Query 008575
Match_columns 561
No_of_seqs 383 out of 2428
Neff 5.1
Searched_HMMs 46136
Date Thu Mar 28 13:53:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008575.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008575hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG1389 DNA topoisomerase VI, 100.0 1E-150 3E-155 1180.0 39.8 464 21-561 10-480 (538)
2 TIGR01052 top6b DNA topoisomer 100.0 8E-138 2E-142 1115.3 48.7 465 21-561 2-472 (488)
3 PRK04184 DNA topoisomerase VI 100.0 3E-137 6E-142 1121.1 48.8 464 22-561 11-477 (535)
4 PRK14868 DNA topoisomerase VI 100.0 2E-128 5E-133 1070.7 43.0 465 18-561 17-671 (795)
5 PRK14867 DNA topoisomerase VI 100.0 3E-119 6E-124 995.6 37.1 464 19-561 8-630 (659)
6 PF09239 Topo-VIb_trans: Topoi 100.0 4.6E-76 1E-80 547.3 15.1 158 396-555 1-160 (160)
7 cd00823 TopoIIB_Trans TopoIIB_ 100.0 6.9E-70 1.5E-74 502.5 15.4 149 405-555 1-151 (151)
8 PRK05559 DNA topoisomerase IV 99.8 3.5E-19 7.7E-24 200.1 28.5 187 18-288 8-209 (631)
9 PRK05644 gyrB DNA gyrase subun 99.8 3E-16 6.4E-21 176.8 28.8 185 18-288 8-207 (638)
10 COG0323 MutL DNA mismatch repa 99.7 2.5E-17 5.4E-22 185.4 12.7 178 150-352 51-250 (638)
11 smart00433 TOP2c Topoisomerase 99.7 8.7E-16 1.9E-20 171.9 24.6 291 48-535 2-321 (594)
12 PRK00095 mutL DNA mismatch rep 99.7 1.4E-16 3.1E-21 179.0 15.2 123 150-288 50-189 (617)
13 TIGR01059 gyrB DNA gyrase, B s 99.7 1.1E-14 2.5E-19 164.6 28.6 182 20-288 3-200 (654)
14 TIGR00585 mutl DNA mismatch re 99.6 3.4E-15 7.4E-20 154.7 15.8 122 151-288 51-190 (312)
15 TIGR01055 parE_Gneg DNA topois 99.6 9.7E-14 2.1E-18 156.2 28.6 125 152-288 62-202 (625)
16 PRK14939 gyrB DNA gyrase subun 99.6 1.5E-13 3.2E-18 156.9 28.5 185 18-288 7-207 (756)
17 TIGR01058 parE_Gpos DNA topois 99.5 2.6E-12 5.7E-17 145.0 26.8 183 19-288 6-205 (637)
18 KOG1979 DNA mismatch repair pr 99.4 4.7E-13 1E-17 145.8 11.0 125 150-289 55-196 (694)
19 COG0187 GyrB Type IIA topoisom 99.4 5E-12 1.1E-16 139.9 16.9 183 21-288 9-208 (635)
20 PF02518 HATPase_c: Histidine 99.4 4.6E-12 1E-16 110.2 10.7 105 46-226 4-108 (111)
21 COG4191 Signal transduction hi 99.3 2.7E-12 5.8E-17 141.2 10.3 95 46-217 496-591 (603)
22 PTZ00109 DNA gyrase subunit b; 99.3 5.2E-11 1.1E-15 137.0 20.8 173 30-288 112-355 (903)
23 PRK05218 heat shock protein 90 99.3 1.1E-11 2.4E-16 139.6 13.8 119 153-285 74-208 (613)
24 PHA02569 39 DNA topoisomerase 99.3 1.2E-10 2.6E-15 130.9 21.4 156 46-288 44-221 (602)
25 PF13589 HATPase_c_3: Histidin 99.3 9.8E-13 2.1E-17 121.0 3.9 71 150-225 32-104 (137)
26 PTZ00272 heat shock protein 83 99.3 4.9E-12 1.1E-16 143.7 9.8 118 150-279 70-198 (701)
27 TIGR02938 nifL_nitrog nitrogen 99.3 1.1E-11 2.3E-16 130.4 11.5 72 149-226 421-492 (494)
28 PLN03128 DNA topoisomerase 2; 99.3 1.3E-09 2.8E-14 129.4 26.5 163 46-288 51-232 (1135)
29 COG0326 HtpG Molecular chapero 99.2 9.9E-12 2.2E-16 138.1 7.6 117 149-278 71-200 (623)
30 COG5002 VicK Signal transducti 99.2 3.1E-11 6.7E-16 126.0 9.5 113 40-229 337-449 (459)
31 KOG1978 DNA mismatch repair pr 99.2 5.2E-11 1.1E-15 132.5 11.6 124 151-289 49-190 (672)
32 PRK09303 adaptive-response sen 99.2 4.8E-11 1E-15 126.0 10.8 75 149-228 303-377 (380)
33 PRK14083 HSP90 family protein; 99.2 3.5E-11 7.6E-16 135.1 9.8 116 152-278 63-186 (601)
34 COG2205 KdpD Osmosensitive K+ 99.2 8.6E-11 1.9E-15 133.1 10.9 109 44-229 772-880 (890)
35 PRK11006 phoR phosphate regulo 99.1 1.5E-10 3.3E-15 123.1 10.5 107 45-226 315-421 (430)
36 COG3290 CitA Signal transducti 99.1 2E-10 4.4E-15 125.7 11.0 105 45-228 425-529 (537)
37 PRK15053 dpiB sensor histidine 99.1 5.1E-10 1.1E-14 122.0 12.3 73 149-227 466-538 (545)
38 PRK10364 sensor protein ZraS; 99.1 3.6E-10 7.8E-15 121.0 11.0 101 46-227 347-447 (457)
39 PRK11086 sensory histidine kin 99.1 5.3E-10 1.2E-14 120.6 12.0 103 47-228 433-535 (542)
40 PRK10755 sensor protein BasS/P 99.1 3.9E-10 8.5E-15 116.4 10.0 101 44-222 244-344 (356)
41 PRK10604 sensor protein RstB; 99.1 6.3E-10 1.4E-14 119.1 11.6 76 149-227 347-422 (433)
42 PTZ00130 heat shock protein 90 99.1 5.1E-10 1.1E-14 128.3 10.6 120 151-281 134-265 (814)
43 PRK10549 signal transduction h 99.1 6.8E-10 1.5E-14 117.9 10.9 107 45-226 350-456 (466)
44 PRK11091 aerobic respiration c 99.0 2E-09 4.4E-14 123.0 14.4 78 150-229 429-506 (779)
45 PLN03237 DNA topoisomerase 2; 99.0 3.1E-09 6.7E-14 127.5 16.1 163 46-288 76-257 (1465)
46 PRK10618 phosphotransfer inter 99.0 1.8E-09 3.8E-14 126.6 13.7 115 150-276 598-712 (894)
47 PTZ00108 DNA topoisomerase 2-l 99.0 3E-09 6.5E-14 127.8 15.0 162 46-288 56-239 (1388)
48 PRK13837 two-component VirA-li 99.0 4.5E-09 9.8E-14 121.8 15.5 71 149-228 605-675 (828)
49 PRK15347 two component system 99.0 1.3E-09 2.7E-14 126.0 10.5 104 45-228 511-614 (921)
50 PRK11107 hybrid sensory histid 99.0 4.9E-09 1.1E-13 120.9 14.8 116 150-275 443-558 (919)
51 COG0642 BaeS Signal transducti 99.0 2.4E-09 5.1E-14 104.6 10.3 101 46-226 227-327 (336)
52 TIGR01386 cztS_silS_copS heavy 99.0 2E-09 4.4E-14 113.2 10.6 100 45-220 351-450 (457)
53 PRK10815 sensor protein PhoQ; 99.0 2.2E-09 4.8E-14 117.5 10.7 68 149-223 406-473 (485)
54 PRK11466 hybrid sensory histid 98.9 7.5E-09 1.6E-13 119.9 14.5 74 149-229 590-663 (914)
55 PRK09470 cpxA two-component se 98.9 3E-09 6.5E-14 112.5 10.3 72 149-223 381-452 (461)
56 TIGR03785 marine_sort_HK prote 98.9 3.3E-09 7.2E-14 121.3 10.6 103 45-221 595-697 (703)
57 PRK10490 sensor protein KdpD; 98.9 4.5E-09 9.7E-14 123.3 11.1 107 45-228 776-882 (895)
58 PRK09835 sensor kinase CusS; P 98.9 6.5E-09 1.4E-13 110.7 11.2 97 45-215 373-469 (482)
59 TIGR02956 TMAO_torS TMAO reduc 98.9 9.5E-09 2.1E-13 119.5 13.5 73 152-229 612-684 (968)
60 PRK09467 envZ osmolarity senso 98.9 5.8E-09 1.2E-13 110.1 10.3 63 149-215 359-421 (435)
61 TIGR02966 phoR_proteo phosphat 98.9 6.9E-09 1.5E-13 103.5 10.0 69 150-221 260-328 (333)
62 PRK11360 sensory histidine kin 98.9 7.4E-09 1.6E-13 111.4 10.9 102 46-227 499-600 (607)
63 PRK11073 glnL nitrogen regulat 98.9 9.7E-09 2.1E-13 105.2 11.2 66 151-226 280-345 (348)
64 PRK11100 sensory histidine kin 98.8 1.2E-08 2.7E-13 107.6 10.6 95 46-215 367-461 (475)
65 TIGR02916 PEP_his_kin putative 98.8 8.5E-09 1.9E-13 117.0 9.9 97 45-222 577-674 (679)
66 PRK10841 hybrid sensory kinase 98.8 1.1E-08 2.4E-13 120.4 11.0 77 149-228 591-667 (924)
67 PRK10337 sensor protein QseC; 98.8 7.9E-09 1.7E-13 109.7 8.9 58 153-215 382-439 (449)
68 KOG1977 DNA mismatch repair pr 98.8 4.9E-09 1.1E-13 116.7 6.0 137 150-301 48-202 (1142)
69 PRK09959 hybrid sensory histid 98.8 5E-08 1.1E-12 116.6 14.7 75 150-229 863-937 (1197)
70 PRK13557 histidine kinase; Pro 98.8 1.2E-07 2.6E-12 101.9 14.9 73 149-228 322-394 (540)
71 smart00387 HATPase_c Histidine 98.7 1.5E-07 3.3E-12 78.1 10.9 95 45-214 3-97 (111)
72 PRK13560 hypothetical protein; 98.6 1.4E-07 3.1E-12 106.3 11.1 92 47-227 711-802 (807)
73 cd00075 HATPase_c Histidine ki 98.6 4.7E-07 1E-11 73.9 10.1 63 149-215 31-93 (103)
74 COG3852 NtrB Signal transducti 98.6 2.5E-07 5.5E-12 96.0 10.1 69 150-228 286-354 (363)
75 COG4251 Bacteriophytochrome (l 98.5 3.1E-07 6.7E-12 102.3 7.6 76 149-229 667-742 (750)
76 KOG0020 Endoplasmic reticulum 98.3 1.5E-06 3.2E-11 94.4 9.4 116 150-277 140-271 (785)
77 PRK10547 chemotaxis protein Ch 98.3 3.7E-06 8E-11 96.2 11.1 75 149-227 427-522 (670)
78 PRK11644 sensory histidine kin 98.2 5.6E-06 1.2E-10 91.4 11.3 44 149-213 439-482 (495)
79 TIGR01925 spIIAB anti-sigma F 98.2 1.5E-05 3.2E-10 72.2 11.8 55 149-215 72-126 (137)
80 KOG0019 Molecular chaperone (H 98.2 3.1E-06 6.7E-11 94.0 7.7 100 148-261 98-207 (656)
81 PRK10600 nitrate/nitrite senso 98.1 1.4E-05 2.9E-10 88.9 11.3 59 149-228 498-556 (569)
82 PRK04069 serine-protein kinase 98.1 3.8E-05 8.3E-10 72.6 11.6 103 34-213 28-131 (161)
83 PRK10935 nitrate/nitrite senso 98.0 2.5E-05 5.4E-10 85.6 10.9 58 149-227 501-558 (565)
84 PRK03660 anti-sigma F factor; 98.0 7E-05 1.5E-09 68.4 11.5 54 150-215 73-126 (146)
85 COG5000 NtrY Signal transducti 98.0 2.5E-05 5.5E-10 87.2 9.5 59 149-215 637-695 (712)
86 COG4192 Signal transduction hi 97.9 2.4E-05 5.3E-10 84.9 7.8 93 45-215 562-654 (673)
87 TIGR01924 rsbW_low_gc serine-p 97.8 0.00027 5.8E-09 66.9 11.9 101 36-213 30-131 (159)
88 PRK13559 hypothetical protein; 97.7 0.00026 5.7E-09 73.2 11.8 56 149-226 302-357 (361)
89 COG4585 Signal transduction hi 97.7 0.0002 4.3E-09 75.5 10.2 80 46-220 278-357 (365)
90 KOG0787 Dehydrogenase kinase [ 97.5 0.00062 1.3E-08 72.7 10.8 109 46-225 259-377 (414)
91 PF14501 HATPase_c_5: GHKL dom 97.3 0.0047 1E-07 53.6 12.5 86 46-214 4-89 (100)
92 COG2972 Predicted signal trans 97.3 0.0012 2.6E-08 72.3 10.7 57 149-216 384-441 (456)
93 PF13581 HATPase_c_2: Histidin 97.2 0.0033 7.1E-08 55.9 10.8 91 39-211 22-113 (125)
94 COG0643 CheA Chemotaxis protei 97.2 0.00093 2E-08 77.3 8.8 74 149-226 474-571 (716)
95 PF05833 FbpA: Fibronectin-bin 96.8 0.0027 5.9E-08 69.2 7.6 105 280-391 121-238 (455)
96 COG3850 NarQ Signal transducti 96.8 0.0078 1.7E-07 67.0 10.5 29 47-79 481-509 (574)
97 KOG0355 DNA topoisomerase type 96.6 0.0018 3.9E-08 74.7 4.3 97 151-257 85-192 (842)
98 PRK14810 formamidopyrimidine-D 96.6 0.016 3.4E-07 59.9 10.7 75 314-391 132-208 (272)
99 COG3920 Signal transduction hi 96.4 0.033 7.2E-07 55.9 11.3 34 46-79 121-154 (221)
100 COG3851 UhpB Signal transducti 96.3 0.019 4.2E-07 61.5 9.6 28 45-76 408-435 (497)
101 PF06831 H2TH: Formamidopyrimi 96.0 0.023 5.1E-07 49.6 6.8 66 323-391 10-77 (92)
102 COG2172 RsbW Anti-sigma regula 94.9 0.39 8.5E-06 45.4 11.7 57 149-217 74-130 (146)
103 PRK01103 formamidopyrimidine/5 94.3 0.089 1.9E-06 54.3 6.3 74 315-391 132-209 (274)
104 PF00204 DNA_gyraseB: DNA gyra 94.2 0.67 1.4E-05 44.5 11.6 114 437-557 33-171 (173)
105 PRK13945 formamidopyrimidine-D 94.0 0.29 6.2E-06 50.9 9.5 75 314-391 140-218 (282)
106 COG3275 LytS Putative regulato 93.7 0.38 8.1E-06 53.6 10.0 35 150-203 491-525 (557)
107 COG0099 RpsM Ribosomal protein 93.7 0.077 1.7E-06 48.8 3.9 43 346-390 20-62 (121)
108 TIGR00577 fpg formamidopyrimid 93.4 0.21 4.5E-06 51.7 7.2 75 314-391 131-209 (272)
109 PRK14811 formamidopyrimidine-D 93.1 0.29 6.2E-06 50.6 7.5 74 314-391 120-197 (269)
110 cd00822 TopoII_Trans_DNA_gyras 92.9 1.3 2.8E-05 42.8 11.4 113 437-556 31-169 (172)
111 PRK10445 endonuclease VIII; Pr 92.4 0.4 8.7E-06 49.4 7.5 76 314-391 124-205 (263)
112 COG4564 Signal transduction hi 90.7 0.63 1.4E-05 49.9 6.8 51 149-218 388-439 (459)
113 PTZ00134 40S ribosomal protein 90.6 0.39 8.4E-06 46.1 4.8 50 338-390 26-75 (154)
114 TIGR03629 arch_S13P archaeal r 90.3 0.5 1.1E-05 44.8 5.2 45 346-392 24-68 (144)
115 CHL00137 rps13 ribosomal prote 90.3 0.48 1E-05 43.8 4.9 43 346-390 20-62 (122)
116 TIGR03631 bact_S13 30S ribosom 89.2 0.6 1.3E-05 42.5 4.7 43 346-390 18-60 (113)
117 PRK05179 rpsM 30S ribosomal pr 89.0 0.63 1.4E-05 43.0 4.7 43 346-390 20-62 (122)
118 COG0266 Nei Formamidopyrimidin 88.4 2 4.2E-05 44.9 8.3 80 310-392 127-210 (273)
119 PF00416 Ribosomal_S13: Riboso 87.9 1.6 3.5E-05 39.1 6.5 50 338-390 11-60 (107)
120 PRK04053 rps13p 30S ribosomal 86.7 1.1 2.4E-05 42.8 4.9 50 338-390 21-70 (149)
121 KOG3311 Ribosomal protein S18 84.1 0.64 1.4E-05 44.4 2.0 46 343-390 28-73 (152)
122 cd00329 TopoII_MutL_Trans MutL 80.7 3.7 8E-05 34.8 5.3 78 436-517 26-106 (107)
123 TIGR00275 flavoprotein, HI0933 79.9 3.8 8.3E-05 44.3 6.4 65 327-396 273-337 (400)
124 PF03486 HI0933_like: HI0933-l 74.7 7.5 0.00016 42.7 6.8 64 327-395 280-344 (409)
125 PRK11700 hypothetical protein; 51.2 26 0.00056 34.9 4.9 59 252-322 112-177 (187)
126 PTZ00108 DNA topoisomerase 2-l 50.5 92 0.002 39.7 10.5 79 438-524 277-367 (1388)
127 PRK14031 glutamate dehydrogena 49.5 1.6E+02 0.0034 33.1 11.2 140 279-435 51-200 (444)
128 cd03481 TopoIIA_Trans_ScTopoII 44.2 51 0.0011 31.5 5.6 85 429-519 23-119 (153)
129 PF06185 YecM: YecM protein; 42.5 32 0.00068 34.2 4.0 62 253-322 108-177 (185)
130 COG0030 KsgA Dimethyladenosine 42.0 51 0.0011 34.3 5.7 59 325-391 199-257 (259)
131 COG0334 GdhA Glutamate dehydro 41.7 46 0.00099 36.9 5.5 66 370-435 106-179 (411)
132 TIGR00755 ksgA dimethyladenosi 41.3 71 0.0015 32.2 6.5 57 326-387 196-252 (253)
133 COG1293 Predicted RNA-binding 41.1 1.3E+02 0.0029 34.6 9.3 69 319-391 168-236 (564)
134 COG2081 Predicted flavoprotein 38.2 63 0.0014 35.8 5.8 66 324-395 271-337 (408)
135 PRK14896 ksgA 16S ribosomal RN 34.8 1.5E+02 0.0033 30.1 7.7 64 326-390 193-256 (258)
136 KOG0417 Ubiquitin-protein liga 34.0 57 0.0012 31.4 4.1 53 383-445 5-58 (148)
137 PF07492 Trehalase_Ca-bi: Neut 32.3 33 0.00071 24.5 1.7 13 149-161 11-23 (30)
138 cd07268 Glo_EDI_BRP_like_4 Thi 31.5 1.1E+02 0.0024 29.5 5.6 60 252-323 74-141 (149)
139 PRK00274 ksgA 16S ribosomal RN 28.3 1.5E+02 0.0033 30.4 6.5 61 326-390 210-270 (272)
140 PRK14030 glutamate dehydrogena 25.3 4.2E+02 0.009 29.9 9.6 139 278-433 50-198 (445)
141 PLN03237 DNA topoisomerase 2; 24.1 5.3E+02 0.011 33.5 11.0 75 438-518 295-380 (1465)
142 PTZ00079 NADP-specific glutama 23.1 4.8E+02 0.01 29.6 9.5 145 271-434 54-208 (454)
143 PTZ00338 dimethyladenosine tra 20.7 3.8E+02 0.0083 28.2 7.9 64 326-392 204-290 (294)
No 1
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=100.00 E-value=1.2e-150 Score=1179.99 Aligned_cols=464 Identities=35% Similarity=0.651 Sum_probs=448.0
Q ss_pred cccccCCHHHHHHhcccccCccCCCchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEeccccccccccccccccccccc
Q 008575 21 SALKQKSPAEFFAENKNIAGFDNPGKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKL 100 (561)
Q Consensus 21 ~~~~~~S~aEff~~nk~i~Gfdn~~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~ 100 (561)
+.++++|+||||++|++|+|||||.++|||||+|||+|||||||+.|+||+|.|+|++++
T Consensus 10 e~~re~SvAEFF~kNk~mlGf~~p~RsL~~tv~ElV~NSLDA~eeaGILPdI~v~I~~~~-------------------- 69 (538)
T COG1389 10 EKFRELSVAEFFRKNKEMLGFDGPIRSLTTTVHELVTNSLDACEEAGILPDIKVEIERIG-------------------- 69 (538)
T ss_pred hhhhhcCHHHHHHhCHHhcCCCCchhHHHHHHHHHHhcchhhHHhcCCCCceEEEEEecC--------------------
Confidence 359999999999999999999999999999999999999999999999999999999983
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccc
Q 008575 101 YDDYETEKARERRLAKEARAQELQAKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTK 180 (561)
Q Consensus 101 ~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK 180 (561)
.++|.+.|+|||||||++.+|++|++++||||
T Consensus 70 ------------------------------------------------~d~y~v~veDNGpGIP~e~IPkvFGk~LygSK 101 (538)
T COG1389 70 ------------------------------------------------KDHYKVIVEDNGPGIPEEQIPKVFGKMLYGSK 101 (538)
T ss_pred ------------------------------------------------CceEEEEEecCCCCCChhHhHHHHHHHhccch
Confidence 68999999999999999999999999999999
Q ss_pred c-ccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEeeccCCCceeeeeccccCCCCCCCcEEEEEec
Q 008575 181 Y-GLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDIDIHRNIPHVHLHEKRENKDRWHGAEIQVVIE 259 (561)
Q Consensus 181 ~-~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V~L~ 259 (561)
| ..+|++||+|||+++|.+||||++|.+++|.|++.++..++.|+|.||+++|+|.|++....+++..||||+|++++.
T Consensus 102 fh~~~QsRGqqGiGis~avLysQmTtGkPv~V~s~T~~s~~~~~~~l~id~~kNEp~Iv~r~~~~~~~~~hGT~Vel~~~ 181 (538)
T COG1389 102 FHRNIQSRGQQGIGISAAVLYSQMTTGKPVRVISSTGDSGTAYEYELKIDVQKNEPEIVERGEVENPGGWHGTRVELELK 181 (538)
T ss_pred hhhhhhccccccccHHHHHHHHHhcCCCceEEEecCCCCcceEEEEEEecCCCCcchhhhcccccCCCCCCceEEEEEec
Confidence 9 678999999999999999999999999999999988889999999999999999999986777778899999999999
Q ss_pred CCcchhHHH-HHHHHHHHHhhCCCcEEEEEEcccccCcceEEEeccccCCCCCCCcccccCCccccHHHHHHHHHhcCCc
Q 008575 260 GNWTTYRSK-ILHYMRQMAVITPYAQFLFKFVSEVAEKNVTIRFSRRTDVMPPVPVETKHHPSSVDLLLIKGLIAETSKG 338 (561)
Q Consensus 260 ~n~~~~r~~-I~eyLrr~AIvnP~a~~~l~~~~~~pdg~~~~~f~R~t~~lP~~P~eikpHP~Gvdl~~L~~m~~~t~~~ 338 (561)
++|..++++ +++||++||++||||+|+|. ||||++ +.|+|.+++||++|+|++|||||||+++|++|+.+|+++
T Consensus 182 ~~~~~~~~qgi~eYlkrtaiinPhA~I~l~----dPdG~~-~vf~r~t~~lP~pP~E~kPHP~gvd~~~L~~M~~~T~~~ 256 (538)
T COG1389 182 GVWYRAKRQGIYEYLKRTAIINPHARIVLK----DPDGNL-VVFPRSTDKLPKPPKEIKPHPHGVDLDTLKKMAHRTRRS 256 (538)
T ss_pred ccchhhcccCHHHHHHHHhhcCCceEEEEE----CCCCcE-EEeccchhhCCCCccccCCCCccccHHHHHHHHHHhhhh
Confidence 999877765 99999999999999999999 999998 679999999999999999999999999999999999999
Q ss_pred chHHHhhcccccCCHHHHHHHHhhhCCCCCCCCCcccCC----HHHHHHHHHHHHhCCccCCCCCCcCccchHHHHhhhh
Q 008575 339 TLLQFLQHEFVNIGKSLAERLIGEMGPEFSPKMAVKSLT----SQQIVRIHQLFRQAKFDDPSGGCLSPAGEYNLRLGII 414 (561)
Q Consensus 339 tl~~FL~~~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~----~~~~~~l~~~~~~~~~~~P~~~~LsPiGe~~l~~gl~ 414 (561)
||++||+++|+|||.++|+++++. ++|+++..|+.|+ |+|+++|++||++|+||+|||||||||||++|++||+
T Consensus 257 tv~~fL~sef~rig~~ta~e~~e~--~g~~~~~~p~~L~~~~~~eea~~lv~a~~~~~fm~Pptd~LsPIGee~ie~gLk 334 (538)
T COG1389 257 TVREFLVSEFSRIGEKTADELLEY--AGFDPDKKPRELTKKKTREEAEKLVEAFKKMKFMAPPTDGLSPIGEELIEKGLK 334 (538)
T ss_pred hHHHHHHHHHHHhhhhhHHHHHHH--hcCCcccCHHHhhcccCHHHHHHHHHHHHhCcccCCCccccCcccHHHHHHHHH
Confidence 999999999999999999999999 6799999999999 9999999999999999999999999999999999999
Q ss_pred hhcCCceEEEEecCcceecCCcEEEEEEeeecCccCCC-CceEEEeeccccccccCCCchhhhhhhcccCccccccCCCC
Q 008575 415 KELHPDMVATYSGSAQVFEGHPFIVEAGVSVGGKDVKQ-GLNIFRFANRIPLLFEQGGDVVTRTAMKRINWSSYKINQTQ 493 (561)
Q Consensus 415 k~~~pefv~~~tr~p~~y~G~PfiVEa~iayGg~~~~~-~~~i~RfANriPLlf~~g~~~it~~~~~~i~W~~Y~i~~~~ 493 (561)
++|+||||+|+||+|.||+||||||||||||||.++.. ++.|||||||||||||+||||+|+ +|++|||++|||+|++
T Consensus 335 ~~~~pefv~avTRkPkvy~G~pFiVEvgiAYGG~i~~~e~~~llRyANrvPLlyd~g~cv~tk-~V~~i~WkrYgl~~~~ 413 (538)
T COG1389 335 SILNPEFVAAVTRKPKVYRGHPFIVEVGIAYGGNIPGGEKPLLLRYANRVPLLYDAGSCVITK-VVESIDWKRYGLDQPD 413 (538)
T ss_pred HhcCchheeeeccCccccCCCceEEEEEeeccCCCCCCcchhhhhhcccCceeeecCcchhhH-hhhhccceecCcCCCC
Confidence 99999999999999999999999999999999987544 799999999999999999999999 9999999999999999
Q ss_pred CceEEEEEeeeCCCCCCCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 008575 494 DKIGVFVSIVSTKIPFKGTGKEYIGDDTKEIASAVKSAIQQCCIQLKSKIVRKIQDREQQERKRNLSR 561 (561)
Q Consensus 494 ~~~~v~vhi~St~vPf~~~~Ke~ia~~~~EI~~ei~~al~~~~r~L~~~l~r~~~~~~~~~r~~~~~~ 561 (561)
+|++||||||||||||||+|||+|| |+|||++|||+|||+|||+|+.||+||++++++++|.+.+.|
T Consensus 414 aplvvlVhv~St~VPyts~gKqsIa-~vpeIe~Eir~Al~evaRkL~~yLsrk~r~~e~~~K~~~i~k 480 (538)
T COG1389 414 APLVVLVHVASTNVPYTSAGKQSIA-DVPEIENEIRLALMEVARKLKLYLSRKRREMEERKKRKTIEK 480 (538)
T ss_pred CcEEEEEEecccCCCcCCccchhcc-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999 799999999999999999999999999999999999988753
No 2
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=100.00 E-value=7.9e-138 Score=1115.31 Aligned_cols=465 Identities=33% Similarity=0.601 Sum_probs=434.5
Q ss_pred cccccCCHHHHHHhcccccCccCCCchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEeccccccccccccccccccccc
Q 008575 21 SALKQKSPAEFFAENKNIAGFDNPGKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKL 100 (561)
Q Consensus 21 ~~~~~~S~aEff~~nk~i~Gfdn~~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~ 100 (561)
+.|+++||||||++|++|+|||++.++|+++++|||+||+|||+..+.+|.|.|+++..+
T Consensus 2 ~~~~~~s~aEFF~kN~~~~Gf~~~~~~L~~VlkELVeNAIDA~~~~g~~p~I~V~i~~~g-------------------- 61 (488)
T TIGR01052 2 EKFREMSVAEFFRKNKHMLGYSGKIRSLTTVIHELVTNSLDACEEAGILPDIKVEIEKIG-------------------- 61 (488)
T ss_pred CcccccCHHHHHHhCCccccccCCHHHHHHHHHHHHHHHHHHhhccCCCceEEEEEEECC--------------------
Confidence 468999999999999999999999999999999999999999998888899999987652
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccc
Q 008575 101 YDDYETEKARERRLAKEARAQELQAKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTK 180 (561)
Q Consensus 101 ~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK 180 (561)
.+.+.|+|+|||+||++++++++|++|++|||
T Consensus 62 ------------------------------------------------~~~~~I~V~DNG~GIp~edl~~iF~rf~~tsK 93 (488)
T TIGR01052 62 ------------------------------------------------KDHYKVTVEDNGPGIPEEYIPKVFGKMLAGSK 93 (488)
T ss_pred ------------------------------------------------CceEEEEEEECCCCCCHHHHHhhhhhccccCc
Confidence 34678999999999999999999999999999
Q ss_pred cc-cccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEeeccCCCceeeeeccccCCCCCCCcEEEEEec
Q 008575 181 YG-LKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDIDIHRNIPHVHLHEKRENKDRWHGAEIQVVIE 259 (561)
Q Consensus 181 ~~-~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V~L~ 259 (561)
++ ..+++|++|+||+++.++++++.|.+++|.|++.|...++.+++.+|+.+|.|.+++..+... ..||||+|+|+++
T Consensus 94 ~~~~~~s~G~~GlGLs~~~~isq~~~G~~i~V~S~~~g~~~~~~~~~~id~~~n~G~i~~~~~~~~-~~~~GT~V~v~f~ 172 (488)
T TIGR01052 94 FHRIIQSRGQQGIGISGAVLYSQMTTGKPVKVISSTGGEIYVYKMKLKIDVQKNEGEIVEKGEWNK-PGWRGTRIELEFK 172 (488)
T ss_pred cccccccCCCccEehhHHHHHHHHcCCceEEEEEecCCceEEEEEEEEecccccCCeecceeecCC-CCCCceEEEEEEC
Confidence 85 567889999999999999999988889999999877777888999999999999888765442 3489999999977
Q ss_pred CCcch-hHHHHHHHHHHHHhhCCCcEEEEEEcccccCcceEEEeccccCCCCCCCcccccCCccccHHHHHHHHHhcCCc
Q 008575 260 GNWTT-YRSKILHYMRQMAVITPYAQFLFKFVSEVAEKNVTIRFSRRTDVMPPVPVETKHHPSSVDLLLIKGLIAETSKG 338 (561)
Q Consensus 260 ~n~~~-~r~~I~eyLrr~AIvnP~a~~~l~~~~~~pdg~~~~~f~R~t~~lP~~P~eikpHP~Gvdl~~L~~m~~~t~~~ 338 (561)
..|.. .+..|.+||+++|++|||++|+|. +|+|+. +.|+|+|++||++|+|+||||||||++.|++|+++|+.+
T Consensus 173 ~~~~r~~k~~i~e~l~~~Al~nP~~~i~l~----~~~~~~-~~f~R~~~~~P~~p~e~kpHP~gv~~~~l~~m~~~t~~~ 247 (488)
T TIGR01052 173 GVSYRRSKQGVYEYLRRTAVANPHAKIVLV----DPDGEI-YVFPRSTDEIPKPPKEMKPHPHGVTIDDLKSMARSTRAS 247 (488)
T ss_pred CceeeccHHHHHHHHHHHHhhCCCeEEEEE----eCCCCE-EEeecccccCCCCCccCCCCCCccCHHHHHHHHHhcCcc
Confidence 77765 567899999999999999999998 899997 889999999999999999999999999999999999999
Q ss_pred chHHHhhcccccCCHHHHHHHHhhhCCCCC-CCCCcccCCHHHHHHHHHHHHhCCccCCCCCCcCccchHHHHhhhhhhc
Q 008575 339 TLLQFLQHEFVNIGKSLAERLIGEMGPEFS-PKMAVKSLTSQQIVRIHQLFRQAKFDDPSGGCLSPAGEYNLRLGIIKEL 417 (561)
Q Consensus 339 tl~~FL~~~f~~v~~~~a~~i~~~~~~~~~-~~~~p~~l~~~~~~~l~~~~~~~~~~~P~~~~LsPiGe~~l~~gl~k~~ 417 (561)
+|++||+++|+|||+++|++||+.+|.+|+ ++|+|++|+|+|+++|++|||+++||+||++||||||||+|++||+++|
T Consensus 248 ~l~~fL~~~f~~v~~~~a~~~~~~~g~~~~~~~~~~~~l~~~~~~~l~~~~~~~~~~~P~~~~lspige~~i~~gl~~~~ 327 (488)
T TIGR01052 248 TLRSFLVSEFSRIGEKKIKELLEKYGIDVDPLDKKPKELTWDEAEKIVNAFKEMKFMAPPTDGLSPIGEENIEKGLKEIL 327 (488)
T ss_pred cHHHHHHHhhcccCHHHHHHHHHHhCCCccccCCChhhCCHHHHHHHHHHHHhcCCCCCCccccCCCCHHHHHHHHHHhc
Confidence 999999999999999999999999543333 9999999999999999999999999999999999999999999999999
Q ss_pred CCceEEEEecCcceecC-CcEEEEEEeeecCccCCCC-ceEEEeeccccccccCCCchhhhhhhcccCccccccCC-CCC
Q 008575 418 HPDMVATYSGSAQVFEG-HPFIVEAGVSVGGKDVKQG-LNIFRFANRIPLLFEQGGDVVTRTAMKRINWSSYKINQ-TQD 494 (561)
Q Consensus 418 ~pefv~~~tr~p~~y~G-~PfiVEa~iayGg~~~~~~-~~i~RfANriPLlf~~g~~~it~~~~~~i~W~~Y~i~~-~~~ 494 (561)
+||||+|+||+|+||+| |||||||||||||+++.++ ++|||||||||||||+||||+|+ ||++|||++|||+| |.+
T Consensus 328 ~p~f~~~~tr~p~~y~g~~pfiVE~~iayGg~~~~~~~~~i~RfaNrvPLl~~~g~~~~t~-~v~~i~w~~Y~~~~~~~~ 406 (488)
T TIGR01052 328 QPEFVGAVTRSPKTYRGGIPFIVEVGIAYGGNIGRRSEPEILRYANKVPLLYDAGSCVLTK-AVKSINWKRYGIRDFPSA 406 (488)
T ss_pred CccEEEEeccCCccccCCCCeEEEEeeecCCcCCCCCceeEEEecccCceeecccccHHHH-HHHhCChhhcCCCCCCCC
Confidence 99999999999999999 8999999999999998885 99999999999999999999999 99999999999985 558
Q ss_pred ceEEEEEeeeCCCCCCCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 008575 495 KIGVFVSIVSTKIPFKGTGKEYIGDDTKEIASAVKSAIQQCCIQLKSKIVRKIQDREQQERKRNLSR 561 (561)
Q Consensus 495 ~~~v~vhi~St~vPf~~~~Ke~ia~~~~EI~~ei~~al~~~~r~L~~~l~r~~~~~~~~~r~~~~~~ 561 (561)
|++||||||||||||||+|||||| |+|||++||++|||+|||+|+.||+||++++++++|+++|+|
T Consensus 407 p~~v~vhi~St~vPf~s~~Ke~ia-~~~ei~~ei~~al~~~~r~L~~~l~~~~~~~~~~~r~~~~~~ 472 (488)
T TIGR01052 407 PLVVLVNLASTNVPYTSTGKQSVA-DIPEIYNEIRLALMEVARRLRLYLSRKAREEEEIKRRKTLEK 472 (488)
T ss_pred CEEEEEEEeecCCCCCCcchhhhc-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999 799999999999999999999999999999999999998864
No 3
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=100.00 E-value=2.7e-137 Score=1121.12 Aligned_cols=464 Identities=37% Similarity=0.708 Sum_probs=436.8
Q ss_pred ccccCCHHHHHHhcccccCccCCCchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccc
Q 008575 22 ALKQKSPAEFFAENKNIAGFDNPGKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLY 101 (561)
Q Consensus 22 ~~~~~S~aEff~~nk~i~Gfdn~~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~ 101 (561)
+|+++||||||++|++++||+||.++|+++|+|||+||+|||+..+.+|.|.|+++....
T Consensus 11 ~~~~~s~aEfF~kn~~~~gf~~p~~~L~qVLkNLIeNAIDa~~~~gilp~I~I~I~~~~~-------------------- 70 (535)
T PRK04184 11 KFREISVAEFFEKNKELLGFDNPARALYTTVKELVDNSLDACEEAGILPDIKIEIKRVDE-------------------- 70 (535)
T ss_pred hhhhCCHHHHHHhCccceeecCCHHHHHHHHHHHHHHHHHHhhhcCCCceEEEEEEEccC--------------------
Confidence 499999999999999999999999999999999999999999988889999999876510
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhccccccccc
Q 008575 102 DDYETEKARERRLAKEARAQELQAKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKY 181 (561)
Q Consensus 102 ~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~ 181 (561)
+++.+.|+|+|||+||++++++++|++|+++||+
T Consensus 71 ----------------------------------------------~~~~~~I~V~DNG~GIp~e~l~~iF~~f~~~SK~ 104 (535)
T PRK04184 71 ----------------------------------------------GKDHYRVTVEDNGPGIPPEEIPKVFGKLLYGSKF 104 (535)
T ss_pred ----------------------------------------------CCcEEEEEEEcCCCCCCHHHHHHHhhhhhccccc
Confidence 1457899999999999999999999999899998
Q ss_pred cc-ccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEeeccCCCceeeeeccccCCCCCCCcEEEEEecC
Q 008575 182 GL-KQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDIDIHRNIPHVHLHEKRENKDRWHGAEIQVVIEG 260 (561)
Q Consensus 182 ~~-~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V~L~~ 260 (561)
+. .+++|++|+||+++.++++++.|++++|.|++.+...++.|+|.+|+.+|.|.++..+..+ +..||||+|+|.+++
T Consensus 105 ~~~~~s~G~~GLGLsiv~~isq~~~G~~I~V~S~~~~g~~~~~~~l~id~~kn~g~i~~~~~~~-~~~~~GT~V~V~l~~ 183 (535)
T PRK04184 105 HNLRQSRGQQGIGISAAVLYAQMTTGKPVRVISSTGGSKKAYYFELKIDTKKNEPIILEREEVD-WDRWHGTRVELEIEG 183 (535)
T ss_pred cccccCCCCCCcchHHHHHHHHHhcCCcEEEEEecCCCceEEEEEEEecccccCCeeccccccC-CCCCCCEEEEEEECC
Confidence 54 5678999999999999999988888999999866555789999999989999988765433 467999999999999
Q ss_pred CcchhHHHHHHHHHHHHhhCCCcEEEEEEcccccCcceEEEeccccCCCCCCCcccccCCccccHHHHHHHHHhcCCcch
Q 008575 261 NWTTYRSKILHYMRQMAVITPYAQFLFKFVSEVAEKNVTIRFSRRTDVMPPVPVETKHHPSSVDLLLIKGLIAETSKGTL 340 (561)
Q Consensus 261 n~~~~r~~I~eyLrr~AIvnP~a~~~l~~~~~~pdg~~~~~f~R~t~~lP~~P~eikpHP~Gvdl~~L~~m~~~t~~~tl 340 (561)
+|+..+++|.+||+++|++|||++|+|. +|||+. +.|+|+|++||++|+|++|||||||+++|++|++.|+.+||
T Consensus 184 ~~~~~~~~I~e~i~r~Al~nP~~~~~l~----~~~g~~-~~f~R~~~~~P~~p~e~kpHP~gv~~~~l~~m~~~t~~~~l 258 (535)
T PRK04184 184 DWYRAKQRIYEYLKRTAIVNPHARITFK----DPDGEI-LVFPRATDKLPKPPKEIKPHPHGVDLGTLKRMAARTKRRTL 258 (535)
T ss_pred cChhhHHHHHHHHHHHHHhCCCeEEEEE----eCCCeE-EEEecccccCCCCCccCCCCCCccCHHHHHHHHHhcccCCH
Confidence 9987788999999999999999999998 899997 89999999999999999999999999999999999999999
Q ss_pred HHHhhcccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHHhCCccCCCCCCcCccchHHHHhhhhhhcCCc
Q 008575 341 LQFLQHEFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFRQAKFDDPSGGCLSPAGEYNLRLGIIKELHPD 420 (561)
Q Consensus 341 ~~FL~~~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~~~~~~~P~~~~LsPiGe~~l~~gl~k~~~pe 420 (561)
++||+++|+|||+++|++||+. +||+++|+|++|+|+|+++|++|||+++|++||++|||||||++|++||+++|+||
T Consensus 259 ~~fL~~~f~~v~~~~a~~~~~~--~~~~~~~~~~~l~~~~~~~l~~~~~~~~~~~pp~~~lspige~~i~~gl~~~~~p~ 336 (535)
T PRK04184 259 KEFLVEEFSRVGDKTADEILEK--AGLDPNKKPKELTREELERLVEAFKKYKFMAPPTACLSPIGEELIEKGLKKILKPE 336 (535)
T ss_pred HHHHHHhhcccCHHHHHHHHHH--cCCCCCCChhhCCHHHHHHHHHHHHhccCcCCCCccCCCCCHHHHHHHHHHhcCcc
Confidence 9999999999999999999999 57999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEEecCcceecCCcEEEEEEeeecCccCC-CCceEEEeeccccccccCCCchhhhhhhcccCccccccCCC-CCceEE
Q 008575 421 MVATYSGSAQVFEGHPFIVEAGVSVGGKDVK-QGLNIFRFANRIPLLFEQGGDVVTRTAMKRINWSSYKINQT-QDKIGV 498 (561)
Q Consensus 421 fv~~~tr~p~~y~G~PfiVEa~iayGg~~~~-~~~~i~RfANriPLlf~~g~~~it~~~~~~i~W~~Y~i~~~-~~~~~v 498 (561)
||+|+||+|+||+||||||||||||||+++. ++++|||||||||||||+||||+|+ ||++|||++|||+|+ .+|++|
T Consensus 337 f~~~~tr~p~~y~g~pfiVE~~iayGg~~~~~~~~~i~RfANrvPLl~~~g~~~~t~-~v~~i~w~~Y~~~~~~~~p~~v 415 (535)
T PRK04184 337 FVAAVTRKPKVYSGHPFIVEVGIAYGGEIPPDDKPELLRFANRVPLLYDEGSCVITK-AVESIDWKRYGIEQPPQAPLVV 415 (535)
T ss_pred EEEEeccCCcccCCCCeEEEEEeeecCCCCCCCCceEEEEccCCceeecCCccHHHH-HHHhCChhhcCcCCCCCCCEEE
Confidence 9999999999999999999999999999854 4899999999999999999999999 999999999999995 799999
Q ss_pred EEEeeeCCCCCCCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 008575 499 FVSIVSTKIPFKGTGKEYIGDDTKEIASAVKSAIQQCCIQLKSKIVRKIQDREQQERKRNLSR 561 (561)
Q Consensus 499 ~vhi~St~vPf~~~~Ke~ia~~~~EI~~ei~~al~~~~r~L~~~l~r~~~~~~~~~r~~~~~~ 561 (561)
|||||||||||||+|||||| |+|||++||++|||+|||+|+.||+||++++++++|++.|.|
T Consensus 416 ~vhi~St~vP~~s~~Ke~ia-~~~ei~~ei~~al~~~~r~L~~~l~~~~~~~~~~~k~~~~~~ 477 (535)
T PRK04184 416 LVHVASTKVPYTSEGKEAIA-DVPEIEKEIRLALQEVARKLKKYLSRKRKEEEAKKKAKTFEK 477 (535)
T ss_pred EEEEeecCCCCCCcchhhhc-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999 799999999999999999999999999999999999998864
No 4
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=100.00 E-value=2.1e-128 Score=1070.68 Aligned_cols=465 Identities=30% Similarity=0.571 Sum_probs=425.9
Q ss_pred CcccccccCCHHHHHHhcccccCccCCCchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccc
Q 008575 18 PNESALKQKSPAEFFAENKNIAGFDNPGKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVD 97 (561)
Q Consensus 18 ~~~~~~~~~S~aEff~~nk~i~Gfdn~~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d 97 (561)
..++.|+++|++|||++|++++|||++.++|+++|+|||+||+|||+..+.+|.|.|.++..
