Query         gi|254780877|ref|YP_003065290.1| ATP-dependent Clp protease, ATP-binding subunit protein [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 853
No_of_seqs    202 out of 3669
Neff          6.0 
Searched_HMMs 39220
Date          Mon May 30 02:48:00 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780877.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 PRK10865 protein disaggregatio 100.0       0       0 2037.2  92.2  850    1-850     1-855 (857)
  2 TIGR03346 chaperone_ClpB ATP-d 100.0       0       0 2029.3  90.5  845    6-850     1-852 (852)
  3 TIGR02639 ClpA ATP-dependent C 100.0       0       0 2020.2  54.9  728    6-843     1-774 (774)
  4 TIGR03345 VI_ClpV1 type VI sec 100.0       0       0 1953.8  87.2  821    6-843     1-850 (852)
  5 CHL00095 clpC Clp protease ATP 100.0       0       0 1931.4  82.1  787    3-851     2-812 (823)
  6 COG0542 clpA ATP-binding subun 100.0       0       0 1922.1  80.0  773    5-852     1-783 (786)
  7 PRK11034 clpA ATP-dependent Cl 100.0       0       0 1803.9  74.8  723    6-852     2-746 (758)
  8 KOG1051 consensus              100.0       0       0 1424.4  50.3  827    2-848     8-857 (898)
  9 pfam07724 AAA_2 AAA domain (Cd 100.0       0       0  411.5  12.7  160  596-755     1-168 (168)
 10 PRK10787 DNA-binding ATP-depen 100.0 6.3E-26 1.6E-30  229.7  29.8  436  324-832   105-563 (784)
 11 TIGR00763 lon ATP-dependent pr 100.0 2.7E-27 6.9E-32  240.8  22.0  252  538-831   380-668 (941)
 12 COG0466 Lon ATP-dependent Lon   99.9 1.3E-23 3.2E-28  211.0  30.7  442  323-834   104-567 (782)
 13 PRK05342 clpX ATP-dependent pr  99.9 3.9E-23 9.8E-28  207.0  17.7  251  561-826    65-381 (411)
 14 TIGR00382 clpX ATP-dependent C  99.9 1.5E-22 3.7E-27  202.3  13.5  264  561-842    94-439 (452)
 15 KOG2004 consensus               99.9 4.8E-19 1.2E-23  173.8  28.9  249  542-832   385-653 (906)
 16 PRK05201 hslU ATP-dependent pr  99.9 7.7E-20   2E-24  180.2  18.2  151  671-842   249-420 (442)
 17 COG1219 ClpX ATP-dependent pro  99.9 1.5E-19 3.9E-24  177.8  17.5  264  561-842    54-383 (408)
 18 KOG0730 consensus               99.8 4.7E-18 1.2E-22  165.7  23.8  405  197-819   216-648 (693)
 19 KOG0733 consensus               99.8 7.6E-17 1.9E-21  155.9  23.9  506  179-829   191-739 (802)
 20 KOG0745 consensus               99.8 1.7E-17 4.4E-22  161.1  16.6  209  600-824   228-509 (564)
 21 TIGR01243 CDC48 AAA family ATP  99.8   6E-14 1.5E-18  132.3  33.3  463  192-774   233-724 (980)
 22 KOG0736 consensus               99.7   5E-13 1.3E-17  124.8  28.7  160  174-355   398-577 (953)
 23 PRK13342 recombination factor   99.7 4.9E-15 1.3E-19  141.1  16.3  195  168-398     3-203 (417)
 24 COG0464 SpoVK ATPases of the A  99.7 4.8E-13 1.2E-17  125.0  24.4  178  596-827   274-466 (494)
 25 CHL00195 ycf46 Ycf46; Provisio  99.6 7.3E-13 1.9E-17  123.5  22.5  139  588-777   253-408 (491)
 26 KOG2170 consensus               99.6   3E-14 7.7E-19  134.8  13.1  218  559-801    73-318 (344)
 27 TIGR00390 hslU heat shock prot  99.6 7.9E-14   2E-18  131.4  14.7  259  564-843     8-442 (463)
 28 PRK13341 recombination factor   99.6   1E-13 2.6E-18  130.5  15.1  181  180-399    36-223 (726)
 29 PRK10923 glnG nitrogen regulat  99.6 1.2E-11   3E-16  113.7  25.2  224  569-821   139-369 (469)
 30 KOG0735 consensus               99.6 7.8E-11   2E-15  107.0  29.3  148  196-355   428-587 (952)
 31 PRK11361 acetoacetate metaboli  99.6 3.1E-11 7.9E-16  110.3  26.0  219  569-821   144-374 (457)
 32 pfam05496 RuvB_N Holliday junc  99.6 6.7E-13 1.7E-17  123.8  16.4  195  567-819    23-225 (234)
 33 pfam05496 RuvB_N Holliday junc  99.5 4.1E-13   1E-17  125.6  13.9  193  168-405    14-233 (234)
 34 PRK10365 transcriptional regul  99.5   4E-11   1E-15  109.4  23.4  220  569-821   140-370 (441)
 35 pfam10431 ClpB_D2-small C-term  99.5 4.6E-13 1.2E-17  125.1  11.9   85  761-845     1-85  (89)
 36 COG1220 HslU ATP-dependent pro  99.5 3.9E-12   1E-16  117.6  16.2   96  744-843   319-423 (444)
 37 PRK13342 recombination factor   99.5 4.9E-12 1.2E-16  116.8  14.7  184  568-819    13-202 (417)
 38 PRK12402 replication factor C   99.4 4.3E-12 1.1E-16  117.2  12.8  208  169-400     6-232 (337)
 39 COG2256 MGS1 ATPase related to  99.4 4.5E-12 1.2E-16  117.1  12.6  193  167-398    13-217 (436)
 40 KOG0741 consensus               99.4 1.7E-11 4.3E-16  112.4  14.9  195  161-380   226-439 (744)
 41 pfam07728 AAA_5 AAA domain (dy  99.4   1E-12 2.6E-17  122.3   8.7  113  601-721     2-124 (139)
 42 CHL00181 cbbX CbbX; Provisiona  99.4 3.9E-11   1E-15  109.4  16.7  163  201-376    61-227 (287)
 43 PRK11608 pspF phage shock prot  99.4 1.9E-11 4.9E-16  112.0  14.0  229  566-821     4-238 (325)
 44 PRK03992 proteasome-activating  99.4 5.3E-12 1.4E-16  116.5  11.2  198  567-824   131-354 (390)
 45 CHL00195 ycf46 Ycf46; Provisio  99.4   7E-10 1.8E-14   99.3  21.9  139  201-357   261-408 (491)
 46 CHL00181 cbbX CbbX; Provisiona  99.4 1.4E-10 3.6E-15  104.9  17.8  230  555-830    10-261 (287)
 47 PRK05022 anaerobic nitric oxid  99.4 5.2E-11 1.3E-15  108.4  15.1  218  568-821   186-417 (510)
 48 PRK11388 DNA-binding transcrip  99.4 8.3E-11 2.1E-15  106.8  15.7  223  568-820   325-551 (639)
 49 COG0714 MoxR-like ATPases [Gen  99.3 1.2E-11 3.1E-16  113.5  10.7  205  560-801    16-246 (329)
 50 PRK03992 proteasome-activating  99.3 4.4E-10 1.1E-14  100.9  18.5  141  197-355   164-317 (390)
 51 PRK06674 DNA polymerase III su  99.3 8.7E-11 2.2E-15  106.6  14.0  203  168-401     6-228 (563)
 52 PRK00440 rfc replication facto  99.3 1.5E-11 3.9E-16  112.7  10.0  197  169-399     7-208 (318)
 53 PRK06647 DNA polymerase III su  99.3 9.9E-11 2.5E-15  106.2  14.0  203  168-401     6-228 (560)
 54 PRK06305 DNA polymerase III su  99.3 9.2E-11 2.3E-15  106.4  13.7  203  168-401     7-230 (462)
 55 PRK10820 DNA-binding transcrip  99.3 2.8E-10 7.2E-15  102.5  16.0  222  567-821   203-428 (513)
 56 PRK05896 DNA polymerase III su  99.3 1.1E-10 2.9E-15  105.7  13.9  204  167-401     5-228 (613)
 57 PRK13341 recombination factor   99.3 5.1E-11 1.3E-15  108.5  12.1   92    5-104     3-110 (726)
 58 TIGR03346 chaperone_ClpB ATP-d  99.3 1.3E-07 3.3E-12   80.8  29.4   61   83-143     1-62  (852)
 59 PRK10865 protein disaggregatio  99.3 1.1E-07 2.9E-12   81.3  29.1  136   82-222     5-143 (857)
 60 COG2204 AtoC Response regulato  99.3 1.2E-08   3E-13   89.3  23.5  222  566-821   139-372 (464)
 61 COG5271 MDN1 AAA ATPase contai  99.3   3E-11 7.7E-16  110.3  10.2  154  595-777  1543-1706(4600)
 62 PRK07270 DNA polymerase III su  99.3 1.9E-10 4.7E-15  103.9  13.9  204  167-401     4-227 (557)
 63 PRK08451 DNA polymerase III su  99.3 1.5E-10 3.8E-15  104.7  13.3  204  168-402     4-227 (523)
 64 CHL00176 ftsH cell division pr  99.3   2E-09 5.2E-14   95.5  19.0  160  176-353   175-359 (631)
 65 CHL00095 clpC Clp protease ATP  99.3 6.4E-07 1.6E-11   75.2  30.7  191    5-205    79-276 (823)
 66 PRK05563 DNA polymerase III su  99.3 2.3E-10   6E-15  103.1  13.0  202  168-400     6-227 (541)
 67 PRK00080 ruvB Holliday junctio  99.3 2.4E-10 6.1E-15  103.1  13.0  197  564-815    21-226 (328)
 68 cd00009 AAA The AAA+ (ATPases   99.3   3E-11 7.7E-16  110.4   8.4  149  572-759     2-150 (151)
 69 COG1221 PspF Transcriptional r  99.2 7.1E-10 1.8E-14   99.2  14.8  222  563-822    73-308 (403)
 70 PRK07940 DNA polymerase III su  99.2 2.1E-10 5.3E-15  103.5  11.5  125  568-697     5-147 (395)
 71 PRK04195 replication factor C   99.2   1E-10 2.5E-15  106.2   9.8  181  169-379     5-195 (403)
 72 TIGR03345 VI_ClpV1 type VI sec  99.2 1.3E-07 3.3E-12   80.8  25.6   66   83-148     1-67  (852)
 73 PRK00411 cdc6 cell division co  99.2 4.3E-08 1.1E-12   84.7  23.1  208  178-400    30-261 (394)
 74 PRK05564 DNA polymerase III su  99.2 1.1E-10 2.9E-15  105.7   9.8  185  177-396     3-193 (313)
 75 pfam00158 Sigma54_activat Sigm  99.2 1.9E-10 4.9E-15  103.8  11.0  162  570-757     1-166 (168)
 76 PRK10733 hflB ATP-dependent me  99.2 4.4E-09 1.1E-13   92.8  17.9  159  176-352   150-333 (644)
 77 PRK07133 DNA polymerase III su  99.2 8.2E-10 2.1E-14   98.7  14.1  203  168-401     8-227 (718)
 78 TIGR02902 spore_lonB ATP-depen  99.2 3.7E-10 9.4E-15  101.5  12.2  206  567-817    64-306 (532)
 79 PRK07764 DNA polymerase III su  99.2 6.8E-10 1.7E-14   99.4  13.3  203  168-401     5-229 (775)
 80 pfam07726 AAA_3 ATPase family   99.2 9.3E-11 2.4E-15  106.4   8.2  108  601-720     2-112 (131)
 81 PRK09112 DNA polymerase III su  99.2 2.3E-10 5.9E-15  103.2  10.2  166  567-772    22-211 (352)
 82 COG2256 MGS1 ATPase related to  99.2 1.9E-10 4.9E-15  103.9   9.6  188  568-818    24-215 (436)
 83 PRK08853 DNA polymerase III su  99.2 7.2E-10 1.8E-14   99.2  12.1  203  168-401     6-228 (717)
 84 TIGR02397 dnaX_nterm DNA polym  99.2 7.1E-10 1.8E-14   99.2  12.1  192  568-818    14-220 (363)
 85 PRK00440 rfc replication facto  99.2 3.1E-09 7.9E-14   94.0  15.0  175  568-802    16-192 (318)
 86 COG0464 SpoVK ATPases of the A  99.2   7E-09 1.8E-13   91.1  16.6  142  197-356   274-425 (494)
 87 pfam00004 AAA ATPase family as  99.2 4.8E-10 1.2E-14  100.6  10.4  118  202-337     1-127 (131)
 88 cd00009 AAA The AAA+ (ATPases   99.2 3.9E-10   1E-14  101.3   9.8  141  181-335     1-145 (151)
 89 PRK07471 DNA polymerase III su  99.1 1.1E-09 2.8E-14   97.7  11.9  165  567-771    16-208 (363)
 90 COG5271 MDN1 AAA ATPase contai  99.1 1.4E-06 3.6E-11   72.4  27.7  143  595-770   888-1043(4600)
 91 PRK06645 DNA polymerase III su  99.1 2.5E-09 6.4E-14   94.8  13.5  202  169-401    12-237 (507)
 92 PRK13407 bchI magnesium chelat  99.1 4.7E-09 1.2E-13   92.5  14.9  217  568-816     8-279 (334)
 93 PRK11034 clpA ATP-dependent Cl  99.1 1.2E-06   3E-11   73.0  27.1   63    5-67     79-141 (758)
 94 PRK12402 replication factor C   99.1   3E-09 7.7E-14   94.1  13.8  184  568-802    15-216 (337)
 95 COG0542 clpA ATP-binding subun  99.1 2.6E-06 6.5E-11   70.3  28.5  189    5-205    73-267 (786)
 96 PRK08691 DNA polymerase III su  99.1 2.4E-09   6E-14   95.0  12.8  203  168-402     6-229 (704)
 97 KOG0989 consensus               99.1 4.7E-09 1.2E-13   92.5  14.1  176  567-802    35-220 (346)
 98 PRK07994 DNA polymerase III su  99.1 2.6E-09 6.7E-14   94.6  11.9  204  168-402     6-229 (643)
 99 PRK04195 replication factor C   99.1 1.5E-09 3.9E-14   96.5  10.1  176  568-802    14-193 (403)
100 PRK07003 DNA polymerase III su  99.1 3.2E-09 8.2E-14   93.9  11.8  203  168-402     6-229 (816)
101 KOG2028 consensus               99.1   2E-09 5.1E-14   95.5  10.7  188  167-378   127-327 (554)
102 PRK05563 DNA polymerase III su  99.1 3.5E-08   9E-13   85.4  17.0   46  669-718   425-475 (541)
103 PRK09111 DNA polymerase III su  99.1 1.2E-08   3E-13   89.3  14.4  199  170-400    15-239 (600)
104 TIGR02928 TIGR02928 orc1/cdc6   99.1 1.9E-07 4.8E-12   79.5  20.4  215  179-404    18-271 (383)
105 pfam00004 AAA ATPase family as  99.1 3.4E-10 8.6E-15  101.9   6.2  115  601-759     1-130 (131)
106 PRK10733 hflB ATP-dependent me  99.1 1.9E-09 4.8E-14   95.8  10.0  164  567-776   151-337 (644)
107 TIGR02903 spore_lon_C ATP-depe  99.1 2.5E-09 6.4E-14   94.8  10.6  227  567-845   154-423 (616)
108 COG1223 Predicted ATPase (AAA+  99.1 3.3E-09 8.4E-14   93.8  11.1  201  567-831   120-339 (368)
109 CHL00176 ftsH cell division pr  99.0 2.5E-09 6.3E-14   94.8  10.3  163  567-776   176-362 (631)
110 TIGR02902 spore_lonB ATP-depen  99.0 2.2E-09 5.5E-14   95.3   9.7  214  165-403    52-314 (532)
111 pfam01078 Mg_chelatase Magnesi  99.0 3.6E-09 9.1E-14   93.5  10.8  180  568-766     3-207 (207)
112 COG1222 RPT1 ATP-dependent 26S  99.0 4.3E-09 1.1E-13   92.8  11.1  162  568-776   151-337 (406)
113 CHL00081 chlI Mg-protoporyphyr  99.0 2.2E-08 5.6E-13   87.1  14.4  210  568-812    12-283 (347)
114 PRK00411 cdc6 cell division co  99.0 1.6E-08 4.1E-13   88.2  13.5  209  567-811    29-250 (394)
115 PRK07399 DNA polymerase III su  99.0 8.3E-09 2.1E-13   90.5  11.9  166  567-773     3-194 (314)
116 COG3604 FhlA Transcriptional r  99.0 5.4E-08 1.4E-12   83.9  15.1  216  568-821   223-454 (550)
117 PRK00080 ruvB Holliday junctio  99.0 7.3E-08 1.9E-12   82.9  15.7  187  172-403    19-232 (328)
118 PRK12323 DNA polymerase III su  99.0 1.4E-08 3.5E-13   88.8  11.6  203  168-402     6-234 (721)
119 KOG0740 consensus               99.0 2.1E-08 5.3E-13   87.3  12.3  166  195-383   182-358 (428)
120 KOG0738 consensus               99.0 7.3E-08 1.9E-12   82.9  14.9  166  172-355   206-396 (491)
121 PRK05648 DNA polymerase III su  98.9 2.5E-08 6.3E-13   86.7  12.0  200  169-401     7-228 (705)
122 TIGR02640 gas_vesic_GvpN gas v  98.9 2.9E-09 7.5E-14   94.2   7.1  129  572-719     2-159 (265)
