEEEEeCCCCCcchhHHHHHHHHHHhCHhhccCCeEEEecCCEEEEEcCCceEEecCH
Confidence 999999999 5779999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhCC-CCCcccceEeeccCCCChhhHHhhhcCccceeeeeeccccHHHHHHHHHHhcCCCchHHHHHHHhccc
Q 005028 631 AELKKVKSSFP-SNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAAN 709 (718)
Q Consensus 631 ~E~~~~~~~~~-~~~~~~ikryKGLGem~~~ql~ett~dp~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~RK~~i~~~~~ 709 (718)
+|+++|+++++ ..++|+||||||||||+|+|||||||||++|+|.+|+++|+.+++++|++|||+++++||+||++++.
T Consensus 547 ~e~~~~~~~~~~~~~~~~i~ryKGLGe~~~~~~~e~~~~p~~r~l~~v~~~d~~~~~~~~~~l~g~~~~~Rk~~i~~~~~ 626 (631)
T PRK05559 547 EEKEELLKKLGKKGGKPEIQRFKGLGEMNPDQLWETTMDPETRRLVRVTIDDAEETEKLVDMLMGKKAEPRREWIEENGD 626 (631)
T ss_pred HHHHHHHHHhcccCCCCCceEeCchhhcCHHHHHHHhhCccceeEEEEEccchhhHHHHHHHHhCCCchHHHHHHHHhhh
Confidence 99999998863 23579999999999999999999999999999999999999999999999999999999999999986
Q ss_pred cC
Q 005028 710 LV 711 (718)
Q Consensus 710 ~~ 711 (718)
.+
T Consensus 627 ~~ 628 (631)
T PRK05559 627 FA 628 (631)
T ss_pred hh
Confidence 54
No 7
>TIGR01055 parE_Gneg DNA topoisomerase IV, B subunit, proteobacterial. This protein is active as an alpha(2)beta(2) heterotetramer.
Probab=100.00 E-value=2.6e-183 Score=1567.67 Aligned_cols=618 Identities=38% Similarity=0.636 Sum_probs=571.4
Q ss_pred CCCCCcccceeccchhhHhhCCCeeeccCCCCchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCCcEEEEECCCCccccc
Q 005028 74 SKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDL 153 (718)
Q Consensus 74 ~~~Y~~~~i~~L~~lE~VrkRPgMYIGs~~~~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg~isV~DnGrGIPv~~ 153 (718)
+++|++++|++|+|+|||||||||||||+++ ||+|+|||||||||+++|+|+.|.|+|+.||+|+|+|||||||++.
T Consensus 1 ~~~y~~~~i~~L~gle~VRkRPgMYigs~~~---~~lv~ElvdNsiDE~~ag~a~~I~V~i~~d~~I~V~DnGrGIp~~~ 77 (625)
T TIGR01055 1 TTNYSAKDIEVLDGLEPVRKRPGMYTDTTRP---NHLVQEVIDNSVDEALAGFASIIMVILHQDQSIEVFDNGRGMPVDI 77 (625)
T ss_pred CCccChhhceeecccHHhhcCCCCeeCCCCc---ceeehhhhhcccchhhcCCCCEEEEEEeCCCeEEEEecCCccCccc
Confidence 3569999999999999999999999999864 9999999999999999999999999999999999999999999999
Q ss_pred cCCCCccceeeeeeeeccCCCCCCCCCceeeccCccCCchhHHhhcccceEEEEEeCCEEEEEEEecCcccccceeeccC
Q 005028 154 HPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLP 233 (718)
Q Consensus 154 ~~~~g~~~~E~v~t~lhag~kF~~~~~~ykvSGGlhGvG~svvNalS~~~~V~v~r~gk~y~q~f~~G~~~~~l~~~~~~ 233 (718)
||++|+|++|++||++||||||+++ .|++|||+||+|+++|||||++|+|+++|+|+.|+|+|++|+++.+++.+.
T Consensus 78 h~~~g~~~~e~v~t~lhagsK~~~~--~~~~SgG~~GvGls~vnalS~~l~v~~~r~g~~~~~~~~~G~~~~~~~~i~-- 153 (625)
T TIGR01055 78 HPKEGVSAVEVILTTLHAGGKFSNK--NYHFSGGLHGVGISVVNALSKRVKIKVYRQGKLYSIAFENGAKVTDLISAG-- 153 (625)
T ss_pred ccccCCcHHHHhhhcccccCCCCCC--cceecCCCcchhHHHHHHhcCeEEEEEEECCeEEEEEEECCeEcccccccc--
Confidence 9999999999999999999999987 899999999999999999999999999999999999999999987765331
Q ss_pred CCCCCCCceEEEEEeCccccccccccCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEEecccHHHHHHHHhcC
Q 005028 234 VDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTD 313 (718)
Q Consensus 234 ~~~~~~~GT~V~F~PD~~iF~~~~~~d~~~i~~Rl~elA~LnpglkI~l~der~~~~~~~~e~f~~~~Gl~dyv~~l~~~ 313 (718)
......+||+|+|+||+++|++ ..++++.|.+|++++|||||||+|+|+|+|.+ ..+.|+|++||++||++++.+
T Consensus 154 ~~~~~~~GT~V~F~PD~~~F~~-~~~e~~~i~~~l~~lA~lnpgi~~~l~der~~----~~~~f~~~~Gi~~yv~~l~~~ 228 (625)
T TIGR01055 154 TCGKRLTGTSVHFTPDPEIFDS-LHFSVSRLYHILRAKAVLCRGVEIEFEDEVNN----TKALWNYPDGLKDYLSEAVNG 228 (625)
T ss_pred ccCCCCCCeEEEEEECHHHCCC-CccCHHHHHHHHHHHHhhCCCcEEEEeecCCC----ceeEEecCchHHHHHHHHhcC
Confidence 1113458999999999999975 47999999999999999999999999999853 235799999999999999988
Q ss_pred CCCCCCe-eEEEeccCceEEEEEEEecCCCCCceeeeeccceecCCCcchHHHHHHHHHHHHHHHHhhccCCCCCCCCCC
Q 005028 314 KKPLHDV-VGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLS 392 (718)
Q Consensus 314 ~~~l~~~-i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~alt~~in~~~kk~~~~k~k~~~l~ 392 (718)
+++++++ +....+.+++.+|||+||+.+.+++.++||||+|+|++|||||+||+++|+++||+|+++.++.|+ +.+++
T Consensus 229 ~~~~~~~~~~~~~~~~~~~ve~al~~~~~~~~~~~~SFvN~I~T~~GGTHv~gf~~alt~~in~~~~~~~~~kk-~~~i~ 307 (625)
T TIGR01055 229 DNTLPPKPFSGNFEGDDEAVEWALLWLPEGGELFMESYVNLIPTPQGGTHVNGLRQGLLDALREFCEMRNNLPR-GVKLT 307 (625)
T ss_pred CCCCCCCceEEEEeeCCceEEEEEEEecCCCCEEEEEeeccccCCCCCCHHHHHHHHHHHHHHHHHHHhCcccc-cCCCC
Confidence 7777643 333333467889999999866677889999999999999999999999999999999998877654 57899
Q ss_pred HHHHhhccEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005028 393 GEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDL 472 (718)
Q Consensus 393 ~~dIregL~~vVsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~~kar~aakkar~~ 472 (718)
++|||+||++||||+++||+|+||||++|+|++++.+|++++.+.|..||++||..++.|+++++.+++||+ ++||++
T Consensus 308 ~~diregl~~vVsvki~~P~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~a~~i~~k~~~~a~ar~--~~a~~~ 385 (625)
T TIGR01055 308 AEDIWDRCSYVLSIKMQDPQFAGQTKERLSSRQVAKFVSGVIKDAFDLWLNQNVQLAEHLAEHAISSAQRRK--RAAKKV 385 (625)
T ss_pred HHHHhhccEEEEEEeccCCcccCcccccccCHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHH--HHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999999999999999997 778887
Q ss_pred HhhccccccCCCCCCCCCCCCCCCCCceEEEeeccCCCccccccCCCCceEecccCcccccccccCHHHHhhChhHHHHH
Q 005028 473 VRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLI 552 (718)
Q Consensus 473 ~r~k~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qailPLrGKiLNv~ka~~~ki~~N~Ei~~li 552 (718)
.| |+.++...|||||+||+++||++|||||||||||||||||||||+|||||||||||||||+++.+||++|+||++||
T Consensus 386 ~r-k~~~~~~~lpgKL~dc~~~~~~~~eLfivEGDSA~gsak~grdr~~qailPLRGKiLNv~ka~~~ki~~N~Ei~~li 464 (625)
T TIGR01055 386 VR-KKLTSGPALPGKLADCTRQDLEGTELFLVEGDSAGGSAKQARDREYQAILPLWGKILNTWEVSLDKVLNSQEIHDIE 464 (625)
T ss_pred hh-cccccCCCCCccccccccCCCCceEEEEEecCCCCccccccCCcceeEEeccCCceeecccCCHHHhhcCHHHHHHH
Confidence 76 44666778999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhcCCccCCcCcccccceeeEEEeecCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHHH
Q 005028 553 RALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAE 632 (718)
Q Consensus 553 ~~lG~~~~~~~~~~~~LRYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~~G~v~~~~tPL~kv~~gk~~~y~ys~~E 632 (718)
+|||||++ ++ ++++||||||||||||||||+|||+|||||||||||+||++||||+|+||||||++||++.|+|+|.|
T Consensus 465 ~alG~g~~-~~-~~~~LRY~kiiImTDADvDG~HI~~LLltff~r~~p~Li~~G~vy~~~~Pl~kv~~gk~~~y~~~e~e 542 (625)
T TIGR01055 465 VALGIDPD-SN-DLSQLRYGKICILADADSDGLHIATLLCALFFLHFPKLVEEGHVYVAKPPLYRIDLSKEVYYALDEEE 542 (625)
T ss_pred HHhCCCcc-cc-cccccccceEEEEeCCCCCcchhHHHHHHHHHHhCHhhccCCeEEEEeCCEEEEecCCceEEcCCHHH
Confidence 99999995 44 59999999999999999999999999999999999999999999999999999999998999999999
Q ss_pred HHHHHHhCCC-CCcccceEeeccCCCChhhHHhhhcCccceeeeeeccccHHH--HHHHHHHhcCCC-chHHHHHHHhcc
Q 005028 633 LKKVKSSFPS-NALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAE--ANVVFSSLMGAR-VDTRKELIQNAA 708 (718)
Q Consensus 633 ~~~~~~~~~~-~~~~~ikryKGLGem~~~ql~ett~dp~~r~l~~v~~~d~~~--~~~~f~~lmg~~-~~~RK~~i~~~~ 708 (718)
++++.+++++ .++|+||||||||||+|+|||||||||++|+|.+|+++|+.. ++++|++|||++ +++||+||++++
T Consensus 543 ~~~~~~~~~~~~~~~~i~ryKGLGe~~~~~~~e~~~~p~~r~l~~v~~~~~~~~~~~~~~~~lmg~~~~~~Rk~~i~~~~ 622 (625)
T TIGR01055 543 KEKLLYKLKKKKGKPNVQRFKGLGEMNPAQLRETTMDPNTRRLVQLTLDDVQDQRVDKIMDMLLAKKRSEDRFNWLQEKG 622 (625)
T ss_pred HHHHHHhhcccCCCcceeEecccchhhHHHHHHHhhCccceecccccccchhhhhHHHHHHHHhCCCCCchhHHHHHhcc
Confidence 9999876643 247999999999999999999999999999999999999864 899999999999 999999999997
Q ss_pred c
Q 005028 709 N 709 (718)
Q Consensus 709 ~ 709 (718)
.
T Consensus 623 ~ 623 (625)
T TIGR01055 623 D 623 (625)
T ss_pred c
Confidence 5
No 8
>TIGR01059 gyrB DNA gyrase, B subunit. This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV. Proteins scoring above the noise cutoff for this model and below the trusted cutoff for topoisomerase IV models probably should be designated GyrB.
Probab=100.00 E-value=2.7e-180 Score=1557.31 Aligned_cols=629 Identities=55% Similarity=0.939 Sum_probs=596.5
Q ss_pred CCcccceeccchhhHhhCCCeeeccCCCCchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCCcEEEEECCCCccccccCC
Q 005028 77 YGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPA 156 (718)
Q Consensus 77 Y~~~~i~~L~~lE~VrkRPgMYIGs~~~~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg~isV~DnGrGIPv~~~~~ 156 (718)
|++++|++|+++||||+||||||||++++||||+|+|||+||+||+++|+|+.|.|+|+++|+|+|+|||+|||++.|+.
T Consensus 1 Y~~~~i~~L~~lE~vr~RP~mYiGs~~~~gl~~vv~Elv~NaiDe~~ag~a~~I~V~i~~~g~I~V~DnG~GIp~~~h~~ 80 (654)
T TIGR01059 1 YDASSIKVLEGLEAVRKRPGMYIGSTGETGLHHLVYEVVDNSIDEAMAGYCDTINVTINDDGSVTVEDNGRGIPVDIHPE 80 (654)
T ss_pred CChHHCeEecchHHHhcCCCceeCCCCcchHHhhhHHhhhccccccccCCCCEEEEEEeCCCcEEEEEeCCCcCccccCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccceeeeeeeeccCCCCCCCCCceeeccCccCCchhHHhhcccceEEEEEeCCEEEEEEEecCcccccceeeccCCCC
Q 005028 157 TNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDS 236 (718)
Q Consensus 157 ~g~~~~E~v~t~lhag~kF~~~~~~ykvSGGlhGvG~svvNalS~~~~V~v~r~gk~y~q~f~~G~~~~~l~~~~~~~~~ 236 (718)
++++.+|++|++||+||||+++ .|++|||+||+|++++||||++|+|+++++|+.|.|+|++|+++.++... +.
T Consensus 81 ~ki~~~e~i~~~l~ag~kf~~~--~~k~s~G~~G~gl~~inalS~~l~v~~~~~g~~~~~~~~~G~~~~~l~~~----~~ 154 (654)
T TIGR01059 81 EGISAVEVVLTVLHAGGKFDKD--SYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFERGIPLGPLEVV----GE 154 (654)
T ss_pred CCCCchHHheeeecccCccCCC--cceecCCccchhHHHHHHhcCeEEEEEEECCeEEEEEEeCCCcccCceec----cC
Confidence 9999999999999999999987 89999999999999999999999999999999999999999998876543 34
Q ss_pred CCCCceEEEEEeCccccccccccCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEEecccHHHHHHHHhcCCCC
Q 005028 237 KDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKP 316 (718)
Q Consensus 237 ~~~~GT~V~F~PD~~iF~~~~~~d~~~i~~Rl~elA~LnpglkI~l~der~~~~~~~~e~f~~~~Gl~dyv~~l~~~~~~ 316 (718)
...+||+|+|+|||++|. +..++++.|.+|++++|+|||||+|.|++++.+. .+.+.|+|++||.+|+++++.++++
T Consensus 155 ~~~~GT~V~F~pdp~~F~-~~~~e~~~i~~rl~~~A~l~pgl~i~l~~er~~~--~~~~~f~~~~Gl~~yv~~l~~~~~~ 231 (654)
T TIGR01059 155 TKKTGTTVRFWPDPEIFE-TTEFDFDILAKRLRELAFLNSGVKISLEDERDGK--GKSVTFHYEGGIKSFVKYLNRNKEP 231 (654)
T ss_pred CCCCCcEEEEEEChHHhC-CcccCHHHHHHHHHHhhccCCCeEEEEEeecCCC--CceeEEEcCCcHHHHHHHHhcCCCc
Confidence 567999999999999997 4579999999999999999999999999998531 1356799999999999999988888
Q ss_pred CC-CeeEEEeccCceEEEEEEEecCCCCCceeeeeccceecCCCcchHHHHHHHHHHHHHHHHhhccCCCCCCCCCCHHH
Q 005028 317 LH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEH 395 (718)
Q Consensus 317 l~-~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~alt~~in~~~kk~~~~k~k~~~l~~~d 395 (718)
++ +++++.++.++++||||++|+ ++|+++++||||+|+|++|||||+||+++|+++||+|++++++.|+++.+++++|
T Consensus 232 l~~~~i~~~~~~~~~~veva~~~~-~~~~~~~~SFvN~I~T~~GGTHv~g~~~al~~~i~~~~~~~~l~K~~~~~i~~~d 310 (654)
T TIGR01059 232 LHEEIIYIKGEKEGIEVEVALQWN-DGYSENILSFVNNINTREGGTHLEGFRSALTRVINSYAKNNKLLKESKPNLTGED 310 (654)
T ss_pred CCCCCeEEEecccCeEEEEEEEec-CCCceeEEEEECcccCCCCCcHHHHHHHHHHHHHHHHHHHhCcccccCCCCCHHH
Confidence 86 678888776789999999999 6788999999999999999999999999999999999999888887778999999
Q ss_pred HhhccEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 005028 396 VREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQ 475 (718)
Q Consensus 396 IregL~~vVsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~~kar~aakkar~~~r~ 475 (718)
||+||++||||+++||+|+||||++|+|++++.+|.+++.+.|..||++||+.++.|+++++.++++|++++++|++.|+
T Consensus 311 iregl~~vvsv~i~~P~F~gQTK~kL~~~~v~~~v~~~v~~~l~~~l~~n~~~a~~iv~k~~~~a~~r~~a~~~k~~~r~ 390 (654)
T TIGR01059 311 IREGLTAVISVKVPDPQFEGQTKTKLGNSEVRSIVESLVYEKLTEFFEENPQEAKAIVEKAILAAQAREAARKARELTRR 390 (654)
T ss_pred HhhccEEEEEEecCCCcccCcccccccChhHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHhHHHhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCCCCCCCCCCCCCCCCceEEEeeccCCCccccccCCCCceEecccCcccccccccCHHHHhhChhHHHHHHHh
Q 005028 476 KSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRAL 555 (718)
Q Consensus 476 k~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qailPLrGKiLNv~ka~~~ki~~N~Ei~~li~~l 555 (718)
|+......|||||+||+++++++|||||||||||||||||||||+|||||||||||||||+++.++|++|+||++|++||
T Consensus 391 k~~~~~~~lpgKL~dc~~~~~~~~eL~lvEGDSA~gsak~gRd~~~qai~PLrGKiLNv~~~~~~ki~~n~Ei~~l~~~l 470 (654)
T TIGR01059 391 KSALDSGGLPGKLADCSSKDPSKSELYIVEGDSAGGSAKQGRDRKFQAILPLRGKILNVEKARLDKILSNQEIGAIITAL 470 (654)
T ss_pred ccccccCCCCcCccCcccCCCCCCEEEEEecCCCCcccccccccccccccccCCccchhccCCHHHHhhChHHHHHHHHh
Confidence 88777788999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCccCCcCcccccceeeEEEeecCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeE-----------
Q 005028 556 GLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQV----------- 624 (718)
Q Consensus 556 G~~~~~~~~~~~~LRYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~~G~v~~~~tPL~kv~~gk~~----------- 624 (718)
|||+ +++||+++|||||||||||||+||+||++|||||||||||+||++||||+|+||||||++||++
T Consensus 471 G~~~-~~~~~~~~LrY~kiiImtDaD~DG~HI~~Lll~ff~~~~p~Li~~g~~~~~~~Pl~kv~~g~~~~~~~~~~~~~~ 549 (654)
T TIGR01059 471 GCGI-GKDFDLEKLRYHKIIIMTDADVDGSHIRTLLLTFFYRYMRPLIENGYVYIAQPPLYKVKKGKKERYIKDDKEKEL 549 (654)
T ss_pred CCCc-cccccccccccceEEEEeCCCCCcchhHHHHHHHHHHhcHhhccCCeEEEecCCEEEEEeCCeeeecccchhhhc
Confidence 9999 5789999999999999999999999999999999999999999999999999999999999988
Q ss_pred ----------EEeeCHHHHHHHHHhCC---CCCcccceEeeccCCCChhhHHhhhcCccceeeeeeccccHHHHHHHHHH
Q 005028 625 ----------QYCYDDAELKKVKSSFP---SNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSS 691 (718)
Q Consensus 625 ----------~y~ys~~E~~~~~~~~~---~~~~~~ikryKGLGem~~~ql~ett~dp~~r~l~~v~~~d~~~~~~~f~~ 691 (718)
.||||++|+++|+++++ .+++|+||||||||||+|+|+|||||||++|+|.|++++|...++++|++
T Consensus 550 ~~~~~~~~~e~Y~~dd~e~e~~l~~l~~~~~~~~~~IqryKGLGem~~~~l~ettmdp~~R~l~~v~l~d~~~~~~~f~~ 629 (654)
T TIGR01059 550 VGEALEDLRALYIYSDKEKEEAKTQIPVHEGRKGIEIQRYKGLGEMNADQLWETTMDPESRTLLKVTIEDAVEADRIFST 629 (654)
T ss_pred cccccccccceecCCHHHHHHHHHhccccccCCCcceeeeCchhhcCHHHHHHHhcCcccceeeeeecchHHHHHHHHHH
Confidence 89999999999998763 13579999999999999999999999999999999999999999999999
Q ss_pred hcCCCchHHHHHHHhccccCCccCCCC
Q 005028 692 LMGARVDTRKELIQNAANLVNLDHLDI 718 (718)
Q Consensus 692 lmg~~~~~RK~~i~~~~~~~~~~~ld~ 718 (718)
|||+++++||+||++++.. +++||+
T Consensus 630 lmg~~~~~Rk~~I~~~~~~--~~~ld~ 654 (654)
T TIGR01059 630 LMGDEVEPRREFIEANALD--VKNLDV 654 (654)
T ss_pred HhCCCchHHHHHHHHhhhh--HhhcCC
Confidence 9999999999999999873 456775
No 9
>PHA02569 39 DNA topoisomerase II large subunit; Provisional
Probab=100.00 E-value=1.6e-175 Score=1494.08 Aligned_cols=567 Identities=31% Similarity=0.489 Sum_probs=520.6
Q ss_pred ccceeccchhhHhhCCCeeeccCCC-----------------CchhHHHHHHHHhhHHHHhc---CCCCeEEEEEeCCCc
Q 005028 80 EQIQVLEGLEAVRKRPAMYIGSTGP-----------------RGLHHLVYEILDNAVDEAQA---GYASNIEVALLADNS 139 (718)
Q Consensus 80 ~~i~~L~~lE~VrkRPgMYIGs~~~-----------------~gL~~lv~EIldNAvDe~~a---g~~~~I~V~l~~dg~ 139 (718)
++||+|+++||||+||||||||++. +|||||||||||||+||+++ |+|+.|+|+|+ ||+
T Consensus 2 ~~i~~L~~lE~Vr~RPgmYIGs~~~~~~~~~~~~~~~~~~~~~GL~hi~~EIldNavDe~~~~~~g~~~~I~V~i~-dgs 80 (602)
T PHA02569 2 DEFKVLSDREHILKRPGMYIGSVAYEAHERFLFGKFTQVEYVPGLVKIIDEIIDNSVDEAIRTNFKFANKIDVTIK-NNQ 80 (602)
T ss_pred CceeEccchHHHhcCCCceeCCCCcccccceeecccccccccccceeeeehhhhhhhhhhhccCCCCCcEEEEEEc-CCE
Confidence 6899999999999999999999998 99999999999999999999 99999999999 999
Q ss_pred EEEEECCCCccccccCC-CC--ccceeeeeeeeccCCCCCCCCCceeeccCccCCchhHHhhcccceEEEEEeCCEEEEE
Q 005028 140 VSVADNGRGIPIDLHPA-TN--KSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQ 216 (718)
Q Consensus 140 isV~DnGrGIPv~~~~~-~g--~~~~E~v~t~lhag~kF~~~~~~ykvSGGlhGvG~svvNalS~~~~V~v~r~gk~y~q 216 (718)
|+|+|||||||+++|++ +| +|++|+|||+|||||||+ + .|++||||||||+|||||||++|+|+++|+|+.|+|
T Consensus 81 isV~dnGrGIPv~~h~~~~g~~~~~~E~i~t~LhaGgkFd-~--~ykvSGGlhGVG~svvNaLS~~~~V~v~~~~~~~~q 157 (602)
T PHA02569 81 VTVSDNGRGIPQAMVTTPEGEEIPGPVAAWTRTKAGSNFD-D--TNRVTGGMNGVGSSLTNFFSVLFIGETCDGKNEVTV 157 (602)
T ss_pred EEEEECCCcccCCcccccccccccceEEEEEeeccccccC-C--cceeeCCcCCccceeeeccchhhheEEEcCCEEEEE
Confidence 99999999999999986 55 889999999999999994 4 799999999999999999999999999999999999
Q ss_pred EEecCcccccceeeccCCCCCCCCceEEEEEeCccccccccccC---HHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCc
Q 005028 217 KYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFD---HNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQ 293 (718)
Q Consensus 217 ~f~~G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~~~~~d---~~~i~~Rl~elA~LnpglkI~l~der~~~~~~~ 293 (718)
+|++|++..+++. +.+.++||+|+|+||+++|++ ..|+ +++|.+||+++|||||||+|+|+|++.+
T Consensus 158 ~f~~G~~~~~~~~-----~~~~~~GT~V~F~PD~~iF~~-~~~~~~~~~~l~~Rl~elA~Ln~Gl~I~l~der~~----- 226 (602)
T PHA02569 158 NCSNGAENISWST-----KPGKGKGTSVTFIPDFSHFEV-NGLDQQYLDIILDRLQTLAVVFPDIKFTFNGKKVS----- 226 (602)
T ss_pred EecCCcccCCccc-----CCCCCCccEEEEEECHHHhCC-CccCccHHHHHHHHHHHHhcCCCCCEEEEEecCCC-----
Confidence 9999998776532 345679999999999999975 4576 7899999999999999999999998842
Q ss_pred ceeEEecccHHHHHHHHhcCCCCCCCeeEEEeccCceEEEEEEEecCCCCCceeeeeccceecCCCcchHHHHHHHHHHH
Q 005028 294 YNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRT 373 (718)
Q Consensus 294 ~e~f~~~~Gl~dyv~~l~~~~~~l~~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~alt~~ 373 (718)
+||.+|+++++. +++.+.. + .||||++|+.++| +++||||+|+|++|||||+||+++|+++
T Consensus 227 -------~g~~~yv~~~~~------~~i~~~~--~--~veva~~~~~~~~--~~~SFvN~I~T~~GGTHv~gf~~altr~ 287 (602)
T PHA02569 227 -------GKFKKYAKQFGD------DTIVQEN--D--NVSIALAPSPDGF--RQLSFVNGLHTKNGGHHVDCVMDDICEE 287 (602)
T ss_pred -------CCHHHHHHHhCC------CCeEEec--C--cEEEEEEecCCCc--EEEEEECcccCCCCCCHHHHHHHHHHHH
Confidence 699999999953 2444432 2 5899999985566 4899999999999999999999999999
Q ss_pred HHHHHhhccCCCCCCCCCCHHHHhhccEEEEEEe-ecCCCCCCccccccCCc--hhhhhhhhhHHHHHHHHHhhCHHHHH
Q 005028 374 LNSLGKKSKTVKDKDISLSGEHVREGLTCIISVR-VPNPEFEGQTKTRLGNP--EVRKVVDQSVQEYLTEYLELHPDVLD 450 (718)
Q Consensus 374 in~~~kk~~~~k~k~~~l~~~dIregL~~vVsvk-i~nP~FegQTKekL~n~--ev~~~v~~~v~~~l~~~l~~np~~~~ 450 (718)
||+|+++. ++.+++++||||||++||||+ ++||+|+||||++|+|+ +++..| +++.+.|..||++||++++
T Consensus 288 in~~~~kk-----~~~~l~~~diregL~avVsvk~i~~P~FegQTK~kL~~~~~~~~~~v-~~~~~~l~~~l~~n~~~~~ 361 (602)
T PHA02569 288 LIPMIKKK-----HKIEVTKARVKECLTIVLFVRNMSNPRFDSQTKERLTSPFGEIRNHI-DLDYKKIAKQILKTEAIIM 361 (602)
T ss_pred HHHHHHhc-----ccCCCCHHHHHhCCEEEEEEeccCCCcccCcccccccCChHHhccce-eehHHHHHHHHHHCHHHHH
Confidence 99999862 235899999999999999998 99999999999999999 689999 9999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHH---HHHhhcccc-ccCCCCCCCCCCCCCCCCCceEEEeeccCCCccccccCCCCceEecc
Q 005028 451 SILSKSLSALKAALAAKRAR---DLVRQKSVL-RSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILP 526 (718)
Q Consensus 451 ~I~~k~~~~~kar~aakkar---~~~r~k~~~-~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qailP 526 (718)
.|+++++.+++||+|++++| ++.|+|... ....|||| |++|||||||||||||||||||||+||||||
T Consensus 362 ~i~~~a~~~~~ar~a~~~~k~~k~~~r~k~~~~~~a~lpGk--------~~~~eL~ivEGDSAggsAk~~RdR~~qaIlP 433 (602)
T PHA02569 362 PIIEAALARKLAAEKAAETKAAKKAKKAKVAKHIKANLIGK--------DAETTLFLTEGDSAIGYLIEVRDEELHGGYP 433 (602)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhhhhhhccccccccCCCCCC--------CCCceEEEEecCCCCcccccccCccceeecc
Confidence 99999999999999886443 666666544 36788998 7899999999999999999999999999999
Q ss_pred cCcccccccccCHHHHhhChhHHHHHHHhcCCccCCcCcccccceeeEEEeecCCCCC-chhhhhHHHHHHHHHHHhhhc
Q 005028 527 LRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDG-AHIRTLLLTFFYRYQKTLFDE 605 (718)
Q Consensus 527 LrGKiLNv~ka~~~ki~~N~Ei~~li~~lG~~~~~~~~~~~~LRYgkIiImTDaDvDG-~HI~~Llltff~~~~p~Li~~ 605 (718)
||||||||++++.+||++|+||++||+|||||+ +++|+ +|||||||||||||||| +|||||||||||| ||+||++
T Consensus 434 LRGKiLNV~ka~~~ki~~N~Ei~~li~alG~g~-g~~~~--~LRY~kIiImTDADvDG~sHIr~LLltff~~-~p~Li~~ 509 (602)
T PHA02569 434 LRGKVLNTWGMSYADILKNKELFDICAITGLVL-GEKAE--NMNYKNIAIMTDADVDGKGSIYPLLLAFFSR-WPELFEQ 509 (602)
T ss_pred cCCcccchhhCCHHHhhcchhHHHHHHHhCCCc-Ccccc--ccccCcEEEEecCCCcchHHHHHHHHHHHHh-chhhccC
Confidence 999999999999999999999999999999999 45664 99999999999999999 9999999999999 9999999
Q ss_pred CcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHHhCCCCCcccceEeeccCCCChhhHHhhhcCccceeeeeeccccHHHH
Q 005028 606 GCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEA 685 (718)
Q Consensus 606 G~v~~~~tPL~kv~~gk~~~y~ys~~E~~~~~~~~~~~~~~~ikryKGLGem~~~ql~ett~dp~~r~l~~v~~~d~~~~ 685 (718)
||||+|+||||||++||+++||||++||++|++++ ++|+||||||||||+|+|+|||||||+ |.+++++| .+
T Consensus 510 G~v~~~~~Pl~kv~~gk~~~~~~~~~e~~~~~~~~---~~~~i~~yKGLGe~~~~~~~e~~~~p~---l~~~~~~d--~~ 581 (602)
T PHA02569 510 GRIRFVKTPVIIAQVGKETKWFYSLDEFEKAKDSL---KKWSIRYIKGLGSLRKSEYRRVINNPV---YDVVVLPD--DW 581 (602)
T ss_pred CeEEEecCCEEEEEcCCeeEEecCHHHHHHHHHhc---CCcceEEeccCCCCCHHHHHHHhcCcc---cEEEecCc--hH
Confidence 99999999999999999999999999999999865 369999999999999999999999998 77888887 37
Q ss_pred HHHHHHhcCCCchHHHHHHHh
Q 005028 686 NVVFSSLMGARVDTRKELIQN 706 (718)
Q Consensus 686 ~~~f~~lmg~~~~~RK~~i~~ 706 (718)
+++|++|||+++++||+||++
T Consensus 582 ~~~~~~l~g~~~~~Rk~wi~~ 602 (602)
T PHA02569 582 KELFEMLFGDDADLRKDWMSQ 602 (602)
T ss_pred HHHHHHHhCCCchHHHHHhhC
Confidence 899999999999999999974
No 10
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=100.00 E-value=4.9e-172 Score=1540.59 Aligned_cols=604 Identities=26% Similarity=0.370 Sum_probs=545.9
Q ss_pred cccceeccchhhHhhCCCeeeccCCC-----------------------CchhHHHHHHHHhhHHHHh----cCCCCeEE
Q 005028 79 SEQIQVLEGLEAVRKRPAMYIGSTGP-----------------------RGLHHLVYEILDNAVDEAQ----AGYASNIE 131 (718)
Q Consensus 79 ~~~i~~L~~lE~VrkRPgMYIGs~~~-----------------------~gL~~lv~EIldNAvDe~~----ag~~~~I~ 131 (718)
++.||+|+++||||+||||||||++. +|||||||||||||+||++ +|+|+.|+
T Consensus 7 ~~~yq~L~~lEhVr~RP~mYIGS~~~~~~~~wv~~~~~~~m~~~~v~~vpGL~ki~dEIldNAvDe~~r~~~~g~~~~I~ 86 (1388)
T PTZ00108 7 EERYQKKTQIEHILLRPDTYIGSIETQTEDMWVYDEEKNRMVYKTITYVPGLYKIFDEILVNAADNKARDKGGHRMTYIK 86 (1388)
T ss_pred HHhhhcccchhHHhcCCCceeCCCCccccceeeecccccccccccccccchhhhhHHHHhhhhhhhhcccCCCCCccEEE
Confidence 56799999999999999999999987 7999999999999999999 58999999
Q ss_pred EEEeCC-CcEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCceeeccCccCCchhHHhhcccceEEEEEeC
Q 005028 132 VALLAD-NSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRD 210 (718)
Q Consensus 132 V~l~~d-g~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~ykvSGGlhGvG~svvNalS~~~~V~v~r~ 210 (718)
|+|++| |+|+|+||||||||++|+++|+|+||+|||+||||||||++ +|++||||||||+|||||||++|+|+|+|+
T Consensus 87 V~i~~d~g~IsV~dnGrGIPv~~h~~~~~~~pElIft~L~aGgkfdd~--~yKvSGGlhGVGasvvNalS~~f~Vev~r~ 164 (1388)
T PTZ00108 87 VTIDEENGEISVYNDGEGIPVQIHKEHKIYVPEMIFGHLLTSSNYDDT--EKRVTGGRNGFGAKLTNIFSTKFTVECVDS 164 (1388)
T ss_pred EEEeccCCeEEEEecCCcccCCCCCCCCCccceEEEEEeeccccCCCC--ceeeecccccCCccccccccceEEEEEEEC
Confidence 999987 99999999999999999999999999999999999999988 999999999999999999999999999999
Q ss_pred --CEEEEEEEecCcccccceeeccCCCCCC-CCceEEEEEeCccccccccccCHHH---HHHHHHHHhhcCCCcEEEEee
Q 005028 211 --GMEYHQKYSRGKPVTTLTCHVLPVDSKD-RQGTRIRFWPDKQVFTTAIQFDHNT---IAGRIRELAFLNPKLTIALRK 284 (718)
Q Consensus 211 --gk~y~q~f~~G~~~~~l~~~~~~~~~~~-~~GT~V~F~PD~~iF~~~~~~d~~~---i~~Rl~elA~LnpglkI~l~d 284 (718)
|+.|+|+|++||.....+.+ . .... ++||+|+|+||+++|++ ..||+++ |.+||+++|||||||+|+|+|
T Consensus 165 ~~gk~y~q~f~~Gm~~~~~p~i--~-~~~~~~~GT~VtF~PD~~iF~~-~~fd~d~~~ll~~Rl~dlA~ln~GLkI~lnd 240 (1388)
T PTZ00108 165 KSGKKFKMTWTDNMSKKSEPRI--T-SYDGKKDYTKVTFYPDYAKFGM-TEFDDDMLRLLKKRVYDLAGCFGKLKVYLNG 240 (1388)
T ss_pred CCCCEEEEEecCCCcCCCCCcc--C-CCCCCCCceEEEEEeCHHHcCC-CccChHHHHHHHHHHHHHhcCCCCcEEEEeC
Confidence 99999999999744322222 1 1123 79999999999999975 4699988 999999999999999999999
Q ss_pred cCCCCCCCcceeEEecccHHHHHHHHhcCCCCCCCeeE-EEeccCceEEEEEEEecCCCCCceeeeeccceecCCCcchH
Q 005028 285 EDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVG-FRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHI 363 (718)
Q Consensus 285 er~~~~~~~~e~f~~~~Gl~dyv~~l~~~~~~l~~~i~-~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv 363 (718)
++.+. .++.+|+++++.+..+++++++ +..+.+++.||||++|+ + ++++++||||+|+|++|||||
T Consensus 241 er~gi-----------~~F~~y~~ly~~~~~~~~~~~~~~~~~~~~~~~eVal~~s-~-~~~~~~SFVN~I~T~~GGTHv 307 (1388)
T PTZ00108 241 ERIAI-----------KSFKDYVDLYLPDGEEGKKPPYPFVYTSVNGRWEVVVSLS-D-GQFQQVSFVNSICTTKGGTHV 307 (1388)
T ss_pred ccccH-----------HHHHHHHHhhccCCccCCCCceeeeccccCceEEEEEEEe-C-CCceEEEEEcccccCCCCCHH
Confidence 87420 2344455444655555554544 55666678999999999 4 578899999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhccCCCCCCCCCCHHHHhhccEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHh
Q 005028 364 EGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLE 443 (718)
Q Consensus 364 ~g~~~alt~~in~~~kk~~~~k~k~~~l~~~dIregL~~vVsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~ 443 (718)
+||+++|+++|++|++++ |+++.+++++|||+||++||||+|+||+|+||||++|+|++++..+.+.+.+.|..||+
T Consensus 308 ~g~~~alt~~i~~~~k~k---kk~~~~i~~~dIregl~~~Vs~~i~nP~FdsQTKekL~~~~~~~~~~~~v~e~l~~~l~ 384 (1388)
T PTZ00108 308 NYILDQLISKLQEKAKKK---KKKGKEIKPNQIKNHLWVFVNCLIVNPSFDSQTKETLTTKPSKFGSTCELSEKLIKYVL 384 (1388)
T ss_pred HHHHHHHHHHHHHHHHHh---cccCCCCCHHHHHhCcEEEEEEecCCCccCCcccccccChhhHHHHHHHHHHHHHHHHh
Confidence 999999999999999873 33457899999999999999999999999999999999999999999999999999998
Q ss_pred hCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCC---CCCCCCceEEEeeccCCCcccccc---C
Q 005028 444 LHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCS---STTPEESEIFIVEGDSAGGSAKQG---R 517 (718)
Q Consensus 444 ~np~~~~~I~~k~~~~~kar~aakkar~~~r~k~~~~~~~lpgKL~Dc~---~~~~~~~eL~lvEGDSA~Gsak~g---R 517 (718)
+ ..|+++++.++++|++|+++|++.++| ..... .|+||+||+ ++++++|||||||||||||||+|| |
T Consensus 385 ~-----~~Ivekil~~a~aR~aa~~ak~~~~~K-~~~~~-~ipKL~Dc~~aG~k~~~~ceL~lvEGDSAggsAk~Gl~vr 457 (1388)
T PTZ00108 385 K-----SPILENIVEWAQAKLAAELNKKMKAGK-KSRIL-GIPKLDDANDAGGKNSEECTLILTEGDSAKALALAGLSVV 457 (1388)
T ss_pred h-----hHHHHHHHHHHHHHHHHHHHHHHhhhh-hhccc-CchhhhhcccccCCChhhcEEEEEecCcccchhhhccccc
Confidence 6 369999999999999999999988877 33333 445999999 689999999999999999999999 7
Q ss_pred CCCceEecccCcccccccccCHHHHhhChhHHHHHHHhcCCccCCcCcccccceeeEEEeecCCCCCchhhhhHHHHHHH
Q 005028 518 DRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYR 597 (718)
Q Consensus 518 dr~~qailPLrGKiLNv~ka~~~ki~~N~Ei~~li~~lG~~~~~~~~~~~~LRYgkIiImTDaDvDG~HI~~Llltff~~ 597 (718)
||+||||||||||||||++|+.+||++|+||++|++|||||++.++||+++|||||||||||||+||+||||||||||||
T Consensus 458 dR~~qaVfPLRGKiLNV~kas~~ki~~N~EI~~li~aLGlg~g~~y~d~~~LRYgkIiIMTDADvDGsHIr~LLlnff~~ 537 (1388)
T PTZ00108 458 GRDYYGVFPLRGKLLNVRDASLKQLMNNKEIQNLFKILGLDIGKKYEDPKGLRYGSLMIMTDQDHDGSHIKGLLINMIHH 537 (1388)
T ss_pred CccceeeeccCCcccccccccHhhhhccHHHHHHHHHhCCCcCccccccccCCCCeEEEEeCCCCCccHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999965558999999999999999999999999999999999
Q ss_pred HHHHhhh-cCcEEEecCCeEEEEe-CCeEEEeeCHHHHHHHHHhCCCCCcccceEeeccCCCChhhHHhhhcCccceeee
Q 005028 598 YQKTLFD-EGCIYVGVPPLYKVER-GKQVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLK 675 (718)
Q Consensus 598 ~~p~Li~-~G~v~~~~tPL~kv~~-gk~~~y~ys~~E~~~~~~~~~~~~~~~ikryKGLGem~~~ql~ett~dp~~r~l~ 675 (718)
|||+||+ +||||+|+||||||++ ||+++||||++||++|+++++ .++|+||||||||||+|+|+|||||||+ |+++
T Consensus 538 ~~p~Li~~~Gfl~~~~tPl~kv~k~gk~~~~fys~~E~e~~~~~~~-~~~~~IkyyKGLGe~~~~e~~eyf~~~~-r~~i 615 (1388)
T PTZ00108 538 FWPSLLKNPGFLKEFITPIVKATKKGNQVISFFTIPDFEKWKQTVG-LKGWKIKYYKGLGTSTDKEGKEYFSNID-KHRI 615 (1388)
T ss_pred hhHHhcccCCEEEEecCCEEEEEECCceeEEecCHHHHHHHHHHcC-CCCCccccccchhhcCHHHHHHHhcccC-ceEE
Confidence 9999999 9999999999999999 999999999999999999875 4579999999999999999999999999 7788
Q ss_pred eeccccHHHHHHHHHHhcCCC-chHHHHHHHhccccCCcc
Q 005028 676 QLVIEDAAEANVVFSSLMGAR-VDTRKELIQNAANLVNLD 714 (718)
Q Consensus 676 ~v~~~d~~~~~~~f~~lmg~~-~~~RK~~i~~~~~~~~~~ 714 (718)
+|+++|+ .++.+|+++||++ +++||+||+++++..++|
T Consensus 616 ~~~~~~~-~~~~~idl~fgk~~a~~RK~wi~~~~~~~~~d 654 (1388)
T PTZ00108 616 RFVYVDD-SDDDSIDLAFSKKRVEDRKEWITNYKGGTYVD 654 (1388)
T ss_pred EEecCCc-cHHHHHHHHhCCCChHHHHHHHHhhCcccccc
Confidence 9998886 5789999999986 999999999999877664
No 11
>smart00433 TOP2c TopoisomeraseII. Eukaryotic DNA topoisomerase II, GyrB, ParE
Probab=100.00 E-value=2.9e-171 Score=1466.36 Aligned_cols=589 Identities=52% Similarity=0.845 Sum_probs=553.9
Q ss_pred chhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCCcEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCceeec
Q 005028 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVS 185 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~ykvS 185 (718)
||||+|+||||||+||+++|+|+.|.|+|+.+|+|+|+|||||||++.|+..+++++|+|||++||||||+++ .|++|
T Consensus 1 GL~~~v~ElvdNAiD~~~~g~at~I~V~i~~~g~I~V~DnG~GIp~~~h~~~~~~~~e~v~~~lhag~kfd~~--~~k~s 78 (594)
T smart00433 1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDD--AYKVS 78 (594)
T ss_pred CceEEEeeehhcccchhccCCCCEEEEEEeCCCeEEEEEeCCceeCCccCcCCCCcHHHhhhhhcccCCCCCC--Ccccc
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999988 89999
Q ss_pred cCccCCchhHHhhcccceEEEEEeCCEEEEEEEec-CcccccceeeccCCCCCCCCceEEEEEeCccccccccccCHHHH
Q 005028 186 GGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSR-GKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTI 264 (718)
Q Consensus 186 GGlhGvG~svvNalS~~~~V~v~r~gk~y~q~f~~-G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~~~~~d~~~i 264 (718)
||+||+|+++|||||++|+|+|+++|+.|.|+|++ |.++.++... +...++||+|+|+||+.+|.....++++.|
T Consensus 79 ~G~~G~Gls~vnalS~~l~v~~~~~g~~~~~~~~~~G~~~~~~~~~----~~~~~~GT~V~F~Pd~~~F~~~~~~~~~~i 154 (594)
T smart00433 79 GGLHGVGASVVNALSTEFEVEVARDGKEYKQSFSNNGKPLSEPKII----GDTKKDGTKVTFKPDLEIFGMTTDDDFELL 154 (594)
T ss_pred CCcccchHHHHHHhcCceEEEEEeCCcEEEEEEeCCCeECccceec----CCCCCCCcEEEEEECHHHhCCcccchHHHH
Confidence 99999999999999999999999999999999987 8887766433 334579999999999999975446889999
Q ss_pred HHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEEecccHHHHHHHHhcCCCCCC-CeeEEEeccCceEEEEEEEecCCCC
Q 005028 265 AGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAY 343 (718)
Q Consensus 265 ~~Rl~elA~LnpglkI~l~der~~~~~~~~e~f~~~~Gl~dyv~~l~~~~~~l~-~~i~~~~~~~~~~veval~~s~~~~ 343 (718)
.+|++++|+|||||+|+|+|++.. ..++|+|++||.+|+++++.++++++ +++.+..+.+++.||||++|+ ++|
T Consensus 155 ~~rl~~~A~l~pgl~i~l~der~~----~~~~f~~~~Gl~~yv~~~~~~~~~~~~~~i~~~~~~~~~~veval~~~-~~~ 229 (594)
T smart00433 155 KRRLRELAFLNKGVKITLNDERSD----EEETFLFEGGIKDYVELLNKNKELLSPEPTYIEGEKDNIRVEVAFQYT-DGY 229 (594)
T ss_pred HHHHHHHHhcCCCcEEEEeccCCC----cceEEECCCCHHHHHHHHhCCCCcccCCCeEEEEEeCCcEEEEEEEcc-CCC
Confidence 999999999999999999999853 24679999999999999998887776 677777777789999999998 678
Q ss_pred CceeeeeccceecCCCcchHHHHHHHHHHHHHHHHhhccCCCCCCCCCCHHHHhhccEEEEEEeecCCCCCCccccccCC
Q 005028 344 SDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGN 423 (718)
Q Consensus 344 ~~~~~SFVN~I~T~~GGTHv~g~~~alt~~in~~~kk~~~~k~k~~~l~~~dIregL~~vVsvki~nP~FegQTKekL~n 423 (718)
+++++||||+|+|++|||||+||+++|+++||+|++++++.|+ .+++++|||+||++||||+++||+|+||||++|+|
T Consensus 230 ~~~~~SFvN~I~T~~GGTHv~g~~~al~~~i~~~~~~~~~~k~--~~i~~~diregl~~vIsvki~~P~FegQTK~kL~n 307 (594)
T smart00433 230 SENIVSFVNNIATTEGGTHENGFKDALTRVINEYAKKKKKLKE--KNIKGEDVREGLTAFISVKIPEPQFEGQTKEKLGT 307 (594)
T ss_pred CcEEEEEECCccCCCCCcHHHHHHHHHHHHHHHHHHHhCcccc--CCCChhhHhhCeEEEEEEEEchheecccccccccC
Confidence 8999999999999999999999999999999999999887764 78999999999999999999999999999999999
Q ss_pred chhhhhhhhhHHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCCCCCCCCceEEE
Q 005028 424 PEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCSSTTPEESEIFI 503 (718)
Q Consensus 424 ~ev~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~~kar~aakkar~~~r~k~~~~~~~lpgKL~Dc~~~~~~~~eL~l 503 (718)
++++.+|++++.+.|..||++||..++.|+++++.++++|++|+++|++.|+| ......|||||+||+++++++|||||
T Consensus 308 ~~~~~~v~~~v~~~l~~~l~~n~~~a~~ii~k~~~~a~ar~~a~~~~~~~r~k-~~~~~~l~~KL~dc~~~~~~~~eL~i 386 (594)
T smart00433 308 SEVRFGVEKIVSECLLSFLEENPVEASKIVEKVLLAAKARAAAKKARELTRKK-KLSKISLPGKLADASSAGPKKCELFL 386 (594)
T ss_pred hhHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHhHHHhccc-ccccccccccccccccCCCCCcEEEE
Confidence 99999999999999999999999999999999999999999999999999988 66777899999999999999999999
Q ss_pred eeccCCCccccccCCCCceEecccCcccccccccCHHHHhhChhHHHHHHHhcCCccCCcCcccccceeeEEEeecCCCC
Q 005028 504 VEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVD 583 (718)
Q Consensus 504 vEGDSA~Gsak~gRdr~~qailPLrGKiLNv~ka~~~ki~~N~Ei~~li~~lG~~~~~~~~~~~~LRYgkIiImTDaDvD 583 (718)
||||||||||||||||+|||||||||||||||+++.+||++|+||++||+|||||+ +++||+++|||||||||||||||
T Consensus 387 vEGDSA~gsak~grdr~~qailPLrGKiLNv~~~~~~ki~~N~Ei~~li~alG~~~-~~~~~~~~LRY~kIiImtDaDvD 465 (594)
T smart00433 387 VEGDSAGGSAKSGRDRDFQAILPLRGKLLNVEKASLDKILKNEEIQALITALGLGI-GKDFDIEKLRYGKIIIMTDADVD 465 (594)
T ss_pred EecCCCccccccccCccceeecccCCeecchhhccHHHHhhCHHHHHHHHHhCCCc-CcccCccccccceEEEEeCCCCC
Confidence 99999999999999999999999999999999999999999999999999999999 56799999999999999999999
Q ss_pred CchhhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCe--EEEeeCHHHHHHHHHhCCC-CCcccceEeeccCCCChh
Q 005028 584 GAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQ--VQYCYDDAELKKVKSSFPS-NALYSIQRFKGLGEMMPV 660 (718)
Q Consensus 584 G~HI~~Llltff~~~~p~Li~~G~v~~~~tPL~kv~~gk~--~~y~ys~~E~~~~~~~~~~-~~~~~ikryKGLGem~~~ 660 (718)
|+|||||||||||||||+||++||||+|+||||||++|++ +.+||+++|+++|+.+... .++|+||||||||||+|+
T Consensus 466 G~HI~~Llltff~r~~p~Li~~G~vy~~~~Pl~ki~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~ryKGLGe~~~~ 545 (594)
T smart00433 466 GSHIKGLLLTFFYRYMPPLIEAGFVYIAIPPLYKVTKGKKKYVYSFYSLDEYEKWLETKGGNKSKYEIQRYKGLGEMNAD 545 (594)
T ss_pred cchhHHHHHHHHHHhChhhhhCCeEEEecCCEEEEEeCCcceEEeehhhHHHHHHHHhhhccCCCccceeccccccCCHH
Confidence 9999999999999999999999999999999999999986 5678888899999865331 457999999999999999
Q ss_pred hHHhhhcCccceeeeeeccccHHHHHHHHHHhcCCCchHHHHHHHhccc
Q 005028 661 QLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAAN 709 (718)
Q Consensus 661 ql~ett~dp~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~RK~~i~~~~~ 709 (718)
|+|||||||++|+|.+|+++|+..++.+|++|||+++++||+||++++.
