Query 009294
Match_columns 538
No_of_seqs 252 out of 1599
Neff 6.7
Searched_HMMs 46136
Date Thu Mar 28 22:48:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009294.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009294hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0187 GyrB Type IIA topoisom 100.0 5E-146 1E-150 1168.9 40.2 453 74-538 3-457 (635)
2 PTZ00109 DNA gyrase subunit b; 100.0 1E-135 2E-140 1133.0 41.4 458 75-538 98-614 (903)
3 PRK14939 gyrB DNA gyrase subun 100.0 5E-134 1E-138 1123.3 45.8 452 74-538 4-457 (756)
4 TIGR01058 parE_Gpos DNA topois 100.0 5E-133 1E-137 1106.5 44.6 451 75-538 3-458 (637)
5 PRK05644 gyrB DNA gyrase subun 100.0 7E-127 2E-131 1061.2 47.4 454 74-538 5-459 (638)
6 PRK05559 DNA topoisomerase IV 100.0 1E-125 3E-130 1051.1 45.7 449 73-538 4-454 (631)
7 TIGR01055 parE_Gneg DNA topois 100.0 7E-125 2E-129 1042.1 47.3 447 75-538 2-449 (625)
8 TIGR01059 gyrB DNA gyrase, B s 100.0 2E-124 4E-129 1048.6 47.6 451 77-538 1-452 (654)
9 PHA02569 39 DNA topoisomerase 100.0 5E-117 1E-121 973.5 37.2 410 80-538 2-444 (602)
10 PLN03128 DNA topoisomerase 2; 100.0 3E-114 7E-119 995.8 41.5 428 79-538 4-467 (1135)
11 PTZ00108 DNA topoisomerase 2-l 100.0 5E-114 1E-118 1000.4 40.0 431 78-538 6-477 (1388)
12 smart00433 TOP2c Topoisomerase 100.0 1E-112 2E-117 944.2 41.6 418 106-538 1-420 (594)
13 PLN03237 DNA topoisomerase 2; 100.0 5E-111 1E-115 970.5 41.5 423 75-538 25-493 (1465)
14 KOG0355 DNA topoisomerase type 100.0 4E-76 8.6E-81 641.6 19.7 428 79-538 5-466 (842)
15 cd00822 TopoII_Trans_DNA_gyras 100.0 2.5E-41 5.5E-46 320.2 20.9 170 301-471 1-171 (172)
16 PF00204 DNA_gyraseB: DNA gyra 100.0 1.8E-40 4E-45 315.0 20.6 168 302-471 1-172 (173)
17 cd03481 TopoIIA_Trans_ScTopoII 100.0 5.4E-31 1.2E-35 244.2 15.1 146 302-459 2-150 (153)
18 PRK00095 mutL DNA mismatch rep 100.0 1.9E-28 4.1E-33 273.9 25.5 288 104-443 20-326 (617)
19 COG0323 MutL DNA mismatch repa 99.9 7.1E-24 1.5E-28 236.7 18.9 293 105-445 22-333 (638)
20 TIGR01052 top6b DNA topoisomer 99.9 1.8E-24 4E-29 232.5 13.1 282 80-412 2-307 (488)
21 COG1389 DNA topoisomerase VI, 99.9 6.4E-25 1.4E-29 227.7 5.3 253 80-384 10-284 (538)
22 PRK04184 DNA topoisomerase VI 99.9 4.8E-22 1E-26 216.0 12.6 282 80-412 10-313 (535)
23 TIGR00585 mutl DNA mismatch re 99.9 3E-20 6.5E-25 192.3 24.2 259 105-414 21-301 (312)
24 cd03366 TOPRIM_TopoIIA_GyrB TO 99.8 3.1E-21 6.7E-26 168.0 3.4 39 499-538 1-39 (114)
25 cd01030 TOPRIM_TopoIIA_like TO 99.8 1.7E-20 3.7E-25 164.2 2.8 39 499-538 1-39 (115)
26 PRK14867 DNA topoisomerase VI 99.8 6.9E-18 1.5E-22 186.8 16.8 185 80-286 10-211 (659)
27 cd03365 TOPRIM_TopoIIA TOPRIM_ 99.8 1.5E-19 3.2E-24 159.2 2.6 39 499-538 1-42 (120)
28 PRK14868 DNA topoisomerase VI 99.7 7.2E-18 1.6E-22 187.0 12.4 250 80-370 20-286 (795)
29 KOG1978 DNA mismatch repair pr 99.6 2.3E-15 4.9E-20 163.9 14.8 238 104-382 18-272 (672)
30 KOG1979 DNA mismatch repair pr 99.5 2.4E-14 5.1E-19 152.7 9.7 161 106-286 27-198 (694)
31 PRK05218 heat shock protein 90 99.2 2.5E-09 5.4E-14 120.1 27.4 154 108-280 28-208 (613)
32 PF13589 HATPase_c_3: Histidin 99.0 1.1E-10 2.4E-15 106.7 1.6 97 107-219 3-106 (137)
33 KOG1977 DNA mismatch repair pr 99.0 5.4E-10 1.2E-14 121.6 6.2 174 92-288 12-197 (1142)
34 PF02518 HATPase_c: Histidine 98.9 1.5E-09 3.2E-14 94.6 4.2 86 104-206 3-91 (111)
35 cd00329 TopoII_MutL_Trans MutL 98.9 6.4E-09 1.4E-13 89.6 7.8 100 304-421 2-106 (107)
36 PRK14083 HSP90 family protein; 98.8 5.4E-07 1.2E-11 100.9 20.8 159 107-284 24-196 (601)
37 COG0326 HtpG Molecular chapero 98.5 4.4E-06 9.4E-11 92.4 18.5 249 111-380 32-359 (623)
38 PTZ00272 heat shock protein 83 98.3 1.9E-06 4.1E-11 97.7 10.5 146 110-273 29-197 (701)
39 cd00075 HATPase_c Histidine ki 98.1 2.1E-05 4.6E-10 64.9 8.6 78 107-201 1-81 (103)
40 PTZ00130 heat shock protein 90 98.1 2.5E-05 5.5E-10 89.2 11.8 147 110-273 92-262 (814)
41 smart00387 HATPase_c Histidine 97.6 0.00024 5.1E-09 59.5 7.6 83 105-204 4-89 (111)
42 COG3290 CitA Signal transducti 97.6 0.00012 2.6E-09 79.7 6.4 78 106-203 427-509 (537)
43 PF13581 HATPase_c_2: Histidin 97.5 0.00069 1.5E-08 60.1 9.5 89 106-216 31-123 (125)
44 PRK11086 sensory histidine kin 97.4 0.00047 1E-08 75.7 8.9 76 106-201 433-511 (542)
45 TIGR02938 nifL_nitrog nitrogen 97.4 0.00066 1.4E-08 72.8 9.4 79 106-201 387-470 (494)
46 TIGR01925 spIIAB anti-sigma F 97.4 0.0013 2.8E-08 59.4 10.0 82 105-206 38-123 (137)
47 PRK04069 serine-protein kinase 97.3 0.00092 2E-08 62.7 8.8 92 105-213 41-136 (161)
48 TIGR01386 cztS_silS_copS heavy 97.3 0.00074 1.6E-08 72.3 8.7 81 105-201 352-435 (457)
49 PRK10604 sensor protein RstB; 97.3 0.0006 1.3E-08 73.7 7.8 80 105-202 318-400 (433)
50 COG3920 Signal transduction hi 97.3 0.0021 4.5E-08 63.7 10.6 94 95-219 111-214 (221)
51 PRK15053 dpiB sensor histidine 97.2 0.0013 2.9E-08 72.7 9.7 80 105-201 431-515 (545)
52 PRK03660 anti-sigma F factor; 97.2 0.0035 7.5E-08 57.2 10.8 83 105-207 38-124 (146)
53 PRK09303 adaptive-response sen 97.2 0.0011 2.3E-08 70.7 8.1 79 105-201 271-353 (380)
54 PRK10364 sensor protein ZraS; 97.1 0.0014 3.1E-08 71.0 8.4 76 105-202 347-425 (457)
55 PRK11006 phoR phosphate regulo 97.1 0.0016 3.5E-08 70.0 8.4 82 104-201 315-399 (430)
56 TIGR01924 rsbW_low_gc serine-p 97.0 0.0082 1.8E-07 56.3 11.0 93 106-215 42-138 (159)
57 COG4191 Signal transduction hi 96.9 0.0024 5.3E-08 70.3 8.3 49 105-153 496-547 (603)
58 COG2205 KdpD Osmosensitive K+ 96.9 0.0022 4.8E-08 72.9 7.8 114 68-199 724-853 (890)
59 PRK11100 sensory histidine kin 96.9 0.0044 9.5E-08 66.5 9.9 80 106-202 368-450 (475)
60 PRK10815 sensor protein PhoQ; 96.9 0.0032 6.8E-08 69.4 8.8 75 105-201 377-454 (485)
61 PRK09470 cpxA two-component se 96.9 0.0045 9.7E-08 66.5 9.7 78 106-201 353-433 (461)
62 PRK10337 sensor protein QseC; 96.9 0.0027 5.8E-08 68.3 7.9 78 106-203 352-429 (449)
63 PRK10549 signal transduction h 96.9 0.0034 7.3E-08 67.7 8.7 81 106-202 352-435 (466)
64 PRK11073 glnL nitrogen regulat 96.8 0.0039 8.5E-08 64.6 8.5 76 105-201 236-324 (348)
65 PRK09835 sensor kinase CusS; P 96.8 0.0051 1.1E-07 66.5 9.2 81 105-201 374-457 (482)
66 TIGR03785 marine_sort_HK prote 96.8 0.0039 8.4E-08 71.9 8.5 82 105-202 596-680 (703)
67 PRK09467 envZ osmolarity senso 96.8 0.0054 1.2E-07 65.6 9.1 77 106-202 331-410 (435)
68 PRK15347 two component system 96.6 0.0056 1.2E-07 72.0 8.5 94 105-219 512-613 (921)
69 PRK10755 sensor protein BasS/P 96.6 0.0066 1.4E-07 63.3 8.1 76 106-201 247-325 (356)
70 PRK11360 sensory histidine kin 96.5 0.0077 1.7E-07 66.2 8.1 74 106-201 500-577 (607)
71 PRK11644 sensory histidine kin 96.4 0.016 3.4E-07 64.2 10.1 44 106-152 410-456 (495)
72 TIGR02966 phoR_proteo phosphat 96.4 0.013 2.9E-07 59.2 8.7 81 105-201 228-311 (333)
73 COG0642 BaeS Signal transducti 96.4 0.0062 1.4E-07 60.7 6.1 47 104-153 226-275 (336)
74 PRK11466 hybrid sensory histid 96.3 0.011 2.4E-07 69.7 8.9 94 105-219 560-661 (914)
75 TIGR02916 PEP_his_kin putative 96.2 0.0081 1.7E-07 68.9 6.7 76 105-201 578-656 (679)
76 COG3850 NarQ Signal transducti 96.2 0.0092 2E-07 65.1 6.5 47 106-155 481-530 (574)
77 TIGR02956 TMAO_torS TMAO reduc 96.0 0.02 4.4E-07 67.8 8.8 82 103-203 576-661 (968)
78 PRK13837 two-component VirA-li 96.0 0.015 3.3E-07 68.2 7.7 76 105-202 559-652 (828)
79 PRK13560 hypothetical protein; 95.9 0.021 4.6E-07 65.7 8.5 46 107-152 712-762 (807)
80 PRK10490 sensor protein KdpD; 95.9 0.02 4.2E-07 68.0 8.3 80 105-202 777-859 (895)
81 PRK11091 aerobic respiration c 95.9 0.025 5.4E-07 65.7 9.0 99 105-219 397-504 (779)
82 PRK13557 histidine kinase; Pro 95.8 0.072 1.6E-06 58.2 11.7 95 105-219 276-393 (540)
83 PRK10841 hybrid sensory kinase 95.7 0.024 5.3E-07 67.4 7.8 82 105-203 561-645 (924)
84 PRK10547 chemotaxis protein Ch 95.7 0.044 9.5E-07 62.7 9.5 43 111-153 390-445 (670)
85 PRK10618 phosphotransfer inter 95.4 0.047 1E-06 64.7 8.9 82 104-203 563-650 (894)
86 COG5002 VicK Signal transducti 95.4 0.024 5.3E-07 59.0 5.5 93 90-199 325-422 (459)
87 PRK13559 hypothetical protein; 95.4 0.067 1.4E-06 55.8 8.9 47 106-152 267-319 (361)
88 COG4585 Signal transduction hi 95.3 0.027 5.9E-07 59.5 5.8 47 105-154 278-327 (365)
89 KOG0020 Endoplasmic reticulum 95.2 0.11 2.4E-06 56.1 9.9 157 110-279 99-279 (785)
90 PRK10600 nitrate/nitrite senso 95.2 0.036 7.9E-07 62.0 6.6 43 107-152 470-515 (569)
91 PRK11107 hybrid sensory histid 95.1 0.052 1.1E-06 63.9 8.0 100 105-219 407-517 (919)
92 COG2172 RsbW Anti-sigma regula 94.9 0.21 4.6E-06 46.3 9.7 84 106-211 40-130 (146)
93 COG5000 NtrY Signal transducti 94.8 0.047 1E-06 60.6 5.7 56 98-153 592-655 (712)
94 PRK09959 hybrid sensory histid 94.3 0.12 2.7E-06 62.9 8.7 98 105-219 827-935 (1197)
95 KOG0787 Dehydrogenase kinase [ 94.3 0.11 2.5E-06 54.5 7.0 106 85-204 243-359 (414)
96 COG3852 NtrB Signal transducti 94.2 0.09 2E-06 54.1 5.9 50 104-153 239-303 (363)
97 COG4192 Signal transduction hi 93.8 0.12 2.5E-06 55.8 6.0 79 104-203 562-644 (673)
98 PRK10935 nitrate/nitrite senso 93.4 0.1 2.2E-06 57.9 5.2 43 107-152 472-518 (565)
99 COG4251 Bacteriophytochrome (l 92.9 0.23 4.9E-06 55.6 6.9 97 106-219 636-740 (750)
100 COG3851 UhpB Signal transducti 92.7 0.18 3.8E-06 53.0 5.3 46 105-153 409-457 (497)
101 PF14501 HATPase_c_5: GHKL dom 92.0 1.4 3E-05 37.6 9.3 71 106-202 5-79 (100)
102 PF01751 Toprim: Toprim domain 92.0 0.045 9.8E-07 47.0 -0.0 37 500-537 1-37 (100)
103 COG0643 CheA Chemotaxis protei 91.5 0.21 4.5E-06 57.7 4.7 85 113-199 439-547 (716)
104 KOG0019 Molecular chaperone (H 91.3 0.56 1.2E-05 52.2 7.5 160 110-287 61-239 (656)
105 COG4564 Signal transduction hi 90.4 0.53 1.1E-05 49.0 5.8 63 88-153 330-406 (459)
106 cd00823 TopoIIB_Trans TopoIIB_ 87.9 6.3 0.00014 36.7 10.4 88 330-432 33-126 (151)
107 COG2972 Predicted signal trans 87.6 0.62 1.3E-05 51.0 4.4 48 106-153 350-402 (456)
108 COG3275 LytS Putative regulato 87.3 1 2.2E-05 49.1 5.6 44 109-152 459-507 (557)
109 PF09239 Topo-VIb_trans: Topoi 85.2 8.8 0.00019 36.0 9.9 88 330-431 42-134 (160)
110 PRK04184 DNA topoisomerase VI 71.3 50 0.0011 37.2 12.3 99 330-444 353-461 (535)
111 PRK14867 DNA topoisomerase VI 69.2 53 0.0011 37.9 12.1 99 330-444 498-614 (659)
112 TIGR01052 top6b DNA topoisomer 68.9 63 0.0014 36.0 12.3 98 330-443 348-455 (488)
113 PRK14868 DNA topoisomerase VI 62.8 75 0.0016 37.3 11.7 104 330-444 542-655 (795)
114 cd03486 MutL_Trans_MLH3 MutL_T 61.2 1.3E+02 0.0028 27.4 11.4 86 320-414 18-110 (141)
115 COG1389 DNA topoisomerase VI, 60.5 71 0.0015 35.2 10.3 100 330-445 357-465 (538)
116 cd03484 MutL_Trans_hPMS_2_like 60.3 1.2E+02 0.0027 27.7 10.8 56 344-421 63-121 (142)
117 PF10691 DUF2497: Protein of u 58.9 21 0.00045 29.3 4.8 32 426-457 35-67 (73)
118 cd00782 MutL_Trans MutL_Trans: 55.9 94 0.002 27.1 9.0 51 343-414 42-92 (122)
119 PF01119 DNA_mis_repair: DNA m 54.1 1.5E+02 0.0033 25.9 10.5 80 320-420 13-97 (119)
120 COG2865 Predicted transcriptio 45.7 36 0.00078 37.6 5.5 44 108-153 272-316 (467)
121 cd03482 MutL_Trans_MutL MutL_T 45.4 1.4E+02 0.0029 26.6 8.3 52 342-414 41-92 (123)
122 KOG4518 Hydroxypyruvate isomer 41.6 28 0.00061 34.0 3.4 39 95-133 68-106 (264)
123 PF00640 PID: Phosphotyrosine 38.1 34 0.00074 30.4 3.4 58 97-155 4-78 (140)
124 PF14484 FISNA: Fish-specific 37.8 20 0.00043 29.3 1.5 13 498-510 30-42 (73)
125 cd03485 MutL_Trans_hPMS_1_like 35.9 3.2E+02 0.0069 24.4 11.4 54 344-414 48-101 (132)
126 cd03483 MutL_Trans_MLH1 MutL_T 33.5 3.4E+02 0.0074 24.1 9.1 50 344-414 47-96 (127)
127 PF11169 DUF2956: Protein of u 32.8 91 0.002 27.2 4.8 44 414-476 18-61 (103)
128 KOG3938 RGS-GAIP interacting p 22.8 81 0.0018 32.2 3.2 32 121-152 121-153 (334)
129 cd01213 tensin Tensin Phosphot 22.0 96 0.0021 28.6 3.3 47 96-147 10-62 (138)
130 cd01267 CED6_AIDA1b Phosphotyr 20.9 1.3E+02 0.0028 27.0 4.0 61 96-159 6-75 (132)
No 1
>COG0187 GyrB Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair]
Probab=100.00 E-value=5e-146 Score=1168.91 Aligned_cols=453 Identities=53% Similarity=0.912 Sum_probs=431.3
Q ss_pred CCCCCcccceeccchhhhhhCCCeeeccCCC-CchhHHHHHHHHhhHhhhccCCCCeEEEEEecCCeEEEEECCCCccCC
Q 009294 74 SKTYGSEQIQVLEGLEAVRKRPAMYIGSTGP-RGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPID 152 (538)
Q Consensus 74 ~~~y~~~~i~~L~~lE~VrkRP~mYIGs~~~-~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg~isV~DnGrGIP~~ 152 (538)
..+|++++||+|+|||||||||||||||++. +||||||||||||||||+++|||+.|.|+|++||+|+|.|||||||++
T Consensus 3 ~~~Y~a~~I~vL~GLEaVRkRPGMYIGst~~~~GLhHlv~EVvDNsiDEalaG~~~~I~V~l~~d~sisV~DnGRGIPvd 82 (635)
T COG0187 3 TNNYDASSIQVLEGLEAVRKRPGMYIGSTGDGRGLHHLVWEVVDNSIDEALAGYADRIDVTLHEDGSISVEDNGRGIPVD 82 (635)
T ss_pred cCcCCHhHceeccCcHHhhcCCCceeccCCCCCcceeeEeEeeechHhHHhhCcCcEEEEEEcCCCeEEEEECCCCCccc
Confidence 4579999999999999999999999999998 999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCcchHHHhhhhcccCCCCCCCCCCeeeccccccchhhHHHhhcCeEEEEEEeCCEEEEEEEeCCcccccceeeec
Q 009294 153 LHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVL 232 (538)
Q Consensus 153 ~h~~~g~~~~e~v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~~~V~t~~~g~~y~q~f~~G~~~~~~~~~~~ 232 (538)
+||++++|++|+|||.|||||||+++ .|++|||+||||+|||||||+||+|+++|+|+.|+|+|++|+++.+++.+
T Consensus 83 iH~~~~~~~vEvI~T~LHAGGKFd~~--~YkvSGGLHGVG~SVVNALS~~l~v~v~r~gk~y~q~f~~G~~~~~l~~i-- 158 (635)
T COG0187 83 IHPKEKVSAVEVIFTVLHAGGKFDND--SYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYRQRFERGVPVTPLEVI-- 158 (635)
T ss_pred cCCCCCCCceEEEEEeeccCcccCCC--ccEeecCCCccceEEEecccceEEEEEEECCEEEEEEEeCCCcCCCceec--
Confidence 99999999999999999999999997 99999999999999999999999999999999999999999999777644
Q ss_pred CCCCCCCCCcEEEEEeCccccccccccCHHHHHHHHHHHHhhCCCcEEEEeeCCCCCCCCceeEEeecccHHHHHHHHcC
Q 009294 233 PVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNT 312 (538)
Q Consensus 233 ~~~~~~~~GT~V~F~PD~~~F~~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~~~~~~~~~~~f~~~~Gl~~yv~~l~~ 312 (538)
.....+.+||+|+|+||+++|.+ ..|+++.|.+||+++|+|||||+|.|+|++.... .. .|||++|+++||++++.
T Consensus 159 g~~~~~~~GT~V~F~PD~~iF~~-~~f~~~~l~~RlrelA~L~~gl~I~l~d~r~~~~--~~-~~~y~~Gl~~yv~~l~~ 234 (635)
T COG0187 159 GSTDTKKTGTKVRFKPDPEIFGE-TEFDYEILKRRLRELAFLNKGVKITLTDERTGEE--KK-EFHYEGGLKDYVEYLNK 234 (635)
T ss_pred ccCCCCCCccEEEEEcChHhcCC-cccCHHHHHHHHHHHhccCCCCEEEEEeccCCcc--cc-eeecccHHHHHHHHHhc
Confidence 22245678999999999999986 5799999999999999999999999999996522 12 59999999999999999
Q ss_pred CCCCCCC-eeEEEEecceeEEEEEEEeccCCCCceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHhcCCCCCcCCCC
Q 009294 313 DKKPLHD-VVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISL 391 (538)
Q Consensus 313 ~~~~~~~-~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~~~~k~~~~~l 391 (538)
+++++++ ++++..+.+++.||||+||+ ++|+++++||||+|+|++||||++||+++|+++||+|+++.++.|+++ +
T Consensus 235 ~k~~l~~~~~~~~~~~~~~~vEvA~q~~-d~~~e~~~SFvNnI~T~eGGTH~~Gfr~altr~in~y~~~~~~~k~~~--l 311 (635)
T COG0187 235 GKTPLHEEIFYFNGEKDGIAVEVALQWN-DGYSENILSFVNNIPTREGGTHEAGFRSALTRAINEYAKKKNLLKEGD--L 311 (635)
T ss_pred CCCccccCceecccCccceEEEEEEEEe-cCCceEEEEeecCccCCCCchHHHHHHHHHHHHHHHHHHHhCcCcccC--C
Confidence 9999996 56667777899999999999 899999999999999999999999999999999999999999988765 9
Q ss_pred CHHhHhccceEEEEEeecCCCCCCccccccCChhhhhhhhhHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHH
Q 009294 392 SGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARD 471 (538)
Q Consensus 392 ~~~dIregL~~~vsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~n~~~~~~I~~~~~~~~ka~~aakkar~ 471 (538)
+++||||||++||||+||||+|+||||+||+|++++.+|++++++.|..||++||.+++.|+++++.+++||+|+|++|+
T Consensus 312 ~g~Diregl~aviSvki~~PqFegQTK~KL~n~e~~~~V~~~v~~~~~~~l~enp~~a~~i~~k~i~aa~aR~aarkare 391 (635)
T COG0187 312 TGDDIREGLTAVISVKIPDPQFEGQTKEKLGNSEVRSIVEKLVSEAFSLFLEENPQEAKKIVEKAIAAAKAREAARKARE 391 (635)
T ss_pred CHHHHhhccEEEEEEECCCCCcCcccccccccHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhccccccCCCCCCCCCCCCCCCCceEEEEEeCCCCcccccccCCCCceEeeccCccccccccCC
Q 009294 472 LVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQVIINPLQESIFAFASA 538 (538)
Q Consensus 472 ~~~~k~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qail~PLrGKiLNv~ka 538 (538)
++|+|+.++...|||||+||+++||++|||||||||||||||||||||+||||| ||||||||||||
T Consensus 392 ~~R~k~~~~~~~LpGKLadC~skd~~~~ELfiVEGDSAGGSAKqgRdR~~QAIL-PLRGKiLNVeka 457 (635)
T COG0187 392 LTRRKSALDIPGLPGKLADCTSKDPEKSELFLVEGDSAGGSAKQGRDREFQAIL-PLRGKILNVEKA 457 (635)
T ss_pred HHhhhcccccCCCCCcCcccccCCcccceEEEEecCCcchhhhhccCccceEEe-cccCcchhhhhc
Confidence 999999899999999999999999999999999999999999999999999999 999999999997
No 2
>PTZ00109 DNA gyrase subunit b; Provisional
Probab=100.00 E-value=1e-135 Score=1133.04 Aligned_cols=458 Identities=47% Similarity=0.740 Sum_probs=426.0
Q ss_pred CCCCcccceeccchhhhhhCCCeeeccCCCCchhHHHHHHHHhhHhhhccCCCCeEEEEEecCCeEEEEECCCCccCCcc
Q 009294 75 KTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLH 154 (538)
Q Consensus 75 ~~y~~~~i~~L~~lE~VrkRP~mYIGs~~~~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg~isV~DnGrGIP~~~h 154 (538)
++|++++|++|+|||||||||||||||++.+||||||||||||||||+++|+|+.|+|+|+.||+|+|+|||||||++.|
T Consensus 98 ~~Y~a~~I~vLeGLEaVRkRPGMYIGst~~~GLhhLv~EIlDNSVDE~laG~~~~I~V~i~~DgsItV~DnGRGIPvd~h 177 (903)
T PTZ00109 98 SEYDADDIVVLEGLEAVRKRPGMYIGNTDEKGLHQLLFEILDNSVDEYLAGECNKITVVLHKDGSVEISDNGRGIPCDVS 177 (903)
T ss_pred CCCChHhCeehhccHHHhcCCCceeCCCCCCcceEEEEEEeeccchhhccCCCcEEEEEEcCCCeEEEEeCCcccccccc
Confidence 56999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcchHHHhhhhcccCCCCCCC--------------------------------------CCCeeeccccccchhhHH
Q 009294 155 PATNKSALETVLTVLHAGGKFGGS--------------------------------------SSGYSVSGGLHGVGLSVV 196 (538)
Q Consensus 155 ~~~g~~~~e~v~t~lhagskf~~~--------------------------------------~~~yk~sgG~~GvGls~v 196 (538)
|++|+|++|+|||+|||||||+++ ++.|++|||+||||+|||
T Consensus 178 ~k~g~s~~E~VlT~LhAGGKF~~~~~~~~~~~~~~~~~d~~~~~k~~~~~~~~~~~~~~~~~~~~YkvSGGLHGVG~SVV 257 (903)
T PTZ00109 178 EKTGKSGLETVLTVLHSGGKFQDTFPKNSRSDKSEDKNDTKSSKKGKSSHVKGPKEAKEKESSQMYEYSSGLHGVGLSVV 257 (903)
T ss_pred ccCCCcceeEEEEEeccCccccCcccccccccccccccccccccccccccccccccccccccCCcceecCcCCCcceeee
Confidence 999999999999999999999874 137999999999999999
Q ss_pred HhhcCeEEEEEEeCCEEEEEEEeCCcccccceeeecCCCCC-CCCCcEEEEEeC-ccccccccc-------------cCH
Q 009294 197 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSK-DRQGTRIRFWPD-KQVFTTAIQ-------------FDH 261 (538)
Q Consensus 197 nalS~~~~V~t~~~g~~y~q~f~~G~~~~~~~~~~~~~~~~-~~~GT~V~F~PD-~~~F~~~~~-------------~~~ 261 (538)
||||+||+|+|+|+|+.|.|+|++|+++.++..+ +.+ ..+||+|+|||| +++|..+.. |++
T Consensus 258 NALS~~l~VeV~RdGK~y~q~F~rG~~v~pLkvi----g~~~~~tGT~VtF~PD~~~IF~~~~~~~~~~~~~~~~~~F~~ 333 (903)
T PTZ00109 258 NALSSFLKVDVFKGGKIYSIELSKGKVTKPLSVF----SCPLKKRGTTIHFLPDYKHIFKTHHQHTETEEEEGCKNGFNL 333 (903)
T ss_pred eeccCeEEEEEEECCEEEEEEeCCCcccCCcccc----CCcCCCCceEEEEEeCcchhcCccccccccccccccccccCH
Confidence 9999999999999999999999999998876533 333 579999999999 999965332 789
Q ss_pred HHHHHHHHHHHhhCCCcEEEEeeCCCCCCC--CceeEEeecccHHHHHHHHcCCCCCCCC---eeEEEEecceeEEEEEE
Q 009294 262 NTIAGRIRELAFLNPKLTIALRKEDSDPEK--NQYNEYFFAGGLEEYVQWLNTDKKPLHD---VVGFRKDVDGITIDLAL 336 (538)
Q Consensus 262 ~~i~~rl~elA~lnpgl~i~l~d~~~~~~~--~~~~~f~~~~Gl~~yv~~l~~~~~~~~~---~i~~~~~~~~i~veval 336 (538)
++|.+||+++|+|||||+|+|+|++.+.+. ...+.|+|++|+.+||++++.+++++++ ++++.++.+++.||||+
T Consensus 334 d~L~~RLrElAfLNpGL~I~L~DeR~~~~~~~~~~e~f~~egGi~dfv~~ln~~k~~l~~~~~~I~~~g~~~~i~VEVAl 413 (903)
T PTZ00109 334 DLIKNRIHELSYLNPGLTFYLVDERIANENNFYPYETIKHEGGTREFLEELIKDKTPLYKDINIISIRGVIKNVNVEVSL 413 (903)
T ss_pred HHHHHHHHHHhccCCCcEEEEEecCccccCCcceEEEEEecCCHHHHHHHhcCCCCccCCCCceEEEEeeecCeEEEEEE
Confidence 999999999999999999999999853211 1346799999999999999988888863 67777777789999999
Q ss_pred EeccCCCCceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHhcCCCCCcCCCCCHHhHhccceEEEEEeecCCCCCCc
Q 009294 337 QWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQ 416 (538)
Q Consensus 337 ~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~~~~k~~~~~l~~~dIregL~~~vsvki~nP~FegQ 416 (538)
+|+.++|.++++||||+|+|+ ||||++||+++|+++||+|+++++++|+++.+++++||||||++||||+++||+||||
T Consensus 414 q~s~~~y~e~i~SFVNnI~T~-GGTHv~Gfr~ALTr~In~y~kk~~llK~k~~~i~gedIREGLtavISvki~~PqFeGQ 492 (903)
T PTZ00109 414 SWSLESYTALIKSFANNVSTT-AGTHIDGFKYAITRCVNGNIKKNGYFKGNFVNIPGEFIREGMTAIISVKLNGAEFDGQ 492 (903)
T ss_pred EecCCCCceEEEEEECCccCC-CCCHHHHHHHHHHHHHHHHHHHhCcccccCCCCCHHHHhhccEEEEEEeccCCcccCc
Confidence 998557889999999999999 9999999999999999999999998887778999999999999999999999999999
Q ss_pred cccccCChhhhhhhhhHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc-cCCCCCCCCCCCCCC
Q 009294 417 TKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLR-SSSLPGKLADCSSTT 495 (538)
Q Consensus 417 TKekL~n~ev~~~v~~~v~~~l~~~l~~n~~~~~~I~~~~~~~~ka~~aakkar~~~~~k~~~~-~~~lpgKL~Dc~~~~ 495 (538)
||++|+|++++.+|+.++.+.|..||++||++++.|+++++++++||++||+||+++|+|+... ...|||||+||+++|
T Consensus 493 TK~KLgn~~vk~~ve~iv~e~L~~~l~~np~~a~~I~~Ka~~a~~AreaAk~arel~R~K~~~~~~~~lPgKL~DC~s~d 572 (903)
T PTZ00109 493 TKTKLGNHLLKTILESIVFEQLSEILEFEPNLLLAIYNKSLAAKKAFEEAKAAKDLIRQKNNQYYSTILPGKLVDCISDD 572 (903)
T ss_pred ccccccCHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHhhHHHhhhhhcccccCCCCCcccccccCC
Confidence 9999999999999999999999999999999999999999999999999999999999987763 356999999999999
Q ss_pred CCceEEEEEeCCCCcccccccCCCCceEeeccCccccccccCC
Q 009294 496 PEESEIFIVEGDSAGGSAKQGRDRRFQVIINPLQESIFAFASA 538 (538)
Q Consensus 496 ~~~~eL~lvEGDSA~Gsak~gRdr~~qail~PLrGKiLNv~ka 538 (538)
+++|||||||||||||||||||||+||||| ||||||||||||
T Consensus 573 ~~~~ELfIVEGDSAgGSAKqgRdR~~QAIL-PLRGKILNVeka 614 (903)
T PTZ00109 573 IERNELFIVEGESAAGNAKQARNREFQAVL-PLKGKILNIEKI 614 (903)
T ss_pred CcccEEEEEcccCCCcccccccCccceeec-ccCCceehhccc
Confidence 999999999999999999999999999999 999999999986
No 3
>PRK14939 gyrB DNA gyrase subunit B; Provisional
Probab=100.00 E-value=4.9e-134 Score=1123.32 Aligned_cols=452 Identities=50% Similarity=0.866 Sum_probs=429.9
Q ss_pred CCCCCcccceeccchhhhhhCCCeeeccCCC-CchhHHHHHHHHhhHhhhccCCCCeEEEEEecCCeEEEEECCCCccCC
Q 009294 74 SKTYGSEQIQVLEGLEAVRKRPAMYIGSTGP-RGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPID 152 (538)
Q Consensus 74 ~~~y~~~~i~~L~~lE~VrkRP~mYIGs~~~-~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg~isV~DnGrGIP~~ 152 (538)
+.+|++++||+|+|+||||||||||||||+. +||||+|||||||||||+++|+|+.|.|+|+.||+|+|+|||||||++
T Consensus 4 ~~~Y~a~~i~vL~gle~VRkRPgMYIGst~~~~GLhhlv~EivdNaiDE~~AG~a~~I~V~i~~dgsIsV~DnGrGIPvd 83 (756)
T PRK14939 4 SNSYGASSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGIPTD 83 (756)
T ss_pred cCCCCHHHCeEecccHHHhcCCCCeeCCCCCCcchhhhhhHhhcccccccccCCCCEEEEEEcCCCeEEEEEcCCcccCC
Confidence 4569999999999999999999999999999 999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCcchHHHhhhhcccCCCCCCCCCCeeeccccccchhhHHHhhcCeEEEEEEeCCEEEEEEEeCCcccccceeeec
Q 009294 153 LHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVL 232 (538)
Q Consensus 153 ~h~~~g~~~~e~v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~~~V~t~~~g~~y~q~f~~G~~~~~~~~~~~ 232 (538)
.||++|+|++|++||++||||||+++ .|++|||+||||+++|||||+||+|+++|+|+.|+|+|++|+++.+++.+
T Consensus 84 ~h~~~g~~~~Elvlt~lhAggKfd~~--~ykvSgGlhGvG~svvNAlS~~l~v~v~r~gk~~~q~f~~G~~~~~l~~~-- 159 (756)
T PRK14939 84 IHPEEGVSAAEVIMTVLHAGGKFDQN--SYKVSGGLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHGVPVAPLKVV-- 159 (756)
T ss_pred cccccCCchhhheeeeecccCCCCCC--cccccCCccCccceEeehccCeEEEEEEeCCeEEEEEEecCccccCcccc--
Confidence 99999999999999999999999986 99999999999999999999999999999999999999999998765533
Q ss_pred CCCCCCCCCcEEEEEeCccccccccccCHHHHHHHHHHHHhhCCCcEEEEeeCCCCCCCCceeEEeecccHHHHHHHHcC
Q 009294 233 PVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNT 312 (538)
Q Consensus 233 ~~~~~~~~GT~V~F~PD~~~F~~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~~~~~~~~~~~f~~~~Gl~~yv~~l~~ 312 (538)
+.+.++||+|+|+||+++|. ...++++.|.+|++++|++||||+|+|+|++.+ ..+.|+|++|+.+|+++++.
T Consensus 160 --g~~~~~GT~V~F~PD~~iF~-~~~~~~~~i~~rl~elA~lnpgl~i~l~der~~----~~~~f~~egGi~~fv~~l~~ 232 (756)
T PRK14939 160 --GETDKTGTEVRFWPSPEIFE-NTEFDYDILAKRLRELAFLNSGVRIRLKDERDG----KEEEFHYEGGIKAFVEYLNR 232 (756)
T ss_pred --CCcCCCCcEEEEEECHHHcC-CcccCHHHHHHHHHHHhhcCCCCEEEEeccCCC----ceeEEEeCChHHHHHHHHhc
Confidence 33467999999999999995 457999999999999999999999999999853 35679999999999999998
Q ss_pred CCCCCC-CeeEEEEecceeEEEEEEEeccCCCCceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHhcCCCCCcCCCC
Q 009294 313 DKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISL 391 (538)
Q Consensus 313 ~~~~~~-~~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~~~~k~~~~~l 391 (538)
++.+++ +++++.++.+++.||||++|+ ++|+++++||||+|+|++||||++||+++|+++||+|+++.++.|+++.++
T Consensus 233 ~~~~~~~~~i~~~~~~~~~~veval~~~-~~~~e~~~SFvN~I~T~~GGTHv~gf~~altr~in~y~~~~~l~K~~~~~l 311 (756)
T PRK14939 233 NKTPLHPNIFYFSGEKDGIGVEVALQWN-DSYQENVLCFTNNIPQRDGGTHLAGFRAALTRTINNYIEKEGLAKKAKVSL 311 (756)
T ss_pred CCCcCCCCceEEEeeeCCeEEEEEEEEc-CCCceeEEEEECcccCCCCCCHHHHHHHHHHHHHHHHHHHhCcccccCCCC
Confidence 877786 578888887889999999999 789899999999999999999999999999999999999988887777899
Q ss_pred CHHhHhccceEEEEEeecCCCCCCccccccCChhhhhhhhhHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHH
Q 009294 392 SGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARD 471 (538)
Q Consensus 392 ~~~dIregL~~~vsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~n~~~~~~I~~~~~~~~ka~~aakkar~ 471 (538)
+++||||||++||||+++||+|+||||++|+|++++.+|++++.+.|..||++||..++.|+++++.+++||+||||||+
T Consensus 312 ~~~diregl~~vvsvki~~P~FegQTK~kL~n~ev~~~v~~~v~e~l~~~l~~np~~a~~ii~k~~~aa~aR~aa~kar~ 391 (756)
T PRK14939 312 TGDDAREGLTAVLSVKVPDPKFSSQTKDKLVSSEVRPAVESLVNEKLSEFLEENPNEAKIIVGKIIDAARAREAARKARE 391 (756)
T ss_pred CHhHHhhceEEEEEEecCCCcccCchhccccCHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhccccccCCCCCCCCCCCCCCCCceEEEEEeCCCCcccccccCCCCceEeeccCccccccccCC
Q 009294 472 LVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQVIINPLQESIFAFASA 538 (538)
Q Consensus 472 ~~~~k~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qail~PLrGKiLNv~ka 538 (538)
+.|||+.++...|||||+||+++||++|||||||||||||||||||||+||||| ||||||||||||
T Consensus 392 ~~rrK~~~~~~~lpgKL~Dc~~~d~~~~eLfivEGDSAgGsAk~gRdr~~qail-PLRGKiLNveka 457 (756)
T PRK14939 392 LTRRKGALDIAGLPGKLADCQEKDPALSELYLVEGDSAGGSAKQGRDRKFQAIL-PLKGKILNVEKA 457 (756)
T ss_pred HhccccccccCCCCCCccccccCCCCceEEEEEeCCCCccccccccCccceecc-ccCCccchhccC
Confidence 999999888889999999999999999999999999999999999999999999 999999999997
No 4
>TIGR01058 parE_Gpos DNA topoisomerase IV, B subunit, Gram-positive. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation step of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=100.00 E-value=5.3e-133 Score=1106.51 Aligned_cols=451 Identities=47% Similarity=0.778 Sum_probs=423.9
Q ss_pred CCCCcccceeccchhhhhhCCCeeeccCCCCchhHHHHHHHHhhHhhhccCCCCeEEEEEecCCeEEEEECCCCccCCcc
Q 009294 75 KTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLH 154 (538)
Q Consensus 75 ~~y~~~~i~~L~~lE~VrkRP~mYIGs~~~~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg~isV~DnGrGIP~~~h 154 (538)
.+|++++||+|+++||||+||||||||++.+||||+||||||||+||+++|+|+.|+|+|++||+|+|+|||||||++.|
T Consensus 3 ~~Y~~~~i~~L~glE~VRkRPgMYIGst~~~GL~hlv~EIvdNavDE~~ag~~~~I~V~i~~dgsitV~DnGrGIPv~~h 82 (637)
T TIGR01058 3 SKYNADAIKILEGLDAVRKRPGMYIGSTDSKGLHHLVWEIVDNSVDEVLAGYADNITVTLHKDNSITVQDDGRGIPTGIH 82 (637)
T ss_pred CccCHHHCeeecccHHHhcCCCCeECCCCcchhheehhhhhcchhhhhhcCCCcEEEEEEcCCCeEEEEECCCcccCccc
Confidence 45999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcchHHHhhhhcccCCCCCCCCCCeeeccccccchhhHHHhhcCeEEEEEEeCCEEEEEEEeCC-cccccceeeecC
Q 009294 155 PATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRG-KPVTTLTCHVLP 233 (538)
Q Consensus 155 ~~~g~~~~e~v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~~~V~t~~~g~~y~q~f~~G-~~~~~~~~~~~~ 233 (538)
|++++|++|+|||+||||||||++ .|++|||+||||+++|||||+||+|+++|+|+.|.|+|++| .++.+++.+
T Consensus 83 ~~~~~~~~E~v~t~LhaGgkfd~~--~ykvSGGlhGvG~svvNAlS~~~~V~v~r~gk~~~q~f~~Gg~~~~~l~~~--- 157 (637)
T TIGR01058 83 QDGNISTVETVFTVLHAGGKFDQG--GYKTAGGLHGVGASVVNALSSWLEVTVKRDGQIYQQRFENGGKIVQSLKKI--- 157 (637)
T ss_pred CcCCCccceeEEEEecccCcCCCC--cccccCCcccccccccceeeceEEEEEEECCEEEEEEEecCCcCcCCcccc---
Confidence 999999999999999999999987 89999999999999999999999999999999999999996 777665432
Q ss_pred CCCCCCCCcEEEEEeCccccccccccCHHHHHHHHHHHHhhCCCcEEEEeeCCCCCCCCceeEEeecccHHHHHHHHcCC
Q 009294 234 VDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTD 313 (538)
Q Consensus 234 ~~~~~~~GT~V~F~PD~~~F~~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~~~~~~~~~~~f~~~~Gl~~yv~~l~~~ 313 (538)
+...++||+|+|+||+++|.. ..|++++|.+||+++|+|||||+|+|+|++.+ ..+.|+|++||.+|+++++.+
T Consensus 158 -~~~~~~GT~V~F~PD~~iF~~-~~f~~d~l~~RlrelA~Ln~GL~I~l~der~~----~~~~f~~~~Gl~~yv~~l~~~ 231 (637)
T TIGR01058 158 -GTTKKTGTLVHFHPDPTIFKT-TQFNSNIIKERLKESAFLLKKLKLTFTDKRTN----KTTVFFYENGLVDFVDYINET 231 (637)
T ss_pred -cCCCCCceEEEEEeCHHHcCC-CccCHHHHHHHHHHHhccCCCcEEEEEecCCC----ceEEEEcCcCHHHHHHHhcCC
Confidence 345679999999999999974 47999999999999999999999999999854 245699999999999999987
Q ss_pred CCCCCCeeEEEEecceeEEEEEEEeccCCCCceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHhcCCCCCcCCCCCH
Q 009294 314 KKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSG 393 (538)
Q Consensus 314 ~~~~~~~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~~~~k~~~~~l~~ 393 (538)
+++++++++|.++.+++.||||++|+ ++|+++++||||+|+|++|||||+||+++|+++||+|+++++++|+++.++++
T Consensus 232 k~~l~~~i~~~~~~~~~~vevAl~~~-~~~~e~~~SFvN~I~T~~GGTHv~g~~~aLtr~in~~~~~~~~lK~~~~~i~~ 310 (637)
T TIGR01058 232 KETLSQVTYFEGEKNGIEVEVAFQFN-DGDSENILSFANSVKTKEGGTHENGFKLAITDVINSYARKYNLLKEKDKNLEG 310 (637)
T ss_pred CCcCCccEEEEEEECCcEEEEEEEEc-CCCCeEEEEeECCccCCCCCcHHHHHHHHHHHHHHHHHHHhchhccccccCCh
Confidence 77777788888877789999999999 78889999999999999999999999999999999999998888877789999
Q ss_pred HhHhccceEEEEEeecC--CCCCCccccccCChhhhhhhhhHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHH
Q 009294 394 EHVREGLTCIISVRVPN--PEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARD 471 (538)
Q Consensus 394 ~dIregL~~~vsvki~n--P~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~n~~~~~~I~~~~~~~~ka~~aakkar~ 471 (538)
+|||+||++||+|++++ |+|+||||++|+|++++.+|++++.+.|..||++||+.++.|+++++.+++||+|||++|+
T Consensus 311 ~diregL~~vIsvki~~pnP~FegQTK~kL~n~~v~~~v~~~v~e~l~~~l~~np~~a~~Iiek~~~~a~aR~aa~~ar~ 390 (637)
T TIGR01058 311 SDIREGLSAIISVRIPEELIQFEGQTKSKLFSPEARNVVDEIVQDHLFFFLEENNNDAKLLIDKAIKARDAKEAAKKARE 390 (637)
T ss_pred hhHhhccEEEEEEecCCCcccccCcccccccChhHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999975 5999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhc--cccccCCCCCCCCCCCCCCCCceEEEEEeCCCCcccccccCCCCceEeeccCccccccccCC
Q 009294 472 LVRQK--SVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQVIINPLQESIFAFASA 538 (538)
Q Consensus 472 ~~~~k--~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qail~PLrGKiLNv~ka 538 (538)
+.|+| +......|||||+||+++++++|||||||||||||||||||||+||||| ||||||||||+|
T Consensus 391 ~~r~~~k~~~~~~~lpgKL~dc~~~~~~~~eLfivEGDSAggsak~gRdr~~qail-PLRGKiLNv~ka 458 (637)
T TIGR01058 391 EKKSGKKPKKEKGILSGKLTPAQSKNPAKNELFLVEGDSAGGSAKQGRDRKFQAIL-PLRGKVLNVEKA 458 (637)
T ss_pred HHhhccccccccCCCCcccccccCCCCCccEEEEEecCccccccccccccceEEEe-ccCCcccccccC
Confidence 99874 4556667999999999999999999999999999999999999999999 999999999997
No 5
>PRK05644 gyrB DNA gyrase subunit B; Validated
Probab=100.00 E-value=7.3e-127 Score=1061.21 Aligned_cols=454 Identities=58% Similarity=0.949 Sum_probs=426.5
Q ss_pred CCCCCcccceeccchhhhhhCCCeeeccCCCCchhHHHHHHHHhhHhhhccCCCCeEEEEEecCCeEEEEECCCCccCCc
Q 009294 74 SKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDL 153 (538)
Q Consensus 74 ~~~y~~~~i~~L~~lE~VrkRP~mYIGs~~~~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg~isV~DnGrGIP~~~ 153 (538)
+++|++++||+|+++||||+||||||||++.+||||+||||||||+||+++|+|++|+|+|+.+|+|+|+|||||||++.