123 pfam01637 Arch_ATPase Archaeal  98.9 4.6E-07 1.2E-11   76.4  18.3  189  180-378     1-214 (223)
124 TIGR00635 ruvB Holliday juncti  98.9 1.9E-08 4.8E-13   87.6  11.1  176  568-802     4-191 (305)
125 PRK08770 DNA polymerase III su  98.9 2.4E-08   6E-13   86.8  11.3  203  168-402     6-229 (663)
126 TIGR00635 ruvB Holliday juncti  98.9 8.9E-09 2.3E-13   90.3   8.8  160  176-376     2-190 (305)
127 TIGR01241 FtsH_fam ATP-depende  98.9 2.4E-09 6.2E-14   94.8   5.9  160  177-355    58-244 (505)
128 COG2255 RuvB Holliday junction  98.9 5.5E-08 1.4E-12   83.9  12.7  176  174-394    22-224 (332)
129 PRK06872 DNA polymerase III su  98.9 4.8E-08 1.2E-12   84.3  12.0  201  169-401     7-228 (696)
130 KOG0730 consensus               98.9 9.1E-08 2.3E-12   82.1  13.4  159  180-357   435-618 (693)
131 PRK07270 DNA polymerase III su  98.9 4.4E-07 1.1E-11   76.5  16.8  116  229-373   113-240 (557)
132 PRK08058 DNA polymerase III su  98.9 5.4E-08 1.4E-12   83.9  11.9  182  178-396     5-207 (329)
133 pfam06068 TIP49 TIP49 C-termin  98.9 6.1E-08 1.6E-12   83.5  12.0  103  672-804   277-379 (395)
134 TIGR03420 DnaA_homol_Hda DnaA   98.9 3.9E-07   1E-11   76.9  15.5  160  601-818    41-204 (226)
135 PRK06647 DNA polymerase III su  98.8 9.4E-07 2.4E-11   73.8  17.2   23  673-695   122-144 (560)
136 PRK06674 DNA polymerase III su  98.8 1.4E-06 3.6E-11   72.5  17.7  115  230-375   115-242 (563)
137 PRK06645 DNA polymerase III su  98.8 1.2E-06 3.1E-11   72.9  17.0  199  567-818    20-232 (507)
138 PRK06305 DNA polymerase III su  98.8 1.5E-06 3.7E-11   72.3  17.2  192  567-818    16-225 (462)
139 TIGR01241 FtsH_fam ATP-depende  98.8   1E-07 2.7E-12   81.6  11.2  194  567-817    58-274 (505)
140 PRK09862 putative ATP-dependen  98.8 5.3E-07 1.4E-11   75.8  14.3  227  568-817   191-466 (506)
141 PRK08451 DNA polymerase III su  98.8 1.7E-06 4.3E-11   71.8  16.5  125  568-719    14-155 (523)
142 COG1474 CDC6 Cdc6-related prot  98.8 6.9E-06 1.8E-10   66.8  19.5  207  180-402    19-246 (366)
143 PRK05896 DNA polymerase III su  98.8 1.8E-06 4.7E-11   71.5  16.5   58  705-772   511-570 (613)
144 TIGR02928 TIGR02928 orc1/cdc6   98.8 5.8E-08 1.5E-12   83.7   8.7  219  566-818    13-263 (383)
145 COG1474 CDC6 Cdc6-related prot  98.8 2.4E-07 6.1E-12   78.6  11.8  199  566-801    15-223 (366)
146 TIGR03420 DnaA_homol_Hda DnaA   98.7 5.7E-07 1.5E-11   75.6  13.5  173  180-380    18-194 (226)
147 PRK07003 DNA polymerase III su  98.7 3.6E-06 9.1E-11   69.1  17.4  194  102-321    15-239 (816)
148 COG0714 MoxR-like ATPases [Gen  98.7 1.2E-06 2.9E-11   73.1  14.5  152  179-350    25-198 (329)
149 KOG0734 consensus               98.7 4.3E-07 1.1E-11   76.6  12.4  155  174-351   300-481 (752)
150 TIGR02903 spore_lon_C ATP-depe  98.7 5.5E-07 1.4E-11   75.7  12.8  205  172-403   149-405 (616)
151 KOG0733 consensus               98.7 2.2E-06 5.7E-11   70.8  15.8  215  114-355   463-693 (802)
152 PRK04132 replication factor C   98.7 1.9E-08 4.8E-13   87.7   4.9   54  170-223    17-70  (863)
153 TIGR03015 pepcterm_ATPase puta  98.7 5.2E-06 1.3E-10   67.8  17.2  188  184-380    28-231 (269)
154 PRK07133 DNA polymerase III su  98.7 5.2E-06 1.3E-10   67.8  17.1   46  230-283   114-161 (718)
155 COG2255 RuvB Holliday junction  98.7 5.7E-07 1.4E-11   75.6  11.8  199  562-816    20-228 (332)
156 COG3829 RocR Transcriptional r  98.7 2.6E-06 6.7E-11   70.2  15.1  217  568-821   245-477 (560)
157 PRK08853 DNA polymerase III su  98.7   2E-06 5.1E-11   71.2  14.4  195  102-321    15-239 (717)
158 KOG0727 consensus               98.7 6.9E-07 1.8E-11   74.9  11.9  141  588-770   183-334 (408)
159 TIGR01817 nifA Nif-specific re  98.7 1.2E-06 3.1E-11   72.9  12.9  215  567-819   211-441 (574)
160 PRK00149 dnaA chromosomal repl  98.7 6.5E-06 1.6E-10   67.0  16.6  173  180-374   122-306 (447)
161 COG2812 DnaX DNA polymerase II  98.7 1.9E-07 4.8E-12   79.5   8.7  200  169-401     7-228 (515)
162 PRK05642 DNA replication initi  98.6 4.8E-06 1.2E-10   68.1  15.7  157  600-818    47-211 (234)
163 KOG0736 consensus               98.6 1.4E-06 3.6E-11   72.4  12.9  221  522-809   632-882 (953)
164 pfam05621 TniB Bacterial TniB   98.6 2.5E-07 6.3E-12   78.6   8.9  157  187-350    46-222 (302)
165 COG1222 RPT1 ATP-dependent 26S  98.6 2.9E-06 7.3E-11   69.9  13.8  160  180-358   153-339 (406)
166 TIGR01242 26Sp45 26S proteasom  98.6 1.4E-07 3.5E-12   80.6   7.1  160  567-774   121-306 (364)
167 KOG0731 consensus               98.6 2.9E-07 7.4E-12   78.0   8.7  159  177-353   310-494 (774)
168 PRK05342 clpX ATP-dependent pr  98.6   2E-06   5E-11   71.3  12.9   87  198-296   108-200 (411)
169 COG1224 TIP49 DNA helicase TIP  98.6 1.6E-06   4E-11   72.0  12.3  111  672-817   293-403 (450)
170 PRK05564 DNA polymerase III su  98.6  0.0001 2.6E-09   57.3  21.5  157  568-773     4-164 (313)
171 KOG2028 consensus               98.6 2.5E-07 6.4E-12   78.5   8.0  225  526-816   109-337 (554)
172 PRK08084 DNA replication initi  98.6 7.7E-06   2E-10   66.4  15.6  157  601-818    48-212 (235)
173 COG0470 HolB ATPase involved i  98.6 7.1E-07 1.8E-11   74.8  10.2  181  179-392     2-204 (325)
174 pfam00493 MCM MCM2/3/5 family.  98.6 4.3E-06 1.1E-10   68.5  14.2  218  559-801    15-269 (327)
175 pfam06309 Torsin Torsin. This   98.6 1.6E-07   4E-12   80.2   6.8   71  559-631    16-88  (127)
176 PRK13765 ATP-dependent proteas  98.6 1.4E-06 3.5E-11   72.5  11.3   49  174-224    27-75  (637)
177 PRK12422 chromosomal replicati  98.6 7.3E-05 1.9E-09   58.5  20.0  172  179-374   113-300 (455)
178 PRK08769 DNA polymerase III su  98.6   9E-07 2.3E-11   74.0  10.2  185  185-400    11-215 (319)
179 PRK13531 regulatory ATPase Rav  98.6   4E-07   1E-11   76.9   8.3  101  161-281     7-117 (498)
180 PRK09111 DNA polymerase III su  98.6 1.8E-05 4.7E-10   63.4  16.8  129  230-397   127-268 (600)
181 PRK08116 hypothetical protein;  98.6 4.2E-07 1.1E-11   76.7   8.2  149  600-781   110-261 (262)
182 PRK11331 5-methylcytosine-spec  98.6 1.3E-05 3.3E-10   64.6  15.7  215  596-830   194-443 (459)
183 COG1223 Predicted ATPase (AAA+  98.5 2.3E-06 5.8E-11   70.7  11.8  169  169-356   112-299 (368)
184 COG0606 Predicted ATPase with   98.5 3.1E-06 7.9E-11   69.6  12.3  261  529-818   140-446 (490)
185 pfam00308 Bac_DnaA Bacterial d  98.5 5.2E-06 1.3E-10   67.8  13.2  174  594-818    30-211 (219)
186 PRK12377 putative replication   98.5 4.6E-07 1.2E-11   76.4   7.8  105  598-724   101-209 (248)
187 PRK05642 DNA replication initi  98.5 1.2E-05   3E-10   64.9  15.0  186  180-397    22-215 (234)
188 KOG0735 consensus               98.5 2.5E-06 6.4E-11   70.4  11.4  157  570-773   669-847 (952)
189 PRK08903 hypothetical protein;  98.5 2.6E-06 6.6E-11   70.3  11.2  153  601-819    45-203 (227)
190 KOG0731 consensus               98.5 8.9E-06 2.3E-10   65.9  13.9  170  567-779   310-500 (774)
191 pfam00308 Bac_DnaA Bacterial d  98.5 1.4E-06 3.6E-11   72.4   9.8  198  180-401    11-216 (219)
192 PRK07132 DNA polymerase III su  98.5 3.9E-06 9.9E-11   68.8  11.7  132  202-351    23-161 (303)
193 PRK08084 DNA replication initi  98.5 4.4E-05 1.1E-09   60.3  17.0  189  180-399    25-218 (235)
194 TIGR02881 spore_V_K stage V sp  98.5 5.8E-06 1.5E-10   67.4  12.2  206  579-834    24-249 (261)
195 TIGR02397 dnaX_nterm DNA polym  98.5 3.3E-05 8.4E-10   61.3  16.0  200  171-402     7-226 (363)
196 PRK08691 DNA polymerase III su  98.5 5.9E-05 1.5E-09   59.2  17.2   43  103-145    16-63  (704)
197 smart00382 AAA ATPases associa  98.5 9.7E-08 2.5E-12   81.9   3.0  119  599-720     3-125 (148)
198 PRK10923 glnG nitrogen regulat  98.5 4.3E-06 1.1E-10   68.5  11.3  204  174-422   134-367 (469)
199 PRK13407 bchI magnesium chelat  98.5 2.6E-05 6.8E-10   62.1  15.4  150  180-352    10-214 (334)
200 pfam07728 AAA_5 AAA domain (dy  98.5   3E-07 7.7E-12   77.9   5.3  116  201-333     1-139 (139)
201 PRK08727 hypothetical protein;  98.4 2.2E-05 5.6E-10   62.7  14.7  169  600-830    43-229 (233)
202 PRK11608 pspF phage shock prot  98.4 1.2E-05 3.2E-10   64.7  13.2  204  174-422     2-236 (325)
203 PRK13531 regulatory ATPase Rav  98.4 0.00013 3.3E-09   56.5  18.3   34  380-415   247-280 (498)
204 TIGR01242 26Sp45 26S proteasom  98.4 4.4E-06 1.1E-10   68.4  10.6  138  201-357   158-309 (364)
205 PRK11361 acetoacetate metaboli  98.4 1.5E-05 3.7E-10   64.1  13.2  203  175-422   140-372 (457)
206 PRK06893 DNA replication initi  98.4 1.7E-05 4.4E-10   63.6  13.4  163  600-819    41-207 (229)
207 PRK12323 DNA polymerase III su  98.4 0.00012 3.1E-09   56.7  17.7   44  102-145    15-63  (721)
208 KOG0732 consensus               98.4 3.4E-06 8.7E-11   69.3   9.7  164  200-380   300-473 (1080)
209 CHL00081 chlI Mg-protoporyphyr  98.4 7.5E-05 1.9E-09   58.4  16.5  204  180-403    14-280 (347)
210 COG0593 DnaA ATPase involved i  98.4 0.00042 1.1E-08   52.3  20.3  155  198-376   112-275 (408)
211 KOG0744 consensus               98.4 3.7E-06 9.4E-11   69.0   9.7  144  590-780   172-346 (423)
212 PRK07952 DNA replication prote  98.4 1.6E-06   4E-11   72.1   7.8  107  598-727    96-208 (242)
213 pfam05673 DUF815 Protein of un  98.4 8.3E-05 2.1E-09   58.0  16.5  189  568-802    28-230 (248)
214 PRK07764 DNA polymerase III su  98.4  0.0001 2.7E-09   57.2  16.9  121  567-698    14-148 (775)
215 KOG0728 consensus               98.4 2.9E-06 7.4E-11   69.9   8.8  150  589-788   176-342 (404)
216 KOG0739 consensus               98.4 5.9E-06 1.5E-10   67.4  10.1  132  192-342   157-300 (439)
217 PRK08727 hypothetical protein;  98.4 8.3E-05 2.1E-09   58.0  15.9  188  180-398    22-212 (233)
218 TIGR02974 phageshock_pspF psp   98.4 2.2E-05 5.6E-10   62.7  13.0  219  570-822     1-232 (349)
219 KOG0737 consensus               98.4 3.8E-06 9.6E-11   68.9   9.0  140  198-356   126-276 (386)
220 PRK07994 DNA polymerase III su  98.4 0.00019 4.8E-09   55.1  17.6   45  102-146    15-64  (643)
221 PRK10787 DNA-binding ATP-depen  98.3   2E-05 5.1E-10   63.0  12.5  174  180-375   324-533 (784)
222 TIGR00368 TIGR00368 Mg chelata  98.3   1E-06 2.6E-11   73.6   5.6  219  568-816   194-478 (505)
223 PRK05648 DNA polymerase III su  98.3  0.0002   5E-09   55.0  16.9   44  102-145    15-63  (705)
224 pfam00493 MCM MCM2/3/5 family.  98.3 0.00036 9.2E-09   52.8  18.1  176  197-396    55-268 (327)
225 PRK06893 DNA replication initi  98.3 0.00017 4.3E-09   55.5  16.3  187  180-398    19-211 (229)
226 COG0465 HflB ATP-dependent Zn   98.3 4.8E-05 1.2E-09   60.0  13.2  158  176-351   148-330 (596)
227 COG0466 Lon ATP-dependent Lon   98.3 2.4E-05 6.1E-10   62.4  11.6  175  180-376   325-536 (782)
228 PRK08770 DNA polymerase III su  98.3 0.00039 9.9E-09   52.6  17.5   45  102-146    15-64  (663)
229 PRK11331 5-methylcytosine-spec  98.3 3.2E-05 8.1E-10   61.4  11.8  148  184-340   181-357 (459)
230 KOG0989 consensus               98.3   6E-05 1.5E-09   59.1  13.2  204  166-397    24-234 (346)
231 KOG0737 consensus               98.2   8E-06   2E-10   66.3   8.6  165  555-774    93-274 (386)
232 pfam06068 TIP49 TIP49 C-termin  98.2 8.9E-05 2.3E-09   57.8  13.9   45  200-245    51-96  (395)
233 PRK05201 hslU ATP-dependent pr  98.2 5.6E-05 1.4E-09   59.4  12.9   72  564-639    11-88  (442)
234 KOG1942 consensus               98.2 4.3E-05 1.1E-09   60.4  12.2  118  672-825   298-415 (456)
235 COG3283 TyrR Transcriptional r  98.2 0.00011 2.8E-09   57.0  14.2  219  568-820   204-429 (511)
236 smart00382 AAA ATPases associa  98.2 9.5E-06 2.4E-10   65.7   8.7  128  199-338     2-143 (148)
237 PRK06835 DNA replication prote  98.2 7.8E-06   2E-10   66.4   8.1  145  575-746   163-311 (330)
238 PRK08903 hypothetical protein;  98.2 0.00015 3.7E-09   56.0  14.6  181  180-398    21-207 (227)
239 pfam02861 Clp_N Clp amino term  98.2 3.4E-06 8.6E-11   69.3   6.2   52   17-68      1-52  (53)
240 PHA02244 ATPase-like protein    98.2 9.4E-05 2.4E-09   57.6  13.5  114  592-720   116-230 (383)
241 TIGR00763 lon ATP-dependent pr  98.2 1.7E-05 4.3E-10   63.6   9.7  159  199-376   447-640 (941)
242 PRK09183 transposase/IS protei  98.2 4.7E-06 1.2E-10   68.2   6.8  117  600-739   103-226 (258)
243 PRK05917 DNA polymerase III su  98.2   7E-06 1.8E-10   66.8   7.6  105  574-697     3-122 (290)
244 TIGR02880 cbbX_cfxQ CbbX prote  98.2 0.00017 4.4E-09   55.4  14.7  196  586-828    47-258 (284)
245 COG1239 ChlI Mg-chelatase subu  98.2 5.1E-05 1.3E-09   59.8  11.9  205  566-804    15-282 (423)
246 PRK06872 DNA polymerase III su  98.2 0.00053 1.3E-08   51.5  17.0   46  102-147    15-65  (696)
247 COG1219 ClpX ATP-dependent pro  98.2   8E-05   2E-09   58.2  12.8   76  197-284    95-175 (408)
248 COG1484 DnaC DNA replication p  98.2 3.1E-06 7.9E-11   69.6   5.5  101  599-723   106-211 (254)