T Consensus 546 ~~~e~~~~p~~r~l~~v~~~d~~~~~~~~~~l~g~~~~~Rk~~i~~~~~ 594 (594)
T smart00433 546 QLWETTMDPERRTLLFVTLDDADEADLIFSALMGDKVEPRKEWIEENAP 594 (594)
T ss_pred HHHHHhcCccceeEEEEEcCchhhHHHHHHHHcCCCchHHHHHHHhhCC
Confidence 9999999999999999999999888999999999999999999999863
No 12
>PLN03128 DNA topoisomerase 2; Provisional
Probab=100.00 E-value=5.6e-169 Score=1505.53 Aligned_cols=602 Identities=25% Similarity=0.374 Sum_probs=536.1
Q ss_pred cccceeccchhhHhhCCCeeeccCCC---------------------CchhHHHHHHHHhhHHHHh-cCCCCeEEEEEeC
Q 005028 79 SEQIQVLEGLEAVRKRPAMYIGSTGP---------------------RGLHHLVYEILDNAVDEAQ-AGYASNIEVALLA 136 (718)
Q Consensus 79 ~~~i~~L~~lE~VrkRPgMYIGs~~~---------------------~gL~~lv~EIldNAvDe~~-ag~~~~I~V~l~~ 136 (718)
++.||+|+++||||+||||||||++. +|||||||||||||+||++ +|+|+.|.|+|++
T Consensus 4 ~~~yqk~s~lEhV~~RP~mYIGS~~~~~~~~wv~~~~~~~~~~v~~vpGL~ki~dEIldNAvDe~~~~g~~~~I~V~i~~ 83 (1135)
T PLN03128 4 EETYQKKTQLEHILLRPDTYIGSTEKHTQTLWVYEGGEMVNREVTYVPGLYKIFDEILVNAADNKQRDPSMDSLKVDIDV 83 (1135)
T ss_pred HHhhhhhcchhHHhcCCCCeeCCCCCccceeeEecccceeeeccccchhHHHHHHHHHHHHHHHhhhcCCCcEEEEEEEc
Confidence 46799999999999999999999998 7999999999999999996 5999999999997
Q ss_pred -CCcEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCceeeccCccCCchhHHhhcccceEEEEE--eCCEE
Q 005028 137 -DNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVW--RDGME 213 (718)
Q Consensus 137 -dg~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~ykvSGGlhGvG~svvNalS~~~~V~v~--r~gk~ 213 (718)
||+|+|+||||||||++||++|+|+||+|||+||||||||++ +|++||||||||+|||||||++|+|+|+ |+|+.
T Consensus 84 ~dgsIsV~DnGrGIPv~ih~~~g~~~~ElIft~LhaGgkFdd~--~ykvSGGlhGvGasvvNaLS~~f~Vev~d~r~gk~ 161 (1135)
T PLN03128 84 EQNTISVYNNGKGIPVEIHKEEGVYVPELIFGHLLTSSNFDDN--EKKTTGGRNGYGAKLANIFSTEFTVETADGNRGKK 161 (1135)
T ss_pred CCCeEEEEecCccccCCCCCCCCCccceEEEEeeccccccCCc--cceeeccccCCCCeEEEeecCeEEEEEEECCCCeE
Confidence 799999999999999999999999999999999999999987 8999999999999999999999999999 89999
Q ss_pred EEEEEecCcccccceeeccCCCCCCCCceEEEEEeCccccccccccCHH---HHHHHHHHHh-hcCCCcEEEEeecCCCC
Q 005028 214 YHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHN---TIAGRIRELA-FLNPKLTIALRKEDSDP 289 (718)
Q Consensus 214 y~q~f~~G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~~~~~d~~---~i~~Rl~elA-~LnpglkI~l~der~~~ 289 (718)
|+|+|++|+++.+++.+ .....+++||+|+|+||+++|++ ..|+++ .+.+|++|+| ||||||+|+|+|+|..
T Consensus 162 y~q~f~~G~~~~~~p~i--~~~~~~~~GT~ItF~PD~~iF~~-~~fd~d~~~~l~kRl~elAa~Ln~GlkI~Lnder~~- 237 (1135)
T PLN03128 162 YKQVFTNNMSVKSEPKI--TSCKASENWTKITFKPDLAKFNM-TRLDEDVVALMSKRVYDIAGCLGKKLKVELNGKKLP- 237 (1135)
T ss_pred EEEEeCCCcccCCCcee--ccCCCCCCceEEEEEECHHHcCC-CccChHHHHHHHHHHHHHHHhCCCCcEEEEecCCCC-
Confidence 99999999998876544 11223469999999999999985 468877 5899999999 9999999999999853
Q ss_pred CCCcceeEEecccHHHHHHHHh-cCCCCCCCeeEEEeccCceEEEEEEEecCCCCCceeeeeccceecCCCcchHHHHHH
Q 005028 290 EKNQYNEYFFAGGLEEYVQWLN-TDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKA 368 (718)
Q Consensus 290 ~~~~~e~f~~~~Gl~dyv~~l~-~~~~~l~~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~ 368 (718)
.+||++||+++. .++++.+.++.+..+ +..||||++|++ + +++++||||+|+|++|||||+||++
T Consensus 238 ----------~~G~~dyv~~~~~~~~~~~~~~i~~~~~--~~~~eva~~~s~-~-~~~~~SFVN~I~T~~GGTHv~g~~~ 303 (1135)
T PLN03128 238 ----------VKSFQDYVGLYLGPNSREDPLPRIYEKV--NDRWEVCVSLSD-G-SFQQVSFVNSIATIKGGTHVDYVAD 303 (1135)
T ss_pred ----------CCCHHHHHHHHhcCCCCCCCCCeEEEec--CceEEEEEEEcC-C-CceEEEEECcEecCCCCchHHHHHH
Confidence 369999999654 444333445666554 457999999995 4 5679999999999999999999999
Q ss_pred HHHHHHHHHHhhccCCCCCCCCCCHHHHhhccEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhCHHH
Q 005028 369 SLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDV 448 (718)
Q Consensus 369 alt~~in~~~kk~~~~k~k~~~l~~~dIregL~~vVsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~np~~ 448 (718)
+|++.+++++++++ | ++.+++++|||+||++||||+++||+|+||||++|+|++++.+|++.+.+.|..||+
T Consensus 304 ~i~~~i~~~~~kk~--K-~~~~l~~~diregL~~vIs~ki~nP~FesQTKekL~s~~~~~~v~~~v~e~~~~~l~----- 375 (1135)
T PLN03128 304 QIVKHIQEKVKKKN--K-NATHVKPFQIKNHLWVFVNCLIENPTFDSQTKETLTTRPSSFGSKCELSEEFLKKVE----- 375 (1135)
T ss_pred HHHHHHHHHHHHcc--C-CCCCCCHHHHHhCcEEEEEEecCCCcccCcccccccChhHHHHHHHHHHHHHHHHHh-----
Confidence 99999999987754 2 245899999999999999999999999999999999999999999999999999995
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCC---CCCCCCceEEEeeccCCCcccccc---CCCCce
Q 005028 449 LDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCS---STTPEESEIFIVEGDSAGGSAKQG---RDRRFQ 522 (718)
Q Consensus 449 ~~~I~~k~~~~~kar~aakkar~~~r~k~~~~~~~lpgKL~Dc~---~~~~~~~eL~lvEGDSA~Gsak~g---Rdr~~q 522 (718)
...|+++++.+++||++|+++|+..++|+. ...+ +||+||+ ++++++|||||||||||||||||| |||+||
T Consensus 376 ~~~Ivekil~~a~aR~aa~~~k~~~~kk~~--~~~i-pKL~Dc~~ag~k~~~~ceLflvEGDSAggsAk~Gl~~rdR~~q 452 (1135)
T PLN03128 376 KCGVVENILSWAQFKQQKELKKKDGAKRQR--LTGI-PKLDDANDAGGKKSKDCTLILTEGDSAKALAMSGLSVVGRDHY 452 (1135)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhccCC--CCCC-cccccccccCCCChhHcEEEEEecCCCCcchhhcccccCccce
Confidence 347888888999999999989888777643 2234 4999997 899999999999999999999999 999999
Q ss_pred EecccCcccccccccCHHHHhhChhHHHHHHHhcCCccCCcC---cccccceeeEEEeecCCCCCchhhhhHHHHHHHHH
Q 005028 523 AILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDF---KKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQ 599 (718)
Q Consensus 523 ailPLrGKiLNv~ka~~~ki~~N~Ei~~li~~lG~~~~~~~~---~~~~LRYgkIiImTDaDvDG~HI~~Llltff~~~~ 599 (718)
|||||||||||||+|+.+||++|+||++|++|||||++ ++| |+++|||||||||||||+||+||||||||||||||
T Consensus 453 aIlPLRGKiLNV~ka~~~ki~~N~EI~~li~alG~~~g-~~~~~~d~~~LRYgkIiIMTDaDvDGsHIr~LLltff~~~~ 531 (1135)
T PLN03128 453 GVFPLRGKLLNVREASHKQIMKNAEITNIKQILGLQFG-KTYDEENTKSLRYGHLMIMTDQDHDGSHIKGLIINFFHSFW 531 (1135)
T ss_pred eeeccCCceeccccCCHHHHhcchHHHHHHHHhCCCcC-ccccccChhhcccCeEEEEeCCCCCcchhHHHHHHHHHHhC
Confidence 99999999999999999999999999999999999995 556 99999999999999999999999999999999999
Q ss_pred HHhhhc-CcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHHhCCCC-CcccceEeeccCCCChhhHHhhhcCccceeeeee
Q 005028 600 KTLFDE-GCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSN-ALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQL 677 (718)
Q Consensus 600 p~Li~~-G~v~~~~tPL~kv~~gk~~~y~ys~~E~~~~~~~~~~~-~~~~ikryKGLGem~~~ql~ett~dp~~r~l~~v 677 (718)
|+||+. ||||+|+||||||++||+++||||++||++|++++++. ++|+||||||||||+|+|+||||+|++.++...+
T Consensus 532 p~Li~~~G~l~~~~tPl~kv~~gk~~~~~~s~~e~~~~~~~~~~~~~~~~ikyyKGLGe~~~~e~~e~f~~~~~~~~~f~ 611 (1135)
T PLN03128 532 PSLLKIPGFLVEFITPIVKATKGGKSLSFYTMPEYEAWKESLEGETKGWTIKYYKGLGTSTSEEAKEYFSNLDIHKKEFL 611 (1135)
T ss_pred HHhhccCCeEEEccCCEEEEEcCCeeEecCCHHHHHHHHHhhcccCCCccceeecccccCCHHHHHHHHHhHHHhEEEEE
Confidence 999996 99999999999999999999999999999999887543 4799999999999999999999999988765433
Q ss_pred ccccHHHHHHHHHHhcC-CCchHHHHHHHhccccCCcc
Q 005028 678 VIEDAAEANVVFSSLMG-ARVDTRKELIQNAANLVNLD 714 (718)
Q Consensus 678 ~~~d~~~~~~~f~~lmg-~~~~~RK~~i~~~~~~~~~~ 714 (718)
..+| ..++++++.|+ +++++||+||.++.+..++|
T Consensus 612 ~~~~--~~~~~i~~aF~k~~~~~RK~Wl~~~~~~~~~d 647 (1135)
T PLN03128 612 WQSD--EDGDLIDMAFSKKRVEDRKIWLNNYEPGTFLD 647 (1135)
T ss_pred eCCC--CcHHHHHHhcCCCcHHHHHHHHHhCCCCcccc
Confidence 2222 12445666665 67999999999998776654
No 13
>PLN03237 DNA topoisomerase 2; Provisional
Probab=100.00 E-value=1.7e-166 Score=1484.67 Aligned_cols=594 Identities=25% Similarity=0.393 Sum_probs=515.3
Q ss_pred cccceeccchhhHhhCCCeeeccCC---------------------CCchhHHHHHHHHhhHHHHh-cCCCCeEEEEEe-
Q 005028 79 SEQIQVLEGLEAVRKRPAMYIGSTG---------------------PRGLHHLVYEILDNAVDEAQ-AGYASNIEVALL- 135 (718)
Q Consensus 79 ~~~i~~L~~lE~VrkRPgMYIGs~~---------------------~~gL~~lv~EIldNAvDe~~-ag~~~~I~V~l~- 135 (718)
++.||+|+++||||+||||||||++ .+|||||||||||||+||++ +|+|+.|+|+|+
T Consensus 29 ~~~Yqkls~lEhVr~RP~mYIGSt~~~~~~~wv~~~~~m~~~~v~~vpGL~kifdEIldNAvDe~~r~g~~~~I~V~I~~ 108 (1465)
T PLN03237 29 EEMYQKKSQLEHILLRPDTYIGSIEKHTQTLWVYETDKMVQRSVTYVPGLYKIFDEILVNAADNKQRDPKMDSLRVVIDV 108 (1465)
T ss_pred HHhhhccccchHHhcCCCCEeCCCCcccceeeeeccccceeeeccccchhhhhHHHHhhhhHhHHhhcCCCCEEEEEEEc
Confidence 5679999999999999999999999 59999999999999999995 599999999999
Q ss_pred CCCcEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCceeeccCccCCchhHHhhcccceEEEEE--eCCEE
Q 005028 136 ADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVW--RDGME 213 (718)
Q Consensus 136 ~dg~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~ykvSGGlhGvG~svvNalS~~~~V~v~--r~gk~ 213 (718)
++|+|+|+||||||||++|+++|+|+||+|||+||||||||++ +|++||||||||+|||||||++|+|+|+ ++|+.
T Consensus 109 ~~gsIsV~DnGRGIPV~iH~~eg~~~pElIft~LhAGgkFdd~--~yKvSGGlhGVGasvvNaLS~~f~Vev~Dg~~gk~ 186 (1465)
T PLN03237 109 EQNLISVYNNGDGVPVEIHQEEGVYVPEMIFGHLLTSSNYDDN--EKKTTGGRNGYGAKLTNIFSTEFVIETADGKRQKK 186 (1465)
T ss_pred CCCEEEEEecCccccCCCCCCCCCccceEEEEeeeccccCCCC--cceeeccccccCccccccccCeeEEEEEECCCCeE
Confidence 6799999999999999999999999999999999999999987 9999999999999999999999999999 56899
Q ss_pred EEEEEec--CcccccceeeccCCCCCCCCceEEEEEeCccccccccccCHHHH---HHHHHHHh-hcCCCcEEEEeecCC
Q 005028 214 YHQKYSR--GKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTI---AGRIRELA-FLNPKLTIALRKEDS 287 (718)
Q Consensus 214 y~q~f~~--G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~~~~~d~~~i---~~Rl~elA-~LnpglkI~l~der~ 287 (718)
|+|+|++ |.+..++.. ....+++||+|+|+||+++|++ ..||+++| .+|++++| ||||||+|+|+|+|.
T Consensus 187 y~Q~f~~nmG~~~~p~i~----~~~~~~~GT~VtF~PD~eiF~~-~~fd~D~l~~~~rRlrdLAa~LnkGlkI~LndeR~ 261 (1465)
T PLN03237 187 YKQVFSNNMGKKSEPVIT----KCKKSENWTKVTFKPDLAKFNM-THLEDDVVALMKKRVVDIAGCLGKTVKVELNGKRI 261 (1465)
T ss_pred EEEEEeCCCCccCCceec----cCCCCCCceEEEEEECHHHhCC-ceEcHHHHHHHHHHHHHHHhccCCCcEEEEEecCC
Confidence 9999998 555554311 1223479999999999999975 46999887 58999999 999999999999985
Q ss_pred CCCCCcceeEEecccHHHHHHHHhcCC----CCCCCeeEEEeccCceEEEEEEEecCCCCCceeeeeccceecCCCcchH
Q 005028 288 DPEKNQYNEYFFAGGLEEYVQWLNTDK----KPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHI 363 (718)
Q Consensus 288 ~~~~~~~e~f~~~~Gl~dyv~~l~~~~----~~l~~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv 363 (718)
+ .+||++||+++.... .+.++++ +.. .+..|||||||++ + .++++||||||+|++|||||
T Consensus 262 ~-----------~~G~kdYV~~yl~~~~k~k~~~~~~i-~e~--~~~~~EVAl~~sd-~-~~~~~SFVNnI~T~~GGTHv 325 (1465)
T PLN03237 262 P-----------VKSFSDYVDLYLESANKSRPENLPRI-YEK--VNDRWEVCVSLSE-G-QFQQVSFVNSIATIKGGTHV 325 (1465)
T ss_pred C-----------CCCHHHHHHHHhhcccccCCCCCCcc-Eec--CCCeEEEEEEEeC-C-CceEEEEECcccCCCCCcHH
Confidence 3 259999999754321 2223332 333 4678999999994 4 47899999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhccCCCCCCCCCCHHHHhhccEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHH---H
Q 005028 364 EGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLT---E 440 (718)
Q Consensus 364 ~g~~~alt~~in~~~kk~~~~k~k~~~l~~~dIregL~~vVsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~---~ 440 (718)
+||+++|++.|+++++++ +++.+++++|||+||++||||+|+||+|+||||++|+|+++. +.+++. .
T Consensus 326 ~g~~~aIt~~l~~~~~kK----~k~~~l~~~DIregL~a~IsvkI~nP~FesQTKekLtn~~~~------f~s~l~l~~~ 395 (1465)
T PLN03237 326 DYVTNQIANHVMEAVNKK----NKNANIKAHNVKNHLWVFVNALIDNPAFDSQTKETLTLRQSS------FGSKCELSED 395 (1465)
T ss_pred HHHHHHHHHHHHHHHHhc----cCCCCCCHHHHHhCcEEEEEEeCCCCccCCcccCcccChHHH------HHHHhccCHH
Confidence 999999999999998752 234589999999999999999999999999999999998854 455555 6
Q ss_pred HHhhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc--ccCCCCCCCCCCC---CCCCCCceEEEeeccCCCccccc
Q 005028 441 YLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVL--RSSSLPGKLADCS---STTPEESEIFIVEGDSAGGSAKQ 515 (718)
Q Consensus 441 ~l~~np~~~~~I~~k~~~~~kar~aakkar~~~r~k~~~--~~~~lpgKL~Dc~---~~~~~~~eL~lvEGDSA~Gsak~ 515 (718)
|++ +..++.|+++++.++++ +++|++.|+|... +...+| ||+||+ ++++++|||||||||||||||+|
T Consensus 396 flk--~~~~~~Ivekil~~A~a----k~arel~k~k~~k~~~~~~ip-KL~Dc~~aG~kd~~~ceLfLvEGDSAgGsAk~ 468 (1465)
T PLN03237 396 FLK--KVMKSGIVENLLSWADF----KQSKELKKTDGAKTTRVTGIP-KLEDANEAGGKNSEKCTLILTEGDSAKALAVA 468 (1465)
T ss_pred HHh--HHHHHHHHHHHHHHHHH----HHHHHHHhhhcccccccCCCc-ccccccccccCCccccEEEEEecCcCCchhhh
Confidence 665 44667799999887765 5667777766442 333445 999998 69999999999999999999999
Q ss_pred cC---CCCceEecccCcccccccccCHHHHhhChhHHHHHHHhcCCccCCcCcccccceeeEEEeecCCCCCchhhhhHH
Q 005028 516 GR---DRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLL 592 (718)
Q Consensus 516 gR---dr~~qailPLrGKiLNv~ka~~~ki~~N~Ei~~li~~lG~~~~~~~~~~~~LRYgkIiImTDaDvDG~HI~~Lll 592 (718)
|| ||+||||||||||||||++++.+||++|+||++||+|||||++.++||+++|||||||||||||+||+|||||||
T Consensus 469 GR~vvdR~~qaIlPLRGKILNV~kAs~~kil~N~EI~~ii~aLGlgig~~y~d~~~LRYgkIiIMTDADvDGsHIrgLLL 548 (1465)
T PLN03237 469 GLSVVGRNYYGVFPLRGKLLNVREASHKQIMNNAEIENIKQILGLQHGKQYESVKSLRYGHLMIMTDQDHDGSHIKGLLI 548 (1465)
T ss_pred hhcccCccceeeeccCCceehhccCcHHhhhcchHHHHHHHHhCCCcCcccCcccccccCcEEEEeCCCCCccHHHHHHH
Confidence 99 899999999999999999999999999999999999999999655579999999999999999999999999999
Q ss_pred HHHHHHHHHhhh-cCcEEEecCCeEEEEe-CCeEEEeeCHHHHHHHHHhCCC-CCcccceEeeccCCCChhhHHhhhcCc
Q 005028 593 TFFYRYQKTLFD-EGCIYVGVPPLYKVER-GKQVQYCYDDAELKKVKSSFPS-NALYSIQRFKGLGEMMPVQLWETTLNP 669 (718)
Q Consensus 593 tff~~~~p~Li~-~G~v~~~~tPL~kv~~-gk~~~y~ys~~E~~~~~~~~~~-~~~~~ikryKGLGem~~~ql~ett~dp 669 (718)
||||||||+||+ .||||+|+||||||++ ||+++||||++||++|++++++ .++|+||||||||||+|+|+||||.|.
T Consensus 549 tFF~r~~P~Li~~~Gfl~~~~tPL~Kv~~~gk~~~~fys~~E~e~w~~~~~~~~~~~~IkyYKGLGe~~~~e~keyf~~~ 628 (1465)
T PLN03237 549 NFIHSFWPSLLKVPSFLVEFITPIVKATRRGKKVLSFYSMPEYEEWKESLGGNATGWSIKYYKGLGTSTAKEGKEYFKNL 628 (1465)
T ss_pred HHHHHhhHHhcccCCEEEEecCCeEEEEECCCeeEeecCHHHHHHHHHHhcccCCceeeEeeccCCCCCHHHHHHHHHhH
Confidence 999999999999 8999999999999999 9999999999999999998653 357999999999999999999999999
Q ss_pred cceeeeeeccccHHHHHHHHHHhcCC-CchHHHHHHHhccccCCcc
Q 005028 670 EQRMLKQLVIEDAAEANVVFSSLMGA-RVDTRKELIQNAANLVNLD 714 (718)
Q Consensus 670 ~~r~l~~v~~~d~~~~~~~f~~lmg~-~~~~RK~~i~~~~~~~~~~ 714 (718)
++|.+.....+|. .+.+|++.|++ ++++||+||.++.+..++|
T Consensus 629 ~~h~~~f~~~~~~--~~~~i~laF~k~~~d~RK~Wl~~~~~~~~ld 672 (1465)
T PLN03237 629 GKHKKDFVWEDEQ--DGDAIELAFSKKKIEARKNWLRQYEPGTHLD 672 (1465)
T ss_pred HhceEEEEECCCC--cHHHHHHHhCCccHHHHHHHHHhCCCCcccc
Confidence 9886543323321 23456666655 5999999999998876653
No 14
>KOG0355 consensus DNA topoisomerase type II [Chromatin structure and dynamics]
Probab=100.00 E-value=4.9e-121 Score=1029.64 Aligned_cols=597 Identities=31% Similarity=0.422 Sum_probs=524.0
Q ss_pred cccceeccchhhHhhCCCeeeccCCC---------------------CchhHHHHHHHHhhHHHHhcC-CCCeEEEEEe-
Q 005028 79 SEQIQVLEGLEAVRKRPAMYIGSTGP---------------------RGLHHLVYEILDNAVDEAQAG-YASNIEVALL- 135 (718)
Q Consensus 79 ~~~i~~L~~lE~VrkRPgMYIGs~~~---------------------~gL~~lv~EIldNAvDe~~ag-~~~~I~V~l~- 135 (718)
++.||+.+++|||++||+.||||+++ |||+||++||++||+| .+++ .++.|.|+||
T Consensus 5 ~~~yqkks~~ehiL~rPdtyig~ve~~~~~~wv~~~e~~k~~~~t~~pGl~ki~dEilvNaad-k~rd~~m~~i~v~i~~ 83 (842)
T KOG0355|consen 5 EDIYQKKSQLEHILLRPDTYIGSVEPTEQLMWVYDMEKRKMVQRTYVPGLYKIFDEILVNAAD-KQRDPKMNTIKVTIDK 83 (842)
T ss_pred HHHHhhhhhhhhhhcCCcccccccccceeEEeeeccccCceeEeecCCcHHHHHHHHhhcccc-cccCCCcceeEEEEcc
Confidence 45789999999999999999999974 7999999999999999 8876 5899999999
Q ss_pred CCCcEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCceeeccCccCCchhHHhhcccceEEEEE--eCCEE
Q 005028 136 ADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVW--RDGME 213 (718)
Q Consensus 136 ~dg~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~ykvSGGlhGvG~svvNalS~~~~V~v~--r~gk~ 213 (718)
+++.|+|+|||+|||++.||.+++|+||+|||+|||++||+++ +-+++||+||+|++++|+||..|+++|. +.++.
T Consensus 84 e~~~isv~nnGkGIPv~~H~~ek~yvpelifg~Lltssny~d~--ekK~tggrngygakLcniFs~~f~~Et~d~~~~~~ 161 (842)
T KOG0355|consen 84 EKNEISVYNNGKGIPVTIHKVEKVYVPELIFGNLLTSSNYDDD--EKKVTGGRNGYGAKLCNIFSTEFTVETADREYKMA 161 (842)
T ss_pred CCCEEEEEeCCCcceeeecccccccchHHHHhhhhhccccCCC--ccccccCCCccceeeeeeccccceeeeeehHhHHH
Confidence 5899999999999999999999999999999999999999998 7799999999999999999999999985 57889
Q ss_pred EEEEEecCcccccceeeccCCCCCCCCceEEEEEeCccccccccccCHHH---HHHHHHHHhhcCCCcEEEEeecCCCCC
Q 005028 214 YHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNT---IAGRIRELAFLNPKLTIALRKEDSDPE 290 (718)
Q Consensus 214 y~q~f~~G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~~~~~d~~~---i~~Rl~elA~LnpglkI~l~der~~~~ 290 (718)
|.|+|.+||+....+.+.. ..++.||+|||+||.+.|.+. ++|.|+ +.+|+.++|....++++.+|+++.+.
T Consensus 162 ~kQ~w~~nm~~~~~~~i~~---~~~~~yTkitF~PDl~~F~m~-eLD~Div~l~~rr~~d~a~~~~~vkv~ln~~~~~~- 236 (842)
T KOG0355|consen 162 FKQTWINNMTRDEEPKIVP---STDEDYTKITFSPDLEKFKMK-ELDDDIVALMARRAYDLAGSVKSVKVELNGKNIPV- 236 (842)
T ss_pred HHHhhhcCCcccCCceeec---CCCCCcceEEeCcChHhcCch-hhcchHHHhHHhhhhhhcccccceeeeecCCCCcc-
Confidence 9999999999987766533 334459999999999999975 688765 57999999987799999999998752
Q ss_pred CCcceeEEecccHHHHHHHHhcCCCCCCCeeEEEeccCceEEEEEEEecCCCCCceeeeeccceecCCCcchHHHHHHHH
Q 005028 291 KNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASL 370 (718)
Q Consensus 291 ~~~~e~f~~~~Gl~dyv~~l~~~~~~l~~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al 370 (718)
+|+.+||..+.. .....++.....+..+-+||||++-+..+|+ ++||||+|+|.+|||||+++++++
T Consensus 237 ----------~~f~~yv~~~~~-~~~~~~~~~~ihe~~~~RwEv~~a~s~~~fq--qisfvNsI~T~kGGThVd~V~D~i 303 (842)
T KOG0355|consen 237 ----------KGFYDYVKMYLE-VLWLNDDLKPLHEVLNFRWEVALALSDVGFQ--QVSFVNSIATTKGGTHVDYVVDQI 303 (842)
T ss_pred ----------chHHHHHhhccc-cccccCcchhhhcccchHHHHhhhccccccc--eeeeecceeecCCCcccchhhhhH
Confidence 699999999886 3222222222234456678999988865665 599999999999999999999999
Q ss_pred HHHHHHHHhhccCCCCCCCCCCHHHHhhccEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhCHHHHH
Q 005028 371 TRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLD 450 (718)
Q Consensus 371 t~~in~~~kk~~~~k~k~~~l~~~dIregL~~vVsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~np~~~~ 450 (718)
++.++..+++.+.. ++.++++.+|+++|+++|+|.|+||.|+||||++|+++..+..+.+.+++.+.+.+.+++ +++
T Consensus 304 v~~l~~vvkKk~~~--~~~svk~f~vkn~L~vfVN~lIENPtFesQTke~lt~~~~~fgs~~elsek~~k~~~~~~-i~e 380 (842)
T KOG0355|consen 304 VAKLIDVVKKKKVK--KDISVKPFQVKNHLWVFVNCLIENPTFESQTKERLTLRPKRFGSDCELSEKFTKAIELKG-VVE 380 (842)
T ss_pred HHHHHHHhcccccc--cccccchhhhhcceEEEEEEEecCccccccchhhcccccccccceEeehhHHHHHHHhCc-hHH
Confidence 99999999876543 457899999999999999999999999999999999999999999999999999999999 999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCC---CCCCCCceEEEeeccCCCccc---cccCCCCceEe
Q 005028 451 SILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCS---STTPEESEIFIVEGDSAGGSA---KQGRDRRFQAI 524 (718)
Q Consensus 451 ~I~~k~~~~~kar~aakkar~~~r~k~~~~~~~lpgKL~Dc~---~~~~~~~eL~lvEGDSA~Gsa---k~gRdr~~qai 524 (718)
.|++++..+.+...+.+++++..+.+. + .||.|++ .+.+..|+|+++|||||...| ++..+|++++|
T Consensus 381 sils~s~~~~~~dL~kk~~~~~s~~e~------I-~KleDa~~ag~k~s~kctlIltEgdsaksLavsGl~vvgRd~~gV 453 (842)
T KOG0355|consen 381 SILSKSLNKYKDDLAKKRGKLTSRSKG------I-PKLEDANDAGTKTSEKCTLILTEGDSAKSLAVSGLSVVGRDYYGV 453 (842)
T ss_pred HHHHHHHHHHHHhhhhhhhhhhccccc------h-hHhhhcccccccccccceeEEeccccchhheecccccccceeEee
Confidence 999999988877766666664433332 3 3888876 468899999999999997544 44567889999
Q ss_pred cccCcccccccccCHHHHhhChhHHHHHHHhcCCccCCcCcccccceeeEEEeecCCCCCchhhhhHHHHHHHHHHHhhh
Q 005028 525 LPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFD 604 (718)
Q Consensus 525 lPLrGKiLNv~ka~~~ki~~N~Ei~~li~~lG~~~~~~~~~~~~LRYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~ 604 (718)
||||||+|||++++.+++++|+||++|+.+||++....+|+.++|||||+|||||||+||+||+||||||||+|||+|++
T Consensus 454 fplrgklLNv~e~s~kqilkn~EI~aIikIlgl~~~~~y~~~eslryg~~mimtDQd~dgshikgllInf~~~~~psl~~ 533 (842)
T KOG0355|consen 454 FPLRGKLLNVREASHKQILKNAEINAIIKILGLQYKKKYFDVESLRYGKLMIMTDQDHDGSHIKGLLINFIHHFWPSLLQ 533 (842)
T ss_pred cccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccccchhheEeeeccccccchHHHHHHHHHHHhhHHhhc
Confidence 99999999999999999999999999999999999889999999999999999999999999999999999999999999
Q ss_pred cCcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHHhCCCCCcccceEeeccCCCChhhHHhhhcCccceeeeeeccc--cH
Q 005028 605 EGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIE--DA 682 (718)
Q Consensus 605 ~G~v~~~~tPL~kv~~gk~~~y~ys~~E~~~~~~~~~~~~~~~ikryKGLGem~~~ql~ett~dp~~r~l~~v~~~--d~ 682 (718)
.+||+.|.|||+|+++|++..+|||++||++|++..+++++|+||||||||||+++|+||||+|+++|++.+.... |.