T Consensus 17 el~~~~~~iS~aEfF~kN~~~lgfD~d~r~L~tVLkNLIeNALDAs~~~gilp~I~V~Ie~~------------------ 78 (795)
T PRK14868 17 ELAESQREISIAEFFEKNKHMLGFDSGARGLVTAVKEAVDNALDATEEAGILPDIYVEIEEV------------------ 78 (795)
T ss_pred HHHhhccccceeeecccCcceeeccCCHHHHHHHHHHHHHHHHHhCcccCCCceEEEEEEEC------------------
Confidence 34568999999999999999999999999999999999999999999888889999998664
Q ss_pred cccccchHHHHHHHHHHHHHHHHHHHHHHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhccccc
Q 008575 98 TKLYDDYETEKARERRLAKEARAQELQAKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLS 177 (561)
Q Consensus 98 ~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~ 177 (561)
.+.+.|+|+|||+||++++++++|++|++
T Consensus 79 ---------------------------------------------------g~~v~I~VeDNG~GIp~EdLp~IFerf~~ 107 (795)
T PRK14868 79 ---------------------------------------------------GDYYRLVVEDNGPGITKEQIPKVFGKLLY 107 (795)
T ss_pred ---------------------------------------------------CCEEEEEEEEcCCCCCHHHHHHHhhhhcc
Confidence 35689999999999999999999999999
Q ss_pred cccccc-ccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEeeccCCCceeeeeccccCCCCCCCcEEEE
Q 008575 178 GTKYGL-KQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDIDIHRNIPHVHLHEKRENKDRWHGAEIQV 256 (561)
Q Consensus 178 tSK~~~-~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V 256 (561)
|||+.. .+++|++|+||+++.+++++++|++++|+|++.+...+++|+|.++..+|+|.++..+..+ +..||||+|+|
T Consensus 108 tSKf~~~~~srG~rG~GLglai~~sqlt~GgpI~I~S~~~~~~~g~~~~L~Id~gkNep~I~~~~~~~-~~~~~GT~IeV 186 (795)
T PRK14868 108 GSRFHAREQSRGQQGIGISAAVLYSQLTSGKPAKITSRTQGSEEAQYFELIIDTDTNEPEISVEETTT-WDRPHGTRIEL 186 (795)
T ss_pred cccccccccCCCCCceehHHHHHHHHHcCCCcEEEEeCCCCCCceeEEEEEEecCCCccceecceecc-cCCCCceEEEE
Confidence 999853 3688999999999999999999999999999877777788999999999999986654433 46899999999
Q ss_pred EecCCcchhHHHHHHHHHHHHhhCCCcEEEEEEcccccCcceEEEeccccCCCCCCCcccccCCccccHHHHHHHHHhcC
Q 008575 257 VIEGNWTTYRSKILHYMRQMAVITPYAQFLFKFVSEVAEKNVTIRFSRRTDVMPPVPVETKHHPSSVDLLLIKGLIAETS 336 (561)
Q Consensus 257 ~L~~n~~~~r~~I~eyLrr~AIvnP~a~~~l~~~~~~pdg~~~~~f~R~t~~lP~~P~eikpHP~Gvdl~~L~~m~~~t~ 336 (561)
+|++||+ +|++|.+||+++||+|||++|+|. +| +.. +.|+|++++||++|.+++|||||+|++.|++|+.+++
T Consensus 187 ~Lf~N~p-AR~kI~eyl~r~Al~nP~a~f~l~----~~-~~~-~~~~r~t~~lp~~p~eIkPHP~Gve~~~L~~m~~~t~ 259 (795)
T PRK14868 187 EMEANMR-ARQQLHDYIKHTAVVNPHARIELR----EP-DES-LKFERATDQLPAETEEIRPHPHGVELGTLLKMLEATD 259 (795)
T ss_pred EEEccCc-hhhhHHHHHHHHHhhCCCeEEEEE----EC-CEE-EEecccccccccCchhccCCCCCcCHHHHHHHHhccC
Confidence 9999995 588899999999999999999998 56 444 8999999999999999999999999999999999999
Q ss_pred CcchHHHhhcccccCCHHHHHHHHhhhC------------CCCC------------------------------------
Q 008575 337 KGTLLQFLQHEFVNIGKSLAERLIGEMG------------PEFS------------------------------------ 368 (561)
Q Consensus 337 ~~tl~~FL~~~f~~v~~~~a~~i~~~~~------------~~~~------------------------------------ 368 (561)
..+|++||+.+|+|||+++|++||+.+. ..+.
T Consensus 260 ~~~l~gFL~~efsRVg~k~a~~ii~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~ 339 (795)
T PRK14868 260 SYSVSGFLQEEFTRVGKKTADSVIDNFRDRHFGREMAWRPPQAHEDVDLEAAVADAVANKGADATAAFARAVADAVADRD 339 (795)
T ss_pred CcEeHHhhhhhhccccHHHHHHHHHHHhhhhhhhhhcccCcccccccchhhhhhhhhccccchhhhhhhhhhhhhhcccc
Confidence 9999999999999999999999998441 0000
Q ss_pred --------------------------------------------------------------------------------
Q 008575 369 -------------------------------------------------------------------------------- 368 (561)
Q Consensus 369 -------------------------------------------------------------------------------- 368 (561)
T Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~r~~~~~~~ 419 (795)
T PRK14868 340 RIAHHELEAIVDSAADDVEDDTGTTFGETVRENAVEAAWSALTDDREADCYALVDDATTTRKDDAAVEGLAERLAAKFDD 419 (795)
T ss_pred cccchhhhhcchhhhhhhhccccccccchhhhhhhhhhhhhcccccchhhhhcccccccccccccccccchhhhhhhhcc
Confidence
Q ss_pred -------------------------------CCCCcccC-----------------------CHHHHHHHHHHHHhCCcc
Q 008575 369 -------------------------------PKMAVKSL-----------------------TSQQIVRIHQLFRQAKFD 394 (561)
Q Consensus 369 -------------------------------~~~~p~~l-----------------------~~~~~~~l~~~~~~~~~~ 394 (561)
.++.|+.| +|+++++|++|||+++||
T Consensus 420 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~L~~am~~~~~~ 499 (795)
T PRK14868 420 GGDRHRLTRDTLREYVDRAADMTEEYDDATFGETARENVVEALWSRMATVPDDPPNVSEIADDRDAASDLLEAMRETDII 499 (795)
T ss_pred ccchhhhhHHHHHhhhhhhhccccccccccccccchhhhhhhhhhhccccccccccccccccCHHHHHHHHHHHHhcCCC
Confidence 01223333 589999999999999999
Q ss_pred CCCCCCcCccchHHHHhhhhhhcCCceEEEEecCcceecCCcEEEEEEeeecCccCCC-CceEEEeeccccccccCCCch
Q 008575 395 DPSGGCLSPAGEYNLRLGIIKELHPDMVATYSGSAQVFEGHPFIVEAGVSVGGKDVKQ-GLNIFRFANRIPLLFEQGGDV 473 (561)
Q Consensus 395 ~P~~~~LsPiGe~~l~~gl~k~~~pefv~~~tr~p~~y~G~PfiVEa~iayGg~~~~~-~~~i~RfANriPLlf~~g~~~ 473 (561)
+|||+|||||||+||++||+|+|+||||+++||+|+||+||||||||||||||+++.+ +++|||||||||||||+||||
T Consensus 500 aP~t~cLsPIgee~i~~Gl~k~~~peF~aa~TR~p~vy~G~PFiVEagiAYGG~~~~~g~~~i~RfANRVPLly~~gac~ 579 (795)
T PRK14868 500 APPTDCLSPISAELVEAGLRKEFDADFYAAATRDAEVHGGDPFIVEAGIAYGGEIDSEGSVDVMRFANRVPLVYQRGACA 579 (795)
T ss_pred CCCccccCcCCHHHHHHHHHhhcCcceEEEeccCCcccCCCCeEEEEEeecCCcCCCCCCceEEEecccCceeecccccH
Confidence 9999999999999999999999999999999999999999999999999999999877 699999999999999999999
Q ss_pred hhhhhhcccCccccccCCCC------CceEEEEEeeeCCCCCCCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008575 474 VTRTAMKRINWSSYKINQTQ------DKIGVFVSIVSTKIPFKGTGKEYIGDDTKEIASAVKSAIQQCCIQLKSKIVRKI 547 (561)
Q Consensus 474 it~~~~~~i~W~~Y~i~~~~------~~~~v~vhi~St~vPf~~~~Ke~ia~~~~EI~~ei~~al~~~~r~L~~~l~r~~ 547 (561)
+|+ ||++|||++|||+|++ +|++||||||||||||||+|||||| |+|||++||+||||+|||+|+.||+||+
T Consensus 580 iT~-~v~~i~Wr~Ygl~q~~g~g~p~~P~~v~VhvaST~VPfts~sKeaIA-~vpEI~~EI~lAl~~~aR~Lk~yl~k~~ 657 (795)
T PRK14868 580 TTD-VVKSIGWRNYGLDQPGGSGLPNGPAVIMVHVASTNVPFTSESKDAIA-NVPEIEDEIELAIREAARELKSYLNKRR 657 (795)
T ss_pred HHH-HHHhCChhhcCcCCCCCCCCCCCCEEEEEEEeecCCCCCCcchhhhc-CCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999 9999999999999864 6999999999999999999999999 7999999999999999999999999999
Q ss_pred HHHHHHHHHhhhcC
Q 008575 548 QDREQQERKRNLSR 561 (561)
Q Consensus 548 ~~~~~~~r~~~~~~ 561 (561)
+++++++|++.|.|
T Consensus 658 ~~~~~~~k~~~~~k 671 (795)
T PRK14868 658 SMQKRREKQDVLGT 671 (795)
T ss_pred HHHHHHHHHHHHHH
Confidence 99999999998764
No 5
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=100.00 E-value=2.9e-119 Score=995.63 Aligned_cols=464 Identities=29% Similarity=0.547 Sum_probs=414.1
Q ss_pred cccccccCCHHHHHHhcccccCccCCCchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEeccccccccccccccccccc
Q 008575 19 NESALKQKSPAEFFAENKNIAGFDNPGKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDT 98 (561)
Q Consensus 19 ~~~~~~~~S~aEff~~nk~i~Gfdn~~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~ 98 (561)
.++.|+++|+||||++|++++||+++.++|+++++|||+||+||++..+.+|.|.|.++...
T Consensus 8 l~~~~~~~S~aEFF~kNk~~lGf~~~~r~L~~VVkELVeNAIDA~~~~g~~p~I~V~I~~~g------------------ 69 (659)
T PRK14867 8 LFDEFKEHSISEFFRKNKHMLGYSGKLRSMTTIIHELVTNSLDACEEAEILPDIKVEIEKLG------------------ 69 (659)
T ss_pred HHHHHHHhHHHHHHhhCCeeeechhHHHHHHHHHHHHHHHHHHHhhccCCCceEEEEEEECC------------------
Confidence 35679999999999999999999999999999999999999999998888899999987652
Q ss_pred ccccchHHHHHHHHHHHHHHHHHHHHHHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccc
Q 008575 99 KLYDDYETEKARERRLAKEARAQELQAKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSG 178 (561)
Q Consensus 99 ~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~t 178 (561)
.+.+.|+|+|||+||++++++++|++|++|
T Consensus 70 --------------------------------------------------~~~~~I~V~DNG~GIp~e~l~~iFerF~at 99 (659)
T PRK14867 70 --------------------------------------------------SDHYKVAVEDNGPGIPPEFVPKVFGKMLAG 99 (659)
T ss_pred --------------------------------------------------CcEEEEEEEeeCeeCCHHHHhhhhcccccc
Confidence 357899999999999999999999999999
Q ss_pred cccc-cccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEeeccCCCceeeeeccccCCCCCCCcEEEEE
Q 008575 179 TKYG-LKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDIDIHRNIPHVHLHEKRENKDRWHGAEIQVV 257 (561)
Q Consensus 179 SK~~-~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V~ 257 (561)
||++ ..+++|++|+||+++.+++++++|+++++.|++ +.+..+.+.+.+++.+|.|.++..+. + ...|+||+|++.
T Consensus 100 SK~~~~~qS~G~rG~GLa~a~~vsql~~G~pI~I~S~~-g~G~~f~i~L~i~i~~n~G~I~~~~~-~-~~~~~GT~Ie~~ 176 (659)
T PRK14867 100 SKMHRLIQSRGQQGIGAAGVLLFSQITTGKPLKITTST-GDGKIHEMEIKMSVEKNEGDIVSHKV-R-EGFWRGTRVEGE 176 (659)
T ss_pred CcccceeccCCCCcccHHHHHHHHHHhcCCcEEEEEEc-CCCEEEEEEEEEEecccCCeeccccc-C-CCCCCCcEEEEE
Confidence 9984 347899999999999999999889999999997 44456788888988889999887631 1 357999999955
Q ss_pred ecCC-cchhHHHHHHHHHHHHhhCCCcEEEEEEcccccCcceEEEeccccCCCCCCCcccccCCccccHHHHHHHHHhcC
Q 008575 258 IEGN-WTTYRSKILHYMRQMAVITPYAQFLFKFVSEVAEKNVTIRFSRRTDVMPPVPVETKHHPSSVDLLLIKGLIAETS 336 (561)
Q Consensus 258 L~~n-~~~~r~~I~eyLrr~AIvnP~a~~~l~~~~~~pdg~~~~~f~R~t~~lP~~P~eikpHP~Gvdl~~L~~m~~~t~ 336 (561)
+.+. |.+....|.+||+++|++|||++|+|. +|+++ +.|.|.+..+|+.|.+++|||||++++.|+.|...++
T Consensus 177 V~dLFynR~E~~i~e~l~r~ALanP~i~f~l~----~~~~~--~~~~r~~~~lp~~~~e~~ph~~G~~~~~Li~i~~~~~ 250 (659)
T PRK14867 177 FKEVTYNRREQGPFEYLRRISLSTPHAKITLK----DPEET--VVFDRTVDEIPEKPEEMKPHPYGLTTDELLYIARKTD 250 (659)
T ss_pred EeeceechhhHHHHHHHHHHHHhCCCcEEEEE----eCCcc--ccCCcceeecCcCHHHHhhccCccchhhceehhccCC
Confidence 5453 333334599999999999999999998 78776 5799999999999999999999999999999999999
Q ss_pred CcchHHHhhcccccCCHHHHHHHH--------------------------------------------------------
Q 008575 337 KGTLLQFLQHEFVNIGKSLAERLI-------------------------------------------------------- 360 (561)
Q Consensus 337 ~~tl~~FL~~~f~~v~~~~a~~i~-------------------------------------------------------- 360 (561)
..+|++||..+|+|++.+.+..|+
T Consensus 251 ~~~v~gfl~p~~sR~~~~~~~~V~~~~l~~ai~~ay~~~l~~~~~P~~~L~l~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 330 (659)
T PRK14867 251 SSKVSSMLNSELSRVTTKRIKELEEYVLRDLLLENYRDSVFWDTVVSCYLNFDFTKYFDKYGHYFDKKEIEDVKMLINGL 330 (659)
T ss_pred ceEEEEEecchhccCCCCcEEEEccHHHHHHHHHHHhhcccCCCcceEEEEEEeCccccccccccchhhhhhhhhccccc
Confidence 999999999999999876554332
Q ss_pred ---------------------------------------------------------hhhCCCC----------C-----
Q 008575 361 ---------------------------------------------------------GEMGPEF----------S----- 368 (561)
Q Consensus 361 ---------------------------------------------------------~~~~~~~----------~----- 368 (561)
+++++++ .
T Consensus 331 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 410 (659)
T PRK14867 331 PESLGELKTYCLKYLVMEYLFNKLDEEEIKEIKNHFKKKPENFMEWAEKNYLNASLLDEFRKKVKNITKSPEEFVKELKD 410 (659)
T ss_pred ccccchhhhhhhhhhhhhhhhccccchhhhhhccccccccchhhhhcchhhhhhhhhhhhcccccccccccccccccchh
Confidence 1112221 1
Q ss_pred -------------------CCCCcccCCHHHHHHHHHHHHhCCccCCCCCCcCccchHHHHhhhhhhcCCceEEEEecCc
Q 008575 369 -------------------PKMAVKSLTSQQIVRIHQLFRQAKFDDPSGGCLSPAGEYNLRLGIIKELHPDMVATYSGSA 429 (561)
Q Consensus 369 -------------------~~~~p~~l~~~~~~~l~~~~~~~~~~~P~~~~LsPiGe~~l~~gl~k~~~pefv~~~tr~p 429 (561)
++|+|++|+|+|+++|++|||+++||+|||+|||||||+||++|| ++|+||||+|+||+|
T Consensus 411 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~a~~~~~~~aP~t~~LsPige~~i~~gl-~~~~pef~~a~tR~p 489 (659)
T PRK14867 411 KAMVSDEELEKYRKEIKDLLKKNPKEMTWKEAELIVNVLQDMDFMAPSTTGLRPIGAENIEKSL-ETLEPDFLKTLTRKP 489 (659)
T ss_pred hhhhhhhhhhhhhhhhhhhccCChhhCCHHHHHHHHHHHHhcCCCCCCccccCCCCHHHHHHHH-HhcCcceEEEeccCc
Confidence 489999999999999999999999999999999999999999999 999999999999999
Q ss_pred ceecCC-cEEEEEEeeecCccCCC-----CceEEEeeccccccccCCCchhhhhhhcccCccccccCCC-CCceEEEEEe
Q 008575 430 QVFEGH-PFIVEAGVSVGGKDVKQ-----GLNIFRFANRIPLLFEQGGDVVTRTAMKRINWSSYKINQT-QDKIGVFVSI 502 (561)
Q Consensus 430 ~~y~G~-PfiVEa~iayGg~~~~~-----~~~i~RfANriPLlf~~g~~~it~~~~~~i~W~~Y~i~~~-~~~~~v~vhi 502 (561)
+||+|| ||||||||||||++.+. +++|||||||||||||+||||+|+ ||++|||++|||+|+ .+|++|||||
T Consensus 490 ~~y~g~~PFiVE~giayGG~~~~~~~~~~~~~i~RfANrvPLly~~g~c~~t~-~v~~i~W~~Y~l~~~~~~p~~v~vhv 568 (659)
T PRK14867 490 KTYKGGIPFAVEVGLAYGGNAGRQGDEGRKMEIMRFSNHVPLLFDTSGCGLTN-AVKSVNWRRYGLRSDEDAPITVFVNL 568 (659)
T ss_pred ccccCCCCEEEEEeeecCCcCCCCCccCCcceEEEeeccCceeecCcccHHHH-HHHhCChhhcCcCCCCCCCEEEEEEE
Confidence 999987 99999999999996543 479999999999999999999999 999999999999986 5699999999
Q ss_pred eeCCCCCCCCcccccC---CChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 008575 503 VSTKIPFKGTGKEYIG---DDTKEIASAVKSAIQQCCIQLKSKIVRKIQDREQQERKRNLSR 561 (561)
Q Consensus 503 ~St~vPf~~~~Ke~ia---~~~~EI~~ei~~al~~~~r~L~~~l~r~~~~~~~~~r~~~~~~ 561 (561)
|||||||||+|||||| ||+|||++||++|||+|||+|+.||+||++++++++|++.|.|
T Consensus 569 ~St~vPfts~~Keaia~~~~~~~eI~~Ei~lAl~~~~r~L~~~l~~~~~~~~~~~k~~~~~~ 630 (659)
T PRK14867 569 ISTHIPYTSAGKQAIACSEEENEEIFNEIRQALMICARELEKYISRIRREKEEEQKRKYVMK 630 (659)
T ss_pred eecCCCCCCccHHHhhccCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999 4799999999999999999999999999999999999998764
No 6
>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=100.00 E-value=4.6e-76 Score=547.34 Aligned_cols=158 Identities=46% Similarity=0.814 Sum_probs=132.9
Q ss_pred CCCCCcCccchHHHHhhhhhhcCCceEEEEecCcceecCCcEEEEEEeeecCccC-CCCceEEEeeccccccccCCCchh
Q 008575 396 PSGGCLSPAGEYNLRLGIIKELHPDMVATYSGSAQVFEGHPFIVEAGVSVGGKDV-KQGLNIFRFANRIPLLFEQGGDVV 474 (561)
Q Consensus 396 P~~~~LsPiGe~~l~~gl~k~~~pefv~~~tr~p~~y~G~PfiVEa~iayGg~~~-~~~~~i~RfANriPLlf~~g~~~i 474 (561)
||++|||||||++|++||+++|+||||+|+||+|+||+||||||||||||||++. .++++|||||||||||||+||||+
T Consensus 1 P~~~cLsPiGe~~i~~Gl~k~l~pefv~avtR~p~vy~G~PFiVEagiayGG~~~~~~~~~ilRfANRVPLly~~g~cvi 80 (160)
T PF09239_consen 1 PPTDCLSPIGEELIEKGLKKELNPEFVAAVTRKPSVYSGHPFIVEAGIAYGGEIPPEGKIEILRFANRVPLLYDQGSCVI 80 (160)
T ss_dssp --SCCS----HHHHHHHHHHHC--SEEEEEE---EEETTEEEEEEEEEEESTTS-SCSS-EEEEEETTEEE-STGCCSHH
T ss_pred CCCcccCccCHHHHHHHHHHhcCccEEEEEccCCceecCCCEEEEEehhhccCCCCCCCceEEEEccCCceeecCCchHH
Confidence 8999999999999999999999999999999999999999999999999999994 458999999999999999999999
Q ss_pred hhhhhcccCccccccCCCC-CceEEEEEeeeCCCCCCCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008575 475 TRTAMKRINWSSYKINQTQ-DKIGVFVSIVSTKIPFKGTGKEYIGDDTKEIASAVKSAIQQCCIQLKSKIVRKIQDREQQ 553 (561)
Q Consensus 475 t~~~~~~i~W~~Y~i~~~~-~~~~v~vhi~St~vPf~~~~Ke~ia~~~~EI~~ei~~al~~~~r~L~~~l~r~~~~~~~~ 553 (561)
|+ ||++|||++|||+|++ +|++||||||||||||||+|||||| |+|||++||++|||+|||+|+.||+||+++++++
T Consensus 81 t~-av~~i~W~~Y~l~~~~~~p~~v~Vhi~ST~VPfts~~KeaIa-~~pEI~~Ei~lAl~e~~R~L~~yl~rk~~~~e~~ 158 (160)
T PF09239_consen 81 TK-AVKSINWKRYGLDQPGNGPLVVFVHIASTKVPFTSEGKEAIA-DVPEIEKEIRLALQECARKLKKYLSRKRKAKEQK 158 (160)
T ss_dssp HH-HHHHS-GCCCT--SSS-CSEEEEEEEEESS--BSSTTSSSB----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_pred HH-HHHhCCchhcCcCCCCCCCEEEEEEEeecccCccccchhhhc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99 9999999999999986 8999999999999999999999999 7999999999999999999999999999999988
Q ss_pred HH
Q 008575 554 ER 555 (561)
Q Consensus 554 ~r 555 (561)
+|
T Consensus 159 ~k 160 (160)
T PF09239_consen 159 EK 160 (160)
T ss_dssp HH
T ss_pred cC
Confidence 76
No 7
>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=100.00 E-value=6.9e-70 Score=502.53 Aligned_cols=149 Identities=43% Similarity=0.762 Sum_probs=144.8
Q ss_pred chHHHHhhhhhhcCCceEEEEecCcceecCCcEEEEEEeeecCccC-CCCceEEEeeccccccccCCCchhhhhhhcccC
Q 008575 405 GEYNLRLGIIKELHPDMVATYSGSAQVFEGHPFIVEAGVSVGGKDV-KQGLNIFRFANRIPLLFEQGGDVVTRTAMKRIN 483 (561)
Q Consensus 405 Ge~~l~~gl~k~~~pefv~~~tr~p~~y~G~PfiVEa~iayGg~~~-~~~~~i~RfANriPLlf~~g~~~it~~~~~~i~ 483 (561)
||+||++||+++|+|||++++||+|+||+||||||||||||||+++ .++++|||||||||||||+||||||+ ||++||
T Consensus 1 Ge~~i~~Gl~~~~~pefvaavtR~p~vy~G~PFiVEagiayGG~~~~~~~~~i~RfANRVPLlf~~g~cvit~-av~~i~ 79 (151)
T cd00823 1 GEENLEKGLKKELNPDFVAAVTRKPKVYRGHPFIVEVGIAYGGDIPADEKVELLRFANRVPLLYDAGACVITK-AVESIN 79 (151)
T ss_pred ChhHHHHHHHHhcCccEEEEeccCCceeCCCCeEEEEeeeecCccCCCCCceEEEEcccCceeecccchHHHH-HHHhCC
Confidence 8999999999999999999999999999999999999999999987 44899999999999999999999999 999999
Q ss_pred ccccccCCC-CCceEEEEEeeeCCCCCCCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008575 484 WSSYKINQT-QDKIGVFVSIVSTKIPFKGTGKEYIGDDTKEIASAVKSAIQQCCIQLKSKIVRKIQDREQQER 555 (561)
Q Consensus 484 W~~Y~i~~~-~~~~~v~vhi~St~vPf~~~~Ke~ia~~~~EI~~ei~~al~~~~r~L~~~l~r~~~~~~~~~r 555 (561)
|++|||+|+ .+|++||||||||||||||+|||+|| |+|||++||++|||+|||+|+.||+||++++++++|
T Consensus 80 W~~Ygi~~~~~~p~~v~Vhi~St~VPfts~~KeaIa-dvpEI~~EIrlAl~~~~R~L~~~l~kk~~~~e~~~k 151 (151)
T cd00823 80 WKRYGLEQPGQGPLVVLVHVASTKVPFTSEGKEAIA-DIPEIEEEIKLALQEVARKLKRYLSKKRKERELQQK 151 (151)
T ss_pred hhhcCcCCCCCCCEEEEEEEeecCCCcCCcchhhhc-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 999999998 78999999999999999999999999 699999999999999999999999999999998875
No 8
>PRK05559 DNA topoisomerase IV subunit B; Reviewed
Probab=99.85 E-value=3.5e-19 Score=200.11 Aligned_cols=187 Identities=17% Similarity=0.237 Sum_probs=143.0
Q ss_pred CcccccccCCHHHHHHhcccccCccCCCchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccc
Q 008575 18 PNESALKQKSPAEFFAENKNIAGFDNPGKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVD 97 (561)
Q Consensus 18 ~~~~~~~~~S~aEff~~nk~i~Gfdn~~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d 97 (561)
=.++.++.++.-|-..+...+...++...+|+++|+|+|+||+|+|.. |..+.|.|+|.+.
T Consensus 8 y~~~~i~~L~~lE~VrkRP~mYiGs~~~~gl~~lv~EivdNaiDe~~a-g~a~~I~V~i~~d------------------ 68 (631)
T PRK05559 8 YNADSIEVLEGLEPVRKRPGMYIGSTDTRGLHHLVQEVIDNSVDEALA-GHGKRIEVTLHAD------------------ 68 (631)
T ss_pred CCHHHCeeccchHHHhcCCCceeCCCCCchhhhhhhhhhccccchhhc-CCCCEEEEEEeCC------------------
Confidence 445677888888889999999988999999999999999999999954 6678899998542
Q ss_pred cccccchHHHHHHHHHHHHHHHHHHHHHHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhh-------
Q 008575 98 TKLYDDYETEKARERRLAKEARAQELQAKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPN------- 170 (561)
Q Consensus 98 ~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~------- 170 (561)
..|+|.|||+|||.+.++.
T Consensus 69 ------------------------------------------------------g~I~V~DnGrGIP~~~~~~~~~~~~E 94 (631)
T PRK05559 69 ------------------------------------------------------GSVSVRDNGRGIPVGIHPEEGKSGVE 94 (631)
T ss_pred ------------------------------------------------------CcEEEEEcCCCCCcccccccCCcchh
Confidence 2799999999999999998
Q ss_pred -hhcccccccccc---cccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEeeccCCCceeeeeccccCC
Q 008575 171 -MFGRVLSGTKYG---LKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDIDIHRNIPHVHLHEKRENK 246 (561)
Q Consensus 171 -iF~r~~~tSK~~---~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id~~kN~p~Il~~e~~~~~ 246 (561)
+|.++++|||+. .+.+.|.+|+|++++..+|. .++|+|+..+.. |.+.+. +.....+. ...... .
T Consensus 95 ~v~t~lhagsKf~~~~yk~SgGl~GvGls~vNalS~-----~l~V~s~r~g~~--~~~~f~-~G~~~~~l-~~~~~~--~ 163 (631)
T PRK05559 95 VILTKLHAGGKFSNKAYKFSGGLHGVGVSVVNALSS-----RLEVEVKRDGKV--YRQRFE-GGDPVGPL-EVVGTA--G 163 (631)
T ss_pred eeeeeccccCccCCccccccCcccccchhhhhhhee-----eEEEEEEeCCeE--EEEEEE-CCcCccCc-cccccc--c
Confidence 999988999994 34688999999999999976 478889875542 443332 21111111 011111 1
Q ss_pred CCCCCcEEEEEecCC-c---chhHHHHHHHHHHHHhhCCCcEEEEE
Q 008575 247 DRWHGAEIQVVIEGN-W---TTYRSKILHYMRQMAVITPYAQFLFK 288 (561)
Q Consensus 247 ~~~~GT~V~V~L~~n-~---~~~r~~I~eyLrr~AIvnP~a~~~l~ 288 (561)
...+||+|++..... | ......|.++|+++|+.||+++|.|.
T Consensus 164 ~~~~GT~V~f~PD~~iF~~~~~~~~~i~~~l~~~A~lnpgl~i~l~ 209 (631)
T PRK05559 164 KRKTGTRVRFWPDPKIFDSPKFSPERLKERLRSKAFLLPGLTITLN 209 (631)
T ss_pred CCCCCcEEEEEECHHHcCCcccCHHHHHHHHHHHHhhCCCeEEEEE
Confidence 157999999985422 2 22346799999999999999999987
No 9
>PRK05644 gyrB DNA gyrase subunit B; Validated
Probab=99.76 E-value=3e-16 Score=176.83 Aligned_cols=185 Identities=21% Similarity=0.246 Sum_probs=136.2
Q ss_pred CcccccccCCHHHHHHhcccccCccCCCchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccc
Q 008575 18 PNESALKQKSPAEFFAENKNIAGFDNPGKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVD 97 (561)
Q Consensus 18 ~~~~~~~~~S~aEff~~nk~i~Gfdn~~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d 97 (561)
=.++.++.++..|...++..+.--+.....|+.+|+||||||+|.+. .|....|.|+|...
T Consensus 8 Y~~~~i~~L~~lE~Vr~RPgMYiGs~~~~gl~~~v~ElvdNaiDe~~-ag~a~~I~V~i~~~------------------ 68 (638)
T PRK05644 8 YDASQIQVLEGLEAVRKRPGMYIGSTGERGLHHLVYEIVDNSIDEAL-AGYCDHIEVTINED------------------ 68 (638)
T ss_pred CCHHHCeEecchHHHhcCCCceECCCChhhHHhhhHHhhhccccccc-CCCCCEEEEEEeCC------------------
Confidence 34556888899999999999876677778999999999999999764 45456799988542
Q ss_pred cccccchHHHHHHHHHHHHHHHHHHHHHHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChh--------
Q 008575 98 TKLYDDYETEKARERRLAKEARAQELQAKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIP-------- 169 (561)
Q Consensus 98 ~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~-------- 169 (561)
-.|+|+|||+|||.+..+
T Consensus 69 ------------------------------------------------------g~I~V~DnG~GIp~~~h~~~ki~~~e 94 (638)
T PRK05644 69 ------------------------------------------------------GSITVTDNGRGIPVDIHPKTGKPAVE 94 (638)
T ss_pred ------------------------------------------------------CcEEEEEeCccccCCccCCCCCCchH
Confidence 179999999999997544
Q ss_pred hhhcccccccccc---cccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEeeccCCCceeeeeccccCC
Q 008575 170 NMFGRVLSGTKYG---LKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDIDIHRNIPHVHLHEKRENK 246 (561)
Q Consensus 170 ~iF~r~~~tSK~~---~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id~~kN~p~Il~~e~~~~~ 246 (561)
.+|...++|+||. .+.+.|.+|+|++++..+|. .++|+|+..+. .| .+.+. .+.+.. ...... .
T Consensus 95 ~i~~~lhag~kfd~~~yk~s~G~~G~Gls~vnalS~-----~~~v~t~r~g~--~~--~~~~~--~G~~~~-~~~~~~-~ 161 (638)
T PRK05644 95 VVLTVLHAGGKFGGGGYKVSGGLHGVGVSVVNALST-----WLEVEVKRDGK--IY--YQEYE--RGVPVT-PLEVIG-E 161 (638)
T ss_pred HheeeecccCccCCCcccccCCccccchhhhhheec-----eEEEEEEeCCc--EE--EEEEE--CCeEcc-CccccC-C
Confidence 3788888999994 34578999999999999885 47888887554 33 33333 333220 111111 1
Q ss_pred CCCCCcEEEEEecC----CcchhHHHHHHHHHHHHhhCCCcEEEEE
Q 008575 247 DRWHGAEIQVVIEG----NWTTYRSKILHYMRQMAVITPYAQFLFK 288 (561)
Q Consensus 247 ~~~~GT~V~V~L~~----n~~~~r~~I~eyLrr~AIvnP~a~~~l~ 288 (561)
...+||+|++.... +.......|.+.++++|+.||.++|.|.
T Consensus 162 ~~~~GT~I~F~Pd~~~F~~~~~e~~~i~~rl~~~A~l~pgl~i~l~ 207 (638)
T PRK05644 162 TDETGTTVTFKPDPEIFETTEFDYDTLATRLRELAFLNKGLKITLT 207 (638)
T ss_pred cCCCCcEEEEEECHHHcCCcccCHHHHHHHHHHHHhhCCCcEEEEE
Confidence 24689999987322 1122335699999999999999999987
No 10
>COG0323 MutL DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]
Probab=99.72 E-value=2.5e-17 Score=185.38 Aligned_cols=178 Identities=16% Similarity=0.144 Sum_probs=117.1
Q ss_pred CeeEEEEEeCCCCCCcCChhhhhccccccccccc------ccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEE
Q 008575 150 SFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGL------KQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISF 223 (561)
Q Consensus 150 ~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~------~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~ 223 (561)
+.-.|+|.|||+||+++|++.++.|| +|||+.. ..|.|++|..|+.+..+| +++|+|++.+...++
T Consensus 51 G~~~I~V~DNG~Gi~~~Dl~la~~rH-aTSKI~~~~DL~~I~TlGFRGEAL~SIasVs------rlti~Srt~~~~~~~- 122 (638)
T COG0323 51 GLKLIRVRDNGSGIDKEDLPLALLRH-ATSKIASLEDLFRIRTLGFRGEALASIASVS------RLTITSRTAEASEGT- 122 (638)
T ss_pred CccEEEEEECCCCCCHHHHHHHHhhh-ccccCCchhHHHHhhccCccHHHHHHHHhhh------eeEEEeecCCcCceE-
Confidence 34579999999999999999999998 6999831 257788888877777665 578999976665554
Q ss_pred EEEEeeccCCCceee-eeccccCCCCCCCcEEEEE-ecCCcchhH----------HHHHHHHHHHHhhCCCcEEEEEEcc
Q 008575 224 CKLDIDIHRNIPHVH-LHEKRENKDRWHGAEIQVV-IEGNWTTYR----------SKILHYMRQMAVITPYAQFLFKFVS 291 (561)
Q Consensus 224 ~~L~id~~kN~p~Il-~~e~~~~~~~~~GT~V~V~-L~~n~~~~r----------~~I~eyLrr~AIvnP~a~~~l~~~~ 291 (561)
.+.++.. .+. ...+ ...+.||+|+|+ |+.|.+..+ ..|.+.++|+|++||+++|+|.
T Consensus 123 -~~~~~g~----~~~~~~~p---~a~~~GTtVeV~dLF~NtPaRrKflks~~~E~~~i~~vv~r~ALahp~I~F~l~--- 191 (638)
T COG0323 123 -QIYAEGG----GMEVTVKP---AAHPVGTTVEVRDLFYNTPARRKFLKSEKTEFGHITELINRYALAHPDISFSLS--- 191 (638)
T ss_pred -EEEecCC----cccccccC---CCCCCCCEEEehHhhccChHHHHhhcccHHHHHHHHHHHHHHHhcCCCeEEEEE---
Confidence 5545421 111 2222 244569999999 777775322 3699999999999999999998
Q ss_pred cccCcceEEEeccccCCCCCCC--cccccCCccccH-HHHHHHHHhcCCcchHHHhhcc-cccCC
Q 008575 292 EVAEKNVTIRFSRRTDVMPPVP--VETKHHPSSVDL-LLIKGLIAETSKGTLLQFLQHE-FVNIG 352 (561)
Q Consensus 292 ~~pdg~~~~~f~R~t~~lP~~P--~eikpHP~Gvdl-~~L~~m~~~t~~~tl~~FL~~~-f~~v~ 352 (561)
.+|+.... +.. +|... .+...+-+|-+. ..+..+-....+.+|.+|+..- |+|-.
T Consensus 192 --~~gk~~~~--~~~--~~~~~~~~~ri~~i~G~~~~~~~l~i~~~~~~~~l~G~v~~P~~~r~~ 250 (638)
T COG0323 192 --HNGKLRIE--LLK--LPGTGDLEERIAAVYGTEFLKNALPIENEHEDLRLSGYVSLPEFTRAS 250 (638)
T ss_pred --ECCceeeE--EEe--cCCCCcHHHHHHHHhCHHHHHhhcccccCCCceEEEEEecccccccCC
Confidence 45773222 222 33322 223445555443 2222222334556788888775 55543
No 11
>smart00433 TOP2c TopoisomeraseII. Eukaryotic DNA topoisomerase II, GyrB, ParE
Probab=99.72 E-value=8.7e-16 Score=171.94 Aligned_cols=291 Identities=22% Similarity=0.349 Sum_probs=183.2
Q ss_pred HHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHH
Q 008575 48 LYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQAKN 127 (561)
Q Consensus 48 L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~ 127 (561)
|+++|+||||||+|++.. |....|.|+|...
