Query 007002
Match_columns 622
No_of_seqs 223 out of 1650
Neff 7.1
Searched_HMMs 46136
Date Thu Mar 28 17:32:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007002.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/007002hhsearch_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 6E-203 1E-207 1627.3 58.9 608 1-622 26-635 (635)
2 PTZ00109 DNA gyrase subunit b; 100.0 4E-187 9E-192 1566.1 58.0 609 1-614 120-901 (903)
3 TIGR01058 parE_Gpos DNA topois 100.0 8E-186 2E-190 1553.2 61.3 599 1-615 25-630 (637)
4 PRK05644 gyrB DNA gyrase subun 100.0 9E-179 2E-183 1502.4 61.8 608 1-622 28-638 (638)
5 PRK05559 DNA topoisomerase IV 100.0 6E-178 1E-182 1496.0 60.1 597 1-615 28-628 (631)
6 PRK14939 gyrB DNA gyrase subun 100.0 5E-178 1E-182 1499.6 59.6 608 1-622 27-756 (756)
7 TIGR01055 parE_Gneg DNA topois 100.0 1E-174 3E-179 1463.2 58.2 595 1-613 24-623 (625)
8 TIGR01059 gyrB DNA gyrase, B s 100.0 2E-172 4E-177 1461.4 61.1 609 1-622 21-654 (654)
9 smart00433 TOP2c Topoisomerase 100.0 6E-172 1E-176 1441.5 55.0 589 10-613 1-594 (594)
10 PHA02569 39 DNA topoisomerase 100.0 7E-168 2E-172 1399.9 54.6 550 1-610 19-602 (602)
11 PTZ00108 DNA topoisomerase 2-l 100.0 2E-165 5E-170 1451.2 58.3 586 1-618 25-654 (1388)
12 PLN03128 DNA topoisomerase 2; 100.0 1E-162 3E-167 1419.5 60.0 584 1-618 22-647 (1135)
13 PLN03237 DNA topoisomerase 2; 100.0 5E-160 1E-164 1398.1 58.6 575 1-617 47-671 (1465)
14 KOG0355 DNA topoisomerase type 100.0 3E-118 8E-123 982.6 32.8 574 6-613 49-637 (842)
15 cd03366 TOPRIM_TopoIIA_GyrB TO 100.0 1.5E-58 3.2E-63 404.3 11.3 114 403-517 1-114 (114)
16 cd01030 TOPRIM_TopoIIA_like TO 100.0 1.7E-57 3.8E-62 400.0 10.7 115 403-517 1-115 (115)
17 cd03365 TOPRIM_TopoIIA TOPRIM_ 100.0 2E-54 4.4E-59 382.8 8.7 115 403-517 1-120 (120)
18 cd00822 TopoII_Trans_DNA_gyras 100.0 4.6E-41 1E-45 323.3 20.2 170 205-375 1-171 (172)
19 PF00204 DNA_gyraseB: DNA gyra 100.0 5.3E-40 1.1E-44 317.1 19.9 169 206-376 1-173 (173)
20 cd03481 TopoIIA_Trans_ScTopoII 100.0 9.5E-31 2.1E-35 245.8 15.2 146 206-363 2-150 (153)
21 PRK00095 mutL DNA mismatch rep 99.9 1.8E-24 3.8E-29 246.5 24.2 260 8-318 20-295 (617)
22 PF00986 DNA_gyraseB_C: DNA gy 99.9 7.6E-25 1.6E-29 173.2 5.4 63 547-609 3-65 (65)
23 TIGR01052 top6b DNA topoisomer 99.9 3.5E-22 7.6E-27 218.1 8.9 260 7-316 25-307 (488)
24 COG1389 DNA topoisomerase VI, 99.9 7.9E-23 1.7E-27 214.4 3.6 261 8-316 34-317 (538)
25 PRK04184 DNA topoisomerase VI 99.8 1.9E-19 4.1E-24 198.8 9.3 260 8-316 34-313 (535)
26 TIGR00585 mutl DNA mismatch re 99.7 3.3E-16 7.2E-21 165.3 22.1 261 8-318 20-301 (312)
27 COG0323 MutL DNA mismatch repa 99.7 5.1E-17 1.1E-21 185.0 11.6 257 10-314 23-296 (638)
28 PRK14868 DNA topoisomerase VI 99.6 3.4E-15 7.4E-20 168.2 10.4 229 5-274 41-286 (795)
29 PRK14867 DNA topoisomerase VI 99.5 3.5E-14 7.6E-19 159.9 12.4 161 8-190 34-211 (659)
30 KOG1978 DNA mismatch repair pr 99.4 3.8E-12 8.2E-17 140.9 12.4 237 8-286 18-272 (672)
31 PF01751 Toprim: Toprim domain 99.1 3.4E-11 7.4E-16 105.8 4.3 96 404-514 1-97 (100)
32 KOG1979 DNA mismatch repair pr 99.1 2.1E-10 4.6E-15 124.3 8.2 153 12-189 29-197 (694)
33 PRK05218 heat shock protein 90 99.0 1.3E-07 2.8E-12 108.3 26.0 159 12-188 28-210 (613)
34 PF13589 HATPase_c_3: Histidin 98.9 4.3E-10 9.3E-15 104.6 -0.0 96 12-123 4-106 (137)
35 PF02518 HATPase_c: Histidine 98.8 2.3E-09 5E-14 95.2 1.5 87 7-110 2-91 (111)
36 PRK14083 HSP90 family protein; 98.7 1.1E-06 2.3E-11 100.2 22.7 161 12-189 25-197 (601)
37 cd00329 TopoII_MutL_Trans MutL 98.7 2.9E-08 6.3E-13 87.2 7.5 100 208-325 2-106 (107)
38 COG0326 HtpG Molecular chapero 98.4 2.7E-05 5.9E-10 87.4 20.9 128 15-158 32-186 (623)
39 KOG1977 DNA mismatch repair pr 98.4 1.5E-07 3.3E-12 104.0 2.3 164 9-190 20-195 (1142)
40 PTZ00272 heat shock protein 83 98.3 3.9E-06 8.4E-11 96.8 12.5 154 14-186 29-205 (701)
41 PTZ00130 heat shock protein 90 97.9 6.3E-05 1.4E-09 87.3 11.7 157 15-187 93-271 (814)
42 cd00075 HATPase_c Histidine ki 97.7 6.4E-05 1.4E-09 63.4 5.6 78 11-105 1-81 (103)
43 smart00387 HATPase_c Histidine 97.4 0.00027 5.9E-09 60.5 5.3 84 8-108 3-89 (111)
44 PF13581 HATPase_c_2: Histidin 97.2 0.0011 2.3E-08 60.0 7.0 90 10-121 31-124 (125)
45 PRK14939 gyrB DNA gyrase subun 97.2 3.1E-05 6.7E-10 90.0 -4.1 49 552-601 575-624 (756)
46 COG3290 CitA Signal transducti 97.1 0.00057 1.2E-08 75.6 5.3 80 8-107 425-509 (537)
47 PRK04069 serine-protein kinase 97.0 0.0012 2.7E-08 63.0 6.1 92 9-117 41-136 (161)
48 TIGR02938 nifL_nitrog nitrogen 97.0 0.00099 2.1E-08 73.4 6.2 82 9-107 386-472 (494)
49 PRK11086 sensory histidine kin 97.0 0.0013 2.9E-08 73.9 6.8 76 10-105 433-511 (542)
50 TIGR01925 spIIAB anti-sigma F 96.9 0.0037 8E-08 57.5 7.9 82 9-110 38-123 (137)
51 PRK15053 dpiB sensor histidine 96.9 0.0019 4.1E-08 73.2 7.1 83 7-106 429-516 (545)
52 TIGR01386 cztS_silS_copS heavy 96.9 0.0014 3E-08 71.9 5.7 82 9-106 352-436 (457)
53 PRK03660 anti-sigma F factor; 96.8 0.0064 1.4E-07 56.5 8.7 83 9-111 38-124 (146)
54 COG2205 KdpD Osmosensitive K+ 96.7 0.0019 4.1E-08 74.4 5.7 76 13-104 774-854 (890)
55 PRK10364 sensor protein ZraS; 96.7 0.002 4.3E-08 71.4 6.0 76 9-106 347-425 (457)
56 PRK10604 sensor protein RstB; 96.7 0.002 4.4E-08 71.1 5.6 81 9-107 318-401 (433)
57 PRK11006 phoR phosphate regulo 96.7 0.0016 3.5E-08 71.6 4.4 82 8-105 315-399 (430)
58 PRK09303 adaptive-response sen 96.6 0.0031 6.7E-08 68.5 5.6 79 9-105 271-353 (380)
59 COG4191 Signal transduction hi 96.5 0.0033 7.1E-08 70.2 5.2 49 9-57 496-547 (603)
60 TIGR01924 rsbW_low_gc serine-p 96.5 0.013 2.7E-07 56.0 8.5 94 9-119 41-138 (159)
61 PRK10337 sensor protein QseC; 96.4 0.0038 8.3E-08 68.7 5.2 79 9-107 351-429 (449)
62 COG3920 Signal transduction hi 96.4 0.0075 1.6E-07 60.8 6.6 89 4-123 116-214 (221)
63 PRK10549 signal transduction h 96.3 0.0041 8.8E-08 68.7 4.9 81 10-106 352-435 (466)
64 PRK11073 glnL nitrogen regulat 96.2 0.0072 1.6E-07 64.1 5.6 76 9-105 236-324 (348)
65 PRK11100 sensory histidine kin 96.1 0.0076 1.7E-07 66.4 5.8 80 10-106 368-450 (475)
66 PRK10755 sensor protein BasS/P 96.1 0.0072 1.6E-07 64.5 5.2 77 9-105 246-325 (356)
67 TIGR03785 marine_sort_HK prote 96.0 0.0074 1.6E-07 71.0 5.4 82 9-106 596-680 (703)
68 PRK10815 sensor protein PhoQ; 96.0 0.0093 2E-07 67.1 5.9 75 10-106 378-455 (485)
69 COG3850 NarQ Signal transducti 96.0 0.014 3E-07 64.6 6.6 46 11-59 482-530 (574)
70 PRK09835 sensor kinase CusS; P 95.9 0.01 2.2E-07 65.9 5.4 82 8-105 373-457 (482)
71 TIGR02966 phoR_proteo phosphat 95.9 0.011 2.4E-07 61.4 5.3 82 8-105 227-311 (333)
72 TIGR02916 PEP_his_kin putative 95.8 0.0081 1.8E-07 70.4 4.6 77 8-105 577-656 (679)
73 PRK09467 envZ osmolarity senso 95.8 0.016 3.5E-07 63.4 6.7 77 10-106 331-410 (435)
74 PRK09470 cpxA two-component se 95.8 0.0091 2E-07 65.7 4.5 79 9-105 352-433 (461)
75 PRK15347 two component system 95.6 0.014 3.1E-07 70.4 5.6 79 8-107 511-592 (921)
76 PRK13837 two-component VirA-li 95.5 0.015 3.3E-07 69.8 5.3 94 8-123 558-674 (828)
77 COG0642 BaeS Signal transducti 95.5 0.016 3.6E-07 59.2 4.8 46 9-57 227-275 (336)
78 PRK10490 sensor protein KdpD; 95.5 0.02 4.3E-07 69.3 6.0 81 8-106 776-859 (895)
79 PRK11360 sensory histidine kin 95.4 0.021 4.5E-07 64.5 5.6 74 10-105 500-577 (607)
80 PRK11466 hybrid sensory histid 95.3 0.027 5.8E-07 68.1 6.6 94 8-122 559-660 (914)
81 COG4585 Signal transduction hi 94.9 0.041 8.8E-07 59.4 6.0 48 8-58 277-327 (365)
82 PRK11091 aerobic respiration c 94.9 0.031 6.8E-07 66.4 5.5 99 8-122 396-503 (779)
83 PRK11644 sensory histidine kin 94.8 0.052 1.1E-06 61.3 6.6 44 10-56 410-456 (495)
84 COG5000 NtrY Signal transducti 94.6 0.038 8.2E-07 62.1 4.6 65 3-71 593-665 (712)
85 TIGR02956 TMAO_torS TMAO reduc 94.6 0.041 8.9E-07 66.8 5.5 82 7-107 576-661 (968)
86 PRK10600 nitrate/nitrite senso 94.4 0.076 1.6E-06 60.8 6.8 43 11-56 470-515 (569)
87 PRK13557 histidine kinase; Pro 94.4 0.17 3.7E-06 56.7 9.4 95 9-123 276-393 (540)
88 PRK10841 hybrid sensory kinase 94.2 0.05 1.1E-06 66.1 5.0 83 8-107 560-645 (924)
89 COG5002 VicK Signal transducti 94.2 0.036 7.8E-07 58.4 3.2 79 7-101 339-420 (459)
90 PRK10547 chemotaxis protein Ch 94.1 0.08 1.7E-06 61.6 6.3 43 15-57 390-445 (670)
91 COG2172 RsbW Anti-sigma regula 93.7 0.24 5.3E-06 46.6 7.6 84 10-115 40-130 (146)
92 PRK11107 hybrid sensory histid 93.7 0.068 1.5E-06 64.5 4.8 83 10-107 408-496 (919)
93 PRK10618 phosphotransfer inter 93.5 0.24 5.3E-06 59.8 8.9 99 7-123 562-671 (894)
94 PRK13560 hypothetical protein; 93.3 0.13 2.7E-06 60.9 6.2 46 11-56 712-762 (807)
95 COG4192 Signal transduction hi 93.2 0.09 2E-06 57.2 4.1 79 8-107 562-644 (673)
96 PRK09959 hybrid sensory histid 92.9 0.17 3.6E-06 63.2 6.7 83 8-107 826-914 (1197)
97 KOG0787 Dehydrogenase kinase [ 92.1 0.18 4E-06 53.7 4.6 90 8-107 258-358 (414)
98 KOG0020 Endoplasmic reticulum 92.1 0.35 7.6E-06 52.9 6.8 156 14-179 99-275 (785)
99 cd00188 TOPRIM Topoisomerase-p 91.7 0.21 4.5E-06 40.4 3.7 71 404-500 2-72 (83)
100 COG3852 NtrB Signal transducti 91.7 0.28 6.1E-06 51.1 5.3 49 9-57 240-303 (363)
101 PRK10935 nitrate/nitrite senso 91.2 0.4 8.7E-06 54.4 6.6 43 11-56 472-518 (565)
102 COG3851 UhpB Signal transducti 91.0 0.35 7.7E-06 51.3 5.3 46 9-57 409-457 (497)
103 PRK13559 hypothetical protein; 89.3 0.6 1.3E-05 49.8 5.7 47 10-56 267-319 (361)
104 KOG0019 Molecular chaperone (H 88.5 0.73 1.6E-05 52.0 5.6 161 14-192 61-240 (656)
105 PF14501 HATPase_c_5: GHKL dom 87.1 2.2 4.8E-05 37.0 6.8 72 10-107 5-80 (100)
106 COG0643 CheA Chemotaxis protei 86.4 0.45 9.7E-06 55.9 2.6 83 18-102 440-546 (716)
107 COG4251 Bacteriophytochrome (l 82.1 1.2 2.7E-05 50.6 3.6 100 9-125 635-742 (750)
108 COG4564 Signal transduction hi 80.3 2.7 5.7E-05 44.4 5.0 46 9-57 358-406 (459)
109 COG3275 LytS Putative regulato 79.2 3.4 7.3E-05 45.7 5.6 44 14-57 460-508 (557)
110 PF09239 Topo-VIb_trans: Topoi 76.2 30 0.00064 33.0 10.2 80 234-327 42-125 (160)
111 cd00823 TopoIIB_Trans TopoIIB_ 76.0 25 0.00053 33.2 9.5 83 234-331 33-121 (151)
112 PRK04017 hypothetical protein; 74.0 0.7 1.5E-05 42.6 -1.1 29 474-502 64-92 (132)
113 COG2972 Predicted signal trans 66.3 8.2 0.00018 43.1 5.0 46 12-57 352-402 (456)
114 COG1389 DNA topoisomerase VI, 65.0 52 0.0011 36.6 10.4 100 234-349 357-465 (538)
115 PF10691 DUF2497: Protein of u 60.5 17 0.00037 30.1 4.5 33 329-361 34-67 (73)
116 cd01027 TOPRIM_RNase_M5_like T 58.0 1.1 2.3E-05 37.9 -3.0 27 475-501 45-71 (81)
117 COG1658 Small primase-like pro 56.3 2.6 5.7E-05 38.6 -1.0 25 472-496 52-76 (127)
118 PRK14867 DNA topoisomerase VI 56.2 1.5E+02 0.0033 34.8 12.9 98 234-347 498-613 (659)
119 TIGR01052 top6b DNA topoisomer 53.3 1.8E+02 0.0039 33.0 12.6 98 234-346 348-454 (488)
120 PRK14868 DNA topoisomerase VI 52.4 2.4E+02 0.0053 33.7 13.7 104 234-347 542-654 (795)
121 PRK04184 DNA topoisomerase VI 51.0 2.7E+02 0.0058 32.0 13.6 100 234-348 353-461 (535)
122 PF13662 Toprim_4: Toprim doma 50.8 3.3 7.1E-05 34.5 -1.2 19 475-493 46-64 (81)
123 cd01028 TOPRIM_TopoIA TOPRIM_T 44.5 15 0.00034 34.0 2.2 26 475-500 91-116 (142)
124 COG2865 Predicted transcriptio 40.8 45 0.00098 37.4 5.4 44 13-58 273-317 (467)
125 KOG4518 Hydroxypyruvate isomer 40.7 35 0.00076 33.7 3.9 37 1-37 70-106 (264)
126 PF14484 FISNA: Fish-specific 35.0 22 0.00047 29.4 1.4 14 401-414 29-42 (73)
127 cd03363 TOPRIM_TopoIA_TopoI TO 29.9 35 0.00076 31.0 2.0 24 476-499 74-97 (123)
128 PRK04031 DNA primase; Provisio 29.1 36 0.00077 37.3 2.2 52 475-542 210-261 (408)
129 PF00640 PID: Phosphotyrosine 27.4 77 0.0017 28.6 3.9 57 2-59 5-78 (140)
130 cd03362 TOPRIM_TopoIA_TopoIII 26.2 54 0.0012 30.7 2.6 26 475-500 99-124 (151)
131 TIGR00334 5S_RNA_mat_M5 ribonu 24.2 50 0.0011 32.0 2.0 24 474-497 46-69 (174)
132 KOG4174 Uncharacterized conser 22.7 7.2E+02 0.016 25.9 9.8 65 449-515 104-189 (282)
133 KOG3938 RGS-GAIP interacting p 22.0 88 0.0019 32.3 3.3 34 25-58 121-155 (334)
134 cd00818 IleRS_core catalytic c 21.7 3.4E+02 0.0074 29.0 8.0 97 449-564 90-206 (338)
135 cd01026 TOPRIM_OLD TOPRIM_OLD: 21.3 39 0.00084 29.0 0.6 58 405-490 6-70 (97)
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=5.7e-203 Score=1627.29 Aligned_cols=608 Identities=55% Similarity=0.933 Sum_probs=579.6
Q ss_pred CeecCCCC-chhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCCeEEEEECCCCccCcccCCCCcchhhhhheeeccCCCC
Q 007002 1 MYIGSTGP-RGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKF 79 (622)
Q Consensus 1 MYiGst~~-~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf 79 (622)
||||||+. +|||||||||||||+||++||+|+.|.|+|++||+|+|.|||||||+++||++++|++|+|||+|||||||
T Consensus 26 MYIGst~~~~GLhHlv~EVvDNsiDEalaG~~~~I~V~l~~d~sisV~DnGRGIPvdiH~~~~~~~vEvI~T~LHAGGKF 105 (635)
T COG0187 26 MYIGSTGDGRGLHHLVWEVVDNSIDEALAGYADRIDVTLHEDGSISVEDNGRGIPVDIHPKEKVSAVEVIFTVLHAGGKF 105 (635)
T ss_pred ceeccCCCCCcceeeEeEeeechHhHHhhCcCcEEEEEEcCCCeEEEEECCCCCccccCCCCCCCceEEEEEeeccCccc
Confidence 99999999 99999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCeeeccccccccceeeeeecCeEEEEEEeCCEEEEEEEecCcccccceeeccCCCCCCCCCeEEEEEeCcccccc
Q 007002 80 GGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTT 159 (622)
Q Consensus 80 ~~~~~~~k~sgG~~GvG~s~vNalS~~~~V~v~r~g~~~~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~PD~~iF~~ 159 (622)
+++ +|++||||||||+|||||||+||+|+|+|+|+.|+|+|++|+++.+++.+.. .....+||+|+|+||+++|++
T Consensus 106 d~~--~YkvSGGLHGVG~SVVNALS~~l~v~v~r~gk~y~q~f~~G~~~~~l~~ig~--~~~~~~GT~V~F~PD~~iF~~ 181 (635)
T COG0187 106 DND--SYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYRQRFERGVPVTPLEVIGS--TDTKKTGTKVRFKPDPEIFGE 181 (635)
T ss_pred CCC--ccEeecCCCccceEEEecccceEEEEEEECCEEEEEEEeCCCcCCCceeccc--CCCCCCccEEEEEcChHhcCC
Confidence 987 9999999999999999999999999999999999999999999988876521 235578999999999999986
Q ss_pred cccCCHHHHHHHHHHHhccCCCcEEEEeecCCCCCCCceeEEEeCCcHHHHHHHHhcCCCCCCC-eeEEEeecceeEEEE
Q 007002 160 AIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHD-VVGFRKDVDGITIDL 238 (622)
Q Consensus 160 ~~~~~~~~i~~rl~elA~lnpgl~I~l~d~r~~~~~~~~~~f~~~~Gl~~yv~~l~~~~~~l~~-~i~~~~~~~~i~vev 238 (622)
..|+++.|++||+++|||||||+|.|+|+|.... .. .|||++||.+||++++.+++++++ ++++..+..++.|||
T Consensus 182 -~~f~~~~l~~RlrelA~L~~gl~I~l~d~r~~~~--~~-~~~y~~Gl~~yv~~l~~~k~~l~~~~~~~~~~~~~~~vEv 257 (635)
T COG0187 182 -TEFDYEILKRRLRELAFLNKGVKITLTDERTGEE--KK-EFHYEGGLKDYVEYLNKGKTPLHEEIFYFNGEKDGIAVEV 257 (635)
T ss_pred -cccCHHHHHHHHHHHhccCCCCEEEEEeccCCcc--cc-eeecccHHHHHHHHHhcCCCccccCceecccCccceEEEE
Confidence 5799999999999999999999999999997521 12 599999999999999999999996 666677778999999
Q ss_pred EEEEcCCCCCceeeeeeCceeccCCCcchHHHHHHHHHHHHHHHhhccCCCCCCCCCCHHhHhcccEEEEEEeecCCCCC
Q 007002 239 ALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFE 318 (622)
Q Consensus 239 al~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~~~~~l~~~diregl~~~vs~~i~nP~Fe 318 (622)
||||+ ++|+++++||||||+|++||||++||++||+++||+|+++.+++|+++ ++++||||||++||||+|+||+|+
T Consensus 258 A~q~~-d~~~e~~~SFvNnI~T~eGGTH~~Gfr~altr~in~y~~~~~~~k~~~--l~g~Diregl~aviSvki~~PqFe 334 (635)
T COG0187 258 ALQWN-DGYSENILSFVNNIPTREGGTHEAGFRSALTRAINEYAKKKNLLKEGD--LTGDDIREGLTAVISVKIPDPQFE 334 (635)
T ss_pred EEEEe-cCCceEEEEeecCccCCCCchHHHHHHHHHHHHHHHHHHHhCcCcccC--CCHHHHhhccEEEEEEECCCCCcC
Confidence 99999 899999999999999999999999999999999999999999988765 999999999999999999999999
Q ss_pred CccccccCCchhhhhhhhhhHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCCCC
Q 007002 319 GQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCSST 398 (622)
Q Consensus 319 gQTK~kL~n~~v~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~~~ar~aakkar~~~~~k~~~~~~~l~gKL~d~~~~ 398 (622)
||||+||+|++++.+|++++++.|..||++||.+|+.|+++++.+++||+|||+||+++|+|+.++...|||||+||+++
T Consensus 335 gQTK~KL~n~e~~~~V~~~v~~~~~~~l~enp~~a~~i~~k~i~aa~aR~aarkare~~R~k~~~~~~~LpGKLadC~sk 414 (635)
T COG0187 335 GQTKEKLGNSEVRSIVEKLVSEAFSLFLEENPQEAKKIVEKAIAAAKAREAARKARELTRRKSALDIPGLPGKLADCTSK 414 (635)
T ss_pred cccccccccHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCCCCcCcccccC
Confidence 99999999999999999999999999999999999999999999999999999999999999988999999999999999
Q ss_pred CCCCceEEEEeccCCCccccccCCCCceEeeccCCccccccccCHHHHhhCHhHHHHHHHhccCccCCcCccccccceeE
Q 007002 399 TPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKI 478 (622)
Q Consensus 399 ~~~~~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKilNv~ka~~~ki~~n~Ei~~li~~lG~~~~~~~~~~~~LRY~ki 478 (622)
+|++|||||||||||||||||||||+|||||||||||||||+|+.+||++|+||++|++|||||++. +||+++||||||
T Consensus 415 d~~~~ELfiVEGDSAGGSAKqgRdR~~QAILPLRGKiLNVeka~~~kil~N~EI~~ii~AlG~g~~~-~fd~~~LRY~kI 493 (635)
T COG0187 415 DPEKSELFLVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIQTIITALGTGIGK-DFDLEKLRYHKI 493 (635)
T ss_pred CcccceEEEEecCCcchhhhhccCccceEEecccCcchhhhhccHhhhhhhHHHHHHHHHhCCCCCC-CCChhhCccCcE
Confidence 9999999999999999999999999999999999999999999999999999999999999999954 599999999999
Q ss_pred EEeecCCcCCcchhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHHhCCCCCccceeEeecc
Q 007002 479 IILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSIQRFKGL 558 (622)
Q Consensus 479 iimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~gk~~~~~~~~~e~~~~~~~~~~~~~~~i~~~KGL 558 (622)
||||||||||+|||+|||||||||||+||+.||||+|+|||||+++||++.|+|++.|+++.++++...++|+|||||||
T Consensus 494 iIMTDADvDGaHIrtLLlTfFyr~m~~LIe~G~vyiA~PPLYkv~~~k~~~Y~~~d~E~~~~~~~~~~~~~~~IqRyKGL 573 (635)
T COG0187 494 IIMTDADVDGAHIRTLLLTFFYRYMPPLIENGHVYIAQPPLYKVKKGKKTFYAYDDEELEKLLERLGKKKGYEIQRYKGL 573 (635)
T ss_pred EEEecCCCChHHHHHHHHHHHHHHhHHHHHcCcEEEEcCceEEEEcCCceeEeCCHHHHHHHHHHhcccCCceeEeeccc
Confidence 99999999999999999999999999999999999999999999999999999999999999988752258999999999
Q ss_pred cCCCcchhhhhccCCcceeEEeeccccHHHHHHHHHHhcCCCchHHHHHHHhccccCCcCCCCC
Q 007002 559 GEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLVNLDHLDI 622 (622)
Q Consensus 559 G~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~lmg~~~~~Rk~~i~~~~~~~~~~~~d~ 622 (622)
|||||+|||||||||++|+|.+|+++|+.+|+++|++|||+++++||+||++|+.+ +.++||
T Consensus 574 GEMnp~QLwETTmdP~~R~L~~V~i~da~~ad~~f~~LMGd~ve~Rr~fIe~na~~--~~~~di 635 (635)
T COG0187 574 GEMNPDQLWETTMDPETRRLLQVTIEDADEADEIFSTLMGDKVEPRRNFIEENALF--VENLDI 635 (635)
T ss_pred CCCCHHHHHHhccCccceeEEEEEcccHHHHHHHHHHHcCCCchHHHHHHHHHhhh--hhhccC
Confidence 99999999999999999999999999999999999999999999999999999986 456665
No 2
>PTZ00109 DNA gyrase subunit b; Provisional
Probab=100.00 E-value=4e-187 Score=1566.13 Aligned_cols=609 Identities=46% Similarity=0.752 Sum_probs=568.0
Q ss_pred CeecCCCCchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCCeEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCC
Q 007002 1 MYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFG 80 (622)
Q Consensus 1 MYiGst~~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~ 80 (622)
||||||+.+|||||||||||||+||+++|+|+.|.|+|++||+|+|+|||||||+++||++|+|++|+|||+|||||||+
T Consensus 120 MYIGst~~~GLhhLv~EIlDNSVDE~laG~~~~I~V~i~~DgsItV~DnGRGIPvd~h~k~g~s~~E~VlT~LhAGGKF~ 199 (903)
T PTZ00109 120 MYIGNTDEKGLHQLLFEILDNSVDEYLAGECNKITVVLHKDGSVEISDNGRGIPCDVSEKTGKSGLETVLTVLHSGGKFQ 199 (903)
T ss_pred ceeCCCCCCcceEEEEEEeeccchhhccCCCcEEEEEEcCCCeEEEEeCCccccccccccCCCcceeEEEEEeccCcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred CCC--------------------------------------CCeeeccccccccceeeeeecCeEEEEEEeCCEEEEEEE
Q 007002 81 GSS--------------------------------------SGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKY 122 (622)
Q Consensus 81 ~~~--------------------------------------~~~k~sgG~~GvG~s~vNalS~~~~V~v~r~g~~~~q~f 122 (622)
++. ..|++||||||||+|||||||++|+|+|+|+|+.|+|+|
T Consensus 200 ~~~~~~~~~~~~~~~~d~~~~~k~~~~~~~~~~~~~~~~~~~~YkvSGGLHGVG~SVVNALS~~l~VeV~RdGK~y~q~F 279 (903)
T PTZ00109 200 DTFPKNSRSDKSEDKNDTKSSKKGKSSHVKGPKEAKEKESSQMYEYSSGLHGVGLSVVNALSSFLKVDVFKGGKIYSIEL 279 (903)
T ss_pred CcccccccccccccccccccccccccccccccccccccccCCcceecCcCCCcceeeeeeccCeEEEEEEECCEEEEEEe
Confidence 731 379999999999999999999999999999999999999
Q ss_pred ecCcccccceeeccCCCCC-CCCCeEEEEEeC-ccccccccc-------------CCHHHHHHHHHHHhccCCCcEEEEe
Q 007002 123 SRGKPVTTLTCHVLPVDSK-DRQGTRIRFWPD-KQVFTTAIQ-------------FDHNTIAGRIRELAFLNPKLTIALR 187 (622)
Q Consensus 123 ~~G~~~~~~~~~~~~~~~~-~~~GT~V~F~PD-~~iF~~~~~-------------~~~~~i~~rl~elA~lnpgl~I~l~ 187 (622)
++|+++.++..+ +.+ .++||+|+|+|| +++|..+.. |+++.|.+||+++|||||||+|+|+
T Consensus 280 ~rG~~v~pLkvi----g~~~~~tGT~VtF~PD~~~IF~~~~~~~~~~~~~~~~~~F~~d~L~~RLrElAfLNpGL~I~L~ 355 (903)
T PTZ00109 280 SKGKVTKPLSVF----SCPLKKRGTTIHFLPDYKHIFKTHHQHTETEEEEGCKNGFNLDLIKNRIHELSYLNPGLTFYLV 355 (903)
T ss_pred CCCcccCCcccc----CCcCCCCceEEEEEeCcchhcCccccccccccccccccccCHHHHHHHHHHHhccCCCcEEEEE
Confidence 999999887654 333 579999999999 999965332 7999999999999999999999999
Q ss_pred ecCCCCC--CCceeEEEeCCcHHHHHHHHhcCCCCCC-C--eeEEEeecceeEEEEEEEEcCCCCCceeeeeeCceeccC
Q 007002 188 KEDSDPE--KNQYNEYFFAGGLEEYVQWLNTDKKPLH-D--VVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTID 262 (622)
Q Consensus 188 d~r~~~~--~~~~~~f~~~~Gl~~yv~~l~~~~~~l~-~--~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~ 262 (622)
|+|...+ ....++|+|++||.+||++++.++++++ + ++++.++.+++.|||||||++++|+++++||||+|+|+
T Consensus 356 DeR~~~~~~~~~~e~f~~egGi~dfv~~ln~~k~~l~~~~~~I~~~g~~~~i~VEVAlq~s~~~y~e~i~SFVNnI~T~- 434 (903)
T PTZ00109 356 DERIANENNFYPYETIKHEGGTREFLEELIKDKTPLYKDINIISIRGVIKNVNVEVSLSWSLESYTALIKSFANNVSTT- 434 (903)
T ss_pred ecCccccCCcceEEEEEecCCHHHHHHHhcCCCCccCCCCceEEEEeeecCeEEEEEEEecCCCCceEEEEEECCccCC-
Confidence 9985321 0124679999999999999999888886 3 67777776789999999998558889999999999999
Q ss_pred CCcchHHHHHHHHHHHHHHHhhccCCCCCCCCCCHHhHhcccEEEEEEeecCCCCCCccccccCCchhhhhhhhhhHHHH
Q 007002 263 GGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYL 342 (622)
Q Consensus 263 GGTHv~g~~~al~~~in~~~kk~~~~k~~~~~l~~~diregl~~~vs~~i~nP~FegQTK~kL~n~~v~~~v~~~v~~~l 342 (622)
|||||+||++||+++||+|+++++++|+++.+++++||||||++||||+++||+|+||||+||+|++++.+|++++.++|
T Consensus 435 GGTHv~Gfr~ALTr~In~y~kk~~llK~k~~~i~gedIREGLtavISvki~~PqFeGQTK~KLgn~~vk~~ve~iv~e~L 514 (903)
T PTZ00109 435 AGTHIDGFKYAITRCVNGNIKKNGYFKGNFVNIPGEFIREGMTAIISVKLNGAEFDGQTKTKLGNHLLKTILESIVFEQL 514 (903)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHhCcccccCCCCCHHHHhhccEEEEEEeccCCcccCcccccccCHHHHHHHHHHHHHHH
Confidence 99999999999999999999999988877789999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc-ccCCCCCCCCCCCCCCCCCceEEEEeccCCCccccccC
Q 007002 343 TEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVL-RSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGR 421 (622)
Q Consensus 343 ~~~l~~np~~~~~I~~k~~~~~~ar~aakkar~~~~~k~~~-~~~~l~gKL~d~~~~~~~~~eL~lvEGDSA~gsa~~gR 421 (622)
..||++||++++.|+++++++++||++||+||++.|+|+.. ....|||||+||+++++++|||||||||||||||||||
T Consensus 515 ~~~l~~np~~a~~I~~Ka~~a~~AreaAk~arel~R~K~~~~~~~~lPgKL~DC~s~d~~~~ELfIVEGDSAgGSAKqgR 594 (903)
T PTZ00109 515 SEILEFEPNLLLAIYNKSLAAKKAFEEAKAAKDLIRQKNNQYYSTILPGKLVDCISDDIERNELFIVEGESAAGNAKQAR 594 (903)
T ss_pred HHHHHHCHHHHHHHHHHHHHHHHHHHHHHhhHHHhhhhhcccccCCCCCcccccccCCCcccEEEEEcccCCCccccccc
Confidence 99999999999999999999999999999999999998766 34679999999999999999999999999999999999
Q ss_pred CCCceEeeccCCccccccccC-HHHHhhCHhHHHHHHHhccCccCC---cCcc---------------------------
Q 007002 422 DRRFQAILPLRGKILNVERKD-EAAMYKNEEIQNLIRALGLGVKGE---DFKK--------------------------- 470 (622)
Q Consensus 422 dr~~qai~PLrGKilNv~ka~-~~ki~~n~Ei~~li~~lG~~~~~~---~~~~--------------------------- 470 (622)
||+|||||||||||||||+++ .+||++|+||++||+|||||++.. +||+
T Consensus 595 dR~~QAILPLRGKILNVeka~~~~kil~N~EI~~Li~alG~gig~~~~~~~dl~~~~~~~~~~~~~~~~~~~~~~~~~~~ 674 (903)
T PTZ00109 595 NREFQAVLPLKGKILNIEKIKNNKKVFENSEIKLLITSIGLSVNPVTWRQYDLSHGTKASKDESVQNNNSTLTKKKNSLF 674 (903)
T ss_pred CccceeecccCCceehhcccccHHHHHhcHHHHHHHHHhCCCCCcccccccCcccccccccccccccccccccccccccc
Confidence 999999999999999999995 999999999999999999999542 6888
Q ss_pred -ccccceeEEEeecCCcCCcchhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeC------------CeEEEeeCHHHH
Q 007002 471 -EALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERG------------KQVQYCYDDAEL 537 (622)
Q Consensus 471 -~~LRY~kiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~g------------k~~~~~~~~~e~ 537 (622)
++||||||||||||||||+|||+|||||||||||+||++||||+|+||||||++| |+..|+||+.|+
T Consensus 675 ~~~LRYgKIIIMTDADVDGsHIrtLLLTff~r~~p~Lie~G~vyia~pPLyki~~~~~~~~~~~~~~~k~~~y~~sd~el 754 (903)
T PTZ00109 675 DTPLRYGKIILLTDADVDGEHLRILLLTLLYRFCPSLYEHGRVYVACPPLYRITNNRMKQFNVSTKNSKKYIYTWSDEEL 754 (903)
T ss_pred cccCCcCeEEEEeCCCCChhHHHHHHHHHHHHhCHHhhhCCEEEEecCCEEEEEecCcccccccccccceeEEeCCHHHH
Confidence 9999999999999999999999999999999999999999999999999999985 778899999999
Q ss_pred HHHHHhCC---------------------------------------------------------------------C-C
Q 007002 538 KKVKSSFP---------------------------------------------------------------------S-N 547 (622)
Q Consensus 538 ~~~~~~~~---------------------------------------------------------------------~-~ 547 (622)
+++++++. . .
T Consensus 755 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 834 (903)
T PTZ00109 755 NVLIKLLNKDYSSKETTRSVEEKGNAPDLDNEYEDEKLDNKNMRENNVDEVELKTELGTNVADTEQTDELDINKAFFKFS 834 (903)
T ss_pred HHHHHHhhcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccC
Confidence 99997651 0 2
Q ss_pred CccceeEeecccCCCcchhhhhccCCcceeEEeeccccHHHHHHHHHHhcCCCchHHHHHHHhcccc
Q 007002 548 ALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANL 614 (622)
Q Consensus 548 ~~~~i~~~KGLG~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~lmg~~~~~Rk~~i~~~~~~ 614 (622)
++++||||||||||+|+|||||||||++|.|.||+++|+.+|+++|++|||+++++||+||.+|+..
T Consensus 835 ~~~~iqRfKGLGEM~~~qLweTTMdP~~R~L~rv~v~d~~~a~~~~~~LMG~~~~~Rk~fI~~n~~~ 901 (903)
T PTZ00109 835 KHYEIQRFKGLGEMMADQLWETTMDPKKRILIRITVSDAMRASELIFLLMGEDVQSRKQFIFENSPA 901 (903)
T ss_pred CcccceeeccHhhhhHHHHHHhhhChhhceeeeeeHHHHHHHHHHHHHHhCCCChhhHHHHHhhccc
Confidence 3689999999999999999999999999999999999999999999999999999999999999864
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=8.2e-186 Score=1553.19 Aligned_cols=599 Identities=49% Similarity=0.813 Sum_probs=567.1
Q ss_pred CeecCCCCchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCCeEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCC
Q 007002 1 MYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFG 80 (622)
Q Consensus 1 MYiGst~~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~ 80 (622)
||||||+++||||||+||||||+||+++|+|+.|+|+|++||+|+|+|||||||++.||+.++|++|+|||+||||||||
T Consensus 25 MYIGst~~~GL~hlv~EIvdNavDE~~ag~~~~I~V~i~~dgsitV~DnGrGIPv~~h~~~~~~~~E~v~t~LhaGgkfd 104 (637)
T TIGR01058 25 MYIGSTDSKGLHHLVWEIVDNSVDEVLAGYADNITVTLHKDNSITVQDDGRGIPTGIHQDGNISTVETVFTVLHAGGKFD 104 (637)
T ss_pred CeECCCCcchhheehhhhhcchhhhhhcCCCcEEEEEEcCCCeEEEEECCCcccCcccCcCCCccceeEEEEecccCcCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCeeeccccccccceeeeeecCeEEEEEEeCCEEEEEEEecC-cccccceeeccCCCCCCCCCeEEEEEeCcccccc
Q 007002 81 GSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRG-KPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTT 159 (622)
Q Consensus 81 ~~~~~~k~sgG~~GvG~s~vNalS~~~~V~v~r~g~~~~q~f~~G-~~~~~~~~~~~~~~~~~~~GT~V~F~PD~~iF~~ 159 (622)
++ .|++|||+||||+|||||||++|+|+|+|+|+.|.|+|++| .++.++..+ +.+.++||+|+|+||+++|+.