T Consensus 534 ~~fleefitpi~k~~~~~~~~~fys~pey~kw~~~~~~~~~~~ikyykglgts~~~e~keyf~~~~~h~~~F~~~~~~d~ 613 (842)
T KOG0355|consen 534 IPFLEEFITPIVKATKGKQEVSFYSLPEYEKWKKNTDNWKSWKIKYYKGLGTSTSKEAKEYFSDLDRHRILFKYDGGIDD 613 (842)
T ss_pred CCcceecCCcceEeccCCcceeeeccHHHHHHHhcCccccccceEEeecCCcccHHHHHHHhcCcchheEEEeccCcchH
Confidence 9999999999999999999999999999999999988778999999999999999999999999999987654322 22
Q ss_pred HHHHHHHHHhcCCCchHHHHHHHhccc
Q 005028 683 AEANVVFSSLMGARVDTRKELIQNAAN 709 (718)
Q Consensus 683 ~~~~~~f~~lmg~~~~~RK~~i~~~~~ 709 (718)
+.++..|+ .++.++||+||.++.+
T Consensus 614 ~~i~~af~---k~k~~~rk~wL~~~~~ 637 (842)
T KOG0355|consen 614 EAIDMAFS---KKKIDARKEWLRKYMP 637 (842)
T ss_pred HHHhhhcc---cccHHHHHHHHHHHhH
Confidence 23344444 5679999999999876
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=4.5e-57 Score=407.41 Aligned_cols=114 Identities=73% Similarity=1.166 Sum_probs=112.1
Q ss_pred ceEEEeeccCCCccccccCCCCceEecccCcccccccccCHHHHhhChhHHHHHHHhcCCccCCcCcccccceeeEEEee
Q 005028 499 SEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILT 578 (718)
Q Consensus 499 ~eL~lvEGDSA~Gsak~gRdr~~qailPLrGKiLNv~ka~~~ki~~N~Ei~~li~~lG~~~~~~~~~~~~LRYgkIiImT 578 (718)
|||||||||||||||||||||+||||||||||||||||++.+|+++|+||++|++|||||+ +++||+++||||||||||
T Consensus 1 ~eL~lvEGDSAggsak~gRdr~~qailPLrGKiLNv~ka~~~ki~~n~Ei~~li~alG~g~-~~~~~~~~lrY~kiiimt 79 (114)
T cd03366 1 SELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALGTGI-GEDFDLEKLRYHKIIIMT 79 (114)
T ss_pred CEEEEEeCCCCccccccccCcCceEEeccCCccchHhhccHHHHhcChHHHHHHHHhCCCC-CCCCChhhCCcCeEEEEe
Confidence 8999999999999999999999999999999999999999999999999999999999999 478999999999999999
Q ss_pred cCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecC
Q 005028 579 DADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVP 613 (718)
Q Consensus 579 DaDvDG~HI~~Llltff~~~~p~Li~~G~v~~~~t 613 (718)
|||+||+||++|||||||||||+|+++||||+++|
T Consensus 80 DaD~DG~hI~~Llltff~~~~p~Li~~G~vyia~p 114 (114)
T cd03366 80 DADVDGAHIRTLLLTFFFRYMRPLIENGHVYIAQP 114 (114)
T ss_pred CCCCCchHHHHHHHHHHHHHhHHHHhCCeEEEecC
Confidence 99999999999999999999999999999999987
No 16
>cd01030 TOPRIM_TopoIIA_like TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=100.00 E-value=6.1e-56 Score=402.31 Aligned_cols=115 Identities=64% Similarity=1.060 Sum_probs=113.1
Q ss_pred ceEEEeeccCCCccccccCCCCceEecccCcccccccccCHHHHhhChhHHHHHHHhcCCccCCcCcccccceeeEEEee
Q 005028 499 SEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILT 578 (718)
Q Consensus 499 ~eL~lvEGDSA~Gsak~gRdr~~qailPLrGKiLNv~ka~~~ki~~N~Ei~~li~~lG~~~~~~~~~~~~LRYgkIiImT 578 (718)
|||||||||||||||||||||+||||||||||||||||++.+|+++|+||++|++||||+++.+++++++||||||||||
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 89999999999999999999999999999999999999999999999999999999999997688999999999999999
Q ss_pred cCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecC
Q 005028 579 DADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVP 613 (718)
Q Consensus 579 DaDvDG~HI~~Llltff~~~~p~Li~~G~v~~~~t 613 (718)
|||+||+||++|||||||||||+|+++||||+|+|
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=7e-53 Score=384.55 Aligned_cols=115 Identities=35% Similarity=0.597 Sum_probs=110.5
Q ss_pred ceEEEeeccCCCccccccC---CCCceEecccCcccccccccCHHHHhhChhHHHHHHHhcCCccC-CcCcccccceeeE
Q 005028 499 SEIFIVEGDSAGGSAKQGR---DRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKG-EDFKKEALRYHKI 574 (718)
Q Consensus 499 ~eL~lvEGDSA~Gsak~gR---dr~~qailPLrGKiLNv~ka~~~ki~~N~Ei~~li~~lG~~~~~-~~~~~~~LRYgkI 574 (718)
||||||||||||||||||| ||+||||||||||||||+|++.+|+++|+||++|++|||||++. +++|+++|||+||
T Consensus 1 ~eLflvEGDSA~gsak~gr~~~dr~~qailPLrGKiLNv~ka~~~ki~~n~Ei~~li~alG~g~~~~~~~~~~~lrY~ki 80 (120)
T cd03365 1 CTLILTEGDSAKALAVAGLSVVGRDYYGVFPLRGKLLNVREASHKQIMENAEIQNIKKILGLQHGKSDYESTKSLRYGRL 80 (120)
T ss_pred CEEEEEeCCCchhhHHhhhccCCCceEEEeccCCccchhhcCCHHHHhcCHHHHHHHHHhCCCCCcccccccccCCcCeE
Confidence 8999999999999999999 89999999999999999999999999999999999999999964 3489999999999
Q ss_pred EEeecCCCCCchhhhhHHHHHHHHHHHhhhc-CcEEEecC
Q 005028 575 IILTDADVDGAHIRTLLLTFFYRYQKTLFDE-GCIYVGVP 613 (718)
Q Consensus 575 iImTDaDvDG~HI~~Llltff~~~~p~Li~~-G~v~~~~t 613 (718)
|||||||+||+||++|||||||||||+||++ |||+.+.|
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=7.3e-41 Score=329.88 Aligned_cols=171 Identities=49% Similarity=0.854 Sum_probs=162.5
Q ss_pred ccHHHHHHHHhcCCCCCC-CeeEEEeccCceEEEEEEEecCCCCCceeeeeccceecCCCcchHHHHHHHHHHHHHHHHh
Q 005028 301 GGLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGK 379 (718)
Q Consensus 301 ~Gl~dyv~~l~~~~~~l~-~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~alt~~in~~~k 379 (718)
+||.+||++++.+++++| +++++.++.+++.|||||+|+ ++|+++++||||+|+|++||||++||+++|+++|+.|++
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 599999999999998996 788888877789999999999 678899999999999999999999999999999999999
Q ss_pred hccCCCCCCCCCCHHHHhhccEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhCHHHHHHHHHHHHHH
Q 005028 380 KSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSA 459 (718)
Q Consensus 380 k~~~~k~k~~~l~~~dIregL~~vVsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~ 459 (718)
+.+++|+++.+++++||+++|+++|+|+++||+|+||||++|+|++++.+|++++.+.|..||++||+.++.|+++++.+
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 99888776679999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHH
Q 005028 460 LKAALAAKRARDL 472 (718)
Q Consensus 460 ~kar~aakkar~~ 472 (718)
+++|+++++||++
T Consensus 160 ~~aR~aa~~ar~~ 172 (172)
T cd00822 160 AKAREAARKAREL 172 (172)
T ss_pred HHHHHHHHHhhcC
Confidence 9999999999863
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=9.7e-40 Score=322.57 Aligned_cols=169 Identities=43% Similarity=0.810 Sum_probs=153.1
Q ss_pred cHHHHHHHHhcCCCCCC-CeeEEEecc--Cc-eEEEEEEEecCCCCCceeeeeccceecCCCcchHHHHHHHHHHHHHHH
Q 005028 302 GLEEYVQWLNTDKKPLH-DVVGFRKDV--DG-ITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSL 377 (718)
Q Consensus 302 Gl~dyv~~l~~~~~~l~-~~i~~~~~~--~~-~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~alt~~in~~ 377 (718)
||.||+++++.++++++ +++++..+. ++ +.||||++|+ +++.+.++||||+|+|++||||++||+++|+++|++|
T Consensus 1 G~~dyv~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~va~~~~-~~~~~~~~SfvN~i~T~~GGtHv~g~~~~i~~~i~~~ 79 (173)
T PF00204_consen 1 GFKDYVKLLNKDKEPLHPEPIYFEGEDKENDRWEVEVAFQWT-SGYDEKIVSFVNNIPTPEGGTHVDGFKDAITKAINDY 79 (173)
T ss_dssp SHHHHHHHHCTTS-BSSSSEEEEEEEEE-TTTEEEEEEEEEB-SSSSCEEEEEETTEE-TTEBHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHhcCCCcCCCCCeEEEEEeccCCcEEEEEEEEec-CCCceeeeeeeccccccccccHHHHHHHHHHHHHHHh
Confidence 89999999999988888 578888765 54 9999999999 6677799999999999999999999999999999999
Q ss_pred HhhccCCCCCCCCCCHHHHhhccEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhCHHHHHHHHHHHH
Q 005028 378 GKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSL 457 (718)
Q Consensus 378 ~kk~~~~k~k~~~l~~~dIregL~~vVsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~ 457 (718)
+++.+++|++. +++++||++||++||+|+++||+|+||||++|+|++++..|++++.+.|..||++||++++.|+++++
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 HHHHHHHHHHHHHHH
Q 005028 458 SALKAALAAKRARDL 472 (718)
Q Consensus 458 ~~~kar~aakkar~~ 472 (718)
.++++|+++|+|||+
T Consensus 159 ~~~~~r~~ak~are~ 173 (173)
T PF00204_consen 159 QAAKAREAAKKARET 173 (173)
T ss_dssp HHHHHHHHHHHHHCT
T ss_pred HHHHHHHHHHHhcCC
Confidence 999999999999873
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=3.3e-30 Score=248.69 Aligned_cols=146 Identities=22% Similarity=0.276 Sum_probs=117.2
Q ss_pred cHHHHHHHHhcCCCCC---CCeeEEEeccCceEEEEEEEecCCCCCceeeeeccceecCCCcchHHHHHHHHHHHHHHHH
Q 005028 302 GLEEYVQWLNTDKKPL---HDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLG 378 (718)
Q Consensus 302 Gl~dyv~~l~~~~~~l---~~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~alt~~in~~~ 378 (718)
+|++|++++..+..+. ++++.+ +.-+-+||||++|++ + +++++||||+|+|++||||++||+++|+++|++|+
T Consensus 2 ~f~~Y~~ly~~~~~~~~~~~~~~~~--~~~~~~veva~~~s~-~-~~~~~SFvN~I~T~~GGTHv~g~~~~lt~~i~~~~ 77 (153)
T cd03481 2 SFKDYVKLYLKDANKEDGPPPPVVY--EPVNDRWEVAVALSD-G-QFQQVSFVNSIATTKGGTHVDYVADQIVKKLDEVV 77 (153)
T ss_pred CHHHHHHHHhcccccccCCCCCeEe--ccCCCcEEEEEEEcC-C-CcEEEEEECCcCCCCCCchHHHHHHHHHHHHHHHH
Confidence 6899999986542110 123322 232346999999994 4 68899999999999999999999999999999999
Q ss_pred hhccCCCCCCCCCCHHHHhhccEEEEEEeecCCCCCCccccccCCchhhhhhhhhHHHHHHHHHhhCHHHHHHHHHHHHH
Q 005028 379 KKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLS 458 (718)
Q Consensus 379 kk~~~~k~k~~~l~~~dIregL~~vVsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~ 458 (718)
++++ | ++.+++++|||+||++||+|+++||+|+||||++|+|++-.......+.+.|.+|+.++ .|+++++.
T Consensus 78 ~kk~--k-~~~~i~~~dire~l~~vvs~~i~~P~FegQTK~kL~s~~~~~~~~~~~~~~~~~~~~k~-----~ii~~i~~ 149 (153)
T cd03481 78 KKKN--K-GGINVKPFQVKNHLWIFVNCLIENPSFDSQTKETLTTKPKSFGSKCELSEKFLKKAVKS-----GIVESVLS 149 (153)
T ss_pred HHcC--C-CCCCcCHHHHhcCeEEEEEEecCCCccCCcccccccCcccccccccccCHHHHHHHHHc-----hHHHHHHH
Confidence 8765 2 24689999999999999999999999999999999999855555558899999999876 55555554
Q ss_pred H
Q 005028 459 A 459 (718)
Q Consensus 459 ~ 459 (718)
+
T Consensus 150 ~ 150 (153)
T cd03481 150 W 150 (153)
T ss_pred H
Confidence 3
No 21
>PF00986 DNA_gyraseB_C: DNA gyrase B subunit, carboxyl terminus The Prosite motif does not match this Pfam entry.; InterPro: IPR002288 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. Type IIA topoisomerases together manage chromosome integrity and topology in cells. Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively; this topoisomerase II forms a homodimer that is equivalent to the bacterial heterotetramer. There are four functional domains in topoisomerase II: domain 1 (N-terminal of gyrB) is an ATPase, domain 2 (C-terminal of gyrB) is responsible for subunit interactions, domain 3 (N-terminal of gyrA) is responsible for the breaking-rejoining function through its capacity to form protein-DNA bridges, and domain 4 (C-terminal of gyrA) is able to non-specifically bind DNA []. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication []. Topoisomerase IV consists of two polypeptide subunits, parE and parC, where parC is homologous to gyrA and parE is homologous to gyrB. This entry represents the C-terminal region (C-terminal part of domain 2) of subunit B found in topoisomerase II (gyrB) and topoisomerase IV (parE), which are primarily of bacterial origin. It does not include the topoisomerase II enzymes composed of a single polypeptide, as are found in most eukaryotes. This region is involved in subunit interaction, which accounts for the difference between subunit B and single polypeptide topoisomerase II. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 3LTN_D 3RAF_C 3FOF_C 3RAE_C 3KSA_D 3RAD_C 3FOE_D 3KSB_D 3K9F_D 2XCT_D ....
Probab=99.92 E-value=1.2e-25 Score=183.89 Aligned_cols=63 Identities=56% Similarity=0.893 Sum_probs=60.0
Q ss_pred CCcccceEeeccCCCChhhHHhhhcCccceeeeeeccccHHHHHHHHHHhcCCCchHHHHHHH
Q 005028 643 NALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQ 705 (718)
Q Consensus 643 ~~~~~ikryKGLGem~~~ql~ett~dp~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~RK~~i~ 705 (718)
.++++||||||||||+|+|||||||||++|+|.||+++|+.+++++|+.|||++|++||+||+
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=99.88 E-value=1.6e-21 Score=227.05 Aligned_cols=259 Identities=18% Similarity=0.232 Sum_probs=187.8
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCC--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCce
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 182 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~y 182 (718)
..+..+|+|+|+||+| || |+.|.|.++.+| +|+|.|||+|||.+..+ .+++ .|+++|+..-+.-|
T Consensus 21 ~~~~svvkElveNsiD---Ag-at~I~v~i~~~g~~~i~V~DnG~Gi~~~~~~--------~~~~-~~~tsKi~~~~dl~ 87 (617)
T PRK00095 21 ERPASVVKELVENALD---AG-ATRIDIEIEEGGLKLIRVRDNGCGISKEDLA--------LALA-RHATSKIASLDDLE 87 (617)
T ss_pred cCHHHHHHHHHHHHHh---CC-CCEEEEEEEeCCeEEEEEEEcCCCCCHHHHH--------HHhh-ccCCCCCCChhHhh
Confidence 6788999999999999 45 899999998788 79999999999998644 2444 79999987532244
Q ss_pred e-eccCccCCchhHHhhcccceEEEEEeC--CEEEEEEEecCcccccceeeccCCCCCCCCceEEEEE------eCcccc
Q 005028 183 S-VSGGLHGVGLSVVNALSESLEVTVWRD--GMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFW------PDKQVF 253 (718)
Q Consensus 183 k-vSGGlhGvG~svvNalS~~~~V~v~r~--gk~y~q~f~~G~~~~~l~~~~~~~~~~~~~GT~V~F~------PD~~iF 253 (718)
. .|.|++|.|++.++++| +++|+++++ +..|.+.|++|...... .....+||+|+++ |+...|
T Consensus 88 ~~~t~GfrGeAL~sI~~vs-~l~i~s~~~~~~~~~~~~~~~G~~~~~~-------~~~~~~GT~V~v~~LF~n~P~Rrkf 159 (617)
T PRK00095 88 AIRTLGFRGEALPSIASVS-RLTLTSRTADAAEGWQIVYEGGEIVEVK-------PAAHPVGTTIEVRDLFFNTPARRKF 159 (617)
T ss_pred ccccCCcchhHHHhhhhce-EEEEEEecCCCCceEEEEecCCcCccee-------cccCCCCCEEEechhhccCcHHHHh
Confidence 4 68899999999999999 699999986 57899999999764311 1234699999997 999888
Q ss_pred ccccccCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEEec--ccHHHHHHHHhcCCCCCCCeeEEEeccCceE
Q 005028 254 TTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFA--GGLEEYVQWLNTDKKPLHDVVGFRKDVDGIT 331 (718)
Q Consensus 254 ~~~~~~d~~~i~~Rl~elA~LnpglkI~l~der~~~~~~~~e~f~~~--~Gl~dyv~~l~~~~~~l~~~i~~~~~~~~~~ 331 (718)
-.....+++.|.++++.+|++||++++.|.+.. ...|++. +++.+++..+.+.. .....+.+..+.+++.
T Consensus 160 lk~~~~e~~~i~~~v~~~Al~~p~i~f~l~~~~-------~~~~~~~~~~~~~~~i~~i~g~~-~~~~l~~~~~~~~~~~ 231 (617)
T PRK00095 160 LKSEKTELGHIDDVVNRLALAHPDVAFTLTHNG-------KLVLQTRGAGQLLQRLAAILGRE-FAENALPIDAEHGDLR 231 (617)
T ss_pred ccCcHHHHHHHHHHHHHHhhcCCCcEEEEEECC-------EEEEEeCCCCCHHHHHHHHhCHH-hHhheEEEeccCCCEE
Confidence 433346678899999999999999999999863 2467776 56888888766432 1223445555556677
Q ss_pred EE--EEE-EecCCCCCceeeeeccceecCCCcchHHHHHHHHHHHHHHHHhhccCCCCCCCCCCHHHHhhccEEEEEEee
Q 005028 332 ID--LAL-QWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRV 408 (718)
Q Consensus 332 ve--val-~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~alt~~in~~~kk~~~~k~k~~~l~~~dIregL~~vVsvki 408 (718)
++ ++. .|+ ......++.|||+.++.. ..|.++|++..+... .+ ...=.+++++.+
T Consensus 232 i~g~is~p~~~-~~~~~~~~~fvN~R~v~~---------~~l~~ai~~~y~~~~-~~-----------~~~P~~~l~i~~ 289 (617)
T PRK00095 232 LSGYVGLPTLS-RANRDYQYLFVNGRYVRD---------KLLNHAIRQAYHDLL-PR-----------GRYPAFVLFLEL 289 (617)
T ss_pred EEEEEeCcccc-cCCCcceEEEECCcEecC---------HHHHHHHHHHHHHhc-cC-----------CCCcEEEEEEEe
Confidence 77 444 343 344567899999999863 344555544333211 01 112277888888
Q ss_pred cCCCCC
Q 005028 409 PNPEFE 414 (718)
Q Consensus 409 ~nP~Fe 414 (718)
+.-.+|
T Consensus 290 ~~~~~D 295 (617)
T PRK00095 290 DPHQVD 295 (617)
T ss_pred ChHhcc
Confidence 755554
No 23
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=99.87 E-value=2.2e-22 Score=225.16 Aligned_cols=282 Identities=24% Similarity=0.325 Sum_probs=207.0
Q ss_pred ccceeccchhhHhhCCCeeeccCC-CCchhHHHHHHHHhhHHHHh-cCCCCeEEEEEeC-C-C--cEEEEECCCCccccc
Q 005028 80 EQIQVLEGLEAVRKRPAMYIGSTG-PRGLHHLVYEILDNAVDEAQ-AGYASNIEVALLA-D-N--SVSVADNGRGIPIDL 153 (718)
Q Consensus 80 ~~i~~L~~lE~VrkRPgMYIGs~~-~~gL~~lv~EIldNAvDe~~-ag~~~~I~V~l~~-d-g--~isV~DnGrGIPv~~ 153 (718)
++.+.++..|+++|++.|- |..+ .++|.++++|+|+||+|++. .|..+.|.|.+.. + + .|+|.|||.|||.+.
T Consensus 2 ~~~~~~s~aEFF~kN~~~~-Gf~~~~~~L~~VlkELVeNAIDA~~~~g~~p~I~V~i~~~g~~~~~I~V~DNG~GIp~ed 80 (488)
T TIGR01052 2 EKFREMSVAEFFRKNKHML-GYSGKIRSLTTVIHELVTNSLDACEEAGILPDIKVEIEKIGKDHYKVTVEDNGPGIPEEY 80 (488)
T ss_pred CcccccCHHHHHHhCCccc-cccCCHHHHHHHHHHHHHHHHHHhhccCCCceEEEEEEECCCceEEEEEEECCCCCCHHH
Confidence 4568899999999999999 6665 57999999999999999986 4566789998874 2 2 699999999999987
Q ss_pred cCCCCccceeeeeeeeccCCCCCCCCCceeeccCccCCchhHHhhcccc-----eEEEEEeCCEEE--EEEEe------c
Q 005028 154 HPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSES-----LEVTVWRDGMEY--HQKYS------R 220 (718)
Q Consensus 154 ~~~~g~~~~E~v~t~lhag~kF~~~~~~ykvSGGlhGvG~svvNalS~~-----~~V~v~r~gk~y--~q~f~------~ 220 (718)
.+. +|+.+|+|+||... +.+.|.+|+|+++++++|+. ++|+++++|..+ .++|. .
T Consensus 81 l~~--------iF~rf~~tsK~~~~----~~s~G~~GlGLs~~~~isq~~~G~~i~V~S~~~g~~~~~~~~~~id~~~n~ 148 (488)
T TIGR01052 81 IPK--------VFGKMLAGSKFHRI----IQSRGQQGIGISGAVLYSQMTTGKPVKVISSTGGEIYVYKMKLKIDVQKNE 148 (488)
T ss_pred HHh--------hhhhccccCccccc----cccCCCccEehhHHHHHHHHcCCceEEEEEecCCceEEEEEEEEecccccC
Confidence 653 89999999999743 67789999999999999986 889999888654 77774 4
Q ss_pred CcccccceeeccCCCCCCCCceEEEEEeCccccccccccCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEEec
Q 005028 221 GKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFA 300 (718)
Q Consensus 221 G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~~~~~d~~~i~~Rl~elA~LnpglkI~l~der~~~~~~~~e~f~~~ 300 (718)
|....... . ....++||+|+++|+.... .+....+.++|+.+|++||+++|.|.++.. +.+.|+
T Consensus 149 G~i~~~~~-~----~~~~~~GT~V~v~f~~~~~----r~~k~~i~e~l~~~Al~nP~~~i~l~~~~~-------~~~~f~ 212 (488)
T TIGR01052 149 GEIVEKGE-W----NKPGWRGTRIELEFKGVSY----RRSKQGVYEYLRRTAVANPHAKIVLVDPDG-------EIYVFP 212 (488)
T ss_pred Ceecceee-c----CCCCCCceEEEEEECCcee----eccHHHHHHHHHHHHhhCCCeEEEEEeCCC-------CEEEee
Confidence 54443321 1 2233689999999665432 234579999999999999999999998653 346776
Q ss_pred ccHHHHHHHHhcCCCCCC-CeeEEEeccCceEEEEEEEecCCCCCceeeeeccceecCCCcchHHHHHHHHHHHHHHHHh
Q 005028 301 GGLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGK 379 (718)
Q Consensus 301 ~Gl~dyv~~l~~~~~~l~-~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~alt~~in~~~k 379 (718)
+- .+.++ +|..+..++.|++++.-++....+-..++.+|..+-++.-|..+.+ ++++
T Consensus 213 R~-----------~~~~P~~p~e~kpHP~gv~~~~l~~m~~~t~~~~l~~fL~~~f~~v~~~~a~-----------~~~~ 270 (488)
T TIGR01052 213 RS-----------TDEIPKPPKEMKPHPHGVTIDDLKSMARSTRASTLRSFLVSEFSRIGEKKIK-----------ELLE 270 (488)
T ss_pred cc-----------cccCCCCCccCCCCCCccCHHHHHHHHHhcCcccHHHHHHHhhcccCHHHHH-----------HHHH
Confidence 63 22344 4566777888876654333222222346889999888888844433 3444
Q ss_pred hccCC----CCCCCCCCHHHHhhccEEEEEEeecCCC
Q 005028 380 KSKTV----KDKDISLSGEHVREGLTCIISVRVPNPE 412 (718)
Q Consensus 380 k~~~~----k~k~~~l~~~dIregL~~vVsvki~nP~ 412 (718)
..++. .+...+|+.+++..-+-++-..++..|.
T Consensus 271 ~~g~~~~~~~~~~~~l~~~~~~~l~~~~~~~~~~~P~ 307 (488)
T TIGR01052 271 KYGIDVDPLDKKPKELTWDEAEKIVNAFKEMKFMAPP 307 (488)
T ss_pred HhCCCccccCCChhhCCHHHHHHHHHHHHhcCCCCCC
Confidence 44432 2334578888888888877777777665
No 24
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=99.87 E-value=6.5e-23 Score=220.90 Aligned_cols=256 Identities=24% Similarity=0.300 Sum_probs=181.3
Q ss_pred ccceeccchhhHhhCCCeeeccCC-CCchhHHHHHHHHhhHHHHh-cCCCCeEEEEEeCCC----cEEEEECCCCccccc
Q 005028 80 EQIQVLEGLEAVRKRPAMYIGSTG-PRGLHHLVYEILDNAVDEAQ-AGYASNIEVALLADN----SVSVADNGRGIPIDL 153 (718)
Q Consensus 80 ~~i~~L~~lE~VrkRPgMYIGs~~-~~gL~~lv~EIldNAvDe~~-ag~~~~I~V~l~~dg----~isV~DnGrGIPv~~ 153 (718)
+.++.++..|++||++.|- |..+ .++|.+.|.|+|+||+|++. +|..+.|.|+|..-| .|.|+|||+|||.+.
T Consensus 10 e~~re~SvAEFF~kNk~ml-Gf~~p~RsL~~tv~ElV~NSLDA~eeaGILPdI~v~I~~~~~d~y~v~veDNGpGIP~e~ 88 (538)
T COG1389 10 EKFRELSVAEFFRKNKEML-GFDGPIRSLTTTVHELVTNSLDACEEAGILPDIKVEIERIGKDHYKVIVEDNGPGIPEEQ 88 (538)
T ss_pred hhhhhcCHHHHHHhCHHhc-CCCCchhHHHHHHHHHHhcchhhHHhcCCCCceEEEEEecCCceEEEEEecCCCCCChhH
Confidence 4578999999999999999 7766 58999999999999999997 799999999999532 599999999999998
Q ss_pred cCCCCccceeeeeeeeccCCCCCCCCCceeeccCccCCchhHHhhcccceE-----EEEEeC--CEEEEEEEe----cCc
Q 005028 154 HPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLE-----VTVWRD--GMEYHQKYS----RGK 222 (718)
Q Consensus 154 ~~~~g~~~~E~v~t~lhag~kF~~~~~~ykvSGGlhGvG~svvNalS~~~~-----V~v~r~--gk~y~q~f~----~G~ 222 (718)
.|+ |||++++|+||+ ..++|.|+.|+|+|.+-.+|+..+ |.+... +..|..+-. .|.
T Consensus 89 IPk--------vFGk~LygSKfh----~~~QsRGqqGiGis~avLysQmTtGkPv~V~s~T~~s~~~~~~~l~id~~kNE 156 (538)
T COG1389 89 IPK--------VFGKMLYGSKFH----RNIQSRGQQGIGISAAVLYSQMTTGKPVRVISSTGDSGTAYEYELKIDVQKNE 156 (538)
T ss_pred hHH--------HHHHHhccchhh----hhhhccccccccHHHHHHHHHhcCCCceEEEecCCCCcceEEEEEEecCCCCc
Confidence 886 899999999997 348999999999999999999763 655554 455555443 344
Q ss_pred ccccceeeccCCCCCCCCceEEEEEeCccccccccccCHHH-HHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEEecc
Q 005028 223 PVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNT-IAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAG 301 (718)
Q Consensus 223 ~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~~~~~d~~~-i~~Rl~elA~LnpglkI~l~der~~~~~~~~e~f~~~~ 301 (718)
|..--. .. .....++|||+|... |+..+--.... +..+|+.+|..||+.+|.|.|... +.+.|+.
T Consensus 157 p~Iv~r-~~-~~~~~~~hGT~Vel~-----~~~~~~~~~~qgi~eYlkrtaiinPhA~I~l~dPdG-------~~~vf~r 222 (538)
T COG1389 157 PEIVER-GE-VENPGGWHGTRVELE-----LKGVWYRAKRQGIYEYLKRTAIINPHARIVLKDPDG-------NLVVFPR 222 (538)
T ss_pred chhhhc-cc-ccCCCCCCceEEEEE-----ecccchhhcccCHHHHHHHHhhcCCceEEEEECCCC-------cEEEecc
Confidence 432110 00 114456899999988 54322111233 889999999999999999999865 3455554
Q ss_pred cHHHHHHHHhcCCCCCC-CeeEEEeccCceEEEEEEEecCCCCCceeeeeccceecCCCcchHHHHHHHHHHHHHHHHhh
Q 005028 302 GLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKK 380 (718)
Q Consensus 302 Gl~dyv~~l~~~~~~l~-~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~alt~~in~~~kk 380 (718)
- ...++ +|..+..++.|++++--++.-..+-..++.+|.-+-++.-| .+++.++++.
T Consensus 223 ~-----------t~~lP~pP~E~kPHP~gvd~~~L~~M~~~T~~~tv~~fL~sef~rig-----------~~ta~e~~e~ 280 (538)
T COG1389 223 S-----------TDKLPKPPKEIKPHPHGVDLDTLKKMAHRTRRSTVREFLVSEFSRIG-----------EKTADELLEY 280 (538)
T ss_pred c-----------hhhCCCCccccCCCCccccHHHHHHHHHHhhhhhHHHHHHHHHHHhh-----------hhhHHHHHHH
Confidence 2 22344 35566677777655422111111112345666665555555 4556677777
Q ss_pred ccCC
Q 005028 381 SKTV 384 (718)
Q Consensus 381 ~~~~ 384 (718)
.+..
T Consensus 281 ~g~~ 284 (538)
T COG1389 281 AGFD 284 (538)
T ss_pred hcCC
Confidence 6643
No 25
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=99.80 E-value=9e-20 Score=206.21 Aligned_cols=284 Identities=20% Similarity=0.281 Sum_probs=205.0
Q ss_pred ccceeccchhhHhhCCCeeeccCCCCchhHHHHHHHHhhHHHHhc-CCCCeEEEEEeC----C--CcEEEEECCCCcccc
Q 005028 80 EQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQA-GYASNIEVALLA----D--NSVSVADNGRGIPID 152 (718)
Q Consensus 80 ~~i~~L~~lE~VrkRPgMYIGs~~~~gL~~lv~EIldNAvDe~~a-g~~~~I~V~l~~----d--g~isV~DnGrGIPv~ 152 (718)
++++.++..|+++|++.|.--+...++|.+++.|+|+||+|++.. |....|.|.+.. + ..|+|.|||.|||.+
T Consensus 10 ~~~~~~s~aEfF~kn~~~~gf~~p~~~L~qVLkNLIeNAIDa~~~~gilp~I~I~I~~~~~~~~~~~I~V~DNG~GIp~e 89 (535)
T PRK04184 10 EKFREISVAEFFEKNKELLGFDNPARALYTTVKELVDNSLDACEEAGILPDIKIEIKRVDEGKDHYRVTVEDNGPGIPPE 89 (535)
T ss_pred hhhhhCCHHHHHHhCccceeecCCHHHHHHHHHHHHHHHHHHhhhcCCCceEEEEEEEccCCCcEEEEEEEcCCCCCCHH
Confidence 348889999999999999944444589999999999999999853 556788888873 2 249999999999988
Q ss_pred ccCCCCccceeeeeeeeccCCCCCCCCCceeeccCccCCchhHHhhcccc-----eEEEEEeCC-E-EEEEEEe----cC
Q 005028 153 LHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSES-----LEVTVWRDG-M-EYHQKYS----RG 221 (718)
Q Consensus 153 ~~~~~g~~~~E~v~t~lhag~kF~~~~~~ykvSGGlhGvG~svvNalS~~-----~~V~v~r~g-k-~y~q~f~----~G 221 (718)
..+. +|+.+++++||... ..+.|.+|+|+++++.+|+. ++|++..++ . .|.+++. ++
T Consensus 90 ~l~~--------iF~~f~~~SK~~~~----~~s~G~~GLGLsiv~~isq~~~G~~I~V~S~~~~g~~~~~~~l~id~~kn 157 (535)
T PRK04184 90 EIPK--------VFGKLLYGSKFHNL----RQSRGQQGIGISAAVLYAQMTTGKPVRVISSTGGSKKAYYFELKIDTKKN 157 (535)
T ss_pred HHHH--------Hhhhhhcccccccc----ccCCCCCCcchHHHHHHHHHhcCCcEEEEEecCCCceEEEEEEEeccccc
Confidence 7653 78888899998642 45678899999999999985 577777654 3 6777774 22
Q ss_pred cccccceeeccCCCCCCCCceEEEEEeCccccccccccCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEEecc
Q 005028 222 KPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAG 301 (718)
Q Consensus 222 ~~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~~~~~d~~~i~~Rl~elA~LnpglkI~l~der~~~~~~~~e~f~~~~ 301 (718)
.+...... ......++||+|++.++...+ .....+.++++.+|++||+++|.|.+... +.+.|++
T Consensus 158 ~g~i~~~~---~~~~~~~~GT~V~V~l~~~~~-----~~~~~I~e~i~r~Al~nP~~~~~l~~~~g-------~~~~f~R 222 (535)
T PRK04184 158 EPIILERE---EVDWDRWHGTRVELEIEGDWY-----RAKQRIYEYLKRTAIVNPHARITFKDPDG-------EILVFPR 222 (535)
T ss_pred CCeecccc---ccCCCCCCCEEEEEEECCcCh-----hhHHHHHHHHHHHHHhCCCeEEEEEeCCC-------eEEEEec
Confidence 22110000 012356799999999776654 23678999999999999999999998543 3466665
Q ss_pred cHHHHHHHHhcCCCCCC-CeeEEEeccCceEEEEEEEecCCCCCceeeeeccceecCCCcchHHHHHHHHHHHHHHHHhh
Q 005028 302 GLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKK 380 (718)
Q Consensus 302 Gl~dyv~~l~~~~~~l~-~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~alt~~in~~~kk 380 (718)
- .+.++ +|..+..++.|++++.-++....+-..++.+|..+-++.-|. ++..++++.
T Consensus 223 ~-----------~~~~P~~p~e~kpHP~gv~~~~l~~m~~~t~~~~l~~fL~~~f~~v~~-----------~~a~~~~~~ 280 (535)
T PRK04184 223 A-----------TDKLPKPPKEIKPHPHGVDLGTLKRMAARTKRRTLKEFLVEEFSRVGD-----------KTADEILEK 280 (535)
T ss_pred c-----------cccCCCCCccCCCCCCccCHHHHHHHHHhcccCCHHHHHHHhhcccCH-----------HHHHHHHHH
Confidence 3 22344 456677788887765433333222235688999998888883 344555666
Q ss_pred ccCCC-CCCCCCCHHHHhhccEEEEEEeecCCC
Q 005028 381 SKTVK-DKDISLSGEHVREGLTCIISVRVPNPE 412 (718)
Q Consensus 381 ~~~~k-~k~~~l~~~dIregL~~vVsvki~nP~ 412 (718)
.++.. +...+|+.+++..-+-++-.+++..|.
T Consensus 281 ~~~~~~~~~~~l~~~~~~~l~~~~~~~~~~~pp 313 (535)
T PRK04184 281 AGLDPNKKPKELTREELERLVEAFKKYKFMAPP 313 (535)
T ss_pred cCCCCCCChhhCCHHHHHHHHHHHHhccCcCCC
Confidence 66522 344678999999888888888877775
No 26
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=99.61 E-value=2.8e-15 Score=172.81 Aligned_cols=184 Identities=24% Similarity=0.294 Sum_probs=137.1
Q ss_pred ccceeccchhhHhhCCCeeeccCCCCchhHHHHHHHHhhHHHHh-cCCCCeEEEEEeCCC----cEEEEECCCCcccccc
Q 005028 80 EQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQ-AGYASNIEVALLADN----SVSVADNGRGIPIDLH 154 (718)
Q Consensus 80 ~~i~~L~~lE~VrkRPgMYIGs~~~~gL~~lv~EIldNAvDe~~-ag~~~~I~V~l~~dg----~isV~DnGrGIPv~~~ 154 (718)
++.+.++..|+++|++.|+-=+...++|++++.|+|+||+|+.. .+..+.|.|.+...+ .|+|.|||+|||.+..
T Consensus 10 ~~~~~~S~aEFF~kNk~~lGf~~~~r~L~~VVkELVeNAIDA~~~~g~~p~I~V~I~~~g~~~~~I~V~DNG~GIp~e~l 89 (659)
T PRK14867 10 DEFKEHSISEFFRKNKHMLGYSGKLRSMTTIIHELVTNSLDACEEAEILPDIKVEIEKLGSDHYKVAVEDNGPGIPPEFV 89 (659)
T ss_pred HHHHHhHHHHHHhhCCeeeechhHHHHHHHHHHHHHHHHHHHhhccCCCceEEEEEEECCCcEEEEEEEeeCeeCCHHHH
Confidence 45678899999999999984434457899999999999999986 355678999997532 3999999999998875
Q ss_pred CCCCccceeeeeeeeccCCCCCCCCCceeeccCccCCchhHHhhcccce-----EEEEEe-CCEEEEEEEec------Cc
Q 005028 155 PATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESL-----EVTVWR-DGMEYHQKYSR------GK 222 (718)
Q Consensus 155 ~~~g~~~~E~v~t~lhag~kF~~~~~~ykvSGGlhGvG~svvNalS~~~-----~V~v~r-~gk~y~q~f~~------G~ 222 (718)
+. +|..+|+|+||.. +..|.|.+|+|++++.++|+.+ +++++. +|..|.+.+.- |.