T Consensus 2 L~~~v~ElvdNAiD~~~~-g~at~I~V~i~~~------------------------------------------------ 32 (594)
T smart00433 2 LHHLVDEIVDNAADEALA-GYMDTIKVTIDKD------------------------------------------------ 32 (594)
T ss_pred ceEEEeeehhcccchhcc-CCCCEEEEEEeCC------------------------------------------------
Confidence 788999999999999854 4456788888542
Q ss_pred hhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChh--------hhhcccccccccc---cccCCCcceeehHh
Q 008575 128 AALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIP--------NMFGRVLSGTKYG---LKQTRGKFGLGAKM 196 (561)
Q Consensus 128 ~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~--------~iF~r~~~tSK~~---~~~s~G~~GlGL~l 196 (561)
+ .|+|.|||+|||.+..+ .+|..+++|+||. .+.+.|.+|+|+++
T Consensus 33 ----------------------g--~I~V~DnG~GIp~~~h~~~~~~~~e~v~~~lhag~kfd~~~~k~s~G~~G~Gls~ 88 (594)
T smart00433 33 ----------------------N--SISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDDAYKVSGGLHGVGASV 88 (594)
T ss_pred ----------------------C--eEEEEEeCCceeCCccCcCCCCcHHHhhhhhcccCCCCCCCccccCCcccchHHH
Confidence 1 79999999999987654 4688888999993 34578999999999
Q ss_pred hHHHHHHhCCccEEEEeeeCCCceEEEEEEEeeccCCCceeeeeccccCCCCCCCcEEEEEecCC-c----chhHHHHHH
Q 008575 197 ALIWSKMSTGLPIEISSSMRSHNFISFCKLDIDIHRNIPHVHLHEKRENKDRWHGAEIQVVIEGN-W----TTYRSKILH 271 (561)
Q Consensus 197 a~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V~L~~n-~----~~~r~~I~e 271 (561)
+..+|. .++|+|+..+.. | .+.+. .| +.+............+||+|++..... | ......|.+
T Consensus 89 vnalS~-----~l~v~~~~~g~~--~--~~~~~--~~-G~~~~~~~~~~~~~~~GT~V~F~Pd~~~F~~~~~~~~~~i~~ 156 (594)
T smart00433 89 VNALST-----EFEVEVARDGKE--Y--KQSFS--NN-GKPLSEPKIIGDTKKDGTKVTFKPDLEIFGMTTDDDFELLKR 156 (594)
T ss_pred HHHhcC-----ceEEEEEeCCcE--E--EEEEe--CC-CeECccceecCCCCCCCcEEEEEECHHHhCCcccchHHHHHH
Confidence 998864 578999886543 3 33332 21 222221111112346899999873221 2 122356999
Q ss_pred HHHHHHhhCCCcEEEEEEcccccCcceEEEeccccCCCCCCCcccccCCccccHHHHHHHHHhcCCcchHHHhhcccccC
Q 008575 272 YMRQMAVITPYAQFLFKFVSEVAEKNVTIRFSRRTDVMPPVPVETKHHPSSVDLLLIKGLIAETSKGTLLQFLQHEFVNI 351 (561)
Q Consensus 272 yLrr~AIvnP~a~~~l~~~~~~pdg~~~~~f~R~t~~lP~~P~eikpHP~Gvdl~~L~~m~~~t~~~tl~~FL~~~f~~v 351 (561)
.++++|+.||+++|.|. |. |. + ..+. +|. ...|.+|+.
T Consensus 157 rl~~~A~l~pgl~i~l~----de---------r~-~-----~~~~-f~~----------------~~Gl~~yv~------ 194 (594)
T smart00433 157 RLRELAFLNKGVKITLN----DE---------RS-D-----EEET-FLF----------------EGGIKDYVE------ 194 (594)
T ss_pred HHHHHHhcCCCcEEEEe----cc---------CC-C-----cceE-EEC----------------CCCHHHHHH------
Confidence 99999999999999987 22 10 0 0111 211 113333431
Q ss_pred CHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHHhCCccCCCCCCcCccchHHHHhhhhhhcCCceEEEEecCcce
Q 008575 352 GKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFRQAKFDDPSGGCLSPAGEYNLRLGIIKELHPDMVATYSGSAQV 431 (561)
Q Consensus 352 ~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~~~~~~~P~~~~LsPiGe~~l~~gl~k~~~pefv~~~tr~p~~ 431 (561)
.+.+ +..+ +.| .|=++ ....
T Consensus 195 ------~~~~--------~~~~---------------------------~~~--------------~~i~~-~~~~---- 214 (594)
T smart00433 195 ------LLNK--------NKEL---------------------------LSP--------------EPTYI-EGEK---- 214 (594)
T ss_pred ------HHhC--------CCCc---------------------------ccC--------------CCeEE-EEEe----
Confidence 0000 0000 000 00000 0000
Q ss_pred ecCCcEEEEEEeeecCccCCCCceEEEeeccccccccCCC------chhhhhhh-cccCcccc----ccCCC--CCceEE
Q 008575 432 FEGHPFIVEAGVSVGGKDVKQGLNIFRFANRIPLLFEQGG------DVVTRTAM-KRINWSSY----KINQT--QDKIGV 498 (561)
Q Consensus 432 y~G~PfiVEa~iayGg~~~~~~~~i~RfANriPLlf~~g~------~~it~~~~-~~i~W~~Y----~i~~~--~~~~~v 498 (561)
.| .-||+|+.|... ..-+++-|+|-||. .+.|. +++|+ +| +-+++... +|... ..-+.+
T Consensus 215 -~~--~~veval~~~~~---~~~~~~SFvN~I~T-~~GGTHv~g~~~al~~-~i~~~~~~~~~~k~~~i~~~diregl~~ 286 (594)
T smart00433 215 -DN--IRVEVAFQYTDG---YSENIVSFVNNIAT-TEGGTHENGFKDALTR-VINEYAKKKKKLKEKNIKGEDVREGLTA 286 (594)
T ss_pred -CC--cEEEEEEEccCC---CCcEEEEEECCccC-CCCCcHHHHHHHHHHH-HHHHHHHHhCccccCCCChhhHhhCeEE
Confidence 11 359999999632 23589999999999 55553 67888 54 34444332 12221 135788
Q ss_pred EEEeeeCCCCCCCCcccccCCChHHHHHHHHHHHHHH
Q 008575 499 FVSIVSTKIPFKGTGKEYIGDDTKEIASAVKSAIQQC 535 (561)
Q Consensus 499 ~vhi~St~vPf~~~~Ke~ia~~~~EI~~ei~~al~~~ 535 (561)
+||+-.++--|.|-.|+.++ .+|+..-|..++.++
T Consensus 287 vIsvki~~P~FegQTK~kL~--n~~~~~~v~~~v~~~ 321 (594)
T smart00433 287 FISVKIPEPQFEGQTKEKLG--TSEVRFGVEKIVSEC 321 (594)
T ss_pred EEEEEEchheeccccccccc--ChhHHHHHHHHHHHH
Confidence 99999999999999999998 588877776666654
No 12
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=99.70 E-value=1.4e-16 Score=178.98 Aligned_cols=123 Identities=17% Similarity=0.156 Sum_probs=92.6
Q ss_pred CeeEEEEEeCCCCCCcCChhhhhccccccccccc------ccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEE
Q 008575 150 SFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGL------KQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISF 223 (561)
Q Consensus 150 ~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~------~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~ 223 (561)
+...|+|+|||+||++++++.+|.++ +|||+.. ..+.|++|.||+.+..++ .++|.|++.+...+|
T Consensus 50 g~~~i~V~DnG~Gi~~~~~~~~~~~~-~tsKi~~~~dl~~~~t~GfrGeAL~sI~~vs------~l~i~s~~~~~~~~~- 121 (617)
T PRK00095 50 GLKLIRVRDNGCGISKEDLALALARH-ATSKIASLDDLEAIRTLGFRGEALPSIASVS------RLTLTSRTADAAEGW- 121 (617)
T ss_pred CeEEEEEEEcCCCCCHHHHHHHhhcc-CCCCCCChhHhhccccCCcchhHHHhhhhce------EEEEEEecCCCCceE-
Confidence 45789999999999999999999987 6999842 256788998887776543 589999987655444
Q ss_pred EEEEeeccCCCceeeeeccccCCCCCCCcEEEEE-ecCCcchhH----------HHHHHHHHHHHhhCCCcEEEEE
Q 008575 224 CKLDIDIHRNIPHVHLHEKRENKDRWHGAEIQVV-IEGNWTTYR----------SKILHYMRQMAVITPYAQFLFK 288 (561)
Q Consensus 224 ~~L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V~-L~~n~~~~r----------~~I~eyLrr~AIvnP~a~~~l~ 288 (561)
.+.+. . +.+....+ ...++||+|+|+ |+.|++..+ ..|.++++++|++||+++|.+.
T Consensus 122 -~~~~~--~--G~~~~~~~---~~~~~GT~V~v~~LF~n~P~Rrkflk~~~~e~~~i~~~v~~~Al~~p~i~f~l~ 189 (617)
T PRK00095 122 -QIVYE--G--GEIVEVKP---AAHPVGTTIEVRDLFFNTPARRKFLKSEKTELGHIDDVVNRLALAHPDVAFTLT 189 (617)
T ss_pred -EEEec--C--CcCcceec---ccCCCCCEEEechhhccCcHHHHhccCcHHHHHHHHHHHHHHhhcCCCcEEEEE
Confidence 44443 2 23333322 235799999999 778875322 3699999999999999999997
No 13
>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=99.68 E-value=1.1e-14 Score=164.61 Aligned_cols=182 Identities=21% Similarity=0.281 Sum_probs=132.5
Q ss_pred ccccccCCHHHHHHhcccc-cCccCCCchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEeccccccccccccccccccc
Q 008575 20 ESALKQKSPAEFFAENKNI-AGFDNPGKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDT 98 (561)
Q Consensus 20 ~~~~~~~S~aEff~~nk~i-~Gfdn~~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~ 98 (561)
++.++.++..|-..++..+ .|..++ ..|+.+|+|||+||+|.+. .|....|.|+|...
T Consensus 3 ~~~i~~L~~lE~vr~RP~mYiGs~~~-~gl~~vv~Elv~NaiDe~~-ag~a~~I~V~i~~~------------------- 61 (654)
T TIGR01059 3 ASSIKVLEGLEAVRKRPGMYIGSTGE-TGLHHLVYEVVDNSIDEAM-AGYCDTINVTINDD------------------- 61 (654)
T ss_pred hHHCeEecchHHHhcCCCceeCCCCc-chHHhhhHHhhhccccccc-cCCCCEEEEEEeCC-------------------
Confidence 4567778888999999997 686664 7999999999999999763 35456799988542
Q ss_pred ccccchHHHHHHHHHHHHHHHHHHHHHHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChh--------h
Q 008575 99 KLYDDYETEKARERRLAKEARAQELQAKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIP--------N 170 (561)
Q Consensus 99 ~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~--------~ 170 (561)
-.|+|.|||+|||.+..+ .
T Consensus 62 -----------------------------------------------------g~I~V~DnG~GIp~~~h~~~ki~~~e~ 88 (654)
T TIGR01059 62 -----------------------------------------------------GSVTVEDNGRGIPVDIHPEEGISAVEV 88 (654)
T ss_pred -----------------------------------------------------CcEEEEEeCCCcCccccCcCCCCchHH
Confidence 139999999999987433 4
Q ss_pred hhcccccccccc---cccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEeeccCCCceeeeeccccCCC
Q 008575 171 MFGRVLSGTKYG---LKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDIDIHRNIPHVHLHEKRENKD 247 (561)
Q Consensus 171 iF~r~~~tSK~~---~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id~~kN~p~Il~~e~~~~~~ 247 (561)
+|..+++|+||. .+.+.|.+|+|++++..+|. .++|.|+..+.. | .+.+. .+.+.. ..... ...
T Consensus 89 i~~~l~ag~kf~~~~~k~s~G~~G~gl~~inalS~-----~l~v~~~~~g~~--~--~~~~~--~G~~~~-~l~~~-~~~ 155 (654)
T TIGR01059 89 VLTVLHAGGKFDKDSYKVSGGLHGVGVSVVNALSE-----WLEVTVFRDGKI--Y--RQEFE--RGIPLG-PLEVV-GET 155 (654)
T ss_pred heeeecccCccCCCcceecCCccchhHHHHHHhcC-----eEEEEEEECCeE--E--EEEEe--CCCccc-Cceec-cCC
Confidence 788888999983 34678999999999999885 478888875542 3 33333 443321 11111 124
Q ss_pred CCCCcEEEEEecC-Cc---chhHHHHHHHHHHHHhhCCCcEEEEE
Q 008575 248 RWHGAEIQVVIEG-NW---TTYRSKILHYMRQMAVITPYAQFLFK 288 (561)
Q Consensus 248 ~~~GT~V~V~L~~-n~---~~~r~~I~eyLrr~AIvnP~a~~~l~ 288 (561)
..+||+|++.... -| ......|.+.++++|+.||.++|.|.
T Consensus 156 ~~~GT~V~F~pdp~~F~~~~~e~~~i~~rl~~~A~l~pgl~i~l~ 200 (654)
T TIGR01059 156 KKTGTTVRFWPDPEIFETTEFDFDILAKRLRELAFLNSGVKISLE 200 (654)
T ss_pred CCCCcEEEEEEChHHhCCcccCHHHHHHHHHHhhccCCCeEEEEE
Confidence 5689999987221 12 22335699999999999999999987
No 14
>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=99.64 E-value=3.4e-15 Score=154.71 Aligned_cols=122 Identities=20% Similarity=0.222 Sum_probs=87.4
Q ss_pred eeEEEEEeCCCCCCcCChhhhhccccccccccc------ccCCCcceeehHhhHHHHHHhCCccEEEEeee-CCCceEEE
Q 008575 151 FYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGL------KQTRGKFGLGAKMALIWSKMSTGLPIEISSSM-RSHNFISF 223 (561)
Q Consensus 151 ~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~------~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~-~g~~~~~~ 223 (561)
...|+|.|||+||++++++.+|.+++ +||... ..+.|++|.||+....++ .++|+|+. .+.+..|.
T Consensus 51 ~~~i~V~DnG~Gi~~~~l~~~~~~~~-tsk~~~~~~~~~~~~~G~rG~al~si~~~s------~~~i~S~~~~~~~~~~~ 123 (312)
T TIGR00585 51 LKLIEVSDNGSGIDKEDLPLACERHA-TSKIQSFEDLERIETLGFRGEALASISSVS------RLTITTKTSAADGLAWQ 123 (312)
T ss_pred EEEEEEEecCCCCCHHHHHHHhhCCC-cCCCCChhHhhcccccCccchHHHHHHhhC------cEEEEEeecCCCcceEE
Confidence 35699999999999999999999885 888631 245688888876665443 58999997 45554443
Q ss_pred EEEEeeccCCCceeeeeccccCCCCCCCcEEEEE-ecCCcchhH----------HHHHHHHHHHHhhCCCcEEEEE
Q 008575 224 CKLDIDIHRNIPHVHLHEKRENKDRWHGAEIQVV-IEGNWTTYR----------SKILHYMRQMAVITPYAQFLFK 288 (561)
Q Consensus 224 ~~L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V~-L~~n~~~~r----------~~I~eyLrr~AIvnP~a~~~l~ 288 (561)
+..+ +. .+.+..+ ....+||+|+|+ |+.+++..+ ..+.+.++++|+.+|+++|.+.
T Consensus 124 --~~~~---g~-~~~~~~~---~~~~~GTtV~v~~lf~n~p~r~~~~~~~~~~~~~i~~~l~~~al~~p~i~f~l~ 190 (312)
T TIGR00585 124 --ALLE---GG-MIEEIKP---APRPVGTTVEVRDLFYNLPVRRKFLKSPKKEFRKILDLLNRYALIHPDVSFSLT 190 (312)
T ss_pred --EEEC---CC-cCccccc---ccCCCccEEEEchhhccCchhhhhccCcHHHHHHHHHHHHHHhhcCCCeEEEEE
Confidence 3322 21 2222222 245799999999 777764322 3699999999999999999997
No 15
>TIGR01055 parE_Gneg DNA topoisomerase IV, B subunit, proteobacterial. This protein is active as an alpha(2)beta(2) heterotetramer.
Probab=99.64 E-value=9.7e-14 Score=156.24 Aligned_cols=125 Identities=18% Similarity=0.270 Sum_probs=89.2
Q ss_pred eEEEEEeCCCCCCcCC--------hhhhhcccccccccc---cccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCce
Q 008575 152 YRVTCKDNGKGMPHDD--------IPNMFGRVLSGTKYG---LKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNF 220 (561)
Q Consensus 152 ~~I~V~DNG~GI~~e~--------l~~iF~r~~~tSK~~---~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~ 220 (561)
..|+|.|||+|||.++ ++.+|...++|||+. .+.+.|.+|+|++++..+|. .++|.|+..+..
T Consensus 62 ~~I~V~DnGrGIp~~~h~~~g~~~~e~v~t~lhagsK~~~~~~~~SgG~~GvGls~vnalS~-----~l~v~~~r~g~~- 135 (625)
T TIGR01055 62 QSIEVFDNGRGMPVDIHPKEGVSAVEVILTTLHAGGKFSNKNYHFSGGLHGVGISVVNALSK-----RVKIKVYRQGKL- 135 (625)
T ss_pred CeEEEEecCCccCcccccccCCcHHHHhhhcccccCCCCCCcceecCCCcchhHHHHHHhcC-----eEEEEEEECCeE-
Confidence 4799999999999999 888997788999993 34678999999999999885 478888875543
Q ss_pred EEEEEEEeeccCCCceeeeeccccCC-CCCCCcEEEEEecCCc----chhHHHHHHHHHHHHhhCCCcEEEEE
Q 008575 221 ISFCKLDIDIHRNIPHVHLHEKRENK-DRWHGAEIQVVIEGNW----TTYRSKILHYMRQMAVITPYAQFLFK 288 (561)
Q Consensus 221 ~~~~~L~id~~kN~p~Il~~e~~~~~-~~~~GT~V~V~L~~n~----~~~r~~I~eyLrr~AIvnP~a~~~l~ 288 (561)
| .+.+. .+.+. ......... ...+||+|++.....+ ......|.+.++++|+.||.++|+|.
T Consensus 136 -~--~~~~~--~G~~~-~~~~~i~~~~~~~~GT~V~F~PD~~~F~~~~~e~~~i~~~l~~lA~lnpgi~~~l~ 202 (625)
T TIGR01055 136 -Y--SIAFE--NGAKV-TDLISAGTCGKRLTGTSVHFTPDPEIFDSLHFSVSRLYHILRAKAVLCRGVEIEFE 202 (625)
T ss_pred -E--EEEEE--CCeEc-cccccccccCCCCCCeEEEEEECHHHCCCCccCHHHHHHHHHHHHhhCCCcEEEEe
Confidence 3 33332 34331 111111111 2358999999843322 22335799999999999999999987
No 16
>PRK14939 gyrB DNA gyrase subunit B; Provisional
Probab=99.62 E-value=1.5e-13 Score=156.94 Aligned_cols=185 Identities=18% Similarity=0.241 Sum_probs=129.6
Q ss_pred CcccccccCCHHHHHHhccccc-CccCCCchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEeccccccccccccccccc
Q 008575 18 PNESALKQKSPAEFFAENKNIA-GFDNPGKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERV 96 (561)
Q Consensus 18 ~~~~~~~~~S~aEff~~nk~i~-Gfdn~~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~ 96 (561)
=.++..+-++-.|-..+...+. |=.+++..|+.+|.|+||||+|-+- .|-.-.|.|+|...
T Consensus 7 Y~a~~i~vL~gle~VRkRPgMYIGst~~~~GLhhlv~EivdNaiDE~~-AG~a~~I~V~i~~d----------------- 68 (756)
T PRK14939 7 YGASSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVYEVVDNAIDEAL-AGHCDDITVTIHAD----------------- 68 (756)
T ss_pred CCHHHCeEecccHHHhcCCCCeeCCCCCCcchhhhhhHhhcccccccc-cCCCCEEEEEEcCC-----------------
Confidence 3445566666677777777754 6555558999999999999999654 35445788888542
Q ss_pred ccccccchHHHHHHHHHHHHHHHHHHHHHHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCCh--------
Q 008575 97 DTKLYDDYETEKARERRLAKEARAQELQAKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDI-------- 168 (561)
Q Consensus 97 d~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l-------- 168 (561)
-.|+|.|||+|||.+..
T Consensus 69 -------------------------------------------------------gsIsV~DnGrGIPvd~h~~~g~~~~ 93 (756)
T PRK14939 69 -------------------------------------------------------GSVSVSDNGRGIPTDIHPEEGVSAA 93 (756)
T ss_pred -------------------------------------------------------CeEEEEEcCCcccCCcccccCCchh
Confidence 27999999999999843
Q ss_pred hhhhcccccccccc---cccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEeeccCCCceeeeeccccC
Q 008575 169 PNMFGRVLSGTKYG---LKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDIDIHRNIPHVHLHEKREN 245 (561)
Q Consensus 169 ~~iF~r~~~tSK~~---~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id~~kN~p~Il~~e~~~~ 245 (561)
+-+|...++|+||. ++-+.|.+|+|++++..+|. .++|+++..|.. |... + ..+.+.- ......
T Consensus 94 Elvlt~lhAggKfd~~~ykvSgGlhGvG~svvNAlS~-----~l~v~v~r~gk~--~~q~--f--~~G~~~~-~l~~~g- 160 (756)
T PRK14939 94 EVIMTVLHAGGKFDQNSYKVSGGLHGVGVSVVNALSE-----WLELTIRRDGKI--HEQE--F--EHGVPVA-PLKVVG- 160 (756)
T ss_pred hheeeeecccCCCCCCcccccCCccCccceEeehccC-----eEEEEEEeCCeE--EEEE--E--ecCcccc-CccccC-
Confidence 34677888999984 34578899999999999885 478888875542 3333 2 2443321 111111
Q ss_pred CCCCCCcEEEEEecCC-c---chhHHHHHHHHHHHHhhCCCcEEEEE
Q 008575 246 KDRWHGAEIQVVIEGN-W---TTYRSKILHYMRQMAVITPYAQFLFK 288 (561)
Q Consensus 246 ~~~~~GT~V~V~L~~n-~---~~~r~~I~eyLrr~AIvnP~a~~~l~ 288 (561)
....+||+|++..... | ......|.+.|+++|..||.++|.|.
T Consensus 161 ~~~~~GT~V~F~PD~~iF~~~~~~~~~i~~rl~elA~lnpgl~i~l~ 207 (756)
T PRK14939 161 ETDKTGTEVRFWPSPEIFENTEFDYDILAKRLRELAFLNSGVRIRLK 207 (756)
T ss_pred CcCCCCcEEEEEECHHHcCCcccCHHHHHHHHHHHhhcCCCCEEEEe
Confidence 1246899999984322 2 12335699999999999999999987
No 17
>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=99.53 E-value=2.6e-12 Score=144.96 Aligned_cols=183 Identities=19% Similarity=0.263 Sum_probs=128.0
Q ss_pred cccccccCCHHHHHHhccccc-CccCCCchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccc
Q 008575 19 NESALKQKSPAEFFAENKNIA-GFDNPGKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVD 97 (561)
Q Consensus 19 ~~~~~~~~S~aEff~~nk~i~-Gfdn~~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d 97 (561)
.++.++.++..|-..+...+. | +.....|++++.|+|+||+|-+- .|..-.|.|+|.+.
T Consensus 6 ~~~~i~~L~glE~VRkRPgMYIG-st~~~GL~hlv~EIvdNavDE~~-ag~~~~I~V~i~~d------------------ 65 (637)
T TIGR01058 6 NADAIKILEGLDAVRKRPGMYIG-STDSKGLHHLVWEIVDNSVDEVL-AGYADNITVTLHKD------------------ 65 (637)
T ss_pred CHHHCeeecccHHHhcCCCCeEC-CCCcchhheehhhhhcchhhhhh-cCCCcEEEEEEcCC------------------
Confidence 345667777777777777754 4 44457899999999999999775 34445688888532
Q ss_pred cccccchHHHHHHHHHHHHHHHHHHHHHHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCCh--------h
Q 008575 98 TKLYDDYETEKARERRLAKEARAQELQAKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDI--------P 169 (561)
Q Consensus 98 ~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l--------~ 169 (561)
..|+|.|||.|||-+.. +
T Consensus 66 ------------------------------------------------------gsitV~DnGrGIPv~~h~~~~~~~~E 91 (637)
T TIGR01058 66 ------------------------------------------------------NSITVQDDGRGIPTGIHQDGNISTVE 91 (637)
T ss_pred ------------------------------------------------------CeEEEEECCCcccCcccCcCCCccce
Confidence 27999999999997543 3
Q ss_pred hhhcccccccccc---cccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEeeccCC-CceeeeeccccC
Q 008575 170 NMFGRVLSGTKYG---LKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDIDIHRN-IPHVHLHEKREN 245 (561)
Q Consensus 170 ~iF~r~~~tSK~~---~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id~~kN-~p~Il~~e~~~~ 245 (561)
.+|..+++|+||. ++.+.|.+|+|++++..+|. .++|.+...|. .|..++ . +| .|. ...... .
T Consensus 92 ~v~t~LhaGgkfd~~~ykvSGGlhGvG~svvNAlS~-----~~~V~v~r~gk--~~~q~f--~--~Gg~~~-~~l~~~-~ 158 (637)
T TIGR01058 92 TVFTVLHAGGKFDQGGYKTAGGLHGVGASVVNALSS-----WLEVTVKRDGQ--IYQQRF--E--NGGKIV-QSLKKI-G 158 (637)
T ss_pred eEEEEecccCcCCCCcccccCCcccccccccceeec-----eEEEEEEECCE--EEEEEE--e--cCCcCc-CCcccc-c
Confidence 4688888999993 34577889999999999886 47788876443 343332 2 32 221 111111 1
Q ss_pred CCCCCCcEEEEEecCC-c---chhHHHHHHHHHHHHhhCCCcEEEEE
Q 008575 246 KDRWHGAEIQVVIEGN-W---TTYRSKILHYMRQMAVITPYAQFLFK 288 (561)
Q Consensus 246 ~~~~~GT~V~V~L~~n-~---~~~r~~I~eyLrr~AIvnP~a~~~l~ 288 (561)
....+||+|++..+.. | ......+.+.|+.+|..||.++|.|.
T Consensus 159 ~~~~~GT~V~F~PD~~iF~~~~f~~d~l~~RlrelA~Ln~GL~I~l~ 205 (637)
T TIGR01058 159 TTKKTGTLVHFHPDPTIFKTTQFNSNIIKERLKESAFLLKKLKLTFT 205 (637)
T ss_pred CCCCCceEEEEEeCHHHcCCCccCHHHHHHHHHHHhccCCCcEEEEE
Confidence 2346999999994432 2 11235689999999999999999987
No 18
>KOG1979 consensus DNA mismatch repair protein - MLH1 family [Replication, recombination and repair]
Probab=99.43 E-value=4.7e-13 Score=145.81 Aligned_cols=125 Identities=18% Similarity=0.212 Sum_probs=91.0
Q ss_pred CeeEEEEEeCCCCCCcCChhhhhcccccccccc-c-----ccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEE
Q 008575 150 SFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYG-L-----KQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISF 223 (561)
Q Consensus 150 ~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~-~-----~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~ 223 (561)
+.-.++|+|||.||-.+|+|-+.+|| +|||+. . .++-|++|..|+.+. ...+|+|+|++.++..+|.
T Consensus 55 GLKLlQisDnG~GI~reDl~ilCeRf-tTSKL~kFEDL~~lsTyGFRGEALASiS------hVA~VtV~TK~~~~~cayr 127 (694)
T KOG1979|consen 55 GLKLLQISDNGSGIRREDLPILCERF-TTSKLTKFEDLFSLSTYGFRGEALASIS------HVAHVTVTTKTAEGKCAYR 127 (694)
T ss_pred CeEEEEEecCCCccchhhhHHHHHHh-hhhhcchhHHHHhhhhcCccHHHHhhhh------heeEEEEEEeecCceeeeE
Confidence 45678999999999999999999998 799972 1 134455555544433 2457999999988876665
Q ss_pred EEEEeeccCCCceeeeeccccCCCCCCCcEEEEE-ecCCcchhH----------HHHHHHHHHHHhhCCCcEEEEEE
Q 008575 224 CKLDIDIHRNIPHVHLHEKRENKDRWHGAEIQVV-IEGNWTTYR----------SKILHYMRQMAVITPYAQFLFKF 289 (561)
Q Consensus 224 ~~L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V~-L~~n~~~~r----------~~I~eyLrr~AIvnP~a~~~l~~ 289 (561)
... .| +.+.. .+.| +++..||+|+|+ |+.|.+..| ++|.+.+.|+||.||.++|.+++
T Consensus 128 asY-~D-----Gkm~~-~pKp-cAgk~GT~I~vedLFYN~~~Rrkal~~~~EE~~ki~dlv~ryAIHn~~VsFs~rk 196 (694)
T KOG1979|consen 128 ASY-RD-----GKMIA-TPKP-CAGKQGTIITVEDLFYNMPTRRKALRNHAEEYRKIMDLVGRYAIHNPRVSFSLRK 196 (694)
T ss_pred EEe-ec-----ccccc-CCCC-ccCCCceEEEehHhhccCHHHHHHhcCcHHHHHHHHHHHHHHheeCCCcceEEee
Confidence 332 23 34332 2222 467899999999 777774332 36999999999999999999984
No 19
>COG0187 GyrB Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair]
Probab=99.40 E-value=5e-12 Score=139.94 Aligned_cols=183 Identities=19% Similarity=0.295 Sum_probs=128.1
Q ss_pred cccccCCHHHHHHhccccc-CccCCCchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccc
Q 008575 21 SALKQKSPAEFFAENKNIA-GFDNPGKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTK 99 (561)
Q Consensus 21 ~~~~~~S~aEff~~nk~i~-Gfdn~~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~ 99 (561)
+..+-+.--|-..+-..+. |=-.++..|+.++.|.||||+|-|=. |-.-.|.|+|.+.
T Consensus 9 ~~I~vL~GLEaVRkRPGMYIGst~~~~GLhHlv~EVvDNsiDEala-G~~~~I~V~l~~d-------------------- 67 (635)
T COG0187 9 SSIQVLEGLEAVRKRPGMYIGSTGDGRGLHHLVWEVVDNSIDEALA-GYADRIDVTLHED-------------------- 67 (635)
T ss_pred hHceeccCcHHhhcCCCceeccCCCCCcceeeEeEeeechHhHHhh-CcCcEEEEEEcCC--------------------
Confidence 3444444555555555543 43355689999999999999999844 4556799998643
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCC--------hhhh
Q 008575 100 LYDDYETEKARERRLAKEARAQELQAKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDD--------IPNM 171 (561)
Q Consensus 100 ~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~--------l~~i 171 (561)
-.|+|.|||.|||-+. ++-|
T Consensus 68 ----------------------------------------------------~sisV~DnGRGIPvdiH~~~~~~~vEvI 95 (635)
T COG0187 68 ----------------------------------------------------GSISVEDNGRGIPVDIHPKEKVSAVEVI 95 (635)
T ss_pred ----------------------------------------------------CeEEEEECCCCCccccCCCCCCCceEEE
Confidence 3699999999999877 4458
Q ss_pred hcccccccccc---cccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEeeccCCCce-eeeeccccCCC
Q 008575 172 FGRVLSGTKYG---LKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDIDIHRNIPH-VHLHEKRENKD 247 (561)
Q Consensus 172 F~r~~~tSK~~---~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id~~kN~p~-Il~~e~~~~~~ 247 (561)
|..+++|+||. ++-|.|-+|+|.+.+..+|. .+.|+....|. .|...+. ++.+. -++... ....
T Consensus 96 ~T~LHAGGKFd~~~YkvSGGLHGVG~SVVNALS~-----~l~v~v~r~gk--~y~q~f~----~G~~~~~l~~ig-~~~~ 163 (635)
T COG0187 96 FTVLHAGGKFDNDSYKVSGGLHGVGVSVVNALST-----WLEVEVKRDGK--IYRQRFE----RGVPVTPLEVIG-STDT 163 (635)
T ss_pred EEeeccCcccCCCccEeecCCCccceEEEecccc-----eEEEEEEECCE--EEEEEEe----CCCcCCCceecc-cCCC
Confidence 99999999994 34577889999999999886 58888887554 3443322 34442 111100 0123
Q ss_pred CCCCcEEEEEecCC-c---chhHHHHHHHHHHHHhhCCCcEEEEE
Q 008575 248 RWHGAEIQVVIEGN-W---TTYRSKILHYMRQMAVITPYAQFLFK 288 (561)
Q Consensus 248 ~~~GT~V~V~L~~n-~---~~~r~~I~eyLrr~AIvnP~a~~~l~ 288 (561)
..+||+|++..... | ......+...||.+|..||.++|.|.
T Consensus 164 ~~~GT~V~F~PD~~iF~~~~f~~~~l~~RlrelA~L~~gl~I~l~ 208 (635)
T COG0187 164 KKTGTKVRFKPDPEIFGETEFDYEILKRRLRELAFLNKGVKITLT 208 (635)
T ss_pred CCCccEEEEEcChHhcCCcccCHHHHHHHHHHHhccCCCCEEEEE
Confidence 46899999984322 1 11235689999999999999999987
No 20
>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=99.36 E-value=4.6e-12 Score=110.21 Aligned_cols=105 Identities=23% Similarity=0.337 Sum_probs=83.7
Q ss_pred chHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHH
Q 008575 46 KSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQA 125 (561)
Q Consensus 46 k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~~ 125 (561)
..|++++.||++||++++.+. ..|.|.++..
T Consensus 4 ~~l~~il~~ll~Na~~~~~~~---~~I~i~~~~~---------------------------------------------- 34 (111)
T PF02518_consen 4 DRLRQILSELLDNAIKHSPEG---GKIDITIEED---------------------------------------------- 34 (111)
T ss_dssp HHHHHHHHHHHHHHHHHHHHT---SEEEEEEEEE----------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHhcCC---CEEEEEEEEe----------------------------------------------
Confidence 579999999999999999886 3699998876
Q ss_pred HHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhC
Q 008575 126 KNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMST 205 (561)
Q Consensus 126 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~ 205 (561)
.+.+.|+|+|||.||++++++.+|.+++.+++ .. ...+++|+||+++..++...
T Consensus 35 -----------------------~~~~~i~i~d~G~gi~~~~l~~~~~~~~~~~~-~~-~~~~g~GlGL~~~~~~~~~~- 88 (111)
T PF02518_consen 35 -----------------------DDHLSIEISDNGVGIPPEELEKLFEPFFTSDK-SE-TSISGHGLGLYIVKQIAERH- 88 (111)
T ss_dssp -----------------------TTEEEEEEEESSSSTTHHHHHHHCSTTSHSSS-SS-GGSSSSSHHHHHHHHHHHHT-
T ss_pred -----------------------cCeEEEEEEeccccccccccccchhhcccccc-cc-cccCCCChHHHHHHHHHHHC-
Confidence 36799999999999999999999999975554 21 23345899999999999875
Q ss_pred CccEEEEeeeCCCceEEEEEE
Q 008575 206 GLPIEISSSMRSHNFISFCKL 226 (561)
Q Consensus 206 Gg~I~V~Sk~~g~~~~~~~~L 226 (561)
++.+++.+.. +.++.+.+.+
T Consensus 89 ~g~l~~~~~~-~~gt~v~~~~ 108 (111)
T PF02518_consen 89 GGELTIESSE-GGGTTVTFTL 108 (111)
T ss_dssp TEEEEEEEET-TTEEEEEEEE
T ss_pred CCEEEEEEcC-CCcEEEEEEE
Confidence 6679998886 3444444333
No 21
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=99.35 E-value=2.7e-12 Score=141.18 Aligned_cols=95 Identities=23% Similarity=0.326 Sum_probs=78.4
Q ss_pred chHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHH
Q 008575 46 KSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQA 125 (561)
Q Consensus 46 k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~~ 125 (561)
--|-|++-||+.|||||.+.. .-|.|+|.+.+.
T Consensus 496 iRLeQVLvNLl~NALDA~~~~-~~~~i~i~~~~~---------------------------------------------- 528 (603)
T COG4191 496 IRLEQVLVNLLQNALDAMAGQ-EDRRLSIRAQRE---------------------------------------------- 528 (603)
T ss_pred hhHHHHHHHHHHHHHHHhcCC-CCCeeEEEEEec----------------------------------------------
Confidence 469999999999999999874 447899888765
Q ss_pred HHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhC
Q 008575 126 KNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMST 205 (561)
Q Consensus 126 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~ 205 (561)
.+.+.|+|.||||||+++.++++|++|| |||- ...||||.++..+.+++.
T Consensus 529 -----------------------~~~v~l~VrDnGpGi~~e~~~~lFePF~-TtK~------~~~GLGLGLaIS~~i~~d 578 (603)
T COG4191 529 -----------------------GGQVVLTVRDNGPGIAPEALPHLFEPFF-TTKP------VGKGLGLGLAISQNIARD 578 (603)
T ss_pred -----------------------CCeEEEEEccCCCCCCHHHHHhhcCCcc-ccCc------ccCCcchhHHHHHHHHHH
Confidence 4679999999999999999999999997 7773 234777777777777765
Q ss_pred -CccEEEEeeeCC
Q 008575 206 -GLPIEISSSMRS 217 (561)
Q Consensus 206 -Gg~I~V~Sk~~g 217 (561)
||+++|.+.+.+
T Consensus 579 ~GGsL~v~n~~~~ 591 (603)
T COG4191 579 LGGSLEVANHPEG 591 (603)
T ss_pred hCCeEEeecCCCC
Confidence 899999976533
No 22
>PTZ00109 DNA gyrase subunit b; Provisional
Probab=99.34 E-value=5.2e-11 Score=136.97 Aligned_cols=173 Identities=18% Similarity=0.226 Sum_probs=119.1
Q ss_pred HHHHhccccc-CccCCCchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHH
Q 008575 30 EFFAENKNIA-GFDNPGKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEK 108 (561)
Q Consensus 30 Eff~~nk~i~-Gfdn~~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~ 108 (561)
|-..+...+. |= ...+.|++++.|+|+||+|-+-. |..-.|.|+|...
T Consensus 112 EaVRkRPGMYIGs-t~~~GLhhLv~EIlDNSVDE~la-G~~~~I~V~i~~D----------------------------- 160 (903)
T PTZ00109 112 EAVRKRPGMYIGN-TDEKGLHQLLFEILDNSVDEYLA-GECNKITVVLHKD----------------------------- 160 (903)
T ss_pred HHHhcCCCceeCC-CCCCcceEEEEEEeeccchhhcc-CCCcEEEEEEcCC-----------------------------
Confidence 3344444433 32 23578999999999999998854 6666798888432
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChh--------hhhcccccccc
Q 008575 109 ARERRLAKEARAQELQAKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIP--------NMFGRVLSGTK 180 (561)
Q Consensus 109 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~--------~iF~r~~~tSK 180 (561)
-.|+|+|||.|||-+..+ -+|..+++|+|
T Consensus 161 -------------------------------------------gsItV~DnGRGIPvd~h~k~g~s~~E~VlT~LhAGGK 197 (903)
T PTZ00109 161 -------------------------------------------GSVEISDNGRGIPCDVSEKTGKSGLETVLTVLHSGGK 197 (903)
T ss_pred -------------------------------------------CeEEEEeCCccccccccccCCCcceeEEEEEeccCcc
Confidence 369999999999986543 47888889999
Q ss_pred ccc-------------------------------------------ccCCCcceeehHhhHHHHHHhCCccEEEEeeeCC
Q 008575 181 YGL-------------------------------------------KQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRS 217 (561)
Q Consensus 181 ~~~-------------------------------------------~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g 217 (561)
|.. +-+.|.+|+|++.+..+|. .++|.+...|
T Consensus 198 F~~~~~~~~~~~~~~~~~d~~~~~k~~~~~~~~~~~~~~~~~~~~YkvSGGLHGVG~SVVNALS~-----~l~VeV~RdG 272 (903)
T PTZ00109 198 FQDTFPKNSRSDKSEDKNDTKSSKKGKSSHVKGPKEAKEKESSQMYEYSSGLHGVGLSVVNALSS-----FLKVDVFKGG 272 (903)
T ss_pred ccCcccccccccccccccccccccccccccccccccccccccCCcceecCcCCCcceeeeeeccC-----eEEEEEEECC
Confidence 832 2356789999999999886 5788888754
Q ss_pred CceEEEEEEEeeccCCCceeeeeccccCCCCCCCcEEEEEec-CC-cch-----------------hHHHHHHHHHHHHh
Q 008575 218 HNFISFCKLDIDIHRNIPHVHLHEKRENKDRWHGAEIQVVIE-GN-WTT-----------------YRSKILHYMRQMAV 278 (561)
Q Consensus 218 ~~~~~~~~L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V~L~-~n-~~~-----------------~r~~I~eyLrr~AI 278 (561)
. .|..++ .++.+.- ...........+||+|++... .. |.. .-..|.+.|+.+|.
T Consensus 273 K--~y~q~F----~rG~~v~-pLkvig~~~~~tGT~VtF~PD~~~IF~~~~~~~~~~~~~~~~~~F~~d~L~~RLrElAf 345 (903)
T PTZ00109 273 K--IYSIEL----SKGKVTK-PLSVFSCPLKKRGTTIHFLPDYKHIFKTHHQHTETEEEEGCKNGFNLDLIKNRIHELSY 345 (903)
T ss_pred E--EEEEEe----CCCcccC-CccccCCcCCCCceEEEEEeCcchhcCccccccccccccccccccCHHHHHHHHHHHhc
Confidence 3 344332 3443321 111111111458999999955 33 321 12468899999999
Q ss_pred hCCCcEEEEE
Q 008575 279 ITPYAQFLFK 288 (561)
Q Consensus 279 vnP~a~~~l~ 288 (561)
.||.++|.|.
T Consensus 346 LNpGL~I~L~ 355 (903)
T PTZ00109 346 LNPGLTFYLV 355 (903)
T ss_pred cCCCcEEEEE
Confidence 9999999987
No 23
>PRK05218 heat shock protein 90; Provisional
Probab=99.32 E-value=1.1e-11 Score=139.65 Aligned_cols=119 Identities=18% Similarity=0.231 Sum_probs=82.0
Q ss_pred EEEEEeCCCCCCcCChhhhhccccccc------ccc-----cccCCCcceeehHhhHHHHHHhCCccEEEEeeeCC-Cce
Q 008575 153 RVTCKDNGKGMPHDDIPNMFGRVLSGT------KYG-----LKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRS-HNF 220 (561)
Q Consensus 153 ~I~V~DNG~GI~~e~l~~iF~r~~~tS------K~~-----~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g-~~~ 220 (561)
.|+|+|||+||+.+++...|+++.+++ |+. ..+..|++|+|+..+.+++ .+++|.|+..+ ...