249 PRK12422 chromosomal replicati  98.2 6.4E-05 1.6E-09   58.9  12.1  208  564-819   108-317 (455)
250 KOG0738 consensus               98.2 8.9E-06 2.3E-10   65.9   7.6  109  569-695   213-341 (491)
251 pfam03215 Rad17 Rad17 cell cyc  98.2 0.00015 3.7E-09   56.0  13.7  142  156-307     5-160 (490)
252 TIGR01243 CDC48 AAA family ATP  98.2 6.1E-05 1.5E-09   59.1  11.7  291   22-352   410-722 (980)
253 COG1224 TIP49 DNA helicase TIP  98.2 0.00022 5.7E-09   54.5  14.6   66  178-245    39-111 (450)
254 PRK09112 DNA polymerase III su  98.2  0.0003 7.6E-09   53.5  15.1  199  178-400    23-248 (352)
255 COG0465 HflB ATP-dependent Zn   98.2 5.1E-05 1.3E-09   59.7  11.1  110  567-695   149-278 (596)
256 pfam08298 AAA_PrkA PrkA AAA do  98.2  0.0001 2.7E-09   57.2  12.7  108  672-800   235-344 (358)
257 KOG2004 consensus               98.1 0.00011 2.8E-09   57.1  12.7  184  171-374   403-622 (906)
258 pfam01078 Mg_chelatase Magnesi  98.1 3.3E-05 8.3E-10   61.3   9.8  111  180-310     5-137 (207)
259 PRK11388 DNA-binding transcrip  98.1 7.3E-05 1.9E-09   58.5  11.4  201  176-421   323-549 (639)
260 PRK10820 DNA-binding transcrip  98.1 0.00017 4.4E-09   55.5  13.1  199  174-421   200-425 (513)
261 PRK05707 DNA polymerase III su  98.1   2E-05 5.2E-10   63.0   8.3  162  201-396    24-206 (328)
262 PRK00149 dnaA chromosomal repl  98.1 7.1E-05 1.8E-09   58.6  11.1  198  565-819   117-323 (447)
263 pfam07726 AAA_3 ATPase family   98.1 2.7E-06   7E-11   70.1   3.7  110  201-334     1-130 (131)
264 PRK05022 anaerobic nitric oxid  98.1 6.7E-05 1.7E-09   58.8  10.6  199  179-422   187-415 (510)
265 TIGR00678 holB DNA polymerase   98.1 4.1E-05 1.1E-09   60.5   9.4  143  596-773    12-192 (216)
266 PRK06526 transposase; Provisio  98.1 1.2E-05 3.1E-10   64.9   6.5  103  600-725   100-205 (254)
267 COG3284 AcoR Transcriptional a  98.1 0.00021 5.4E-09   54.7  12.8  214  571-819   316-536 (606)
268 KOG0743 consensus               98.1   4E-05   1E-09   60.6   9.0  172  600-820   237-435 (457)
269 COG2607 Predicted ATPase (AAA+  98.1  0.0008   2E-08   50.0  15.6  168  570-774    62-239 (287)
270 PRK08939 primosomal protein Dn  98.1 5.8E-05 1.5E-09   59.3   9.7  127  575-727   139-268 (306)
271 PRK07471 DNA polymerase III su  98.1  0.0011 2.9E-08   48.8  16.3  193  179-398    18-242 (363)
272 COG0470 HolB ATPase involved i  98.0 0.00019 4.8E-09   55.1  12.3  124  569-720     2-148 (325)
273 KOG0734 consensus               98.0 5.2E-05 1.3E-09   59.7   9.3  126  568-720   304-448 (752)
274 TIGR01818 ntrC nitrogen regula  98.0  0.0012 3.2E-08   48.5  16.3  233  566-848   133-382 (471)
275 KOG0739 consensus               98.0 9.8E-05 2.5E-09   57.4  10.5  129  570-720   135-278 (439)
276 pfam01695 IstB IstB-like ATP b  98.0 1.6E-05 4.1E-10   63.8   6.3  104  600-726    49-155 (178)
277 PRK09087 hypothetical protein;  98.0 8.3E-05 2.1E-09   58.0   9.7  170  594-831    40-221 (226)
278 PRK09862 putative ATP-dependen  98.0  0.0005 1.3E-08   51.7  13.5  114  176-312   189-327 (506)
279 PRK08769 DNA polymerase III su  98.0   0.001 2.6E-08   49.2  15.1  150  573-770     9-181 (319)
280 TIGR00382 clpX ATP-dependent C  98.0 1.4E-05 3.5E-10   64.3   5.5  138  168-327   124-275 (452)
281 PRK06964 DNA polymerase III su  98.0   7E-05 1.8E-09   58.6   9.1  174  192-396    14-228 (342)
282 COG1241 MCM2 Predicted ATPase   98.0 0.00079   2E-08   50.1  14.3  243  561-836   279-583 (682)
283 KOG0726 consensus               98.0   7E-06 1.8E-10   66.7   3.8  161  569-774   186-369 (440)
284 COG2204 AtoC Response regulato  98.0 0.00023 5.9E-09   54.4  11.5  203  176-424   139-372 (464)
285 PRK08181 transposase; Validate  98.0 1.2E-05   3E-10   64.9   4.8  102  600-724   108-212 (269)
286 smart00350 MCM minichromosome   98.0 0.00036 9.3E-09   52.8  12.4  221  561-801   196-449 (509)
287 PRK07399 DNA polymerase III su  98.0  0.0035   9E-08   44.8  21.8  195  176-396     2-224 (314)
288 TIGR03015 pepcterm_ATPase puta  98.0 0.00044 1.1E-08   52.1  12.7  202  573-824    28-243 (269)
289 KOG0729 consensus               97.9 5.5E-05 1.4E-09   59.5   8.0   77  604-695   217-306 (435)
290 pfam05673 DUF815 Protein of un  97.9 0.00047 1.2E-08   51.9  12.7  114  177-315    27-149 (248)
291 PRK10365 transcriptional regul  97.9 9.7E-05 2.5E-09   57.5   9.0  200  178-422   139-368 (441)
292 smart00763 AAA_PrkA PrkA AAA d  97.9 0.00048 1.2E-08   51.8  12.3  107  672-799   238-346 (361)
293 TIGR02915 PEP_resp_reg putativ  97.9 0.00083 2.1E-08   49.9  13.4  218  568-821   142-373 (451)
294 KOG0652 consensus               97.9 0.00016 4.1E-09   55.7   9.7  155  570-774   173-355 (424)
295 PRK08699 DNA polymerase III su  97.9 6.7E-05 1.7E-09   58.8   7.5  141  197-351    19-182 (325)
296 KOG0744 consensus               97.9 0.00064 1.6E-08   50.8  12.2  150  202-356   180-342 (423)
297 COG1221 PspF Transcriptional r  97.9 0.00027 6.8E-09   53.9  10.1  152  174-345    74-251 (403)
298 PRK06921 hypothetical protein;  97.8 2.1E-05 5.3E-10   62.9   4.4  118  599-739   117-242 (265)
299 COG3854 SpoIIIAA ncharacterize  97.8 0.00028   7E-09   53.8  10.0  113  187-314   125-250 (308)
300 KOG0651 consensus               97.8 5.8E-05 1.5E-09   59.3   6.5  123  569-719   133-279 (388)
301 PRK06871 DNA polymerase III su  97.8 0.00017 4.4E-09   55.4   8.9  174  188-396    11-205 (324)
302 pfam07724 AAA_2 AAA domain (Cd  97.8 0.00011 2.7E-09   57.2   7.7   94  198-309     2-105 (168)
303 PRK07993 DNA polymerase III su  97.8 0.00018 4.5E-09   55.4   8.6  163  200-396    25-207 (334)
304 PRK07276 DNA polymerase III su  97.8 0.00048 1.2E-08   51.9  10.8  120  573-719     7-142 (290)
305 KOG0740 consensus               97.8 0.00054 1.4E-08   51.4  10.7  180  570-801   155-351 (428)
306 TIGR03499 FlhF flagellar biosy  97.8  0.0011 2.7E-08   49.0  12.0   77  599-677   195-279 (282)
307 PRK06090 DNA polymerase III su  97.7 0.00029 7.3E-09   53.6   8.9  163  198-396    24-204 (319)
308 COG3899 Predicted ATPase [Gene  97.7 0.00012 3.1E-09   56.6   7.0   49  179-227     1-52  (849)
309 KOG1969 consensus               97.7 0.00038 9.8E-09   52.6   9.5   88  180-281   306-397 (877)
310 TIGR02639 ClpA ATP-dependent C  97.7 0.00014 3.6E-09   56.2   7.2  178  570-802   210-409 (774)
311 PRK08058 DNA polymerase III su  97.7  0.0049 1.2E-07   43.6  15.0  162  568-770     5-178 (329)
312 pfam05729 NACHT NACHT domain.   97.7  0.0024 6.1E-08   46.1  13.5  140  202-350     3-158 (165)
313 COG0593 DnaA ATPase involved i  97.7 0.00062 1.6E-08   50.9  10.3  212  565-837    85-318 (408)
314 PRK00131 aroK shikimate kinase  97.7  0.0016 4.2E-08   47.5  12.1  145  197-365     2-151 (175)
315 COG1484 DnaC DNA replication p  97.7 0.00065 1.7E-08   50.8  10.0  112  198-324   104-218 (254)
316 KOG0991 consensus               97.7 0.00026 6.7E-09   54.0   7.9  181  169-380    18-207 (333)
317 PRK06620 hypothetical protein;  97.7  0.0012 3.1E-08   48.6  11.2  145  600-818    46-192 (214)
318 PRK08181 transposase; Validate  97.7 0.00017 4.3E-09   55.5   6.8   89  184-283    90-179 (269)
319 KOG0728 consensus               97.7  0.0026 6.6E-08   45.9  12.8  149  191-358   173-335 (404)
320 PRK05703 flhF flagellar biosyn  97.7   0.002 5.1E-08   46.8  12.2   90  595-686   207-304 (412)
321 TIGR02442 Cob-chelat-sub cobal  97.6  0.0054 1.4E-07   43.3  14.2  207  180-406     6-275 (688)
322 pfam01695 IstB IstB-like ATP b  97.6 0.00054 1.4E-08   51.4   8.9   70  197-280    45-117 (178)
323 pfam00437 GSPII_E Type II/IV s  97.6   7E-05 1.8E-09   58.6   4.3   95  598-699   139-235 (283)
324 KOG0729 consensus               97.6   0.001 2.5E-08   49.2  10.1  154  180-351   179-358 (435)
325 smart00350 MCM minichromosome   97.6   0.011 2.8E-07   40.8  18.0  190  177-397   201-449 (509)
326 pfam01637 Arch_ATPase Archaeal  97.6  0.0024 6.1E-08   46.2  12.0  187  571-800     2-211 (223)
327 KOG1808 consensus               97.6 0.00015 3.8E-09   56.0   5.5   27  202-228   443-469 (1856)
328 pfam07693 KAP_NTPase KAP famil  97.6  0.0065 1.6E-07   42.7  13.8  124  672-818   162-293 (301)
329 pfam00158 Sigma54_activat Sigm  97.5 0.00012   3E-09   56.8   4.5  118  180-317     1-144 (168)
330 PRK12377 putative replication   97.5 0.00038 9.6E-09   52.7   7.1  102  198-318   100-206 (248)
331 PRK06526 transposase; Provisio  97.5 0.00027 6.9E-09   53.8   6.3   87  186-283    85-171 (254)
332 KOG0991 consensus               97.5  0.0017 4.3E-08   47.4  10.2  121  567-724    26-156 (333)
333 KOG0745 consensus               97.5  0.0002 5.2E-09   54.8   5.4  118  197-339   224-353 (564)
334 PRK09183 transposase/IS protei  97.5 0.00031 7.8E-09   53.4   6.3   84  187-283    89-175 (258)
335 COG3829 RocR Transcriptional r  97.5  0.0019 4.9E-08   46.9  10.3  206  175-423   242-476 (560)
336 TIGR02915 PEP_resp_reg putativ  97.5 0.00052 1.3E-08   51.5   7.3  230  123-421    97-370 (451)
337 PRK06090 DNA polymerase III su  97.5  0.0089 2.3E-07   41.5  13.6  105  599-721    26-148 (319)
338 KOG0652 consensus               97.5  0.0036 9.1E-08   44.8  11.3  168  180-366   173-367 (424)
339 TIGR02881 spore_V_K stage V sp  97.5    0.01 2.6E-07   41.0  13.7  161  185-355    19-192 (261)
340 pfam00910 RNA_helicase RNA hel  97.5  0.0002 5.2E-09   54.9   4.9   95  602-720     2-105 (105)
341 KOG0742 consensus               97.5   0.017 4.3E-07   39.3  27.3  191  576-817   362-586 (630)
342 KOG0743 consensus               97.5  0.0011 2.8E-08   48.9   8.5  112  195-332   231-358 (457)
343 KOG2035 consensus               97.4  0.0016   4E-08   47.6   9.1  199  171-398     6-233 (351)
344 PRK06871 DNA polymerase III su  97.4   0.012   3E-07   40.6  13.5  106  598-719    23-144 (324)
345 COG2812 DnaX DNA polymerase II  97.4   0.019 4.7E-07   38.9  17.1  200  103-321    16-239 (515)
346 pfam02861 Clp_N Clp amino term  97.4 0.00043 1.1E-08   52.2   6.0   51   94-144     1-52  (53)
347 pfam00931 NB-ARC NB-ARC domain  97.4   0.013 3.2E-07   40.3  13.4  150  183-354     1-169 (285)
348 KOG1970 consensus               97.4  0.0071 1.8E-07   42.3  11.8  168  155-340    67-266 (634)
349 pfam03266 DUF265 Protein of un  97.3   0.002 5.2E-08   46.7   8.4  132  201-345     1-162 (168)
350 PRK07132 DNA polymerase III su  97.3   0.003 7.6E-08   45.4   9.2  152  573-769     3-159 (303)
351 KOG0742 consensus               97.3  0.0052 1.3E-07   43.4  10.4  134  201-353   386-527 (630)
352 COG2804 PulE Type II secretory  97.3 0.00058 1.5E-08   51.1   5.4  100  595-700   255-355 (500)
353 PRK05057 aroK shikimate kinase  97.3  0.0041   1E-07   44.3   9.7  143  197-365     2-151 (172)
354 KOG2680 consensus               97.3  0.0022 5.5E-08   46.5   8.2  139  600-804   254-392 (454)
355 KOG0741 consensus               97.3 0.00085 2.2E-08   49.8   6.0   87  593-695   533-629 (744)
356 cd01129 PulE-GspE PulE/GspE Th  97.2 0.00073 1.9E-08   50.4   5.6   99  595-699    77-176 (264)
357 PRK12724 flagellar biosynthesi  97.2   0.001 2.6E-08   49.1   6.4   88  597-686   222-315 (432)
358 KOG0478 consensus               97.2  0.0044 1.1E-07   44.0   9.6  228  557-807   418-678 (804)
359 cd01131 PilT Pilus retraction   97.2  0.0011 2.9E-08   48.8   6.4   94  599-699     2-101 (198)
360 KOG2680 consensus               97.2   0.003 7.7E-08   45.3   8.5   75  329-417   346-424 (454)
361 TIGR02442 Cob-chelat-sub cobal  97.2  0.0069 1.8E-07   42.4  10.2  213  569-816     5-279 (688)
362 PRK05707 DNA polymerase III su  97.2   0.022 5.5E-07   38.4  12.7  110  595-720    19-145 (328)
363 PRK09087 hypothetical protein;  97.2   0.033 8.5E-07   36.8  13.4  170  184-397    29-202 (226)
364 KOG1051 consensus               97.2  0.0087 2.2E-07   41.6  10.4   68    4-71     88-155 (898)
365 KOG0651 consensus               97.1  0.0081 2.1E-07   41.9  10.1  158  176-351   130-313 (388)
366 COG4650 RtcR Sigma54-dependent  97.1    0.01 2.6E-07   41.1  10.5   27  672-698   284-310 (531)
367 PRK07993 DNA polymerase III su  97.1   0.035   9E-07   36.7  13.2  108  599-722    25-149 (334)
368 PRK06995 flhF flagellar biosyn  97.1  0.0014 3.6E-08   48.1   5.9  178  599-804   177-368 (404)
369 KOG0726 consensus               97.1  0.0014 3.6E-08   48.0   5.9  137  195-351   215-366 (440)
370 TIGR02880 cbbX_cfxQ CbbX prote  97.1  0.0088 2.2E-07   41.6   9.9  164  177-349    27-203 (284)
371 PRK13406 bchD magnesium chelat  97.0  0.0093 2.4E-07   41.4   9.6  164  201-406    27-216 (584)
372 PRK05917 DNA polymerase III su  97.0   0.043 1.1E-06   36.0  13.1  124  199-340    19-153 (290)
373 PRK06731 flhF flagellar biosyn  97.0  0.0022 5.6E-08   46.4   6.3  109  575-685    52-169 (270)
374 PRK07940 DNA polymerase III su  97.0   0.045 1.1E-06   35.8  27.5  174  176-379     3-208 (395)