T Consensus 5 ~~~Y~~~~i~~L~~lE~Vr~RPgMYiGs~~~~gl~~~v~ElvdNaiDe~~ag~a~~I~V~i~~~g~I~V~DnG~GIp~~~ 84 (638)
T PRK05644 5 AQEYDASQIQVLEGLEAVRKRPGMYIGSTGERGLHHLVYEIVDNSIDEALAGYCDHIEVTINEDGSITVTDNGRGIPVDI 84 (638)
T ss_pred cCCCCHHHCeEecchHHHhcCCCceECCCChhhHHhhhHHhhhcccccccCCCCCEEEEEEeCCCcEEEEEeCccccCCc
Confidence 45699999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCcchHHHhhhhcccCCCCCCCCCCeeeccccccchhhHHHhhcCeEEEEEEeCCEEEEEEEeCCcccccceeeecC
Q 009294 154 HPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLP 233 (538)
Q Consensus 154 h~~~g~~~~e~v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~~~V~t~~~g~~y~q~f~~G~~~~~~~~~~~~ 233 (538)
|+++|++.+|++|+++||||||+++ .|++|+||||+|++++||||++|+|+++++|+.|.|+|++|+++.++..+
T Consensus 85 h~~~ki~~~e~i~~~lhag~kfd~~--~yk~s~G~~G~Gls~vnalS~~~~v~t~r~g~~~~~~~~~G~~~~~~~~~--- 159 (638)
T PRK05644 85 HPKTGKPAVEVVLTVLHAGGKFGGG--GYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYYQEYERGVPVTPLEVI--- 159 (638)
T ss_pred cCCCCCCchHHheeeecccCccCCC--cccccCCccccchhhhhheeceEEEEEEeCCcEEEEEEECCeEccCcccc---
Confidence 9999999999999999999999987 89999999999999999999999999999999999999999998655432
Q ss_pred CCCCCCCCcEEEEEeCccccccccccCHHHHHHHHHHHHhhCCCcEEEEeeCCCCCCCCceeEEeecccHHHHHHHHcCC
Q 009294 234 VDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTD 313 (538)
Q Consensus 234 ~~~~~~~GT~V~F~PD~~~F~~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~~~~~~~~~~~f~~~~Gl~~yv~~l~~~ 313 (538)
+...++||+|+|+||+++|. +..++++.|.+|++++|++||+|+|+|++++.+. ...+.|+|++||.+|+++++.+
T Consensus 160 -~~~~~~GT~I~F~Pd~~~F~-~~~~e~~~i~~rl~~~A~l~pgl~i~l~~er~~~--~~~~~f~~~~Gl~dyv~~l~~~ 235 (638)
T PRK05644 160 -GETDETGTTVTFKPDPEIFE-TTEFDYDTLATRLRELAFLNKGLKITLTDEREGE--EKEETFHYEGGIKEYVEYLNRN 235 (638)
T ss_pred -CCcCCCCcEEEEEECHHHcC-CcccCHHHHHHHHHHHHhhCCCcEEEEEeccCCC--cceeEEEcCCCHHHHHHHHhcC
Confidence 33467999999999999995 5679999999999999999999999999998432 1356799999999999999887
Q ss_pred CCCCC-CeeEEEEecceeEEEEEEEeccCCCCceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHhcCCCCCcCCCCC
Q 009294 314 KKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLS 392 (538)
Q Consensus 314 ~~~~~-~~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~~~~k~~~~~l~ 392 (538)
+++++ +++.+..+.++++||||++|+ ++|+++++||||+|+|++|||||+||+++|+++||+|+++++++|+++.+++
T Consensus 236 ~~~~~~~~i~~~~~~~~~~veval~~~-~~~~~~~~SFvN~I~T~~GGTHv~g~~~al~~~l~~~~~k~~~~Kk~~~~i~ 314 (638)
T PRK05644 236 KEPLHEEPIYFEGEKDGIEVEVAMQYN-DGYSENILSFANNINTHEGGTHEEGFKTALTRVINDYARKNKLLKEKDDNLT 314 (638)
T ss_pred CCcCCCCCeEEEeeccCeEEEEEEEec-CCCceEEEEEECcccCCCCCCHHHHHHHHHHHHHHHHHHHhCcccccCCCCC
Confidence 77776 567777766778999999999 6788899999999999999999999999999999999999888776678999
Q ss_pred HHhHhccceEEEEEeecCCCCCCccccccCChhhhhhhhhHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 009294 393 GEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDL 472 (538)
Q Consensus 393 ~~dIregL~~~vsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~n~~~~~~I~~~~~~~~ka~~aakkar~~ 472 (538)
++|||+||++||+|+|+||+|+||||++|+|++++.+|++++.+.|..||++||+.++.|+++++.++++|++++++|+.
T Consensus 315 ~~dIregl~~vVsv~i~nP~F~gQTKekL~~~~v~~~v~~~v~~~l~~~l~~n~~~~~~I~~~~~~~a~~r~~a~~~k~~ 394 (638)
T PRK05644 315 GEDVREGLTAVISVKHPEPQFEGQTKTKLGNSEVRGIVDSVVSEALSEFLEENPNVAKKIVEKAILAARAREAARKAREL 394 (638)
T ss_pred hhHHhhceEEEEEEecCCCcccCcccccccCHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhccccccCCCCCCCCCCCCCCCCceEEEEEeCCCCcccccccCCCCceEeeccCccccccccCC
Q 009294 473 VRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQVIINPLQESIFAFASA 538 (538)
Q Consensus 473 ~~~k~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qail~PLrGKiLNv~ka 538 (538)
.|+|+.++...|||||+||+++++++|||||||||||||||||||||+||||| |||||||||++|
T Consensus 395 ~r~k~~~~~~~lpgKL~dc~~~~~~~~eLflvEGDSA~gsak~grdr~~qail-PLrGKiLNv~~a 459 (638)
T PRK05644 395 TRRKSALESSSLPGKLADCSSKDPEESELYIVEGDSAGGSAKQGRDRRFQAIL-PLRGKILNVEKA 459 (638)
T ss_pred hhcccccccCCCCchhcccccCCCCccEEEEEecCCCccccccccCccceeec-ccCCceeccccC
Confidence 99888887789999999999999999999999999999999999999999999 999999999986
No 6
>PRK05559 DNA topoisomerase IV subunit B; Reviewed
Probab=100.00 E-value=1.3e-125 Score=1051.14 Aligned_cols=449 Identities=47% Similarity=0.807 Sum_probs=420.2
Q ss_pred CCCCCCcccceeccchhhhhhCCCeeeccCCCCchhHHHHHHHHhhHhhhccCCCCeEEEEEecCCeEEEEECCCCccCC
Q 009294 73 VSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPID 152 (538)
Q Consensus 73 ~~~~y~~~~i~~L~~lE~VrkRP~mYIGs~~~~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg~isV~DnGrGIP~~ 152 (538)
.+++|++++||+|+++|||||||||||||++.+||||+|+||||||+||+++|+|+.|.|+|++||+|+|+|||||||++
T Consensus 4 ~~~~y~~~~i~~L~~lE~VrkRP~mYiGs~~~~gl~~lv~EivdNaiDe~~ag~a~~I~V~i~~dg~I~V~DnGrGIP~~ 83 (631)
T PRK05559 4 MTNNYNADSIEVLEGLEPVRKRPGMYIGSTDTRGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADGSVSVRDNGRGIPVG 83 (631)
T ss_pred ccCCCCHHHCeeccchHHHhcCCCceeCCCCCchhhhhhhhhhccccchhhcCCCCEEEEEEeCCCcEEEEEcCCCCCcc
Confidence 34569999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCcchHHHhhhhcccCCCCCCCCCCeeeccccccchhhHHHhhcCeEEEEEEeCCEEEEEEEeCCcccccceeeec
Q 009294 153 LHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVL 232 (538)
Q Consensus 153 ~h~~~g~~~~e~v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~~~V~t~~~g~~y~q~f~~G~~~~~~~~~~~ 232 (538)
.||.+|+|++|++|++|||||||++. .|++|||+||+|+++|||||++|+|+|+++|+.|.|+|++|++..++..+
T Consensus 84 ~~~~~~~~~~E~v~t~lhagsKf~~~--~yk~SgGl~GvGls~vNalS~~l~V~s~r~g~~~~~~f~~G~~~~~l~~~-- 159 (631)
T PRK05559 84 IHPEEGKSGVEVILTKLHAGGKFSNK--AYKFSGGLHGVGVSVVNALSSRLEVEVKRDGKVYRQRFEGGDPVGPLEVV-- 159 (631)
T ss_pred cccccCCcchheeeeeccccCccCCc--cccccCcccccchhhhhhheeeEEEEEEeCCeEEEEEEECCcCccCcccc--
Confidence 99999999999999999999999987 89999999999999999999999999999999999999999988765322
Q ss_pred CCCCCCCCCcEEEEEeCccccccccccCHHHHHHHHHHHHhhCCCcEEEEeeCCCCCCCCceeEEeecccHHHHHHHHcC
Q 009294 233 PVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNT 312 (538)
Q Consensus 233 ~~~~~~~~GT~V~F~PD~~~F~~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~~~~~~~~~~~f~~~~Gl~~yv~~l~~ 312 (538)
.......+||+|+|+||+++|. +..++.+.|.+|++++|++||||+|+|++++ . ++.|+|++||.+|+.+++.
T Consensus 160 ~~~~~~~~GT~V~f~PD~~iF~-~~~~~~~~i~~~l~~~A~lnpgl~i~l~d~~-~-----~~~f~~~~gl~~~v~~~~~ 232 (631)
T PRK05559 160 GTAGKRKTGTRVRFWPDPKIFD-SPKFSPERLKERLRSKAFLLPGLTITLNDER-E-----RQTFHYENGLKDYLAELNE 232 (631)
T ss_pred ccccCCCCCcEEEEEECHHHcC-CcccCHHHHHHHHHHHHhhCCCeEEEEEeCC-c-----eEEEECCccHHHHHHHHhC
Confidence 1111267999999999999995 4579999999999999999999999999987 2 4679999999999999998
Q ss_pred CCCCCCC--eeEEEEecceeEEEEEEEeccCCCCceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHhcCCCCCcCCC
Q 009294 313 DKKPLHD--VVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDIS 390 (538)
Q Consensus 313 ~~~~~~~--~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~~~~k~~~~~ 390 (538)
+++++++ ++++.++.+++.||||++|+ ++|+++++||||+|+|++|||||+||+++|+++||+|+++++++| ++.+
T Consensus 233 ~~~~i~~~~~i~~~~~~~~~~veval~~~-~~~~~~~~SFvN~I~T~~GGTHv~g~~~al~~~in~~~~~~~l~k-~~~~ 310 (631)
T PRK05559 233 GKETLPEEFVGSFEGEAEGEAVEWALQWT-DEGGENIESYVNLIPTPQGGTHENGFREGLLKAVREFAEKRNLLP-KGKK 310 (631)
T ss_pred CCCccCCCCceEEeeeeccceEEEEEEec-CCCCeEEEEEECcccCCCCCCHHHHHHHHHHHHHHHHHHHhCccc-cccC
Confidence 7778874 68888777789999999999 678889999999999999999999999999999999999998877 5789
Q ss_pred CCHHhHhccceEEEEEeecCCCCCCccccccCChhhhhhhhhHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHH
Q 009294 391 LSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRAR 470 (538)
Q Consensus 391 l~~~dIregL~~~vsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~n~~~~~~I~~~~~~~~ka~~aakkar 470 (538)
++++|||+||++||+|+|+||+|+||||++|+|++++.+|++++.+.|..||++||++++.|+++++.++++|++ ++|
T Consensus 311 l~~~diregl~~vvsvki~~P~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~a~~ii~k~~~~a~ar~~--~~~ 388 (631)
T PRK05559 311 LEGEDVREGLAAVLSVKIPEPQFEGQTKEKLGSREARRFVSGVVKDAFDLWLNQNPELAEKLAEKAIKAAQARLR--AAK 388 (631)
T ss_pred CChhhHhhceEEEEEEEcCCCcccCcccccccCHhHhhhhhhHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHH--HHH
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999997 478
Q ss_pred HHHhhccccccCCCCCCCCCCCCCCCCceEEEEEeCCCCcccccccCCCCceEeeccCccccccccCC
Q 009294 471 DLVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQVIINPLQESIFAFASA 538 (538)
Q Consensus 471 ~~~~~k~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qail~PLrGKiLNv~ka 538 (538)
++.|+|..++ ..|||||+||+++++++|||||||||||||||||||||+||||| |||||||||+||
T Consensus 389 ~~~r~k~~~~-~~lpgKL~dc~~~~~~~~eL~lvEGDSAggsak~grdr~~qail-PLRGKiLNv~~a 454 (631)
T PRK05559 389 KVKRKKKTSG-PALPGKLADCTSQDPERTELFLVEGDSAGGSAKQARDREFQAIL-PLRGKILNTWEA 454 (631)
T ss_pred HHhhhccccC-CCCCCcCcccccCCCCCCEEEEEeCCCCccccccccCccceeec-ccCCeecccccC
Confidence 8888887777 78999999999999999999999999999999999999999999 999999999997
No 7
>TIGR01055 parE_Gneg DNA topoisomerase IV, B subunit, proteobacterial. This protein is active as an alpha(2)beta(2) heterotetramer.
Probab=100.00 E-value=7.1e-125 Score=1042.10 Aligned_cols=447 Identities=37% Similarity=0.625 Sum_probs=408.1
Q ss_pred CCCCcccceeccchhhhhhCCCeeeccCCCCchhHHHHHHHHhhHhhhccCCCCeEEEEEecCCeEEEEECCCCccCCcc
Q 009294 75 KTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLH 154 (538)
Q Consensus 75 ~~y~~~~i~~L~~lE~VrkRP~mYIGs~~~~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg~isV~DnGrGIP~~~h 154 (538)
++|++++|++|+|||||||||||||||+++ ||+|||||||||||+++|+|+.|.|+|+.||+|+|+|||||||++.|
T Consensus 2 ~~y~~~~i~~L~gle~VRkRPgMYigs~~~---~~lv~ElvdNsiDE~~ag~a~~I~V~i~~d~~I~V~DnGrGIp~~~h 78 (625)
T TIGR01055 2 TNYSAKDIEVLDGLEPVRKRPGMYTDTTRP---NHLVQEVIDNSVDEALAGFASIIMVILHQDQSIEVFDNGRGMPVDIH 78 (625)
T ss_pred CccChhhceeecccHHhhcCCCCeeCCCCc---ceeehhhhhcccchhhcCCCCEEEEEEeCCCeEEEEecCCccCcccc
Confidence 569999999999999999999999999864 99999999999999999999999999999999999999999999999
Q ss_pred CCCCcchHHHhhhhcccCCCCCCCCCCeeeccccccchhhHHHhhcCeEEEEEEeCCEEEEEEEeCCcccccceeeecCC
Q 009294 155 PATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPV 234 (538)
Q Consensus 155 ~~~g~~~~e~v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~~~V~t~~~g~~y~q~f~~G~~~~~~~~~~~~~ 234 (538)
|++|+|++|++||++||||||++. .|++|+||||+|+++|||||+||+|+++++|+.|+|+|++|+++.+++.+ ..
T Consensus 79 ~~~g~~~~e~v~t~lhagsK~~~~--~~~~SgG~~GvGls~vnalS~~l~v~~~r~g~~~~~~~~~G~~~~~~~~i--~~ 154 (625)
T TIGR01055 79 PKEGVSAVEVILTTLHAGGKFSNK--NYHFSGGLHGVGISVVNALSKRVKIKVYRQGKLYSIAFENGAKVTDLISA--GT 154 (625)
T ss_pred cccCCcHHHHhhhcccccCCCCCC--cceecCCCcchhHHHHHHhcCeEEEEEEECCeEEEEEEECCeEccccccc--cc
Confidence 999999999999999999999987 89999999999999999999999999999999999999999997665432 11
Q ss_pred CCCCCCCcEEEEEeCccccccccccCHHHHHHHHHHHHhhCCCcEEEEeeCCCCCCCCceeEEeecccHHHHHHHHcCCC
Q 009294 235 DSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDK 314 (538)
Q Consensus 235 ~~~~~~GT~V~F~PD~~~F~~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~~~~~~~~~~~f~~~~Gl~~yv~~l~~~~ 314 (538)
.....+||+|+|+||+++|.. ..++++.|.+|++++|++||+|+|+|+|++.+ ..+.|+|++||.+|+++++.++
T Consensus 155 ~~~~~~GT~V~F~PD~~~F~~-~~~e~~~i~~~l~~lA~lnpgi~~~l~der~~----~~~~f~~~~Gi~~yv~~l~~~~ 229 (625)
T TIGR01055 155 CGKRLTGTSVHFTPDPEIFDS-LHFSVSRLYHILRAKAVLCRGVEIEFEDEVNN----TKALWNYPDGLKDYLSEAVNGD 229 (625)
T ss_pred cCCCCCCeEEEEEECHHHCCC-CccCHHHHHHHHHHHHhhCCCcEEEEeecCCC----ceeEEecCchHHHHHHHHhcCC
Confidence 113459999999999999964 57999999999999999999999999999853 2357999999999999998877
Q ss_pred CCCCCee-EEEEecceeEEEEEEEeccCCCCceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHhcCCCCCcCCCCCH
Q 009294 315 KPLHDVV-GFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSG 393 (538)
Q Consensus 315 ~~~~~~i-~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~~~~k~~~~~l~~ 393 (538)
+++++++ ......+++.++||++|+.+.+++.++||||+|+|++|||||+||+++|+++||+|++++++.|+ +.++++
T Consensus 230 ~~~~~~~~~~~~~~~~~~ve~al~~~~~~~~~~~~SFvN~I~T~~GGTHv~gf~~alt~~in~~~~~~~~~kk-~~~i~~ 308 (625)
T TIGR01055 230 NTLPPKPFSGNFEGDDEAVEWALLWLPEGGELFMESYVNLIPTPQGGTHVNGLRQGLLDALREFCEMRNNLPR-GVKLTA 308 (625)
T ss_pred CCCCCCceEEEEeeCCceEEEEEEEecCCCCEEEEEeeccccCCCCCCHHHHHHHHHHHHHHHHHHHhCcccc-cCCCCH
Confidence 6666433 23333467889999999855577889999999999999999999999999999999998876654 578999
Q ss_pred HhHhccceEEEEEeecCCCCCCccccccCChhhhhhhhhHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 009294 394 EHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLV 473 (538)
Q Consensus 394 ~dIregL~~~vsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~n~~~~~~I~~~~~~~~ka~~aakkar~~~ 473 (538)
+||||||++||||+++||+|+||||++|+|++++.+|++++.+.|..||++||..++.|+++++.++++|+ +++|++.
T Consensus 309 ~diregl~~vVsvki~~P~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~a~~i~~k~~~~a~ar~--~~a~~~~ 386 (625)
T TIGR01055 309 EDIWDRCSYVLSIKMQDPQFAGQTKERLSSRQVAKFVSGVIKDAFDLWLNQNVQLAEHLAEHAISSAQRRK--RAAKKVV 386 (625)
T ss_pred HHHhhccEEEEEEeccCCcccCcccccccCHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHH--HHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999997 7788876
Q ss_pred hhccccccCCCCCCCCCCCCCCCCceEEEEEeCCCCcccccccCCCCceEeeccCccccccccCC
Q 009294 474 RQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQVIINPLQESIFAFASA 538 (538)
Q Consensus 474 ~~k~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qail~PLrGKiLNv~ka 538 (538)
| |+.++...|||||+||+++||++|||||||||||||||||||||+||||| ||||||||||||
T Consensus 387 r-k~~~~~~~lpgKL~dc~~~~~~~~eLfivEGDSA~gsak~grdr~~qail-PLRGKiLNv~ka 449 (625)
T TIGR01055 387 R-KKLTSGPALPGKLADCTRQDLEGTELFLVEGDSAGGSAKQARDREYQAIL-PLWGKILNTWEV 449 (625)
T ss_pred h-cccccCCCCCccccccccCCCCceEEEEEecCCCCccccccCCcceeEEe-ccCCceeecccC
Confidence 6 44667788999999999999999999999999999999999999999999 999999999997
No 8
>TIGR01059 gyrB DNA gyrase, B subunit. This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV. Proteins scoring above the noise cutoff for this model and below the trusted cutoff for topoisomerase IV models probably should be designated GyrB.
Probab=100.00 E-value=1.8e-124 Score=1048.57 Aligned_cols=451 Identities=54% Similarity=0.931 Sum_probs=426.5
Q ss_pred CCcccceeccchhhhhhCCCeeeccCCCCchhHHHHHHHHhhHhhhccCCCCeEEEEEecCCeEEEEECCCCccCCccCC
Q 009294 77 YGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPA 156 (538)
Q Consensus 77 y~~~~i~~L~~lE~VrkRP~mYIGs~~~~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg~isV~DnGrGIP~~~h~~ 156 (538)
|++++||+|+++||||+||||||||++++||||+|+|||+||+||+++|+|+.|.|+|+.+|+|+|+|||+|||++.|++
T Consensus 1 Y~~~~i~~L~~lE~vr~RP~mYiGs~~~~gl~~vv~Elv~NaiDe~~ag~a~~I~V~i~~~g~I~V~DnG~GIp~~~h~~ 80 (654)
T TIGR01059 1 YDASSIKVLEGLEAVRKRPGMYIGSTGETGLHHLVYEVVDNSIDEAMAGYCDTINVTINDDGSVTVEDNGRGIPVDIHPE 80 (654)
T ss_pred CChHHCeEecchHHHhcCCCceeCCCCcchHHhhhHHhhhccccccccCCCCEEEEEEeCCCcEEEEEeCCCcCccccCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcchHHHhhhhcccCCCCCCCCCCeeeccccccchhhHHHhhcCeEEEEEEeCCEEEEEEEeCCcccccceeeecCCCC
Q 009294 157 TNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDS 236 (538)
Q Consensus 157 ~g~~~~e~v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~~~V~t~~~g~~y~q~f~~G~~~~~~~~~~~~~~~ 236 (538)
+|++.+|++|++|||||||+++ .|++|+|+||+|++++||||++|+|+++++|+.|+|+|++|+++.++... +.
T Consensus 81 ~ki~~~e~i~~~l~ag~kf~~~--~~k~s~G~~G~gl~~inalS~~l~v~~~~~g~~~~~~~~~G~~~~~l~~~----~~ 154 (654)
T TIGR01059 81 EGISAVEVVLTVLHAGGKFDKD--SYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFERGIPLGPLEVV----GE 154 (654)
T ss_pred CCCCchHHheeeecccCccCCC--cceecCCccchhHHHHHHhcCeEEEEEEECCeEEEEEEeCCCcccCceec----cC
Confidence 9999999999999999999987 89999999999999999999999999999999999999999998755432 44
Q ss_pred CCCCCcEEEEEeCccccccccccCHHHHHHHHHHHHhhCCCcEEEEeeCCCCCCCCceeEEeecccHHHHHHHHcCCCCC
Q 009294 237 KDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKP 316 (538)
Q Consensus 237 ~~~~GT~V~F~PD~~~F~~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~~~~~~~~~~~f~~~~Gl~~yv~~l~~~~~~ 316 (538)
+.++||+|+|+|||.+|. +..++++.|.+|++++|++||+|+|+|++++.+. ...+.|+|++||.+|+++++.++++
T Consensus 155 ~~~~GT~V~F~pdp~~F~-~~~~e~~~i~~rl~~~A~l~pgl~i~l~~er~~~--~~~~~f~~~~Gl~~yv~~l~~~~~~ 231 (654)
T TIGR01059 155 TKKTGTTVRFWPDPEIFE-TTEFDFDILAKRLRELAFLNSGVKISLEDERDGK--GKSVTFHYEGGIKSFVKYLNRNKEP 231 (654)
T ss_pred CCCCCcEEEEEEChHHhC-CcccCHHHHHHHHHHhhccCCCeEEEEEeecCCC--CceeEEEcCCcHHHHHHHHhcCCCc
Confidence 667999999999999998 5679999999999999999999999999998521 1356799999999999999887777
Q ss_pred CC-CeeEEEEecceeEEEEEEEeccCCCCceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHhcCCCCCcCCCCCHHh
Q 009294 317 LH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEH 395 (538)
Q Consensus 317 ~~-~~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~~~~k~~~~~l~~~d 395 (538)
++ +++++.++.++++||||++|+ ++|+++++||||+|+|++|||||+||+++|+++||+|++++++.|+++.+++++|
T Consensus 232 l~~~~i~~~~~~~~~~veva~~~~-~~~~~~~~SFvN~I~T~~GGTHv~g~~~al~~~i~~~~~~~~l~K~~~~~i~~~d 310 (654)
T TIGR01059 232 LHEEIIYIKGEKEGIEVEVALQWN-DGYSENILSFVNNINTREGGTHLEGFRSALTRVINSYAKNNKLLKESKPNLTGED 310 (654)
T ss_pred CCCCCeEEEecccCeEEEEEEEec-CCCceeEEEEECcccCCCCCcHHHHHHHHHHHHHHHHHHHhCcccccCCCCCHHH
Confidence 75 578888776789999999999 6788899999999999999999999999999999999999888877778999999
Q ss_pred HhccceEEEEEeecCCCCCCccccccCChhhhhhhhhHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 009294 396 VREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQ 475 (538)
Q Consensus 396 IregL~~~vsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~n~~~~~~I~~~~~~~~ka~~aakkar~~~~~ 475 (538)
||+||++||+|+++||+|+||||++|+|++++.+|.+++.+.|..||++||+.++.|+++++.++++|++++++|++.|+
T Consensus 311 iregl~~vvsv~i~~P~F~gQTK~kL~~~~v~~~v~~~v~~~l~~~l~~n~~~a~~iv~k~~~~a~~r~~a~~~k~~~r~ 390 (654)
T TIGR01059 311 IREGLTAVISVKVPDPQFEGQTKTKLGNSEVRSIVESLVYEKLTEFFEENPQEAKAIVEKAILAAQAREAARKARELTRR 390 (654)
T ss_pred HhhccEEEEEEecCCCcccCcccccccChhHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHhHHHhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCCCCCCCCCCCCCCCceEEEEEeCCCCcccccccCCCCceEeeccCccccccccCC
Q 009294 476 KSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQVIINPLQESIFAFASA 538 (538)
Q Consensus 476 k~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qail~PLrGKiLNv~ka 538 (538)
|+..+...|||||+||+++|+++|||||||||||||||||||||+||||| |||||||||++|
T Consensus 391 k~~~~~~~lpgKL~dc~~~~~~~~eL~lvEGDSA~gsak~gRd~~~qai~-PLrGKiLNv~~~ 452 (654)
T TIGR01059 391 KSALDSGGLPGKLADCSSKDPSKSELYIVEGDSAGGSAKQGRDRKFQAIL-PLRGKILNVEKA 452 (654)
T ss_pred ccccccCCCCcCccCcccCCCCCCEEEEEecCCCCccccccccccccccc-ccCCccchhccC
Confidence 88877889999999999999999999999999999999999999999999 999999999987
No 9
>PHA02569 39 DNA topoisomerase II large subunit; Provisional
Probab=100.00 E-value=5.3e-117 Score=973.53 Aligned_cols=410 Identities=29% Similarity=0.447 Sum_probs=368.9
Q ss_pred ccceeccchhhhhhCCCeeeccCCC-----------------CchhHHHHHHHHhhHhhhcc---CCCCeEEEEEecCCe
Q 009294 80 EQIQVLEGLEAVRKRPAMYIGSTGP-----------------RGLHHLVYEILDNAVDEAQA---GYASNIEVALLADNS 139 (538)
Q Consensus 80 ~~i~~L~~lE~VrkRP~mYIGs~~~-----------------~gL~~lv~EivdNAiDe~~~---g~~~~I~V~i~~dg~ 139 (538)
++||+|+++||||+||||||||++. +|||||||||||||+||+++ |+|+.|+|+|+ ||+
T Consensus 2 ~~i~~L~~lE~Vr~RPgmYIGs~~~~~~~~~~~~~~~~~~~~~GL~hi~~EIldNavDe~~~~~~g~~~~I~V~i~-dgs 80 (602)
T PHA02569 2 DEFKVLSDREHILKRPGMYIGSVAYEAHERFLFGKFTQVEYVPGLVKIIDEIIDNSVDEAIRTNFKFANKIDVTIK-NNQ 80 (602)
T ss_pred CceeEccchHHHhcCCCceeCCCCcccccceeecccccccccccceeeeehhhhhhhhhhhccCCCCCcEEEEEEc-CCE
Confidence 6899999999999999999999998 99999999999999999999 99999999999 999
Q ss_pred EEEEECCCCccCCccCC-CC--cchHHHhhhhcccCCCCCCCCCCeeeccccccchhhHHHhhcCeEEEEEEeCCEEEEE
Q 009294 140 VSVADNGRGIPIDLHPA-TN--KSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQ 216 (538)
Q Consensus 140 isV~DnGrGIP~~~h~~-~g--~~~~e~v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~~~V~t~~~g~~y~q 216 (538)
|+|+|||||||++.|++ +| +|++|+|||+|||||||+ + .|++|||+||||+|||||||++|+|+++++++.|+|
T Consensus 81 isV~dnGrGIPv~~h~~~~g~~~~~~E~i~t~LhaGgkFd-~--~ykvSGGlhGVG~svvNaLS~~~~V~v~~~~~~~~q 157 (602)
T PHA02569 81 VTVSDNGRGIPQAMVTTPEGEEIPGPVAAWTRTKAGSNFD-D--TNRVTGGMNGVGSSLTNFFSVLFIGETCDGKNEVTV 157 (602)
T ss_pred EEEEECCCcccCCcccccccccccceEEEEEeeccccccC-C--cceeeCCcCCccceeeeccchhhheEEEcCCEEEEE
Confidence 99999999999999986 55 888999999999999994 4 799999999999999999999999999999999999
Q ss_pred EEeCCcccccceeeecCCCCCCCCCcEEEEEeCccccccccccC---HHHHHHHHHHHHhhCCCcEEEEeeCCCCCCCCc
Q 009294 217 KYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFD---HNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQ 293 (538)
Q Consensus 217 ~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~PD~~~F~~~~~~~---~~~i~~rl~elA~lnpgl~i~l~d~~~~~~~~~ 293 (538)
+|++|++..++. .+.+..+||+|+|+||+++|.+ ..|+ +++|.+||+++|+|||||+|+|+|++.+
T Consensus 158 ~f~~G~~~~~~~-----~~~~~~~GT~V~F~PD~~iF~~-~~~~~~~~~~l~~Rl~elA~Ln~Gl~I~l~der~~----- 226 (602)
T PHA02569 158 NCSNGAENISWS-----TKPGKGKGTSVTFIPDFSHFEV-NGLDQQYLDIILDRLQTLAVVFPDIKFTFNGKKVS----- 226 (602)
T ss_pred EecCCcccCCcc-----cCCCCCCccEEEEEECHHHhCC-CccCccHHHHHHHHHHHHhcCCCCCEEEEEecCCC-----
Confidence 999999876542 1345679999999999999975 3465 6889999999999999999999998731
Q ss_pred eeEEeecccHHHHHHHHcCCCCCCCCeeEEEEecceeEEEEEEEeccCCCCceEEEeeCceeccCCccchHHHHHHHHHH
Q 009294 294 YNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRT 373 (538)
Q Consensus 294 ~~~f~~~~Gl~~yv~~l~~~~~~~~~~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~ 373 (538)
+||.+|+++++. +++.+. .+ .|+||++|+.++| +++||||+|+|++|||||+||+++|+++
T Consensus 227 -------~g~~~yv~~~~~------~~i~~~--~~--~veva~~~~~~~~--~~~SFvN~I~T~~GGTHv~gf~~altr~ 287 (602)
T PHA02569 227 -------GKFKKYAKQFGD------DTIVQE--ND--NVSIALAPSPDGF--RQLSFVNGLHTKNGGHHVDCVMDDICEE 287 (602)
T ss_pred -------CCHHHHHHHhCC------CCeEEe--cC--cEEEEEEecCCCc--EEEEEECcccCCCCCCHHHHHHHHHHHH
Confidence 589999999953 234443 22 6889999984456 4899999999999999999999999999
Q ss_pred HHHHHHhcCCCCCcCCCCCHHhHhccceEEEEEe-ecCCCCCCccccccCCh--hhhhhhhhHHHHHHHHHHHhChHHHH
Q 009294 374 LNSLGKKSKTVKDKDISLSGEHVREGLTCIISVR-VPNPEFEGQTKTRLGNP--EVRKVVDQSVQEYLTEYLELHPDVLD 450 (538)
Q Consensus 374 in~~~kk~~~~k~~~~~l~~~dIregL~~~vsvk-i~nP~FegQTKekL~n~--ev~~~v~~~v~~~l~~~l~~n~~~~~ 450 (538)
||+|+++++ +.+++++||||||++||+|+ ++||+||||||++|+|+ +++..| +++.+.|..||++||++++
T Consensus 288 in~~~~kk~-----~~~l~~~diregL~avVsvk~i~~P~FegQTK~kL~~~~~~~~~~v-~~~~~~l~~~l~~n~~~~~ 361 (602)
T PHA02569 288 LIPMIKKKH-----KIEVTKARVKECLTIVLFVRNMSNPRFDSQTKERLTSPFGEIRNHI-DLDYKKIAKQILKTEAIIM 361 (602)
T ss_pred HHHHHHhcc-----cCCCCHHHHHhCCEEEEEEeccCCCcccCcccccccCChHHhccce-eehHHHHHHHHHHCHHHHH
Confidence 999997632 35799999999999999998 99999999999999999 689999 9999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHH---HHHhhcccc-ccCCCCCCCCCCCCCCCCceEEEEEeCCCCcccccccCCCCceEeec
Q 009294 451 SILSKSLSALKAALAAKRAR---DLVRQKSVL-RSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQVIIN 526 (538)
Q Consensus 451 ~I~~~~~~~~ka~~aakkar---~~~~~k~~~-~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qail~ 526 (538)
.|+++++.+++||+|++++| +..|+|... ....|||| |++|||||||||||||||+|||||+|||||
T Consensus 362 ~i~~~a~~~~~ar~a~~~~k~~k~~~r~k~~~~~~a~lpGk--------~~~~eL~ivEGDSAggsAk~~RdR~~qaIl- 432 (602)
T PHA02569 362 PIIEAALARKLAAEKAAETKAAKKAKKAKVAKHIKANLIGK--------DAETTLFLTEGDSAIGYLIEVRDEELHGGY- 432 (602)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhhhhhhccccccccCCCCCC--------CCCceEEEEecCCCCcccccccCccceeec-
Confidence 99999999999999886443 666666544 36778888 779999999999999999999999999999
Q ss_pred cCccccccccCC
Q 009294 527 PLQESIFAFASA 538 (538)
Q Consensus 527 PLrGKiLNv~ka 538 (538)
||||||||||||
T Consensus 433 PLRGKiLNV~ka 444 (602)
T PHA02569 433 PLRGKVLNTWGM 444 (602)
T ss_pred ccCCcccchhhC
Confidence 999999999997
No 10
>PLN03128 DNA topoisomerase 2; Provisional
Probab=100.00 E-value=3.2e-114 Score=995.79 Aligned_cols=428 Identities=24% Similarity=0.347 Sum_probs=380.6
Q ss_pred cccceeccchhhhhhCCCeeeccCCC---------------------CchhHHHHHHHHhhHhhhc-cCCCCeEEEEEec
Q 009294 79 SEQIQVLEGLEAVRKRPAMYIGSTGP---------------------RGLHHLVYEILDNAVDEAQ-AGYASNIEVALLA 136 (538)
Q Consensus 79 ~~~i~~L~~lE~VrkRP~mYIGs~~~---------------------~gL~~lv~EivdNAiDe~~-~g~~~~I~V~i~~ 136 (538)
++.||+|+++||||+||||||||++. +|||||||||||||+||++ +|+|+.|.|+|+.
T Consensus 4 ~~~yqk~s~lEhV~~RP~mYIGS~~~~~~~~wv~~~~~~~~~~v~~vpGL~ki~dEIldNAvDe~~~~g~~~~I~V~i~~ 83 (1135)
T PLN03128 4 EETYQKKTQLEHILLRPDTYIGSTEKHTQTLWVYEGGEMVNREVTYVPGLYKIFDEILVNAADNKQRDPSMDSLKVDIDV 83 (1135)
T ss_pred HHhhhhhcchhHHhcCCCCeeCCCCCccceeeEecccceeeeccccchhHHHHHHHHHHHHHHHhhhcCCCcEEEEEEEc
Confidence 56899999999999999999999998 7999999999999999996 5999999999997
Q ss_pred -CCeEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCCeeeccccccchhhHHHhhcCeEEEEEE--eCCEE
Q 009294 137 -DNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVW--RDGME 213 (538)
Q Consensus 137 -dg~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~~~V~t~--~~g~~ 213 (538)
||+|+|+|||||||++.|+++|+|+||+|||+||||||||++ .|++|||+||||+|||||||++|+|+|+ |+|+.
T Consensus 84 ~dgsIsV~DnGrGIPv~ih~~~g~~~~ElIft~LhaGgkFdd~--~ykvSGGlhGvGasvvNaLS~~f~Vev~d~r~gk~ 161 (1135)
T PLN03128 84 EQNTISVYNNGKGIPVEIHKEEGVYVPELIFGHLLTSSNFDDN--EKKTTGGRNGYGAKLANIFSTEFTVETADGNRGKK 161 (1135)
T ss_pred CCCeEEEEecCccccCCCCCCCCCccceEEEEeeccccccCCc--cceeeccccCCCCeEEEeecCeEEEEEEECCCCeE
Confidence 799999999999999999999999999999999999999987 8999999999999999999999999999 88999
Q ss_pred EEEEEeCCcccccceeeecCCCCCCCCCcEEEEEeCccccccccccCHH---HHHHHHHHHH-hhCCCcEEEEeeCCCCC
Q 009294 214 YHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHN---TIAGRIRELA-FLNPKLTIALRKEDSDP 289 (538)
Q Consensus 214 y~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~PD~~~F~~~~~~~~~---~i~~rl~elA-~lnpgl~i~l~d~~~~~ 289 (538)
|+|+|++|+++.+.+.+ .......+||+|+|+||+++|++ ..|+++ .+.+|++++| ++||||+|+|+|++..