T Consensus 90 ~~--------iFerF~atSK~~~----~~qS~G~rG~GLa~a~~vsql~~G~pI~I~S~~g~G~~f~i~L~i~i~~n~G~ 157 (659)
T PRK14867 90 PK--------VFGKMLAGSKMHR----LIQSRGQQGIGAAGVLLFSQITTGKPLKITTSTGDGKIHEMEIKMSVEKNEGD 157 (659)
T ss_pred hh--------hhccccccCcccc----eeccCCCCcccHHHHHHHHHHhcCCcEEEEEEcCCCEEEEEEEEEEecccCCe
Confidence 53 8999999999963 4688899999999999999874 666664 56666666543 22
Q ss_pred ccccceeeccCCCCCCCCceEEEEEeCccccccccccCHHHHHHHHHHHhhcCCCcEEEEeec
Q 005028 223 PVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKE 285 (718)
Q Consensus 223 ~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~~~~~d~~~i~~Rl~elA~LnpglkI~l~de 285 (718)
.+.. . .....++||+|+|.-. ++|-.. ....+.++++.+|..||++.|.|.+.
T Consensus 158 I~~~-~-----~~~~~~~GT~Ie~~V~-dLFynR---~E~~i~e~l~r~ALanP~i~f~l~~~ 210 (659)
T PRK14867 158 IVSH-K-----VREGFWRGTRVEGEFK-EVTYNR---REQGPFEYLRRISLSTPHAKITLKDP 210 (659)
T ss_pred eccc-c-----cCCCCCCCcEEEEEEe-eceech---hhHHHHHHHHHHHHhCCCcEEEEEeC
Confidence 2211 0 1223579999995210 233111 01138999999999999999999876
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=99.57 E-value=2.3e-13 Score=146.90 Aligned_cols=260 Identities=15% Similarity=0.228 Sum_probs=164.8
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCC--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCC-CCc
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGS-SSG 181 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~-~~~ 181 (718)
..+..++.|+|+||+|+. ++.|.|.+..++ .|+|.|||.|||.+..+. ++..++++|+... +..
T Consensus 21 ~~~~~~l~eLi~Na~dA~----a~~I~i~~~~~~~~~i~V~DnG~Gi~~~~l~~---------~~~~~~tsk~~~~~~~~ 87 (312)
T TIGR00585 21 ERPASVVKELVENSLDAG----ATRIDVEIEEGGLKLIEVSDNGSGIDKEDLPL---------ACERHATSKIQSFEDLE 87 (312)
T ss_pred hhHHHHHHHHHHHHHHCC----CCEEEEEEEeCCEEEEEEEecCCCCCHHHHHH---------HhhCCCcCCCCChhHhh
Confidence 567899999999999952 578999998665 599999999999875432 3456677776532 113
Q ss_pred eeeccCccCCchhHHhhcccceEEEEEe---CCEEEEEEEecCcccccceeeccCCCCCCCCceEEEEE------eCccc
Q 005028 182 YSVSGGLHGVGLSVVNALSESLEVTVWR---DGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFW------PDKQV 252 (718)
Q Consensus 182 ykvSGGlhGvG~svvNalS~~~~V~v~r---~gk~y~q~f~~G~~~~~l~~~~~~~~~~~~~GT~V~F~------PD~~i 252 (718)
...+-|++|+|++..+++| .++|+++. ++..|.+. .+|..+.+.. ....++||+|++. |+...
T Consensus 88 ~~~~~G~rG~al~si~~~s-~~~i~S~~~~~~~~~~~~~-~~g~~~~~~~------~~~~~~GTtV~v~~lf~n~p~r~~ 159 (312)
T TIGR00585 88 RIETLGFRGEALASISSVS-RLTITTKTSAADGLAWQAL-LEGGMIEEIK------PAPRPVGTTVEVRDLFYNLPVRRK 159 (312)
T ss_pred cccccCccchHHHHHHhhC-cEEEEEeecCCCcceEEEE-ECCCcCcccc------cccCCCccEEEEchhhccCchhhh
Confidence 3567799999999999999 79999975 33556666 4565433321 2345799999999 88877
Q ss_pred cccccccCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEEec----ccHHHH-HHHHhcCCCCCCCeeEEE-ec
Q 005028 253 FTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFA----GGLEEY-VQWLNTDKKPLHDVVGFR-KD 326 (718)
Q Consensus 253 F~~~~~~d~~~i~~Rl~elA~LnpglkI~l~der~~~~~~~~e~f~~~----~Gl~dy-v~~l~~~~~~l~~~i~~~-~~ 326 (718)
|-......++.+..+++.+|.++|++++.+.+... ..+.+. ..+.+. +..+-...- ....+.+. .+
T Consensus 160 ~~~~~~~~~~~i~~~l~~~al~~p~i~f~l~~~~~-------~~~~~~~~~~~~~~~~~i~~v~G~~~-~~~l~~~~~~~ 231 (312)
T TIGR00585 160 FLKSPKKEFRKILDLLNRYALIHPDVSFSLTHDGK-------KVLQLSTKPNQSLKERRIRSVFGTAV-LSKLFPLLEWE 231 (312)
T ss_pred hccCcHHHHHHHHHHHHHHhhcCCCeEEEEEECCE-------EEEEEcCCCCCCHHHHHHHHHhChHh-Hhhceeeeccc
Confidence 74333345678999999999999999999988531 222232 346663 443333211 11112222 23
Q ss_pred cCceEEEEEEEecC--CCCCce-eeeeccceecCCCcchHHHHHHHHHHHHHHHHhhccCCCCCCCCCCHHHHhhccEEE
Q 005028 327 VDGITIDLALQWCS--DAYSDT-MLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCI 403 (718)
Q Consensus 327 ~~~~~veval~~s~--~~~~~~-~~SFVN~I~T~~GGTHv~g~~~alt~~in~~~kk~~~~k~k~~~l~~~dIregL~~v 403 (718)
..++.++.-+.-.. ...... ++-|||+=+-.. ..|.++|++..+.... + ...-.++
T Consensus 232 ~~~~~v~G~is~p~~~~~~~~~~q~ifvNgR~v~~---------~~l~k~I~~~y~~~~~-~-----------~~~P~~v 290 (312)
T TIGR00585 232 DGDLQLEGFISEPNVTRSRRSGWQFLFINGRPVEL---------KLLLKAIREVYHEYLP-K-----------GQYPVFV 290 (312)
T ss_pred CCCEEEEEEEcCcccccCCCCcceEEEECCcEecc---------hHHHHHHHHHHHHhcc-C-----------CCCcEEE
Confidence 45566653332110 111123 799999866322 2355666554443221 1 1133788
Q ss_pred EEEeecCCCCC
Q 005028 404 ISVRVPNPEFE 414 (718)
Q Consensus 404 Vsvki~nP~Fe 414 (718)
+++.+|.-.+|
T Consensus 291 L~i~~p~~~iD 301 (312)
T TIGR00585 291 LNLEIDPELVD 301 (312)
T ss_pred EEEEEChHHcc
Confidence 88888765555
No 28
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=99.52 E-value=3.3e-14 Score=164.32 Aligned_cols=251 Identities=24% Similarity=0.313 Sum_probs=177.7
Q ss_pred ccceeccchhhHhhCCCeeeccCCCCchhHHHHHHHHhhHHHHhc-CCCCeEEEEEeCCC---cEEEEECCCCccccccC
Q 005028 80 EQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQA-GYASNIEVALLADN---SVSVADNGRGIPIDLHP 155 (718)
Q Consensus 80 ~~i~~L~~lE~VrkRPgMYIGs~~~~gL~~lv~EIldNAvDe~~a-g~~~~I~V~l~~dg---~isV~DnGrGIPv~~~~ 155 (718)
++.+.++..|.+.+++.|+--+.+.+.|..++.|+|+||+|.+.. |....|.|.+...+ .|+|.|||.|||.+..+
T Consensus 20 ~~~~~iS~aEfF~kN~~~lgfD~d~r~L~tVLkNLIeNALDAs~~~gilp~I~V~Ie~~g~~v~I~VeDNG~GIp~EdLp 99 (795)
T PRK14868 20 ESQREISIAEFFEKNKHMLGFDSGARGLVTAVKEAVDNALDATEEAGILPDIYVEIEEVGDYYRLVVEDNGPGITKEQIP 99 (795)
T ss_pred hhccccceeeecccCcceeeccCCHHHHHHHHHHHHHHHHHhCcccCCCceEEEEEEECCCEEEEEEEEcCCCCCHHHHH
Confidence 467889999999999999966666678999999999999998753 33447888887543 48999999999988655
Q ss_pred CCCccceeeeeeeeccCCCCCCCCCceeeccCccCCchhHHhhcccc-----eEEEEEeCCE--E--EEEEEecCc--cc
Q 005028 156 ATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSES-----LEVTVWRDGM--E--YHQKYSRGK--PV 224 (718)
Q Consensus 156 ~~g~~~~E~v~t~lhag~kF~~~~~~ykvSGGlhGvG~svvNalS~~-----~~V~v~r~gk--~--y~q~f~~G~--~~ 224 (718)
. +|..++.++||... ..+.|..|.|++++-++|+. ++|+++.++. . |.+....|. |.
T Consensus 100 ~--------IFerf~~tSKf~~~----~~srG~rG~GLglai~~sqlt~GgpI~I~S~~~~~~~g~~~~L~Id~gkNep~ 167 (795)
T PRK14868 100 K--------VFGKLLYGSRFHAR----EQSRGQQGIGISAAVLYSQLTSGKPAKITSRTQGSEEAQYFELIIDTDTNEPE 167 (795)
T ss_pred H--------Hhhhhccccccccc----ccCCCCCceehHHHHHHHHHcCCCcEEEEeCCCCCCceeEEEEEEecCCCccc
Confidence 3 78888889998743 35668899999999999986 6788875442 2 344444443 32
Q ss_pred ccceeeccCCCCCCCCceEEEEEeCccccccccccCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEEecccHH
Q 005028 225 TTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLE 304 (718)
Q Consensus 225 ~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~~~~~d~~~i~~Rl~elA~LnpglkI~l~der~~~~~~~~e~f~~~~Gl~ 304 (718)
.-.... .....++||+|+.. +|.. + -....+.++++.+|..||.+.|.|.+.+ +.+.|+.+-.
T Consensus 168 I~~~~~---~~~~~~~GT~IeV~----Lf~N-~-pAR~kI~eyl~r~Al~nP~a~f~l~~~~--------~~~~~~r~t~ 230 (795)
T PRK14868 168 ISVEET---TTWDRPHGTRIELE----MEAN-M-RARQQLHDYIKHTAVVNPHARIELREPD--------ESLKFERATD 230 (795)
T ss_pred eeccee---cccCCCCceEEEEE----EEcc-C-chhhhHHHHHHHHHhhCCCeEEEEEECC--------EEEEeccccc
Confidence 100010 12356799999987 5652 2 2245699999999999999999999862 4577866521
Q ss_pred HHHHHHhcCCCCCC-CeeEEEeccCceEEEEEEEecCCCCCceeeeeccceecCCCcchHHHHHHHH
Q 005028 305 EYVQWLNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASL 370 (718)
Q Consensus 305 dyv~~l~~~~~~l~-~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al 370 (718)
.++ .+..+..++.|++++-.+......-..++.+|++.-.+.-|..+.+-+.+.+
T Consensus 231 -----------~lp~~p~eIkPHP~Gve~~~L~~m~~~t~~~~l~gFL~~efsRVg~k~a~~ii~~~ 286 (795)
T PRK14868 231 -----------QLPAETEEIRPHPHGVELGTLLKMLEATDSYSVSGFLQEEFTRVGKKTADSVIDNF 286 (795)
T ss_pred -----------ccccCchhccCCCCCcCHHHHHHHHhccCCcEeHHhhhhhhccccHHHHHHHHHHH
Confidence 233 2445555666655432222222222356899999999999988888877644
No 29
>PF01751 Toprim: Toprim domain; InterPro: IPR006171 This is a conserved region from DNA primase. This corresponds to the Toprim (topoisomerase-primase) domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR/M DNA repair proteins []. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase 2.7.7.6 from EC is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division []. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases []. Type II DNA topoisomerases catalyse the relaxation of DNA supercoiling by causing transient double strand breaks.; PDB: 2ZJT_A 3IG0_A 3M4I_A 3NUH_B 1GKU_B 1GL9_C 3PWT_A 1CY4_A 1ECL_A 1CY7_A ....
Probab=99.09 E-value=7.3e-11 Score=106.34 Aligned_cols=97 Identities=22% Similarity=0.327 Sum_probs=86.1
Q ss_pred eEEEeeccCCCccccccCCCCceEecccCcccccccccCHHH-HhhChhHHHHHHHhcCCccCCcCcccccceeeEEEee
Q 005028 500 EIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAA-MYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILT 578 (718)
Q Consensus 500 eL~lvEGDSA~Gsak~gRdr~~qailPLrGKiLNv~ka~~~k-i~~N~Ei~~li~~lG~~~~~~~~~~~~LRYgkIiImT 578 (718)
|||||||+|+.....++.+...+.|+|+.|+++|....+... ..+++.|+.|.+.+ .+|+.|||+|
T Consensus 1 ~liIvE~ps~a~~i~~~l~~~~~~v~~~~Ghl~~~~~~~~~~~~~~~~~i~~l~~~~-------------~~~~~iiiat 67 (100)
T PF01751_consen 1 ELIIVEKPSDAKAIAKALGGEEYIVIATSGHLLELAKPEDYDPKDKKKQIKNLKKLL-------------KKADEIIIAT 67 (100)
T ss_dssp EEEEESSHHHHHHHHHHSSTTTEEEEEESSSSEESTTSSHHHCHTTHHHHHHHHHHH-------------HSCSEEEEEC
T ss_pred CEEEEeCHHHHHHHHHHcCCCCEEEEEeCCcccccccccccccccccccchhhHHHh-------------hhccEeeecC
Confidence 699999999999888888877799999999999999987665 78888899998887 4689999999
Q ss_pred cCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEe
Q 005028 579 DADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVG 611 (718)
Q Consensus 579 DaDvDG~HI~~Llltff~~~~p~Li~~G~v~~~ 611 (718)
|+|.+|.||...++.++...+|.+ .+++++-
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 6777663
No 30
>COG0323 MutL DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]
Probab=99.02 E-value=9.6e-10 Score=128.77 Aligned_cols=158 Identities=22% Similarity=0.330 Sum_probs=116.8
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCC--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCC-c
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS-G 181 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~-~ 181 (718)
....-+|+|+|+||+|+ .++.|.|.+...| .|.|.|||.||+.+..+ +...-||.||-.+.+. .
T Consensus 22 erPaSVVKELVENSlDA----GAt~I~I~ve~gG~~~I~V~DNG~Gi~~~Dl~---------la~~rHaTSKI~~~~DL~ 88 (638)
T COG0323 22 ERPASVVKELVENSLDA----GATRIDIEVEGGGLKLIRVRDNGSGIDKEDLP---------LALLRHATSKIASLEDLF 88 (638)
T ss_pred ecHHHHHHHHHhccccc----CCCEEEEEEccCCccEEEEEECCCCCCHHHHH---------HHHhhhccccCCchhHHH
Confidence 45678999999999998 4899999999766 49999999999988655 4556799999654321 1
Q ss_pred eeeccCccCCchhHHhhcccceEEEEEeCC-EEEEEEEecCcccc-cceeeccCCCCCCCCceEEEEEeCccccccc---
Q 005028 182 YSVSGGLHGVGLSVVNALSESLEVTVWRDG-MEYHQKYSRGKPVT-TLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA--- 256 (718)
Q Consensus 182 ykvSGGlhGvG~svvNalS~~~~V~v~r~g-k~y~q~f~~G~~~~-~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~~--- 256 (718)
--.|-|+.|-.++.....| +++++++..+ ..+.+.+-.|.... .+. ....+-||+|... +.|-.+
T Consensus 89 ~I~TlGFRGEAL~SIasVs-rlti~Srt~~~~~~~~~~~~g~~~~~~~~------p~a~~~GTtVeV~---dLF~NtPaR 158 (638)
T COG0323 89 RIRTLGFRGEALASIASVS-RLTITSRTAEASEGTQIYAEGGGMEVTVK------PAAHPVGTTVEVR---DLFYNTPAR 158 (638)
T ss_pred HhhccCccHHHHHHHHhhh-eeEEEeecCCcCceEEEEecCCccccccc------CCCCCCCCEEEeh---HhhccChHH
Confidence 2567799999999999999 6899888533 55555555544332 322 2234569999987 666421
Q ss_pred ------cccCHHHHHHHHHHHhhcCCCcEEEEeec
Q 005028 257 ------IQFDHNTIAGRIRELAFLNPKLTIALRKE 285 (718)
Q Consensus 257 ------~~~d~~~i~~Rl~elA~LnpglkI~l~de 285 (718)
..-.+..|..-++.+|..+|.+.++|.-.
T Consensus 159 rKflks~~~E~~~i~~vv~r~ALahp~I~F~l~~~ 193 (638)
T COG0323 159 RKFLKSEKTEFGHITELINRYALAHPDISFSLSHN 193 (638)
T ss_pred HHhhcccHHHHHHHHHHHHHHHhcCCCeEEEEEEC
Confidence 11224568899999999999999999764
No 31
>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=98.73 E-value=4.8e-09 Score=95.16 Aligned_cols=88 Identities=30% Similarity=0.485 Sum_probs=65.4
Q ss_pred CCchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCC---CcEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCC
Q 005028 104 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLAD---NSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 180 (718)
Q Consensus 104 ~~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~d---g~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~ 180 (718)
+..|+++++|+++||+|++..+ ..|.|.+..+ -.|+|+|||.|||.+..+ .+|..+.++.+ +
T Consensus 3 ~~~l~~il~~ll~Na~~~~~~~--~~I~i~~~~~~~~~~i~i~d~G~gi~~~~l~--------~~~~~~~~~~~---~-- 67 (111)
T PF02518_consen 3 PDRLRQILSELLDNAIKHSPEG--GKIDITIEEDDDHLSIEISDNGVGIPPEELE--------KLFEPFFTSDK---S-- 67 (111)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHT--SEEEEEEEEETTEEEEEEEESSSSTTHHHHH--------HHCSTTSHSSS---S--
T ss_pred HHHHHHHHHHHHHHHHHHhcCC--CEEEEEEEEecCeEEEEEEeccccccccccc--------cchhhcccccc---c--
Confidence 3568999999999999999876 7899998853 359999999999986533 24444443333 1
Q ss_pred ceeeccCccCCchhHHhhcccceEEEEE
Q 005028 181 GYSVSGGLHGVGLSVVNALSESLEVTVW 208 (718)
Q Consensus 181 ~ykvSGGlhGvG~svvNalS~~~~V~v~ 208 (718)
... .+.+|+|+.+++.+++.+..+++
T Consensus 68 ~~~--~~g~GlGL~~~~~~~~~~~g~l~ 93 (111)
T PF02518_consen 68 ETS--ISGHGLGLYIVKQIAERHGGELT 93 (111)
T ss_dssp SGG--SSSSSHHHHHHHHHHHHTTEEEE
T ss_pred ccc--cCCCChHHHHHHHHHHHCCCEEE
Confidence 222 23399999999999998876643
No 32
>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=98.62 E-value=8.1e-08 Score=86.17 Aligned_cols=100 Identities=23% Similarity=0.437 Sum_probs=76.4
Q ss_pred HHHHHHHhcCCCCCCCeeEEEeccCceEEEEEEEecCC--CCCceeeeeccceecCCCcchHHHHHHHHHHHHHHHHhhc
Q 005028 304 EEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSD--AYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKS 381 (718)
Q Consensus 304 ~dyv~~l~~~~~~l~~~i~~~~~~~~~~veval~~s~~--~~~~~~~SFVN~I~T~~GGTHv~g~~~alt~~in~~~kk~ 381 (718)
++++..+.+.+. ....+.+..+..++.+++++.|... .....+++|||+.++..||+|..++.+++.+.++
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 1234455555567899999998743 1457799999999998899999999999988775
Q ss_pred cCCCCCCCCCCHHHHhhccEEEEEEeecC--CCCC-Ccccccc
Q 005028 382 KTVKDKDISLSGEHVREGLTCIISVRVPN--PEFE-GQTKTRL 421 (718)
Q Consensus 382 ~~~k~k~~~l~~~dIregL~~vVsvki~n--P~Fe-gQTKekL 421 (718)
++++.+...++|++++++ |.|. +|||+++
T Consensus 75 -----------~~~~~~~p~~vl~i~~~~~~~d~nv~p~K~~v 106 (107)
T cd00329 75 -----------GDDVRRYPVAVLSLKIPPSLVDVNVHPTKEEV 106 (107)
T ss_pred -----------ccCCCCCCEEEEEEEeChHHeeeCCCCCcccc
Confidence 345677889999999999 9999 9999976
No 33
>PRK05218 heat shock protein 90; Provisional
Probab=98.61 E-value=7.6e-06 Score=96.14 Aligned_cols=158 Identities=20% Similarity=0.278 Sum_probs=97.4
Q ss_pred hHHHHHHHHhhHHHHhc--------------CCCCeEEEEEeCCC-cEEEEECCCCccccccCCCCccceeeeeeeeccC
Q 005028 108 HHLVYEILDNAVDEAQA--------------GYASNIEVALLADN-SVSVADNGRGIPIDLHPATNKSALETVLTVLHAG 172 (718)
Q Consensus 108 ~~lv~EIldNAvDe~~a--------------g~~~~I~V~l~~dg-~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag 172 (718)
.-.++|+|.||.|+..+ .....|.|.++.+| .|+|.|||.||..+.... .|++.-++
T Consensus 28 ~v~lRELiqNA~DA~~k~r~~~~~~~~~~~~~~~~~I~I~~d~~~~~i~I~DnG~GMt~eel~~--------~l~~ia~S 99 (613)
T PRK05218 28 EIFLRELISNASDAIDKLRFEALTDPALYEGDGDLKIRISFDKEARTLTISDNGIGMTREEVIE--------NLGTIAKS 99 (613)
T ss_pred hHHHHHHHhCHHHHHHHHHHHhccCccccCCCCCcEEEEEEcCCCCeEEEEECCCCCCHHHHHH--------HHHhhccc
Confidence 56789999999999642 12347888887654 699999999999875432 23222222
Q ss_pred C------CCCCCCCceeeccCccCCchhHHhhcccceEEEEEeCC---EEEEEEEecCcccccceeeccCCCCCCCCceE
Q 005028 173 G------KFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDG---MEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTR 243 (718)
Q Consensus 173 ~------kF~~~~~~ykvSGGlhGvG~svvNalS~~~~V~v~r~g---k~y~q~f~~G~~~~~l~~~~~~~~~~~~~GT~ 243 (718)
| +.......-.-.-|++|+|.-.+=+++..++|+++..| ..+..+...|.. -.+.. .....+||+
T Consensus 100 g~~~f~~k~~~~~~~~~~~iG~fGiGf~S~f~va~~v~V~Sr~~~~~~~~~~w~~~g~~~-~~i~~-----~~~~~~GT~ 173 (613)
T PRK05218 100 GTKEFLEKLKGDQKKDSQLIGQFGVGFYSAFMVADKVTVITRSAGPAAEAVRWESDGEGE-YTIEE-----IEKEERGTE 173 (613)
T ss_pred cchhHHHHhhcccccccccccccCcCchhhhhccCEEEEEEcCCCCCCceEEEEEeCCce-eEEeE-----CCCCCCCcE
Confidence 2 22111001123458999999998889999999998755 345555543332 22211 112368999
Q ss_pred EEEEeCccccccccccCHHHHHHHHHHHh-hcCCCcEEEEee
Q 005028 244 IRFWPDKQVFTTAIQFDHNTIAGRIRELA-FLNPKLTIALRK 284 (718)
Q Consensus 244 V~F~PD~~iF~~~~~~d~~~i~~Rl~elA-~LnpglkI~l~d 284 (718)
|+..+..+- .. -.+...|.+-++.+| |+ +..|++++
T Consensus 174 I~l~Lk~~~--~e-~~e~~~i~~li~kys~~l--~~PI~~~~ 210 (613)
T PRK05218 174 ITLHLKEDE--DE-FLDEWRIRSIIKKYSDFI--PVPIKLEK 210 (613)
T ss_pred EEEEECcch--hh-hcCHHHHHHHHHHHHhcC--CCCEEEec
Confidence 998755542 11 145677888888888 33 23355544
No 34
>KOG1978 consensus DNA mismatch repair protein - MLH2/PMS1/Pms2 family [Replication, recombination and repair]
Probab=98.61 E-value=6.8e-08 Score=110.41 Aligned_cols=157 Identities=22% Similarity=0.316 Sum_probs=117.1
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCC--cEEEEECCCCccccccCCCCccceeeeeeeeccCCC---CCCCC
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGK---FGGSS 179 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~k---F~~~~ 179 (718)
.++...|.|+|+||+|+ .|+.|.|.+...| +|+|.|||-||.....+ .++.-|+.+| |.|-
T Consensus 19 ~sl~sAVKELvENSiDA----GAT~I~I~~kdyG~d~IEV~DNG~GI~~~n~~---------~l~lkh~TSKi~~f~Dl- 84 (672)
T KOG1978|consen 19 TSLVSAVKELVENSIDA----GATAIDIKVKDYGSDSIEVSDNGSGISATDFE---------GLALKHTTSKIVSFADL- 84 (672)
T ss_pred ccHHHHHHHHHhcCccc----CCceeeEecCCCCcceEEEecCCCCCCccchh---------hhhhhhhhhcccchhhh-
Confidence 57888999999999998 4899999998656 69999999999876554 3788888888 6554
Q ss_pred CceeeccCccCCchhHHhhcccceEEEEEe-CCEEEEEEEec-CcccccceeeccCCCCCCCCceEEEEEeCcccccc--
Q 005028 180 SGYSVSGGLHGVGLSVVNALSESLEVTVWR-DGMEYHQKYSR-GKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTT-- 255 (718)
Q Consensus 180 ~~ykvSGGlhGvG~svvNalS~~~~V~v~r-~gk~y~q~f~~-G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~-- 255 (718)
.-.+|=|+.|-.++..+|+|+.+..+... +..-....|.+ |...... ......||+|... ..|.+
T Consensus 85 -~~l~T~GFRGEALSsLCa~~dv~I~Trt~~~~vgt~l~~Dh~G~I~~k~-------~~ar~~GTTV~v~---~LF~tLP 153 (672)
T KOG1978|consen 85 -AVLFTLGFRGEALSSLCALGDVMISTRSHSAKVGTRLVYDHDGHIIQKK-------PVARGRGTTVMVR---QLFSTLP 153 (672)
T ss_pred -hhhhhhhhHHHHHHhhhhccceEEEEeeccCccceeEEEccCCceeeec-------cccCCCCCEEEHh---hhcccCC
Confidence 55778899999999999999866665543 23345666654 4433211 3457899999976 66653
Q ss_pred --------ccccCHHHHHHHHHHHhhcCCCcEEEEeecC
Q 005028 256 --------AIQFDHNTIAGRIRELAFLNPKLTIALRKED 286 (718)
Q Consensus 256 --------~~~~d~~~i~~Rl~elA~LnpglkI~l~der 286 (718)
+..-.++.+..-++.+|.+++++++.....-
T Consensus 154 VR~kef~r~~Kref~k~i~li~~y~li~~~ir~~~~n~t 192 (672)
T KOG1978|consen 154 VRRKEFQRNIKRKFVKLISLIQAYALISTAIKFLVSNST 192 (672)
T ss_pred CchHHhhcchhhhhhhHHhhHHHHHhhcccceeeeeecc
Confidence 1122356678888999999999999876543
No 35
>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=98.55 E-value=8.5e-09 Score=98.27 Aligned_cols=90 Identities=23% Similarity=0.360 Sum_probs=63.4
Q ss_pred hHHHHHHHHhhHHHHhcCCCCeEEEEEeCC----CcEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCcee
Q 005028 108 HHLVYEILDNAVDEAQAGYASNIEVALLAD----NSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYS 183 (718)
Q Consensus 108 ~~lv~EIldNAvDe~~ag~~~~I~V~l~~d----g~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~yk 183 (718)
...+.|+|+||+|+. ++.|.|.++.+ ..|.|.|||.|||.+.... +..+..+++... .-.
T Consensus 4 ~~al~ElI~Ns~DA~----a~~I~I~i~~~~~~~~~i~I~DnG~Gm~~~~l~~---------~~~~g~s~k~~~---~~~ 67 (137)
T PF13589_consen 4 EDALRELIDNSIDAG----ATNIKISIDEDKKGERYIVIEDNGEGMSREDLES---------FFRIGRSSKKSE---KDR 67 (137)
T ss_dssp THHHHHHHHHHHHHH----HHHEEEEEEEETTTTTEEEEEESSS---HHHHHH---------HTTCHHTHHHHH---HHG
T ss_pred HHHHHHHHHHHHHcc----CCEEEEEEEcCCCCCcEEEEEECCcCCCHHHHHH---------hccccCCCCCch---hhh
Confidence 678999999999976 56799999964 5899999999999875431 223444444311 114
Q ss_pred eccCccCCc-hhHHhhcccceEEEEEeCCEE
Q 005028 184 VSGGLHGVG-LSVVNALSESLEVTVWRDGME 213 (718)
Q Consensus 184 vSGGlhGvG-~svvNalS~~~~V~v~r~gk~ 213 (718)
.+-|.+|+| ...+..++..++|++...+..
T Consensus 68 ~~~G~~G~G~k~A~~~~~~~~~v~S~~~~~~ 98 (137)
T PF13589_consen 68 QSIGRFGIGLKLAIFSLGDRVEVISKTNGES 98 (137)
T ss_dssp GGGGGGTSGCGGGGGGTEEEEEEEEESTTSS
T ss_pred hcCCCcceEHHHHHHHhcCEEEEEEEECCCC
Confidence 467999999 445678899999999876643
No 36
>PRK14083 HSP90 family protein; Provisional
Probab=98.21 E-value=3.3e-06 Score=98.56 Aligned_cols=164 Identities=19% Similarity=0.213 Sum_probs=100.9
Q ss_pred hhHHHHHHHHhhHHHHhc--C----CCCeEEEEE-eC-CCcEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCC
Q 005028 107 LHHLVYEILDNAVDEAQA--G----YASNIEVAL-LA-DNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGS 178 (718)
Q Consensus 107 L~~lv~EIldNAvDe~~a--g----~~~~I~V~l-~~-dg~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~ 178 (718)
-...+.|+|.||.|+... . ....|.|++ +. ...++|+|||.||+.+.... .|+.+-++++-+..
T Consensus 24 ~~iflrELiqNA~DA~~~~~~~~~~~~~~I~I~~~d~~~~~l~I~DnGiGmt~eel~~--------~l~~ig~S~k~~~~ 95 (601)
T PRK14083 24 PRVYVRELLQNAVDAITARRALDPTAPGRIRIELTDAGGGTLIVEDNGIGLTEEEVHE--------FLATIGRSSKRDEN 95 (601)
T ss_pred cHHHHHHHHHhHHHHHHhhhccCCCCCceEEEEEccCCCcEEEEEeCCCCCCHHHHHH--------HHhhhccchhhhhh
Confidence 467899999999999753 1 234899988 53 56799999999999875432 35555556653210
Q ss_pred -CCceeeccCccCCchhHHhhcccceEEEEEeCCEEEEEEEec-CcccccceeeccCCCCCCCCceEEEEEeCccccccc
Q 005028 179 -SSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSR-GKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 256 (718)
Q Consensus 179 -~~~ykvSGGlhGvG~svvNalS~~~~V~v~r~gk~y~q~f~~-G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~~ 256 (718)
...-...-|..|||...+=++++..+|+++..+......|+. |...-.+.. .+ .....+||+|+..+.++.= .
T Consensus 96 ~~~~~~~~IG~FGIGf~S~F~vad~v~V~Tr~~~~~~~~~W~~~~~g~y~i~~--~~-~~~~~~GT~I~L~l~~d~~--~ 170 (601)
T PRK14083 96 LGFARNDFLGQFGIGLLSCFLVADEIVVVSRSAKDGPAVEWRGKADGTYSVRK--LE-TERAEPGTTVYLRPRPDAE--E 170 (601)
T ss_pred hcccccccccccccceEEEEEecCEEEEEeccCCCCceEEEEECCCCceEEEe--CC-CCCCCCCCEEEEEecCchh--h
Confidence 000012349999999999999999999997653233344532 221112211 11 2345799999988643320 1
Q ss_pred cccCHHHHHHHHHHHhhcCCCcEEEEeec
Q 005028 257 IQFDHNTIAGRIRELAFLNPKLTIALRKE 285 (718)
Q Consensus 257 ~~~d~~~i~~Rl~elA~LnpglkI~l~de 285 (718)
-++.+.+++-++..+-.- ...|+++++
T Consensus 171 -~~~~~~i~~li~~ys~~i-~~pI~l~~~ 197 (601)
T PRK14083 171 -WLERETVEELAKKYGSLL-PVPIRVEGE 197 (601)
T ss_pred -hccHHHHHHHHHHHhccC-CCCcccCCc
Confidence 134566666666655332 255666653
No 37
>KOG1979 consensus DNA mismatch repair protein - MLH1 family [Replication, recombination and repair]
Probab=98.17 E-value=4.1e-06 Score=94.18 Aligned_cols=154 Identities=24% Similarity=0.385 Sum_probs=111.6
Q ss_pred hhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCCc--EEEEECCCCccccccCCCCccceeeeeeeeccCCC---CCCCCCc
Q 005028 107 LHHLVYEILDNAVDEAQAGYASNIEVALLADNS--VSVADNGRGIPIDLHPATNKSALETVLTVLHAGGK---FGGSSSG 181 (718)
Q Consensus 107 L~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg~--isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~k---F~~~~~~ 181 (718)
....+.|+|.||+|+ .++.|.|.+..+|- +-|.|||.||--+-.| ++|.-++.+| |.|- .
T Consensus 28 P~NAlKEliENSLDA----~ST~I~V~vk~GGLKLlQisDnG~GI~reDl~---------ilCeRftTSKL~kFEDL--~ 92 (694)
T KOG1979|consen 28 PVNALKELIENSLDA----NSTSIDVLVKDGGLKLLQISDNGSGIRREDLP---------ILCERFTTSKLTKFEDL--F 92 (694)
T ss_pred hHHHHHHHHhccccC----CCceEEEEEecCCeEEEEEecCCCccchhhhH---------HHHHHhhhhhcchhHHH--H
Confidence 467899999999998 48899999986653 7788999999877665 6888888887 5442 1
Q ss_pred eeeccCccCCchhHHhhcccceEEEEEe-CC-EEEEEEEecCcccccceeeccCCCCCCCCceEEEEEeCccccccc---
Q 005028 182 YSVSGGLHGVGLSVVNALSESLEVTVWR-DG-MEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA--- 256 (718)
Q Consensus 182 ykvSGGlhGvG~svvNalS~~~~V~v~r-~g-k~y~q~f~~G~~~~~l~~~~~~~~~~~~~GT~V~F~PD~~iF~~~--- 256 (718)
--.|=|+.|-.++..--.+ ..+|++.+ ++ ..|+..|.+|+-..+. ++..++.||.|+.. ++|=..
T Consensus 93 ~lsTyGFRGEALASiShVA-~VtV~TK~~~~~cayrasY~DGkm~~~p------KpcAgk~GT~I~ve---dLFYN~~~R 162 (694)
T KOG1979|consen 93 SLSTYGFRGEALASISHVA-HVTVTTKTAEGKCAYRASYRDGKMIATP------KPCAGKQGTIITVE---DLFYNMPTR 162 (694)
T ss_pred hhhhcCccHHHHhhhhhee-EEEEEEeecCceeeeEEEeeccccccCC------CCccCCCceEEEeh---HhhccCHHH
Confidence 1234489998888766555 46666665 44 4599999999987443 24467899999976 555210
Q ss_pred ---cc---cCHHHHHHHHHHHhhcCCCcEEEEeec
Q 005028 257 ---IQ---FDHNTIAGRIRELAFLNPKLTIALRKE 285 (718)
Q Consensus 257 ---~~---~d~~~i~~Rl~elA~LnpglkI~l~de 285 (718)
.. =++..|..-+...|.-||++.+.+...
T Consensus 163 rkal~~~~EE~~ki~dlv~ryAIHn~~VsFs~rk~ 197 (694)
T KOG1979|consen 163 RKALRNHAEEYRKIMDLVGRYAIHNPRVSFSLRKQ 197 (694)
T ss_pred HHHhcCcHHHHHHHHHHHHHHheeCCCcceEEeec
Confidence 00 123457777888899999999998764
No 38
>COG0326 HtpG Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=97.83 E-value=0.00032 Score=81.03 Aligned_cols=125 Identities=22% Similarity=0.333 Sum_probs=79.7
Q ss_pred HHHHHHhhHHHHhc-------C-------CCCeEEEEEeCC-CcEEEEECCCCccccccCCCCccceeeeeeeeccCCC-
Q 005028 111 VYEILDNAVDEAQA-------G-------YASNIEVALLAD-NSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGK- 174 (718)
Q Consensus 111 v~EIldNAvDe~~a-------g-------~~~~I~V~l~~d-g~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~k- 174 (718)
++|+|.||.|++.. + .-..|.|..+++ ..++|.|||.|+.-+.... -++++--+|.
T Consensus 32 LRELISNAsDAidKlr~~al~~~~~~~~~~~~~I~i~~Dk~~kTLtI~DNGIGMT~~Ev~~--------~LgTIAkSgT~ 103 (623)
T COG0326 32 LRELISNASDAIDKLRFEALSDPELGEGDSDLRIRISFDKDNKTLTISDNGIGMTKDEVIE--------NLGTIAKSGTK 103 (623)
T ss_pred HHHHHhhhHHHHHHHHHHhccCccccCCCCCceEEEEEcccCCEEEEEeCCCCCCHHHHHH--------HHHHhhhccHH
Confidence 68999999998852 1 124677888865 6899999999998764321 1222222221
Q ss_pred -C----CCCCCceeeccCccCCchhHHhhcccceEEEEEeCC--EEEEEEEe-cCcccccceeeccCCCCCCC-CceEEE
Q 005028 175 -F----GGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDG--MEYHQKYS-RGKPVTTLTCHVLPVDSKDR-QGTRIR 245 (718)
Q Consensus 175 -F----~~~~~~ykvSGGlhGvG~svvNalS~~~~V~v~r~g--k~y~q~f~-~G~~~~~l~~~~~~~~~~~~-~GT~V~ 245 (718)
| ..+. .-..--|+.|||.-.+=+.|++.+|.++..| ..| .|+ +|...-.+... .... +||+|+
T Consensus 104 ~F~~~l~~~~-~~~~lIGQFGVGFYSaFmVAdkV~V~T~~~~~~~~~--~W~S~g~g~ytv~~~-----~~~~~~GT~I~ 175 (623)
T COG0326 104 EFLESLSEDQ-KDSDLIGQFGVGFYSAFMVADKVTVITRSAGEDEAY--HWESDGEGEYTVEDI-----DKEPRRGTEIT 175 (623)
T ss_pred HHHHHhcccc-ccccccccccchhhheeeeeeeEEEEeccCCCCcce--EEEEcCCCceEEeec-----cCCCCCCcEEE
Confidence 1 1110 0122359999999999999999999998766 344 664 56655444332 2334 699999
Q ss_pred EEeCcc
Q 005028 246 FWPDKQ 251 (718)
Q Consensus 246 F~PD~~ 251 (718)
..+-++
T Consensus 176 L~Lk~~ 181 (623)
T COG0326 176 LHLKEE 181 (623)
T ss_pred EEECCc
Confidence 764443
No 39
>PTZ00272 heat shock protein 83 kDa (Hsp83); Provisional
Probab=97.74 E-value=6.1e-05 Score=89.20 Aligned_cols=158 Identities=23% Similarity=0.329 Sum_probs=92.5
Q ss_pred HHHHHHHHhhHHHHhc------------CCCCe--EEEEEeC-CCcEEEEECCCCccccccCCCCccceeeeeeee-ccC
Q 005028 109 HLVYEILDNAVDEAQA------------GYASN--IEVALLA-DNSVSVADNGRGIPIDLHPATNKSALETVLTVL-HAG 172 (718)
Q Consensus 109 ~lv~EIldNAvDe~~a------------g~~~~--I~V~l~~-dg~isV~DnGrGIPv~~~~~~g~~~~E~v~t~l-hag 172 (718)
-.++|+|.||.|++.. +.... |.|..+. ...++|.|||.||+-+.... .|+++ ++|
T Consensus 28 iflRELIsNA~DA~~k~r~~~l~~~~~~~~~~~~~I~i~~d~~~~~L~I~DnGiGMt~edl~~--------~LgtIa~SG 99 (701)
T PTZ00272 28 IFLRELISNASDACDKIRYQSLTDPSVLGESPRLCIRVVPDKENKTLTVEDNGIGMTKADLVN--------NLGTIARSG 99 (701)
T ss_pred HhHHHHHhhHHHHHHHHHHHhcCCchhcCCCCceEEEEEEcCCCCEEEEEECCCCCCHHHHHH--------Hhhhhhhcc
Confidence 3479999999999642 12233 4444443 35799999999999765322 13333 334
Q ss_pred CC-CCC--CCCceeeccCccCCchhHHhhcccceEEEEEeCC-EEEEEEEecCcccccceeeccCCCCCCCCceEEEEEe
Q 005028 173 GK-FGG--SSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDG-MEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWP 248 (718)
Q Consensus 173 ~k-F~~--~~~~ykvSGGlhGvG~svvNalS~~~~V~v~r~g-k~y~q~f~~G~~~~~l~~~~~~~~~~~~~GT~V~F~P 248 (718)
++ |-. ....-...-|+.|||.-.+=.+++..+|+++..+ ..|..+. +|...-.+... + .....+||+|+..+
T Consensus 100 t~~f~~~~~~~~~~~~iGqFGvGfyS~Fmvad~V~V~Srs~~~~~~~W~s-~~~g~y~i~~~--~-~~~~~~GT~I~L~L 175 (701)
T PTZ00272 100 TKAFMEALEAGGDMSMIGQFGVGFYSAYLVADRVTVTSKNNSDESYVWES-SAGGTFTITST--P-ESDMKRGTRITLHL 175 (701)
T ss_pred hHHHHHHhhccCCccccCCCCcceEEEEEeccEEEEEEecCCCceEEEEE-CCCCcEEEEeC--C-CCCCCCCCEEEEEE
Confidence 43 310 0001134569999999999999999999987543 3444443 33322222211 1 22346899999776
Q ss_pred CccccccccccCHHHHHHHHHHHh-hcCCCcEEEEe
Q 005028 249 DKQVFTTAIQFDHNTIAGRIRELA-FLNPKLTIALR 283 (718)
Q Consensus 249 D~~iF~~~~~~d~~~i~~Rl~elA-~LnpglkI~l~ 283 (718)
..+-- . -++...|..-++..+ |+. .-|++.