T Consensus 105 ~~--~ykvSGGlhGvG~svvNAlS~~~~V~v~r~gk~~~q~f~~Gg~~~~~l~~~----~~~~~~GT~V~F~PD~~iF~~ 178 (637)
T TIGR01058 105 QG--GYKTAGGLHGVGASVVNALSSWLEVTVKRDGQIYQQRFENGGKIVQSLKKI----GTTKKTGTLVHFHPDPTIFKT 178 (637)
T ss_pred CC--cccccCCcccccccccceeeceEEEEEEECCEEEEEEEecCCcCcCCcccc----cCCCCCceEEEEEeCHHHcCC
Confidence 87 99999999999999999999999999999999999999997 777766543 445679999999999999974
Q ss_pred cccCCHHHHHHHHHHHhccCCCcEEEEeecCCCCCCCceeEEEeCCcHHHHHHHHhcCCCCCCCeeEEEeecceeEEEEE
Q 007002 160 AIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLA 239 (622)
Q Consensus 160 ~~~~~~~~i~~rl~elA~lnpgl~I~l~d~r~~~~~~~~~~f~~~~Gl~~yv~~l~~~~~~l~~~i~~~~~~~~i~veva 239 (622)
..|+++.|.+||+++|||||||+|+|+|+|.. ..+.|+|++||.+|+++++.+++++++++++.++.+++.||||
T Consensus 179 -~~f~~d~l~~RlrelA~Ln~GL~I~l~der~~----~~~~f~~~~Gl~~yv~~l~~~k~~l~~~i~~~~~~~~~~vevA 253 (637)
T TIGR01058 179 -TQFNSNIIKERLKESAFLLKKLKLTFTDKRTN----KTTVFFYENGLVDFVDYINETKETLSQVTYFEGEKNGIEVEVA 253 (637)
T ss_pred -CccCHHHHHHHHHHHhccCCCcEEEEEecCCC----ceEEEEcCcCHHHHHHHhcCCCCcCCccEEEEEEECCcEEEEE
Confidence 57999999999999999999999999999853 2457999999999999999888877778888877778999999
Q ss_pred EEEcCCCCCceeeeeeCceeccCCCcchHHHHHHHHHHHHHHHhhccCCCCCCCCCCHHhHhcccEEEEEEeecCC--CC
Q 007002 240 LQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNP--EF 317 (622)
Q Consensus 240 l~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~~~~~l~~~diregl~~~vs~~i~nP--~F 317 (622)
+||+ ++|+++++||||+|+|++|||||+||++||+++||+|+++.+++|+++.+++++|||+||++||||++++| +|
T Consensus 254 l~~~-~~~~e~~~SFvN~I~T~~GGTHv~g~~~aLtr~in~~~~~~~~lK~~~~~i~~~diregL~~vIsvki~~pnP~F 332 (637)
T TIGR01058 254 FQFN-DGDSENILSFANSVKTKEGGTHENGFKLAITDVINSYARKYNLLKEKDKNLEGSDIREGLSAIISVRIPEELIQF 332 (637)
T ss_pred EEEc-CCCCeEEEEeECCccCCCCCcHHHHHHHHHHHHHHHHHHHhchhccccccCChhhHhhccEEEEEEecCCCcccc
Confidence 9998 78889999999999999999999999999999999999999888877789999999999999999999755 99
Q ss_pred CCccccccCCchhhhhhhhhhHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc--cccccCCCCCCCCCC
Q 007002 318 EGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQK--SVLRSSSLPGKLADC 395 (622)
Q Consensus 318 egQTK~kL~n~~v~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~~~ar~aakkar~~~~~k--~~~~~~~l~gKL~d~ 395 (622)
+||||++|+|++++.+|++++++.|..||++||+.++.|+++++.+++||+|||+||++.|+| +......|||||+||
T Consensus 333 egQTK~kL~n~~v~~~v~~~v~e~l~~~l~~np~~a~~Iiek~~~~a~aR~aa~~ar~~~r~~~k~~~~~~~lpgKL~dc 412 (637)
T TIGR01058 333 EGQTKSKLFSPEARNVVDEIVQDHLFFFLEENNNDAKLLIDKAIKARDAKEAAKKAREEKKSGKKPKKEKGILSGKLTPA 412 (637)
T ss_pred cCcccccccChhHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccCCCCcccccc
Confidence 999999999999999999999999999999999999999999999999999999999999874 355666799999999
Q ss_pred CCCCCCCceEEEEeccCCCccccccCCCCceEeeccCCccccccccCHHHHhhCHhHHHHHHHhccCccCCcCccccccc
Q 007002 396 SSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRY 475 (622)
Q Consensus 396 ~~~~~~~~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKilNv~ka~~~ki~~n~Ei~~li~~lG~~~~~~~~~~~~LRY 475 (622)
++++|++|||||||||||||||||||||+||||||||||||||++++.+||++|+||++|++|||||+ +++||+++|||
T Consensus 413 ~~~~~~~~eLfivEGDSAggsak~gRdr~~qailPLRGKiLNv~ka~~~ki~~N~Ei~~l~~alG~~~-g~~~~~~~LRY 491 (637)
T TIGR01058 413 QSKNPAKNELFLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNVEKAKLADILKNEEINTIIFCIGTGI-GADFSIKDLKY 491 (637)
T ss_pred cCCCCCccEEEEEecCccccccccccccceEEEeccCCcccccccCCHHHHhcchHHHHHHHHhCCCc-CccCCcccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999 46799999999
Q ss_pred eeEEEeecCCcCCcchhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeC--CeEEEeeCHHHHHHHHHhCCCCCcccee
Q 007002 476 HKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERG--KQVQYCYDDAELKKVKSSFPSNALYSIQ 553 (622)
Q Consensus 476 ~kiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~g--k~~~~~~~~~e~~~~~~~~~~~~~~~i~ 553 (622)
|||||||||||||+|||||||||||||||+||++||||+|+||||||++| +++.|+||++||++|+++. ++|+||
T Consensus 492 ~kIiImTDADvDGsHIr~LLltff~r~~p~Li~~G~v~~~~~Pl~kv~~~~~~~~~y~~~~~e~~~~~~~~---~~~~i~ 568 (637)
T TIGR01058 492 DKIIIMTDADTDGAHIQVLLLTFFYRYMRPLIELGHVYIALPPLYKLSKKDGKKVKYAWSDLELESVKKKL---KNYTLQ 568 (637)
T ss_pred ceEEEEeCCCCCcchhHHHHHHHHHHhCHhhccCCeEEEecCCEEEEEeCCCceEEEeCCHHHHHHHHHhc---CCCCce
Confidence 99999999999999999999999999999999999999999999999985 6788999999999999874 479999
Q ss_pred EeecccCCCcchhhhhccCCcceeEEeeccccHHHHHHHHHHhcCCCchHHHHHHHhccccC
Q 007002 554 RFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLV 615 (622)
Q Consensus 554 ~~KGLG~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~lmg~~~~~Rk~~i~~~~~~~ 615 (622)
||||||||+|+|+|||||||++|+|.+|+++|+..++.+|++|||+++++||+||++|+..+
T Consensus 569 ryKGLGem~~~~l~ettm~p~~r~l~~v~~~d~~~~~~~~~~lmg~~~~~Rk~~i~~~~~~~ 630 (637)
T TIGR01058 569 RYKGLGEMNADQLWETTMNPETRTLVRVKIDDLARAERQINTLMGDKVEPRKKWIEANINFS 630 (637)
T ss_pred EECchhhhhHHHHHHHhhCcccceeeEEehhhhhhHHHHHHHHcCCCchHHHHHHHHhhhhh
Confidence 99999999999999999999999999999999988999999999999999999999999654
No 4
>PRK05644 gyrB DNA gyrase subunit B; Validated
Probab=100.00 E-value=8.6e-179 Score=1502.42 Aligned_cols=608 Identities=59% Similarity=0.967 Sum_probs=574.6
Q ss_pred CeecCCCCchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCCeEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCC
Q 007002 1 MYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFG 80 (622)
Q Consensus 1 MYiGst~~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~ 80 (622)
||||||+++||||+|+|||+||+||+++|+|++|.|+|+.+|+|+|+|||||||++.|+..+++++|++|+++||||||+
T Consensus 28 MYiGs~~~~gl~~~v~ElvdNaiDe~~ag~a~~I~V~i~~~g~I~V~DnG~GIp~~~h~~~ki~~~e~i~~~lhag~kfd 107 (638)
T PRK05644 28 MYIGSTGERGLHHLVYEIVDNSIDEALAGYCDHIEVTINEDGSITVTDNGRGIPVDIHPKTGKPAVEVVLTVLHAGGKFG 107 (638)
T ss_pred ceECCCChhhHHhhhHHhhhcccccccCCCCCEEEEEEeCCCcEEEEEeCccccCCccCCCCCCchHHheeeecccCccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCeeeccccccccceeeeeecCeEEEEEEeCCEEEEEEEecCcccccceeeccCCCCCCCCCeEEEEEeCccccccc
Q 007002 81 GSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 160 (622)
Q Consensus 81 ~~~~~~k~sgG~~GvG~s~vNalS~~~~V~v~r~g~~~~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~PD~~iF~~~ 160 (622)
++ .|++|+|+||+|++++||||++|+|+++++|+.|+|+|++|+++.++..+ +.+.++||+|+|+||+++|+ +
T Consensus 108 ~~--~yk~s~G~~G~Gls~vnalS~~~~v~t~r~g~~~~~~~~~G~~~~~~~~~----~~~~~~GT~I~F~Pd~~~F~-~ 180 (638)
T PRK05644 108 GG--GYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYYQEYERGVPVTPLEVI----GETDETGTTVTFKPDPEIFE-T 180 (638)
T ss_pred CC--cccccCCccccchhhhhheeceEEEEEEeCCcEEEEEEECCeEccCcccc----CCcCCCCcEEEEEECHHHcC-C
Confidence 87 89999999999999999999999999999999999999999998665443 34467999999999999995 5
Q ss_pred ccCCHHHHHHHHHHHhccCCCcEEEEeecCCCCCCCceeEEEeCCcHHHHHHHHhcCCCCCC-CeeEEEeecceeEEEEE
Q 007002 161 IQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLA 239 (622)
Q Consensus 161 ~~~~~~~i~~rl~elA~lnpgl~I~l~d~r~~~~~~~~~~f~~~~Gl~~yv~~l~~~~~~l~-~~i~~~~~~~~i~veva 239 (622)
..++++.|.+|++++|+++|||+|+|++++.+. ...++|+|++||.+|+++++.++++++ +++++..+.++++||||
T Consensus 181 ~~~e~~~i~~rl~~~A~l~pgl~i~l~~er~~~--~~~~~f~~~~Gl~dyv~~l~~~~~~~~~~~i~~~~~~~~~~veva 258 (638)
T PRK05644 181 TEFDYDTLATRLRELAFLNKGLKITLTDEREGE--EKEETFHYEGGIKEYVEYLNRNKEPLHEEPIYFEGEKDGIEVEVA 258 (638)
T ss_pred cccCHHHHHHHHHHHHhhCCCcEEEEEeccCCC--cceeEEEcCCCHHHHHHHHhcCCCcCCCCCeEEEeeccCeEEEEE
Confidence 679999999999999999999999999998531 135689999999999999998888886 46777776677899999
Q ss_pred EEEcCCCCCceeeeeeCceeccCCCcchHHHHHHHHHHHHHHHhhccCCCCCCCCCCHHhHhcccEEEEEEeecCCCCCC
Q 007002 240 LQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEG 319 (622)
Q Consensus 240 l~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~~~~~l~~~diregl~~~vs~~i~nP~Feg 319 (622)
++|+ ++|+++++||||+|+|++|||||+||+++|+++||+|+++++++|+++.+++++|||+||++||||+|+||+|+|
T Consensus 259 l~~~-~~~~~~~~SFvN~I~T~~GGTHv~g~~~al~~~l~~~~~k~~~~Kk~~~~i~~~dIregl~~vVsv~i~nP~F~g 337 (638)
T PRK05644 259 MQYN-DGYSENILSFANNINTHEGGTHEEGFKTALTRVINDYARKNKLLKEKDDNLTGEDVREGLTAVISVKHPEPQFEG 337 (638)
T ss_pred EEec-CCCceEEEEEECcccCCCCCCHHHHHHHHHHHHHHHHHHHhCcccccCCCCChhHHhhceEEEEEEecCCCcccC
Confidence 9999 678889999999999999999999999999999999999988877666899999999999999999999999999
Q ss_pred ccccccCCchhhhhhhhhhHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCCCCC
Q 007002 320 QTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCSSTT 399 (622)
Q Consensus 320 QTK~kL~n~~v~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~~~ar~aakkar~~~~~k~~~~~~~l~gKL~d~~~~~ 399 (622)
|||++|+|++++.+|++++.+.|..||++||+.++.|+++++.++++|++++++|+..|+|+......|||||+||++++
T Consensus 338 QTKekL~~~~v~~~v~~~v~~~l~~~l~~n~~~~~~I~~~~~~~a~~r~~a~~~k~~~r~k~~~~~~~lpgKL~dc~~~~ 417 (638)
T PRK05644 338 QTKTKLGNSEVRGIVDSVVSEALSEFLEENPNVAKKIVEKAILAARAREAARKARELTRRKSALESSSLPGKLADCSSKD 417 (638)
T ss_pred cccccccCHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHHhHHHhhcccccccCCCCchhcccccCC
Confidence 99999999999999999999999999999999999999999999999999999999998888777789999999999999
Q ss_pred CCCceEEEEeccCCCccccccCCCCceEeeccCCccccccccCHHHHhhCHhHHHHHHHhccCccCCcCccccccceeEE
Q 007002 400 PEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKII 479 (622)
Q Consensus 400 ~~~~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKilNv~ka~~~ki~~n~Ei~~li~~lG~~~~~~~~~~~~LRY~kii 479 (622)
+++|||||||||||||||+|||||+||||||||||||||++++.+|+++|+||++|++|||||+ +++||+++|||||||
T Consensus 418 ~~~~eLflvEGDSA~gsak~grdr~~qailPLrGKiLNv~~a~~~ki~~N~Ei~~l~~alG~~~-~~~~~~~~LRY~kii 496 (638)
T PRK05644 418 PEESELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALGTGI-GDDFDISKLRYHKII 496 (638)
T ss_pred CCccEEEEEecCCCccccccccCccceeecccCCceeccccCCHHHHHhCHHHHHHHHHhCCCC-CCcCChhhCccCeEE
Confidence 9999999999999999999999999999999999999999999999999999999999999999 467999999999999
Q ss_pred EeecCCcCCcchhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHHhCCC--CCccceeEeec
Q 007002 480 ILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPS--NALYSIQRFKG 557 (622)
Q Consensus 480 imtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~gk~~~~~~~~~e~~~~~~~~~~--~~~~~i~~~KG 557 (622)
||||||+||+||++|||||||||||+||++||||+|+||||||++||++ ||||++||++|+++++. .++|+||||||
T Consensus 497 ImtDaD~DG~HI~~Llltff~~~~p~Li~~G~l~~~~~Pl~kv~~gk~~-~~~~~~e~~~~~~~~~~~~~~~~~i~ryKG 575 (638)
T PRK05644 497 IMTDADVDGAHIRTLLLTFFYRYMRPLIEAGYVYIAQPPLYKIKKGGKE-YAYSDEELDEILAELKLKGNPKYGIQRYKG 575 (638)
T ss_pred EEeCCCCCchHHHHHHHHHHHHhCHHhccCCeEEEecCCEEEEEeCCeE-eecCHHHHHHHHHHhccccCCCCceeEecC
Confidence 9999999999999999999999999999999999999999999999988 99999999999988754 35799999999
Q ss_pred ccCCCcchhhhhccCCcceeEEeeccccHHHHHHHHHHhcCCCchHHHHHHHhccccCCcCCCCC
Q 007002 558 LGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLVNLDHLDI 622 (622)
Q Consensus 558 LG~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~lmg~~~~~Rk~~i~~~~~~~~~~~~d~ 622 (622)
||||+|+|+|||||||++|.+.+|+++|.+.++++|++|||+++++||+||.+++.. +++||+
T Consensus 576 LGe~~~~~~~e~~~~~~~r~~~~v~~~d~~~~~~~f~~lmg~~~~~Rk~~i~~~~~~--~~~~d~ 638 (638)
T PRK05644 576 LGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSILMGDDVEPRREFIEENAKY--VRNLDI 638 (638)
T ss_pred ccccCHHHHHHHhcCccceeeeeeccccHHHHHHHHHHHhCCCChHHHHHHHHhhhh--HhhccC
Confidence 999999999999999999999999999999999999999999999999999999964 466875
No 5
>PRK05559 DNA topoisomerase IV subunit B; Reviewed
Probab=100.00 E-value=5.6e-178 Score=1495.97 Aligned_cols=597 Identities=48% Similarity=0.814 Sum_probs=564.3
Q ss_pred CeecCCCCchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCCeEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCC
Q 007002 1 MYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFG 80 (622)
Q Consensus 1 MYiGst~~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~ 80 (622)
||||||+.+||+|+|+||||||+||+++|+|++|.|+|+++|+|+|+|||||||++.||.+|+|+||++|++|||||||+
T Consensus 28 mYiGs~~~~gl~~lv~EivdNaiDe~~ag~a~~I~V~i~~dg~I~V~DnGrGIP~~~~~~~~~~~~E~v~t~lhagsKf~ 107 (631)
T PRK05559 28 MYIGSTDTRGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADGSVSVRDNGRGIPVGIHPEEGKSGVEVILTKLHAGGKFS 107 (631)
T ss_pred ceeCCCCCchhhhhhhhhhccccchhhcCCCCEEEEEEeCCCcEEEEEcCCCCCcccccccCCcchheeeeeccccCccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCeeeccccccccceeeeeecCeEEEEEEeCCEEEEEEEecCcccccceeeccCCCCC-CCCCeEEEEEeCcccccc
Q 007002 81 GSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSK-DRQGTRIRFWPDKQVFTT 159 (622)
Q Consensus 81 ~~~~~~k~sgG~~GvG~s~vNalS~~~~V~v~r~g~~~~q~f~~G~~~~~~~~~~~~~~~~-~~~GT~V~F~PD~~iF~~ 159 (622)
+. .|++|||+||+|+++|||||++|+|+|+++|+.|.|+|++|+++.+++.+. ... .++||+|+|+||+++|+
T Consensus 108 ~~--~yk~SgGl~GvGls~vNalS~~l~V~s~r~g~~~~~~f~~G~~~~~l~~~~---~~~~~~~GT~V~f~PD~~iF~- 181 (631)
T PRK05559 108 NK--AYKFSGGLHGVGVSVVNALSSRLEVEVKRDGKVYRQRFEGGDPVGPLEVVG---TAGKRKTGTRVRFWPDPKIFD- 181 (631)
T ss_pred Cc--cccccCcccccchhhhhhheeeEEEEEEeCCeEEEEEEECCcCccCccccc---cccCCCCCcEEEEEECHHHcC-
Confidence 87 899999999999999999999999999999999999999999987764331 222 67999999999999995
Q ss_pred cccCCHHHHHHHHHHHhccCCCcEEEEeecCCCCCCCceeEEEeCCcHHHHHHHHhcCCCCCCC--eeEEEeecceeEEE
Q 007002 160 AIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHD--VVGFRKDVDGITID 237 (622)
Q Consensus 160 ~~~~~~~~i~~rl~elA~lnpgl~I~l~d~r~~~~~~~~~~f~~~~Gl~~yv~~l~~~~~~l~~--~i~~~~~~~~i~ve 237 (622)
+..++.+.|.+||+++|++|||++|+|+|++ . .+.|+|++||.+|+.+++.+++++++ ++++.++.+++.||
T Consensus 182 ~~~~~~~~i~~~l~~~A~lnpgl~i~l~d~~-~-----~~~f~~~~gl~~~v~~~~~~~~~i~~~~~i~~~~~~~~~~ve 255 (631)
T PRK05559 182 SPKFSPERLKERLRSKAFLLPGLTITLNDER-E-----RQTFHYENGLKDYLAELNEGKETLPEEFVGSFEGEAEGEAVE 255 (631)
T ss_pred CcccCHHHHHHHHHHHHhhCCCeEEEEEeCC-c-----eEEEECCccHHHHHHHHhCCCCccCCCCceEEeeeeccceEE
Confidence 4579999999999999999999999999987 2 46799999999999999988778874 68888777789999
Q ss_pred EEEEEcCCCCCceeeeeeCceeccCCCcchHHHHHHHHHHHHHHHhhccCCCCCCCCCCHHhHhcccEEEEEEeecCCCC
Q 007002 238 LALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEF 317 (622)
Q Consensus 238 val~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~~~~~l~~~diregl~~~vs~~i~nP~F 317 (622)
||++|+ ++|+++++||||+|+|++|||||+||+++|+++||+|+++++++| ++.+++++|||+||++||||+++||+|
T Consensus 256 val~~~-~~~~~~~~SFvN~I~T~~GGTHv~g~~~al~~~in~~~~~~~l~k-~~~~l~~~diregl~~vvsvki~~P~F 333 (631)
T PRK05559 256 WALQWT-DEGGENIESYVNLIPTPQGGTHENGFREGLLKAVREFAEKRNLLP-KGKKLEGEDVREGLAAVLSVKIPEPQF 333 (631)
T ss_pred EEEEec-CCCCeEEEEEECcccCCCCCCHHHHHHHHHHHHHHHHHHHhCccc-cccCCChhhHhhceEEEEEEEcCCCcc
Confidence 999999 678889999999999999999999999999999999999998887 568999999999999999999999999
Q ss_pred CCccccccCCchhhhhhhhhhHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCCC
Q 007002 318 EGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCSS 397 (622)
Q Consensus 318 egQTK~kL~n~~v~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~~~ar~aakkar~~~~~k~~~~~~~l~gKL~d~~~ 397 (622)
+||||++|+|++++.+|++++++.|..||++||.+++.|+++++.++++|++ ++|++.|+|.... ..|||||+||++
T Consensus 334 egQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~a~~ii~k~~~~a~ar~~--~~~~~~r~k~~~~-~~lpgKL~dc~~ 410 (631)
T PRK05559 334 EGQTKEKLGSREARRFVSGVVKDAFDLWLNQNPELAEKLAEKAIKAAQARLR--AAKKVKRKKKTSG-PALPGKLADCTS 410 (631)
T ss_pred cCcccccccCHhHhhhhhhHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHH--HHHHHhhhccccC-CCCCCcCccccc
Confidence 9999999999999999999999999999999999999999999999999997 4788888887666 789999999999
Q ss_pred CCCCCceEEEEeccCCCccccccCCCCceEeeccCCccccccccCHHHHhhCHhHHHHHHHhccCccCCcCcccccccee
Q 007002 398 TTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHK 477 (622)
Q Consensus 398 ~~~~~~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKilNv~ka~~~ki~~n~Ei~~li~~lG~~~~~~~~~~~~LRY~k 477 (622)
++|++|||||||||||||||+|||||+||||||||||||||++|+.+||++|+||++|++|||||+ +++||+++|||||
T Consensus 411 ~~~~~~eL~lvEGDSAggsak~grdr~~qailPLRGKiLNv~~a~~~ki~~N~Ei~~l~~alG~~~-~~~~~~~~LRY~k 489 (631)
T PRK05559 411 QDPERTELFLVEGDSAGGSAKQARDREFQAILPLRGKILNTWEASLDDVLANEEIHDIIVAIGIGP-GDSFDLEDLRYGK 489 (631)
T ss_pred CCCCCCEEEEEeCCCCccccccccCccceeecccCCeecccccCCHHHHhcChhHHHHHHHhCCCC-CCccCccccccCe
Confidence 999999999999999999999999999999999999999999999999999999999999999999 4679999999999
Q ss_pred EEEeecCCcCCcchhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHHhCC-CCCccceeEee
Q 007002 478 IIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFP-SNALYSIQRFK 556 (622)
Q Consensus 478 iiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~gk~~~~~~~~~e~~~~~~~~~-~~~~~~i~~~K 556 (622)
|||||||||||+|||||||||||||||+||++||||+|+||||||++||+++||||++|+++|+++++ ..++|+|||||
T Consensus 490 IiImTDaDvDGsHI~~Llltff~~~~p~Li~~G~v~~~~~Pl~kv~~gk~~~y~~~~~e~~~~~~~~~~~~~~~~i~ryK 569 (631)
T PRK05559 490 IIIMTDADVDGAHIATLLLTFFYRHFPPLVEAGHVYIALPPLYRVDKGKKKIYALDEEEKEELLKKLGKKGGKPEIQRFK 569 (631)
T ss_pred EEEEeCCCCCcchhHHHHHHHHHHhCHhhccCCeEEEecCCEEEEEcCCceEEecCHHHHHHHHHHhcccCCCCCceEeC
Confidence 99999999999999999999999999999999999999999999999999999999999999998863 23579999999
Q ss_pred cccCCCcchhhhhccCCcceeEEeeccccHHHHHHHHHHhcCCCchHHHHHHHhccccC
Q 007002 557 GLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLV 615 (622)
Q Consensus 557 GLG~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~lmg~~~~~Rk~~i~~~~~~~ 615 (622)
|||||+|+|+|||||||++|+|.+|+++|++.++++|++|||+++++||+||++|+..+
T Consensus 570 GLGe~~~~~~~e~~~~p~~r~l~~v~~~d~~~~~~~~~~l~g~~~~~Rk~~i~~~~~~~ 628 (631)
T PRK05559 570 GLGEMNPDQLWETTMDPETRRLVRVTIDDAEETEKLVDMLMGKKAEPRREWIEENGDFA 628 (631)
T ss_pred chhhcCHHHHHHHhhCccceeEEEEEccchhhHHHHHHHHhCCCchHHHHHHHHhhhhh
Confidence 99999999999999999999999999999888999999999999999999999998653
No 6
>PRK14939 gyrB DNA gyrase subunit B; Provisional
Probab=100.00 E-value=5.4e-178 Score=1499.60 Aligned_cols=608 Identities=51% Similarity=0.865 Sum_probs=575.3
Q ss_pred CeecCCCC-chhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCCeEEEEECCCCccCcccCCCCcchhhhhheeeccCCCC
Q 007002 1 MYIGSTGP-RGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKF 79 (622)
Q Consensus 1 MYiGst~~-~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf 79 (622)
||||||+. +||||+||||||||+||++||+|++|.|+|++||+|+|+|||||||+++||++|+|++|++||++||||||
T Consensus 27 MYIGst~~~~GLhhlv~EivdNaiDE~~AG~a~~I~V~i~~dgsIsV~DnGrGIPvd~h~~~g~~~~Elvlt~lhAggKf 106 (756)
T PRK14939 27 MYIGDTDDGTGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGIPTDIHPEEGVSAAEVIMTVLHAGGKF 106 (756)
T ss_pred CeeCCCCCCcchhhhhhHhhcccccccccCCCCEEEEEEcCCCeEEEEEcCCcccCCcccccCCchhhheeeeecccCCC
Confidence 99999999 99999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCeeeccccccccceeeeeecCeEEEEEEeCCEEEEEEEecCcccccceeeccCCCCCCCCCeEEEEEeCcccccc
Q 007002 80 GGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTT 159 (622)
Q Consensus 80 ~~~~~~~k~sgG~~GvG~s~vNalS~~~~V~v~r~g~~~~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~PD~~iF~~ 159 (622)
+++ .|++|||+||||+++|||||+||+|+|+|+|+.|+|+|++|+++.++..+ +.+.++||+|+|+||+++|+
T Consensus 107 d~~--~ykvSgGlhGvG~svvNAlS~~l~v~v~r~gk~~~q~f~~G~~~~~l~~~----g~~~~~GT~V~F~PD~~iF~- 179 (756)
T PRK14939 107 DQN--SYKVSGGLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHGVPVAPLKVV----GETDKTGTEVRFWPSPEIFE- 179 (756)
T ss_pred CCC--cccccCCccCccceEeehccCeEEEEEEeCCeEEEEEEecCccccCcccc----CCcCCCCcEEEEEECHHHcC-
Confidence 986 99999999999999999999999999999999999999999998876554 44567999999999999996
Q ss_pred cccCCHHHHHHHHHHHhccCCCcEEEEeecCCCCCCCceeEEEeCCcHHHHHHHHhcCCCCCC-CeeEEEeecceeEEEE
Q 007002 160 AIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDL 238 (622)
Q Consensus 160 ~~~~~~~~i~~rl~elA~lnpgl~I~l~d~r~~~~~~~~~~f~~~~Gl~~yv~~l~~~~~~l~-~~i~~~~~~~~i~vev 238 (622)
+..|+++.|.+||+++|+|||||+|+|+|+|.+ ..+.|+|++||.+|+++++.++++++ +++++.++.+++.|||
T Consensus 180 ~~~~~~~~i~~rl~elA~lnpgl~i~l~der~~----~~~~f~~egGi~~fv~~l~~~~~~~~~~~i~~~~~~~~~~vev 255 (756)
T PRK14939 180 NTEFDYDILAKRLRELAFLNSGVRIRLKDERDG----KEEEFHYEGGIKAFVEYLNRNKTPLHPNIFYFSGEKDGIGVEV 255 (756)
T ss_pred CcccCHHHHHHHHHHHhhcCCCCEEEEeccCCC----ceeEEEeCChHHHHHHHHhcCCCcCCCCceEEEeeeCCeEEEE
Confidence 457999999999999999999999999999863 35789999999999999998888887 5788887778899999
Q ss_pred EEEEcCCCCCceeeeeeCceeccCCCcchHHHHHHHHHHHHHHHhhccCCCCCCCCCCHHhHhcccEEEEEEeecCCCCC
Q 007002 239 ALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFE 318 (622)
Q Consensus 239 al~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~~~~~l~~~diregl~~~vs~~i~nP~Fe 318 (622)
|+||+ ++|+++++||||+|+|++|||||+||++||+++||+|+++.++.|+++.+++++||||||++||||+++||+|+
T Consensus 256 al~~~-~~~~e~~~SFvN~I~T~~GGTHv~gf~~altr~in~y~~~~~l~K~~~~~l~~~diregl~~vvsvki~~P~Fe 334 (756)
T PRK14939 256 ALQWN-DSYQENVLCFTNNIPQRDGGTHLAGFRAALTRTINNYIEKEGLAKKAKVSLTGDDAREGLTAVLSVKVPDPKFS 334 (756)
T ss_pred EEEEc-CCCceeEEEEECcccCCCCCCHHHHHHHHHHHHHHHHHHHhCcccccCCCCCHhHHhhceEEEEEEecCCCccc
Confidence 99999 78999999999999999999999999999999999999998888877789999999999999999999999999
Q ss_pred CccccccCCchhhhhhhhhhHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCCCC
Q 007002 319 GQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCSST 398 (622)
Q Consensus 319 gQTK~kL~n~~v~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~~~ar~aakkar~~~~~k~~~~~~~l~gKL~d~~~~ 398 (622)
||||++|+|++++.+|++++++.|..||++||..++.|+++++.+++||+||++||++.|||+.++...|||||+||+++
T Consensus 335 gQTK~kL~n~ev~~~v~~~v~e~l~~~l~~np~~a~~ii~k~~~aa~aR~aa~kar~~~rrK~~~~~~~lpgKL~Dc~~~ 414 (756)
T PRK14939 335 SQTKDKLVSSEVRPAVESLVNEKLSEFLEENPNEAKIIVGKIIDAARAREAARKARELTRRKGALDIAGLPGKLADCQEK 414 (756)
T ss_pred CchhccccCHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccccCCCCCCccccccC
Confidence 99999999999999999999999999999999999999999999999999999999999999988888999999999999
Q ss_pred CCCCceEEEEeccCCCccccccCCCCceEeeccCCccccccccCHHHHhhCHhHHHHHHHhccCccCCcCccccccceeE
Q 007002 399 TPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKI 478 (622)
Q Consensus 399 ~~~~~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKilNv~ka~~~ki~~n~Ei~~li~~lG~~~~~~~~~~~~LRY~ki 478 (622)
||++|||||||||||||||||||||+||||||||||||||++|+.+||++|+||++||+|||||++.++||+++||||||
T Consensus 415 d~~~~eLfivEGDSAgGsAk~gRdr~~qailPLRGKiLNveka~~~kil~N~Ei~~li~alG~gig~~~fd~~~LRY~kI 494 (756)
T PRK14939 415 DPALSELYLVEGDSAGGSAKQGRDRKFQAILPLKGKILNVEKARFDKMLSSQEIGTLITALGCGIGRDEFNPDKLRYHKI 494 (756)
T ss_pred CCCceEEEEEeCCCCccccccccCccceeccccCCccchhccCCHHHHhcCHHHHHHHHHhCCCCCcccCChhhCCcCeE
Confidence 99999999999999999999999999999999999999999999999999999999999999999656899999999999
Q ss_pred EEeecCCcCCcchhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHHhCCC------------
Q 007002 479 IILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPS------------ 546 (622)
Q Consensus 479 iimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~gk~~~~~~~~~e~~~~~~~~~~------------ 546 (622)
||||||||||+|||||||||||||||+||++||||+|+||||||++||++.||||++||++|+.+++.
T Consensus 495 iIMTDADvDGsHIrtLLltff~r~~p~Lie~G~vyia~pPLykv~~gk~~~y~~~~~e~~~~l~~~~~~~~~~~~~~~~~ 574 (756)
T PRK14939 495 IIMTDADVDGSHIRTLLLTFFYRQMPELIERGHLYIAQPPLYKVKKGKQEQYLKDDEALDDYLIELALEGATLHLADGPA 574 (756)
T ss_pred EEEcCCCCCchHHHHHHHHHHHHhChhhccCCeEEEecCcEEEEecCCeeEecCCHHHHHHHHHHhCcCCceeecCCCCc
Confidence 99999999999999999999999999999999999999999999999999999999999999765310
Q ss_pred --------------------------------------------------------------------------------
Q 007002 547 -------------------------------------------------------------------------------- 546 (622)
Q Consensus 547 -------------------------------------------------------------------------------- 546 (622)
T Consensus 575 ~~~~~l~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~ 654 (756)
T PRK14939 575 ISGEALEKLVKEYRAVRKIIDRLERRYPRAVLEALIYAPALDLDDLADEAAVAALDADFLTSAEYRRLVELAEKLRGLIE 654 (756)
T ss_pred ccHHHHHHHHHHHHHHHHHHhHHhccccHHHHHHHHhccccchhhhcchhhhhhcchhhhcCHHHHHHHHHHHHHHHHhc
Confidence
Q ss_pred ----------------------------CCccceeEeecccCCCcchhhhhccCCcceeEEeeccccHHHHHHHHHHhcC
Q 007002 547 ----------------------------NALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMG 598 (622)
Q Consensus 547 ----------------------------~~~~~i~~~KGLG~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~lmg 598 (622)
.++..||||||||||+|+|+|+|||||.+|++.++.++|...++++|+.|||
T Consensus 655 ~~~~~~~~~~~~~~~~~~ell~~v~~~gr~g~~Iqr~KgLgEM~~eqL~eTtmdp~~R~l~~v~led~~~a~~~f~~lMg 734 (756)
T PRK14939 655 EGAYLERGERKQPVSSFEEALDWLLAEARKGLSIQRYKGLGEMNPEQLWETTMDPENRRLLQVTIEDAIAADEIFTTLMG 734 (756)
T ss_pred cCcEEEcCCcceecCCHHHHHHHHHhhhccCccccccccHHHhHHHHHHHHhhChhheeeeeeehhhHHHHHHHHHHHhc
Confidence 0011289999999999999999999999999999999999999999999999
Q ss_pred CCchHHHHHHHhccccCCcCCCCC
Q 007002 599 ARVDTRKELIQNAANLVNLDHLDI 622 (622)
Q Consensus 599 ~~~~~Rk~~i~~~~~~~~~~~~d~ 622 (622)
+.+++|++||+.++.. +++||+
T Consensus 735 ~~ve~rr~fI~~~a~~--v~~LD~ 756 (756)
T PRK14939 735 DEVEPRREFIEENALN--VANLDV 756 (756)
T ss_pred CCcchhHHHHHHhhhh--HhhcCC
Confidence 9999999999999973 466885
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=1.4e-174 Score=1463.21 Aligned_cols=595 Identities=37% Similarity=0.623 Sum_probs=548.4
Q ss_pred CeecCCCCchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCCeEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCC
Q 007002 1 MYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFG 80 (622)
Q Consensus 1 MYiGst~~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~ 80 (622)
||||||++ ||+|+||||||+||++||+|+.|.|+|+.+|+|+|+|||||||++.||++|+|++|++||++||||||+
T Consensus 24 MYigs~~~---~~lv~ElvdNsiDE~~ag~a~~I~V~i~~d~~I~V~DnGrGIp~~~h~~~g~~~~e~v~t~lhagsK~~ 100 (625)
T TIGR01055 24 MYTDTTRP---NHLVQEVIDNSVDEALAGFASIIMVILHQDQSIEVFDNGRGMPVDIHPKEGVSAVEVILTTLHAGGKFS 100 (625)
T ss_pred CeeCCCCc---ceeehhhhhcccchhhcCCCCEEEEEEeCCCeEEEEecCCccCcccccccCCcHHHHhhhcccccCCCC
Confidence 99999976 999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCeeeccccccccceeeeeecCeEEEEEEeCCEEEEEEEecCcccccceeeccCCCCCCCCCeEEEEEeCccccccc
Q 007002 81 GSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 160 (622)
Q Consensus 81 ~~~~~~k~sgG~~GvG~s~vNalS~~~~V~v~r~g~~~~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~PD~~iF~~~ 160 (622)
+. .|++|+|+||+|+++|||||++|+|+++++|+.|+|+|++|+++.+++.+. + .....+||+|+|+||+++|+.
T Consensus 101 ~~--~~~~SgG~~GvGls~vnalS~~l~v~~~r~g~~~~~~~~~G~~~~~~~~i~-~-~~~~~~GT~V~F~PD~~~F~~- 175 (625)
T TIGR01055 101 NK--NYHFSGGLHGVGISVVNALSKRVKIKVYRQGKLYSIAFENGAKVTDLISAG-T-CGKRLTGTSVHFTPDPEIFDS- 175 (625)
T ss_pred CC--cceecCCCcchhHHHHHHhcCeEEEEEEECCeEEEEEEECCeEcccccccc-c-cCCCCCCeEEEEEECHHHCCC-
Confidence 87 899999999999999999999999999999999999999999977665431 0 113458999999999999974
Q ss_pred ccCCHHHHHHHHHHHhccCCCcEEEEeecCCCCCCCceeEEEeCCcHHHHHHHHhcCCCCCCCe-eEEEeecceeEEEEE
Q 007002 161 IQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDV-VGFRKDVDGITIDLA 239 (622)
Q Consensus 161 ~~~~~~~i~~rl~elA~lnpgl~I~l~d~r~~~~~~~~~~f~~~~Gl~~yv~~l~~~~~~l~~~-i~~~~~~~~i~veva 239 (622)
..++++.|.+|++++|++||||+|+|+|+|.. ..+.|+|++||.+||++++.++++++++ +......+++.++||
T Consensus 176 ~~~e~~~i~~~l~~lA~lnpgi~~~l~der~~----~~~~f~~~~Gi~~yv~~l~~~~~~~~~~~~~~~~~~~~~~ve~a 251 (625)
T TIGR01055 176 LHFSVSRLYHILRAKAVLCRGVEIEFEDEVNN----TKALWNYPDGLKDYLSEAVNGDNTLPPKPFSGNFEGDDEAVEWA 251 (625)
T ss_pred CccCHHHHHHHHHHHHhhCCCcEEEEeecCCC----ceeEEecCchHHHHHHHHhcCCCCCCCCceEEEEeeCCceEEEE
Confidence 57999999999999999999999999999853 2457999999999999998877777643 333333467889999
Q ss_pred EEEcCCCCCceeeeeeCceeccCCCcchHHHHHHHHHHHHHHHhhccCCCCCCCCCCHHhHhcccEEEEEEeecCCCCCC
Q 007002 240 LQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEG 319 (622)
Q Consensus 240 l~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~~~~~l~~~diregl~~~vs~~i~nP~Feg 319 (622)
+||+.++++++++||||+|+|++|||||+||++||+++||+|++++++.|+ +.+++++|||+||++||||+++||+|+|
T Consensus 252 l~~~~~~~~~~~~SFvN~I~T~~GGTHv~gf~~alt~~in~~~~~~~~~kk-~~~i~~~diregl~~vVsvki~~P~Feg 330 (625)
T TIGR01055 252 LLWLPEGGELFMESYVNLIPTPQGGTHVNGLRQGLLDALREFCEMRNNLPR-GVKLTAEDIWDRCSYVLSIKMQDPQFAG 330 (625)
T ss_pred EEEecCCCCEEEEEeeccccCCCCCCHHHHHHHHHHHHHHHHHHHhCcccc-cCCCCHHHHhhccEEEEEEeccCCcccC
Confidence 999855577889999999999999999999999999999999998887654 5789999999999999999999999999
Q ss_pred ccccccCCchhhhhhhhhhHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCCCCC
Q 007002 320 QTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCSSTT 399 (622)
Q Consensus 320 QTK~kL~n~~v~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~~~ar~aakkar~~~~~k~~~~~~~l~gKL~d~~~~~ 399 (622)
|||++|+|++++.+|++++.+.|..||++||..++.|+++++.++++|+ ++||++.| |+.++...|||||+||++++
T Consensus 331 QTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~a~~i~~k~~~~a~ar~--~~a~~~~r-k~~~~~~~lpgKL~dc~~~~ 407 (625)
T TIGR01055 331 QTKERLSSRQVAKFVSGVIKDAFDLWLNQNVQLAEHLAEHAISSAQRRK--RAAKKVVR-KKLTSGPALPGKLADCTRQD 407 (625)
T ss_pred cccccccCHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHH--HHHHHHhh-cccccCCCCCccccccccCC
Confidence 9999999999999999999999999999999999999999999999997 77888776 44566778999999999999
Q ss_pred CCCceEEEEeccCCCccccccCCCCceEeeccCCccccccccCHHHHhhCHhHHHHHHHhccCccCCcCccccccceeEE
Q 007002 400 PEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKII 479 (622)
Q Consensus 400 ~~~~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKilNv~ka~~~ki~~n~Ei~~li~~lG~~~~~~~~~~~~LRY~kii 479 (622)
|++|||||||||||||||||||||+|||||||||||||||+|+.+|+++|+||++||+|||||++ ++ ++++|||||||
T Consensus 408 ~~~~eLfivEGDSA~gsak~grdr~~qailPLRGKiLNv~ka~~~ki~~N~Ei~~li~alG~g~~-~~-~~~~LRY~kii 485 (625)
T TIGR01055 408 LEGTELFLVEGDSAGGSAKQARDREYQAILPLWGKILNTWEVSLDKVLNSQEIHDIEVALGIDPD-SN-DLSQLRYGKIC 485 (625)
T ss_pred CCceEEEEEecCCCCccccccCCcceeEEeccCCceeecccCCHHHhhcCHHHHHHHHHhCCCcc-cc-cccccccceEE
Confidence 99999999999999999999999999999999999999999999999999999999999999995 44 59999999999
Q ss_pred EeecCCcCCcchhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHHhCCC-CCccceeEeecc
Q 007002 480 ILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPS-NALYSIQRFKGL 558 (622)
Q Consensus 480 imtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~gk~~~~~~~~~e~~~~~~~~~~-~~~~~i~~~KGL 558 (622)
|||||||||+|||+|||||||||||+||++||||+|+||||||++||++.|+|++.|++++.+++++ .++|+|||||||
T Consensus 486 ImTDADvDG~HI~~LLltff~r~~p~Li~~G~vy~~~~Pl~kv~~gk~~~y~~~e~e~~~~~~~~~~~~~~~~i~ryKGL 565 (625)
T TIGR01055 486 ILADADSDGLHIATLLCALFFLHFPKLVEEGHVYVAKPPLYRIDLSKEVYYALDEEEKEKLLYKLKKKKGKPNVQRFKGL 565 (625)
T ss_pred EEeCCCCCcchhHHHHHHHHHHhCHhhccCCeEEEEeCCEEEEecCCceEEcCCHHHHHHHHHhhcccCCCcceeEeccc
Confidence 9999999999999999999999999999999999999999999999988899999998888876543 246999999999
Q ss_pred cCCCcchhhhhccCCcceeEEeeccccHHH--HHHHHHHhcCCC-chHHHHHHHhccc
Q 007002 559 GEMMPVQLWETTLNPEQRMLKQLVIEDAAE--ANVVFSSLMGAR-VDTRKELIQNAAN 613 (622)
Q Consensus 559 G~~~~~~~~~~~~~~~~~~~~~~~~~d~~~--~~~~~~~lmg~~-~~~Rk~~i~~~~~ 613 (622)
|||+|+|+|||||||++|.|.+|+++|+.. ++++|++|||++ +++||+||++|+.
T Consensus 566 Ge~~~~~~~e~~~~p~~r~l~~v~~~~~~~~~~~~~~~~lmg~~~~~~Rk~~i~~~~~ 623 (625)
T TIGR01055 566 GEMNPAQLRETTMDPNTRRLVQLTLDDVQDQRVDKIMDMLLAKKRSEDRFNWLQEKGD 623 (625)
T ss_pred chhhHHHHHHHhhCccceecccccccchhhhhHHHHHHHHhCCCCCchhHHHHHhccc
Confidence 999999999999999999999999999864 899999999999 9999999999975
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=1.7e-172 Score=1461.45 Aligned_cols=609 Identities=54% Similarity=0.934 Sum_probs=575.8
Q ss_pred CeecCCCCchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCCeEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCC
Q 007002 1 MYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFG 80 (622)
Q Consensus 1 MYiGst~~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~ 80 (622)
|||||++++||||+|+|||+||+||+++|+|++|.|+|+++|+|+|+|||||||++.|+..+++.+|++|++|||||||+
T Consensus 21 mYiGs~~~~gl~~vv~Elv~NaiDe~~ag~a~~I~V~i~~~g~I~V~DnG~GIp~~~h~~~ki~~~e~i~~~l~ag~kf~ 100 (654)
T TIGR01059 21 MYIGSTGETGLHHLVYEVVDNSIDEAMAGYCDTINVTINDDGSVTVEDNGRGIPVDIHPEEGISAVEVVLTVLHAGGKFD 100 (654)
T ss_pred ceeCCCCcchHHhhhHHhhhccccccccCCCCEEEEEEeCCCcEEEEEeCCCcCccccCcCCCCchHHheeeecccCccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCeeeccccccccceeeeeecCeEEEEEEeCCEEEEEEEecCcccccceeeccCCCCCCCCCeEEEEEeCccccccc
Q 007002 81 GSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 160 (622)
Q Consensus 81 ~~~~~~k~sgG~~GvG~s~vNalS~~~~V~v~r~g~~~~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~PD~~iF~~~ 160 (622)
++ .|++|+|+||+|++++||||++|+|+++++|+.|+|+|++|+++.++... +.+.++||+|+|+|||++|. +
T Consensus 101 ~~--~~k~s~G~~G~gl~~inalS~~l~v~~~~~g~~~~~~~~~G~~~~~l~~~----~~~~~~GT~V~F~pdp~~F~-~ 173 (654)
T TIGR01059 101 KD--SYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFERGIPLGPLEVV----GETKKTGTTVRFWPDPEIFE-T 173 (654)
T ss_pred CC--cceecCCccchhHHHHHHhcCeEEEEEEECCeEEEEEEeCCCcccCceec----cCCCCCCcEEEEEEChHHhC-C
Confidence 87 89999999999999999999999999999999999999999998766443 45667999999999999997 5
Q ss_pred ccCCHHHHHHHHHHHhccCCCcEEEEeecCCCCCCCceeEEEeCCcHHHHHHHHhcCCCCCC-CeeEEEeecceeEEEEE
Q 007002 161 IQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLA 239 (622)
Q Consensus 161 ~~~~~~~i~~rl~elA~lnpgl~I~l~d~r~~~~~~~~~~f~~~~Gl~~yv~~l~~~~~~l~-~~i~~~~~~~~i~veva 239 (622)
..++++.|.+|++++|++||||+|+|++++.+. .+.+.|+|++||.+|+++++.++++++ +++++.++.++++||||
T Consensus 174 ~~~e~~~i~~rl~~~A~l~pgl~i~l~~er~~~--~~~~~f~~~~Gl~~yv~~l~~~~~~l~~~~i~~~~~~~~~~veva 251 (654)
T TIGR01059 174 TEFDFDILAKRLRELAFLNSGVKISLEDERDGK--GKSVTFHYEGGIKSFVKYLNRNKEPLHEEIIYIKGEKEGIEVEVA 251 (654)
T ss_pred cccCHHHHHHHHHHhhccCCCeEEEEEeecCCC--CceeEEEcCCcHHHHHHHHhcCCCcCCCCCeEEEecccCeEEEEE
Confidence 679999999999999999999999999998521 135689999999999999988887876 57888877678999999
Q ss_pred EEEcCCCCCceeeeeeCceeccCCCcchHHHHHHHHHHHHHHHhhccCCCCCCCCCCHHhHhcccEEEEEEeecCCCCCC
Q 007002 240 LQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEG 319 (622)
Q Consensus 240 l~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~~~~~l~~~diregl~~~vs~~i~nP~Feg 319 (622)
++|+ ++|+++++||||+|+|++|||||+||+++|+++||+|+++++++|+++.+++++|||+||++||||+++||+|+|
T Consensus 252 ~~~~-~~~~~~~~SFvN~I~T~~GGTHv~g~~~al~~~i~~~~~~~~l~K~~~~~i~~~diregl~~vvsv~i~~P~F~g 330 (654)
T TIGR01059 252 LQWN-DGYSENILSFVNNINTREGGTHLEGFRSALTRVINSYAKNNKLLKESKPNLTGEDIREGLTAVISVKVPDPQFEG 330 (654)
T ss_pred EEec-CCCceeEEEEECcccCCCCCcHHHHHHHHHHHHHHHHHHHhCcccccCCCCCHHHHhhccEEEEEEecCCCcccC
Confidence 9999 678899999999999999999999999999999999999998888777899999999999999999999999999
Q ss_pred ccccccCCchhhhhhhhhhHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCCCCC
Q 007002 320 QTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCSSTT 399 (622)
Q Consensus 320 QTK~kL~n~~v~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~~~ar~aakkar~~~~~k~~~~~~~l~gKL~d~~~~~ 399 (622)
|||++|+|++++.+|.+++.+.|..||++||+.++.|+++++.++++|++++++|++.|+|+......|||||+||++++
T Consensus 331 QTK~kL~~~~v~~~v~~~v~~~l~~~l~~n~~~a~~iv~k~~~~a~~r~~a~~~k~~~r~k~~~~~~~lpgKL~dc~~~~ 410 (654)
T TIGR01059 331 QTKTKLGNSEVRSIVESLVYEKLTEFFEENPQEAKAIVEKAILAAQAREAARKARELTRRKSALDSGGLPGKLADCSSKD 410 (654)
T ss_pred cccccccChhHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHhHHHhhcccccccCCCCcCccCcccCC
Confidence 99999999999999999999999999999999999999999999999999999999999988777788999999999999
Q ss_pred CCCceEEEEeccCCCccccccCCCCceEeeccCCccccccccCHHHHhhCHhHHHHHHHhccCccCCcCccccccceeEE
Q 007002 400 PEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKII 479 (622)
Q Consensus 400 ~~~~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKilNv~ka~~~ki~~n~Ei~~li~~lG~~~~~~~~~~~~LRY~kii 479 (622)
|++|||||||||||||||+|||||+||||||||||||||++++.+|+++|+||++|++|||||+ +++||+++|||||||
T Consensus 411 ~~~~eL~lvEGDSA~gsak~gRd~~~qai~PLrGKiLNv~~~~~~ki~~n~Ei~~l~~~lG~~~-~~~~~~~~LrY~kii 489 (654)
T TIGR01059 411 PSKSELYIVEGDSAGGSAKQGRDRKFQAILPLRGKILNVEKARLDKILSNQEIGAIITALGCGI-GKDFDLEKLRYHKII 489 (654)
T ss_pred CCCCEEEEEecCCCCcccccccccccccccccCCccchhccCCHHHHhhChHHHHHHHHhCCCc-cccccccccccceEE
Confidence 9999999999999999999999999999999999999999999999999999999999999999 478999999999999
Q ss_pred EeecCCcCCcchhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeE---------------------EEeeCHHHHH
Q 007002 480 ILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQV---------------------QYCYDDAELK 538 (622)
Q Consensus 480 imtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~gk~~---------------------~~~~~~~e~~ 538 (622)
||||||+||+||++|||||||||||+||++||||+|+||||||++||++ .||||++|++
T Consensus 490 ImtDaD~DG~HI~~Lll~ff~~~~p~Li~~g~~~~~~~Pl~kv~~g~~~~~~~~~~~~~~~~~~~~~~~e~Y~~dd~e~e 569 (654)
T TIGR01059 490 IMTDADVDGSHIRTLLLTFFYRYMRPLIENGYVYIAQPPLYKVKKGKKERYIKDDKEKELVGEALEDLRALYIYSDKEKE 569 (654)
T ss_pred EEeCCCCCcchhHHHHHHHHHHhcHhhccCCeEEEecCCEEEEEeCCeeeecccchhhhccccccccccceecCCHHHHH
Confidence 9999999999999999999999999999999999999999999999987 8999999999
Q ss_pred HHHHhCC---CCCccceeEeecccCCCcchhhhhccCCcceeEEeeccccHHHHHHHHHHhcCCCchHHHHHHHhccccC
Q 007002 539 KVKSSFP---SNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLV 615 (622)
Q Consensus 539 ~~~~~~~---~~~~~~i~~~KGLG~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~lmg~~~~~Rk~~i~~~~~~~ 615 (622)
+|++.++ ..++|+||||||||||+|+|+|||||||++|.+.+++++|...++++|++|||+++++||+||.+++..