T Consensus 162 y~q~f~~G~~~~~~p~i--~~~~~~~~GT~ItF~PD~~iF~~-~~fd~d~~~~l~kRl~elAa~Ln~GlkI~Lnder~~- 237 (1135)
T PLN03128 162 YKQVFTNNMSVKSEPKI--TSCKASENWTKITFKPDLAKFNM-TRLDEDVVALMSKRVYDIAGCLGKKLKVELNGKKLP- 237 (1135)
T ss_pred EEEEeCCCcccCCCcee--ccCCCCCCceEEEEEECHHHcCC-CccChHHHHHHHHHHHHHHHhCCCCcEEEEecCCCC-
Confidence 99999999988665433 22223469999999999999975 468876 5889999999 9999999999998842
Q ss_pred CCCceeEEeecccHHHHHHHHc-CCCCCCCCeeEEEEecceeEEEEEEEeccCCCCceEEEeeCceeccCCccchHHHHH
Q 009294 290 EKNQYNEYFFAGGLEEYVQWLN-TDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKA 368 (538)
Q Consensus 290 ~~~~~~~f~~~~Gl~~yv~~l~-~~~~~~~~~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~ 368 (538)
.+||.+||+++. .++++.+.++.+... +..|+||++|++ + +++++||||+|+|++|||||+||++
T Consensus 238 ----------~~G~~dyv~~~~~~~~~~~~~~i~~~~~--~~~~eva~~~s~-~-~~~~~SFVN~I~T~~GGTHv~g~~~ 303 (1135)
T PLN03128 238 ----------VKSFQDYVGLYLGPNSREDPLPRIYEKV--NDRWEVCVSLSD-G-SFQQVSFVNSIATIKGGTHVDYVAD 303 (1135)
T ss_pred ----------CCCHHHHHHHHhcCCCCCCCCCeEEEec--CceEEEEEEEcC-C-CceEEEEECcEecCCCCchHHHHHH
Confidence 269999999654 433333335555544 457999999994 4 5679999999999999999999999
Q ss_pred HHHHHHHHHHHhcCCCCCcCCCCCHHhHhccceEEEEEeecCCCCCCccccccCChhhhhhhhhHHHHHHHHHHHhChHH
Q 009294 369 SLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDV 448 (538)
Q Consensus 369 al~k~in~~~kk~~~~k~~~~~l~~~dIregL~~~vsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~n~~~ 448 (538)
+|++.+++++++++ | ++.+++++|||+||++||||+|+||+|+||||++|+|++++.+|++.+++.|..||+
T Consensus 304 ~i~~~i~~~~~kk~--K-~~~~l~~~diregL~~vIs~ki~nP~FesQTKekL~s~~~~~~v~~~v~e~~~~~l~----- 375 (1135)
T PLN03128 304 QIVKHIQEKVKKKN--K-NATHVKPFQIKNHLWVFVNCLIENPTFDSQTKETLTTRPSSFGSKCELSEEFLKKVE----- 375 (1135)
T ss_pred HHHHHHHHHHHHcc--C-CCCCCCHHHHHhCcEEEEEEecCCCcccCcccccccChhHHHHHHHHHHHHHHHHHh-----
Confidence 99999999998754 2 245799999999999999999999999999999999999999999999999999996
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCC---CCCCCceEEEEEeCCCCccccccc---CCCCce
Q 009294 449 LDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCS---STTPEESEIFIVEGDSAGGSAKQG---RDRRFQ 522 (538)
Q Consensus 449 ~~~I~~~~~~~~ka~~aakkar~~~~~k~~~~~~~lpgKL~Dc~---~~~~~~~eL~lvEGDSA~Gsak~g---Rdr~~q 522 (538)
...|+++++.++++|++++++|+..++|+.+ ..+| ||+||+ ++++++|||||||||||||||||| |||+||
T Consensus 376 ~~~Ivekil~~a~aR~aa~~~k~~~~kk~~~--~~ip-KL~Dc~~ag~k~~~~ceLflvEGDSAggsAk~Gl~~rdR~~q 452 (1135)
T PLN03128 376 KCGVVENILSWAQFKQQKELKKKDGAKRQRL--TGIP-KLDDANDAGGKKSKDCTLILTEGDSAKALAMSGLSVVGRDHY 452 (1135)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhccCCC--CCCc-ccccccccCCCChhHcEEEEEecCCCCcchhhcccccCccce
Confidence 3478888888999999999888877777532 3444 999997 899999999999999999999999 999999
Q ss_pred EeeccCccccccccCC
Q 009294 523 VIINPLQESIFAFASA 538 (538)
Q Consensus 523 ail~PLrGKiLNv~ka 538 (538)
||| ||||||||||+|
T Consensus 453 aIl-PLRGKiLNV~ka 467 (1135)
T PLN03128 453 GVF-PLRGKLLNVREA 467 (1135)
T ss_pred eee-ccCCceeccccC
Confidence 999 999999999997
No 11
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=100.00 E-value=5.2e-114 Score=1000.37 Aligned_cols=431 Identities=25% Similarity=0.356 Sum_probs=381.3
Q ss_pred CcccceeccchhhhhhCCCeeeccCCC-----------------------CchhHHHHHHHHhhHhhhc----cCCCCeE
Q 009294 78 GSEQIQVLEGLEAVRKRPAMYIGSTGP-----------------------RGLHHLVYEILDNAVDEAQ----AGYASNI 130 (538)
Q Consensus 78 ~~~~i~~L~~lE~VrkRP~mYIGs~~~-----------------------~gL~~lv~EivdNAiDe~~----~g~~~~I 130 (538)
-++.||+|+++||||+||||||||++. +||||||||||+||+||++ +|+|+.|
T Consensus 6 ~~~~yq~L~~lEhVr~RP~mYIGS~~~~~~~~wv~~~~~~~m~~~~v~~vpGL~ki~dEIldNAvDe~~r~~~~g~~~~I 85 (1388)
T PTZ00108 6 VEERYQKKTQIEHILLRPDTYIGSIETQTEDMWVYDEEKNRMVYKTITYVPGLYKIFDEILVNAADNKARDKGGHRMTYI 85 (1388)
T ss_pred hHHhhhcccchhHHhcCCCceeCCCCccccceeeecccccccccccccccchhhhhHHHHhhhhhhhhcccCCCCCccEE
Confidence 467899999999999999999999997 7999999999999999999 5899999
Q ss_pred EEEEecC-CeEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCCeeeccccccchhhHHHhhcCeEEEEEEe
Q 009294 131 EVALLAD-NSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWR 209 (538)
Q Consensus 131 ~V~i~~d-g~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~~~V~t~~ 209 (538)
+|+|+.| |+|+|+|||||||++.|+++|+|+||+|||+|||||||+++ .|++|||+||||++||||||++|+|+|+|
T Consensus 86 ~V~i~~d~g~IsV~dnGrGIPv~~h~~~~~~~pElIft~L~aGgkfdd~--~yKvSGGlhGVGasvvNalS~~f~Vev~r 163 (1388)
T PTZ00108 86 KVTIDEENGEISVYNDGEGIPVQIHKEHKIYVPEMIFGHLLTSSNYDDT--EKRVTGGRNGFGAKLTNIFSTKFTVECVD 163 (1388)
T ss_pred EEEEeccCCeEEEEecCCcccCCCCCCCCCccceEEEEEeeccccCCCC--ceeeecccccCCccccccccceEEEEEEE
Confidence 9999987 99999999999999999999999999999999999999987 89999999999999999999999999999
Q ss_pred C--CEEEEEEEeCCcccccceeeecCCCCCC-CCCcEEEEEeCccccccccccCHHH---HHHHHHHHHhhCCCcEEEEe
Q 009294 210 D--GMEYHQKYSRGKPVTTLTCHVLPVDSKD-RQGTRIRFWPDKQVFTTAIQFDHNT---IAGRIRELAFLNPKLTIALR 283 (538)
Q Consensus 210 ~--g~~y~q~f~~G~~~~~~~~~~~~~~~~~-~~GT~V~F~PD~~~F~~~~~~~~~~---i~~rl~elA~lnpgl~i~l~ 283 (538)
+ |+.|.|+|++||.+...+. +. .... .+||+|+|+||+++|++ ..|++++ |.+|++++|++||||+|+|+
T Consensus 164 ~~~gk~y~q~f~~Gm~~~~~p~--i~-~~~~~~~GT~VtF~PD~~iF~~-~~fd~d~~~ll~~Rl~dlA~ln~GLkI~ln 239 (1388)
T PTZ00108 164 SKSGKKFKMTWTDNMSKKSEPR--IT-SYDGKKDYTKVTFYPDYAKFGM-TEFDDDMLRLLKKRVYDLAGCFGKLKVYLN 239 (1388)
T ss_pred CCCCCEEEEEecCCCcCCCCCc--cC-CCCCCCCceEEEEEeCHHHcCC-CccChHHHHHHHHHHHHHhcCCCCcEEEEe
Confidence 9 9999999999974422212 21 1123 69999999999999975 4689888 99999999999999999999
Q ss_pred eCCCCCCCCceeEEeecccHHHHHHHHcCCCCCCCCeeE-EEEecceeEEEEEEEeccCCCCceEEEeeCceeccCCccc
Q 009294 284 KEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVG-FRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTH 362 (538)
Q Consensus 284 d~~~~~~~~~~~~f~~~~Gl~~yv~~l~~~~~~~~~~i~-~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTH 362 (538)
|++.+. .++.+|+++++.+..+.+++++ +.++.++++||||++|+ + ++++++||||+|+|++||||
T Consensus 240 der~gi-----------~~F~~y~~ly~~~~~~~~~~~~~~~~~~~~~~~eVal~~s-~-~~~~~~SFVN~I~T~~GGTH 306 (1388)
T PTZ00108 240 GERIAI-----------KSFKDYVDLYLPDGEEGKKPPYPFVYTSVNGRWEVVVSLS-D-GQFQQVSFVNSICTTKGGTH 306 (1388)
T ss_pred CccccH-----------HHHHHHHHhhccCCccCCCCceeeeccccCceEEEEEEEe-C-CCceEEEEEcccccCCCCCH
Confidence 987310 2345555554655555444444 55666678999999999 5 57889999999999999999
Q ss_pred hHHHHHHHHHHHHHHHHhcCCCCCcCCCCCHHhHhccceEEEEEeecCCCCCCccccccCChhhhhhhhhHHHHHHHHHH
Q 009294 363 IEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYL 442 (538)
Q Consensus 363 v~g~~~al~k~in~~~kk~~~~k~~~~~l~~~dIregL~~~vsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l 442 (538)
|+||+++|+++|++|++++ |+++.+++++|||+||++||+|+|+||+|+||||++|+|++++.++...+.+.|..||
T Consensus 307 v~g~~~alt~~i~~~~k~k---kk~~~~i~~~dIregl~~~Vs~~i~nP~FdsQTKekL~~~~~~~~~~~~v~e~l~~~l 383 (1388)
T PTZ00108 307 VNYILDQLISKLQEKAKKK---KKKGKEIKPNQIKNHLWVFVNCLIVNPSFDSQTKETLTTKPSKFGSTCELSEKLIKYV 383 (1388)
T ss_pred HHHHHHHHHHHHHHHHHHh---cccCCCCCHHHHHhCcEEEEEEecCCCccCCcccccccChhhHHHHHHHHHHHHHHHH
Confidence 9999999999999999873 3345689999999999999999999999999999999999999999999999999999
Q ss_pred HhChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCC---CCCCCceEEEEEeCCCCccccccc---
Q 009294 443 ELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCS---STTPEESEIFIVEGDSAGGSAKQG--- 516 (538)
Q Consensus 443 ~~n~~~~~~I~~~~~~~~ka~~aakkar~~~~~k~~~~~~~lpgKL~Dc~---~~~~~~~eL~lvEGDSA~Gsak~g--- 516 (538)
+++ .|+++++.++++|++++++|++.++| ......+| ||+||+ ++++++|||||||||||||||++|
T Consensus 384 ~~~-----~Ivekil~~a~aR~aa~~ak~~~~~K-~~~~~~ip-KL~Dc~~aG~k~~~~ceL~lvEGDSAggsAk~Gl~v 456 (1388)
T PTZ00108 384 LKS-----PILENIVEWAQAKLAAELNKKMKAGK-KSRILGIP-KLDDANDAGGKNSEECTLILTEGDSAKALALAGLSV 456 (1388)
T ss_pred hhh-----HHHHHHHHHHHHHHHHHHHHHHhhhh-hhcccCch-hhhhcccccCCChhhcEEEEEecCcccchhhhcccc
Confidence 873 59999999999999999999988777 33344455 999998 689999999999999999999999
Q ss_pred CCCCceEeeccCccccccccCC
Q 009294 517 RDRRFQVIINPLQESIFAFASA 538 (538)
Q Consensus 517 Rdr~~qail~PLrGKiLNv~ka 538 (538)
|||+||||| |||||||||++|
T Consensus 457 rdR~~qaVf-PLRGKiLNV~ka 477 (1388)
T PTZ00108 457 VGRDYYGVF-PLRGKLLNVRDA 477 (1388)
T ss_pred cCccceeee-ccCCcccccccc
Confidence 799999999 999999999997
No 12
>smart00433 TOP2c TopoisomeraseII. Eukaryotic DNA topoisomerase II, GyrB, ParE
Probab=100.00 E-value=9.6e-113 Score=944.15 Aligned_cols=418 Identities=50% Similarity=0.802 Sum_probs=391.5
Q ss_pred chhHHHHHHHHhhHhhhccCCCCeEEEEEecCCeEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCCeeec
Q 009294 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVS 185 (538)
Q Consensus 106 gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~yk~s 185 (538)
||||+||||||||+||+++|+|+.|+|+|+.+|+|+|+|||+|||++.|++++++++|++|+++||||||+++ .|++|
T Consensus 1 GL~~~v~ElvdNAiD~~~~g~at~I~V~i~~~g~I~V~DnG~GIp~~~h~~~~~~~~e~v~~~lhag~kfd~~--~~k~s 78 (594)
T smart00433 1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDD--AYKVS 78 (594)
T ss_pred CceEEEeeehhcccchhccCCCCEEEEEEeCCCeEEEEEeCCceeCCccCcCCCCcHHHhhhhhcccCCCCCC--Ccccc
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999988 89999
Q ss_pred cccccchhhHHHhhcCeEEEEEEeCCEEEEEEEeC-CcccccceeeecCCCCCCCCCcEEEEEeCccccccccccCHHHH
Q 009294 186 GGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSR-GKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTI 264 (538)
Q Consensus 186 gG~~GvGls~vnalS~~~~V~t~~~g~~y~q~f~~-G~~~~~~~~~~~~~~~~~~~GT~V~F~PD~~~F~~~~~~~~~~i 264 (538)
+|+||+|+++|||||++|+|+|+++|+.|.|+|++ |.++.+++.. +...++||+|+|+||+++|.+...++++.|
T Consensus 79 ~G~~G~Gls~vnalS~~l~v~~~~~g~~~~~~~~~~G~~~~~~~~~----~~~~~~GT~V~F~Pd~~~F~~~~~~~~~~i 154 (594)
T smart00433 79 GGLHGVGASVVNALSTEFEVEVARDGKEYKQSFSNNGKPLSEPKII----GDTKKDGTKVTFKPDLEIFGMTTDDDFELL 154 (594)
T ss_pred CCcccchHHHHHHhcCceEEEEEeCCcEEEEEEeCCCeECccceec----CCCCCCCcEEEEEECHHHhCCcccchHHHH
Confidence 99999999999999999999999999999999987 8877655322 345679999999999999986547889999
Q ss_pred HHHHHHHHhhCCCcEEEEeeCCCCCCCCceeEEeecccHHHHHHHHcCCCCCCC-CeeEEEEecceeEEEEEEEeccCCC
Q 009294 265 AGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAY 343 (538)
Q Consensus 265 ~~rl~elA~lnpgl~i~l~d~~~~~~~~~~~~f~~~~Gl~~yv~~l~~~~~~~~-~~i~~~~~~~~i~veval~~s~~~~ 343 (538)
.+|++++|++||+|+|+|+|++.+ ..++|+|++||.+|+++++.++.+++ +++.+..+.+++.||||++|+ ++|
T Consensus 155 ~~rl~~~A~l~pgl~i~l~der~~----~~~~f~~~~Gl~~yv~~~~~~~~~~~~~~i~~~~~~~~~~veval~~~-~~~ 229 (594)
T smart00433 155 KRRLRELAFLNKGVKITLNDERSD----EEETFLFEGGIKDYVELLNKNKELLSPEPTYIEGEKDNIRVEVAFQYT-DGY 229 (594)
T ss_pred HHHHHHHHhcCCCcEEEEeccCCC----cceEEECCCCHHHHHHHHhCCCCcccCCCeEEEEEeCCcEEEEEEEcc-CCC
Confidence 999999999999999999999843 24579999999999999998777776 567777777789999999999 678
Q ss_pred CceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHhcCCCCCcCCCCCHHhHhccceEEEEEeecCCCCCCccccccCC
Q 009294 344 SDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGN 423 (538)
Q Consensus 344 ~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~~~~k~~~~~l~~~dIregL~~~vsvki~nP~FegQTKekL~n 423 (538)
+++++||||+|+|++|||||+||+++|+++||+|++++++.|+ .+++++|||+||++||+|+++||+||||||++|+|
T Consensus 230 ~~~~~SFvN~I~T~~GGTHv~g~~~al~~~i~~~~~~~~~~k~--~~i~~~diregl~~vIsvki~~P~FegQTK~kL~n 307 (594)
T smart00433 230 SENIVSFVNNIATTEGGTHENGFKDALTRVINEYAKKKKKLKE--KNIKGEDVREGLTAFISVKIPEPQFEGQTKEKLGT 307 (594)
T ss_pred CcEEEEEECCccCCCCCcHHHHHHHHHHHHHHHHHHHhCcccc--CCCChhhHhhCeEEEEEEEEchheecccccccccC
Confidence 8999999999999999999999999999999999999887764 78999999999999999999999999999999999
Q ss_pred hhhhhhhhhHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCCCCCCCceEEEE
Q 009294 424 PEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCSSTTPEESEIFI 503 (538)
Q Consensus 424 ~ev~~~v~~~v~~~l~~~l~~n~~~~~~I~~~~~~~~ka~~aakkar~~~~~k~~~~~~~lpgKL~Dc~~~~~~~~eL~l 503 (538)
++++.+|++++++.+..||++||..++.|+++++.++++|++|+++|++.|+| ..+...+||||+||+++++++|||||
T Consensus 308 ~~~~~~v~~~v~~~l~~~l~~n~~~a~~ii~k~~~~a~ar~~a~~~~~~~r~k-~~~~~~l~~KL~dc~~~~~~~~eL~i 386 (594)
T smart00433 308 SEVRFGVEKIVSECLLSFLEENPVEASKIVEKVLLAAKARAAAKKARELTRKK-KLSKISLPGKLADASSAGPKKCELFL 386 (594)
T ss_pred hhHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHhHHHhccc-ccccccccccccccccCCCCCcEEEE
Confidence 99999999999999999999999999999999999999999999999999888 66777899999999999999999999
Q ss_pred EeCCCCcccccccCCCCceEeeccCccccccccCC
Q 009294 504 VEGDSAGGSAKQGRDRRFQVIINPLQESIFAFASA 538 (538)
Q Consensus 504 vEGDSA~Gsak~gRdr~~qail~PLrGKiLNv~ka 538 (538)
|||||||||||+||||+||||| |||||||||++|
T Consensus 387 vEGDSA~gsak~grdr~~qail-PLrGKiLNv~~~ 420 (594)
T smart00433 387 VEGDSAGGSAKSGRDRDFQAIL-PLRGKLLNVEKA 420 (594)
T ss_pred EecCCCccccccccCccceeec-ccCCeecchhhc
Confidence 9999999999999999999999 999999999986
No 13
>PLN03237 DNA topoisomerase 2; Provisional
Probab=100.00 E-value=5.4e-111 Score=970.46 Aligned_cols=423 Identities=23% Similarity=0.362 Sum_probs=361.3
Q ss_pred CCCCcccceeccchhhhhhCCCeeeccCC---------------------CCchhHHHHHHHHhhHhhhcc-CCCCeEEE
Q 009294 75 KTYGSEQIQVLEGLEAVRKRPAMYIGSTG---------------------PRGLHHLVYEILDNAVDEAQA-GYASNIEV 132 (538)
Q Consensus 75 ~~y~~~~i~~L~~lE~VrkRP~mYIGs~~---------------------~~gL~~lv~EivdNAiDe~~~-g~~~~I~V 132 (538)
..--++.||+|+++||||+||||||||++ .+||||||||||+||+||+++ |+|+.|+|
T Consensus 25 ~~~~~~~Yqkls~lEhVr~RP~mYIGSt~~~~~~~wv~~~~~m~~~~v~~vpGL~kifdEIldNAvDe~~r~g~~~~I~V 104 (1465)
T PLN03237 25 GKTIEEMYQKKSQLEHILLRPDTYIGSIEKHTQTLWVYETDKMVQRSVTYVPGLYKIFDEILVNAADNKQRDPKMDSLRV 104 (1465)
T ss_pred CCcHHHhhhccccchHHhcCCCCEeCCCCcccceeeeeccccceeeeccccchhhhhHHHHhhhhHhHHhhcCCCCEEEE
Confidence 34567789999999999999999999999 599999999999999999964 89999999
Q ss_pred EEe-cCCeEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCCeeeccccccchhhHHHhhcCeEEEEEE--e
Q 009294 133 ALL-ADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVW--R 209 (538)
Q Consensus 133 ~i~-~dg~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~~~V~t~--~ 209 (538)
+|+ ++|+|+|+|||||||+++|+++|+|+||+|||+|||||||+++ .|++|||+||||++||||||+||+|+|+ +
T Consensus 105 ~I~~~~gsIsV~DnGRGIPV~iH~~eg~~~pElIft~LhAGgkFdd~--~yKvSGGlhGVGasvvNaLS~~f~Vev~Dg~ 182 (1465)
T PLN03237 105 VIDVEQNLISVYNNGDGVPVEIHQEEGVYVPEMIFGHLLTSSNYDDN--EKKTTGGRNGYGAKLTNIFSTEFVIETADGK 182 (1465)
T ss_pred EEEcCCCEEEEEecCccccCCCCCCCCCccceEEEEeeeccccCCCC--cceeeccccccCccccccccCeeEEEEEECC
Confidence 999 6799999999999999999999999999999999999999987 8999999999999999999999999999 4
Q ss_pred CCEEEEEEEeC--CcccccceeeecCCCCCCCCCcEEEEEeCccccccccccCHHHH---HHHHHHHH-hhCCCcEEEEe
Q 009294 210 DGMEYHQKYSR--GKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTI---AGRIRELA-FLNPKLTIALR 283 (538)
Q Consensus 210 ~g~~y~q~f~~--G~~~~~~~~~~~~~~~~~~~GT~V~F~PD~~~F~~~~~~~~~~i---~~rl~elA-~lnpgl~i~l~ 283 (538)
+|+.|+|+|++ |.+..+. + .......+||+|+|+||+++|++ ..|+++++ .+|++++| ++||||+|+|+
T Consensus 183 ~gk~y~Q~f~~nmG~~~~p~--i--~~~~~~~~GT~VtF~PD~eiF~~-~~fd~D~l~~~~rRlrdLAa~LnkGlkI~Ln 257 (1465)
T PLN03237 183 RQKKYKQVFSNNMGKKSEPV--I--TKCKKSENWTKVTFKPDLAKFNM-THLEDDVVALMKKRVVDIAGCLGKTVKVELN 257 (1465)
T ss_pred CCeEEEEEEeCCCCccCCce--e--ccCCCCCCceEEEEEECHHHhCC-ceEcHHHHHHHHHHHHHHHhccCCCcEEEEE
Confidence 58999999998 5554432 1 11223469999999999999975 46999876 58899999 99999999999
Q ss_pred eCCCCCCCCceeEEeecccHHHHHHHHcCCC----CCCCCeeEEEEecceeEEEEEEEeccCCCCceEEEeeCceeccCC
Q 009294 284 KEDSDPEKNQYNEYFFAGGLEEYVQWLNTDK----KPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDG 359 (538)
Q Consensus 284 d~~~~~~~~~~~~f~~~~Gl~~yv~~l~~~~----~~~~~~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~G 359 (538)
|++.+ .+||.+||+++.... .+.++ +.+. ..+..|+||++|+ ++ .++++||||+|+|++|
T Consensus 258 deR~~-----------~~G~kdYV~~yl~~~~k~k~~~~~-~i~e--~~~~~~EVAl~~s-d~-~~~~~SFVNnI~T~~G 321 (1465)
T PLN03237 258 GKRIP-----------VKSFSDYVDLYLESANKSRPENLP-RIYE--KVNDRWEVCVSLS-EG-QFQQVSFVNSIATIKG 321 (1465)
T ss_pred ecCCC-----------CCCHHHHHHHHhhcccccCCCCCC-ccEe--cCCCeEEEEEEEe-CC-CceEEEEECcccCCCC
Confidence 99843 259999999765321 22222 2233 3467899999999 45 4789999999999999
Q ss_pred ccchHHHHHHHHHHHHHHHHhcCCCCCcCCCCCHHhHhccceEEEEEeecCCCCCCccccccCChhhhhhhhhHHHHHHH
Q 009294 360 GTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLT 439 (538)
Q Consensus 360 GTHv~g~~~al~k~in~~~kk~~~~k~~~~~l~~~dIregL~~~vsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~ 439 (538)
||||+||+++|++.|++++++++ ++.+++++|||+||++||||+|+||+|+||||++|+|+++. +.+.+.
T Consensus 322 GTHv~g~~~aIt~~l~~~~~kK~----k~~~l~~~DIregL~a~IsvkI~nP~FesQTKekLtn~~~~------f~s~l~ 391 (1465)
T PLN03237 322 GTHVDYVTNQIANHVMEAVNKKN----KNANIKAHNVKNHLWVFVNALIDNPAFDSQTKETLTLRQSS------FGSKCE 391 (1465)
T ss_pred CcHHHHHHHHHHHHHHHHHHhcc----CCCCCCHHHHHhCcEEEEEEeCCCCccCCcccCcccChHHH------HHHHhc
Confidence 99999999999999999987632 34589999999999999999999999999999999998854 345554
Q ss_pred ---HHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc--cccCCCCCCCCCCC---CCCCCceEEEEEeCCCCcc
Q 009294 440 ---EYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSV--LRSSSLPGKLADCS---STTPEESEIFIVEGDSAGG 511 (538)
Q Consensus 440 ---~~l~~n~~~~~~I~~~~~~~~ka~~aakkar~~~~~k~~--~~~~~lpgKL~Dc~---~~~~~~~eL~lvEGDSA~G 511 (538)
.||+ +..+..|+++++.++++ |+++++.|+|+. .+...+| ||+||+ ++++++|||||||||||||
T Consensus 392 l~~~flk--~~~~~~Ivekil~~A~a----k~arel~k~k~~k~~~~~~ip-KL~Dc~~aG~kd~~~ceLfLvEGDSAgG 464 (1465)
T PLN03237 392 LSEDFLK--KVMKSGIVENLLSWADF----KQSKELKKTDGAKTTRVTGIP-KLEDANEAGGKNSEKCTLILTEGDSAKA 464 (1465)
T ss_pred cCHHHHh--HHHHHHHHHHHHHHHHH----HHHHHHHhhhcccccccCCCc-ccccccccccCCccccEEEEEecCcCCc
Confidence 5665 34567799999887765 566777776644 2334455 999997 6999999999999999999
Q ss_pred cccccC---CCCceEeeccCccccccccCC
Q 009294 512 SAKQGR---DRRFQVIINPLQESIFAFASA 538 (538)
Q Consensus 512 sak~gR---dr~~qail~PLrGKiLNv~ka 538 (538)
||+||| ||+||||| ||||||||||+|
T Consensus 465 sAk~GR~vvdR~~qaIl-PLRGKILNV~kA 493 (1465)
T PLN03237 465 LAVAGLSVVGRNYYGVF-PLRGKLLNVREA 493 (1465)
T ss_pred hhhhhhcccCccceeee-ccCCceehhccC
Confidence 999999 89999999 999999999997
No 14
>KOG0355 consensus DNA topoisomerase type II [Chromatin structure and dynamics]
Probab=100.00 E-value=4e-76 Score=641.60 Aligned_cols=428 Identities=30% Similarity=0.407 Sum_probs=367.2
Q ss_pred cccceeccchhhhhhCCCeeeccCCC---------------------CchhHHHHHHHHhhHhhhccC-CCCeEEEEEe-
Q 009294 79 SEQIQVLEGLEAVRKRPAMYIGSTGP---------------------RGLHHLVYEILDNAVDEAQAG-YASNIEVALL- 135 (538)
Q Consensus 79 ~~~i~~L~~lE~VrkRP~mYIGs~~~---------------------~gL~~lv~EivdNAiDe~~~g-~~~~I~V~i~- 135 (538)
++.||+.+++|||++||+.||||+++ |||+|+++||++||+| .+++ .++.|.|+|+
T Consensus 5 ~~~yqkks~~ehiL~rPdtyig~ve~~~~~~wv~~~e~~k~~~~t~~pGl~ki~dEilvNaad-k~rd~~m~~i~v~i~~ 83 (842)
T KOG0355|consen 5 EDIYQKKSQLEHILLRPDTYIGSVEPTEQLMWVYDMEKRKMVQRTYVPGLYKIFDEILVNAAD-KQRDPKMNTIKVTIDK 83 (842)
T ss_pred HHHHhhhhhhhhhhcCCcccccccccceeEEeeeccccCceeEeecCCcHHHHHHHHhhcccc-cccCCCcceeEEEEcc
Confidence 46799999999999999999999974 8999999999999999 8876 5999999999
Q ss_pred cCCeEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCCeeeccccccchhhHHHhhcCeEEEEEEe--CCEE
Q 009294 136 ADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWR--DGME 213 (538)
Q Consensus 136 ~dg~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~~~V~t~~--~g~~ 213 (538)
+++.|+|+|||+|||++.||.+++|+||++|++|||+|||+++ ..+++||+||+|++++|+||..|+++|.+ .++.
T Consensus 84 e~~~isv~nnGkGIPv~~H~~ek~yvpelifg~Lltssny~d~--ekK~tggrngygakLcniFs~~f~~Et~d~~~~~~ 161 (842)
T KOG0355|consen 84 EKNEISVYNNGKGIPVTIHKVEKVYVPELIFGNLLTSSNYDDD--EKKVTGGRNGYGAKLCNIFSTEFTVETADREYKMA 161 (842)
T ss_pred CCCEEEEEeCCCcceeeecccccccchHHHHhhhhhccccCCC--ccccccCCCccceeeeeeccccceeeeeehHhHHH
Confidence 5789999999999999999999999999999999999999998 77899999999999999999999999974 5788
Q ss_pred EEEEEeCCcccccceeeecCCCCCCCCCcEEEEEeCccccccccccCHHH---HHHHHHHHHhhCCCcEEEEeeCCCCCC
Q 009294 214 YHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNT---IAGRIRELAFLNPKLTIALRKEDSDPE 290 (538)
Q Consensus 214 y~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~PD~~~F~~~~~~~~~~---i~~rl~elA~lnpgl~i~l~d~~~~~~ 290 (538)
|+|+|.+||+..+...+. ...++.||+|+|+||.++|.+. ++|.|+ +.+|+.++|....++++.++++++..
T Consensus 162 ~kQ~w~~nm~~~~~~~i~---~~~~~~yTkitF~PDl~~F~m~-eLD~Div~l~~rr~~d~a~~~~~vkv~ln~~~~~~- 236 (842)
T KOG0355|consen 162 FKQTWINNMTRDEEPKIV---PSTDEDYTKITFSPDLEKFKMK-ELDDDIVALMARRAYDLAGSVKSVKVELNGKNIPV- 236 (842)
T ss_pred HHHhhhcCCcccCCceee---cCCCCCcceEEeCcChHhcCch-hhcchHHHhHHhhhhhhcccccceeeeecCCCCcc-
Confidence 999999999987655443 2344559999999999999986 588765 57899999987799999999998653
Q ss_pred CCceeEEeecccHHHHHHHHcCCCCCCCCeeEEEEecceeEEEEEEEeccCCCCceEEEeeCceeccCCccchHHHHHHH
Q 009294 291 KNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASL 370 (538)
Q Consensus 291 ~~~~~~f~~~~Gl~~yv~~l~~~~~~~~~~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al 370 (538)
+|+.+|+..+.. ......+.....+..+-+||++++.+..+++ ++||||+|+|.+|||||+++++++
T Consensus 237 ----------~~f~~yv~~~~~-~~~~~~~~~~ihe~~~~RwEv~~a~s~~~fq--qisfvNsI~T~kGGThVd~V~D~i 303 (842)
T KOG0355|consen 237 ----------KGFYDYVKMYLE-VLWLNDDLKPLHEVLNFRWEVALALSDVGFQ--QVSFVNSIATTKGGTHVDYVVDQI 303 (842)
T ss_pred ----------chHHHHHhhccc-cccccCcchhhhcccchHHHHhhhccccccc--eeeeecceeecCCCcccchhhhhH
Confidence 589999999886 3333333333345556788988887755554 699999999999999999999999
Q ss_pred HHHHHHHHHhcCCCCCcCCCCCHHhHhccceEEEEEeecCCCCCCccccccCChhhhhhhhhHHHHHHHHHHHhChHHHH
Q 009294 371 TRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLD 450 (538)
Q Consensus 371 ~k~in~~~kk~~~~k~~~~~l~~~dIregL~~~vsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~n~~~~~ 450 (538)
++.|++.++|++.. ++.++++.+|+++|++||+|.|+||+|||||||+|+++..++.+.+.+++.+.+.+.+++ +++
T Consensus 304 v~~l~~vvkKk~~~--~~~svk~f~vkn~L~vfVN~lIENPtFesQTke~lt~~~~~fgs~~elsek~~k~~~~~~-i~e 380 (842)
T KOG0355|consen 304 VAKLIDVVKKKKVK--KDISVKPFQVKNHLWVFVNCLIENPTFESQTKERLTLRPKRFGSDCELSEKFTKAIELKG-VVE 380 (842)
T ss_pred HHHHHHHhcccccc--cccccchhhhhcceEEEEEEEecCccccccchhhcccccccccceEeehhHHHHHHHhCc-hHH
Confidence 99999999886543 457899999999999999999999999999999999999999999999999999999999 999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccccccCCCCCCCCCCC---CCCCCceEEEEEeCCCCcccccc---cCCCCceEe
Q 009294 451 SILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCS---STTPEESEIFIVEGDSAGGSAKQ---GRDRRFQVI 524 (538)
Q Consensus 451 ~I~~~~~~~~ka~~aakkar~~~~~k~~~~~~~lpgKL~Dc~---~~~~~~~eL~lvEGDSA~Gsak~---gRdr~~qai 524 (538)
.|++++..+.+...+.++.++..+.+ .+| ||.|++ .+.+..|+|+++|||||+.+|.. ..+|+|+||
T Consensus 381 sils~s~~~~~~dL~kk~~~~~s~~e------~I~-KleDa~~ag~k~s~kctlIltEgdsaksLavsGl~vvgRd~~gV 453 (842)
T KOG0355|consen 381 SILSKSLNKYKDDLAKKRGKLTSRSK------GIP-KLEDANDAGTKTSEKCTLILTEGDSAKSLAVSGLSVVGRDYYGV 453 (842)
T ss_pred HHHHHHHHHHHHhhhhhhhhhhcccc------chh-HhhhcccccccccccceeEEeccccchhheecccccccceeEee
Confidence 99999988877766655555332222 344 898875 46888999999999999755443 346778999
Q ss_pred eccCccccccccCC
Q 009294 525 INPLQESIFAFASA 538 (538)
Q Consensus 525 l~PLrGKiLNv~ka 538 (538)
| |||||+|||++|
T Consensus 454 f-plrgklLNv~e~ 466 (842)
T KOG0355|consen 454 F-PLRGKLLNVREA 466 (842)
T ss_pred c-ccccchhhhHHH
Confidence 9 999999999975
No 15
>cd00822 TopoII_Trans_DNA_gyrase TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are heterodimers composed of two subunits. The type IIA enzymes are the predominant form of topoisomerase and are found in some bacteriophages, viruses and archaea, and in all bacteria and eukaryotes. All type IIA topoisomerases are related to each other at amino acid sequence level, though their oligomeric organization sometimes differs. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. TopoIIA enzymes also catenate/ decatenate duplex rings. E.coli DNA gyrase is a
Probab=100.00 E-value=2.5e-41 Score=320.19 Aligned_cols=170 Identities=48% Similarity=0.851 Sum_probs=161.4
Q ss_pred ccHHHHHHHHcCCCCCCC-CeeEEEEecceeEEEEEEEeccCCCCceEEEeeCceeccCCccchHHHHHHHHHHHHHHHH
Q 009294 301 GGLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGK 379 (538)
Q Consensus 301 ~Gl~~yv~~l~~~~~~~~-~~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~k 379 (538)
+||.+||++++.++++++ ++++|.++.+++.||||++|+ ++|++.++||||+|+|.+||||++||+++|+++|++|++
T Consensus 1 gGl~~fl~~l~~~~~~l~~~~i~~~~~~~~~~veva~~~~-~~~~~~~~sfvN~i~T~~GGTH~~g~~~~l~~~i~~~~~ 79 (172)
T cd00822 1 GGLKDFVEELNKDKEPLHEEPIYIEGEKDGVEVEVALQWT-DSYSENILSFVNNIPTPEGGTHETGFRAALTRAINDYAK 79 (172)
T ss_pred CCHHHHHHHHhCCCCcCCCCCeEEEEEecceEEEEEEEEe-CCCCeEEEEeECcccCCCCCCHHHHHHHHHHHHHHHHHH
Confidence 589999999999888886 688888877789999999999 688899999999999999999999999999999999999
Q ss_pred hcCCCCCcCCCCCHHhHhccceEEEEEeecCCCCCCccccccCChhhhhhhhhHHHHHHHHHHHhChHHHHHHHHHHHHH
Q 009294 380 KSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSA 459 (538)
Q Consensus 380 k~~~~k~~~~~l~~~dIregL~~~vsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~n~~~~~~I~~~~~~~ 459 (538)
+++++|+++.+++++||+++|+++|+|+++||+|+||||++|+|++++.+|++++.+.|..||++||+.++.|+++++.+
T Consensus 80 ~~~~~k~~~~~~~~~di~~~l~~vvsv~~~~P~F~gQTK~kL~~~~v~~~v~~~v~~~l~~~l~~n~~~a~~i~~k~~~~ 159 (172)
T cd00822 80 KNNLLKKKDVKLTGDDIREGLTAVISVKVPEPQFEGQTKDKLGNSEVRSIVESAVREALEEWLEENPEEAKKILEKAILA 159 (172)
T ss_pred HhCcccccCCCCCHHHHHhCcEEEEEEEcCCCccCCcccccccCHhHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
Confidence 98888766678999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHH
Q 009294 460 LKAALAAKRARD 471 (538)
Q Consensus 460 ~ka~~aakkar~ 471 (538)
+++|+++|++|+
T Consensus 160 ~~aR~aa~~ar~ 171 (172)
T cd00822 160 AKAREAARKARE 171 (172)
T ss_pred HHHHHHHHHhhc
Confidence 999999999886
No 16
>PF00204 DNA_gyraseB: DNA gyrase B; InterPro: IPR013506 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. Type IIA topoisomerases together manage chromosome integrity and topology in cells. Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively; this topoisomerase II forms a homodimer that is equivalent to the bacterial heterotetramer. There are four functional domains in topoisomerase II: domain 1 (N-terminal of gyrB) is an ATPase, domain 2 (C-terminal of gyrB) is responsible for subunit interactions, domain 3 (N-terminal of gyrA) is responsible for the breaking-rejoining function through its capacity to form protein-DNA bridges, and domain 4 (C-terminal of gyrA) is able to non-specifically bind DNA []. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication []. Topoisomerase IV consists of two polypeptide subunits, parE and parC, where parC is homologous to gyrA and parE is homologous to gyrB. This entry represents the second domain found in subunit B (gyrB and parE) of bacterial gyrase and topoisomerase IV, and the equivalent N-terminal region in eukaryotic topoisomerase II composed of a single polypeptide. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 3LPS_A 3LNU_A 1KIJ_B 1EI1_B 1S16_B 1QZR_B 1PVG_A 3CWV_B 1ZXN_A 1ZXM_B ....
Probab=100.00 E-value=1.8e-40 Score=314.98 Aligned_cols=168 Identities=43% Similarity=0.817 Sum_probs=151.9
Q ss_pred cHHHHHHHHcCCCCCCC-CeeEEEEec--ce-eEEEEEEEeccCCCCceEEEeeCceeccCCccchHHHHHHHHHHHHHH
Q 009294 302 GLEEYVQWLNTDKKPLH-DVVGFRKDV--DG-ITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSL 377 (538)
Q Consensus 302 Gl~~yv~~l~~~~~~~~-~~i~~~~~~--~~-i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~ 377 (538)
||.||+++++.++.+++ +++++..+. ++ +.|++|++|+ +++.+.++||||+|+|++||||++||+++|+++|++|
T Consensus 1 G~~dyv~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~va~~~~-~~~~~~~~SfvN~i~T~~GGtHv~g~~~~i~~~i~~~ 79 (173)
T PF00204_consen 1 GFKDYVKLLNKDKEPLHPEPIYFEGEDKENDRWEVEVAFQWT-SGYDEKIVSFVNNIPTPEGGTHVDGFKDAITKAINDY 79 (173)
T ss_dssp SHHHHHHHHCTTS-BSSSSEEEEEEEEE-TTTEEEEEEEEEB-SSSSCEEEEEETTEE-TTEBHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHhcCCCcCCCCCeEEEEEeccCCcEEEEEEEEec-CCCceeeeeeeccccccccccHHHHHHHHHHHHHHHh
Confidence 79999999999888887 578888776 55 9999999999 6677799999999999999999999999999999999
Q ss_pred HHhcCCCCCcCCCCCHHhHhccceEEEEEeecCCCCCCccccccCChhhhhhhhhHHHHHHHHHHHhChHHHHHHHHHHH
Q 009294 378 GKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSL 457 (538)
Q Consensus 378 ~kk~~~~k~~~~~l~~~dIregL~~~vsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~n~~~~~~I~~~~~ 457 (538)
++++++.|++. +++++||++||++||+|+|+||+|+||||++|+|++++..|+.++.+.|..||++||++++.|+++++
T Consensus 80 ~~k~~~~k~~~-~i~~~di~~~l~~vv~~~i~nP~F~gQTK~~L~~~~~~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~ 158 (173)
T PF00204_consen 80 AKKKNKLKKKD-KITPEDIREGLTAVVSVKIPNPQFEGQTKEKLTNPEVRSIVEKAVSEKLEKWLEKNPEIAKAIIEKAL 158 (173)
T ss_dssp HHHTTCCCTTT-GSSHHHHHTTEEEEEEEEESSG-BSSTTTTSB--HHHHHHHHHHHHHHHHHHHHC-HHHHHHHHHHHH
T ss_pred HhhhCcccccc-ccchhhcccccEEEEEEEEecccccccccceeeHHHhhhhhhhhhHHHHHHHHHHCHHHHHHHHHHHH
Confidence 99998887665 89999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHH
Q 009294 458 SALKAALAAKRARD 471 (538)
Q Consensus 458 ~~~ka~~aakkar~ 471 (538)
.++++|+++|++||
T Consensus 159 ~~~~~r~~ak~are 172 (173)
T PF00204_consen 159 QAAKAREAAKKARE 172 (173)
T ss_dssp HHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHhcC
Confidence 99999999999987
No 17
>cd03481 TopoIIA_Trans_ScTopoIIA TopoIIA_Trans_ScTopoIIA: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topo IIA. S. cerevisiae Topo IIA is a homodimer encoded by a single gene. The type IIA enzymes are the predominant form of topoisomerase and are found in some bacteriophages, viruses and archaea, and in all bacteria and eukaryotes. All type IIA topoisomerases are related to each other at amino acid sequence level, though their oligomeric organization sometimes differs. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. TopoIIA enzymes also catenate/ decatenate duplex rings. This transducer domain is homologous to t
Probab=99.97 E-value=5.4e-31 Score=244.19 Aligned_cols=146 Identities=23% Similarity=0.269 Sum_probs=117.5
Q ss_pred cHHHHHHHHcCCCCCC---CCeeEEEEecceeEEEEEEEeccCCCCceEEEeeCceeccCCccchHHHHHHHHHHHHHHH
Q 009294 302 GLEEYVQWLNTDKKPL---HDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLG 378 (538)
Q Consensus 302 Gl~~yv~~l~~~~~~~---~~~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~ 378 (538)
+|++|++++..+..+. +.++. .+..+-+||||++|+ ++ .++++||||+|+|.+||||++||+++|+++|++|+
T Consensus 2 ~f~~Y~~ly~~~~~~~~~~~~~~~--~~~~~~~veva~~~s-~~-~~~~~SFvN~I~T~~GGTHv~g~~~~lt~~i~~~~ 77 (153)
T cd03481 2 SFKDYVKLYLKDANKEDGPPPPVV--YEPVNDRWEVAVALS-DG-QFQQVSFVNSIATTKGGTHVDYVADQIVKKLDEVV 77 (153)
T ss_pred CHHHHHHHHhcccccccCCCCCeE--eccCCCcEEEEEEEc-CC-CcEEEEEECCcCCCCCCchHHHHHHHHHHHHHHHH
Confidence 6899999996532110 12332 233234799999999 44 68899999999999999999999999999999999
Q ss_pred HhcCCCCCcCCCCCHHhHhccceEEEEEeecCCCCCCccccccCChhhhhhhhhHHHHHHHHHHHhChHHHHHHHHHHHH
Q 009294 379 KKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLS 458 (538)
Q Consensus 379 kk~~~~k~~~~~l~~~dIregL~~~vsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~n~~~~~~I~~~~~~ 458 (538)
++++ | ++.+++++|||+||++||+|+++||+|+||||++|+|++........+.+.|.+|+.++ .|+++++.
T Consensus 78 ~kk~--k-~~~~i~~~dire~l~~vvs~~i~~P~FegQTK~kL~s~~~~~~~~~~~~~~~~~~~~k~-----~ii~~i~~ 149 (153)
T cd03481 78 KKKN--K-GGINVKPFQVKNHLWIFVNCLIENPSFDSQTKETLTTKPKSFGSKCELSEKFLKKAVKS-----GIVESVLS 149 (153)
T ss_pred HHcC--C-CCCCcCHHHHhcCeEEEEEEecCCCccCCcccccccCcccccccccccCHHHHHHHHHc-----hHHHHHHH
Confidence 8865 2 24689999999999999999999999999999999999865555558899999999876 55555554
Q ss_pred H
Q 009294 459 A 459 (538)
Q Consensus 459 ~ 459 (538)
+
T Consensus 150 ~ 150 (153)
T cd03481 150 W 150 (153)
T ss_pred H
Confidence 3
No 18
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=99.96 E-value=1.9e-28 Score=273.90 Aligned_cols=288 Identities=17% Similarity=0.229 Sum_probs=212.3
Q ss_pred CCchhHHHHHHHHhhHhhhccCCCCeEEEEEecCC--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCC
Q 009294 104 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLADN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (538)
Q Consensus 104 ~~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~ 181 (538)
...+.++|+|||+||+|++ |+.|.|.|+.+| +|+|.|||+|||.+. +++++. .|++||+...++.
T Consensus 20 I~~~~svvkElveNsiDAg----at~I~v~i~~~g~~~i~V~DnG~Gi~~~~--------~~~~~~-~~~tsKi~~~~dl 86 (617)
T PRK00095 20 VERPASVVKELVENALDAG----ATRIDIEIEEGGLKLIRVRDNGCGISKED--------LALALA-RHATSKIASLDDL 86 (617)
T ss_pred ccCHHHHHHHHHHHHHhCC----CCEEEEEEEeCCeEEEEEEEcCCCCCHHH--------HHHHhh-ccCCCCCCChhHh
Confidence 3678999999999999975 999999999888 799999999999987 556776 5999999875557
Q ss_pred ee-eccccccchhhHHHhhcCeEEEEEEeC--CEEEEEEEeCCcccccceeeecCCCCCCCCCcEEEEE------eCccc
Q 009294 182 YS-VSGGLHGVGLSVVNALSESLEVTVWRD--GMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFW------PDKQV 252 (538)
Q Consensus 182 yk-~sgG~~GvGls~vnalS~~~~V~t~~~--g~~y~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~------PD~~~ 252 (538)
|. .|.||||+||++++++| +++|+|+++ +..|.+.|++|.+.. .. ....++||+|+|+ |++.+
T Consensus 87 ~~~~t~GfrGeAL~sI~~vs-~l~i~s~~~~~~~~~~~~~~~G~~~~-~~------~~~~~~GT~V~v~~LF~n~P~Rrk 158 (617)
T PRK00095 87 EAIRTLGFRGEALPSIASVS-RLTLTSRTADAAEGWQIVYEGGEIVE-VK------PAAHPVGTTIEVRDLFFNTPARRK 158 (617)
T ss_pred hccccCCcchhHHHhhhhce-EEEEEEecCCCCceEEEEecCCcCcc-ee------cccCCCCCEEEechhhccCcHHHH
Confidence 76 79999999999999998 899999986 578999999997652 21 2345799999997 99999
Q ss_pred cccccccCHHHHHHHHHHHHhhCCCcEEEEeeCCCCCCCCceeEEeec--ccHHHHHHHHcCCCCCCCCeeEEEEeccee
Q 009294 253 FTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFA--GGLEEYVQWLNTDKKPLHDVVGFRKDVDGI 330 (538)
Q Consensus 253 F~~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~~~~~~~~~~~f~~~--~Gl~~yv~~l~~~~~~~~~~i~~~~~~~~i 330 (538)
|..+...+++.|.++++++|++||+++|.|.+++ ...|++. +++.+++..+.+. ....+.+.+..+.+++
T Consensus 159 flk~~~~e~~~i~~~v~~~Al~~p~i~f~l~~~~-------~~~~~~~~~~~~~~~i~~i~g~-~~~~~l~~~~~~~~~~ 230 (617)
T PRK00095 159 FLKSEKTELGHIDDVVNRLALAHPDVAFTLTHNG-------KLVLQTRGAGQLLQRLAAILGR-EFAENALPIDAEHGDL 230 (617)
T ss_pred hccCcHHHHHHHHHHHHHHhhcCCCcEEEEEECC-------EEEEEeCCCCCHHHHHHHHhCH-HhHhheEEEeccCCCE
Confidence 9765567888999999999999999999999875 3568887 4699999988763 2233456666666677
Q ss_pred EEE--EEE-EeccCCCCceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHhcCCCCCcCCCCCHHhHhccceEEEEEe
Q 009294 331 TID--LAL-QWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVR 407 (538)
Q Consensus 331 ~ve--val-~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~~~~k~~~~~l~~~dIregL~~~vsvk 407 (538)
.++ ++. .|+ +.....++.|||++++.+ ..|.++|++..+... .+ ...-.+++++.
T Consensus 231 ~i~g~is~p~~~-~~~~~~~~~fvN~R~v~~---------~~l~~ai~~~y~~~~-~~-----------~~~P~~~l~i~ 288 (617)
T PRK00095 231 RLSGYVGLPTLS-RANRDYQYLFVNGRYVRD---------KLLNHAIRQAYHDLL-PR-----------GRYPAFVLFLE 288 (617)
T ss_pred EEEEEEeCcccc-cCCCcceEEEECCcEecC---------HHHHHHHHHHHHHhc-cC-----------CCCcEEEEEEE
Confidence 777 444 565 455678999999999874 344555544333211 01 11227788888
Q ss_pred ecCCCCC---CccccccCChhhhhhhhhHHHHHHHHHHH
Q 009294 408 VPNPEFE---GQTKTRLGNPEVRKVVDQSVQEYLTEYLE 443 (538)
Q Consensus 408 i~nP~Fe---gQTKekL~n~ev~~~v~~~v~~~l~~~l~ 443 (538)
++.-.+| ..+|...--.. ...+...+.+.+..+|.
T Consensus 289 ~~~~~~DvNvhP~K~ev~f~~-e~~i~~~i~~~i~~~l~ 326 (617)
T PRK00095 289 LDPHQVDVNVHPAKHEVRFRD-ERLVHDLIVQAIQEALA 326 (617)
T ss_pred eChHhcccccCCCcCEEEeCC-HHHHHHHHHHHHHHHHh
Confidence 8755555 23344332221 12233444455555554
No 19
>COG0323 MutL DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]
Probab=99.91 E-value=7.1e-24 Score=236.73 Aligned_cols=293 Identities=17% Similarity=0.246 Sum_probs=202.8
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEecCC--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCCe
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 182 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~y 182 (538)
..+..+|+|||+||||++ |++|+|.++.+| .|.|.|||.||+.++ +++++.+ ||+||..+.+|..