T Consensus 74 ~i~I~DnG~GMt~eel~~~l~~ia~Sg~~~f~~k~~~~~~~~~~~iG~fGiGf~S~f~va-----~~v~V~Sr~~~~~~~ 148 (613)
T PRK05218 74 TLTISDNGIGMTREEVIENLGTIAKSGTKEFLEKLKGDQKKDSQLIGQFGVGFYSAFMVA-----DKVTVITRSAGPAAE 148 (613)
T ss_pred eEEEEECCCCCCHHHHHHHHHhhccccchhHHHHhhcccccccccccccCcCchhhhhcc-----CEEEEEEcCCCCCCc
Confidence 599999999999999999999886443 220 1245689999998766654 47999999866 445
Q ss_pred EEEEEEEeeccCCCceeeeeccccCCCCCCCcEEEEEecCCcc--hhHHHHHHHHHHHH--hhCCCcEE
Q 008575 221 ISFCKLDIDIHRNIPHVHLHEKRENKDRWHGAEIQVVIEGNWT--TYRSKILHYMRQMA--VITPYAQF 285 (561)
Q Consensus 221 ~~~~~L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V~L~~n~~--~~r~~I~eyLrr~A--IvnP~a~~ 285 (561)
++.|... .+.. ...++. ....+||+|+|.|..... ....+|.+.++++| +.+| +.|
T Consensus 149 ~~~w~~~----g~~~--~~i~~~--~~~~~GT~I~l~Lk~~~~e~~e~~~i~~li~kys~~l~~P-I~~ 208 (613)
T PRK05218 149 AVRWESD----GEGE--YTIEEI--EKEERGTEITLHLKEDEDEFLDEWRIRSIIKKYSDFIPVP-IKL 208 (613)
T ss_pred eEEEEEe----CCce--eEEeEC--CCCCCCcEEEEEECcchhhhcCHHHHHHHHHHHHhcCCCC-EEE
Confidence 5666542 2212 122222 123799999999876542 13456999999999 7777 555
No 24
>PHA02569 39 DNA topoisomerase II large subunit; Provisional
Probab=99.32 E-value=1.2e-10 Score=130.95 Aligned_cols=156 Identities=20% Similarity=0.350 Sum_probs=108.6
Q ss_pred chHHHHHHHHHHcHHHHHhh--cCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHH
Q 008575 46 KSLYTTVRELVENSLDSAES--ISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQEL 123 (561)
Q Consensus 46 k~L~t~irelVeNslDa~e~--~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~ 123 (561)
..|+.++.|+|+||.|-+-. .|..-.|.|+|. .
T Consensus 44 ~GL~hi~~EIldNavDe~~~~~~g~~~~I~V~i~-d-------------------------------------------- 78 (602)
T PHA02569 44 PGLVKIIDEIIDNSVDEAIRTNFKFANKIDVTIK-N-------------------------------------------- 78 (602)
T ss_pred ccceeeeehhhhhhhhhhhccCCCCCcEEEEEEc-C--------------------------------------------
Confidence 68999999999999998743 133446888885 2
Q ss_pred HHHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCCh-----------hhhhcccccccccc--cccCCCcc
Q 008575 124 QAKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDI-----------PNMFGRVLSGTKYG--LKQTRGKF 190 (561)
Q Consensus 124 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l-----------~~iF~r~~~tSK~~--~~~s~G~~ 190 (561)
..|+|.|||.|||-+.. +-+|+.+++|+||. ++.+.|.+
T Consensus 79 ----------------------------gsisV~dnGrGIPv~~h~~~~g~~~~~~E~i~t~LhaGgkFd~~ykvSGGlh 130 (602)
T PHA02569 79 ----------------------------NQVTVSDNGRGIPQAMVTTPEGEEIPGPVAAWTRTKAGSNFDDTNRVTGGMN 130 (602)
T ss_pred ----------------------------CEEEEEECCCcccCCcccccccccccceEEEEEeeccccccCCcceeeCCcC
Confidence 36999999999997543 34588889999993 45578889
Q ss_pred eeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEeeccCCCceeeeeccccCCCCCCCcEEEEEecCC-c-----ch
Q 008575 191 GLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDIDIHRNIPHVHLHEKRENKDRWHGAEIQVVIEGN-W-----TT 264 (561)
Q Consensus 191 GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V~L~~n-~-----~~ 264 (561)
|+|++++..+|.. +.|.++. +. ..|... +..|.+.. ... . .....+||+|++..... | ..
T Consensus 131 GVG~svvNaLS~~-----~~V~v~~-~~-~~~~q~----f~~G~~~~-~~~-~-~~~~~~GT~V~F~PD~~iF~~~~~~~ 196 (602)
T PHA02569 131 GVGSSLTNFFSVL-----FIGETCD-GK-NEVTVN----CSNGAENI-SWS-T-KPGKGKGTSVTFIPDFSHFEVNGLDQ 196 (602)
T ss_pred Cccceeeeccchh-----hheEEEc-CC-EEEEEE----ecCCcccC-Ccc-c-CCCCCCccEEEEEECHHHhCCCccCc
Confidence 9999999999873 5666654 32 233322 23444321 111 1 12346999999994321 2 11
Q ss_pred -hHHHHHHHHHHHHhhCCCcEEEEE
Q 008575 265 -YRSKILHYMRQMAVITPYAQFLFK 288 (561)
Q Consensus 265 -~r~~I~eyLrr~AIvnP~a~~~l~ 288 (561)
....+...++.+|..||.++|.|.
T Consensus 197 ~~~~~l~~Rl~elA~Ln~Gl~I~l~ 221 (602)
T PHA02569 197 QYLDIILDRLQTLAVVFPDIKFTFN 221 (602)
T ss_pred cHHHHHHHHHHHHhcCCCCCEEEEE
Confidence 125688899999999999999986
No 25
>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=99.31 E-value=9.8e-13 Score=120.97 Aligned_cols=71 Identities=28% Similarity=0.491 Sum_probs=50.4
Q ss_pred CeeEEEEEeCCCCCCcCChhhhhcccccccccc--cccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEE
Q 008575 150 SFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYG--LKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCK 225 (561)
Q Consensus 150 ~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~--~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~ 225 (561)
+...|.|.|||.||+.+++..+| ++.+++|.. ..++.|.+|+|++++.+. .+..+.|.|+..+....+.+.
T Consensus 32 ~~~~i~I~DnG~Gm~~~~l~~~~-~~g~s~k~~~~~~~~~G~~G~G~k~A~~~----~~~~~~v~S~~~~~~~~~~~~ 104 (137)
T PF13589_consen 32 GERYIVIEDNGEGMSREDLESFF-RIGRSSKKSEKDRQSIGRFGIGLKLAIFS----LGDRVEVISKTNGESFTYTID 104 (137)
T ss_dssp TTTEEEEEESSS---HHHHHHHT-TCHHTHHHHHHHGGGGGGGTSGCGGGGGG----TEEEEEEEEESTTSSSEEEEE
T ss_pred CCcEEEEEECCcCCCHHHHHHhc-cccCCCCCchhhhhcCCCcceEHHHHHHH----hcCEEEEEEEECCCCcEEEEE
Confidence 34689999999999999999955 566677752 246789999997765432 367899999998777654433
No 26
>PTZ00272 heat shock protein 83 kDa (Hsp83); Provisional
Probab=99.31 E-value=4.9e-12 Score=143.68 Aligned_cols=118 Identities=19% Similarity=0.266 Sum_probs=82.6
Q ss_pred CeeEEEEEeCCCCCCcCChhhhhcccccc-cc-c--cc-----ccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCce
Q 008575 150 SFYRVTCKDNGKGMPHDDIPNMFGRVLSG-TK-Y--GL-----KQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNF 220 (561)
Q Consensus 150 ~~~~I~V~DNG~GI~~e~l~~iF~r~~~t-SK-~--~~-----~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~ 220 (561)
+...|+|+|||+||+.+++.+.|+.+..+ ++ + .. .+..|+||+|+.++++++. .|.|.|+..+. .
T Consensus 70 ~~~~L~I~DnGiGMt~edl~~~LgtIa~SGt~~f~~~~~~~~~~~~iGqFGvGfyS~Fmvad-----~V~V~Srs~~~-~ 143 (701)
T PTZ00272 70 ENKTLTVEDNGIGMTKADLVNNLGTIARSGTKAFMEALEAGGDMSMIGQFGVGFYSAYLVAD-----RVTVTSKNNSD-E 143 (701)
T ss_pred CCCEEEEEECCCCCCHHHHHHHhhhhhhcchHHHHHHhhccCCccccCCCCcceEEEEEecc-----EEEEEEecCCC-c
Confidence 34579999999999999999999887653 33 1 01 2357999999999999875 69999987543 5
Q ss_pred EEEEEEEeeccCCCceeeeeccccCCCCCCCcEEEEEecCCcch--hHHHHHHHHHHHHhh
Q 008575 221 ISFCKLDIDIHRNIPHVHLHEKRENKDRWHGAEIQVVIEGNWTT--YRSKILHYMRQMAVI 279 (561)
Q Consensus 221 ~~~~~L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V~L~~n~~~--~r~~I~eyLrr~AIv 279 (561)
+|.|+...+ +.-. +.. .+.....+||+|++.|..+... ...+|.+++++++-.
T Consensus 144 ~~~W~s~~~---g~y~-i~~--~~~~~~~~GT~I~L~Lk~d~~ef~~~~~i~~li~kYs~f 198 (701)
T PTZ00272 144 SYVWESSAG---GTFT-ITS--TPESDMKRGTRITLHLKEDQMEYLEPRRLKELIKKHSEF 198 (701)
T ss_pred eEEEEECCC---CcEE-EEe--CCCCCCCCCCEEEEEECCchHHhccHHHHHHHHHHhccc
Confidence 788876433 1112 222 1212346999999999876421 235789999998543
No 27
>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=99.30 E-value=1.1e-11 Score=130.36 Aligned_cols=72 Identities=24% Similarity=0.314 Sum_probs=57.1
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEE
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKL 226 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L 226 (561)
.+.+.|+|+|||+|||++.+.++|++|+ ++|... ..+.||||+++..+...+ ||.|+|.|.+ +.++.+.+.|
T Consensus 421 ~~~~~~~V~D~G~Gi~~~~~~~iF~~f~-~~~~~~---~~G~GlGL~i~~~iv~~~-gG~i~~~s~~-~~G~~f~i~l 492 (494)
T TIGR02938 421 GDLIVVSILDSGPGIPQDLRYKVFEPFF-TTKGGS---RKHIGMGLSVAQEIVADH-GGIIDLDDDY-SEGCRIIVEF 492 (494)
T ss_pred CCEEEEEEEeCCCCCCHHHHHHhcCCCc-ccCCCC---CCCCcccHHHHHHHHHHc-CCEEEEEECC-CCCEEEEEEe
Confidence 4678999999999999999999999986 555321 345799999999999874 8899999987 4555554444
No 28
>PLN03128 DNA topoisomerase 2; Provisional
Probab=99.25 E-value=1.3e-09 Score=129.44 Aligned_cols=163 Identities=17% Similarity=0.229 Sum_probs=109.6
Q ss_pred chHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHH
Q 008575 46 KSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQA 125 (561)
Q Consensus 46 k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~~ 125 (561)
..||.++.|+|+||.|-+-..+..-.|.|+|...
T Consensus 51 pGL~ki~dEIldNAvDe~~~~g~~~~I~V~i~~~---------------------------------------------- 84 (1135)
T PLN03128 51 PGLYKIFDEILVNAADNKQRDPSMDSLKVDIDVE---------------------------------------------- 84 (1135)
T ss_pred hhHHHHHHHHHHHHHHHhhhcCCCcEEEEEEEcC----------------------------------------------
Confidence 4899999999999999885555556788888542
Q ss_pred HHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCCh--------hhhhcccccccccc---cccCCCcceeeh
Q 008575 126 KNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDI--------PNMFGRVLSGTKYG---LKQTRGKFGLGA 194 (561)
Q Consensus 126 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l--------~~iF~r~~~tSK~~---~~~s~G~~GlGL 194 (561)
...|+|.|||.|||-+.. +-||+.+++|+||. .+-+.|.+|+|.
T Consensus 85 -------------------------dgsIsV~DnGrGIPv~ih~~~g~~~~ElIft~LhaGgkFdd~~ykvSGGlhGvGa 139 (1135)
T PLN03128 85 -------------------------QNTISVYNNGKGIPVEIHKEEGVYVPELIFGHLLTSSNFDDNEKKTTGGRNGYGA 139 (1135)
T ss_pred -------------------------CCeEEEEecCccccCCCCCCCCCccceEEEEeeccccccCCccceeeccccCCCC
Confidence 137999999999997643 34799999999994 345778899999
Q ss_pred HhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEeeccCCCceeeeeccccCCCCCCCcEEEEEecCC-c-----chh-HH
Q 008575 195 KMALIWSKMSTGLPIEISSSMRSHNFISFCKLDIDIHRNIPHVHLHEKRENKDRWHGAEIQVVIEGN-W-----TTY-RS 267 (561)
Q Consensus 195 ~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V~L~~n-~-----~~~-r~ 267 (561)
+++..+|. .+.|.+.....+..|... +..|.+..-.+.........+||+|++..... | ... -.
T Consensus 140 svvNaLS~-----~f~Vev~d~r~gk~y~q~----f~~G~~~~~~p~i~~~~~~~~GT~ItF~PD~~iF~~~~fd~d~~~ 210 (1135)
T PLN03128 140 KLANIFST-----EFTVETADGNRGKKYKQV----FTNNMSVKSEPKITSCKASENWTKITFKPDLAKFNMTRLDEDVVA 210 (1135)
T ss_pred eEEEeecC-----eEEEEEEECCCCeEEEEE----eCCCcccCCCceeccCCCCCCceEEEEEECHHHcCCCccChHHHH
Confidence 99999886 477777632233334322 33454321111111101235999999994321 2 111 12
Q ss_pred HHHHHHHHHH-hhCCCcEEEEE
Q 008575 268 KILHYMRQMA-VITPYAQFLFK 288 (561)
Q Consensus 268 ~I~eyLrr~A-IvnP~a~~~l~ 288 (561)
.+...++.+| ..||.++|.|.
T Consensus 211 ~l~kRl~elAa~Ln~GlkI~Ln 232 (1135)
T PLN03128 211 LMSKRVYDIAGCLGKKLKVELN 232 (1135)
T ss_pred HHHHHHHHHHHhCCCCcEEEEe
Confidence 3556666677 88899999986
No 29
>COG0326 HtpG Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=99.24 E-value=9.9e-12 Score=138.09 Aligned_cols=117 Identities=16% Similarity=0.228 Sum_probs=81.8
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhccccccccc----cc------ccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCC
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKY----GL------KQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSH 218 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~----~~------~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~ 218 (561)
++.-.++|+|||+||+.+++...++.+..|++. .+ .+-.||||+|+..+++++. +|+|.|+..++
T Consensus 71 k~~kTLtI~DNGIGMT~~Ev~~~LgTIAkSgT~~F~~~l~~~~~~~~lIGQFGVGFYSaFmVAd-----kV~V~T~~~~~ 145 (623)
T COG0326 71 KDNKTLTISDNGIGMTKDEVIENLGTIAKSGTKEFLESLSEDQKDSDLIGQFGVGFYSAFMVAD-----KVTVITRSAGE 145 (623)
T ss_pred ccCCEEEEEeCCCCCCHHHHHHHHHHhhhccHHHHHHHhccccccccccccccchhhheeeeee-----eEEEEeccCCC
Confidence 345689999999999999998888876544442 11 1236999999999999986 69999999887
Q ss_pred ceEEEEEEEeeccCCCceeeeeccccCCCCC-CCcEEEEEecCCcch--hHHHHHHHHHHHHh
Q 008575 219 NFISFCKLDIDIHRNIPHVHLHEKRENKDRW-HGAEIQVVIEGNWTT--YRSKILHYMRQMAV 278 (561)
Q Consensus 219 ~~~~~~~L~id~~kN~p~Il~~e~~~~~~~~-~GT~V~V~L~~n~~~--~r~~I~eyLrr~AI 278 (561)
..++.|+-. +.+.. +.+..+ ... +||+|++.|..+... ...+|.+.++.++-
T Consensus 146 ~~~~~W~S~-----g~g~y-tv~~~~--~~~~~GT~I~L~Lk~~e~efl~~~rl~~ivkkYSd 200 (623)
T COG0326 146 DEAYHWESD-----GEGEY-TVEDID--KEPRRGTEITLHLKEEEDEFLEEWRLREIVKKYSD 200 (623)
T ss_pred CcceEEEEc-----CCCce-EEeecc--CCCCCCcEEEEEECCchHHHhhhhHHHHHHHHHhc
Confidence 777777743 22322 111221 234 699999998876422 23457777777754
No 30
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=99.22 E-value=3.1e-11 Score=126.04 Aligned_cols=113 Identities=18% Similarity=0.289 Sum_probs=94.4
Q ss_pred CccCCCchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHH
Q 008575 40 GFDNPGKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEAR 119 (561)
Q Consensus 40 Gfdn~~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~ 119 (561)
-+|. .-+.|++-|+++||++|...-| .|++.+...
T Consensus 337 eiD~--DK~tQVldNii~NA~KYsP~Gg---~Itv~~~~~---------------------------------------- 371 (459)
T COG5002 337 EIDP--DKMTQVLDNIISNALKYSPDGG---RITVSVKQR---------------------------------------- 371 (459)
T ss_pred EeCh--hHHHHHHHHHHHHHhhcCCCCC---eEEEEEeee----------------------------------------
Confidence 4444 4699999999999999998766 488877553
Q ss_pred HHHHHHHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHH
Q 008575 120 AQELQAKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALI 199 (561)
Q Consensus 120 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l 199 (561)
.+++.|+|.|+|.|||.++++++|+|||+..|.+. ...|+.|+||+++.-
T Consensus 372 -----------------------------~~~v~iSI~D~G~gIPk~d~~~iFdrfyRvdkARs-R~~gGTGLGLaIake 421 (459)
T COG5002 372 -----------------------------ETWVEISISDQGLGIPKEDLEKIFDRFYRVDKARS-RKMGGTGLGLAIAKE 421 (459)
T ss_pred -----------------------------CcEEEEEEccCCCCCCchhHHHHHHHHhhhhhhhh-hcCCCCchhHHHHHH
Confidence 46799999999999999999999999999888754 356888999999999
Q ss_pred HHHHhCCccEEEEeeeCCCceEEEEEEEee
Q 008575 200 WSKMSTGLPIEISSSMRSHNFISFCKLDID 229 (561)
Q Consensus 200 ~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id 229 (561)
+.+.| ||.|+..|. .|.++++.|.|+..
T Consensus 422 iV~~h-gG~iWA~s~-~gkgtt~~ftLPy~ 449 (459)
T COG5002 422 IVQAH-GGRIWAESE-EGKGTTFSFTLPYS 449 (459)
T ss_pred HHHHh-CCeEEEecc-cCCceEEEEEeccc
Confidence 88876 779999998 47788888888765
No 31
>KOG1978 consensus DNA mismatch repair protein - MLH2/PMS1/Pms2 family [Replication, recombination and repair]
Probab=99.22 E-value=5.2e-11 Score=132.46 Aligned_cols=124 Identities=18% Similarity=0.164 Sum_probs=85.4
Q ss_pred eeEEEEEeCCCCCCcCChhhhhcccccccccc-c-----ccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEE
Q 008575 151 FYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYG-L-----KQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFC 224 (561)
Q Consensus 151 ~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~-~-----~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~ 224 (561)
.-.|+|+|||+||++.+.+-+-.++ +|||.. + ..+.|++|..|+. +-.-+.+.|.|++.....+..|
T Consensus 49 ~d~IEV~DNG~GI~~~n~~~l~lkh-~TSKi~~f~Dl~~l~T~GFRGEALSs------LCa~~dv~I~Trt~~~~vgt~l 121 (672)
T KOG1978|consen 49 SDSIEVSDNGSGISATDFEGLALKH-TTSKIVSFADLAVLFTLGFRGEALSS------LCALGDVMISTRSHSAKVGTRL 121 (672)
T ss_pred cceEEEecCCCCCCccchhhhhhhh-hhhcccchhhhhhhhhhhhHHHHHHh------hhhccceEEEEeeccCccceeE
Confidence 3479999999999999998876666 599972 2 2455555555422 2222457888887655555555
Q ss_pred EEEeeccCCCceeeeeccccCCCCCCCcEEEEE-ecCCcchh--------H---HHHHHHHHHHHhhCCCcEEEEEE
Q 008575 225 KLDIDIHRNIPHVHLHEKRENKDRWHGAEIQVV-IEGNWTTY--------R---SKILHYMRQMAVITPYAQFLFKF 289 (561)
Q Consensus 225 ~L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V~-L~~n~~~~--------r---~~I~eyLrr~AIvnP~a~~~l~~ 289 (561)
.++- .+.+....+ .....||+|.|. |+.+.+.. + .++...+..+|+++++++|-+..
T Consensus 122 ~~Dh-----~G~I~~k~~---~ar~~GTTV~v~~LF~tLPVR~kef~r~~Kref~k~i~li~~y~li~~~ir~~~~n 190 (672)
T KOG1978|consen 122 VYDH-----DGHIIQKKP---VARGRGTTVMVRQLFSTLPVRRKEFQRNIKRKFVKLISLIQAYALISTAIKFLVSN 190 (672)
T ss_pred EEcc-----CCceeeecc---ccCCCCCEEEHhhhcccCCCchHHhhcchhhhhhhHHhhHHHHHhhcccceeeeee
Confidence 5443 245565444 367899999999 77766422 1 25888889999999999998763
No 32
>PRK09303 adaptive-response sensory kinase; Validated
Probab=99.21 E-value=4.8e-11 Score=126.04 Aligned_cols=75 Identities=15% Similarity=0.224 Sum_probs=58.4
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEe
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDI 228 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~i 228 (561)
.+.+.|+|.|||+||++++++++|++||++.. . ...++.|+||+++..+...+ ||.|+|.|.+ +.+..+.+.|++
T Consensus 303 ~~~v~i~V~D~G~GI~~~~~~~iF~pf~~~~~-~--~~~~G~GLGL~i~~~iv~~~-gG~i~v~s~~-~~Gt~f~i~lP~ 377 (380)
T PRK09303 303 TQKVQVSICDTGPGIPEEEQERIFEDRVRLPR-D--EGTEGYGIGLSVCRRIVRVH-YGQIWVDSEP-GQGSCFHFTLPV 377 (380)
T ss_pred CCEEEEEEEEcCCCCCHHHHHHHccCceeCCC-C--CCCCcccccHHHHHHHHHHc-CCEEEEEecC-CCccEEEEEEec
Confidence 45689999999999999999999999985443 1 22456899999999998874 7789999986 455556555543
No 33
>PRK14083 HSP90 family protein; Provisional
Probab=99.21 E-value=3.5e-11 Score=135.10 Aligned_cols=116 Identities=13% Similarity=0.158 Sum_probs=79.0
Q ss_pred eEEEEEeCCCCCCcCChhhhhccccccccccc------ccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEE
Q 008575 152 YRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGL------KQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCK 225 (561)
Q Consensus 152 ~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~------~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~ 225 (561)
..|+|+|||+||+.+++.+.|+.+..++|... ....|++|+|+.++.+++. .+.|.|+..+...++.|.
T Consensus 63 ~~l~I~DnGiGmt~eel~~~l~~ig~S~k~~~~~~~~~~~~IG~FGIGf~S~F~vad-----~v~V~Tr~~~~~~~~~W~ 137 (601)
T PRK14083 63 GTLIVEDNGIGLTEEEVHEFLATIGRSSKRDENLGFARNDFLGQFGIGLLSCFLVAD-----EIVVVSRSAKDGPAVEWR 137 (601)
T ss_pred cEEEEEeCCCCCCHHHHHHHHhhhccchhhhhhhcccccccccccccceEEEEEecC-----EEEEEeccCCCCceEEEE
Confidence 57899999999999999999988877776432 1235999999999998764 799999886545566666
Q ss_pred EEeeccCCCceeeeeccccCCCCCCCcEEEEEecCCcc--hhHHHHHHHHHHHHh
Q 008575 226 LDIDIHRNIPHVHLHEKRENKDRWHGAEIQVVIEGNWT--TYRSKILHYMRQMAV 278 (561)
Q Consensus 226 L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V~L~~n~~--~~r~~I~eyLrr~AI 278 (561)
...+ +.-. ++. .+.....+||+|++.+..+.. ....+|.+.+++++-
T Consensus 138 ~~~~---g~y~-i~~--~~~~~~~~GT~I~L~l~~d~~~~~~~~~i~~li~~ys~ 186 (601)
T PRK14083 138 GKAD---GTYS-VRK--LETERAEPGTTVYLRPRPDAEEWLERETVEELAKKYGS 186 (601)
T ss_pred ECCC---CceE-EEe--CCCCCCCCCCEEEEEecCchhhhccHHHHHHHHHHHhc
Confidence 4322 2122 221 111234699999999865431 123457777777643
No 34
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=99.17 E-value=8.6e-11 Score=133.13 Aligned_cols=109 Identities=18% Similarity=0.239 Sum_probs=88.3
Q ss_pred CCchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHH
Q 008575 44 PGKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQEL 123 (561)
Q Consensus 44 ~~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~ 123 (561)
++.-+.+++-||+|||+.|+... .+|+|.+...
T Consensus 772 D~~LieQVLiNLleNA~Kyap~~---s~I~I~~~~~-------------------------------------------- 804 (890)
T COG2205 772 DSPLIEQVLINLLENALKYAPPG---SEIRINAGVE-------------------------------------------- 804 (890)
T ss_pred CHHHHHHHHHHHHHHHHhhCCCC---CeEEEEEEEe--------------------------------------------
Confidence 35678999999999999999654 3588877665
Q ss_pred HHHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHH
Q 008575 124 QAKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKM 203 (561)
Q Consensus 124 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l 203 (561)
.+.+.|.|.|||+|||++++++||++||++.|... ..+-||||++|..+...
T Consensus 805 -------------------------~~~v~~~V~DeGpGIP~~~~~~IFD~F~r~~~~~~---~~G~GLGLsIc~~iv~a 856 (890)
T COG2205 805 -------------------------RENVVFSVIDEGPGIPEGELERIFDKFYRGNKESA---TRGVGLGLAICRGIVEA 856 (890)
T ss_pred -------------------------cceEEEEEEeCCCCCChhHHHHhhhhhhcCCCCCC---CCCccccHHHHHHHHHH
Confidence 46799999999999999999999999998888542 34459999999888876
Q ss_pred hCCccEEEEeeeCCCceEEEEEEEee
Q 008575 204 STGLPIEISSSMRSHNFISFCKLDID 229 (561)
Q Consensus 204 ~~Gg~I~V~Sk~~g~~~~~~~~L~id 229 (561)
+ ||+|++.+.. +.+.++.|.|..+
T Consensus 857 h-gG~I~a~~~~-~gGa~f~~~LP~~ 880 (890)
T COG2205 857 H-GGTISAENNP-GGGAIFVFTLPVE 880 (890)
T ss_pred c-CCeEEEEEcC-CCceEEEEEeecC
Confidence 5 7799999965 5566777777655
No 35
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=99.14 E-value=1.5e-10 Score=123.15 Aligned_cols=107 Identities=19% Similarity=0.233 Sum_probs=81.0
Q ss_pred CchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHH
Q 008575 45 GKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQ 124 (561)
Q Consensus 45 ~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~ 124 (561)
...|.+++.||++||++|+...+ .|.|++...
T Consensus 315 ~~~l~~vl~NLl~NAik~~~~~~---~I~i~~~~~--------------------------------------------- 346 (430)
T PRK11006 315 EDQLRSAISNLVYNAVNHTPEGT---HITVRWQRV--------------------------------------------- 346 (430)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCC---eEEEEEEEc---------------------------------------------
Confidence 35799999999999999986432 466666443
Q ss_pred HHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHh
Q 008575 125 AKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMS 204 (561)
Q Consensus 125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~ 204 (561)
.+.+.|+|.|||+||++++++++|++||++.+... ...++.|+||+++..+...+
T Consensus 347 ------------------------~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~-~~~~G~GLGL~ivk~iv~~~ 401 (430)
T PRK11006 347 ------------------------PQGAEFSVEDNGPGIAPEHIPRLTERFYRVDKARS-RQTGGSGLGLAIVKHALSHH 401 (430)
T ss_pred ------------------------CCEEEEEEEEcCCCCCHHHHHHhccCcccccCCCC-CCCCCCchHHHHHHHHHHHC
Confidence 35689999999999999999999999985544321 22356799999999888874
Q ss_pred CCccEEEEeeeCCCceEEEEEE
Q 008575 205 TGLPIEISSSMRSHNFISFCKL 226 (561)
Q Consensus 205 ~Gg~I~V~Sk~~g~~~~~~~~L 226 (561)
||.|++.|.. +.++.+.+.|
T Consensus 402 -gG~i~i~s~~-~~Gt~f~i~l 421 (430)
T PRK11006 402 -DSRLEIESEV-GKGTRFSFVL 421 (430)
T ss_pred -CCEEEEEecC-CCceEEEEEe
Confidence 7789999976 4455554444
No 36
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=99.13 E-value=2e-10 Score=125.69 Aligned_cols=105 Identities=21% Similarity=0.311 Sum_probs=83.3
Q ss_pred CchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHH
Q 008575 45 GKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQ 124 (561)
Q Consensus 45 ~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~ 124 (561)
...|.|++.||+|||+||+.....-.+|++++...
T Consensus 425 ~~~litIlGNLidNA~eA~~~~~~~k~I~l~i~~~--------------------------------------------- 459 (537)
T COG3290 425 PHDLVTILGNLIDNALEALLAPEENKEIELSLSDR--------------------------------------------- 459 (537)
T ss_pred hHHHHHHHHHHHHHHHHHhhccCCCcEEEEEEEec---------------------------------------------
Confidence 46899999999999999997422224688888765
Q ss_pred HHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHh
Q 008575 125 AKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMS 204 (561)
Q Consensus 125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~ 204 (561)
.+.+.|+|.|||||||++..+.+|++.+ +||. .+.+|+||+++..+...
T Consensus 460 ------------------------~~~lvieV~D~G~GI~~~~~~~iFe~G~-Stk~-----~~~rGiGL~Lvkq~V~~- 508 (537)
T COG3290 460 ------------------------GDELVIEVADTGPGIPPEVRDKIFEKGV-STKN-----TGGRGIGLYLVKQLVER- 508 (537)
T ss_pred ------------------------CCEEEEEEeCCCCCCChHHHHHHHhcCc-cccC-----CCCCchhHHHHHHHHHH-
Confidence 5789999999999999999999999986 6763 35579999999988764
Q ss_pred CCccEEEEeeeCCCceEEEEEEEe
Q 008575 205 TGLPIEISSSMRSHNFISFCKLDI 228 (561)
Q Consensus 205 ~Gg~I~V~Sk~~g~~~~~~~~L~i 228 (561)
.||.|++.|.. +.++. |.+.+
T Consensus 509 ~~G~I~~~s~~-~~Gt~--F~i~i 529 (537)
T COG3290 509 LGGSIEVESEK-GQGTR--FSIYI 529 (537)
T ss_pred cCceEEEeeCC-CCceE--EEEEC
Confidence 47899999974 45444 45544
No 37
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=99.10 E-value=5.1e-10 Score=122.02 Aligned_cols=73 Identities=15% Similarity=0.211 Sum_probs=56.8
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEE
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLD 227 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~ 227 (561)
.+.+.|+|+|||+|||+++++++|++|| ++|.. ..|+.|+||+++..++..+ ||.|+|.|.. +.++.+.+.|+
T Consensus 466 ~~~~~i~V~D~G~Gi~~~~~~~iF~~~~-~tk~~---~~~g~GlGL~ivk~iv~~~-~G~i~v~s~~-~~Gt~f~i~lP 538 (545)
T PRK15053 466 GDDVVIEVADQGCGVPESLRDKIFEQGV-STRAD---EPGEHGIGLYLIASYVTRC-GGVITLEDND-PCGTLFSIFIP 538 (545)
T ss_pred CCEEEEEEEeCCCCcCHHHHHHHhCCCC-CCCCC---CCCCceeCHHHHHHHHHHc-CCEEEEEECC-CCeEEEEEEEC
Confidence 3578999999999999999999999997 55522 2356799999999988874 6789999986 55555544443
No 38
>PRK10364 sensor protein ZraS; Provisional
Probab=99.10 E-value=3.6e-10 Score=121.03 Aligned_cols=101 Identities=21% Similarity=0.265 Sum_probs=79.1
Q ss_pred chHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHH
Q 008575 46 KSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQA 125 (561)
Q Consensus 46 k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~~ 125 (561)
..|.+++.||++||++|+...+ .|.|++...
T Consensus 347 ~~l~~il~NLl~NA~k~~~~~~---~I~i~~~~~---------------------------------------------- 377 (457)
T PRK10364 347 DRLTQVLLNLYLNAIQAIGQHG---VISVTASES---------------------------------------------- 377 (457)
T ss_pred HHHHHHHHHHHHHHHHhcCCCC---eEEEEEEEe----------------------------------------------
Confidence 4699999999999999985533 577777654
Q ss_pred HHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhC
Q 008575 126 KNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMST 205 (561)
Q Consensus 126 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~ 205 (561)
.+.+.|+|+|||+||+++.++++|++|+ ++| .++.|+||+++..+...+
T Consensus 378 -----------------------~~~~~i~V~D~G~Gi~~~~~~~if~~~~-~~k------~~g~GlGL~iv~~~v~~~- 426 (457)
T PRK10364 378 -----------------------GAGVKISVTDSGKGIAADQLEAIFTPYF-TTK------AEGTGLGLAVVHNIVEQH- 426 (457)
T ss_pred -----------------------CCeEEEEEEECCCCCCHHHHHHHhCccc-cCC------CCCCcccHHHHHHHHHHC-
Confidence 3558999999999999999999999986 444 134699999999998875
Q ss_pred CccEEEEeeeCCCceEEEEEEE
Q 008575 206 GLPIEISSSMRSHNFISFCKLD 227 (561)
Q Consensus 206 Gg~I~V~Sk~~g~~~~~~~~L~ 227 (561)
||.+++.|.+ +.+..+.+.|+
T Consensus 427 gG~i~i~s~~-~~Gt~f~i~lP 447 (457)
T PRK10364 427 GGTIQVASQE-GKGATFTLWLP 447 (457)
T ss_pred CCEEEEEeCC-CCcEEEEEEec
Confidence 7789998876 44444444443
No 39
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=99.09 E-value=5.3e-10 Score=120.58 Aligned_cols=103 Identities=19% Similarity=0.285 Sum_probs=79.4
Q ss_pred hHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHH
Q 008575 47 SLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQAK 126 (561)
Q Consensus 47 ~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~~~ 126 (561)
.|.+++.||++||++|+.... -..|.|++...
T Consensus 433 ~l~~vl~nLl~NAi~~~~~~~-~~~I~i~~~~~----------------------------------------------- 464 (542)
T PRK11086 433 ELITILGNLIENALEAVGGEE-GGEISVSLHYR----------------------------------------------- 464 (542)
T ss_pred HHHHHHHHHHHHHHHHhhcCC-CcEEEEEEEEc-----------------------------------------------
Confidence 588999999999999986432 23577766543
Q ss_pred HhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCC
Q 008575 127 NAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTG 206 (561)
Q Consensus 127 ~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~G 206 (561)
++.+.|+|+|||+||++++++++|++++ ++| .++.|+||+++..+...+ |
T Consensus 465 ----------------------~~~~~i~V~D~G~gi~~~~~~~iF~~~~-~~~------~~g~GlGL~iv~~iv~~~-~ 514 (542)
T PRK11086 465 ----------------------NGWLHCEVSDDGPGIAPDEIDAIFDKGY-STK------GSNRGVGLYLVKQSVENL-G 514 (542)
T ss_pred ----------------------CCEEEEEEEECCCCCCHHHHHHHHhCCC-ccC------CCCCcCcHHHHHHHHHHc-C
Confidence 4578999999999999999999999986 444 134699999999988764 7
Q ss_pred ccEEEEeeeCCCceEEEEEEEe
Q 008575 207 LPIEISSSMRSHNFISFCKLDI 228 (561)
Q Consensus 207 g~I~V~Sk~~g~~~~~~~~L~i 228 (561)
|.|++.|.. +.+..+.+.|+.
T Consensus 515 G~i~v~s~~-~~G~~f~i~lP~ 535 (542)
T PRK11086 515 GSIAVESEP-GVGTQFFVQIPW 535 (542)
T ss_pred CEEEEEeCC-CCcEEEEEEEeC
Confidence 789999975 555555555544
No 40
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=99.08 E-value=3.9e-10 Score=116.39 Aligned_cols=101 Identities=15% Similarity=0.160 Sum_probs=78.1
Q ss_pred CCchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHH
Q 008575 44 PGKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQEL 123 (561)
Q Consensus 44 ~~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~ 123 (561)
+...|..++.|||+||++|+...+ .|.|++...
T Consensus 244 d~~~l~~il~nLi~NA~k~~~~~~---~I~I~~~~~-------------------------------------------- 276 (356)
T PRK10755 244 DATLLRLLLRNLVENAHRYSPEGS---TITIKLSQE-------------------------------------------- 276 (356)
T ss_pred CHHHHHHHHHHHHHHHHhhCCCCC---cEEEEEEEc--------------------------------------------
Confidence 345788999999999999985433 477777543
Q ss_pred HHHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHH
Q 008575 124 QAKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKM 203 (561)
Q Consensus 124 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l 203 (561)
++.+.|+|+|||+||++++++++|++|+..+. ..++.|+||+++..+...
T Consensus 277 -------------------------~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~-----~~~g~GlGL~i~~~i~~~ 326 (356)
T PRK10755 277 -------------------------DGGAVLAVEDEGPGIDESKCGELSKAFVRMDS-----RYGGIGLGLSIVSRITQL 326 (356)
T ss_pred -------------------------CCEEEEEEEECCCCCCHHHHHHhCCCeEeCCC-----CCCCcCHHHHHHHHHHHH
Confidence 35689999999999999999999999874321 234679999999998887
Q ss_pred hCCccEEEEeeeCCCceEE
Q 008575 204 STGLPIEISSSMRSHNFIS 222 (561)
Q Consensus 204 ~~Gg~I~V~Sk~~g~~~~~ 222 (561)
+ ||.+++.|...+.+..+
T Consensus 327 ~-gg~i~i~s~~~~~Gt~~ 344 (356)
T PRK10755 327 H-HGQFFLQNRQERSGTRA 344 (356)
T ss_pred C-CCEEEEEECCCCCeEEE
Confidence 4 77899999874244333
No 41
>PRK10604 sensor protein RstB; Provisional
Probab=99.07 E-value=6.3e-10 Score=119.14 Aligned_cols=76 Identities=14% Similarity=0.142 Sum_probs=57.5
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEE
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLD 227 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~ 227 (561)
.+.+.|+|+|||+||++++++++|++|++++..+. ...++.|+||+++..++..+ ||.+++.|.+ +.+..+.+.++
T Consensus 347 ~~~~~I~V~D~G~Gi~~e~~~~if~~f~r~~~~~~-~~~~g~GLGL~ivk~i~~~~-gG~i~v~s~~-~~G~~f~i~lP 422 (433)
T PRK10604 347 GNQACLIVEDDGPGIPPEERERVFEPFVRLDPSRD-RATGGCGLGLAIVHSIALAM-GGSVNCDESE-LGGARFSFSWP 422 (433)
T ss_pred CCEEEEEEEEcCCCCCHHHHhhcCCCCccCCCCCC-CCCCCccchHHHHHHHHHHC-CCEEEEEecC-CCeeEEEEEEe
Confidence 35689999999999999999999999986554322 23456899999999888764 7789999885 44444444443
No 42
>PTZ00130 heat shock protein 90; Provisional
Probab=99.06 E-value=5.1e-10 Score=128.26 Aligned_cols=120 Identities=15% Similarity=0.208 Sum_probs=79.6
Q ss_pred eeEEEEEeCCCCCCcCChhhhhcccccccccc----------cccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCce
Q 008575 151 FYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYG----------LKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNF 220 (561)
Q Consensus 151 ~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~----------~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~ 220 (561)
...|+|+|||+||+.+++..-++.+.++++.. ...-.|+||+|+.++++++. .|.|.|+..+ ..
T Consensus 134 ~~tLtI~DnGIGMT~eEl~~nLgTIA~Sgt~~F~~~l~~~~~~~~lIGQFGVGFYSaFmVAd-----kV~V~Trs~~-~~ 207 (814)
T PTZ00130 134 KNILSITDTGIGMTKEDLINNLGTIAKSGTSNFLEAISKSGGDMSLIGQFGVGFYSAFLVAD-----KVIVYTKNNN-DE 207 (814)
T ss_pred CCEEEEEECCCCCCHHHHHHHhhhhcccccHHHHHHhhccCCCcccccccccchhheeeecC-----EEEEEEcCCC-Cc
Confidence 34789999999999999998888876543211 11346999999999998874 7999999755 34
Q ss_pred EEEEEEEeeccCCCceeeeeccccCCCCCCCcEEEEEecCCcc--hhHHHHHHHHHHHHhhCC
Q 008575 221 ISFCKLDIDIHRNIPHVHLHEKRENKDRWHGAEIQVVIEGNWT--TYRSKILHYMRQMAVITP 281 (561)
Q Consensus 221 ~~~~~L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V~L~~n~~--~~r~~I~eyLrr~AIvnP 281 (561)
+|.|+-.-+ +.-. +..... .....+||+|++.|..+.. ....+|.+.+++++-.-|
T Consensus 208 ~~~W~s~g~---g~y~-I~e~~~-~~~~~rGT~I~LhLked~~efl~~~~ik~likkYS~fI~ 265 (814)
T PTZ00130 208 QYIWESTAD---AKFT-IYKDPR-GSTLKRGTRISLHLKEDATNLMNDKKLVDLISKYSQFIQ 265 (814)
T ss_pred eEEEEECCC---CcEE-EEECCC-CCCCCCCcEEEEEECCchhhhccHHHHHHHHHHhhccCC
Confidence 566764211 2122 222111 1123699999999876532 133568888888864433
No 43
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional
Probab=99.06 E-value=6.8e-10 Score=117.91 Aligned_cols=107 Identities=21% Similarity=0.239 Sum_probs=81.5
Q ss_pred CchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHH
Q 008575 45 GKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQ 124 (561)
Q Consensus 45 ~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~ 124 (561)
...|.+++.|||+||+.++.+.+ .|.|.+...