T Consensus 570 ~~l~~l~~~~~~~~~~IqryKGLGem~~~~l~ettmdp~~R~l~~v~l~d~~~~~~~f~~lmg~~~~~Rk~~I~~~~~~- 648 (654)
T TIGR01059 570 EAKTQIPVHEGRKGIEIQRYKGLGEMNADQLWETTMDPESRTLLKVTIEDAVEADRIFSTLMGDEVEPRREFIEANALD- 648 (654)
T ss_pred HHHHhccccccCCCcceeeeCchhhcCHHHHHHHhcCcccceeeeeecchHHHHHHHHHHHhCCCchHHHHHHHHhhhh-
Confidence 9998763 135799999999999999999999999999999999999999999999999999999999999999863
Q ss_pred CcCCCCC
Q 007002 616 NLDHLDI 622 (622)
Q Consensus 616 ~~~~~d~ 622 (622)
+++||+
T Consensus 649 -~~~ld~ 654 (654)
T TIGR01059 649 -VKNLDV 654 (654)
T ss_pred -HhhcCC
Confidence 455775
No 9
>smart00433 TOP2c TopoisomeraseII. Eukaryotic DNA topoisomerase II, GyrB, ParE
Probab=100.00 E-value=5.8e-172 Score=1441.49 Aligned_cols=589 Identities=52% Similarity=0.845 Sum_probs=553.5
Q ss_pred hhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCCeEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCCeeec
Q 007002 10 GLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVS 89 (622)
Q Consensus 10 gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~~k~s 89 (622)
||||+|+||||||+||+++|+|+.|.|+|+++|+|+|+|||||||++.|+..+++++|++|+++||||||+++ .|++|
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 8999999999999999999999999999999999999999999999999999999999999999999999987 89999
Q ss_pred cccccccceeeeeecCeEEEEEEeCCEEEEEEEec-CcccccceeeccCCCCCCCCCeEEEEEeCcccccccccCCHHHH
Q 007002 90 GGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSR-GKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTI 168 (622)
Q Consensus 90 gG~~GvG~s~vNalS~~~~V~v~r~g~~~~q~f~~-G~~~~~~~~~~~~~~~~~~~GT~V~F~PD~~iF~~~~~~~~~~i 168 (622)
+|+||+|++++||||++|+|+|+++|+.|.|+|++ |.++.++... +.+.++||+|+|+||+++|.....++++.|
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 8777665433 445679999999999999975446889999
Q ss_pred HHHHHHHhccCCCcEEEEeecCCCCCCCceeEEEeCCcHHHHHHHHhcCCCCCC-CeeEEEeecceeEEEEEEEEcCCCC
Q 007002 169 AGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAY 247 (622)
Q Consensus 169 ~~rl~elA~lnpgl~I~l~d~r~~~~~~~~~~f~~~~Gl~~yv~~l~~~~~~l~-~~i~~~~~~~~i~veval~~s~~~~ 247 (622)
.+|++++|++||||+|+|+|++.. ..++|+|++||.+|+++++.++++++ +++++..+.+++.||||++|+ ++|
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 567777777789999999999 678
Q ss_pred CceeeeeeCceeccCCCcchHHHHHHHHHHHHHHHhhccCCCCCCCCCCHHhHhcccEEEEEEeecCCCCCCccccccCC
Q 007002 248 SDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGN 327 (622)
Q Consensus 248 ~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~~~~~l~~~diregl~~~vs~~i~nP~FegQTK~kL~n 327 (622)
+++++||||+|+|++|||||+||+++|+++||+|+++++++|+ .+++++|||+||++||||+++||+|+||||++|+|
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 68999999999999999999999999999999999
Q ss_pred chhhhhhhhhhHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCCCCCCCCceEEE
Q 007002 328 PEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCSSTTPEESEIFI 407 (622)
Q Consensus 328 ~~v~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~~~ar~aakkar~~~~~k~~~~~~~l~gKL~d~~~~~~~~~eL~l 407 (622)
++++..|++++++.|..||++||..++.|+++++.++++|++|+++|++.|+| ..+...|||||+||+++++++|||||
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 99999999999999999999999999999999999999999999999999888 66778899999999999999999999
Q ss_pred EeccCCCccccccCCCCceEeeccCCccccccccCHHHHhhCHhHHHHHHHhccCccCCcCccccccceeEEEeecCCcC
Q 007002 408 VEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVD 487 (622)
Q Consensus 408 vEGDSA~gsa~~gRdr~~qai~PLrGKilNv~ka~~~ki~~n~Ei~~li~~lG~~~~~~~~~~~~LRY~kiiimtDaD~D 487 (622)
||||||||||+|||||+||||||||||||||++++.+||++|+||++||+|||||+ +++||+++|||||||||||||||
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 46799999999999999999999
Q ss_pred CcchhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCe--EEEeeCHHHHHHHHHhCCC-CCccceeEeecccCCCcc
Q 007002 488 GAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQ--VQYCYDDAELKKVKSSFPS-NALYSIQRFKGLGEMMPV 564 (622)
Q Consensus 488 G~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~gk~--~~~~~~~~e~~~~~~~~~~-~~~~~i~~~KGLG~~~~~ 564 (622)
|+|||||||||||||||+||++||||+|+||||||++|++ +.+||+++|+++|+..... .++|+||||||||||+|+
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 5778899999999875431 457999999999999999
Q ss_pred hhhhhccCCcceeEEeeccccHHHHHHHHHHhcCCCchHHHHHHHhccc
Q 007002 565 QLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAAN 613 (622)
Q Consensus 565 ~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~lmg~~~~~Rk~~i~~~~~ 613 (622)
|+|||||||++|++.+|+++|...++.+|++|||+++++||+||+++++
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 9999999999999999999998888899999999999999999999873
No 10
>PHA02569 39 DNA topoisomerase II large subunit; Provisional
Probab=100.00 E-value=7.2e-168 Score=1399.90 Aligned_cols=550 Identities=31% Similarity=0.478 Sum_probs=502.3
Q ss_pred CeecCCCC-----------------chhhHHHHHHHHhHHHhhhc---CCCCeEEEEEeCCCeEEEEECCCCccCcccCC
Q 007002 1 MYIGSTGP-----------------RGLHHLVYEILDNAVDEAQA---GYASNIEVALLADNSVSVADNGRGIPIDLHPA 60 (622)
Q Consensus 1 MYiGst~~-----------------~gL~~lv~EildNaiDe~~~---g~~~~I~V~l~~~g~i~V~DnGrGIP~~~~~~ 60 (622)
||||||+. +|||||||||||||+||++| |+|+.|+|+|+ ||+|+|+|||||||+++|++
T Consensus 19 mYIGs~~~~~~~~~~~~~~~~~~~~~GL~hi~~EIldNavDe~~~~~~g~~~~I~V~i~-dgsisV~dnGrGIPv~~h~~ 97 (602)
T PHA02569 19 MYIGSVAYEAHERFLFGKFTQVEYVPGLVKIIDEIIDNSVDEAIRTNFKFANKIDVTIK-NNQVTVSDNGRGIPQAMVTT 97 (602)
T ss_pred ceeCCCCcccccceeecccccccccccceeeeehhhhhhhhhhhccCCCCCcEEEEEEc-CCEEEEEECCCcccCCcccc
Confidence 99999998 99999999999999999999 99999999999 99999999999999999986
Q ss_pred -CC--cchhhhhheeeccCCCCCCCCCCeeeccccccccceeeeeecCeEEEEEEeCCEEEEEEEecCcccccceeeccC
Q 007002 61 -TN--KSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLP 137 (622)
Q Consensus 61 -~g--~~~~E~v~~~l~ag~kf~~~~~~~k~sgG~~GvG~s~vNalS~~~~V~v~r~g~~~~q~f~~G~~~~~~~~~~~~ 137 (622)
+| +|+||+|||+|||||||+ + .|++|||+||||+|||||||++|+|+++++|+.|+|+|++|++..+++ .
T Consensus 98 ~~g~~~~~~E~i~t~LhaGgkFd-~--~ykvSGGlhGVG~svvNaLS~~~~V~v~~~~~~~~q~f~~G~~~~~~~-~--- 170 (602)
T PHA02569 98 PEGEEIPGPVAAWTRTKAGSNFD-D--TNRVTGGMNGVGSSLTNFFSVLFIGETCDGKNEVTVNCSNGAENISWS-T--- 170 (602)
T ss_pred cccccccceEEEEEeeccccccC-C--cceeeCCcCCccceeeeccchhhheEEEcCCEEEEEEecCCcccCCcc-c---
Confidence 55 888999999999999994 4 799999999999999999999999999999999999999999876653 1
Q ss_pred CCCCCCCCeEEEEEeCcccccccccCC---HHHHHHHHHHHhccCCCcEEEEeecCCCCCCCceeEEEeCCcHHHHHHHH
Q 007002 138 VDSKDRQGTRIRFWPDKQVFTTAIQFD---HNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWL 214 (622)
Q Consensus 138 ~~~~~~~GT~V~F~PD~~iF~~~~~~~---~~~i~~rl~elA~lnpgl~I~l~d~r~~~~~~~~~~f~~~~Gl~~yv~~l 214 (622)
+.+.++||+|+|+||+++|++ ..|+ +++|.+||+++|||||||+|+|+|+|.. +||.+|++++
T Consensus 171 -~~~~~~GT~V~F~PD~~iF~~-~~~~~~~~~~l~~Rl~elA~Ln~Gl~I~l~der~~------------~g~~~yv~~~ 236 (602)
T PHA02569 171 -KPGKGKGTSVTFIPDFSHFEV-NGLDQQYLDIILDRLQTLAVVFPDIKFTFNGKKVS------------GKFKKYAKQF 236 (602)
T ss_pred -CCCCCCccEEEEEECHHHhCC-CccCccHHHHHHHHHHHHhcCCCCCEEEEEecCCC------------CCHHHHHHHh
Confidence 445679999999999999975 4575 7899999999999999999999998841 6899999999
Q ss_pred hcCCCCCCCeeEEEeecceeEEEEEEEEcCCCCCceeeeeeCceeccCCCcchHHHHHHHHHHHHHHHhhccCCCCCCCC
Q 007002 215 NTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDIS 294 (622)
Q Consensus 215 ~~~~~~l~~~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~~~~~ 294 (622)
+. +++++. .+ .|+||++|+.++| +++||||+|+|++|||||+||++||+++||+|+++. ++.+
T Consensus 237 ~~------~~i~~~--~~--~veva~~~~~~~~--~~~SFvN~I~T~~GGTHv~gf~~altr~in~~~~kk-----~~~~ 299 (602)
T PHA02569 237 GD------DTIVQE--ND--NVSIALAPSPDGF--RQLSFVNGLHTKNGGHHVDCVMDDICEELIPMIKKK-----HKIE 299 (602)
T ss_pred CC------CCeEEe--cC--cEEEEEEecCCCc--EEEEEECcccCCCCCCHHHHHHHHHHHHHHHHHHhc-----ccCC
Confidence 53 234443 22 5899999984456 489999999999999999999999999999999862 2357
Q ss_pred CCHHhHhcccEEEEEEe-ecCCCCCCccccccCCc--hhhhhhhhhhHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHH
Q 007002 295 LSGEHVREGLTCIISVR-VPNPEFEGQTKTRLGNP--EVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAK 371 (622)
Q Consensus 295 l~~~diregl~~~vs~~-i~nP~FegQTK~kL~n~--~v~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~~~ar~aak 371 (622)
++++|||+||++||||+ ++||+|+||||++|+|+ +++..| +++.+.|..||++||.+++.|+++++.+++||++++
T Consensus 300 l~~~diregL~avVsvk~i~~P~FegQTK~kL~~~~~~~~~~v-~~~~~~l~~~l~~n~~~~~~i~~~a~~~~~ar~a~~ 378 (602)
T PHA02569 300 VTKARVKECLTIVLFVRNMSNPRFDSQTKERLTSPFGEIRNHI-DLDYKKIAKQILKTEAIIMPIIEAALARKLAAEKAA 378 (602)
T ss_pred CCHHHHHhCCEEEEEEeccCCCcccCcccccccCChHHhccce-eehHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999998 99999999999999999 689999 999999999999999999999999999999999886
Q ss_pred HHH---HHHhhcccc-ccCCCCCCCCCCCCCCCCCceEEEEeccCCCccccccCCCCceEeeccCCccccccccCHHHHh
Q 007002 372 RAR---DLVRQKSVL-RSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMY 447 (622)
Q Consensus 372 kar---~~~~~k~~~-~~~~l~gKL~d~~~~~~~~~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKilNv~ka~~~ki~ 447 (622)
++| ++.|+|... ....|||| |++|||||||||||||||+|||||+||||||||||||||++|+.+||+
T Consensus 379 ~~k~~k~~~r~k~~~~~~a~lpGk--------~~~~eL~ivEGDSAggsAk~~RdR~~qaIlPLRGKiLNV~ka~~~ki~ 450 (602)
T PHA02569 379 ETKAAKKAKKAKVAKHIKANLIGK--------DAETTLFLTEGDSAIGYLIEVRDEELHGGYPLRGKVLNTWGMSYADIL 450 (602)
T ss_pred hhhhhhhhhhccccccccCCCCCC--------CCCceEEEEecCCCCcccccccCccceeecccCCcccchhhCCHHHhh
Confidence 443 666666544 36778888 789999999999999999999999999999999999999999999999
Q ss_pred hCHhHHHHHHHhccCccCCcCccccccceeEEEeecCCcCC-cchhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCC
Q 007002 448 KNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDG-AHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGK 526 (622)
Q Consensus 448 ~n~Ei~~li~~lG~~~~~~~~~~~~LRY~kiiimtDaD~DG-~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~gk 526 (622)
+|+||++|++|||||++ ++|+ +|||||||||||||+|| ||||||||||||| ||+||++||||+|+||||||++||
T Consensus 451 ~N~Ei~~li~alG~g~g-~~~~--~LRY~kIiImTDADvDG~sHIr~LLltff~~-~p~Li~~G~v~~~~~Pl~kv~~gk 526 (602)
T PHA02569 451 KNKELFDICAITGLVLG-EKAE--NMNYKNIAIMTDADVDGKGSIYPLLLAFFSR-WPELFEQGRIRFVKTPVIIAQVGK 526 (602)
T ss_pred cchhHHHHHHHhCCCcC-cccc--ccccCcEEEEecCCCcchHHHHHHHHHHHHh-chhhccCCeEEEecCCEEEEEcCC
Confidence 99999999999999994 5664 99999999999999999 9999999999999 999999999999999999999999
Q ss_pred eEEEeeCHHHHHHHHHhCCCCCccceeEeecccCCCcchhhhhccCCcceeEEeeccccHHHHHHHHHHhcCCCchHHHH
Q 007002 527 QVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKE 606 (622)
Q Consensus 527 ~~~~~~~~~e~~~~~~~~~~~~~~~i~~~KGLG~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~lmg~~~~~Rk~ 606 (622)
+++||||++||++|++++ ++|+||||||||||+|+|+|||||||+ +.+++++| .++++|++|||+++++||+
T Consensus 527 ~~~~~~~~~e~~~~~~~~---~~~~i~~yKGLGe~~~~~~~e~~~~p~---l~~~~~~d--~~~~~~~~l~g~~~~~Rk~ 598 (602)
T PHA02569 527 ETKWFYSLDEFEKAKDSL---KKWSIRYIKGLGSLRKSEYRRVINNPV---YDVVVLPD--DWKELFEMLFGDDADLRKD 598 (602)
T ss_pred eeEEecCHHHHHHHHHhc---CCcceEEeccCCCCCHHHHHHHhcCcc---cEEEecCc--hHHHHHHHHhCCCchHHHH
Confidence 999999999999999865 369999999999999999999999998 77888877 3789999999999999999
Q ss_pred HHHh
Q 007002 607 LIQN 610 (622)
Q Consensus 607 ~i~~ 610 (622)
||++
T Consensus 599 wi~~ 602 (602)
T PHA02569 599 WMSQ 602 (602)
T ss_pred HhhC
Confidence 9974
No 11
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=100.00 E-value=2.1e-165 Score=1451.21 Aligned_cols=586 Identities=26% Similarity=0.374 Sum_probs=527.8
Q ss_pred CeecCCCC-----------------------chhhHHHHHHHHhHHHhhh----cCCCCeEEEEEeCC-CeEEEEECCCC
Q 007002 1 MYIGSTGP-----------------------RGLHHLVYEILDNAVDEAQ----AGYASNIEVALLAD-NSVSVADNGRG 52 (622)
Q Consensus 1 MYiGst~~-----------------------~gL~~lv~EildNaiDe~~----~g~~~~I~V~l~~~-g~i~V~DnGrG 52 (622)
||||||+. |||||||||||+||+||++ +|+|+.|+|+|+++ |+|+|+|||||
T Consensus 25 mYIGS~~~~~~~~wv~~~~~~~m~~~~v~~vpGL~ki~dEIldNAvDe~~r~~~~g~~~~I~V~i~~d~g~IsV~dnGrG 104 (1388)
T PTZ00108 25 TYIGSIETQTEDMWVYDEEKNRMVYKTITYVPGLYKIFDEILVNAADNKARDKGGHRMTYIKVTIDEENGEISVYNDGEG 104 (1388)
T ss_pred ceeCCCCccccceeeecccccccccccccccchhhhhHHHHhhhhhhhhcccCCCCCccEEEEEEeccCCeEEEEecCCc
Confidence 99999998 8999999999999999998 58999999999987 99999999999
Q ss_pred ccCcccCCCCcchhhhhheeeccCCCCCCCCCCeeeccccccccceeeeeecCeEEEEEEeC--CEEEEEEEecCccccc
Q 007002 53 IPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRD--GMEYHQKYSRGKPVTT 130 (622)
Q Consensus 53 IP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~~k~sgG~~GvG~s~vNalS~~~~V~v~r~--g~~~~q~f~~G~~~~~ 130 (622)
||+++|+++|+|+||+|||+|||||||+++ .|++|||+||||+|||||||++|+|+|+|+ |+.|+|+|++||.+..
T Consensus 105 IPv~~h~~~~~~~pElIft~L~aGgkfdd~--~yKvSGGlhGVGasvvNalS~~f~Vev~r~~~gk~y~q~f~~Gm~~~~ 182 (1388)
T PTZ00108 105 IPVQIHKEHKIYVPEMIFGHLLTSSNYDDT--EKRVTGGRNGFGAKLTNIFSTKFTVECVDSKSGKKFKMTWTDNMSKKS 182 (1388)
T ss_pred ccCCCCCCCCCccceEEEEEeeccccCCCC--ceeeecccccCCccccccccceEEEEEEECCCCCEEEEEecCCCcCCC
Confidence 999999999999999999999999999987 999999999999999999999999999999 9999999999974432
Q ss_pred ceeeccCCCCCC-CCCeEEEEEeCcccccccccCCHHH---HHHHHHHHhccCCCcEEEEeecCCCCCCCceeEEEeCCc
Q 007002 131 LTCHVLPVDSKD-RQGTRIRFWPDKQVFTTAIQFDHNT---IAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGG 206 (622)
Q Consensus 131 ~~~~~~~~~~~~-~~GT~V~F~PD~~iF~~~~~~~~~~---i~~rl~elA~lnpgl~I~l~d~r~~~~~~~~~~f~~~~G 206 (622)
.+.+ . .... ++||+|+|+||+++|++ ..|+.++ |.+||+++|||||||+|+|+|++.+. .+
T Consensus 183 ~p~i--~-~~~~~~~GT~VtF~PD~~iF~~-~~fd~d~~~ll~~Rl~dlA~ln~GLkI~lnder~gi-----------~~ 247 (1388)
T PTZ00108 183 EPRI--T-SYDGKKDYTKVTFYPDYAKFGM-TEFDDDMLRLLKKRVYDLAGCFGKLKVYLNGERIAI-----------KS 247 (1388)
T ss_pred CCcc--C-CCCCCCCceEEEEEeCHHHcCC-CccChHHHHHHHHHHHHHhcCCCCcEEEEeCccccH-----------HH
Confidence 2223 1 2123 69999999999999975 4799988 99999999999999999999987310 13
Q ss_pred HHHHHHHHhcCCCCCCCeeE-EEeecceeEEEEEEEEcCCCCCceeeeeeCceeccCCCcchHHHHHHHHHHHHHHHhhc
Q 007002 207 LEEYVQWLNTDKKPLHDVVG-FRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKS 285 (622)
Q Consensus 207 l~~yv~~l~~~~~~l~~~i~-~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~ 285 (622)
+.+|+++++.+..+.+++++ +..+..+++||||++|+ + ++++++||||+|+|++|||||+||+++|+++|++|++++
T Consensus 248 F~~y~~ly~~~~~~~~~~~~~~~~~~~~~~~eVal~~s-~-~~~~~~SFVN~I~T~~GGTHv~g~~~alt~~i~~~~k~k 325 (1388)
T PTZ00108 248 FKDYVDLYLPDGEEGKKPPYPFVYTSVNGRWEVVVSLS-D-GQFQQVSFVNSICTTKGGTHVNYILDQLISKLQEKAKKK 325 (1388)
T ss_pred HHHHHHhhccCCccCCCCceeeeccccCceEEEEEEEe-C-CCceEEEEEcccccCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 44455554655555544444 55565678999999999 4 578899999999999999999999999999999999873
Q ss_pred cCCCCCCCCCCHHhHhcccEEEEEEeecCCCCCCccccccCCchhhhhhhhhhHHHHHHHHhhChHHHHHHHHHHHHHHH
Q 007002 286 KTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALK 365 (622)
Q Consensus 286 ~~~k~~~~~l~~~diregl~~~vs~~i~nP~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~~~ 365 (622)
|+++.+++++|||+||++||||+|+||+|+||||++|+|++++..+.+.+++.|..||++ ..|+++++.+++
T Consensus 326 ---kk~~~~i~~~dIregl~~~Vs~~i~nP~FdsQTKekL~~~~~~~~~~~~v~e~l~~~l~~-----~~Ivekil~~a~ 397 (1388)
T PTZ00108 326 ---KKKGKEIKPNQIKNHLWVFVNCLIVNPSFDSQTKETLTTKPSKFGSTCELSEKLIKYVLK-----SPILENIVEWAQ 397 (1388)
T ss_pred ---cccCCCCCHHHHHhCcEEEEEEecCCCccCCcccccccChhhHHHHHHHHHHHHHHHHhh-----hHHHHHHHHHHH
Confidence 334568999999999999999999999999999999999999999999999999999986 468999999999
Q ss_pred HHHHHHHHHHHHhhccccccCCCCCCCCCCC---CCCCCCceEEEEeccCCCcccccc---CCCCceEeeccCCcccccc
Q 007002 366 AALAAKRARDLVRQKSVLRSSSLPGKLADCS---STTPEESEIFIVEGDSAGGSAKQG---RDRRFQAILPLRGKILNVE 439 (622)
Q Consensus 366 ar~aakkar~~~~~k~~~~~~~l~gKL~d~~---~~~~~~~eL~lvEGDSA~gsa~~g---Rdr~~qai~PLrGKilNv~ 439 (622)
+|++|+++|++.++| ...... |+||+||+ ++++.+|||||||||||||||++| |||+||||||||||||||+
T Consensus 398 aR~aa~~ak~~~~~K-~~~~~~-ipKL~Dc~~aG~k~~~~ceL~lvEGDSAggsAk~Gl~vrdR~~qaVfPLRGKiLNV~ 475 (1388)
T PTZ00108 398 AKLAAELNKKMKAGK-KSRILG-IPKLDDANDAGGKNSEECTLILTEGDSAKALALAGLSVVGRDYYGVFPLRGKLLNVR 475 (1388)
T ss_pred HHHHHHHHHHHhhhh-hhcccC-chhhhhcccccCCChhhcEEEEEecCcccchhhhcccccCccceeeeccCCcccccc
Confidence 999999999988877 333334 44999999 689999999999999999999999 7999999999999999999
Q ss_pred ccCHHHHhhCHhHHHHHHHhccCccCCcCccccccceeEEEeecCCcCCcchhhhHHHHHHHHHHHhhh-cCcEEEecCC
Q 007002 440 RKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFD-EGCIYVGVPP 518 (622)
Q Consensus 440 ka~~~ki~~n~Ei~~li~~lG~~~~~~~~~~~~LRY~kiiimtDaD~DG~HI~~Llltff~~~~p~Li~-~g~v~~~~tP 518 (622)
+|+.+||++|+||++|++|||||++.++||+++|||||||||||||+||+|||||||||||||||+||+ +||||+|+||
T Consensus 476 kas~~ki~~N~EI~~li~aLGlg~g~~y~d~~~LRYgkIiIMTDADvDGsHIr~LLlnff~~~~p~Li~~~Gfl~~~~tP 555 (1388)
T PTZ00108 476 DASLKQLMNNKEIQNLFKILGLDIGKKYEDPKGLRYGSLMIMTDQDHDGSHIKGLLINMIHHFWPSLLKNPGFLKEFITP 555 (1388)
T ss_pred cccHhhhhccHHHHHHHHHhCCCcCccccccccCCCCeEEEEeCCCCCccHHHHHHHHHHHHhhHHhcccCCEEEEecCC
Confidence 999999999999999999999999766689999999999999999999999999999999999999999 9999999999
Q ss_pred eEEEEe-CCeEEEeeCHHHHHHHHHhCCCCCccceeEeecccCCCcchhhhhccCCcceeEEeeccccHHHHHHHHHHhc
Q 007002 519 LYKVER-GKQVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLM 597 (622)
Q Consensus 519 l~kv~~-gk~~~~~~~~~e~~~~~~~~~~~~~~~i~~~KGLG~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~lm 597 (622)
||||++ ||+++||||++||++|+++++ .++|+||||||||||+|+|+|||||||+ |++.+++++|+ .++.+|+++|
T Consensus 556 l~kv~k~gk~~~~fys~~E~e~~~~~~~-~~~~~IkyyKGLGe~~~~e~~eyf~~~~-r~~i~~~~~~~-~~~~~idl~f 632 (1388)
T PTZ00108 556 IVKATKKGNQVISFFTIPDFEKWKQTVG-LKGWKIKYYKGLGTSTDKEGKEYFSNID-KHRIRFVYVDD-SDDDSIDLAF 632 (1388)
T ss_pred EEEEEECCceeEEecCHHHHHHHHHHcC-CCCCccccccchhhcCHHHHHHHhcccC-ceEEEEecCCc-cHHHHHHHHh
Confidence 999999 999999999999999999875 4579999999999999999999999999 66889998876 4788999999
Q ss_pred CCC-chHHHHHHHhccccCCcC
Q 007002 598 GAR-VDTRKELIQNAANLVNLD 618 (622)
Q Consensus 598 g~~-~~~Rk~~i~~~~~~~~~~ 618 (622)
|++ +++||+||++|++..+++
T Consensus 633 gk~~a~~RK~wi~~~~~~~~~d 654 (1388)
T PTZ00108 633 SKKRVEDRKEWITNYKGGTYVD 654 (1388)
T ss_pred CCCChHHHHHHHHhhCcccccc
Confidence 987 999999999999876653
No 12
>PLN03128 DNA topoisomerase 2; Provisional
Probab=100.00 E-value=1.3e-162 Score=1419.47 Aligned_cols=584 Identities=25% Similarity=0.376 Sum_probs=517.0
Q ss_pred CeecCCCC---------------------chhhHHHHHHHHhHHHhhh-cCCCCeEEEEEeC-CCeEEEEECCCCccCcc
Q 007002 1 MYIGSTGP---------------------RGLHHLVYEILDNAVDEAQ-AGYASNIEVALLA-DNSVSVADNGRGIPIDL 57 (622)
Q Consensus 1 MYiGst~~---------------------~gL~~lv~EildNaiDe~~-~g~~~~I~V~l~~-~g~i~V~DnGrGIP~~~ 57 (622)
||||||+. ||||||||||||||+||++ +|+|+.|.|+|+. +|+|+|+|||||||+++
T Consensus 22 mYIGS~~~~~~~~wv~~~~~~~~~~v~~vpGL~ki~dEIldNAvDe~~~~g~~~~I~V~i~~~dgsIsV~DnGrGIPv~i 101 (1135)
T PLN03128 22 TYIGSTEKHTQTLWVYEGGEMVNREVTYVPGLYKIFDEILVNAADNKQRDPSMDSLKVDIDVEQNTISVYNNGKGIPVEI 101 (1135)
T ss_pred CeeCCCCCccceeeEecccceeeeccccchhHHHHHHHHHHHHHHHhhhcCCCcEEEEEEEcCCCeEEEEecCccccCCC
Confidence 99999998 8999999999999999995 5999999999997 79999999999999999
Q ss_pred cCCCCcchhhhhheeeccCCCCCCCCCCeeeccccccccceeeeeecCeEEEEEE--eCCEEEEEEEecCcccccceeec
Q 007002 58 HPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVW--RDGMEYHQKYSRGKPVTTLTCHV 135 (622)
Q Consensus 58 ~~~~g~~~~E~v~~~l~ag~kf~~~~~~~k~sgG~~GvG~s~vNalS~~~~V~v~--r~g~~~~q~f~~G~~~~~~~~~~ 135 (622)
||++|+|+||+|||+|||||||+++ .|++|||+||||+|||||||++|+|+|+ |+|+.|+|+|++|+++.+++.+
T Consensus 102 h~~~g~~~~ElIft~LhaGgkFdd~--~ykvSGGlhGvGasvvNaLS~~f~Vev~d~r~gk~y~q~f~~G~~~~~~p~i- 178 (1135)
T PLN03128 102 HKEEGVYVPELIFGHLLTSSNFDDN--EKKTTGGRNGYGAKLANIFSTEFTVETADGNRGKKYKQVFTNNMSVKSEPKI- 178 (1135)
T ss_pred CCCCCCccceEEEEeeccccccCCc--cceeeccccCCCCeEEEeecCeEEEEEEECCCCeEEEEEeCCCcccCCCcee-
Confidence 9999999999999999999999987 8999999999999999999999999999 8999999999999998776544
Q ss_pred cCCCCCCCCCeEEEEEeCcccccccccCCHH---HHHHHHHHHh-ccCCCcEEEEeecCCCCCCCceeEEEeCCcHHHHH
Q 007002 136 LPVDSKDRQGTRIRFWPDKQVFTTAIQFDHN---TIAGRIRELA-FLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYV 211 (622)
Q Consensus 136 ~~~~~~~~~GT~V~F~PD~~iF~~~~~~~~~---~i~~rl~elA-~lnpgl~I~l~d~r~~~~~~~~~~f~~~~Gl~~yv 211 (622)
.......+||+|+|+||+++|++ ..|+.+ .+.+|++++| ||||||+|+|+|+|.. .+||.+||
T Consensus 179 -~~~~~~~~GT~ItF~PD~~iF~~-~~fd~d~~~~l~kRl~elAa~Ln~GlkI~Lnder~~-----------~~G~~dyv 245 (1135)
T PLN03128 179 -TSCKASENWTKITFKPDLAKFNM-TRLDEDVVALMSKRVYDIAGCLGKKLKVELNGKKLP-----------VKSFQDYV 245 (1135)
T ss_pred -ccCCCCCCceEEEEEECHHHcCC-CccChHHHHHHHHHHHHHHHhCCCCcEEEEecCCCC-----------CCCHHHHH
Confidence 11223469999999999999985 468876 5899999999 9999999999999842 36999999
Q ss_pred HHHh-cCCCCCCCeeEEEeecceeEEEEEEEEcCCCCCceeeeeeCceeccCCCcchHHHHHHHHHHHHHHHhhccCCCC
Q 007002 212 QWLN-TDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKD 290 (622)
Q Consensus 212 ~~l~-~~~~~l~~~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~ 290 (622)
+++. .++++.+.++.+..+ +.+||||++|++ + +++++||||+|+|++|||||+||+++|++.+++++++++ |
T Consensus 246 ~~~~~~~~~~~~~~i~~~~~--~~~~eva~~~s~-~-~~~~~SFVN~I~T~~GGTHv~g~~~~i~~~i~~~~~kk~--K- 318 (1135)
T PLN03128 246 GLYLGPNSREDPLPRIYEKV--NDRWEVCVSLSD-G-SFQQVSFVNSIATIKGGTHVDYVADQIVKHIQEKVKKKN--K- 318 (1135)
T ss_pred HHHhcCCCCCCCCCeEEEec--CceEEEEEEEcC-C-CceEEEEECcEecCCCCchHHHHHHHHHHHHHHHHHHcc--C-
Confidence 9654 443333345656544 457999999995 4 567999999999999999999999999999999988754 2
Q ss_pred CCCCCCHHhHhcccEEEEEEeecCCCCCCccccccCCchhhhhhhhhhHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHH
Q 007002 291 KDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAA 370 (622)
Q Consensus 291 ~~~~l~~~diregl~~~vs~~i~nP~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~~~ar~aa 370 (622)
++.+++++|||+||++||||+++||+|+||||++|+|++++.+|++.+++.|..||+ +..|+++++.++++|++|
T Consensus 319 ~~~~l~~~diregL~~vIs~ki~nP~FesQTKekL~s~~~~~~v~~~v~e~~~~~l~-----~~~Ivekil~~a~aR~aa 393 (1135)
T PLN03128 319 NATHVKPFQIKNHLWVFVNCLIENPTFDSQTKETLTTRPSSFGSKCELSEEFLKKVE-----KCGVVENILSWAQFKQQK 393 (1135)
T ss_pred CCCCCCHHHHHhCcEEEEEEecCCCcccCcccccccChhHHHHHHHHHHHHHHHHHh-----hHHHHHHHHHHHHHHHHH
Confidence 235799999999999999999999999999999999999999999999999999995 447888888999999999
Q ss_pred HHHHHHHhhccccccCCCCCCCCCCC---CCCCCCceEEEEeccCCCcccccc---CCCCceEeeccCCccccccccCHH
Q 007002 371 KRARDLVRQKSVLRSSSLPGKLADCS---STTPEESEIFIVEGDSAGGSAKQG---RDRRFQAILPLRGKILNVERKDEA 444 (622)
Q Consensus 371 kkar~~~~~k~~~~~~~l~gKL~d~~---~~~~~~~eL~lvEGDSA~gsa~~g---Rdr~~qai~PLrGKilNv~ka~~~ 444 (622)
+++|+..++|+.. ..+ +||+||+ +++|++|||||||||||||||+|| |||+||||||||||||||++|+.+
T Consensus 394 ~~~k~~~~kk~~~--~~i-pKL~Dc~~ag~k~~~~ceLflvEGDSAggsAk~Gl~~rdR~~qaIlPLRGKiLNV~ka~~~ 470 (1135)
T PLN03128 394 ELKKKDGAKRQRL--TGI-PKLDDANDAGGKKSKDCTLILTEGDSAKALAMSGLSVVGRDHYGVFPLRGKLLNVREASHK 470 (1135)
T ss_pred HHHHHHhhccCCC--CCC-cccccccccCCCChhHcEEEEEecCCCCcchhhcccccCccceeeeccCCceeccccCCHH
Confidence 9888877776432 234 4999997 899999999999999999999999 999999999999999999999999
Q ss_pred HHhhCHhHHHHHHHhccCccCCcC---ccccccceeEEEeecCCcCCcchhhhHHHHHHHHHHHhhhc-CcEEEecCCeE
Q 007002 445 AMYKNEEIQNLIRALGLGVKGEDF---KKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDE-GCIYVGVPPLY 520 (622)
Q Consensus 445 ki~~n~Ei~~li~~lG~~~~~~~~---~~~~LRY~kiiimtDaD~DG~HI~~Llltff~~~~p~Li~~-g~v~~~~tPl~ 520 (622)
||++|+||++|++||||+++ ++| |+++|||||||||||||+||||||||||||||||||+||+. ||||+|+||||
T Consensus 471 ki~~N~EI~~li~alG~~~g-~~~~~~d~~~LRYgkIiIMTDaDvDGsHIr~LLltff~~~~p~Li~~~G~l~~~~tPl~ 549 (1135)
T PLN03128 471 QIMKNAEITNIKQILGLQFG-KTYDEENTKSLRYGHLMIMTDQDHDGSHIKGLIINFFHSFWPSLLKIPGFLVEFITPIV 549 (1135)
T ss_pred HHhcchHHHHHHHHhCCCcC-ccccccChhhcccCeEEEEeCCCCCcchhHHHHHHHHHHhCHHhhccCCeEEEccCCEE
Confidence 99999999999999999995 556 99999999999999999999999999999999999999997 99999999999
Q ss_pred EEEeCCeEEEeeCHHHHHHHHHhCCCC-CccceeEeecccCCCcchhhhhccCCcceeEEeeccccHHHHHHHHHHhcC-
Q 007002 521 KVERGKQVQYCYDDAELKKVKSSFPSN-ALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMG- 598 (622)
Q Consensus 521 kv~~gk~~~~~~~~~e~~~~~~~~~~~-~~~~i~~~KGLG~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~lmg- 598 (622)
||++||++.||||++||++|++++++. ++|+||||||||||+|+|+||||.|++.|....+..+|. .+++++++|+
T Consensus 550 kv~~gk~~~~~~s~~e~~~~~~~~~~~~~~~~ikyyKGLGe~~~~e~~e~f~~~~~~~~~f~~~~~~--~~~~i~~aF~k 627 (1135)
T PLN03128 550 KATKGGKSLSFYTMPEYEAWKESLEGETKGWTIKYYKGLGTSTSEEAKEYFSNLDIHKKEFLWQSDE--DGDLIDMAFSK 627 (1135)
T ss_pred EEEcCCeeEecCCHHHHHHHHHhhcccCCCccceeecccccCCHHHHHHHHHhHHHhEEEEEeCCCC--cHHHHHHhcCC
Confidence 999999999999999999999887543 479999999999999999999999998876443322221 1334555554
Q ss_pred CCchHHHHHHHhccccCCcC
Q 007002 599 ARVDTRKELIQNAANLVNLD 618 (622)
Q Consensus 599 ~~~~~Rk~~i~~~~~~~~~~ 618 (622)
+++++||+||.++.+..+++
T Consensus 628 ~~~~~RK~Wl~~~~~~~~~d 647 (1135)
T PLN03128 628 KRVEDRKIWLNNYEPGTFLD 647 (1135)
T ss_pred CcHHHHHHHHHhCCCCcccc
Confidence 67999999999998876553
No 13
>PLN03237 DNA topoisomerase 2; Provisional
Probab=100.00 E-value=4.6e-160 Score=1398.09 Aligned_cols=575 Identities=24% Similarity=0.386 Sum_probs=495.0
Q ss_pred CeecCCC---------------------CchhhHHHHHHHHhHHHhhh-cCCCCeEEEEEe-CCCeEEEEECCCCccCcc
Q 007002 1 MYIGSTG---------------------PRGLHHLVYEILDNAVDEAQ-AGYASNIEVALL-ADNSVSVADNGRGIPIDL 57 (622)
Q Consensus 1 MYiGst~---------------------~~gL~~lv~EildNaiDe~~-~g~~~~I~V~l~-~~g~i~V~DnGrGIP~~~ 57 (622)
||||||+ .|||||||||||+||+||++ +|+|+.|+|+|+ ++|+|+|+|||||||+++
T Consensus 47 mYIGSt~~~~~~~wv~~~~~m~~~~v~~vpGL~kifdEIldNAvDe~~r~g~~~~I~V~I~~~~gsIsV~DnGRGIPV~i 126 (1465)
T PLN03237 47 TYIGSIEKHTQTLWVYETDKMVQRSVTYVPGLYKIFDEILVNAADNKQRDPKMDSLRVVIDVEQNLISVYNNGDGVPVEI 126 (1465)
T ss_pred CEeCCCCcccceeeeeccccceeeeccccchhhhhHHHHhhhhHhHHhhcCCCCEEEEEEEcCCCEEEEEecCccccCCC
Confidence 9999999 69999999999999999995 599999999999 579999999999999999
Q ss_pred cCCCCcchhhhhheeeccCCCCCCCCCCeeeccccccccceeeeeecCeEEEEEE--eCCEEEEEEEecC--ccccccee
Q 007002 58 HPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVW--RDGMEYHQKYSRG--KPVTTLTC 133 (622)
Q Consensus 58 ~~~~g~~~~E~v~~~l~ag~kf~~~~~~~k~sgG~~GvG~s~vNalS~~~~V~v~--r~g~~~~q~f~~G--~~~~~~~~ 133 (622)
|+++|+|+||+|||+|||||||+++ .|++||||||||+|||||||++|+|+|+ ++|+.|+|+|++| .+..++
T Consensus 127 H~~eg~~~pElIft~LhAGgkFdd~--~yKvSGGlhGVGasvvNaLS~~f~Vev~Dg~~gk~y~Q~f~~nmG~~~~p~-- 202 (1465)
T PLN03237 127 HQEEGVYVPEMIFGHLLTSSNYDDN--EKKTTGGRNGYGAKLTNIFSTEFVIETADGKRQKKYKQVFSNNMGKKSEPV-- 202 (1465)
T ss_pred CCCCCCccceEEEEeeeccccCCCC--cceeeccccccCccccccccCeeEEEEEECCCCeEEEEEEeCCCCccCCce--
Confidence 9999999999999999999999987 9999999999999999999999999999 5589999999994 444442
Q ss_pred eccCCCCCCCCCeEEEEEeCcccccccccCCHHHH---HHHHHHHh-ccCCCcEEEEeecCCCCCCCceeEEEeCCcHHH
Q 007002 134 HVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTI---AGRIRELA-FLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEE 209 (622)
Q Consensus 134 ~~~~~~~~~~~GT~V~F~PD~~iF~~~~~~~~~~i---~~rl~elA-~lnpgl~I~l~d~r~~~~~~~~~~f~~~~Gl~~ 209 (622)
+ .......+||+|+|+||+++|++ ..|+++++ .+|++++| ||||||+|+|+|+|.. .+||.+
T Consensus 203 i--~~~~~~~~GT~VtF~PD~eiF~~-~~fd~D~l~~~~rRlrdLAa~LnkGlkI~LndeR~~-----------~~G~kd 268 (1465)
T PLN03237 203 I--TKCKKSENWTKVTFKPDLAKFNM-THLEDDVVALMKKRVVDIAGCLGKTVKVELNGKRIP-----------VKSFSD 268 (1465)
T ss_pred e--ccCCCCCCceEEEEEECHHHhCC-ceEcHHHHHHHHHHHHHHHhccCCCcEEEEEecCCC-----------CCCHHH
Confidence 2 11223479999999999999975 46999887 58999999 9999999999999853 269999
Q ss_pred HHHHHhcCC----CCCCCeeEEEeecceeEEEEEEEEcCCCCCceeeeeeCceeccCCCcchHHHHHHHHHHHHHHHhhc
Q 007002 210 YVQWLNTDK----KPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKS 285 (622)
Q Consensus 210 yv~~l~~~~----~~l~~~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~ 285 (622)
||+++.... .+.++++ +. ..+.+||||+||++ + +++++||||+|+|++|||||+||+++|++.|+++++++
T Consensus 269 YV~~yl~~~~k~k~~~~~~i-~e--~~~~~~EVAl~~sd-~-~~~~~SFVNnI~T~~GGTHv~g~~~aIt~~l~~~~~kK 343 (1465)
T PLN03237 269 YVDLYLESANKSRPENLPRI-YE--KVNDRWEVCVSLSE-G-QFQQVSFVNSIATIKGGTHVDYVTNQIANHVMEAVNKK 343 (1465)
T ss_pred HHHHHhhcccccCCCCCCcc-Ee--cCCCeEEEEEEEeC-C-CceEEEEECcccCCCCCcHHHHHHHHHHHHHHHHHHhc
Confidence 999765321 2222322 33 34568999999994 5 47899999999999999999999999999999998763
Q ss_pred cCCCCCCCCCCHHhHhcccEEEEEEeecCCCCCCccccccCCchhhhhhhhhhHHHHH---HHHhhChHHHHHHHHHHHH
Q 007002 286 KTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLT---EYLELHPDVLDSILSKSLS 362 (622)
Q Consensus 286 ~~~k~~~~~l~~~diregl~~~vs~~i~nP~FegQTK~kL~n~~v~~~v~~~v~~~l~---~~l~~np~~~~~I~~k~~~ 362 (622)
+++.+++++|||+||++||||+|+||+|+||||++|+|+++. +.+.+. .|++ +..++.|+++++.
T Consensus 344 ----~k~~~l~~~DIregL~a~IsvkI~nP~FesQTKekLtn~~~~------f~s~l~l~~~flk--~~~~~~Ivekil~ 411 (1465)
T PLN03237 344 ----NKNANIKAHNVKNHLWVFVNALIDNPAFDSQTKETLTLRQSS------FGSKCELSEDFLK--KVMKSGIVENLLS 411 (1465)
T ss_pred ----cCCCCCCHHHHHhCcEEEEEEeCCCCccCCcccCcccChHHH------HHHHhccCHHHHh--HHHHHHHHHHHHH
Confidence 234589999999999999999999999999999999998753 445555 6664 4466779999988
Q ss_pred HHHHHHHHHHHHHHHhhcccc--ccCCCCCCCCCCC---CCCCCCceEEEEeccCCCccccccC---CCCceEeeccCCc
Q 007002 363 ALKAALAAKRARDLVRQKSVL--RSSSLPGKLADCS---STTPEESEIFIVEGDSAGGSAKQGR---DRRFQAILPLRGK 434 (622)
Q Consensus 363 ~~~ar~aakkar~~~~~k~~~--~~~~l~gKL~d~~---~~~~~~~eL~lvEGDSA~gsa~~gR---dr~~qai~PLrGK 434 (622)
++++ +++|++.|++... ....+| ||+||+ ++++++|||||||||||||||+||| ||+||||||||||
T Consensus 412 ~A~a----k~arel~k~k~~k~~~~~~ip-KL~Dc~~aG~kd~~~ceLfLvEGDSAgGsAk~GR~vvdR~~qaIlPLRGK 486 (1465)
T PLN03237 412 WADF----KQSKELKKTDGAKTTRVTGIP-KLEDANEAGGKNSEKCTLILTEGDSAKALAVAGLSVVGRNYYGVFPLRGK 486 (1465)
T ss_pred HHHH----HHHHHHHhhhcccccccCCCc-ccccccccccCCccccEEEEEecCcCCchhhhhhcccCccceeeeccCCc
Confidence 7765 5566776665432 333455 999998 6999999999999999999999999 8999999999999
Q ss_pred cccccccCHHHHhhCHhHHHHHHHhccCccCCcCccccccceeEEEeecCCcCCcchhhhHHHHHHHHHHHhhh-cCcEE
Q 007002 435 ILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFD-EGCIY 513 (622)
Q Consensus 435 ilNv~ka~~~ki~~n~Ei~~li~~lG~~~~~~~~~~~~LRY~kiiimtDaD~DG~HI~~Llltff~~~~p~Li~-~g~v~ 513 (622)
||||++|+.+||++|+||++||+|||||++..+||+++|||||||||||||+||||||||||||||||||+||+ .||||
T Consensus 487 ILNV~kAs~~kil~N~EI~~ii~aLGlgig~~y~d~~~LRYgkIiIMTDADvDGsHIrgLLLtFF~r~~P~Li~~~Gfl~ 566 (1465)
T PLN03237 487 LLNVREASHKQIMNNAEIENIKQILGLQHGKQYESVKSLRYGHLMIMTDQDHDGSHIKGLLINFIHSFWPSLLKVPSFLV 566 (1465)
T ss_pred eehhccCcHHhhhcchHHHHHHHHhCCCcCcccCcccccccCcEEEEeCCCCCccHHHHHHHHHHHHhhHHhcccCCEEE
Confidence 99999999999999999999999999999766679999999999999999999999999999999999999999 89999
Q ss_pred EecCCeEEEEe-CCeEEEeeCHHHHHHHHHhCCC-CCccceeEeecccCCCcchhhhhccCCcceeEEeeccccHHHHHH
Q 007002 514 VGVPPLYKVER-GKQVQYCYDDAELKKVKSSFPS-NALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANV 591 (622)
Q Consensus 514 ~~~tPl~kv~~-gk~~~~~~~~~e~~~~~~~~~~-~~~~~i~~~KGLG~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~ 591 (622)
+|+||||||++ ||+++||||++||++|++++++ .++|+||||||||||+|+|+||||.|.++|.+.....++. .+.
T Consensus 567 ~~~tPL~Kv~~~gk~~~~fys~~E~e~w~~~~~~~~~~~~IkyYKGLGe~~~~e~keyf~~~~~h~~~f~~~~~~--~~~ 644 (1465)
T PLN03237 567 EFITPIVKATRRGKKVLSFYSMPEYEEWKESLGGNATGWSIKYYKGLGTSTAKEGKEYFKNLGKHKKDFVWEDEQ--DGD 644 (1465)
T ss_pred EecCCeEEEEECCCeeEeecCHHHHHHHHHHhcccCCceeeEeeccCCCCCHHHHHHHHHhHHhceEEEEECCCC--cHH
Confidence 99999999999 9999999999999999998653 3579999999999999999999999999886543322221 123
Q ss_pred HHHHhcC-CCchHHHHHHHhccccCCc
Q 007002 592 VFSSLMG-ARVDTRKELIQNAANLVNL 617 (622)
Q Consensus 592 ~~~~lmg-~~~~~Rk~~i~~~~~~~~~ 617 (622)
+|++.|+ +++++||+||.++.+..++
T Consensus 645 ~i~laF~k~~~d~RK~Wl~~~~~~~~l 671 (1465)
T PLN03237 645 AIELAFSKKKIEARKNWLRQYEPGTHL 671 (1465)
T ss_pred HHHHHhCCccHHHHHHHHHhCCCCccc
Confidence 4555554 5599999999999887655
No 14
>KOG0355 consensus DNA topoisomerase type II [Chromatin structure and dynamics]
Probab=100.00 E-value=3.5e-118 Score=982.60 Aligned_cols=574 Identities=31% Similarity=0.423 Sum_probs=504.7
Q ss_pred CCCchhhHHHHHHHHhHHHhhhcC-CCCeEEEEEe-CCCeEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCC
Q 007002 6 TGPRGLHHLVYEILDNAVDEAQAG-YASNIEVALL-ADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSS 83 (622)
Q Consensus 6 t~~~gL~~lv~EildNaiDe~~~g-~~~~I~V~l~-~~g~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~ 83 (622)
|+.|||+||++||++||+| .+++ .++.|.|+|+ +++.|+|+|||+|||++.||.+++|+||++|++|||+|||+++
T Consensus 49 t~~pGl~ki~dEilvNaad-k~rd~~m~~i~v~i~~e~~~isv~nnGkGIPv~~H~~ek~yvpelifg~Lltssny~d~- 126 (842)
T KOG0355|consen 49 TYVPGLYKIFDEILVNAAD-KQRDPKMNTIKVTIDKEKNEISVYNNGKGIPVTIHKVEKVYVPELIFGNLLTSSNYDDD- 126 (842)
T ss_pred ecCCcHHHHHHHHhhcccc-cccCCCcceeEEEEccCCCEEEEEeCCCcceeeecccccccchHHHHhhhhhccccCCC-
Confidence 8999999999999999999 8776 4999999999 5789999999999999999999999999999999999999988
Q ss_pred CCeeeccccccccceeeeeecCeEEEEEE--eCCEEEEEEEecCcccccceeeccCCCCCCCCCeEEEEEeCcccccccc
Q 007002 84 SGYSVSGGLHGVGLSVVNALSESLEVTVW--RDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAI 161 (622)
Q Consensus 84 ~~~k~sgG~~GvG~s~vNalS~~~~V~v~--r~g~~~~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~PD~~iF~~~~ 161 (622)
+.+++||+||+|++++|+||..|.++|+ +.++.|+|+|.+||+....+.+. ....+.||+|+|+||.+.|.+.