T Consensus 22 erPaSVVKELVENSlDAG----At~I~I~ve~gG~~~I~V~DNG~Gi~~~D--------l~la~~r-HaTSKI~~~~DL~ 88 (638)
T COG0323 22 ERPASVVKELVENSLDAG----ATRIDIEVEGGGLKLIRVRDNGSGIDKED--------LPLALLR-HATSKIASLEDLF 88 (638)
T ss_pred ecHHHHHHHHHhcccccC----CCEEEEEEccCCccEEEEEECCCCCCHHH--------HHHHHhh-hccccCCchhHHH
Confidence 567899999999999997 999999999888 699999999999988 6778877 9999998876665
Q ss_pred e-eccccccchhhHHHhhcCeEEEEEEeCC--EEEEEEEeCCcccccceeeecCCCCCCCCCcEEEEE------eCcccc
Q 009294 183 S-VSGGLHGVGLSVVNALSESLEVTVWRDG--MEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFW------PDKQVF 253 (538)
Q Consensus 183 k-~sgG~~GvGls~vnalS~~~~V~t~~~g--~~y~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~------PD~~~F 253 (538)
+ .|.||+|++|+++..+| +++|+++..+ ..|++.+++|.....+. +...+.||+|++. |.+.+|
T Consensus 89 ~I~TlGFRGEAL~SIasVs-rlti~Srt~~~~~~~~~~~~g~~~~~~~~------p~a~~~GTtVeV~dLF~NtPaRrKf 161 (638)
T COG0323 89 RIRTLGFRGEALASIASVS-RLTITSRTAEASEGTQIYAEGGGMEVTVK------PAAHPVGTTVEVRDLFYNTPARRKF 161 (638)
T ss_pred HhhccCccHHHHHHHHhhh-eeEEEeecCCcCceEEEEecCCccccccc------CCCCCCCCEEEehHhhccChHHHHh
Confidence 5 79999999999999997 8999998543 45677777665542322 3456679999987 999999
Q ss_pred ccccccCHHHHHHHHHHHHhhCCCcEEEEeeCCCCCCCCceeEEeec--ccHHHHHHHHcCCCCCCCCeeEEEEecceeE
Q 009294 254 TTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFA--GGLEEYVQWLNTDKKPLHDVVGFRKDVDGIT 331 (538)
Q Consensus 254 ~~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~~~~~~~~~~~f~~~--~Gl~~yv~~l~~~~~~~~~~i~~~~~~~~i~ 331 (538)
.++...++..|.+.++++|.++|.++|+|...... ..+....+ +...+.+..+.+.. .....+.++.+.++++
T Consensus 162 lks~~~E~~~i~~vv~r~ALahp~I~F~l~~~gk~----~~~~~~~~~~~~~~~ri~~i~G~~-~~~~~l~i~~~~~~~~ 236 (638)
T COG0323 162 LKSEKTEFGHITELINRYALAHPDISFSLSHNGKL----RIELLKLPGTGDLEERIAAVYGTE-FLKNALPIENEHEDLR 236 (638)
T ss_pred hcccHHHHHHHHHHHHHHHhcCCCeEEEEEECCce----eeEEEecCCCCcHHHHHHHHhCHH-HHHhhcccccCCCceE
Confidence 88778889999999999999999999999987521 11333333 23555677766531 1223344555555665
Q ss_pred EE--EEE-EeccCCCCceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHhcCCCCCcCCCCCHHhHhccceEEEEEee
Q 009294 332 ID--LAL-QWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRV 408 (538)
Q Consensus 332 ve--val-~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~~~~k~~~~~l~~~dIregL~~~vsvki 408 (538)
+. ++. .++ ++..+.|+.|||+++..+ ..|.++|.+..+.. +.+ ...-++|+.+.+
T Consensus 237 l~G~v~~P~~~-r~~~~~q~~fVNgR~V~~---------~~l~~Ai~~aY~~~-L~~-----------~r~P~~vL~l~l 294 (638)
T COG0323 237 LSGYVSLPEFT-RASRDYQYLFVNGRPVRD---------KLLNHALREAYADY-LPR-----------GRYPVFVLFLEL 294 (638)
T ss_pred EEEEecccccc-cCCccceEEEECCCEecc---------HHHHHHHHHHHHhh-ccC-----------CCCcEEEEEEee
Confidence 54 222 233 555688999999999877 35566664432221 111 123478888888
Q ss_pred cCCCCC---CccccccCChhhhhhhhhHHHHHHHHHHHhC
Q 009294 409 PNPEFE---GQTKTRLGNPEVRKVVDQSVQEYLTEYLELH 445 (538)
Q Consensus 409 ~nP~Fe---gQTKekL~n~ev~~~v~~~v~~~l~~~l~~n 445 (538)
+.-.-| -.+|...-=.. ...|...+.+.+..+|...
T Consensus 295 ~p~~vDVNVHP~K~EVrf~~-~~~i~~~I~~~I~~~L~~~ 333 (638)
T COG0323 295 DPELVDVNVHPAKKEVRFSD-ERLVHDLIYEAIKEALAQQ 333 (638)
T ss_pred ChhhcccccCCCcceEEecC-HHHHHHHHHHHHHHHHHhc
Confidence 642222 23333221111 1124445556666666543
No 20
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=99.91 E-value=1.8e-24 Score=232.51 Aligned_cols=282 Identities=23% Similarity=0.314 Sum_probs=207.5
Q ss_pred ccceeccchhhhhhCCCeeeccCC-CCchhHHHHHHHHhhHhhhc-cCCCCeEEEEEec-C-C--eEEEEECCCCccCCc
Q 009294 80 EQIQVLEGLEAVRKRPAMYIGSTG-PRGLHHLVYEILDNAVDEAQ-AGYASNIEVALLA-D-N--SVSVADNGRGIPIDL 153 (538)
Q Consensus 80 ~~i~~L~~lE~VrkRP~mYIGs~~-~~gL~~lv~EivdNAiDe~~-~g~~~~I~V~i~~-d-g--~isV~DnGrGIP~~~ 153 (538)
++.+.++..|.++|++.|- |..+ ..+|.++++|||+||+|++. .|....|.|.+.. + + .|+|.|||+|||.+.
T Consensus 2 ~~~~~~s~aEFF~kN~~~~-Gf~~~~~~L~~VlkELVeNAIDA~~~~g~~p~I~V~i~~~g~~~~~I~V~DNG~GIp~ed 80 (488)
T TIGR01052 2 EKFREMSVAEFFRKNKHML-GYSGKIRSLTTVIHELVTNSLDACEEAGILPDIKVEIEKIGKDHYKVTVEDNGPGIPEEY 80 (488)
T ss_pred CcccccCHHHHHHhCCccc-cccCCHHHHHHHHHHHHHHHHHHhhccCCCceEEEEEEECCCceEEEEEEECCCCCCHHH
Confidence 4568889999999999998 5544 67999999999999999986 3556689999874 2 2 699999999999987
Q ss_pred cCCCCcchHHHhhhhcccCCCCCCCCCCeeeccccccchhhHHHhhcCe-----EEEEEEeCCEE--EEEEEe------C
Q 009294 154 HPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSES-----LEVTVWRDGME--YHQKYS------R 220 (538)
Q Consensus 154 h~~~g~~~~e~v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~-----~~V~t~~~g~~--y~q~f~------~ 220 (538)
. +.+|..+|+|+||... ..+.|++|+|+++++++|+. ++|+++++|.. |++++. +
T Consensus 81 l--------~~iF~rf~~tsK~~~~----~~s~G~~GlGLs~~~~isq~~~G~~i~V~S~~~g~~~~~~~~~~id~~~n~ 148 (488)
T TIGR01052 81 I--------PKVFGKMLAGSKFHRI----IQSRGQQGIGISGAVLYSQMTTGKPVKVISSTGGEIYVYKMKLKIDVQKNE 148 (488)
T ss_pred H--------HhhhhhccccCccccc----cccCCCccEehhHHHHHHHHcCCceEEEEEecCCceEEEEEEEEecccccC
Confidence 4 4589999999999743 56889999999999999975 88999887754 588874 4
Q ss_pred CcccccceeeecCCCCCCCCCcEEEEEeCccccccccccCHHHHHHHHHHHHhhCCCcEEEEeeCCCCCCCCceeEEeec
Q 009294 221 GKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFA 300 (538)
Q Consensus 221 G~~~~~~~~~~~~~~~~~~~GT~V~F~PD~~~F~~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~~~~~~~~~~~f~~~ 300 (538)
|....... . +...++||+|+++|+.... .+....|.++|+++|++||+++|.|.+++. +.+.|+
T Consensus 149 G~i~~~~~-~----~~~~~~GT~V~v~f~~~~~----r~~k~~i~e~l~~~Al~nP~~~i~l~~~~~-------~~~~f~ 212 (488)
T TIGR01052 149 GEIVEKGE-W----NKPGWRGTRIELEFKGVSY----RRSKQGVYEYLRRTAVANPHAKIVLVDPDG-------EIYVFP 212 (488)
T ss_pred Ceecceee-c----CCCCCCceEEEEEECCcee----eccHHHHHHHHHHHHhhCCCeEEEEEeCCC-------CEEEee
Confidence 65543321 1 2233589999999554331 124579999999999999999999999753 457776
Q ss_pred ccHHHHHHHHcCCCCCCC-CeeEEEEecceeEEEEEEEeccCCCCceEEEeeCceeccCCccchHHHHHHHHHHHHHHHH
Q 009294 301 GGLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGK 379 (538)
Q Consensus 301 ~Gl~~yv~~l~~~~~~~~-~~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~k 379 (538)
.. .+.++ .|..+..++.|++++...+....+...++.+|..+-++.-|..+ +.++++
T Consensus 213 R~-----------~~~~P~~p~e~kpHP~gv~~~~l~~m~~~t~~~~l~~fL~~~f~~v~~~~-----------a~~~~~ 270 (488)
T TIGR01052 213 RS-----------TDEIPKPPKEMKPHPHGVTIDDLKSMARSTRASTLRSFLVSEFSRIGEKK-----------IKELLE 270 (488)
T ss_pred cc-----------cccCCCCCccCCCCCCccCHHHHHHHHHhcCcccHHHHHHHhhcccCHHH-----------HHHHHH
Confidence 62 12233 46777888888877643332222223468899999999998443 344444
Q ss_pred hcCCC----CCcCCCCCHHhHhccceEEEEEeecCCC
Q 009294 380 KSKTV----KDKDISLSGEHVREGLTCIISVRVPNPE 412 (538)
Q Consensus 380 k~~~~----k~~~~~l~~~dIregL~~~vsvki~nP~ 412 (538)
..++. .++..+++.+++..-+-++-..++..|.
T Consensus 271 ~~g~~~~~~~~~~~~l~~~~~~~l~~~~~~~~~~~P~ 307 (488)
T TIGR01052 271 KYGIDVDPLDKKPKELTWDEAEKIVNAFKEMKFMAPP 307 (488)
T ss_pred HhCCCccccCCChhhCCHHHHHHHHHHHHhcCCCCCC
Confidence 44432 2344578889888888887777777775
No 21
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=99.90 E-value=6.4e-25 Score=227.69 Aligned_cols=253 Identities=24% Similarity=0.309 Sum_probs=186.2
Q ss_pred ccceeccchhhhhhCCCeeeccCC-CCchhHHHHHHHHhhHhhhc-cCCCCeEEEEEecCC----eEEEEECCCCccCCc
Q 009294 80 EQIQVLEGLEAVRKRPAMYIGSTG-PRGLHHLVYEILDNAVDEAQ-AGYASNIEVALLADN----SVSVADNGRGIPIDL 153 (538)
Q Consensus 80 ~~i~~L~~lE~VrkRP~mYIGs~~-~~gL~~lv~EivdNAiDe~~-~g~~~~I~V~i~~dg----~isV~DnGrGIP~~~ 153 (538)
+.++.++..|+++|++.|- |..+ .++|+..|+|+|+||+|++. +|..+.|.|+|+.-| .|.|+|||.|||.+.
T Consensus 10 e~~re~SvAEFF~kNk~ml-Gf~~p~RsL~~tv~ElV~NSLDA~eeaGILPdI~v~I~~~~~d~y~v~veDNGpGIP~e~ 88 (538)
T COG1389 10 EKFRELSVAEFFRKNKEML-GFDGPIRSLTTTVHELVTNSLDACEEAGILPDIKVEIERIGKDHYKVIVEDNGPGIPEEQ 88 (538)
T ss_pred hhhhhcCHHHHHHhCHHhc-CCCCchhHHHHHHHHHHhcchhhHHhcCCCCceEEEEEecCCceEEEEEecCCCCCChhH
Confidence 4578899999999999998 6555 68999999999999999998 799999999999644 699999999999998
Q ss_pred cCCCCcchHHHhhhhcccCCCCCCCCCCeeeccccccchhhHHHhhcCeE-----EEEEEeC--CEEEEEEEe----CCc
Q 009294 154 HPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESL-----EVTVWRD--GMEYHQKYS----RGK 222 (538)
Q Consensus 154 h~~~g~~~~e~v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~~-----~V~t~~~--g~~y~q~f~----~G~ 222 (538)
.|+ ||+++++||||+- .++|.|+.|+|++.+..+|+.. +|.+... +..|..+.. .|.
T Consensus 89 IPk--------vFGk~LygSKfh~----~~QsRGqqGiGis~avLysQmTtGkPv~V~s~T~~s~~~~~~~l~id~~kNE 156 (538)
T COG1389 89 IPK--------VFGKMLYGSKFHR----NIQSRGQQGIGISAAVLYSQMTTGKPVRVISSTGDSGTAYEYELKIDVQKNE 156 (538)
T ss_pred hHH--------HHHHHhccchhhh----hhhccccccccHHHHHHHHHhcCCCceEEEecCCCCcceEEEEEEecCCCCc
Confidence 775 9999999999974 3799999999999999999765 4666554 455655554 243
Q ss_pred ccccceeeecCCCCCCCCCcEEEEEeCccccccccccCHHH-HHHHHHHHHhhCCCcEEEEeeCCCCCCCCceeEEeecc
Q 009294 223 PVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNT-IAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAG 301 (538)
Q Consensus 223 ~~~~~~~~~~~~~~~~~~GT~V~F~PD~~~F~~~~~~~~~~-i~~rl~elA~lnpgl~i~l~d~~~~~~~~~~~~f~~~~ 301 (538)
|..- ..... .....++||+|+.. |....--.... +.++|+++|..||+.+|.|.|++. +.+.|+.
T Consensus 157 p~Iv-~r~~~-~~~~~~hGT~Vel~-----~~~~~~~~~~qgi~eYlkrtaiinPhA~I~l~dPdG-------~~~vf~r 222 (538)
T COG1389 157 PEIV-ERGEV-ENPGGWHGTRVELE-----LKGVWYRAKRQGIYEYLKRTAIINPHARIVLKDPDG-------NLVVFPR 222 (538)
T ss_pred chhh-hcccc-cCCCCCCceEEEEE-----ecccchhhcccCHHHHHHHHhhcCCceEEEEECCCC-------cEEEecc
Confidence 3321 11001 13456799999998 54332111234 899999999999999999999875 3555554
Q ss_pred cHHHHHHHHcCCCCCCC-CeeEEEEecceeEEEEEE---EeccCCCCceEEEeeCceeccCCccchHHHHHHHHHHHHHH
Q 009294 302 GLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLAL---QWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSL 377 (538)
Q Consensus 302 Gl~~yv~~l~~~~~~~~-~~i~~~~~~~~i~veval---~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~ 377 (538)
. .+.++ +|-.+..++.|++++-.+ ..+ + ..++.+|.-+-++.-| .+.+.++
T Consensus 223 ~-----------t~~lP~pP~E~kPHP~gvd~~~L~~M~~~T-~--~~tv~~fL~sef~rig-----------~~ta~e~ 277 (538)
T COG1389 223 S-----------TDKLPKPPKEIKPHPHGVDLDTLKKMAHRT-R--RSTVREFLVSEFSRIG-----------EKTADEL 277 (538)
T ss_pred c-----------hhhCCCCccccCCCCccccHHHHHHHHHHh-h--hhhHHHHHHHHHHHhh-----------hhhHHHH
Confidence 2 11233 356677788887776222 333 2 2346778777777777 6667777
Q ss_pred HHhcCCC
Q 009294 378 GKKSKTV 384 (538)
Q Consensus 378 ~kk~~~~ 384 (538)
++..+..
T Consensus 278 ~e~~g~~ 284 (538)
T COG1389 278 LEYAGFD 284 (538)
T ss_pred HHHhcCC
Confidence 7777653
No 22
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=99.87 E-value=4.8e-22 Score=215.97 Aligned_cols=282 Identities=20% Similarity=0.270 Sum_probs=207.6
Q ss_pred ccceeccchhhhhhCCCeeeccCCCCchhHHHHHHHHhhHhhhcc-CCCCeEEEEEec----CC--eEEEEECCCCccCC
Q 009294 80 EQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQA-GYASNIEVALLA----DN--SVSVADNGRGIPID 152 (538)
Q Consensus 80 ~~i~~L~~lE~VrkRP~mYIGs~~~~gL~~lv~EivdNAiDe~~~-g~~~~I~V~i~~----dg--~isV~DnGrGIP~~ 152 (538)
++++.++..|.++|++.|.--+...++|.+++.|||+||+|+... |....|.|.+.. ++ .|+|.|||.|||.+
T Consensus 10 ~~~~~~s~aEfF~kn~~~~gf~~p~~~L~qVLkNLIeNAIDa~~~~gilp~I~I~I~~~~~~~~~~~I~V~DNG~GIp~e 89 (535)
T PRK04184 10 EKFREISVAEFFEKNKELLGFDNPARALYTTVKELVDNSLDACEEAGILPDIKIEIKRVDEGKDHYRVTVEDNGPGIPPE 89 (535)
T ss_pred hhhhhCCHHHHHHhCccceeecCCHHHHHHHHHHHHHHHHHHhhhcCCCceEEEEEEEccCCCcEEEEEEEcCCCCCCHH
Confidence 347889999999999999955555689999999999999999853 556688888873 22 59999999999988
Q ss_pred ccCCCCcchHHHhhhhcccCCCCCCCCCCeeeccccccchhhHHHhhcCe-----EEEEEEeCC-E-EEEEEEe----C-
Q 009294 153 LHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSES-----LEVTVWRDG-M-EYHQKYS----R- 220 (538)
Q Consensus 153 ~h~~~g~~~~e~v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~-----~~V~t~~~g-~-~y~q~f~----~- 220 (538)
. .+.+|+.+++++||... ..+.|++|+|+++++.+|+. ++|++..++ . .|.+++. .
T Consensus 90 ~--------l~~iF~~f~~~SK~~~~----~~s~G~~GLGLsiv~~isq~~~G~~I~V~S~~~~g~~~~~~~l~id~~kn 157 (535)
T PRK04184 90 E--------IPKVFGKLLYGSKFHNL----RQSRGQQGIGISAAVLYAQMTTGKPVRVISSTGGSKKAYYFELKIDTKKN 157 (535)
T ss_pred H--------HHHHhhhhhcccccccc----ccCCCCCCcchHHHHHHHHHhcCCcEEEEEecCCCceEEEEEEEeccccc
Confidence 7 45689998899998642 35779999999999999874 578887654 3 6788775 1
Q ss_pred -CcccccceeeecCCCCCCCCCcEEEEEeCccccccccccCHHHHHHHHHHHHhhCCCcEEEEeeCCCCCCCCceeEEee
Q 009294 221 -GKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFF 299 (538)
Q Consensus 221 -G~~~~~~~~~~~~~~~~~~~GT~V~F~PD~~~F~~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~~~~~~~~~~~f~~ 299 (538)
|..... .. .....++||+|++.++...+ .....|.++++++|++||+++|.|.+.+. +.+.|
T Consensus 158 ~g~i~~~-~~----~~~~~~~GT~V~V~l~~~~~-----~~~~~I~e~i~r~Al~nP~~~~~l~~~~g-------~~~~f 220 (535)
T PRK04184 158 EPIILER-EE----VDWDRWHGTRVELEIEGDWY-----RAKQRIYEYLKRTAIVNPHARITFKDPDG-------EILVF 220 (535)
T ss_pred CCeeccc-cc----cCCCCCCCEEEEEEECCcCh-----hhHHHHHHHHHHHHHhCCCeEEEEEeCCC-------eEEEE
Confidence 222211 10 12356799999999665443 23678999999999999999999998652 45667
Q ss_pred cccHHHHHHHHcCCCCCCC-CeeEEEEecceeEEEEEEEeccCCCCceEEEeeCceeccCCccchHHHHHHHHHHHHHHH
Q 009294 300 AGGLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLG 378 (538)
Q Consensus 300 ~~Gl~~yv~~l~~~~~~~~-~~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~ 378 (538)
+.. .+.++ .|..+..++.|++++...+....+...++.+|..+-++.-| .+...+++
T Consensus 221 ~R~-----------~~~~P~~p~e~kpHP~gv~~~~l~~m~~~t~~~~l~~fL~~~f~~v~-----------~~~a~~~~ 278 (535)
T PRK04184 221 PRA-----------TDKLPKPPKEIKPHPHGVDLGTLKRMAARTKRRTLKEFLVEEFSRVG-----------DKTADEIL 278 (535)
T ss_pred ecc-----------cccCCCCCccCCCCCCccCHHHHHHHHHhcccCCHHHHHHHhhcccC-----------HHHHHHHH
Confidence 653 12233 46777888888877643333222223568999999999998 44555666
Q ss_pred HhcCCCC-CcCCCCCHHhHhccceEEEEEeecCCC
Q 009294 379 KKSKTVK-DKDISLSGEHVREGLTCIISVRVPNPE 412 (538)
Q Consensus 379 kk~~~~k-~~~~~l~~~dIregL~~~vsvki~nP~ 412 (538)
+..++.. ++..+++.+++..-+-++-.+++..|.
T Consensus 279 ~~~~~~~~~~~~~l~~~~~~~l~~~~~~~~~~~pp 313 (535)
T PRK04184 279 EKAGLDPNKKPKELTREELERLVEAFKKYKFMAPP 313 (535)
T ss_pred HHcCCCCCCChhhCCHHHHHHHHHHHHhccCcCCC
Confidence 6666533 334679999999999998888877775
No 23
>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=99.86 E-value=3e-20 Score=192.28 Aligned_cols=259 Identities=15% Similarity=0.227 Sum_probs=178.7
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEecCC--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCC-C
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS-G 181 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~-~ 181 (538)
..+..++.|||+||+|+. ++.|.|.+..+| .|+|.|||.|||.+. ++.++.. |+++|+...++ .
T Consensus 21 ~~~~~~l~eLi~Na~dA~----a~~I~i~~~~~~~~~i~V~DnG~Gi~~~~--------l~~~~~~-~~tsk~~~~~~~~ 87 (312)
T TIGR00585 21 ERPASVVKELVENSLDAG----ATRIDVEIEEGGLKLIEVSDNGSGIDKED--------LPLACER-HATSKIQSFEDLE 87 (312)
T ss_pred hhHHHHHHHHHHHHHHCC----CCEEEEEEEeCCEEEEEEEecCCCCCHHH--------HHHHhhC-CCcCCCCChhHhh
Confidence 567899999999999985 789999998766 599999999999886 5556554 78888764321 2
Q ss_pred eeeccccccchhhHHHhhcCeEEEEEEe--C-CEEEEEEEeCCcccccceeeecCCCCCCCCCcEEEEE------eCccc
Q 009294 182 YSVSGGLHGVGLSVVNALSESLEVTVWR--D-GMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFW------PDKQV 252 (538)
Q Consensus 182 yk~sgG~~GvGls~vnalS~~~~V~t~~--~-g~~y~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~------PD~~~ 252 (538)
...+.|++|+|+++++.+| +++|+|+. + +..|.+. .+|....+.. +...++||+|++. |++.+
T Consensus 88 ~~~~~G~rG~al~si~~~s-~~~i~S~~~~~~~~~~~~~-~~g~~~~~~~------~~~~~~GTtV~v~~lf~n~p~r~~ 159 (312)
T TIGR00585 88 RIETLGFRGEALASISSVS-RLTITTKTSAADGLAWQAL-LEGGMIEEIK------PAPRPVGTTVEVRDLFYNLPVRRK 159 (312)
T ss_pred cccccCccchHHHHHHhhC-cEEEEEeecCCCcceEEEE-ECCCcCcccc------cccCCCccEEEEchhhccCchhhh
Confidence 3478999999999999998 89999985 3 4567777 4454333221 3455799999999 99999
Q ss_pred cccccccCHHHHHHHHHHHHhhCCCcEEEEeeCCCCCCCCceeEEeec----ccHHH-HHHHHcCCCCCCCCeeEEE-Ee
Q 009294 253 FTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFA----GGLEE-YVQWLNTDKKPLHDVVGFR-KD 326 (538)
Q Consensus 253 F~~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~~~~~~~~~~~f~~~----~Gl~~-yv~~l~~~~~~~~~~i~~~-~~ 326 (538)
|......+++.|.++++++|+++|+++|.|.+.. ...+.+. ..+.+ .+..+.+.. .....+.+. .+
T Consensus 160 ~~~~~~~~~~~i~~~l~~~al~~p~i~f~l~~~~-------~~~~~~~~~~~~~~~~~~i~~v~G~~-~~~~l~~~~~~~ 231 (312)
T TIGR00585 160 FLKSPKKEFRKILDLLNRYALIHPDVSFSLTHDG-------KKVLQLSTKPNQSLKERRIRSVFGTA-VLSKLFPLLEWE 231 (312)
T ss_pred hccCcHHHHHHHHHHHHHHhhcCCCeEEEEEECC-------EEEEEEcCCCCCCHHHHHHHHHhChH-hHhhceeeeccc
Confidence 8755556678999999999999999999999874 2334443 24777 366665532 122233443 24
Q ss_pred cceeEEEEEE---EeccCCCCce-EEEeeCceeccCCccchHHHHHHHHHHHHHHHHhcCCCCCcCCCCCHHhHhccceE
Q 009294 327 VDGITIDLAL---QWCSDAYSDT-MLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTC 402 (538)
Q Consensus 327 ~~~i~veval---~~s~~~~~~~-~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~~~~k~~~~~l~~~dIregL~~ 402 (538)
.+++.++.-+ .+. ...... |+-|||+++... ..|.++|++..+.... + ...-.+
T Consensus 232 ~~~~~v~G~is~p~~~-~~~~~~~q~ifvNgR~v~~---------~~l~k~I~~~y~~~~~-~-----------~~~P~~ 289 (312)
T TIGR00585 232 DGDLQLEGFISEPNVT-RSRRSGWQFLFINGRPVEL---------KLLLKAIREVYHEYLP-K-----------GQYPVF 289 (312)
T ss_pred CCCEEEEEEEcCcccc-cCCCCcceEEEECCcEecc---------hHHHHHHHHHHHHhcc-C-----------CCCcEE
Confidence 4566666222 112 122223 899999999754 2355666554443221 1 113378
Q ss_pred EEEEeecCCCCC
Q 009294 403 IISVRVPNPEFE 414 (538)
Q Consensus 403 ~vsvki~nP~Fe 414 (538)
++++.+|.-.+|
T Consensus 290 vL~i~~p~~~iD 301 (312)
T TIGR00585 290 VLNLEIDPELVD 301 (312)
T ss_pred EEEEEEChHHcc
Confidence 888888765555
No 24
>cd03366 TOPRIM_TopoIIA_GyrB TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. DNA gyrase is more effective at relaxing supercoils than decatentating DNA. DNA gyrase in addition inserts negative supercoils in the presence of ATP. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleava
Probab=99.82 E-value=3.1e-21 Score=167.99 Aligned_cols=39 Identities=69% Similarity=1.084 Sum_probs=38.3
Q ss_pred eEEEEEeCCCCcccccccCCCCceEeeccCccccccccCC
Q 009294 499 SEIFIVEGDSAGGSAKQGRDRRFQVIINPLQESIFAFASA 538 (538)
Q Consensus 499 ~eL~lvEGDSA~Gsak~gRdr~~qail~PLrGKiLNv~ka 538 (538)
|||||||||||||||||||||+||||| ||||||||||||
T Consensus 1 ~eL~lvEGDSAggsak~gRdr~~qail-PLrGKiLNv~ka 39 (114)
T cd03366 1 SELYIVEGDSAGGSAKQGRDRRFQAIL-PLRGKILNVEKA 39 (114)
T ss_pred CEEEEEeCCCCccccccccCcCceEEe-ccCCccchHhhc
Confidence 899999999999999999999999999 999999999986
No 25
>cd01030 TOPRIM_TopoIIA_like TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=99.80 E-value=1.7e-20 Score=164.16 Aligned_cols=39 Identities=59% Similarity=0.941 Sum_probs=38.3
Q ss_pred eEEEEEeCCCCcccccccCCCCceEeeccCccccccccCC
Q 009294 499 SEIFIVEGDSAGGSAKQGRDRRFQVIINPLQESIFAFASA 538 (538)
Q Consensus 499 ~eL~lvEGDSA~Gsak~gRdr~~qail~PLrGKiLNv~ka 538 (538)
|||||||||||||||||||||+||||| ||||||||||||
T Consensus 1 ~eL~lvEGDSA~gsak~gR~~~~qail-PLrGKiLNv~ka 39 (115)
T cd01030 1 CELILVEGDSAGGSAKQGRDRVFQAVF-PLRGKILNVEKA 39 (115)
T ss_pred CEEEEEecCCcchhhhhhcCcccEEEe-ccCCeeccHhcC
Confidence 899999999999999999999999999 999999999986
No 26
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=99.76 E-value=6.9e-18 Score=186.83 Aligned_cols=185 Identities=24% Similarity=0.301 Sum_probs=138.9
Q ss_pred ccceeccchhhhhhCCCeeeccCCCCchhHHHHHHHHhhHhhhc-cCCCCeEEEEEecCC----eEEEEECCCCccCCcc
Q 009294 80 EQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQ-AGYASNIEVALLADN----SVSVADNGRGIPIDLH 154 (538)
Q Consensus 80 ~~i~~L~~lE~VrkRP~mYIGs~~~~gL~~lv~EivdNAiDe~~-~g~~~~I~V~i~~dg----~isV~DnGrGIP~~~h 154 (538)
++.+.++..|..+|++.|+.=+....+|.++++|+|+||+|+.. .+....|.|.+..+| .|+|.|||+|||.+.
T Consensus 10 ~~~~~~S~aEFF~kNk~~lGf~~~~r~L~~VVkELVeNAIDA~~~~g~~p~I~V~I~~~g~~~~~I~V~DNG~GIp~e~- 88 (659)
T PRK14867 10 DEFKEHSISEFFRKNKHMLGYSGKLRSMTTIIHELVTNSLDACEEAEILPDIKVEIEKLGSDHYKVAVEDNGPGIPPEF- 88 (659)
T ss_pred HHHHHhHHHHHHhhCCeeeechhHHHHHHHHHHHHHHHHHHHhhccCCCceEEEEEEECCCcEEEEEEEeeCeeCCHHH-
Confidence 35677888999999999985555567899999999999999986 355668999998543 399999999999987
Q ss_pred CCCCcchHHHhhhhcccCCCCCCCCCCeeeccccccchhhHHHhhcCeE-----EEEEEe-CCEEEEEEEe------CCc
Q 009294 155 PATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESL-----EVTVWR-DGMEYHQKYS------RGK 222 (538)
Q Consensus 155 ~~~g~~~~e~v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~~-----~V~t~~-~g~~y~q~f~------~G~ 222 (538)
++.+|..+|+|+||.. +..+.|++|+|++++.++|+.+ ++.++. +|..|.+.+. .|.
T Consensus 89 -------l~~iFerF~atSK~~~----~~qS~G~rG~GLa~a~~vsql~~G~pI~I~S~~g~G~~f~i~L~i~i~~n~G~ 157 (659)
T PRK14867 89 -------VPKVFGKMLAGSKMHR----LIQSRGQQGIGAAGVLLFSQITTGKPLKITTSTGDGKIHEMEIKMSVEKNEGD 157 (659)
T ss_pred -------HhhhhccccccCcccc----eeccCCCCcccHHHHHHHHHHhcCCcEEEEEEcCCCEEEEEEEEEEecccCCe
Confidence 4568999999999964 4689999999999999998764 677764 4555555543 244
Q ss_pred ccccceeeecCCCCCCCCCcEEEEEeCccccccccccCHHHHHHHHHHHHhhCCCcEEEEeeCC
Q 009294 223 PVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKED 286 (538)
Q Consensus 223 ~~~~~~~~~~~~~~~~~~GT~V~F~PD~~~F~~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~ 286 (538)
.... . .....++||+|+|.-. ..|-. ..+.. +.++|+++|++||+++|.|.++.
T Consensus 158 I~~~-~-----~~~~~~~GT~Ie~~V~-dLFyn--R~E~~-i~e~l~r~ALanP~i~f~l~~~~ 211 (659)
T PRK14867 158 IVSH-K-----VREGFWRGTRVEGEFK-EVTYN--RREQG-PFEYLRRISLSTPHAKITLKDPE 211 (659)
T ss_pred eccc-c-----cCCCCCCCcEEEEEEe-eceec--hhhHH-HHHHHHHHHHhCCCcEEEEEeCC
Confidence 3321 0 1234579999994210 23322 11223 89999999999999999999874
No 27
>cd03365 TOPRIM_TopoIIA TOPRIM_TopoIIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofact
Probab=99.76 E-value=1.5e-19 Score=159.24 Aligned_cols=39 Identities=28% Similarity=0.480 Sum_probs=38.1
Q ss_pred eEEEEEeCCCCcccccccC---CCCceEeeccCccccccccCC
Q 009294 499 SEIFIVEGDSAGGSAKQGR---DRRFQVIINPLQESIFAFASA 538 (538)
Q Consensus 499 ~eL~lvEGDSA~Gsak~gR---dr~~qail~PLrGKiLNv~ka 538 (538)
||||||||||||||||||| ||+||||| |||||||||+||
T Consensus 1 ~eLflvEGDSA~gsak~gr~~~dr~~qail-PLrGKiLNv~ka 42 (120)
T cd03365 1 CTLILTEGDSAKALAVAGLSVVGRDYYGVF-PLRGKLLNVREA 42 (120)
T ss_pred CEEEEEeCCCchhhHHhhhccCCCceEEEe-ccCCccchhhcC
Confidence 8999999999999999999 89999999 999999999986
No 28
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=99.74 E-value=7.2e-18 Score=187.04 Aligned_cols=250 Identities=23% Similarity=0.309 Sum_probs=181.7
Q ss_pred ccceeccchhhhhhCCCeeeccCCCCchhHHHHHHHHhhHhhhcc-CCCCeEEEEEecCC---eEEEEECCCCccCCccC
Q 009294 80 EQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQA-GYASNIEVALLADN---SVSVADNGRGIPIDLHP 155 (538)
Q Consensus 80 ~~i~~L~~lE~VrkRP~mYIGs~~~~gL~~lv~EivdNAiDe~~~-g~~~~I~V~i~~dg---~isV~DnGrGIP~~~h~ 155 (538)
++.+.++..|.+.+++.|+--+.+...|..+|.|||+||+|++.. |....|.|.+..++ .|+|.|||.|||.+.
T Consensus 20 ~~~~~iS~aEfF~kN~~~lgfD~d~r~L~tVLkNLIeNALDAs~~~gilp~I~V~Ie~~g~~v~I~VeDNG~GIp~Ed-- 97 (795)
T PRK14868 20 ESQREISIAEFFEKNKHMLGFDSGARGLVTAVKEAVDNALDATEEAGILPDIYVEIEEVGDYYRLVVEDNGPGITKEQ-- 97 (795)
T ss_pred hhccccceeeecccCcceeeccCCHHHHHHHHHHHHHHHHHhCcccCCCceEEEEEEECCCEEEEEEEEcCCCCCHHH--
Confidence 466788899999999999977777789999999999999999753 33347888888544 599999999999987
Q ss_pred CCCcchHHHhhhhcccCCCCCCCCCCeeeccccccchhhHHHhhcCe-----EEEEEEeCC--EE--EEEEEeCCc--cc
Q 009294 156 ATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSES-----LEVTVWRDG--ME--YHQKYSRGK--PV 224 (538)
Q Consensus 156 ~~g~~~~e~v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~-----~~V~t~~~g--~~--y~q~f~~G~--~~ 224 (538)
++.+|..++.++||... ..+.|++|+||+++-++|+. ++|+++..+ .. |.+....|. |.
T Consensus 98 ------Lp~IFerf~~tSKf~~~----~~srG~rG~GLglai~~sqlt~GgpI~I~S~~~~~~~g~~~~L~Id~gkNep~ 167 (795)
T PRK14868 98 ------IPKVFGKLLYGSRFHAR----EQSRGQQGIGISAAVLYSQLTSGKPAKITSRTQGSEEAQYFELIIDTDTNEPE 167 (795)
T ss_pred ------HHHHhhhhccccccccc----ccCCCCCceehHHHHHHHHHcCCCcEEEEeCCCCCCceeEEEEEEecCCCccc
Confidence 56699998889998753 36789999999999999864 688887543 23 466666553 32
Q ss_pred c-cceeeecCCCCCCCCCcEEEEEeCccccccccccCHHHHHHHHHHHHhhCCCcEEEEeeCCCCCCCCceeEEeecccH
Q 009294 225 T-TLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGL 303 (538)
Q Consensus 225 ~-~~~~~~~~~~~~~~~GT~V~F~PD~~~F~~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~~~~~~~~~~~f~~~~Gl 303 (538)
. .... .....++||+|++. +|.. .. -...|.++|+++|+.||+++|.|.+++ +.+.|+.+-
T Consensus 168 I~~~~~----~~~~~~~GT~IeV~----Lf~N-~p-AR~kI~eyl~r~Al~nP~a~f~l~~~~--------~~~~~~r~t 229 (795)
T PRK14868 168 ISVEET----TTWDRPHGTRIELE----MEAN-MR-ARQQLHDYIKHTAVVNPHARIELREPD--------ESLKFERAT 229 (795)
T ss_pred eeccee----cccCCCCceEEEEE----EEcc-Cc-hhhhHHHHHHHHHhhCCCeEEEEEECC--------EEEEecccc
Confidence 1 1111 13456899999997 5653 21 235699999999999999999999973 457786541
Q ss_pred HHHHHHHcCCCCCCC-CeeEEEEecceeEEEEEEEeccCCCCceEEEeeCceeccCCccchHHHHHHH
Q 009294 304 EEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASL 370 (538)
Q Consensus 304 ~~yv~~l~~~~~~~~-~~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al 370 (538)
..++ .+..+.+++.|++++-.+.........++.+|++.-+++-|..+.+-+.+.+
T Consensus 230 -----------~~lp~~p~eIkPHP~Gve~~~L~~m~~~t~~~~l~gFL~~efsRVg~k~a~~ii~~~ 286 (795)
T PRK14868 230 -----------DQLPAETEEIRPHPHGVELGTLLKMLEATDSYSVSGFLQEEFTRVGKKTADSVIDNF 286 (795)
T ss_pred -----------cccccCchhccCCCCCcCHHHHHHHHhccCCcEeHHhhhhhhccccHHHHHHHHHHH
Confidence 1122 2445666677766542222221222356999999999999988888776644
No 29
>KOG1978 consensus DNA mismatch repair protein - MLH2/PMS1/Pms2 family [Replication, recombination and repair]
Probab=99.63 E-value=2.3e-15 Score=163.92 Aligned_cols=238 Identities=18% Similarity=0.241 Sum_probs=162.1
Q ss_pred CCchhHHHHHHHHhhHhhhccCCCCeEEEEEecCC--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCC-
Q 009294 104 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLADN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS- 180 (538)
Q Consensus 104 ~~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~- 180 (538)
..+|...|+||||||||++ |+.|.|.++..| +|+|.|||.||.....+ .++.-|+++|..+-.|
T Consensus 18 I~sl~sAVKELvENSiDAG----AT~I~I~~kdyG~d~IEV~DNG~GI~~~n~~---------~l~lkh~TSKi~~f~Dl 84 (672)
T KOG1978|consen 18 ITSLVSAVKELVENSIDAG----ATAIDIKVKDYGSDSIEVSDNGSGISATDFE---------GLALKHTTSKIVSFADL 84 (672)
T ss_pred eccHHHHHHHHHhcCcccC----CceeeEecCCCCcceEEEecCCCCCCccchh---------hhhhhhhhhcccchhhh
Confidence 3678899999999999998 999999999877 79999999999987654 3777799998543322
Q ss_pred CeeeccccccchhhHHHhhcCeEEEEEEe--CCEEEEEEEeC-CcccccceeeecCCCCCCCCCcEEEEE------eCc-
Q 009294 181 GYSVSGGLHGVGLSVVNALSESLEVTVWR--DGMEYHQKYSR-GKPVTTLTCHVLPVDSKDRQGTRIRFW------PDK- 250 (538)
Q Consensus 181 ~yk~sgG~~GvGls~vnalS~~~~V~t~~--~g~~y~q~f~~-G~~~~~~~~~~~~~~~~~~~GT~V~F~------PD~- 250 (538)
...+|.||+|++|++.+++|. +.+.++. +....++.|.. |...... +.+.+.||+|.+. |-+
T Consensus 85 ~~l~T~GFRGEALSsLCa~~d-v~I~Trt~~~~vgt~l~~Dh~G~I~~k~-------~~ar~~GTTV~v~~LF~tLPVR~ 156 (672)
T KOG1978|consen 85 AVLFTLGFRGEALSSLCALGD-VMISTRSHSAKVGTRLVYDHDGHIIQKK-------PVARGRGTTVMVRQLFSTLPVRR 156 (672)
T ss_pred hhhhhhhhHHHHHHhhhhccc-eEEEEeeccCccceeEEEccCCceeeec-------cccCCCCCEEEHhhhcccCCCch
Confidence 335899999999999999985 5555543 23456677764 5554221 4678899999966 655
Q ss_pred cccccccccCHHHHHHHHHHHHhhCCCcEEEEeeCCCCCCCCceeEEeeccc---HHHHHHHHcCCCCCC-CCeeEEEEe
Q 009294 251 QVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGG---LEEYVQWLNTDKKPL-HDVVGFRKD 326 (538)
Q Consensus 251 ~~F~~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~~~~~~~~~~~f~~~~G---l~~yv~~l~~~~~~~-~~~i~~~~~ 326 (538)
.-|..+..-+++.+...++.+|.++++++|.....-.. ..+....-.+| .++++....+..... ..++.+
T Consensus 157 kef~r~~Kref~k~i~li~~y~li~~~ir~~~~n~t~~---~~k~iil~t~~~~~~k~~i~svfg~~~~~~l~p~~~--- 230 (672)
T KOG1978|consen 157 KEFQRNIKRKFVKLISLIQAYALISTAIKFLVSNSTLA---GKKNIILKTGGYGSDKINISSNFGSVEEENLEPLIF--- 230 (672)
T ss_pred HHhhcchhhhhhhHHhhHHHHHhhcccceeeeeecccc---CCceeEEecCCcchHHHHHHhhhhhhhhhccccccc---
Confidence 66766666778899999999999999999988765422 11233333333 555555443321100 011110
Q ss_pred cceeEEEEEEEeccCCCCceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHhcC
Q 009294 327 VDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSK 382 (538)
Q Consensus 327 ~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~~ 382 (538)
+.-+.-.+.....+.|+-|+|.++... ..|.+.+|++-+..+
T Consensus 231 -----is~~~~g~~r~s~drqf~fIn~Rpv~~---------~~i~~~inevy~~~~ 272 (672)
T KOG1978|consen 231 -----ISSCHHGCGRSSEDRQFIFINRRPVFP---------SDICRVINEVYKLYN 272 (672)
T ss_pred -----cccccccccccCccceeeeecCccCCH---------HHHHHHHHHHhhhhc
Confidence 111111111334578999999999765 567888888765543
No 30
>KOG1979 consensus DNA mismatch repair protein - MLH1 family [Replication, recombination and repair]
Probab=99.53 E-value=2.4e-14 Score=152.68 Aligned_cols=161 Identities=23% Similarity=0.357 Sum_probs=128.5
Q ss_pred chhHHHHHHHHhhHhhhccCCCCeEEEEEecCC--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCCee
Q 009294 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLADN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYS 183 (538)
Q Consensus 106 gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~yk 183 (538)
-....++|+|+||+|+. ++.|.|.+.++| .+.|+|||.||--+..| +++.-+++||...-+|...
T Consensus 27 RP~NAlKEliENSLDA~----ST~I~V~vk~GGLKLlQisDnG~GI~reDl~---------ilCeRftTSKL~kFEDL~~ 93 (694)
T KOG1979|consen 27 RPVNALKELIENSLDAN----STSIDVLVKDGGLKLLQISDNGSGIRREDLP---------ILCERFTTSKLTKFEDLFS 93 (694)
T ss_pred chHHHHHHHHhccccCC----CceEEEEEecCCeEEEEEecCCCccchhhhH---------HHHHHhhhhhcchhHHHHh
Confidence 45789999999999997 999999999888 58999999999988854 4566689998665444554
Q ss_pred -eccccccchhhHHHhhcCeEEEEEEeC-C-EEEEEEEeCCcccccceeeecCCCCCCCCCcEEEEE------eCccccc
Q 009294 184 -VSGGLHGVGLSVVNALSESLEVTVWRD-G-MEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFW------PDKQVFT 254 (538)
Q Consensus 184 -~sgG~~GvGls~vnalS~~~~V~t~~~-g-~~y~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~------PD~~~F~ 254 (538)
.|.||+|++++++.-++ +.+|+|.+. + ..|+..|.+|+....+ ++..+.+||.|+.. |.+..=.
T Consensus 94 lsTyGFRGEALASiShVA-~VtV~TK~~~~~cayrasY~DGkm~~~p------KpcAgk~GT~I~vedLFYN~~~Rrkal 166 (694)
T KOG1979|consen 94 LSTYGFRGEALASISHVA-HVTVTTKTAEGKCAYRASYRDGKMIATP------KPCAGKQGTIITVEDLFYNMPTRRKAL 166 (694)
T ss_pred hhhcCccHHHHhhhhhee-EEEEEEeecCceeeeEEEeeccccccCC------CCccCCCceEEEehHhhccCHHHHHHh
Confidence 79999999999999996 899998764 3 4699999999987443 35678899999976 4333222
Q ss_pred cccccCHHHHHHHHHHHHhhCCCcEEEEeeCC
Q 009294 255 TAIQFDHNTIAGRIRELAFLNPKLTIALRKED 286 (538)
Q Consensus 255 ~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~ 286 (538)
.+..-++..|...+.++|.-||++.|.+....
T Consensus 167 ~~~~EE~~ki~dlv~ryAIHn~~VsFs~rk~G 198 (694)
T KOG1979|consen 167 RNHAEEYRKIMDLVGRYAIHNPRVSFSLRKQG 198 (694)
T ss_pred cCcHHHHHHHHHHHHHHheeCCCcceEEeecc
Confidence 22233567899999999999999999998753
No 31
>PRK05218 heat shock protein 90; Provisional
Probab=99.25 E-value=2.5e-09 Score=120.13 Aligned_cols=154 Identities=19% Similarity=0.242 Sum_probs=102.3
Q ss_pred hHHHHHHHHhhHhhhcc--------------CCCCeEEEEEecCC-eEEEEECCCCccCCccCCCCcchHHHhhhhcccC
Q 009294 108 HHLVYEILDNAVDEAQA--------------GYASNIEVALLADN-SVSVADNGRGIPIDLHPATNKSALETVLTVLHAG 172 (538)
Q Consensus 108 ~~lv~EivdNAiDe~~~--------------g~~~~I~V~i~~dg-~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhag 172 (538)
...++|+|-||.|+..+ .....|.|.++.+| .|+|.|||.||..+. ++..|++ |+.