375 PTZ00112 origin recognition co  97.0  0.0018 4.5E-08   47.2   5.7  179  178-374   267-472 (650)
376 COG0606 Predicted ATPase with   97.0 0.00096 2.4E-08   49.4   4.3  143  179-363   180-347 (490)
377 PRK13765 ATP-dependent proteas  97.0  0.0012   3E-08   48.7   4.7  125  273-402   228-381 (637)
378 PRK08116 hypothetical protein;  97.0  0.0029 7.5E-08   45.4   6.8   70  201-280   110-181 (262)
379 pfam00931 NB-ARC NB-ARC domain  97.0   0.015 3.9E-07   39.6  10.4  121  575-719     3-136 (285)
380 COG1936 Predicted nucleotide k  97.0   0.009 2.3E-07   41.5   9.1  143  601-774     3-151 (180)
381 PRK03731 aroL shikimate kinase  97.0    0.02   5E-07   38.7  10.8  147  199-367     2-153 (172)
382 pfam05729 NACHT NACHT domain.   97.0  0.0072 1.8E-07   42.3   8.6  141  600-774     2-162 (165)
383 PRK13894 conjugal transfer ATP  97.0  0.0015 3.8E-08   47.8   4.9   90  600-698   151-245 (320)
384 PRK13900 type IV secretion sys  96.9  0.0012 3.2E-08   48.5   4.4   90  600-698   162-260 (332)
385 COG1643 HrpA HrpA-like helicas  96.9   0.002 5.1E-08   46.8   5.4  148  179-338    50-231 (845)
386 PRK10436 hypothetical protein;  96.9 0.00078   2E-08   50.1   3.3  100  595-700   212-312 (461)
387 cd01130 VirB11-like_ATPase Typ  96.9  0.0012 3.2E-08   48.5   4.2   94  599-698    26-125 (186)
388 KOG0732 consensus               96.9  0.0057 1.4E-07   43.1   7.5   88  183-284   579-666 (1080)
389 PTZ00111 DNA replication licen  96.9   0.038 9.7E-07   36.4  11.7  182  561-766   444-649 (916)
390 PRK06696 uridine kinase; Valid  96.9  0.0026 6.7E-08   45.8   5.7   68  575-648     9-76  (227)
391 COG1239 ChlI Mg-chelatase subu  96.9   0.048 1.2E-06   35.6  12.0  181  201-406    40-288 (423)
392 pfam03969 AFG1_ATPase AFG1-lik  96.8  0.0087 2.2E-07   41.6   8.1   95  201-312    63-162 (361)
393 PRK13946 shikimate kinase; Pro  96.8   0.034 8.7E-07   36.8  11.1  145  191-361    12-163 (195)
394 KOG1514 consensus               96.8  0.0097 2.5E-07   41.2   8.2  216  567-821   395-626 (767)
395 TIGR01818 ntrC nitrogen regula  96.8   0.045 1.2E-06   35.8  11.4  203  177-424   134-366 (471)
396 cd03238 ABC_UvrA The excision   96.8  0.0053 1.4E-07   43.3   6.6   20  600-619    23-42  (176)
397 PRK06921 hypothetical protein;  96.8   0.007 1.8E-07   42.4   7.0   72  197-281   114-186 (265)
398 cd01121 Sms Sms (bacterial rad  96.7  0.0028 7.1E-08   45.6   4.9  182  184-385    68-280 (372)
399 COG2766 PrkA Putative Ser prot  96.7  0.0089 2.3E-07   41.5   7.5   67  310-377   300-369 (649)
400 cd03246 ABCC_Protease_Secretio  96.7  0.0034 8.6E-08   44.9   5.2   25  600-624    30-54  (173)
401 PRK10867 signal recognition pa  96.7   0.068 1.7E-06   34.3  11.8   27  199-225   100-126 (453)
402 PRK12727 flagellar biosynthesi  96.7  0.0011 2.9E-08   48.8   2.7   97  597-695   347-452 (557)
403 PRK03846 adenylylsulfate kinas  96.7  0.0024 6.1E-08   46.2   4.3   52  595-653    22-73  (198)
404 KOG1969 consensus               96.7   0.045 1.1E-06   35.8  10.8  168  590-802   317-500 (877)
405 COG2607 Predicted ATPase (AAA+  96.7   0.042 1.1E-06   36.0  10.6   99  183-306    69-167 (287)
406 KOG2227 consensus               96.7   0.011 2.7E-07   40.9   7.5  165  175-353   147-337 (529)
407 PRK11823 DNA repair protein Ra  96.7  0.0033 8.5E-08   45.0   4.8  187  184-385    76-287 (454)
408 cd03115 SRP The signal recogni  96.7  0.0014 3.6E-08   48.0   2.9   84  600-685     2-97  (173)
409 PRK13695 putative NTPase; Prov  96.7  0.0073 1.9E-07   42.2   6.6   25  201-225     5-29  (174)
410 PRK12723 flagellar biosynthesi  96.7  0.0033 8.5E-08   45.0   4.8  100  593-695   170-281 (388)
411 PRK11889 flhF flagellar biosyn  96.6  0.0047 1.2E-07   43.8   5.4  142  596-765   239-391 (436)
412 KOG2227 consensus               96.6   0.083 2.1E-06   33.6  16.8   23  529-551   401-423 (529)
413 pfam01057 Parvo_NS1 Parvovirus  96.6   0.014 3.6E-07   39.9   7.8  142  596-770   111-256 (271)
414 COG1373 Predicted ATPase (AAA+  96.6   0.087 2.2E-06   33.5  11.9  165  182-388    21-187 (398)
415 PRK06835 DNA replication prote  96.6   0.017 4.5E-07   39.1   8.1  118  188-322   173-296 (330)
416 KOG0727 consensus               96.6  0.0062 1.6E-07   42.8   5.6  140  200-357   190-342 (408)
417 pfam03215 Rad17 Rad17 cell cyc  96.5   0.078   2E-06   33.9  11.2   55  740-800   187-242 (490)
418 TIGR03499 FlhF flagellar biosy  96.5   0.047 1.2E-06   35.6  10.0   40  201-245   196-237 (282)
419 PRK07004 replicative DNA helic  96.5   0.078   2E-06   33.9  11.1   81  159-245   172-255 (460)
420 TIGR01420 pilT_fam twitching m  96.5  0.0023 5.8E-08   46.4   3.2  160  595-800   124-300 (350)
421 cd01120 RecA-like_NTPases RecA  96.5   0.046 1.2E-06   35.7   9.9   24  202-225     2-25  (165)
422 TIGR00455 apsK adenylylsulfate  96.5  0.0026 6.8E-08   45.8   3.5  113  596-767    16-135 (187)
423 cd03221 ABCF_EF-3 ABCF_EF-3  E  96.5  0.0074 1.9E-07   42.2   5.7   94  600-720    28-127 (144)
424 COG1419 FlhF Flagellar GTP-bin  96.5  0.0028 7.1E-08   45.6   3.5   85  596-688   201-299 (407)
425 PRK13947 shikimate kinase; Pro  96.5    0.03 7.8E-07   37.2   8.8  138  200-360     2-143 (171)
426 PRK13406 bchD magnesium chelat  96.5     0.1 2.6E-06   32.9  11.6   50  356-407   187-236 (584)
427 cd00464 SK Shikimate kinase (S  96.4   0.037 9.5E-07   36.5   9.0  141  201-365     1-145 (154)
428 pfam01583 APS_kinase Adenylyls  96.4  0.0038 9.6E-08   44.6   3.9   40  599-638     3-42  (157)
429 PRK05541 adenylylsulfate kinas  96.4  0.0043 1.1E-07   44.1   4.1   44  595-639     5-48  (176)
430 PRK13900 type IV secretion sys  96.4    0.11 2.7E-06   32.8  11.0  113  185-356   147-259 (332)
431 PRK08506 replicative DNA helic  96.4    0.12   3E-06   32.4  16.3   81  159-245   153-234 (473)
432 smart00487 DEXDc DEAD-like hel  96.3  0.0095 2.4E-07   41.3   5.4   26  599-624    25-50  (201)
433 KOG3347 consensus               96.3  0.0062 1.6E-07   42.8   4.2  137  600-772     9-162 (176)
434 COG1066 Sms Predicted ATP-depe  96.3  0.0085 2.2E-07   41.7   4.9  180  190-387    82-292 (456)
435 TIGR02640 gas_vesic_GvpN gas v  96.3   0.014 3.6E-07   39.9   6.0  137  201-353    23-197 (265)
436 PRK00771 signal recognition pa  96.3   0.059 1.5E-06   34.9   9.2   27  199-225    97-123 (433)
437 PRK08699 DNA polymerase III su  96.2    0.13 3.4E-06   31.9  11.2  107  596-720    20-152 (325)
438 PRK13833 conjugal transfer pro  96.2    0.02 5.2E-07   38.6   6.7   90  600-698   146-240 (323)
439 pfam00448 SRP54 SRP54-type pro  96.2  0.0048 1.2E-07   43.7   3.6  113  600-723     3-128 (196)
440 PRK11664 ATP-dependent RNA hel  96.2   0.016 4.1E-07   39.5   6.2  128  187-329    10-174 (812)
441 PRK04841 transcriptional regul  96.2   0.058 1.5E-06   34.9   9.1   39  179-220    15-53  (903)
442 PRK08533 flagellar accessory p  96.2   0.085 2.2E-06   33.6   9.9   29  198-226    23-51  (230)
443 PRK07952 DNA replication prote  96.2   0.019 4.8E-07   38.9   6.4   70  200-280    97-168 (242)
444 KOG1514 consensus               96.2    0.14 3.6E-06   31.7  13.0  180  159-352   380-587 (767)
445 PRK10490 sensor protein KdpD;   96.2    0.15 3.7E-06   31.7  11.2   89  750-852   725-815 (895)
446 pfam00025 Arf ADP-ribosylation  96.2   0.017 4.3E-07   39.3   6.0   32  190-221     5-36  (174)
447 COG3267 ExeA Type II secretory  96.1     0.1 2.6E-06   33.0   9.9  194  599-827    52-253 (269)
448 pfam02562 PhoH PhoH-like prote  96.1   0.013 3.2E-07   40.3   5.3  114  571-717     7-126 (205)
449 PRK12608 transcription termina  96.1   0.097 2.5E-06   33.1   9.8  122  188-315   120-281 (379)
450 COG1485 Predicted ATPase [Gene  96.1   0.071 1.8E-06   34.2   9.1   89  200-308    66-163 (367)
451 PTZ00112 origin recognition co  96.1   0.024 6.2E-07   38.0   6.7  204  567-811   266-484 (650)
452 PRK08939 primosomal protein Dn  96.1    0.05 1.3E-06   35.4   8.3  123  182-323   136-270 (306)
453 cd03247 ABCC_cytochrome_bd The  96.1   0.031 7.8E-07   37.2   7.2   46  600-648    30-78  (178)
454 cd02027 APSK Adenosine 5'-phos  96.1  0.0057 1.5E-07   43.1   3.3   40  600-639     1-40  (149)
455 COG3604 FhlA Transcriptional r  96.1   0.012   3E-07   40.5   4.9  116  176-312   221-350 (550)
456 TIGR02533 type_II_gspE general  96.0  0.0051 1.3E-07   43.5   2.8   88  595-690   242-337 (495)
457 PRK05480 uridine kinase; Provi  96.0  0.0086 2.2E-07   41.7   3.9   41  594-637     3-43  (209)
458 PRK05703 flhF flagellar biosyn  96.0    0.17 4.4E-06   31.0  11.7   71  201-279   212-296 (412)
459 COG1241 MCM2 Predicted ATPase   96.0    0.17 4.4E-06   31.0  13.5   44  179-223   287-343 (682)
460 PRK13851 type IV secretion sys  96.0    0.18 4.5E-06   31.0  12.1   90  600-698   164-261 (343)
461 PRK00889 adenylylsulfate kinas  96.0  0.0086 2.2E-07   41.6   3.8   43  596-639     3-45  (175)
462 pfam05272 VirE Virulence-assoc  96.0   0.039   1E-06   36.3   7.1   25  600-624    54-78  (198)
463 cd03228 ABCC_MRP_Like The MRP   95.9   0.031 7.8E-07   37.1   6.4   33  600-633    30-62  (171)
464 PRK13851 type IV secretion sys  95.9   0.013 3.4E-07   40.1   4.4  111  184-355   148-259 (343)
465 COG1061 SSL2 DNA or RNA helica  95.8   0.045 1.1E-06   35.8   7.0   42  183-226    41-82  (442)
466 cd04176 Rap2 Rap2 subgroup.  T  95.8   0.031 7.9E-07   37.1   6.2   22  202-223     4-25  (163)
467 PRK00091 miaA tRNA delta(2)-is  95.8  0.0089 2.3E-07   41.5   3.4   40  198-247     3-42  (304)
468 PRK10536 hypothetical protein;  95.8   0.024   6E-07   38.1   5.5  138  542-717    38-183 (262)
469 TIGR01842 type_I_sec_PrtD type  95.8  0.0066 1.7E-07   42.6   2.6   39  599-638   356-395 (556)
470 pfam04851 ResIII Type III rest  95.8   0.019 4.8E-07   38.9   4.9   26  199-224    18-43  (103)
471 PRK03918 chromosome segregatio  95.8   0.012 3.1E-07   40.4   3.9   16  757-772   824-839 (882)
472 PRK08760 replicative DNA helic  95.8    0.21 5.3E-06   30.4  11.1   80  159-245   190-271 (476)
473 pfam10923 DUF2791 Protein of u  95.8    0.21 5.3E-06   30.4  10.3  142  673-830    92-250 (267)
474 COG2909 MalT ATP-dependent tra  95.7   0.068 1.7E-06   34.3   7.6   29  255-283   113-141 (894)
475 PRK04220 2-phosphoglycerate ki  95.7   0.031 7.8E-07   37.2   5.7   41  591-634    86-126 (306)
476 COG1618 Predicted nucleotide k  95.7  0.0079   2E-07   42.0   2.7   25  600-624     7-31  (179)
477 PRK10246 exonuclease subunit S  95.7   0.012   3E-07   40.5   3.6   28  751-779   975-1005(1047)
478 cd01882 BMS1 Bms1.  Bms1 is an  95.7    0.11 2.9E-06   32.6   8.5   97  202-316    42-142 (225)
479 TIGR02329 propionate_PrpR prop  95.6   0.041   1E-06   36.2   6.1  225  568-819   319-566 (658)
480 TIGR03498 FliI_clade3 flagella  95.6    0.15 3.9E-06   31.5   9.0  148  201-396   142-336 (418)
481 cd01124 KaiC KaiC is a circadi  95.6    0.13 3.4E-06   32.0   8.7   24  202-225     2-25  (187)
482 pfam02702 KdpD Osmosensitive K  95.6   0.053 1.3E-06   35.3   6.6  142  602-766     8-168 (211)
483 PRK09376 rho transcription ter  95.6     0.1 2.5E-06   33.0   7.9  111  187-303   156-297 (416)
484 cd00878 Arf_Arl Arf (ADP-ribos  95.6   0.029 7.3E-07   37.4   5.1   20  202-221     2-21  (158)
485 cd03229 ABC_Class3 This class   95.6   0.038 9.6E-07   36.4   5.7   36  600-636    28-63  (178)
486 PRK06321 replicative DNA helic  95.5     0.2 5.2E-06   30.5   9.4   62  179-245   205-268 (472)
487 cd04154 Arl2 Arl2 subfamily.    95.5   0.031 7.8E-07   37.2   5.2   26  195-220    10-35  (173)
488 PRK08694 consensus              95.5    0.25 6.5E-06   29.7  11.3   62  179-245   197-260 (468)
489 COG0703 AroK Shikimate kinase   95.5    0.26 6.5E-06   29.7  10.4   70  199-274     2-75  (172)
490 TIGR02538 type_IV_pilB type IV  95.5   0.012 3.1E-07   40.4   3.1   39  152-195   100-138 (577)
491 KOG2543 consensus               95.5    0.19 4.9E-06   30.7   9.2  162  177-355     4-194 (438)
492 PRK13948 shikimate kinase; Pro  95.5    0.17 4.3E-06   31.1   8.9   31  196-226     7-37  (182)
493 cd04107 Rab32_Rab38 Rab38/Rab3  95.5   0.018 4.6E-07   39.1   3.9   21  202-222     3-23  (201)
494 cd04102 RabL3 RabL3 (Rab-like3  95.5   0.047 1.2E-06   35.6   6.1   20  202-221     3-22  (202)
495 pfam06414 Zeta_toxin Zeta toxi  95.5   0.016 4.1E-07   39.4   3.7   47  592-641     7-53  (191)
496 PRK07667 uridine kinase; Provi  95.5   0.031 7.9E-07   37.1   5.1   44  597-640    11-56  (190)
497 PRK00409 recombination and DNA  95.5    0.26 6.6E-06   29.6  23.8  203  192-429   318-530 (780)
498 PRK09270 frcK putative fructos  95.5   0.037 9.5E-07   36.5   5.5   59  574-637    15-75  (230)
499 PRK12726 flagellar biosynthesi  95.5   0.027 6.8E-07   37.6   4.7   29  599-627   207-235 (407)
500 KOG0478 consensus               95.5    0.27 6.8E-06   29.5  13.0  171  200-394   463-670 (804)