T Consensus 127 -ekK~tggrngygakLcniFs~~f~~Et~d~~~~~~~kQ~w~~nm~~~~~~~i~---~~~~~~yTkitF~PDl~~F~m~- 201 (842)
T KOG0355|consen 127 -EKKVTGGRNGYGAKLCNIFSTEFTVETADREYKMAFKQTWINNMTRDEEPKIV---PSTDEDYTKITFSPDLEKFKMK- 201 (842)
T ss_pred -ccccccCCCccceeeeeeccccceeeeeehHhHHHHHHhhhcCCcccCCceee---cCCCCCcceEEeCcChHhcCch-
Confidence 8899999999999999999999999996 46789999999999997765553 3344559999999999999975
Q ss_pred cCCHHH---HHHHHHHHhccCCCcEEEEeecCCCCCCCceeEEEeCCcHHHHHHHHhcCCCCCCCeeEEEeecceeEEEE
Q 007002 162 QFDHNT---IAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDL 238 (622)
Q Consensus 162 ~~~~~~---i~~rl~elA~lnpgl~I~l~d~r~~~~~~~~~~f~~~~Gl~~yv~~l~~~~~~l~~~i~~~~~~~~i~vev 238 (622)
.+|.|+ +.+|++++|....++++.++++++.. +|+.+|+.++.. ......+.....+..+-+|||
T Consensus 202 eLD~Div~l~~rr~~d~a~~~~~vkv~ln~~~~~~-----------~~f~~yv~~~~~-~~~~~~~~~~ihe~~~~RwEv 269 (842)
T KOG0355|consen 202 ELDDDIVALMARRAYDLAGSVKSVKVELNGKNIPV-----------KGFYDYVKMYLE-VLWLNDDLKPLHEVLNFRWEV 269 (842)
T ss_pred hhcchHHHhHHhhhhhhcccccceeeeecCCCCcc-----------chHHHHHhhccc-cccccCcchhhhcccchHHHH
Confidence 688665 57999999987799999999998642 689999999986 333322322333455668999
Q ss_pred EEEEcCCCCCceeeeeeCceeccCCCcchHHHHHHHHHHHHHHHhhccCCCCCCCCCCHHhHhcccEEEEEEeecCCCCC
Q 007002 239 ALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFE 318 (622)
Q Consensus 239 al~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~~~~~l~~~diregl~~~vs~~i~nP~Fe 318 (622)
+++.++.+|+ ++||||+|+|.+|||||+++++++++.++..+++.+.. +..++++..++++|++||+|.|+||.|+
T Consensus 270 ~~a~s~~~fq--qisfvNsI~T~kGGThVd~V~D~iv~~l~~vvkKk~~~--~~~svk~f~vkn~L~vfVN~lIENPtFe 345 (842)
T KOG0355|consen 270 ALALSDVGFQ--QVSFVNSIATTKGGTHVDYVVDQIVAKLIDVVKKKKVK--KDISVKPFQVKNHLWVFVNCLIENPTFE 345 (842)
T ss_pred hhhccccccc--eeeeecceeecCCCcccchhhhhHHHHHHHHhcccccc--cccccchhhhhcceEEEEEEEecCcccc
Confidence 9988855665 59999999999999999999999999999999886543 4578999999999999999999999999
Q ss_pred CccccccCCchhhhhhhhhhHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCC--
Q 007002 319 GQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCS-- 396 (622)
Q Consensus 319 gQTK~kL~n~~v~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~~~ar~aakkar~~~~~k~~~~~~~l~gKL~d~~-- 396 (622)
||||+.|+++..+..+.+.+++.+.+.+.+++ +++.|++++..+.+...+.+++++..+.+ .+| ||.|++
T Consensus 346 sQTke~lt~~~~~fgs~~elsek~~k~~~~~~-i~esils~s~~~~~~dL~kk~~~~~s~~e------~I~-KleDa~~a 417 (842)
T KOG0355|consen 346 SQTKERLTLRPKRFGSDCELSEKFTKAIELKG-VVESILSKSLNKYKDDLAKKRGKLTSRSK------GIP-KLEDANDA 417 (842)
T ss_pred ccchhhcccccccccceEeehhHHHHHHHhCc-hHHHHHHHHHHHHHHhhhhhhhhhhcccc------chh-Hhhhcccc
Confidence 99999999999999999999999999999998 99999999988887776666665433333 234 888875
Q ss_pred -CCCCCCceEEEEeccCCCcccccc---CCCCceEeeccCCccccccccCHHHHhhCHhHHHHHHHhccCccCCcCcccc
Q 007002 397 -STTPEESEIFIVEGDSAGGSAKQG---RDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEA 472 (622)
Q Consensus 397 -~~~~~~~eL~lvEGDSA~gsa~~g---Rdr~~qai~PLrGKilNv~ka~~~ki~~n~Ei~~li~~lG~~~~~~~~~~~~ 472 (622)
.+.+..|+|+++|||||+..|..| .+|++++|||||||+|||++++.+++++|+||++|+.+||++....+|+.++
T Consensus 418 g~k~s~kctlIltEgdsaksLavsGl~vvgRd~~gVfplrgklLNv~e~s~kqilkn~EI~aIikIlgl~~~~~y~~~es 497 (842)
T KOG0355|consen 418 GTKTSEKCTLILTEGDSAKSLAVSGLSVVGRDYYGVFPLRGKLLNVREASHKQILKNAEINAIIKILGLQYKKKYFDVES 497 (842)
T ss_pred cccccccceeEEeccccchhheecccccccceeEeecccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccc
Confidence 458889999999999998655544 5788999999999999999999999999999999999999999888999999
Q ss_pred ccceeEEEeecCCcCCcchhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHHhCCCCCccce
Q 007002 473 LRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSI 552 (622)
Q Consensus 473 LRY~kiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~gk~~~~~~~~~e~~~~~~~~~~~~~~~i 552 (622)
|||||+|||||||+|||||+||||||||+|||+|++.+||+.|.|||+|+++|++..+|||++||++|++..+.+++|.|
T Consensus 498 lryg~~mimtDQd~dgshikgllInf~~~~~psl~~~~fleefitpi~k~~~~~~~~~fys~pey~kw~~~~~~~~~~~i 577 (842)
T KOG0355|consen 498 LRYGKLMIMTDQDHDGSHIKGLLINFIHHFWPSLLQIPFLEEFITPIVKATKGKQEVSFYSLPEYEKWKKNTDNWKSWKI 577 (842)
T ss_pred cchhheEeeeccccccchHHHHHHHHHHHhhHHhhcCCcceecCCcceEeccCCcceeeeccHHHHHHHhcCccccccce
Confidence 99999999999999999999999999999999999999999999999999999999999999999999998877778999
Q ss_pred eEeecccCCCcchhhhhccCCcceeEEeecc--ccHHHHHHHHHHhcCCCchHHHHHHHhccc
Q 007002 553 QRFKGLGEMMPVQLWETTLNPEQRMLKQLVI--EDAAEANVVFSSLMGARVDTRKELIQNAAN 613 (622)
Q Consensus 553 ~~~KGLG~~~~~~~~~~~~~~~~~~~~~~~~--~d~~~~~~~~~~lmg~~~~~Rk~~i~~~~~ 613 (622)
|||||||||+++|+||||+|+++|++..... .|.+.++++|. .++.++||+||.++.+
T Consensus 578 kyykglgts~~~e~keyf~~~~~h~~~F~~~~~~d~~~i~~af~---k~k~~~rk~wL~~~~~ 637 (842)
T KOG0355|consen 578 KYYKGLGTSTSKEAKEYFSDLDRHRILFKYDGGIDDEAIDMAFS---KKKIDARKEWLRKYMP 637 (842)
T ss_pred EEeecCCcccHHHHHHHhcCcchheEEEeccCcchHHHHhhhcc---cccHHHHHHHHHHHhH
Confidence 9999999999999999999999998765432 34445566666 5779999999999876
No 15
>cd03366 TOPRIM_TopoIIA_GyrB TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. DNA gyrase is more effective at relaxing supercoils than decatentating DNA. DNA gyrase in addition inserts negative supercoils in the presence of ATP. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleava
Probab=100.00 E-value=1.5e-58 Score=404.35 Aligned_cols=114 Identities=72% Similarity=1.144 Sum_probs=112.1
Q ss_pred ceEEEEeccCCCccccccCCCCceEeeccCCccccccccCHHHHhhCHhHHHHHHHhccCccCCcCccccccceeEEEee
Q 007002 403 SEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILT 482 (622)
Q Consensus 403 ~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKilNv~ka~~~ki~~n~Ei~~li~~lG~~~~~~~~~~~~LRY~kiiimt 482 (622)
|||||||||||||||+|||||+||||||||||||||+|++.+|+++|+||++|++||||+++ ++||+++|||+||||||
T Consensus 1 ~eL~lvEGDSAggsak~gRdr~~qailPLrGKiLNv~ka~~~ki~~n~Ei~~li~alG~g~~-~~~~~~~lrY~kiiimt 79 (114)
T cd03366 1 SELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALGTGIG-EDFDLEKLRYHKIIIMT 79 (114)
T ss_pred CEEEEEeCCCCccccccccCcCceEEeccCCccchHhhccHHHHhcChHHHHHHHHhCCCCC-CCCChhhCCcCeEEEEe
Confidence 89999999999999999999999999999999999999999999999999999999999994 78999999999999999
Q ss_pred cCCcCCcchhhhHHHHHHHHHHHhhhcCcEEEecC
Q 007002 483 DADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVP 517 (622)
Q Consensus 483 DaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~t 517 (622)
|||+||+||++|||||||||||+|+++||||+++|
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=1.7e-57 Score=400.00 Aligned_cols=115 Identities=64% Similarity=1.060 Sum_probs=113.1
Q ss_pred ceEEEEeccCCCccccccCCCCceEeeccCCccccccccCHHHHhhCHhHHHHHHHhccCccCCcCccccccceeEEEee
Q 007002 403 SEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILT 482 (622)
Q Consensus 403 ~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKilNv~ka~~~ki~~n~Ei~~li~~lG~~~~~~~~~~~~LRY~kiiimt 482 (622)
|||||||||||||||+|||||+||||||||||||||+|++.+|+++|+||++|++||||+++..++++++|||+||||||
T Consensus 1 ~eL~lvEGDSA~gsak~gR~~~~qailPLrGKiLNv~ka~~~k~~~n~Ei~~l~~alG~~~~~~~~~~~~lrY~kiiimt 80 (115)
T cd01030 1 CELILVEGDSAGGSAKQGRDRVFQAVFPLRGKILNVEKASLKKILKNEEIQNIIKALGLGIGKDDFDLDKLRYGKIIIMT 80 (115)
T ss_pred CEEEEEecCCcchhhhhhcCcccEEEeccCCeeccHhcCCHHHHhcChHHHHHHHHhCCCCCcccCChhhcCcCeEEEEe
Confidence 89999999999999999999999999999999999999999999999999999999999997678999999999999999
Q ss_pred cCCcCCcchhhhHHHHHHHHHHHhhhcCcEEEecC
Q 007002 483 DADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVP 517 (622)
Q Consensus 483 DaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~t 517 (622)
|||+||+||++|||||||||||+|+++||||+|+|
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=2e-54 Score=382.80 Aligned_cols=115 Identities=35% Similarity=0.597 Sum_probs=110.7
Q ss_pred ceEEEEeccCCCccccccC---CCCceEeeccCCccccccccCHHHHhhCHhHHHHHHHhccCccC-CcCccccccceeE
Q 007002 403 SEIFIVEGDSAGGSAKQGR---DRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKG-EDFKKEALRYHKI 478 (622)
Q Consensus 403 ~eL~lvEGDSA~gsa~~gR---dr~~qai~PLrGKilNv~ka~~~ki~~n~Ei~~li~~lG~~~~~-~~~~~~~LRY~ki 478 (622)
||||||||||||||||||| ||+||||||||||||||+|++.+|+++|+||++|++||||+++. +++|+++|||+||
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 EEeecCCcCCcchhhhHHHHHHHHHHHhhhc-CcEEEecC
Q 007002 479 IILTDADVDGAHIRTLLLTFFYRYQKTLFDE-GCIYVGVP 517 (622)
Q Consensus 479 iimtDaD~DG~HI~~Llltff~~~~p~Li~~-g~v~~~~t 517 (622)
|||||||+||+||++|||||||||||+||++ |||+.|.|
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 99998875
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=4.6e-41 Score=323.28 Aligned_cols=170 Identities=48% Similarity=0.851 Sum_probs=161.6
Q ss_pred CcHHHHHHHHhcCCCCCC-CeeEEEeecceeEEEEEEEEcCCCCCceeeeeeCceeccCCCcchHHHHHHHHHHHHHHHh
Q 007002 205 GGLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGK 283 (622)
Q Consensus 205 ~Gl~~yv~~l~~~~~~l~-~~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~k 283 (622)
+||.+||++++.++++++ +++++.++.+++.|||||+|+ ++|+++++||||+|+|++||||++||+++|+++|++|++
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 599999999999988886 688888877789999999999 688899999999999999999999999999999999999
Q ss_pred hccCCCCCCCCCCHHhHhcccEEEEEEeecCCCCCCccccccCCchhhhhhhhhhHHHHHHHHhhChHHHHHHHHHHHHH
Q 007002 284 KSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSA 363 (622)
Q Consensus 284 k~~~~k~~~~~l~~~diregl~~~vs~~i~nP~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~~ 363 (622)
+.+++|+++.+++++||+++|+++|+|+++||+|+||||++|+|++++.+|++++.+.|..||++||+.++.|+++++.+
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 99888766678999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHH
Q 007002 364 LKAALAAKRARD 375 (622)
Q Consensus 364 ~~ar~aakkar~ 375 (622)
+++|++++++|+
T Consensus 160 ~~aR~aa~~ar~ 171 (172)
T cd00822 160 AKAREAARKARE 171 (172)
T ss_pred HHHHHHHHHhhc
Confidence 999999999886
No 19
>PF00204 DNA_gyraseB: DNA gyrase B; InterPro: IPR013506 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. Type IIA topoisomerases together manage chromosome integrity and topology in cells. Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively; this topoisomerase II forms a homodimer that is equivalent to the bacterial heterotetramer. There are four functional domains in topoisomerase II: domain 1 (N-terminal of gyrB) is an ATPase, domain 2 (C-terminal of gyrB) is responsible for subunit interactions, domain 3 (N-terminal of gyrA) is responsible for the breaking-rejoining function through its capacity to form protein-DNA bridges, and domain 4 (C-terminal of gyrA) is able to non-specifically bind DNA []. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication []. Topoisomerase IV consists of two polypeptide subunits, parE and parC, where parC is homologous to gyrA and parE is homologous to gyrB. This entry represents the second domain found in subunit B (gyrB and parE) of bacterial gyrase and topoisomerase IV, and the equivalent N-terminal region in eukaryotic topoisomerase II composed of a single polypeptide. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 3LPS_A 3LNU_A 1KIJ_B 1EI1_B 1S16_B 1QZR_B 1PVG_A 3CWV_B 1ZXN_A 1ZXM_B ....
Probab=100.00 E-value=5.3e-40 Score=317.13 Aligned_cols=169 Identities=43% Similarity=0.810 Sum_probs=152.6
Q ss_pred cHHHHHHHHhcCCCCCC-CeeEEEeec--ce-eEEEEEEEEcCCCCCceeeeeeCceeccCCCcchHHHHHHHHHHHHHH
Q 007002 206 GLEEYVQWLNTDKKPLH-DVVGFRKDV--DG-ITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSL 281 (622)
Q Consensus 206 Gl~~yv~~l~~~~~~l~-~~i~~~~~~--~~-i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~ 281 (622)
||.||+++++.++++++ +++++..+. ++ +.|+||++|+ +++.+.++||||+|+|++|||||+||+++|+++|++|
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 79999999999888887 478888765 54 9999999999 6677799999999999999999999999999999999
Q ss_pred HhhccCCCCCCCCCCHHhHhcccEEEEEEeecCCCCCCccccccCCchhhhhhhhhhHHHHHHHHhhChHHHHHHHHHHH
Q 007002 282 GKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSL 361 (622)
Q Consensus 282 ~kk~~~~k~~~~~l~~~diregl~~~vs~~i~nP~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~ 361 (622)
+++++++|++. +++++||++||++||+|+|+||+|+||||++|+|++++..|..++.+.|..||++||++++.|+++++
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 89999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHH
Q 007002 362 SALKAALAAKRARDL 376 (622)
Q Consensus 362 ~~~~ar~aakkar~~ 376 (622)
.++++|+++|+|||.
T Consensus 159 ~~~~~r~~ak~are~ 173 (173)
T PF00204_consen 159 QAAKAREAAKKARET 173 (173)
T ss_dssp HHHHHHHHHHHHHCT
T ss_pred HHHHHHHHHHHhcCC
Confidence 999999999999863
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=9.5e-31 Score=245.77 Aligned_cols=146 Identities=22% Similarity=0.276 Sum_probs=116.9
Q ss_pred cHHHHHHHHhcCCCCC---CCeeEEEeecceeEEEEEEEEcCCCCCceeeeeeCceeccCCCcchHHHHHHHHHHHHHHH
Q 007002 206 GLEEYVQWLNTDKKPL---HDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLG 282 (622)
Q Consensus 206 Gl~~yv~~l~~~~~~l---~~~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~ 282 (622)
+|++|++++.....+. ++++.+ +..+-+||||++|++ + +++++||||+|+|++|||||+||+++|+++|++|+
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 6899999996432110 123322 222347999999994 4 68899999999999999999999999999999999
Q ss_pred hhccCCCCCCCCCCHHhHhcccEEEEEEeecCCCCCCccccccCCchhhhhhhhhhHHHHHHHHhhChHHHHHHHHHHHH
Q 007002 283 KKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLS 362 (622)
Q Consensus 283 kk~~~~k~~~~~l~~~diregl~~~vs~~i~nP~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~np~~~~~I~~k~~~ 362 (622)
++++ | ++.+++++|||+||++||+|+++||+|+||||++|+|++........+.+.|.+|+.++ .|+++++.
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 8865 2 24589999999999999999999999999999999998855555558899999999876 55555543
Q ss_pred H
Q 007002 363 A 363 (622)
Q Consensus 363 ~ 363 (622)
+
T Consensus 150 ~ 150 (153)
T cd03481 150 W 150 (153)
T ss_pred H
Confidence 3
No 21
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=99.93 E-value=1.8e-24 Score=246.52 Aligned_cols=260 Identities=18% Similarity=0.238 Sum_probs=193.4
Q ss_pred CchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCC
Q 007002 8 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLADN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 85 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~ 85 (622)
...+..+|+|+|+||+|+ | |+.|.|.++.+| +|+|.|||+|||.+. ++.+++ .|++||+...++.
T Consensus 20 I~~~~svvkElveNsiDA---g-at~I~v~i~~~g~~~i~V~DnG~Gi~~~~--------~~~~~~-~~~tsKi~~~~dl 86 (617)
T PRK00095 20 VERPASVVKELVENALDA---G-ATRIDIEIEEGGLKLIRVRDNGCGISKED--------LALALA-RHATSKIASLDDL 86 (617)
T ss_pred ccCHHHHHHHHHHHHHhC---C-CCEEEEEEEeCCeEEEEEEEcCCCCCHHH--------HHHHhh-ccCCCCCCChhHh
Confidence 467899999999999995 6 999999998778 799999999999986 445666 6999999764335
Q ss_pred ee-eccccccccceeeeeecCeEEEEEEeC--CEEEEEEEecCcccccceeeccCCCCCCCCCeEEEEE------eCccc
Q 007002 86 YS-VSGGLHGVGLSVVNALSESLEVTVWRD--GMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFW------PDKQV 156 (622)
Q Consensus 86 ~k-~sgG~~GvG~s~vNalS~~~~V~v~r~--g~~~~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~------PD~~i 156 (622)
+. .|.|++|+|+++++++| +++|+|+++ +..|.+.|++|..... . +...++||+|+++ |++.+
T Consensus 87 ~~~~t~GfrGeAL~sI~~vs-~l~i~s~~~~~~~~~~~~~~~G~~~~~-~------~~~~~~GT~V~v~~LF~n~P~Rrk 158 (617)
T PRK00095 87 EAIRTLGFRGEALPSIASVS-RLTLTSRTADAAEGWQIVYEGGEIVEV-K------PAAHPVGTTIEVRDLFFNTPARRK 158 (617)
T ss_pred hccccCCcchhHHHhhhhce-EEEEEEecCCCCceEEEEecCCcCcce-e------cccCCCCCEEEechhhccCcHHHH
Confidence 54 78999999999999999 799999886 5789999999976421 1 2234699999996 99999
Q ss_pred ccccccCCHHHHHHHHHHHhccCCCcEEEEeecCCCCCCCceeEEEeC--CcHHHHHHHHhcCCCCCCCeeEEEeeccee
Q 007002 157 FTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFA--GGLEEYVQWLNTDKKPLHDVVGFRKDVDGI 234 (622)
Q Consensus 157 F~~~~~~~~~~i~~rl~elA~lnpgl~I~l~d~r~~~~~~~~~~f~~~--~Gl~~yv~~l~~~~~~l~~~i~~~~~~~~i 234 (622)
|..+...++..|.++++++|+++|+++|.|.++. ...|+++ +++.+++..+.+.. .....+.+..+.+++
T Consensus 159 flk~~~~e~~~i~~~v~~~Al~~p~i~f~l~~~~-------~~~~~~~~~~~~~~~i~~i~g~~-~~~~l~~~~~~~~~~ 230 (617)
T PRK00095 159 FLKSEKTELGHIDDVVNRLALAHPDVAFTLTHNG-------KLVLQTRGAGQLLQRLAAILGRE-FAENALPIDAEHGDL 230 (617)
T ss_pred hccCcHHHHHHHHHHHHHHhhcCCCcEEEEEECC-------EEEEEeCCCCCHHHHHHHHhCHH-hHhheEEEeccCCCE
Confidence 9644456788999999999999999999999864 3567776 46888888876532 222344555555667
Q ss_pred EEE--EEE-EEcCCCCCceeeeeeCceeccCCCcchHHHHHHHHHHHHHHHhhccCCCCCCCCCCHHhHhcccEEEEEEe
Q 007002 235 TID--LAL-QWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVR 311 (622)
Q Consensus 235 ~ve--val-~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~~~~~l~~~diregl~~~vs~~ 311 (622)
.++ ++. .++ .+....++.|||+.++.. ..|.++|++..+.... + ...=.+++++.
T Consensus 231 ~i~g~is~p~~~-~~~~~~~~~fvN~R~v~~---------~~l~~ai~~~y~~~~~-~-----------~~~P~~~l~i~ 288 (617)
T PRK00095 231 RLSGYVGLPTLS-RANRDYQYLFVNGRYVRD---------KLLNHAIRQAYHDLLP-R-----------GRYPAFVLFLE 288 (617)
T ss_pred EEEEEEeCcccc-cCCCcceEEEECCcEecC---------HHHHHHHHHHHHHhcc-C-----------CCCcEEEEEEE
Confidence 777 444 344 345567899999999874 3455555543332110 1 11237778888
Q ss_pred ecCCCCC
Q 007002 312 VPNPEFE 318 (622)
Q Consensus 312 i~nP~Fe 318 (622)
++.-.+|
T Consensus 289 ~~~~~~D 295 (617)
T PRK00095 289 LDPHQVD 295 (617)
T ss_pred eChHhcc
Confidence 8755454
No 22
>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=99.91 E-value=7.6e-25 Score=173.20 Aligned_cols=63 Identities=56% Similarity=0.893 Sum_probs=59.9
Q ss_pred CCccceeEeecccCCCcchhhhhccCCcceeEEeeccccHHHHHHHHHHhcCCCchHHHHHHH
Q 007002 547 NALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQ 609 (622)
Q Consensus 547 ~~~~~i~~~KGLG~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~lmg~~~~~Rk~~i~ 609 (622)
.++++|+||||||||+|+|||||||||++|+|.+|+++|+.+++++|+.|||+++++||+||+
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 357999999999999999999999999999999999999999999999999999999999995
No 23
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=99.86 E-value=3.5e-22 Score=218.13 Aligned_cols=260 Identities=23% Similarity=0.312 Sum_probs=190.3
Q ss_pred CCchhhHHHHHHHHhHHHhhh-cCCCCeEEEEEeC-C-C--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCC
Q 007002 7 GPRGLHHLVYEILDNAVDEAQ-AGYASNIEVALLA-D-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGG 81 (622)
Q Consensus 7 ~~~gL~~lv~EildNaiDe~~-~g~~~~I~V~l~~-~-g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~ 81 (622)
..++|.++++|+|+||+|++. .|..+.|.|.+.. + + .|+|.|||+|||.+..+ .+|..+|+|+||..
T Consensus 25 ~~~~L~~VlkELVeNAIDA~~~~g~~p~I~V~i~~~g~~~~~I~V~DNG~GIp~edl~--------~iF~rf~~tsK~~~ 96 (488)
T TIGR01052 25 KIRSLTTVIHELVTNSLDACEEAGILPDIKVEIEKIGKDHYKVTVEDNGPGIPEEYIP--------KVFGKMLAGSKFHR 96 (488)
T ss_pred CHHHHHHHHHHHHHHHHHHhhccCCCceEEEEEEECCCceEEEEEEECCCCCCHHHHH--------hhhhhccccCcccc
Confidence 357999999999999999985 3556789998874 2 2 69999999999998753 48999999999974
Q ss_pred CCCCeeeccccccccceeeeeecCe-----EEEEEEeCCEE--EEEEEe------cCcccccceeeccCCCCCCCCCeEE
Q 007002 82 SSSGYSVSGGLHGVGLSVVNALSES-----LEVTVWRDGME--YHQKYS------RGKPVTTLTCHVLPVDSKDRQGTRI 148 (622)
Q Consensus 82 ~~~~~k~sgG~~GvG~s~vNalS~~-----~~V~v~r~g~~--~~q~f~------~G~~~~~~~~~~~~~~~~~~~GT~V 148 (622)
. ..+.|++|+|+++++++|+. ++|+++++|.. |++++. .|......+ + +...++||+|
T Consensus 97 ~----~~s~G~~GlGLs~~~~isq~~~G~~i~V~S~~~g~~~~~~~~~~id~~~n~G~i~~~~~-~----~~~~~~GT~V 167 (488)
T TIGR01052 97 I----IQSRGQQGIGISGAVLYSQMTTGKPVKVISSTGGEIYVYKMKLKIDVQKNEGEIVEKGE-W----NKPGWRGTRI 167 (488)
T ss_pred c----cccCCCccEehhHHHHHHHHcCCceEEEEEecCCceEEEEEEEEecccccCCeecceee-c----CCCCCCceEE
Confidence 3 67889999999999999985 78999887754 577774 454443321 1 2233689999
Q ss_pred EEEeCcccccccccCCHHHHHHHHHHHhccCCCcEEEEeecCCCCCCCceeEEEeCCcHHHHHHHHhcCCCCCC-CeeEE
Q 007002 149 RFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH-DVVGF 227 (622)
Q Consensus 149 ~F~PD~~iF~~~~~~~~~~i~~rl~elA~lnpgl~I~l~d~r~~~~~~~~~~f~~~~Gl~~yv~~l~~~~~~l~-~~i~~ 227 (622)
++.|+.... .+....+.++|+++|++||+++|+|.++.. +.+.|++- .+.++ +|..+
T Consensus 168 ~v~f~~~~~----r~~k~~i~e~l~~~Al~nP~~~i~l~~~~~-------~~~~f~R~-----------~~~~P~~p~e~ 225 (488)
T TIGR01052 168 ELEFKGVSY----RRSKQGVYEYLRRTAVANPHAKIVLVDPDG-------EIYVFPRS-----------TDEIPKPPKEM 225 (488)
T ss_pred EEEECCcee----eccHHHHHHHHHHHHhhCCCeEEEEEeCCC-------CEEEeecc-----------cccCCCCCccC
Confidence 998554331 124589999999999999999999999753 34677662 22344 46778
Q ss_pred EeecceeEEEEEEEEcCCCCCceeeeeeCceeccCCCcchHHHHHHHHHHHHHHHhhccCC----CCCCCCCCHHhHhcc
Q 007002 228 RKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTV----KDKDISLSGEHVREG 303 (622)
Q Consensus 228 ~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~----k~~~~~l~~~direg 303 (622)
.+++.|++++.-++....+-..++.+|..+-++.-|..+ +.++++..++. .+...+|+.+++..-
T Consensus 226 kpHP~gv~~~~l~~m~~~t~~~~l~~fL~~~f~~v~~~~-----------a~~~~~~~g~~~~~~~~~~~~l~~~~~~~l 294 (488)
T TIGR01052 226 KPHPHGVTIDDLKSMARSTRASTLRSFLVSEFSRIGEKK-----------IKELLEKYGIDVDPLDKKPKELTWDEAEKI 294 (488)
T ss_pred CCCCCccCHHHHHHHHHhcCcccHHHHHHHhhcccCHHH-----------HHHHHHHhCCCccccCCChhhCCHHHHHHH
Confidence 888898877644433322233568999999999888443 33444444433 334567888998888
Q ss_pred cEEEEEEeecCCC
Q 007002 304 LTCIISVRVPNPE 316 (622)
Q Consensus 304 l~~~vs~~i~nP~ 316 (622)
+-++-++++..|.
T Consensus 295 ~~~~~~~~~~~P~ 307 (488)
T TIGR01052 295 VNAFKEMKFMAPP 307 (488)
T ss_pred HHHHHhcCCCCCC
Confidence 8888777777775
No 24
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=99.86 E-value=7.9e-23 Score=214.45 Aligned_cols=261 Identities=22% Similarity=0.283 Sum_probs=179.0
Q ss_pred CchhhHHHHHHHHhHHHhh-hcCCCCeEEEEEeCCC----eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCC
Q 007002 8 PRGLHHLVYEILDNAVDEA-QAGYASNIEVALLADN----SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGS 82 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~-~~g~~~~I~V~l~~~g----~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~ 82 (622)
.++|++.|+|+|+||+|+| .+|..+.|.|+|+.-| .|.|+|||+|||.+..|+ ||+++++||||+-
T Consensus 34 ~RsL~~tv~ElV~NSLDA~eeaGILPdI~v~I~~~~~d~y~v~veDNGpGIP~e~IPk--------vFGk~LygSKfh~- 104 (538)
T COG1389 34 IRSLTTTVHELVTNSLDACEEAGILPDIKVEIERIGKDHYKVIVEDNGPGIPEEQIPK--------VFGKMLYGSKFHR- 104 (538)
T ss_pred hhHHHHHHHHHHhcchhhHHhcCCCCceEEEEEecCCceEEEEEecCCCCCChhHhHH--------HHHHHhccchhhh-
Confidence 6899999999999999999 5899999999999644 699999999999998775 8999999999973
Q ss_pred CCCeeeccccccccceeeeeecCeE-----EEEEEeC--CEEEEEEEe----cCcccccceeeccCCCCCCCCCeEEEEE
Q 007002 83 SSGYSVSGGLHGVGLSVVNALSESL-----EVTVWRD--GMEYHQKYS----RGKPVTTLTCHVLPVDSKDRQGTRIRFW 151 (622)
Q Consensus 83 ~~~~k~sgG~~GvG~s~vNalS~~~-----~V~v~r~--g~~~~q~f~----~G~~~~~~~~~~~~~~~~~~~GT~V~F~ 151 (622)
.++|.|+.|+|+|.+..+|+.. .|.+... +..|..+.. .|.|..-.. .. ......+|||+|+..
T Consensus 105 ---~~QsRGqqGiGis~avLysQmTtGkPv~V~s~T~~s~~~~~~~l~id~~kNEp~Iv~r-~~-~~~~~~~hGT~Vel~ 179 (538)
T COG1389 105 ---NIQSRGQQGIGISAAVLYSQMTTGKPVRVISSTGDSGTAYEYELKIDVQKNEPEIVER-GE-VENPGGWHGTRVELE 179 (538)
T ss_pred ---hhhccccccccHHHHHHHHHhcCCCceEEEecCCCCcceEEEEEEecCCCCcchhhhc-cc-ccCCCCCCceEEEEE
Confidence 4999999999999999999875 4666554 455555553 355532111 00 013456799999997
Q ss_pred eCcccccccccCCHHH-HHHHHHHHhccCCCcEEEEeecCCCCCCCceeEEEeCCcHHHHHHHHhcCCCCCC-CeeEEEe
Q 007002 152 PDKQVFTTAIQFDHNT-IAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH-DVVGFRK 229 (622)
Q Consensus 152 PD~~iF~~~~~~~~~~-i~~rl~elA~lnpgl~I~l~d~r~~~~~~~~~~f~~~~Gl~~yv~~l~~~~~~l~-~~i~~~~ 229 (622)
|..++--.... +.++|+++|..||+.+|.|.|+.+ +.+.|++- .+.++ +|..+.+
T Consensus 180 -----~~~~~~~~~~qgi~eYlkrtaiinPhA~I~l~dPdG-------~~~vf~r~-----------t~~lP~pP~E~kP 236 (538)
T COG1389 180 -----LKGVWYRAKRQGIYEYLKRTAIINPHARIVLKDPDG-------NLVVFPRS-----------TDKLPKPPKEIKP 236 (538)
T ss_pred -----ecccchhhcccCHHHHHHHHhhcCCceEEEEECCCC-------cEEEeccc-----------hhhCCCCccccCC
Confidence 54332112233 899999999999999999999875 34555542 22344 4677778
Q ss_pred ecceeEEEEEEEEcCCCCCceeeeeeCceeccCCCcchHHHHHHHHHHHHHHHhhccCCCCC-CCCCC----HHhHhccc
Q 007002 230 DVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDK-DISLS----GEHVREGL 304 (622)
Q Consensus 230 ~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~~-~~~l~----~~diregl 304 (622)
++.|+.++-.++....+...++.+|.-+-++.-| .+.+.++++..++...+ ...|+ +++...-+
T Consensus 237 HP~gvd~~~L~~M~~~T~~~tv~~fL~sef~rig-----------~~ta~e~~e~~g~~~~~~p~~L~~~~~~eea~~lv 305 (538)
T COG1389 237 HPHGVDLDTLKKMAHRTRRSTVREFLVSEFSRIG-----------EKTADELLEYAGFDPDKKPRELTKKKTREEAEKLV 305 (538)
T ss_pred CCccccHHHHHHHHHHhhhhhHHHHHHHHHHHhh-----------hhhHHHHHHHhcCCcccCHHHhhcccCHHHHHHHH
Confidence 8888776633322212223456777777666666 55666777776653321 12233 44444444
Q ss_pred EEEEEEeecCCC
Q 007002 305 TCIISVRVPNPE 316 (622)
Q Consensus 305 ~~~vs~~i~nP~ 316 (622)
-+|-++++..|.
T Consensus 306 ~a~~~~~fm~Pp 317 (538)
T COG1389 306 EAFKKMKFMAPP 317 (538)
T ss_pred HHHHhCcccCCC
Confidence 444444444443
No 25
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=99.79 E-value=1.9e-19 Score=198.80 Aligned_cols=260 Identities=21% Similarity=0.305 Sum_probs=188.7
Q ss_pred CchhhHHHHHHHHhHHHhhh-cCCCCeEEEEEeC----CC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCC
Q 007002 8 PRGLHHLVYEILDNAVDEAQ-AGYASNIEVALLA----DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFG 80 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~~-~g~~~~I~V~l~~----~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~ 80 (622)
.++|.+++.|+|+||+|++. .|....|.|.+.. ++ .|+|+|||+|||.+.. +.+|+.+++++||.
T Consensus 34 ~~~L~qVLkNLIeNAIDa~~~~gilp~I~I~I~~~~~~~~~~~I~V~DNG~GIp~e~l--------~~iF~~f~~~SK~~ 105 (535)
T PRK04184 34 ARALYTTVKELVDNSLDACEEAGILPDIKIEIKRVDEGKDHYRVTVEDNGPGIPPEEI--------PKVFGKLLYGSKFH 105 (535)
T ss_pred HHHHHHHHHHHHHHHHHHhhhcCCCceEEEEEEEccCCCcEEEEEEEcCCCCCCHHHH--------HHHhhhhhcccccc
Confidence 48899999999999999985 3556688888873 22 5999999999998864 45899888999986
Q ss_pred CCCCCeeeccccccccceeeeeecCe-----EEEEEEeCC-E-EEEEEEe----cCcccccceeeccCCCCCCCCCeEEE
Q 007002 81 GSSSGYSVSGGLHGVGLSVVNALSES-----LEVTVWRDG-M-EYHQKYS----RGKPVTTLTCHVLPVDSKDRQGTRIR 149 (622)
Q Consensus 81 ~~~~~~k~sgG~~GvG~s~vNalS~~-----~~V~v~r~g-~-~~~q~f~----~G~~~~~~~~~~~~~~~~~~~GT~V~ 149 (622)
.. ..+.|.+|+|+++++.+|+. ++|++..++ . .|++++. ++.+...... ......++||+|+
T Consensus 106 ~~----~~s~G~~GLGLsiv~~isq~~~G~~I~V~S~~~~g~~~~~~~l~id~~kn~g~i~~~~---~~~~~~~~GT~V~ 178 (535)
T PRK04184 106 NL----RQSRGQQGIGISAAVLYAQMTTGKPVRVISSTGGSKKAYYFELKIDTKKNEPIILERE---EVDWDRWHGTRVE 178 (535)
T ss_pred cc----ccCCCCCCcchHHHHHHHHHhcCCcEEEEEecCCCceEEEEEEEecccccCCeecccc---ccCCCCCCCEEEE
Confidence 42 45778999999999999975 577777654 3 6788874 2223211000 0023557999999
Q ss_pred EEeCcccccccccCCHHHHHHHHHHHhccCCCcEEEEeecCCCCCCCceeEEEeCCcHHHHHHHHhcCCCCCC-CeeEEE
Q 007002 150 FWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH-DVVGFR 228 (622)
Q Consensus 150 F~PD~~iF~~~~~~~~~~i~~rl~elA~lnpgl~I~l~d~r~~~~~~~~~~f~~~~Gl~~yv~~l~~~~~~l~-~~i~~~ 228 (622)
+.++...+ .....+.++++++|++||+++|+|.+... +.+.|++- .+.++ +|..+.
T Consensus 179 V~l~~~~~-----~~~~~I~e~i~r~Al~nP~~~~~l~~~~g-------~~~~f~R~-----------~~~~P~~p~e~k 235 (535)
T PRK04184 179 LEIEGDWY-----RAKQRIYEYLKRTAIVNPHARITFKDPDG-------EILVFPRA-----------TDKLPKPPKEIK 235 (535)
T ss_pred EEECCcCh-----hhHHHHHHHHHHHHHhCCCeEEEEEeCCC-------eEEEEecc-----------cccCCCCCccCC
Confidence 99655444 23688999999999999999999998653 34667662 22344 467788
Q ss_pred eecceeEEEEEEEEcCCCCCceeeeeeCceeccCCCcchHHHHHHHHHHHHHHHhhccCC-CCCCCCCCHHhHhcccEEE
Q 007002 229 KDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTV-KDKDISLSGEHVREGLTCI 307 (622)
Q Consensus 229 ~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~-k~~~~~l~~~diregl~~~ 307 (622)
+|+.|++++.-++....+-..++.+|..+-++.-| .+.+.++++..++. .+...+|+.+++..-+-++
T Consensus 236 pHP~gv~~~~l~~m~~~t~~~~l~~fL~~~f~~v~-----------~~~a~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~ 304 (535)
T PRK04184 236 PHPHGVDLGTLKRMAARTKRRTLKEFLVEEFSRVG-----------DKTADEILEKAGLDPNKKPKELTREELERLVEAF 304 (535)
T ss_pred CCCCccCHHHHHHHHHhcccCCHHHHHHHhhcccC-----------HHHHHHHHHHcCCCCCCChhhCCHHHHHHHHHHH
Confidence 88898877644444322334578999999999998 34445666666663 2345679999999999888
Q ss_pred EEEeecCCC
Q 007002 308 ISVRVPNPE 316 (622)
Q Consensus 308 vs~~i~nP~ 316 (622)
-.+++..|.
T Consensus 305 ~~~~~~~pp 313 (535)
T PRK04184 305 KKYKFMAPP 313 (535)
T ss_pred HhccCcCCC
Confidence 888877775
No 26
>TIGR00585 mutl DNA mismatch repair protein MutL. All proteins in this family for which the functions are known are involved in the process of generalized mismatch repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.73 E-value=3.3e-16 Score=165.27 Aligned_cols=261 Identities=15% Similarity=0.225 Sum_probs=171.3
Q ss_pred CchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCC-CC
Q 007002 8 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLADN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGS-SS 84 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~-~~ 84 (622)
...+.+++.|+|+||+|+ | ++.|.|.+..+| .|+|.|||.|||.+. ++.++. .++++|+... +.
T Consensus 20 i~~~~~~l~eLi~Na~dA---~-a~~I~i~~~~~~~~~i~V~DnG~Gi~~~~--------l~~~~~-~~~tsk~~~~~~~ 86 (312)
T TIGR00585 20 IERPASVVKELVENSLDA---G-ATRIDVEIEEGGLKLIEVSDNGSGIDKED--------LPLACE-RHATSKIQSFEDL 86 (312)
T ss_pred hhhHHHHHHHHHHHHHHC---C-CCEEEEEEEeCCEEEEEEEecCCCCCHHH--------HHHHhh-CCCcCCCCChhHh
Confidence 467899999999999997 3 689999998766 599999999999886 344554 4677887542 12
Q ss_pred CeeeccccccccceeeeeecCeEEEEEEe--C-CEEEEEEEecCcccccceeeccCCCCCCCCCeEEEEE------eCcc
Q 007002 85 GYSVSGGLHGVGLSVVNALSESLEVTVWR--D-GMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFW------PDKQ 155 (622)
Q Consensus 85 ~~k~sgG~~GvG~s~vNalS~~~~V~v~r--~-g~~~~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~------PD~~ 155 (622)
....+.|++|+|+++++++| .++|+++. + +..|.+. .+|....+.. +...++||+|++. |++.
T Consensus 87 ~~~~~~G~rG~al~si~~~s-~~~i~S~~~~~~~~~~~~~-~~g~~~~~~~------~~~~~~GTtV~v~~lf~n~p~r~ 158 (312)
T TIGR00585 87 ERIETLGFRGEALASISSVS-RLTITTKTSAADGLAWQAL-LEGGMIEEIK------PAPRPVGTTVEVRDLFYNLPVRR 158 (312)
T ss_pred hcccccCccchHHHHHHhhC-cEEEEEeecCCCcceEEEE-ECCCcCcccc------cccCCCccEEEEchhhccCchhh
Confidence 34678899999999999999 79999975 3 3566666 4555333221 3345799999998 9998
Q ss_pred cccccccCCHHHHHHHHHHHhccCCCcEEEEeecCCCCCCCceeEEEeC----CcHHHH-HHHHhcCCCCCCCeeEEE-e
Q 007002 156 VFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFA----GGLEEY-VQWLNTDKKPLHDVVGFR-K 229 (622)
Q Consensus 156 iF~~~~~~~~~~i~~rl~elA~lnpgl~I~l~d~r~~~~~~~~~~f~~~----~Gl~~y-v~~l~~~~~~l~~~i~~~-~ 229 (622)
.|......+++.+.++++.+|+++|+++|.+.+... ..+.+. ..+.+. +..+-+... ...-+.+. .
T Consensus 159 ~~~~~~~~~~~~i~~~l~~~al~~p~i~f~l~~~~~-------~~~~~~~~~~~~~~~~~i~~v~G~~~-~~~l~~~~~~ 230 (312)
T TIGR00585 159 KFLKSPKKEFRKILDLLNRYALIHPDVSFSLTHDGK-------KVLQLSTKPNQSLKERRIRSVFGTAV-LSKLFPLLEW 230 (312)
T ss_pred hhccCcHHHHHHHHHHHHHHhhcCCCeEEEEEECCE-------EEEEEcCCCCCCHHHHHHHHHhChHh-Hhhceeeecc
Confidence 886444456788999999999999999999998641 223332 246663 554444221 11112222 2
Q ss_pred ecceeEEEEEEEEcC--CCCCce-eeeeeCceeccCCCcchHHHHHHHHHHHHHHHhhccCCCCCCCCCCHHhHhcccEE
Q 007002 230 DVDGITIDLALQWCS--DAYSDT-MLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTC 306 (622)
Q Consensus 230 ~~~~i~veval~~s~--~~~~~~-~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~~~~~l~~~diregl~~ 306 (622)
+..++.++--+.-.. ...... ++-|||+.+-.. ..|.++|++..+.... + ...-.+
T Consensus 231 ~~~~~~v~G~is~p~~~~~~~~~~q~ifvNgR~v~~---------~~l~k~I~~~y~~~~~-~-----------~~~P~~ 289 (312)
T TIGR00585 231 EDGDLQLEGFISEPNVTRSRRSGWQFLFINGRPVEL---------KLLLKAIREVYHEYLP-K-----------GQYPVF 289 (312)
T ss_pred cCCCEEEEEEEcCcccccCCCCcceEEEECCcEecc---------hHHHHHHHHHHHHhcc-C-----------CCCcEE
Confidence 345556653221110 111123 899999988543 3356666654444221 0 113478
Q ss_pred EEEEeecCCCCC
Q 007002 307 IISVRVPNPEFE 318 (622)
Q Consensus 307 ~vs~~i~nP~Fe 318 (622)
++++.+|.-..|
T Consensus 290 vL~i~~p~~~iD 301 (312)
T TIGR00585 290 VLNLEIDPELVD 301 (312)
T ss_pred EEEEEEChHHcc
Confidence 888888755555
No 27
>COG0323 MutL DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]
Probab=99.70 E-value=5.1e-17 Score=184.99 Aligned_cols=257 Identities=18% Similarity=0.245 Sum_probs=170.3
Q ss_pred hhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCC-e
Q 007002 10 GLHHLVYEILDNAVDEAQAGYASNIEVALLADN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG-Y 86 (622)
Q Consensus 10 gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~-~ 86 (622)
.-..+|+|+|+||||+ .+++|.|.++..| .|.|.|||.||+.+. +++++.+ ||+||..+.++. -
T Consensus 23 rPaSVVKELVENSlDA----GAt~I~I~ve~gG~~~I~V~DNG~Gi~~~D--------l~la~~r-HaTSKI~~~~DL~~ 89 (638)
T COG0323 23 RPASVVKELVENSLDA----GATRIDIEVEGGGLKLIRVRDNGSGIDKED--------LPLALLR-HATSKIASLEDLFR 89 (638)
T ss_pred cHHHHHHHHHhccccc----CCCEEEEEEccCCccEEEEEECCCCCCHHH--------HHHHHhh-hccccCCchhHHHH
Confidence 4568999999999999 4999999999877 599999999999987 4556655 999998765433 3
Q ss_pred eeccccccccceeeeeecCeEEEEEEeCC-EE-EEEEEecCcccccceeeccCCCCCCCCCeEEEEE------eCccccc
Q 007002 87 SVSGGLHGVGLSVVNALSESLEVTVWRDG-ME-YHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFW------PDKQVFT 158 (622)
Q Consensus 87 k~sgG~~GvG~s~vNalS~~~~V~v~r~g-~~-~~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~------PD~~iF~ 158 (622)
..|.|++|.+|+++..+| ++++++++.+ .. |+.....|.....+. +...+.||+|+.. |.+.+|.