T Consensus 176 k~d~~--e-f~~~~~i~~li~kYs~fi~--~PI~l~ 206 (701)
T PTZ00272 176 KEDQM--E-YLEPRRLKELIKKHSEFIG--YDIELM 206 (701)
T ss_pred CCchH--H-hccHHHHHHHHHHhccccC--cceEEe
Confidence 54421 1 145667777777766 342 445553
No 40
>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=97.69 E-value=9.5e-05 Score=63.46 Aligned_cols=79 Identities=29% Similarity=0.453 Sum_probs=54.4
Q ss_pred hhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCC---cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCcee
Q 005028 107 LHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYS 183 (718)
Q Consensus 107 L~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg---~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~yk 183 (718)
|.+++.|+|+||++.... ....|.|.+..++ .|.|.|+|.|+|....+.. +..+ . +. ..+
T Consensus 1 l~~~~~~ll~Na~~~~~~-~~~~v~i~~~~~~~~~~v~i~d~g~g~~~~~~~~~--------~~~~-~--~~-----~~~ 63 (103)
T cd00075 1 LQQVLLNLLSNAIKHTPE-GGGRITISVERDGDHLEIRVEDNGPGIPEEDLERI--------FERF-S--DG-----SRS 63 (103)
T ss_pred CHHHHHHHHHHHHHhCcC-CCCeEEEEEEecCCEEEEEEEeCCCCCCHHHHHHH--------hhhh-h--cC-----CCC
Confidence 468899999999998654 2356777777543 4889999999987654321 1111 1 11 223
Q ss_pred eccCccCCchhHHhhcccc
Q 005028 184 VSGGLHGVGLSVVNALSES 202 (718)
Q Consensus 184 vSGGlhGvG~svvNalS~~ 202 (718)
...+.+|+|+++++.++..
T Consensus 64 ~~~~~~g~gl~~~~~~~~~ 82 (103)
T cd00075 64 RKGGGTGLGLSIVKKLVEL 82 (103)
T ss_pred CCCCccccCHHHHHHHHHH
Confidence 4456799999999999984
No 41
>PRK14939 gyrB DNA gyrase subunit B; Provisional
Probab=97.57 E-value=6.9e-06 Score=97.68 Aligned_cols=49 Identities=12% Similarity=0.076 Sum_probs=45.8
Q ss_pred ceEeeccCCCChhhHH-hhhcCccceeeeeeccccHHHHHHHHHHhcCCCc
Q 005028 648 IQRFKGLGEMMPVQLW-ETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARV 697 (718)
Q Consensus 648 ikryKGLGem~~~ql~-ett~dp~~r~l~~v~~~d~~~~~~~f~~lmg~~~ 697 (718)
||| ||||||+|+|+| ||||||.+|++.++.++|..+++.+|+.+||+.+
T Consensus 575 ~~~-~~l~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~ 624 (756)
T PRK14939 575 ISG-EALEKLVKEYRAVRKIIDRLERRYPRAVLEALIYAPALDLDDLADEA 624 (756)
T ss_pred ccH-HHHHHHHHHHHHHHHHHhHHhccccHHHHHHHHhccccchhhhcchh
Confidence 789 999999999999 9999999999999999999889999999999543
No 42
>smart00387 HATPase_c Histidine kinase-like ATPases. Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Probab=97.29 E-value=0.00051 Score=59.86 Aligned_cols=84 Identities=30% Similarity=0.404 Sum_probs=56.4
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCC-C--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCc
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~d-g--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~ 181 (718)
.-|.+++.|+++||++.... ...|.|.+..+ + .+.|.|+|+|++.+..+. ++.....+..
T Consensus 4 ~~l~~~~~~l~~n~~~~~~~--~~~v~i~~~~~~~~~~i~i~d~g~g~~~~~~~~--------~~~~~~~~~~------- 66 (111)
T smart00387 4 DRLRQVLSNLLDNAIKYTPE--GGRITVTLERDGDHLEITVEDNGPGIPPEDLEK--------IFEPFFRTDG------- 66 (111)
T ss_pred HHHHHHHHHHHHHHHhcCCC--CCeEEEEEEEcCCEEEEEEEeCCCCCCHHHHHH--------HhcCeEECCC-------
Confidence 34788999999999997654 25677777743 3 488999999998754332 2222221111
Q ss_pred eeeccCccCCchhHHhhcccceEE
Q 005028 182 YSVSGGLHGVGLSVVNALSESLEV 205 (718)
Q Consensus 182 ykvSGGlhGvG~svvNalS~~~~V 205 (718)
.....+.+|+|+++++.+++.+..
T Consensus 67 ~~~~~~~~g~gl~~~~~~~~~~~g 90 (111)
T smart00387 67 RSRKIGGTGLGLSIVKKLVELHGG 90 (111)
T ss_pred CCCCCCcccccHHHHHHHHHHcCC
Confidence 123345689999999999988743
No 43
>PTZ00130 heat shock protein 90; Provisional
Probab=97.29 E-value=0.0009 Score=79.96 Aligned_cols=158 Identities=21% Similarity=0.305 Sum_probs=93.5
Q ss_pred HHHHHHHhhHHHHhc------------C--CCCeEEEEEeC-CCcEEEEECCCCccccccCCCCccceeeeeeeeccCCC
Q 005028 110 LVYEILDNAVDEAQA------------G--YASNIEVALLA-DNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGK 174 (718)
Q Consensus 110 lv~EIldNAvDe~~a------------g--~~~~I~V~l~~-dg~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~k 174 (718)
.++|+|.||.|+... + ..-.|.|..+. .+.++|.|||-||.-+.... -+.|-.++|++
T Consensus 92 FLRELISNAsDAldKlr~~~lt~~~~~~~~~~~~I~I~~D~~~~tLtI~DnGIGMT~eEl~~-------nLgTIA~Sgt~ 164 (814)
T PTZ00130 92 FLRELISNAADALEKIRFLSLSDESVLGEEKKLEIRISANKEKNILSITDTGIGMTKEDLIN-------NLGTIAKSGTS 164 (814)
T ss_pred eeehHhhhHHHHHHHHHHHHcCCchhcCCCCCceEEEEECCCCCEEEEEECCCCCCHHHHHH-------HhhhhcccccH
Confidence 368999999998741 1 12356666664 46799999999999765321 12222233322
Q ss_pred -C----CCCCCceeeccCccCCchhHHhhcccceEEEEEeCC-EEEEEEEe-cCcccccceeeccCCCCCCCCceEEEEE
Q 005028 175 -F----GGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDG-MEYHQKYS-RGKPVTTLTCHVLPVDSKDRQGTRIRFW 247 (718)
Q Consensus 175 -F----~~~~~~ykvSGGlhGvG~svvNalS~~~~V~v~r~g-k~y~q~f~-~G~~~~~l~~~~~~~~~~~~~GT~V~F~ 247 (718)
| .... .-..--|+.|||.-.+=++++..+|+++..+ ..|. |+ .|...-.+... +.+....+||+|+..
T Consensus 165 ~F~~~l~~~~-~~~~lIGQFGVGFYSaFmVAdkV~V~Trs~~~~~~~--W~s~g~g~y~I~e~--~~~~~~~rGT~I~Lh 239 (814)
T PTZ00130 165 NFLEAISKSG-GDMSLIGQFGVGFYSAFLVADKVIVYTKNNNDEQYI--WESTADAKFTIYKD--PRGSTLKRGTRISLH 239 (814)
T ss_pred HHHHHhhccC-CCcccccccccchhheeeecCEEEEEEcCCCCceEE--EEECCCCcEEEEEC--CCCCCCCCCcEEEEE
Confidence 3 1100 1123459999999999999999999998644 3344 43 23322222111 112234799999987
Q ss_pred eCccccccccccCHHHHHHHHHHHh-hcCCCcEEEEee
Q 005028 248 PDKQVFTTAIQFDHNTIAGRIRELA-FLNPKLTIALRK 284 (718)
Q Consensus 248 PD~~iF~~~~~~d~~~i~~Rl~elA-~LnpglkI~l~d 284 (718)
+..+-= . -++...|+.-++..+ |+. .-|++.+
T Consensus 240 Lked~~--e-fl~~~~ik~likkYS~fI~--~PI~l~~ 272 (814)
T PTZ00130 240 LKEDAT--N-LMNDKKLVDLISKYSQFIQ--YPIYLLH 272 (814)
T ss_pred ECCchh--h-hccHHHHHHHHHHhhccCC--CCEEEcc
Confidence 654321 1 146677777777777 343 3455543
No 44
>KOG1977 consensus DNA mismatch repair protein - MLH3 family [Replication, recombination and repair]
Probab=97.18 E-value=0.00019 Score=82.29 Aligned_cols=170 Identities=21% Similarity=0.318 Sum_probs=107.7
Q ss_pred hhCCCeeeccCCCCchhHHHHHHHHhhHHHHhcCCCCeEEEEEe-CCCcEEEEECCCCccccccCCCCccceeeeeeeec
Q 005028 92 RKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALL-ADNSVSVADNGRGIPIDLHPATNKSALETVLTVLH 170 (718)
Q Consensus 92 rkRPgMYIGs~~~~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~-~dg~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lh 170 (718)
+.|.|.-| ..|.++|.|++-||+|+ .++.|.|.++ ..-+|.|.|||.|+.-+-.. .++.-.
T Consensus 12 ~lrSg~~~-----~sla~~VeElv~NSiDA----~At~V~v~V~~~t~sv~ViDdG~G~~rdDl~---------~lg~ry 73 (1142)
T KOG1977|consen 12 KLRSGLAI-----SSLAQCVEELVLNSIDA----EATCVAVRVNMETFSVQVIDDGFGMGRDDLE---------KLGNRY 73 (1142)
T ss_pred HHhccchH-----HHHHHHHHHHHhhcccc----CceEEEEEecCceeEEEEEecCCCccHHHHH---------HHHhhh
Confidence 44555553 34788999999999998 4899999998 56789999999999876432 355556
Q ss_pred cCCCCCCCC-CceeeccCccCCchhHHhhcccceEEEEEeCCE---EEEEEEecCcccccceeeccCCCCCCCCceEEEE
Q 005028 171 AGGKFGGSS-SGYSVSGGLHGVGLSVVNALSESLEVTVWRDGM---EYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRF 246 (718)
Q Consensus 171 ag~kF~~~~-~~ykvSGGlhGvG~svvNalS~~~~V~v~r~gk---~y~q~f~~G~~~~~l~~~~~~~~~~~~~GT~V~F 246 (718)
+.+||.... -.---+=|..|-.++.+--.|. +.|.+...|. .+.-.|..|....-+.. . ......||+|+.
T Consensus 74 ~TSK~h~~ndl~~~~tyGfRGeALasIsd~s~-l~v~skkk~r~~~~~~kk~~~gs~~~~l~i---D-~~R~~sGTtVtV 148 (1142)
T KOG1977|consen 74 FTSKCHSVNDLENPRTYGFRGEALASISDMSS-LVVISKKKNRTMKTFVKKFQSGSALKALEI---D-VTRASSGTTVTV 148 (1142)
T ss_pred hhhhceeccccccccccccchhhhhhhhhhhh-hhhhhhhcCCchhHHHHHHhccccceeccc---c-cccccCCcEEEe
Confidence 667764210 0112233788877776666664 4444433221 11113334444333311 1 234568999996
Q ss_pred EeCccccc----------cccccCHHHHHHHHHHHhhcCCCcEEEEeecCC
Q 005028 247 WPDKQVFT----------TAIQFDHNTIAGRIRELAFLNPKLTIALRKEDS 287 (718)
Q Consensus 247 ~PD~~iF~----------~~~~~d~~~i~~Rl~elA~LnpglkI~l~der~ 287 (718)
. +.|= ++...-++.|++|+..+|.+.|.+.+.+.+...
T Consensus 149 ~---dlfY~lPVRRr~k~~~P~k~fe~Ik~~i~~i~lmHp~iSfsv~~~~s 196 (1142)
T KOG1977|consen 149 Y---DLFYQLPVRRRLKCMDPRKEFEKIKQRIEAISLMHPSISFSVRNDVS 196 (1142)
T ss_pred H---HhhhcchhhhhhhcCCHHHHHHHHHHHHHHHHhhccceeEEEEeccC
Confidence 5 3331 111123578999999999999999999876543
No 45
>PF13581 HATPase_c_2: Histidine kinase-like ATPase domain
Probab=97.15 E-value=0.0023 Score=59.24 Aligned_cols=90 Identities=27% Similarity=0.312 Sum_probs=62.2
Q ss_pred chhHHHHHHHHhhHHHHhcCCC-CeEEEEEeC--CC-cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCc
Q 005028 106 GLHHLVYEILDNAVDEAQAGYA-SNIEVALLA--DN-SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag~~-~~I~V~l~~--dg-~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~ 181 (718)
-+.-.+.|++.||+.++..+.. ..|.|.+.. ++ .|+|+|+|.|+|....+.......
T Consensus 31 ~~~lav~E~~~Nav~H~~~~~~~~~v~v~~~~~~~~l~i~v~D~G~~~d~~~~~~~~~~~~------------------- 91 (125)
T PF13581_consen 31 DLELAVSEALTNAVEHGYPGDPDGPVDVRLEVDPDRLRISVRDNGPGFDPEQLPQPDPWEP------------------- 91 (125)
T ss_pred HHHHHHHHHHHHHHHHcCCCCCCcEEEEEEEEcCCEEEEEEEECCCCCChhhccCcccccC-------------------
Confidence 3566789999999999876543 568777664 33 499999999988765443211000
Q ss_pred eeeccCccCCchhHHhhcccceEEEEEeCCEEEEEE
Q 005028 182 YSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQK 217 (718)
Q Consensus 182 ykvSGGlhGvG~svvNalS~~~~V~v~r~gk~y~q~ 217 (718)
......|.|+.++..|+..+.+ ...+|+..+++
T Consensus 92 --~~~~~~G~Gl~li~~l~D~~~~-~~~~gn~v~l~ 124 (125)
T PF13581_consen 92 --DSLREGGRGLFLIRSLMDEVDY-REDGGNTVTLR 124 (125)
T ss_pred --CCCCCCCcCHHHHHHHHcEEEE-ECCCeEEEEEE
Confidence 1224579999999999999988 44455555544
No 46
>COG3920 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=96.97 E-value=0.0032 Score=65.09 Aligned_cols=95 Identities=26% Similarity=0.420 Sum_probs=67.9
Q ss_pred CCeeeccCCCCchhHHHHHHHHhhHHHHhc-CCCCeEEEEEe--CCC---cEEEEECCCCccccccCCCCccceeeeeee
Q 005028 95 PAMYIGSTGPRGLHHLVYEILDNAVDEAQA-GYASNIEVALL--ADN---SVSVADNGRGIPIDLHPATNKSALETVLTV 168 (718)
Q Consensus 95 PgMYIGs~~~~gL~~lv~EIldNAvDe~~a-g~~~~I~V~l~--~dg---~isV~DnGrGIPv~~~~~~g~~~~E~v~t~ 168 (718)
|..+++....-.|.-+|.|++.||+-.+.- +....|.|++. .++ ..+|||||.|+|++..+
T Consensus 111 ~~~~l~~d~A~~Lgliv~EL~tNa~Khaf~~~~~G~I~I~~~~~~~~~~~~l~v~deg~G~~~~~~~------------- 177 (221)
T COG3920 111 PNVFLDPDTAVPLGLIVHELVTNALKHAFLSRPGGEIRITLSREGDGGRFLLTVWDEGGGPPVEAPL------------- 177 (221)
T ss_pred CceEECchhhHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEEEEcCCCCeEEEEEEECCCCCCCCCCC-------------
Confidence 335555555577889999999999998864 35678888877 344 59999999999986321
Q ss_pred eccCCCCCCCCCceeeccCccCCchhHHhhcc-cceE--EEEE-eCCEEEEEEEec
Q 005028 169 LHAGGKFGGSSSGYSVSGGLHGVGLSVVNALS-ESLE--VTVW-RDGMEYHQKYSR 220 (718)
Q Consensus 169 lhag~kF~~~~~~ykvSGGlhGvG~svvNalS-~~~~--V~v~-r~gk~y~q~f~~ 220 (718)
...|+|..+|+.+. +.+. ++.+ .+|-.|.++|..
T Consensus 178 ------------------~~~g~G~~Lv~~lv~~q~~g~~~~~~~~Gt~~~i~~~~ 215 (221)
T COG3920 178 ------------------SRGGFGLQLVERLVPEQLGGELEDERPDGTEFRLRFPL 215 (221)
T ss_pred ------------------CCCCcHHHHHHHHHHHHcCCeEEEEcCCCEEEEEEEec
Confidence 13588999999998 5543 3333 357777777753
No 47
>PRK04069 serine-protein kinase RsbW; Provisional
Probab=96.93 E-value=0.003 Score=61.90 Aligned_cols=93 Identities=22% Similarity=0.208 Sum_probs=59.7
Q ss_pred CchhHHHHHHHHhhHHHHhcCC-CCeEEEEEeC-CC--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCC
Q 005028 105 RGLHHLVYEILDNAVDEAQAGY-ASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 180 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~-~~~I~V~l~~-dg--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~ 180 (718)
..+.-++.|++.||+.++..+. ...|.|.+.. ++ .|.|+|+|.|+|.+..+. .+.. +...+..
T Consensus 41 ~~l~lav~Ea~~Nai~Hg~~~~~~~~I~I~~~~~~~~l~i~V~D~G~g~d~~~~~~--------~~~p-~~~~~~~---- 107 (161)
T PRK04069 41 EDMKIAVSEACTNAVQHAYKEDEVGEIHIRFEIYEDRLEIVVADNGVSFDYETLKS--------KLGP-YDISKPI---- 107 (161)
T ss_pred HHHHHHHHHHHHHHHHhccCCCCCCeEEEEEEEECCEEEEEEEECCcCCChHHhcc--------ccCC-CCCCCcc----
Confidence 3467789999999999987643 4567777763 33 499999999998654322 0110 0001100
Q ss_pred ceeeccCccCCchhHHhhcccceEEEEEeCCEEE
Q 005028 181 GYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEY 214 (718)
Q Consensus 181 ~ykvSGGlhGvG~svvNalS~~~~V~v~r~gk~y 214 (718)
....-+|.|+.++..|+..+.+.. .+|...
T Consensus 108 ---~~~~~~G~GL~li~~l~d~v~~~~-~~G~~v 137 (161)
T PRK04069 108 ---EDLREGGLGLFLIETLMDDVTVYK-DSGVTV 137 (161)
T ss_pred ---cccCCCceeHHHHHHHHHhEEEEc-CCCcEE
Confidence 011235899999999999887764 355443
No 48
>TIGR02938 nifL_nitrog nitrogen fixation negative regulator NifL. NifL is a modulator of the nitrogen fixation positive regulator protein NifA, and is therefore a negative regulator. It binds NifA. NifA and NifL are encoded by adjacent genes.
Probab=96.88 E-value=0.0027 Score=71.06 Aligned_cols=81 Identities=28% Similarity=0.407 Sum_probs=54.9
Q ss_pred chhHHHHHHHHhhHHHHhcCC--CCeEEEEEeC-CC--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCC
Q 005028 106 GLHHLVYEILDNAVDEAQAGY--ASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 180 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag~--~~~I~V~l~~-dg--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~ 180 (718)
-|..++.+++.||++....+. ...|.|.... ++ .++|.|||.|||.+..+. +|....+ +|-
T Consensus 387 ~l~~vl~Nl~~NAik~~~~~~~~~~~i~i~~~~~~~~~~~~V~D~G~Gi~~~~~~~--------iF~~f~~-~~~----- 452 (494)
T TIGR02938 387 QLRSLFKALVDNAIEAMNIKGWKRRELSITTALNGDLIVVSILDSGPGIPQDLRYK--------VFEPFFT-TKG----- 452 (494)
T ss_pred HHHHHHHHHHHHHHHHhhccCCCcceEEEEEEecCCEEEEEEEeCCCCCCHHHHHH--------hcCCCcc-cCC-----
Confidence 378899999999999876542 3457776653 33 499999999999876542 4443221 110
Q ss_pred ceeeccCccCCchhHHhhcccce
Q 005028 181 GYSVSGGLHGVGLSVVNALSESL 203 (718)
Q Consensus 181 ~ykvSGGlhGvG~svvNalS~~~ 203 (718)
. . ..| .|+|+++|.-+.+.+
T Consensus 453 ~-~-~~G-~GlGL~i~~~iv~~~ 472 (494)
T TIGR02938 453 G-S-RKH-IGMGLSVAQEIVADH 472 (494)
T ss_pred C-C-CCC-CcccHHHHHHHHHHc
Confidence 0 1 123 899999999888755
No 49
>TIGR01386 cztS_silS_copS heavy metal sensor kinase. Members of this family contain a sensor histidine kinase domain (Pfam:PF00512) and a domain found in bacterial signal proteins (Pfam:PF00672). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc.
Probab=96.79 E-value=0.0023 Score=71.36 Aligned_cols=82 Identities=24% Similarity=0.354 Sum_probs=51.2
Q ss_pred chhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCC---cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCce
Q 005028 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 182 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg---~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~y 182 (718)
-|..++.++|+||+++... ...|.|.+..++ .|+|.|||.|||.+..+. +|-..+.+.+ .-
T Consensus 353 ~l~~~~~nll~Nai~~~~~--~~~I~i~~~~~~~~~~i~v~D~G~g~~~~~~~~--------~~~~~~~~~~------~~ 416 (457)
T TIGR01386 353 MFRRAISNLLSNALRHTPD--GGTITVRIERRSDEVRVSVSNPGPGIPPEHLSR--------LFDRFYRVDP------AR 416 (457)
T ss_pred HHHHHHHHHHHHHHHcCCC--CceEEEEEEecCCEEEEEEEeCCCCCCHHHHHH--------hccccccCCc------cc
Confidence 3566677777777766422 357999888654 499999999999875432 3333222211 00
Q ss_pred eeccCccCCchhHHhhcccce
Q 005028 183 SVSGGLHGVGLSVVNALSESL 203 (718)
Q Consensus 183 kvSGGlhGvG~svvNalS~~~ 203 (718)
....+-+|+|++.+.-+.+.+
T Consensus 417 ~~~~~g~GlGL~i~~~~~~~~ 437 (457)
T TIGR01386 417 SNSGEGTGLGLAIVRSIMEAH 437 (457)
T ss_pred CCCCCCccccHHHHHHHHHHC
Confidence 111234899999998877653
No 50
>TIGR01925 spIIAB anti-sigma F factor. This model describes the SpoIIAB anti-sigma F factor. Sigma F regulates spore development in B subtilis. SpoIIAB binds to sigma F, preventing formation of the transcription complex at the promoter. SpoIIAA (anti-anti-sigma F factor) binds to SpoIIAB to inhibit association with sigma F, however SpoIIAB can phosphorylate SpoIIAA, causing disassociation of the SpoIIAA/B complex. The SpoIIE phosphatase dephosphorylates SpoIIAA.
Probab=96.74 E-value=0.0092 Score=56.17 Aligned_cols=82 Identities=18% Similarity=0.233 Sum_probs=51.8
Q ss_pred CchhHHHHHHHHhhHHHHhc-CCCCeEEEEEeC-CC--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCC
Q 005028 105 RGLHHLVYEILDNAVDEAQA-GYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 180 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~a-g~~~~I~V~l~~-dg--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~ 180 (718)
..+..++.|++.||+.++.. .....|.|.+.. ++ .++|.|+|.|||.... +|.....+ .
T Consensus 38 ~~l~~~l~eli~Nai~h~~~~~~~~~I~v~~~~~~~~~~i~I~D~G~gi~~~~~----------~~~~~~~~-----~-- 100 (137)
T TIGR01925 38 TDIKTAVSEAVTNAIIHGYEENCEGVVYISATIEDHEVYITVRDEGIGIENLEE----------AREPLYTS-----K-- 100 (137)
T ss_pred HHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEeCCEEEEEEEEcCCCcCchhH----------hhCCCccc-----C--
Confidence 46778899999999976433 224578888774 33 3889999999983110 11111111 0
Q ss_pred ceeeccCccCCchhHHhhcccceEEE
Q 005028 181 GYSVSGGLHGVGLSVVNALSESLEVT 206 (718)
Q Consensus 181 ~ykvSGGlhGvG~svvNalS~~~~V~ 206 (718)
-.++.+|+|+++++.+...+.++
T Consensus 101 ---~~~~~~GlGL~lv~~~~~~l~~~ 123 (137)
T TIGR01925 101 ---PELERSGMGFTVMENFMDDVSVD 123 (137)
T ss_pred ---CCCCCCcccHHHHHHhCCcEEEE
Confidence 01234799999999877654443
No 51
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=96.73 E-value=0.0026 Score=72.82 Aligned_cols=77 Identities=29% Similarity=0.416 Sum_probs=54.0
Q ss_pred chhHHHHHHHHhhHHHHhcCCCCeEEEEEeC-CC--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCce
Q 005028 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 182 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~-dg--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~y 182 (718)
-|.+++.++++||+++........|.|.+.. ++ .++|.|||.|||.+..+. +|.. | |
T Consensus 433 ~l~~vl~nLl~NAi~~~~~~~~~~I~i~~~~~~~~~~i~V~D~G~gi~~~~~~~--------iF~~------~------~ 492 (542)
T PRK11086 433 ELITILGNLIENALEAVGGEEGGEISVSLHYRNGWLHCEVSDDGPGIAPDEIDA--------IFDK------G------Y 492 (542)
T ss_pred HHHHHHHHHHHHHHHHhhcCCCcEEEEEEEEcCCEEEEEEEECCCCCCHHHHHH--------HHhC------C------C
Confidence 4778899999999998654445678888874 33 488999999999865431 3322 1 1
Q ss_pred eeccCccCCchhHHhhcccc
Q 005028 183 SVSGGLHGVGLSVVNALSES 202 (718)
Q Consensus 183 kvSGGlhGvG~svvNalS~~ 202 (718)
...++-+|+|+++|.-+.+.
T Consensus 493 ~~~~~g~GlGL~iv~~iv~~ 512 (542)
T PRK11086 493 STKGSNRGVGLYLVKQSVEN 512 (542)
T ss_pred ccCCCCCcCcHHHHHHHHHH
Confidence 11233489999998887654
No 52
>PRK10604 sensor protein RstB; Provisional
Probab=96.63 E-value=0.0047 Score=69.59 Aligned_cols=80 Identities=25% Similarity=0.409 Sum_probs=49.8
Q ss_pred chhHHHHHHHHhhHHHHhcCCCCeEEEEEeC--CC-cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCce
Q 005028 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLA--DN-SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 182 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~--dg-~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~y 182 (718)
-+..++..+|.||+..+ .+.|.|.+.. +. .|+|+|||.|||.+..+. +|-....+.+ .-
T Consensus 319 ~l~~vl~NLl~NAik~~----~~~I~I~~~~~~~~~~I~V~D~G~Gi~~e~~~~--------if~~f~r~~~------~~ 380 (433)
T PRK10604 319 LMERVLDNLLNNALRYA----HSRVRVSLLLDGNQACLIVEDDGPGIPPEERER--------VFEPFVRLDP------SR 380 (433)
T ss_pred HHHHHHHHHHHHHHHhC----CCeEEEEEEEECCEEEEEEEEcCCCCCHHHHhh--------cCCCCccCCC------CC
Confidence 46677777777777653 3567777763 22 489999999999875432 4433222111 11
Q ss_pred eeccCccCCchhHHhhcccce
Q 005028 183 SVSGGLHGVGLSVVNALSESL 203 (718)
Q Consensus 183 kvSGGlhGvG~svvNalS~~~ 203 (718)
....|-+|+|+++|.-+.+++
T Consensus 381 ~~~~~g~GLGL~ivk~i~~~~ 401 (433)
T PRK10604 381 DRATGGCGLGLAIVHSIALAM 401 (433)
T ss_pred CCCCCCccchHHHHHHHHHHC
Confidence 112234799999998877755
No 53
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=96.60 E-value=0.0053 Score=70.81 Aligned_cols=81 Identities=23% Similarity=0.398 Sum_probs=55.0
Q ss_pred CchhHHHHHHHHhhHHHHhcC--CCCeEEEEEeCC-C--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCC
Q 005028 105 RGLHHLVYEILDNAVDEAQAG--YASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSS 179 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag--~~~~I~V~l~~d-g--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~ 179 (718)
..|..++.++|+||+++.... ....|.|.+..+ + .++|.|||.|||.+..+. +|...+++ +
T Consensus 431 ~~l~~vl~nLl~NAi~~~~~~~~~~~~i~i~~~~~~~~~~i~V~D~G~Gi~~~~~~~--------iF~~~~~t-k----- 496 (545)
T PRK15053 431 TEFAAIVGNLLDNAFEASLRSDEGNKIVELFLSDEGDDVVIEVADQGCGVPESLRDK--------IFEQGVST-R----- 496 (545)
T ss_pred HHHHHHHHHHHHHHHHHHhhCCCCCceEEEEEEECCCEEEEEEEeCCCCcCHHHHHH--------HhCCCCCC-C-----
Confidence 457889999999999987542 246788888743 3 489999999999875431 34322211 1
Q ss_pred CceeeccCccCCchhHHhhcccc
Q 005028 180 SGYSVSGGLHGVGLSVVNALSES 202 (718)
Q Consensus 180 ~~ykvSGGlhGvG~svvNalS~~ 202 (718)
. +-. |-+|+|+++|.-+.+.
T Consensus 497 -~-~~~-~g~GlGL~ivk~iv~~ 516 (545)
T PRK15053 497 -A-DEP-GEHGIGLYLIASYVTR 516 (545)
T ss_pred -C-CCC-CCceeCHHHHHHHHHH
Confidence 0 111 3389999999887664
No 54
>PRK10364 sensor protein ZraS; Provisional
Probab=96.55 E-value=0.0047 Score=69.81 Aligned_cols=76 Identities=26% Similarity=0.384 Sum_probs=51.2
Q ss_pred chhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCC---cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCce
Q 005028 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 182 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg---~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~y 182 (718)
-|.+++..+|+||++.+.. ...|.|.+..++ .|+|+|||.|||.+..+. +|.... .
T Consensus 348 ~l~~il~NLl~NA~k~~~~--~~~I~i~~~~~~~~~~i~V~D~G~Gi~~~~~~~--------if~~~~------~----- 406 (457)
T PRK10364 348 RLTQVLLNLYLNAIQAIGQ--HGVISVTASESGAGVKISVTDSGKGIAADQLEA--------IFTPYF------T----- 406 (457)
T ss_pred HHHHHHHHHHHHHHHhcCC--CCeEEEEEEEeCCeEEEEEEECCCCCCHHHHHH--------HhCccc------c-----
Confidence 4677788888888886532 457888877432 499999999999875331 332211 1
Q ss_pred eeccCccCCchhHHhhcccce
Q 005028 183 SVSGGLHGVGLSVVNALSESL 203 (718)
Q Consensus 183 kvSGGlhGvG~svvNalS~~~ 203 (718)
..++-+|+|+++|.-+.+.+
T Consensus 407 -~k~~g~GlGL~iv~~~v~~~ 426 (457)
T PRK10364 407 -TKAEGTGLGLAVVHNIVEQH 426 (457)
T ss_pred -CCCCCCcccHHHHHHHHHHC
Confidence 11223899999999888754
No 55
>PRK03660 anti-sigma F factor; Provisional
Probab=96.53 E-value=0.017 Score=54.86 Aligned_cols=83 Identities=18% Similarity=0.270 Sum_probs=52.3
Q ss_pred CchhHHHHHHHHhhHHHHhcCCC-CeEEEEEeC-CC--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCC
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYA-SNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 180 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~-~~I~V~l~~-dg--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~ 180 (718)
.-+..++.|++.||+.++..+.. ..|.|.+.. ++ .++|.|+|.|||.... ++..+..+ .
T Consensus 38 ~~l~~~l~eli~Nai~h~~~~~~~~~i~i~~~~~~~~l~i~I~D~G~g~~~~~~----------~~~~~~~~-----~-- 100 (146)
T PRK03660 38 TEIKTAVSEAVTNAIIHGYENNPDGVVYIEVEIEEEELEITVRDEGKGIEDIEE----------AMQPLYTT-----K-- 100 (146)
T ss_pred HhHHHHHHHHHHHHHHHhcCCCCCCEEEEEEEECCCEEEEEEEEccCCCChHHH----------hhCCCccc-----C--
Confidence 34667889999999977654332 567777763 33 4899999999985211 11111111 0
Q ss_pred ceeeccCccCCchhHHhhcccceEEEE
Q 005028 181 GYSVSGGLHGVGLSVVNALSESLEVTV 207 (718)
Q Consensus 181 ~ykvSGGlhGvG~svvNalS~~~~V~v 207 (718)
-..+..|+|++++..+.+.+.++.
T Consensus 101 ---~~~~~~GlGL~i~~~~~~~i~~~~ 124 (146)
T PRK03660 101 ---PELERSGMGFTVMESFMDEVEVES 124 (146)
T ss_pred ---CCCCCccccHHHHHHhCCeEEEEe
Confidence 011236999999998887655543
No 56
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=96.46 E-value=0.003 Score=71.91 Aligned_cols=78 Identities=32% Similarity=0.513 Sum_probs=58.4
Q ss_pred chhHHHHHHHHhhHHHHhcCC-CCeEEEEEeCCC---cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCc
Q 005028 106 GLHHLVYEILDNAVDEAQAGY-ASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag~-~~~I~V~l~~dg---~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~ 181 (718)
-+-.++--+||||+|+..++. ..+|.+.+..+| .|+|.|+|.|||.+..+. +| +. .
T Consensus 427 ~litIlGNLidNA~eA~~~~~~~k~I~l~i~~~~~~lvieV~D~G~GI~~~~~~~--------iF---------e~---G 486 (537)
T COG3290 427 DLVTILGNLIDNALEALLAPEENKEIELSLSDRGDELVIEVADTGPGIPPEVRDK--------IF---------EK---G 486 (537)
T ss_pred HHHHHHHHHHHHHHHHhhccCCCcEEEEEEEecCCEEEEEEeCCCCCCChHHHHH--------HH---------hc---C
Confidence 355778899999999988654 478999999655 399999999999875431 22 21 3
Q ss_pred eeecc-CccCCchhHHhhcccce
Q 005028 182 YSVSG-GLHGVGLSVVNALSESL 203 (718)
Q Consensus 182 ykvSG-GlhGvG~svvNalS~~~ 203 (718)
|.+-+ +-||+|+.+|-.+-+.+
T Consensus 487 ~Stk~~~~rGiGL~Lvkq~V~~~ 509 (537)
T COG3290 487 VSTKNTGGRGIGLYLVKQLVERL 509 (537)
T ss_pred ccccCCCCCchhHHHHHHHHHHc
Confidence 33334 77999999999887765
No 57
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=96.36 E-value=0.0057 Score=68.63 Aligned_cols=83 Identities=27% Similarity=0.332 Sum_probs=52.8
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCC-C--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCc
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~d-g--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~ 181 (718)
.-|.+++..+|+||++....| ..|.|.+..+ + .++|.|||.|||.+..+. +|-......+ .
T Consensus 316 ~~l~~vl~NLl~NAik~~~~~--~~I~i~~~~~~~~~~i~V~D~G~Gi~~~~~~~--------if~~f~~~~~------~ 379 (430)
T PRK11006 316 DQLRSAISNLVYNAVNHTPEG--THITVRWQRVPQGAEFSVEDNGPGIAPEHIPR--------LTERFYRVDK------A 379 (430)
T ss_pred HHHHHHHHHHHHHHHhcCCCC--CeEEEEEEEcCCEEEEEEEEcCCCCCHHHHHH--------hccCcccccC------C
Confidence 457888889999998875433 4677776643 2 499999999999876432 3332222111 1
Q ss_pred eeeccCccCCchhHHhhcccce
Q 005028 182 YSVSGGLHGVGLSVVNALSESL 203 (718)
Q Consensus 182 ykvSGGlhGvG~svvNalS~~~ 203 (718)
.....|-.|+|+++|..+.+.+
T Consensus 380 ~~~~~~G~GLGL~ivk~iv~~~ 401 (430)
T PRK11006 380 RSRQTGGSGLGLAIVKHALSHH 401 (430)
T ss_pred CCCCCCCCchHHHHHHHHHHHC
Confidence 1111234799999998877643
No 58
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=96.33 E-value=0.0051 Score=72.88 Aligned_cols=117 Identities=25% Similarity=0.314 Sum_probs=74.0
Q ss_pred ccCCCCCCCCcccceec--cchhhHhhCCCeee-ccCCCCch------hHHHHHHHHhhHHHHh--cCCCCeEEEEEeCC
Q 005028 69 KENPVSKTYGSEQIQVL--EGLEAVRKRPAMYI-GSTGPRGL------HHLVYEILDNAVDEAQ--AGYASNIEVALLAD 137 (718)
Q Consensus 69 ~~~~~~~~Y~~~~i~~L--~~lE~VrkRPgMYI-Gs~~~~gL------~~lv~EIldNAvDe~~--ag~~~~I~V~l~~d 137 (718)
++...+-+++-..+..+ +-+++++||..-|- =-..+..| -.|+-.+|-|-+|++. ++.+++|.|....+
T Consensus 725 ~sG~~~l~~~~~~veEvVg~Al~r~~k~~~~~~i~v~~~~dl~li~~D~~LieQVLiNLleNA~Kyap~~s~I~I~~~~~ 804 (890)
T COG2205 725 QSGGVNLKLDWVLVEEVVGEALQRLRKRFTGHKIVVSVPVDLPLIHVDSPLIEQVLINLLENALKYAPPGSEIRINAGVE 804 (890)
T ss_pred hcCCcccccchhhHHHHHHHHHHHhhhhcCCceEEEecCCCCceEecCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEEEe
Confidence 33344444444333322 23666666654332 11112222 2566777777777776 47788888887743
Q ss_pred C---cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCceeeccCccCCchhHHhhccc
Q 005028 138 N---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSE 201 (718)
Q Consensus 138 g---~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~ykvSGGlhGvG~svvNalS~ 201 (718)
+ .++|+|+|+|||.+.-+ .||-....++|+++. .| -|+|+++|-.+=+
T Consensus 805 ~~~v~~~V~DeGpGIP~~~~~--------~IFD~F~r~~~~~~~-------~G-~GLGLsIc~~iv~ 855 (890)
T COG2205 805 RENVVFSVIDEGPGIPEGELE--------RIFDKFYRGNKESAT-------RG-VGLGLAICRGIVE 855 (890)
T ss_pred cceEEEEEEeCCCCCChhHHH--------HhhhhhhcCCCCCCC-------CC-ccccHHHHHHHHH
Confidence 3 48999999999987643 489999999997642 23 5889999887654
No 59
>PRK10337 sensor protein QseC; Provisional
Probab=96.31 E-value=0.0078 Score=67.50 Aligned_cols=77 Identities=29% Similarity=0.395 Sum_probs=48.7
Q ss_pred hhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCCcEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCceeecc
Q 005028 107 LHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSG 186 (718)
Q Consensus 107 L~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~ykvSG 186 (718)
+..++..+|+||+..... ...|.|.+..+ .++|.|||.|||.+..+. +|.....+.. ..++
T Consensus 353 l~~vl~Nli~NA~k~~~~--~~~i~i~~~~~-~i~i~D~G~Gi~~~~~~~--------if~~f~~~~~--------~~~~ 413 (449)
T PRK10337 353 LSLLVRNLLDNAIRYSPQ--GSVVDVTLNAR-NFTVRDNGPGVTPEALAR--------IGERFYRPPG--------QEAT 413 (449)
T ss_pred HHHHHHHHHHHHHhhCCC--CCeEEEEEEee-EEEEEECCCCCCHHHHHH--------hcccccCCCC--------CCCC
Confidence 455666666666665432 34677777644 799999999999764332 3333221110 1122
Q ss_pred CccCCchhHHhhcccce
Q 005028 187 GLHGVGLSVVNALSESL 203 (718)
Q Consensus 187 GlhGvG~svvNalS~~~ 203 (718)
| +|+|+++|..+.+..