No 1  
>PRK10865 protein disaggregation chaperone; Provisional
Probab=100.00  E-value=0  Score=2037.16  Aligned_cols=850  Identities=55%  Similarity=0.901  Sum_probs=829.7

Q ss_pred             CCHHHCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99237179999999999999998289963389999998618876689999973999899999999999745954789777
Q gi|254780877|r    1 MNSDKYSDLMRNVLQSAQTYALAQGHQNLVPEHVLHIFLEDEQGAVYSLIQCSGGDIAQLKDYNQTVLSKIPKVTGGGAQ   80 (853)
Q Consensus         1 Md~~kFS~~a~~vL~~A~~~A~~~~H~~Vt~EHLLlaLL~~~~s~i~~iL~~~gvd~~~L~~~le~~L~k~~k~~~~~~~   80 (853)
                      |+++|||+.++++|..|+.+|++++|.||+++|||++|+.++++.+..+|+++|+|+..++++++.++++.|...+....
T Consensus         1 m~~~k~t~~~~~al~~A~~~A~~~~h~~v~~eHll~all~~~~~~~~~~l~~~~~d~~~l~~~l~~~l~~~~~~~~~~~~   80 (857)
T PRK10865          1 MRLDRLTNKFQLALADAQSLALGHDNQFIEPLHLMSALLNQEGGSVRPLLTSAGINAGQLRTDINQALNRLPQVEGTGGD   80 (857)
T ss_pred             CCHHHCCHHHHHHHHHHHHHHHHCCCCEEHHHHHHHHHHCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCCCCC
T ss_conf             98155399999999999999998598843599999999769974799999986999999999999998627887898888