T Consensus 90 I~TlGFRGEAL~SIasVs-rlti~Srt~~~~~~~~~~~~g~~~~~~~~------p~a~~~GTtVeV~dLF~NtPaRrKfl 162 (638)
T COG0323 90 IRTLGFRGEALASIASVS-RLTITSRTAEASEGTQIYAEGGGMEVTVK------PAAHPVGTTVEVRDLFYNTPARRKFL 162 (638)
T ss_pred hhccCccHHHHHHHHhhh-eeEEEeecCCcCceEEEEecCCccccccc------CCCCCCCCEEEehHhhccChHHHHhh
Confidence 789999999999999999 8999998544 34 555555543322221 3345569999973 8888887
Q ss_pred ccccCCHHHHHHHHHHHhccCCCcEEEEeecCCCCCCCceeEEEe--CCcHHHHHHHHhcCCCCCCCeeEEEeecceeEE
Q 007002 159 TAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFF--AGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITI 236 (622)
Q Consensus 159 ~~~~~~~~~i~~rl~elA~lnpgl~I~l~d~r~~~~~~~~~~f~~--~~Gl~~yv~~l~~~~~~l~~~i~~~~~~~~i~v 236 (622)
.+...++..|.+.++++|..+|.+.|+|...... ..+.... .+....-+..+.+... ....+.+..+..++++
T Consensus 163 ks~~~E~~~i~~vv~r~ALahp~I~F~l~~~gk~----~~~~~~~~~~~~~~~ri~~i~G~~~-~~~~l~i~~~~~~~~l 237 (638)
T COG0323 163 KSEKTEFGHITELINRYALAHPDISFSLSHNGKL----RIELLKLPGTGDLEERIAAVYGTEF-LKNALPIENEHEDLRL 237 (638)
T ss_pred cccHHHHHHHHHHHHHHHhcCCCeEEEEEECCce----eeEEEecCCCCcHHHHHHHHhCHHH-HHhhcccccCCCceEE
Confidence 6656678899999999999999999999886420 0112211 2223334444443211 0112223333344443
Q ss_pred E--EEEE-EcCCCCCceeeeeeCceeccCCCcchHHHHHHHHHHHHH-HHhhccCCCCCCCCCCHHhHhcccEEEEEEee
Q 007002 237 D--LALQ-WCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNS-LGKKSKTVKDKDISLSGEHVREGLTCIISVRV 312 (622)
Q Consensus 237 e--val~-~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~-~~kk~~~~k~~~~~l~~~diregl~~~vs~~i 312 (622)
. ++.. ++ .+-.+.++.|||+.+-.+ ..|.++|++ |...... ...-++|+.+.+
T Consensus 238 ~G~v~~P~~~-r~~~~~q~~fVNgR~V~~---------~~l~~Ai~~aY~~~L~~-------------~r~P~~vL~l~l 294 (638)
T COG0323 238 SGYVSLPEFT-RASRDYQYLFVNGRPVRD---------KLLNHALREAYADYLPR-------------GRYPVFVLFLEL 294 (638)
T ss_pred EEEecccccc-cCCccceEEEECCCEecc---------HHHHHHHHHHHHhhccC-------------CCCcEEEEEEee
Confidence 3 2221 22 344577999999988765 245555544 3222111 123478888888
Q ss_pred cC
Q 007002 313 PN 314 (622)
Q Consensus 313 ~n 314 (622)
+.
T Consensus 295 ~p 296 (638)
T COG0323 295 DP 296 (638)
T ss_pred Ch
Confidence 63
No 28
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=99.59 E-value=3.4e-15 Score=168.20 Aligned_cols=229 Identities=24% Similarity=0.334 Sum_probs=162.4
Q ss_pred CCCCchhhHHHHHHHHhHHHhhhc-CCCCeEEEEEeCCC---eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCC
Q 007002 5 STGPRGLHHLVYEILDNAVDEAQA-GYASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFG 80 (622)
Q Consensus 5 st~~~gL~~lv~EildNaiDe~~~-g~~~~I~V~l~~~g---~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~ 80 (622)
+.+...|.+++.|+|+||+|++.. |....|.|.+...+ .|+|.|||.|||.+. ++.+|..+++++||.
T Consensus 41 D~d~r~L~tVLkNLIeNALDAs~~~gilp~I~V~Ie~~g~~v~I~VeDNG~GIp~Ed--------Lp~IFerf~~tSKf~ 112 (795)
T PRK14868 41 DSGARGLVTAVKEAVDNALDATEEAGILPDIYVEIEEVGDYYRLVVEDNGPGITKEQ--------IPKVFGKLLYGSRFH 112 (795)
T ss_pred cCCHHHHHHHHHHHHHHHHHhCcccCCCceEEEEEEECCCEEEEEEEEcCCCCCHHH--------HHHHhhhhccccccc
Confidence 345678999999999999999743 33347888888544 599999999999886 445899988899997
Q ss_pred CCCCCeeeccccccccceeeeeecCe-----EEEEEEeCC--EE--EEEEEecC--cccc-cceeeccCCCCCCCCCeEE
Q 007002 81 GSSSGYSVSGGLHGVGLSVVNALSES-----LEVTVWRDG--ME--YHQKYSRG--KPVT-TLTCHVLPVDSKDRQGTRI 148 (622)
Q Consensus 81 ~~~~~~k~sgG~~GvG~s~vNalS~~-----~~V~v~r~g--~~--~~q~f~~G--~~~~-~~~~~~~~~~~~~~~GT~V 148 (622)
.. ..+.|++|.|++++-++|+. +.|+++..+ .. |.+....| .|.. ..... ....++||+|
T Consensus 113 ~~----~~srG~rG~GLglai~~sqlt~GgpI~I~S~~~~~~~g~~~~L~Id~gkNep~I~~~~~~----~~~~~~GT~I 184 (795)
T PRK14868 113 AR----EQSRGQQGIGISAAVLYSQLTSGKPAKITSRTQGSEEAQYFELIIDTDTNEPEISVEETT----TWDRPHGTRI 184 (795)
T ss_pred cc----ccCCCCCceehHHHHHHHHHcCCCcEEEEeCCCCCCceeEEEEEEecCCCccceecceec----ccCCCCceEE
Confidence 53 36778999999999999975 578887544 23 35555444 3331 11111 3356799999
Q ss_pred EEEeCcccccccccCCHHHHHHHHHHHhccCCCcEEEEeecCCCCCCCceeEEEeCCcHHHHHHHHhcCCCCCC-CeeEE
Q 007002 149 RFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH-DVVGF 227 (622)
Q Consensus 149 ~F~PD~~iF~~~~~~~~~~i~~rl~elA~lnpgl~I~l~d~r~~~~~~~~~~f~~~~Gl~~yv~~l~~~~~~l~-~~i~~ 227 (622)
+.. +|. +. .....+.++++++|..||+++|.|.+.+ +.+.|+.+- ..++ .+..+
T Consensus 185 eV~----Lf~-N~-pAR~kI~eyl~r~Al~nP~a~f~l~~~~--------~~~~~~r~t-----------~~lp~~p~eI 239 (795)
T PRK14868 185 ELE----MEA-NM-RARQQLHDYIKHTAVVNPHARIELREPD--------ESLKFERAT-----------DQLPAETEEI 239 (795)
T ss_pred EEE----EEc-cC-chhhhHHHHHHHHHhhCCCeEEEEEECC--------EEEEecccc-----------cccccCchhc
Confidence 996 565 33 2245699999999999999999999973 457776641 1233 34566
Q ss_pred EeecceeEEEEEEEEcCCCCCceeeeeeCceeccCCCcchHHHHHHH
Q 007002 228 RKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASL 274 (622)
Q Consensus 228 ~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al 274 (622)
.+|+.|++++-.+.....+...++.+|++.-.+.-|..+.+-+.+.+
T Consensus 240 kPHP~Gve~~~L~~m~~~t~~~~l~gFL~~efsRVg~k~a~~ii~~~ 286 (795)
T PRK14868 240 RPHPHGVELGTLLKMLEATDSYSVSGFLQEEFTRVGKKTADSVIDNF 286 (795)
T ss_pred cCCCCCcCHHHHHHHHhccCCcEeHHhhhhhhccccHHHHHHHHHHH
Confidence 67777766543333222223357999999999999988888776644
No 29
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=99.53 E-value=3.5e-14 Score=159.95 Aligned_cols=161 Identities=24% Similarity=0.303 Sum_probs=118.4
Q ss_pred CchhhHHHHHHHHhHHHhhh-cCCCCeEEEEEeCCC----eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCC
Q 007002 8 PRGLHHLVYEILDNAVDEAQ-AGYASNIEVALLADN----SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGS 82 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~~-~g~~~~I~V~l~~~g----~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~ 82 (622)
..+|++++.|+|+||+|++. .|..+.|.|.+...| .|+|.|||+|||.+.. +.+|..+|+|+||..
T Consensus 34 ~r~L~~VVkELVeNAIDA~~~~g~~p~I~V~I~~~g~~~~~I~V~DNG~GIp~e~l--------~~iFerF~atSK~~~- 104 (659)
T PRK14867 34 LRSMTTIIHELVTNSLDACEEAEILPDIKVEIEKLGSDHYKVAVEDNGPGIPPEFV--------PKVFGKMLAGSKMHR- 104 (659)
T ss_pred HHHHHHHHHHHHHHHHHHhhccCCCceEEEEEEECCCcEEEEEEEeeCeeCCHHHH--------hhhhccccccCcccc-
Confidence 46789999999999999975 355678999998533 3999999999999874 458999999999963
Q ss_pred CCCeeeccccccccceeeeeecCeE-----EEEEEe-CCEEEEEEEec------CcccccceeeccCCCCCCCCCeEEEE
Q 007002 83 SSGYSVSGGLHGVGLSVVNALSESL-----EVTVWR-DGMEYHQKYSR------GKPVTTLTCHVLPVDSKDRQGTRIRF 150 (622)
Q Consensus 83 ~~~~k~sgG~~GvG~s~vNalS~~~-----~V~v~r-~g~~~~q~f~~------G~~~~~~~~~~~~~~~~~~~GT~V~F 150 (622)
+..+.|++|+|++++.++|+.+ .+.++. +|..|.+.+.- |...... . ....++||+|+|
T Consensus 105 ---~~qS~G~rG~GLa~a~~vsql~~G~pI~I~S~~g~G~~f~i~L~i~i~~n~G~I~~~~--~----~~~~~~GT~Ie~ 175 (659)
T PRK14867 105 ---LIQSRGQQGIGAAGVLLFSQITTGKPLKITTSTGDGKIHEMEIKMSVEKNEGDIVSHK--V----REGFWRGTRVEG 175 (659)
T ss_pred ---eeccCCCCcccHHHHHHHHHHhcCCcEEEEEEcCCCEEEEEEEEEEecccCCeecccc--c----CCCCCCCcEEEE
Confidence 4789999999999999999764 666654 45655555432 3322210 0 234578999994
Q ss_pred EeCcccccccccCCHHHHHHHHHHHhccCCCcEEEEeecC
Q 007002 151 WPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKED 190 (622)
Q Consensus 151 ~PD~~iF~~~~~~~~~~i~~rl~elA~lnpgl~I~l~d~r 190 (622)
.-. ..|-.. . ...+.++|+++|+.||++.|.|.++.
T Consensus 176 ~V~-dLFynR--~-E~~i~e~l~r~ALanP~i~f~l~~~~ 211 (659)
T PRK14867 176 EFK-EVTYNR--R-EQGPFEYLRRISLSTPHAKITLKDPE 211 (659)
T ss_pred EEe-eceech--h-hHHHHHHHHHHHHhCCCcEEEEEeCC
Confidence 210 233211 1 22389999999999999999999863
No 30
>KOG1978 consensus DNA mismatch repair protein - MLH2/PMS1/Pms2 family [Replication, recombination and repair]
Probab=99.36 E-value=3.8e-12 Score=140.86 Aligned_cols=237 Identities=18% Similarity=0.221 Sum_probs=157.7
Q ss_pred CchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCC---CCCC
Q 007002 8 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLADN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGK---FGGS 82 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~k---f~~~ 82 (622)
..+|...|+|+|+||+|+ .|+.|.|.++..| +|+|.|||.||.....+ .++.-|+.+| |.|-
T Consensus 18 I~sl~sAVKELvENSiDA----GAT~I~I~~kdyG~d~IEV~DNG~GI~~~n~~---------~l~lkh~TSKi~~f~Dl 84 (672)
T KOG1978|consen 18 ITSLVSAVKELVENSIDA----GATAIDIKVKDYGSDSIEVSDNGSGISATDFE---------GLALKHTTSKIVSFADL 84 (672)
T ss_pred eccHHHHHHHHHhcCccc----CCceeeEecCCCCcceEEEecCCCCCCccchh---------hhhhhhhhhcccchhhh
Confidence 467899999999999999 4999999999877 79999999999987643 2666788887 5555
Q ss_pred CCCeeeccccccccceeeeeecCeEEEEEEe-CCEEEEEEEec-CcccccceeeccCCCCCCCCCeEEEEE------eCc
Q 007002 83 SSGYSVSGGLHGVGLSVVNALSESLEVTVWR-DGMEYHQKYSR-GKPVTTLTCHVLPVDSKDRQGTRIRFW------PDK 154 (622)
Q Consensus 83 ~~~~k~sgG~~GvG~s~vNalS~~~~V~v~r-~g~~~~q~f~~-G~~~~~~~~~~~~~~~~~~~GT~V~F~------PD~ 154 (622)
...+|-|++|.+++..+|+|..+..+... +....+..|.+ |...... +...+.||+|... |-+
T Consensus 85 --~~l~T~GFRGEALSsLCa~~dv~I~Trt~~~~vgt~l~~Dh~G~I~~k~-------~~ar~~GTTV~v~~LF~tLPVR 155 (672)
T KOG1978|consen 85 --AVLFTLGFRGEALSSLCALGDVMISTRSHSAKVGTRLVYDHDGHIIQKK-------PVARGRGTTVMVRQLFSTLPVR 155 (672)
T ss_pred --hhhhhhhhHHHHHHhhhhccceEEEEeeccCccceeEEEccCCceeeec-------cccCCCCCEEEHhhhcccCCCc
Confidence 56899999999999999999755555443 33456677754 4443211 4567899999963 444
Q ss_pred -ccccccccCCHHHHHHHHHHHhccCCCcEEEEeecCCCCCCCceeEEEeCCc---HHHHHHHHhcCCCCC-CCeeEEEe
Q 007002 155 -QVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGG---LEEYVQWLNTDKKPL-HDVVGFRK 229 (622)
Q Consensus 155 -~iF~~~~~~~~~~i~~rl~elA~lnpgl~I~l~d~r~~~~~~~~~~f~~~~G---l~~yv~~l~~~~~~l-~~~i~~~~ 229 (622)
.-|..+.+-+++.+..-++.+|.+++++++.....-... .+......+| .++++....+..... ..|+-+
T Consensus 156 ~kef~r~~Kref~k~i~li~~y~li~~~ir~~~~n~t~~~---~k~iil~t~~~~~~k~~i~svfg~~~~~~l~p~~~-- 230 (672)
T KOG1978|consen 156 RKEFQRNIKRKFVKLISLIQAYALISTAIKFLVSNSTLAG---KKNIILKTGGYGSDKINISSNFGSVEEENLEPLIF-- 230 (672)
T ss_pred hHHhhcchhhhhhhHHhhHHHHHhhcccceeeeeeccccC---CceeEEecCCcchHHHHHHhhhhhhhhhccccccc--
Confidence 556555566788899999999999999999887654321 1233444444 444444332211100 011110
Q ss_pred ecceeEEEEEEEEcCCCCCceeeeeeCceeccCCCcchHHHHHHHHHHHHHHHhhcc
Q 007002 230 DVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSK 286 (622)
Q Consensus 230 ~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~ 286 (622)
-.......+ .+..+.++=|+|..+... ..+.+.+|+..+..+
T Consensus 231 -is~~~~g~~-----r~s~drqf~fIn~Rpv~~---------~~i~~~inevy~~~~ 272 (672)
T KOG1978|consen 231 -ISSCHHGCG-----RSSEDRQFIFINRRPVFP---------SDICRVINEVYKLYN 272 (672)
T ss_pred -ccccccccc-----ccCccceeeeecCccCCH---------HHHHHHHHHHhhhhc
Confidence 000000111 122467899999998754 457888888765543
No 31
>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=99.13 E-value=3.4e-11 Score=105.79 Aligned_cols=96 Identities=22% Similarity=0.329 Sum_probs=84.8
Q ss_pred eEEEEeccCCCccccccCCCCceEeeccCCccccccccCHHH-HhhCHhHHHHHHHhccCccCCcCccccccceeEEEee
Q 007002 404 EIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAA-MYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILT 482 (622)
Q Consensus 404 eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKilNv~ka~~~k-i~~n~Ei~~li~~lG~~~~~~~~~~~~LRY~kiiimt 482 (622)
|||||||+|+.....++.+...+.|+|+.|.++|....+... ..+++.++.|.+.+ .+|+.|||+|
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 699999999998888888877799999999999999987655 77888899998887 4688999999
Q ss_pred cCCcCCcchhhhHHHHHHHHHHHhhhcCcEEE
Q 007002 483 DADVDGAHIRTLLLTFFYRYQKTLFDEGCIYV 514 (622)
Q Consensus 483 DaD~DG~HI~~Llltff~~~~p~Li~~g~v~~ 514 (622)
|+|.+|.||...++.++...+|.+ ..++++
T Consensus 68 D~D~EGe~Ia~~i~~~~~~~~~~~--~~R~~~ 97 (100)
T PF01751_consen 68 DPDREGELIAWEIIELLGKNNPKL--IKRVWF 97 (100)
T ss_dssp -SSHHHHHHHHHHHHHHHHHSHHH--TTEEEE
T ss_pred CCChHHHHHHHHHHHHHhHhCCCc--CCEEEE
Confidence 999999999999999999999999 666665
No 32
>KOG1979 consensus DNA mismatch repair protein - MLH1 family [Replication, recombination and repair]
Probab=99.08 E-value=2.1e-10 Score=124.27 Aligned_cols=153 Identities=24% Similarity=0.372 Sum_probs=119.6
Q ss_pred hHHHHHHHHhHHHhhhcCCCCeEEEEEeCCC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCC---CCCCCCCe
Q 007002 12 HHLVYEILDNAVDEAQAGYASNIEVALLADN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGK---FGGSSSGY 86 (622)
Q Consensus 12 ~~lv~EildNaiDe~~~g~~~~I~V~l~~~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~k---f~~~~~~~ 86 (622)
..+++|+|+||+|+ .++.|.|.+..+| -+-|.|||.||--+..| +++.-+++|| |.|- .-
T Consensus 29 ~NAlKEliENSLDA----~ST~I~V~vk~GGLKLlQisDnG~GI~reDl~---------ilCeRftTSKL~kFEDL--~~ 93 (694)
T KOG1979|consen 29 VNALKELIENSLDA----NSTSIDVLVKDGGLKLLQISDNGSGIRREDLP---------ILCERFTTSKLTKFEDL--FS 93 (694)
T ss_pred HHHHHHHHhccccC----CCceEEEEEecCCeEEEEEecCCCccchhhhH---------HHHHHhhhhhcchhHHH--Hh
Confidence 46789999999999 5999999999877 47888999999988754 5677788887 5554 33
Q ss_pred eeccccccccceeeeeecCeEEEEEEeC-C-EEEEEEEecCcccccceeeccCCCCCCCCCeEEEEEeCcccccc-----
Q 007002 87 SVSGGLHGVGLSVVNALSESLEVTVWRD-G-MEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTT----- 159 (622)
Q Consensus 87 k~sgG~~GvG~s~vNalS~~~~V~v~r~-g-~~~~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~PD~~iF~~----- 159 (622)
..|-|++|.+++++.-.+ +.+|++.+. + ..|+..|.+|....++ ++..++.||.|+.. ..|-.
T Consensus 94 lsTyGFRGEALASiShVA-~VtV~TK~~~~~cayrasY~DGkm~~~p------KpcAgk~GT~I~ve---dLFYN~~~Rr 163 (694)
T KOG1979|consen 94 LSTYGFRGEALASISHVA-HVTVTTKTAEGKCAYRASYRDGKMIATP------KPCAGKQGTIITVE---DLFYNMPTRR 163 (694)
T ss_pred hhhcCccHHHHhhhhhee-EEEEEEeecCceeeeEEEeeccccccCC------CCccCCCceEEEeh---HhhccCHHHH
Confidence 778899999999998888 788888753 4 4699999999886443 25677899999974 33321
Q ss_pred ----cccCCHHHHHHHHHHHhccCCCcEEEEeec
Q 007002 160 ----AIQFDHNTIAGRIRELAFLNPKLTIALRKE 189 (622)
Q Consensus 160 ----~~~~~~~~i~~rl~elA~lnpgl~I~l~d~ 189 (622)
+..=++..|...+..+|.-||++.+.+.-.
T Consensus 164 kal~~~~EE~~ki~dlv~ryAIHn~~VsFs~rk~ 197 (694)
T KOG1979|consen 164 KALRNHAEEYRKIMDLVGRYAIHNPRVSFSLRKQ 197 (694)
T ss_pred HHhcCcHHHHHHHHHHHHHHheeCCCcceEEeec
Confidence 111235678899999999999999999864
No 33
>PRK05218 heat shock protein 90; Provisional
Probab=98.98 E-value=1.3e-07 Score=108.35 Aligned_cols=159 Identities=19% Similarity=0.233 Sum_probs=99.7
Q ss_pred hHHHHHHHHhHHHhhhc--------------CCCCeEEEEEeCCC-eEEEEECCCCccCcccCCCCcchhhhhheeeccC
Q 007002 12 HHLVYEILDNAVDEAQA--------------GYASNIEVALLADN-SVSVADNGRGIPIDLHPATNKSALETVLTVLHAG 76 (622)
Q Consensus 12 ~~lv~EildNaiDe~~~--------------g~~~~I~V~l~~~g-~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag 76 (622)
.-.++|+|.||.|++.+ .....|.|.++.+| .|+|+|||.||+.+.. +..|+++-++
T Consensus 28 ~v~lRELiqNA~DA~~k~r~~~~~~~~~~~~~~~~~I~I~~d~~~~~i~I~DnG~GMt~eel--------~~~l~~ia~S 99 (613)
T PRK05218 28 EIFLRELISNASDAIDKLRFEALTDPALYEGDGDLKIRISFDKEARTLTISDNGIGMTREEV--------IENLGTIAKS 99 (613)
T ss_pred hHHHHHHHhCHHHHHHHHHHHhccCccccCCCCCcEEEEEEcCCCCeEEEEECCCCCCHHHH--------HHHHHhhccc
Confidence 45689999999999741 12347888888654 7999999999998863 3344443223
Q ss_pred C------CCCCCCCCeeeccccccccceeeeeecCeEEEEEEeCC---EEEEEEEecCcccccceeeccCCCCCCCCCeE
Q 007002 77 G------KFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDG---MEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTR 147 (622)
Q Consensus 77 ~------kf~~~~~~~k~sgG~~GvG~s~vNalS~~~~V~v~r~g---~~~~q~f~~G~~~~~~~~~~~~~~~~~~~GT~ 147 (622)
| ++....+.-...-|++|+|.-++=++|.+++|.|++.| ..+..+...|... ..... ....+||+
T Consensus 100 g~~~f~~k~~~~~~~~~~~iG~fGiGf~S~f~va~~v~V~Sr~~~~~~~~~~w~~~g~~~~-~i~~~-----~~~~~GT~ 173 (613)
T PRK05218 100 GTKEFLEKLKGDQKKDSQLIGQFGVGFYSAFMVADKVTVITRSAGPAAEAVRWESDGEGEY-TIEEI-----EKEERGTE 173 (613)
T ss_pred cchhHHHHhhcccccccccccccCcCchhhhhccCEEEEEEcCCCCCCceEEEEEeCCcee-EEeEC-----CCCCCCcE
Confidence 2 22111001134569999999999999999999998755 3455555544332 22211 12368999
Q ss_pred EEEEeCcccccccccCCHHHHHHHHHHHhccCCCcEEEEee
Q 007002 148 IRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRK 188 (622)
Q Consensus 148 V~F~PD~~iF~~~~~~~~~~i~~rl~elA~lnpgl~I~l~d 188 (622)
|+..+.++- ..-++...|.+.++.+|- +.+..|++++
T Consensus 174 I~l~Lk~~~---~e~~e~~~i~~li~kys~-~l~~PI~~~~ 210 (613)
T PRK05218 174 ITLHLKEDE---DEFLDEWRIRSIIKKYSD-FIPVPIKLEK 210 (613)
T ss_pred EEEEECcch---hhhcCHHHHHHHHHHHHh-cCCCCEEEec
Confidence 999744321 111456788888888882 1222355544
No 34
>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=98.85 E-value=4.3e-10 Score=104.59 Aligned_cols=96 Identities=26% Similarity=0.439 Sum_probs=67.1
Q ss_pred hHHHHHHHHhHHHhhhcCCCCeEEEEEeCC----CeEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCCee
Q 007002 12 HHLVYEILDNAVDEAQAGYASNIEVALLAD----NSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYS 87 (622)
Q Consensus 12 ~~lv~EildNaiDe~~~g~~~~I~V~l~~~----g~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~~k 87 (622)
..++.|+|+||+|+. ++.|.|.++.+ ..|.|.|||.|||.+.. +-+| .+..+++... .-.
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----ATNIKISIDEDKKGERYIVIEDNGEGMSREDL--------ESFF-RIGRSSKKSE---KDR 67 (137)
T ss_dssp THHHHHHHHHHHHHH----HHHEEEEEEEETTTTTEEEEEESSS---HHHH--------HHHT-TCHHTHHHHH---HHG
T ss_pred HHHHHHHHHHHHHcc----CCEEEEEEEcCCCCCcEEEEEECCcCCCHHHH--------HHhc-cccCCCCCch---hhh
Confidence 689999999999984 67799999964 48999999999998853 3333 4555555321 124
Q ss_pred eccccccccce-eeeeecCeEEEEEEeCCE--EEEEEEe
Q 007002 88 VSGGLHGVGLS-VVNALSESLEVTVWRDGM--EYHQKYS 123 (622)
Q Consensus 88 ~sgG~~GvG~s-~vNalS~~~~V~v~r~g~--~~~q~f~ 123 (622)
.+-|++|+|++ .+.+++..++|.+...+. .+.+.+.
T Consensus 68 ~~~G~~G~G~k~A~~~~~~~~~v~S~~~~~~~~~~~~~~ 106 (137)
T PF13589_consen 68 QSIGRFGIGLKLAIFSLGDRVEVISKTNGESFTYTIDYD 106 (137)
T ss_dssp GGGGGGTSGCGGGGGGTEEEEEEEEESTTSSSEEEEEEE
T ss_pred hcCCCcceEHHHHHHHhcCEEEEEEEECCCCcEEEEEEe
Confidence 56899999944 566788899999987663 4444443
No 35
>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=98.76 E-value=2.3e-09 Score=95.20 Aligned_cols=87 Identities=31% Similarity=0.556 Sum_probs=66.7
Q ss_pred CCchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCC-C--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCC
Q 007002 7 GPRGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSS 83 (622)
Q Consensus 7 ~~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~-g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~ 83 (622)
++..|++++.|+++||+|++..+ ..|.|.+..+ + .|+|+|||+|||.+. ++.+|..+.++.+ +
T Consensus 2 d~~~l~~il~~ll~Na~~~~~~~--~~I~i~~~~~~~~~~i~i~d~G~gi~~~~--------l~~~~~~~~~~~~-~--- 67 (111)
T PF02518_consen 2 DPDRLRQILSELLDNAIKHSPEG--GKIDITIEEDDDHLSIEISDNGVGIPPEE--------LEKLFEPFFTSDK-S--- 67 (111)
T ss_dssp THHHHHHHHHHHHHHHHHHHHHT--SEEEEEEEEETTEEEEEEEESSSSTTHHH--------HHHHCSTTSHSSS-S---
T ss_pred cHHHHHHHHHHHHHHHHHHhcCC--CEEEEEEEEecCeEEEEEEeccccccccc--------cccchhhcccccc-c---
Confidence 35689999999999999998776 7899998863 3 799999999999875 4556765555544 1
Q ss_pred CCeeeccccccccceeeeeecCeEEEE
Q 007002 84 SGYSVSGGLHGVGLSVVNALSESLEVT 110 (622)
Q Consensus 84 ~~~k~sgG~~GvG~s~vNalS~~~~V~ 110 (622)
. ...+-+|+|+++++.+++.+..+
T Consensus 68 -~--~~~~g~GlGL~~~~~~~~~~~g~ 91 (111)
T PF02518_consen 68 -E--TSISGHGLGLYIVKQIAERHGGE 91 (111)
T ss_dssp -S--GGSSSSSHHHHHHHHHHHHTTEE
T ss_pred -c--cccCCCChHHHHHHHHHHHCCCE
Confidence 1 12233999999999999876554
No 36
>PRK14083 HSP90 family protein; Provisional
Probab=98.74 E-value=1.1e-06 Score=100.18 Aligned_cols=161 Identities=19% Similarity=0.242 Sum_probs=101.3
Q ss_pred hHHHHHHHHhHHHhhhc--C----CCCeEEEEE-eC-CCeEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCC-
Q 007002 12 HHLVYEILDNAVDEAQA--G----YASNIEVAL-LA-DNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGS- 82 (622)
Q Consensus 12 ~~lv~EildNaiDe~~~--g----~~~~I~V~l-~~-~g~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~- 82 (622)
...++|+|.||.|+... . ....|.|++ +. ...++|+|||.||+.+.. +-.|+.+-++++-+..
T Consensus 25 ~iflrELiqNA~DA~~~~~~~~~~~~~~I~I~~~d~~~~~l~I~DnGiGmt~eel--------~~~l~~ig~S~k~~~~~ 96 (601)
T PRK14083 25 RVYVRELLQNAVDAITARRALDPTAPGRIRIELTDAGGGTLIVEDNGIGLTEEEV--------HEFLATIGRSSKRDENL 96 (601)
T ss_pred HHHHHHHHHhHHHHHHhhhccCCCCCceEEEEEccCCCcEEEEEeCCCCCCHHHH--------HHHHhhhccchhhhhhh
Confidence 57789999999999743 1 234789988 54 458999999999998863 2345555566663310
Q ss_pred CCCeeeccccccccceeeeeecCeEEEEEEeCCEEEEEEEec-CcccccceeeccCCCCCCCCCeEEEEEe--Ccccccc
Q 007002 83 SSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSR-GKPVTTLTCHVLPVDSKDRQGTRIRFWP--DKQVFTT 159 (622)
Q Consensus 83 ~~~~k~sgG~~GvG~s~vNalS~~~~V~v~r~g~~~~q~f~~-G~~~~~~~~~~~~~~~~~~~GT~V~F~P--D~~iF~~ 159 (622)
...-...-|..|+|..++=++|+..+|.|+..+......|+. |...-.+... + .....+||+|+..+ |..-|
T Consensus 97 ~~~~~~~IG~FGIGf~S~F~vad~v~V~Tr~~~~~~~~~W~~~~~g~y~i~~~--~-~~~~~~GT~I~L~l~~d~~~~-- 171 (601)
T PRK14083 97 GFARNDFLGQFGIGLLSCFLVADEIVVVSRSAKDGPAVEWRGKADGTYSVRKL--E-TERAEPGTTVYLRPRPDAEEW-- 171 (601)
T ss_pred cccccccccccccceEEEEEecCEEEEEeccCCCCceEEEEECCCCceEEEeC--C-CCCCCCCCEEEEEecCchhhh--
Confidence 001123459999999999999999999997653222334432 2211122111 1 23457999999975 33333
Q ss_pred cccCCHHHHHHHHHHHhccCCCcEEEEeec
Q 007002 160 AIQFDHNTIAGRIRELAFLNPKLTIALRKE 189 (622)
Q Consensus 160 ~~~~~~~~i~~rl~elA~lnpgl~I~l~d~ 189 (622)
++.+.+++-++.++-.- ...|+++++
T Consensus 172 ---~~~~~i~~li~~ys~~i-~~pI~l~~~ 197 (601)
T PRK14083 172 ---LERETVEELAKKYGSLL-PVPIRVEGE 197 (601)
T ss_pred ---ccHHHHHHHHHHHhccC-CCCcccCCc
Confidence 34566666666665432 256666653
No 37
>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=98.73 E-value=2.9e-08 Score=87.21 Aligned_cols=100 Identities=23% Similarity=0.437 Sum_probs=76.7
Q ss_pred HHHHHHHhcCCCCCCCeeEEEeecceeEEEEEEEEcCC--CCCceeeeeeCceeccCCCcchHHHHHHHHHHHHHHHhhc
Q 007002 208 EEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSD--AYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKS 285 (622)
Q Consensus 208 ~~yv~~l~~~~~~l~~~i~~~~~~~~i~veval~~s~~--~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~ 285 (622)
.+++..+.+.+. ....+.+.....++.++.++++... .....+++|||++++..||+|..++.+++.+.++
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 456666655432 2234555555567889999988732 2457799999999998899999999999988775
Q ss_pred cCCCCCCCCCCHHhHhcccEEEEEEeecC--CCCC-Ccccccc
Q 007002 286 KTVKDKDISLSGEHVREGLTCIISVRVPN--PEFE-GQTKTRL 325 (622)
Q Consensus 286 ~~~k~~~~~l~~~diregl~~~vs~~i~n--P~Fe-gQTK~kL 325 (622)
+++......++++++++. |.|. +|||+++
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 38
>COG0326 HtpG Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=98.39 E-value=2.7e-05 Score=87.39 Aligned_cols=128 Identities=23% Similarity=0.359 Sum_probs=83.0
Q ss_pred HHHHHHhHHHhhhc-------C-------CCCeEEEEEeCC-CeEEEEECCCCccCcccCCCCcchhhhhheeec-cCCC
Q 007002 15 VYEILDNAVDEAQA-------G-------YASNIEVALLAD-NSVSVADNGRGIPIDLHPATNKSALETVLTVLH-AGGK 78 (622)
Q Consensus 15 v~EildNaiDe~~~-------g-------~~~~I~V~l~~~-g~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~-ag~k 78 (622)
++|+|.||.|++-+ + .-..|.|..+.+ .+++|.|||.||.-++... . ++++- +|++
T Consensus 32 LRELISNAsDAidKlr~~al~~~~~~~~~~~~~I~i~~Dk~~kTLtI~DNGIGMT~~Ev~~-------~-LgTIAkSgT~ 103 (623)
T COG0326 32 LRELISNASDAIDKLRFEALSDPELGEGDSDLRIRISFDKDNKTLTISDNGIGMTKDEVIE-------N-LGTIAKSGTK 103 (623)
T ss_pred HHHHHhhhHHHHHHHHHHhccCccccCCCCCceEEEEEcccCCEEEEEeCCCCCCHHHHHH-------H-HHHhhhccHH
Confidence 68999999999842 1 135688888865 6899999999999886421 1 22222 2221
Q ss_pred -C----CCCCCCeeeccccccccceeeeeecCeEEEEEEeCC--EEEEEEEe-cCcccccceeeccCCCCCCC-CCeEEE
Q 007002 79 -F----GGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDG--MEYHQKYS-RGKPVTTLTCHVLPVDSKDR-QGTRIR 149 (622)
Q Consensus 79 -f----~~~~~~~k~sgG~~GvG~s~vNalS~~~~V~v~r~g--~~~~q~f~-~G~~~~~~~~~~~~~~~~~~-~GT~V~ 149 (622)
| ..+. .-..--|+.|||.-++=++|++.+|.+++.| ..| .|+ .|...-.+..+ ...+ +||+|+
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 1010 0123359999999999999999999998766 345 564 45554444333 2234 699999
Q ss_pred EE--eCccccc
Q 007002 150 FW--PDKQVFT 158 (622)
Q Consensus 150 F~--PD~~iF~ 158 (622)
.+ ||-.-|.
T Consensus 176 L~Lk~~e~efl 186 (623)
T COG0326 176 LHLKEEEDEFL 186 (623)
T ss_pred EEECCchHHHh
Confidence 86 4444453
No 39
>KOG1977 consensus DNA mismatch repair protein - MLH3 family [Replication, recombination and repair]
Probab=98.36 E-value=1.5e-07 Score=104.01 Aligned_cols=164 Identities=21% Similarity=0.316 Sum_probs=115.0
Q ss_pred chhhHHHHHHHHhHHHhhhcCCCCeEEEEEe-CCCeEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCC-CCe
Q 007002 9 RGLHHLVYEILDNAVDEAQAGYASNIEVALL-ADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSS-SGY 86 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~g~~~~I~V~l~-~~g~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~-~~~ 86 (622)
..|.++|.|++-||+|+ .++.|.|.++ +.=++.|.|||.|+.-+.. | .++.-+++|||.... -..
T Consensus 20 ~sla~~VeElv~NSiDA----~At~V~v~V~~~t~sv~ViDdG~G~~rdDl--------~-~lg~ry~TSK~h~~ndl~~ 86 (1142)
T KOG1977|consen 20 SSLAQCVEELVLNSIDA----EATCVAVRVNMETFSVQVIDDGFGMGRDDL--------E-KLGNRYFTSKCHSVNDLEN 86 (1142)
T ss_pred HHHHHHHHHHHhhcccc----CceEEEEEecCceeEEEEEecCCCccHHHH--------H-HHHhhhhhhhceecccccc
Confidence 46789999999999999 5999999998 4458999999999998864 2 355567788876321 133
Q ss_pred eeccccccccceeeeeecCeEEEEEEeCCE---EEEEEEecCcccccceeeccCCCCCCCCCeEEEEE------eCcccc
Q 007002 87 SVSGGLHGVGLSVVNALSESLEVTVWRDGM---EYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFW------PDKQVF 157 (622)
Q Consensus 87 k~sgG~~GvG~s~vNalS~~~~V~v~r~g~---~~~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~------PD~~iF 157 (622)
--+-|++|.+++.+.-.|. +.|.+...+. .+.-.|..|.....+.+- -.....||+|++. |-+.+.
T Consensus 87 ~~tyGfRGeALasIsd~s~-l~v~skkk~r~~~~~~kk~~~gs~~~~l~iD----~~R~~sGTtVtV~dlfY~lPVRRr~ 161 (1142)
T KOG1977|consen 87 PRTYGFRGEALASISDMSS-LVVISKKKNRTMKTFVKKFQSGSALKALEID----VTRASSGTTVTVYDLFYQLPVRRRL 161 (1142)
T ss_pred ccccccchhhhhhhhhhhh-hhhhhhhcCCchhHHHHHHhccccceecccc----cccccCCcEEEeHHhhhcchhhhhh
Confidence 5677999999999988884 5555543331 111233445443333211 2345689999973 666655
Q ss_pred c-ccccCCHHHHHHHHHHHhccCCCcEEEEeecC
Q 007002 158 T-TAIQFDHNTIAGRIRELAFLNPKLTIALRKED 190 (622)
Q Consensus 158 ~-~~~~~~~~~i~~rl~elA~lnpgl~I~l~d~r 190 (622)
. ++....++.|++|+.++|.++|.+.+.+.+..
T Consensus 162 k~~~P~k~fe~Ik~~i~~i~lmHp~iSfsv~~~~ 195 (1142)
T KOG1977|consen 162 KCMDPRKEFEKIKQRIEAISLMHPSISFSVRNDV 195 (1142)
T ss_pred hcCCHHHHHHHHHHHHHHHHhhccceeEEEEecc
Confidence 3 22234478999999999999999999997754
No 40
>PTZ00272 heat shock protein 83 kDa (Hsp83); Provisional
Probab=98.32 E-value=3.9e-06 Score=96.81 Aligned_cols=154 Identities=23% Similarity=0.320 Sum_probs=93.5
Q ss_pred HHHHHHHhHHHhhhc------------CCCCe--EEEEEeC-CCeEEEEECCCCccCcccCCCCcchhhhhheeeccCCC
Q 007002 14 LVYEILDNAVDEAQA------------GYASN--IEVALLA-DNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGK 78 (622)
Q Consensus 14 lv~EildNaiDe~~~------------g~~~~--I~V~l~~-~g~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~k 78 (622)
-++|+|.||.|++.. +.... |.|..+. ...++|.|||.||+.+.... .+.+-.++|++
T Consensus 29 flRELIsNA~DA~~k~r~~~l~~~~~~~~~~~~~I~i~~d~~~~~L~I~DnGiGMt~edl~~-------~LgtIa~SGt~ 101 (701)
T PTZ00272 29 FLRELISNASDACDKIRYQSLTDPSVLGESPRLCIRVVPDKENKTLTVEDNGIGMTKADLVN-------NLGTIARSGTK 101 (701)
T ss_pred hHHHHHhhHHHHHHHHHHHhcCCchhcCCCCceEEEEEEcCCCCEEEEEECCCCCCHHHHHH-------HhhhhhhcchH
Confidence 478999999999732 12233 4555444 34799999999999876422 22222233443
Q ss_pred -CC----CCCCCeeeccccccccceeeeeecCeEEEEEEeCC-EEEEEEEecCcccccceeeccCCCCCCCCCeEEEEEe
Q 007002 79 -FG----GSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDG-MEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWP 152 (622)
Q Consensus 79 -f~----~~~~~~k~sgG~~GvG~s~vNalS~~~~V~v~r~g-~~~~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~P 152 (622)
|- .. .-....|+.|||.-++=++++..+|+++..+ ..|..+.. |...-.+... + .....+||+|+..+
T Consensus 102 ~f~~~~~~~--~~~~~iGqFGvGfyS~Fmvad~V~V~Srs~~~~~~~W~s~-~~g~y~i~~~--~-~~~~~~GT~I~L~L 175 (701)
T PTZ00272 102 AFMEALEAG--GDMSMIGQFGVGFYSAYLVADRVTVTSKNNSDESYVWESS-AGGTFTITST--P-ESDMKRGTRITLHL 175 (701)
T ss_pred HHHHHhhcc--CCccccCCCCcceEEEEEeccEEEEEEecCCCceEEEEEC-CCCcEEEEeC--C-CCCCCCCCEEEEEE
Confidence 31 11 1134679999999999999999999987644 44554443 3222122111 1 22346999999874
Q ss_pred C--cccccccccCCHHHHHHHHHHHhccCCCcEEEE
Q 007002 153 D--KQVFTTAIQFDHNTIAGRIRELAFLNPKLTIAL 186 (622)
Q Consensus 153 D--~~iF~~~~~~~~~~i~~rl~elA~lnpgl~I~l 186 (622)
. ..-| ++...|+..++.++-.-+ .-|++
T Consensus 176 k~d~~ef-----~~~~~i~~li~kYs~fi~-~PI~l 205 (701)
T PTZ00272 176 KEDQMEY-----LEPRRLKELIKKHSEFIG-YDIEL 205 (701)
T ss_pred CCchHHh-----ccHHHHHHHHHHhccccC-cceEE
Confidence 3 3333 455677777777774322 44555
No 41
>PTZ00130 heat shock protein 90; Provisional
Probab=97.91 E-value=6.3e-05 Score=87.34 Aligned_cols=157 Identities=20% Similarity=0.256 Sum_probs=94.3
Q ss_pred HHHHHHhHHHhhh--c----------C--CCCeEEEEEeC-CCeEEEEECCCCccCcccCCCCcchhhhhheeeccCCC-
Q 007002 15 VYEILDNAVDEAQ--A----------G--YASNIEVALLA-DNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGK- 78 (622)
Q Consensus 15 v~EildNaiDe~~--~----------g--~~~~I~V~l~~-~g~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~k- 78 (622)
++|+|.||.|+.. + + ..-.|.|..+. .+.++|.|||.||.-+... +-+.|-.++|++
T Consensus 93 LRELISNAsDAldKlr~~~lt~~~~~~~~~~~~I~I~~D~~~~tLtI~DnGIGMT~eEl~-------~nLgTIA~Sgt~~ 165 (814)
T PTZ00130 93 LRELISNAADALEKIRFLSLSDESVLGEEKKLEIRISANKEKNILSITDTGIGMTKEDLI-------NNLGTIAKSGTSN 165 (814)
T ss_pred eehHhhhHHHHHHHHHHHHcCCchhcCCCCCceEEEEECCCCCEEEEEECCCCCCHHHHH-------HHhhhhcccccHH
Confidence 5799999999974 1 1 12356676664 4589999999999988642 222222233322
Q ss_pred CCCC---CCCeeeccccccccceeeeeecCeEEEEEEeCC-EEEEEEEecCcccccceeeccCCCCCCCCCeEEEEEeCc
Q 007002 79 FGGS---SSGYSVSGGLHGVGLSVVNALSESLEVTVWRDG-MEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDK 154 (622)
Q Consensus 79 f~~~---~~~~k~sgG~~GvG~s~vNalS~~~~V~v~r~g-~~~~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~PD~ 154 (622)
|-.. ...-..--|++|||.-++=++|+..+|+|+..+ ..|..+. .|...-.+... +.+....+||+|+.++..
T Consensus 166 F~~~l~~~~~~~~lIGQFGVGFYSaFmVAdkV~V~Trs~~~~~~~W~s-~g~g~y~I~e~--~~~~~~~rGT~I~LhLke 242 (814)
T PTZ00130 166 FLEAISKSGGDMSLIGQFGVGFYSAFLVADKVIVYTKNNNDEQYIWES-TADAKFTIYKD--PRGSTLKRGTRISLHLKE 242 (814)
T ss_pred HHHHhhccCCCcccccccccchhheeeecCEEEEEEcCCCCceEEEEE-CCCCcEEEEEC--CCCCCCCCCcEEEEEECC
Confidence 3100 001134569999999999999999999998644 4444332 23222222211 112234799999987543
Q ss_pred --ccccccccCCHHHHHHHHHHHhccCCCcEEEEe
Q 007002 155 --QVFTTAIQFDHNTIAGRIRELAFLNPKLTIALR 187 (622)
Q Consensus 155 --~iF~~~~~~~~~~i~~rl~elA~lnpgl~I~l~ 187 (622)
.-| ++...|+.-++.++-.-+ .-|++.
T Consensus 243 d~~ef-----l~~~~ik~likkYS~fI~-~PI~l~ 271 (814)
T PTZ00130 243 DATNL-----MNDKKLVDLISKYSQFIQ-YPIYLL 271 (814)
T ss_pred chhhh-----ccHHHHHHHHHHhhccCC-CCEEEc
Confidence 233 456778888888774322 345554
No 42
>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=97.70 E-value=6.4e-05 Score=63.42 Aligned_cols=78 Identities=29% Similarity=0.484 Sum_probs=53.9
Q ss_pred hhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCC---eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCCee
Q 007002 11 LHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYS 87 (622)
Q Consensus 11 L~~lv~EildNaiDe~~~g~~~~I~V~l~~~g---~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~~k 87 (622)
|.+++.|+|+||+++... ....|.|.+..++ .|.|.|+|+|+|....+. .+..+ . .. ...
T Consensus 1 l~~~~~~ll~Na~~~~~~-~~~~v~i~~~~~~~~~~v~i~d~g~g~~~~~~~~--------~~~~~-~--~~-----~~~ 63 (103)
T cd00075 1 LQQVLLNLLSNAIKHTPE-GGGRITISVERDGDHLEIRVEDNGPGIPEEDLER--------IFERF-S--DG-----SRS 63 (103)
T ss_pred CHHHHHHHHHHHHHhCcC-CCCeEEEEEEecCCEEEEEEEeCCCCCCHHHHHH--------Hhhhh-h--cC-----CCC
Confidence 568999999999998643 1356778777543 588999999998775322 22211 1 11 123
Q ss_pred eccccccccceeeeeecC
Q 007002 88 VSGGLHGVGLSVVNALSE 105 (622)
Q Consensus 88 ~sgG~~GvG~s~vNalS~ 105 (622)
...+.+|+|+++++.++.
T Consensus 64 ~~~~~~g~gl~~~~~~~~ 81 (103)
T cd00075 64 RKGGGTGLGLSIVKKLVE 81 (103)
T ss_pred CCCCccccCHHHHHHHHH
Confidence 445678999999999997
No 43
>smart00387 HATPase_c Histidine kinase-like ATPases. Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Probab=97.38 E-value=0.00027 Score=60.49 Aligned_cols=84 Identities=32% Similarity=0.465 Sum_probs=57.3
Q ss_pred CchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCC-C--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCC
Q 007002 8 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 84 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~-g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~ 84 (622)
..-|.+++.|+++||+++... ...|.|.+..+ + .|.|.|+|+|++.+.. +-++...+.+..