T Consensus 28 ~v~lRELiqNA~DA~~k~r~~~~~~~~~~~~~~~~~I~I~~d~~~~~i~I~DnG~GMt~ee--------l~~~l~~-ia~ 98 (613)
T PRK05218 28 EIFLRELISNASDAIDKLRFEALTDPALYEGDGDLKIRISFDKEARTLTISDNGIGMTREE--------VIENLGT-IAK 98 (613)
T ss_pred hHHHHHHHhCHHHHHHHHHHHhccCccccCCCCCcEEEEEEcCCCCeEEEEECCCCCCHHH--------HHHHHHh-hcc
Confidence 55799999999999641 12347888888655 799999999999886 4445555 343
Q ss_pred C-------CCCCCCCCeeeccccccchhhHHHhhcCeEEEEEEeCC---EEEEEEEeCCcccccceeeecCCCCCCCCCc
Q 009294 173 G-------KFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDG---MEYHQKYSRGKPVTTLTCHVLPVDSKDRQGT 242 (538)
Q Consensus 173 s-------kf~~~~~~yk~sgG~~GvGls~vnalS~~~~V~t~~~g---~~y~q~f~~G~~~~~~~~~~~~~~~~~~~GT 242 (538)
| ++.+..+.-.-..|++|+|..++-+++.+++|.|+..+ ..|..+.++|... ...+ .....+||
T Consensus 99 Sg~~~f~~k~~~~~~~~~~~iG~fGiGf~S~f~va~~v~V~Sr~~~~~~~~~~w~~~g~~~~-~i~~-----~~~~~~GT 172 (613)
T PRK05218 99 SGTKEFLEKLKGDQKKDSQLIGQFGVGFYSAFMVADKVTVITRSAGPAAEAVRWESDGEGEY-TIEE-----IEKEERGT 172 (613)
T ss_pred ccchhHHHHhhcccccccccccccCcCchhhhhccCEEEEEEcCCCCCCceEEEEEeCCcee-EEeE-----CCCCCCCc
Confidence 3 23211001124569999999999999999999998754 4566666655432 2221 12237899
Q ss_pred EEEEEeCccccccccccCHHHHHHHHHHHH--hhCCCcEE
Q 009294 243 RIRFWPDKQVFTTAIQFDHNTIAGRIRELA--FLNPKLTI 280 (538)
Q Consensus 243 ~V~F~PD~~~F~~~~~~~~~~i~~rl~elA--~lnpgl~i 280 (538)
+|++....+- ..-++...|.+.++.+| .-+| +.+
T Consensus 173 ~I~l~Lk~~~---~e~~e~~~i~~li~kys~~l~~P-I~~ 208 (613)
T PRK05218 173 EITLHLKEDE---DEFLDEWRIRSIIKKYSDFIPVP-IKL 208 (613)
T ss_pred EEEEEECcch---hhhcCHHHHHHHHHHHHhcCCCC-EEE
Confidence 9999743321 11145678999999999 4455 444
No 32
>PF13589 HATPase_c_3: Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; PDB: 3IED_A 2XCM_B 2JKI_B 3OPD_A 2O1V_B 2GQP_A 2O1W_C 1YT2_A 1TC6_A 2H8M_B ....
Probab=98.99 E-value=1.1e-10 Score=106.71 Aligned_cols=97 Identities=26% Similarity=0.404 Sum_probs=69.0
Q ss_pred hhHHHHHHHHhhHhhhccCCCCeEEEEEecC----CeEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCCe
Q 009294 107 LHHLVYEILDNAVDEAQAGYASNIEVALLAD----NSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 182 (538)
Q Consensus 107 L~~lv~EivdNAiDe~~~g~~~~I~V~i~~d----g~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~y 182 (538)
+..++.|+|+||+|+. ++.|.|.|+.+ ..|.|.|||.|||.+. ++-+ ..+..+++... .-
T Consensus 3 ~~~al~ElI~Ns~DA~----a~~I~I~i~~~~~~~~~i~I~DnG~Gm~~~~--------l~~~-~~~g~s~k~~~---~~ 66 (137)
T PF13589_consen 3 PEDALRELIDNSIDAG----ATNIKISIDEDKKGERYIVIEDNGEGMSRED--------LESF-FRIGRSSKKSE---KD 66 (137)
T ss_dssp CTHHHHHHHHHHHHHH----HHHEEEEEEEETTTTTEEEEEESSS---HHH--------HHHH-TTCHHTHHHHH---HH
T ss_pred HHHHHHHHHHHHHHcc----CCEEEEEEEcCCCCCcEEEEEECCcCCCHHH--------HHHh-ccccCCCCCch---hh
Confidence 3679999999999998 88899999964 4899999999999886 3443 34555555321 12
Q ss_pred eeccccccch-hhHHHhhcCeEEEEEEeCCE--EEEEEEe
Q 009294 183 SVSGGLHGVG-LSVVNALSESLEVTVWRDGM--EYHQKYS 219 (538)
Q Consensus 183 k~sgG~~GvG-ls~vnalS~~~~V~t~~~g~--~y~q~f~ 219 (538)
..+.|++|+| ...+..++..++|.++..+. .|.+.+.
T Consensus 67 ~~~~G~~G~G~k~A~~~~~~~~~v~S~~~~~~~~~~~~~~ 106 (137)
T PF13589_consen 67 RQSIGRFGIGLKLAIFSLGDRVEVISKTNGESFTYTIDYD 106 (137)
T ss_dssp GGGGGGGTSGCGGGGGGTEEEEEEEEESTTSSSEEEEEEE
T ss_pred hhcCCCcceEHHHHHHHhcCEEEEEEEECCCCcEEEEEEe
Confidence 4578999999 44567788999999987653 3444443
No 33
>KOG1977 consensus DNA mismatch repair protein - MLH3 family [Replication, recombination and repair]
Probab=98.98 E-value=5.4e-10 Score=121.62 Aligned_cols=174 Identities=22% Similarity=0.321 Sum_probs=123.4
Q ss_pred hhCCCeeeccCCCCchhHHHHHHHHhhHhhhccCCCCeEEEEEec-CCeEEEEECCCCccCCccCCCCcchHHHhhhhcc
Q 009294 92 RKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLA-DNSVSVADNGRGIPIDLHPATNKSALETVLTVLH 170 (538)
Q Consensus 92 rkRP~mYIGs~~~~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~-dg~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lh 170 (538)
++|.|.-| ..|..+|.||+-||||+. |+.|.|.++- .=+|.|.|||.|+.-+. +|. ++.-.
T Consensus 12 ~lrSg~~~-----~sla~~VeElv~NSiDA~----At~V~v~V~~~t~sv~ViDdG~G~~rdD--------l~~-lg~ry 73 (1142)
T KOG1977|consen 12 KLRSGLAI-----SSLAQCVEELVLNSIDAE----ATCVAVRVNMETFSVQVIDDGFGMGRDD--------LEK-LGNRY 73 (1142)
T ss_pred HHhccchH-----HHHHHHHHHHHhhccccC----ceEEEEEecCceeEEEEEecCCCccHHH--------HHH-HHhhh
Confidence 34555543 457889999999999997 9999999984 34899999999999887 444 44458
Q ss_pred cCCCCCCCCCCe-eeccccccchhhHHHhhcCeEEEEEEeCCE--EEE-EEEeCCcccccceeeecCCCCCCCCCcEEEE
Q 009294 171 AGGKFGGSSSGY-SVSGGLHGVGLSVVNALSESLEVTVWRDGM--EYH-QKYSRGKPVTTLTCHVLPVDSKDRQGTRIRF 246 (538)
Q Consensus 171 agskf~~~~~~y-k~sgG~~GvGls~vnalS~~~~V~t~~~g~--~y~-q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F 246 (538)
+++||..-++.. ..+.|++|++++.+.-+|. +.|.+...+. .|. -.|..|....-+. +. ......||+|++
T Consensus 74 ~TSK~h~~ndl~~~~tyGfRGeALasIsd~s~-l~v~skkk~r~~~~~~kk~~~gs~~~~l~-iD---~~R~~sGTtVtV 148 (1142)
T KOG1977|consen 74 FTSKCHSVNDLENPRTYGFRGEALASISDMSS-LVVISKKKNRTMKTFVKKFQSGSALKALE-ID---VTRASSGTTVTV 148 (1142)
T ss_pred hhhhceeccccccccccccchhhhhhhhhhhh-hhhhhhhcCCchhHHHHHHhccccceecc-cc---cccccCCcEEEe
Confidence 889987532222 3688999999999999985 4444443322 122 1333444332221 11 233468999997
Q ss_pred E------eCccccc-cccccCHHHHHHHHHHHHhhCCCcEEEEeeCCCC
Q 009294 247 W------PDKQVFT-TAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSD 288 (538)
Q Consensus 247 ~------PD~~~F~-~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~~~ 288 (538)
. |-+.++. ++....++.|++++.++|..+|.+.|.+.+...+
T Consensus 149 ~dlfY~lPVRRr~k~~~P~k~fe~Ik~~i~~i~lmHp~iSfsv~~~~s~ 197 (1142)
T KOG1977|consen 149 YDLFYQLPVRRRLKCMDPRKEFEKIKQRIEAISLMHPSISFSVRNDVSG 197 (1142)
T ss_pred HHhhhcchhhhhhhcCCHHHHHHHHHHHHHHHHhhccceeEEEEeccCc
Confidence 7 7777654 3445567899999999999999999999887643
No 34
>PF02518 HATPase_c: Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; InterPro: IPR003594 This domain is found in several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases [], heat shock protein HSP90 [, , ], phytochrome-like ATPases and DNA mismatch repair proteins. The fold of this domain consists of two layers, alpha/beta, which contains an 8-stranded mixed beta-sheet. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0005524 ATP binding; PDB: 3JZ3_A 3DGE_A 2C2A_A 2BU5_A 2BU8_A 2BU6_A 2BU7_A 2BU2_A 2BTZ_A 3K99_D ....
Probab=98.88 E-value=1.5e-09 Score=94.57 Aligned_cols=86 Identities=31% Similarity=0.555 Sum_probs=65.8
Q ss_pred CCchhHHHHHHHHhhHhhhccCCCCeEEEEEecC-C--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCC
Q 009294 104 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 180 (538)
Q Consensus 104 ~~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~d-g--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~ 180 (538)
+..|++++.|+++||+|++..+ ..|.|.+..+ + .|+|+|||.|||.+. ++.+|..+.++.+ +
T Consensus 3 ~~~l~~il~~ll~Na~~~~~~~--~~I~i~~~~~~~~~~i~i~d~G~gi~~~~--------l~~~~~~~~~~~~-~---- 67 (111)
T PF02518_consen 3 PDRLRQILSELLDNAIKHSPEG--GKIDITIEEDDDHLSIEISDNGVGIPPEE--------LEKLFEPFFTSDK-S---- 67 (111)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHT--SEEEEEEEEETTEEEEEEEESSSSTTHHH--------HHHHCSTTSHSSS-S----
T ss_pred HHHHHHHHHHHHHHHHHHhcCC--CEEEEEEEEecCeEEEEEEeccccccccc--------cccchhhcccccc-c----
Confidence 3578999999999999999765 6899999864 3 799999999999875 5666666544444 1
Q ss_pred CeeeccccccchhhHHHhhcCeEEEE
Q 009294 181 GYSVSGGLHGVGLSVVNALSESLEVT 206 (538)
Q Consensus 181 ~yk~sgG~~GvGls~vnalS~~~~V~ 206 (538)
.+ ..+-+|+|+.+++.+++.+..+
T Consensus 68 ~~--~~~g~GlGL~~~~~~~~~~~g~ 91 (111)
T PF02518_consen 68 ET--SISGHGLGLYIVKQIAERHGGE 91 (111)
T ss_dssp SG--GSSSSSHHHHHHHHHHHHTTEE
T ss_pred cc--ccCCCChHHHHHHHHHHHCCCE
Confidence 12 2233999999999999876554
No 35
>cd00329 TopoII_MutL_Trans MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. The GyrB dimerizes in response to ATP binding, and is homologous to the N-terminal half of eukaryotic Topo II and the ATPase fragment of MutL. Type II DNA topoisomerases catalyze the ATP-dependent transport of one DNA duplex through another, in the process generating transient double strand breaks via covalent attachments to both DNA strands at the 5' positions. Included in this group are proteins similar to human MLH1 and PMS2. MLH1 forms a heterodimer with PMS2 which functions in meiosis and in DNA mismatch
Probab=98.86 E-value=6.4e-09 Score=89.60 Aligned_cols=100 Identities=23% Similarity=0.437 Sum_probs=77.8
Q ss_pred HHHHHHHcCCCCCCCCeeEEEEecceeEEEEEEEeccC--CCCceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHhc
Q 009294 304 EEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSD--AYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKS 381 (538)
Q Consensus 304 ~~yv~~l~~~~~~~~~~i~~~~~~~~i~veval~~s~~--~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~ 381 (538)
++++..+.+.+. ....+.+..+..++.++.++.+... ...+.+++|||++++..||+|..++.+++.+.++
T Consensus 2 ~~~i~~~~g~~~-~~~~~~~~~~~~~~~v~g~l~~~~~~~~~~~~~~~fvN~r~v~~~~~~~~~i~~~~~~~~~------ 74 (107)
T cd00329 2 KDRLAEILGDKV-ADKLIYVEGESDGFRVEGAISYPDSGRSSKDRQFSFVNGRPVREGGTHVKAVREAYTRALN------ 74 (107)
T ss_pred HhHHHHHhCHHh-HhhcEEEeccCCCEEEEEEEeCCccCcccCCcEEEEEcCeEEcCCHHHHHHHHHHHHHHhc------
Confidence 456666666432 2345566656667889988888732 2467899999999998899999999999888775
Q ss_pred CCCCCcCCCCCHHhHhccceEEEEEeecC--CCCC-Ccccccc
Q 009294 382 KTVKDKDISLSGEHVREGLTCIISVRVPN--PEFE-GQTKTRL 421 (538)
Q Consensus 382 ~~~k~~~~~l~~~dIregL~~~vsvki~n--P~Fe-gQTKekL 421 (538)
++++.+...++|++++++ |.|. +|||+++
T Consensus 75 -----------~~~~~~~p~~vl~i~~~~~~~d~nv~p~K~~v 106 (107)
T cd00329 75 -----------GDDVRRYPVAVLSLKIPPSLVDVNVHPTKEEV 106 (107)
T ss_pred -----------ccCCCCCCEEEEEEEeChHHeeeCCCCCcccc
Confidence 345677889999999999 9999 9999976
No 36
>PRK14083 HSP90 family protein; Provisional
Probab=98.76 E-value=5.4e-07 Score=100.86 Aligned_cols=159 Identities=21% Similarity=0.274 Sum_probs=100.8
Q ss_pred hhHHHHHHHHhhHhhhcc-C-----CCCeEEEEE-ec-CCeEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCC
Q 009294 107 LHHLVYEILDNAVDEAQA-G-----YASNIEVAL-LA-DNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGS 178 (538)
Q Consensus 107 L~~lv~EivdNAiDe~~~-g-----~~~~I~V~i-~~-dg~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~ 178 (538)
....+.|+|.||.|+... . ....|.|++ +. ...++|.|||.||+.+. ++-.|+.+-.+++-+..
T Consensus 24 ~~iflrELiqNA~DA~~~~~~~~~~~~~~I~I~~~d~~~~~l~I~DnGiGmt~ee--------l~~~l~~ig~S~k~~~~ 95 (601)
T PRK14083 24 PRVYVRELLQNAVDAITARRALDPTAPGRIRIELTDAGGGTLIVEDNGIGLTEEE--------VHEFLATIGRSSKRDEN 95 (601)
T ss_pred cHHHHHHHHHhHHHHHHhhhccCCCCCceEEEEEccCCCcEEEEEeCCCCCCHHH--------HHHHHhhhccchhhhhh
Confidence 467899999999999753 1 234789988 54 45899999999999876 33355555556553320
Q ss_pred -CCCeeeccccccchhhHHHhhcCeEEEEEEeC--CEEEEEEEe-CCcccccceeeecCCCCCCCCCcEEEEEe--Cccc
Q 009294 179 -SSGYSVSGGLHGVGLSVVNALSESLEVTVWRD--GMEYHQKYS-RGKPVTTLTCHVLPVDSKDRQGTRIRFWP--DKQV 252 (538)
Q Consensus 179 -~~~yk~sgG~~GvGls~vnalS~~~~V~t~~~--g~~y~q~f~-~G~~~~~~~~~~~~~~~~~~~GT~V~F~P--D~~~ 252 (538)
...-..--|..|+|..++=+++..++|+|+.. +..|..+-. +|.. .+.. .+ .....+||+|+... |..-
T Consensus 96 ~~~~~~~~IG~FGIGf~S~F~vad~v~V~Tr~~~~~~~~~W~~~~~g~y--~i~~--~~-~~~~~~GT~I~L~l~~d~~~ 170 (601)
T PRK14083 96 LGFARNDFLGQFGIGLLSCFLVADEIVVVSRSAKDGPAVEWRGKADGTY--SVRK--LE-TERAEPGTTVYLRPRPDAEE 170 (601)
T ss_pred hcccccccccccccceEEEEEecCEEEEEeccCCCCceEEEEECCCCce--EEEe--CC-CCCCCCCCEEEEEecCchhh
Confidence 00012245999999999999999999999865 333333222 2322 1221 11 23457999999885 3333
Q ss_pred cccccccCHHHHHHHHHHHHhhCCCcEEEEee
Q 009294 253 FTTAIQFDHNTIAGRIRELAFLNPKLTIALRK 284 (538)
Q Consensus 253 F~~~~~~~~~~i~~rl~elA~lnpgl~i~l~d 284 (538)
| ++.+.|.+.++.++-.- ..-|++++
T Consensus 171 ~-----~~~~~i~~li~~ys~~i-~~pI~l~~ 196 (601)
T PRK14083 171 W-----LERETVEELAKKYGSLL-PVPIRVEG 196 (601)
T ss_pred h-----ccHHHHHHHHHHHhccC-CCCcccCC
Confidence 3 45566777777666332 24566655
No 37
>COG0326 HtpG Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=98.52 E-value=4.4e-06 Score=92.37 Aligned_cols=249 Identities=19% Similarity=0.266 Sum_probs=134.5
Q ss_pred HHHHHHhhHhhhcc-------C-------CCCeEEEEEecC-CeEEEEECCCCccCCccCCC----CcchHHHhhhhccc
Q 009294 111 VYEILDNAVDEAQA-------G-------YASNIEVALLAD-NSVSVADNGRGIPIDLHPAT----NKSALETVLTVLHA 171 (538)
Q Consensus 111 v~EivdNAiDe~~~-------g-------~~~~I~V~i~~d-g~isV~DnGrGIP~~~h~~~----g~~~~e~v~t~lha 171 (538)
++|+|-||.|++.. + .-.+|.|.++.+ ..++|.|||.||.-++.... .++.-.-.+..++.
T Consensus 32 LRELISNAsDAidKlr~~al~~~~~~~~~~~~~I~i~~Dk~~kTLtI~DNGIGMT~~Ev~~~LgTIAkSgT~~F~~~l~~ 111 (623)
T COG0326 32 LRELISNASDAIDKLRFEALSDPELGEGDSDLRIRISFDKDNKTLTISDNGIGMTKDEVIENLGTIAKSGTKEFLESLSE 111 (623)
T ss_pred HHHHHhhhHHHHHHHHHHhccCccccCCCCCceEEEEEcccCCEEEEEeCCCCCCHHHHHHHHHHhhhccHHHHHHHhcc
Confidence 69999999999853 1 134688888866 58999999999998763110 11111112222222
Q ss_pred CCCCCCCCCCeeeccccccchhhHHHhhcCeEEEEEEeCC--EEEEEEEe-CCcccccceeeecCCCCCCC-CCcEEEEE
Q 009294 172 GGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDG--MEYHQKYS-RGKPVTTLTCHVLPVDSKDR-QGTRIRFW 247 (538)
Q Consensus 172 gskf~~~~~~yk~sgG~~GvGls~vnalS~~~~V~t~~~g--~~y~q~f~-~G~~~~~~~~~~~~~~~~~~-~GT~V~F~ 247 (538)
+. .+ ..--|+.|||.-++=++|.+.+|.|+..| ..| .|+ .|...-.+..+ ...+ +||+|+..
T Consensus 112 ~~--~~-----~~lIGQFGVGFYSaFmVAdkV~V~T~~~~~~~~~--~W~S~g~g~ytv~~~-----~~~~~~GT~I~L~ 177 (623)
T COG0326 112 DQ--KD-----SDLIGQFGVGFYSAFMVADKVTVITRSAGEDEAY--HWESDGEGEYTVEDI-----DKEPRRGTEITLH 177 (623)
T ss_pred cc--cc-----ccccccccchhhheeeeeeeEEEEeccCCCCcce--EEEEcCCCceEEeec-----cCCCCCCcEEEEE
Confidence 21 11 23469999999999999999999998765 445 454 34433233322 2234 59999987
Q ss_pred --eCccccccccccCHHHHHHHHHHHHhhCCCcEEEEeeCCCCCC--------CCceeEEeecc---cHHHHHHHHcCCC
Q 009294 248 --PDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPE--------KNQYNEYFFAG---GLEEYVQWLNTDK 314 (538)
Q Consensus 248 --PD~~~F~~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~~~~~--------~~~~~~f~~~~---Gl~~yv~~l~~~~ 314 (538)
||-.-|.. .-.|.+.+....-.- .+-|++..++...+ +...-.|.-+. --.+|..++..-.
T Consensus 178 Lk~~e~efl~-----~~rl~~ivkkYSd~i-~~PI~~~~~~~~~~~~~~~e~iN~~~alW~r~ksei~~eeY~eFYk~~~ 251 (623)
T COG0326 178 LKEEEDEFLE-----EWRLREIVKKYSDHI-AYPIYIEGEKEKDEEVIEWETINKAKALWTRNKSEITDEEYKEFYKHLA 251 (623)
T ss_pred ECCchHHHhh-----hhHHHHHHHHHhccc-ccceEEeeeccccccchhHHHhccccCcccCChhhCChHHHHHHHHHhh
Confidence 44444532 223444444443111 13355555331100 00111222211 2355666654321
Q ss_pred CCCCCeeEEE-Eecce-eEEEEEEEecc---------CCCCceEEEeeCceeccCC------------------------
Q 009294 315 KPLHDVVGFR-KDVDG-ITIDLALQWCS---------DAYSDTMLGYANSIRTIDG------------------------ 359 (538)
Q Consensus 315 ~~~~~~i~~~-~~~~~-i~veval~~s~---------~~~~~~~~SFVN~I~T~~G------------------------ 359 (538)
-...+|+.+. ...+| .+.. ++-|-+ ..+...+.-|||+++..|.
T Consensus 252 ~d~~~Pl~~~h~~~EG~~ey~-~ll~iP~~aPfdl~~~~~k~glkLYv~rVfI~Dd~~~llP~yl~Fv~GvIDS~DLpLN 330 (623)
T COG0326 252 HDFDDPLLWIHNKVEGRLEYT-ALLFIPSKAPFDLFRRDRKRGLKLYVNRVFIMDDAEDLLPNYLRFVRGVIDSEDLPLN 330 (623)
T ss_pred cccCCCeEEEecccccceEEE-EEEEccCCCCcccccccccCCcEEEEeeeEEeCChhhhhhHHHhhheeeeecCCCCcc
Confidence 1122344332 22333 2222 222211 1223457889999885554
Q ss_pred --------ccchHHHHHHHHHHHHHHHHh
Q 009294 360 --------GTHIEGVKASLTRTLNSLGKK 380 (538)
Q Consensus 360 --------GTHv~g~~~al~k~in~~~kk 380 (538)
-.++..++.+|++.|...+++
T Consensus 331 vSRE~LQ~n~~l~~Irk~l~kkvl~~L~~ 359 (623)
T COG0326 331 VSREILQQNRILAAIRKALTKKVLSMLEK 359 (623)
T ss_pred cCHHHHccCHHHHHHHHHHHHHHHHHHHH
Confidence 678899999999887655544
No 38
>PTZ00272 heat shock protein 83 kDa (Hsp83); Provisional
Probab=98.34 E-value=1.9e-06 Score=97.75 Aligned_cols=146 Identities=23% Similarity=0.369 Sum_probs=90.4
Q ss_pred HHHHHHHhhHhhhcc------------CCCCeEEEEEe--cC-CeEEEEECCCCccCCccCCCCcchHHHhhhhcccCCC
Q 009294 110 LVYEILDNAVDEAQA------------GYASNIEVALL--AD-NSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGK 174 (538)
Q Consensus 110 lv~EivdNAiDe~~~------------g~~~~I~V~i~--~d-g~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagsk 174 (538)
.++|||.||.|++.. +....+.|.|. .+ ..++|.|||.||+.+... +-+.+..+.|++
T Consensus 29 flRELIsNA~DA~~k~r~~~l~~~~~~~~~~~~~I~i~~d~~~~~L~I~DnGiGMt~edl~-------~~LgtIa~SGt~ 101 (701)
T PTZ00272 29 FLRELISNASDACDKIRYQSLTDPSVLGESPRLCIRVVPDKENKTLTVEDNGIGMTKADLV-------NNLGTIARSGTK 101 (701)
T ss_pred hHHHHHhhHHHHHHHHHHHhcCCchhcCCCCceEEEEEEcCCCCEEEEEECCCCCCHHHHH-------HHhhhhhhcchH
Confidence 479999999999742 12234444444 33 479999999999987632 222233333443
Q ss_pred -CC----CCCCCeeeccccccchhhHHHhhcCeEEEEEEeC-CEEEEEEEeCCcccccceeeecCCCCCCCCCcEEEEEe
Q 009294 175 -FG----GSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRD-GMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWP 248 (538)
Q Consensus 175 -f~----~~~~~yk~sgG~~GvGls~vnalS~~~~V~t~~~-g~~y~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~P 248 (538)
|. .. ......|+.|+|.-++=.++...+|+|+.. ...|..+...+..- .+... + .....+||+|+..+
T Consensus 102 ~f~~~~~~~--~~~~~iGqFGvGfyS~Fmvad~V~V~Srs~~~~~~~W~s~~~g~y-~i~~~--~-~~~~~~GT~I~L~L 175 (701)
T PTZ00272 102 AFMEALEAG--GDMSMIGQFGVGFYSAYLVADRVTVTSKNNSDESYVWESSAGGTF-TITST--P-ESDMKRGTRITLHL 175 (701)
T ss_pred HHHHHhhcc--CCccccCCCCcceEEEEEeccEEEEEEecCCCceEEEEECCCCcE-EEEeC--C-CCCCCCCCEEEEEE
Confidence 21 11 113467999999999999999999999754 34565555442211 12111 1 12346999999874
Q ss_pred --CccccccccccCHHHHHHHHHHHHh
Q 009294 249 --DKQVFTTAIQFDHNTIAGRIRELAF 273 (538)
Q Consensus 249 --D~~~F~~~~~~~~~~i~~rl~elA~ 273 (538)
|..-| ++...|.+.++..+-
T Consensus 176 k~d~~ef-----~~~~~i~~li~kYs~ 197 (701)
T PTZ00272 176 KEDQMEY-----LEPRRLKELIKKHSE 197 (701)
T ss_pred CCchHHh-----ccHHHHHHHHHHhcc
Confidence 33334 455678888888773
No 39
>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=98.06 E-value=2.1e-05 Score=64.88 Aligned_cols=78 Identities=29% Similarity=0.483 Sum_probs=53.6
Q ss_pred hhHHHHHHHHhhHhhhccCCCCeEEEEEecCC---eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCCee
Q 009294 107 LHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYS 183 (538)
Q Consensus 107 L~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg---~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~yk 183 (538)
|..++.|+|+||+++... ....|.|.+..++ .|.|.|+|.|++....+ -.+..+ .+. ..+
T Consensus 1 l~~~~~~ll~Na~~~~~~-~~~~v~i~~~~~~~~~~v~i~d~g~g~~~~~~~--------~~~~~~---~~~-----~~~ 63 (103)
T cd00075 1 LQQVLLNLLSNAIKHTPE-GGGRITISVERDGDHLEIRVEDNGPGIPEEDLE--------RIFERF---SDG-----SRS 63 (103)
T ss_pred CHHHHHHHHHHHHHhCcC-CCCeEEEEEEecCCEEEEEEEeCCCCCCHHHHH--------HHhhhh---hcC-----CCC
Confidence 467899999999999754 1356777777543 58999999999876532 122221 111 223
Q ss_pred eccccccchhhHHHhhcC
Q 009294 184 VSGGLHGVGLSVVNALSE 201 (538)
Q Consensus 184 ~sgG~~GvGls~vnalS~ 201 (538)
...+.+|+|+++++.++.
T Consensus 64 ~~~~~~g~gl~~~~~~~~ 81 (103)
T cd00075 64 RKGGGTGLGLSIVKKLVE 81 (103)
T ss_pred CCCCccccCHHHHHHHHH
Confidence 345678999999999987
No 40
>PTZ00130 heat shock protein 90; Provisional
Probab=98.05 E-value=2.5e-05 Score=89.22 Aligned_cols=147 Identities=21% Similarity=0.286 Sum_probs=90.5
Q ss_pred HHHHHHHhhHhhhcc------------C--CCCeEEEEEec-CCeEEEEECCCCccCCccCCCCcchHHHhhhhcccCCC
Q 009294 110 LVYEILDNAVDEAQA------------G--YASNIEVALLA-DNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGK 174 (538)
Q Consensus 110 lv~EivdNAiDe~~~------------g--~~~~I~V~i~~-dg~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagsk 174 (538)
.++|||.||.|+... + ..-.|.|..+. .+.++|.|||.||.-+.. .+-+.|..+.|++
T Consensus 92 FLRELISNAsDAldKlr~~~lt~~~~~~~~~~~~I~I~~D~~~~tLtI~DnGIGMT~eEl-------~~nLgTIA~Sgt~ 164 (814)
T PTZ00130 92 FLRELISNAADALEKIRFLSLSDESVLGEEKKLEIRISANKEKNILSITDTGIGMTKEDL-------INNLGTIAKSGTS 164 (814)
T ss_pred eeehHhhhHHHHHHHHHHHHcCCchhcCCCCCceEEEEECCCCCEEEEEECCCCCCHHHH-------HHHhhhhcccccH
Confidence 358999999999741 1 12256666654 457999999999998763 2222333333322
Q ss_pred -C----CCCCCCeeeccccccchhhHHHhhcCeEEEEEEeCC-EEEEEEEeC-CcccccceeeecCCCCCCCCCcEEEEE
Q 009294 175 -F----GGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDG-MEYHQKYSR-GKPVTTLTCHVLPVDSKDRQGTRIRFW 247 (538)
Q Consensus 175 -f----~~~~~~yk~sgG~~GvGls~vnalS~~~~V~t~~~g-~~y~q~f~~-G~~~~~~~~~~~~~~~~~~~GT~V~F~ 247 (538)
| ... ..-..--|+.|||.-++=+++...+|+|+..+ ..|..+-.. |.. .+.. .+......+||+|+..
T Consensus 165 ~F~~~l~~~-~~~~~lIGQFGVGFYSaFmVAdkV~V~Trs~~~~~~~W~s~g~g~y--~I~e--~~~~~~~~rGT~I~Lh 239 (814)
T PTZ00130 165 NFLEAISKS-GGDMSLIGQFGVGFYSAFLVADKVIVYTKNNNDEQYIWESTADAKF--TIYK--DPRGSTLKRGTRISLH 239 (814)
T ss_pred HHHHHhhcc-CCCcccccccccchhheeeecCEEEEEEcCCCCceEEEEECCCCcE--EEEE--CCCCCCCCCCcEEEEE
Confidence 3 110 01123579999999999999999999998643 445544332 222 1211 1112234699999988
Q ss_pred eC--ccccccccccCHHHHHHHHHHHHh
Q 009294 248 PD--KQVFTTAIQFDHNTIAGRIRELAF 273 (538)
Q Consensus 248 PD--~~~F~~~~~~~~~~i~~rl~elA~ 273 (538)
+. ..-| ++...|.+.++..+-
T Consensus 240 Lked~~ef-----l~~~~ik~likkYS~ 262 (814)
T PTZ00130 240 LKEDATNL-----MNDKKLVDLISKYSQ 262 (814)
T ss_pred ECCchhhh-----ccHHHHHHHHHHhhc
Confidence 53 3333 456678888888773
No 41
>smart00387 HATPase_c Histidine kinase-like ATPases. Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Probab=97.60 E-value=0.00024 Score=59.48 Aligned_cols=83 Identities=33% Similarity=0.464 Sum_probs=56.3
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEecC-C--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCC
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~d-g--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~ 181 (538)
.-|..++.|+++||+++... ...|.|.+..+ + .|.|.|+|.||+.+. .+-++...+....
T Consensus 4 ~~l~~~~~~l~~n~~~~~~~--~~~v~i~~~~~~~~~~i~i~d~g~g~~~~~--------~~~~~~~~~~~~~------- 66 (111)
T smart00387 4 DRLRQVLSNLLDNAIKYTPE--GGRITVTLERDGDHLEITVEDNGPGIPPED--------LEKIFEPFFRTDG------- 66 (111)
T ss_pred HHHHHHHHHHHHHHHhcCCC--CCeEEEEEEEcCCEEEEEEEeCCCCCCHHH--------HHHHhcCeEECCC-------
Confidence 34788999999999998744 24677777743 3 689999999998654 2223433222111
Q ss_pred eeeccccccchhhHHHhhcCeEE
Q 009294 182 YSVSGGLHGVGLSVVNALSESLE 204 (538)
Q Consensus 182 yk~sgG~~GvGls~vnalS~~~~ 204 (538)
.....+.+|+|+++++.++..+.
T Consensus 67 ~~~~~~~~g~gl~~~~~~~~~~~ 89 (111)
T smart00387 67 RSRKIGGTGLGLSIVKKLVELHG 89 (111)
T ss_pred CCCCCCcccccHHHHHHHHHHcC
Confidence 12334558999999999987663
No 42
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=97.55 E-value=0.00012 Score=79.68 Aligned_cols=78 Identities=32% Similarity=0.518 Sum_probs=59.4
Q ss_pred chhHHHHHHHHhhHhhhccCC-CCeEEEEEecCC---eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCC
Q 009294 106 GLHHLVYEILDNAVDEAQAGY-ASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (538)
Q Consensus 106 gL~~lv~EivdNAiDe~~~g~-~~~I~V~i~~dg---~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~ 181 (538)
-+..++--|||||+|+..++. -..|.+.|..+| .|+|.|||+|||.+. .+.+|.+ .
T Consensus 427 ~litIlGNLidNA~eA~~~~~~~k~I~l~i~~~~~~lvieV~D~G~GI~~~~--------~~~iFe~------------G 486 (537)
T COG3290 427 DLVTILGNLIDNALEALLAPEENKEIELSLSDRGDELVIEVADTGPGIPPEV--------RDKIFEK------------G 486 (537)
T ss_pred HHHHHHHHHHHHHHHHhhccCCCcEEEEEEEecCCEEEEEEeCCCCCCChHH--------HHHHHhc------------C
Confidence 466788999999999998543 478999999655 599999999999886 3345554 3
Q ss_pred eeecc-ccccchhhHHHhhcCeE
Q 009294 182 YSVSG-GLHGVGLSVVNALSESL 203 (538)
Q Consensus 182 yk~sg-G~~GvGls~vnalS~~~ 203 (538)
|.+-+ +-||+|+.+|-.+-+++
T Consensus 487 ~Stk~~~~rGiGL~Lvkq~V~~~ 509 (537)
T COG3290 487 VSTKNTGGRGIGLYLVKQLVERL 509 (537)
T ss_pred ccccCCCCCchhHHHHHHHHHHc
Confidence 33333 67999999999886544
No 43
>PF13581 HATPase_c_2: Histidine kinase-like ATPase domain
Probab=97.49 E-value=0.00069 Score=60.11 Aligned_cols=89 Identities=27% Similarity=0.307 Sum_probs=61.1
Q ss_pred chhHHHHHHHHhhHhhhccCC-CCeEEEEEec--CC-eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCC
Q 009294 106 GLHHLVYEILDNAVDEAQAGY-ASNIEVALLA--DN-SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (538)
Q Consensus 106 gL~~lv~EivdNAiDe~~~g~-~~~I~V~i~~--dg-~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~ 181 (538)
-+.-++.|++.||+.++..+. ...|.|.+.. ++ .|+|+|+|.|+|....+..... ..
T Consensus 31 ~~~lav~E~~~Nav~H~~~~~~~~~v~v~~~~~~~~l~i~v~D~G~~~d~~~~~~~~~~------------~~------- 91 (125)
T PF13581_consen 31 DLELAVSEALTNAVEHGYPGDPDGPVDVRLEVDPDRLRISVRDNGPGFDPEQLPQPDPW------------EP------- 91 (125)
T ss_pred HHHHHHHHHHHHHHHHcCCCCCCcEEEEEEEEcCCEEEEEEEECCCCCChhhccCcccc------------cC-------
Confidence 456789999999999987653 3567777664 33 6999999999887754321110 00
Q ss_pred eeeccccccchhhHHHhhcCeEEEEEEeCCEEEEE
Q 009294 182 YSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQ 216 (538)
Q Consensus 182 yk~sgG~~GvGls~vnalS~~~~V~t~~~g~~y~q 216 (538)
......|.|+.++..++..+.+ ...+|+..++
T Consensus 92 --~~~~~~G~Gl~li~~l~D~~~~-~~~~gn~v~l 123 (125)
T PF13581_consen 92 --DSLREGGRGLFLIRSLMDEVDY-REDGGNTVTL 123 (125)
T ss_pred --CCCCCCCcCHHHHHHHHcEEEE-ECCCeEEEEE
Confidence 1234479999999999999988 3334444444
No 44
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=97.41 E-value=0.00047 Score=75.70 Aligned_cols=76 Identities=25% Similarity=0.383 Sum_probs=54.4
Q ss_pred chhHHHHHHHHhhHhhhccCCCCeEEEEEecC-C--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCCe
Q 009294 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 182 (538)
Q Consensus 106 gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~d-g--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~y 182 (538)
-|..++.++++||+++........|.|.+..+ + .|+|.|||.|||.+. .+-+|.... ++
T Consensus 433 ~l~~vl~nLl~NAi~~~~~~~~~~I~i~~~~~~~~~~i~V~D~G~gi~~~~--------~~~iF~~~~-~~--------- 494 (542)
T PRK11086 433 ELITILGNLIENALEAVGGEEGGEISVSLHYRNGWLHCEVSDDGPGIAPDE--------IDAIFDKGY-ST--------- 494 (542)
T ss_pred HHHHHHHHHHHHHHHHhhcCCCcEEEEEEEEcCCEEEEEEEECCCCCCHHH--------HHHHHhCCC-cc---------
Confidence 47789999999999986544456788888743 3 589999999999875 344665421 11
Q ss_pred eeccccccchhhHHHhhcC
Q 009294 183 SVSGGLHGVGLSVVNALSE 201 (538)
Q Consensus 183 k~sgG~~GvGls~vnalS~ 201 (538)
.++-+|+|++++.-+.+
T Consensus 495 --~~~g~GlGL~iv~~iv~ 511 (542)
T PRK11086 495 --KGSNRGVGLYLVKQSVE 511 (542)
T ss_pred --CCCCCcCcHHHHHHHHH
Confidence 12237999999888754
No 45
>TIGR02938 nifL_nitrog nitrogen fixation negative regulator NifL. NifL is a modulator of the nitrogen fixation positive regulator protein NifA, and is therefore a negative regulator. It binds NifA. NifA and NifL are encoded by adjacent genes.
Probab=97.38 E-value=0.00066 Score=72.84 Aligned_cols=79 Identities=28% Similarity=0.419 Sum_probs=54.0
Q ss_pred chhHHHHHHHHhhHhhhccCC--CCeEEEEEec-CC--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCC
Q 009294 106 GLHHLVYEILDNAVDEAQAGY--ASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 180 (538)
Q Consensus 106 gL~~lv~EivdNAiDe~~~g~--~~~I~V~i~~-dg--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~ 180 (538)
-|..++.++|.||+++...+. ...|.|.+.. ++ .++|.|||.|||.+.. +-+|....+ +|-.
T Consensus 387 ~l~~vl~Nl~~NAik~~~~~~~~~~~i~i~~~~~~~~~~~~V~D~G~Gi~~~~~--------~~iF~~f~~-~~~~---- 453 (494)
T TIGR02938 387 QLRSLFKALVDNAIEAMNIKGWKRRELSITTALNGDLIVVSILDSGPGIPQDLR--------YKVFEPFFT-TKGG---- 453 (494)
T ss_pred HHHHHHHHHHHHHHHHhhccCCCcceEEEEEEecCCEEEEEEEeCCCCCCHHHH--------HHhcCCCcc-cCCC----
Confidence 378999999999999975542 3457776663 33 6999999999998763 335554322 2110
Q ss_pred CeeeccccccchhhHHHhhcC
Q 009294 181 GYSVSGGLHGVGLSVVNALSE 201 (538)
Q Consensus 181 ~yk~sgG~~GvGls~vnalS~ 201 (538)
. ..| .|+||++|.-+.+
T Consensus 454 ~---~~G-~GlGL~i~~~iv~ 470 (494)
T TIGR02938 454 S---RKH-IGMGLSVAQEIVA 470 (494)
T ss_pred C---CCC-CcccHHHHHHHHH
Confidence 0 123 7999999998854
No 46
>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=97.38 E-value=0.0013 Score=59.37 Aligned_cols=82 Identities=18% Similarity=0.249 Sum_probs=52.5
Q ss_pred CchhHHHHHHHHhhHhhhcc-CCCCeEEEEEecC-C--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCC
Q 009294 105 RGLHHLVYEILDNAVDEAQA-GYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 180 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~-g~~~~I~V~i~~d-g--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~ 180 (538)
..+..++.|++.||+.++.. .....|.|.+..+ + .++|.|||.|||.. +-+|.....+ .
T Consensus 38 ~~l~~~l~eli~Nai~h~~~~~~~~~I~v~~~~~~~~~~i~I~D~G~gi~~~----------~~~~~~~~~~-----~-- 100 (137)
T TIGR01925 38 TDIKTAVSEAVTNAIIHGYEENCEGVVYISATIEDHEVYITVRDEGIGIENL----------EEAREPLYTS-----K-- 100 (137)
T ss_pred HHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEeCCEEEEEEEEcCCCcCch----------hHhhCCCccc-----C--
Confidence 46788999999999987543 2245788888743 3 58999999999831 1122221111 0
Q ss_pred CeeeccccccchhhHHHhhcCeEEEE
Q 009294 181 GYSVSGGLHGVGLSVVNALSESLEVT 206 (538)
Q Consensus 181 ~yk~sgG~~GvGls~vnalS~~~~V~ 206 (538)
-..+-.|.|+.++..+...+.++
T Consensus 101 ---~~~~~~GlGL~lv~~~~~~l~~~ 123 (137)
T TIGR01925 101 ---PELERSGMGFTVMENFMDDVSVD 123 (137)
T ss_pred ---CCCCCCcccHHHHHHhCCcEEEE
Confidence 01234799999998876544443
No 47
>PRK04069 serine-protein kinase RsbW; Provisional
Probab=97.35 E-value=0.00092 Score=62.74 Aligned_cols=92 Identities=22% Similarity=0.214 Sum_probs=58.9
Q ss_pred CchhHHHHHHHHhhHhhhccCC-CCeEEEEEec-CC--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCC
Q 009294 105 RGLHHLVYEILDNAVDEAQAGY-ASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 180 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~-~~~I~V~i~~-dg--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~ 180 (538)
..+.-++.|++.||+.++..+. ...|.|.+.. ++ .|.|+|+|.||+.+..+. .+.. +...+.
T Consensus 41 ~~l~lav~Ea~~Nai~Hg~~~~~~~~I~I~~~~~~~~l~i~V~D~G~g~d~~~~~~--------~~~p-~~~~~~----- 106 (161)
T PRK04069 41 EDMKIAVSEACTNAVQHAYKEDEVGEIHIRFEIYEDRLEIVVADNGVSFDYETLKS--------KLGP-YDISKP----- 106 (161)
T ss_pred HHHHHHHHHHHHHHHHhccCCCCCCeEEEEEEEECCEEEEEEEECCcCCChHHhcc--------ccCC-CCCCCc-----
Confidence 4567799999999999987543 4567777763 33 699999999998654321 1110 111110
Q ss_pred CeeeccccccchhhHHHhhcCeEEEEEEeCCEE
Q 009294 181 GYSVSGGLHGVGLSVVNALSESLEVTVWRDGME 213 (538)
Q Consensus 181 ~yk~sgG~~GvGls~vnalS~~~~V~t~~~g~~ 213 (538)
. ....-.|.|+.++..++..+.+.. .+|..
T Consensus 107 ~--~~~~~~G~GL~li~~l~d~v~~~~-~~G~~ 136 (161)
T PRK04069 107 I--EDLREGGLGLFLIETLMDDVTVYK-DSGVT 136 (161)
T ss_pred c--cccCCCceeHHHHHHHHHhEEEEc-CCCcE
Confidence 0 011125899999999999877764 34543
No 48
>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=97.30 E-value=0.00074 Score=72.27 Aligned_cols=81 Identities=22% Similarity=0.352 Sum_probs=52.9
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEecCC---eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCC
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg---~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~ 181 (538)
.-|..++.++|+||+++... ...|.|.+..++ .|+|.|||.|||.+. .+-+|...+.+.+=..
T Consensus 352 ~~l~~~~~nll~Nai~~~~~--~~~I~i~~~~~~~~~~i~v~D~G~g~~~~~--------~~~~~~~~~~~~~~~~---- 417 (457)
T TIGR01386 352 QMFRRAISNLLSNALRHTPD--GGTITVRIERRSDEVRVSVSNPGPGIPPEH--------LSRLFDRFYRVDPARS---- 417 (457)
T ss_pred HHHHHHHHHHHHHHHHcCCC--CceEEEEEEecCCEEEEEEEeCCCCCCHHH--------HHHhccccccCCcccC----
Confidence 34677888888888887533 347888888654 699999999999775 2334554332211000
Q ss_pred eeeccccccchhhHHHhhcC
Q 009294 182 YSVSGGLHGVGLSVVNALSE 201 (538)
Q Consensus 182 yk~sgG~~GvGls~vnalS~ 201 (538)
... +-+|+|++.+.-+.+
T Consensus 418 -~~~-~g~GlGL~i~~~~~~ 435 (457)
T TIGR01386 418 -NSG-EGTGLGLAIVRSIME 435 (457)
T ss_pred -CCC-CCccccHHHHHHHHH
Confidence 112 238999999887754
No 49
>PRK10604 sensor protein RstB; Provisional
Probab=97.28 E-value=0.0006 Score=73.65 Aligned_cols=80 Identities=33% Similarity=0.504 Sum_probs=52.6
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEecC-C--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCC
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~d-g--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~ 181 (538)
.-+..++..+|+||+.+. ...|.|.+..+ + .|+|+|||.|||.+. .+-+|.....+.+ . .
T Consensus 318 ~~l~~vl~NLl~NAik~~----~~~I~I~~~~~~~~~~I~V~D~G~Gi~~e~--------~~~if~~f~r~~~---~--~ 380 (433)
T PRK10604 318 RLMERVLDNLLNNALRYA----HSRVRVSLLLDGNQACLIVEDDGPGIPPEE--------RERVFEPFVRLDP---S--R 380 (433)
T ss_pred HHHHHHHHHHHHHHHHhC----CCeEEEEEEEECCEEEEEEEEcCCCCCHHH--------HhhcCCCCccCCC---C--C
Confidence 457788899999998875 35677777643 2 599999999999875 3345554322111 0 1
Q ss_pred eeeccccccchhhHHHhhcCe
Q 009294 182 YSVSGGLHGVGLSVVNALSES 202 (538)
Q Consensus 182 yk~sgG~~GvGls~vnalS~~ 202 (538)
.+.++| +|+|++.+.-+.++
T Consensus 381 ~~~~~g-~GLGL~ivk~i~~~ 400 (433)
T PRK10604 381 DRATGG-CGLGLAIVHSIALA 400 (433)
T ss_pred CCCCCC-ccchHHHHHHHHHH
Confidence 112334 79999998877654
No 50
>COG3920 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=97.26 E-value=0.0021 Score=63.71 Aligned_cols=94 Identities=27% Similarity=0.432 Sum_probs=64.4
Q ss_pred CCeeeccCCCCchhHHHHHHHHhhHhhhcc-CCCCeEEEEEe--cCC---eEEEEECCCCccCCccCCCCcchHHHhhhh
Q 009294 95 PAMYIGSTGPRGLHHLVYEILDNAVDEAQA-GYASNIEVALL--ADN---SVSVADNGRGIPIDLHPATNKSALETVLTV 168 (538)
Q Consensus 95 P~mYIGs~~~~gL~~lv~EivdNAiDe~~~-g~~~~I~V~i~--~dg---~isV~DnGrGIP~~~h~~~g~~~~e~v~t~ 168 (538)
|..+++......|.-+|.|++.||+-++-- +....|.|++. .++ ...|||||.|+|++.-.