Q ss_pred             CCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCH
Q ss_conf             70698999999999999997198702599987668727751788999759998999999998737788787775467610
Q gi|254780877|r   81 VYLSQPLAVILSKSEEIAKKSGDSFVTAEKFLLAMVMETGGIGESLKKCGLKFSRLEESIKKLRKGRVADSVNAEQGFDA  160 (853)
Q Consensus        81 ~~~S~~l~rvL~~A~~~A~~~g~~~I~~ehLLlAIl~e~~s~a~iL~~~gi~~~~l~e~i~~~~~~~~~~~~~~e~~~~~  160 (853)
                      +++|+.+.++|+.|+..++.+++.+|+++|+|+|++.+.+..+++|.+.|++.+.+...+.....+....+..++...++
T Consensus        81 ~~~s~~~~~~l~~a~~~a~~~~~~~i~~~~llla~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (857)
T PRK10865         81 VQPSQDLVRVLNLCDKLAQKRGDNFISSELFVLAALESRGTLADILKAAGATTANITQAIEQMRGGESVNDQGAEDQRQA  160 (857)
T ss_pred             CCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCHHH
T ss_conf             08787999999999999998599824299999999718877999999879999999999998717888877886642368


Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEE
Q ss_conf             78864435699872985333335789999999633677786689528874077799999998734899844457437887
Q gi|254780877|r  161 LKKYCRDLTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMAL  240 (853)
Q Consensus       161 L~ky~~DLTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~l  240 (853)
                      |++||+|||++|++|+||||||||+||+++++|||||+||||||||||||||||||||||++|++|+||+.|+|++||+|
T Consensus       161 L~~y~~dLt~~A~~gkldpvIGRd~EI~r~i~IL~RR~KNNpiLvGepGVGKTAIvEGLA~rI~~g~VP~~L~~~~I~~L  240 (857)
T PRK10865        161 LKKYTIDLTERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLAL  240 (857)
T ss_pred             HHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCCEEEE
T ss_conf             99997888999982999988582999999999970257899758789998899999999999983899978816902473