T Consensus 3 ~~~l~~~~~~l~~n~~~~~~~--~~~v~i~~~~~~~~~~i~i~d~g~g~~~~~~--------~~~~~~~~~~~~------ 66 (111)
T smart00387 3 PDRLRQVLSNLLDNAIKYTPE--GGRITVTLERDGDHLEITVEDNGPGIPPEDL--------EKIFEPFFRTDG------ 66 (111)
T ss_pred HHHHHHHHHHHHHHHHhcCCC--CCeEEEEEEEcCCEEEEEEEeCCCCCCHHHH--------HHHhcCeEECCC------
Confidence 356889999999999998644 25677777743 3 5899999999987542 223433222211
Q ss_pred CeeeccccccccceeeeeecCeEE
Q 007002 85 GYSVSGGLHGVGLSVVNALSESLE 108 (622)
Q Consensus 85 ~~k~sgG~~GvG~s~vNalS~~~~ 108 (622)
.....+.+|+|+++++.+++.+.
T Consensus 67 -~~~~~~~~g~gl~~~~~~~~~~~ 89 (111)
T smart00387 67 -RSRKIGGTGLGLSIVKKLVELHG 89 (111)
T ss_pred -CCCCCCcccccHHHHHHHHHHcC
Confidence 12334568999999999997763
No 44
>PF13581 HATPase_c_2: Histidine kinase-like ATPase domain
Probab=97.17 E-value=0.0011 Score=60.02 Aligned_cols=90 Identities=27% Similarity=0.320 Sum_probs=61.5
Q ss_pred hhhHHHHHHHHhHHHhhhcCC-CCeEEEEEeC--CC-eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCC
Q 007002 10 GLHHLVYEILDNAVDEAQAGY-ASNIEVALLA--DN-SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 85 (622)
Q Consensus 10 gL~~lv~EildNaiDe~~~g~-~~~I~V~l~~--~g-~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~ 85 (622)
-+.-++.|++.||+.++..+. ...|.|.+.. ++ .|+|+|+|+|+|....+......
T Consensus 31 ~~~lav~E~~~Nav~H~~~~~~~~~v~v~~~~~~~~l~i~v~D~G~~~d~~~~~~~~~~~-------------------- 90 (125)
T PF13581_consen 31 DLELAVSEALTNAVEHGYPGDPDGPVDVRLEVDPDRLRISVRDNGPGFDPEQLPQPDPWE-------------------- 90 (125)
T ss_pred HHHHHHHHHHHHHHHHcCCCCCCcEEEEEEEEcCCEEEEEEEECCCCCChhhccCccccc--------------------
Confidence 356789999999999976543 3567777664 33 59999999998877543321100
Q ss_pred eeeccccccccceeeeeecCeEEEEEEeCCEEEEEE
Q 007002 86 YSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQK 121 (622)
Q Consensus 86 ~k~sgG~~GvG~s~vNalS~~~~V~v~r~g~~~~q~ 121 (622)
.......|.|+.++..|+..+.+ ...+|+..+++
T Consensus 91 -~~~~~~~G~Gl~li~~l~D~~~~-~~~~gn~v~l~ 124 (125)
T PF13581_consen 91 -PDSLREGGRGLFLIRSLMDEVDY-REDGGNTVTLR 124 (125)
T ss_pred -CCCCCCCCcCHHHHHHHHcEEEE-ECCCeEEEEEE
Confidence 01223479999999999999988 43444554443
No 45
>PRK14939 gyrB DNA gyrase subunit B; Provisional
Probab=97.15 E-value=3.1e-05 Score=90.04 Aligned_cols=49 Identities=12% Similarity=0.076 Sum_probs=45.3
Q ss_pred eeEeecccCCCcchhh-hhccCCcceeEEeeccccHHHHHHHHHHhcCCCc
Q 007002 552 IQRFKGLGEMMPVQLW-ETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARV 601 (622)
Q Consensus 552 i~~~KGLG~~~~~~~~-~~~~~~~~~~~~~~~~~d~~~~~~~~~~lmg~~~ 601 (622)
|+| ||||||+|+|+| ||||||.+|.+.++.++|..+++.+|+.+||+.+
T Consensus 575 ~~~-~~l~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~ 624 (756)
T PRK14939 575 ISG-EALEKLVKEYRAVRKIIDRLERRYPRAVLEALIYAPALDLDDLADEA 624 (756)
T ss_pred ccH-HHHHHHHHHHHHHHHHHhHHhccccHHHHHHHHhccccchhhhcchh
Confidence 788 999999999999 9999999999999999998888999999999543
No 46
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=97.10 E-value=0.00057 Score=75.57 Aligned_cols=80 Identities=33% Similarity=0.545 Sum_probs=59.7
Q ss_pred CchhhHHHHHHHHhHHHhhhcCC-CCeEEEEEeCCC---eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCC
Q 007002 8 PRGLHHLVYEILDNAVDEAQAGY-ASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSS 83 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~~~g~-~~~I~V~l~~~g---~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~ 83 (622)
+.-+..++--++|||+|+..++. ..+|.+.+..+| .|+|.|+|+|||.+.. +.+|.+
T Consensus 425 ~~~litIlGNLidNA~eA~~~~~~~k~I~l~i~~~~~~lvieV~D~G~GI~~~~~--------~~iFe~----------- 485 (537)
T COG3290 425 PHDLVTILGNLIDNALEALLAPEENKEIELSLSDRGDELVIEVADTGPGIPPEVR--------DKIFEK----------- 485 (537)
T ss_pred hHHHHHHHHHHHHHHHHHhhccCCCcEEEEEEEecCCEEEEEEeCCCCCCChHHH--------HHHHhc-----------
Confidence 34567888999999999998643 478999999655 5999999999998853 235543
Q ss_pred CCeeec-cccccccceeeeeecCeE
Q 007002 84 SGYSVS-GGLHGVGLSVVNALSESL 107 (622)
Q Consensus 84 ~~~k~s-gG~~GvG~s~vNalS~~~ 107 (622)
.|.+- .+-||+|+.+|-.+-+.+
T Consensus 486 -G~Stk~~~~rGiGL~Lvkq~V~~~ 509 (537)
T COG3290 486 -GVSTKNTGGRGIGLYLVKQLVERL 509 (537)
T ss_pred -CccccCCCCCchhHHHHHHHHHHc
Confidence 22222 256999999998877655
No 47
>PRK04069 serine-protein kinase RsbW; Provisional
Probab=97.01 E-value=0.0012 Score=62.99 Aligned_cols=92 Identities=21% Similarity=0.258 Sum_probs=59.4
Q ss_pred chhhHHHHHHHHhHHHhhhcCC-CCeEEEEEeC-CC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCC
Q 007002 9 RGLHHLVYEILDNAVDEAQAGY-ASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 84 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~g~-~~~I~V~l~~-~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~ 84 (622)
..|.-++.|++.||+.++..+. ...|.|++.. ++ .|.|+|+|.|+|.+..+. .+........-+
T Consensus 41 ~~l~lav~Ea~~Nai~Hg~~~~~~~~I~I~~~~~~~~l~i~V~D~G~g~d~~~~~~--------~~~p~~~~~~~~---- 108 (161)
T PRK04069 41 EDMKIAVSEACTNAVQHAYKEDEVGEIHIRFEIYEDRLEIVVADNGVSFDYETLKS--------KLGPYDISKPIE---- 108 (161)
T ss_pred HHHHHHHHHHHHHHHHhccCCCCCCeEEEEEEEECCEEEEEEEECCcCCChHHhcc--------ccCCCCCCCccc----
Confidence 4577899999999999986542 3567777763 33 699999999998664321 111000011111
Q ss_pred CeeeccccccccceeeeeecCeEEEEEEeCCEE
Q 007002 85 GYSVSGGLHGVGLSVVNALSESLEVTVWRDGME 117 (622)
Q Consensus 85 ~~k~sgG~~GvG~s~vNalS~~~~V~v~r~g~~ 117 (622)
...-.|.|+.++..|+..+.+.. .+|..
T Consensus 109 ----~~~~~G~GL~li~~l~d~v~~~~-~~G~~ 136 (161)
T PRK04069 109 ----DLREGGLGLFLIETLMDDVTVYK-DSGVT 136 (161)
T ss_pred ----ccCCCceeHHHHHHHHHhEEEEc-CCCcE
Confidence 11125899999999999877764 34543
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=97.00 E-value=0.00099 Score=73.39 Aligned_cols=82 Identities=27% Similarity=0.389 Sum_probs=55.2
Q ss_pred chhhHHHHHHHHhHHHhhhcCC--CCeEEEEEeC-CC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCC
Q 007002 9 RGLHHLVYEILDNAVDEAQAGY--ASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSS 83 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~g~--~~~I~V~l~~-~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~ 83 (622)
.-|.+++.+++.||++....+. ...|.|.... ++ .++|.|||.|||.+.. +-+|....++ +-.
T Consensus 386 ~~l~~vl~Nl~~NAik~~~~~~~~~~~i~i~~~~~~~~~~~~V~D~G~Gi~~~~~--------~~iF~~f~~~-~~~--- 453 (494)
T TIGR02938 386 LQLRSLFKALVDNAIEAMNIKGWKRRELSITTALNGDLIVVSILDSGPGIPQDLR--------YKVFEPFFTT-KGG--- 453 (494)
T ss_pred HHHHHHHHHHHHHHHHHhhccCCCcceEEEEEEecCCEEEEEEEeCCCCCCHHHH--------HHhcCCCccc-CCC---
Confidence 3488999999999999875542 3457777664 33 6999999999998763 2356543222 110
Q ss_pred CCeeeccccccccceeeeeecCeE
Q 007002 84 SGYSVSGGLHGVGLSVVNALSESL 107 (622)
Q Consensus 84 ~~~k~sgG~~GvG~s~vNalS~~~ 107 (622)
. ..| .|+|+++|..+.+.+
T Consensus 454 -~---~~G-~GlGL~i~~~iv~~~ 472 (494)
T TIGR02938 454 -S---RKH-IGMGLSVAQEIVADH 472 (494)
T ss_pred -C---CCC-CcccHHHHHHHHHHc
Confidence 1 123 899999988777543
No 49
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=96.95 E-value=0.0013 Score=73.90 Aligned_cols=76 Identities=25% Similarity=0.383 Sum_probs=53.8
Q ss_pred hhhHHHHHHHHhHHHhhhcCCCCeEEEEEeC-CC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCCe
Q 007002 10 GLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 86 (622)
Q Consensus 10 gL~~lv~EildNaiDe~~~g~~~~I~V~l~~-~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~~ 86 (622)
-|.+++.++++||+++........|.|++.. ++ .|+|+|||+|||.+.. +-+|...+ ..
T Consensus 433 ~l~~vl~nLl~NAi~~~~~~~~~~I~i~~~~~~~~~~i~V~D~G~gi~~~~~--------~~iF~~~~------~~---- 494 (542)
T PRK11086 433 ELITILGNLIENALEAVGGEEGGEISVSLHYRNGWLHCEVSDDGPGIAPDEI--------DAIFDKGY------ST---- 494 (542)
T ss_pred HHHHHHHHHHHHHHHHhhcCCCcEEEEEEEEcCCEEEEEEEECCCCCCHHHH--------HHHHhCCC------cc----
Confidence 4788999999999998654445678888884 33 5899999999998753 34564311 11
Q ss_pred eeccccccccceeeeeecC
Q 007002 87 SVSGGLHGVGLSVVNALSE 105 (622)
Q Consensus 87 k~sgG~~GvG~s~vNalS~ 105 (622)
.++-+|+|+++|..+.+
T Consensus 495 --~~~g~GlGL~iv~~iv~ 511 (542)
T PRK11086 495 --KGSNRGVGLYLVKQSVE 511 (542)
T ss_pred --CCCCCcCcHHHHHHHHH
Confidence 12237999998877654
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=96.88 E-value=0.0037 Score=57.51 Aligned_cols=82 Identities=20% Similarity=0.244 Sum_probs=51.4
Q ss_pred chhhHHHHHHHHhHHHhhhc-CCCCeEEEEEeC-CC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCC
Q 007002 9 RGLHHLVYEILDNAVDEAQA-GYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 84 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~-g~~~~I~V~l~~-~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~ 84 (622)
..+..++.|++.||+.++.. .....|.|++.. ++ .++|.|+|.|||... -+|....++ +
T Consensus 38 ~~l~~~l~eli~Nai~h~~~~~~~~~I~v~~~~~~~~~~i~I~D~G~gi~~~~----------~~~~~~~~~-~------ 100 (137)
T TIGR01925 38 TDIKTAVSEAVTNAIIHGYEENCEGVVYISATIEDHEVYITVRDEGIGIENLE----------EAREPLYTS-K------ 100 (137)
T ss_pred HHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEeCCEEEEEEEEcCCCcCchh----------HhhCCCccc-C------
Confidence 45778999999999976433 224578888874 33 589999999998321 122221111 0
Q ss_pred CeeeccccccccceeeeeecCeEEEE
Q 007002 85 GYSVSGGLHGVGLSVVNALSESLEVT 110 (622)
Q Consensus 85 ~~k~sgG~~GvG~s~vNalS~~~~V~ 110 (622)
...+-.|.|+++++.+...+.++
T Consensus 101 ---~~~~~~GlGL~lv~~~~~~l~~~ 123 (137)
T TIGR01925 101 ---PELERSGMGFTVMENFMDDVSVD 123 (137)
T ss_pred ---CCCCCCcccHHHHHHhCCcEEEE
Confidence 01234799999888766544443
No 51
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=96.87 E-value=0.0019 Score=73.19 Aligned_cols=83 Identities=23% Similarity=0.406 Sum_probs=57.1
Q ss_pred CCchhhHHHHHHHHhHHHhhhcC--CCCeEEEEEeCC-C--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCC
Q 007002 7 GPRGLHHLVYEILDNAVDEAQAG--YASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGG 81 (622)
Q Consensus 7 ~~~gL~~lv~EildNaiDe~~~g--~~~~I~V~l~~~-g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~ 81 (622)
+...|.+++.++++||+++.... ....|.|.+..+ + .|+|.|||.|||.+.. +-+|...+++ + .
T Consensus 429 ~~~~l~~vl~nLl~NAi~~~~~~~~~~~~i~i~~~~~~~~~~i~V~D~G~Gi~~~~~--------~~iF~~~~~t-k--~ 497 (545)
T PRK15053 429 DSTEFAAIVGNLLDNAFEASLRSDEGNKIVELFLSDEGDDVVIEVADQGCGVPESLR--------DKIFEQGVST-R--A 497 (545)
T ss_pred CHHHHHHHHHHHHHHHHHHHhhCCCCCceEEEEEEECCCEEEEEEEeCCCCcCHHHH--------HHHhCCCCCC-C--C
Confidence 34568899999999999997532 246788888853 3 5999999999998753 3356543321 1 0
Q ss_pred CCCCeeeccccccccceeeeeecCe
Q 007002 82 SSSGYSVSGGLHGVGLSVVNALSES 106 (622)
Q Consensus 82 ~~~~~k~sgG~~GvG~s~vNalS~~ 106 (622)
+-. |-+|+|++.|.-+.+.
T Consensus 498 -----~~~-~g~GlGL~ivk~iv~~ 516 (545)
T PRK15053 498 -----DEP-GEHGIGLYLIASYVTR 516 (545)
T ss_pred -----CCC-CCceeCHHHHHHHHHH
Confidence 111 3379999998776643
No 52
>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=96.85 E-value=0.0014 Score=71.91 Aligned_cols=82 Identities=24% Similarity=0.361 Sum_probs=52.9
Q ss_pred chhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCC---eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCC
Q 007002 9 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 85 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g---~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~ 85 (622)
.-|..++.++|+||+.+... ...|.|.+..++ .|+|.|||.|||.+.. +-+|...+.+.+=.
T Consensus 352 ~~l~~~~~nll~Nai~~~~~--~~~I~i~~~~~~~~~~i~v~D~G~g~~~~~~--------~~~~~~~~~~~~~~----- 416 (457)
T TIGR01386 352 QMFRRAISNLLSNALRHTPD--GGTITVRIERRSDEVRVSVSNPGPGIPPEHL--------SRLFDRFYRVDPAR----- 416 (457)
T ss_pred HHHHHHHHHHHHHHHHcCCC--CceEEEEEEecCCEEEEEEEeCCCCCCHHHH--------HHhccccccCCccc-----
Confidence 44677788888888877422 357999888654 5999999999998753 23555433322100
Q ss_pred eeeccccccccceeeeeecCe
Q 007002 86 YSVSGGLHGVGLSVVNALSES 106 (622)
Q Consensus 86 ~k~sgG~~GvG~s~vNalS~~ 106 (622)
....+-+|+|++.+.-+.+.
T Consensus 417 -~~~~~g~GlGL~i~~~~~~~ 436 (457)
T TIGR01386 417 -SNSGEGTGLGLAIVRSIMEA 436 (457)
T ss_pred -CCCCCCccccHHHHHHHHHH
Confidence 01123389999988766643
No 53
>PRK03660 anti-sigma F factor; Provisional
Probab=96.78 E-value=0.0064 Score=56.50 Aligned_cols=83 Identities=18% Similarity=0.268 Sum_probs=52.2
Q ss_pred chhhHHHHHHHHhHHHhhhcCCC-CeEEEEEeC-CC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCC
Q 007002 9 RGLHHLVYEILDNAVDEAQAGYA-SNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 84 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~g~~-~~I~V~l~~-~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~ 84 (622)
.-+..++.|++.||+.++..+.. ..|.|.+.. ++ .++|.|+|.|||... -++..++.+..
T Consensus 38 ~~l~~~l~eli~Nai~h~~~~~~~~~i~i~~~~~~~~l~i~I~D~G~g~~~~~----------~~~~~~~~~~~------ 101 (146)
T PRK03660 38 TEIKTAVSEAVTNAIIHGYENNPDGVVYIEVEIEEEELEITVRDEGKGIEDIE----------EAMQPLYTTKP------ 101 (146)
T ss_pred HhHHHHHHHHHHHHHHHhcCCCCCCEEEEEEEECCCEEEEEEEEccCCCChHH----------HhhCCCcccCC------
Confidence 45678899999999987644322 568887763 33 599999999998421 12222111100
Q ss_pred CeeeccccccccceeeeeecCeEEEEE
Q 007002 85 GYSVSGGLHGVGLSVVNALSESLEVTV 111 (622)
Q Consensus 85 ~~k~sgG~~GvG~s~vNalS~~~~V~v 111 (622)
..+..|+|++++..+...+.++.
T Consensus 102 ----~~~~~GlGL~i~~~~~~~i~~~~ 124 (146)
T PRK03660 102 ----ELERSGMGFTVMESFMDEVEVES 124 (146)
T ss_pred ----CCCCccccHHHHHHhCCeEEEEe
Confidence 11236999999887776555443
No 54
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=96.75 E-value=0.0019 Score=74.45 Aligned_cols=76 Identities=29% Similarity=0.436 Sum_probs=55.4
Q ss_pred HHHHHHHHhHHHhhh--cCCCCeEEEEEeCCC---eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCCee
Q 007002 13 HLVYEILDNAVDEAQ--AGYASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYS 87 (622)
Q Consensus 13 ~lv~EildNaiDe~~--~g~~~~I~V~l~~~g---~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~~k 87 (622)
.++-.+|-|-+|++. ++.+++|.|....++ .++|+|||+|||.+. .|.||....+++|+++.
T Consensus 774 ~LieQVLiNLleNA~Kyap~~s~I~I~~~~~~~~v~~~V~DeGpGIP~~~--------~~~IFD~F~r~~~~~~~----- 840 (890)
T COG2205 774 PLIEQVLINLLENALKYAPPGSEIRINAGVERENVVFSVIDEGPGIPEGE--------LERIFDKFYRGNKESAT----- 840 (890)
T ss_pred HHHHHHHHHHHHHHHhhCCCCCeEEEEEEEecceEEEEEEeCCCCCChhH--------HHHhhhhhhcCCCCCCC-----
Confidence 355566666666664 467888888887543 599999999999886 56699999999997642
Q ss_pred eccccccccceeeeeec
Q 007002 88 VSGGLHGVGLSVVNALS 104 (622)
Q Consensus 88 ~sgG~~GvG~s~vNalS 104 (622)
.| -|+|+++|-.+=
T Consensus 841 --~G-~GLGLsIc~~iv 854 (890)
T COG2205 841 --RG-VGLGLAICRGIV 854 (890)
T ss_pred --CC-ccccHHHHHHHH
Confidence 23 477888766543
No 55
>PRK10364 sensor protein ZraS; Provisional
Probab=96.75 E-value=0.002 Score=71.44 Aligned_cols=76 Identities=29% Similarity=0.492 Sum_probs=52.5
Q ss_pred chhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCC---eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCC
Q 007002 9 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 85 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g---~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~ 85 (622)
.-|.+++..+|+||++++.. ...|.|.+..++ .|+|+|||+|||.+. .+-+|...++ .
T Consensus 347 ~~l~~il~NLl~NA~k~~~~--~~~I~i~~~~~~~~~~i~V~D~G~Gi~~~~--------~~~if~~~~~------~--- 407 (457)
T PRK10364 347 DRLTQVLLNLYLNAIQAIGQ--HGVISVTASESGAGVKISVTDSGKGIAADQ--------LEAIFTPYFT------T--- 407 (457)
T ss_pred HHHHHHHHHHHHHHHHhcCC--CCeEEEEEEEeCCeEEEEEEECCCCCCHHH--------HHHHhCcccc------C---
Confidence 45778888888888887532 457888887433 699999999999875 3345643221 1
Q ss_pred eeeccccccccceeeeeecCe
Q 007002 86 YSVSGGLHGVGLSVVNALSES 106 (622)
Q Consensus 86 ~k~sgG~~GvG~s~vNalS~~ 106 (622)
+ ..| +|+|++++..+.+.
T Consensus 408 -k-~~g-~GlGL~iv~~~v~~ 425 (457)
T PRK10364 408 -K-AEG-TGLGLAVVHNIVEQ 425 (457)
T ss_pred -C-CCC-CcccHHHHHHHHHH
Confidence 1 123 79999998887754
No 56
>PRK10604 sensor protein RstB; Provisional
Probab=96.71 E-value=0.002 Score=71.13 Aligned_cols=81 Identities=31% Similarity=0.476 Sum_probs=51.5
Q ss_pred chhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCC-C--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCC
Q 007002 9 RGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 85 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~-g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~ 85 (622)
.-+..++..+|.||+... ...|.|++..+ + .|+|+|||.|||.+.. +-+|.....+.. . .
T Consensus 318 ~~l~~vl~NLl~NAik~~----~~~I~I~~~~~~~~~~I~V~D~G~Gi~~e~~--------~~if~~f~r~~~---~--~ 380 (433)
T PRK10604 318 RLMERVLDNLLNNALRYA----HSRVRVSLLLDGNQACLIVEDDGPGIPPEER--------ERVFEPFVRLDP---S--R 380 (433)
T ss_pred HHHHHHHHHHHHHHHHhC----CCeEEEEEEEECCEEEEEEEEcCCCCCHHHH--------hhcCCCCccCCC---C--C
Confidence 346778888888888763 35677777642 2 5999999999998753 335654332211 0 1
Q ss_pred eeeccccccccceeeeeecCeE
Q 007002 86 YSVSGGLHGVGLSVVNALSESL 107 (622)
Q Consensus 86 ~k~sgG~~GvG~s~vNalS~~~ 107 (622)
-..+ |-+|+|++.|.-+.+++
T Consensus 381 ~~~~-~g~GLGL~ivk~i~~~~ 401 (433)
T PRK10604 381 DRAT-GGCGLGLAIVHSIALAM 401 (433)
T ss_pred CCCC-CCccchHHHHHHHHHHC
Confidence 1122 33799999887766543
No 57
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=96.65 E-value=0.0016 Score=71.61 Aligned_cols=82 Identities=27% Similarity=0.336 Sum_probs=53.2
Q ss_pred CchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCC-C--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCC
Q 007002 8 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 84 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~-g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~ 84 (622)
+.-|.+++..+|+||+++...| ..|.|.+..+ + .|+|.|||+|||.+..+ -+|...++..+-.
T Consensus 315 ~~~l~~vl~NLl~NAik~~~~~--~~I~i~~~~~~~~~~i~V~D~G~Gi~~~~~~--------~if~~f~~~~~~~---- 380 (430)
T PRK11006 315 EDQLRSAISNLVYNAVNHTPEG--THITVRWQRVPQGAEFSVEDNGPGIAPEHIP--------RLTERFYRVDKAR---- 380 (430)
T ss_pred HHHHHHHHHHHHHHHHhcCCCC--CeEEEEEEEcCCEEEEEEEEcCCCCCHHHHH--------HhccCcccccCCC----
Confidence 4557889999999999885433 5677777643 2 59999999999987642 2454333222111
Q ss_pred CeeeccccccccceeeeeecC
Q 007002 85 GYSVSGGLHGVGLSVVNALSE 105 (622)
Q Consensus 85 ~~k~sgG~~GvG~s~vNalS~ 105 (622)
....|-.|+|+++|..+.+
T Consensus 381 --~~~~~G~GLGL~ivk~iv~ 399 (430)
T PRK11006 381 --SRQTGGSGLGLAIVKHALS 399 (430)
T ss_pred --CCCCCCCchHHHHHHHHHH
Confidence 1112337999998876664
No 58
>PRK09303 adaptive-response sensory kinase; Validated
Probab=96.55 E-value=0.0031 Score=68.55 Aligned_cols=79 Identities=27% Similarity=0.471 Sum_probs=50.8
Q ss_pred chhhHHHHHHHHhHHHhhhcCCCCeEEEEEe--CCC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCC
Q 007002 9 RGLHHLVYEILDNAVDEAQAGYASNIEVALL--ADN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 84 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~g~~~~I~V~l~--~~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~ 84 (622)
.-|.+++..+|+||+.....| ..|.|.+. .++ .|+|.|||+|||.+. .+-+|....+... +
T Consensus 271 ~~l~qvl~NLl~NAik~~~~~--~~I~i~~~~~~~~~v~i~V~D~G~GI~~~~--------~~~iF~pf~~~~~-~---- 335 (380)
T PRK09303 271 ERIRQVLLNLLDNAIKYTPEG--GTITLSMLHRTTQKVQVSICDTGPGIPEEE--------QERIFEDRVRLPR-D---- 335 (380)
T ss_pred HHHHHHHHHHHHHHHhcCCCC--ceEEEEEEecCCCEEEEEEEEcCCCCCHHH--------HHHHccCceeCCC-C----
Confidence 457788888888888875333 46777763 233 589999999999875 3345543332211 1
Q ss_pred CeeeccccccccceeeeeecC
Q 007002 85 GYSVSGGLHGVGLSVVNALSE 105 (622)
Q Consensus 85 ~~k~sgG~~GvG~s~vNalS~ 105 (622)
...+| .|+|+++|.-+.+
T Consensus 336 --~~~~G-~GLGL~i~~~iv~ 353 (380)
T PRK09303 336 --EGTEG-YGIGLSVCRRIVR 353 (380)
T ss_pred --CCCCc-ccccHHHHHHHHH
Confidence 11123 7899998877664
No 59
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=96.48 E-value=0.0033 Score=70.25 Aligned_cols=49 Identities=22% Similarity=0.382 Sum_probs=39.5
Q ss_pred chhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCC---eEEEEECCCCccCcc
Q 007002 9 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDL 57 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g---~i~V~DnGrGIP~~~ 57 (622)
-=|.+++--+|.||+|+.-.-.-..|.|.+-++| .|+|.|||+|||.+.
T Consensus 496 iRLeQVLvNLl~NALDA~~~~~~~~i~i~~~~~~~~v~l~VrDnGpGi~~e~ 547 (603)
T COG4191 496 IRLEQVLVNLLQNALDAMAGQEDRRLSIRAQREGGQVVLTVRDNGPGIAPEA 547 (603)
T ss_pred hhHHHHHHHHHHHHHHHhcCCCCCeeEEEEEecCCeEEEEEccCCCCCCHHH
Confidence 4478999999999999753334567899888644 699999999999985
No 60
>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=96.46 E-value=0.013 Score=55.99 Aligned_cols=94 Identities=21% Similarity=0.290 Sum_probs=60.2
Q ss_pred chhhHHHHHHHHhHHHhhhcC-CCCeEEEEEeC-CC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCC
Q 007002 9 RGLHHLVYEILDNAVDEAQAG-YASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 84 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~g-~~~~I~V~l~~-~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~ 84 (622)
..+.-++.|++.||+.++..+ ....|.|++.. ++ .|+|+|+|.|+|....+.. +........-+
T Consensus 41 ~~l~lav~Ea~~Nai~ha~~~~~~~~I~I~~~~~~~~l~i~V~D~G~gfd~~~~~~~--------~~~~~~~~~~~---- 108 (159)
T TIGR01924 41 EDLKIAVSEACTNAVKHAYKEGENGEIGISFHIYEDRLEIIVSDQGDSFDMDTFKQS--------LGPYDGSEPID---- 108 (159)
T ss_pred HHHHHHHHHHHHHHHHhccCCCCCCeEEEEEEEeCCEEEEEEEEcccccCchhhccc--------cCCCCCCCCcc----
Confidence 446778999999999997653 24578887773 33 5889999999987653321 11100000000
Q ss_pred CeeeccccccccceeeeeecCeEEEEEEeCCEEEE
Q 007002 85 GYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYH 119 (622)
Q Consensus 85 ~~k~sgG~~GvG~s~vNalS~~~~V~v~r~g~~~~ 119 (622)
. ..-+|.|+.++..|+..+.++. .+|....
T Consensus 109 ~----~~~~G~GL~Li~~L~D~v~~~~-~~G~~l~ 138 (159)
T TIGR01924 109 D----LREGGLGLFLIETLMDEVEVYE-DSGVTVA 138 (159)
T ss_pred c----CCCCccCHHHHHHhccEEEEEe-CCCEEEE
Confidence 1 1125899999999999888864 4554433
No 61
>PRK10337 sensor protein QseC; Provisional
Probab=96.39 E-value=0.0038 Score=68.72 Aligned_cols=79 Identities=29% Similarity=0.383 Sum_probs=51.3
Q ss_pred chhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCCeEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCCeee
Q 007002 9 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSV 88 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~~k~ 88 (622)
.-|..++..+|+||+..... ...|.|.+..+ .|+|.|||.|||.+. .+-+|...+.+.. ..
T Consensus 351 ~~l~~vl~Nli~NA~k~~~~--~~~i~i~~~~~-~i~i~D~G~Gi~~~~--------~~~if~~f~~~~~--------~~ 411 (449)
T PRK10337 351 LLLSLLVRNLLDNAIRYSPQ--GSVVDVTLNAR-NFTVRDNGPGVTPEA--------LARIGERFYRPPG--------QE 411 (449)
T ss_pred HHHHHHHHHHHHHHHhhCCC--CCeEEEEEEee-EEEEEECCCCCCHHH--------HHHhcccccCCCC--------CC
Confidence 34566777777777776432 24688877654 799999999999775 3335654332211 11
Q ss_pred ccccccccceeeeeecCeE
Q 007002 89 SGGLHGVGLSVVNALSESL 107 (622)
Q Consensus 89 sgG~~GvG~s~vNalS~~~ 107 (622)
..| +|+|+++|..+.+..
T Consensus 412 ~~g-~GlGL~iv~~i~~~~ 429 (449)
T PRK10337 412 ATG-SGLGLSIVRRIAKLH 429 (449)
T ss_pred CCc-cchHHHHHHHHHHHc
Confidence 223 899999998877654
No 62
>COG3920 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=96.36 E-value=0.0075 Score=60.76 Aligned_cols=89 Identities=27% Similarity=0.394 Sum_probs=60.6
Q ss_pred cCCCCchhhHHHHHHHHhHHHhhhc-CCCCeEEEEEe--CCC---eEEEEECCCCccCcccCCCCcchhhhhheeeccCC
Q 007002 4 GSTGPRGLHHLVYEILDNAVDEAQA-GYASNIEVALL--ADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGG 77 (622)
Q Consensus 4 Gst~~~gL~~lv~EildNaiDe~~~-g~~~~I~V~l~--~~g---~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~ 77 (622)
+..-.-.|--+|.|++.||+-.+.- +....|.|++. .++ ..+|||||.|+|++.-+
T Consensus 116 ~~d~A~~Lgliv~EL~tNa~Khaf~~~~~G~I~I~~~~~~~~~~~~l~v~deg~G~~~~~~~------------------ 177 (221)
T COG3920 116 DPDTAVPLGLIVHELVTNALKHAFLSRPGGEIRITLSREGDGGRFLLTVWDEGGGPPVEAPL------------------ 177 (221)
T ss_pred CchhhHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEEEEcCCCCeEEEEEEECCCCCCCCCCC------------------
Confidence 3344567888999999999999743 34667887777 344 59999999999988420
Q ss_pred CCCCCCCCeeeccccccccceeeeeec-CeEE--EEEE-eCCEEEEEEEe
Q 007002 78 KFGGSSSGYSVSGGLHGVGLSVVNALS-ESLE--VTVW-RDGMEYHQKYS 123 (622)
Q Consensus 78 kf~~~~~~~k~sgG~~GvG~s~vNalS-~~~~--V~v~-r~g~~~~q~f~ 123 (622)
...|+|+.+++.+. +.+. ++.+ .+|-.|.++|.
T Consensus 178 -------------~~~g~G~~Lv~~lv~~q~~g~~~~~~~~Gt~~~i~~~ 214 (221)
T COG3920 178 -------------SRGGFGLQLVERLVPEQLGGELEDERPDGTEFRLRFP 214 (221)
T ss_pred -------------CCCCcHHHHHHHHHHHHcCCeEEEEcCCCEEEEEEEe
Confidence 12578888888887 4432 2222 23555666554
No 63
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional
Probab=96.32 E-value=0.0041 Score=68.74 Aligned_cols=81 Identities=19% Similarity=0.327 Sum_probs=51.8
Q ss_pred hhhHHHHHHHHhHHHhhhcCCCCeEEEEEeC-CC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCCe
Q 007002 10 GLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 86 (622)
Q Consensus 10 gL~~lv~EildNaiDe~~~g~~~~I~V~l~~-~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~~ 86 (622)
-|.+++.++|+||+.+... ...|.|.+.. ++ .|+|.|||+|||.+.. +-+|...+.+.+ . ..
T Consensus 352 ~l~qvl~nll~NAi~~~~~--~~~I~i~~~~~~~~~~i~V~D~G~Gi~~e~~--------~~lf~~~~~~~~---~--~~ 416 (466)
T PRK10549 352 RLMQLFNNLLENSLRYTDS--GGSLHISAEQRDKTLRLTFADSAPGVSDEQL--------QKLFERFYRTEG---S--RN 416 (466)
T ss_pred HHHHHHHHHHHHHHHhCCC--CCEEEEEEEEcCCEEEEEEEecCCCcCHHHH--------HHhccCcccCCC---C--cC
Confidence 4677778888888877433 3578888774 33 5889999999997753 335554432221 0 11
Q ss_pred eeccccccccceeeeeecCe
Q 007002 87 SVSGGLHGVGLSVVNALSES 106 (622)
Q Consensus 87 k~sgG~~GvG~s~vNalS~~ 106 (622)
+.+ |-+|+|++++..+.+.
T Consensus 417 ~~~-~g~GlGL~iv~~i~~~ 435 (466)
T PRK10549 417 RAS-GGSGLGLAICLNIVEA 435 (466)
T ss_pred CCC-CCCcHHHHHHHHHHHH
Confidence 222 3479999988877654
No 64
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=96.16 E-value=0.0072 Score=64.10 Aligned_cols=76 Identities=25% Similarity=0.459 Sum_probs=49.9
Q ss_pred chhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCC-------------CeEEEEECCCCccCcccCCCCcchhhhhheeecc
Q 007002 9 RGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-------------NSVSVADNGRGIPIDLHPATNKSALETVLTVLHA 75 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~-------------g~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~a 75 (622)
.-|.+++..+|+||+++.. .....|.|.+... -.|+|.|||.|||.+.. +-+|...++
T Consensus 236 ~~l~~vl~nLl~NA~~~~~-~~~~~i~i~~~~~~~~~~~~~~~~~~~~i~v~D~G~Gi~~~~~--------~~iF~~~~~ 306 (348)
T PRK11073 236 DQIEQVLLNIVRNALQALG-PEGGTITLRTRTAFQLTLHGERYRLAARIDIEDNGPGIPPHLQ--------DTLFYPMVS 306 (348)
T ss_pred HHHHHHHHHHHHHHHHHhc-cCCCeEEEEEccccccccCCccCCceEEEEEEeCCCCCCHHHH--------hhccCCccc
Confidence 4578899999999998753 2345677765421 14899999999998753 224533221
Q ss_pred CCCCCCCCCCeeeccccccccceeeeeecC
Q 007002 76 GGKFGGSSSGYSVSGGLHGVGLSVVNALSE 105 (622)
Q Consensus 76 g~kf~~~~~~~k~sgG~~GvG~s~vNalS~ 105 (622)
+ ..+-.|+|++++..+.+
T Consensus 307 ~------------~~~g~GlGL~i~~~iv~ 324 (348)
T PRK11073 307 G------------REGGTGLGLSIARNLID 324 (348)
T ss_pred C------------CCCCccCCHHHHHHHHH
Confidence 1 11237999998877664
No 65
>PRK11100 sensory histidine kinase CreC; Provisional
Probab=96.12 E-value=0.0076 Score=66.35 Aligned_cols=80 Identities=24% Similarity=0.314 Sum_probs=52.1
Q ss_pred hhhHHHHHHHHhHHHhhhcCCCCeEEEEEeC-CC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCCe
Q 007002 10 GLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 86 (622)
Q Consensus 10 gL~~lv~EildNaiDe~~~g~~~~I~V~l~~-~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~~ 86 (622)
-|..++.++|.||+.+. +....|.|++.. ++ .|+|+|||.|||.+. ++-+|....+....+
T Consensus 368 ~l~~vl~nli~Na~~~~--~~~~~i~i~~~~~~~~~~i~i~D~G~Gi~~~~--------~~~i~~~~~~~~~~~------ 431 (475)
T PRK11100 368 LLRQALGNLLDNAIDFS--PEGGTITLSAEVDGEQVALSVEDQGPGIPDYA--------LPRIFERFYSLPRPA------ 431 (475)
T ss_pred HHHHHHHHHHHHHHHhC--CCCCEEEEEEEEcCCEEEEEEEECCCCCCHHH--------HHHHHHHHccCCCCC------
Confidence 46778888888888864 224678888884 33 599999999999764 333554433221111
Q ss_pred eeccccccccceeeeeecCe
Q 007002 87 SVSGGLHGVGLSVVNALSES 106 (622)
Q Consensus 87 k~sgG~~GvG~s~vNalS~~ 106 (622)
. ..+-+|+|+..|+-+.+.
T Consensus 432 ~-~~~~~GlGL~i~~~~~~~ 450 (475)
T PRK11100 432 N-GRKSTGLGLAFVREVARL 450 (475)
T ss_pred C-CCCCcchhHHHHHHHHHH
Confidence 1 123379999998877754
No 66
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=96.08 E-value=0.0072 Score=64.52 Aligned_cols=77 Identities=23% Similarity=0.306 Sum_probs=48.9
Q ss_pred chhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCC-C--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCC
Q 007002 9 RGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 85 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~-g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~ 85 (622)
.-|..++..+|+||+.... ....|.|.+..+ + .++|+|||.|||.+.. +-+|...... +.
T Consensus 246 ~~l~~il~nLi~NA~k~~~--~~~~I~I~~~~~~~~~~i~V~D~G~Gi~~~~~--------~~if~~f~~~---~~---- 308 (356)
T PRK10755 246 TLLRLLLRNLVENAHRYSP--EGSTITIKLSQEDGGAVLAVEDEGPGIDESKC--------GELSKAFVRM---DS---- 308 (356)
T ss_pred HHHHHHHHHHHHHHHhhCC--CCCcEEEEEEEcCCEEEEEEEECCCCCCHHHH--------HHhCCCeEeC---CC----
Confidence 3456778888888877642 245788888743 3 5999999999998753 2244432211 10
Q ss_pred eeeccccccccceeeeeecC
Q 007002 86 YSVSGGLHGVGLSVVNALSE 105 (622)
Q Consensus 86 ~k~sgG~~GvG~s~vNalS~ 105 (622)
..+-.|+|++.|.-+.+
T Consensus 309 ---~~~g~GlGL~i~~~i~~ 325 (356)
T PRK10755 309 ---RYGGIGLGLSIVSRITQ 325 (356)
T ss_pred ---CCCCcCHHHHHHHHHHH
Confidence 12236889988776664
No 67
>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=96.03 E-value=0.0074 Score=71.03 Aligned_cols=82 Identities=21% Similarity=0.332 Sum_probs=54.0
Q ss_pred chhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCC-C--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCC
Q 007002 9 RGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 85 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~-g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~ 85 (622)
.-|.+++..+|+||++.... ...|.|.+..+ + .|+|.|||.|||.+. .+-+|....++..-.
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--DGLIEVGLSQNKSHALLTVSNEGPPLPEDM--------GEQLFDSMVSVRDQG----- 660 (703)
T ss_pred HHHHHHHHHHHHHHHHHCCC--CCeEEEEEEEcCCEEEEEEEEcCCCCCHHH--------HHHHhCCCeecCCCC-----
Confidence 45778888888888887533 34588888753 3 599999999999875 344666544332111
Q ss_pred eeeccccccccceeeeeecCe
Q 007002 86 YSVSGGLHGVGLSVVNALSES 106 (622)
Q Consensus 86 ~k~sgG~~GvG~s~vNalS~~ 106 (622)
...++-.|+|+++|..+.+.
T Consensus 661 -~~~~~g~GLGL~Ivr~Iv~~ 680 (703)
T TIGR03785 661 -AQDQPHLGLGLYIVRLIADF 680 (703)
T ss_pred -CCCCCCccHHHHHHHHHHHH
Confidence 11122379999998877754
No 68
>PRK10815 sensor protein PhoQ; Provisional
Probab=96.03 E-value=0.0093 Score=67.09 Aligned_cols=75 Identities=27% Similarity=0.449 Sum_probs=47.1
Q ss_pred hhhHHHHHHHHhHHHhhhcCCCCeEEEEEeC-CC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCCe
Q 007002 10 GLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 86 (622)
Q Consensus 10 gL~~lv~EildNaiDe~~~g~~~~I~V~l~~-~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~~ 86 (622)
.|..++..+|+||+.+. ...|.|.+.. ++ .|+|.|||.|||.+. .+.+|...+.+.
T Consensus 378 ~l~~vl~NLi~NAik~~----~~~i~I~~~~~~~~v~I~V~D~G~GI~~e~--------~~~iF~~f~~~~--------- 436 (485)
T PRK10815 378 DFMEVMGNVLDNACKYC----LEFVEISARQTDEHLHIVVEDDGPGIPESK--------RELIFDRGQRAD--------- 436 (485)
T ss_pred HHHHHHHHHHHHHHHhc----CCcEEEEEEEeCCEEEEEEEECCCCcCHHH--------HHHHhCCcccCC---------
Confidence 45666666667766653 2356676663 33 599999999999875 334665422111
Q ss_pred eeccccccccceeeeeecCe
Q 007002 87 SVSGGLHGVGLSVVNALSES 106 (622)
Q Consensus 87 k~sgG~~GvG~s~vNalS~~ 106 (622)
....| +|+|+++|..+.+.
T Consensus 437 ~~~~G-~GLGL~Ivk~iv~~ 455 (485)
T PRK10815 437 TLRPG-QGLGLSVAREITEQ 455 (485)
T ss_pred CCCCC-cchhHHHHHHHHHH
Confidence 11123 79999998877653
No 69
>COG3850 NarQ Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]
Probab=95.97 E-value=0.014 Score=64.62 Aligned_cols=46 Identities=39% Similarity=0.564 Sum_probs=38.8
Q ss_pred hhHHHHHHHHhHHHhhhcCCCCeEEEEEeCC-C--eEEEEECCCCccCcccC
Q 007002 11 LHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHP 59 (622)
Q Consensus 11 L~~lv~EildNaiDe~~~g~~~~I~V~l~~~-g--~i~V~DnGrGIP~~~~~ 59 (622)
+..|++|.+.||+-++ .++.|+|++... | .++|+|||+|||....|
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 4678999999999986 578999999953 5 69999999999988544
No 70
>PRK09835 sensor kinase CusS; Provisional
Probab=95.89 E-value=0.01 Score=65.87 Aligned_cols=82 Identities=22% Similarity=0.304 Sum_probs=51.1
Q ss_pred CchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeC-CC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCC
Q 007002 8 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 84 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~-~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~ 84 (622)
..-|.+++.++|+||+..... ...|.|.+.. ++ .|+|.|||.|||.+. .+-+|........
T Consensus 373 ~~~l~~vl~nll~Na~~~~~~--~~~I~i~~~~~~~~~~i~v~d~G~gi~~~~--------~~~if~~f~~~~~------ 436 (482)
T PRK09835 373 PLMLRRAISNLLSNALRYTPA--GEAITVRCQEVDHQVQLVVENPGTPIAPEH--------LPRLFDRFYRVDP------ 436 (482)
T ss_pred HHHHHHHHHHHHHHHHhcCCC--CCeEEEEEEEeCCEEEEEEEECCCCcCHHH--------HHHHhCCcccCCC------
Confidence 345778888888888887533 3468777764 23 599999999999875 2335554332211
Q ss_pred CeeeccccccccceeeeeecC
Q 007002 85 GYSVSGGLHGVGLSVVNALSE 105 (622)
Q Consensus 85 ~~k~sgG~~GvG~s~vNalS~ 105 (622)
......+-.|+|++.+..+-+
T Consensus 437 ~~~~~~~g~GlGL~i~~~i~~ 457 (482)
T PRK09835 437 SRQRKGEGSGIGLAIVKSIVV 457 (482)
T ss_pred CCCCCCCCcchHHHHHHHHHH
Confidence 111111237999988766554
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=95.86 E-value=0.011 Score=61.38 Aligned_cols=82 Identities=22% Similarity=0.266 Sum_probs=52.4
Q ss_pred CchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeC-CC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCC
Q 007002 8 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 84 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~-~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~ 84 (622)
+.-|..++.++|.||++.... ...|.|.+.. ++ .++|.|||.|||.+.. +-+|..+....+
T Consensus 227 ~~~l~~vl~nll~Nai~~~~~--~~~i~i~~~~~~~~~~i~i~d~G~gi~~~~~--------~~if~~~~~~~~------ 290 (333)
T TIGR02966 227 EDELRSAFSNLVSNAIKYTPE--GGTITVRWRRDGGGAEFSVTDTGIGIAPEHL--------PRLTERFYRVDK------ 290 (333)
T ss_pred HHHHHHHHHHHHHHhheeCCC--CCeEEEEEEEcCCEEEEEEEecCCCCCHHHH--------hhhccCceecCc------
Confidence 345788999999999887433 3568887774 23 5999999999998863 234543322111
Q ss_pred CeeeccccccccceeeeeecC
Q 007002 85 GYSVSGGLHGVGLSVVNALSE 105 (622)
Q Consensus 85 ~~k~sgG~~GvG~s~vNalS~ 105 (622)
......+-.|+|++++..+.+
T Consensus 291 ~~~~~~~g~glGL~~~~~~~~ 311 (333)
T TIGR02966 291 SRSRDTGGTGLGLAIVKHVLS 311 (333)
T ss_pred ccccCCCCCcccHHHHHHHHH
Confidence 001112236899998777664
No 72
>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=95.85 E-value=0.0081 Score=70.39 Aligned_cols=77 Identities=16% Similarity=0.324 Sum_probs=52.0
Q ss_pred CchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeC-CC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCC
Q 007002 8 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 84 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~-~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~ 84 (622)
..-|.+++.++|+||+++... ...|.|++.. ++ .|+|.|||+|||.+.. .+-+|.. |...