T Consensus 111 ~~~~l~~d~A~~Lgliv~EL~tNa~Khaf~~~~~G~I~I~~~~~~~~~~~~l~v~deg~G~~~~~~~------------- 177 (221)
T COG3920 111 PNVFLDPDTAVPLGLIVHELVTNALKHAFLSRPGGEIRITLSREGDGGRFLLTVWDEGGGPPVEAPL------------- 177 (221)
T ss_pred CceEECchhhHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEEEEcCCCCeEEEEEEECCCCCCCCCCC-------------
Confidence 345555555578889999999999999864 35667888877 344 58999999999987510
Q ss_pred cccCCCCCCCCCCeeeccccccchhhHHHhhc-CeEE--EEEE-eCCEEEEEEEe
Q 009294 169 LHAGGKFGGSSSGYSVSGGLHGVGLSVVNALS-ESLE--VTVW-RDGMEYHQKYS 219 (538)
Q Consensus 169 lhagskf~~~~~~yk~sgG~~GvGls~vnalS-~~~~--V~t~-~~g~~y~q~f~ 219 (538)
...|+|+.+++.+. +.+. ++.+ .+|-.|.++|.
T Consensus 178 ------------------~~~g~G~~Lv~~lv~~q~~g~~~~~~~~Gt~~~i~~~ 214 (221)
T COG3920 178 ------------------SRGGFGLQLVERLVPEQLGGELEDERPDGTEFRLRFP 214 (221)
T ss_pred ------------------CCCCcHHHHHHHHHHHHcCCeEEEEcCCCEEEEEEEe
Confidence 13588999999986 3332 2222 23555555554
No 51
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=97.21 E-value=0.0013 Score=72.70 Aligned_cols=80 Identities=24% Similarity=0.397 Sum_probs=55.9
Q ss_pred CchhHHHHHHHHhhHhhhccC--CCCeEEEEEecC-C--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCC
Q 009294 105 RGLHHLVYEILDNAVDEAQAG--YASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSS 179 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g--~~~~I~V~i~~d-g--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~ 179 (538)
..|+.++.++|+||+++.... ....|.|.+..+ + .|+|.|||.|||.+. .+-+|...+++ +
T Consensus 431 ~~l~~vl~nLl~NAi~~~~~~~~~~~~i~i~~~~~~~~~~i~V~D~G~Gi~~~~--------~~~iF~~~~~t-k----- 496 (545)
T PRK15053 431 TEFAAIVGNLLDNAFEASLRSDEGNKIVELFLSDEGDDVVIEVADQGCGVPESL--------RDKIFEQGVST-R----- 496 (545)
T ss_pred HHHHHHHHHHHHHHHHHHhhCCCCCceEEEEEEECCCEEEEEEEeCCCCcCHHH--------HHHHhCCCCCC-C-----
Confidence 458889999999999997532 246788888754 3 599999999999875 33466543321 1
Q ss_pred CCeeeccccccchhhHHHhhcC
Q 009294 180 SGYSVSGGLHGVGLSVVNALSE 201 (538)
Q Consensus 180 ~~yk~sgG~~GvGls~vnalS~ 201 (538)
....|-+|+|++.+.-+.+
T Consensus 497 ---~~~~~g~GlGL~ivk~iv~ 515 (545)
T PRK15053 497 ---ADEPGEHGIGLYLIASYVT 515 (545)
T ss_pred ---CCCCCCceeCHHHHHHHHH
Confidence 0111237999999988754
No 52
>PRK03660 anti-sigma F factor; Provisional
Probab=97.20 E-value=0.0035 Score=57.16 Aligned_cols=83 Identities=18% Similarity=0.268 Sum_probs=52.5
Q ss_pred CchhHHHHHHHHhhHhhhccCCC-CeEEEEEec-CC--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCC
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYA-SNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 180 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~-~~I~V~i~~-dg--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~ 180 (538)
.-+..++.|++.||+.++..+.. ..|.|.+.. ++ .++|.|+|.|||... -++..+..+..
T Consensus 38 ~~l~~~l~eli~Nai~h~~~~~~~~~i~i~~~~~~~~l~i~I~D~G~g~~~~~----------~~~~~~~~~~~------ 101 (146)
T PRK03660 38 TEIKTAVSEAVTNAIIHGYENNPDGVVYIEVEIEEEELEITVRDEGKGIEDIE----------EAMQPLYTTKP------ 101 (146)
T ss_pred HhHHHHHHHHHHHHHHHhcCCCCCCEEEEEEEECCCEEEEEEEEccCCCChHH----------HhhCCCcccCC------
Confidence 34667899999999987654332 568777763 33 589999999998421 12222111100
Q ss_pred CeeeccccccchhhHHHhhcCeEEEEE
Q 009294 181 GYSVSGGLHGVGLSVVNALSESLEVTV 207 (538)
Q Consensus 181 ~yk~sgG~~GvGls~vnalS~~~~V~t 207 (538)
..+..|+|+.++..+...+.++.
T Consensus 102 ----~~~~~GlGL~i~~~~~~~i~~~~ 124 (146)
T PRK03660 102 ----ELERSGMGFTVMESFMDEVEVES 124 (146)
T ss_pred ----CCCCccccHHHHHHhCCeEEEEe
Confidence 11236999999988876555443
No 53
>PRK09303 adaptive-response sensory kinase; Validated
Probab=97.17 E-value=0.0011 Score=70.68 Aligned_cols=79 Identities=27% Similarity=0.466 Sum_probs=52.0
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEe--cCC--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCC
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALL--ADN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 180 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~--~dg--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~ 180 (538)
.-|..++..+|+||+.+...| ..|.|.+. .++ .|+|.|||.|||.+. .+-+|........ +.
T Consensus 271 ~~l~qvl~NLl~NAik~~~~~--~~I~i~~~~~~~~~v~i~V~D~G~GI~~~~--------~~~iF~pf~~~~~-~~--- 336 (380)
T PRK09303 271 ERIRQVLLNLLDNAIKYTPEG--GTITLSMLHRTTQKVQVSICDTGPGIPEEE--------QERIFEDRVRLPR-DE--- 336 (380)
T ss_pred HHHHHHHHHHHHHHHhcCCCC--ceEEEEEEecCCCEEEEEEEEcCCCCCHHH--------HHHHccCceeCCC-CC---
Confidence 457889999999999886443 36777653 233 589999999999875 3445554322211 11
Q ss_pred CeeeccccccchhhHHHhhcC
Q 009294 181 GYSVSGGLHGVGLSVVNALSE 201 (538)
Q Consensus 181 ~yk~sgG~~GvGls~vnalS~ 201 (538)
..+| .|+|++++.-+.+
T Consensus 337 ---~~~G-~GLGL~i~~~iv~ 353 (380)
T PRK09303 337 ---GTEG-YGIGLSVCRRIVR 353 (380)
T ss_pred ---CCCc-ccccHHHHHHHHH
Confidence 1223 7999999888754
No 54
>PRK10364 sensor protein ZraS; Provisional
Probab=97.10 E-value=0.0014 Score=70.98 Aligned_cols=76 Identities=30% Similarity=0.494 Sum_probs=53.2
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEecCC---eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCC
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg---~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~ 181 (538)
.-|..++..+|+||+++... ...|.|.+..++ .|+|.|||+|||.+. .+-+|..... +|
T Consensus 347 ~~l~~il~NLl~NA~k~~~~--~~~I~i~~~~~~~~~~i~V~D~G~Gi~~~~--------~~~if~~~~~-~k------- 408 (457)
T PRK10364 347 DRLTQVLLNLYLNAIQAIGQ--HGVISVTASESGAGVKISVTDSGKGIAADQ--------LEAIFTPYFT-TK------- 408 (457)
T ss_pred HHHHHHHHHHHHHHHHhcCC--CCeEEEEEEEeCCeEEEEEEECCCCCCHHH--------HHHHhCcccc-CC-------
Confidence 35778889999999998532 457888877433 699999999999875 3445554211 11
Q ss_pred eeeccccccchhhHHHhhcCe
Q 009294 182 YSVSGGLHGVGLSVVNALSES 202 (538)
Q Consensus 182 yk~sgG~~GvGls~vnalS~~ 202 (538)
..| +|+|++++.-+.+.
T Consensus 409 ---~~g-~GlGL~iv~~~v~~ 425 (457)
T PRK10364 409 ---AEG-TGLGLAVVHNIVEQ 425 (457)
T ss_pred ---CCC-CcccHHHHHHHHHH
Confidence 123 79999999888654
No 55
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=97.07 E-value=0.0016 Score=70.03 Aligned_cols=82 Identities=26% Similarity=0.351 Sum_probs=53.6
Q ss_pred CCchhHHHHHHHHhhHhhhccCCCCeEEEEEecC-C--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCC
Q 009294 104 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 180 (538)
Q Consensus 104 ~~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~d-g--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~ 180 (538)
..-|..++..+|+||+++...| ..|.|.+..+ + .|+|.|||.|||.+.. +-+|.......+-..
T Consensus 315 ~~~l~~vl~NLl~NAik~~~~~--~~I~i~~~~~~~~~~i~V~D~G~Gi~~~~~--------~~if~~f~~~~~~~~--- 381 (430)
T PRK11006 315 EDQLRSAISNLVYNAVNHTPEG--THITVRWQRVPQGAEFSVEDNGPGIAPEHI--------PRLTERFYRVDKARS--- 381 (430)
T ss_pred HHHHHHHHHHHHHHHHhcCCCC--CeEEEEEEEcCCEEEEEEEEcCCCCCHHHH--------HHhccCcccccCCCC---
Confidence 3458899999999999986433 4677776643 2 6999999999998763 334444322211100
Q ss_pred CeeeccccccchhhHHHhhcC
Q 009294 181 GYSVSGGLHGVGLSVVNALSE 201 (538)
Q Consensus 181 ~yk~sgG~~GvGls~vnalS~ 201 (538)
...+| .|+|+++|..+.+
T Consensus 382 --~~~~G-~GLGL~ivk~iv~ 399 (430)
T PRK11006 382 --RQTGG-SGLGLAIVKHALS 399 (430)
T ss_pred --CCCCC-CchHHHHHHHHHH
Confidence 11223 7999999887753
No 56
>TIGR01924 rsbW_low_gc serine-protein kinase RsbW. This model describes the anti-sigma B factor also known as serine-protein kinase RsbW. Sigma B controls the general stress regulon in B subtilis and is activated by cell stresses such as stationary phase and heat shock. RsbW binds to sigma B and prevents formation of the transcription complex at the promoter. RsbV (anti-anti-sigma factor) binds to RsbW to inhibit association with sigma B, however RsbW can phosphorylate RsbV, causing disassociation of the RsbV/RsbW complex. Low ATP level or environmental stress causes the dephosphorylation of RsbV.
Probab=96.96 E-value=0.0082 Score=56.28 Aligned_cols=93 Identities=24% Similarity=0.307 Sum_probs=59.3
Q ss_pred chhHHHHHHHHhhHhhhccC-CCCeEEEEEec-CC--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCC
Q 009294 106 GLHHLVYEILDNAVDEAQAG-YASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (538)
Q Consensus 106 gL~~lv~EivdNAiDe~~~g-~~~~I~V~i~~-dg--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~ 181 (538)
.+.-++.|++.||+.++..+ ....|.|++.. ++ .|.|+|+|.|++++..+. .+.. ++...+.
T Consensus 42 ~l~lav~Ea~~Nai~ha~~~~~~~~I~I~~~~~~~~l~i~V~D~G~gfd~~~~~~--------~~~~------~~~~~~~ 107 (159)
T TIGR01924 42 DLKIAVSEACTNAVKHAYKEGENGEIGISFHIYEDRLEIIVSDQGDSFDMDTFKQ--------SLGP------YDGSEPI 107 (159)
T ss_pred HHHHHHHHHHHHHHHhccCCCCCCeEEEEEEEeCCEEEEEEEEcccccCchhhcc--------ccCC------CCCCCCc
Confidence 46668999999999998753 34578887763 33 588999999998765321 1111 1000000
Q ss_pred eeeccccccchhhHHHhhcCeEEEEEEeCCEEEE
Q 009294 182 YSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYH 215 (538)
Q Consensus 182 yk~sgG~~GvGls~vnalS~~~~V~t~~~g~~y~ 215 (538)
- ...-.|.|+.++..++..+.++. .+|....
T Consensus 108 ~--~~~~~G~GL~Li~~L~D~v~~~~-~~G~~l~ 138 (159)
T TIGR01924 108 D--DLREGGLGLFLIETLMDEVEVYE-DSGVTVA 138 (159)
T ss_pred c--cCCCCccCHHHHHHhccEEEEEe-CCCEEEE
Confidence 0 01125899999999999888764 4454433
No 57
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=96.94 E-value=0.0024 Score=70.32 Aligned_cols=49 Identities=22% Similarity=0.382 Sum_probs=40.4
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEecCC---eEEEEECCCCccCCc
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDL 153 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg---~isV~DnGrGIP~~~ 153 (538)
.=|..++--+|.||+|+...-.-.+|.|.+..+| .|+|.|||+|||.+.
T Consensus 496 iRLeQVLvNLl~NALDA~~~~~~~~i~i~~~~~~~~v~l~VrDnGpGi~~e~ 547 (603)
T COG4191 496 IRLEQVLVNLLQNALDAMAGQEDRRLSIRAQREGGQVVLTVRDNGPGIAPEA 547 (603)
T ss_pred hhHHHHHHHHHHHHHHHhcCCCCCeeEEEEEecCCeEEEEEccCCCCCCHHH
Confidence 4588999999999999864434667999988544 699999999999885
No 58
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=96.91 E-value=0.0022 Score=72.91 Aligned_cols=114 Identities=24% Similarity=0.344 Sum_probs=71.4
Q ss_pred cccCCCCCCCCcccceecc--chhhhhhCCCeeeccCC-CCc----------hhHHHHHHHHhhHhhhccCCCCeEEEEE
Q 009294 68 FKENPVSKTYGSEQIQVLE--GLEAVRKRPAMYIGSTG-PRG----------LHHLVYEILDNAVDEAQAGYASNIEVAL 134 (538)
Q Consensus 68 ~~~~~~~~~y~~~~i~~L~--~lE~VrkRP~mYIGs~~-~~g----------L~~lv~EivdNAiDe~~~g~~~~I~V~i 134 (538)
.+....+-+++-..+..+= -+++++||..-|-=.++ +.. +..++.-+||||+-+ ++.+++|.|..
T Consensus 724 i~sG~~~l~~~~~~veEvVg~Al~r~~k~~~~~~i~v~~~~dl~li~~D~~LieQVLiNLleNA~Ky--ap~~s~I~I~~ 801 (890)
T COG2205 724 LQSGGVNLKLDWVLVEEVVGEALQRLRKRFTGHKIVVSVPVDLPLIHVDSPLIEQVLINLLENALKY--APPGSEIRINA 801 (890)
T ss_pred HhcCCcccccchhhHHHHHHHHHHHhhhhcCCceEEEecCCCCceEecCHHHHHHHHHHHHHHHHhh--CCCCCeEEEEE
Confidence 3444444445544444332 26666666544321111 222 234445555555443 36677888887
Q ss_pred ecCC---eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCCeeeccccccchhhHHHhh
Q 009294 135 LADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNAL 199 (538)
Q Consensus 135 ~~dg---~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnal 199 (538)
..++ .++|+|||+|||.+. .|.+|.....++|+++ +.| -|+|+++|-.+
T Consensus 802 ~~~~~~v~~~V~DeGpGIP~~~--------~~~IFD~F~r~~~~~~-------~~G-~GLGLsIc~~i 853 (890)
T COG2205 802 GVERENVVFSVIDEGPGIPEGE--------LERIFDKFYRGNKESA-------TRG-VGLGLAICRGI 853 (890)
T ss_pred EEecceEEEEEEeCCCCCChhH--------HHHhhhhhhcCCCCCC-------CCC-ccccHHHHHHH
Confidence 7543 689999999999887 6779999999999765 233 48899998887
No 59
>PRK11100 sensory histidine kinase CreC; Provisional
Probab=96.90 E-value=0.0044 Score=66.55 Aligned_cols=80 Identities=25% Similarity=0.326 Sum_probs=53.5
Q ss_pred chhHHHHHHHHhhHhhhccCCCCeEEEEEecC-C--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCCe
Q 009294 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 182 (538)
Q Consensus 106 gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~d-g--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~y 182 (538)
-|..++.++|.||+.+.. ....|.|++..+ + .|+|+|||.|||.+. ++-+|.........+
T Consensus 368 ~l~~vl~nli~Na~~~~~--~~~~i~i~~~~~~~~~~i~i~D~G~Gi~~~~--------~~~i~~~~~~~~~~~------ 431 (475)
T PRK11100 368 LLRQALGNLLDNAIDFSP--EGGTITLSAEVDGEQVALSVEDQGPGIPDYA--------LPRIFERFYSLPRPA------ 431 (475)
T ss_pred HHHHHHHHHHHHHHHhCC--CCCEEEEEEEEcCCEEEEEEEECCCCCCHHH--------HHHHHHHHccCCCCC------
Confidence 467888899999988752 235788888743 3 599999999999765 445665533221111
Q ss_pred eeccccccchhhHHHhhcCe
Q 009294 183 SVSGGLHGVGLSVVNALSES 202 (538)
Q Consensus 183 k~sgG~~GvGls~vnalS~~ 202 (538)
...+-.|+|+..+.-+...
T Consensus 432 -~~~~~~GlGL~i~~~~~~~ 450 (475)
T PRK11100 432 -NGRKSTGLGLAFVREVARL 450 (475)
T ss_pred -CCCCCcchhHHHHHHHHHH
Confidence 1123369999999888643
No 60
>PRK10815 sensor protein PhoQ; Provisional
Probab=96.88 E-value=0.0032 Score=69.43 Aligned_cols=75 Identities=27% Similarity=0.449 Sum_probs=49.7
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEec-CC--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCC
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~-dg--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~ 181 (538)
..|..++..+|+||+++. ...|.|.+.. ++ .|+|.|||.|||.+. .+.+|...+.+.
T Consensus 377 ~~l~~vl~NLi~NAik~~----~~~i~I~~~~~~~~v~I~V~D~G~GI~~e~--------~~~iF~~f~~~~-------- 436 (485)
T PRK10815 377 NDFMEVMGNVLDNACKYC----LEFVEISARQTDEHLHIVVEDDGPGIPESK--------RELIFDRGQRAD-------- 436 (485)
T ss_pred HHHHHHHHHHHHHHHHhc----CCcEEEEEEEeCCEEEEEEEECCCCcCHHH--------HHHHhCCcccCC--------
Confidence 346777888888888775 3356676663 33 599999999999875 344665422111
Q ss_pred eeeccccccchhhHHHhhcC
Q 009294 182 YSVSGGLHGVGLSVVNALSE 201 (538)
Q Consensus 182 yk~sgG~~GvGls~vnalS~ 201 (538)
....| +|+|+++|.-+.+
T Consensus 437 -~~~~G-~GLGL~Ivk~iv~ 454 (485)
T PRK10815 437 -TLRPG-QGLGLSVAREITE 454 (485)
T ss_pred -CCCCC-cchhHHHHHHHHH
Confidence 01124 6999999988854
No 61
>PRK09470 cpxA two-component sensor protein; Provisional
Probab=96.87 E-value=0.0045 Score=66.48 Aligned_cols=78 Identities=24% Similarity=0.396 Sum_probs=51.9
Q ss_pred chhHHHHHHHHhhHhhhccCCCCeEEEEEec-CC--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCCe
Q 009294 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 182 (538)
Q Consensus 106 gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~-dg--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~y 182 (538)
-|..++.++|+||+.+. .+.|.|.+.. ++ .++|+|||.|||.+. ++-+|..++.+.+- .
T Consensus 353 ~l~~~l~nli~NA~~~~----~~~i~i~~~~~~~~~~i~V~D~G~Gi~~~~--------~~~if~~~~~~~~~------~ 414 (461)
T PRK09470 353 ALASALENIVRNALRYS----HTKIEVAFSVDKDGLTITVDDDGPGVPEEE--------REQIFRPFYRVDEA------R 414 (461)
T ss_pred HHHHHHHHHHHHHHHhC----CCcEEEEEEEECCEEEEEEEECCCCCCHHH--------HHHhcCCCccCCcc------c
Confidence 47788899999999875 3467777763 33 589999999999875 34456554332221 1
Q ss_pred eeccccccchhhHHHhhcC
Q 009294 183 SVSGGLHGVGLSVVNALSE 201 (538)
Q Consensus 183 k~sgG~~GvGls~vnalS~ 201 (538)
....+-.|+|++.++-+-+
T Consensus 415 ~~~~~g~GlGL~iv~~~v~ 433 (461)
T PRK09470 415 DRESGGTGLGLAIVENAIQ 433 (461)
T ss_pred CCCCCCcchhHHHHHHHHH
Confidence 1122336999999887643
No 62
>PRK10337 sensor protein QseC; Provisional
Probab=96.87 E-value=0.0027 Score=68.32 Aligned_cols=78 Identities=31% Similarity=0.423 Sum_probs=52.2
Q ss_pred chhHHHHHHHHhhHhhhccCCCCeEEEEEecCCeEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCCeeec
Q 009294 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVS 185 (538)
Q Consensus 106 gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~yk~s 185 (538)
-+..++.++|+||+++...+ ..|.|.+..+ .|+|.|||.|||.+. .+-+|...+.+.. ...
T Consensus 352 ~l~~vl~Nli~NA~k~~~~~--~~i~i~~~~~-~i~i~D~G~Gi~~~~--------~~~if~~f~~~~~--------~~~ 412 (449)
T PRK10337 352 LLSLLVRNLLDNAIRYSPQG--SVVDVTLNAR-NFTVRDNGPGVTPEA--------LARIGERFYRPPG--------QEA 412 (449)
T ss_pred HHHHHHHHHHHHHHhhCCCC--CeEEEEEEee-EEEEEECCCCCCHHH--------HHHhcccccCCCC--------CCC
Confidence 45667888888888875332 3577777644 799999999999775 3445554332111 112
Q ss_pred cccccchhhHHHhhcCeE
Q 009294 186 GGLHGVGLSVVNALSESL 203 (538)
Q Consensus 186 gG~~GvGls~vnalS~~~ 203 (538)
.| +|+|++.|..+.+..
T Consensus 413 ~g-~GlGL~iv~~i~~~~ 429 (449)
T PRK10337 413 TG-SGLGLSIVRRIAKLH 429 (449)
T ss_pred Cc-cchHHHHHHHHHHHc
Confidence 23 899999999886543
No 63
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional
Probab=96.87 E-value=0.0034 Score=67.73 Aligned_cols=81 Identities=20% Similarity=0.356 Sum_probs=52.7
Q ss_pred chhHHHHHHHHhhHhhhccCCCCeEEEEEecC-C--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCCe
Q 009294 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 182 (538)
Q Consensus 106 gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~d-g--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~y 182 (538)
-+..++.++|+||+.+...+ ..|.|.+..+ + .|+|.|||.|||.+. .+-+|...+.+.+ . ..
T Consensus 352 ~l~qvl~nll~NAi~~~~~~--~~I~i~~~~~~~~~~i~V~D~G~Gi~~e~--------~~~lf~~~~~~~~---~--~~ 416 (466)
T PRK10549 352 RLMQLFNNLLENSLRYTDSG--GSLHISAEQRDKTLRLTFADSAPGVSDEQ--------LQKLFERFYRTEG---S--RN 416 (466)
T ss_pred HHHHHHHHHHHHHHHhCCCC--CEEEEEEEEcCCEEEEEEEecCCCcCHHH--------HHHhccCcccCCC---C--cC
Confidence 46778888888888875432 4688887743 3 588999999999775 3335554332211 0 11
Q ss_pred eeccccccchhhHHHhhcCe
Q 009294 183 SVSGGLHGVGLSVVNALSES 202 (538)
Q Consensus 183 k~sgG~~GvGls~vnalS~~ 202 (538)
+.+ |-.|+|++++..+.+.
T Consensus 417 ~~~-~g~GlGL~iv~~i~~~ 435 (466)
T PRK10549 417 RAS-GGSGLGLAICLNIVEA 435 (466)
T ss_pred CCC-CCCcHHHHHHHHHHHH
Confidence 222 3369999998887644
No 64
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=96.82 E-value=0.0039 Score=64.59 Aligned_cols=76 Identities=25% Similarity=0.459 Sum_probs=50.1
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEecC-------------CeEEEEECCCCccCCccCCCCcchHHHhhhhccc
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-------------NSVSVADNGRGIPIDLHPATNKSALETVLTVLHA 171 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~d-------------g~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lha 171 (538)
.-|..++..+|+||+++.. .....|.|.+... -.|+|+|||.|||.+.. +-+|...++
T Consensus 236 ~~l~~vl~nLl~NA~~~~~-~~~~~i~i~~~~~~~~~~~~~~~~~~~~i~v~D~G~Gi~~~~~--------~~iF~~~~~ 306 (348)
T PRK11073 236 DQIEQVLLNIVRNALQALG-PEGGTITLRTRTAFQLTLHGERYRLAARIDIEDNGPGIPPHLQ--------DTLFYPMVS 306 (348)
T ss_pred HHHHHHHHHHHHHHHHHhc-cCCCeEEEEEccccccccCCccCCceEEEEEEeCCCCCCHHHH--------hhccCCccc
Confidence 4588999999999999863 2345676665321 04899999999998753 224433211
Q ss_pred CCCCCCCCCCeeeccccccchhhHHHhhcC
Q 009294 172 GGKFGGSSSGYSVSGGLHGVGLSVVNALSE 201 (538)
Q Consensus 172 gskf~~~~~~yk~sgG~~GvGls~vnalS~ 201 (538)
+ ..+-.|+|++++.-+.+
T Consensus 307 ~------------~~~g~GlGL~i~~~iv~ 324 (348)
T PRK11073 307 G------------REGGTGLGLSIARNLID 324 (348)
T ss_pred C------------CCCCccCCHHHHHHHHH
Confidence 1 11227999999888754
No 65
>PRK09835 sensor kinase CusS; Provisional
Probab=96.77 E-value=0.0051 Score=66.53 Aligned_cols=81 Identities=22% Similarity=0.292 Sum_probs=51.8
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEec--CC-eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCC
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLA--DN-SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~--dg-~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~ 181 (538)
.-|..++.++|+||+.+...+ ..|.|.+.. ++ .|+|.|||.|||.+. .+-+|........ . .
T Consensus 374 ~~l~~vl~nll~Na~~~~~~~--~~I~i~~~~~~~~~~i~v~d~G~gi~~~~--------~~~if~~f~~~~~---~--~ 438 (482)
T PRK09835 374 LMLRRAISNLLSNALRYTPAG--EAITVRCQEVDHQVQLVVENPGTPIAPEH--------LPRLFDRFYRVDP---S--R 438 (482)
T ss_pred HHHHHHHHHHHHHHHhcCCCC--CeEEEEEEEeCCEEEEEEEECCCCcCHHH--------HHHHhCCcccCCC---C--C
Confidence 457888899999998876432 357777763 33 599999999999875 3445554322211 0 0
Q ss_pred eeeccccccchhhHHHhhcC
Q 009294 182 YSVSGGLHGVGLSVVNALSE 201 (538)
Q Consensus 182 yk~sgG~~GvGls~vnalS~ 201 (538)
....+-.|+|++.+.-+-+
T Consensus 439 -~~~~~g~GlGL~i~~~i~~ 457 (482)
T PRK09835 439 -QRKGEGSGIGLAIVKSIVV 457 (482)
T ss_pred -CCCCCCcchHHHHHHHHHH
Confidence 1111236999998876643
No 66
>TIGR03785 marine_sort_HK proteobacterial dedicated sortase system histidine kinase. This histidine kinase protein is paired with an adjacent response regulator (TIGR03787) gene. It co-occurs with a variant sortase enzyme (TIGR03784), usually in the same gene neighborhood, in proteobacterial species most of which are marine, and with an LPXTG motif-containing sortase target conserved protein (TIGR03788). Sortases and LPXTG proteins are far more common in Gram-positive bacteria, where sortase systems mediate attachment to the cell wall or cross-linking of pilin structures. We give this predicted sensor histidine kinase the gene symbol psdS, for Proteobacterial Dedicated Sortase system Sensor histidine kinase.
Probab=96.76 E-value=0.0039 Score=71.94 Aligned_cols=82 Identities=21% Similarity=0.331 Sum_probs=55.0
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEecC-C--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCC
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~d-g--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~ 181 (538)
.-|..++..+|+||+++...+ ..|.|.+..+ + .|+|.|||.|||.+. .+-+|....++..-..
T Consensus 596 ~~L~~il~NLI~NAik~s~~~--~~I~I~~~~~~~~v~I~V~D~G~GI~~e~--------~~~IFe~F~t~~~~~~---- 661 (703)
T TIGR03785 596 ELIAQMLDKLVDNAREFSPED--GLIEVGLSQNKSHALLTVSNEGPPLPEDM--------GEQLFDSMVSVRDQGA---- 661 (703)
T ss_pred HHHHHHHHHHHHHHHHHCCCC--CeEEEEEEEcCCEEEEEEEEcCCCCCHHH--------HHHHhCCCeecCCCCC----
Confidence 457788899999999886432 3588887743 3 599999999999876 4456665433221111
Q ss_pred eeeccccccchhhHHHhhcCe
Q 009294 182 YSVSGGLHGVGLSVVNALSES 202 (538)
Q Consensus 182 yk~sgG~~GvGls~vnalS~~ 202 (538)
...+-.|+|+++|.-+.+.
T Consensus 662 --~~~~g~GLGL~Ivr~Iv~~ 680 (703)
T TIGR03785 662 --QDQPHLGLGLYIVRLIADF 680 (703)
T ss_pred --CCCCCccHHHHHHHHHHHH
Confidence 1122379999999888643
No 67
>PRK09467 envZ osmolarity sensor protein; Provisional
Probab=96.75 E-value=0.0054 Score=65.60 Aligned_cols=77 Identities=22% Similarity=0.352 Sum_probs=52.0
Q ss_pred chhHHHHHHHHhhHhhhccCCCCeEEEEEecCC---eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCCe
Q 009294 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 182 (538)
Q Consensus 106 gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg---~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~y 182 (538)
-|..++..+|+||+.++ ...|.|++..++ .|+|.|||.|||.+. .+-+|...+.+.. .
T Consensus 331 ~l~~il~NLl~NA~k~~----~~~i~i~~~~~~~~~~i~V~D~G~Gi~~~~--------~~~~~~~f~~~~~-------~ 391 (435)
T PRK09467 331 AIKRALANLVVNAARYG----NGWIKVSSGTEGKRAWFQVEDDGPGIPPEQ--------LKHLFQPFTRGDS-------A 391 (435)
T ss_pred HHHHHHHHHHHHHHHhC----CCeEEEEEEecCCEEEEEEEecCCCcCHHH--------HHHhcCCcccCCC-------C
Confidence 46778888888888775 467888887543 599999999999775 3445554322111 1
Q ss_pred eeccccccchhhHHHhhcCe
Q 009294 183 SVSGGLHGVGLSVVNALSES 202 (538)
Q Consensus 183 k~sgG~~GvGls~vnalS~~ 202 (538)
+.+ +-+|+|++.|..+.+.
T Consensus 392 ~~~-~g~GlGL~iv~~i~~~ 410 (435)
T PRK09467 392 RGS-SGTGLGLAIVKRIVDQ 410 (435)
T ss_pred CCC-CCeehhHHHHHHHHHH
Confidence 112 2389999999888643
No 68
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=96.59 E-value=0.0056 Score=72.04 Aligned_cols=94 Identities=22% Similarity=0.377 Sum_probs=60.5
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEecC-C--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCC
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~d-g--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~ 181 (538)
.-|..++..+|.||+++...| .|.|.+..+ + .|+|.|||.|||.+. .+-+|..+..+. .
T Consensus 512 ~~l~~il~NLl~NAik~~~~g---~I~i~~~~~~~~~~i~V~D~G~Gi~~~~--------~~~if~~f~~~~---~---- 573 (921)
T PRK15347 512 LRLRQILVNLLGNAVKFTETG---GIRLRVKRHEQQLCFTVEDTGCGIDIQQ--------QQQIFTPFYQAD---T---- 573 (921)
T ss_pred HHHHHHHHHHHHHHhhcCCCC---CEEEEEEEcCCEEEEEEEEcCCCCCHHH--------HHHHhcCcccCC---C----
Confidence 347888999999999886443 588887743 3 599999999999875 344565432211 0
Q ss_pred eeeccccccchhhHHHhhcCeE----EEEEEeC-CEEEEEEEe
Q 009294 182 YSVSGGLHGVGLSVVNALSESL----EVTVWRD-GMEYHQKYS 219 (538)
Q Consensus 182 yk~sgG~~GvGls~vnalS~~~----~V~t~~~-g~~y~q~f~ 219 (538)
..+| .|+|++++.-+.+.+ ++++..+ |..+++.+.
T Consensus 574 --~~~g-~GLGL~i~~~~~~~~gG~i~i~s~~~~Gt~f~i~lp 613 (921)
T PRK15347 574 --HSQG-TGLGLTIASSLAKMMGGELTLFSTPGVGSCFSLVLP 613 (921)
T ss_pred --CCCC-CchHHHHHHHHHHHcCCEEEEEecCCCceEEEEEEE
Confidence 1123 799999999877654 3333322 444555543
No 69
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=96.58 E-value=0.0066 Score=63.33 Aligned_cols=76 Identities=24% Similarity=0.345 Sum_probs=49.6
Q ss_pred chhHHHHHHHHhhHhhhccCCCCeEEEEEecC-C--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCCe
Q 009294 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 182 (538)
Q Consensus 106 gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~d-g--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~y 182 (538)
-+..++..+|+||+.+... ...|.|.+..+ + .|+|+|||.|||.+.. +-+|..... ++.
T Consensus 247 ~l~~il~nLi~NA~k~~~~--~~~I~I~~~~~~~~~~i~V~D~G~Gi~~~~~--------~~if~~f~~---~~~----- 308 (356)
T PRK10755 247 LLRLLLRNLVENAHRYSPE--GSTITIKLSQEDGGAVLAVEDEGPGIDESKC--------GELSKAFVR---MDS----- 308 (356)
T ss_pred HHHHHHHHHHHHHHhhCCC--CCcEEEEEEEcCCEEEEEEEECCCCCCHHHH--------HHhCCCeEe---CCC-----
Confidence 4667888888888887532 35688887643 3 5999999999998752 334443211 110
Q ss_pred eeccccccchhhHHHhhcC
Q 009294 183 SVSGGLHGVGLSVVNALSE 201 (538)
Q Consensus 183 k~sgG~~GvGls~vnalS~ 201 (538)
..+-.|+|++.+.-+..
T Consensus 309 --~~~g~GlGL~i~~~i~~ 325 (356)
T PRK10755 309 --RYGGIGLGLSIVSRITQ 325 (356)
T ss_pred --CCCCcCHHHHHHHHHHH
Confidence 12236899998877754
No 70
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=96.46 E-value=0.0077 Score=66.22 Aligned_cols=74 Identities=28% Similarity=0.448 Sum_probs=49.8
Q ss_pred chhHHHHHHHHhhHhhhccCCCCeEEEEEec--CC--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCC
Q 009294 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLA--DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (538)
Q Consensus 106 gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~--dg--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~ 181 (538)
-|..++.+++.||+.+... ...|.|.+.. ++ .|+|.|||+|||.+. .+.+|....
T Consensus 500 ~l~~~~~nli~na~~~~~~--~~~i~v~~~~~~~~~~~i~v~D~G~G~~~~~--------~~~~f~~~~----------- 558 (607)
T PRK11360 500 LLKQVLLNILINAVQAISA--RGKIRIRTWQYSDGQVAVSIEDNGCGIDPEL--------LKKIFDPFF----------- 558 (607)
T ss_pred HHHHHHHHHHHHHHHHhcC--CCeEEEEEEEcCCCEEEEEEEeCCCCCCHHH--------HhhhcCCce-----------
Confidence 4778888999999987543 3467777752 33 599999999999875 223443321
Q ss_pred eeeccccccchhhHHHhhcC
Q 009294 182 YSVSGGLHGVGLSVVNALSE 201 (538)
Q Consensus 182 yk~sgG~~GvGls~vnalS~ 201 (538)
....+-.|+|+..++-+-+
T Consensus 559 -~~~~~g~glGL~~~~~~~~ 577 (607)
T PRK11360 559 -TTKAKGTGLGLALSQRIIN 577 (607)
T ss_pred -eCCCCCCchhHHHHHHHHH
Confidence 1112237999999888753
No 71
>PRK11644 sensory histidine kinase UhpB; Provisional
Probab=96.41 E-value=0.016 Score=64.21 Aligned_cols=44 Identities=27% Similarity=0.419 Sum_probs=35.0
Q ss_pred chhHHHHHHHHhhHhhhccCCCCeEEEEEecC-C--eEEEEECCCCccCC
Q 009294 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPID 152 (538)
Q Consensus 106 gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~d-g--~isV~DnGrGIP~~ 152 (538)
.+..++.|+++||+.+.. ++.|.|++..+ + .++|.|||.|||.+
T Consensus 410 ~L~ril~nlL~NAiKha~---~~~I~I~l~~~~~~i~l~V~DnG~Gi~~~ 456 (495)
T PRK11644 410 TLFRVCQEGLNNIVKHAD---ASAVTLQGWQQDERLMLVIEDDGSGLPPG 456 (495)
T ss_pred HHHHHHHHHHHHHHHhCC---CCEEEEEEEEcCCEEEEEEEECCCCCCcC
Confidence 467889999999999863 45788887743 3 59999999999965
No 72
>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=96.38 E-value=0.013 Score=59.25 Aligned_cols=81 Identities=22% Similarity=0.271 Sum_probs=52.2
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEec-CC--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCC
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~-dg--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~ 181 (538)
.-|..++.++|.||+++... ...|.|.+.. ++ .++|.|||.|||.+.. +-+|..+....+ .
T Consensus 228 ~~l~~vl~nll~Nai~~~~~--~~~i~i~~~~~~~~~~i~i~d~G~gi~~~~~--------~~if~~~~~~~~------~ 291 (333)
T TIGR02966 228 DELRSAFSNLVSNAIKYTPE--GGTITVRWRRDGGGAEFSVTDTGIGIAPEHL--------PRLTERFYRVDK------S 291 (333)
T ss_pred HHHHHHHHHHHHHhheeCCC--CCeEEEEEEEcCCEEEEEEEecCCCCCHHHH--------hhhccCceecCc------c
Confidence 45778999999999988533 3468887763 23 5999999999998863 334443221111 0
Q ss_pred eeeccccccchhhHHHhhcC
Q 009294 182 YSVSGGLHGVGLSVVNALSE 201 (538)
Q Consensus 182 yk~sgG~~GvGls~vnalS~ 201 (538)
.....+-.|+|++++.-+.+
T Consensus 292 ~~~~~~g~glGL~~~~~~~~ 311 (333)
T TIGR02966 292 RSRDTGGTGLGLAIVKHVLS 311 (333)
T ss_pred cccCCCCCcccHHHHHHHHH
Confidence 01112236999999888753
No 73
>COG0642 BaeS Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=96.36 E-value=0.0062 Score=60.67 Aligned_cols=47 Identities=30% Similarity=0.594 Sum_probs=38.8
Q ss_pred CCchhHHHHHHHHhhHhhhccCCCCeEEEEEecCC---eEEEEECCCCccCCc
Q 009294 104 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDL 153 (538)
Q Consensus 104 ~~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg---~isV~DnGrGIP~~~ 153 (538)
..-+..++..+|.||+++.. ...|.|.+...+ .++|.|||.|||.+.
T Consensus 226 ~~~l~~vl~nLi~NAi~~~~---~~~i~i~~~~~~~~i~i~V~D~G~Gi~~~~ 275 (336)
T COG0642 226 PERLRQVLVNLLSNAIKYTP---GGEITISVRQDDEQVTISVEDTGPGIPEEE 275 (336)
T ss_pred HHHHHHHHHHHHHHHhccCC---CCeEEEEEEecCCeEEEEEEcCCCCCCHHH
Confidence 34577899999999999864 478999988543 699999999999875
No 74
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=96.34 E-value=0.011 Score=69.73 Aligned_cols=94 Identities=21% Similarity=0.346 Sum_probs=60.3
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEecCC---eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCC
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg---~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~ 181 (538)
.-|..++..+|.||+.+... ..|.|.+..++ .|+|.|||+|||.+. .+-+|.......
T Consensus 560 ~~l~qil~NLl~NAik~~~~---g~I~i~~~~~~~~~~i~V~D~G~Gi~~~~--------~~~if~~f~~~~-------- 620 (914)
T PRK11466 560 RRIRQVITNLLSNALRFTDE---GSIVLRSRTDGEQWLVEVEDSGCGIDPAK--------LAEIFQPFVQVS-------- 620 (914)
T ss_pred HHHHHHHHHHHHHHHHhCCC---CeEEEEEEEcCCEEEEEEEECCCCCCHHH--------HHHHhchhhcCC--------
Confidence 45778899999999988643 36888877443 599999999999875 334554322110
Q ss_pred eeeccccccchhhHHHhhcCeE----EEEEEeC-CEEEEEEEe
Q 009294 182 YSVSGGLHGVGLSVVNALSESL----EVTVWRD-GMEYHQKYS 219 (538)
Q Consensus 182 yk~sgG~~GvGls~vnalS~~~----~V~t~~~-g~~y~q~f~ 219 (538)
. ..|-.|+|++++.-+.+.+ ++.+..+ |..+.+.+.
T Consensus 621 -~-~~~g~GLGL~i~~~l~~~~gG~i~v~s~~~~Gt~f~i~lP 661 (914)
T PRK11466 621 -G-KRGGTGLGLTISSRLAQAMGGELSATSTPEVGSCFCLRLP 661 (914)
T ss_pred -C-CCCCCcccHHHHHHHHHHcCCEEEEEecCCCCeEEEEEEE
Confidence 0 1123799999988887654 3333322 445555553
No 75
>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=96.21 E-value=0.0081 Score=68.90 Aligned_cols=76 Identities=16% Similarity=0.332 Sum_probs=51.4
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEec-CC--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCC
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~-dg--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~ 181 (538)
.-+..++.++|+||+++... ...|.|.+.. ++ .|+|.|||+|||.+.. .+-+|.. |...
T Consensus 578 ~~l~~vl~nLl~NAik~~~~--~~~I~I~~~~~~~~~~i~V~D~G~Gi~~~~i-------~~~lF~p------f~~~--- 639 (679)
T TIGR02916 578 ERLERVLGHLVQNALEATPG--EGRVAIRVERECGAARIEIEDSGCGMSPAFI-------RERLFKP------FDTT--- 639 (679)
T ss_pred HHHHHHHHHHHHHHHHhCCC--CCcEEEEEEEcCCEEEEEEEEcCCCcChHHH-------HHhcCCC------CCCC---
Confidence 45888999999999998643 2468888874 33 5999999999997741 1223432 2211
Q ss_pred eeeccccccchhhHHHhhcC
Q 009294 182 YSVSGGLHGVGLSVVNALSE 201 (538)
Q Consensus 182 yk~sgG~~GvGls~vnalS~ 201 (538)
..+-.|+|+..+.-+.+
T Consensus 640 ---~~~G~GLGL~i~~~iv~ 656 (679)
T TIGR02916 640 ---KGAGMGIGVYECRQYVE 656 (679)
T ss_pred ---CCCCcchhHHHHHHHHH
Confidence 11236999999887753
No 76
>COG3850 NarQ Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]
Probab=96.20 E-value=0.0092 Score=65.14 Aligned_cols=47 Identities=38% Similarity=0.542 Sum_probs=39.4
Q ss_pred chhHHHHHHHHhhHhhhccCCCCeEEEEEecC-C--eEEEEECCCCccCCccC
Q 009294 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHP 155 (538)
Q Consensus 106 gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~d-g--~isV~DnGrGIP~~~h~ 155 (538)
-+..|+.|-+-||+-++ .++.|+|++... | .++|+|||+|||...+|
T Consensus 481 HlLqIvREAlsNa~KHa---~As~i~V~~~~~~g~~~~~VeDnG~Gi~~~~e~ 530 (574)
T COG3850 481 HLLQIVREALSNAIKHA---QASEIKVTVSQNDGQVTLTVEDNGVGIDEAAEP 530 (574)
T ss_pred HHHHHHHHHHHHHHHhc---ccCeEEEEEEecCCeEEEEEeeCCcCCCCccCC
Confidence 35678999999999998 588999999953 6 69999999999988544
No 77
>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=95.99 E-value=0.02 Score=67.84 Aligned_cols=82 Identities=22% Similarity=0.399 Sum_probs=56.1
Q ss_pred CCCchhHHHHHHHHhhHhhhccCCCCeEEEEEe--cCC--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCC
Q 009294 103 GPRGLHHLVYEILDNAVDEAQAGYASNIEVALL--ADN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGS 178 (538)
Q Consensus 103 ~~~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~--~dg--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~ 178 (538)
+..-|..++..||.||+.+...| .|.|.+. .++ .|+|.|+|.|||.+. .+-+|.....+. ..
T Consensus 576 d~~~l~~il~nLi~NAik~~~~g---~i~i~~~~~~~~~~~i~V~D~G~Gi~~~~--------~~~if~~f~~~~--~~- 641 (968)
T TIGR02956 576 DGPRIRQVLINLVGNAIKFTDRG---SVVLRVSLNDDSSLLFEVEDTGCGIAEEE--------QATLFDAFTQAD--GR- 641 (968)
T ss_pred CHHHHHHHHHHHHHHHHhhCCCC---eEEEEEEEcCCCeEEEEEEeCCCCCCHHH--------HHHHHhhhhccC--CC-
Confidence 34568899999999999986433 5666665 333 499999999999876 444665533322 11
Q ss_pred CCCeeeccccccchhhHHHhhcCeE
Q 009294 179 SSGYSVSGGLHGVGLSVVNALSESL 203 (538)
Q Consensus 179 ~~~yk~sgG~~GvGls~vnalS~~~ 203 (538)
... |-.|+|+++|.-+.+.+
T Consensus 642 ----~~~-~g~GLGL~i~~~l~~~~ 661 (968)
T TIGR02956 642 ----RRS-GGTGLGLAISQRLVEAM 661 (968)
T ss_pred ----CCC-CCccHHHHHHHHHHHHc
Confidence 111 23799999998887665
No 78
>PRK13837 two-component VirA-like sensor kinase; Provisional
Probab=95.99 E-value=0.015 Score=68.23 Aligned_cols=76 Identities=20% Similarity=0.415 Sum_probs=51.7
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEecC---------------C---eEEEEECCCCccCCccCCCCcchHHHhh
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLAD---------------N---SVSVADNGRGIPIDLHPATNKSALETVL 166 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~d---------------g---~isV~DnGrGIP~~~h~~~g~~~~e~v~ 166 (538)
.-|..++..+|+||+++...+ ..|.|.+..+ | .|+|.|||.|||.+. .+-+|
T Consensus 559 ~~L~qvl~NLl~NAik~~~~~--g~I~I~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~GI~~e~--------~~~iF 628 (828)
T PRK13837 559 AELQQVLMNLCSNAAQAMDGA--GRVDISLSRAKLRAPKVLSHGVLPPGRYVLLRVSDTGAGIDEAV--------LPHIF 628 (828)
T ss_pred HHHHHHHHHHHHHHHHHcccC--CeEEEEEEEeecccccccccccCCCCCEEEEEEEECCCCCCHHH--------HHHhh
Confidence 457889999999999986432 4677666532 2 589999999999875 33455
Q ss_pred hhcccCCCCCCCCCCeeeccccccchhhHHHhhcCe
Q 009294 167 TVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSES 202 (538)
Q Consensus 167 t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~ 202 (538)
....++ . . +-.|+|++++.-+.+.