T Consensus 414 g-~GlGL~iv~~i~~~~ 429 (449)
T PRK10337 414 G-SGLGLSIVRRIAKLH 429 (449)
T ss_pred c-cchHHHHHHHHHHHc
Confidence 3 899999999988765
No 60
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=96.26 E-value=0.012 Score=63.57 Aligned_cols=77 Identities=23% Similarity=0.393 Sum_probs=50.6
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCC-------------CcEEEEECCCCccccccCCCCccceeeeeeeecc
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-------------NSVSVADNGRGIPIDLHPATNKSALETVLTVLHA 171 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~d-------------g~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lha 171 (718)
.-|.+++..+|+||++... .....|.|.+... -.++|.|||.|||.+..+. +|...+
T Consensus 236 ~~l~~vl~nLl~NA~~~~~-~~~~~i~i~~~~~~~~~~~~~~~~~~~~i~v~D~G~Gi~~~~~~~--------iF~~~~- 305 (348)
T PRK11073 236 DQIEQVLLNIVRNALQALG-PEGGTITLRTRTAFQLTLHGERYRLAARIDIEDNGPGIPPHLQDT--------LFYPMV- 305 (348)
T ss_pred HHHHHHHHHHHHHHHHHhc-cCCCeEEEEEccccccccCCccCCceEEEEEEeCCCCCCHHHHhh--------ccCCcc-
Confidence 4578888999999998753 2356677765421 1488999999999875432 332211
Q ss_pred CCCCCCCCCceeeccCccCCchhHHhhcccc
Q 005028 172 GGKFGGSSSGYSVSGGLHGVGLSVVNALSES 202 (718)
Q Consensus 172 g~kF~~~~~~ykvSGGlhGvG~svvNalS~~ 202 (718)
....+-+|+|+++|.-+.+.
T Consensus 306 -----------~~~~~g~GlGL~i~~~iv~~ 325 (348)
T PRK11073 306 -----------SGREGGTGLGLSIARNLIDQ 325 (348)
T ss_pred -----------cCCCCCccCCHHHHHHHHHH
Confidence 11123379999999887764
No 61
>TIGR01924 rsbW_low_gc serine-protein kinase RsbW. This model describes the anti-sigma B factor also known as serine-protein kinase RsbW. Sigma B controls the general stress regulon in B subtilis and is activated by cell stresses such as stationary phase and heat shock. RsbW binds to sigma B and prevents formation of the transcription complex at the promoter. RsbV (anti-anti-sigma factor) binds to RsbW to inhibit association with sigma B, however RsbW can phosphorylate RsbV, causing disassociation of the RsbV/RsbW complex. Low ATP level or environmental stress causes the dephosphorylation of RsbV.
Probab=96.17 E-value=0.034 Score=54.39 Aligned_cols=94 Identities=22% Similarity=0.305 Sum_probs=59.8
Q ss_pred chhHHHHHHHHhhHHHHhcC-CCCeEEEEEeC-CC--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCc
Q 005028 106 GLHHLVYEILDNAVDEAQAG-YASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag-~~~~I~V~l~~-dg--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~ 181 (718)
.+.-++.|++.||+.++..+ ....|.|.+.. ++ .|+|+|+|.|+|....+.. +... .+.. ..+ .
T Consensus 42 ~l~lav~Ea~~Nai~ha~~~~~~~~I~I~~~~~~~~l~i~V~D~G~gfd~~~~~~~--------~~~~-~~~~-~~~--~ 109 (159)
T TIGR01924 42 DLKIAVSEACTNAVKHAYKEGENGEIGISFHIYEDRLEIIVSDQGDSFDMDTFKQS--------LGPY-DGSE-PID--D 109 (159)
T ss_pred HHHHHHHHHHHHHHHhccCCCCCCeEEEEEEEeCCEEEEEEEEcccccCchhhccc--------cCCC-CCCC-Ccc--c
Confidence 46668999999999998753 34578887763 33 3789999999987643321 1100 0000 000 1
Q ss_pred eeeccCccCCchhHHhhcccceEEEEEeCCEEEEE
Q 005028 182 YSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQ 216 (718)
Q Consensus 182 ykvSGGlhGvG~svvNalS~~~~V~v~r~gk~y~q 216 (718)
. .-+|.|+.++..|+..+.++. .+|....+
T Consensus 110 ~----~~~G~GL~Li~~L~D~v~~~~-~~G~~l~l 139 (159)
T TIGR01924 110 L----REGGLGLFLIETLMDEVEVYE-DSGVTVAM 139 (159)
T ss_pred C----CCCccCHHHHHHhccEEEEEe-CCCEEEEE
Confidence 1 125899999999999888764 45544333
No 62
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional
Probab=96.01 E-value=0.0078 Score=67.67 Aligned_cols=82 Identities=18% Similarity=0.306 Sum_probs=51.1
Q ss_pred chhHHHHHHHHhhHHHHhcCCCCeEEEEEeC-CC--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCce
Q 005028 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 182 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~-dg--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~y 182 (718)
-+.+++.++|+||+..... ...|.|.+.. ++ .|+|.|||.|||.+..+. +|.....+.+ . ..
T Consensus 352 ~l~qvl~nll~NAi~~~~~--~~~I~i~~~~~~~~~~i~V~D~G~Gi~~e~~~~--------lf~~~~~~~~---~--~~ 416 (466)
T PRK10549 352 RLMQLFNNLLENSLRYTDS--GGSLHISAEQRDKTLRLTFADSAPGVSDEQLQK--------LFERFYRTEG---S--RN 416 (466)
T ss_pred HHHHHHHHHHHHHHHhCCC--CCEEEEEEEEcCCEEEEEEEecCCCcCHHHHHH--------hccCcccCCC---C--cC
Confidence 3566777777777776433 3578888774 33 488999999999765432 3433322211 0 11
Q ss_pred eeccCccCCchhHHhhcccce
Q 005028 183 SVSGGLHGVGLSVVNALSESL 203 (718)
Q Consensus 183 kvSGGlhGvG~svvNalS~~~ 203 (718)
+.+ |-+|+|+++|..+.+.+
T Consensus 417 ~~~-~g~GlGL~iv~~i~~~~ 436 (466)
T PRK10549 417 RAS-GGSGLGLAICLNIVEAH 436 (466)
T ss_pred CCC-CCCcHHHHHHHHHHHHc
Confidence 222 34799999998877654
No 63
>PRK09303 adaptive-response sensory kinase; Validated
Probab=95.98 E-value=0.013 Score=65.01 Aligned_cols=81 Identities=22% Similarity=0.370 Sum_probs=49.9
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEe--CCC--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCC
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALL--ADN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 180 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~--~dg--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~ 180 (718)
.-+.+++..+|+||+..... ...|.|.+. .++ .|+|.|||.|||.+..+. +|........ +
T Consensus 271 ~~l~qvl~NLl~NAik~~~~--~~~I~i~~~~~~~~~v~i~V~D~G~GI~~~~~~~--------iF~pf~~~~~-~---- 335 (380)
T PRK09303 271 ERIRQVLLNLLDNAIKYTPE--GGTITLSMLHRTTQKVQVSICDTGPGIPEEEQER--------IFEDRVRLPR-D---- 335 (380)
T ss_pred HHHHHHHHHHHHHHHhcCCC--CceEEEEEEecCCCEEEEEEEEcCCCCCHHHHHH--------HccCceeCCC-C----
Confidence 34678888888888876543 346777653 233 489999999999875321 3322211111 1
Q ss_pred ceeeccCccCCchhHHhhcccce
Q 005028 181 GYSVSGGLHGVGLSVVNALSESL 203 (718)
Q Consensus 181 ~ykvSGGlhGvG~svvNalS~~~ 203 (718)
... +-.|+|+++|.-+.+.+
T Consensus 336 --~~~-~G~GLGL~i~~~iv~~~ 355 (380)
T PRK09303 336 --EGT-EGYGIGLSVCRRIVRVH 355 (380)
T ss_pred --CCC-CcccccHHHHHHHHHHc
Confidence 011 23899999988877643
No 64
>PRK09835 sensor kinase CusS; Provisional
Probab=95.84 E-value=0.015 Score=65.69 Aligned_cols=82 Identities=21% Similarity=0.284 Sum_probs=49.9
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeC-CC--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCc
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~-dg--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~ 181 (718)
.-+.+++.++|+||+..... ...|.|.+.. ++ .|+|.|||.|||.+..+. +|.....+.. .
T Consensus 374 ~~l~~vl~nll~Na~~~~~~--~~~I~i~~~~~~~~~~i~v~d~G~gi~~~~~~~--------if~~f~~~~~------~ 437 (482)
T PRK09835 374 LMLRRAISNLLSNALRYTPA--GEAITVRCQEVDHQVQLVVENPGTPIAPEHLPR--------LFDRFYRVDP------S 437 (482)
T ss_pred HHHHHHHHHHHHHHHhcCCC--CCeEEEEEEEeCCEEEEEEEECCCCcCHHHHHH--------HhCCcccCCC------C
Confidence 34777788888888876533 3467777764 23 499999999999765331 3322221111 1
Q ss_pred eeeccCccCCchhHHhhcccc
Q 005028 182 YSVSGGLHGVGLSVVNALSES 202 (718)
Q Consensus 182 ykvSGGlhGvG~svvNalS~~ 202 (718)
-....+-+|+|++.|..+-+.
T Consensus 438 ~~~~~~g~GlGL~i~~~i~~~ 458 (482)
T PRK09835 438 RQRKGEGSGIGLAIVKSIVVA 458 (482)
T ss_pred CCCCCCCcchHHHHHHHHHHH
Confidence 111223379999988776654
No 65
>PRK09467 envZ osmolarity sensor protein; Provisional
Probab=95.83 E-value=0.021 Score=63.63 Aligned_cols=78 Identities=21% Similarity=0.317 Sum_probs=49.1
Q ss_pred chhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCC---cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCce
Q 005028 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 182 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg---~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~y 182 (718)
-|..++..+|+||+... ...|.|++..++ .|+|.|||.|||.+..+. +|.....+. . .
T Consensus 331 ~l~~il~NLl~NA~k~~----~~~i~i~~~~~~~~~~i~V~D~G~Gi~~~~~~~--------~~~~f~~~~----~--~- 391 (435)
T PRK09467 331 AIKRALANLVVNAARYG----NGWIKVSSGTEGKRAWFQVEDDGPGIPPEQLKH--------LFQPFTRGD----S--A- 391 (435)
T ss_pred HHHHHHHHHHHHHHHhC----CCeEEEEEEecCCEEEEEEEecCCCcCHHHHHH--------hcCCcccCC----C--C-
Confidence 35666777777777653 467888887543 499999999999764321 333222111 1 1
Q ss_pred eeccCccCCchhHHhhcccce
Q 005028 183 SVSGGLHGVGLSVVNALSESL 203 (718)
Q Consensus 183 kvSGGlhGvG~svvNalS~~~ 203 (718)
+. ++-+|+|+++|..+.+.+
T Consensus 392 ~~-~~g~GlGL~iv~~i~~~~ 411 (435)
T PRK09467 392 RG-SSGTGLGLAIVKRIVDQH 411 (435)
T ss_pred CC-CCCeehhHHHHHHHHHHC
Confidence 11 234899999999888754
No 66
>PRK09470 cpxA two-component sensor protein; Provisional
Probab=95.76 E-value=0.019 Score=64.23 Aligned_cols=79 Identities=23% Similarity=0.397 Sum_probs=49.6
Q ss_pred chhHHHHHHHHhhHHHHhcCCCCeEEEEEeC-CC--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCce
Q 005028 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 182 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~-dg--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~y 182 (718)
-+.+++.++|+||+... .+.|.|.+.. ++ .++|+|||.|||.+..+. +|...+.+.+ ..
T Consensus 353 ~l~~~l~nli~NA~~~~----~~~i~i~~~~~~~~~~i~V~D~G~Gi~~~~~~~--------if~~~~~~~~------~~ 414 (461)
T PRK09470 353 ALASALENIVRNALRYS----HTKIEVAFSVDKDGLTITVDDDGPGVPEEEREQ--------IFRPFYRVDE------AR 414 (461)
T ss_pred HHHHHHHHHHHHHHHhC----CCcEEEEEEEECCEEEEEEEECCCCCCHHHHHH--------hcCCCccCCc------cc
Confidence 36777888888888764 3467777663 33 489999999999875332 4443332221 11
Q ss_pred eeccCccCCchhHHhhcccc
Q 005028 183 SVSGGLHGVGLSVVNALSES 202 (718)
Q Consensus 183 kvSGGlhGvG~svvNalS~~ 202 (718)
....+-.|+|++.|+-+-+.
T Consensus 415 ~~~~~g~GlGL~iv~~~v~~ 434 (461)
T PRK09470 415 DRESGGTGLGLAIVENAIQQ 434 (461)
T ss_pred CCCCCCcchhHHHHHHHHHH
Confidence 11223469999998876653
No 67
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=95.65 E-value=0.025 Score=65.09 Aligned_cols=51 Identities=24% Similarity=0.404 Sum_probs=40.8
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCC---cEEEEECCCCccccccC
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDLHP 155 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg---~isV~DnGrGIPv~~~~ 155 (718)
-=|.+++--+|.||+|+...-.-..|.|.+-+++ .|+|.|||+|||.+.-+
T Consensus 496 iRLeQVLvNLl~NALDA~~~~~~~~i~i~~~~~~~~v~l~VrDnGpGi~~e~~~ 549 (603)
T COG4191 496 IRLEQVLVNLLQNALDAMAGQEDRRLSIRAQREGGQVVLTVRDNGPGIAPEALP 549 (603)
T ss_pred hhHHHHHHHHHHHHHHHhcCCCCCeeEEEEEecCCeEEEEEccCCCCCCHHHHH
Confidence 3588999999999999654444677999888543 49999999999998643
No 68
>PRK11100 sensory histidine kinase CreC; Provisional
Probab=95.62 E-value=0.024 Score=63.46 Aligned_cols=81 Identities=23% Similarity=0.310 Sum_probs=50.8
Q ss_pred chhHHHHHHHHhhHHHHhcCCCCeEEEEEeC-CC--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCce
Q 005028 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 182 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~-dg--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~y 182 (718)
-|..++.++|.||+... +..+.|.|++.. ++ .++|+|||.|||.+..+. +|.........+
T Consensus 368 ~l~~vl~nli~Na~~~~--~~~~~i~i~~~~~~~~~~i~i~D~G~Gi~~~~~~~--------i~~~~~~~~~~~------ 431 (475)
T PRK11100 368 LLRQALGNLLDNAIDFS--PEGGTITLSAEVDGEQVALSVEDQGPGIPDYALPR--------IFERFYSLPRPA------ 431 (475)
T ss_pred HHHHHHHHHHHHHHHhC--CCCCEEEEEEEEcCCEEEEEEEECCCCCCHHHHHH--------HHHHHccCCCCC------
Confidence 46677788888888764 234678888874 33 399999999999764321 332222111101
Q ss_pred eeccCccCCchhHHhhcccce
Q 005028 183 SVSGGLHGVGLSVVNALSESL 203 (718)
Q Consensus 183 kvSGGlhGvG~svvNalS~~~ 203 (718)
+ ..+-+|+|+..|+-+.+.+
T Consensus 432 ~-~~~~~GlGL~i~~~~~~~~ 451 (475)
T PRK11100 432 N-GRKSTGLGLAFVREVARLH 451 (475)
T ss_pred C-CCCCcchhHHHHHHHHHHC
Confidence 1 1234799999999888654
No 69
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=95.52 E-value=0.038 Score=63.33 Aligned_cols=76 Identities=28% Similarity=0.430 Sum_probs=49.5
Q ss_pred chhHHHHHHHHhhHHHHhcCCCCeEEEEEeC--C--CcEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCc
Q 005028 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLA--D--NSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~--d--g~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~ 181 (718)
-|..++.+++.||+..... ...|.|.+.. + -.++|.|||+|||.+.... +|-. |
T Consensus 500 ~l~~~~~nli~na~~~~~~--~~~i~v~~~~~~~~~~~i~v~D~G~G~~~~~~~~--------~f~~------~------ 557 (607)
T PRK11360 500 LLKQVLLNILINAVQAISA--RGKIRIRTWQYSDGQVAVSIEDNGCGIDPELLKK--------IFDP------F------ 557 (607)
T ss_pred HHHHHHHHHHHHHHHHhcC--CCeEEEEEEEcCCCEEEEEEEeCCCCCCHHHHhh--------hcCC------c------
Confidence 3677888888888876533 4567777752 2 3599999999999875321 2211 1
Q ss_pred eeeccCccCCchhHHhhcccce
Q 005028 182 YSVSGGLHGVGLSVVNALSESL 203 (718)
Q Consensus 182 ykvSGGlhGvG~svvNalS~~~ 203 (718)
|...++-.|+|+..++-+-+.+
T Consensus 558 ~~~~~~g~glGL~~~~~~~~~~ 579 (607)
T PRK11360 558 FTTKAKGTGLGLALSQRIINAH 579 (607)
T ss_pred eeCCCCCCchhHHHHHHHHHHc
Confidence 1112234799999998877643
No 70
>TIGR03785 marine_sort_HK proteobacterial dedicated sortase system histidine kinase. This histidine kinase protein is paired with an adjacent response regulator (TIGR03787) gene. It co-occurs with a variant sortase enzyme (TIGR03784), usually in the same gene neighborhood, in proteobacterial species most of which are marine, and with an LPXTG motif-containing sortase target conserved protein (TIGR03788). Sortases and LPXTG proteins are far more common in Gram-positive bacteria, where sortase systems mediate attachment to the cell wall or cross-linking of pilin structures. We give this predicted sensor histidine kinase the gene symbol psdS, for Proteobacterial Dedicated Sortase system Sensor histidine kinase.
Probab=95.49 E-value=0.021 Score=68.72 Aligned_cols=83 Identities=19% Similarity=0.315 Sum_probs=52.4
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCC-C--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCc
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~d-g--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~ 181 (718)
.-|.+++..+|+||++.... ...|.|.+..+ + .|+|.|||.|||.+..+. +|....++..-.
T Consensus 596 ~~L~~il~NLI~NAik~s~~--~~~I~I~~~~~~~~v~I~V~D~G~GI~~e~~~~--------IFe~F~t~~~~~----- 660 (703)
T TIGR03785 596 ELIAQMLDKLVDNAREFSPE--DGLIEVGLSQNKSHALLTVSNEGPPLPEDMGEQ--------LFDSMVSVRDQG----- 660 (703)
T ss_pred HHHHHHHHHHHHHHHHHCCC--CCeEEEEEEEcCCEEEEEEEEcCCCCCHHHHHH--------HhCCCeecCCCC-----
Confidence 34677777888888876533 34588887743 3 489999999999875432 443332221111
Q ss_pred eeeccCccCCchhHHhhcccce
Q 005028 182 YSVSGGLHGVGLSVVNALSESL 203 (718)
Q Consensus 182 ykvSGGlhGvG~svvNalS~~~ 203 (718)
...++-+|+|+++|.-+.+.+
T Consensus 661 -~~~~~g~GLGL~Ivr~Iv~~~ 681 (703)
T TIGR03785 661 -AQDQPHLGLGLYIVRLIADFH 681 (703)
T ss_pred -CCCCCCccHHHHHHHHHHHHc
Confidence 111223799999999888754
No 71
>TIGR02966 phoR_proteo phosphate regulon sensor kinase PhoR. Members of this protein family are the regulatory histidine kinase PhoR associated with the phosphate ABC transporter in most Proteobacteria. Related proteins from Gram-positive organisms are not included in this model. The phoR gene usually is adjacent to the response regulator phoB gene (TIGR02154).
Probab=95.35 E-value=0.032 Score=58.95 Aligned_cols=82 Identities=23% Similarity=0.298 Sum_probs=51.4
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeC-CC--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCc
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~-dg--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~ 181 (718)
.-|..++.++|.||++.... ...|.|.+.. ++ .++|.|||.|||.+..+. +|.......+ .
T Consensus 228 ~~l~~vl~nll~Nai~~~~~--~~~i~i~~~~~~~~~~i~i~d~G~gi~~~~~~~--------if~~~~~~~~------~ 291 (333)
T TIGR02966 228 DELRSAFSNLVSNAIKYTPE--GGTITVRWRRDGGGAEFSVTDTGIGIAPEHLPR--------LTERFYRVDK------S 291 (333)
T ss_pred HHHHHHHHHHHHHhheeCCC--CCeEEEEEEEcCCEEEEEEEecCCCCCHHHHhh--------hccCceecCc------c
Confidence 34677888999998876433 3568877763 33 489999999999875432 3322211110 0
Q ss_pred eeeccCccCCchhHHhhcccc
Q 005028 182 YSVSGGLHGVGLSVVNALSES 202 (718)
Q Consensus 182 ykvSGGlhGvG~svvNalS~~ 202 (718)
.....+-.|+|+++++-+.+.
T Consensus 292 ~~~~~~g~glGL~~~~~~~~~ 312 (333)
T TIGR02966 292 RSRDTGGTGLGLAIVKHVLSR 312 (333)
T ss_pred cccCCCCCcccHHHHHHHHHH
Confidence 111123369999998887764
No 72
>PRK10815 sensor protein PhoQ; Provisional
Probab=95.33 E-value=0.041 Score=63.32 Aligned_cols=75 Identities=25% Similarity=0.445 Sum_probs=44.9
Q ss_pred hhHHHHHHHHhhHHHHhcCCCCeEEEEEeC-CC--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCcee
Q 005028 107 LHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYS 183 (718)
Q Consensus 107 L~~lv~EIldNAvDe~~ag~~~~I~V~l~~-dg--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~yk 183 (718)
+..++..+|+||++.. ...|.|.+.. ++ .|+|.|||.|||.+..+. +|.....+ + .
T Consensus 379 l~~vl~NLi~NAik~~----~~~i~I~~~~~~~~v~I~V~D~G~GI~~e~~~~--------iF~~f~~~-----~----~ 437 (485)
T PRK10815 379 FMEVMGNVLDNACKYC----LEFVEISARQTDEHLHIVVEDDGPGIPESKREL--------IFDRGQRA-----D----T 437 (485)
T ss_pred HHHHHHHHHHHHHHhc----CCcEEEEEEEeCCEEEEEEEECCCCcCHHHHHH--------HhCCcccC-----C----C
Confidence 4555566666665543 2346666653 33 489999999999875432 34321111 1 0
Q ss_pred eccCccCCchhHHhhcccce
Q 005028 184 VSGGLHGVGLSVVNALSESL 203 (718)
Q Consensus 184 vSGGlhGvG~svvNalS~~~ 203 (718)
..+| +|+|+++|.-+.+..
T Consensus 438 ~~~G-~GLGL~Ivk~iv~~~ 456 (485)
T PRK10815 438 LRPG-QGLGLSVAREITEQY 456 (485)
T ss_pred CCCC-cchhHHHHHHHHHHc
Confidence 1123 799999998887654
No 73
>PRK11644 sensory histidine kinase UhpB; Provisional
Probab=95.29 E-value=0.066 Score=61.85 Aligned_cols=44 Identities=27% Similarity=0.419 Sum_probs=33.6
Q ss_pred chhHHHHHHHHhhHHHHhcCCCCeEEEEEeCC-C--cEEEEECCCCcccc
Q 005028 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPID 152 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~d-g--~isV~DnGrGIPv~ 152 (718)
.+.+++.|+++||+.++. ++.|.|++..+ + .++|.|||.|||.+
T Consensus 410 ~L~ril~nlL~NAiKha~---~~~I~I~l~~~~~~i~l~V~DnG~Gi~~~ 456 (495)
T PRK11644 410 TLFRVCQEGLNNIVKHAD---ASAVTLQGWQQDERLMLVIEDDGSGLPPG 456 (495)
T ss_pred HHHHHHHHHHHHHHHhCC---CCEEEEEEEEcCCEEEEEEEECCCCCCcC
Confidence 467788888898888753 45788887743 3 39999999999854
No 74
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=95.24 E-value=0.039 Score=60.02 Aligned_cols=77 Identities=23% Similarity=0.311 Sum_probs=47.8
Q ss_pred chhHHHHHHHHhhHHHHhcCCCCeEEEEEeCC-C--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCce
Q 005028 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 182 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~d-g--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~y 182 (718)
-+..++..+|+||+.... ..+.|.|.+..+ + .++|+|||.|||.+..+. +|..... ++
T Consensus 247 ~l~~il~nLi~NA~k~~~--~~~~I~I~~~~~~~~~~i~V~D~G~Gi~~~~~~~--------if~~f~~---~~------ 307 (356)
T PRK10755 247 LLRLLLRNLVENAHRYSP--EGSTITIKLSQEDGGAVLAVEDEGPGIDESKCGE--------LSKAFVR---MD------ 307 (356)
T ss_pred HHHHHHHHHHHHHHhhCC--CCCcEEEEEEEcCCEEEEEEEECCCCCCHHHHHH--------hCCCeEe---CC------
Confidence 355677777777776642 245788887643 3 489999999999875432 2221110 11
Q ss_pred eeccCccCCchhHHhhcccc
Q 005028 183 SVSGGLHGVGLSVVNALSES 202 (718)
Q Consensus 183 kvSGGlhGvG~svvNalS~~ 202 (718)
..++-.|+|++.|.-+.+.
T Consensus 308 -~~~~g~GlGL~i~~~i~~~ 326 (356)
T PRK10755 308 -SRYGGIGLGLSIVSRITQL 326 (356)
T ss_pred -CCCCCcCHHHHHHHHHHHH
Confidence 0123368999988877764
No 75
>COG3850 NarQ Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]
Probab=95.13 E-value=0.034 Score=63.33 Aligned_cols=46 Identities=41% Similarity=0.582 Sum_probs=38.2
Q ss_pred hhHHHHHHHHhhHHHHhcCCCCeEEEEEeC-CC--cEEEEECCCCccccccC
Q 005028 107 LHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHP 155 (718)
Q Consensus 107 L~~lv~EIldNAvDe~~ag~~~~I~V~l~~-dg--~isV~DnGrGIPv~~~~ 155 (718)
+..|+.|.+.||+-++ .++.|+|+++. +| .++|+|||.|||...+|
T Consensus 482 lLqIvREAlsNa~KHa---~As~i~V~~~~~~g~~~~~VeDnG~Gi~~~~e~ 530 (574)
T COG3850 482 LLQIVREALSNAIKHA---QASEIKVTVSQNDGQVTLTVEDNGVGIDEAAEP 530 (574)
T ss_pred HHHHHHHHHHHHHHhc---ccCeEEEEEEecCCeEEEEEeeCCcCCCCccCC
Confidence 5678999999999988 46899999984 35 58999999999987544
No 76
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=95.03 E-value=0.036 Score=68.17 Aligned_cols=77 Identities=22% Similarity=0.412 Sum_probs=50.9
Q ss_pred chhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCC---cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCce
Q 005028 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 182 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg---~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~y 182 (718)
-|.+++..+|.||++.... ..|.|.+..++ .++|.|||.|||.+..+. +|.....+ +
T Consensus 513 ~l~~il~NLl~NAik~~~~---g~I~i~~~~~~~~~~i~V~D~G~Gi~~~~~~~--------if~~f~~~-~-------- 572 (921)
T PRK15347 513 RLRQILVNLLGNAVKFTET---GGIRLRVKRHEQQLCFTVEDTGCGIDIQQQQQ--------IFTPFYQA-D-------- 572 (921)
T ss_pred HHHHHHHHHHHHHhhcCCC---CCEEEEEEEcCCEEEEEEEEcCCCCCHHHHHH--------HhcCcccC-C--------
Confidence 4677888888888876533 35888877433 489999999999875332 33322111 0
Q ss_pred eeccCccCCchhHHhhcccce
Q 005028 183 SVSGGLHGVGLSVVNALSESL 203 (718)
Q Consensus 183 kvSGGlhGvG~svvNalS~~~ 203 (718)
...|-.|+|+++|+-+.+.+
T Consensus 573 -~~~~g~GLGL~i~~~~~~~~ 592 (921)
T PRK15347 573 -THSQGTGLGLTIASSLAKMM 592 (921)
T ss_pred -CCCCCCchHHHHHHHHHHHc
Confidence 11233799999999888765
No 77
>PRK10490 sensor protein KdpD; Provisional
Probab=94.95 E-value=0.051 Score=67.23 Aligned_cols=81 Identities=28% Similarity=0.435 Sum_probs=52.3
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCC-C--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCc
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~d-g--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~ 181 (718)
.-|.+++..+|+||+..... .+.|.|.+..+ + .++|.|||.|||.+..+ -+|.....+.+ .
T Consensus 777 ~~L~qVL~NLL~NAik~s~~--g~~I~I~~~~~~~~v~I~V~D~G~GI~~e~~~--------~IFepF~~~~~-~----- 840 (895)
T PRK10490 777 PLFERVLINLLENAVKYAGA--QAEIGIDAHVEGERLQLDVWDNGPGIPPGQEQ--------LIFDKFARGNK-E----- 840 (895)
T ss_pred HHHHHHHHHHHHHHHHhCCC--CCeEEEEEEEeCCEEEEEEEECCCCCCHHHHH--------HhcCCCccCCC-C-----
Confidence 34677888888888876433 45687777743 3 48999999999987533 24543332211 1
Q ss_pred eeeccCccCCchhHHhhcccce
Q 005028 182 YSVSGGLHGVGLSVVNALSESL 203 (718)
Q Consensus 182 ykvSGGlhGvG~svvNalS~~~ 203 (718)
...+| .|+|+++|..+.+.+
T Consensus 841 -~~~~G-~GLGL~Ivk~ive~h 860 (895)
T PRK10490 841 -SAIPG-VGLGLAICRAIVEVH 860 (895)
T ss_pred -CCCCC-ccHHHHHHHHHHHHc
Confidence 11123 799999998887654
No 78
>PRK13560 hypothetical protein; Provisional
Probab=94.89 E-value=0.075 Score=63.84 Aligned_cols=46 Identities=33% Similarity=0.509 Sum_probs=36.1
Q ss_pred hhHHHHHHHHhhHHHHhcC-CCCeEEEEEeCC--C--cEEEEECCCCcccc
Q 005028 107 LHHLVYEILDNAVDEAQAG-YASNIEVALLAD--N--SVSVADNGRGIPID 152 (718)
Q Consensus 107 L~~lv~EIldNAvDe~~ag-~~~~I~V~l~~d--g--~isV~DnGrGIPv~ 152 (718)
+..++.++|.||++.+..+ ....|.|.+... + .++|.|||.|||.+
T Consensus 712 ~~~il~NLl~NAik~~~~~~~~~~i~i~~~~~~~~~v~i~V~D~G~GI~~~ 762 (807)
T PRK13560 712 CGLIISELLSNALKHAFPDGAAGNIKVEIREQGDGMVNLCVADDGIGLPAG 762 (807)
T ss_pred hHHHHHHHHHHHHHhhccCCCCceEEEEEEEcCCCEEEEEEEeCCCcCCcc
Confidence 4568899999999987644 456788888743 3 38999999999975
No 79
>TIGR02916 PEP_his_kin putative PEP-CTERM system histidine kinase. Members of this protein family have a novel N-terminal domain, a single predicted membrane-spanning helix, and a predicted cystosolic histidine kinase domain. We designate this protein PrsK, and its companion DNA-binding response regulator protein (TIGR02915) PrsR. These predicted signal-transducing proteins appear to enable enhancer-dependent transcriptional activation. The prsK gene is often associated with exopolysaccharide biosynthesis genes.
Probab=94.82 E-value=0.064 Score=64.22 Aligned_cols=76 Identities=14% Similarity=0.335 Sum_probs=51.5
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeC-CC--cEEEEECCCCccccc-cCCCCccceeeeeeeeccCCCCCCCCC
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDL-HPATNKSALETVLTVLHAGGKFGGSSS 180 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~-dg--~isV~DnGrGIPv~~-~~~~g~~~~E~v~t~lhag~kF~~~~~ 180 (718)
.-+.+++.++|+||++.... ...|.|.+.. ++ .|+|.|||.|||.+. .+. +|.. |...
T Consensus 578 ~~l~~vl~nLl~NAik~~~~--~~~I~I~~~~~~~~~~i~V~D~G~Gi~~~~i~~~--------lF~p------f~~~-- 639 (679)
T TIGR02916 578 ERLERVLGHLVQNALEATPG--EGRVAIRVERECGAARIEIEDSGCGMSPAFIRER--------LFKP------FDTT-- 639 (679)
T ss_pred HHHHHHHHHHHHHHHHhCCC--CCcEEEEEEEcCCEEEEEEEEcCCCcChHHHHHh--------cCCC------CCCC--
Confidence 45788999999999987533 3468888874 33 489999999999875 221 3322 2211
Q ss_pred ceeeccCccCCchhHHhhcccc
Q 005028 181 GYSVSGGLHGVGLSVVNALSES 202 (718)
Q Consensus 181 ~ykvSGGlhGvG~svvNalS~~ 202 (718)
.++-.|+|++.+.-+.+.
T Consensus 640 ----~~~G~GLGL~i~~~iv~~ 657 (679)
T TIGR02916 640 ----KGAGMGIGVYECRQYVEE 657 (679)
T ss_pred ----CCCCcchhHHHHHHHHHH
Confidence 113379999998877654
No 80
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=94.75 E-value=0.06 Score=66.32 Aligned_cols=94 Identities=21% Similarity=0.301 Sum_probs=58.5
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCC---cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCc
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg---~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~ 181 (718)
.-|..++..+|.||+.... ...|.|.+..++ .++|.|||.|||.+..+. +|...... +
T Consensus 560 ~~l~qil~NLl~NAik~~~---~g~I~i~~~~~~~~~~i~V~D~G~Gi~~~~~~~--------if~~f~~~-----~--- 620 (914)
T PRK11466 560 RRIRQVITNLLSNALRFTD---EGSIVLRSRTDGEQWLVEVEDSGCGIDPAKLAE--------IFQPFVQV-----S--- 620 (914)
T ss_pred HHHHHHHHHHHHHHHHhCC---CCeEEEEEEEcCCEEEEEEEECCCCCCHHHHHH--------HhchhhcC-----C---
Confidence 3466778888888887643 346888877443 489999999999875432 23221111 0
Q ss_pred eeeccCccCCchhHHhhcccce----EEEEEe-CCEEEEEEEe
Q 005028 182 YSVSGGLHGVGLSVVNALSESL----EVTVWR-DGMEYHQKYS 219 (718)
Q Consensus 182 ykvSGGlhGvG~svvNalS~~~----~V~v~r-~gk~y~q~f~ 219 (718)
...|-.|+|+++|.-+.+.+ ++.... .|..++..+-
T Consensus 621 --~~~~g~GLGL~i~~~l~~~~gG~i~v~s~~~~Gt~f~i~lP 661 (914)
T PRK11466 621 --GKRGGTGLGLTISSRLAQAMGGELSATSTPEVGSCFCLRLP 661 (914)
T ss_pred --CCCCCCcccHHHHHHHHHHcCCEEEEEecCCCCeEEEEEEE
Confidence 01134799999998888765 333322 3566666653
No 81
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=94.60 E-value=0.055 Score=65.58 Aligned_cols=99 Identities=22% Similarity=0.356 Sum_probs=59.3
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCC--C--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCC
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLAD--N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 180 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~d--g--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~ 180 (718)
.-|.+++..+|+||++... ...|.|.+..+ + .++|.|||.|||.+..+. +|........ ..
T Consensus 397 ~~l~qvl~NLl~NAik~~~---~g~v~i~~~~~~~~~~~i~V~D~G~Gi~~~~~~~--------iF~~f~~~~~--~~-- 461 (779)
T PRK11091 397 TRLRQILWNLISNAVKFTQ---QGGVTVRVRYEEGDMLTFEVEDSGIGIPEDELDK--------IFAMYYQVKD--SH-- 461 (779)
T ss_pred HHHHHHHHHHHHHHHHhCC---CCcEEEEEEEccCCEEEEEEEecCCCCCHHHHHH--------HHHHhhcccC--CC--
Confidence 4577889999999998753 33566666532 2 589999999999875432 3433222200 00
Q ss_pred ceeeccCccCCchhHHhhcccce----EEEEEe-CCEEEEEEEe
Q 005028 181 GYSVSGGLHGVGLSVVNALSESL----EVTVWR-DGMEYHQKYS 219 (718)
Q Consensus 181 ~ykvSGGlhGvG~svvNalS~~~----~V~v~r-~gk~y~q~f~ 219 (718)
.-+. ++-.|+|+++|.-+-+.+ .|++.. .|..+++.+-
T Consensus 462 ~~~~-~~GtGLGL~i~~~iv~~~gG~i~v~s~~g~Gt~f~i~lP 504 (779)
T PRK11091 462 GGKP-ATGTGIGLAVSKRLAQAMGGDITVTSEEGKGSCFTLTIH 504 (779)
T ss_pred CCCC-CCCcchHHHHHHHHHHHcCCEEEEEecCCCeEEEEEEEe
Confidence 1111 234799999988877654 333332 3556666553
No 82
>COG0642 BaeS Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=94.58 E-value=0.045 Score=56.82 Aligned_cols=46 Identities=28% Similarity=0.552 Sum_probs=37.6
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCC---cEEEEECCCCccccc
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDL 153 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg---~isV~DnGrGIPv~~ 153 (718)
.-+.+++..+|+||++... .+.|.|.+..++ .++|.|||.|||.+.
T Consensus 227 ~~l~~vl~nLi~NAi~~~~---~~~i~i~~~~~~~~i~i~V~D~G~Gi~~~~ 275 (336)
T COG0642 227 ERLRQVLVNLLSNAIKYTP---GGEITISVRQDDEQVTISVEDTGPGIPEEE 275 (336)
T ss_pred HHHHHHHHHHHHHHhccCC---CCeEEEEEEecCCeEEEEEEcCCCCCCHHH
Confidence 4577788899999998765 578999988643 599999999999875
No 83
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=94.45 E-value=0.14 Score=59.77 Aligned_cols=43 Identities=42% Similarity=0.619 Sum_probs=32.4
Q ss_pred hhHHHHHHHHhhHHHHhcCCCCeEEEEEeCC-C--cEEEEECCCCcccc
Q 005028 107 LHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPID 152 (718)
Q Consensus 107 L~~lv~EIldNAvDe~~ag~~~~I~V~l~~d-g--~isV~DnGrGIPv~ 152 (718)
+.+++.|+|.||+.++. ++.|.|.+..+ + .++|.|||.|||.+
T Consensus 470 l~~il~ell~NA~kha~---a~~i~V~~~~~~~~~~l~V~D~G~Gi~~~ 515 (569)
T PRK10600 470 LLQIAREALSNALKHAQ---ASEVVVTVAQNQNQVKLSVQDNGCGVPEN 515 (569)
T ss_pred HHHHHHHHHHHHHHhCC---CCeEEEEEEEcCCEEEEEEEECCCCCCcc
Confidence 66778888888877653 35688887743 3 48999999999964
No 84
>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS. This protein, TorS, is part of a regulatory system for the torCAD operon that encodes the pterin molybdenum cofactor-containing enzyme trimethylamine-N-oxide (TMAO) reductase (TorA), a cognate chaperone (TorD), and a penta-haem cytochrome (TorC). TorS works together with the inducer-binding protein TorT and the response regulator TorR. TorS contains histidine kinase ATPase (pfam02518), HAMP (pfam00672), phosphoacceptor (pfam00512), and phosphotransfer (pfam01627) domains and a response regulator receiver domain (pfam00072).