Q ss_pred             EHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHH
Q ss_conf             31354217454202454589999998607997699963627730266655433588887653124660489974489999
Q gi|254780877|r  241 DMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGATTLDEYR  320 (853)
Q Consensus       241 d~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaTT~~Eyr  320 (853)
                      |+++|+|||+||||||+|||.|++|+..++|++||||||+|||||||+++|+|||||||||+||||+|||||||||+|||
T Consensus       241 Dlg~L~AGakyRGeFEeRLk~il~ev~~~~~~iILFIDEiHtlvGaG~~~G~~DaaNlLKPaLaRGelr~IGATT~~EYr  320 (857)
T PRK10865        241 DMGALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARGELHCVGATTLDEYR  320 (857)
T ss_pred             EHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHHCCCCEEEEECCHHHHH
T ss_conf             38878614765211799999999999847898699973435433688777753478886788737985499945899999


Q ss_pred             HHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHH
Q ss_conf             97300111320231111157776789999999789865414961015899999863332024576747789999999998
Q gi|254780877|r  321 KYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEASAR  400 (853)
Q Consensus       321 k~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~A~  400 (853)
                      ||||||+||+||||+|.|+|||.++|+.||+|++++||+||+|+|+|+||.+||+||+|||+||+||||||||||||||+
T Consensus       321 k~iEkD~AL~RRFq~V~V~EPs~e~ti~ILrgl~~~yE~hH~V~itdeAl~aAV~LS~RYI~dR~LPDKAIDLLDeA~A~  400 (857)
T PRK10865        321 QYIEKDAALERRFQKVFVAEPSVEDTIAILRGLKERYELHHHVQITDPAIVAAATLSHRYIADRQLPDKAIDLIDEAASS  400 (857)
T ss_pred             HHCCCCHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEECHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHH
T ss_conf             87134588998537100689987999999998888998737915879999999998624566667814898899999888


Q ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             75410222145788799999744569998502223566568999876899999999999988865667655999999988
Q gi|254780877|r  401 VRMQIDTKPEVLDELDRRIICLKIEKEALKKEKDSFSKGRLIELEKELSSLEEKSHSLTLRWQEGQRKILYVADLKKRLE  480 (853)
Q Consensus       401 ~~i~~~~~P~~l~~l~r~i~~l~~e~~~L~~e~d~~~~~rl~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~l~  480 (853)
                      ++++++++|..++++++++.+++++..++.++.+.....++..+.+++..++.++..+.+.|..++.....+..++..++
T Consensus       401 vr~~~~~~p~~l~~l~~~i~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  480 (857)
T PRK10865        401 IRMQIDSKPEELDRLDRRIIQLKLEQQALMKESDEASKKRLDMLNEELSDKERQYSELEEEWKAEKASLSGTQTIKAELE  480 (857)
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             87632468446899999999999999998841007789999999999999999999999999999999988999999999