T Consensus 350 ~~~l~qvl~nll~NAi~~~~~~~---~I~i~~~~~--------------------------------------------- 381 (466)
T PRK10549 350 PDRLMQLFNNLLENSLRYTDSGG---SLHISAEQR--------------------------------------------- 381 (466)
T ss_pred HHHHHHHHHHHHHHHHHhCCCCC---EEEEEEEEc---------------------------------------------
Confidence 34689999999999999986543 477777553
Q ss_pred HHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHh
Q 008575 125 AKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMS 204 (561)
Q Consensus 125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~ 204 (561)
.+.+.|+|.|||+||++++++++|++||.+...+. ...++.|+||+++..+...+
T Consensus 382 ------------------------~~~~~i~V~D~G~Gi~~e~~~~lf~~~~~~~~~~~-~~~~g~GlGL~iv~~i~~~~ 436 (466)
T PRK10549 382 ------------------------DKTLRLTFADSAPGVSDEQLQKLFERFYRTEGSRN-RASGGSGLGLAICLNIVEAH 436 (466)
T ss_pred ------------------------CCEEEEEEEecCCCcCHHHHHHhccCcccCCCCcC-CCCCCCcHHHHHHHHHHHHc
Confidence 35689999999999999999999999985543221 23456799999999988875
Q ss_pred CCccEEEEeeeCCCceEEEEEE
Q 008575 205 TGLPIEISSSMRSHNFISFCKL 226 (561)
Q Consensus 205 ~Gg~I~V~Sk~~g~~~~~~~~L 226 (561)
||.+++.|.. +.+..+.+.|
T Consensus 437 -~G~l~~~s~~-~~G~~~~i~l 456 (466)
T PRK10549 437 -NGRIIAAHSP-FGGVSITVEL 456 (466)
T ss_pred -CCEEEEEECC-CCeEEEEEEc
Confidence 6789999976 4444444443
No 44
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=99.04 E-value=2e-09 Score=123.04 Aligned_cols=78 Identities=14% Similarity=0.213 Sum_probs=59.7
Q ss_pred CeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEee
Q 008575 150 SFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDID 229 (561)
Q Consensus 150 ~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id 229 (561)
+.+.|+|.|||+|||+++++++|++||++.........++.|+||+++..+... .||.|+|.|.+ |.++.+.+.|+..
T Consensus 429 ~~~~i~V~D~G~Gi~~~~~~~iF~~f~~~~~~~~~~~~~GtGLGL~i~~~iv~~-~gG~i~v~s~~-g~Gt~f~i~lP~~ 506 (779)
T PRK11091 429 DMLTFEVEDSGIGIPEDELDKIFAMYYQVKDSHGGKPATGTGIGLAVSKRLAQA-MGGDITVTSEE-GKGSCFTLTIHAP 506 (779)
T ss_pred CEEEEEEEecCCCCCHHHHHHHHHHhhcccCCCCCCCCCCcchHHHHHHHHHHH-cCCEEEEEecC-CCeEEEEEEEecc
Confidence 458999999999999999999999997442221112245679999999998876 47899999986 5666666666654
No 45
>PLN03237 DNA topoisomerase 2; Provisional
Probab=99.03 E-value=3.1e-09 Score=127.46 Aligned_cols=163 Identities=17% Similarity=0.222 Sum_probs=108.5
Q ss_pred chHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHH
Q 008575 46 KSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQA 125 (561)
Q Consensus 46 k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~~ 125 (561)
..||.++.|+|+||.|-+-..|..-.|.|+|...
T Consensus 76 pGL~kifdEIldNAvDe~~r~g~~~~I~V~I~~~---------------------------------------------- 109 (1465)
T PLN03237 76 PGLYKIFDEILVNAADNKQRDPKMDSLRVVIDVE---------------------------------------------- 109 (1465)
T ss_pred chhhhhHHHHhhhhHhHHhhcCCCCEEEEEEEcC----------------------------------------------
Confidence 6899999999999999885556566798888532
Q ss_pred HHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChh--------hhhcccccccccc---cccCCCcceeeh
Q 008575 126 KNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIP--------NMFGRVLSGTKYG---LKQTRGKFGLGA 194 (561)
Q Consensus 126 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~--------~iF~r~~~tSK~~---~~~s~G~~GlGL 194 (561)
...|+|.|||.|||-+..+ .||+.+++|+||. .+.+.|.+|+|.
T Consensus 110 -------------------------~gsIsV~DnGRGIPV~iH~~eg~~~pElIft~LhAGgkFdd~~yKvSGGlhGVGa 164 (1465)
T PLN03237 110 -------------------------QNLISVYNNGDGVPVEIHQEEGVYVPEMIFGHLLTSSNYDDNEKKTTGGRNGYGA 164 (1465)
T ss_pred -------------------------CCEEEEEecCccccCCCCCCCCCccceEEEEeeeccccCCCCcceeeccccccCc
Confidence 1369999999999976443 4899999999994 345788899999
Q ss_pred HhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEeeccCCCceeeeeccccCCCCCCCcEEEEEecCC-cc---hhHHHH-
Q 008575 195 KMALIWSKMSTGLPIEISSSMRSHNFISFCKLDIDIHRNIPHVHLHEKRENKDRWHGAEIQVVIEGN-WT---TYRSKI- 269 (561)
Q Consensus 195 ~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V~L~~n-~~---~~r~~I- 269 (561)
+++..+|. .+.|.+.....+..|... +..|.+....+.........+||+|++..... |. .....+
T Consensus 165 svvNaLS~-----~f~Vev~Dg~~gk~y~Q~----f~~nmG~~~~p~i~~~~~~~~GT~VtF~PD~eiF~~~~fd~D~l~ 235 (1465)
T PLN03237 165 KLTNIFST-----EFVIETADGKRQKKYKQV----FSNNMGKKSEPVITKCKKSENWTKVTFKPDLAKFNMTHLEDDVVA 235 (1465)
T ss_pred cccccccC-----eeEEEEEECCCCeEEEEE----EeCCCCccCCceeccCCCCCCceEEEEEECHHHhCCceEcHHHHH
Confidence 99999986 467777632223334322 23433332222111111235999999983321 11 111223
Q ss_pred --HHHHHHHH-hhCCCcEEEEE
Q 008575 270 --LHYMRQMA-VITPYAQFLFK 288 (561)
Q Consensus 270 --~eyLrr~A-IvnP~a~~~l~ 288 (561)
...++.+| ..||.++|.|.
T Consensus 236 ~~~rRlrdLAa~LnkGlkI~Ln 257 (1465)
T PLN03237 236 LMKKRVVDIAGCLGKTVKVELN 257 (1465)
T ss_pred HHHHHHHHHHhccCCCcEEEEE
Confidence 34455556 88999999986
No 46
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=99.03 E-value=1.8e-09 Score=126.62 Aligned_cols=115 Identities=12% Similarity=0.053 Sum_probs=75.3
Q ss_pred CeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEee
Q 008575 150 SFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDID 229 (561)
Q Consensus 150 ~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id 229 (561)
+.+.|+|.|||+||++++++++|++|+ +++... ...++.||||+++..++..+ ||.|+|.|.+ |.++.+.+.|++.
T Consensus 598 ~~l~I~V~DtG~GI~~e~l~~IFePF~-t~~~~~-~~~~GtGLGLaI~k~Lve~~-GG~I~v~S~~-g~GT~F~I~LPl~ 673 (894)
T PRK10618 598 DRLTIRILDTGAGVSIKELDNLHFPFL-NQTQGD-RYGKASGLTFFLCNQLCRKL-GGHLTIKSRE-GLGTRYSIHLKML 673 (894)
T ss_pred cEEEEEEEECCCCCCHHHHHHhcCccc-cCCCCC-CCCCCcChhHHHHHHHHHHc-CCEEEEEECC-CCcEEEEEEEEcc
Confidence 578999999999999999999999997 444321 12346799999999988874 7899999987 6667777777653
Q ss_pred ccCCCceeeeeccccCCCCCCCcEEEEEecCCcchhHHHHHHHHHHH
Q 008575 230 IHRNIPHVHLHEKRENKDRWHGAEIQVVIEGNWTTYRSKILHYMRQM 276 (561)
Q Consensus 230 ~~kN~p~Il~~e~~~~~~~~~GT~V~V~L~~n~~~~r~~I~eyLrr~ 276 (561)
...... .. . ......|.+|-|. ++-..-+..+..+|.+.
T Consensus 674 ~~~~~~--~~--~--~~~~l~g~~vLlv--dD~~~~r~~l~~~L~~~ 712 (894)
T PRK10618 674 AADPEV--EE--E--EEKLLDGVTVLLD--ITSEEVRKIVTRQLENW 712 (894)
T ss_pred CCcccc--cc--c--ccccCCCCEEEEE--eCCHHHHHHHHHHHHHC
Confidence 211110 00 0 1123468777766 23222334445555543
No 47
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=99.01 E-value=3e-09 Score=127.77 Aligned_cols=162 Identities=16% Similarity=0.217 Sum_probs=112.9
Q ss_pred chHHHHHHHHHHcHHHHHhh---cCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHH
Q 008575 46 KSLYTTVRELVENSLDSAES---ISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQE 122 (561)
Q Consensus 46 k~L~t~irelVeNslDa~e~---~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~ 122 (561)
..||.++.|+|+||.|-+-. .+..-.|.|+|...
T Consensus 56 pGL~ki~dEIldNAvDe~~r~~~~g~~~~I~V~i~~d------------------------------------------- 92 (1388)
T PTZ00108 56 PGLYKIFDEILVNAADNKARDKGGHRMTYIKVTIDEE------------------------------------------- 92 (1388)
T ss_pred chhhhhHHHHhhhhhhhhcccCCCCCccEEEEEEecc-------------------------------------------
Confidence 48999999999999998752 34455788888543
Q ss_pred HHHHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChh--------hhhcccccccccc---cccCCCcce
Q 008575 123 LQAKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIP--------NMFGRVLSGTKYG---LKQTRGKFG 191 (561)
Q Consensus 123 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~--------~iF~r~~~tSK~~---~~~s~G~~G 191 (561)
...|+|.|||.|||-+..+ .||+.+++|+||. .+.+.|.+|
T Consensus 93 ----------------------------~g~IsV~dnGrGIPv~~h~~~~~~~pElIft~L~aGgkfdd~~yKvSGGlhG 144 (1388)
T PTZ00108 93 ----------------------------NGEISVYNDGEGIPVQIHKEHKIYVPEMIFGHLLTSSNYDDTEKRVTGGRNG 144 (1388)
T ss_pred ----------------------------CCeEEEEecCCcccCCCCCCCCCccceEEEEEeeccccCCCCceeeeccccc
Confidence 2369999999999976543 4899999999993 345778899
Q ss_pred eehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEeeccCCCceeeeeccccCCCC-CCCcEEEEEecCC------cch
Q 008575 192 LGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDIDIHRNIPHVHLHEKRENKDR-WHGAEIQVVIEGN------WTT 264 (561)
Q Consensus 192 lGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id~~kN~p~Il~~e~~~~~~~-~~GT~V~V~L~~n------~~~ 264 (561)
+|.+++..+|. .+.|++.....+..|... +..|......+ ....... .+||+|++..... |..
T Consensus 145 VGasvvNalS~-----~f~Vev~r~~~gk~y~q~----f~~Gm~~~~~p-~i~~~~~~~~GT~VtF~PD~~iF~~~~fd~ 214 (1388)
T PTZ00108 145 FGAKLTNIFST-----KFTVECVDSKSGKKFKMT----WTDNMSKKSEP-RITSYDGKKDYTKVTFYPDYAKFGMTEFDD 214 (1388)
T ss_pred CCccccccccc-----eEEEEEEECCCCCEEEEE----ecCCCcCCCCC-ccCCCCCCCCceEEEEEeCHHHcCCCccCh
Confidence 99999999986 578888875223334333 33443222222 1111112 5899999994321 211
Q ss_pred h-HHHHHHHHHHHHhhCCCcEEEEE
Q 008575 265 Y-RSKILHYMRQMAVITPYAQFLFK 288 (561)
Q Consensus 265 ~-r~~I~eyLrr~AIvnP~a~~~l~ 288 (561)
. ...+...++.+|..||.++|.|.
T Consensus 215 d~~~ll~~Rl~dlA~ln~GLkI~ln 239 (1388)
T PTZ00108 215 DMLRLLKKRVYDLAGCFGKLKVYLN 239 (1388)
T ss_pred HHHHHHHHHHHHHhcCCCCcEEEEe
Confidence 1 12388899999999999998886
No 48
>PRK13837 two-component VirA-like sensor kinase; Provisional
Probab=99.00 E-value=4.5e-09 Score=121.84 Aligned_cols=71 Identities=18% Similarity=0.232 Sum_probs=57.3
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEe
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDI 228 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~i 228 (561)
.+++.|+|+|||+||+++.++++|++|| +++. ++.|+||+++..+...+ ||.|+|.|.+ +.++.+.+.|+.
T Consensus 605 ~~~v~i~V~D~G~GI~~e~~~~iFe~F~-~~~~------~G~GLGL~i~~~iv~~~-gG~i~v~s~~-g~Gt~f~i~LP~ 675 (828)
T PRK13837 605 GRYVLLRVSDTGAGIDEAVLPHIFEPFF-TTRA------GGTGLGLATVHGIVSAH-AGYIDVQSTV-GRGTRFDVYLPP 675 (828)
T ss_pred CCEEEEEEEECCCCCCHHHHHHhhCCcc-cCCC------CCCcchHHHHHHHHHHC-CCEEEEEecC-CCeEEEEEEEeC
Confidence 4678999999999999999999999997 4431 56799999999888864 7899999986 555566666554
No 49
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=98.99 E-value=1.3e-09 Score=125.97 Aligned_cols=104 Identities=17% Similarity=0.199 Sum_probs=81.8
Q ss_pred CchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHH
Q 008575 45 GKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQ 124 (561)
Q Consensus 45 ~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~ 124 (561)
...|.+++.|||+||++|++. | .|.|++...
T Consensus 511 ~~~l~~il~NLl~NAik~~~~-g---~I~i~~~~~--------------------------------------------- 541 (921)
T PRK15347 511 SLRLRQILVNLLGNAVKFTET-G---GIRLRVKRH--------------------------------------------- 541 (921)
T ss_pred HHHHHHHHHHHHHHHhhcCCC-C---CEEEEEEEc---------------------------------------------
Confidence 456999999999999999854 3 377776543
Q ss_pred HHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHh
Q 008575 125 AKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMS 204 (561)
Q Consensus 125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~ 204 (561)
.+.+.|+|+|||+||++++++++|++|+. ++ ...++.||||+++..+...+
T Consensus 542 ------------------------~~~~~i~V~D~G~Gi~~~~~~~if~~f~~-~~----~~~~g~GLGL~i~~~~~~~~ 592 (921)
T PRK15347 542 ------------------------EQQLCFTVEDTGCGIDIQQQQQIFTPFYQ-AD----THSQGTGLGLTIASSLAKMM 592 (921)
T ss_pred ------------------------CCEEEEEEEEcCCCCCHHHHHHHhcCccc-CC----CCCCCCchHHHHHHHHHHHc
Confidence 35789999999999999999999999973 33 23456899999999998875
Q ss_pred CCccEEEEeeeCCCceEEEEEEEe
Q 008575 205 TGLPIEISSSMRSHNFISFCKLDI 228 (561)
Q Consensus 205 ~Gg~I~V~Sk~~g~~~~~~~~L~i 228 (561)
||.|+|.|.. |.++.+.+.|++
T Consensus 593 -gG~i~i~s~~-~~Gt~f~i~lp~ 614 (921)
T PRK15347 593 -GGELTLFSTP-GVGSCFSLVLPL 614 (921)
T ss_pred -CCEEEEEecC-CCceEEEEEEEC
Confidence 6789999976 556666666654
No 50
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=98.98 E-value=4.9e-09 Score=120.93 Aligned_cols=116 Identities=16% Similarity=0.182 Sum_probs=76.0
Q ss_pred CeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEee
Q 008575 150 SFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDID 229 (561)
Q Consensus 150 ~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id 229 (561)
..+.|+|.|||+||++++++++|++|+.+.+... ...|+.|+||+++..+...+ ||.|+|.|.. +.++.+.+.|++.
T Consensus 443 ~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~-~~~~g~GLGL~i~~~i~~~~-gG~i~v~s~~-~~Gt~f~i~lp~~ 519 (919)
T PRK11107 443 VQLEVQIRDTGIGISERQQSQLFQAFRQADASIS-RRHGGTGLGLVITQKLVNEM-GGDISFHSQP-NRGSTFWFHLPLD 519 (919)
T ss_pred eEEEEEEEEeCCCcCHHHHHHHhhhhccCCCCCC-CCCCCcchhHHHHHHHHHHh-CCEEEEEecC-CCCEEEEEEEEec
Confidence 3688999999999999999999999975544321 22356899999999888874 7789999986 5566677777664
Q ss_pred ccCCCceeeeeccccCCCCCCCcEEEEEecCCcchhHHHHHHHHHH
Q 008575 230 IHRNIPHVHLHEKRENKDRWHGAEIQVVIEGNWTTYRSKILHYMRQ 275 (561)
Q Consensus 230 ~~kN~p~Il~~e~~~~~~~~~GT~V~V~L~~n~~~~r~~I~eyLrr 275 (561)
...... .. . .......|-+|.+. ++-...+..+..++..
T Consensus 520 ~~~~~~---~~-~-~~~~~~~g~~ili~--d~~~~~~~~l~~~L~~ 558 (919)
T PRK11107 520 LNPNPI---ID-G-LPTDCLAGKRLLYV--EPNSAAAQATLDILSE 558 (919)
T ss_pred cCCccc---cc-c-CCccccCCCeEEEE--eCCHHHHHHHHHHHHH
Confidence 322111 10 1 11133567666654 3333344445555554
No 51
>COG0642 BaeS Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=98.98 E-value=2.4e-09 Score=104.58 Aligned_cols=101 Identities=18% Similarity=0.305 Sum_probs=77.0
Q ss_pred chHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHH
Q 008575 46 KSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQA 125 (561)
Q Consensus 46 k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~~ 125 (561)
..|-+++.||++||++|+. -+.|.|.+...
T Consensus 227 ~~l~~vl~nLi~NAi~~~~----~~~i~i~~~~~---------------------------------------------- 256 (336)
T COG0642 227 ERLRQVLVNLLSNAIKYTP----GGEITISVRQD---------------------------------------------- 256 (336)
T ss_pred HHHHHHHHHHHHHHhccCC----CCeEEEEEEec----------------------------------------------
Confidence 5688899999999999997 36788888665
Q ss_pred HHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhC
Q 008575 126 KNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMST 205 (561)
Q Consensus 126 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~ 205 (561)
.+++.|+|.|||+||+++.++++|++++ +++.. +.+.|+||+++..+...+
T Consensus 257 -----------------------~~~i~i~V~D~G~Gi~~~~~~~if~~~~-~~~~~----~~g~GlGL~i~~~~~~~~- 307 (336)
T COG0642 257 -----------------------DEQVTISVEDTGPGIPEEELERIFEPFF-RTDKS----RSGTGLGLAIVKRIVELH- 307 (336)
T ss_pred -----------------------CCeEEEEEEcCCCCCCHHHHHHhccCee-ccCCC----CCCCCccHHHHHHHHHHc-
Confidence 2368999999999999999999999997 44422 115699999999855554
Q ss_pred CccEEEEeeeCCCceEEEEEE
Q 008575 206 GLPIEISSSMRSHNFISFCKL 226 (561)
Q Consensus 206 Gg~I~V~Sk~~g~~~~~~~~L 226 (561)
||.+.+.|.+ +.++.+.+.+
T Consensus 308 ~g~i~~~~~~-~~Gt~~~i~l 327 (336)
T COG0642 308 GGTISVESEP-GKGTTFTIRL 327 (336)
T ss_pred CCEEEEEecC-CCceEEEEEE
Confidence 6669998886 3334444443
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=98.98 E-value=2e-09 Score=113.22 Aligned_cols=100 Identities=17% Similarity=0.243 Sum_probs=76.7
Q ss_pred CchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHH
Q 008575 45 GKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQ 124 (561)
Q Consensus 45 ~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~ 124 (561)
...|..++.||++||++|+.+.+ .|.|.+...
T Consensus 351 ~~~l~~~~~nll~Nai~~~~~~~---~I~i~~~~~--------------------------------------------- 382 (457)
T TIGR01386 351 PQMFRRAISNLLSNALRHTPDGG---TITVRIERR--------------------------------------------- 382 (457)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCc---eEEEEEEec---------------------------------------------
Confidence 45689999999999999985533 477766543
Q ss_pred HHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHh
Q 008575 125 AKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMS 204 (561)
Q Consensus 125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~ 204 (561)
.+.+.|+|.|||+|||++.+.++|.+||++.+.+. ...++.|+||+++.-....+
T Consensus 383 ------------------------~~~~~i~v~D~G~g~~~~~~~~~~~~~~~~~~~~~-~~~~g~GlGL~i~~~~~~~~ 437 (457)
T TIGR01386 383 ------------------------SDEVRVSVSNPGPGIPPEHLSRLFDRFYRVDPARS-NSGEGTGLGLAIVRSIMEAH 437 (457)
T ss_pred ------------------------CCEEEEEEEeCCCCCCHHHHHHhccccccCCcccC-CCCCCccccHHHHHHHHHHC
Confidence 35689999999999999999999999975443221 22456799999999888775
Q ss_pred CCccEEEEeeeCCCce
Q 008575 205 TGLPIEISSSMRSHNF 220 (561)
Q Consensus 205 ~Gg~I~V~Sk~~g~~~ 220 (561)
||.+++.+ + +.+.
T Consensus 438 -~G~~~~~~-~-~~G~ 450 (457)
T TIGR01386 438 -GGRASAES-P-DGKT 450 (457)
T ss_pred -CCEEEEEe-C-CCce
Confidence 77899988 4 4443
No 53
>PRK10815 sensor protein PhoQ; Provisional
Probab=98.97 E-value=2.2e-09 Score=117.47 Aligned_cols=68 Identities=19% Similarity=0.179 Sum_probs=53.5
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEE
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISF 223 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~ 223 (561)
++.+.|+|+|||+||++++++++|++|+.++. ..++.|+||+++..+...+ ||.|.+.|.+ +.++.+.
T Consensus 406 ~~~v~I~V~D~G~GI~~e~~~~iF~~f~~~~~-----~~~G~GLGL~Ivk~iv~~~-gG~i~v~s~~-~~Gt~f~ 473 (485)
T PRK10815 406 DEHLHIVVEDDGPGIPESKRELIFDRGQRADT-----LRPGQGLGLSVAREITEQY-EGKISAGDSP-LGGARME 473 (485)
T ss_pred CCEEEEEEEECCCCcCHHHHHHHhCCcccCCC-----CCCCcchhHHHHHHHHHHc-CCEEEEEECC-CCEEEEE
Confidence 35689999999999999999999999874432 2346799999999988874 7789999886 3343333
No 54
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=98.94 E-value=7.5e-09 Score=119.95 Aligned_cols=74 Identities=18% Similarity=0.272 Sum_probs=58.9
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEe
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDI 228 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~i 228 (561)
.+.+.|.|.|||+||+++.++++|++|+.++. ..++.|+||+++..+...+ ||.|+|.|.+ +.++.+.+.|++
T Consensus 590 ~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~-----~~~g~GLGL~i~~~l~~~~-gG~i~v~s~~-~~Gt~f~i~lP~ 662 (914)
T PRK11466 590 GEQWLVEVEDSGCGIDPAKLAEIFQPFVQVSG-----KRGGTGLGLTISSRLAQAM-GGELSATSTP-EVGSCFCLRLPL 662 (914)
T ss_pred CCEEEEEEEECCCCCCHHHHHHHhchhhcCCC-----CCCCCcccHHHHHHHHHHc-CCEEEEEecC-CCCeEEEEEEEc
Confidence 35688999999999999999999999974322 2456899999999998874 7789999986 555666666665
Q ss_pred e
Q 008575 229 D 229 (561)
Q Consensus 229 d 229 (561)
.
T Consensus 663 ~ 663 (914)
T PRK11466 663 R 663 (914)
T ss_pred c
Confidence 4
No 55
>PRK09470 cpxA two-component sensor protein; Provisional
Probab=98.94 E-value=3e-09 Score=112.47 Aligned_cols=72 Identities=15% Similarity=0.137 Sum_probs=54.6
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEE
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISF 223 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~ 223 (561)
++.+.|+|+|||+||++++++++|++||.++.... ...++.|+||+++......+ ||.+.+.|.+ +.++.+.
T Consensus 381 ~~~~~i~V~D~G~Gi~~~~~~~if~~~~~~~~~~~-~~~~g~GlGL~iv~~~v~~~-~G~l~~~s~~-~~Gt~~~ 452 (461)
T PRK09470 381 KDGLTITVDDDGPGVPEEEREQIFRPFYRVDEARD-RESGGTGLGLAIVENAIQQH-RGWVKAEDSP-LGGLRLT 452 (461)
T ss_pred CCEEEEEEEECCCCCCHHHHHHhcCCCccCCcccC-CCCCCcchhHHHHHHHHHHC-CCEEEEEECC-CCeEEEE
Confidence 35688999999999999999999999986554322 22356799999999888774 6789998876 3344433
No 56
>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=98.93 E-value=3.3e-09 Score=121.33 Aligned_cols=103 Identities=16% Similarity=0.254 Sum_probs=77.9
Q ss_pred CchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHH
Q 008575 45 GKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQ 124 (561)
Q Consensus 45 ~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~ 124 (561)
...|.+++.||++||++|+...+ .|.|++...
T Consensus 595 ~~~L~~il~NLI~NAik~s~~~~---~I~I~~~~~--------------------------------------------- 626 (703)
T TIGR03785 595 PELIAQMLDKLVDNAREFSPEDG---LIEVGLSQN--------------------------------------------- 626 (703)
T ss_pred HHHHHHHHHHHHHHHHHHCCCCC---eEEEEEEEc---------------------------------------------
Confidence 35789999999999999996544 277776543
Q ss_pred HHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHh
Q 008575 125 AKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMS 204 (561)
Q Consensus 125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~ 204 (561)
.+.+.|+|+|||+||++++++++|++|++ ++.......++.|+||+++..++..+
T Consensus 627 ------------------------~~~v~I~V~D~G~GI~~e~~~~IFe~F~t-~~~~~~~~~~g~GLGL~Ivr~Iv~~~ 681 (703)
T TIGR03785 627 ------------------------KSHALLTVSNEGPPLPEDMGEQLFDSMVS-VRDQGAQDQPHLGLGLYIVRLIADFH 681 (703)
T ss_pred ------------------------CCEEEEEEEEcCCCCCHHHHHHHhCCCee-cCCCCCCCCCCccHHHHHHHHHHHHc
Confidence 35789999999999999999999999974 33211112235799999999998875
Q ss_pred CCccEEEEeeeCCCceE
Q 008575 205 TGLPIEISSSMRSHNFI 221 (561)
Q Consensus 205 ~Gg~I~V~Sk~~g~~~~ 221 (561)
||.|.+.+...+.+..
T Consensus 682 -gG~I~v~s~~~g~Gt~ 697 (703)
T TIGR03785 682 -QGRIQAENRQQNDGVV 697 (703)
T ss_pred -CCEEEEEECCCCCeEE
Confidence 7789998876434433
No 57
>PRK10490 sensor protein KdpD; Provisional
Probab=98.91 E-value=4.5e-09 Score=123.31 Aligned_cols=107 Identities=19% Similarity=0.217 Sum_probs=81.6
Q ss_pred CchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHH
Q 008575 45 GKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQ 124 (561)
Q Consensus 45 ~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~ 124 (561)
...|.+++.||++||++|+...+ .|.|++...
T Consensus 776 ~~~L~qVL~NLL~NAik~s~~g~---~I~I~~~~~--------------------------------------------- 807 (895)
T PRK10490 776 GPLFERVLINLLENAVKYAGAQA---EIGIDAHVE--------------------------------------------- 807 (895)
T ss_pred HHHHHHHHHHHHHHHHHhCCCCC---eEEEEEEEe---------------------------------------------
Confidence 35799999999999999985432 476666543
Q ss_pred HHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHh
Q 008575 125 AKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMS 204 (561)
Q Consensus 125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~ 204 (561)
.+.+.|+|.|||+||++++++++|++|+++.+ . ...++.|+||+++..+...+
T Consensus 808 ------------------------~~~v~I~V~D~G~GI~~e~~~~IFepF~~~~~-~--~~~~G~GLGL~Ivk~ive~h 860 (895)
T PRK10490 808 ------------------------GERLQLDVWDNGPGIPPGQEQLIFDKFARGNK-E--SAIPGVGLGLAICRAIVEVH 860 (895)
T ss_pred ------------------------CCEEEEEEEECCCCCCHHHHHHhcCCCccCCC-C--CCCCCccHHHHHHHHHHHHc
Confidence 35689999999999999999999999874332 1 12345799999999988875
Q ss_pred CCccEEEEeeeCCCceEEEEEEEe
Q 008575 205 TGLPIEISSSMRSHNFISFCKLDI 228 (561)
Q Consensus 205 ~Gg~I~V~Sk~~g~~~~~~~~L~i 228 (561)
||.|++.|.+ +.++.+.+.|+.
T Consensus 861 -GG~I~v~s~~-~~Gt~f~i~LPl 882 (895)
T PRK10490 861 -GGTIWAENRP-EGGACFRVTLPL 882 (895)
T ss_pred -CCEEEEEECC-CCeEEEEEEeEC
Confidence 7799999976 445556555554
No 58
>PRK09835 sensor kinase CusS; Provisional
Probab=98.90 E-value=6.5e-09 Score=110.73 Aligned_cols=97 Identities=12% Similarity=0.209 Sum_probs=75.7
Q ss_pred CchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHH
Q 008575 45 GKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQ 124 (561)
Q Consensus 45 ~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~ 124 (561)
...|++++.||++||++|+...+ .|.|.+...
T Consensus 373 ~~~l~~vl~nll~Na~~~~~~~~---~I~i~~~~~--------------------------------------------- 404 (482)
T PRK09835 373 PLMLRRAISNLLSNALRYTPAGE---AITVRCQEV--------------------------------------------- 404 (482)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCC---eEEEEEEEe---------------------------------------------
Confidence 45799999999999999986533 377777553
Q ss_pred HHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHh
Q 008575 125 AKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMS 204 (561)
Q Consensus 125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~ 204 (561)
.+.+.|+|+|||+||++++++++|++||++...+. ...++.|+||+++..+...+
T Consensus 405 ------------------------~~~~~i~v~d~G~gi~~~~~~~if~~f~~~~~~~~-~~~~g~GlGL~i~~~i~~~~ 459 (482)
T PRK09835 405 ------------------------DHQVQLVVENPGTPIAPEHLPRLFDRFYRVDPSRQ-RKGEGSGIGLAIVKSIVVAH 459 (482)
T ss_pred ------------------------CCEEEEEEEECCCCcCHHHHHHHhCCcccCCCCCC-CCCCCcchHHHHHHHHHHHC
Confidence 35689999999999999999999999985543221 12346799999998888774
Q ss_pred CCccEEEEeee
Q 008575 205 TGLPIEISSSM 215 (561)
Q Consensus 205 ~Gg~I~V~Sk~ 215 (561)
||.+++.|..
T Consensus 460 -~g~i~~~s~~ 469 (482)
T PRK09835 460 -KGTVAVTSDA 469 (482)
T ss_pred -CCEEEEEECC
Confidence 7789998864
No 59
>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=98.90 E-value=9.5e-09 Score=119.53 Aligned_cols=73 Identities=15% Similarity=0.294 Sum_probs=58.0
Q ss_pred eEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEee
Q 008575 152 YRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDID 229 (561)
Q Consensus 152 ~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id 229 (561)
+.|+|.|||+|||+++++++|++|+.+. . ....++.|+||+++..+...+ ||.|.|.|.+ +.++.+.+.|++.
T Consensus 612 ~~i~V~D~G~Gi~~~~~~~if~~f~~~~--~-~~~~~g~GLGL~i~~~l~~~~-gG~i~~~s~~-~~Gt~f~~~lp~~ 684 (968)
T TIGR02956 612 LLFEVEDTGCGIAEEEQATLFDAFTQAD--G-RRRSGGTGLGLAISQRLVEAM-DGELGVESEL-GVGSCFWFTLPLT 684 (968)
T ss_pred EEEEEEeCCCCCCHHHHHHHHhhhhccC--C-CCCCCCccHHHHHHHHHHHHc-CCEEEEEecC-CCcEEEEEEEEcC
Confidence 8999999999999999999999997444 2 122366899999999988864 7789999986 5556677776654
No 60
>PRK09467 envZ osmolarity sensor protein; Provisional
Probab=98.90 E-value=5.8e-09 Score=110.08 Aligned_cols=63 Identities=17% Similarity=0.281 Sum_probs=50.9
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeee
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSM 215 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~ 215 (561)
.+.+.|+|.|||+||++++++++|++|+.++..+ ..++.|+||+++..++..+ ||.+++.|..
T Consensus 359 ~~~~~i~V~D~G~Gi~~~~~~~~~~~f~~~~~~~---~~~g~GlGL~iv~~i~~~~-~g~l~i~~~~ 421 (435)
T PRK09467 359 GKRAWFQVEDDGPGIPPEQLKHLFQPFTRGDSAR---GSSGTGLGLAIVKRIVDQH-NGKVELGNSE 421 (435)
T ss_pred CCEEEEEEEecCCCcCHHHHHHhcCCcccCCCCC---CCCCeehhHHHHHHHHHHC-CCEEEEEECC
Confidence 3568999999999999999999999997544321 2356799999999988874 6789998875
No 61
>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=98.89 E-value=6.9e-09 Score=103.48 Aligned_cols=69 Identities=19% Similarity=0.236 Sum_probs=52.9
Q ss_pred CeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceE
Q 008575 150 SFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFI 221 (561)
Q Consensus 150 ~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~ 221 (561)
+.+.|.|.|||+||+++.++++|.+||...+... ...++.|+||+++..+...+ ||.+++.|.+ +.+..
T Consensus 260 ~~~~i~i~d~G~gi~~~~~~~if~~~~~~~~~~~-~~~~g~glGL~~~~~~~~~~-gG~i~~~s~~-~~Gt~ 328 (333)
T TIGR02966 260 GGAEFSVTDTGIGIAPEHLPRLTERFYRVDKSRS-RDTGGTGLGLAIVKHVLSRH-HARLEIESEL-GKGST 328 (333)
T ss_pred CEEEEEEEecCCCCCHHHHhhhccCceecCcccc-cCCCCCcccHHHHHHHHHHC-CCEEEEEecC-CCCeE
Confidence 4589999999999999999999999975433211 12345799999999988874 7889999876 44433
No 62
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=98.89 E-value=7.4e-09 Score=111.37 Aligned_cols=102 Identities=19% Similarity=0.192 Sum_probs=77.9
Q ss_pred chHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHH
Q 008575 46 KSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQA 125 (561)
Q Consensus 46 k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~~ 125 (561)
..|.+++.||+.||++++... ..|.|++....
T Consensus 499 ~~l~~~~~nli~na~~~~~~~---~~i~v~~~~~~--------------------------------------------- 530 (607)
T PRK11360 499 ELLKQVLLNILINAVQAISAR---GKIRIRTWQYS--------------------------------------------- 530 (607)
T ss_pred HHHHHHHHHHHHHHHHHhcCC---CeEEEEEEEcC---------------------------------------------
Confidence 469999999999999998653 25777765431
Q ss_pred HHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhC
Q 008575 126 KNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMST 205 (561)
Q Consensus 126 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~ 205 (561)
++.+.|+|+|||+||+++.+.++|++|+ +++ .++.|+||.++.....++
T Consensus 531 -----------------------~~~~~i~v~D~G~G~~~~~~~~~f~~~~-~~~------~~g~glGL~~~~~~~~~~- 579 (607)
T PRK11360 531 -----------------------DGQVAVSIEDNGCGIDPELLKKIFDPFF-TTK------AKGTGLGLALSQRIINAH- 579 (607)
T ss_pred -----------------------CCEEEEEEEeCCCCCCHHHHhhhcCCce-eCC------CCCCchhHHHHHHHHHHc-
Confidence 2228999999999999999999999987 333 234699999999998874
Q ss_pred CccEEEEeeeCCCceEEEEEEE
Q 008575 206 GLPIEISSSMRSHNFISFCKLD 227 (561)
Q Consensus 206 Gg~I~V~Sk~~g~~~~~~~~L~ 227 (561)
||.+++.|.+ +.++.+.+.|+
T Consensus 580 ~G~i~~~s~~-~~Gt~~~i~lp 600 (607)
T PRK11360 580 GGDIEVESEP-GVGTTFTLYLP 600 (607)
T ss_pred CCEEEEEEcC-CCceEEEEEec
Confidence 7789999876 44444444443
No 63
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=98.88 E-value=9.7e-09 Score=105.19 Aligned_cols=66 Identities=26% Similarity=0.276 Sum_probs=51.7
Q ss_pred eeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEE
Q 008575 151 FYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKL 226 (561)
Q Consensus 151 ~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L 226 (561)
.+.|.|.|||+||+++.++++|.+|| ++| .++.|+||+++..+...+ ||.|++.|.+ +. ..+.+.|
T Consensus 280 ~~~i~v~D~G~Gi~~~~~~~iF~~~~-~~~------~~g~GlGL~i~~~iv~~~-gG~i~~~s~~-~~-~~f~i~l 345 (348)
T PRK11073 280 AARIDIEDNGPGIPPHLQDTLFYPMV-SGR------EGGTGLGLSIARNLIDQH-SGKIEFTSWP-GH-TEFSVYL 345 (348)
T ss_pred eEEEEEEeCCCCCCHHHHhhccCCcc-cCC------CCCccCCHHHHHHHHHHc-CCeEEEEecC-Cc-eEEEEEE
Confidence 46899999999999999999999986 444 235699999999988764 7899999875 33 4444433
No 64
>PRK11100 sensory histidine kinase CreC; Provisional
Probab=98.84 E-value=1.2e-08 Score=107.57 Aligned_cols=95 Identities=19% Similarity=0.316 Sum_probs=74.2
Q ss_pred chHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHH
Q 008575 46 KSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQA 125 (561)
Q Consensus 46 k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~~ 125 (561)
..|..++.||++||++++.+.+ .|.|++++.
T Consensus 367 ~~l~~vl~nli~Na~~~~~~~~---~i~i~~~~~---------------------------------------------- 397 (475)
T PRK11100 367 FLLRQALGNLLDNAIDFSPEGG---TITLSAEVD---------------------------------------------- 397 (475)
T ss_pred HHHHHHHHHHHHHHHHhCCCCC---EEEEEEEEc----------------------------------------------
Confidence 4688999999999999985433 588887654
Q ss_pred HHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhC
Q 008575 126 KNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMST 205 (561)
Q Consensus 126 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~ 205 (561)
++.+.|+|+|||+|||++++.++|.+++...... ...++.|+||.++......+
T Consensus 398 -----------------------~~~~~i~i~D~G~Gi~~~~~~~i~~~~~~~~~~~--~~~~~~GlGL~i~~~~~~~~- 451 (475)
T PRK11100 398 -----------------------GEQVALSVEDQGPGIPDYALPRIFERFYSLPRPA--NGRKSTGLGLAFVREVARLH- 451 (475)
T ss_pred -----------------------CCEEEEEEEECCCCCCHHHHHHHHHHHccCCCCC--CCCCCcchhHHHHHHHHHHC-
Confidence 3568999999999999999999999987332211 12345799999999888764
Q ss_pred CccEEEEeee
Q 008575 206 GLPIEISSSM 215 (561)
Q Consensus 206 Gg~I~V~Sk~ 215 (561)
||.+.+.|.+
T Consensus 452 ~G~i~i~s~~ 461 (475)
T PRK11100 452 GGEVTLRNRP 461 (475)
T ss_pred CCEEEEEEcC
Confidence 6789998875
No 65
>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=98.84 E-value=8.5e-09 Score=116.96 Aligned_cols=97 Identities=24% Similarity=0.267 Sum_probs=75.8
Q ss_pred CchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHH
Q 008575 45 GKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQ 124 (561)
Q Consensus 45 ~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~ 124 (561)
...|.+++.||++||++|+...+ .|.|++...
T Consensus 577 ~~~l~~vl~nLl~NAik~~~~~~---~I~I~~~~~--------------------------------------------- 608 (679)
T TIGR02916 577 RERLERVLGHLVQNALEATPGEG---RVAIRVERE--------------------------------------------- 608 (679)
T ss_pred HHHHHHHHHHHHHHHHHhCCCCC---cEEEEEEEc---------------------------------------------
Confidence 35699999999999999986544 377777553
Q ss_pred HHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCC-hhhhhcccccccccccccCCCcceeehHhhHHHHHH
Q 008575 125 AKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDD-IPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKM 203 (561)
Q Consensus 125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~-l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l 203 (561)
++.+.|+|+|||+||+++. .+++|++|+ ++|. ++.|+||+++..+...
T Consensus 609 ------------------------~~~~~i~V~D~G~Gi~~~~i~~~lF~pf~-~~~~------~G~GLGL~i~~~iv~~ 657 (679)
T TIGR02916 609 ------------------------CGAARIEIEDSGCGMSPAFIRERLFKPFD-TTKG------AGMGIGVYECRQYVEE 657 (679)
T ss_pred ------------------------CCEEEEEEEEcCCCcChHHHHHhcCCCCC-CCCC------CCcchhHHHHHHHHHH
Confidence 3568999999999999999 899999886 4441 4569999999988876
Q ss_pred hCCccEEEEeeeCCCceEE
Q 008575 204 STGLPIEISSSMRSHNFIS 222 (561)
Q Consensus 204 ~~Gg~I~V~Sk~~g~~~~~ 222 (561)
+ ||.+++.|.+ +.++.+
T Consensus 658 ~-gG~i~v~s~~-g~Gt~f 674 (679)
T TIGR02916 658 I-GGRIEVESTP-GQGTIF 674 (679)
T ss_pred c-CCEEEEEecC-CCceEE
Confidence 4 7789999876 444433
No 66
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=98.84 E-value=1.1e-08 Score=120.41 Aligned_cols=77 Identities=14% Similarity=0.214 Sum_probs=59.2
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEe
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDI 228 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~i 228 (561)
++.+.|+|.|||+||++++++++|++|+.+.... ....++.|+||+++..+...+ ||.|+|.|.+ +.++.+.+.|+.