T Consensus 629 e~F~~~-----~------~-~G~GLGL~i~~~iv~~ 652 (828)
T PRK13837 629 EPFFTT-----R------A-GGTGLGLATVHGIVSA 652 (828)
T ss_pred CCcccC-----C------C-CCCcchHHHHHHHHHH
Confidence 543211 1 1 3379999988777554
No 79
>PRK13560 hypothetical protein; Provisional
Probab=95.93 E-value=0.021 Score=65.69 Aligned_cols=46 Identities=33% Similarity=0.509 Sum_probs=36.5
Q ss_pred hhHHHHHHHHhhHhhhccC-CCCeEEEEEecC--C--eEEEEECCCCccCC
Q 009294 107 LHHLVYEILDNAVDEAQAG-YASNIEVALLAD--N--SVSVADNGRGIPID 152 (538)
Q Consensus 107 L~~lv~EivdNAiDe~~~g-~~~~I~V~i~~d--g--~isV~DnGrGIP~~ 152 (538)
+..++.+||.||+++...+ ....|.|.+... + .|+|.|||.|||.+
T Consensus 712 ~~~il~NLl~NAik~~~~~~~~~~i~i~~~~~~~~~v~i~V~D~G~GI~~~ 762 (807)
T PRK13560 712 CGLIISELLSNALKHAFPDGAAGNIKVEIREQGDGMVNLCVADDGIGLPAG 762 (807)
T ss_pred hHHHHHHHHHHHHHhhccCCCCceEEEEEEEcCCCEEEEEEEeCCCcCCcc
Confidence 4558899999999987643 456788888743 4 58999999999976
No 80
>PRK10490 sensor protein KdpD; Provisional
Probab=95.93 E-value=0.02 Score=67.97 Aligned_cols=80 Identities=29% Similarity=0.443 Sum_probs=54.4
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEecC-C--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCC
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~d-g--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~ 181 (538)
.-|..++..+|+||+.+... ...|.|.+..+ + .|+|+|||.|||.+. .+-+|...+.+.+ .
T Consensus 777 ~~L~qVL~NLL~NAik~s~~--g~~I~I~~~~~~~~v~I~V~D~G~GI~~e~--------~~~IFepF~~~~~-~----- 840 (895)
T PRK10490 777 PLFERVLINLLENAVKYAGA--QAEIGIDAHVEGERLQLDVWDNGPGIPPGQ--------EQLIFDKFARGNK-E----- 840 (895)
T ss_pred HHHHHHHHHHHHHHHHhCCC--CCeEEEEEEEeCCEEEEEEEECCCCCCHHH--------HHHhcCCCccCCC-C-----
Confidence 45788899999999988633 34677777643 3 589999999999875 4456665433221 1
Q ss_pred eeeccccccchhhHHHhhcCe
Q 009294 182 YSVSGGLHGVGLSVVNALSES 202 (538)
Q Consensus 182 yk~sgG~~GvGls~vnalS~~ 202 (538)
....| .|+|++++..+.+.
T Consensus 841 -~~~~G-~GLGL~Ivk~ive~ 859 (895)
T PRK10490 841 -SAIPG-VGLGLAICRAIVEV 859 (895)
T ss_pred -CCCCC-ccHHHHHHHHHHHH
Confidence 11123 79999998887543
No 81
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=95.91 E-value=0.025 Score=65.70 Aligned_cols=99 Identities=23% Similarity=0.366 Sum_probs=60.9
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEec--CC--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCC
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLA--DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 180 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~--dg--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~ 180 (538)
.-|..++..+|.||+++... ..|.|.+.. ++ .++|.|||.|||.+. .+-+|........-.
T Consensus 397 ~~l~qvl~NLl~NAik~~~~---g~v~i~~~~~~~~~~~i~V~D~G~Gi~~~~--------~~~iF~~f~~~~~~~---- 461 (779)
T PRK11091 397 TRLRQILWNLISNAVKFTQQ---GGVTVRVRYEEGDMLTFEVEDSGIGIPEDE--------LDKIFAMYYQVKDSH---- 461 (779)
T ss_pred HHHHHHHHHHHHHHHHhCCC---CcEEEEEEEccCCEEEEEEEecCCCCCHHH--------HHHHHHHhhcccCCC----
Confidence 45788999999999998633 346666653 23 689999999999875 344666543321100
Q ss_pred CeeeccccccchhhHHHhhcCeE----EEEEEeC-CEEEEEEEe
Q 009294 181 GYSVSGGLHGVGLSVVNALSESL----EVTVWRD-GMEYHQKYS 219 (538)
Q Consensus 181 ~yk~sgG~~GvGls~vnalS~~~----~V~t~~~-g~~y~q~f~ 219 (538)
.-... +-.|+|++++.-+-+.+ .|++..+ |..+.+.+.
T Consensus 462 ~~~~~-~GtGLGL~i~~~iv~~~gG~i~v~s~~g~Gt~f~i~lP 504 (779)
T PRK11091 462 GGKPA-TGTGIGLAVSKRLAQAMGGDITVTSEEGKGSCFTLTIH 504 (779)
T ss_pred CCCCC-CCcchHHHHHHHHHHHcCCEEEEEecCCCeEEEEEEEe
Confidence 01112 33799999988776543 3443322 445555553
No 82
>PRK13557 histidine kinase; Provisional
Probab=95.82 E-value=0.072 Score=58.17 Aligned_cols=95 Identities=21% Similarity=0.367 Sum_probs=57.8
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEe----------------cCC--eEEEEECCCCccCCccCCCCcchHHHhh
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALL----------------ADN--SVSVADNGRGIPIDLHPATNKSALETVL 166 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~----------------~dg--~isV~DnGrGIP~~~h~~~g~~~~e~v~ 166 (538)
.-|.+++..||.||+++...+ ..|.|... .++ .|+|.|||.|||.+. .+.+|
T Consensus 276 ~~l~~vl~nll~NA~~~~~~~--~~i~i~~~~~~~~~~~~~~~~~~~~~~~~~i~v~D~G~Gi~~~~--------~~~if 345 (540)
T PRK13557 276 TQAEVALLNVLINARDAMPEG--GRVTIRTRNVEIEDEDLAMYHGLPPGRYVSIAVTDTGSGMPPEI--------LARVM 345 (540)
T ss_pred HHHHHHHHHHHHHHHHhcccC--CeEEEEEeeeccCccccccccCCCCCCEEEEEEEcCCCCCCHHH--------HHhcc
Confidence 347788999999999986443 34555443 122 599999999999875 33455
Q ss_pred hhcccCCCCCCCCCCeeeccccccchhhHHHhhcCe----EEEEEEeC-CEEEEEEEe
Q 009294 167 TVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSES----LEVTVWRD-GMEYHQKYS 219 (538)
Q Consensus 167 t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~----~~V~t~~~-g~~y~q~f~ 219 (538)
...+++.. .++-.|+|++++.-+-+. +.+++..+ |-.+++.+-
T Consensus 346 ~~~~~~~~----------~~~g~GlGL~i~~~~v~~~gG~i~~~s~~~~G~~f~i~lP 393 (540)
T PRK13557 346 DPFFTTKE----------EGKGTGLGLSMVYGFAKQSGGAVRIYSEVGEGTTVRLYFP 393 (540)
T ss_pred CCCcccCC----------CCCCCCccHHHHHHHHHHCCCEEEEEecCCCceEEEEEee
Confidence 54332211 112368999887766543 34444332 445555553
No 83
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=95.68 E-value=0.024 Score=67.41 Aligned_cols=82 Identities=23% Similarity=0.380 Sum_probs=52.9
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEec-CC--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCC
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~-dg--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~ 181 (538)
.-|..++..||+||+.+...| .|.|.+.. ++ .|+|.|||.|||.+. .+-+|........ . .
T Consensus 561 ~~L~qvl~NLl~NAik~t~~G---~I~I~v~~~~~~l~i~V~DtG~GI~~e~--------~~~lFepF~~~~~---~--~ 624 (924)
T PRK10841 561 MRLQQVISNLLSNAIKFTDTG---CIVLHVRVDGDYLSFRVRDTGVGIPAKE--------VVRLFDPFFQVGT---G--V 624 (924)
T ss_pred HHHHHHHHHHHHHHHhhCCCC---cEEEEEEEeCCEEEEEEEEcCcCCCHHH--------HHHHhcccccCCC---C--C
Confidence 357889999999999986433 46666653 33 589999999999875 3345554322211 0 0
Q ss_pred eeeccccccchhhHHHhhcCeE
Q 009294 182 YSVSGGLHGVGLSVVNALSESL 203 (538)
Q Consensus 182 yk~sgG~~GvGls~vnalS~~~ 203 (538)
....+| .|+|+++|.-+.+.+
T Consensus 625 ~~~~~G-tGLGL~I~k~lv~~~ 645 (924)
T PRK10841 625 QRNFQG-TGLGLAICEKLINMM 645 (924)
T ss_pred CCCCCC-eehhHHHHHHHHHHC
Confidence 011223 799999998776544
No 84
>PRK10547 chemotaxis protein CheA; Provisional
Probab=95.68 E-value=0.044 Score=62.73 Aligned_cols=43 Identities=19% Similarity=0.392 Sum_probs=32.1
Q ss_pred HHHHHHhhHhhhcc--------C--CCCeEEEEEecC-C--eEEEEECCCCccCCc
Q 009294 111 VYEILDNAVDEAQA--------G--YASNIEVALLAD-N--SVSVADNGRGIPIDL 153 (538)
Q Consensus 111 v~EivdNAiDe~~~--------g--~~~~I~V~i~~d-g--~isV~DnGrGIP~~~ 153 (538)
+..+|.||+|+... | ....|.|....+ + .|+|.|||+|||.+.
T Consensus 390 L~hLirNAidHgie~p~~R~~~gkp~~G~I~l~a~~~~~~v~I~V~DdG~GId~e~ 445 (670)
T PRK10547 390 LTHLVRNSLDHGIELPEKRLAAGKNSVGNLILSAEHQGGNICIEVTDDGAGLNRER 445 (670)
T ss_pred HHHHHHHHHHhhccchhhHHhcCCCCCCceEEEEEEcCCEEEEEEEeCCCCCCHHH
Confidence 34899999999742 2 244688887743 3 599999999999764
No 85
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=95.44 E-value=0.047 Score=64.69 Aligned_cols=82 Identities=18% Similarity=0.347 Sum_probs=53.8
Q ss_pred CCchhHHHHHHHHhhHhhhccCCCCeEEEEEec--C--C--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCC
Q 009294 104 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLA--D--N--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGG 177 (538)
Q Consensus 104 ~~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~--d--g--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~ 177 (538)
..-|.+++..+|.||+++...| .|.|.+.. + + .|+|.|+|.|||.+. .+-+|...... +-.+
T Consensus 563 ~~~L~QVL~NLL~NAik~t~~G---~I~I~v~~~~~~~~~l~I~V~DtG~GI~~e~--------l~~IFePF~t~-~~~~ 630 (894)
T PRK10618 563 RDALRKILLLLLNYAITTTAYG---KITLEVDQDESSPDRLTIRILDTGAGVSIKE--------LDNLHFPFLNQ-TQGD 630 (894)
T ss_pred HHHHHHHHHHHHHHHHHhCCCC---eEEEEEEEccCCCcEEEEEEEECCCCCCHHH--------HHHhcCccccC-CCCC
Confidence 4568899999999999976433 57776652 2 2 589999999999886 23344433221 1100
Q ss_pred CCCCeeeccccccchhhHHHhhcCeE
Q 009294 178 SSSGYSVSGGLHGVGLSVVNALSESL 203 (538)
Q Consensus 178 ~~~~yk~sgG~~GvGls~vnalS~~~ 203 (538)
+...| .|+|+++|.-+.+.+
T Consensus 631 -----~~~~G-tGLGLaI~k~Lve~~ 650 (894)
T PRK10618 631 -----RYGKA-SGLTFFLCNQLCRKL 650 (894)
T ss_pred -----CCCCC-cChhHHHHHHHHHHc
Confidence 11223 699999998887654
No 86
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=95.40 E-value=0.024 Score=59.03 Aligned_cols=93 Identities=26% Similarity=0.468 Sum_probs=66.4
Q ss_pred hhhhCCC--eeeccCCCCchhHHHHHHHHhhHhhhccCCCCeEEEEEecCC---eEEEEECCCCccCCccCCCCcchHHH
Q 009294 90 AVRKRPA--MYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDLHPATNKSALET 164 (538)
Q Consensus 90 ~VrkRP~--mYIGs~~~~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg---~isV~DnGrGIP~~~h~~~g~~~~e~ 164 (538)
.||+-|. .|+ ..++.-+.++++-||.||+-..-.| .+|.|.+..-+ .|+|.|.|-|||.+. ++-
T Consensus 325 ~vR~~p~~~~~v-eiD~DK~tQVldNii~NA~KYsP~G--g~Itv~~~~~~~~v~iSI~D~G~gIPk~d--------~~~ 393 (459)
T COG5002 325 FVRDIPKQDIWV-EIDPDKMTQVLDNIISNALKYSPDG--GRITVSVKQRETWVEISISDQGLGIPKED--------LEK 393 (459)
T ss_pred HHhcCCCCceEE-EeChhHHHHHHHHHHHHHhhcCCCC--CeEEEEEeeeCcEEEEEEccCCCCCCchh--------HHH
Confidence 5677665 332 3456788999999999999987665 47888877433 699999999999876 566
Q ss_pred hhhhcccCCCCCCCCCCeeeccccccchhhHHHhh
Q 009294 165 VLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNAL 199 (538)
Q Consensus 165 v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnal 199 (538)
+|.+..-..| +-..++|=-|+|++.+--+
T Consensus 394 iFdrfyRvdk------ARsR~~gGTGLGLaIakei 422 (459)
T COG5002 394 IFDRFYRVDK------ARSRKMGGTGLGLAIAKEI 422 (459)
T ss_pred HHHHHhhhhh------hhhhcCCCCchhHHHHHHH
Confidence 8887544433 2223556689999877654
No 87
>PRK13559 hypothetical protein; Provisional
Probab=95.36 E-value=0.067 Score=55.82 Aligned_cols=47 Identities=15% Similarity=0.223 Sum_probs=35.2
Q ss_pred chhHHHHHHHHhhHhhhc-cCCCCeEEEEE--ec-CC--eEEEEECCCCccCC
Q 009294 106 GLHHLVYEILDNAVDEAQ-AGYASNIEVAL--LA-DN--SVSVADNGRGIPID 152 (538)
Q Consensus 106 gL~~lv~EivdNAiDe~~-~g~~~~I~V~i--~~-dg--~isV~DnGrGIP~~ 152 (538)
.|..++.|++.||+.++. ......|.|.+ .. ++ .|.|.|||.|+|.+
T Consensus 267 ~l~~vl~nLi~NA~k~~~~~~~~g~i~v~~~~~~~~~~~~i~v~d~G~~~~~~ 319 (361)
T PRK13559 267 PLGLVLHELAVNAIKHGALSADQGRISISWKPSPEGAGFRIDWQEQGGPTPPK 319 (361)
T ss_pred HHHHHHHHHHHhHHHhccccCCCcEEEEEEEecCCCCeEEEEEECCCCCCCCC
Confidence 478899999999999853 22346788888 43 33 68899999887754
No 88
>COG4585 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=95.30 E-value=0.027 Score=59.51 Aligned_cols=47 Identities=36% Similarity=0.502 Sum_probs=40.4
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEec-CC--eEEEEECCCCccCCcc
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLA-DN--SVSVADNGRGIPIDLH 154 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~-dg--~isV~DnGrGIP~~~h 154 (538)
..|+.++.|.|.|++=++ .++.|.|++.. ++ .++|.|||+|.+++..
T Consensus 278 ~~l~rivQEaltN~~rHa---~A~~v~V~l~~~~~~l~l~V~DnG~Gf~~~~~ 327 (365)
T COG4585 278 DALFRIVQEALTNAIRHA---QATEVRVTLERTDDELRLEVIDNGVGFDPDKE 327 (365)
T ss_pred HHHHHHHHHHHHHHHhcc---CCceEEEEEEEcCCEEEEEEEECCcCCCcccc
Confidence 578999999999999887 68899999984 34 6999999999998863
No 89
>KOG0020 consensus Endoplasmic reticulum glucose-regulated protein (GRP94/endoplasmin), HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=95.24 E-value=0.11 Score=56.14 Aligned_cols=157 Identities=18% Similarity=0.283 Sum_probs=94.1
Q ss_pred HHHHHHHhhHhhhc--c----------CCCCeEEEEEec---CCeEEEEECCCCccCCcc-------CCCCcchHHHhhh
Q 009294 110 LVYEILDNAVDEAQ--A----------GYASNIEVALLA---DNSVSVADNGRGIPIDLH-------PATNKSALETVLT 167 (538)
Q Consensus 110 lv~EivdNAiDe~~--~----------g~~~~I~V~i~~---dg~isV~DnGrGIP~~~h-------~~~g~~~~e~v~t 167 (538)
.++|+|.||-|+-- + |....+.|.|.. .....|.|.|-||.-+.. .++|-+ -.+.
T Consensus 99 FLRELISNASDAlDKIRllaLtd~~~L~~~~el~ikIK~Dke~klLhi~DtGiGMT~edLi~NLGTIAkSGTs---~Fl~ 175 (785)
T KOG0020|consen 99 FLRELISNASDALDKIRLLALTDKDVLGETEELEIKIKADKEKKLLHITDTGIGMTREDLIKNLGTIAKSGTS---EFLE 175 (785)
T ss_pred HHHHHHhhhhhhhhheeeeeccChhHhCcCcceEEEEeechhhCeeeEecccCCccHHHHHHhhhhhhcccHH---HHHH
Confidence 46899999999753 1 223344444443 347999999999987642 222221 1233
Q ss_pred hcccCCCCCCCCCCeeeccccccchhhHHHhhcCeEEEEEEeC-CEEEEEEEeCCcccccceeeecCCCCCCCCCcEEEE
Q 009294 168 VLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRD-GMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRF 246 (538)
Q Consensus 168 ~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~~~V~t~~~-g~~y~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F 246 (538)
.+...+.-.+ ...--.|+.|||.-++=.++.+..|++..+ ...|..+-..+..... .-|.+.+-.+||.|+.
T Consensus 176 Km~~~~~~~~---~~~dlIGQFGVGFYsAfLVAD~vvVtsKhNdD~QyiWESdan~Fsvs----eDprg~tL~RGt~ItL 248 (785)
T KOG0020|consen 176 KMQDSGDSEG---LMNDLIGQFGVGFYSAFLVADRVVVTSKHNDDSQYIWESDANSFSVS----EDPRGNTLGRGTEITL 248 (785)
T ss_pred Hhhccccchh---hHHHHHHhcchhhhhhhhhcceEEEEeccCCccceeeeccCcceeee----cCCCCCcccCccEEEE
Confidence 3332332211 112346899999999999999999999754 4566665544432211 1123556679999998
Q ss_pred EeCccccccccccCHHHHHHHHHHHH-hhCCCcE
Q 009294 247 WPDKQVFTTAIQFDHNTIAGRIRELA-FLNPKLT 279 (538)
Q Consensus 247 ~PD~~~F~~~~~~~~~~i~~rl~elA-~lnpgl~ 279 (538)
.---+- ..-++.+.++..++.++ |.|-.+.
T Consensus 249 ~LkeEA---~dyLE~dtlkeLvkkYSqFINFpI~ 279 (785)
T KOG0020|consen 249 YLKEEA---GDYLEEDTLKELVKKYSQFINFPIS 279 (785)
T ss_pred Eehhhh---hhhcchhHHHHHHHHHHHhcCCcee
Confidence 721111 11256788888888887 5553333
No 90
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=95.15 E-value=0.036 Score=62.05 Aligned_cols=43 Identities=42% Similarity=0.619 Sum_probs=34.1
Q ss_pred hhHHHHHHHHhhHhhhccCCCCeEEEEEecC-C--eEEEEECCCCccCC
Q 009294 107 LHHLVYEILDNAVDEAQAGYASNIEVALLAD-N--SVSVADNGRGIPID 152 (538)
Q Consensus 107 L~~lv~EivdNAiDe~~~g~~~~I~V~i~~d-g--~isV~DnGrGIP~~ 152 (538)
+.+++.|+|.||+.+.. ++.|.|.+..+ + .++|.|||.|||.+
T Consensus 470 l~~il~ell~NA~kha~---a~~i~V~~~~~~~~~~l~V~D~G~Gi~~~ 515 (569)
T PRK10600 470 LLQIAREALSNALKHAQ---ASEVVVTVAQNQNQVKLSVQDNGCGVPEN 515 (569)
T ss_pred HHHHHHHHHHHHHHhCC---CCeEEEEEEEcCCEEEEEEEECCCCCCcc
Confidence 67888999999888863 45788888743 3 58999999999965
No 91
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=95.11 E-value=0.052 Score=63.88 Aligned_cols=100 Identities=20% Similarity=0.336 Sum_probs=58.4
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEec--CC----eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCC
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLA--DN----SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGS 178 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~--dg----~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~ 178 (538)
.-|..++..+|.||+.+...|. -.|.|.+.. ++ .|+|.|||.|||.+. .+-+|.....+.+
T Consensus 407 ~~l~~vl~NLl~NAik~~~~g~-v~i~v~~~~~~~~~~~~~i~V~D~G~Gi~~~~--------~~~if~~f~~~~~---- 473 (919)
T PRK11107 407 LRLQQIITNLVGNAIKFTESGN-IDILVELRALSNTKVQLEVQIRDTGIGISERQ--------QSQLFQAFRQADA---- 473 (919)
T ss_pred HHHHHHHHHHHHHHhhcCCCCc-EEEEEEEEecCCCeeEEEEEEEEeCCCcCHHH--------HHHHhhhhccCCC----
Confidence 3477889999999998764431 123343332 22 489999999999875 3445554321111
Q ss_pred CCCeeeccccccchhhHHHhhcCeE----EEEEEeC-CEEEEEEEe
Q 009294 179 SSGYSVSGGLHGVGLSVVNALSESL----EVTVWRD-GMEYHQKYS 219 (538)
Q Consensus 179 ~~~yk~sgG~~GvGls~vnalS~~~----~V~t~~~-g~~y~q~f~ 219 (538)
......|-.|+|++++.-+.+.+ +|++..+ |..+++.+.
T Consensus 474 --~~~~~~~g~GLGL~i~~~i~~~~gG~i~v~s~~~~Gt~f~i~lp 517 (919)
T PRK11107 474 --SISRRHGGTGLGLVITQKLVNEMGGDISFHSQPNRGSTFWFHLP 517 (919)
T ss_pred --CCCCCCCCcchhHHHHHHHHHHhCCEEEEEecCCCCEEEEEEEE
Confidence 11111233799999887766554 4444332 556666654
No 92
>COG2172 RsbW Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]
Probab=94.86 E-value=0.21 Score=46.32 Aligned_cols=84 Identities=27% Similarity=0.296 Sum_probs=55.6
Q ss_pred chhHHHHHHHHhhHhhhccCCC--CeEEEEEe--cCC-eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCC
Q 009294 106 GLHHLVYEILDNAVDEAQAGYA--SNIEVALL--ADN-SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSS 180 (538)
Q Consensus 106 gL~~lv~EivdNAiDe~~~g~~--~~I~V~i~--~dg-~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~ 180 (538)
-+...+-|++.|++.++.++-. ..|.|... ++. .|.|+|.|.||+.- +..+... |
T Consensus 40 ~l~~av~E~~~N~v~Ha~~~~~~~g~I~i~~~~~~~~~~i~i~D~G~~~~~~----------~~~~~~~-----~----- 99 (146)
T COG2172 40 DLAIAVSEALTNAVKHAYKLDPSEGEIRIEVSLDDGKLEIRIWDQGPGIEDL----------EESLGPG-----D----- 99 (146)
T ss_pred HHHHHHHHHHHHHHHHHhhcCCCCceEEEEEEEcCCeEEEEEEeCCCCCCCH----------HHhcCCC-----C-----
Confidence 4567899999999999977433 35555544 343 69999999776632 2222221 1
Q ss_pred Ceeecccc--ccchhhHHHhhcCeEEEEEEeCC
Q 009294 181 GYSVSGGL--HGVGLSVVNALSESLEVTVWRDG 211 (538)
Q Consensus 181 ~yk~sgG~--~GvGls~vnalS~~~~V~t~~~g 211 (538)
....++ .|+|+.++.-+...|+++...++
T Consensus 100 --~~~~~~~~~G~Gl~l~~~~~D~~~~~~~~~~ 130 (146)
T COG2172 100 --TTAEGLQEGGLGLFLAKRLMDEFSYERSEDG 130 (146)
T ss_pred --CCCcccccccccHHHHhhhheeEEEEeccCC
Confidence 111122 48999999988889988866665
No 93
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=94.76 E-value=0.047 Score=60.65 Aligned_cols=56 Identities=34% Similarity=0.453 Sum_probs=44.3
Q ss_pred eeccCCCCchhHHHHHHHHhhHhhhcc-----CCCCeEEEEEe-cCC--eEEEEECCCCccCCc
Q 009294 98 YIGSTGPRGLHHLVYEILDNAVDEAQA-----GYASNIEVALL-ADN--SVSVADNGRGIPIDL 153 (538)
Q Consensus 98 YIGs~~~~gL~~lv~EivdNAiDe~~~-----g~~~~I~V~i~-~dg--~isV~DnGrGIP~~~ 153 (538)
.+|.-+.+-|..++.-|+.||.++..+ +....|.++.+ .|| .+.|.|||+|.|.+.
T Consensus 592 l~~~~D~~~l~Qvf~NliKNA~EAi~~~~~~e~~~~~i~~~~~~~~g~i~v~V~DNGkG~p~e~ 655 (712)
T COG5000 592 LIGMADATLLGQVFGNLLKNAAEAIEAVEAEERRTALIRVSLDDADGRIVVDVIDNGKGFPREN 655 (712)
T ss_pred eeeecCHHHHHHHHHHHHHhHHHHhhhcccccCCcceEEEEEecCCCeEEEEEecCCCCCChHH
Confidence 455557788999999999999988763 22336888888 567 588999999999986
No 94
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=94.28 E-value=0.12 Score=62.87 Aligned_cols=98 Identities=16% Similarity=0.354 Sum_probs=57.9
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEE---ecCC---eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCC
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVAL---LADN---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGS 178 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i---~~dg---~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~ 178 (538)
.-|.+++..||+||+++...|. -.|.+.. +.++ .|+|.|||.|||.+. .+-+|.....+ +..
T Consensus 827 ~~l~qvl~NLl~NAik~~~~g~-i~i~~~~~~~~~~~~~~~i~V~D~G~Gi~~~~--------~~~iF~~f~~~-~~~-- 894 (1197)
T PRK09959 827 QAFKQVLSNLLSNALKFTTEGA-VKITTSLGHIDDNHAVIKMTIMDSGSGLSQEE--------QQQLFKRYSQT-SAG-- 894 (1197)
T ss_pred HHHHHHHHHHHHHHHHhCCCCC-EEEEEEEeeecCCceEEEEEEEEcCCCCCHHH--------HHHhhcccccc-ccC--
Confidence 4588999999999999875431 1233322 1222 479999999999875 33455543222 111
Q ss_pred CCCeeeccccccchhhHHHhhcCeE----EEEEEeC-CEEEEEEEe
Q 009294 179 SSGYSVSGGLHGVGLSVVNALSESL----EVTVWRD-GMEYHQKYS 219 (538)
Q Consensus 179 ~~~yk~sgG~~GvGls~vnalS~~~----~V~t~~~-g~~y~q~f~ 219 (538)
...+| .|+|+++|.-+.+.+ .+++..+ |..+++.+-
T Consensus 895 ----~~~~G-~GLGL~i~~~iv~~~gG~i~v~s~~~~Gt~f~i~lP 935 (1197)
T PRK09959 895 ----RQQTG-SGLGLMICKELIKNMQGDLSLESHPGIGTTFTITIP 935 (1197)
T ss_pred ----CCCCC-cCchHHHHHHHHHHcCCEEEEEeCCCCcEEEEEEEE
Confidence 11223 799999998776554 2332222 445555553
No 95
>KOG0787 consensus Dehydrogenase kinase [Signal transduction mechanisms]
Probab=94.26 E-value=0.11 Score=54.53 Aligned_cols=106 Identities=19% Similarity=0.333 Sum_probs=69.6
Q ss_pred ccchhhhhhCCCeeeccCCCCchhHHHHHHHHhhHhhhcc-----CC-CCeEEEEEec---CCeEEEEECCCCccCCccC
Q 009294 85 LEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQA-----GY-ASNIEVALLA---DNSVSVADNGRGIPIDLHP 155 (538)
Q Consensus 85 L~~lE~VrkRP~mYIGs~~~~gL~~lv~EivdNAiDe~~~-----g~-~~~I~V~i~~---dg~isV~DnGrGIP~~~h~ 155 (538)
|.--+|.-++++.|| +.-|+|++.||+.||.-|.+. +. -..|+|+|-. |=.|.|+|-|-|||.+.
T Consensus 243 l~i~~~~a~~~~vyv----PshL~ymlfElfKNamrATve~h~~~~~~~ppI~V~V~~gdeDl~ikISDrGGGV~~~~-- 316 (414)
T KOG0787|consen 243 LIIEGHNALSFTVYV----PSHLYYMLFELFKNAMRATVEHHGDDGDELPPIKVTVAKGDEDLLIKISDRGGGVPHRD-- 316 (414)
T ss_pred eEecCcccccCcccc----chHHHHHHHHHHHHHHHHHHHHhccCCCCCCCeEEEEecCCcceEEEEecCCCCcChhH--
Confidence 333445556666664 567999999999999998874 21 4558888874 23799999999999876
Q ss_pred CCCcchHHHhhhhcccCCCCCCCCCC-e-eeccccccchhhHHHhhcCeEE
Q 009294 156 ATNKSALETVLTVLHAGGKFGGSSSG-Y-SVSGGLHGVGLSVVNALSESLE 204 (538)
Q Consensus 156 ~~g~~~~e~v~t~lhagskf~~~~~~-y-k~sgG~~GvGls~vnalS~~~~ 204 (538)
.+.+|.-+.++..=...++. . ... | -|+|++..-.+.++|-
T Consensus 317 ------~drlf~Y~ySTa~~~~~d~~~~~pla-G-fG~GLPisrlYa~yf~ 359 (414)
T KOG0787|consen 317 ------IDRLFSYMYSTAPAPSSDNNRTAPLA-G-FGFGLPISRLYARYFG 359 (414)
T ss_pred ------HHHHHhhhcccCCCCCCCCCCcCccc-c-cccCCcHHHHHHHHhC
Confidence 34466654443321111111 1 122 2 5788999999987763
No 96
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=94.15 E-value=0.09 Score=54.12 Aligned_cols=50 Identities=24% Similarity=0.436 Sum_probs=34.7
Q ss_pred CCchhHHHHHHHHhhHhhhcc--CCCC--------eEEEEEecCC-----eEEEEECCCCccCCc
Q 009294 104 PRGLHHLVYEILDNAVDEAQA--GYAS--------NIEVALLADN-----SVSVADNGRGIPIDL 153 (538)
Q Consensus 104 ~~gL~~lv~EivdNAiDe~~~--g~~~--------~I~V~i~~dg-----~isV~DnGrGIP~~~ 153 (538)
..-|..+|+-||.||+.+.-. .... -+.++|...- .+.|.|||+|||.+.
T Consensus 239 ~DqliQv~LNlVrNAaqA~~~~~~~~g~I~LrTR~~~q~~i~g~r~rl~l~leViDNGPGVP~~L 303 (363)
T COG3852 239 RDQLIQVFLNLVRNAAQALGGRADEGGEIILRTRTGIQLTIAGTRYRLALPLEVIDNGPGVPPDL 303 (363)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCCceEEEEeccceEEEccCceeEeeeeeEEecCCCCCChHH
Confidence 356889999999999987631 1112 2445554211 589999999999886
No 97
>COG4192 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]
Probab=93.75 E-value=0.12 Score=55.82 Aligned_cols=79 Identities=28% Similarity=0.483 Sum_probs=56.1
Q ss_pred CCchhHHHHHHHHhhHhhhccCCCCeEEEEEecC-C---eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCC
Q 009294 104 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLAD-N---SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSS 179 (538)
Q Consensus 104 ~~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~d-g---~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~ 179 (538)
..-+..++--++.||+|++.. +++.|.|+...+ + .|-|.|||.|-|++..++ .|+ ..+++|--
T Consensus 562 ~v~ieQVlvNl~~NaldA~~h-~~p~i~~~~~~~~~e~l~i~i~DnGqGwp~~l~dk--------Ll~-PFttsK~v--- 628 (673)
T COG4192 562 AVSIEQVLVNLIVNALDASTH-FAPWIKLIALGTEQEMLRIAIIDNGQGWPHELVDK--------LLT-PFTTSKEV--- 628 (673)
T ss_pred hhhHHHHHHHHHHHHHhhhcc-CCceEEEEeecCcccceEEEEecCCCCCchhHHHH--------hcC-Cccccccc---
Confidence 356788999999999998743 357888888753 2 799999999999875432 333 34555521
Q ss_pred CCeeeccccccchhhHHHhhcCeE
Q 009294 180 SGYSVSGGLHGVGLSVVNALSESL 203 (538)
Q Consensus 180 ~~yk~sgG~~GvGls~vnalS~~~ 203 (538)
| -|+|+|.+..+-+.+
T Consensus 629 -------g-LGlGLSIsqSlmeqm 644 (673)
T COG4192 629 -------G-LGLGLSISQSLMEQM 644 (673)
T ss_pred -------c-cccchhHHHHHHHHh
Confidence 2 388999887775544
No 98
>PRK10935 nitrate/nitrite sensor protein NarQ; Provisional
Probab=93.39 E-value=0.1 Score=57.85 Aligned_cols=43 Identities=37% Similarity=0.459 Sum_probs=33.2
Q ss_pred hhHHHHHHHHhhHhhhccCCCCeEEEEEec--CC--eEEEEECCCCccCC
Q 009294 107 LHHLVYEILDNAVDEAQAGYASNIEVALLA--DN--SVSVADNGRGIPID 152 (538)
Q Consensus 107 L~~lv~EivdNAiDe~~~g~~~~I~V~i~~--dg--~isV~DnGrGIP~~ 152 (538)
+..++.|+|.||+.+. ....|.|.+.. ++ .++|.|||+|||.+
T Consensus 472 l~qv~~nll~NA~k~~---~~~~i~i~~~~~~~~~~~i~V~D~G~Gi~~~ 518 (565)
T PRK10935 472 LLQIIREATLNAIKHA---NASEIAVSCVTNPDGEHTVSIRDDGIGIGEL 518 (565)
T ss_pred HHHHHHHHHHHHHhcC---CCCeEEEEEEEcCCCEEEEEEEECCcCcCCC
Confidence 5678889999998875 34568888763 34 58999999999964
No 99
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=92.95 E-value=0.23 Score=55.56 Aligned_cols=97 Identities=23% Similarity=0.381 Sum_probs=67.6
Q ss_pred chhHHHHHHHHhhHhhhccCCCCeEEEEEec--CC-eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCCe
Q 009294 106 GLHHLVYEILDNAVDEAQAGYASNIEVALLA--DN-SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGY 182 (538)
Q Consensus 106 gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~--dg-~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~y 182 (538)
-|-.++.-+|.||+-....+ ...|.|..+. |+ .++|.|||-||....... .-.+|.++|+...|.
T Consensus 636 ~l~qv~~NLi~Naik~~~~e-~~~i~I~~~r~ed~~t~sV~dng~Gi~~a~~~r-----iF~iFqRl~s~~~y~------ 703 (750)
T COG4251 636 QLGQVFQNLIANAIKFGGPE-NPDIEISAERQEDEWTFSVRDNGIGIDPAYFER-----IFVIFQRLHSRDEYL------ 703 (750)
T ss_pred HHHHHHHHHHhhheecCCCC-CCceEEeeeccCCceEEEecCCCCCcCHHHHHH-----HHHHHHhcCchhhhc------
Confidence 45677888888888776444 5789999884 44 699999999999875322 446788988887764
Q ss_pred eeccccccchhhHHHhhcCe----EEEEEE-eCCEEEEEEEe
Q 009294 183 SVSGGLHGVGLSVVNALSES----LEVTVW-RDGMEYHQKYS 219 (538)
Q Consensus 183 k~sgG~~GvGls~vnalS~~----~~V~t~-~~g~~y~q~f~ 219 (538)
| +|.|+.++-.+.+. ..|++. .+|..+.+..-
T Consensus 704 ----g-tG~GL~I~kkI~e~H~G~i~vEs~~gEgsTF~f~lp 740 (750)
T COG4251 704 ----G-TGLGLAICKKIAERHQGRIWVESTPGEGSTFYFTLP 740 (750)
T ss_pred ----C-CCccHHHHHHHHHHhCceEEEeecCCCceeEEEEee
Confidence 3 79999998887653 334444 23455555443
No 100
>COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]
Probab=92.75 E-value=0.18 Score=53.02 Aligned_cols=46 Identities=28% Similarity=0.461 Sum_probs=39.5
Q ss_pred CchhHHHHHHHHhhHhhhccCCCCeEEEEEecCC---eEEEEECCCCccCCc
Q 009294 105 RGLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDL 153 (538)
Q Consensus 105 ~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg---~isV~DnGrGIP~~~ 153 (538)
.-|+.++.|++.|=+-++ .|+.|.|.+..++ ..+|+|||.|+|++.
T Consensus 409 vTLyRl~QE~LNNI~KHA---~AS~V~i~l~~~~e~l~Lei~DdG~Gl~~~~ 457 (497)
T COG3851 409 VTLYRLCQELLNNICKHA---DASAVTIQLWQQDERLMLEIEDDGSGLPPGS 457 (497)
T ss_pred EeHHHHHHHHHHHHHhcc---ccceEEEEEeeCCcEEEEEEecCCcCCCCCC
Confidence 368999999999999887 4788999999766 479999999999873
No 101
>PF14501 HATPase_c_5: GHKL domain
Probab=91.96 E-value=1.4 Score=37.58 Aligned_cols=71 Identities=20% Similarity=0.324 Sum_probs=47.3
Q ss_pred chhHHHHHHHHhhHhhhccCC-CCeEEEEEec-CC--eEEEEECCCCccCCccCCCCcchHHHhhhhcccCCCCCCCCCC
Q 009294 106 GLHHLVYEILDNAVDEAQAGY-ASNIEVALLA-DN--SVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSG 181 (538)
Q Consensus 106 gL~~lv~EivdNAiDe~~~g~-~~~I~V~i~~-dg--~isV~DnGrGIP~~~h~~~g~~~~e~v~t~lhagskf~~~~~~ 181 (538)
-|..++--+||||++++..-. ...|.|.+.. +| .|.|.+.-.. +. ..+. +
T Consensus 5 dl~~il~nlldNAiea~~~~~~~~~I~i~~~~~~~~~~i~i~N~~~~---~~-------------~~~~-~--------- 58 (100)
T PF14501_consen 5 DLCRILGNLLDNAIEACKKYEDKRFISISIREENGFLVIIIENSCEK---EI-------------EKLE-S--------- 58 (100)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCcEEEEEEEecCCEEEEEEEECCCC---cc-------------cccc-c---------
Confidence 478899999999999987533 6778888884 45 5777876322 11 0011 0
Q ss_pred eeeccccccchhhHHHhhcCe
Q 009294 182 YSVSGGLHGVGLSVVNALSES 202 (538)
Q Consensus 182 yk~sgG~~GvGls~vnalS~~ 202 (538)
.+..++-||+|++.+..+-++
T Consensus 59 ~~~~~~~~G~GL~~v~~i~~~ 79 (100)
T PF14501_consen 59 SSSKKKGHGIGLKNVKKILEK 79 (100)
T ss_pred cccCCCCCCcCHHHHHHHHHH
Confidence 122446699999999887543
No 102
>PF01751 Toprim: Toprim domain; InterPro: IPR006171 This is a conserved region from DNA primase. This corresponds to the Toprim (topoisomerase-primase) domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR/M DNA repair proteins []. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase 2.7.7.6 from EC is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division []. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases []. Type II DNA topoisomerases catalyse the relaxation of DNA supercoiling by causing transient double strand breaks.; PDB: 2ZJT_A 3IG0_A 3M4I_A 3NUH_B 1GKU_B 1GL9_C 3PWT_A 1CY4_A 1ECL_A 1CY7_A ....
Probab=91.96 E-value=0.045 Score=47.01 Aligned_cols=37 Identities=19% Similarity=0.265 Sum_probs=32.2
Q ss_pred EEEEEeCCCCcccccccCCCCceEeeccCccccccccC
Q 009294 500 EIFIVEGDSAGGSAKQGRDRRFQVIINPLQESIFAFAS 537 (538)
Q Consensus 500 eL~lvEGDSA~Gsak~gRdr~~qail~PLrGKiLNv~k 537 (538)
|||||||+|+.-...++.+...+.|+ |+.|+++|..+
T Consensus 1 ~liIvE~ps~a~~i~~~l~~~~~~v~-~~~Ghl~~~~~ 37 (100)
T PF01751_consen 1 ELIIVEKPSDAKAIAKALGGEEYIVI-ATSGHLLELAK 37 (100)
T ss_dssp EEEEESSHHHHHHHHHHSSTTTEEEE-EESSSSEESTT
T ss_pred CEEEEeCHHHHHHHHHHcCCCCEEEE-EeCCccccccc
Confidence 69999999999888888776668999 99999998753
No 103
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=91.54 E-value=0.21 Score=57.67 Aligned_cols=85 Identities=28% Similarity=0.367 Sum_probs=49.1
Q ss_pred HHHHhhHhhhcc--------CC--CCeEEEEEec-CC--eEEEEECCCCccCCccCC----CCcchHHHh--h-----hh
Q 009294 113 EILDNAVDEAQA--------GY--ASNIEVALLA-DN--SVSVADNGRGIPIDLHPA----TNKSALETV--L-----TV 168 (538)
Q Consensus 113 EivdNAiDe~~~--------g~--~~~I~V~i~~-dg--~isV~DnGrGIP~~~h~~----~g~~~~e~v--~-----t~ 168 (538)
.+|-||+|+++. |. ..+|.+.-.. +| .|+|.|||+||..+..-. .|.-..+.+ + ..
T Consensus 439 HLvRNAvDHGIE~pE~R~a~GKp~~G~I~L~A~~~gn~ivIev~DDG~Gid~ekI~~KAiErGli~~~~a~~lSd~Ei~~ 518 (716)
T COG0643 439 HLVRNAVDHGIETPEERRAAGKPEEGTITLSAYHEGNNIVIEVSDDGAGIDREKIREKAIERGLITEEEAETLSDEEILN 518 (716)
T ss_pred HHHhcchhccCCCHHHHHHcCCCCcceEEEEEEcCCCeEEEEEeeCCCCCCHHHHHHHHHHcCCCChHHhccCCHHHHHH
Confidence 467899999873 43 5567777664 44 699999999999985311 122222211 0 01
Q ss_pred cccCCCCCCCCCCeeeccccccchhhHHHhh
Q 009294 169 LHAGGKFGGSSSGYSVSGGLHGVGLSVVNAL 199 (538)
Q Consensus 169 lhagskf~~~~~~yk~sgG~~GvGls~vnal 199 (538)
|..-.-|.-.+..-.+|| +|||+=+|.--
T Consensus 519 LIF~PGFSTa~~VtdvSG--RGVGMDVVk~~ 547 (716)
T COG0643 519 LIFAPGFSTAEQVTDVSG--RGVGMDVVKTN 547 (716)
T ss_pred HHhcCCCCcchhhhcccC--CccCHHHHHHH
Confidence 111223433222334666 89999888543
No 104
>KOG0019 consensus Molecular chaperone (HSP90 family) [Posttranslational modification, protein turnover, chaperones]
Probab=91.33 E-value=0.56 Score=52.20 Aligned_cols=160 Identities=18% Similarity=0.191 Sum_probs=90.0
Q ss_pred HHHHHHHhhHhhhcc-------C-C--CCe--EEEEEec-CCeEEEEECCCCccCCccCCCCcchHHHhhhh-cccCCC-
Q 009294 110 LVYEILDNAVDEAQA-------G-Y--ASN--IEVALLA-DNSVSVADNGRGIPIDLHPATNKSALETVLTV-LHAGGK- 174 (538)
Q Consensus 110 lv~EivdNAiDe~~~-------g-~--~~~--I~V~i~~-dg~isV~DnGrGIP~~~h~~~g~~~~e~v~t~-lhagsk- 174 (538)
.++|+|-||-|+... + . ... |.++-+. ++.+++.|.|.||.-++... -++. ...|+|
T Consensus 61 FlRELISNaSDAldKiRy~~lt~~~~~~~~l~I~i~~nk~~~tlti~DtGIGMTk~dLvn--------nLGTIAkSGtK~ 132 (656)
T KOG0019|consen 61 FLRELISNASDALEKLRYLELKGDEKALPELEIRIITNKDKRTITIQDTGIGMTKEDLVN--------NLGTIAKSGSKA 132 (656)
T ss_pred HHHhhhccccchHHHHHHHhhcCccccccceeEEeccCCCcceEEEEecCCCcCHHHHHh--------hhhhhhhcccHH
Confidence 568999999887641 1 1 233 4444443 46899999999998765321 1222 222332
Q ss_pred CCCC---CCCeeeccccccchhhHHHhhcCeEEEEEEeC-CEEEEEEEeCCcccccceeeecCCCCCCCCCcEEEEEeCc
Q 009294 175 FGGS---SSGYSVSGGLHGVGLSVVNALSESLEVTVWRD-GMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDK 250 (538)
Q Consensus 175 f~~~---~~~yk~sgG~~GvGls~vnalS~~~~V~t~~~-g~~y~q~f~~G~~~~~~~~~~~~~~~~~~~GT~V~F~PD~ 250 (538)
|-.. ......--|+.|||.-+...++.+..|+++.+ ...|..++..|-.-. .. . ...-.+||.|...---
T Consensus 133 Fmealkea~ad~~~IGQFGvGFYSaylVAdkV~V~tk~~~~e~y~Wes~~~gs~~-v~--~---~~~~~rGTki~l~lKe 206 (656)
T KOG0019|consen 133 FLEALKEAEAESNLIGQFGVGFYSAFMVADRVVVTTRHPADEGLQWTSNGRGSYE-IA--E---ASGLRTGTKIVIHLKE 206 (656)
T ss_pred HHHHHHhcccchhhhhhcccchhhhhhhhheeEEeeccCCCcceeeecCCCCceE-Ee--e---ccCccccceEEeeehh
Confidence 2100 00112346999999999999999999998754 345666665543321 11 1 2236799999875100
Q ss_pred cccccccccCHHHHHHHHHHHHhhCCCcEEEEeeCCC
Q 009294 251 QVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDS 287 (538)
Q Consensus 251 ~~F~~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~~ 287 (538)
-+ ..-.+.++|++.+..... +=+.-|+|+.++.