T Consensus 577 ~~~l~~vl~nLl~NAik~~~~--~~~I~I~~~~~~~~~~i~V~D~G~Gi~~~~i-------~~~lF~p------f~~~-- 639 (679)
T TIGR02916 577 RERLERVLGHLVQNALEATPG--EGRVAIRVERECGAARIEIEDSGCGMSPAFI-------RERLFKP------FDTT-- 639 (679)
T ss_pred HHHHHHHHHHHHHHHHHhCCC--CCcEEEEEEEcCCEEEEEEEEcCCCcChHHH-------HHhcCCC------CCCC--
Confidence 355888999999999998533 3468888874 33 5999999999998741 2224443 2221
Q ss_pred CeeeccccccccceeeeeecC
Q 007002 85 GYSVSGGLHGVGLSVVNALSE 105 (622)
Q Consensus 85 ~~k~sgG~~GvG~s~vNalS~ 105 (622)
+ ++-.|+|++.+..+.+
T Consensus 640 --~--~~G~GLGL~i~~~iv~ 656 (679)
T TIGR02916 640 --K--GAGMGIGVYECRQYVE 656 (679)
T ss_pred --C--CCCcchhHHHHHHHHH
Confidence 1 1236899998876654
No 73
>PRK09467 envZ osmolarity sensor protein; Provisional
Probab=95.85 E-value=0.016 Score=63.44 Aligned_cols=77 Identities=22% Similarity=0.363 Sum_probs=50.4
Q ss_pred hhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCC---eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCCe
Q 007002 10 GLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 86 (622)
Q Consensus 10 gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g---~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~~ 86 (622)
-|..++..+|+||+... ...|.|++..++ .|+|.|||.|||.+. .+-+|...+.+.. .
T Consensus 331 ~l~~il~NLl~NA~k~~----~~~i~i~~~~~~~~~~i~V~D~G~Gi~~~~--------~~~~~~~f~~~~~------~- 391 (435)
T PRK09467 331 AIKRALANLVVNAARYG----NGWIKVSSGTEGKRAWFQVEDDGPGIPPEQ--------LKHLFQPFTRGDS------A- 391 (435)
T ss_pred HHHHHHHHHHHHHHHhC----CCeEEEEEEecCCEEEEEEEecCCCcCHHH--------HHHhcCCcccCCC------C-
Confidence 45677777777777652 467888887533 599999999999775 3345554322211 1
Q ss_pred eeccccccccceeeeeecCe
Q 007002 87 SVSGGLHGVGLSVVNALSES 106 (622)
Q Consensus 87 k~sgG~~GvG~s~vNalS~~ 106 (622)
..+ +-+|+|++.|..+.+.
T Consensus 392 ~~~-~g~GlGL~iv~~i~~~ 410 (435)
T PRK09467 392 RGS-SGTGLGLAIVKRIVDQ 410 (435)
T ss_pred CCC-CCeehhHHHHHHHHHH
Confidence 112 3389999998887754
No 74
>PRK09470 cpxA two-component sensor protein; Provisional
Probab=95.78 E-value=0.0091 Score=65.69 Aligned_cols=79 Identities=24% Similarity=0.395 Sum_probs=51.0
Q ss_pred chhhHHHHHHHHhHHHhhhcCCCCeEEEEEeC-CC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCC
Q 007002 9 RGLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 85 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~-~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~ 85 (622)
.-|.+++.++|+||+.+. .+.|.|.+.. ++ .++|+|||.|||.+. .+-+|...+.+.+-.
T Consensus 352 ~~l~~~l~nli~NA~~~~----~~~i~i~~~~~~~~~~i~V~D~G~Gi~~~~--------~~~if~~~~~~~~~~----- 414 (461)
T PRK09470 352 NALASALENIVRNALRYS----HTKIEVAFSVDKDGLTITVDDDGPGVPEEE--------REQIFRPFYRVDEAR----- 414 (461)
T ss_pred HHHHHHHHHHHHHHHHhC----CCcEEEEEEEECCEEEEEEEECCCCCCHHH--------HHHhcCCCccCCccc-----
Confidence 346778888888888763 3467777763 33 589999999999875 334665544332211
Q ss_pred eeeccccccccceeeeeecC
Q 007002 86 YSVSGGLHGVGLSVVNALSE 105 (622)
Q Consensus 86 ~k~sgG~~GvG~s~vNalS~ 105 (622)
....+-.|+|++.|+-+.+
T Consensus 415 -~~~~~g~GlGL~iv~~~v~ 433 (461)
T PRK09470 415 -DRESGGTGLGLAIVENAIQ 433 (461)
T ss_pred -CCCCCCcchhHHHHHHHHH
Confidence 1112336999998876554
No 75
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=95.61 E-value=0.014 Score=70.40 Aligned_cols=79 Identities=22% Similarity=0.389 Sum_probs=53.2
Q ss_pred CchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCC-C--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCC
Q 007002 8 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 84 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~-g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~ 84 (622)
..-|.+++..+|.||+..... ..|.|.+..+ + .|+|+|||.|||.+. .+-+|.....+.
T Consensus 511 ~~~l~~il~NLl~NAik~~~~---g~I~i~~~~~~~~~~i~V~D~G~Gi~~~~--------~~~if~~f~~~~------- 572 (921)
T PRK15347 511 SLRLRQILVNLLGNAVKFTET---GGIRLRVKRHEQQLCFTVEDTGCGIDIQQ--------QQQIFTPFYQAD------- 572 (921)
T ss_pred HHHHHHHHHHHHHHHhhcCCC---CCEEEEEEEcCCEEEEEEEEcCCCCCHHH--------HHHHhcCcccCC-------
Confidence 344778888888888887533 3588887743 3 599999999999875 334565432211
Q ss_pred CeeeccccccccceeeeeecCeE
Q 007002 85 GYSVSGGLHGVGLSVVNALSESL 107 (622)
Q Consensus 85 ~~k~sgG~~GvG~s~vNalS~~~ 107 (622)
...|-.|+|++++.-+.+.+
T Consensus 573 ---~~~~g~GLGL~i~~~~~~~~ 592 (921)
T PRK15347 573 ---THSQGTGLGLTIASSLAKMM 592 (921)
T ss_pred ---CCCCCCchHHHHHHHHHHHc
Confidence 11133799999998777654
No 76
>PRK13837 two-component VirA-like sensor kinase; Provisional
Probab=95.52 E-value=0.015 Score=69.75 Aligned_cols=94 Identities=19% Similarity=0.367 Sum_probs=59.2
Q ss_pred CchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCC---------------C---eEEEEECCCCccCcccCCCCcchhhhh
Q 007002 8 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLAD---------------N---SVSVADNGRGIPIDLHPATNKSALETV 69 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~---------------g---~i~V~DnGrGIP~~~~~~~g~~~~E~v 69 (622)
..-|.+++..+++||+..... ...|.|.+..+ | .|+|+|||+|||.+.. +-+
T Consensus 558 ~~~L~qvl~NLl~NAik~~~~--~g~I~I~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~GI~~e~~--------~~i 627 (828)
T PRK13837 558 PAELQQVLMNLCSNAAQAMDG--AGRVDISLSRAKLRAPKVLSHGVLPPGRYVLLRVSDTGAGIDEAVL--------PHI 627 (828)
T ss_pred HHHHHHHHHHHHHHHHHHccc--CCeEEEEEEEeecccccccccccCCCCCEEEEEEEECCCCCCHHHH--------HHh
Confidence 345788899999999987543 35677766532 2 5899999999998753 335
Q ss_pred heeeccCCCCCCCCCCeeeccccccccceeeeeecCeE----EEEEEe-CCEEEEEEEe
Q 007002 70 LTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESL----EVTVWR-DGMEYHQKYS 123 (622)
Q Consensus 70 ~~~l~ag~kf~~~~~~~k~sgG~~GvG~s~vNalS~~~----~V~v~r-~g~~~~q~f~ 123 (622)
|...+++ +. +-.|+|+++|..+.+.+ .|++.. .|-.+.+.+-
T Consensus 628 Fe~F~~~----------~~--~G~GLGL~i~~~iv~~~gG~i~v~s~~g~Gt~f~i~LP 674 (828)
T PRK13837 628 FEPFFTT----------RA--GGTGLGLATVHGIVSAHAGYIDVQSTVGRGTRFDVYLP 674 (828)
T ss_pred hCCcccC----------CC--CCCcchHHHHHHHHHHCCCEEEEEecCCCeEEEEEEEe
Confidence 6533211 11 33799999887766554 333322 2455555553
No 77
>COG0642 BaeS Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=95.47 E-value=0.016 Score=59.21 Aligned_cols=46 Identities=28% Similarity=0.552 Sum_probs=37.8
Q ss_pred chhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCC---eEEEEECCCCccCcc
Q 007002 9 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDL 57 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g---~i~V~DnGrGIP~~~ 57 (622)
.-|.+++..++.||+++.. ...|.|.+...+ .++|.|||+|||.+.
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 4577789999999999854 578999988643 699999999999885
No 78
>PRK10490 sensor protein KdpD; Provisional
Probab=95.46 E-value=0.02 Score=69.28 Aligned_cols=81 Identities=28% Similarity=0.431 Sum_probs=54.0
Q ss_pred CchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCC-C--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCC
Q 007002 8 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 84 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~-g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~ 84 (622)
..-|.+++..+|+||+..... .+.|.|.+..+ + .|+|+|||+|||.+. .+-+|...+++.+ .
T Consensus 776 ~~~L~qVL~NLL~NAik~s~~--g~~I~I~~~~~~~~v~I~V~D~G~GI~~e~--------~~~IFepF~~~~~-~---- 840 (895)
T PRK10490 776 GPLFERVLINLLENAVKYAGA--QAEIGIDAHVEGERLQLDVWDNGPGIPPGQ--------EQLIFDKFARGNK-E---- 840 (895)
T ss_pred HHHHHHHHHHHHHHHHHhCCC--CCeEEEEEEEeCCEEEEEEEECCCCCCHHH--------HHHhcCCCccCCC-C----
Confidence 345778888888888887533 35788877743 3 599999999999875 3446665433221 1
Q ss_pred CeeeccccccccceeeeeecCe
Q 007002 85 GYSVSGGLHGVGLSVVNALSES 106 (622)
Q Consensus 85 ~~k~sgG~~GvG~s~vNalS~~ 106 (622)
....| .|+|++++..+.+.
T Consensus 841 --~~~~G-~GLGL~Ivk~ive~ 859 (895)
T PRK10490 841 --SAIPG-VGLGLAICRAIVEV 859 (895)
T ss_pred --CCCCC-ccHHHHHHHHHHHH
Confidence 11123 79999988777654
No 79
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=95.38 E-value=0.021 Score=64.54 Aligned_cols=74 Identities=27% Similarity=0.417 Sum_probs=49.1
Q ss_pred hhhHHHHHHHHhHHHhhhcCCCCeEEEEEeC--CC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCC
Q 007002 10 GLHHLVYEILDNAVDEAQAGYASNIEVALLA--DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 85 (622)
Q Consensus 10 gL~~lv~EildNaiDe~~~g~~~~I~V~l~~--~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~ 85 (622)
-|..++.+++.||+.+... ...|.|.+.. ++ .|+|+|||+|||.+.. +.+|....+
T Consensus 500 ~l~~~~~nli~na~~~~~~--~~~i~v~~~~~~~~~~~i~v~D~G~G~~~~~~--------~~~f~~~~~---------- 559 (607)
T PRK11360 500 LLKQVLLNILINAVQAISA--RGKIRIRTWQYSDGQVAVSIEDNGCGIDPELL--------KKIFDPFFT---------- 559 (607)
T ss_pred HHHHHHHHHHHHHHHHhcC--CCeEEEEEEEcCCCEEEEEEEeCCCCCCHHHH--------hhhcCCcee----------
Confidence 4778888888888886533 3567777752 32 5999999999998752 224432211
Q ss_pred eeeccccccccceeeeeecC
Q 007002 86 YSVSGGLHGVGLSVVNALSE 105 (622)
Q Consensus 86 ~k~sgG~~GvG~s~vNalS~ 105 (622)
...+-.|+|+..++-+.+
T Consensus 560 --~~~~g~glGL~~~~~~~~ 577 (607)
T PRK11360 560 --TKAKGTGLGLALSQRIIN 577 (607)
T ss_pred --CCCCCCchhHHHHHHHHH
Confidence 112237899998877664
No 80
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=95.32 E-value=0.027 Score=68.10 Aligned_cols=94 Identities=21% Similarity=0.318 Sum_probs=59.1
Q ss_pred CchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCC---eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCC
Q 007002 8 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 84 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g---~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~ 84 (622)
+.-|.+++..+|.||+.+.. ...|.|.+..++ .|+|.|||+|||.+.. +-+|...+...
T Consensus 559 ~~~l~qil~NLl~NAik~~~---~g~I~i~~~~~~~~~~i~V~D~G~Gi~~~~~--------~~if~~f~~~~------- 620 (914)
T PRK11466 559 PRRIRQVITNLLSNALRFTD---EGSIVLRSRTDGEQWLVEVEDSGCGIDPAKL--------AEIFQPFVQVS------- 620 (914)
T ss_pred HHHHHHHHHHHHHHHHHhCC---CCeEEEEEEEcCCEEEEEEEECCCCCCHHHH--------HHHhchhhcCC-------
Confidence 34567788888888888743 346888877443 5999999999998753 33554322110
Q ss_pred CeeeccccccccceeeeeecCeE----EEEEEe-CCEEEEEEE
Q 007002 85 GYSVSGGLHGVGLSVVNALSESL----EVTVWR-DGMEYHQKY 122 (622)
Q Consensus 85 ~~k~sgG~~GvG~s~vNalS~~~----~V~v~r-~g~~~~q~f 122 (622)
...|-.|+|+++|.-+.+.+ .+.+.. .|-.+.+.+
T Consensus 621 ---~~~~g~GLGL~i~~~l~~~~gG~i~v~s~~~~Gt~f~i~l 660 (914)
T PRK11466 621 ---GKRGGTGLGLTISSRLAQAMGGELSATSTPEVGSCFCLRL 660 (914)
T ss_pred ---CCCCCCcccHHHHHHHHHHcCCEEEEEecCCCCeEEEEEE
Confidence 01133799999988877665 333322 245555555
No 81
>COG4585 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=94.95 E-value=0.041 Score=59.43 Aligned_cols=48 Identities=33% Similarity=0.475 Sum_probs=40.8
Q ss_pred CchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeC-CC--eEEEEECCCCccCccc
Q 007002 8 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLH 58 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~-~g--~i~V~DnGrGIP~~~~ 58 (622)
...|++++.|.|.|++=+ +.+++|.|++.. ++ .++|.|||+|.+++..
T Consensus 277 e~~l~rivQEaltN~~rH---a~A~~v~V~l~~~~~~l~l~V~DnG~Gf~~~~~ 327 (365)
T COG4585 277 EDALFRIVQEALTNAIRH---AQATEVRVTLERTDDELRLEVIDNGVGFDPDKE 327 (365)
T ss_pred HHHHHHHHHHHHHHHHhc---cCCceEEEEEEEcCCEEEEEEEECCcCCCcccc
Confidence 357899999999999988 478899999994 44 6999999999999864
No 82
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=94.91 E-value=0.031 Score=66.39 Aligned_cols=99 Identities=22% Similarity=0.350 Sum_probs=59.5
Q ss_pred CchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCC--C--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCC
Q 007002 8 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLAD--N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSS 83 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~--g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~ 83 (622)
..-|.+++..+|.||++... ...|.|.+..+ + .++|.|||.|||.+.. +-+|...++...-.
T Consensus 396 ~~~l~qvl~NLl~NAik~~~---~g~v~i~~~~~~~~~~~i~V~D~G~Gi~~~~~--------~~iF~~f~~~~~~~--- 461 (779)
T PRK11091 396 GTRLRQILWNLISNAVKFTQ---QGGVTVRVRYEEGDMLTFEVEDSGIGIPEDEL--------DKIFAMYYQVKDSH--- 461 (779)
T ss_pred HHHHHHHHHHHHHHHHHhCC---CCcEEEEEEEccCCEEEEEEEecCCCCCHHHH--------HHHHHHhhcccCCC---
Confidence 44578899999999998753 33566666532 2 6999999999998753 33565433321100
Q ss_pred CCeeeccccccccceeeeeecCeE----EEEEEe-CCEEEEEEE
Q 007002 84 SGYSVSGGLHGVGLSVVNALSESL----EVTVWR-DGMEYHQKY 122 (622)
Q Consensus 84 ~~~k~sgG~~GvG~s~vNalS~~~----~V~v~r-~g~~~~q~f 122 (622)
.-.. .+-.|+|+++|.-+.+.+ .|++.. .|..+.+.+
T Consensus 462 -~~~~-~~GtGLGL~i~~~iv~~~gG~i~v~s~~g~Gt~f~i~l 503 (779)
T PRK11091 462 -GGKP-ATGTGIGLAVSKRLAQAMGGDITVTSEEGKGSCFTLTI 503 (779)
T ss_pred -CCCC-CCCcchHHHHHHHHHHHcCCEEEEEecCCCeEEEEEEE
Confidence 0011 233799999888776554 333322 244555554
No 83
>PRK11644 sensory histidine kinase UhpB; Provisional
Probab=94.81 E-value=0.052 Score=61.26 Aligned_cols=44 Identities=30% Similarity=0.419 Sum_probs=34.6
Q ss_pred hhhHHHHHHHHhHHHhhhcCCCCeEEEEEeC-CC--eEEEEECCCCccCc
Q 007002 10 GLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPID 56 (622)
Q Consensus 10 gL~~lv~EildNaiDe~~~g~~~~I~V~l~~-~g--~i~V~DnGrGIP~~ 56 (622)
-+++++.|+++||+.+. .++.|.|++.. ++ .++|+|||.|||.+
T Consensus 410 ~L~ril~nlL~NAiKha---~~~~I~I~l~~~~~~i~l~V~DnG~Gi~~~ 456 (495)
T PRK11644 410 TLFRVCQEGLNNIVKHA---DASAVTLQGWQQDERLMLVIEDDGSGLPPG 456 (495)
T ss_pred HHHHHHHHHHHHHHHhC---CCCEEEEEEEEcCCEEEEEEEECCCCCCcC
Confidence 46788899999999874 34578888874 33 59999999999965
No 84
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=94.60 E-value=0.038 Score=62.07 Aligned_cols=65 Identities=35% Similarity=0.453 Sum_probs=48.5
Q ss_pred ecCCCCchhhHHHHHHHHhHHHhhhc-----CCCCeEEEEEe-CCC--eEEEEECCCCccCcccCCCCcchhhhhhe
Q 007002 3 IGSTGPRGLHHLVYEILDNAVDEAQA-----GYASNIEVALL-ADN--SVSVADNGRGIPIDLHPATNKSALETVLT 71 (622)
Q Consensus 3 iGst~~~gL~~lv~EildNaiDe~~~-----g~~~~I~V~l~-~~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~ 71 (622)
+|.-|.+-|-+.+.-++.||.++.-+ +....|.++.+ .+| ++.|.|||.|.|.+.... +.|-.+|
T Consensus 593 ~~~~D~~~l~Qvf~NliKNA~EAi~~~~~~e~~~~~i~~~~~~~~g~i~v~V~DNGkG~p~e~r~r----~~EPYvT 665 (712)
T COG5000 593 IGMADATLLGQVFGNLLKNAAEAIEAVEAEERRTALIRVSLDDADGRIVVDVIDNGKGFPRENRHR----ALEPYVT 665 (712)
T ss_pred eeecCHHHHHHHHHHHHHhHHHHhhhcccccCCcceEEEEEecCCCeEEEEEecCCCCCChHHhhh----hccCcee
Confidence 45567889999999999999998743 22336888888 477 589999999999987422 3455555
No 85
>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=94.59 E-value=0.041 Score=66.84 Aligned_cols=82 Identities=21% Similarity=0.374 Sum_probs=55.0
Q ss_pred CCchhhHHHHHHHHhHHHhhhcCCCCeEEEEEe--CCC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCC
Q 007002 7 GPRGLHHLVYEILDNAVDEAQAGYASNIEVALL--ADN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGS 82 (622)
Q Consensus 7 ~~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~--~~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~ 82 (622)
++.-|.+++..+|.||+..... ..|.|.+. .++ .|+|.|+|.|||.+. .+-+|.....+. ..
T Consensus 576 d~~~l~~il~nLi~NAik~~~~---g~i~i~~~~~~~~~~~i~V~D~G~Gi~~~~--------~~~if~~f~~~~--~~- 641 (968)
T TIGR02956 576 DGPRIRQVLINLVGNAIKFTDR---GSVVLRVSLNDDSSLLFEVEDTGCGIAEEE--------QATLFDAFTQAD--GR- 641 (968)
T ss_pred CHHHHHHHHHHHHHHHHhhCCC---CeEEEEEEEcCCCeEEEEEEeCCCCCCHHH--------HHHHHhhhhccC--CC-
Confidence 3556888999999999987533 35666665 333 499999999999875 334565433222 11
Q ss_pred CCCeeeccccccccceeeeeecCeE
Q 007002 83 SSGYSVSGGLHGVGLSVVNALSESL 107 (622)
Q Consensus 83 ~~~~k~sgG~~GvG~s~vNalS~~~ 107 (622)
... |-.|+|+++|.-+.+.+
T Consensus 642 ----~~~-~g~GLGL~i~~~l~~~~ 661 (968)
T TIGR02956 642 ----RRS-GGTGLGLAISQRLVEAM 661 (968)
T ss_pred ----CCC-CCccHHHHHHHHHHHHc
Confidence 111 33799999998887765
No 86
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=94.39 E-value=0.076 Score=60.82 Aligned_cols=43 Identities=40% Similarity=0.585 Sum_probs=33.6
Q ss_pred hhHHHHHHHHhHHHhhhcCCCCeEEEEEeCC-C--eEEEEECCCCccCc
Q 007002 11 LHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPID 56 (622)
Q Consensus 11 L~~lv~EildNaiDe~~~g~~~~I~V~l~~~-g--~i~V~DnGrGIP~~ 56 (622)
|.+++.|+|.||+-+. .++.|.|.+..+ + .++|.|||+|||.+
T Consensus 470 l~~il~ell~NA~kha---~a~~i~V~~~~~~~~~~l~V~D~G~Gi~~~ 515 (569)
T PRK10600 470 LLQIAREALSNALKHA---QASEVVVTVAQNQNQVKLSVQDNGCGVPEN 515 (569)
T ss_pred HHHHHHHHHHHHHHhC---CCCeEEEEEEEcCCEEEEEEEECCCCCCcc
Confidence 6788888888888874 345788888743 3 58999999999965
No 87
>PRK13557 histidine kinase; Provisional
Probab=94.36 E-value=0.17 Score=56.66 Aligned_cols=95 Identities=20% Similarity=0.345 Sum_probs=57.8
Q ss_pred chhhHHHHHHHHhHHHhhhcCCCCeEEEEEe----------------CCC--eEEEEECCCCccCcccCCCCcchhhhhh
Q 007002 9 RGLHHLVYEILDNAVDEAQAGYASNIEVALL----------------ADN--SVSVADNGRGIPIDLHPATNKSALETVL 70 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~g~~~~I~V~l~----------------~~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~ 70 (622)
.-|.+++..++.||+++...+ ..|.|... .++ .|+|.|||+|||.+.. +.+|
T Consensus 276 ~~l~~vl~nll~NA~~~~~~~--~~i~i~~~~~~~~~~~~~~~~~~~~~~~~~i~v~D~G~Gi~~~~~--------~~if 345 (540)
T PRK13557 276 TQAEVALLNVLINARDAMPEG--GRVTIRTRNVEIEDEDLAMYHGLPPGRYVSIAVTDTGSGMPPEIL--------ARVM 345 (540)
T ss_pred HHHHHHHHHHHHHHHHhcccC--CeEEEEEeeeccCccccccccCCCCCCEEEEEEEcCCCCCCHHHH--------Hhcc
Confidence 447888999999999986443 34555543 112 5999999999998753 3355
Q ss_pred eeeccCCCCCCCCCCeeeccccccccceeeeeecCe----EEEEEEe-CCEEEEEEEe
Q 007002 71 TVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSES----LEVTVWR-DGMEYHQKYS 123 (622)
Q Consensus 71 ~~l~ag~kf~~~~~~~k~sgG~~GvG~s~vNalS~~----~~V~v~r-~g~~~~q~f~ 123 (622)
...++.. ..++-.|+|++++.-+.+. +.+++.. .|-.+++.+-
T Consensus 346 ~~~~~~~----------~~~~g~GlGL~i~~~~v~~~gG~i~~~s~~~~G~~f~i~lP 393 (540)
T PRK13557 346 DPFFTTK----------EEGKGTGLGLSMVYGFAKQSGGAVRIYSEVGEGTTVRLYFP 393 (540)
T ss_pred CCCcccC----------CCCCCCCccHHHHHHHHHHCCCEEEEEecCCCceEEEEEee
Confidence 5433221 1112368888877655544 3444433 2455666664
No 88
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=94.20 E-value=0.05 Score=66.11 Aligned_cols=83 Identities=24% Similarity=0.383 Sum_probs=52.8
Q ss_pred CchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeC-CC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCC
Q 007002 8 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 84 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~-~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~ 84 (622)
..-|.+++..+|+||+.....| .|.|.+.. ++ .|+|.|+|.|||.+.. +-+|........
T Consensus 560 ~~~L~qvl~NLl~NAik~t~~G---~I~I~v~~~~~~l~i~V~DtG~GI~~e~~--------~~lFepF~~~~~------ 622 (924)
T PRK10841 560 PMRLQQVISNLLSNAIKFTDTG---CIVLHVRVDGDYLSFRVRDTGVGIPAKEV--------VRLFDPFFQVGT------ 622 (924)
T ss_pred HHHHHHHHHHHHHHHHhhCCCC---cEEEEEEEeCCEEEEEEEEcCcCCCHHHH--------HHHhcccccCCC------
Confidence 3457888999999999875333 46666653 33 5899999999998752 335554332211
Q ss_pred CeeeccccccccceeeeeecCeE
Q 007002 85 GYSVSGGLHGVGLSVVNALSESL 107 (622)
Q Consensus 85 ~~k~sgG~~GvG~s~vNalS~~~ 107 (622)
......+-.|+|+++|.-+.+.+
T Consensus 623 ~~~~~~~GtGLGL~I~k~lv~~~ 645 (924)
T PRK10841 623 GVQRNFQGTGLGLAICEKLINMM 645 (924)
T ss_pred CCCCCCCCeehhHHHHHHHHHHC
Confidence 11111122799999988777544
No 89
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=94.20 E-value=0.036 Score=58.41 Aligned_cols=79 Identities=27% Similarity=0.452 Sum_probs=56.3
Q ss_pred CCchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCC---eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCC
Q 007002 7 GPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSS 83 (622)
Q Consensus 7 ~~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g---~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~ 83 (622)
++.-+.++++-||.||+--.-+| .+|.|.+...+ .|+|.|.|-|||... ++-+|.+.....|
T Consensus 339 D~DK~tQVldNii~NA~KYsP~G--g~Itv~~~~~~~~v~iSI~D~G~gIPk~d--------~~~iFdrfyRvdk----- 403 (459)
T COG5002 339 DPDKMTQVLDNIISNALKYSPDG--GRITVSVKQRETWVEISISDQGLGIPKED--------LEKIFDRFYRVDK----- 403 (459)
T ss_pred ChhHHHHHHHHHHHHHhhcCCCC--CeEEEEEeeeCcEEEEEEccCCCCCCchh--------HHHHHHHHhhhhh-----
Confidence 45677888888888888765454 67888888533 699999999999875 4558877555543
Q ss_pred CCeeeccccccccceeee
Q 007002 84 SGYSVSGGLHGVGLSVVN 101 (622)
Q Consensus 84 ~~~k~sgG~~GvG~s~vN 101 (622)
+-..++|--|+|++.+-
T Consensus 404 -ARsR~~gGTGLGLaIak 420 (459)
T COG5002 404 -ARSRKMGGTGLGLAIAK 420 (459)
T ss_pred -hhhhcCCCCchhHHHHH
Confidence 22334555788887653
No 90
>PRK10547 chemotaxis protein CheA; Provisional
Probab=94.15 E-value=0.08 Score=61.65 Aligned_cols=43 Identities=19% Similarity=0.392 Sum_probs=31.9
Q ss_pred HHHHHHhHHHhhhc--------C--CCCeEEEEEeCCC---eEEEEECCCCccCcc
Q 007002 15 VYEILDNAVDEAQA--------G--YASNIEVALLADN---SVSVADNGRGIPIDL 57 (622)
Q Consensus 15 v~EildNaiDe~~~--------g--~~~~I~V~l~~~g---~i~V~DnGrGIP~~~ 57 (622)
+..+|.||+|+.+. | ...+|.|....+| .|+|.|||+|||.+.
T Consensus 390 L~hLirNAidHgie~p~~R~~~gkp~~G~I~l~a~~~~~~v~I~V~DdG~GId~e~ 445 (670)
T PRK10547 390 LTHLVRNSLDHGIELPEKRLAAGKNSVGNLILSAEHQGGNICIEVTDDGAGLNRER 445 (670)
T ss_pred HHHHHHHHHHhhccchhhHHhcCCCCCCceEEEEEEcCCEEEEEEEeCCCCCCHHH
Confidence 34899999998532 2 2456888887533 499999999999864
No 91
>COG2172 RsbW Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]
Probab=93.73 E-value=0.24 Score=46.57 Aligned_cols=84 Identities=26% Similarity=0.270 Sum_probs=55.8
Q ss_pred hhhHHHHHHHHhHHHhhhcCCC--CeEEEEEe--CCC-eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCC
Q 007002 10 GLHHLVYEILDNAVDEAQAGYA--SNIEVALL--ADN-SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 84 (622)
Q Consensus 10 gL~~lv~EildNaiDe~~~g~~--~~I~V~l~--~~g-~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~ 84 (622)
=+...+-|++.|++-++.++.. ..|.|... ++. .|+|+|.|.||+.-. ..+... |
T Consensus 40 ~l~~av~E~~~N~v~Ha~~~~~~~g~I~i~~~~~~~~~~i~i~D~G~~~~~~~----------~~~~~~-----~----- 99 (146)
T COG2172 40 DLAIAVSEALTNAVKHAYKLDPSEGEIRIEVSLDDGKLEIRIWDQGPGIEDLE----------ESLGPG-----D----- 99 (146)
T ss_pred HHHHHHHHHHHHHHHHHhhcCCCCceEEEEEEEcCCeEEEEEEeCCCCCCCHH----------HhcCCC-----C-----
Confidence 3567899999999999876432 35555555 333 699999997766432 122211 1
Q ss_pred Ceeecccc--ccccceeeeeecCeEEEEEEeCC
Q 007002 85 GYSVSGGL--HGVGLSVVNALSESLEVTVWRDG 115 (622)
Q Consensus 85 ~~k~sgG~--~GvG~s~vNalS~~~~V~v~r~g 115 (622)
....++ .|+|+.++.-+...|+++...++
T Consensus 100 --~~~~~~~~~G~Gl~l~~~~~D~~~~~~~~~~ 130 (146)
T COG2172 100 --TTAEGLQEGGLGLFLAKRLMDEFSYERSEDG 130 (146)
T ss_pred --CCCcccccccccHHHHhhhheeEEEEeccCC
Confidence 111122 58999999999999999876666
No 92
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=93.68 E-value=0.068 Score=64.47 Aligned_cols=83 Identities=23% Similarity=0.407 Sum_probs=48.7
Q ss_pred hhhHHHHHHHHhHHHhhhcCCCCeEEEEEeC--CC----eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCC
Q 007002 10 GLHHLVYEILDNAVDEAQAGYASNIEVALLA--DN----SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSS 83 (622)
Q Consensus 10 gL~~lv~EildNaiDe~~~g~~~~I~V~l~~--~g----~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~ 83 (622)
-|.+++..+|.||+.....| .-.|.|.+.. ++ .|+|.|||.|||.+.. +-+|.....+.+
T Consensus 408 ~l~~vl~NLl~NAik~~~~g-~v~i~v~~~~~~~~~~~~~i~V~D~G~Gi~~~~~--------~~if~~f~~~~~----- 473 (919)
T PRK11107 408 RLQQIITNLVGNAIKFTESG-NIDILVELRALSNTKVQLEVQIRDTGIGISERQQ--------SQLFQAFRQADA----- 473 (919)
T ss_pred HHHHHHHHHHHHHhhcCCCC-cEEEEEEEEecCCCeeEEEEEEEEeCCCcCHHHH--------HHHhhhhccCCC-----
Confidence 46778888888888775333 1233444332 22 4899999999998753 335543322211
Q ss_pred CCeeeccccccccceeeeeecCeE
Q 007002 84 SGYSVSGGLHGVGLSVVNALSESL 107 (622)
Q Consensus 84 ~~~k~sgG~~GvG~s~vNalS~~~ 107 (622)
......|-.|+|+++|.-+.+.+
T Consensus 474 -~~~~~~~g~GLGL~i~~~i~~~~ 496 (919)
T PRK11107 474 -SISRRHGGTGLGLVITQKLVNEM 496 (919)
T ss_pred -CCCCCCCCcchhHHHHHHHHHHh
Confidence 11111234899999887766543
No 93
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=93.46 E-value=0.24 Score=59.83 Aligned_cols=99 Identities=16% Similarity=0.284 Sum_probs=60.8
Q ss_pred CCchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeC--C--C--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCC
Q 007002 7 GPRGLHHLVYEILDNAVDEAQAGYASNIEVALLA--D--N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFG 80 (622)
Q Consensus 7 ~~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~--~--g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~ 80 (622)
+..-|.+++.-+|.||+.....| .|.|.+.. + + .|+|.|+|.|||.+.. +-+|....+....
T Consensus 562 D~~~L~QVL~NLL~NAik~t~~G---~I~I~v~~~~~~~~~l~I~V~DtG~GI~~e~l--------~~IFePF~t~~~~- 629 (894)
T PRK10618 562 DRDALRKILLLLLNYAITTTAYG---KITLEVDQDESSPDRLTIRILDTGAGVSIKEL--------DNLHFPFLNQTQG- 629 (894)
T ss_pred cHHHHHHHHHHHHHHHHHhCCCC---eEEEEEEEccCCCcEEEEEEEECCCCCCHHHH--------HHhcCccccCCCC-
Confidence 34568889999999999875333 57776652 2 2 5999999999998853 2355433322110
Q ss_pred CCCCCeeeccccccccceeeeeecCeE--EEEEE--e-CCEEEEEEEe
Q 007002 81 GSSSGYSVSGGLHGVGLSVVNALSESL--EVTVW--R-DGMEYHQKYS 123 (622)
Q Consensus 81 ~~~~~~k~sgG~~GvG~s~vNalS~~~--~V~v~--r-~g~~~~q~f~ 123 (622)
+ +...| .|+|+++|.-+.+.+ ++++. . .|-.+.+.+-
T Consensus 630 ~-----~~~~G-tGLGLaI~k~Lve~~GG~I~v~S~~g~GT~F~I~LP 671 (894)
T PRK10618 630 D-----RYGKA-SGLTFFLCNQLCRKLGGHLTIKSREGLGTRYSIHLK 671 (894)
T ss_pred C-----CCCCC-cChhHHHHHHHHHHcCCEEEEEECCCCcEEEEEEEE
Confidence 0 11223 799999998887765 23332 2 2455655553
No 94
>PRK13560 hypothetical protein; Provisional
Probab=93.33 E-value=0.13 Score=60.87 Aligned_cols=46 Identities=33% Similarity=0.509 Sum_probs=36.3
Q ss_pred hhHHHHHHHHhHHHhhhcC-CCCeEEEEEeCC--C--eEEEEECCCCccCc
Q 007002 11 LHHLVYEILDNAVDEAQAG-YASNIEVALLAD--N--SVSVADNGRGIPID 56 (622)
Q Consensus 11 L~~lv~EildNaiDe~~~g-~~~~I~V~l~~~--g--~i~V~DnGrGIP~~ 56 (622)
+..++.++|.||+.++..+ ....|.|.+... + .|+|.|||.|||.+
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 4568899999999987543 356788888743 3 58999999999975
No 95
>COG4192 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]
Probab=93.16 E-value=0.09 Score=57.19 Aligned_cols=79 Identities=28% Similarity=0.494 Sum_probs=55.2
Q ss_pred CchhhHHHHHHHHhHHHhhhcCCCCeEEEEEeC-CC---eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCC
Q 007002 8 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSS 83 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~-~g---~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~ 83 (622)
.-.+.+++--++.||+|++.. +++.|.|+... .+ +|.|.|||.|-|++-.++ .|+ .+++||--
T Consensus 562 ~v~ieQVlvNl~~NaldA~~h-~~p~i~~~~~~~~~e~l~i~i~DnGqGwp~~l~dk--------Ll~-PFttsK~v--- 628 (673)
T COG4192 562 AVSIEQVLVNLIVNALDASTH-FAPWIKLIALGTEQEMLRIAIIDNGQGWPHELVDK--------LLT-PFTTSKEV--- 628 (673)
T ss_pred hhhHHHHHHHHHHHHHhhhcc-CCceEEEEeecCcccceEEEEecCCCCCchhHHHH--------hcC-Cccccccc---
Confidence 356788999999999998744 35889988885 23 799999999999876543 232 24444421
Q ss_pred CCeeeccccccccceeeeeecCeE
Q 007002 84 SGYSVSGGLHGVGLSVVNALSESL 107 (622)
Q Consensus 84 ~~~k~sgG~~GvG~s~vNalS~~~ 107 (622)
| =|+|+|.+..+-+.+
T Consensus 629 -------g-LGlGLSIsqSlmeqm 644 (673)
T COG4192 629 -------G-LGLGLSISQSLMEQM 644 (673)
T ss_pred -------c-cccchhHHHHHHHHh
Confidence 2 378888776665544
No 96
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=92.92 E-value=0.17 Score=63.24 Aligned_cols=83 Identities=20% Similarity=0.446 Sum_probs=51.6
Q ss_pred CchhhHHHHHHHHhHHHhhhcCCCCeEEEEEe---CCC---eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCC
Q 007002 8 PRGLHHLVYEILDNAVDEAQAGYASNIEVALL---ADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGG 81 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~~~g~~~~I~V~l~---~~g---~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~ 81 (622)
+.-|.+++..+|+||++....| .-.|.+... .++ .|+|.|||.|||.+.. +-+|....++. ..
T Consensus 826 ~~~l~qvl~NLl~NAik~~~~g-~i~i~~~~~~~~~~~~~~~i~V~D~G~Gi~~~~~--------~~iF~~f~~~~-~~- 894 (1197)
T PRK09959 826 PQAFKQVLSNLLSNALKFTTEG-AVKITTSLGHIDDNHAVIKMTIMDSGSGLSQEEQ--------QQLFKRYSQTS-AG- 894 (1197)
T ss_pred HHHHHHHHHHHHHHHHHhCCCC-CEEEEEEEeeecCCceEEEEEEEEcCCCCCHHHH--------HHhhccccccc-cC-
Confidence 3468899999999999986443 223333221 222 4799999999998753 33555433221 11
Q ss_pred CCCCeeeccccccccceeeeeecCeE
Q 007002 82 SSSGYSVSGGLHGVGLSVVNALSESL 107 (622)
Q Consensus 82 ~~~~~k~sgG~~GvG~s~vNalS~~~ 107 (622)
...+| .|+|+++|.-+.+.+
T Consensus 895 -----~~~~G-~GLGL~i~~~iv~~~ 914 (1197)
T PRK09959 895 -----RQQTG-SGLGLMICKELIKNM 914 (1197)
T ss_pred -----CCCCC-cCchHHHHHHHHHHc
Confidence 11223 799999988777654
No 97
>KOG0787 consensus Dehydrogenase kinase [Signal transduction mechanisms]
Probab=92.11 E-value=0.18 Score=53.66 Aligned_cols=90 Identities=20% Similarity=0.389 Sum_probs=59.4
Q ss_pred CchhhHHHHHHHHhHHHhhhc--C---C-CCeEEEEEeC---CCeEEEEECCCCccCcccCCCCcchhhhhheeeccCCC
Q 007002 8 PRGLHHLVYEILDNAVDEAQA--G---Y-ASNIEVALLA---DNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGK 78 (622)
Q Consensus 8 ~~gL~~lv~EildNaiDe~~~--g---~-~~~I~V~l~~---~g~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~k 78 (622)
+.=|+|++.||+.||.-+.+. + . -+.|+|++-. |=+|.|+|-|-|||-+.. +.+|.-..++..
T Consensus 258 PshL~ymlfElfKNamrATve~h~~~~~~~ppI~V~V~~gdeDl~ikISDrGGGV~~~~~--------drlf~Y~ySTa~ 329 (414)
T KOG0787|consen 258 PSHLYYMLFELFKNAMRATVEHHGDDGDELPPIKVTVAKGDEDLLIKISDRGGGVPHRDI--------DRLFSYMYSTAP 329 (414)
T ss_pred chHHHHHHHHHHHHHHHHHHHHhccCCCCCCCeEEEEecCCcceEEEEecCCCCcChhHH--------HHHHhhhcccCC
Confidence 356899999999999998875 2 2 4558888873 347999999999998752 334544443322
Q ss_pred CCCCCCC-e-eeccccccccceeeeeecCeE
Q 007002 79 FGGSSSG-Y-SVSGGLHGVGLSVVNALSESL 107 (622)
Q Consensus 79 f~~~~~~-~-k~sgG~~GvG~s~vNalS~~~ 107 (622)
-...++. . ..+| -|.|++..-+++++|
T Consensus 330 ~~~~d~~~~~plaG--fG~GLPisrlYa~yf 358 (414)
T KOG0787|consen 330 APSSDNNRTAPLAG--FGFGLPISRLYARYF 358 (414)
T ss_pred CCCCCCCCcCcccc--cccCCcHHHHHHHHh
Confidence 1111111 1 2222 578889888888776
No 98
>KOG0020 consensus Endoplasmic reticulum glucose-regulated protein (GRP94/endoplasmin), HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=92.08 E-value=0.35 Score=52.95 Aligned_cols=156 Identities=18% Similarity=0.248 Sum_probs=91.1
Q ss_pred HHHHHHHhHHHhh--hc----------CCCC--eEEEEEeC-CCeEEEEECCCCccCcccCC-CC---cchhhhhheeec
Q 007002 14 LVYEILDNAVDEA--QA----------GYAS--NIEVALLA-DNSVSVADNGRGIPIDLHPA-TN---KSALETVLTVLH 74 (622)
Q Consensus 14 lv~EildNaiDe~--~~----------g~~~--~I~V~l~~-~g~i~V~DnGrGIP~~~~~~-~g---~~~~E~v~~~l~ 74 (622)
.++|+|.||-|+. ++ |... .|+|..|. .....|.|.|.||.-+..-+ -| ++.-.-.+..+.
T Consensus 99 FLRELISNASDAlDKIRllaLtd~~~L~~~~el~ikIK~Dke~klLhi~DtGiGMT~edLi~NLGTIAkSGTs~Fl~Km~ 178 (785)
T KOG0020|consen 99 FLRELISNASDALDKIRLLALTDKDVLGETEELEIKIKADKEKKLLHITDTGIGMTREDLIKNLGTIAKSGTSEFLEKMQ 178 (785)
T ss_pred HHHHHHhhhhhhhhheeeeeccChhHhCcCcceEEEEeechhhCeeeEecccCCccHHHHHHhhhhhhcccHHHHHHHhh
Confidence 4789999999975 22 2222 35555553 44799999999998764311 01 111111222222
Q ss_pred cCCCCCCCCCCeeeccccccccceeeeeecCeEEEEEEeC-CEEEEEEEecCcccccceeeccCCCCCCCCCeEEEEEeC
Q 007002 75 AGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRD-GMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPD 153 (622)
Q Consensus 75 ag~kf~~~~~~~k~sgG~~GvG~s~vNalS~~~~V~v~r~-g~~~~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~PD 153 (622)
..+.-.+ .-.---|+.|||.-++=.++.+..|++..+ ...|..+-..+.-.. ...|.+.+-.+||.|+...-
T Consensus 179 ~~~~~~~---~~~dlIGQFGVGFYsAfLVAD~vvVtsKhNdD~QyiWESdan~Fsv----seDprg~tL~RGt~ItL~Lk 251 (785)
T KOG0020|consen 179 DSGDSEG---LMNDLIGQFGVGFYSAFLVADRVVVTSKHNDDSQYIWESDANSFSV----SEDPRGNTLGRGTEITLYLK 251 (785)
T ss_pred ccccchh---hHHHHHHhcchhhhhhhhhcceEEEEeccCCccceeeeccCcceee----ecCCCCCcccCccEEEEEeh
Confidence 2222111 112335899999999999999999998754 355555544443211 11123667789999998621
Q ss_pred cccccccccCCHHHHHHHHHHHh-ccC
Q 007002 154 KQVFTTAIQFDHNTIAGRIRELA-FLN 179 (622)
Q Consensus 154 ~~iF~~~~~~~~~~i~~rl~elA-~ln 179 (622)
-+- ..-+..++++..++.++ |+|
T Consensus 252 eEA---~dyLE~dtlkeLvkkYSqFIN 275 (785)
T KOG0020|consen 252 EEA---GDYLEEDTLKELVKKYSQFIN 275 (785)
T ss_pred hhh---hhhcchhHHHHHHHHHHHhcC
Confidence 111 11256788888888877 444
No 99
>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=91.72 E-value=0.21 Score=40.36 Aligned_cols=71 Identities=35% Similarity=0.419 Sum_probs=46.7
Q ss_pred eEEEEeccCCCccccccCCCCceEeeccCCccccccccCHHHHhhCHhHHHHHHHhccCccCCcCccccccceeEEEeec
Q 007002 404 EIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTD 483 (622)
Q Consensus 404 eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKilNv~ka~~~ki~~n~Ei~~li~~lG~~~~~~~~~~~~LRY~kiiimtD 483 (622)
.++||||++-.-+..+.... ...++++.|+..+ .....+...++. +.+|+|++|
T Consensus 2 ~viivEg~~d~~~l~~~~~~-~~~~~~~~G~~~~------------~~~~~~~~~~~~-------------~~~v~i~~D 55 (83)
T cd00188 2 KLIIVEGPSDALALAQAGGY-GGAVVALGGHALN------------KTRELLKRLLGE-------------AKEVIIATD 55 (83)
T ss_pred EEEEEecHHHHHHHHHHcCC-CEEEEEEccEEcH------------HHHHHHHHHhcC-------------CCEEEEEcC
Confidence 58999999987666555443 3688999998776 111222222211 578999999
Q ss_pred CCcCCcchhhhHHHHHH
Q 007002 484 ADVDGAHIRTLLLTFFY 500 (622)
Q Consensus 484 aD~DG~HI~~Llltff~ 500 (622)
.|..|..+...+.....
T Consensus 56 ~D~~g~~~~~~~~~~~~ 72 (83)
T cd00188 56 ADREGEAIALRLLELLK 72 (83)
T ss_pred CChhHHHHHHHHHHHHH
Confidence 99999866555544433
No 100
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=91.69 E-value=0.28 Score=51.14 Aligned_cols=49 Identities=24% Similarity=0.428 Sum_probs=33.6
Q ss_pred chhhHHHHHHHHhHHHhhhc--CC--------CCeEEEEEeCC-----CeEEEEECCCCccCcc
Q 007002 9 RGLHHLVYEILDNAVDEAQA--GY--------ASNIEVALLAD-----NSVSVADNGRGIPIDL 57 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~--g~--------~~~I~V~l~~~-----g~i~V~DnGrGIP~~~ 57 (622)
.=|.++|+-||.||+.+.-. .. -+-+.+++... -.+.|.|||+|||.+.