T Consensus 591 ~~~l~i~V~DtG~GI~~e~~~~lFepF~~~~~~~-~~~~~GtGLGL~I~k~lv~~~-gG~I~v~S~~-g~Gt~F~i~LP~ 667 (924)
T PRK10841 591 GDYLSFRVRDTGVGIPAKEVVRLFDPFFQVGTGV-QRNFQGTGLGLAICEKLINMM-DGDISVDSEP-GMGSQFTIRIPL 667 (924)
T ss_pred CCEEEEEEEEcCcCCCHHHHHHHhcccccCCCCC-CCCCCCeehhHHHHHHHHHHC-CCEEEEEEcC-CCcEEEEEEEEC
Confidence 3578999999999999999999999997543321 123356799999999888774 7789999986 556666666654
No 67
>PRK10337 sensor protein QseC; Provisional
Probab=98.84 E-value=7.9e-09 Score=109.67 Aligned_cols=58 Identities=21% Similarity=0.350 Sum_probs=47.6
Q ss_pred EEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeee
Q 008575 153 RVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSM 215 (561)
Q Consensus 153 ~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~ 215 (561)
.|+|+|||+|||+++++++|.+|+.+.. ...++.|+||+++..+...+ ||.+++.|.+
T Consensus 382 ~i~i~D~G~Gi~~~~~~~if~~f~~~~~----~~~~g~GlGL~iv~~i~~~~-gg~l~~~s~~ 439 (449)
T PRK10337 382 NFTVRDNGPGVTPEALARIGERFYRPPG----QEATGSGLGLSIVRRIAKLH-GMNVSFGNAP 439 (449)
T ss_pred EEEEEECCCCCCHHHHHHhcccccCCCC----CCCCccchHHHHHHHHHHHc-CCEEEEEecC
Confidence 5889999999999999999999974322 12345899999999988875 7789998875
No 68
>KOG1977 consensus DNA mismatch repair protein - MLH3 family [Replication, recombination and repair]
Probab=98.80 E-value=4.9e-09 Score=116.70 Aligned_cols=137 Identities=17% Similarity=0.164 Sum_probs=84.1
Q ss_pred CeeEEEEEeCCCCCCcCChhhhhcccccccccccc------cCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEE
Q 008575 150 SFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLK------QTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISF 223 (561)
Q Consensus 150 ~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~------~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~ 223 (561)
....+.|.|||.||..+|+..+=.|+ +|||++.. .+-|++|..|+.+.-++ .+.|.|+..+....|.
T Consensus 48 ~t~sv~ViDdG~G~~rdDl~~lg~ry-~TSK~h~~ndl~~~~tyGfRGeALasIsd~s------~l~v~skkk~r~~~~~ 120 (1142)
T KOG1977|consen 48 ETFSVQVIDDGFGMGRDDLEKLGNRY-FTSKCHSVNDLENPRTYGFRGEALASISDMS------SLVVISKKKNRTMKTF 120 (1142)
T ss_pred ceeEEEEEecCCCccHHHHHHHHhhh-hhhhceeccccccccccccchhhhhhhhhhh------hhhhhhhhcCCchhHH
Confidence 34789999999999999998876666 59998531 23345555544443333 3567787666544332
Q ss_pred EEEEeeccCCCceeeeeccccCCCCCCCcEEEEE-ecCCcchhH-----------HHHHHHHHHHHhhCCCcEEEEEEcc
Q 008575 224 CKLDIDIHRNIPHVHLHEKRENKDRWHGAEIQVV-IEGNWTTYR-----------SKILHYMRQMAVITPYAQFLFKFVS 291 (561)
Q Consensus 224 ~~L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V~-L~~n~~~~r-----------~~I~eyLrr~AIvnP~a~~~l~~~~ 291 (561)
.+.-.. +. . ...-+++.....+||+|+|. |+.+.+..| ..|...+.++++++|.++|.+.+.
T Consensus 121 ~kk~~~---gs-~-~~~l~iD~~R~~sGTtVtV~dlfY~lPVRRr~k~~~P~k~fe~Ik~~i~~i~lmHp~iSfsv~~~- 194 (1142)
T KOG1977|consen 121 VKKFQS---GS-A-LKALEIDVTRASSGTTVTVYDLFYQLPVRRRLKCMDPRKEFEKIKQRIEAISLMHPSISFSVRND- 194 (1142)
T ss_pred HHHHhc---cc-c-ceecccccccccCCcEEEeHHhhhcchhhhhhhcCCHHHHHHHHHHHHHHHHhhccceeEEEEec-
Confidence 111111 10 1 11111222234589999999 555544332 258899999999999999999853
Q ss_pred cccCcceEEE
Q 008575 292 EVAEKNVTIR 301 (561)
Q Consensus 292 ~~pdg~~~~~ 301 (561)
..|...++
T Consensus 195 --~s~~~~lq 202 (1142)
T KOG1977|consen 195 --VSGSMVLQ 202 (1142)
T ss_pred --cCcceeee
Confidence 33454454
No 69
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=98.79 E-value=5e-08 Score=116.58 Aligned_cols=75 Identities=16% Similarity=0.228 Sum_probs=58.0
Q ss_pred CeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEee
Q 008575 150 SFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDID 229 (561)
Q Consensus 150 ~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~id 229 (561)
..+.|+|.|||+||++++++++|++|+++ +.. ...++.|+||+++..+...+ ||.|++.|.+ +.++.+.+.|++.
T Consensus 863 ~~~~i~V~D~G~Gi~~~~~~~iF~~f~~~-~~~--~~~~G~GLGL~i~~~iv~~~-gG~i~v~s~~-~~Gt~f~i~lP~~ 937 (1197)
T PRK09959 863 AVIKMTIMDSGSGLSQEEQQQLFKRYSQT-SAG--RQQTGSGLGLMICKELIKNM-QGDLSLESHP-GIGTTFTITIPVE 937 (1197)
T ss_pred eEEEEEEEEcCCCCCHHHHHHhhcccccc-ccC--CCCCCcCchHHHHHHHHHHc-CCEEEEEeCC-CCcEEEEEEEEcc
Confidence 45789999999999999999999999743 322 12346799999999988874 7799999986 5556666666654
No 70
>PRK13557 histidine kinase; Provisional
Probab=98.76 E-value=1.2e-07 Score=101.85 Aligned_cols=73 Identities=21% Similarity=0.312 Sum_probs=57.0
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEe
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDI 228 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~i 228 (561)
++.+.|+|.|||+||+++.++++|++|| +++. ..++.|+||+++..+... .||.|.+.|.+ +.+..+.+.|+.
T Consensus 322 ~~~~~i~v~D~G~Gi~~~~~~~if~~~~-~~~~----~~~g~GlGL~i~~~~v~~-~gG~i~~~s~~-~~G~~f~i~lP~ 394 (540)
T PRK13557 322 GRYVSIAVTDTGSGMPPEILARVMDPFF-TTKE----EGKGTGLGLSMVYGFAKQ-SGGAVRIYSEV-GEGTTVRLYFPA 394 (540)
T ss_pred CCEEEEEEEcCCCCCCHHHHHhccCCCc-ccCC----CCCCCCccHHHHHHHHHH-CCCEEEEEecC-CCceEEEEEeeC
Confidence 4578999999999999999999999987 4442 234679999999988876 48899999986 555555555554
No 71
>smart00387 HATPase_c Histidine kinase-like ATPases. Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Probab=98.71 E-value=1.5e-07 Score=78.11 Aligned_cols=95 Identities=22% Similarity=0.385 Sum_probs=72.0
Q ss_pred CchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHH
Q 008575 45 GKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQ 124 (561)
Q Consensus 45 ~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~ 124 (561)
...|+.++.|+++|+++++.. .+.|.|.+...
T Consensus 3 ~~~l~~~~~~l~~n~~~~~~~---~~~v~i~~~~~--------------------------------------------- 34 (111)
T smart00387 3 PDRLRQVLSNLLDNAIKYTPE---GGRITVTLERD--------------------------------------------- 34 (111)
T ss_pred HHHHHHHHHHHHHHHHhcCCC---CCeEEEEEEEc---------------------------------------------
Confidence 356999999999999999865 24577766543
Q ss_pred HHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHh
Q 008575 125 AKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMS 204 (561)
Q Consensus 125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~ 204 (561)
.+.+.|.|.|||.||+++.++.+|.+++. ++.. ....+..|+||+++..++...
T Consensus 35 ------------------------~~~~~i~i~d~g~g~~~~~~~~~~~~~~~-~~~~-~~~~~~~g~gl~~~~~~~~~~ 88 (111)
T smart00387 35 ------------------------GDHLEITVEDNGPGIPPEDLEKIFEPFFR-TDGR-SRKIGGTGLGLSIVKKLVELH 88 (111)
T ss_pred ------------------------CCEEEEEEEeCCCCCCHHHHHHHhcCeEE-CCCC-CCCCCcccccHHHHHHHHHHc
Confidence 35689999999999999999999988753 3211 122345799999999999874
Q ss_pred CCccEEEEee
Q 008575 205 TGLPIEISSS 214 (561)
Q Consensus 205 ~Gg~I~V~Sk 214 (561)
++.+.+.+.
T Consensus 89 -~g~~~~~~~ 97 (111)
T smart00387 89 -GGEISVESE 97 (111)
T ss_pred -CCEEEEEec
Confidence 556777665
No 72
>PRK13560 hypothetical protein; Provisional
Probab=98.63 E-value=1.4e-07 Score=106.33 Aligned_cols=92 Identities=20% Similarity=0.190 Sum_probs=67.6
Q ss_pred hHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHH
Q 008575 47 SLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQAK 126 (561)
Q Consensus 47 ~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~~~ 126 (561)
.+.+++.||+.||++|+...+..+.|.|++.+..
T Consensus 711 ~~~~il~NLl~NAik~~~~~~~~~~i~i~~~~~~---------------------------------------------- 744 (807)
T PRK13560 711 PCGLIISELLSNALKHAFPDGAAGNIKVEIREQG---------------------------------------------- 744 (807)
T ss_pred chHHHHHHHHHHHHHhhccCCCCceEEEEEEEcC----------------------------------------------
Confidence 4667899999999999865544456777765531
Q ss_pred HhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCC
Q 008575 127 NAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTG 206 (561)
Q Consensus 127 ~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~G 206 (561)
++.+.|+|+|||+|||++.. + +.+.||||+++..+...+ |
T Consensus 745 ----------------------~~~v~i~V~D~G~GI~~~~~------~-----------~~~~gLGLai~~~iv~~~-g 784 (807)
T PRK13560 745 ----------------------DGMVNLCVADDGIGLPAGFD------F-----------RAAETLGLQLVCALVKQL-D 784 (807)
T ss_pred ----------------------CCEEEEEEEeCCCcCCcccc------c-----------cccCCccHHHHHHHHHHc-C
Confidence 45789999999999998731 1 122479999999988874 7
Q ss_pred ccEEEEeeeCCCceEEEEEEE
Q 008575 207 LPIEISSSMRSHNFISFCKLD 227 (561)
Q Consensus 207 g~I~V~Sk~~g~~~~~~~~L~ 227 (561)
|.|+|.|. .++.|.+.|+
T Consensus 785 G~I~v~S~---~Gt~F~i~lP 802 (807)
T PRK13560 785 GEIALDSR---GGARFNIRFP 802 (807)
T ss_pred CEEEEEcC---CceEEEEEec
Confidence 89999985 3445555554
No 73
>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=98.58 E-value=4.7e-07 Score=73.88 Aligned_cols=63 Identities=25% Similarity=0.469 Sum_probs=47.1
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeee
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSM 215 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~ 215 (561)
.+.+.|.|.|+|.||++..++..|.++. .. ......+..|+|++++..++... |+.+++.+..
T Consensus 31 ~~~~~v~i~d~g~g~~~~~~~~~~~~~~-~~--~~~~~~~~~g~gl~~~~~~~~~~-~g~~~~~~~~ 93 (103)
T cd00075 31 GDHLEIRVEDNGPGIPEEDLERIFERFS-DG--SRSRKGGGTGLGLSIVKKLVELH-GGRIEVESEP 93 (103)
T ss_pred CCEEEEEEEeCCCCCCHHHHHHHhhhhh-cC--CCCCCCCccccCHHHHHHHHHHc-CCEEEEEeCC
Confidence 3568999999999999999999887651 11 11223456799999999988874 7788887764
No 74
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=98.57 E-value=2.5e-07 Score=95.96 Aligned_cols=69 Identities=26% Similarity=0.282 Sum_probs=54.6
Q ss_pred CeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEe
Q 008575 150 SFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDI 228 (561)
Q Consensus 150 ~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~i 228 (561)
-...|.|.|||||||++-.+.+|.+|. |+| .|+.||||+++.-+..-| ||.|+..|.+ | .+.|...+.+
T Consensus 286 l~l~leViDNGPGVP~~L~~~lF~P~V-s~r------~~GsGLGLala~~li~qH-~G~Ie~~S~P-g-~T~FrvllP~ 354 (363)
T COG3852 286 LALPLEVIDNGPGVPPDLQDHLFYPMV-SGR------EGGTGLGLALAQNLIDQH-GGKIEFDSWP-G-RTVFRVLLPI 354 (363)
T ss_pred eeeeeEEecCCCCCChHHhhhcccccc-ccC------CCCccccHHHHHHHHHhc-CCEEEEeccC-C-ceEEEEEeec
Confidence 346789999999999999999999986 555 356799999999888765 6789999998 3 3455555443
No 75
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=98.45 E-value=3.1e-07 Score=102.28 Aligned_cols=76 Identities=14% Similarity=0.139 Sum_probs=58.3
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEe
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDI 228 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~i 228 (561)
.+.+.+.|+|||.||++..++++|.-|-+... .....+.|+||.++..+.+.| +|.|.|.|++ |++.+|+|.+.+
T Consensus 667 ed~~t~sV~dng~Gi~~a~~~riF~iFqRl~s---~~~y~gtG~GL~I~kkI~e~H-~G~i~vEs~~-gEgsTF~f~lp~ 741 (750)
T COG4251 667 EDEWTFSVRDNGIGIDPAYFERIFVIFQRLHS---RDEYLGTGLGLAICKKIAERH-QGRIWVESTP-GEGSTFYFTLPV 741 (750)
T ss_pred CCceEEEecCCCCCcCHHHHHHHHHHHHhcCc---hhhhcCCCccHHHHHHHHHHh-CceEEEeecC-CCceeEEEEeec
Confidence 35689999999999999999999875542221 112234799999999999987 5589999997 666778888765
Q ss_pred e
Q 008575 229 D 229 (561)
Q Consensus 229 d 229 (561)
.
T Consensus 742 ~ 742 (750)
T COG4251 742 G 742 (750)
T ss_pred C
Confidence 3
No 76
>KOG0020 consensus Endoplasmic reticulum glucose-regulated protein (GRP94/endoplasmin), HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=98.35 E-value=1.5e-06 Score=94.40 Aligned_cols=116 Identities=16% Similarity=0.260 Sum_probs=74.2
Q ss_pred CeeEEEEEeCCCCCCcCChhhhhcccccccc--c--cc----------ccCCCcceeehHhhHHHHHHhCCccEEEEeee
Q 008575 150 SFYRVTCKDNGKGMPHDDIPNMFGRVLSGTK--Y--GL----------KQTRGKFGLGAKMALIWSKMSTGLPIEISSSM 215 (561)
Q Consensus 150 ~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK--~--~~----------~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~ 215 (561)
..-.+.|.|.|+||..++|-+-++.+..+.. | .. ....||+|+|++.+.+++. .|.|+|+.
T Consensus 140 e~klLhi~DtGiGMT~edLi~NLGTIAkSGTs~Fl~Km~~~~~~~~~~~dlIGQFGVGFYsAfLVAD-----~vvVtsKh 214 (785)
T KOG0020|consen 140 EKKLLHITDTGIGMTREDLIKNLGTIAKSGTSEFLEKMQDSGDSEGLMNDLIGQFGVGFYSAFLVAD-----RVVVTSKH 214 (785)
T ss_pred hhCeeeEecccCCccHHHHHHhhhhhhcccHHHHHHHhhccccchhhHHHHHHhcchhhhhhhhhcc-----eEEEEecc
Confidence 4457889999999999999887776542221 1 00 1236899999999999876 68999998
Q ss_pred CCCceEEEEEEEeeccCCCceeeeeccccCCCCCCCcEEEEEecCCcch--hHHHHHHHHHHHH
Q 008575 216 RSHNFISFCKLDIDIHRNIPHVHLHEKRENKDRWHGAEIQVVIEGNWTT--YRSKILHYMRQMA 277 (561)
Q Consensus 216 ~g~~~~~~~~L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V~L~~n~~~--~r~~I~eyLrr~A 277 (561)
.+. .-|.|+-+ .|.-.|.+ .+.- ..-.+||.|++.|...-.- ....+.+.+++++
T Consensus 215 NdD-~QyiWESd----an~Fsvse-Dprg-~tL~RGt~ItL~LkeEA~dyLE~dtlkeLvkkYS 271 (785)
T KOG0020|consen 215 NDD-SQYIWESD----ANSFSVSE-DPRG-NTLGRGTEITLYLKEEAGDYLEEDTLKELVKKYS 271 (785)
T ss_pred CCc-cceeeecc----Ccceeeec-CCCC-CcccCccEEEEEehhhhhhhcchhHHHHHHHHHH
Confidence 544 44666643 23333332 2221 2345899999998753211 2245666666653
No 77
>PRK10547 chemotaxis protein CheA; Provisional
Probab=98.28 E-value=3.7e-06 Score=96.18 Aligned_cols=75 Identities=17% Similarity=0.177 Sum_probs=54.4
Q ss_pred CCeeEEEEEeCCCCCCcCChh---------------------hhhcccccccccccccCCCcceeehHhhHHHHHHhCCc
Q 008575 149 ASFYRVTCKDNGKGMPHDDIP---------------------NMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGL 207 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~---------------------~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg 207 (561)
.+.+.|+|+|||.||+++.+. .+|.++|+|.. .. ....++|+||.++...... .||
T Consensus 427 ~~~v~I~V~DdG~GId~e~i~~~a~~~Gl~~~~~ls~~e~~~lIF~pgfst~~-~~-~~~sGrGvGL~iVk~~ve~-lgG 503 (670)
T PRK10547 427 GGNICIEVTDDGAGLNRERILAKAASQGLAVSENMSDEEVGMLIFAPGFSTAE-QV-TDVSGRGVGMDVVKRNIQE-MGG 503 (670)
T ss_pred CCEEEEEEEeCCCCCCHHHHHHHHHHcCCCccccCCHHHHHHHhhcCCccccc-cc-ccCCCCchhHHHHHHHHHH-cCC
Confidence 467899999999999987653 58998874433 21 1234579999998887775 477
Q ss_pred cEEEEeeeCCCceEEEEEEE
Q 008575 208 PIEISSSMRSHNFISFCKLD 227 (561)
Q Consensus 208 ~I~V~Sk~~g~~~~~~~~L~ 227 (561)
.|+|.|.. |.++.+.+.|+
T Consensus 504 ~I~v~S~~-g~Gt~f~i~LP 522 (670)
T PRK10547 504 HVEIQSKQ-GKGTTIRILLP 522 (670)
T ss_pred EEEEEecC-CCcEEEEEEEe
Confidence 99999986 66666655544
No 78
>PRK11644 sensory histidine kinase UhpB; Provisional
Probab=98.24 E-value=5.6e-06 Score=91.35 Aligned_cols=44 Identities=20% Similarity=0.273 Sum_probs=35.6
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEe
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISS 213 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~S 213 (561)
++.+.|+|+|||+||++++. +.|+||+++...... .||.+++.|
T Consensus 439 ~~~i~l~V~DnG~Gi~~~~~--------------------~~GLGL~ivr~iv~~-~GG~i~v~S 482 (495)
T PRK11644 439 DERLMLVIEDDGSGLPPGSG--------------------QQGFGLRGMRERVTA-LGGTLTISC 482 (495)
T ss_pred CCEEEEEEEECCCCCCcCCC--------------------CCCCcHHHHHHHHHH-cCCEEEEEc
Confidence 35689999999999997631 248999999888876 478899988
No 79
>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=98.23 E-value=1.5e-05 Score=72.23 Aligned_cols=55 Identities=15% Similarity=0.190 Sum_probs=37.2
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeee
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSM 215 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~ 215 (561)
.+.+.|+|.|||+||+ .+..+|.+++ +++. ..+..|+||+++..+ .+.+++.+..
T Consensus 72 ~~~~~i~I~D~G~gi~--~~~~~~~~~~-~~~~----~~~~~GlGL~lv~~~-----~~~l~~~~~~ 126 (137)
T TIGR01925 72 DHEVYITVRDEGIGIE--NLEEAREPLY-TSKP----ELERSGMGFTVMENF-----MDDVSVDSEK 126 (137)
T ss_pred CCEEEEEEEEcCCCcC--chhHhhCCCc-ccCC----CCCCCcccHHHHHHh-----CCcEEEEECC
Confidence 3568999999999997 4678888876 3332 223468898876532 2356666653
No 80
>KOG0019 consensus Molecular chaperone (HSP90 family) [Posttranslational modification, protein turnover, chaperones]
Probab=98.19 E-value=3.1e-06 Score=93.96 Aligned_cols=100 Identities=19% Similarity=0.299 Sum_probs=69.2
Q ss_pred CCCeeEEEEEeCCCCCCcCChhhhhccccc-cccc---ccc------cCCCcceeehHhhHHHHHHhCCccEEEEeeeCC
Q 008575 148 EASFYRVTCKDNGKGMPHDDIPNMFGRVLS-GTKY---GLK------QTRGKFGLGAKMALIWSKMSTGLPIEISSSMRS 217 (561)
Q Consensus 148 ~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~-tSK~---~~~------~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g 217 (561)
+++.-.+++.|+|+||+.++|..-.+.... |||. ..+ +-.||+|+|+..+.+++. ++.|+|+..+
T Consensus 98 nk~~~tlti~DtGIGMTk~dLvnnLGTIAkSGtK~Fmealkea~ad~~~IGQFGvGFYSaylVAd-----kV~V~tk~~~ 172 (656)
T KOG0019|consen 98 NKDKRTITIQDTGIGMTKEDLVNNLGTIAKSGSKAFLEALKEAEAESNLIGQFGVGFYSAFMVAD-----RVVVTTRHPA 172 (656)
T ss_pred CCCcceEEEEecCCCcCHHHHHhhhhhhhhcccHHHHHHHHhcccchhhhhhcccchhhhhhhhh-----eeEEeeccCC
Confidence 456678999999999999999998887653 4442 111 236999999999999986 6899998765
Q ss_pred CceEEEEEEEeeccCCCceeeeeccccCCCCCCCcEEEEEecCC
Q 008575 218 HNFISFCKLDIDIHRNIPHVHLHEKRENKDRWHGAEIQVVIEGN 261 (561)
Q Consensus 218 ~~~~~~~~L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V~L~~n 261 (561)
.. .+.|+-..+ +.-.+ . .. ....+||.|.+.|..+
T Consensus 173 ~e-~y~Wes~~~---gs~~v-~--~~--~~~~rGTki~l~lKe~ 207 (656)
T KOG0019|consen 173 DE-GLQWTSNGR---GSYEI-A--EA--SGLRTGTKIVIHLKEG 207 (656)
T ss_pred Cc-ceeeecCCC---CceEE-e--ec--cCccccceEEeeehhh
Confidence 54 455553211 11111 1 11 2357999999998764
No 81
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=98.13 E-value=1.4e-05 Score=88.93 Aligned_cols=59 Identities=14% Similarity=0.085 Sum_probs=42.8
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEEe
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLDI 228 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~i 228 (561)
++.+.|+|.|||+||+++.. . ..|+||+++.-.+.. .||.+.+.|.+ +.++.+.+.|+.
T Consensus 498 ~~~~~l~V~D~G~Gi~~~~~------------------~-~~glGL~i~~~~~~~-lgG~l~i~s~~-~~Gt~v~i~lp~ 556 (569)
T PRK10600 498 QNQVKLSVQDNGCGVPENAE------------------R-SNHYGLIIMRDRAQS-LRGDCRVRRRE-SGGTEVVVTFIP 556 (569)
T ss_pred CCEEEEEEEECCCCCCcccc------------------C-CCCccHHHHHHHHHH-cCCEEEEEECC-CCCEEEEEEEec
Confidence 35789999999999998631 1 248899998887765 47899999986 445555444443
No 82
>PRK04069 serine-protein kinase RsbW; Provisional
Probab=98.07 E-value=3.8e-05 Score=72.61 Aligned_cols=103 Identities=17% Similarity=0.166 Sum_probs=70.9
Q ss_pred hcccccCccCC-CchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHH
Q 008575 34 ENKNIAGFDNP-GKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARER 112 (561)
Q Consensus 34 ~nk~i~Gfdn~-~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~ 112 (561)
..-...||+.. ...|...+.|++.||+.++-....-..|.|++...
T Consensus 28 ~~~~~~g~~~~~~~~l~lav~Ea~~Nai~Hg~~~~~~~~I~I~~~~~--------------------------------- 74 (161)
T PRK04069 28 GVANRMGFSYDDIEDMKIAVSEACTNAVQHAYKEDEVGEIHIRFEIY--------------------------------- 74 (161)
T ss_pred HHHHHcCCCHHHHHHHHHHHHHHHHHHHHhccCCCCCCeEEEEEEEE---------------------------------
Confidence 33345677643 24588899999999999996533223577776543
Q ss_pred HHHHHHHHHHHHHHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCccee
Q 008575 113 RLAKEARAQELQAKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGL 192 (561)
Q Consensus 113 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~Gl 192 (561)
.+.+.|.|+|+|+||+++.++..|..++..+... .....|+
T Consensus 75 ------------------------------------~~~l~i~V~D~G~g~d~~~~~~~~~p~~~~~~~~---~~~~~G~ 115 (161)
T PRK04069 75 ------------------------------------EDRLEIVVADNGVSFDYETLKSKLGPYDISKPIE---DLREGGL 115 (161)
T ss_pred ------------------------------------CCEEEEEEEECCcCCChHHhccccCCCCCCCccc---ccCCCce
Confidence 4679999999999999998888887664222211 1223589
Q ss_pred ehHhhHHHHHHhCCccEEEEe
Q 008575 193 GAKMALIWSKMSTGLPIEISS 213 (561)
Q Consensus 193 GL~la~l~s~l~~Gg~I~V~S 213 (561)
||.++..++. .+.+.+
T Consensus 116 GL~li~~l~d-----~v~~~~ 131 (161)
T PRK04069 116 GLFLIETLMD-----DVTVYK 131 (161)
T ss_pred eHHHHHHHHH-----hEEEEc
Confidence 9988887654 466665
No 83
>PRK10935 nitrate/nitrite sensor protein NarQ; Provisional
Probab=98.03 E-value=2.5e-05 Score=85.61 Aligned_cols=58 Identities=14% Similarity=0.059 Sum_probs=42.3
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEEE
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKLD 227 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L~ 227 (561)
.+.+.|+|.|||+|||++.. .+.|+||+++..+... .||.|++.|.+ +.++.+.+.|+
T Consensus 501 ~~~~~i~V~D~G~Gi~~~~~-------------------~~~glGL~i~~~iv~~-~~G~i~v~s~~-~~Gt~~~i~lP 558 (565)
T PRK10935 501 DGEHTVSIRDDGIGIGELKE-------------------PEGHYGLNIMQERAER-LGGTLTISQPP-GGGTTVSLTFP 558 (565)
T ss_pred CCEEEEEEEECCcCcCCCCC-------------------CCCCcCHHHHHHHHHH-cCCEEEEEECC-CCcEEEEEEEC
Confidence 35689999999999997431 1247899998888876 47789999986 44555555443
No 84
>PRK03660 anti-sigma F factor; Provisional
Probab=98.00 E-value=7e-05 Score=68.41 Aligned_cols=54 Identities=22% Similarity=0.301 Sum_probs=36.0
Q ss_pred CeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeee
Q 008575 150 SFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSM 215 (561)
Q Consensus 150 ~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~ 215 (561)
+.+.|+|.|+|+||++ ....|.+++ .++. ..+..|+||+++..+ .+.+.+.+..
T Consensus 73 ~~l~i~I~D~G~g~~~--~~~~~~~~~-~~~~----~~~~~GlGL~i~~~~-----~~~i~~~~~~ 126 (146)
T PRK03660 73 EELEITVRDEGKGIED--IEEAMQPLY-TTKP----ELERSGMGFTVMESF-----MDEVEVESEP 126 (146)
T ss_pred CEEEEEEEEccCCCCh--HHHhhCCCc-ccCC----CCCCccccHHHHHHh-----CCeEEEEecC
Confidence 5689999999999985 557787775 3221 113468998876532 3357776654
No 85
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=97.98 E-value=2.5e-05 Score=87.23 Aligned_cols=59 Identities=22% Similarity=0.280 Sum_probs=48.0
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeee
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSM 215 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~ 215 (561)
++.+.+.|.|||-|.|.+++.++|+++. |++- .+.|+||+++..+..-| ||.+++...+
T Consensus 637 ~g~i~v~V~DNGkG~p~e~r~r~~EPYv-Ttr~------KGTGLGLAiVKkIvEeH-GG~leL~da~ 695 (712)
T COG5000 637 DGRIVVDVIDNGKGFPRENRHRALEPYV-TTRE------KGTGLGLAIVKKIVEEH-GGRLELHNAP 695 (712)
T ss_pred CCeEEEEEecCCCCCChHHhhhhccCce-eccc------ccccccHHHHHHHHHhc-CCeEEecCCC
Confidence 5679999999999999999999999986 5542 23599999998877644 7788887776
No 86
>COG4192 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]
Probab=97.91 E-value=2.4e-05 Score=84.94 Aligned_cols=93 Identities=20% Similarity=0.371 Sum_probs=70.7
Q ss_pred CchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHH
Q 008575 45 GKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQ 124 (561)
Q Consensus 45 ~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~ 124 (561)
.-++.+++-|++-||+|||+.- .|+|.|+..-..
T Consensus 562 ~v~ieQVlvNl~~NaldA~~h~--~p~i~~~~~~~~-------------------------------------------- 595 (673)
T COG4192 562 AVSIEQVLVNLIVNALDASTHF--APWIKLIALGTE-------------------------------------------- 595 (673)
T ss_pred hhhHHHHHHHHHHHHHhhhccC--CceEEEEeecCc--------------------------------------------
Confidence 3578899999999999999754 389998875531
Q ss_pred HHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHh
Q 008575 125 AKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMS 204 (561)
Q Consensus 125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~ 204 (561)
.+..+|-|.|||+|-|.+-+++.|.+| +|||.- | -|+||+++..+..-.
T Consensus 596 ------------------------~e~l~i~i~DnGqGwp~~l~dkLl~PF-ttsK~v-----g-LGlGLSIsqSlmeqm 644 (673)
T COG4192 596 ------------------------QEMLRIAIIDNGQGWPHELVDKLLTPF-TTSKEV-----G-LGLGLSISQSLMEQM 644 (673)
T ss_pred ------------------------ccceEEEEecCCCCCchhHHHHhcCCc-cccccc-----c-cccchhHHHHHHHHh
Confidence 356899999999999999999999877 688842 2 377877766443322
Q ss_pred CCccEEEEeee
Q 008575 205 TGLPIEISSSM 215 (561)
Q Consensus 205 ~Gg~I~V~Sk~ 215 (561)
-|.+.+.|.-
T Consensus 645 -qG~l~lAStL 654 (673)
T COG4192 645 -QGRLALASTL 654 (673)
T ss_pred -cCcchHhhhc
Confidence 3578877764
No 87
>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=97.79 E-value=0.00027 Score=66.95 Aligned_cols=101 Identities=18% Similarity=0.182 Sum_probs=69.0
Q ss_pred ccccCccC-CCchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHH
Q 008575 36 KNIAGFDN-PGKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRL 114 (561)
Q Consensus 36 k~i~Gfdn-~~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~ 114 (561)
-...||+. ....|-..+.|++.||+.++-..+.-..|.|++...
T Consensus 30 a~~~g~~~~~~~~l~lav~Ea~~Nai~ha~~~~~~~~I~I~~~~~----------------------------------- 74 (159)
T TIGR01924 30 ASRAGYTYDDIEDLKIAVSEACTNAVKHAYKEGENGEIGISFHIY----------------------------------- 74 (159)
T ss_pred HHhcCCChHHHHHHHHHHHHHHHHHHHhccCCCCCCeEEEEEEEe-----------------------------------
Confidence 33457773 224578889999999999996433223577776543
Q ss_pred HHHHHHHHHHHHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeeh
Q 008575 115 AKEARAQELQAKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGA 194 (561)
Q Consensus 115 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL 194 (561)
.+.+.|.|+|+|+|++++.++..|.++. +.... ......|+||
T Consensus 75 ----------------------------------~~~l~i~V~D~G~gfd~~~~~~~~~~~~-~~~~~--~~~~~~G~GL 117 (159)
T TIGR01924 75 ----------------------------------EDRLEIIVSDQGDSFDMDTFKQSLGPYD-GSEPI--DDLREGGLGL 117 (159)
T ss_pred ----------------------------------CCEEEEEEEEcccccCchhhccccCCCC-CCCCc--ccCCCCccCH
Confidence 3568999999999999999888887653 33221 1122358999
Q ss_pred HhhHHHHHHhCCccEEEEe
Q 008575 195 KMALIWSKMSTGLPIEISS 213 (561)
Q Consensus 195 ~la~l~s~l~~Gg~I~V~S 213 (561)
.++..++. .+.+.+
T Consensus 118 ~Li~~L~D-----~v~~~~ 131 (159)
T TIGR01924 118 FLIETLMD-----EVEVYE 131 (159)
T ss_pred HHHHHhcc-----EEEEEe
Confidence 99887654 466665
No 88
>PRK13559 hypothetical protein; Provisional
Probab=97.73 E-value=0.00026 Score=73.25 Aligned_cols=56 Identities=14% Similarity=0.180 Sum_probs=39.3
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCceEEEEEE
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHNFISFCKL 226 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~L 226 (561)
.+.+.|.|.|||.|++++.. ..|+|+.++..+.....||.+++.+.. .+..+.+.|
T Consensus 302 ~~~~~i~v~d~G~~~~~~~~--------------------~~g~Gl~i~~~~v~~~~gG~i~~~~~~--~G~~~~l~~ 357 (361)
T PRK13559 302 GAGFRIDWQEQGGPTPPKLA--------------------KRGFGTVIIGAMVESQLNGQLEKTWSD--DGLLARIEI 357 (361)
T ss_pred CCeEEEEEECCCCCCCCCCC--------------------CCCcHHHHHHHHHHHHcCCeEEEEEcC--CeEEEEEEE
Confidence 45789999999999776411 237899988877765458899998863 344444444
No 89
>COG4585 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=97.68 E-value=0.0002 Score=75.52 Aligned_cols=80 Identities=24% Similarity=0.294 Sum_probs=60.9
Q ss_pred chHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHH
Q 008575 46 KSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQA 125 (561)
Q Consensus 46 k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~~ 125 (561)
..||.+++|.+.|++.++... ++.|++...
T Consensus 278 ~~l~rivQEaltN~~rHa~A~----~v~V~l~~~---------------------------------------------- 307 (365)
T COG4585 278 DALFRIVQEALTNAIRHAQAT----EVRVTLERT---------------------------------------------- 307 (365)
T ss_pred HHHHHHHHHHHHHHHhccCCc----eEEEEEEEc----------------------------------------------
Confidence 479999999999999999654 588888665
Q ss_pred HHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhC
Q 008575 126 KNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMST 205 (561)
Q Consensus 126 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~ 205 (561)
++.+.++|.|||.|.+++... .|+||....--+.. -
T Consensus 308 -----------------------~~~l~l~V~DnG~Gf~~~~~~--------------------~~~GL~~mreRv~~-l 343 (365)
T COG4585 308 -----------------------DDELRLEVIDNGVGFDPDKEG--------------------GGFGLLGMRERVEA-L 343 (365)
T ss_pred -----------------------CCEEEEEEEECCcCCCccccC--------------------CCcchhhHHHHHHH-c
Confidence 456999999999999887552 15676665554443 3
Q ss_pred CccEEEEeeeCCCce
Q 008575 206 GLPIEISSSMRSHNF 220 (561)
Q Consensus 206 Gg~I~V~Sk~~g~~~ 220 (561)
||.++|.|.+ |.++
T Consensus 344 gG~l~i~S~~-g~Gt 357 (365)
T COG4585 344 GGTLTIDSAP-GQGT 357 (365)
T ss_pred CCEEEEEecC-CCce
Confidence 8899999987 5543
No 90
>KOG0787 consensus Dehydrogenase kinase [Signal transduction mechanisms]
Probab=97.51 E-value=0.00062 Score=72.68 Aligned_cols=109 Identities=21% Similarity=0.345 Sum_probs=80.1
Q ss_pred chHHHHHHHHHHcHHHHHhhcC-----CCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHH
Q 008575 46 KSLYTTVRELVENSLDSAESIS-----ELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARA 120 (561)
Q Consensus 46 k~L~t~irelVeNslDa~e~~~-----~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~ 120 (561)
.-|+-++-||.-||+.|.-+.+ .+|.|.|+|-.-
T Consensus 259 shL~ymlfElfKNamrATve~h~~~~~~~ppI~V~V~~g----------------------------------------- 297 (414)
T KOG0787|consen 259 SHLYYMLFELFKNAMRATVEHHGDDGDELPPIKVTVAKG----------------------------------------- 297 (414)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhccCCCCCCCeEEEEecC-----------------------------------------
Confidence 5699999999999999985432 378899988332
Q ss_pred HHHHHHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccc-----cCCCcceeehH
Q 008575 121 QELQAKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLK-----QTRGKFGLGAK 195 (561)
Q Consensus 121 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~-----~s~G~~GlGL~ 195 (561)
++.+.|.|+|-|=||+.++++++|.-+|+|..-... ....++|.||.
T Consensus 298 ----------------------------deDl~ikISDrGGGV~~~~~drlf~Y~ySTa~~~~~d~~~~~plaGfG~GLP 349 (414)
T KOG0787|consen 298 ----------------------------DEDLLIKISDRGGGVPHRDIDRLFSYMYSTAPAPSSDNNRTAPLAGFGFGLP 349 (414)
T ss_pred ----------------------------CcceEEEEecCCCCcChhHHHHHHhhhcccCCCCCCCCCCcCcccccccCCc
Confidence 456889999999999999999999866633222111 11345899999
Q ss_pred hhHHHHHHhCCccEEEEeeeCCCceEEEEE
Q 008575 196 MALIWSKMSTGLPIEISSSMRSHNFISFCK 225 (561)
Q Consensus 196 la~l~s~l~~Gg~I~V~Sk~~g~~~~~~~~ 225 (561)
++.+|+... ||.+.+.|-. |-++-.+..
T Consensus 350 isrlYa~yf-~Gdl~L~Sle-G~GTD~yI~ 377 (414)
T KOG0787|consen 350 ISRLYARYF-GGDLKLQSLE-GIGTDVYIY 377 (414)
T ss_pred HHHHHHHHh-CCCeeEEeee-ccccceEEE
Confidence 999999875 6689999975 444333333
No 91
>PF14501 HATPase_c_5: GHKL domain
Probab=97.34 E-value=0.0047 Score=53.61 Aligned_cols=86 Identities=15% Similarity=0.263 Sum_probs=61.6
Q ss_pred chHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHH
Q 008575 46 KSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKEARAQELQA 125 (561)
Q Consensus 46 k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~~~~~~~~~ 125 (561)
-+|..++.+|+|||++||+....-+.|.|.+...
T Consensus 4 ~dl~~il~nlldNAiea~~~~~~~~~I~i~~~~~---------------------------------------------- 37 (100)
T PF14501_consen 4 LDLCRILGNLLDNAIEACKKYEDKRFISISIREE---------------------------------------------- 37 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCcEEEEEEEec----------------------------------------------
Confidence 3689999999999999999876457788888664
Q ss_pred HHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhC
Q 008575 126 KNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMST 205 (561)
Q Consensus 126 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~ 205 (561)
++.+.|.|++.-.. +... +. +++ ...+.+|+||..+..+....
T Consensus 38 -----------------------~~~~~i~i~N~~~~----~~~~----~~-~~~----~~~~~~G~GL~~v~~i~~~y- 80 (100)
T PF14501_consen 38 -----------------------NGFLVIIIENSCEK----EIEK----LE-SSS----SKKKGHGIGLKNVKKILEKY- 80 (100)
T ss_pred -----------------------CCEEEEEEEECCCC----cccc----cc-ccc----cCCCCCCcCHHHHHHHHHHC-
Confidence 46789999988544 2222 21 221 12455799999999888765
Q ss_pred CccEEEEee
Q 008575 206 GLPIEISSS 214 (561)
Q Consensus 206 Gg~I~V~Sk 214 (561)
+|.+.+.+.
T Consensus 81 ~g~~~~~~~ 89 (100)
T PF14501_consen 81 NGSLSIESE 89 (100)
T ss_pred CCEEEEEEE
Confidence 557776554
No 92
>COG2972 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]
Probab=97.32 E-value=0.0012 Score=72.34 Aligned_cols=57 Identities=23% Similarity=0.318 Sum_probs=40.7
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCcc-EEEEeeeC
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLP-IEISSSMR 216 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~-I~V~Sk~~ 216 (561)
++.+.++|.|||+||+++....+.. +... + .|+||.-+....+.+.|.+ +.+.|+..
T Consensus 384 ~~~i~i~i~Dng~g~~~~~~~~~~~------~~~~---r--~giGL~Nv~~rl~~~~g~~~~~i~s~~~ 441 (456)
T COG2972 384 DDVIQISISDNGPGIDEEKLEGLST------KGEN---R--SGIGLSNVKERLKLYFGEPGLSIDSQPG 441 (456)
T ss_pred CCEEEEEEeeCCCCCChhHHHHHHh------hccC---c--ccccHHHHHHHHHHeeCCcceeEeecCC
Confidence 4789999999999999988755432 2111 1 5999887777777666763 67777763
No 93
>PF13581 HATPase_c_2: Histidine kinase-like ATPase domain
Probab=97.25 E-value=0.0033 Score=55.89 Aligned_cols=91 Identities=16% Similarity=0.199 Sum_probs=61.7
Q ss_pred cCccCC-CchHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEecccccccccccccccccccccccchHHHHHHHHHHHHH
Q 008575 39 AGFDNP-GKSLYTTVRELVENSLDSAESISELPVVEITIEEIGKSKFNSMIGLVDRERVDTKLYDDYETEKARERRLAKE 117 (561)
Q Consensus 39 ~Gfdn~-~k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~~~~~~n~~~~~~~~~r~d~~~~~~~e~~~~~~~~~~~~ 117 (561)
.||+.. ...+..++.|++.||+.++.....-..|.|+++..