T Consensus 207 -~~--~ey~ee~rikeiVKK~S~-Fv~yPI~l~~ek~ 239 (656)
T KOG0019|consen 207 -GD--CEFLEEKRIKEVVKKYSN-FVSYPIYLNGERV 239 (656)
T ss_pred -hh--hhhccHhHHHHHHhhccc-cccccchhhhhhh
Confidence 00 011344566666665542 1134466666553
No 105
>COG4564 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=90.41 E-value=0.53 Score=49.01 Aligned_cols=63 Identities=27% Similarity=0.313 Sum_probs=45.0
Q ss_pred hhhhhhCCCeeeccCC-----------CCchhHHHHHHHHhhHhhhccCCCCeEEEEEecCC---eEEEEECCCCccCCc
Q 009294 88 LEAVRKRPAMYIGSTG-----------PRGLHHLVYEILDNAVDEAQAGYASNIEVALLADN---SVSVADNGRGIPIDL 153 (538)
Q Consensus 88 lE~VrkRP~mYIGs~~-----------~~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg---~isV~DnGrGIP~~~ 153 (538)
+|..+.||||-|---. ...|+.++.|-|.|-=-++ .+++|.|.+..++ ..+|.|||+|.|+..
T Consensus 330 ~~~f~~~tg~~itle~~~~p~~l~~e~~talyRv~QEaltNIErHa---~Atrv~ill~~~~d~vql~vrDnG~GF~~~~ 406 (459)
T COG4564 330 LEDFKERTGIEITLEFDTQPGKLKPEVATALYRVVQEALTNIERHA---GATRVTILLQQMGDMVQLMVRDNGVGFSVKE 406 (459)
T ss_pred HHHhhhccCeEEEEEecCCcccCCcHHHHHHHHHHHHHHHHHHhhc---CCeEEEEEeccCCcceEEEEecCCCCccchh
Confidence 4556688988765322 1367777777777643322 4889999998654 689999999999875
No 106
>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=87.91 E-value=6.3 Score=36.68 Aligned_cols=88 Identities=18% Similarity=0.396 Sum_probs=55.8
Q ss_pred eEEEEEEEeccC---CCCceEEEeeCceec-cCCccchHHHHHHHHHHHHHHH-HhcCCCCCcCCCCCHHhHhccceEEE
Q 009294 330 ITIDLALQWCSD---AYSDTMLGYANSIRT-IDGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVREGLTCII 404 (538)
Q Consensus 330 i~veval~~s~~---~~~~~~~SFVN~I~T-~~GGTHv~g~~~al~k~in~~~-kk~~~~k~~~~~l~~~dIregL~~~v 404 (538)
..||+++.|--+ ...-.++=|+|-||- -+.|. .++|+++.+.- +..++. ..+ ..-+.+||
T Consensus 33 FiVEagiayGG~~~~~~~~~i~RfANRVPLlf~~g~------cvit~av~~i~W~~Ygi~------~~~---~~p~~v~V 97 (151)
T cd00823 33 FIVEVGIAYGGDIPADEKVELLRFANRVPLLYDAGA------CVITKAVESINWKRYGLE------QPG---QGPLVVLV 97 (151)
T ss_pred eEEEEeeeecCccCCCCCceEEEEcccCceeecccc------hHHHHHHHhCChhhcCcC------CCC---CCCEEEEE
Confidence 457888877521 113579999999984 34444 45566664432 222221 111 23578999
Q ss_pred EEeecCCCCCCccccccCC-hhhhhhhhh
Q 009294 405 SVRVPNPEFEGQTKTRLGN-PEVRKVVDQ 432 (538)
Q Consensus 405 svki~nP~FegQTKekL~n-~ev~~~v~~ 432 (538)
++--.+-.|.|--||.+++ ||+..-+..
T Consensus 98 hi~St~VPfts~~KeaIadvpEI~~EIrl 126 (151)
T cd00823 98 HVASTKVPFTSEGKEAIADIPEIEEEIKL 126 (151)
T ss_pred EEeecCCCcCCcchhhhcCCHHHHHHHHH
Confidence 9999999999999999987 555444433
No 107
>COG2972 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]
Probab=87.61 E-value=0.62 Score=51.04 Aligned_cols=48 Identities=21% Similarity=0.397 Sum_probs=36.2
Q ss_pred chhHHHHHHHHhhHhhhcc--CCCCeEEEEEec-CC--eEEEEECCCCccCCc
Q 009294 106 GLHHLVYEILDNAVDEAQA--GYASNIEVALLA-DN--SVSVADNGRGIPIDL 153 (538)
Q Consensus 106 gL~~lv~EivdNAiDe~~~--g~~~~I~V~i~~-dg--~isV~DnGrGIP~~~ 153 (538)
-+.-++-=+||||+-++.. .....|.|.+.. ++ .++|.|||.||.-..
T Consensus 350 ~p~l~lqpLvENAi~hgi~~~~~~~~I~i~~~~~~~~i~i~i~Dng~g~~~~~ 402 (456)
T COG2972 350 DPKLVLQPLVENAIEHGIEPKRPGGSIAISAKKQDDVIQISISDNGPGIDEEK 402 (456)
T ss_pred CchHHHhHHHHHHHHHhcccCCCCCEEEEEEEEcCCEEEEEEeeCCCCCChhH
Confidence 3456778899999999963 245578777774 44 589999999998664
No 108
>COG3275 LytS Putative regulator of cell autolysis [Signal transduction mechanisms]
Probab=87.33 E-value=1 Score=49.10 Aligned_cols=44 Identities=20% Similarity=0.375 Sum_probs=32.2
Q ss_pred HHHHHHHHhhHhhhccC--CCCeEEEEEec-CC--eEEEEECCCCccCC
Q 009294 109 HLVYEILDNAVDEAQAG--YASNIEVALLA-DN--SVSVADNGRGIPID 152 (538)
Q Consensus 109 ~lv~EivdNAiDe~~~g--~~~~I~V~i~~-dg--~isV~DnGrGIP~~ 152 (538)
=++.=+|+|||-++... ....|.|.+.. |+ .|.|+|||+||+.+
T Consensus 459 filQPLVENAIKHG~~~~~~~g~V~I~V~~~d~~l~i~VeDng~li~p~ 507 (557)
T COG3275 459 FILQPLVENAIKHGISQLKDTGRVTISVEKEDADLRIEVEDNGGLIQPD 507 (557)
T ss_pred hhhhHHHHHHHHhcccchhcCCceEEEEEEeCCeEEEEEecCCCCcCCC
Confidence 35778999999999753 23345555553 33 69999999999986
No 109
>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=85.15 E-value=8.8 Score=36.02 Aligned_cols=88 Identities=16% Similarity=0.343 Sum_probs=51.8
Q ss_pred eEEEEEEEeccC---CCCceEEEeeCceec-cCCccchHHHHHHHHHHHHHHHHhcCCCCCcCCCCCHHhHhccceEEEE
Q 009294 330 ITIDLALQWCSD---AYSDTMLGYANSIRT-IDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIIS 405 (538)
Q Consensus 330 i~veval~~s~~---~~~~~~~SFVN~I~T-~~GGTHv~g~~~al~k~in~~~kk~~~~k~~~~~l~~~dIregL~~~vs 405 (538)
..||+++.|--+ ...-.++=|+|-|+- -+.|. .++++++.+.- .++. .+...+ ..-+.+||+
T Consensus 42 FiVEagiayGG~~~~~~~~~ilRfANRVPLly~~g~------cvit~av~~i~-W~~Y------~l~~~~-~~p~~v~Vh 107 (160)
T PF09239_consen 42 FIVEAGIAYGGEIPPEGKIEILRFANRVPLLYDQGS------CVITKAVKSIN-WKRY------GLDQPG-NGPLVVFVH 107 (160)
T ss_dssp EEEEEEEEESTTS-SCSS-EEEEEETTEEE-STGCC------SHHHHHHHHS--GCCC------T--SSS--CSEEEEEE
T ss_pred EEEEEehhhccCCCCCCCceEEEEccCCceeecCCc------hHHHHHHHhCC-chhc------CcCCCC-CCCEEEEEE
Confidence 468888888521 123579999999984 34444 45677776542 2211 111111 346789999
Q ss_pred EeecCCCCCCccccccCC-hhhhhhhh
Q 009294 406 VRVPNPEFEGQTKTRLGN-PEVRKVVD 431 (538)
Q Consensus 406 vki~nP~FegQTKekL~n-~ev~~~v~ 431 (538)
+--.+-.|.|--||.+.+ +|+..-+.
T Consensus 108 i~ST~VPfts~~KeaIa~~pEI~~Ei~ 134 (160)
T PF09239_consen 108 IASTKVPFTSEGKEAIADVPEIEKEIR 134 (160)
T ss_dssp EEESS--BSSTTSSSB---HHHHHHHH
T ss_pred EeecccCccccchhhhcCcHHHHHHHH
Confidence 999999999999999983 45444333
No 110
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=71.26 E-value=50 Score=37.17 Aligned_cols=99 Identities=18% Similarity=0.394 Sum_probs=65.0
Q ss_pred eEEEEEEEeccCCC----CceEEEeeCceec-cCCccchHHHHHHHHHHHHHHH-HhcCCCCCcCCCCCHHhHhccceEE
Q 009294 330 ITIDLALQWCSDAY----SDTMLGYANSIRT-IDGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVREGLTCI 403 (538)
Q Consensus 330 i~veval~~s~~~~----~~~~~SFVN~I~T-~~GGTHv~g~~~al~k~in~~~-kk~~~~k~~~~~l~~~dIregL~~~ 403 (538)
..||+|+.|- ... .-.++=|+|-||- -+.|. .++++++.+.- +..++.. . =..-+.+|
T Consensus 353 fiVE~~iayG-g~~~~~~~~~i~RfANrvPLl~~~g~------~~~t~~v~~i~w~~Y~~~~-~--------~~~p~~v~ 416 (535)
T PRK04184 353 FIVEVGIAYG-GEIPPDDKPELLRFANRVPLLYDEGS------CVITKAVESIDWKRYGIEQ-P--------PQAPLVVL 416 (535)
T ss_pred eEEEEEeeec-CCCCCCCCceEEEEccCCceeecCCc------cHHHHHHHhCChhhcCcCC-C--------CCCCEEEE
Confidence 5688888885 222 2479999999983 34444 45676665432 2222211 1 01246889
Q ss_pred EEEeecCCCCCCccccccCC-hhhhhhhhhHHH---HHHHHHHHh
Q 009294 404 ISVRVPNPEFEGQTKTRLGN-PEVRKVVDQSVQ---EYLTEYLEL 444 (538)
Q Consensus 404 vsvki~nP~FegQTKekL~n-~ev~~~v~~~v~---~~l~~~l~~ 444 (538)
|++--.+-.|.|--|+..++ ||+..-+...+. .+|..||.+
T Consensus 417 vhi~St~vP~~s~~Ke~ia~~~ei~~ei~~al~~~~r~L~~~l~~ 461 (535)
T PRK04184 417 VHVASTKVPYTSEGKEAIADVPEIEKEIRLALQEVARKLKKYLSR 461 (535)
T ss_pred EEEeecCCCCCCcchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999987 666665555543 467777764
No 111
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=69.19 E-value=53 Score=37.92 Aligned_cols=99 Identities=13% Similarity=0.292 Sum_probs=64.4
Q ss_pred eEEEEEEEeccC---C----CCceEEEeeCceec-cCCccchHHHHHHHHHHHHHHH-HhcCCCCCcCCCCCHHhHhc-c
Q 009294 330 ITIDLALQWCSD---A----YSDTMLGYANSIRT-IDGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVRE-G 399 (538)
Q Consensus 330 i~veval~~s~~---~----~~~~~~SFVN~I~T-~~GGTHv~g~~~al~k~in~~~-kk~~~~k~~~~~l~~~dIre-g 399 (538)
..||+++.|--+ . ..-.++=|+|-||- -+.|. .++|+++...- +..++. +.-. -
T Consensus 498 FiVE~giayGG~~~~~~~~~~~~~i~RfANrvPLly~~g~------c~~t~~v~~i~W~~Y~l~----------~~~~~p 561 (659)
T PRK14867 498 FAVEVGLAYGGNAGRQGDEGRKMEIMRFSNHVPLLFDTSG------CGLTNAVKSVNWRRYGLR----------SDEDAP 561 (659)
T ss_pred EEEEEeeecCCcCCCCCccCCcceEEEeeccCceeecCcc------cHHHHHHHhCChhhcCcC----------CCCCCC
Confidence 468888888522 1 12369999999984 23333 45677665432 222221 1112 3
Q ss_pred ceEEEEEeecCCCCCCccccccC-----ChhhhhhhhhHHH---HHHHHHHHh
Q 009294 400 LTCIISVRVPNPEFEGQTKTRLG-----NPEVRKVVDQSVQ---EYLTEYLEL 444 (538)
Q Consensus 400 L~~~vsvki~nP~FegQTKekL~-----n~ev~~~v~~~v~---~~l~~~l~~ 444 (538)
+++||++--.+-.|.|--|+.+. +||+..-++..+. .+|..||.+
T Consensus 562 ~~v~vhv~St~vPfts~~Keaia~~~~~~~eI~~Ei~lAl~~~~r~L~~~l~~ 614 (659)
T PRK14867 562 ITVFVNLISTHIPYTSAGKQAIACSEEENEEIFNEIRQALMICARELEKYISR 614 (659)
T ss_pred EEEEEEEeecCCCCCCccHHHhhccCCCChHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78999999999999999999998 6777666665554 356666653
No 112
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=68.89 E-value=63 Score=35.99 Aligned_cols=98 Identities=18% Similarity=0.398 Sum_probs=62.1
Q ss_pred eEEEEEEEeccC---CCCceEEEeeCceec-cCCccchHHHHHHHHHHHHHHH-HhcCCCCCcCCCCCHHhHh-ccceEE
Q 009294 330 ITIDLALQWCSD---AYSDTMLGYANSIRT-IDGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVR-EGLTCI 403 (538)
Q Consensus 330 i~veval~~s~~---~~~~~~~SFVN~I~T-~~GGTHv~g~~~al~k~in~~~-kk~~~~k~~~~~l~~~dIr-egL~~~ 403 (538)
..||+|+.|--+ ...-.++=|+|-||- -+.|. .++++++.+.- +..++ + ++- .-+.+|
T Consensus 348 fiVE~~iayGg~~~~~~~~~i~RfaNrvPLl~~~g~------~~~t~~v~~i~w~~Y~~-~---------~~~~~p~~v~ 411 (488)
T TIGR01052 348 FIVEVGIAYGGNIGRRSEPEILRYANKVPLLYDAGS------CVLTKAVKSINWKRYGI-R---------DFPSAPLVVL 411 (488)
T ss_pred eEEEEeeecCCcCCCCCceeEEEecccCceeecccc------cHHHHHHHhCChhhcCC-C---------CCCCCCEEEE
Confidence 468888888521 112469999999984 33443 45677665432 22222 1 122 247899
Q ss_pred EEEeecCCCCCCccccccCC-hhhhhhhhhHHH---HHHHHHHH
Q 009294 404 ISVRVPNPEFEGQTKTRLGN-PEVRKVVDQSVQ---EYLTEYLE 443 (538)
Q Consensus 404 vsvki~nP~FegQTKekL~n-~ev~~~v~~~v~---~~l~~~l~ 443 (538)
|++--.+-.|.|--|+.+.+ ||+..-++..+. .+|..||.
T Consensus 412 vhi~St~vPf~s~~Ke~ia~~~ei~~ei~~al~~~~r~L~~~l~ 455 (488)
T TIGR01052 412 VNLASTNVPYTSTGKQSVADIPEIYNEIRLALMEVARRLRLYLS 455 (488)
T ss_pred EEEeecCCCCCCcchhhhcCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999964 666555544443 35555554
No 113
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=62.84 E-value=75 Score=37.29 Aligned_cols=104 Identities=16% Similarity=0.349 Sum_probs=65.8
Q ss_pred eEEEEEEEeccC---CCCceEEEeeCceecc-CCccchHHHHHHHHHHHHHHH-HhcCCCCCcCCCCCHHhHhc-cceEE
Q 009294 330 ITIDLALQWCSD---AYSDTMLGYANSIRTI-DGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVRE-GLTCI 403 (538)
Q Consensus 330 i~veval~~s~~---~~~~~~~SFVN~I~T~-~GGTHv~g~~~al~k~in~~~-kk~~~~k~~~~~l~~~dIre-gL~~~ 403 (538)
..||+++.|--+ ...-.++=|+|-+|-. +.|. .++++++...- +..++....+ ..+-. -+.+|
T Consensus 542 FiVEagiAYGG~~~~~g~~~i~RfANRVPLly~~ga------c~iT~~v~~i~Wr~Ygl~q~~g-----~g~p~~P~~v~ 610 (795)
T PRK14868 542 FIVEAGIAYGGEIDSEGSVDVMRFANRVPLVYQRGA------CATTDVVKSIGWRNYGLDQPGG-----SGLPNGPAVIM 610 (795)
T ss_pred eEEEEEeecCCcCCCCCCceEEEecccCceeecccc------cHHHHHHHhCChhhcCcCCCCC-----CCCCCCCEEEE
Confidence 568888888621 1124699999999842 3333 45666665442 2333321111 11122 36899
Q ss_pred EEEeecCCCCCCccccccCC-hhhhhhhhhHHH---HHHHHHHHh
Q 009294 404 ISVRVPNPEFEGQTKTRLGN-PEVRKVVDQSVQ---EYLTEYLEL 444 (538)
Q Consensus 404 vsvki~nP~FegQTKekL~n-~ev~~~v~~~v~---~~l~~~l~~ 444 (538)
|++--.|-.|.|--|+.+.+ ||+..-++..+. .+|..||.+
T Consensus 611 VhvaST~VPfts~sKeaIA~vpEI~~EI~lAl~~~aR~Lk~yl~k 655 (795)
T PRK14868 611 VHVASTNVPFTSESKDAIANVPEIEDEIELAIREAARELKSYLNK 655 (795)
T ss_pred EEEeecCCCCCCcchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999975 666665555543 478888875
No 114
>cd03486 MutL_Trans_MLH3 MutL_Trans_MLH3: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to yeast and human MLH3 (MutL homologue 3). MLH3 belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. 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. MLH1 forms heterodimers with MLH3. The MLH1-MLH3 complex plays a role in meiosis. A role for hMLH1-hMLH3 in DNA mismatch repair (MMR) has not been established. It has been suggested that hMLH3 may be a low risk gene for colorectal cancer; however there is little evidence to support it having a role in classical HNPCC.
Probab=61.24 E-value=1.3e+02 Score=27.37 Aligned_cols=86 Identities=12% Similarity=0.140 Sum_probs=42.0
Q ss_pred eeEEEEecceeEEEEEEEeccCCCCceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHh-cCCCCCcCCC------CC
Q 009294 320 VVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKK-SKTVKDKDIS------LS 392 (538)
Q Consensus 320 ~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk-~~~~k~~~~~------l~ 392 (538)
.+.+..+..++.++--+.-......+.|+-|||+++..+ ..|.++|++.-+. ....+..... -+
T Consensus 18 l~~v~~~~~~~~v~G~is~p~~~sk~~q~ifVN~R~v~~---------~~l~~aI~~~y~~~~~~~~~~~~~~~~~~~~~ 88 (141)
T cd03486 18 LKEVSAKFQEYEVSGYISSEGHYSKSFQFIYVNGRLYLK---------TRFHKLINKLFRKTSAVAKNKSSPQSKSSRRG 88 (141)
T ss_pred EEEeecccCcEEEEEEEcCCCCCCCceEEEEECCEEech---------HHHHHHHHHHHhhccccccccccccccccccc
Confidence 344444455566662221111334567899999999765 3455555554433 0000000000 00
Q ss_pred HHhHhccceEEEEEeecCCCCC
Q 009294 393 GEHVREGLTCIISVRVPNPEFE 414 (538)
Q Consensus 393 ~~dIregL~~~vsvki~nP~Fe 414 (538)
..-....=.+++++.+|.-..|
T Consensus 89 ~~~~~~~P~~vL~i~~p~~~vD 110 (141)
T cd03486 89 KRSQESYPVFVLNITCPASEYD 110 (141)
T ss_pred cCCccCCCEEEEEEecCchHhe
Confidence 0011233478888888766666
No 115
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=60.48 E-value=71 Score=35.18 Aligned_cols=100 Identities=19% Similarity=0.380 Sum_probs=66.4
Q ss_pred eEEEEEEEeccC---CCCceEEEeeCceec-cCCccchHHHHHHHHHHHHHHH-HhcCCCCCcCCCCCHHhHhccceEEE
Q 009294 330 ITIDLALQWCSD---AYSDTMLGYANSIRT-IDGGTHIEGVKASLTRTLNSLG-KKSKTVKDKDISLSGEHVREGLTCII 404 (538)
Q Consensus 330 i~veval~~s~~---~~~~~~~SFVN~I~T-~~GGTHv~g~~~al~k~in~~~-kk~~~~k~~~~~l~~~dIregL~~~v 404 (538)
..||+++.|--+ +....++=|+|-++- -+-|. .++++++.++- +..| +...+ --|.++|
T Consensus 357 FiVEvgiAYGG~i~~~e~~~llRyANrvPLlyd~g~------cv~tk~V~~i~WkrYg--------l~~~~--aplvvlV 420 (538)
T COG1389 357 FIVEVGIAYGGNIPGGEKPLLLRYANRVPLLYDAGS------CVITKVVESIDWKRYG--------LDQPD--APLVVLV 420 (538)
T ss_pred eEEEEEeeccCCCCCCcchhhhhhcccCceeeecCc------chhhHhhhhccceecC--------cCCCC--CcEEEEE
Confidence 568888888621 122358899999884 22222 45677776653 2222 22222 5679999
Q ss_pred EEeecCCCCCCccccccC-ChhhhhhhhhHH---HHHHHHHHHhC
Q 009294 405 SVRVPNPEFEGQTKTRLG-NPEVRKVVDQSV---QEYLTEYLELH 445 (538)
Q Consensus 405 svki~nP~FegQTKekL~-n~ev~~~v~~~v---~~~l~~~l~~n 445 (538)
++--.|-.|.|--|+... .|++..-+...+ ..+|..||.+.
T Consensus 421 hv~St~VPyts~gKqsIa~vpeIe~Eir~Al~evaRkL~~yLsrk 465 (538)
T COG1389 421 HVASTNVPYTSAGKQSIADVPEIENEIRLALMEVARKLKLYLSRK 465 (538)
T ss_pred EecccCCCcCCccchhccccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999998 566655555444 35788888754
No 116
>cd03484 MutL_Trans_hPMS_2_like MutL_Trans_hPMS2_like: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to human PSM2 (hPSM2). hPSM2 belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. 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. Included in this group are proteins similar to yeast PMS1. The yeast MLH1-PMS1 and the human MLH1-PMS2 heterodimers play a role in meiosis. hMLH1-hPMS2 also participates in the repair of all DNA mismatch repair (MMR) substrates. Cells lacking hPMS2 have a strong mutator phenotype and display microsatellite instability (MSI). Mutation in hPMS2 causes predisposition to HPNCC and Turcot syndrome.
Probab=60.30 E-value=1.2e+02 Score=27.66 Aligned_cols=56 Identities=18% Similarity=0.219 Sum_probs=34.7
Q ss_pred CceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHhcCCCCCcCCCCCHHhHhccceEEEEEeecCCCCCC---ccccc
Q 009294 344 SDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEG---QTKTR 420 (538)
Q Consensus 344 ~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~~~~k~~~~~l~~~dIregL~~~vsvki~nP~Feg---QTKek 420 (538)
...++.|||+++... ..+..+|.++-..+. + ...-.+++++.+|.-..|- ++|..
T Consensus 63 ~~~q~~fVN~R~V~~-----~~l~~aI~~~y~~~~------~-----------~~~P~~vL~i~vp~~~vDvNVhP~K~e 120 (142)
T cd03484 63 SDRQFFYINGRPVDL-----KKVAKLINEVYKSFN------S-----------RQYPFFILNISLPTSLYDVNVTPDKRT 120 (142)
T ss_pred CCcEEEEECCeecCC-----HHHHHHHHHHHHHhc------C-----------cCCcEEEEEEEeCCcceeeeeCCccCE
Confidence 467999999999764 344444443333332 1 1123788999998777773 66655
Q ss_pred c
Q 009294 421 L 421 (538)
Q Consensus 421 L 421 (538)
.
T Consensus 121 V 121 (142)
T cd03484 121 V 121 (142)
T ss_pred E
Confidence 3
No 117
>PF10691 DUF2497: Protein of unknown function (DUF2497) ; InterPro: IPR019632 Members of this family belong to the Alphaproteobacteria. The function of the family is not known.
Probab=58.94 E-value=21 Score=29.27 Aligned_cols=32 Identities=16% Similarity=0.520 Sum_probs=26.0
Q ss_pred hhhhhhhHHHHHHHHHHHhC-hHHHHHHHHHHH
Q 009294 426 VRKVVDQSVQEYLTEYLELH-PDVLDSILSKSL 457 (538)
Q Consensus 426 v~~~v~~~v~~~l~~~l~~n-~~~~~~I~~~~~ 457 (538)
+...|...+...|.+||++| |.+++.++++=|
T Consensus 35 lE~lvremLRPmLkeWLD~nLP~lVErlVr~EI 67 (73)
T PF10691_consen 35 LEDLVREMLRPMLKEWLDENLPGLVERLVREEI 67 (73)
T ss_pred HHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence 56677788888999999998 888888887544
No 118
>cd00782 MutL_Trans MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. 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. Included in this group are proteins similar to human MLH1, hPMS2, hPMS1, hMLH3 and E. coli MutL, MLH1 forms heterodimers with PMS2, PMS1 and MLH3. These three complexes have distinct functions in meiosis. hMLH1-hPMS2 also participates in the repair of all DNA mismatch repair (MMR) substrates. Roles for hMLH1-hPMS1 or hMLH1-hMLH3 in MMR have not been established. Cells lacking either hMLH1 or hPMS2 have a strong mutator phenotype and display microsatellite instability (MSI). Mutation in hMLH1 causes predisposition to HNPCC, Muir-Torre syndrome and Turcot synd
Probab=55.85 E-value=94 Score=27.15 Aligned_cols=51 Identities=12% Similarity=0.146 Sum_probs=30.8
Q ss_pred CCceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHhcCCCCCcCCCCCHHhHhccceEEEEEeecCCCCC
Q 009294 343 YSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFE 414 (538)
Q Consensus 343 ~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~~~~k~~~~~l~~~dIregL~~~vsvki~nP~Fe 414 (538)
..+.++.|||+++... ..|.++|+...+..... +..-.+++++.++.-.+|
T Consensus 42 ~~~~q~~fVN~R~v~~---------~~l~~ai~~~y~~~~~~------------~~~P~~~L~i~~~~~~~D 92 (122)
T cd00782 42 SKDRQFLFVNGRPVRD---------KLLSKAINEAYRSYLPK------------GRYPVFVLNLELPPELVD 92 (122)
T ss_pred CCccEEEEECCeEecC---------HHHHHHHHHHHHHhCcC------------CCCcEEEEEEEeChhhee
Confidence 3567999999999764 23445554443332110 123378888888765555
No 119
>PF01119 DNA_mis_repair: DNA mismatch repair protein, C-terminal domain; InterPro: IPR013507 This entry represents the C-terminal domain of DNA mismatch repair proteins, such as MutL. This domain functions in promoting dimerisation []. The dimeric MutL protein has a key function in communicating mismatch recognition by MutS to downstream repair processes. Mismatch repair contributes to the overall fidelity of DNA replication by targeting mispaired bases that arise through replication errors during homologous recombination and as a result of DNA damage. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex [].; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 1B62_A 1NHJ_A 1BKN_B 1NHH_A 1B63_A 1NHI_A 3NA3_A 1EA6_A 1H7U_A 1H7S_B ....
Probab=54.09 E-value=1.5e+02 Score=25.94 Aligned_cols=80 Identities=13% Similarity=0.188 Sum_probs=42.7
Q ss_pred eeEEEEecceeEEEEEEEec--cCCCCceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHhcCCCCCcCCCCCHHhHh
Q 009294 320 VVGFRKDVDGITIDLALQWC--SDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVR 397 (538)
Q Consensus 320 ~i~~~~~~~~i~veval~~s--~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~~~~k~~~~~l~~~dIr 397 (538)
.+.++.+.+++.++.-+.-. .....+.++-|||+++...- .|.++|++.-+... .+ .
T Consensus 13 l~~i~~~~~~~~i~G~is~p~~~~~~~~~q~ifVN~R~V~~~---------~l~~~I~~~y~~~~-~~-----------~ 71 (119)
T PF01119_consen 13 LIEIDSEDEDFSIEGYISKPDVSRSSRDRQFIFVNGRPVENK---------ALSKAINEAYRERL-PK-----------G 71 (119)
T ss_dssp EEEEEEEECCEEEEEEEE-SSCSBSSCTCEEEEETTEEE--H---------HHHHHHHHHHHCTT-CT-----------T
T ss_pred cEEEeccCCCEEEEEEEECchhccCCCCcEEEEeCCCeEeCh---------HHHHHHHHHHhhcc-cC-----------C
Confidence 35556566667777333221 12334689999999998662 55666665544211 11 1
Q ss_pred ccceEEEEEeecCCCCC---Cccccc
Q 009294 398 EGLTCIISVRVPNPEFE---GQTKTR 420 (538)
Q Consensus 398 egL~~~vsvki~nP~Fe---gQTKek 420 (538)
..=.+++++.++.-.+| ..+|..
T Consensus 72 ~~P~~vL~i~~p~~~vDVNvhP~K~e 97 (119)
T PF01119_consen 72 RYPIFVLFIEIPPSEVDVNVHPAKRE 97 (119)
T ss_dssp SB-EEEEEEE-SGGGEEETSSTTTT-
T ss_pred CCceEEEEEEcchHHccccccccceE
Confidence 23378888888755555 344444
No 120
>COG2865 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]
Probab=45.74 E-value=36 Score=37.58 Aligned_cols=44 Identities=20% Similarity=0.403 Sum_probs=31.7
Q ss_pred hHHHHHHHHhhHhhhccCC-CCeEEEEEecCCeEEEEECCCCccCCc
Q 009294 108 HHLVYEILDNAVDEAQAGY-ASNIEVALLADNSVSVADNGRGIPIDL 153 (538)
Q Consensus 108 ~~lv~EivdNAiDe~~~g~-~~~I~V~i~~dg~isV~DnGrGIP~~~ 153 (538)
..++.|+|.||+=+..--. ...|.|.+.+| +|.|++.| |.|.+.
T Consensus 272 ~~alREai~NAv~HRDYs~~~~~v~I~iydD-RieI~NPG-gl~~gi 316 (467)
T COG2865 272 LEALREAIINAVIHRDYSIRGRNVHIEIYDD-RIEITNPG-GLPPGI 316 (467)
T ss_pred HHHHHHHHHHHHHhhccccCCCceEEEEECC-eEEEECCC-CCCCCC
Confidence 4689999999995432111 23788888855 89999988 677665
No 121
>cd03482 MutL_Trans_MutL MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. 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 the ATP-binding site to the DNA breakage/reunion regions of the enzymes. It has been suggested that during initiation of DNA mismatch repair in E. coli, the mismatch recognition protein MutS recruits MutL in the presence of ATP. The MutS(ATP)-MutL ternary complex formed, then recruits the latent endonuclease MutH. Prokaryotic MutS and MutL are homodimers.
Probab=45.39 E-value=1.4e+02 Score=26.60 Aligned_cols=52 Identities=8% Similarity=0.089 Sum_probs=29.5
Q ss_pred CCCceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHhcCCCCCcCCCCCHHhHhccceEEEEEeecCCCCC
Q 009294 342 AYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFE 414 (538)
Q Consensus 342 ~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~~~~k~~~~~l~~~dIregL~~~vsvki~nP~Fe 414 (538)
+..+.|+.|||+++..+ . .|.++|++.-+.... + ...-.+|+++.+|.-..|
T Consensus 41 ~~~~~q~ifVN~R~V~~-----~----~l~~ai~~~y~~~~~-~-----------~~~P~~vL~l~ipp~~vD 92 (123)
T cd03482 41 SQADIQYFYVNGRMVRD-----K----LISHAVRQAYSDVLH-G-----------GRHPAYVLYLELDPAQVD 92 (123)
T ss_pred CCCCcEEEEEcCcEECC-----h----HHHHHHHHHHHHhcc-C-----------CCCcEEEEEEEcChHhee
Confidence 33567999999999865 2 344444443322110 0 112377888888654444
No 122
>KOG4518 consensus Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]
Probab=41.56 E-value=28 Score=34.04 Aligned_cols=39 Identities=21% Similarity=0.186 Sum_probs=34.2
Q ss_pred CCeeeccCCCCchhHHHHHHHHhhHhhhccCCCCeEEEE
Q 009294 95 PAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVA 133 (538)
Q Consensus 95 P~mYIGs~~~~gL~~lv~EivdNAiDe~~~g~~~~I~V~ 133 (538)
-+|..|+++.+|-.+.|++-||-|||.+.+=.|.+|.+.
T Consensus 68 d~~~~G~~svpg~~k~FR~~Ld~ai~yAkalgC~rIHlm 106 (264)
T KOG4518|consen 68 DDGFRGLASVPGAKKEFRKSLDTAIEYAKALGCCRIHLM 106 (264)
T ss_pred hhhccCcccCCchHHHHHHHHHHHHHHHHHhCCceEEEe
Confidence 369999999999999999999999999987668777654
No 123
>PF00640 PID: Phosphotyrosine interaction domain (PTB/PID) A page on PI domains.; InterPro: IPR006020 The PI domain has a similar structure to the insulin receptor substrate-1 PTB domain, a 7-stranded beta-sandwich, capped by a C-terminal helix. However, the PI domain contains an additional short N-terminal helix and a large insertion between strands 1 and 2, which forms a helix and 2 long connecting loops. The substrate peptide fits into a surface cleft formed from the C-terminal helix and strand 5 [].; GO: 0005515 protein binding; PDB: 1WGU_A 2YT0_A 2YT1_A 2YSZ_A 2ROZ_B 3SO6_A 2DYQ_A 1AQC_A 1X11_B 1WJ1_A ....
Probab=38.13 E-value=34 Score=30.40 Aligned_cols=58 Identities=21% Similarity=0.330 Sum_probs=37.7
Q ss_pred eeeccCCCCch--------hHHHHHHHHhhHhh-------h--ccCCCCeEEEEEecCCeEEEEECCCCccCCccC
Q 009294 97 MYIGSTGPRGL--------HHLVYEILDNAVDE-------A--QAGYASNIEVALLADNSVSVADNGRGIPIDLHP 155 (538)
Q Consensus 97 mYIGs~~~~gL--------~~lv~EivdNAiDe-------~--~~g~~~~I~V~i~~dg~isV~DnGrGIP~~~h~ 155 (538)
-|+||+..... ..++.+.+.....+ . .......+.+.|..+ .|.|.|.-.+-.+..||
T Consensus 4 kYLGs~~V~~~~~~~~~~g~~~v~~ai~~~~~~~~~~~~~~~~~~~~~~~V~l~vs~~-gI~v~~~~t~~~l~~~~ 78 (140)
T PF00640_consen 4 KYLGSVEVSSSRRGDKSRGSDVVREAIQRLKAEKIAKSKKSKSNKKKPQKVTLNVSSD-GIKVIDPDTGEVLMSHP 78 (140)
T ss_dssp EEEEEEEESSSSSTCHHHHHHHHHHHHHHHHHHCCCSHHHHHTTTSTSEEEEEEEETT-EEEEEETTTTCEEEEEE
T ss_pred EEEEEEEECCccCCCcchhHHHHHHHHHHHHhhhhhhhhccccccccCeEEEEEEcCC-eEEEecCccccccccCC
Confidence 59999875555 34566666665555 1 123456677777666 58898877777766665
No 124
>PF14484 FISNA: Fish-specific NACHT associated domain
Probab=37.79 E-value=20 Score=29.34 Aligned_cols=13 Identities=38% Similarity=0.680 Sum_probs=11.6
Q ss_pred ceEEEEEeCCCCc
Q 009294 498 ESEIFIVEGDSAG 510 (538)
Q Consensus 498 ~~eL~lvEGDSA~ 510 (538)
-++||||||+|-+
T Consensus 30 YTeLyIteg~~~~ 42 (73)
T PF14484_consen 30 YTELYITEGGSGE 42 (73)
T ss_pred ceeeeEeccCCCc
Confidence 4899999999986
No 125
>cd03485 MutL_Trans_hPMS_1_like MutL_Trans_hPMS1_like: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to human PSM1 (hPSM1) and yeast MLH2. hPSM1 and yMLH2 are members of the DNA mismatch repair (MutL/MLH1/PMS2) family. 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. PMS1 forms a heterodimer with MLH1. The MLH1-PMS1 complex functions in meiosis. Loss of yMLH2 results in a small but significant decrease in spore viability and a significant increase in gene conversion frequencies. A role for hMLH1-hPMS1 in DNA mismatch repair has not been established. Mutation in hMLH1 accounts for a large fraction of Lynch syndrome (HNPCC) families, however there is no convincing evidence to support hPMS1 having a role in HNPCC predisposition.
Probab=35.95 E-value=3.2e+02 Score=24.41 Aligned_cols=54 Identities=20% Similarity=0.153 Sum_probs=32.7
Q ss_pred CceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHhcCCCCCcCCCCCHHhHhccceEEEEEeecCCCCC
Q 009294 344 SDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFE 414 (538)
Q Consensus 344 ~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~~~~k~~~~~l~~~dIregL~~~vsvki~nP~Fe 414 (538)
.+.|+.|||+++...+ ..+..+|.++...+..+.. ....-.+++++.++.-..|
T Consensus 48 ~~~q~~fVN~R~v~~~----~~l~k~i~~~y~~~~~~~~-------------~~~~P~~~L~i~~~~~~vD 101 (132)
T cd03485 48 SDGKFISVNSRPVSLG----KDIGKLLRQYYSSAYRKSS-------------LRRYPVFFLNILCPPGLVD 101 (132)
T ss_pred CCcEEEEECCeecccc----hHHHHHHHHHHHHHhcccc-------------ccCCCEEEEEEEcCCCcee
Confidence 4678999999998652 2344444444444332211 1223488899999877777
No 126
>cd03483 MutL_Trans_MLH1 MutL_Trans_MLH1: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to yeast and human MLH1 (MutL homologue 1). 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. MLH1 forms heterodimers with PMS2, PMS1 and MLH3. These three complexes have distinct functions in meiosis. hMLH1-hPMS2 also participates in the repair of all DNA mismatch repair (MMR) substrates. Roles for hMLH1-hPMS1 or hMLH1-hMLH3 in MMR have not been established. Cells lacking hMLH1 have a strong mutator phenotype and display microsatellite instability (MSI). Mutation in hMLH1 causes predisposition to HNPCC, Muir-Torre syndrome and Turcot syndrome (HNPCC variant). Mutation in hMLH1 accounts for a large fraction of HNPCC families.
Probab=33.52 E-value=3.4e+02 Score=24.15 Aligned_cols=50 Identities=10% Similarity=0.140 Sum_probs=29.1
Q ss_pred CceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHhcCCCCCcCCCCCHHhHhccceEEEEEeecCCCCC
Q 009294 344 SDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFE 414 (538)
Q Consensus 344 ~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~~~~k~~~~~l~~~dIregL~~~vsvki~nP~Fe 414 (538)
.+.|+.|||+++..+ ..|.++|++.-+.. +.+ ...=.+|+++.++.-..|
T Consensus 47 ~~~q~~fVNgR~V~~---------~~l~~aI~~~Y~~~--l~~----------~~~P~~~L~i~i~p~~vD 96 (127)
T cd03483 47 KIIFILFINNRLVEC---------SALRRAIENVYANY--LPK----------GAHPFVYLSLEIPPENVD 96 (127)
T ss_pred CceEEEEEcCCEecC---------HHHHHHHHHHHHHh--CcC----------CCccEEEEEEEeChHHee
Confidence 467999999999855 23455554433321 110 011277888888765555
No 127
>PF11169 DUF2956: Protein of unknown function (DUF2956); InterPro: IPR021339 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=32.81 E-value=91 Score=27.18 Aligned_cols=44 Identities=30% Similarity=0.380 Sum_probs=23.3
Q ss_pred CCccccccCChhhhhhhhhHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 009294 414 EGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQK 476 (538)
Q Consensus 414 egQTKekL~n~ev~~~v~~~v~~~l~~~l~~n~~~~~~I~~~~~~~~ka~~aakkar~~~~~k 476 (538)
.|||||. -+.+.+-+.+.+.+|-+. ...|+|++-|..+...|.|
T Consensus 18 pGQTKEQ------TKLIAqGIeKGIa~YKKQ-------------qK~KaRe~DK~rKk~~k~k 61 (103)
T PF11169_consen 18 PGQTKEQ------TKLIAQGIEKGIAEYKKQ-------------QKEKAREADKARKKQQKAK 61 (103)
T ss_pred CCCCHHH------HHHHHHHHHHHHHHHHHH-------------HHHHHHHHhHHHHHHHHHh
Confidence 4788886 234444455556665543 3456666555444333434
No 128
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=22.83 E-value=81 Score=32.23 Aligned_cols=32 Identities=28% Similarity=0.431 Sum_probs=26.3
Q ss_pred hhccCCCCeEEEEEecCC-eEEEEECCCCccCC
Q 009294 121 EAQAGYASNIEVALLADN-SVSVADNGRGIPID 152 (538)
Q Consensus 121 e~~~g~~~~I~V~i~~dg-~isV~DnGrGIP~~ 152 (538)
++.+|.++.|+|.=++|. -++|+|||-|-..-
T Consensus 121 AHvkGq~kEv~v~KsedalGlTITDNG~GyAFI 153 (334)
T KOG3938|consen 121 AHVKGQAKEVEVVKSEDALGLTITDNGAGYAFI 153 (334)
T ss_pred hhhcCcceeEEEEecccccceEEeeCCcceeee
Confidence 566788999999988776 59999999996654
No 129
>cd01213 tensin Tensin Phosphotyrosine-binding (PTB) domain. Tensin Phosphotyrosine-binding (PTB) domain. Tensin is a a focal adhesion protein, which contains a C-terminal SH2 domain followed by a PTB domain. PTB domains have a PH-like fold and are found in various eukaryotic signaling molecules. They were initially identified based upon their ability to recognize phosphorylated tyrosine residues. In contrast to SH2 domains, which recognize phosphotyrosine and adjacent carboxy-terminal residues, PTB-domain binding specificity is conferred by residues amino-terminal to the phosphotyrosine. More recent studies have found that some types of PTB domains can bind to peptides which are not tyrosine phosphorylated or lack tyrosine residues altogether.
Probab=22.02 E-value=96 Score=28.58 Aligned_cols=47 Identities=17% Similarity=0.374 Sum_probs=26.3
Q ss_pred CeeeccCCCC------chhHHHHHHHHhhHhhhccCCCCeEEEEEecCCeEEEEECCC
Q 009294 96 AMYIGSTGPR------GLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGR 147 (538)
Q Consensus 96 ~mYIGs~~~~------gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg~isV~DnGr 147 (538)
-+|+||.+.. ...+.+.+++..+. ...++.+.+.|..+| |++.||=+
T Consensus 10 v~yLgS~evesltg~~av~kAv~~~l~~~~----~~~~t~vh~kVS~qG-ItLtDn~r 62 (138)
T cd01213 10 VLYLGSVDTESLTGNEAIKKAIAQCSGQAP----DPQATEVHFKVSSQG-ITLTDNTR 62 (138)
T ss_pred eeeeeeEeeccccCcHHHHHHHHHHHhcCC----CCCceEEEEEEEcCC-eeeecccc
Confidence 3799998753 33455555553211 112445556665554 88888744
No 130
>cd01267 CED6_AIDA1b Phosphotyrosine-binding (PTB) domain, phosphotyrosine-interaction (PI) domain. Phosphotyrosine-binding (PTB) domain, phosphotyrosine-interaction (PI) domain. PTB domains have a PH-like fold and are found in various eukaryotic signaling molecules. They were initially identified based upon their ability to recognize phosphorylated tyrosine residues. In contrast to SH2 domains, which recognize phosphotyrosine and adjacent carboxy-terminal residues, PTB-domain binding specificity is conferred by residues amino-terminal to the phosphotyrosine. More recent studies have found that some types of PTB domains can bind to peptides which are not tyrosine phosphorylated or lack tyrosine residues altogether.
Probab=20.95 E-value=1.3e+02 Score=27.00 Aligned_cols=61 Identities=20% Similarity=0.230 Sum_probs=33.4
Q ss_pred CeeeccCCCCchhHHHHHHHHhhHhhhcc--------C-CCCeEEEEEecCCeEEEEECCCCccCCccCCCCc
Q 009294 96 AMYIGSTGPRGLHHLVYEILDNAVDEAQA--------G-YASNIEVALLADNSVSVADNGRGIPIDLHPATNK 159 (538)
Q Consensus 96 ~mYIGs~~~~gL~~lv~EivdNAiDe~~~--------g-~~~~I~V~i~~dg~isV~DnGrGIP~~~h~~~g~ 159 (538)
.-|+|++....+.. .+++..|+..-.. + ...+|.+.|..+| |.|.|--.+-..-.||-..+
T Consensus 6 vkyLGs~~V~~~~g--~~~~~~Ai~~l~~~~~~~~~~~~k~~~V~L~IS~~g-i~i~d~~t~~~l~~~~i~~I 75 (132)
T cd01267 6 AKFLGSLEIGKLKG--TEVAREAIRKLKFSRILKTAEWEKIPKVELDISIKG-VKIIDPKTKTVLHGHPLYNI 75 (132)
T ss_pred EEEEEEEEecCCCC--hHHHHHHHHHHHhhhhcchhccCCCCeEEEEEEcCc-EEEEeCCCCcEEEEcccceE
Confidence 46999987532211 1333333332221 1 3456777777665 78888766666655654444
Done!