T Consensus 240 DqliQv~LNlVrNAaqA~~~~~~~~g~I~LrTR~~~q~~i~g~r~rl~l~leViDNGPGVP~~L 303 (363)
T COG3852 240 DQLIQVFLNLVRNAAQALGGRADEGGEIILRTRTGIQLTIAGTRYRLALPLEVIDNGPGVPPDL 303 (363)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCceEEEEeccceEEEccCceeEeeeeeEEecCCCCCChHH
Confidence 45789999999999987531 11 12244455421 0588999999999886
No 101
>PRK10935 nitrate/nitrite sensor protein NarQ; Provisional
Probab=91.21 E-value=0.4 Score=54.43 Aligned_cols=43 Identities=37% Similarity=0.459 Sum_probs=32.4
Q ss_pred hhHHHHHHHHhHHHhhhcCCCCeEEEEEeC--CC--eEEEEECCCCccCc
Q 007002 11 LHHLVYEILDNAVDEAQAGYASNIEVALLA--DN--SVSVADNGRGIPID 56 (622)
Q Consensus 11 L~~lv~EildNaiDe~~~g~~~~I~V~l~~--~g--~i~V~DnGrGIP~~ 56 (622)
+.+++.|+|.||+.+. ....|.|.+.. ++ .++|.|||+|||.+
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 5677888888888763 34578888763 34 58999999999954
No 102
>COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]
Probab=91.00 E-value=0.35 Score=51.34 Aligned_cols=46 Identities=28% Similarity=0.461 Sum_probs=39.0
Q ss_pred chhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCC---eEEEEECCCCccCcc
Q 007002 9 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDL 57 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g---~i~V~DnGrGIP~~~ 57 (622)
--|++++.|.+.|-+-++ .++.|.|.+..++ -.+|+|||.|+|.+.
T Consensus 409 vTLyRl~QE~LNNI~KHA---~AS~V~i~l~~~~e~l~Lei~DdG~Gl~~~~ 457 (497)
T COG3851 409 VTLYRLCQELLNNICKHA---DASAVTIQLWQQDERLMLEIEDDGSGLPPGS 457 (497)
T ss_pred EeHHHHHHHHHHHHHhcc---ccceEEEEEeeCCcEEEEEEecCCcCCCCCC
Confidence 458999999999998875 4778999999765 389999999999884
No 103
>PRK13559 hypothetical protein; Provisional
Probab=89.32 E-value=0.6 Score=49.77 Aligned_cols=47 Identities=15% Similarity=0.223 Sum_probs=34.8
Q ss_pred hhhHHHHHHHHhHHHhhh-cCCCCeEEEEE--eC-CC--eEEEEECCCCccCc
Q 007002 10 GLHHLVYEILDNAVDEAQ-AGYASNIEVAL--LA-DN--SVSVADNGRGIPID 56 (622)
Q Consensus 10 gL~~lv~EildNaiDe~~-~g~~~~I~V~l--~~-~g--~i~V~DnGrGIP~~ 56 (622)
.|..++.|++.||+.... ......|.|.+ .. ++ .++|.|||.|+|.+
T Consensus 267 ~l~~vl~nLi~NA~k~~~~~~~~g~i~v~~~~~~~~~~~~i~v~d~G~~~~~~ 319 (361)
T PRK13559 267 PLGLVLHELAVNAIKHGALSADQGRISISWKPSPEGAGFRIDWQEQGGPTPPK 319 (361)
T ss_pred HHHHHHHHHHHhHHHhccccCCCcEEEEEEEecCCCCeEEEEEECCCCCCCCC
Confidence 478899999999998732 22246888888 43 33 68889999887755
No 104
>KOG0019 consensus Molecular chaperone (HSP90 family) [Posttranslational modification, protein turnover, chaperones]
Probab=88.49 E-value=0.73 Score=51.98 Aligned_cols=161 Identities=18% Similarity=0.201 Sum_probs=93.5
Q ss_pred HHHHHHHhHHHhhh--c-----CC---CCe--EEEEEeC-CCeEEEEECCCCccCcccCCCCcchhhhhheee-ccCCC-
Q 007002 14 LVYEILDNAVDEAQ--A-----GY---ASN--IEVALLA-DNSVSVADNGRGIPIDLHPATNKSALETVLTVL-HAGGK- 78 (622)
Q Consensus 14 lv~EildNaiDe~~--~-----g~---~~~--I~V~l~~-~g~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l-~ag~k- 78 (622)
-++|+|.||-|+.- + +. ... |.++-+. ++.+++.|.|.||.-+.... -+|++ ..|+|
T Consensus 61 FlRELISNaSDAldKiRy~~lt~~~~~~~~l~I~i~~nk~~~tlti~DtGIGMTk~dLvn--------nLGTIAkSGtK~ 132 (656)
T KOG0019|consen 61 FLRELISNASDALEKLRYLELKGDEKALPELEIRIITNKDKRTITIQDTGIGMTKEDLVN--------NLGTIAKSGSKA 132 (656)
T ss_pred HHHhhhccccchHHHHHHHhhcCccccccceeEEeccCCCcceEEEEecCCCcCHHHHHh--------hhhhhhhcccHH
Confidence 47899999999862 2 11 233 4445453 57899999999998765322 12222 23333
Q ss_pred CCCC---CCCeeeccccccccceeeeeecCeEEEEEEeCC-EEEEEEEecCcccccceeeccCCCCCCCCCeEEEEEeCc
Q 007002 79 FGGS---SSGYSVSGGLHGVGLSVVNALSESLEVTVWRDG-MEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDK 154 (622)
Q Consensus 79 f~~~---~~~~k~sgG~~GvG~s~vNalS~~~~V~v~r~g-~~~~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~PD~ 154 (622)
|-.. ...-..--|+.|||.-.+.+.+++..|++..+. ..|..++..|..- .... ...-.+||+|..+---
T Consensus 133 Fmealkea~ad~~~IGQFGvGFYSaylVAdkV~V~tk~~~~e~y~Wes~~~gs~-~v~~-----~~~~~rGTki~l~lKe 206 (656)
T KOG0019|consen 133 FLEALKEAEAESNLIGQFGVGFYSAFMVADRVVVTTRHPADEGLQWTSNGRGSY-EIAE-----ASGLRTGTKIVIHLKE 206 (656)
T ss_pred HHHHHHhcccchhhhhhcccchhhhhhhhheeEEeeccCCCcceeeecCCCCce-EEee-----ccCccccceEEeeehh
Confidence 2110 001234569999999999999999999887543 3455555443321 1111 2236799999875100
Q ss_pred ccccccccCCHHHHHHHHHHHhccCCCcEEEEeecCCC
Q 007002 155 QVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSD 192 (622)
Q Consensus 155 ~iF~~~~~~~~~~i~~rl~elA~lnpgl~I~l~d~r~~ 192 (622)
-+ ..-.+.++|++-+...+. +=|..|+|+.++.+
T Consensus 207 -~~--~ey~ee~rikeiVKK~S~-Fv~yPI~l~~ek~N 240 (656)
T KOG0019|consen 207 -GD--CEFLEEKRIKEVVKKYSN-FVSYPIYLNGERVN 240 (656)
T ss_pred -hh--hhhccHhHHHHHHhhccc-cccccchhhhhhhh
Confidence 00 011345666666666553 23566788877754
No 105
>PF14501 HATPase_c_5: GHKL domain
Probab=87.10 E-value=2.2 Score=36.96 Aligned_cols=72 Identities=19% Similarity=0.320 Sum_probs=47.3
Q ss_pred hhhHHHHHHHHhHHHhhhcCC-CCeEEEEEeC-CC--eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCC
Q 007002 10 GLHHLVYEILDNAVDEAQAGY-ASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 85 (622)
Q Consensus 10 gL~~lv~EildNaiDe~~~g~-~~~I~V~l~~-~g--~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~ 85 (622)
-|..++--++|||++++..-. ...|.|.+.. +| .|+|.+.-.. +. ..+. .
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 477889999999999986532 6789998884 45 4777886322 11 0001 0
Q ss_pred eeeccccccccceeeeeecCeE
Q 007002 86 YSVSGGLHGVGLSVVNALSESL 107 (622)
Q Consensus 86 ~k~sgG~~GvG~s~vNalS~~~ 107 (622)
.+..++-||+|++.+..+-+..
T Consensus 59 ~~~~~~~~G~GL~~v~~i~~~y 80 (100)
T PF14501_consen 59 SSSKKKGHGIGLKNVKKILEKY 80 (100)
T ss_pred cccCCCCCCcCHHHHHHHHHHC
Confidence 1233456999999988776543
No 106
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=86.41 E-value=0.45 Score=55.93 Aligned_cols=83 Identities=28% Similarity=0.392 Sum_probs=48.5
Q ss_pred HHHhHHHhhhc--------C--CCCeEEEEEeCCC---eEEEEECCCCccCcccCC----CCcchhhhh--he-----ee
Q 007002 18 ILDNAVDEAQA--------G--YASNIEVALLADN---SVSVADNGRGIPIDLHPA----TNKSALETV--LT-----VL 73 (622)
Q Consensus 18 ildNaiDe~~~--------g--~~~~I~V~l~~~g---~i~V~DnGrGIP~~~~~~----~g~~~~E~v--~~-----~l 73 (622)
+|-||+|+-+. | ...+|.+.-...| .|+|+|||+||..+.... .|.-.++.+ ++ .|
T Consensus 440 LvRNAvDHGIE~pE~R~a~GKp~~G~I~L~A~~~gn~ivIev~DDG~Gid~ekI~~KAiErGli~~~~a~~lSd~Ei~~L 519 (716)
T COG0643 440 LVRNAVDHGIETPEERRAAGKPEEGTITLSAYHEGNNIVIEVSDDGAGIDREKIREKAIERGLITEEEAETLSDEEILNL 519 (716)
T ss_pred HHhcchhccCCCHHHHHHcCCCCcceEEEEEEcCCCeEEEEEeeCCCCCCHHHHHHHHHHcCCCChHHhccCCHHHHHHH
Confidence 56799998752 4 3556777777555 599999999999986432 233222221 10 11
Q ss_pred ccCCCCCCCCCCeeeccccccccceeeee
Q 007002 74 HAGGKFGGSSSGYSVSGGLHGVGLSVVNA 102 (622)
Q Consensus 74 ~ag~kf~~~~~~~k~sgG~~GvG~s~vNa 102 (622)
..-.-|...+..--+|| +|||+=||.-
T Consensus 520 IF~PGFSTa~~VtdvSG--RGVGMDVVk~ 546 (716)
T COG0643 520 IFAPGFSTAEQVTDVSG--RGVGMDVVKT 546 (716)
T ss_pred HhcCCCCcchhhhcccC--CccCHHHHHH
Confidence 11233543222335566 8999987753
No 107
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=82.10 E-value=1.2 Score=50.59 Aligned_cols=100 Identities=23% Similarity=0.369 Sum_probs=64.9
Q ss_pred chhhHHHHHHHHhHHHhhhcCCCCeEEEEEeC--CC-eEEEEECCCCccCcccCCCCcchhhhhheeeccCCCCCCCCCC
Q 007002 9 RGLHHLVYEILDNAVDEAQAGYASNIEVALLA--DN-SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 85 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~--~g-~i~V~DnGrGIP~~~~~~~g~~~~E~v~~~l~ag~kf~~~~~~ 85 (622)
.=|-+++.-++.||+-....+ .+.|.|..+. |. +++|.|||-||....... .=.+|-++|+...|.
T Consensus 635 ~~l~qv~~NLi~Naik~~~~e-~~~i~I~~~r~ed~~t~sV~dng~Gi~~a~~~r-----iF~iFqRl~s~~~y~----- 703 (750)
T COG4251 635 TQLGQVFQNLIANAIKFGGPE-NPDIEISAERQEDEWTFSVRDNGIGIDPAYFER-----IFVIFQRLHSRDEYL----- 703 (750)
T ss_pred HHHHHHHHHHHhhheecCCCC-CCceEEeeeccCCceEEEecCCCCCcCHHHHHH-----HHHHHHhcCchhhhc-----
Confidence 335566667777776553333 5789999884 44 799999999999775421 335788888766553
Q ss_pred eeeccccccccceeeeeecCeE----EEEEE-eCCEEEEEEEecC
Q 007002 86 YSVSGGLHGVGLSVVNALSESL----EVTVW-RDGMEYHQKYSRG 125 (622)
Q Consensus 86 ~k~sgG~~GvG~s~vNalS~~~----~V~v~-r~g~~~~q~f~~G 125 (622)
| +|.|+.++-.+.+.- .|++. .+|..+.+..-.|
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 799999887776533 34443 3455555554433
No 108
>COG4564 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=80.31 E-value=2.7 Score=44.44 Aligned_cols=46 Identities=30% Similarity=0.416 Sum_probs=35.6
Q ss_pred chhhHHHHHHHHhHHHhhhcCCCCeEEEEEeCCC---eEEEEECCCCccCcc
Q 007002 9 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDL 57 (622)
Q Consensus 9 ~gL~~lv~EildNaiDe~~~g~~~~I~V~l~~~g---~i~V~DnGrGIP~~~ 57 (622)
..|++++.|.|.|-=-+ +| +++|.|.+...+ ..+|+|||+|.|+..
T Consensus 358 talyRv~QEaltNIErH--a~-Atrv~ill~~~~d~vql~vrDnG~GF~~~~ 406 (459)
T COG4564 358 TALYRVVQEALTNIERH--AG-ATRVTILLQQMGDMVQLMVRDNGVGFSVKE 406 (459)
T ss_pred HHHHHHHHHHHHHHHhh--cC-CeEEEEEeccCCcceEEEEecCCCCccchh
Confidence 56788888877774332 34 899999998654 689999999999885
No 109
>COG3275 LytS Putative regulator of cell autolysis [Signal transduction mechanisms]
Probab=79.22 E-value=3.4 Score=45.75 Aligned_cols=44 Identities=20% Similarity=0.354 Sum_probs=31.1
Q ss_pred HHHHHHHhHHHhhhcC--CCCeEEEEEeC-CC--eEEEEECCCCccCcc
Q 007002 14 LVYEILDNAVDEAQAG--YASNIEVALLA-DN--SVSVADNGRGIPIDL 57 (622)
Q Consensus 14 lv~EildNaiDe~~~g--~~~~I~V~l~~-~g--~i~V~DnGrGIP~~~ 57 (622)
++.=+|+||+-+.... ....|.|++.. |+ .|.|+|||+||+.+.
T Consensus 460 ilQPLVENAIKHG~~~~~~~g~V~I~V~~~d~~l~i~VeDng~li~p~~ 508 (557)
T COG3275 460 ILQPLVENAIKHGISQLKDTGRVTISVEKEDADLRIEVEDNGGLIQPDE 508 (557)
T ss_pred hhhHHHHHHHHhcccchhcCCceEEEEEEeCCeEEEEEecCCCCcCCCC
Confidence 4556899999997642 23345555553 33 699999999999863
No 110
>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=76.20 E-value=30 Score=32.96 Aligned_cols=80 Identities=14% Similarity=0.301 Sum_probs=48.4
Q ss_pred eEEEEEEEEcCC---CCCceeeeeeCceec-cCCCcchHHHHHHHHHHHHHHHhhccCCCCCCCCCCHHhHhcccEEEEE
Q 007002 234 ITIDLALQWCSD---AYSDTMLGYANSIRT-IDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIIS 309 (622)
Q Consensus 234 i~veval~~s~~---~~~~~~~SFVN~I~T-~~GGTHv~g~~~al~~~in~~~kk~~~~k~~~~~l~~~diregl~~~vs 309 (622)
..||+|+.|--+ ...-.++-|+|-||- .+.|. .++++++..+ ...+. .+...+ ..-+.+||+
T Consensus 42 FiVEagiayGG~~~~~~~~~ilRfANRVPLly~~g~------cvit~av~~i-~W~~Y------~l~~~~-~~p~~v~Vh 107 (160)
T PF09239_consen 42 FIVEAGIAYGGEIPPEGKIEILRFANRVPLLYDQGS------CVITKAVKSI-NWKRY------GLDQPG-NGPLVVFVH 107 (160)
T ss_dssp EEEEEEEEESTTS-SCSS-EEEEEETTEEE-STGCC------SHHHHHHHHS--GCCC------T--SSS--CSEEEEEE
T ss_pred EEEEEehhhccCCCCCCCceEEEEccCCceeecCCc------hHHHHHHHhC-Cchhc------CcCCCC-CCCEEEEEE
Confidence 458899988521 123579999999984 34444 3567776643 23222 111111 346789999
Q ss_pred EeecCCCCCCccccccCC
Q 007002 310 VRVPNPEFEGQTKTRLGN 327 (622)
Q Consensus 310 ~~i~nP~FegQTK~kL~n 327 (622)
+--++-.|.|-.|+...+
T Consensus 108 i~ST~VPfts~~KeaIa~ 125 (160)
T PF09239_consen 108 IASTKVPFTSEGKEAIAD 125 (160)
T ss_dssp EEESS--BSSTTSSSB--
T ss_pred EeecccCccccchhhhcC
Confidence 999999999999999884
No 111
>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=75.98 E-value=25 Score=33.19 Aligned_cols=83 Identities=19% Similarity=0.427 Sum_probs=53.1
Q ss_pred eEEEEEEEEcCC---CCCceeeeeeCceec-cCCCcchHHHHHHHHHHHHHHH-hhccCCCCCCCCCCHHhHhcccEEEE
Q 007002 234 ITIDLALQWCSD---AYSDTMLGYANSIRT-IDGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVREGLTCII 308 (622)
Q Consensus 234 i~veval~~s~~---~~~~~~~SFVN~I~T-~~GGTHv~g~~~al~~~in~~~-kk~~~~k~~~~~l~~~diregl~~~v 308 (622)
.-||+|+.|--+ ...-+++-|+|-||- .+.|. .++|+++..+- +..++.. .+ ..-+.+||
T Consensus 33 FiVEagiayGG~~~~~~~~~i~RfANRVPLlf~~g~------cvit~av~~i~W~~Ygi~~------~~---~~p~~v~V 97 (151)
T cd00823 33 FIVEVGIAYGGDIPADEKVELLRFANRVPLLYDAGA------CVITKAVESINWKRYGLEQ------PG---QGPLVVLV 97 (151)
T ss_pred eEEEEeeeecCccCCCCCceEEEEcccCceeecccc------hHHHHHHHhCChhhcCcCC------CC---CCCEEEEE
Confidence 357888888522 113579999999984 34444 34556554431 2222211 01 34678999
Q ss_pred EEeecCCCCCCccccccCC-chhh
Q 007002 309 SVRVPNPEFEGQTKTRLGN-PEVR 331 (622)
Q Consensus 309 s~~i~nP~FegQTK~kL~n-~~v~ 331 (622)
++--++-.|.|-.|+..++ +|+.
T Consensus 98 hi~St~VPfts~~KeaIadvpEI~ 121 (151)
T cd00823 98 HVASTKVPFTSEGKEAIADIPEIE 121 (151)
T ss_pred EEeecCCCcCCcchhhhcCCHHHH
Confidence 9999999999999999886 4443
No 112
>PRK04017 hypothetical protein; Provisional
Probab=73.97 E-value=0.7 Score=42.63 Aligned_cols=29 Identities=34% Similarity=0.540 Sum_probs=25.1
Q ss_pred cceeEEEeecCCcCCcchhhhHHHHHHHH
Q 007002 474 RYHKIIILTDADVDGAHIRTLLLTFFYRY 502 (622)
Q Consensus 474 RY~kiiimtDaD~DG~HI~~Llltff~~~ 502 (622)
.+..|||+||.|-=|..|+..|...|..+
T Consensus 64 ~~r~VIILTD~D~~GekIr~~l~~~l~~~ 92 (132)
T PRK04017 64 RGKEVIILTDFDRKGEELAKKLSEYLQGY 92 (132)
T ss_pred cCCeEEEEECCCcchHHHHHHHHHHHHhC
Confidence 46689999999999999999998887753
No 113
>COG2972 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]
Probab=66.31 E-value=8.2 Score=43.10 Aligned_cols=46 Identities=22% Similarity=0.430 Sum_probs=33.7
Q ss_pred hHHHHHHHHhHHHhhhc--CCCCeEEEEEeC-CC--eEEEEECCCCccCcc
Q 007002 12 HHLVYEILDNAVDEAQA--GYASNIEVALLA-DN--SVSVADNGRGIPIDL 57 (622)
Q Consensus 12 ~~lv~EildNaiDe~~~--g~~~~I~V~l~~-~g--~i~V~DnGrGIP~~~ 57 (622)
..++-=+||||+-++.. -....|.|.... ++ .++|.|||+||.-..
T Consensus 352 ~l~lqpLvENAi~hgi~~~~~~~~I~i~~~~~~~~i~i~i~Dng~g~~~~~ 402 (456)
T COG2972 352 KLVLQPLVENAIEHGIEPKRPGGSIAISAKKQDDVIQISISDNGPGIDEEK 402 (456)
T ss_pred hHHHhHHHHHHHHHhcccCCCCCEEEEEEEEcCCEEEEEEeeCCCCCChhH
Confidence 34566689999998853 235578877774 34 589999999998664
No 114
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=64.95 E-value=52 Score=36.61 Aligned_cols=100 Identities=18% Similarity=0.355 Sum_probs=64.6
Q ss_pred eEEEEEEEEcC---CCCCceeeeeeCceec-cCCCcchHHHHHHHHHHHHHHH-hhccCCCCCCCCCCHHhHhcccEEEE
Q 007002 234 ITIDLALQWCS---DAYSDTMLGYANSIRT-IDGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVREGLTCII 308 (622)
Q Consensus 234 i~veval~~s~---~~~~~~~~SFVN~I~T-~~GGTHv~g~~~al~~~in~~~-kk~~~~k~~~~~l~~~diregl~~~v 308 (622)
..||+|+.|-- .+....+.-|+|-||- .+-|. .++++++.++- +..|+ ...+ --|.++|
T Consensus 357 FiVEvgiAYGG~i~~~e~~~llRyANrvPLlyd~g~------cv~tk~V~~i~WkrYgl--------~~~~--aplvvlV 420 (538)
T COG1389 357 FIVEVGIAYGGNIPGGEKPLLLRYANRVPLLYDAGS------CVITKVVESIDWKRYGL--------DQPD--APLVVLV 420 (538)
T ss_pred eEEEEEeeccCCCCCCcchhhhhhcccCceeeecCc------chhhHhhhhccceecCc--------CCCC--CcEEEEE
Confidence 46889998862 1222358899999884 22222 34567775542 22222 2222 5789999
Q ss_pred EEeecCCCCCCccccccC-Cchhhhhhhhhh---HHHHHHHHhhC
Q 007002 309 SVRVPNPEFEGQTKTRLG-NPEVRKVVDQSV---QEYLTEYLELH 349 (622)
Q Consensus 309 s~~i~nP~FegQTK~kL~-n~~v~~~v~~~v---~~~l~~~l~~n 349 (622)
++--+|-.|.|-.|+... .+++..-+...+ ...|..||.+.
T Consensus 421 hv~St~VPyts~gKqsIa~vpeIe~Eir~Al~evaRkL~~yLsrk 465 (538)
T COG1389 421 HVASTNVPYTSAGKQSIADVPEIENEIRLALMEVARKLKLYLSRK 465 (538)
T ss_pred EecccCCCcCCccchhccccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999998 465544444333 45778888654
No 115
>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=60.49 E-value=17 Score=30.08 Aligned_cols=33 Identities=15% Similarity=0.503 Sum_probs=26.5
Q ss_pred hhhhhhhhhhHHHHHHHHhhC-hHHHHHHHHHHH
Q 007002 329 EVRKVVDQSVQEYLTEYLELH-PDVLDSILSKSL 361 (622)
Q Consensus 329 ~v~~~v~~~v~~~l~~~l~~n-p~~~~~I~~k~~ 361 (622)
.+...|..++...|.+||++| |.+++.++.+-+
T Consensus 34 TlE~lvremLRPmLkeWLD~nLP~lVErlVr~EI 67 (73)
T PF10691_consen 34 TLEDLVREMLRPMLKEWLDENLPGLVERLVREEI 67 (73)
T ss_pred cHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence 356677888889999999998 888888887544
No 116
>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=57.98 E-value=1.1 Score=37.86 Aligned_cols=27 Identities=41% Similarity=0.655 Sum_probs=23.8
Q ss_pred ceeEEEeecCCcCCcchhhhHHHHHHH
Q 007002 475 YHKIIILTDADVDGAHIRTLLLTFFYR 501 (622)
Q Consensus 475 Y~kiiimtDaD~DG~HI~~Llltff~~ 501 (622)
+..|||+||.|-=|..|+.-+...+-.
T Consensus 45 ~~~VIiltD~D~aG~~i~~~~~~~l~~ 71 (81)
T cd01027 45 YRGVIILTDPDRKGEKIRKKLSEYLSG 71 (81)
T ss_pred CCEEEEEECCCHHHHHHHHHHHHHhcc
Confidence 789999999999999999988877643
No 117
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=56.28 E-value=2.6 Score=38.64 Aligned_cols=25 Identities=48% Similarity=0.699 Sum_probs=21.7
Q ss_pred cccceeEEEeecCCcCCcchhhhHH
Q 007002 472 ALRYHKIIILTDADVDGAHIRTLLL 496 (622)
Q Consensus 472 ~LRY~kiiimtDaD~DG~HI~~Lll 496 (622)
.++|..|||+||.|.=|.-||--|.
T Consensus 52 ~~~~k~VIILTD~D~~Ge~Irk~l~ 76 (127)
T COG1658 52 AQKYKGVIILTDPDRKGERIRKKLK 76 (127)
T ss_pred hhccCCEEEEeCCCcchHHHHHHHH
Confidence 3578889999999999999998764
No 118
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=56.18 E-value=1.5e+02 Score=34.80 Aligned_cols=98 Identities=13% Similarity=0.309 Sum_probs=61.7
Q ss_pred eEEEEEEEEcCC---C----CCceeeeeeCceecc-CCCcchHHHHHHHHHHHHHHH-hhccCCCCCCCCCCHHhHhc-c
Q 007002 234 ITIDLALQWCSD---A----YSDTMLGYANSIRTI-DGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVRE-G 303 (622)
Q Consensus 234 i~veval~~s~~---~----~~~~~~SFVN~I~T~-~GGTHv~g~~~al~~~in~~~-kk~~~~k~~~~~l~~~dire-g 303 (622)
.-||+|+.|--+ . ..-.++=|+|-||-. +.|. .++|+++..+- +..++. +.-. -
T Consensus 498 FiVE~giayGG~~~~~~~~~~~~~i~RfANrvPLly~~g~------c~~t~~v~~i~W~~Y~l~----------~~~~~p 561 (659)
T PRK14867 498 FAVEVGLAYGGNAGRQGDEGRKMEIMRFSNHVPLLFDTSG------CGLTNAVKSVNWRRYGLR----------SDEDAP 561 (659)
T ss_pred EEEEEeeecCCcCCCCCccCCcceEEEeeccCceeecCcc------cHHHHHHHhCChhhcCcC----------CCCCCC
Confidence 458899988522 1 123699999999842 3333 45666665431 222221 1112 4
Q ss_pred cEEEEEEeecCCCCCCccccccC-----CchhhhhhhhhhH---HHHHHHHh
Q 007002 304 LTCIISVRVPNPEFEGQTKTRLG-----NPEVRKVVDQSVQ---EYLTEYLE 347 (622)
Q Consensus 304 l~~~vs~~i~nP~FegQTK~kL~-----n~~v~~~v~~~v~---~~l~~~l~ 347 (622)
+++||++--++-.|.|-.|+.+. .||+..-+...+. ..|..||.
T Consensus 562 ~~v~vhv~St~vPfts~~Keaia~~~~~~~eI~~Ei~lAl~~~~r~L~~~l~ 613 (659)
T PRK14867 562 ITVFVNLISTHIPYTSAGKQAIACSEEENEEIFNEIRQALMICARELEKYIS 613 (659)
T ss_pred EEEEEEEeecCCCCCCccHHHhhccCCCChHHHHHHHHHHHHHHHHHHHHHH
Confidence 78999999999999999999998 5666555544432 35555554
No 119
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=53.32 E-value=1.8e+02 Score=33.00 Aligned_cols=98 Identities=17% Similarity=0.386 Sum_probs=59.5
Q ss_pred eEEEEEEEEcCC---CCCceeeeeeCceec-cCCCcchHHHHHHHHHHHHHHHhhccCCCCCCCCCCHHhHh-cccEEEE
Q 007002 234 ITIDLALQWCSD---AYSDTMLGYANSIRT-IDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVR-EGLTCII 308 (622)
Q Consensus 234 i~veval~~s~~---~~~~~~~SFVN~I~T-~~GGTHv~g~~~al~~~in~~~kk~~~~k~~~~~l~~~dir-egl~~~v 308 (622)
.-||+|+.|--+ .-.-+++=|+|-||- .+.|. .++++++..+ .+.+. .+. ++- .-+.+||
T Consensus 348 fiVE~~iayGg~~~~~~~~~i~RfaNrvPLl~~~g~------~~~t~~v~~i-~w~~Y------~~~--~~~~~p~~v~v 412 (488)
T TIGR01052 348 FIVEVGIAYGGNIGRRSEPEILRYANKVPLLYDAGS------CVLTKAVKSI-NWKRY------GIR--DFPSAPLVVLV 412 (488)
T ss_pred eEEEEeeecCCcCCCCCceeEEEecccCceeecccc------cHHHHHHHhC-Chhhc------CCC--CCCCCCEEEEE
Confidence 458999988521 112469999999984 33444 4566666443 22221 111 122 2478999
Q ss_pred EEeecCCCCCCccccccCC-chhhhhhhhhh---HHHHHHHH
Q 007002 309 SVRVPNPEFEGQTKTRLGN-PEVRKVVDQSV---QEYLTEYL 346 (622)
Q Consensus 309 s~~i~nP~FegQTK~kL~n-~~v~~~v~~~v---~~~l~~~l 346 (622)
++--.+-.|.|-.|+.+++ +|+...+...+ ..+|..|+
T Consensus 413 hi~St~vPf~s~~Ke~ia~~~ei~~ei~~al~~~~r~L~~~l 454 (488)
T TIGR01052 413 NLASTNVPYTSTGKQSVADIPEIYNEIRLALMEVARRLRLYL 454 (488)
T ss_pred EEeecCCCCCCcchhhhcCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999964 55544443333 23444444
No 120
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=52.35 E-value=2.4e+02 Score=33.72 Aligned_cols=104 Identities=17% Similarity=0.357 Sum_probs=62.6
Q ss_pred eEEEEEEEEcCC---CCCceeeeeeCceecc-CCCcchHHHHHHHHHHHHHHH-hhccCCCCCCCCCCHHhHhcccEEEE
Q 007002 234 ITIDLALQWCSD---AYSDTMLGYANSIRTI-DGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVREGLTCII 308 (622)
Q Consensus 234 i~veval~~s~~---~~~~~~~SFVN~I~T~-~GGTHv~g~~~al~~~in~~~-kk~~~~k~~~~~l~~~diregl~~~v 308 (622)
.-||+|+.|--+ ...-.++-|+|-||-. +.|. .+++++|+.+- +..|+...++..+. ..-+++||
T Consensus 542 FiVEagiAYGG~~~~~g~~~i~RfANRVPLly~~ga------c~iT~~v~~i~Wr~Ygl~q~~g~g~p----~~P~~v~V 611 (795)
T PRK14868 542 FIVEAGIAYGGEIDSEGSVDVMRFANRVPLVYQRGA------CATTDVVKSIGWRNYGLDQPGGSGLP----NGPAVIMV 611 (795)
T ss_pred eEEEEEeecCCcCCCCCCceEEEecccCceeecccc------cHHHHHHHhCChhhcCcCCCCCCCCC----CCCEEEEE
Confidence 458899988521 1124699999999843 3333 45666665432 33343222111111 12378999
Q ss_pred EEeecCCCCCCccccccCC-chhhhhhhhhh---HHHHHHHHh
Q 007002 309 SVRVPNPEFEGQTKTRLGN-PEVRKVVDQSV---QEYLTEYLE 347 (622)
Q Consensus 309 s~~i~nP~FegQTK~kL~n-~~v~~~v~~~v---~~~l~~~l~ 347 (622)
++--.|-.|.|-.|+.+.+ |++..-++..+ ...|..||.
T Consensus 612 hvaST~VPfts~sKeaIA~vpEI~~EI~lAl~~~aR~Lk~yl~ 654 (795)
T PRK14868 612 HVASTNVPFTSESKDAIANVPEIEDEIELAIREAARELKSYLN 654 (795)
T ss_pred EEeecCCCCCCcchhhhcCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999975 55544444333 235566654
No 121
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=51.00 E-value=2.7e+02 Score=32.02 Aligned_cols=100 Identities=17% Similarity=0.380 Sum_probs=62.8
Q ss_pred eEEEEEEEEcCCC---CCceeeeeeCceec-cCCCcchHHHHHHHHHHHHHHH-hhccCCCCCCCCCCHHhHhcccEEEE
Q 007002 234 ITIDLALQWCSDA---YSDTMLGYANSIRT-IDGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVREGLTCII 308 (622)
Q Consensus 234 i~veval~~s~~~---~~~~~~SFVN~I~T-~~GGTHv~g~~~al~~~in~~~-kk~~~~k~~~~~l~~~diregl~~~v 308 (622)
.-||+|+.|--+. ..-.++=|+|-||- .+.|. .++++++..+- +..++... =..-+.++|
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 5688999885111 12479999999983 34444 45566664431 22232111 122578899
Q ss_pred EEeecCCCCCCccccccCC-chhhhhhhhhh---HHHHHHHHhh
Q 007002 309 SVRVPNPEFEGQTKTRLGN-PEVRKVVDQSV---QEYLTEYLEL 348 (622)
Q Consensus 309 s~~i~nP~FegQTK~kL~n-~~v~~~v~~~v---~~~l~~~l~~ 348 (622)
++--++-.|.|-.|+..++ ||+..-+...+ ..+|..|+.+
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 55554444333 3466666654
No 122
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=50.78 E-value=3.3 Score=34.48 Aligned_cols=19 Identities=26% Similarity=0.375 Sum_probs=14.8
Q ss_pred ceeEEEeecCCcCCcchhh
Q 007002 475 YHKIIILTDADVDGAHIRT 493 (622)
Q Consensus 475 Y~kiiimtDaD~DG~HI~~ 493 (622)
+.+|||++|.|..|.-...
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 4899999999999964333
No 123
>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=44.53 E-value=15 Score=34.02 Aligned_cols=26 Identities=27% Similarity=0.380 Sum_probs=22.2
Q ss_pred ceeEEEeecCCcCCcchhhhHHHHHH
Q 007002 475 YHKIIILTDADVDGAHIRTLLLTFFY 500 (622)
Q Consensus 475 Y~kiiimtDaD~DG~HI~~Llltff~ 500 (622)
...|||+||+|--|.+|.-.+++++-
T Consensus 91 ~d~iiiAtD~DrEGE~I~~~i~~~~~ 116 (142)
T cd01028 91 ADEIVLATDPDREGELIAWEILEVLK 116 (142)
T ss_pred CCEEEEcCCCCcchHHHHHHHHHHhC
Confidence 36899999999999999888877663
No 124
>COG2865 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]
Probab=40.77 E-value=45 Score=37.38 Aligned_cols=44 Identities=20% Similarity=0.406 Sum_probs=32.4
Q ss_pred HHHHHHHHhHHHhhhcC-CCCeEEEEEeCCCeEEEEECCCCccCccc
Q 007002 13 HLVYEILDNAVDEAQAG-YASNIEVALLADNSVSVADNGRGIPIDLH 58 (622)
Q Consensus 13 ~lv~EildNaiDe~~~g-~~~~I~V~l~~~g~i~V~DnGrGIP~~~~ 58 (622)
.+++|+|.||+=+.--- ....|.|.+.+| +|+|++.| |.|...-
T Consensus 273 ~alREai~NAv~HRDYs~~~~~v~I~iydD-RieI~NPG-gl~~gi~ 317 (467)
T COG2865 273 EALREAIINAVIHRDYSIRGRNVHIEIYDD-RIEITNPG-GLPPGIT 317 (467)
T ss_pred HHHHHHHHHHHHhhccccCCCceEEEEECC-eEEEECCC-CCCCCCC
Confidence 58999999999664211 133788888865 89999998 6776653
No 125
>KOG4518 consensus Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]
Probab=40.68 E-value=35 Score=33.69 Aligned_cols=37 Identities=22% Similarity=0.205 Sum_probs=32.9
Q ss_pred CeecCCCCchhhHHHHHHHHhHHHhhhcCCCCeEEEE
Q 007002 1 MYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVA 37 (622)
Q Consensus 1 MYiGst~~~gL~~lv~EildNaiDe~~~g~~~~I~V~ 37 (622)
|..|++..||-.+.|++=||-|||-+.+=.|.+|.+.
T Consensus 70 ~~~G~~svpg~~k~FR~~Ld~ai~yAkalgC~rIHlm 106 (264)
T KOG4518|consen 70 GFRGLASVPGAKKEFRKSLDTAIEYAKALGCCRIHLM 106 (264)
T ss_pred hccCcccCCchHHHHHHHHHHHHHHHHHhCCceEEEe
Confidence 6789999999999999999999999987558888765
No 126
>PF14484 FISNA: Fish-specific NACHT associated domain
Probab=34.98 E-value=22 Score=29.41 Aligned_cols=14 Identities=36% Similarity=0.567 Sum_probs=11.9
Q ss_pred CCceEEEEeccCCC
Q 007002 401 EESEIFIVEGDSAG 414 (622)
Q Consensus 401 ~~~eL~lvEGDSA~ 414 (622)
--++||||||+|.+
T Consensus 29 iYTeLyIteg~~~~ 42 (73)
T PF14484_consen 29 IYTELYITEGGSGE 42 (73)
T ss_pred hceeeeEeccCCCc
Confidence 34889999999986
No 127
>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=29.89 E-value=35 Score=31.01 Aligned_cols=24 Identities=29% Similarity=0.390 Sum_probs=19.9
Q ss_pred eeEEEeecCCcCCcchhhhHHHHH
Q 007002 476 HKIIILTDADVDGAHIRTLLLTFF 499 (622)
Q Consensus 476 ~kiiimtDaD~DG~HI~~Llltff 499 (622)
..|||.||+|..|.+|.-.++..+
T Consensus 74 ~eiiiAtD~drEGe~i~~~i~~~~ 97 (123)
T cd03363 74 DEIYLATDPDREGEAIAWHLAEVL 97 (123)
T ss_pred CEEEEcCCCCcchHHHHHHHHHHc
Confidence 369999999999999987665554
No 128
>PRK04031 DNA primase; Provisional
Probab=29.08 E-value=36 Score=37.29 Aligned_cols=52 Identities=27% Similarity=0.344 Sum_probs=32.3
Q ss_pred ceeEEEeecCCcCCcchhhhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHH
Q 007002 475 YHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKS 542 (622)
Q Consensus 475 Y~kiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~gk~~~~~~~~~e~~~~~~ 542 (622)
-.+|++++|.|.-|--|+--|+.. .-+.|++..| .|+... -++.++..+.+.
T Consensus 210 ~~~Vil~~DgD~aGe~I~k~l~~v----------~~~d~VaraP-----~G~dVE-~ls~eeI~kAL~ 261 (408)
T PRK04031 210 KKTVTAFLDGDRGGELILKELLQV----------ADIDYVARAP-----PGKEVE-ELTKKEIAKALR 261 (408)
T ss_pred CCCEEEEECCCHHHHHHHHHHHhh----------cceeEEecCC-----CCCChh-hCCHHHHHHHHH
Confidence 568999999999997664433221 2367788888 564432 245555555444
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=27.35 E-value=77 Score=28.61 Aligned_cols=57 Identities=21% Similarity=0.348 Sum_probs=35.9
Q ss_pred eecCCCCchh--------hHHHHHHHHhHHHh-------hh--cCCCCeEEEEEeCCCeEEEEECCCCccCcccC
Q 007002 2 YIGSTGPRGL--------HHLVYEILDNAVDE-------AQ--AGYASNIEVALLADNSVSVADNGRGIPIDLHP 59 (622)
Q Consensus 2 YiGst~~~gL--------~~lv~EildNaiDe-------~~--~g~~~~I~V~l~~~g~i~V~DnGrGIP~~~~~ 59 (622)
|+|++-.+.. .+++.+.+.....+ .. ......|.+.+..+ .|.|.|.-.+-.+..||
T Consensus 5 YLGs~~V~~~~~~~~~~g~~~v~~ai~~~~~~~~~~~~~~~~~~~~~~~V~l~vs~~-gI~v~~~~t~~~l~~~~ 78 (140)
T PF00640_consen 5 YLGSVEVSSSRRGDKSRGSDVVREAIQRLKAEKIAKSKKSKSNKKKPQKVTLNVSSD-GIKVIDPDTGEVLMSHP 78 (140)
T ss_dssp EEEEEEESSSSSTCHHHHHHHHHHHHHHHHHHCCCSHHHHHTTTSTSEEEEEEEETT-EEEEEETTTTCEEEEEE
T ss_pred EEEEEEECCccCCCcchhHHHHHHHHHHHHhhhhhhhhccccccccCeEEEEEEcCC-eEEEecCccccccccCC
Confidence 8898765444 34566666655555 11 22456677777766 58899977677766654
No 130
>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=26.18 E-value=54 Score=30.73 Aligned_cols=26 Identities=35% Similarity=0.468 Sum_probs=21.6
Q ss_pred ceeEEEeecCCcCCcchhhhHHHHHH
Q 007002 475 YHKIIILTDADVDGAHIRTLLLTFFY 500 (622)
Q Consensus 475 Y~kiiimtDaD~DG~HI~~Llltff~ 500 (622)
...||++||+|--|.+|--.++..+-
T Consensus 99 ad~ii~atD~DrEGE~I~~~i~~~~~ 124 (151)
T cd03362 99 ADEIVIATDADREGELIGREILEYAK 124 (151)
T ss_pred CCeEEEccCCCccccHHHHHHHHHhC
Confidence 36799999999999999887766653
No 131
>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=24.17 E-value=50 Score=32.02 Aligned_cols=24 Identities=38% Similarity=0.574 Sum_probs=20.1
Q ss_pred cceeEEEeecCCcCCcchhhhHHH
Q 007002 474 RYHKIIILTDADVDGAHIRTLLLT 497 (622)
Q Consensus 474 RY~kiiimtDaD~DG~HI~~Lllt 497 (622)
...-|||+||+|.=|-.||..|.-
T Consensus 46 ~~rgVIIfTDpD~~GekIRk~i~~ 69 (174)
T TIGR00334 46 KKQGVIILTDPDFPGEKIRKKIEQ 69 (174)
T ss_pred hcCCEEEEeCCCCchHHHHHHHHH
Confidence 456799999999999999987643
No 132
>KOG4174 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.67 E-value=7.2e+02 Score=25.85 Aligned_cols=65 Identities=22% Similarity=0.251 Sum_probs=42.2
Q ss_pred CHhHHHHHHHhccCccC--------CcCccccccceeEEEeecCCcCCcchh------------hhHHHHHHHHHHHhh-
Q 007002 449 NEEIQNLIRALGLGVKG--------EDFKKEALRYHKIIILTDADVDGAHIR------------TLLLTFFYRYQKTLF- 507 (622)
Q Consensus 449 n~Ei~~li~~lG~~~~~--------~~~~~~~LRY~kiiimtDaD~DG~HI~------------~Llltff~~~~p~Li- 507 (622)
++|=-..+.+|||.+-- ..++...-||..||.- ==+-|+||+ .|+..||..-=.-|.
T Consensus 104 ~~~nv~~Lk~lG~~I~h~Vdv~sl~~~~~~~~~~~d~IiFN--FPH~G~g~~~e~d~~~i~~~qkL~rgFle~akemL~~ 181 (282)
T KOG4174|consen 104 AKENVEALKRLGGTILHGVDVTSLKFHADLRLQRYDNIIFN--FPHSGKGIKFEQDRNIIPLHQKLFRGFLESAKEMLKD 181 (282)
T ss_pred hHHHHHHHHHcCCceEecccceeEEecccccccccceEEEc--CCCCCCCcccccchHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44555668899997631 1235666788888775 667788775 677788875433344
Q ss_pred hcCcEEEe
Q 007002 508 DEGCIYVG 515 (622)
Q Consensus 508 ~~g~v~~~ 515 (622)
+.|-|.+.
T Consensus 182 edGeI~it 189 (282)
T KOG4174|consen 182 EDGEIHIT 189 (282)
T ss_pred cCCcEEEE
Confidence 45877763
No 133
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=22.03 E-value=88 Score=32.32 Aligned_cols=34 Identities=26% Similarity=0.391 Sum_probs=27.2
Q ss_pred hhhcCCCCeEEEEEeCCC-eEEEEECCCCccCccc
Q 007002 25 EAQAGYASNIEVALLADN-SVSVADNGRGIPIDLH 58 (622)
Q Consensus 25 e~~~g~~~~I~V~l~~~g-~i~V~DnGrGIP~~~~ 58 (622)
++++|..+.|+|.=++|. .+||.|||-|-..-..
T Consensus 121 AHvkGq~kEv~v~KsedalGlTITDNG~GyAFIKr 155 (334)
T KOG3938|consen 121 AHVKGQAKEVEVVKSEDALGLTITDNGAGYAFIKR 155 (334)
T ss_pred hhhcCcceeEEEEecccccceEEeeCCcceeeeEe
Confidence 456788999999888775 5999999999766543
No 134
>cd00818 IleRS_core catalytic core domain of isoleucyl-tRNA synthetases. Isoleucine amino-acyl tRNA synthetases (IleRS) catalytic core domain . This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. IleRS has an insertion in the core domain, which is subject to both deletions and rearrangements. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids.
Probab=21.71 E-value=3.4e+02 Score=28.99 Aligned_cols=97 Identities=20% Similarity=0.219 Sum_probs=59.3
Q ss_pred CHhHHHHHHHhccCccCCcCccccccceeEEEeecCCcCCcchhhhHHHHHHHHHHHhhhcCcEEEecCCeE-EEEeCCe
Q 007002 449 NEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLY-KVERGKQ 527 (622)
Q Consensus 449 n~Ei~~li~~lG~~~~~~~~~~~~LRY~kiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~-kv~~gk~ 527 (622)
.+++.+.++.||+...-..+ +-| .|-.|+. ....++-.|+++|+||....|.+ .+..-.+
T Consensus 90 ~~~~~~~~~~lgi~~~~~~~-----------~~T---~~~~~~~-----~v~~~f~~L~~~G~iY~~~~~v~~~v~~~~~ 150 (338)
T cd00818 90 VDEQEEQFQRLGVWVDWENP-----------YKT---MDPEYME-----SVWWVFKQLHEKGLLYRGYKVVPWPLIYRAT 150 (338)
T ss_pred HHHHHHHHHHhCceecCCCC-----------eEC---CCHHHHH-----HHHHHHHHHHHCCCEeccCCeeeeEEEEEec
Confidence 36778888999985421111 122 1223544 44566778899999999888764 3333344
Q ss_pred EEEeeCHHHHHHHHHh----C---------------CCCCccceeEeecccCCCcc
Q 007002 528 VQYCYDDAELKKVKSS----F---------------PSNALYSIQRFKGLGEMMPV 564 (622)
Q Consensus 528 ~~~~~~~~e~~~~~~~----~---------------~~~~~~~i~~~KGLG~~~~~ 564 (622)
..||+...++.+.+.+ . .+...|.|.|=.++|.-=|-
T Consensus 151 ~qwf~~l~~~~~~l~~~~~~~~~~P~~~~~~~~~~l~~l~dw~iSR~~~WGip~P~ 206 (338)
T cd00818 151 PQWFIRVTKIKDRLLEANDKVNWIPEWVKNRFGNWLENRRDWCISRQRYWGTPIPV 206 (338)
T ss_pred CeEEEEcHHHHHHHHHHHhcCcEECHHHHHHHHHHHhcchhcceeeecccCceeeE
Confidence 5677776665544432 1 12345778888888887663
No 135
>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=21.34 E-value=39 Score=29.04 Aligned_cols=58 Identities=36% Similarity=0.503 Sum_probs=37.3
Q ss_pred EEEEeccCCCcc----cc---ccCCCCceEeeccCCccccccccCHHHHhhCHhHHHHHHHhccCccCCcCcccccccee
Q 007002 405 IFIVEGDSAGGS----AK---QGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHK 477 (622)
Q Consensus 405 L~lvEGDSA~gs----a~---~gRdr~~qai~PLrGKilNv~ka~~~ki~~n~Ei~~li~~lG~~~~~~~~~~~~LRY~k 477 (622)
.+||||+|=-.. +. ..++...-.|.|..|| |+... ..++..+|. +
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 55432 234455443 5
Q ss_pred EEEeecCCcCCcc
Q 007002 478 IIILTDADVDGAH 490 (622)
Q Consensus 478 iiimtDaD~DG~H 490 (622)
+.+++|.|..+.+
T Consensus 58 ~~vi~D~D~~~~~ 70 (97)
T cd01026 58 VAVLTDLDAKRNE 70 (97)
T ss_pred EEEEEeCCCCCCc
Confidence 7899999998875
Done!