T Consensus 22 ~~~~~~~~~~~~lav~E~~~Nav~H~~~~~~~~~v~v~~~~~-------------------------------------- 63 (125)
T PF13581_consen 22 LGLPEEDRDDLELAVSEALTNAVEHGYPGDPDGPVDVRLEVD-------------------------------------- 63 (125)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCCcEEEEEEEEc--------------------------------------
Confidence 567643 23688889999999999997643323466665443
Q ss_pred HHHHHHHHHHhhccCcccCcccccCCCCCCCCCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhh
Q 008575 118 ARAQELQAKNAALGKKVKEPSATKGAKGRGEASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMA 197 (561)
Q Consensus 118 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la 197 (561)
.+.+.|+|.|+|+|+++..++.....-. ......|.||.++
T Consensus 64 -------------------------------~~~l~i~v~D~G~~~d~~~~~~~~~~~~--------~~~~~~G~Gl~li 104 (125)
T PF13581_consen 64 -------------------------------PDRLRISVRDNGPGFDPEQLPQPDPWEP--------DSLREGGRGLFLI 104 (125)
T ss_pred -------------------------------CCEEEEEEEECCCCCChhhccCcccccC--------CCCCCCCcCHHHH
Confidence 4679999999999999887655422110 1223458898888
Q ss_pred HHHHHHhCCccEEE
Q 008575 198 LIWSKMSTGLPIEI 211 (561)
Q Consensus 198 ~l~s~l~~Gg~I~V 211 (561)
..++. .+.+
T Consensus 105 ~~l~D-----~~~~ 113 (125)
T PF13581_consen 105 RSLMD-----EVDY 113 (125)
T ss_pred HHHHc-----EEEE
Confidence 87765 4666
No 94
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=97.22 E-value=0.00093 Score=77.33 Aligned_cols=74 Identities=19% Similarity=0.219 Sum_probs=52.6
Q ss_pred CCeeEEEEEeCCCCCCcCChh------------------------hhhcccccccccccccCCCcceeehHhhHHHHHHh
Q 008575 149 ASFYRVTCKDNGKGMPHDDIP------------------------NMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMS 204 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~------------------------~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~ 204 (561)
++++.|+|+|+|.||+++.+. .||.+.|+ |+-.. ....++|+|+=.+..-.+ .
T Consensus 474 gn~ivIev~DDG~Gid~ekI~~KAiErGli~~~~a~~lSd~Ei~~LIF~PGFS-Ta~~V-tdvSGRGVGMDVVk~~I~-~ 550 (716)
T COG0643 474 GNNIVIEVSDDGAGIDREKIREKAIERGLITEEEAETLSDEEILNLIFAPGFS-TAEQV-TDVSGRGVGMDVVKTNIE-Q 550 (716)
T ss_pred CCeEEEEEeeCCCCCCHHHHHHHHHHcCCCChHHhccCCHHHHHHHHhcCCCC-cchhh-hcccCCccCHHHHHHHHH-H
Confidence 588999999999999987753 37888873 33222 123456999877765444 3
Q ss_pred CCccEEEEeeeCCCceEEEEEE
Q 008575 205 TGLPIEISSSMRSHNFISFCKL 226 (561)
Q Consensus 205 ~Gg~I~V~Sk~~g~~~~~~~~L 226 (561)
.||.|.|.|.+ |.++.|...|
T Consensus 551 LgG~I~V~S~~-G~GT~Fti~L 571 (716)
T COG0643 551 LGGSISVSSEP-GKGTTFTIRL 571 (716)
T ss_pred cCCEEEEEecC-CCCeEEEEec
Confidence 48999999987 7777665554
No 95
>PF05833 FbpA: Fibronectin-binding protein A N-terminus (FbpA); InterPro: IPR008616 This family consists of the N-terminal region of the prokaryotic fibronectin-binding protein, the C-terminal region is IPR008532 from INTERPRO. Fibronectin binding is considered to be an important virulence factor in streptococcal infections. Fibronectin is a dimeric glycoprotein that is present in a soluble form in plasma and extracellular fluids; it is also present in a fibrillar form on cell surfaces. Both the soluble and cellular forms of fibronectin may be incorporated into the extracellular tissue matrix. While fibronectin has critical roles in eukaryotic cellular processes, such as adhesion, migration and differentiation, it is also a substrate for the attachment of bacteria. The binding of pathogenic Streptococcus pyogenes and Staphylococcus aureus to epithelial cells via fibronectin facilitates their internalisation and systemic spread within the host [].; PDB: 3DOA_A 2ZBK_F 2HKJ_A 1Z5B_A 1Z5C_B 1MX0_F 1Z5A_A 1MU5_A 1Z59_A.
Probab=96.83 E-value=0.0027 Score=69.20 Aligned_cols=105 Identities=18% Similarity=0.321 Sum_probs=64.6
Q ss_pred CCCcEEEEEEcccccCcceEEEeccccCC-------CC-----CCCcccccCCccccH-HHHHHHHHhcCCcchHHHhhc
Q 008575 280 TPYAQFLFKFVSEVAEKNVTIRFSRRTDV-------MP-----PVPVETKHHPSSVDL-LLIKGLIAETSKGTLLQFLQH 346 (561)
Q Consensus 280 nP~a~~~l~~~~~~pdg~~~~~f~R~t~~-------lP-----~~P~eikpHP~Gvdl-~~L~~m~~~t~~~tl~~FL~~ 346 (561)
-+|..+.|. |.++.+...+.|++.. +| +||...+..|..++. +.+..++.. ...+|..+|.+
T Consensus 121 g~~~NiiL~----d~~~~Il~a~~~~~~~~~~~R~i~~G~~Y~~Pp~~~~~~p~~~~~~~~~~~~l~~-~~~~l~~~L~~ 195 (455)
T PF05833_consen 121 GRHSNIILT----DEDGKILDALRRVSFSQSRDREILPGEPYIPPPPQDKLDPLDLEEFEEFIELLKK-KEKTLVKALSK 195 (455)
T ss_dssp GGG-EEEEE----ETT-BEEEESS-B---------BSTTSB---------B-CCC--H-HHHHHHHHC-CG-BHHHHHHH
T ss_pred CCcccEEEE----cCCCeEEeehhhcCcccccceeeccCccccccccccCCCcccchhHHHHHHhhcc-CcccHHHHHHH
Confidence 344556665 5666654444444332 22 355556788887665 677777766 77899999999
Q ss_pred ccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHHhC
Q 008575 347 EFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFRQA 391 (561)
Q Consensus 347 ~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~~~ 391 (561)
.|.++|..+|+++|.. +++++++++.+|+++++.+|.++++++
T Consensus 196 ~~~G~~~~la~ei~~r--a~i~~~~~~~~~~~~~~~~l~~~~~~l 238 (455)
T PF05833_consen 196 NFQGFGPELAEEILYR--AGIDKNKKVEELSDEEIEKLFEAIREL 238 (455)
T ss_dssp HCTT--HHHHHHHHCC--CTS-TTSBGGG--HHHHCHHHHHHHHH
T ss_pred HHHHhHHHHHHHHHHH--hCCCCccccccchhhhHHHHHHHHHHh
Confidence 9999999999999988 679999999999999998888887765
No 96
>COG3850 NarQ Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]
Probab=96.77 E-value=0.0078 Score=67.04 Aligned_cols=29 Identities=24% Similarity=0.430 Sum_probs=23.5
Q ss_pred hHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEe
Q 008575 47 SLYTTVRELVENSLDSAESISELPVVEITIEEI 79 (561)
Q Consensus 47 ~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~ 79 (561)
-|.+++||.+.|+++++... +|+|++..-
T Consensus 481 HlLqIvREAlsNa~KHa~As----~i~V~~~~~ 509 (574)
T COG3850 481 HLLQIVREALSNAIKHAQAS----EIKVTVSQN 509 (574)
T ss_pred HHHHHHHHHHHHHHHhcccC----eEEEEEEec
Confidence 57899999999999999543 588888654
No 97
>KOG0355 consensus DNA topoisomerase type II [Chromatin structure and dynamics]
Probab=96.60 E-value=0.0018 Score=74.71 Aligned_cols=97 Identities=22% Similarity=0.251 Sum_probs=59.6
Q ss_pred eeEEEEEeCCCCCCcCChh--------hhhccccccccccc---ccCCCcceeehHhhHHHHHHhCCccEEEEeeeCCCc
Q 008575 151 FYRVTCKDNGKGMPHDDIP--------NMFGRVLSGTKYGL---KQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRSHN 219 (561)
Q Consensus 151 ~~~I~V~DNG~GI~~e~l~--------~iF~r~~~tSK~~~---~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g~~ 219 (561)
...|+|.|||.|||-+.++ .+|+.++++|++.. +-+.|..|+|.+++...+- -..+++.++..+.
T Consensus 85 ~~~isv~nnGkGIPv~~H~~ek~yvpelifg~Lltssny~d~ekK~tggrngygakLcniFs~---~f~~Et~d~~~~~- 160 (842)
T KOG0355|consen 85 KNEISVYNNGKGIPVTIHKVEKVYVPELIFGNLLTSSNYDDDEKKVTGGRNGYGAKLCNIFST---EFTVETADREYKM- 160 (842)
T ss_pred CCEEEEEeCCCcceeeecccccccchHHHHhhhhhccccCCCccccccCCCccceeeeeeccc---cceeeeeehHhHH-
Confidence 3579999999999988765 48999999999842 3456778999888887763 2345554443222
Q ss_pred eEEEEEEEeeccCCCceeeeeccccCCCCCCCcEEEEE
Q 008575 220 FISFCKLDIDIHRNIPHVHLHEKRENKDRWHGAEIQVV 257 (561)
Q Consensus 220 ~~~~~~L~id~~kN~p~Il~~e~~~~~~~~~GT~V~V~ 257 (561)
.|.+ .|..|.+.-.+..... ..+..+|.|++.
T Consensus 161 -~~kQ----~w~~nm~~~~~~~i~~-~~~~~yTkitF~ 192 (842)
T KOG0355|consen 161 -AFKQ----TWINNMTRDEEPKIVP-STDEDYTKITFS 192 (842)
T ss_pred -HHHH----hhhcCCcccCCceeec-CCCCCcceEEeC
Confidence 2222 2333433211111111 123349999988
No 98
>PRK14810 formamidopyrimidine-DNA glycosylase; Provisional
Probab=96.59 E-value=0.016 Score=59.95 Aligned_cols=75 Identities=13% Similarity=0.251 Sum_probs=66.2
Q ss_pred cccccCCccccHHHHHHHHHhcCCcchHHHhhcc--cccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHHhC
Q 008575 314 VETKHHPSSVDLLLIKGLIAETSKGTLLQFLQHE--FVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFRQA 391 (561)
Q Consensus 314 ~eikpHP~Gvdl~~L~~m~~~t~~~tl~~FL~~~--f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~~~ 391 (561)
...-|+|...+.+.+.+++.. ....+..+|..+ +++||.-.|.|||=. ++++|.++.++|+++|+.+|+++++++
T Consensus 132 ~~LGpdpl~~~~~~~~~~~~~-~~~~ik~~Lldq~viaGiGNiya~EiLf~--a~i~P~~~~~~l~~~~~~~l~~a~~~v 208 (272)
T PRK14810 132 ARPGPEPLEISFEDFAALFRG-RKTRIKSALLNQTLLRGVGNIYADEALFR--AGIRPQRLASSLSRERLRKLHDAIGEV 208 (272)
T ss_pred hhCCCCCCCCCHHHHHHHHhc-CCccHHHHhhcCceeccccHhHHHHHHHH--cCCCCCCCcccCCHHHHHHHHHHHHHH
Confidence 467788888888899998865 456899999887 999999999999976 789999999999999999999988875
No 99
>COG3920 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=96.38 E-value=0.033 Score=55.86 Aligned_cols=34 Identities=29% Similarity=0.174 Sum_probs=26.1
Q ss_pred chHHHHHHHHHHcHHHHHhhcCCCCeEEEEEEEe
Q 008575 46 KSLYTTVRELVENSLDSAESISELPVVEITIEEI 79 (561)
Q Consensus 46 k~L~t~irelVeNslDa~e~~~~lP~I~i~i~~~ 79 (561)
-.|--++.|||.||++|+--.+.--.|.|++...
T Consensus 121 ~~Lgliv~EL~tNa~Khaf~~~~~G~I~I~~~~~ 154 (221)
T COG3920 121 VPLGLIVHELVTNALKHAFLSRPGGEIRITLSRE 154 (221)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCCCCEEEEEEEEc
Confidence 4677889999999999996543334688888665
No 100
>COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]
Probab=96.32 E-value=0.019 Score=61.54 Aligned_cols=28 Identities=29% Similarity=0.445 Sum_probs=21.5
Q ss_pred CchHHHHHHHHHHcHHHHHhhcCCCCeEEEEE
Q 008575 45 GKSLYTTVRELVENSLDSAESISELPVVEITI 76 (561)
Q Consensus 45 ~k~L~t~irelVeNslDa~e~~~~lP~I~i~i 76 (561)
.-.||.++.|++.|-.++|+... |.|.+
T Consensus 408 rvTLyRl~QE~LNNI~KHA~AS~----V~i~l 435 (497)
T COG3851 408 RVTLYRLCQELLNNICKHADASA----VTIQL 435 (497)
T ss_pred eEeHHHHHHHHHHHHHhccccce----EEEEE
Confidence 34799999999999999997542 55544
No 101
>PF06831 H2TH: Formamidopyrimidine-DNA glycosylase H2TH domain; InterPro: IPR015886 This entry represents a helix-2turn-helix DNA-binding domain found in DNA glycosylase/AP lyase enzymes, which are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Most damage to bases in DNA is repaired by the base excision repair pathway []. These enzymes are primarily from bacteria, and have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC). Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines [, ]. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above (3.2.2 from EC, 4.2.99.18 from EC), but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine []. These protein contains three structural domains: an N-terminal catalytic core domain, a central helix-two turn-helix (H2TH) module and a C-terminal zinc finger []. The N-terminal catalytic domain and the C-terminal zinc finger straddle the DNA with the long axis of the protein oriented roughly orthogonal to the helical axis of the DNA. Residues that contact DNA are located in the catalytic domain and in a beta-hairpin loop formed by the zinc finger []. This entry represents the central domain containing the DNA-binding helix-two turn-helix domain [].; GO: 0003684 damaged DNA binding, 0003906 DNA-(apurinic or apyrimidinic site) lyase activity, 0008270 zinc ion binding, 0016799 hydrolase activity, hydrolyzing N-glycosyl compounds, 0006289 nucleotide-excision repair; PDB: 3GQ3_A 3JR5_A 3SAT_A 3GPX_A 2F5Q_A 3SBJ_A 3U6S_A 3SAU_A 3SAR_A 2F5P_A ....
Probab=95.96 E-value=0.023 Score=49.57 Aligned_cols=66 Identities=15% Similarity=0.301 Sum_probs=54.6
Q ss_pred ccHHHHHHHHHhcCCcchHHHhhc--ccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHHhC
Q 008575 323 VDLLLIKGLIAETSKGTLLQFLQH--EFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFRQA 391 (561)
Q Consensus 323 vdl~~L~~m~~~t~~~tl~~FL~~--~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~~~ 391 (561)
.+.+.+.+.+.. +.+.+..+|.. -|++||.-.|.|||=. +++.|..+..+|+++|+.+|+++++.+
T Consensus 10 ~~~~~~~~~l~~-~~~~ik~~LlDQ~~iaGiGNiy~~EiLf~--a~i~P~~~~~~L~~~~~~~l~~~~~~v 77 (92)
T PF06831_consen 10 FDAEYFAERLRK-RRRPIKAALLDQSVIAGIGNIYADEILFR--AGIHPERPASSLSEEELRRLHEAIKRV 77 (92)
T ss_dssp S-HHHHHHHHHT-CCSBHHHHHHCTTTSTT--HHHHHHHHHH--TTB-TTSBGGGSHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHhc-CcchHHHHHhCCCccccCcHHHHHHHHHH--cCCCccCccccCCHHHHHHHHHHHHHH
Confidence 355778888877 57899999976 6999999999999976 789999999999999999999999875
No 102
>COG2172 RsbW Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]
Probab=94.91 E-value=0.39 Score=45.38 Aligned_cols=57 Identities=21% Similarity=0.190 Sum_probs=35.7
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHhCCccEEEEeeeCC
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMSTGLPIEISSSMRS 217 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~~Gg~I~V~Sk~~g 217 (561)
.+.+.|.|.|.|+||. ++...++..+ ++.-. .-..|+||.++..+.. .+++.+...+
T Consensus 74 ~~~~~i~i~D~G~~~~--~~~~~~~~~~-~~~~~----~~~~G~Gl~l~~~~~D-----~~~~~~~~~~ 130 (146)
T COG2172 74 DGKLEIRIWDQGPGIE--DLEESLGPGD-TTAEG----LQEGGLGLFLAKRLMD-----EFSYERSEDG 130 (146)
T ss_pred CCeEEEEEEeCCCCCC--CHHHhcCCCC-CCCcc----cccccccHHHHhhhhe-----eEEEEeccCC
Confidence 4569999999997665 5666666663 22211 1123888888876543 5777755434
No 103
>PRK01103 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated
Probab=94.27 E-value=0.089 Score=54.34 Aligned_cols=74 Identities=18% Similarity=0.209 Sum_probs=62.6
Q ss_pred ccccCCccc--cHHHHHHHHHhcCCcchHHHh--hcccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHHh
Q 008575 315 ETKHHPSSV--DLLLIKGLIAETSKGTLLQFL--QHEFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFRQ 390 (561)
Q Consensus 315 eikpHP~Gv--dl~~L~~m~~~t~~~tl~~FL--~~~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~~ 390 (561)
..-|.|... +.+.+.+.++. ....+..+| ++-+++||.-.|.|||=. ++++|..+.++|+++|+.+|++++++
T Consensus 132 ~LGpdpl~~~~~~~~~~~~l~~-~~~~Ik~~LLDQ~~iaGiGNiya~EiLf~--a~I~P~~~~~~Ls~~~~~~L~~~~~~ 208 (274)
T PRK01103 132 HLGPEPLSDAFDGEYLAAKLRK-KKTAIKPALLDQTVVVGVGNIYADEALFR--AGIHPERPAGSLSRAEAERLVDAIKA 208 (274)
T ss_pred hcCCCCCCccCCHHHHHHHHhc-CCccHHHHhhcCCeEecccHhHHHHHHHH--cCCCccCccccCCHHHHHHHHHHHHH
Confidence 455788765 44678888865 457999999 456999999999999976 78999999999999999999999988
Q ss_pred C
Q 008575 391 A 391 (561)
Q Consensus 391 ~ 391 (561)
+
T Consensus 209 v 209 (274)
T PRK01103 209 V 209 (274)
T ss_pred H
Confidence 5
No 104
>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=94.16 E-value=0.67 Score=44.54 Aligned_cols=114 Identities=24% Similarity=0.345 Sum_probs=70.2
Q ss_pred EEEEEEeeecCccCCCCceEEEeeccccccccCCC------chhhhhhhcccCcccccc------CCC--CCceEEEEEe
Q 008575 437 FIVEAGVSVGGKDVKQGLNIFRFANRIPLLFEQGG------DVVTRTAMKRINWSSYKI------NQT--QDKIGVFVSI 502 (561)
Q Consensus 437 fiVEa~iayGg~~~~~~~~i~RfANriPLlf~~g~------~~it~~~~~~i~W~~Y~i------~~~--~~~~~v~vhi 502 (561)
.-||+|+.|+- .... .++=|+|-||. .++|. +.+++ +|...==+.+.+ ... ...+.++||+
T Consensus 33 ~~v~va~~~~~--~~~~-~~~SfvN~i~T-~~GGtHv~g~~~~i~~-~i~~~~~k~~~~k~~~~i~~~di~~~l~~vv~~ 107 (173)
T PF00204_consen 33 WEVEVAFQWTS--GYDE-KIVSFVNNIPT-PEGGTHVDGFKDAITK-AINDYAKKKNKLKKKDKITPEDIREGLTAVVSV 107 (173)
T ss_dssp EEEEEEEEEBS--SSSC-EEEEEETTEE--TTEBHHHHHHHHHHHH-HHHHHHHHTTCCCTTTGSSHHHHHTTEEEEEEE
T ss_pred EEEEEEEEecC--CCce-eeeeeeccccc-cccccHHHHHHHHHHH-HHHHhHhhhCccccccccchhhcccccEEEEEE
Confidence 89999999972 1224 89999999999 66665 45666 553222222322 111 1458999999
Q ss_pred eeCCCCCCCCcccccCCChHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHh
Q 008575 503 VSTKIPFKGTGKEYIGDDTKEIASAVKSAIQQ-----------CCIQLKSKIVRKIQDREQQERKR 557 (561)
Q Consensus 503 ~St~vPf~~~~Ke~ia~~~~EI~~ei~~al~~-----------~~r~L~~~l~r~~~~~~~~~r~~ 557 (561)
-.++--|.|-.|+.+. .+++..-+..++.+ .++.+-.++..+++++++.+|.+
T Consensus 108 ~i~nP~F~gQTK~~L~--~~~~~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~~r~~ak~ar 171 (173)
T PF00204_consen 108 KIPNPQFEGQTKEKLT--NPEVRSIVEKAVSEKLEKWLEKNPEIAKAIIEKALQAAKAREAAKKAR 171 (173)
T ss_dssp EESSG-BSSTTTTSB----HHHHHHHHHHHHHHHHHHHHC-HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred EEecccccccccceee--HHHhhhhhhhhhHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 9999999999999998 47777555544332 33344444445555555555543
No 105
>PRK13945 formamidopyrimidine-DNA glycosylase; Provisional
Probab=94.05 E-value=0.29 Score=50.91 Aligned_cols=75 Identities=15% Similarity=0.207 Sum_probs=63.2
Q ss_pred cccccCCcc--ccHHHHHHHHHhcCCcchHHHhhc--ccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHH
Q 008575 314 VETKHHPSS--VDLLLIKGLIAETSKGTLLQFLQH--EFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFR 389 (561)
Q Consensus 314 ~eikpHP~G--vdl~~L~~m~~~t~~~tl~~FL~~--~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~ 389 (561)
...-|.|.. .+.+.+.+.++. ....+..+|.. -+++||.-.|.|||=. ++++|..+..+|+++|+++|+++++
T Consensus 140 ~~LGpDpL~~~~~~~~~~~~l~~-~~~~IK~~LLDQ~~vaGIGNiya~EiLf~--A~IhP~~~~~~Ls~~~~~~L~~~i~ 216 (282)
T PRK13945 140 QKLGPEPFSPEFSVEYLKKKLKK-RTRSIKTALLDQSIVAGIGNIYADESLFK--AGIHPTTPAGQLKKKQLERLREAII 216 (282)
T ss_pred HhcCCCcCCCCCCHHHHHHHHhc-CCccHHHHhhcCCeEeccchhHHHHHHHH--cCCCccCccccCCHHHHHHHHHHHH
Confidence 456677765 456778888865 57799999976 5999999999999955 7899999999999999999999998
Q ss_pred hC
Q 008575 390 QA 391 (561)
Q Consensus 390 ~~ 391 (561)
++
T Consensus 217 ~v 218 (282)
T PRK13945 217 EV 218 (282)
T ss_pred HH
Confidence 75
No 106
>COG3275 LytS Putative regulator of cell autolysis [Signal transduction mechanisms]
Probab=93.73 E-value=0.38 Score=53.57 Aligned_cols=35 Identities=23% Similarity=0.275 Sum_probs=25.2
Q ss_pred CeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHH
Q 008575 150 SFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKM 203 (561)
Q Consensus 150 ~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l 203 (561)
..++|.|+|||.||+++ + ..+.|+||..+..--..
T Consensus 491 ~~l~i~VeDng~li~p~------------~-------~~g~giGL~nv~~RLk~ 525 (557)
T COG3275 491 ADLRIEVEDNGGLIQPD------------E-------EDGTGIGLANVHKRLKL 525 (557)
T ss_pred CeEEEEEecCCCCcCCC------------C-------CCCCChHHHHHHHHHHH
Confidence 45899999999999998 1 22357887776654443
No 107
>COG0099 RpsM Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]
Probab=93.68 E-value=0.077 Score=48.77 Aligned_cols=43 Identities=21% Similarity=0.364 Sum_probs=39.8
Q ss_pred cccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHHh
Q 008575 346 HEFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFRQ 390 (561)
Q Consensus 346 ~~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~~ 390 (561)
..+-+||..+|.+||+. +||+++++.++||++|+.+|-+++++
T Consensus 20 t~IyGIG~~~a~~I~~~--~gi~~~~r~~eLteeei~~ir~~i~~ 62 (121)
T COG0099 20 TYIYGIGRRRAKEICKK--AGIDPDKRVGELTEEEIERLRDAIQN 62 (121)
T ss_pred hhhccccHHHHHHHHHH--cCCCHhHhhccCCHHHHHHHHHHHHh
Confidence 45789999999999999 67999999999999999999999985
No 108
>TIGR00577 fpg formamidopyrimidine-DNA glycosylase (fpg). All proteins in the FPG family with known functions are FAPY-DNA glycosylases that function in base excision repair. Homologous to endonuclease VIII (nei). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.43 E-value=0.21 Score=51.67 Aligned_cols=75 Identities=17% Similarity=0.229 Sum_probs=63.3
Q ss_pred cccccCCcc--ccHHHHHHHHHhcCCcchHHHhhc--ccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHH
Q 008575 314 VETKHHPSS--VDLLLIKGLIAETSKGTLLQFLQH--EFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFR 389 (561)
Q Consensus 314 ~eikpHP~G--vdl~~L~~m~~~t~~~tl~~FL~~--~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~ 389 (561)
...-|.|.. .+.+.+.+.++. ....+..+|.. =+++||.-.|.|||=. +++.|..+..+|+++|+++|+++++
T Consensus 131 ~~LGpDpl~~~~~~~~~~~~l~~-~~~~Ik~~LlDQ~vvaGIGNiyadEiLf~--a~I~P~~~~~~Ls~~~~~~L~~~i~ 207 (272)
T TIGR00577 131 AKLGPEPLSEDFTAEYLFEKLAK-SKRKIKTALLDQRLVAGIGNIYADEVLFR--AGIHPERLANSLSKEECELLHRAIK 207 (272)
T ss_pred HhcCCCCCCCcCCHHHHHHHHhc-CCCcHHHHHhcCCeEecccHHHHHHHHHH--cCCCcchhhccCCHHHHHHHHHHHH
Confidence 346677775 456778888875 46799999987 4999999999999965 7899999999999999999999998
Q ss_pred hC
Q 008575 390 QA 391 (561)
Q Consensus 390 ~~ 391 (561)
++
T Consensus 208 ~v 209 (272)
T TIGR00577 208 EV 209 (272)
T ss_pred HH
Confidence 85
No 109
>PRK14811 formamidopyrimidine-DNA glycosylase; Provisional
Probab=93.05 E-value=0.29 Score=50.64 Aligned_cols=74 Identities=15% Similarity=0.200 Sum_probs=62.7
Q ss_pred cccccCCcc--ccHHHHHHHHHhcCCcchHHHhhc--ccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHH
Q 008575 314 VETKHHPSS--VDLLLIKGLIAETSKGTLLQFLQH--EFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFR 389 (561)
Q Consensus 314 ~eikpHP~G--vdl~~L~~m~~~t~~~tl~~FL~~--~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~ 389 (561)
...-|.|.. .+.+.+.+.+. ....+..+|.. =+++||.-.|.|||=. +++.|..+.++|+++|+.+|+++++
T Consensus 120 ~~LGpDpL~~~~~~~~~~~~l~--~~~~Ik~~LlDQ~~iaGIGNiyadEiLf~--A~I~P~~~~~~Ls~~~~~~L~~~i~ 195 (269)
T PRK14811 120 ARMGPEPLSDDFTEPEFVRALA--TARPVKPWLLSQKPVAGVGNIYADESLWR--ARIHPARPATSLKAPEARRLYRAIR 195 (269)
T ss_pred hhcCCCCCCCcCCHHHHHHHHh--cCCcHHHHHhcCceeecccHHHHHHHHHH--cCCCccCCcccCCHHHHHHHHHHHH
Confidence 356677776 45577877777 57899999976 5999999999999955 7899999999999999999999888
Q ss_pred hC
Q 008575 390 QA 391 (561)
Q Consensus 390 ~~ 391 (561)
.+
T Consensus 196 ~v 197 (269)
T PRK14811 196 EV 197 (269)
T ss_pred HH
Confidence 75
No 110
>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=92.92 E-value=1.3 Score=42.83 Aligned_cols=113 Identities=25% Similarity=0.369 Sum_probs=73.3
Q ss_pred EEEEEEeeecCccCCCCceEEEeeccccccccCCC------chhhhhhhc----ccCc-cccccCCCC----CceEEEEE
Q 008575 437 FIVEAGVSVGGKDVKQGLNIFRFANRIPLLFEQGG------DVVTRTAMK----RINW-SSYKINQTQ----DKIGVFVS 501 (561)
Q Consensus 437 fiVEa~iayGg~~~~~~~~i~RfANriPLlf~~g~------~~it~~~~~----~i~W-~~Y~i~~~~----~~~~v~vh 501 (561)
.-||+|+.|.. ...-+++-|+|-||. .+.|. +++|+ ++. .-++ +..+++... .-+..+||
T Consensus 31 ~~veva~~~~~---~~~~~~~sfvN~i~T-~~GGTH~~g~~~~l~~-~i~~~~~~~~~~k~~~~~~~~~di~~~l~~vvs 105 (172)
T cd00822 31 VEVEVALQWTD---SYSENILSFVNNIPT-PEGGTHETGFRAALTR-AINDYAKKNNLLKKKDVKLTGDDIREGLTAVIS 105 (172)
T ss_pred eEEEEEEEEeC---CCCeEEEEeECcccC-CCCCCHHHHHHHHHHH-HHHHHHHHhCcccccCCCCCHHHHHhCcEEEEE
Confidence 35999999974 223489999999999 66665 56777 553 2222 111112111 34789999
Q ss_pred eeeCCCCCCCCcccccCCChHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHH
Q 008575 502 IVSTKIPFKGTGKEYIGDDTKEIASAVKSAIQQ-----------CCIQLKSKIVRKIQDREQQERK 556 (561)
Q Consensus 502 i~St~vPf~~~~Ke~ia~~~~EI~~ei~~al~~-----------~~r~L~~~l~r~~~~~~~~~r~ 556 (561)
+-.++--|.|-.|+.+. .+|+..-|..++.+ .|+.+-..+....++++..++.
T Consensus 106 v~~~~P~F~gQTK~kL~--~~~v~~~v~~~v~~~l~~~l~~n~~~a~~i~~k~~~~~~aR~aa~~a 169 (172)
T cd00822 106 VKVPEPQFEGQTKDKLG--NSEVRSIVESAVREALEEWLEENPEEAKKILEKAILAAKAREAARKA 169 (172)
T ss_pred EEcCCCccCCccccccc--CHhHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999999999999998 58888877777653 2444444444444445544443
No 111
>PRK10445 endonuclease VIII; Provisional
Probab=92.42 E-value=0.4 Score=49.39 Aligned_cols=76 Identities=11% Similarity=0.142 Sum_probs=63.1
Q ss_pred cccccCCcc--ccHHHHHHHHHhc--CCcchHHHhhc--ccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHH
Q 008575 314 VETKHHPSS--VDLLLIKGLIAET--SKGTLLQFLQH--EFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQL 387 (561)
Q Consensus 314 ~eikpHP~G--vdl~~L~~m~~~t--~~~tl~~FL~~--~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~ 387 (561)
...-|.|.. .+.+.+.+.+... ....++.+|.. =+++||.-.|.|||=. ++++|.....+|+++|+++|+++
T Consensus 124 ~~lGpDpL~~~~~~~~~~~~l~~~~~~~~~IK~~LLDQ~~vaGIGNiyadEiLf~--A~I~P~~~~~~Ls~~~~~~L~~~ 201 (263)
T PRK10445 124 QRVGPDVLDPNLTPEQVKERLLSPRFRNRQFSGLLLDQAFLAGLGNYLRVEILWQ--AGLTPQHKAKDLNEAQLDALAHA 201 (263)
T ss_pred HhcCCCCCCCcCCHHHHHHHHhcCccccccHHHHHhcCCccccccHHHHHHHHHH--cCCCcCCCcccCCHHHHHHHHHH
Confidence 345566664 4567887877764 26799999965 6999999999999955 78999999999999999999999
Q ss_pred HHhC
Q 008575 388 FRQA 391 (561)
Q Consensus 388 ~~~~ 391 (561)
++++
T Consensus 202 i~~v 205 (263)
T PRK10445 202 LLDI 205 (263)
T ss_pred HHHH
Confidence 9986
No 112
>COG4564 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=90.69 E-value=0.63 Score=49.86 Aligned_cols=51 Identities=25% Similarity=0.470 Sum_probs=33.0
Q ss_pred CCeeEEEEEeCCCCCCcCChhhhhcccccccccccccCCCcceeehHhhHHHHHHh-CCccEEEEeeeCCC
Q 008575 149 ASFYRVTCKDNGKGMPHDDIPNMFGRVLSGTKYGLKQTRGKFGLGAKMALIWSKMS-TGLPIEISSSMRSH 218 (561)
Q Consensus 149 ~~~~~I~V~DNG~GI~~e~l~~iF~r~~~tSK~~~~~s~G~~GlGL~la~l~s~l~-~Gg~I~V~Sk~~g~ 218 (561)
.+.+.++|+|||+|.+..... +.+ .|+||.= +--.|. -||.++|.|.+.|.
T Consensus 388 ~d~vql~vrDnG~GF~~~~~~---------------~~~--~GiGLRN--MrERma~~GG~~~v~s~p~GT 439 (459)
T COG4564 388 GDMVQLMVRDNGVGFSVKEAL---------------QKR--HGIGLRN--MRERMAHFGGELEVESSPQGT 439 (459)
T ss_pred CcceEEEEecCCCCccchhhc---------------cCc--ccccccc--HHHHHHHhCceEEEEecCCCc
Confidence 467899999999998765431 111 4788643 333332 38888888877543
No 113
>PTZ00134 40S ribosomal protein S18; Provisional
Probab=90.64 E-value=0.39 Score=46.13 Aligned_cols=50 Identities=16% Similarity=0.210 Sum_probs=43.6
Q ss_pred cchHHHhhcccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHHh
Q 008575 338 GTLLQFLQHEFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFRQ 390 (561)
Q Consensus 338 ~tl~~FL~~~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~~ 390 (561)
+.+.-=| ..+-+||..+|..||+. .|++++++.++|+++|+.+|.+++.+
T Consensus 26 K~v~~aL-t~I~GIG~~~A~~I~~~--lgi~~~~~~~~Lt~~qi~~l~~~i~~ 75 (154)
T PTZ00134 26 RKVPYAL-TAIKGIGRRFAYLVCKK--AGIDVTKRAGELTAEEIEKIVEIIAN 75 (154)
T ss_pred CEEEEee-cccccccHHHHHHHHHH--cCcCcCCCcccCCHHHHHHHHHHHhc
Confidence 3444344 77999999999999999 57999999999999999999999986
No 114
>TIGR03629 arch_S13P archaeal ribosomal protein S13P. This model describes exclusively the archaeal ribosomal protein S13P. It excludes the homologous eukaryotic 40S ribosomal protein S18 and bacterial 30S ribosomal protein S13.
Probab=90.32 E-value=0.5 Score=44.84 Aligned_cols=45 Identities=13% Similarity=0.285 Sum_probs=41.3
Q ss_pred cccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHHhCC
Q 008575 346 HEFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFRQAK 392 (561)
Q Consensus 346 ~~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~~~~ 392 (561)
..+-+||...|..||.. .|++++++.++|+++|+..|.+.+.+..
T Consensus 24 t~I~GIG~~~a~~I~~~--lgi~~~~~~~~Lt~~qi~~l~~~i~~~~ 68 (144)
T TIGR03629 24 TGIKGIGRRFARAIARK--LGVDPNAKLGYLDDEEIEKLEEAVENYE 68 (144)
T ss_pred cceeccCHHHHHHHHHH--cCcCCCCCcccCCHHHHHHHHHHHHhcc
Confidence 66889999999999999 5699999999999999999999998744
No 115
>CHL00137 rps13 ribosomal protein S13; Validated
Probab=90.28 E-value=0.48 Score=43.78 Aligned_cols=43 Identities=21% Similarity=0.438 Sum_probs=40.1
Q ss_pred cccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHHh
Q 008575 346 HEFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFRQ 390 (561)
Q Consensus 346 ~~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~~ 390 (561)
..+-+||..+|..||+. .|++++++..+|+++|+++|.+.+.+
T Consensus 20 t~i~GIG~~~A~~ic~~--lgi~~~~~~~~Lt~~qi~~l~~~i~~ 62 (122)
T CHL00137 20 TYIYGIGLTSAKEILEK--ANIDPDIRTKDLTDEQISALREIIEE 62 (122)
T ss_pred cccccccHHHHHHHHHH--cCcCcCcCcccCCHHHHHHHHHHHHH
Confidence 66889999999999999 57999999999999999999999975
No 116
>TIGR03631 bact_S13 30S ribosomal protein S13. This model describes bacterial ribosomal protein S13, to the exclusion of the homologous archaeal S13P and eukaryotic ribosomal protein S18. This model identifies some (but not all) instances of chloroplast and mitochondrial S13, which is of bacterial type.
Probab=89.21 E-value=0.6 Score=42.54 Aligned_cols=43 Identities=21% Similarity=0.392 Sum_probs=39.8
Q ss_pred cccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHHh
Q 008575 346 HEFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFRQ 390 (561)
Q Consensus 346 ~~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~~ 390 (561)
..+-+||..+|..||+. .|+++++...+|+++|++.|.+.+.+
T Consensus 18 ~~i~GIG~~~a~~i~~~--lgi~~~~~~~~L~~~qi~~l~~~l~~ 60 (113)
T TIGR03631 18 TYIYGIGRTRARKILEK--AGIDPDKRVKDLTEEELNAIREEIEA 60 (113)
T ss_pred eeeecccHHHHHHHHHH--hCcCcccccccCCHHHHHHHHHHHHh
Confidence 67889999999999999 46999999999999999999999964
No 117
>PRK05179 rpsM 30S ribosomal protein S13; Validated
Probab=88.98 E-value=0.63 Score=42.99 Aligned_cols=43 Identities=21% Similarity=0.417 Sum_probs=40.2
Q ss_pred cccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHHh
Q 008575 346 HEFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFRQ 390 (561)
Q Consensus 346 ~~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~~ 390 (561)
..+-+||..+|..||+. .|+++++...+|+++|+..|.+.+.+
T Consensus 20 ~~I~GIG~~~a~~i~~~--lgi~~~~~~~~L~~~qi~~l~~~i~~ 62 (122)
T PRK05179 20 TYIYGIGRTRAKEILAA--AGIDPDTRVKDLTDEELDKIREEIDK 62 (122)
T ss_pred cccccccHHHHHHHHHH--hCcCcccccccCCHHHHHHHHHHHHh
Confidence 67889999999999999 56999999999999999999999975
No 118
>COG0266 Nei Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]
Probab=88.36 E-value=2 Score=44.94 Aligned_cols=80 Identities=16% Similarity=0.260 Sum_probs=65.2
Q ss_pred CCCCcccccCCccccH--HHHHHHHHhcCCcchHHHhhc--ccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHH
Q 008575 310 PPVPVETKHHPSSVDL--LLIKGLIAETSKGTLLQFLQH--EFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIH 385 (561)
Q Consensus 310 P~~P~eikpHP~Gvdl--~~L~~m~~~t~~~tl~~FL~~--~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~ 385 (561)
++.....-|.|.+-++ +.|..-++.+.. .++.||.. -.++||.-.|.|+|=. +++.|.+..+.|+.+|+..|+
T Consensus 127 ~~~l~~LGpePl~~~f~~~~l~~~l~~~~~-~IK~~LLDQ~vvaGvGNIYa~E~Lf~--agI~P~~~a~~l~~~~~~~l~ 203 (273)
T COG0266 127 HPVLAKLGPEPLSDDFDPEYLAEKLAKKKR-RIKTALLDQKVVAGVGNIYADEILFR--AGIHPARPAGDLSLAQLALLH 203 (273)
T ss_pred cHHHHhcCCCCCccccCHHHHHHHHhcCcc-chHHHhhcCCceecccHHHHHHHHHH--cCCCcccCccccCHHHHHHHH
Confidence 3344467788888765 677777766444 59999976 6899999999999955 789999999999999999999
Q ss_pred HHHHhCC
Q 008575 386 QLFRQAK 392 (561)
Q Consensus 386 ~~~~~~~ 392 (561)
++++.+-
T Consensus 204 ~~i~~vl 210 (273)
T COG0266 204 EAIKDVL 210 (273)
T ss_pred HHHHHHH
Confidence 9999765
No 119
>PF00416 Ribosomal_S13: Ribosomal protein S13/S18; InterPro: IPR001892 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein S13 is one of the proteins from the small ribosomal subunit. In Escherichia coli, S13 is known to be involved in binding fMet-tRNA and, hence, in the initiation of translation. It is a basic protein of 115 to 177 amino-acid residues that contains thee helices and a beta-hairpin in the core of the protein, forming a helix-two turns-helix (H2TH) motif, and a non-globular C-terminal extension. This family of ribosomal proteins is present in prokaryotes, eukaryotes and archaea [, ].; GO: 0003723 RNA binding, 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3BBN_M 2QBB_M 3I1M_M 3OFP_M 3OFX_M 3OFO_M 1VS5_M 3OAQ_M 2QAL_M 3J18_M ....