Probab=94.23 E-value=0.068 Score=66.15 Aligned_cols=96 Identities=19% Similarity=0.329 Sum_probs=59.8
Q ss_pred CCchhHHHHHHHHhhHHHHhcCCCCeEEEEEe--CCC--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCC
Q 005028 104 PRGLHHLVYEILDNAVDEAQAGYASNIEVALL--ADN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSS 179 (718)
Q Consensus 104 ~~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~--~dg--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~ 179 (718)
+.-|.+++..+|.||+..... ..|.|.+. .++ .|+|.|+|.|||.+..+. +|.....+. ..
T Consensus 577 ~~~l~~il~nLi~NAik~~~~---g~i~i~~~~~~~~~~~i~V~D~G~Gi~~~~~~~--------if~~f~~~~--~~-- 641 (968)
T TIGR02956 577 GPRIRQVLINLVGNAIKFTDR---GSVVLRVSLNDDSSLLFEVEDTGCGIAEEEQAT--------LFDAFTQAD--GR-- 641 (968)
T ss_pred HHHHHHHHHHHHHHHHhhCCC---CeEEEEEEEcCCCeEEEEEEeCCCCCCHHHHHH--------HHhhhhccC--CC--
Confidence 456788999999999987533 35766665 333 399999999999875321 343222221 00
Q ss_pred CceeeccCccCCchhHHhhcccceE--EEEE--e-CCEEEEEEE
Q 005028 180 SGYSVSGGLHGVGLSVVNALSESLE--VTVW--R-DGMEYHQKY 218 (718)
Q Consensus 180 ~~ykvSGGlhGvG~svvNalS~~~~--V~v~--r-~gk~y~q~f 218 (718)
+.. |-.|+|+++|.-+.+.+- +++. . .|..+++.+
T Consensus 642 ---~~~-~g~GLGL~i~~~l~~~~gG~i~~~s~~~~Gt~f~~~l 681 (968)
T TIGR02956 642 ---RRS-GGTGLGLAISQRLVEAMDGELGVESELGVGSCFWFTL 681 (968)
T ss_pred ---CCC-CCccHHHHHHHHHHHHcCCEEEEEecCCCcEEEEEEE
Confidence 111 337999999998888763 3332 1 345555554
No 85
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=94.17 E-value=0.12 Score=63.95 Aligned_cols=98 Identities=16% Similarity=0.276 Sum_probs=60.1
Q ss_pred CCchhHHHHHHHHhhHHHHhcCCCCeEEEEEeC--C--C--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCC
Q 005028 104 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLA--D--N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGG 177 (718)
Q Consensus 104 ~~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~--d--g--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~ 177 (718)
+.-|.+++.-+|.||+..... ..|.|.+.. + + .|+|.|+|.|||.+..+. +|-..... +-
T Consensus 563 ~~~L~QVL~NLL~NAik~t~~---G~I~I~v~~~~~~~~~l~I~V~DtG~GI~~e~l~~--------IFePF~t~-~~-- 628 (894)
T PRK10618 563 RDALRKILLLLLNYAITTTAY---GKITLEVDQDESSPDRLTIRILDTGAGVSIKELDN--------LHFPFLNQ-TQ-- 628 (894)
T ss_pred HHHHHHHHHHHHHHHHHhCCC---CeEEEEEEEccCCCcEEEEEEEECCCCCCHHHHHH--------hcCccccC-CC--
Confidence 345788899999999986533 357776652 2 2 489999999999875432 33222211 10
Q ss_pred CCCceeeccCccCCchhHHhhcccce----EEEEEe-CCEEEEEEEe
Q 005028 178 SSSGYSVSGGLHGVGLSVVNALSESL----EVTVWR-DGMEYHQKYS 219 (718)
Q Consensus 178 ~~~~ykvSGGlhGvG~svvNalS~~~----~V~v~r-~gk~y~q~f~ 219 (718)
. ...++-.|+|+++|.-+.+.+ .|+... .|..+++.+-
T Consensus 629 ---~-~~~~~GtGLGLaI~k~Lve~~GG~I~v~S~~g~GT~F~I~LP 671 (894)
T PRK10618 629 ---G-DRYGKASGLTFFLCNQLCRKLGGHLTIKSREGLGTRYSIHLK 671 (894)
T ss_pred ---C-CCCCCCcChhHHHHHHHHHHcCCEEEEEECCCCcEEEEEEEE
Confidence 0 111223799999999888765 233222 3566666653
No 86
>PRK13557 histidine kinase; Provisional
Probab=93.91 E-value=0.37 Score=54.94 Aligned_cols=94 Identities=20% Similarity=0.335 Sum_probs=57.8
Q ss_pred chhHHHHHHHHhhHHHHhcCCCCeEEEEEe----------------CCC--cEEEEECCCCccccccCCCCccceeeeee
Q 005028 106 GLHHLVYEILDNAVDEAQAGYASNIEVALL----------------ADN--SVSVADNGRGIPIDLHPATNKSALETVLT 167 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag~~~~I~V~l~----------------~dg--~isV~DnGrGIPv~~~~~~g~~~~E~v~t 167 (718)
-+.+++..+|.||++....+ ..|.|... .++ .++|.|||.|||.+..+. +|.
T Consensus 277 ~l~~vl~nll~NA~~~~~~~--~~i~i~~~~~~~~~~~~~~~~~~~~~~~~~i~v~D~G~Gi~~~~~~~--------if~ 346 (540)
T PRK13557 277 QAEVALLNVLINARDAMPEG--GRVTIRTRNVEIEDEDLAMYHGLPPGRYVSIAVTDTGSGMPPEILAR--------VMD 346 (540)
T ss_pred HHHHHHHHHHHHHHHhcccC--CeEEEEEeeeccCccccccccCCCCCCEEEEEEEcCCCCCCHHHHHh--------ccC
Confidence 47788999999999876543 34555543 112 489999999999875432 444
Q ss_pred eeccCCCCCCCCCceeeccCccCCchhHHhhcccce----EEEEEe-CCEEEEEEEe
Q 005028 168 VLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESL----EVTVWR-DGMEYHQKYS 219 (718)
Q Consensus 168 ~lhag~kF~~~~~~ykvSGGlhGvG~svvNalS~~~----~V~v~r-~gk~y~q~f~ 219 (718)
..++.. -.++--|+|++++.-+-+.+ .++... .|..+++.+-
T Consensus 347 ~~~~~~----------~~~~g~GlGL~i~~~~v~~~gG~i~~~s~~~~G~~f~i~lP 393 (540)
T PRK13557 347 PFFTTK----------EEGKGTGLGLSMVYGFAKQSGGAVRIYSEVGEGTTVRLYFP 393 (540)
T ss_pred CCcccC----------CCCCCCCccHHHHHHHHHHCCCEEEEEecCCCceEEEEEee
Confidence 332211 11223589998887666543 444433 3566777664
No 87
>PRK13837 two-component VirA-like sensor kinase; Provisional
Probab=93.85 E-value=0.21 Score=61.31 Aligned_cols=93 Identities=19% Similarity=0.374 Sum_probs=58.5
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCC---------------C---cEEEEECCCCccccccCCCCccceeeee
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLAD---------------N---SVSVADNGRGIPIDLHPATNKSALETVL 166 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~d---------------g---~isV~DnGrGIPv~~~~~~g~~~~E~v~ 166 (718)
.-|.+++..+|+||++.... ...|.|.+..+ + .|+|.|||.|||.+..+. +|
T Consensus 559 ~~L~qvl~NLl~NAik~~~~--~g~I~I~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~GI~~e~~~~--------iF 628 (828)
T PRK13837 559 AELQQVLMNLCSNAAQAMDG--AGRVDISLSRAKLRAPKVLSHGVLPPGRYVLLRVSDTGAGIDEAVLPH--------IF 628 (828)
T ss_pred HHHHHHHHHHHHHHHHHccc--CCeEEEEEEEeecccccccccccCCCCCEEEEEEEECCCCCCHHHHHH--------hh
Confidence 34778888888888887543 35677666532 2 489999999999875431 33
Q ss_pred eeeccCCCCCCCCCceeeccCccCCchhHHhhcccce----EEEEEe-CCEEEEEEEe
Q 005028 167 TVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESL----EVTVWR-DGMEYHQKYS 219 (718)
Q Consensus 167 t~lhag~kF~~~~~~ykvSGGlhGvG~svvNalS~~~----~V~v~r-~gk~y~q~f~ 219 (718)
.... .. +. +-.|+|+++|.-+.+.+ .|+... .|..+++.+-
T Consensus 629 e~F~------~~----~~--~G~GLGL~i~~~iv~~~gG~i~v~s~~g~Gt~f~i~LP 674 (828)
T PRK13837 629 EPFF------TT----RA--GGTGLGLATVHGIVSAHAGYIDVQSTVGRGTRFDVYLP 674 (828)
T ss_pred CCcc------cC----CC--CCCcchHHHHHHHHHHCCCEEEEEecCCCeEEEEEEEe
Confidence 3221 11 11 34799999988777654 333332 3566766664
No 88
>COG4585 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=93.71 E-value=0.097 Score=57.76 Aligned_cols=47 Identities=36% Similarity=0.502 Sum_probs=39.3
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeC-CC--cEEEEECCCCcccccc
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLH 154 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~-dg--~isV~DnGrGIPv~~~ 154 (718)
..|++++.|.|.|++=++ .+++|.|++.. ++ .++|.|||+|.+++..
T Consensus 278 ~~l~rivQEaltN~~rHa---~A~~v~V~l~~~~~~l~l~V~DnG~Gf~~~~~ 327 (365)
T COG4585 278 DALFRIVQEALTNAIRHA---QATEVRVTLERTDDELRLEVIDNGVGFDPDKE 327 (365)
T ss_pred HHHHHHHHHHHHHHHhcc---CCceEEEEEEEcCCEEEEEEEECCcCCCcccc
Confidence 578899999999998876 57899999984 44 4899999999998753
No 89
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=93.64 E-value=0.11 Score=64.72 Aligned_cols=82 Identities=23% Similarity=0.356 Sum_probs=51.0
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeC-CC--cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCc
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~-dg--~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~ 181 (718)
.-|.+++..+|+||+.....| .|.|.+.. ++ .|+|.|+|.|||.+..+. +|........ .
T Consensus 561 ~~L~qvl~NLl~NAik~t~~G---~I~I~v~~~~~~l~i~V~DtG~GI~~e~~~~--------lFepF~~~~~------~ 623 (924)
T PRK10841 561 MRLQQVISNLLSNAIKFTDTG---CIVLHVRVDGDYLSFRVRDTGVGIPAKEVVR--------LFDPFFQVGT------G 623 (924)
T ss_pred HHHHHHHHHHHHHHHhhCCCC---cEEEEEEEeCCEEEEEEEEcCcCCCHHHHHH--------HhcccccCCC------C
Confidence 347788888888888875433 46666653 33 488999999999875321 3332222111 1
Q ss_pred eeeccCccCCchhHHhhcccce
Q 005028 182 YSVSGGLHGVGLSVVNALSESL 203 (718)
Q Consensus 182 ykvSGGlhGvG~svvNalS~~~ 203 (718)
.....+-.|+|+++|.-+.+.+
T Consensus 624 ~~~~~~GtGLGL~I~k~lv~~~ 645 (924)
T PRK10841 624 VQRNFQGTGLGLAICEKLINMM 645 (924)
T ss_pred CCCCCCCeehhHHHHHHHHHHC
Confidence 1111123799999999887754
No 90
>PRK10547 chemotaxis protein CheA; Provisional
Probab=93.28 E-value=0.15 Score=60.87 Aligned_cols=42 Identities=19% Similarity=0.387 Sum_probs=31.1
Q ss_pred HHHHHhhHHHHhc--------C--CCCeEEEEEeCC-C--cEEEEECCCCccccc
Q 005028 112 YEILDNAVDEAQA--------G--YASNIEVALLAD-N--SVSVADNGRGIPIDL 153 (718)
Q Consensus 112 ~EIldNAvDe~~a--------g--~~~~I~V~l~~d-g--~isV~DnGrGIPv~~ 153 (718)
..+|.||+|+... | ...+|.|....+ + .|+|.|||+|||.+.
T Consensus 391 ~hLirNAidHgie~p~~R~~~gkp~~G~I~l~a~~~~~~v~I~V~DdG~GId~e~ 445 (670)
T PRK10547 391 THLVRNSLDHGIELPEKRLAAGKNSVGNLILSAEHQGGNICIEVTDDGAGLNRER 445 (670)
T ss_pred HHHHHHHHHhhccchhhHHhcCCCCCCceEEEEEEcCCEEEEEEEeCCCCCCHHH
Confidence 4889999998642 2 245688887743 3 389999999999764
No 91
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=93.21 E-value=0.12 Score=63.58 Aligned_cols=81 Identities=22% Similarity=0.439 Sum_probs=47.4
Q ss_pred chhHHHHHHHHhhHHHHhcCCCCeEEEEE--eC--CC----cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCC
Q 005028 106 GLHHLVYEILDNAVDEAQAGYASNIEVAL--LA--DN----SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGG 177 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag~~~~I~V~l--~~--dg----~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~ 177 (718)
-|.+++..+|.||+.....| .|.|.+ .. ++ .|+|.|||.|||.+..+. +|-....+.+
T Consensus 408 ~l~~vl~NLl~NAik~~~~g---~v~i~v~~~~~~~~~~~~~i~V~D~G~Gi~~~~~~~--------if~~f~~~~~--- 473 (919)
T PRK11107 408 RLQQIITNLVGNAIKFTESG---NIDILVELRALSNTKVQLEVQIRDTGIGISERQQSQ--------LFQAFRQADA--- 473 (919)
T ss_pred HHHHHHHHHHHHHhhcCCCC---cEEEEEEEEecCCCeeEEEEEEEEeCCCcCHHHHHH--------HhhhhccCCC---
Confidence 46677888888888765333 344443 32 22 389999999999865321 3322211111
Q ss_pred CCCceeeccCccCCchhHHhhcccce
Q 005028 178 SSSGYSVSGGLHGVGLSVVNALSESL 203 (718)
Q Consensus 178 ~~~~ykvSGGlhGvG~svvNalS~~~ 203 (718)
......|-.|+|+++|.-+.+.+
T Consensus 474 ---~~~~~~~g~GLGL~i~~~i~~~~ 496 (919)
T PRK11107 474 ---SISRRHGGTGLGLVITQKLVNEM 496 (919)
T ss_pred ---CCCCCCCCcchhHHHHHHHHHHh
Confidence 11111234899999988877654
No 92
>COG2172 RsbW Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]
Probab=93.21 E-value=0.64 Score=45.08 Aligned_cols=84 Identities=27% Similarity=0.323 Sum_probs=56.4
Q ss_pred chhHHHHHHHHhhHHHHhcCCC--CeEEEEEe--CCC-cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCC
Q 005028 106 GLHHLVYEILDNAVDEAQAGYA--SNIEVALL--ADN-SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 180 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag~~--~~I~V~l~--~dg-~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~ 180 (718)
-+...+.|.+.|+|.++.++.. ..|.|... ++. .|.|+|.|.||+.-.- .+..
T Consensus 40 ~l~~av~E~~~N~v~Ha~~~~~~~g~I~i~~~~~~~~~~i~i~D~G~~~~~~~~----------~~~~------------ 97 (146)
T COG2172 40 DLAIAVSEALTNAVKHAYKLDPSEGEIRIEVSLDDGKLEIRIWDQGPGIEDLEE----------SLGP------------ 97 (146)
T ss_pred HHHHHHHHHHHHHHHHHhhcCCCCceEEEEEEEcCCeEEEEEEeCCCCCCCHHH----------hcCC------------
Confidence 4567789999999999987543 45655555 332 4999999988764211 1110
Q ss_pred ceeeccCc--cCCchhHHhhcccceEEEEEeCC
Q 005028 181 GYSVSGGL--HGVGLSVVNALSESLEVTVWRDG 211 (718)
Q Consensus 181 ~ykvSGGl--hGvG~svvNalS~~~~V~v~r~g 211 (718)
.|...+++ .|+|+.++.-+...|+++...++
T Consensus 98 ~~~~~~~~~~~G~Gl~l~~~~~D~~~~~~~~~~ 130 (146)
T COG2172 98 GDTTAEGLQEGGLGLFLAKRLMDEFSYERSEDG 130 (146)
T ss_pred CCCCCcccccccccHHHHhhhheeEEEEeccCC
Confidence 01222222 58999999999999999877666
No 93
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=92.94 E-value=0.15 Score=59.03 Aligned_cols=80 Identities=35% Similarity=0.505 Sum_probs=55.8
Q ss_pred eeccCCCCchhHHHHHHHHhhHHHHhc-----CCCCeEEEEEe-CCCc--EEEEECCCCccccccCCCCccceeeeeeee
Q 005028 98 YIGSTGPRGLHHLVYEILDNAVDEAQA-----GYASNIEVALL-ADNS--VSVADNGRGIPIDLHPATNKSALETVLTVL 169 (718)
Q Consensus 98 YIGs~~~~gL~~lv~EIldNAvDe~~a-----g~~~~I~V~l~-~dg~--isV~DnGrGIPv~~~~~~g~~~~E~v~t~l 169 (718)
.+|.-+.+-|-+.+.-+|.||.++..+ +....|.++.+ .||. +.|.|||.|.|.+.... +.|-.+|.-
T Consensus 592 l~~~~D~~~l~Qvf~NliKNA~EAi~~~~~~e~~~~~i~~~~~~~~g~i~v~V~DNGkG~p~e~r~r----~~EPYvTtr 667 (712)
T COG5000 592 LIGMADATLLGQVFGNLLKNAAEAIEAVEAEERRTALIRVSLDDADGRIVVDVIDNGKGFPRENRHR----ALEPYVTTR 667 (712)
T ss_pred eeeecCHHHHHHHHHHHHHhHHHHhhhcccccCCcceEEEEEecCCCeEEEEEecCCCCCChHHhhh----hccCceecc
Confidence 455557788999999999999987653 22335888888 4674 88999999999986321 344455531
Q ss_pred ccCCCCCCCCCceeeccCccCCchhHHh
Q 005028 170 HAGGKFGGSSSGYSVSGGLHGVGLSVVN 197 (718)
Q Consensus 170 hag~kF~~~~~~ykvSGGlhGvG~svvN 197 (718)
- | | -|+|+++|-
T Consensus 668 ~------------K---G-TGLGLAiVK 679 (712)
T COG5000 668 E------------K---G-TGLGLAIVK 679 (712)
T ss_pred c------------c---c-ccccHHHHH
Confidence 1 1 1 488998874
No 94
>PRK13559 hypothetical protein; Provisional
Probab=92.61 E-value=0.43 Score=51.94 Aligned_cols=46 Identities=15% Similarity=0.224 Sum_probs=33.5
Q ss_pred chhHHHHHHHHhhHHHHh-cCCCCeEEEEE--eC-CC--cEEEEECCCCccc
Q 005028 106 GLHHLVYEILDNAVDEAQ-AGYASNIEVAL--LA-DN--SVSVADNGRGIPI 151 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~-ag~~~~I~V~l--~~-dg--~isV~DnGrGIPv 151 (718)
.|..++.|++.||+.... ......|.|.+ .. ++ .++|.|||.|+|.
T Consensus 267 ~l~~vl~nLi~NA~k~~~~~~~~g~i~v~~~~~~~~~~~~i~v~d~G~~~~~ 318 (361)
T PRK13559 267 PLGLVLHELAVNAIKHGALSADQGRISISWKPSPEGAGFRIDWQEQGGPTPP 318 (361)
T ss_pred HHHHHHHHHHHhHHHhccccCCCcEEEEEEEecCCCCeEEEEEECCCCCCCC
Confidence 478899999999998742 22346888888 43 33 5888999987664
No 95
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=92.41 E-value=0.24 Score=63.09 Aligned_cols=98 Identities=18% Similarity=0.358 Sum_probs=57.3
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEe--CCC----cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCC
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALL--ADN----SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGS 178 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~--~dg----~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~ 178 (718)
.-|.+++..+|+||++....| .-.|.+... .++ .|+|.|||.|||.+..+. +|.....+ +..
T Consensus 827 ~~l~qvl~NLl~NAik~~~~g-~i~i~~~~~~~~~~~~~~~i~V~D~G~Gi~~~~~~~--------iF~~f~~~-~~~-- 894 (1197)
T PRK09959 827 QAFKQVLSNLLSNALKFTTEG-AVKITTSLGHIDDNHAVIKMTIMDSGSGLSQEEQQQ--------LFKRYSQT-SAG-- 894 (1197)
T ss_pred HHHHHHHHHHHHHHHHhCCCC-CEEEEEEEeeecCCceEEEEEEEEcCCCCCHHHHHH--------hhcccccc-ccC--
Confidence 357889999999999976443 123333221 122 378999999999875432 34322221 110
Q ss_pred CCceeeccCccCCchhHHhhcccceE--EEE--Ee-CCEEEEEEEe
Q 005028 179 SSGYSVSGGLHGVGLSVVNALSESLE--VTV--WR-DGMEYHQKYS 219 (718)
Q Consensus 179 ~~~ykvSGGlhGvG~svvNalS~~~~--V~v--~r-~gk~y~q~f~ 219 (718)
+.. +-.|+|+++|.-+.+.+- +++ .. .|..+++.+-
T Consensus 895 ----~~~-~G~GLGL~i~~~iv~~~gG~i~v~s~~~~Gt~f~i~lP 935 (1197)
T PRK09959 895 ----RQQ-TGSGLGLMICKELIKNMQGDLSLESHPGIGTTFTITIP 935 (1197)
T ss_pred ----CCC-CCcCchHHHHHHHHHHcCCEEEEEeCCCCcEEEEEEEE
Confidence 111 238999999988877653 333 22 3566666663
No 96
>cd00188 TOPRIM Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from bacterial and archaea, and bacterial DNA repair proteins of the RecR/M family. This domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases and in strand joining in topoisomerases and, as a general acid in strand cleavage by topisomerases and nucleases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=91.05 E-value=0.27 Score=40.64 Aligned_cols=71 Identities=35% Similarity=0.419 Sum_probs=46.9
Q ss_pred eEEEeeccCCCccccccCCCCceEecccCcccccccccCHHHHhhChhHHHHHHHhcCCccCCcCcccccceeeEEEeec
Q 005028 500 EIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTD 579 (718)
Q Consensus 500 eL~lvEGDSA~Gsak~gRdr~~qailPLrGKiLNv~ka~~~ki~~N~Ei~~li~~lG~~~~~~~~~~~~LRYgkIiImTD 579 (718)
.++||||++-.-+..+.... ...++++.|+..+ .....+...++. +.+|+|++|
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 58999999987766665543 3578999998776 111122222111 578999999
Q ss_pred CCCCCchhhhhHHHHHH
Q 005028 580 ADVDGAHIRTLLLTFFY 596 (718)
Q Consensus 580 aDvDG~HI~~Llltff~ 596 (718)
.|..|..+...+.....
T Consensus 56 ~D~~g~~~~~~~~~~~~ 72 (83)
T cd00188 56 ADREGEAIALRLLELLK 72 (83)
T ss_pred CChhHHHHHHHHHHHHH
Confidence 99999966555544433
No 97
>PF14501 HATPase_c_5: GHKL domain
Probab=90.22 E-value=2.3 Score=37.95 Aligned_cols=72 Identities=19% Similarity=0.316 Sum_probs=47.8
Q ss_pred chhHHHHHHHHhhHHHHhcCC-CCeEEEEEeC-CCc--EEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCc
Q 005028 106 GLHHLVYEILDNAVDEAQAGY-ASNIEVALLA-DNS--VSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag~-~~~I~V~l~~-dg~--isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~ 181 (718)
.|..++--+||||++++..-. ...|.|.+.. +|. ++|.+.-.. +. .++. .
T Consensus 5 dl~~il~nlldNAiea~~~~~~~~~I~i~~~~~~~~~~i~i~N~~~~---~~-------------------~~~~----~ 58 (100)
T PF14501_consen 5 DLCRILGNLLDNAIEACKKYEDKRFISISIREENGFLVIIIENSCEK---EI-------------------EKLE----S 58 (100)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCcEEEEEEEecCCEEEEEEEECCCC---cc-------------------cccc----c
Confidence 467888999999999887533 6788888884 454 667776322 11 0011 1
Q ss_pred eeeccCccCCchhHHhhcccce
Q 005028 182 YSVSGGLHGVGLSVVNALSESL 203 (718)
Q Consensus 182 ykvSGGlhGvG~svvNalS~~~ 203 (718)
.+..++-||+|++.+..+-+..
T Consensus 59 ~~~~~~~~G~GL~~v~~i~~~y 80 (100)
T PF14501_consen 59 SSSKKKGHGIGLKNVKKILEKY 80 (100)
T ss_pred cccCCCCCCcCHHHHHHHHHHC
Confidence 1334567999999998877654
No 98
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=89.78 E-value=0.19 Score=54.77 Aligned_cols=94 Identities=24% Similarity=0.382 Sum_probs=62.3
Q ss_pred hHhhCCCeee-ccCCCCchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCC---cEEEEECCCCccccccCCCCccceeee
Q 005028 90 AVRKRPAMYI-GSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETV 165 (718)
Q Consensus 90 ~VrkRPgMYI-Gs~~~~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg---~isV~DnGrGIPv~~~~~~g~~~~E~v 165 (718)
.||+-|.-=+ =..++.-+.++++-||.||+--.-+| .+|.|.+...+ .|+|.|.|-|||-...+ -|
T Consensus 325 ~vR~~p~~~~~veiD~DK~tQVldNii~NA~KYsP~G--g~Itv~~~~~~~~v~iSI~D~G~gIPk~d~~--------~i 394 (459)
T COG5002 325 FVRDIPKQDIWVEIDPDKMTQVLDNIISNALKYSPDG--GRITVSVKQRETWVEISISDQGLGIPKEDLE--------KI 394 (459)
T ss_pred HHhcCCCCceEEEeChhHHHHHHHHHHHHHhhcCCCC--CeEEEEEeeeCcEEEEEEccCCCCCCchhHH--------HH
Confidence 6777775221 23456778888899999888765544 67888877433 59999999999976433 25
Q ss_pred eeeeccCCCCCCCCCceeeccCccCCchhHHhhc
Q 005028 166 LTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNAL 199 (718)
Q Consensus 166 ~t~lhag~kF~~~~~~ykvSGGlhGvG~svvNal 199 (718)
|-...-..| +-.-++|--|+|++.+--.
T Consensus 395 FdrfyRvdk------ARsR~~gGTGLGLaIakei 422 (459)
T COG5002 395 FDRFYRVDK------ARSRKMGGTGLGLAIAKEI 422 (459)
T ss_pred HHHHhhhhh------hhhhcCCCCchhHHHHHHH
Confidence 655444433 3233556689999876543
No 99
>PRK10935 nitrate/nitrite sensor protein NarQ; Provisional
Probab=89.44 E-value=0.4 Score=55.53 Aligned_cols=43 Identities=37% Similarity=0.459 Sum_probs=31.6
Q ss_pred hhHHHHHHHHhhHHHHhcCCCCeEEEEEeC--CC--cEEEEECCCCcccc
Q 005028 107 LHHLVYEILDNAVDEAQAGYASNIEVALLA--DN--SVSVADNGRGIPID 152 (718)
Q Consensus 107 L~~lv~EIldNAvDe~~ag~~~~I~V~l~~--dg--~isV~DnGrGIPv~ 152 (718)
+.+++.|+|.||+.+. ....|.|.+.. ++ .++|.|||+|||.+
T Consensus 472 l~qv~~nll~NA~k~~---~~~~i~i~~~~~~~~~~~i~V~D~G~Gi~~~ 518 (565)
T PRK10935 472 LLQIIREATLNAIKHA---NASEIAVSCVTNPDGEHTVSIRDDGIGIGEL 518 (565)
T ss_pred HHHHHHHHHHHHHhcC---CCCeEEEEEEEcCCCEEEEEEEECCcCcCCC
Confidence 5577788888888754 34568888763 34 48999999999953
No 100
>COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]
Probab=89.24 E-value=0.54 Score=51.53 Aligned_cols=44 Identities=30% Similarity=0.553 Sum_probs=38.1
Q ss_pred chhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCCc---EEEEECCCCcccc
Q 005028 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLADNS---VSVADNGRGIPID 152 (718)
Q Consensus 106 gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg~---isV~DnGrGIPv~ 152 (718)
-|++++.|.+.|-+-++. ++.|.|.+..++. .+|+|||.|+|.+
T Consensus 410 TLyRl~QE~LNNI~KHA~---AS~V~i~l~~~~e~l~Lei~DdG~Gl~~~ 456 (497)
T COG3851 410 TLYRLCQELLNNICKHAD---ASAVTIQLWQQDERLMLEIEDDGSGLPPG 456 (497)
T ss_pred eHHHHHHHHHHHHHhccc---cceEEEEEeeCCcEEEEEEecCCcCCCCC
Confidence 689999999999988874 6789999987664 7899999999986
No 101
>COG4192 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]
Probab=89.22 E-value=0.5 Score=53.15 Aligned_cols=79 Identities=27% Similarity=0.481 Sum_probs=55.6
Q ss_pred CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCC----CcEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCC
Q 005028 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLAD----NSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 180 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~d----g~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~ 180 (718)
--+.+++.-++.||+|++.. +++.|+|+...+ -.|-|.|||.|-|++..++ .| ..++++|
T Consensus 563 v~ieQVlvNl~~NaldA~~h-~~p~i~~~~~~~~~e~l~i~i~DnGqGwp~~l~dk--------Ll-~PFttsK------ 626 (673)
T COG4192 563 VSIEQVLVNLIVNALDASTH-FAPWIKLIALGTEQEMLRIAIIDNGQGWPHELVDK--------LL-TPFTTSK------ 626 (673)
T ss_pred hhHHHHHHHHHHHHHhhhcc-CCceEEEEeecCcccceEEEEecCCCCCchhHHHH--------hc-CCccccc------
Confidence 45788999999999997643 358899888753 2699999999999876553 22 2333333
Q ss_pred ceeeccCccCCchhHHhhcccceE
Q 005028 181 GYSVSGGLHGVGLSVVNALSESLE 204 (718)
Q Consensus 181 ~ykvSGGlhGvG~svvNalS~~~~ 204 (718)
-. | =|+|+|.+.-+-+.+.
T Consensus 627 ---~v-g-LGlGLSIsqSlmeqmq 645 (673)
T COG4192 627 ---EV-G-LGLGLSISQSLMEQMQ 645 (673)
T ss_pred ---cc-c-cccchhHHHHHHHHhc
Confidence 11 2 3889998887766553
No 102
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=88.56 E-value=0.87 Score=49.10 Aligned_cols=51 Identities=24% Similarity=0.415 Sum_probs=34.9
Q ss_pred CchhHHHHHHHHhhHHHHhc--CC--------CCeEEEEEeCC-----CcEEEEECCCCccccccC
Q 005028 105 RGLHHLVYEILDNAVDEAQA--GY--------ASNIEVALLAD-----NSVSVADNGRGIPIDLHP 155 (718)
Q Consensus 105 ~gL~~lv~EIldNAvDe~~a--g~--------~~~I~V~l~~d-----g~isV~DnGrGIPv~~~~ 155 (718)
.-|.++|+-||.||+.+.-. .. -+.+.+++... -.+.|.|||+|||.+..+
T Consensus 240 DqliQv~LNlVrNAaqA~~~~~~~~g~I~LrTR~~~q~~i~g~r~rl~l~leViDNGPGVP~~L~~ 305 (363)
T COG3852 240 DQLIQVFLNLVRNAAQALGGRADEGGEIILRTRTGIQLTIAGTRYRLALPLEVIDNGPGVPPDLQD 305 (363)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCceEEEEeccceEEEccCceeEeeeeeEEecCCCCCChHHhh
Confidence 45789999999999975431 11 12345555521 248899999999998654
No 103
>KOG0787 consensus Dehydrogenase kinase [Signal transduction mechanisms]
Probab=86.92 E-value=0.78 Score=50.54 Aligned_cols=105 Identities=17% Similarity=0.285 Sum_probs=65.3
Q ss_pred cchhhHhhCCCeeeccCCCCchhHHHHHHHHhhHHHHhc--C---C-CCeEEEEEe---CCCcEEEEECCCCccccccCC
Q 005028 86 EGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQA--G---Y-ASNIEVALL---ADNSVSVADNGRGIPIDLHPA 156 (718)
Q Consensus 86 ~~lE~VrkRPgMYIGs~~~~gL~~lv~EIldNAvDe~~a--g---~-~~~I~V~l~---~dg~isV~DnGrGIPv~~~~~ 156 (718)
.--+|.-++++.|| +.-|+|++.||+.||.-+.+. + . -+.|+|+|- +|-.|.|.|-|-|||-+..+
T Consensus 244 ~i~~~~a~~~~vyv----PshL~ymlfElfKNamrATve~h~~~~~~~ppI~V~V~~gdeDl~ikISDrGGGV~~~~~d- 318 (414)
T KOG0787|consen 244 IIEGHNALSFTVYV----PSHLYYMLFELFKNAMRATVEHHGDDGDELPPIKVTVAKGDEDLLIKISDRGGGVPHRDID- 318 (414)
T ss_pred EecCcccccCcccc----chHHHHHHHHHHHHHHHHHHHHhccCCCCCCCeEEEEecCCcceEEEEecCCCCcChhHHH-
Confidence 33445555666663 467999999999999998774 2 2 445888876 35679999999999986532
Q ss_pred CCccceeeeeeeeccCCCCC--CCCCceeeccCccCCchhHHhhcccceE
Q 005028 157 TNKSALETVLTVLHAGGKFG--GSSSGYSVSGGLHGVGLSVVNALSESLE 204 (718)
Q Consensus 157 ~g~~~~E~v~t~lhag~kF~--~~~~~ykvSGGlhGvG~svvNalS~~~~ 204 (718)
.+|.-..+...-. ++...-..+| -|+|+.+.-++.++|.
T Consensus 319 -------rlf~Y~ySTa~~~~~d~~~~~plaG--fG~GLPisrlYa~yf~ 359 (414)
T KOG0787|consen 319 -------RLFSYMYSTAPAPSSDNNRTAPLAG--FGFGLPISRLYARYFG 359 (414)
T ss_pred -------HHHhhhcccCCCCCCCCCCcCcccc--cccCCcHHHHHHHHhC
Confidence 1222222221110 1100112222 4678899999888874
No 104
>KOG0020 consensus Endoplasmic reticulum glucose-regulated protein (GRP94/endoplasmin), HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=84.38 E-value=1.9 Score=48.83 Aligned_cols=157 Identities=18% Similarity=0.266 Sum_probs=89.0
Q ss_pred HHHHHHHHhhHHHHh--c----------CCCCe--EEEEEeC-CCcEEEEECCCCcccccc-CCCC---ccceeeeeeee
Q 005028 109 HLVYEILDNAVDEAQ--A----------GYASN--IEVALLA-DNSVSVADNGRGIPIDLH-PATN---KSALETVLTVL 169 (718)
Q Consensus 109 ~lv~EIldNAvDe~~--a----------g~~~~--I~V~l~~-dg~isV~DnGrGIPv~~~-~~~g---~~~~E~v~t~l 169 (718)
-.++|+|.||-|+-- + |.... |+|..+. ..-..|.|.|.|+.-+.. ..-| ++.---.+..+
T Consensus 98 IFLRELISNASDAlDKIRllaLtd~~~L~~~~el~ikIK~Dke~klLhi~DtGiGMT~edLi~NLGTIAkSGTs~Fl~Km 177 (785)
T KOG0020|consen 98 IFLRELISNASDALDKIRLLALTDKDVLGETEELEIKIKADKEKKLLHITDTGIGMTREDLIKNLGTIAKSGTSEFLEKM 177 (785)
T ss_pred HHHHHHHhhhhhhhhheeeeeccChhHhCcCcceEEEEeechhhCeeeEecccCCccHHHHHHhhhhhhcccHHHHHHHh
Confidence 356899999999652 1 22333 5555553 456999999999975421 1101 01000111122
Q ss_pred ccCCCCCCCCCceeeccCccCCchhHHhhcccceEEEEEe-CCEEEEEEEecCcccccceeeccCCCCCCCCceEEEEEe
Q 005028 170 HAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWR-DGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWP 248 (718)
Q Consensus 170 hag~kF~~~~~~ykvSGGlhGvG~svvNalS~~~~V~v~r-~gk~y~q~f~~G~~~~~l~~~~~~~~~~~~~GT~V~F~P 248 (718)
...+.-.+ .-.---|+.|||.-.+=..+.+..|++.. |...|..+-..+.- .+..-|.+.+-.+||.|+...
T Consensus 178 ~~~~~~~~---~~~dlIGQFGVGFYsAfLVAD~vvVtsKhNdD~QyiWESdan~F----svseDprg~tL~RGt~ItL~L 250 (785)
T KOG0020|consen 178 QDSGDSEG---LMNDLIGQFGVGFYSAFLVADRVVVTSKHNDDSQYIWESDANSF----SVSEDPRGNTLGRGTEITLYL 250 (785)
T ss_pred hccccchh---hHHHHHHhcchhhhhhhhhcceEEEEeccCCccceeeeccCcce----eeecCCCCCcccCccEEEEEe
Confidence 22221111 11123489999999988889999999875 45666655544421 111223366778999999773
Q ss_pred CccccccccccCHHHHHHHHHHHh-hcC
Q 005028 249 DKQVFTTAIQFDHNTIAGRIRELA-FLN 275 (718)
Q Consensus 249 D~~iF~~~~~~d~~~i~~Rl~elA-~Ln 275 (718)
--+- .+ -+..++|+..++..+ |.|
T Consensus 251 keEA--~d-yLE~dtlkeLvkkYSqFIN 275 (785)
T KOG0020|consen 251 KEEA--GD-YLEEDTLKELVKKYSQFIN 275 (785)
T ss_pred hhhh--hh-hcchhHHHHHHHHHHHhcC
Confidence 2221 01 145678888887776 555
No 105
>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=83.21 E-value=10 Score=36.95 Aligned_cols=87 Identities=18% Similarity=0.415 Sum_probs=55.3
Q ss_pred eEEEEEEEecCC---CCCceeeeeccceec-CCCcchHHHHHHHHHHHHHHHH-hhccCCCCCCCCCCHHHHhhccEEEE
Q 005028 330 ITIDLALQWCSD---AYSDTMLGYANSIRT-IDGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVREGLTCII 404 (718)
Q Consensus 330 ~~veval~~s~~---~~~~~~~SFVN~I~T-~~GGTHv~g~~~alt~~in~~~-kk~~~~k~k~~~l~~~dIregL~~vV 404 (718)
..||+++.|--+ ...-.++-|+|-||- .+.|. .++|+++..+- +..++... + ..-+.+||
T Consensus 33 FiVEagiayGG~~~~~~~~~i~RfANRVPLlf~~g~------cvit~av~~i~W~~Ygi~~~------~---~~p~~v~V 97 (151)
T cd00823 33 FIVEVGIAYGGDIPADEKVELLRFANRVPLLYDAGA------CVITKAVESINWKRYGLEQP------G---QGPLVVLV 97 (151)
T ss_pred eEEEEeeeecCccCCCCCceEEEEcccCceeecccc------hHHHHHHHhCChhhcCcCCC------C---CCCEEEEE
Confidence 458999998622 113578999999883 34444 34455554432 22232111 1 24578999
Q ss_pred EEeecCCCCCCccccccCC-chhhhhhh
Q 005028 405 SVRVPNPEFEGQTKTRLGN-PEVRKVVD 431 (718)
Q Consensus 405 svki~nP~FegQTKekL~n-~ev~~~v~ 431 (718)
++--++-.|.|-.|+..++ ||+..-++
T Consensus 98 hi~St~VPfts~~KeaIadvpEI~~EIr 125 (151)
T cd00823 98 HVASTKVPFTSEGKEAIADIPEIEEEIK 125 (151)
T ss_pred EEeecCCCcCCcchhhhcCCHHHHHHHH
Confidence 9999999999999999986 55544333
No 106
>COG4564 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=82.67 E-value=2.3 Score=46.32 Aligned_cols=63 Identities=27% Similarity=0.310 Sum_probs=43.8
Q ss_pred hhhHhhCCCeeeccCC--C---------CchhHHHHHHHHhhHHHHhcCCCCeEEEEEeCCC---cEEEEECCCCccccc
Q 005028 88 LEAVRKRPAMYIGSTG--P---------RGLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDL 153 (718)
Q Consensus 88 lE~VrkRPgMYIGs~~--~---------~gL~~lv~EIldNAvDe~~ag~~~~I~V~l~~dg---~isV~DnGrGIPv~~ 153 (718)
+|..+.||||-|---. . ..|+.++.|.|.|-=-+ + .++.|.|.+..++ ..+|.|||+|.|+..