Probab=87.86 E-value=1.6 Score=39.06 Aligned_cols=50 Identities=18% Similarity=0.359 Sum_probs=42.7
Q ss_pred cchHHHhhcccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHHh
Q 008575 338 GTLLQFLQHEFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFRQ 390 (561)
Q Consensus 338 ~tl~~FL~~~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~~ 390 (561)
..+.-=| ..+-+||..+|..||.. .|++++++..+|+++|+.+|.+.+.+
T Consensus 11 k~i~~aL-t~IyGIG~~~A~~Ic~~--lgi~~~~~~~~Ls~~~i~~l~~~i~~ 60 (107)
T PF00416_consen 11 KPIYIAL-TKIYGIGRRKAKQICKK--LGINPNKKVGDLSDEQIDKLRKIIEK 60 (107)
T ss_dssp SBHHHHH-TTSTTBCHHHHHHHHHH--TTS-SSSBTTTSTHHHHHHHHHHHHT
T ss_pred cchHhHH-hhhhccCHHHHHHHHHH--cCCChhhhcccCCHHHHHHHHHHHHH
Confidence 4444445 58899999999999999 56999999999999999999999987
No 120
>PRK04053 rps13p 30S ribosomal protein S13P; Reviewed
Probab=86.69 E-value=1.1 Score=42.83 Aligned_cols=50 Identities=16% Similarity=0.273 Sum_probs=43.0
Q ss_pred cchHHHhhcccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHHh
Q 008575 338 GTLLQFLQHEFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFRQ 390 (561)
Q Consensus 338 ~tl~~FL~~~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~~ 390 (561)
+.|.-=| ..+-+||...|..||+. .|++++++.++|+++|+.+|.+.+.+
T Consensus 21 k~i~~aL-t~IyGIG~~~a~~Ic~~--lgi~~~~~~~~Lt~~qi~~l~~~i~~ 70 (149)
T PRK04053 21 KPVEYAL-TGIKGIGRRTARAIARK--LGLDPNAKLGYLSDEEIEKIEEALED 70 (149)
T ss_pred CEEeeec-cccccccHHHHHHHHHH--cCcCCCCccCcCCHHHHHHHHHHHHh
Confidence 3444444 67999999999999999 56999999999999999999999964
No 121
>KOG3311 consensus Ribosomal protein S18 [Translation, ribosomal structure and biogenesis]
Probab=84.11 E-value=0.64 Score=44.41 Aligned_cols=46 Identities=26% Similarity=0.394 Sum_probs=41.2
Q ss_pred HhhcccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHHh
Q 008575 343 FLQHEFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFRQ 390 (561)
Q Consensus 343 FL~~~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~~ 390 (561)
|=-..|.+||...|+.+|+. ++|++.++..+|+.+|+.++++.|+.
T Consensus 28 fAl~~i~Gig~~~A~~ic~K--~~~~~~~r~gelt~~qi~~i~~i~~d 73 (152)
T KOG3311|consen 28 FALTSIKGIGRRYAEIVCKK--ADLDLTKRAGELTEEQILRILQILND 73 (152)
T ss_pred EEEEEEeeechhhhhhhhhh--cCcchhhhhccccHHHHHHHHHHhcC
Confidence 43445999999999999998 67999999999999999999999983
No 122
>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=80.69 E-value=3.7 Score=34.85 Aligned_cols=78 Identities=15% Similarity=0.126 Sum_probs=52.5
Q ss_pred cEEEEEEeeecCccCCCCceEEEeeccccccccCCCchhhhhhhcccCccccccCCCCCceEEEEEeeeCC--CCCC-CC
Q 008575 436 PFIVEAGVSVGGKDVKQGLNIFRFANRIPLLFEQGGDVVTRTAMKRINWSSYKINQTQDKIGVFVSIVSTK--IPFK-GT 512 (561)
Q Consensus 436 PfiVEa~iayGg~~~~~~~~i~RfANriPLlf~~g~~~it~~~~~~i~W~~Y~i~~~~~~~~v~vhi~St~--vPf~-~~ 512 (561)
.|-||+++++.+.....+-..+.|+|..|+.+. ..+.+ ++...=++...-+.......++++|-+.. +.|. +.
T Consensus 26 ~~~v~g~l~~~~~~~~~~~~~~~fvN~r~v~~~---~~~~~-~i~~~~~~~~~~~~~~~~p~~vl~i~~~~~~~d~nv~p 101 (107)
T cd00329 26 GFRVEGAISYPDSGRSSKDRQFSFVNGRPVREG---GTHVK-AVREAYTRALNGDDVRRYPVAVLSLKIPPSLVDVNVHP 101 (107)
T ss_pred CEEEEEEEeCCccCcccCCcEEEEEcCeEEcCC---HHHHH-HHHHHHHHHhcccCCCCCCEEEEEEEeChHHeeeCCCC
Confidence 699999999976532234479999999999653 55666 77766554432111122335667777777 9998 88
Q ss_pred ccccc
Q 008575 513 GKEYI 517 (561)
Q Consensus 513 ~Ke~i 517 (561)
.|+.|
T Consensus 102 ~K~~v 106 (107)
T cd00329 102 TKEEV 106 (107)
T ss_pred Ccccc
Confidence 88765
No 123
>TIGR00275 flavoprotein, HI0933 family. The model when searched with a partial length search brings in proteins with a dinucleotide-binding motif (Rossman fold) over the initial 40 residues of the model, including oxidoreductases and dehydrogenases. Partially characterized members include an FAD-binding protein from Bacillus cereus and flavoprotein HI0933 from Haemophilus influenzae.
Probab=79.93 E-value=3.8 Score=44.29 Aligned_cols=65 Identities=25% Similarity=0.353 Sum_probs=52.8
Q ss_pred HHHHHHHhcCCcchHHHhhcccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHHhCCccCC
Q 008575 327 LIKGLIAETSKGTLLQFLQHEFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFRQAKFDDP 396 (561)
Q Consensus 327 ~L~~m~~~t~~~tl~~FL~~~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~~~~~~~P 396 (561)
.|++.......+++..+|..- +.++.+..|++. .+++++++..+|+++|+.+|++.|+++.|..-
T Consensus 273 ~~~~~~~~~~~~~~~~~l~~~---l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~l~~~lk~~~~~~~ 337 (400)
T TIGR00275 273 RLKRLRKSNPKKTVKNILKGL---LPKRLAELLLEQ--LGIDPDLPAAQLSKKEIKKLVQLLKNWPFTVS 337 (400)
T ss_pred HHHHHHHHChhhhHHHHhhhh---hhHHHHHHHHHH--cCCCCCCChHHCCHHHHHHHHHHHhCCEEEec
Confidence 444444555678999998633 578999999998 67999999999999999999999999986543
No 124
>PF03486 HI0933_like: HI0933-like protein; InterPro: IPR004792 This is a family of conserved hypothetical proteins that may include proteins with a dinucleotide-binding motif (Rossman fold), including oxidoreductases and dehydrogenases.; PDB: 2I0Z_A 3V76_A 2GQF_A.
Probab=74.66 E-value=7.5 Score=42.66 Aligned_cols=64 Identities=25% Similarity=0.356 Sum_probs=51.9
Q ss_pred HHHHHHHhcCCcchHHHhhcccccCCHHHHHHHHhhhCCCC-CCCCCcccCCHHHHHHHHHHHHhCCccC
Q 008575 327 LIKGLIAETSKGTLLQFLQHEFVNIGKSLAERLIGEMGPEF-SPKMAVKSLTSQQIVRIHQLFRQAKFDD 395 (561)
Q Consensus 327 ~L~~m~~~t~~~tl~~FL~~~f~~v~~~~a~~i~~~~~~~~-~~~~~p~~l~~~~~~~l~~~~~~~~~~~ 395 (561)
.|.+.......+++.+||..- +.++++..+++. .++ +++++..+|+++++.+|++.|+.+.|..
T Consensus 280 ~l~~~~~~~~~~~~~~~l~~~---lp~rl~~~ll~~--~~i~~~~~~~~~l~~~~~~~L~~~lk~~~~~v 344 (409)
T PF03486_consen 280 LLQERKEKNPKRTLKNFLKGL---LPKRLALALLKR--AGIKDPDKKVSELSKKERNRLANLLKRFPFTV 344 (409)
T ss_dssp HHHHHHHHTTTSBHHHHHTTT---S-HHHHHHHHHH--TTS-STTSBGGGS-HHHHHHHHHHHHCEEEEE
T ss_pred HHHHHHHHHHhhHHHHHHHHH---hHHHHHHHHHHH--cCCCccccchhhcCHHHHHHHHHHHHhCceee
Confidence 444555556778999999644 789999999998 679 9999999999999999999999998643
No 125
>PRK11700 hypothetical protein; Provisional
Probab=51.25 E-value=26 Score=34.89 Aligned_cols=59 Identities=20% Similarity=0.291 Sum_probs=37.9
Q ss_pred cEEEEEecCCcchhHHHHHHHHHHHHhhCCCcEEEEEEcccccCcceEEEeccccCCCCC-------CCcccccCCcc
Q 008575 252 AEIQVVIEGNWTTYRSKILHYMRQMAVITPYAQFLFKFVSEVAEKNVTIRFSRRTDVMPP-------VPVETKHHPSS 322 (561)
Q Consensus 252 T~V~V~L~~n~~~~r~~I~eyLrr~AIvnP~a~~~l~~~~~~pdg~~~~~f~R~t~~lP~-------~P~eikpHP~G 322 (561)
==|++.+.++-..........+.+.++.-|.+++++. .|.|+- +| +|- -..-||.|||+
T Consensus 112 EHIElVlp~~~~t~~~~~~all~~~~l~~~gikvK~S----sPkge~----ER----L~NPTlAv~~~~vcIK~HP~s 177 (187)
T PRK11700 112 EHIELVLPGDPETLDARALALLSDEGLSLPGIKVKTS----SPKGEG----ER----LPNPTLAVTDGGICIKFHPHS 177 (187)
T ss_pred eEEEEEecCCcchHHHHHHHhccccccccCCcEEEec----CCCccC----cc----CCCCcEEEeeCCEEEEEcCcc
Confidence 3566666565433344556666666667788888887 687762 33 333 33479999994
No 126
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=50.50 E-value=92 Score=39.68 Aligned_cols=79 Identities=19% Similarity=0.182 Sum_probs=54.6
Q ss_pred EEEEEeeecCccCCCCceEEEeeccccccccCCC------chhhhhhhcc-cC-ccccccCCCC----CceEEEEEeeeC
Q 008575 438 IVEAGVSVGGKDVKQGLNIFRFANRIPLLFEQGG------DVVTRTAMKR-IN-WSSYKINQTQ----DKIGVFVSIVST 505 (561)
Q Consensus 438 iVEa~iayGg~~~~~~~~i~RfANriPLlf~~g~------~~it~~~~~~-i~-W~~Y~i~~~~----~~~~v~vhi~St 505 (561)
-||+|++|-. ...+++-|+|-||. .++|. +++|+ +|.. ++ -+.-++...+ .-+.+|||+-.+
T Consensus 277 ~~eVal~~s~----~~~~~~SFVN~I~T-~~GGTHv~g~~~alt~-~i~~~~k~kkk~~~~i~~~dIregl~~~Vs~~i~ 350 (1388)
T PTZ00108 277 RWEVVVSLSD----GQFQQVSFVNSICT-TKGGTHVNYILDQLIS-KLQEKAKKKKKKGKEIKPNQIKNHLWVFVNCLIV 350 (1388)
T ss_pred eEEEEEEEeC----CCceEEEEEccccc-CCCCCHHHHHHHHHHH-HHHHHHHHhcccCCCCCHHHHHhCcEEEEEEecC
Confidence 4999999963 23589999999999 67665 55677 5431 11 1111122211 358899999999
Q ss_pred CCCCCCCcccccCCChHHH
Q 008575 506 KIPFKGTGKEYIGDDTKEI 524 (561)
Q Consensus 506 ~vPf~~~~Ke~ia~~~~EI 524 (561)
+--|.|-.|+.+.. +++
T Consensus 351 nP~FdsQTKekL~~--~~~ 367 (1388)
T PTZ00108 351 NPSFDSQTKETLTT--KPS 367 (1388)
T ss_pred CCccCCcccccccC--hhh
Confidence 99999999999983 444
No 127
>PRK14031 glutamate dehydrogenase; Provisional
Probab=49.50 E-value=1.6e+02 Score=33.14 Aligned_cols=140 Identities=19% Similarity=0.250 Sum_probs=75.6
Q ss_pred hCCCcEEEEEEcccccCcceEE-EeccccCC--CCCCCcccccCCccccHHHHHHHHHhcCCcchHHHhhcccccCCHHH
Q 008575 279 ITPYAQFLFKFVSEVAEKNVTI-RFSRRTDV--MPPVPVETKHHPSSVDLLLIKGLIAETSKGTLLQFLQHEFVNIGKSL 355 (561)
Q Consensus 279 vnP~a~~~l~~~~~~pdg~~~~-~f~R~t~~--lP~~P~eikpHP~Gvdl~~L~~m~~~t~~~tl~~FL~~~f~~v~~~~ 355 (561)
..|.-.+.|.+.-.+.||++.+ ..=|+... +=|----+++|| +++++.++-|... .|++.=| ..+.
T Consensus 51 ~~p~r~~~~~~p~~~d~g~~~~~~gyRvqhn~~lGP~kGGiR~~p-~v~~~~v~aLa~~---MT~K~Al----~~lP--- 119 (444)
T PRK14031 51 CIPDRVYQFRVTWVDDKGNVQTNMGYRVQHNNAIGPYKGGIRFHA-SVNLGILKFLAFE---QTFKNSL----TTLP--- 119 (444)
T ss_pred hcCceEEEEEEEEEECCCCEEEEeeEEEEecCCCcCCCCCeeecC-CCCHHHHHHHHHH---HHHHHHH----cCCC---
Confidence 5777666665443356777522 22344332 222333689999 7888766555433 2222212 1100
Q ss_pred HHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHH-HhC-CccCCCCCCcCc-cchHHHHhhhhh----hcCCceEEEEecC
Q 008575 356 AERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLF-RQA-KFDDPSGGCLSP-AGEYNLRLGIIK----ELHPDMVATYSGS 428 (561)
Q Consensus 356 a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~-~~~-~~~~P~~~~LsP-iGe~~l~~gl~k----~~~pefv~~~tr~ 428 (561)
......++ ..+|+.+++.|++|+.+.+ +++ ++.-|..|.-.| +|-..=.-+.+. .+.+.+...+|.|
T Consensus 120 ----~GGgKggi--~~dP~~~s~~Eler~~r~f~~~L~~~iGp~~dipApDvgt~~~~M~~i~d~y~~~~~~~~g~~tgk 193 (444)
T PRK14031 120 ----MGGGKGGS--DFSPRGKSNAEVMRFCQAFMLELWRHIGPETDVPAGDIGVGGREVGFMFGMYKKLSHEFTGTFTGK 193 (444)
T ss_pred ----CCCceeee--eCCCCCCCHHHHHHHHHHHHHHHHhccCCCCccCccccCCCHHHHHHHHHHHHhhcCCcceEECCC
Confidence 00001123 4568999999999998865 343 366677776666 232222222222 4556677888888
Q ss_pred cceecCC
Q 008575 429 AQVFEGH 435 (561)
Q Consensus 429 p~~y~G~ 435 (561)
|..++|-
T Consensus 194 p~~~GGs 200 (444)
T PRK14031 194 GREFGGS 200 (444)
T ss_pred ccccCCC
Confidence 8766654
No 128
>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=44.17 E-value=51 Score=31.54 Aligned_cols=85 Identities=18% Similarity=0.257 Sum_probs=56.3
Q ss_pred cceecCCcEEEEEEeeecCccCCCCceEEEeeccccccccCCC------chhhhhhhcccCccccc----cCCC--CCce
Q 008575 429 AQVFEGHPFIVEAGVSVGGKDVKQGLNIFRFANRIPLLFEQGG------DVVTRTAMKRINWSSYK----INQT--QDKI 496 (561)
Q Consensus 429 p~~y~G~PfiVEa~iayGg~~~~~~~~i~RfANriPLlf~~g~------~~it~~~~~~i~W~~Y~----i~~~--~~~~ 496 (561)
|-+|.--.=-||+|++|... .-+++-|+|-||. .++|. +++|+ ++...-=+..+ |... ..-+
T Consensus 23 ~~~~~~~~~~veva~~~s~~----~~~~~SFvN~I~T-~~GGTHv~g~~~~lt~-~i~~~~~kk~k~~~~i~~~dire~l 96 (153)
T cd03481 23 PVVYEPVNDRWEVAVALSDG----QFQQVSFVNSIAT-TKGGTHVDYVADQIVK-KLDEVVKKKNKGGINVKPFQVKNHL 96 (153)
T ss_pred CeEeccCCCcEEEEEEEcCC----CcEEEEEECCcCC-CCCCchHHHHHHHHHH-HHHHHHHHcCCCCCCcCHHHHhcCe
Confidence 44555421258999999641 3489999999999 67665 56777 55211000111 1111 1357
Q ss_pred EEEEEeeeCCCCCCCCcccccCC
Q 008575 497 GVFVSIVSTKIPFKGTGKEYIGD 519 (561)
Q Consensus 497 ~v~vhi~St~vPf~~~~Ke~ia~ 519 (561)
.++|++=.++--|.|-.|+.+..
T Consensus 97 ~~vvs~~i~~P~FegQTK~kL~s 119 (153)
T cd03481 97 WIFVNCLIENPSFDSQTKETLTT 119 (153)
T ss_pred EEEEEEecCCCccCCcccccccC
Confidence 88999999999999999999994
No 129
>PF06185 YecM: YecM protein; InterPro: IPR010393 This family consists of several bacterial YecM proteins of unknown function.; PDB: 1K4N_A.
Probab=42.48 E-value=32 Score=34.24 Aligned_cols=62 Identities=18% Similarity=0.229 Sum_probs=24.4
Q ss_pred EEEEEecCCcchhHHHHHHHHHHH-----HhhCCCcEEEEEEcccccCcceEEEeccccC---CCCCCCcccccCCcc
Q 008575 253 EIQVVIEGNWTTYRSKILHYMRQM-----AVITPYAQFLFKFVSEVAEKNVTIRFSRRTD---VMPPVPVETKHHPSS 322 (561)
Q Consensus 253 ~V~V~L~~n~~~~r~~I~eyLrr~-----AIvnP~a~~~l~~~~~~pdg~~~~~f~R~t~---~lP~~P~eikpHP~G 322 (561)
=|++.+..........+...+.++ ...++++++++. .|.|+- +|... .+--....+|.|||+
T Consensus 108 HIE~Vip~~~~~~~~~~~~~~p~~~~~~~~~~~~~ikvK~S----~Pkge~----ErL~NPTiA~~~~~icIK~HP~s 177 (185)
T PF06185_consen 108 HIEFVIPSDAQTLLEQALQLLPRLAASFDWLANPGIKVKMS----SPKGEG----ERLPNPTIAFKDGGICIKFHPHS 177 (185)
T ss_dssp EEEEE--S-GGGHHHHHHHTS------HHHHHSTT-EEEE----------------------EEEESSS-EEEEESS-
T ss_pred EEEEEecCCHHHHHHHHHHHHhhhhcccccccCCCcEEEEe----CCcccc----CcCCCCeeEeccCCEEEEEcCcC
Confidence 466666665543333333344332 357999999988 677662 22110 011134479999994
No 130
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=42.04 E-value=51 Score=34.33 Aligned_cols=59 Identities=12% Similarity=0.232 Sum_probs=49.6
Q ss_pred HHHHHHHHHhcCCcchHHHhhcccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHHhC
Q 008575 325 LLLIKGLIAETSKGTLLQFLQHEFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFRQA 391 (561)
Q Consensus 325 l~~L~~m~~~t~~~tl~~FL~~~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~~~ 391 (561)
++.+.+.+-....+||+.=|+.-|. .+++++. .+++++.++..|+-+|..+|.++++..
T Consensus 199 ~~~~~~~~F~~RRKtl~n~l~~~~~------~~~~l~~--~~i~~~~R~e~ls~~~f~~L~~~l~~~ 257 (259)
T COG0030 199 FFKFVKAAFSQRRKTLRNNLKNLFG------LEEVLEA--AGIDPNARAENLSPEDFLKLANALKGF 257 (259)
T ss_pred HHHHHHHHHhhhhHHHHHHHHhhhh------HHHHHHh--cCCCcccChhhCCHHHHHHHHHHHhhh
Confidence 3567777777788899888877776 8888888 679999999999999999999998764
No 131
>COG0334 GdhA Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]
Probab=41.67 E-value=46 Score=36.94 Aligned_cols=66 Identities=15% Similarity=0.273 Sum_probs=38.6
Q ss_pred CCCcccCCHHHHHHHHHHHH-hC-CccCCCCCCcCc-cchH-HHHhhhhhhcC----CceEEEEecCcceecCC
Q 008575 370 KMAVKSLTSQQIVRIHQLFR-QA-KFDDPSGGCLSP-AGEY-NLRLGIIKELH----PDMVATYSGSAQVFEGH 435 (561)
Q Consensus 370 ~~~p~~l~~~~~~~l~~~~~-~~-~~~~P~~~~LsP-iGe~-~l~~gl~k~~~----pefv~~~tr~p~~y~G~ 435 (561)
..+|+.+++.|+++|.+++- ++ ++.-|++|.-.| +|-. ..-.-++.+++ -.+-..+|.||-.|.|.
T Consensus 106 ~~DPk~~S~~E~erl~raf~~~i~~~iGp~~dIpApDvgt~~~~m~wm~dey~~i~g~~~~gv~TGKp~~~GGS 179 (411)
T COG0334 106 IVDPKGLSDGELERLSRAFGRAIYRLIGPDTDIPAPDVGTNPQDMAWMMDEYSKIVGNSAPGVFTGKPLELGGS 179 (411)
T ss_pred eCCcccCCHHHHHHHHHHHHHHHHHhcCCCcEecccccCCCHHHHHHHHHhhhhhcCCCCcceecCCcccccCC
Confidence 45688999999999999884 33 255555554443 3331 11222233332 33446778888777553
No 132
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=41.31 E-value=71 Score=32.24 Aligned_cols=57 Identities=16% Similarity=0.213 Sum_probs=39.6
Q ss_pred HHHHHHHHhcCCcchHHHhhcccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHH
Q 008575 326 LLIKGLIAETSKGTLLQFLQHEFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQL 387 (561)
Q Consensus 326 ~~L~~m~~~t~~~tl~~FL~~~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~ 387 (561)
..+.+.+-....++|..=|..-|. ...+.++++. .+++++++|.+|+-+|..+|.+.
T Consensus 196 ~~~~~~~F~~rrk~l~~~l~~~~~---~~~~~~~l~~--~~i~~~~r~~~l~~~~~~~l~~~ 252 (253)
T TIGR00755 196 EKLLKAAFSQRRKTLRNNLKQLLK---ASKLEEVLEQ--LGLDPTARAEQLSPEDFLRLANL 252 (253)
T ss_pred HHHHHHHHccchHHHHHHHhhhcc---hhHHHHHHHH--CCcCCCCCcccCCHHHHHHHHHh
Confidence 445555555666677666644332 2345677777 57999999999999999888765
No 133
>COG1293 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]
Probab=41.13 E-value=1.3e+02 Score=34.57 Aligned_cols=69 Identities=22% Similarity=0.328 Sum_probs=52.1
Q ss_pred CCccccHHHHHHHHHhcCCcchHHHhhcccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHHhC
Q 008575 319 HPSSVDLLLIKGLIAETSKGTLLQFLQHEFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFRQA 391 (561)
Q Consensus 319 HP~Gvdl~~L~~m~~~t~~~tl~~FL~~~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~~~ 391 (561)
.|.-.+-+.+..+.... .+...=|...|.++|...|+++|-. +|++.+...+++..+++..+..++++.
T Consensus 168 ~p~~~~~~~~~~~~~~~--~~~~~~~~~~~~g~~~~~a~el~~r--ag~~~~~~~~~~~~~~~~~v~~~~~~~ 236 (564)
T COG1293 168 NPYEQSEEDFKELQLNS--GADIVRLLARFLGLGGLLAEELLSR--AGLDKKVPAKDLFEEEIKKVREALEEL 236 (564)
T ss_pred ChhhcChHHHHHHHhcc--chHHHHHHHHhcCCCHHHHHHHHHh--cCCCcCCchhhhhHHHHHHHHHHHHhh
Confidence 67766655555655443 3444445588999999999999987 789999988999999988887766553
No 134
>COG2081 Predicted flavoproteins [General function prediction only]
Probab=38.15 E-value=63 Score=35.82 Aligned_cols=66 Identities=18% Similarity=0.280 Sum_probs=51.1
Q ss_pred cHH-HHHHHHHhcCCcchHHHhhcccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHHhCCccC
Q 008575 324 DLL-LIKGLIAETSKGTLLQFLQHEFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFRQAKFDD 395 (561)
Q Consensus 324 dl~-~L~~m~~~t~~~tl~~FL~~~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~~~~~~~ 395 (561)
+.+ .++++.+....++|+.+|.+- +..+.++-+++. .++ ++...++|+++++..|+++++...|.+
T Consensus 271 ~~~~l~~~l~~~~~~kslkn~L~~~---lp~rlv~~~l~~--~~i-~~~~~~~ls~~~~~~l~~~ik~~~i~~ 337 (408)
T COG2081 271 DAEELLRELRRANPKKSLKNALAKL---LPKRLVEFLLER--AGI-PDEPLAQLSPKELAQLAAALKAWPITP 337 (408)
T ss_pred CHHHHHHHHHhhChhhHHHHHHHHH---hhhHHHHHHHHh--ccC-CCcchhhcCHHHHHHHHHHHhcCeeec
Confidence 443 444455556677888888653 467888888888 578 889999999999999999999998543
No 135
>PRK14896 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Provisional
Probab=34.83 E-value=1.5e+02 Score=30.14 Aligned_cols=64 Identities=16% Similarity=0.111 Sum_probs=42.7
Q ss_pred HHHHHHHHhcCCcchHHHhhcccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHHh
Q 008575 326 LLIKGLIAETSKGTLLQFLQHEFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFRQ 390 (561)
Q Consensus 326 ~~L~~m~~~t~~~tl~~FL~~~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~~ 390 (561)
..+.+.+-....++|..=|..-+...+......++..++ +.+++++|.+|+-+|..+|.+.+..
T Consensus 193 ~~~~~~~F~~rrk~l~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~R~e~L~~~~~~~l~~~~~~ 256 (258)
T PRK14896 193 DDFVKALFQHRRKTLRNALKNSAHISGKEDIKAVVEALP-EELLNKRVFQLSPEEIAELANLLYE 256 (258)
T ss_pred HHHHHHHHccccHHHHHHHhhhccccchhHHHHHHHHcC-CCCcCCCCccCCHHHHHHHHHHHHh
Confidence 555666666777888877755432223222233455432 4668999999999999999998864
No 136
>KOG0417 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.02 E-value=57 Score=31.41 Aligned_cols=53 Identities=28% Similarity=0.367 Sum_probs=37.9
Q ss_pred HHHHHHHhCCccCCCCCCcCccchHHHHhhhhhhcCCceEEEEecCc-ceecCCcEEEEEEeee
Q 008575 383 RIHQLFRQAKFDDPSGGCLSPAGEYNLRLGIIKELHPDMVATYSGSA-QVFEGHPFIVEAGVSV 445 (561)
Q Consensus 383 ~l~~~~~~~~~~~P~~~~LsPiGe~~l~~gl~k~~~pefv~~~tr~p-~~y~G~PfiVEa~iay 445 (561)
||.+-++.+. ..|+.+|..-.-+++|. .|-|++.+++ ++|+|+-|.++.-+--
T Consensus 5 RI~kE~~~l~-~dp~~~~~~~~~~dnl~---------~w~a~I~GP~~SpYEgG~F~l~I~~p~ 58 (148)
T KOG0417|consen 5 RIIKELQDLL-RDPPPGCSAGPVGDNLF---------HWQATILGPPGSPYEGGVFFLEIHFPE 58 (148)
T ss_pred HHHHHHHHHh-cCCCCCCccCCCCCcee---------eEEEEEECCCCCCcCCCEEEEEEECCC
Confidence 6666666666 56667775443344443 2899999998 5999999999987754
No 137
>PF07492 Trehalase_Ca-bi: Neutral trehalase Ca2+ binding domain; InterPro: IPR011120 Neutral trehalases mobilise trehalose accumulated by fungal cells as a protective and storage carbohydrate. This family represents a calcium-binding domain similar to EF hand. Residues 97 and 108 in O42893 from SWISSPROT have been implicated in this interaction. It is thought that this domain may provide a general mechanism for regulating neutral trehalase activity in yeasts and filamentous fungi [].; GO: 0004555 alpha,alpha-trehalase activity, 0005509 calcium ion binding, 0005993 trehalose catabolic process, 0005737 cytoplasm
Probab=32.26 E-value=33 Score=24.53 Aligned_cols=13 Identities=23% Similarity=0.527 Sum_probs=11.2
Q ss_pred CCeeEEEEEeCCC
Q 008575 149 ASFYRVTCKDNGK 161 (561)
Q Consensus 149 ~~~~~I~V~DNG~ 161 (561)
+..+.|+|+|+||
T Consensus 11 Dgn~qITIeD~GP 23 (30)
T PF07492_consen 11 DGNFQITIEDTGP 23 (30)
T ss_pred CCCcEEEEecCCC
Confidence 4568999999997
No 138
>cd07268 Glo_EDI_BRP_like_4 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The proteins of this family share three conserved metal binding amino acids with the type I extradiol dioxygenases, which shows no domain swapping.
Probab=31.48 E-value=1.1e+02 Score=29.52 Aligned_cols=60 Identities=17% Similarity=0.175 Sum_probs=32.1
Q ss_pred cEEEEEecCCcchhHHHHHHHHHH-HHhhCCCcEEEEEEcccccCcceEEEeccccCCCCC-------CCcccccCCccc
Q 008575 252 AEIQVVIEGNWTTYRSKILHYMRQ-MAVITPYAQFLFKFVSEVAEKNVTIRFSRRTDVMPP-------VPVETKHHPSSV 323 (561)
Q Consensus 252 T~V~V~L~~n~~~~r~~I~eyLrr-~AIvnP~a~~~l~~~~~~pdg~~~~~f~R~t~~lP~-------~P~eikpHP~Gv 323 (561)
-=|++.+.+............+.. -++..|.+++++. .|.|+- +| +|- -...+|+|||++
T Consensus 74 EHIE~Vlp~~~~~~~~~~~~ll~~~~~~~~~gikvK~S----sPkge~----ER----L~NPTvAv~~~~i~IK~HP~sl 141 (149)
T cd07268 74 EHIEIVIPSPPQESIELRAPLLLKSPPLLNAGLKVKFS----SPKGEG----ER----LPNPTIAFSFGGICIKLHPHSL 141 (149)
T ss_pred eEEEEEecCCcchHHHHHHHhhhcccccccCCcEEEec----CCCccc----cc----CCCCcEEEEECCEEEEEcCcCH
Confidence 356666655543222222233332 3345678888887 677641 22 322 234799999953
No 139
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=28.35 E-value=1.5e+02 Score=30.41 Aligned_cols=61 Identities=16% Similarity=0.229 Sum_probs=43.2
Q ss_pred HHHHHHHHhcCCcchHHHhhcccccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHHHh
Q 008575 326 LLIKGLIAETSKGTLLQFLQHEFVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLFRQ 390 (561)
Q Consensus 326 ~~L~~m~~~t~~~tl~~FL~~~f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~~~ 390 (561)
+.+.+.+-....++|..=|..-|. ....+.++++. .|++++++|.+|+.+|..+|.+.+..
T Consensus 210 ~~~~~~~F~~rrk~l~~~l~~~~~--~~~~~~~~l~~--~~~~~~~r~~~l~~~~~~~L~~~~~~ 270 (272)
T PRK00274 210 FRVVKAAFAQRRKTLRNNLKNLFG--SKEKLEEALEA--AGIDPNRRAETLSVEEFVRLANALAA 270 (272)
T ss_pred HHHHHHHHhchHHHHHHHHHhhcc--chHHHHHHHHH--CCCCcCCCceeCCHHHHHHHHHHHHh
Confidence 455555555566666665544332 24456778887 57999999999999999999888754
No 140
>PRK14030 glutamate dehydrogenase; Provisional
Probab=25.31 E-value=4.2e+02 Score=29.92 Aligned_cols=139 Identities=21% Similarity=0.266 Sum_probs=71.1
Q ss_pred hhCCCcEEEEEEcccccCcceEE-EeccccCC--CCCCCcccccCCccccHHHHHHHHHhcCCcchHHHhhcccccCCHH
Q 008575 278 VITPYAQFLFKFVSEVAEKNVTI-RFSRRTDV--MPPVPVETKHHPSSVDLLLIKGLIAETSKGTLLQFLQHEFVNIGKS 354 (561)
Q Consensus 278 IvnP~a~~~l~~~~~~pdg~~~~-~f~R~t~~--lP~~P~eikpHP~Gvdl~~L~~m~~~t~~~tl~~FL~~~f~~v~~~ 354 (561)
+..|.-.+.|.+.-.+-||++.+ ..=|+... +=|----+++||+ |+++.++.|... .|++.=| ..+.
T Consensus 50 l~~p~r~i~~~vp~~~d~G~~~~~~GyRvqhn~~lGP~kGGiR~~p~-v~~~~v~aLa~~---MT~K~Al----~~lP-- 119 (445)
T PRK14030 50 IVEPDRIFTFRVPWVDDKGEVQVNLGYRVQFNNAIGPYKGGIRFHPS-VNLSILKFLGFE---QTFKNAL----TTLP-- 119 (445)
T ss_pred hhcCcEEEEEEEEEEECCCcEEEEeeEEEEecCcccCCCCcEEecCC-CCHHHHHHHHHH---HHHHHHh----cCCC--
Confidence 36777777766543356676532 22344332 2222236899999 888766666322 1222111 1110
Q ss_pred HHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHH-HhC-CccCCCCCCcCc---cchHHHHh--hhhhhcCCceEEEEec
Q 008575 355 LAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLF-RQA-KFDDPSGGCLSP---AGEYNLRL--GIIKELHPDMVATYSG 427 (561)
Q Consensus 355 ~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~-~~~-~~~~P~~~~LsP---iGe~~l~~--gl~k~~~pefv~~~tr 427 (561)
......++ ..+|+.+++.|++++.+.+ +++ ++.-|..|...| .|+.-|-- +=-+.+...+...+|.
T Consensus 120 -----~GGgKggI--~~dP~~~s~~Eler~~r~f~~~L~~~iGp~~DIpApDvgt~~~~M~w~~d~y~~~~~~~~g~vTG 192 (445)
T PRK14030 120 -----MGGGKGGS--DFSPRGKSDAEIMRFCQAFMLELWRHIGPDTDVPAGDIGVGGREVGYMFGMYKKLTREFTGTLTG 192 (445)
T ss_pred -----CCCceeee--cCCCccCCHHHHHHHHHHHHHHHHHhcCCCCCccccccCCCHHHHHHHHHHHHhccCccccEEEc
Confidence 00001123 3567889999999888755 333 355666665555 22221110 1113344566778888
Q ss_pred Ccceec
Q 008575 428 SAQVFE 433 (561)
Q Consensus 428 ~p~~y~ 433 (561)
||-.+.
T Consensus 193 kp~~~g 198 (445)
T PRK14030 193 KGLEFG 198 (445)
T ss_pred cccccC
Confidence 885443
No 141
>PLN03237 DNA topoisomerase 2; Provisional
Probab=24.09 E-value=5.3e+02 Score=33.45 Aligned_cols=75 Identities=20% Similarity=0.279 Sum_probs=52.1
Q ss_pred EEEEEeeecCccCCCCceEEEeeccccccccCCC------chhhhhhhc-ccCcccc--ccCCC--CCceEEEEEeeeCC
Q 008575 438 IVEAGVSVGGKDVKQGLNIFRFANRIPLLFEQGG------DVVTRTAMK-RINWSSY--KINQT--QDKIGVFVSIVSTK 506 (561)
Q Consensus 438 iVEa~iayGg~~~~~~~~i~RfANriPLlf~~g~------~~it~~~~~-~i~W~~Y--~i~~~--~~~~~v~vhi~St~ 506 (561)
-||+|++|-.. ..+++-|+|-||. .++|. ++||+ +|. -++=+.- .|... ..-+.+|||+-.++
T Consensus 295 ~~EVAl~~sd~----~~~~~SFVNnI~T-~~GGTHv~g~~~aIt~-~l~~~~~kK~k~~~l~~~DIregL~a~IsvkI~n 368 (1465)
T PLN03237 295 RWEVCVSLSEG----QFQQVSFVNSIAT-IKGGTHVDYVTNQIAN-HVMEAVNKKNKNANIKAHNVKNHLWVFVNALIDN 368 (1465)
T ss_pred eEEEEEEEeCC----CceEEEEECcccC-CCCCcHHHHHHHHHHH-HHHHHHHhccCCCCCCHHHHHhCcEEEEEEeCCC
Confidence 49999999631 3589999999999 77776 45666 442 2211111 11111 13588999999999
Q ss_pred CCCCCCcccccC
Q 008575 507 IPFKGTGKEYIG 518 (561)
Q Consensus 507 vPf~~~~Ke~ia 518 (561)
--|.|-.|+.+.
T Consensus 369 P~FesQTKekLt 380 (1465)
T PLN03237 369 PAFDSQTKETLT 380 (1465)
T ss_pred CccCCcccCccc
Confidence 999999999998
No 142
>PTZ00079 NADP-specific glutamate dehydrogenase; Provisional
Probab=23.09 E-value=4.8e+02 Score=29.57 Aligned_cols=145 Identities=18% Similarity=0.233 Sum_probs=75.6
Q ss_pred HHHHHHHhhCCCcEEEEEEcccccCcceEEE-eccccCC--CCCCCcccccCCccccHHHHHHHHHhcCCcchHHHhhcc
Q 008575 271 HYMRQMAVITPYAQFLFKFVSEVAEKNVTIR-FSRRTDV--MPPVPVETKHHPSSVDLLLIKGLIAETSKGTLLQFLQHE 347 (561)
Q Consensus 271 eyLrr~AIvnP~a~~~l~~~~~~pdg~~~~~-f~R~t~~--lP~~P~eikpHP~Gvdl~~L~~m~~~t~~~tl~~FL~~~ 347 (561)
..+.++ ..|.-.+.|.+.-.+-+|++.++ .=|+... +=|----+++|| +|+++.++-+... .|++.=|
T Consensus 54 ~i~e~l--~~Per~i~~~vp~~~D~G~v~v~~GyRVqhn~alGP~kGGlRfhp-~v~~~~vk~La~~---mt~KnAl--- 124 (454)
T PTZ00079 54 GVLERL--VEPERVIQFRVPWVDDKGEQRVNRGFRVQYNSALGPYKGGLRFHP-SVNLSILKFLGFE---QIFKNSL--- 124 (454)
T ss_pred HHHHHh--ccCceEEEEEEEEEECCCCEEEEeeEEEEEcCCCCCCCCCEEeeC-CCCHHHHHHHHHH---HHHHHHh---
Confidence 344444 68887777775533566775322 2333322 222222689999 7888777666532 1222111
Q ss_pred cccCCHHHHHHHHhhhCCCCCCCCCcccCCHHHHHHHHHHH-HhC-CccCCCCCCcCc---cchHHHH--hhhhhhcCCc
Q 008575 348 FVNIGKSLAERLIGEMGPEFSPKMAVKSLTSQQIVRIHQLF-RQA-KFDDPSGGCLSP---AGEYNLR--LGIIKELHPD 420 (561)
Q Consensus 348 f~~v~~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~~l~~~~-~~~-~~~~P~~~~LsP---iGe~~l~--~gl~k~~~pe 420 (561)
..+. +.....|+ +.+|+.+++.|+.|+.+.| .++ ++.-|.+|.-.| .|+.-|- .+--+.+.-.
T Consensus 125 -~gLP-------~GGgKGGi--~~dPk~~s~~El~r~~r~f~~eL~~~IGp~~DvpA~DvGt~~rem~~~~~~y~~~~~~ 194 (454)
T PTZ00079 125 -TTLP-------MGGGKGGS--DFDPKGKSDNEVMRFCQSFMTELYRHIGPDTDVPAGDIGVGGREIGYLFGQYKKLRNN 194 (454)
T ss_pred -cCCC-------CCCcceee--ecCCCCCCHHHHHHHHHHHHHHHHHhcCCCCccchhhcCCCHHHHHHHHHHHHHHhCC
Confidence 1110 00001233 3457889999999988865 444 366676666555 2222221 1111223345
Q ss_pred eEEEEecCcceecC
Q 008575 421 MVATYSGSAQVFEG 434 (561)
Q Consensus 421 fv~~~tr~p~~y~G 434 (561)
|-..+|.||-.+.|
T Consensus 195 ~~gv~TGK~~~~GG 208 (454)
T PTZ00079 195 FEGTLTGKNVKWGG 208 (454)
T ss_pred CCceeCCCCCCCCC
Confidence 55677888865544
No 143
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=20.69 E-value=3.8e+02 Score=28.18 Aligned_cols=64 Identities=8% Similarity=0.125 Sum_probs=43.3
Q ss_pred HHHHHHHHhcCCcchHHHhhc---------ccccC-C-------------HHHHHHHHhhhCCCCCCCCCcccCCHHHHH
Q 008575 326 LLIKGLIAETSKGTLLQFLQH---------EFVNI-G-------------KSLAERLIGEMGPEFSPKMAVKSLTSQQIV 382 (561)
Q Consensus 326 ~~L~~m~~~t~~~tl~~FL~~---------~f~~v-~-------------~~~a~~i~~~~~~~~~~~~~p~~l~~~~~~ 382 (561)
..+.+.+-....+||..=|.. ++..+ + +....++++. .+++ ..+|..|+-+|..
T Consensus 204 ~~~v~~~F~~rrK~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~-~~R~e~l~~~~f~ 280 (294)
T PTZ00338 204 DGLLRICFSRKNKTLSAIFKTKSVLQTLEHNYKSWCTMINKKVPVSLEPFKEFIAEILED--SGMF-EKRSVKLDIDDFL 280 (294)
T ss_pred HHHHHHHHhhccHHHHHHhCcchhHHHHHhhhhhhhccccccccchhhhHHHHHHHHHHH--cCCc-ccChhhCCHHHHH
Confidence 455566666777787755533 22332 1 3334456776 4676 7999999999999
Q ss_pred HHHHHHHhCC
Q 008575 383 RIHQLFRQAK 392 (561)
Q Consensus 383 ~l~~~~~~~~ 392 (561)
+|.++|.+.-
T Consensus 281 ~L~~~~~~~~ 290 (294)
T PTZ00338 281 KLLLAFNKKG 290 (294)
T ss_pred HHHHHHHHcC
Confidence 9999998754
Done!