T Consensus 330 ~~~f~~~tg~~itle~~~~p~~l~~e~~talyRv~QEaltNIErH--a-~Atrv~ill~~~~d~vql~vrDnG~GF~~~~ 406 (459)
T COG4564 330 LEDFKERTGIEITLEFDTQPGKLKPEVATALYRVVQEALTNIERH--A-GATRVTILLQQMGDMVQLMVRDNGVGFSVKE 406 (459)
T ss_pred HHHhhhccCeEEEEEecCCcccCCcHHHHHHHHHHHHHHHHHHhh--c-CCeEEEEEeccCCcceEEEEecCCCCccchh
Confidence 5667799999874321 1 35677777766664222 2 4788988888644 488999999999864
No 107
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=82.49 E-value=1.1 Score=54.09 Aligned_cols=85 Identities=28% Similarity=0.386 Sum_probs=50.7
Q ss_pred HHHHHhhHHHHh--------cC--CCCeEEEEEeCCC---cEEEEECCCCccccccCC----CCccceeee--ee-----
Q 005028 112 YEILDNAVDEAQ--------AG--YASNIEVALLADN---SVSVADNGRGIPIDLHPA----TNKSALETV--LT----- 167 (718)
Q Consensus 112 ~EIldNAvDe~~--------ag--~~~~I~V~l~~dg---~isV~DnGrGIPv~~~~~----~g~~~~E~v--~t----- 167 (718)
-.+|-||+|+-+ +| ...+|.+.-...| .|+|.|||+||..+.... .|.-..+.. ++
T Consensus 438 ~HLvRNAvDHGIE~pE~R~a~GKp~~G~I~L~A~~~gn~ivIev~DDG~Gid~ekI~~KAiErGli~~~~a~~lSd~Ei~ 517 (716)
T COG0643 438 THLVRNAVDHGIETPEERRAAGKPEEGTITLSAYHEGNNIVIEVSDDGAGIDREKIREKAIERGLITEEEAETLSDEEIL 517 (716)
T ss_pred HHHHhcchhccCCCHHHHHHcCCCCcceEEEEEEcCCCeEEEEEeeCCCCCCHHHHHHHHHHcCCCChHHhccCCHHHHH
Confidence 356789999876 24 3456777665444 399999999999876422 343333222 11
Q ss_pred eeccCCCCCCCCCceeeccCccCCchhHHhh
Q 005028 168 VLHAGGKFGGSSSGYSVSGGLHGVGLSVVNA 198 (718)
Q Consensus 168 ~lhag~kF~~~~~~ykvSGGlhGvG~svvNa 198 (718)
.|..-.-|.-.+..--+|| .|||+=||.-
T Consensus 518 ~LIF~PGFSTa~~VtdvSG--RGVGMDVVk~ 546 (716)
T COG0643 518 NLIFAPGFSTAEQVTDVSG--RGVGMDVVKT 546 (716)
T ss_pred HHHhcCCCCcchhhhcccC--CccCHHHHHH
Confidence 2222334543322345666 7999998864
No 108
>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=82.43 E-value=9.7 Score=37.39 Aligned_cols=86 Identities=16% Similarity=0.335 Sum_probs=51.3
Q ss_pred eEEEEEEEecCCC---CCceeeeeccceec-CCCcchHHHHHHHHHHHHHHHH-hhccCCCCCCCCCCHHHHhhccEEEE
Q 005028 330 ITIDLALQWCSDA---YSDTMLGYANSIRT-IDGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVREGLTCII 404 (718)
Q Consensus 330 ~~veval~~s~~~---~~~~~~SFVN~I~T-~~GGTHv~g~~~alt~~in~~~-kk~~~~k~k~~~l~~~dIregL~~vV 404 (718)
..||+|+.|--+. -.-.++-|+|-|+- .+.|. .++|+++..+- +..++. ..+ ..-+.+||
T Consensus 42 FiVEagiayGG~~~~~~~~~ilRfANRVPLly~~g~------cvit~av~~i~W~~Y~l~--------~~~-~~p~~v~V 106 (160)
T PF09239_consen 42 FIVEAGIAYGGEIPPEGKIEILRFANRVPLLYDQGS------CVITKAVKSINWKRYGLD--------QPG-NGPLVVFV 106 (160)
T ss_dssp EEEEEEEEESTTS-SCSS-EEEEEETTEEE-STGCC------SHHHHHHHHS-GCCCT----------SSS--CSEEEEE
T ss_pred EEEEEehhhccCCCCCCCceEEEEccCCceeecCCc------hHHHHHHHhCCchhcCcC--------CCC-CCCEEEEE
Confidence 4589999996221 23578999999983 34444 45677666542 222221 111 34678999
Q ss_pred EEeecCCCCCCccccccCC-chhhhhh
Q 005028 405 SVRVPNPEFEGQTKTRLGN-PEVRKVV 430 (718)
Q Consensus 405 svki~nP~FegQTKekL~n-~ev~~~v 430 (718)
++--++-.|.|--|+...+ +|+..-+
T Consensus 107 hi~ST~VPfts~~KeaIa~~pEI~~Ei 133 (160)
T PF09239_consen 107 HIASTKVPFTSEGKEAIADVPEIEKEI 133 (160)
T ss_dssp EEEESS--BSSTTSSSB---HHHHHHH
T ss_pred EEeecccCccccchhhhcCcHHHHHHH
Confidence 9999999999999999984 4544333
No 109
>COG2972 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]
Probab=79.98 E-value=5 Score=45.95 Aligned_cols=47 Identities=21% Similarity=0.405 Sum_probs=35.0
Q ss_pred hhHHHHHHHHhhHHHHhc--CCCCeEEEEEeC-CC--cEEEEECCCCccccc
Q 005028 107 LHHLVYEILDNAVDEAQA--GYASNIEVALLA-DN--SVSVADNGRGIPIDL 153 (718)
Q Consensus 107 L~~lv~EIldNAvDe~~a--g~~~~I~V~l~~-dg--~isV~DnGrGIPv~~ 153 (718)
+..++-=+||||+-++.. ..+..|.|.... ++ .++|.|||.||.-..
T Consensus 351 p~l~lqpLvENAi~hgi~~~~~~~~I~i~~~~~~~~i~i~i~Dng~g~~~~~ 402 (456)
T COG2972 351 PKLVLQPLVENAIEHGIEPKRPGGSIAISAKKQDDVIQISISDNGPGIDEEK 402 (456)
T ss_pred chHHHhHHHHHHHHHhcccCCCCCEEEEEEEEcCCEEEEEEeeCCCCCChhH
Confidence 456778889999998863 345678877774 44 388999999998653
No 110
>KOG0019 consensus Molecular chaperone (HSP90 family) [Posttranslational modification, protein turnover, chaperones]
Probab=78.29 E-value=3 Score=48.66 Aligned_cols=159 Identities=18% Similarity=0.220 Sum_probs=87.4
Q ss_pred HHHHHHHHhhHHHHhc-------C-C--CCe--EEEEEeC-CCcEEEEECCCCccccccCCCCccceeeeeee-eccCCC
Q 005028 109 HLVYEILDNAVDEAQA-------G-Y--ASN--IEVALLA-DNSVSVADNGRGIPIDLHPATNKSALETVLTV-LHAGGK 174 (718)
Q Consensus 109 ~lv~EIldNAvDe~~a-------g-~--~~~--I~V~l~~-dg~isV~DnGrGIPv~~~~~~g~~~~E~v~t~-lhag~k 174 (718)
-.++|+|.||-|+..- + . ... |.++-+. ++.+++.|.|.||.-+.... -+|. ...|+|
T Consensus 60 vFlRELISNaSDAldKiRy~~lt~~~~~~~~l~I~i~~nk~~~tlti~DtGIGMTk~dLvn--------nLGTIAkSGtK 131 (656)
T KOG0019|consen 60 VFLRELISNASDALEKLRYLELKGDEKALPELEIRIITNKDKRTITIQDTGIGMTKEDLVN--------NLGTIAKSGSK 131 (656)
T ss_pred HHHHhhhccccchHHHHHHHhhcCccccccceeEEeccCCCcceEEEEecCCCcCHHHHHh--------hhhhhhhcccH
Confidence 3568888888886531 1 1 233 5555553 57899999999987543321 1222 233433
Q ss_pred -CCCC---CCceeeccCccCCchhHHhhcccceEEEEEeCC-EEEEEEEecCcccccceeeccCCCCCCCCceEEEEEeC
Q 005028 175 -FGGS---SSGYSVSGGLHGVGLSVVNALSESLEVTVWRDG-MEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPD 249 (718)
Q Consensus 175 -F~~~---~~~ykvSGGlhGvG~svvNalS~~~~V~v~r~g-k~y~q~f~~G~~~~~l~~~~~~~~~~~~~GT~V~F~PD 249 (718)
|-.. ..+-.---|+.|||.-.....+++..|++.... ..|..++..|-.-. . . ....-.+||+|.-.
T Consensus 132 ~Fmealkea~ad~~~IGQFGvGFYSaylVAdkV~V~tk~~~~e~y~Wes~~~gs~~-v--~---~~~~~~rGTki~l~-- 203 (656)
T KOG0019|consen 132 AFLEALKEAEAESNLIGQFGVGFYSAFMVADRVVVTTRHPADEGLQWTSNGRGSYE-I--A---EASGLRTGTKIVIH-- 203 (656)
T ss_pred HHHHHHHhcccchhhhhhcccchhhhhhhhheeEEeeccCCCcceeeecCCCCceE-E--e---eccCccccceEEee--
Confidence 2110 001122349999999999999999999987533 35555555433221 1 1 12236789998854
Q ss_pred ccccccc-cc-cCHHHHHHHHHHHhhcCCCcEEEEeecCC
Q 005028 250 KQVFTTA-IQ-FDHNTIAGRIRELAFLNPKLTIALRKEDS 287 (718)
Q Consensus 250 ~~iF~~~-~~-~d~~~i~~Rl~elA~LnpglkI~l~der~ 287 (718)
...+ .. .+.+.|+.-+...+. +=|..|+|+.++.
T Consensus 204 ---lKe~~~ey~ee~rikeiVKK~S~-Fv~yPI~l~~ek~ 239 (656)
T KOG0019|consen 204 ---LKEGDCEFLEEKRIKEVVKKYSN-FVSYPIYLNGERV 239 (656)
T ss_pred ---ehhhhhhhccHhHHHHHHhhccc-cccccchhhhhhh
Confidence 2110 01 233444444444331 2255677777664
No 111
>PRK04017 hypothetical protein; Provisional
Probab=74.29 E-value=0.73 Score=43.92 Aligned_cols=29 Identities=34% Similarity=0.540 Sum_probs=25.3
Q ss_pred ceeeEEEeecCCCCCchhhhhHHHHHHHH
Q 005028 570 RYHKIIILTDADVDGAHIRTLLLTFFYRY 598 (718)
Q Consensus 570 RYgkIiImTDaDvDG~HI~~Llltff~~~ 598 (718)
.+..|||+||.|-=|..|+..|...|..+
T Consensus 64 ~~r~VIILTD~D~~GekIr~~l~~~l~~~ 92 (132)
T PRK04017 64 RGKEVIILTDFDRKGEELAKKLSEYLQGY 92 (132)
T ss_pred cCCeEEEEECCCcchHHHHHHHHHHHHhC
Confidence 46689999999999999999998877754
No 112
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=72.96 E-value=4 Score=47.96 Aligned_cols=98 Identities=23% Similarity=0.380 Sum_probs=64.2
Q ss_pred hhHHHHHHHHhhHHHHhcCCCCeEEEEEeC--CC-cEEEEECCCCccccccCCCCccceeeeeeeeccCCCCCCCCCcee
Q 005028 107 LHHLVYEILDNAVDEAQAGYASNIEVALLA--DN-SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYS 183 (718)
Q Consensus 107 L~~lv~EIldNAvDe~~ag~~~~I~V~l~~--dg-~isV~DnGrGIPv~~~~~~g~~~~E~v~t~lhag~kF~~~~~~yk 183 (718)
|-.++.-+|.||+-....+ .+.|.|..+. |. +++|.|||-||....... .=.+|-.+|+-..|.
T Consensus 637 l~qv~~NLi~Naik~~~~e-~~~i~I~~~r~ed~~t~sV~dng~Gi~~a~~~r-----iF~iFqRl~s~~~y~------- 703 (750)
T COG4251 637 LGQVFQNLIANAIKFGGPE-NPDIEISAERQEDEWTFSVRDNGIGIDPAYFER-----IFVIFQRLHSRDEYL------- 703 (750)
T ss_pred HHHHHHHHHhhheecCCCC-CCceEEeeeccCCceEEEecCCCCCcCHHHHHH-----HHHHHHhcCchhhhc-------
Confidence 4566777777777544333 5789999873 44 599999999998765321 123577777765543
Q ss_pred eccCccCCchhHHhhcccce----EEEEE-eCCEEEEEEEecC
Q 005028 184 VSGGLHGVGLSVVNALSESL----EVTVW-RDGMEYHQKYSRG 221 (718)
Q Consensus 184 vSGGlhGvG~svvNalS~~~----~V~v~-r~gk~y~q~f~~G 221 (718)
| +|.|+.++-.+.+.- .|++. .+|..|.++--.|
T Consensus 704 ---g-tG~GL~I~kkI~e~H~G~i~vEs~~gEgsTF~f~lp~~ 742 (750)
T COG4251 704 ---G-TGLGLAICKKIAERHQGRIWVESTPGEGSTFYFTLPVG 742 (750)
T ss_pred ---C-CCccHHHHHHHHHHhCceEEEeecCCCceeEEEEeecC
Confidence 3 899999988877654 34443 4556666655433
No 113
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=67.91 E-value=51 Score=38.32 Aligned_cols=98 Identities=18% Similarity=0.381 Sum_probs=61.7
Q ss_pred eEEEEEEEecCCC---CCceeeeeccceec-CCCcchHHHHHHHHHHHHHHHH-hhccCCCCCCCCCCHHHHh-hccEEE
Q 005028 330 ITIDLALQWCSDA---YSDTMLGYANSIRT-IDGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVR-EGLTCI 403 (718)
Q Consensus 330 ~~veval~~s~~~---~~~~~~SFVN~I~T-~~GGTHv~g~~~alt~~in~~~-kk~~~~k~k~~~l~~~dIr-egL~~v 403 (718)
.-||+|+.|--+. ..-.++-|+|-|+- .+.|. .++++++..+- +..++. ++- .-+.++
T Consensus 348 fiVE~~iayGg~~~~~~~~~i~RfaNrvPLl~~~g~------~~~t~~v~~i~w~~Y~~~----------~~~~~p~~v~ 411 (488)
T TIGR01052 348 FIVEVGIAYGGNIGRRSEPEILRYANKVPLLYDAGS------CVLTKAVKSINWKRYGIR----------DFPSAPLVVL 411 (488)
T ss_pred eEEEEeeecCCcCCCCCceeEEEecccCceeecccc------cHHHHHHHhCChhhcCCC----------CCCCCCEEEE
Confidence 4689999996221 12468999999884 23443 45666665432 222221 122 247899
Q ss_pred EEEeecCCCCCCccccccCC-chhhhhhhhhHH---HHHHHHHh
Q 005028 404 ISVRVPNPEFEGQTKTRLGN-PEVRKVVDQSVQ---EYLTEYLE 443 (718)
Q Consensus 404 Vsvki~nP~FegQTKekL~n-~ev~~~v~~~v~---~~l~~~l~ 443 (718)
|++--++-.|.|--|+.+++ ||+..-++..+. .+|..||.
T Consensus 412 vhi~St~vPf~s~~Ke~ia~~~ei~~ei~~al~~~~r~L~~~l~ 455 (488)
T TIGR01052 412 VNLASTNVPYTSTGKQSVADIPEIYNEIRLALMEVARRLRLYLS 455 (488)
T ss_pred EEEeecCCCCCCcchhhhcCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999964 665555544432 35555554
No 114
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=66.69 E-value=57 Score=38.37 Aligned_cols=100 Identities=18% Similarity=0.390 Sum_probs=64.0
Q ss_pred eEEEEEEEecCCC---CCceeeeeccceec-CCCcchHHHHHHHHHHHHHHHH-hhccCCCCCCCCCCHHHHhhccEEEE
Q 005028 330 ITIDLALQWCSDA---YSDTMLGYANSIRT-IDGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVREGLTCII 404 (718)
Q Consensus 330 ~~veval~~s~~~---~~~~~~SFVN~I~T-~~GGTHv~g~~~alt~~in~~~-kk~~~~k~k~~~l~~~dIregL~~vV 404 (718)
..||+|+.|--+. ..-.++-|+|-|+- .+.|. .++++++..+- +..++... =..-+.++|
T Consensus 353 fiVE~~iayGg~~~~~~~~~i~RfANrvPLl~~~g~------~~~t~~v~~i~w~~Y~~~~~---------~~~p~~v~v 417 (535)
T PRK04184 353 FIVEVGIAYGGEIPPDDKPELLRFANRVPLLYDEGS------CVITKAVESIDWKRYGIEQP---------PQAPLVVLV 417 (535)
T ss_pred eEEEEEeeecCCCCCCCCceEEEEccCCceeecCCc------cHHHHHHHhCChhhcCcCCC---------CCCCEEEEE
Confidence 5689999996211 12478999999883 34443 45566664432 22333211 012468899
Q ss_pred EEeecCCCCCCccccccCC-chhhhhhhhhHH---HHHHHHHhh
Q 005028 405 SVRVPNPEFEGQTKTRLGN-PEVRKVVDQSVQ---EYLTEYLEL 444 (718)
Q Consensus 405 svki~nP~FegQTKekL~n-~ev~~~v~~~v~---~~l~~~l~~ 444 (718)
++--++-.|.|--|+..++ ||+..-++..+. .+|..||.+
T Consensus 418 hi~St~vP~~s~~Ke~ia~~~ei~~ei~~al~~~~r~L~~~l~~ 461 (535)
T PRK04184 418 HVASTKVPYTSEGKEAIADVPEIEKEIRLALQEVARKLKKYLSR 461 (535)
T ss_pred EEeecCCCCCCcchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999986 666555554443 466677654
No 115
>COG3275 LytS Putative regulator of cell autolysis [Signal transduction mechanisms]
Probab=65.32 E-value=9.1 Score=43.77 Aligned_cols=44 Identities=20% Similarity=0.375 Sum_probs=31.3
Q ss_pred HHHHHHHHhhHHHHhcC--CCCeEEEEEeC-CC--cEEEEECCCCcccc
Q 005028 109 HLVYEILDNAVDEAQAG--YASNIEVALLA-DN--SVSVADNGRGIPID 152 (718)
Q Consensus 109 ~lv~EIldNAvDe~~ag--~~~~I~V~l~~-dg--~isV~DnGrGIPv~ 152 (718)
=++.=+|+||+-+.... ....|.|.+.. |+ .+.|+|||+||+.+
T Consensus 459 filQPLVENAIKHG~~~~~~~g~V~I~V~~~d~~l~i~VeDng~li~p~ 507 (557)
T COG3275 459 FILQPLVENAIKHGISQLKDTGRVTISVEKEDADLRIEVEDNGGLIQPD 507 (557)
T ss_pred hhhhHHHHHHHHhcccchhcCCceEEEEEEeCCeEEEEEecCCCCcCCC
Confidence 35678899999998753 23345555442 33 59999999999986
No 116
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=63.62 E-value=57 Score=39.28 Aligned_cols=99 Identities=13% Similarity=0.292 Sum_probs=63.8
Q ss_pred eEEEEEEEecCC---CC----CceeeeeccceecC-CCcchHHHHHHHHHHHHHHHH-hhccCCCCCCCCCCHHHHhh-c
Q 005028 330 ITIDLALQWCSD---AY----SDTMLGYANSIRTI-DGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVRE-G 399 (718)
Q Consensus 330 ~~veval~~s~~---~~----~~~~~SFVN~I~T~-~GGTHv~g~~~alt~~in~~~-kk~~~~k~k~~~l~~~dIre-g 399 (718)
..||+|+.|--+ .. .-.+.-|+|-||-. +.|. .++|+++..+- +..++.. .-. -
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 458999999632 11 23699999998842 2333 45566665432 2233211 112 3
Q ss_pred cEEEEEEeecCCCCCCccccccC-----CchhhhhhhhhHH---HHHHHHHhh
Q 005028 400 LTCIISVRVPNPEFEGQTKTRLG-----NPEVRKVVDQSVQ---EYLTEYLEL 444 (718)
Q Consensus 400 L~~vVsvki~nP~FegQTKekL~-----n~ev~~~v~~~v~---~~l~~~l~~ 444 (718)
+++||++--++-.|.|--|+.+. +||+..-++..+. ..|..||.+
T Consensus 562 ~~v~vhv~St~vPfts~~Keaia~~~~~~~eI~~Ei~lAl~~~~r~L~~~l~~ 614 (659)
T PRK14867 562 ITVFVNLISTHIPYTSAGKQAIACSEEENEEIFNEIRQALMICARELEKYISR 614 (659)
T ss_pred EEEEEEEeecCCCCCCccHHHhhccCCCChHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78999999999999999999998 6777666555543 466666653
No 117
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=60.52 E-value=91 Score=35.87 Aligned_cols=100 Identities=17% Similarity=0.327 Sum_probs=66.2
Q ss_pred eEEEEEEEecCC---CCCceeeeeccceec--CCCcchHHHHHHHHHHHHHHHH-hhccCCCCCCCCCCHHHHhhccEEE
Q 005028 330 ITIDLALQWCSD---AYSDTMLGYANSIRT--IDGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVREGLTCI 403 (718)
Q Consensus 330 ~~veval~~s~~---~~~~~~~SFVN~I~T--~~GGTHv~g~~~alt~~in~~~-kk~~~~k~k~~~l~~~dIregL~~v 403 (718)
..||+++.|--+ +....+.-|+|-|+- ..|| .++++++.++- +..|+ ...+ .-|.++
T Consensus 357 FiVEvgiAYGG~i~~~e~~~llRyANrvPLlyd~g~-------cv~tk~V~~i~WkrYgl--------~~~~--aplvvl 419 (538)
T COG1389 357 FIVEVGIAYGGNIPGGEKPLLLRYANRVPLLYDAGS-------CVITKVVESIDWKRYGL--------DQPD--APLVVL 419 (538)
T ss_pred eEEEEEeeccCCCCCCcchhhhhhcccCceeeecCc-------chhhHhhhhccceecCc--------CCCC--CcEEEE
Confidence 568999999631 122358899999873 2332 34566665542 22222 2222 567999
Q ss_pred EEEeecCCCCCCccccccC-CchhhhhhhhhH---HHHHHHHHhhCH
Q 005028 404 ISVRVPNPEFEGQTKTRLG-NPEVRKVVDQSV---QEYLTEYLELHP 446 (718)
Q Consensus 404 Vsvki~nP~FegQTKekL~-n~ev~~~v~~~v---~~~l~~~l~~np 446 (718)
|++--+|-.|.|--|+... .|++..-+...+ ..+|..||....
T Consensus 420 Vhv~St~VPyts~gKqsIa~vpeIe~Eir~Al~evaRkL~~yLsrk~ 466 (538)
T COG1389 420 VHVASTNVPYTSAGKQSIADVPEIENEIRLALMEVARKLKLYLSRKR 466 (538)
T ss_pred EEecccCCCcCCccchhccccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999998 566555544443 468888887643
No 118
>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=59.92 E-value=1.1 Score=39.04 Aligned_cols=27 Identities=41% Similarity=0.655 Sum_probs=23.8
Q ss_pred eeeEEEeecCCCCCchhhhhHHHHHHH
Q 005028 571 YHKIIILTDADVDGAHIRTLLLTFFYR 597 (718)
Q Consensus 571 YgkIiImTDaDvDG~HI~~Llltff~~ 597 (718)
+..|||+||.|-=|..|+.-+...+-.
T Consensus 45 ~~~VIiltD~D~aG~~i~~~~~~~l~~ 71 (81)
T cd01027 45 YRGVIILTDPDRKGEKIRKKLSEYLSG 71 (81)
T ss_pred CCEEEEEECCCHHHHHHHHHHHHHhcc
Confidence 789999999999999999988777643
No 119
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=59.80 E-value=2.3 Score=40.35 Aligned_cols=25 Identities=48% Similarity=0.699 Sum_probs=21.8
Q ss_pred ccceeeEEEeecCCCCCchhhhhHH
Q 005028 568 ALRYHKIIILTDADVDGAHIRTLLL 592 (718)
Q Consensus 568 ~LRYgkIiImTDaDvDG~HI~~Lll 592 (718)
.++|..|||+||.|.=|.-||--|.
T Consensus 52 ~~~~k~VIILTD~D~~Ge~Irk~l~ 76 (127)
T COG1658 52 AQKYKGVIILTDPDRKGERIRKKLK 76 (127)
T ss_pred hhccCCEEEEeCCCcchHHHHHHHH
Confidence 3578889999999999999998764
No 120
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=56.97 E-value=74 Score=38.89 Aligned_cols=104 Identities=16% Similarity=0.344 Sum_probs=64.1
Q ss_pred eEEEEEEEecCCCC---CceeeeeccceecC-CCcchHHHHHHHHHHHHHHHH-hhccCCCCCCCCCCHHHHhh-ccEEE
Q 005028 330 ITIDLALQWCSDAY---SDTMLGYANSIRTI-DGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVRE-GLTCI 403 (718)
Q Consensus 330 ~~veval~~s~~~~---~~~~~SFVN~I~T~-~GGTHv~g~~~alt~~in~~~-kk~~~~k~k~~~l~~~dIre-gL~~v 403 (718)
..||+++.|--+.- .-.+.-|+|-||-. +.|. .+++++++.+- +..++...++. .+-. -++++
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 56899999962211 24689999998842 2332 45566665442 33343222111 1112 36899
Q ss_pred EEEeecCCCCCCccccccCC-chhhhhhhhhHH---HHHHHHHhh
Q 005028 404 ISVRVPNPEFEGQTKTRLGN-PEVRKVVDQSVQ---EYLTEYLEL 444 (718)
Q Consensus 404 Vsvki~nP~FegQTKekL~n-~ev~~~v~~~v~---~~l~~~l~~ 444 (718)
|++--+|-.|.|-.|+.+.+ ||+..-++..+. ..|..||.+
T Consensus 611 VhvaST~VPfts~sKeaIA~vpEI~~EI~lAl~~~aR~Lk~yl~k 655 (795)
T PRK14868 611 VHVASTNVPFTSESKDAIANVPEIEDEIELAIREAARELKSYLNK 655 (795)
T ss_pred EEEeecCCCCCCcchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999975 666555544443 466666643
No 121
>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=51.13 E-value=30 Score=29.75 Aligned_cols=33 Identities=15% Similarity=0.503 Sum_probs=26.2
Q ss_pred hhhhhhhhhHHHHHHHHHhhC-HHHHHHHHHHHH
Q 005028 425 EVRKVVDQSVQEYLTEYLELH-PDVLDSILSKSL 457 (718)
Q Consensus 425 ev~~~v~~~v~~~l~~~l~~n-p~~~~~I~~k~~ 457 (718)
-+-..|..++...|++||+.| |.+++.++++-+
T Consensus 34 TlE~lvremLRPmLkeWLD~nLP~lVErlVr~EI 67 (73)
T PF10691_consen 34 TLEDLVREMLRPMLKEWLDENLPGLVERLVREEI 67 (73)
T ss_pred cHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence 366778888999999999998 888887776443
No 122
>PRK04031 DNA primase; Provisional
Probab=48.67 E-value=19 Score=40.60 Aligned_cols=53 Identities=26% Similarity=0.327 Sum_probs=32.8
Q ss_pred ceeeEEEeecCCCCCchhhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHH
Q 005028 570 RYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKS 638 (718)
Q Consensus 570 RYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~~G~v~~~~tPL~kv~~gk~~~y~ys~~E~~~~~~ 638 (718)
+-.+|++++|.|.-|--|+--|+.. .-+.|++.-| .|+.. --++-++..+.+.
T Consensus 209 k~~~Vil~~DgD~aGe~I~k~l~~v----------~~~d~VaraP-----~G~dV-E~ls~eeI~kAL~ 261 (408)
T PRK04031 209 KKKTVTAFLDGDRGGELILKELLQV----------ADIDYVARAP-----PGKEV-EELTKKEIAKALR 261 (408)
T ss_pred cCCCEEEEECCCHHHHHHHHHHHhh----------cceeEEecCC-----CCCCh-hhCCHHHHHHHHH
Confidence 3568999999999997664433321 2267888888 55432 3345555555443
No 123
>KOG1413 consensus N-acetylglucosaminyltransferase I [Carbohydrate transport and metabolism]
Probab=38.16 E-value=11 Score=41.60 Aligned_cols=79 Identities=28% Similarity=0.513 Sum_probs=43.3
Q ss_pred ccceeeEEEeecCCCCCchhhhhHHHHHHHHHHHhhh--cCcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHHhCCCCCc
Q 005028 568 ALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFD--EGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNAL 645 (718)
Q Consensus 568 ~LRYgkIiImTDaDvDG~HI~~Llltff~~~~p~Li~--~G~v~~~~tPL~kv~~gk~~~y~ys~~E~~~~~~~~~~~~~ 645 (718)
.-||+.+||..|- . . +..-||.|+..-+. +|. |-|..| .+|++.-..+.++...+...
T Consensus 165 ~~~~s~vii~eDD-l---~----iapDFF~YF~~t~~llk~D-----~siwcv-------saWNDNGk~~~Id~~~~~~l 224 (411)
T KOG1413|consen 165 VFRESRVIITEDD-L---N----IAPDFFSYFRNTIILLKGD-----PSIWCV-------SAWNDNGKKQTIDSTRPSLL 224 (411)
T ss_pred hcCCceeEEecch-h---h----hhhHHHHHHHHHHHHHhcC-----CceEEe-------eeeccCCCcccccccccchh
Confidence 3469999999873 2 2 33455655544321 121 222222 12333333333322212234
Q ss_pred ccceEeeccCCCChhhHHhhh
Q 005028 646 YSIQRFKGLGEMMPVQLWETT 666 (718)
Q Consensus 646 ~~ikryKGLGem~~~ql~ett 666 (718)
|.-.-|+|||=|...++|+-.
T Consensus 225 YRtDFFpGLGWml~~~~W~EL 245 (411)
T KOG1413|consen 225 YRTDFFPGLGWMLTKKLWEEL 245 (411)
T ss_pred hhccccccchHHHHHHHHHhh
Confidence 677889999999999999854
No 124
>COG2865 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]
Probab=37.50 E-value=49 Score=38.19 Aligned_cols=46 Identities=22% Similarity=0.438 Sum_probs=33.8
Q ss_pred hHHHHHHHHhhHHHHhcCC-CCeEEEEEeCCCcEEEEECCCCccccccC
Q 005028 108 HHLVYEILDNAVDEAQAGY-ASNIEVALLADNSVSVADNGRGIPIDLHP 155 (718)
Q Consensus 108 ~~lv~EIldNAvDe~~ag~-~~~I~V~l~~dg~isV~DnGrGIPv~~~~ 155 (718)
...++|+|.||+=+..-.. ...|.|.+.+| .|.|++.| |.|.++-+
T Consensus 272 ~~alREai~NAv~HRDYs~~~~~v~I~iydD-RieI~NPG-gl~~gi~~ 318 (467)
T COG2865 272 LEALREAIINAVIHRDYSIRGRNVHIEIYDD-RIEITNPG-GLPPGITP 318 (467)
T ss_pred HHHHHHHHHHHHHhhccccCCCceEEEEECC-eEEEECCC-CCCCCCCh
Confidence 3688999999996543222 34888998855 99999998 67776543
No 125
>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=37.11 E-value=24 Score=33.72 Aligned_cols=25 Identities=28% Similarity=0.423 Sum_probs=21.8
Q ss_pred eeeEEEeecCCCCCchhhhhHHHHH
Q 005028 571 YHKIIILTDADVDGAHIRTLLLTFF 595 (718)
Q Consensus 571 YgkIiImTDaDvDG~HI~~Llltff 595 (718)
...|||.||+|--|-+|.-.+++++
T Consensus 91 ~d~iiiAtD~DrEGE~I~~~i~~~~ 115 (142)
T cd01028 91 ADEIVLATDPDREGELIAWEILEVL 115 (142)
T ss_pred CCEEEEcCCCCcchHHHHHHHHHHh
Confidence 3689999999999999988887766
No 126
>KOG4518 consensus Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]
Probab=29.33 E-value=61 Score=33.22 Aligned_cols=38 Identities=21% Similarity=0.197 Sum_probs=34.4
Q ss_pred CeeeccCCCCchhHHHHHHHHhhHHHHhcCCCCeEEEE
Q 005028 96 AMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVA 133 (718)
Q Consensus 96 gMYIGs~~~~gL~~lv~EIldNAvDe~~ag~~~~I~V~ 133 (718)
+|..|+++.+|-.+.|++=||-|||-+.+=.|.+|.+.
T Consensus 69 ~~~~G~~svpg~~k~FR~~Ld~ai~yAkalgC~rIHlm 106 (264)
T KOG4518|consen 69 DGFRGLASVPGAKKEFRKSLDTAIEYAKALGCCRIHLM 106 (264)
T ss_pred hhccCcccCCchHHHHHHHHHHHHHHHHHhCCceEEEe
Confidence 58999999999999999999999999988778888765
No 127
>PF14484 FISNA: Fish-specific NACHT associated domain
Probab=27.65 E-value=34 Score=29.34 Aligned_cols=15 Identities=33% Similarity=0.457 Sum_probs=12.4
Q ss_pred CCceEEEeeccCCCc
Q 005028 497 EESEIFIVEGDSAGG 511 (718)
Q Consensus 497 ~~~eL~lvEGDSA~G 511 (718)
--++||||||+|.+-
T Consensus 29 iYTeLyIteg~~~~v 43 (73)
T PF14484_consen 29 IYTELYITEGGSGEV 43 (73)
T ss_pred hceeeeEeccCCCcc
Confidence 358999999999863
No 128
>cd03363 TOPRIM_TopoIA_TopoI TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA duplex, covalently linking to the 5' phosphoryl end of the DNA break and, allowing the other strand of the duplex to pass through the gap. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general base in strand joining and, as a general acid in strand cleavage. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=25.39 E-value=45 Score=31.27 Aligned_cols=24 Identities=29% Similarity=0.390 Sum_probs=19.8
Q ss_pred eeEEEeecCCCCCchhhhhHHHHH
Q 005028 572 HKIIILTDADVDGAHIRTLLLTFF 595 (718)
Q Consensus 572 gkIiImTDaDvDG~HI~~Llltff 595 (718)
..|||.||+|..|.+|.-.++..+
T Consensus 74 ~eiiiAtD~drEGe~i~~~i~~~~ 97 (123)
T cd03363 74 DEIYLATDPDREGEAIAWHLAEVL 97 (123)
T ss_pred CEEEEcCCCCcchHHHHHHHHHHc
Confidence 369999999999999987665554
No 129
>PF00640 PID: Phosphotyrosine interaction domain (PTB/PID) A page on PI domains.; InterPro: IPR006020 The PI domain has a similar structure to the insulin receptor substrate-1 PTB domain, a 7-stranded beta-sandwich, capped by a C-terminal helix. However, the PI domain contains an additional short N-terminal helix and a large insertion between strands 1 and 2, which forms a helix and 2 long connecting loops. The substrate peptide fits into a surface cleft formed from the C-terminal helix and strand 5 [].; GO: 0005515 protein binding; PDB: 1WGU_A 2YT0_A 2YT1_A 2YSZ_A 2ROZ_B 3SO6_A 2DYQ_A 1AQC_A 1X11_B 1WJ1_A ....
Probab=25.20 E-value=1.2e+02 Score=28.19 Aligned_cols=60 Identities=20% Similarity=0.318 Sum_probs=37.5
Q ss_pred eeeccCCCCch--------hHHHHHHHHhhHHH-------Hh--cCCCCeEEEEEeCCCcEEEEECCCCccccccCCC
Q 005028 97 MYIGSTGPRGL--------HHLVYEILDNAVDE-------AQ--AGYASNIEVALLADNSVSVADNGRGIPIDLHPAT 157 (718)
Q Consensus 97 MYIGs~~~~gL--------~~lv~EIldNAvDe-------~~--ag~~~~I~V~l~~dg~isV~DnGrGIPv~~~~~~ 157 (718)
-|+||+..... .+++.+.+.....+ .. ......|.+.|..+ .|.|.|.-.+-.+..||-.
T Consensus 4 kYLGs~~V~~~~~~~~~~g~~~v~~ai~~~~~~~~~~~~~~~~~~~~~~~V~l~vs~~-gI~v~~~~t~~~l~~~~i~ 80 (140)
T PF00640_consen 4 KYLGSVEVSSSRRGDKSRGSDVVREAIQRLKAEKIAKSKKSKSNKKKPQKVTLNVSSD-GIKVIDPDTGEVLMSHPIR 80 (140)
T ss_dssp EEEEEEEESSSSSTCHHHHHHHHHHHHHHHHHHCCCSHHHHHTTTSTSEEEEEEEETT-EEEEEETTTTCEEEEEEGG
T ss_pred EEEEEEEECCccCCCcchhHHHHHHHHHHHHhhhhhhhhccccccccCeEEEEEEcCC-eEEEecCccccccccCCcc
Confidence 59999875554 34556666555555 11 22455677777655 6899987767776666543
No 130
>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=23.59 E-value=54 Score=32.88 Aligned_cols=25 Identities=36% Similarity=0.530 Sum_probs=20.7
Q ss_pred cceeeEEEeecCCCCCchhhhhHHH
Q 005028 569 LRYHKIIILTDADVDGAHIRTLLLT 593 (718)
Q Consensus 569 LRYgkIiImTDaDvDG~HI~~Lllt 593 (718)
....-|||+||+|-=|-.||-.|.-
T Consensus 45 ~~~rgVIIfTDpD~~GekIRk~i~~ 69 (174)
T TIGR00334 45 QKKQGVIILTDPDFPGEKIRKKIEQ 69 (174)
T ss_pred hhcCCEEEEeCCCCchHHHHHHHHH
Confidence 3456799999999999999987643
No 131
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=21.99 E-value=3.1 Score=35.75 Aligned_cols=19 Identities=26% Similarity=0.375 Sum_probs=14.8
Q ss_pred eeeEEEeecCCCCCchhhh
Q 005028 571 YHKIIILTDADVDGAHIRT 589 (718)
Q Consensus 571 YgkIiImTDaDvDG~HI~~ 589 (718)
+.+|||++|.|..|--...
T Consensus 46 ~~~Vii~~D~D~~G~~~a~ 64 (81)
T PF13662_consen 46 VKEVIIAFDNDKAGEKAAQ 64 (81)
T ss_dssp -SEEEEEEESSHHHHHHHH
T ss_pred CceEEEEeCcCHHHHHHHH
Confidence 4899999999999964433
No 132
>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=20.56 E-value=45 Score=29.57 Aligned_cols=58 Identities=36% Similarity=0.503 Sum_probs=37.7
Q ss_pred EEEeeccCCCcc----cc---ccCCCCceEecccCcccccccccCHHHHhhChhHHHHHHHhcCCccCCcCcccccceee
Q 005028 501 IFIVEGDSAGGS----AK---QGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHK 573 (718)
Q Consensus 501 L~lvEGDSA~Gs----ak---~gRdr~~qailPLrGKiLNv~ka~~~ki~~N~Ei~~li~~lG~~~~~~~~~~~~LRYgk 573 (718)
.+||||+|=-.. ++ ...+...-.|.|..|| |+... ..++..+|. +
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 1233445678888886 55433 234445444 5
Q ss_pred EEEeecCCCCCch
Q 005028 574 IIILTDADVDGAH 586 (718)
Q Consensus 574 IiImTDaDvDG~H 586 (718)
+.+++|.|..+.+
T Consensus 58 ~~vi~D~D~~~~~ 70 (97)
T cd01026 58 VAVLTDLDAKRNE 70 (97)
T ss_pred EEEEEeCCCCCCc
Confidence 7899999998876
No 133
>cd03362 TOPRIM_TopoIA_TopoIII TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA duplex, covalently linking to the 5' phosphoryl end of the DNA break and, allowing the other strand of the duplex to pass through the gap. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general base in strand joining and, as a general acid in strand cleavage. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=20.08 E-value=85 Score=30.32 Aligned_cols=26 Identities=35% Similarity=0.468 Sum_probs=21.5
Q ss_pred eeeEEEeecCCCCCchhhhhHHHHHH
Q 005028 571 YHKIIILTDADVDGAHIRTLLLTFFY 596 (718)
Q Consensus 571 YgkIiImTDaDvDG~HI~~Llltff~ 596 (718)
...|||.||+|--|.+|--.++..+-
T Consensus 99 ad~ii~atD~DrEGE~I~~~i~~~~~ 124 (151)
T cd03362 99 ADEIVIATDADREGELIGREILEYAK 124 (151)
T ss_pred CCeEEEccCCCccccHHHHHHHHHhC
Confidence 35799999999999999887766553
Done!