Q ss_pred             HHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCHHCCCHHHHHHHHHHHHCCCHHHHHHCCCHHHH
Q ss_conf             74888888642111567654320110689999999997511267720001686678999876617866775100000001
Q gi|254780877|r  481 SMRNELAIAQRQGHFERAGELAYGLIPKTEKELDEAEKADSTAEDMVQEVVTSDNIANIVSRWTGIPVDKMLESDREKFL  560 (853)
Q Consensus       481 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~dVa~vvS~~TGIPv~kl~~~E~ekLl  560 (853)
                      .....++.+.+.++.....++.+..+|..++++............+.+..|+.++|++|||+|||||++++.++|.++|+
T Consensus       481 ~~~~~~e~~~~~~~~~~~~el~~~~ip~~e~~l~~~~~~~~~~~~~~~~~V~~~~ia~vvs~~TgIPv~~l~~~e~~~L~  560 (857)
T PRK10865        481 QAKIAIEQARRVGDLARMSELQYGKIPELEKQLEAATQLEGKTMRLLRNKVTDAEIAEVLARWTGIPVSRMLESEREKLL  560 (857)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHCHHHHHHHHHHHHHHHHCCCCCHHHCCCCHHHHHHHHHHHHCCCCHHCCCCHHHHHH
T ss_conf             98888999886413766777652201889999999987530011022235689999999999968983021310589999


Q ss_pred             HHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCC
Q ss_conf             23554776745948999999999987410123656651289872678616889999999872377653002244774034
Q gi|254780877|r  561 RIETEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEK  640 (853)
Q Consensus       561 ~l~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~  640 (853)
                      +|++.|+++||||++||++|+++|+++|+||++|+||+|||||+||||||||||||+||++|||++++|||||||||||+
T Consensus       561 ~le~~L~~rViGQd~AI~~v~~aI~~sraGL~dp~rPiGsFLFlGPTGVGKTElAK~LA~~LF~~e~~liriDMSEy~E~  640 (857)
T PRK10865        561 RMEQELHHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMSEFMEK  640 (857)
T ss_pred             HHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHCCHHHEEEECCHHHCCC
T ss_conf             99999987852809999999999999863899999973899986898788899999999998389334256253321130


Q ss_pred             CCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCH
Q ss_conf             53201304771120356677421132215641022021441498999999998404578879997783033155954851
Q gi|254780877|r  641 HSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNL  720 (853)
Q Consensus       641 ~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~  720 (853)
                      ||||||||||||||||++||+|||+||++|||||||||||||||+|+|+||||||+|+|||+.||+|||+|||||||||+
T Consensus       641 hsVSrLiGaPPGYVGy~eGG~LTeaVRr~PySVvLfDEIEKAHpdV~nilLQvlD~G~LtD~~Gr~vdF~NtIIImTSN~  720 (857)
T PRK10865        641 HSVSRLVGAPPGYVGYEEGGYLTEAVRRRPYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMTSNL  720 (857)
T ss_pred             HHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCEEEEEHHHHHHCHHHHHHHHHHHCCCEEECCCCCEEEEEEEEEEECCCH
T ss_conf             12767558998766757788110999819877886325766385899999987036832079998885133489964623


Q ss_pred             HHHHHHCC-----HHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHH
Q ss_conf             26876403-----2679999999998628857726668158628899899999999999999999985798999988999
Q gi|254780877|r  721 GAEYLIED-----GDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVI  795 (853)
Q Consensus       721 G~~~~~~~-----~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~  795 (853)
                      ||+.+.+.     ....++.++++++++|+|||+||+|+||+|+||+++++.+|+++++.++.+||++++|.+.++++++
T Consensus       721 Gs~~i~~~~~~~~~~~~~~~~~~~l~~~F~PEFlnRiD~iv~F~pL~~~~l~~Iv~~~l~~l~~rL~~~~i~l~~~~~a~  800 (857)
T PRK10865        721 GSDLIQERFGELDYAHMKELVLGVVSHNFRPEFINRIDEVVVFHPLGEQHIASIAQIQLQRLYKRLEERGYEIHISDEAL  800 (857)
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHCCHHHHHCCCEEEEECCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHH
T ss_conf             36999865065566889999999998647988882378489827899999999999999999999997798499888999


Q ss_pred             HHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEECCEEEE
Q ss_conf             9999708982206215799999873349999997086889788999998994898
Q gi|254780877|r  796 DWLSCRGYDPSYGARPLKRVIQRYIQNPLAERVLSQTISDGDSIEVFVDDDNLNF  850 (853)
Q Consensus       796 ~~l~~~~~~~~~GaR~l~r~i~~~i~~~la~~il~~~~~~g~~i~i~~~~~~~~~  850 (853)
                      +||+++||||.||||||+|+|+++|++|||+.+|+|.+++|++|.|++++++++.
T Consensus       801 ~~l~~~gyd~~~GARpl~r~I~~~i~~~ls~~il~g~~~~g~~i~v~~~~~~~v~  855 (857)
T PRK10865        801 KLLSENGYDPVYGARPLKRAIQQQIENPLAQQILSGELVPGKVIRLEVNEDRIVA  855 (857)
T ss_pred             HHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEECCEEEE
T ss_conf             9999848897747137899999998899999997288899698999977998898


No 2  
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=100.00  E-value=0  Score=2029.32  Aligned_cols=845  Identities=61%  Similarity=0.988  Sum_probs=824.0

Q ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCH
Q ss_conf             17999999999999999828996338999999861887668999997399989999999999974595478977770698
Q gi|254780877|r    6 YSDLMRNVLQSAQTYALAQGHQNLVPEHVLHIFLEDEQGAVYSLIQCSGGDIAQLKDYNQTVLSKIPKVTGGGAQVYLSQ   85 (853)
Q Consensus         6 FS~~a~~vL~~A~~~A~~~~H~~Vt~EHLLlaLL~~~~s~i~~iL~~~gvd~~~L~~~le~~L~k~~k~~~~~~~~~~S~   85 (853)
                      ||++++++|+.|+.+|++++|.||++||||++|++++++.+..+|+.+|+|.+.++++++.++++.|...+..+.|.+|+
T Consensus         1 ft~~a~~aL~~A~~~A~~~~h~~V~~eHlLlaLl~~~~~~~~~~L~~~gvd~~~l~~~l~~~l~~~~~~~~~~~~~~~s~   80 (852)
T TIGR03346         1 FTEKFQEALQAAQSLALGRDHQQIEPEHLLKALLDQEGGLARRLLQKAGVNVGALRQALEKELEKLPKVSGPGGQVYLSP   80 (852)
T ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCH
T ss_conf             98899999999999999859990279999999973998479999998598999999999999973798889988828698


Q ss_pred             HHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHH
Q ss_conf             99999999999999719870259998766872775178899975999899999999873778878777546761078864
Q gi|254780877|r   86 PLAVILSKSEEIAKKSGDSFVTAEKFLLAMVMETGGIGESLKKCGLKFSRLEESIKKLRKGRVADSVNAEQGFDALKKYC  165 (853)
Q Consensus        86 ~l~rvL~~A~~~A~~~g~~~I~~ehLLlAIl~e~~s~a~iL~~~gi~~~~l~e~i~~~~~~~~~~~~~~e~~~~~L~ky~  165 (853)
                      .++++|++||.+|..+|+.+|+++|||+||+.+.++.+.+|.++|++.+.+.+.+..+.+++...+..++...++|++||
T Consensus        81 ~~~~vL~~A~~~a~~~~~~~I~~~hlLlall~~~~~~~~~l~~~gi~~~~l~~~l~~~~~~~~~~~~~~~~~~~~L~~y~  160 (852)
T TIGR03346        81 ELNRLLNLAEKLAQKRGDEFISSEHLLLALLDDKGTLGKLLKEAGATADALEAAINAVRGGQKVTSANAEDQYEALEKYA  160 (852)
T ss_pred             HHHHHHHHHHHHHHHCCCCEECHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHH
T ss_conf             99999999999999849997739999999970985599999986999999999999871788888888754357899998


Q ss_pred             HHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHH
Q ss_conf             43569987298533333578999999963367778668952887407779999999873489984445743788731354
Q gi|254780877|r  166 RDLTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGAL  245 (853)
Q Consensus       166 ~DLTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l  245 (853)
                      +|||++|++|++|||||||+||+++++|||||+||||||||||||||||||||||++|++|+||+.|+|++||+||+|+|
T Consensus       161 ~dLT~~A~~gklDpviGRd~Ei~r~i~IL~Rr~KNNpiLVGepGVGKTAIvEGLA~rI~~g~VP~~L~~~~i~~LDlg~L  240 (852)
T TIGR03346       161 RDLTERAREGKLDPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGAL  240 (852)
T ss_pred             HHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCEECCCCCCHHHHHHHHHHHHHCCCCCHHHHHCCCEEEEHHHH
T ss_conf             88999998289997738369999999999873248972127999879999999999986699997885185127528877


Q ss_pred             HCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHHHHHHC
Q ss_conf             21745420245458999999860799769996362773026665543358888765312466048997448999997300
Q gi|254780877|r  246 IAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGATTLDEYRKYIEK  325 (853)
Q Consensus       246 ~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iEk  325 (853)
                      +|||+||||||+|||.|++|+++++++|||||||+|||||||+++|+|||||||||+||||+|||||||||+||||||||
T Consensus       241 vAGtkyRGeFEeRlk~ii~ev~~~~~~iILFIDEiHtliGaG~~~G~~DAaNlLKPaLarGelr~IgATT~~EYrk~iEk  320 (852)
T TIGR03346       241 IAGAKYRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALARGELHCIGATTLDEYRKYIEK  320 (852)
T ss_pred             HCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEHHHHHHCCCCCCCCCCCHHHHHHHHHHCCCCEEEEECCHHHHHHHHHC
T ss_conf             52153007899999999999985899879996125553268876664106777437874798559982789999988322


Q ss_pred             CHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             11132023111115777678999999978986541496101589999986333202457674778999999999875410
Q gi|254780877|r  326 DPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEASARVRMQI  405 (853)
Q Consensus       326 D~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~A~~~i~~  405 (853)
                      |+||+||||+|.|+|||.++|+.||+|++++||.||+|+|+|+||++||+||+|||++|+||||||||||||||++++++
T Consensus       321 D~AL~RRFq~I~V~EPs~e~t~~IL~gl~~~yE~hH~V~i~d~Ai~aav~LS~RYi~~R~LPDKAIDlLDeA~a~~~~~~  400 (852)
T TIGR03346       321 DAALERRFQPVFVDEPTVEDTISILRGLKERYEVHHGVRITDPAIVAAATLSHRYITDRFLPDKAIDLIDEAAARIRMEI  400 (852)
T ss_pred             CHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEECHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHC
T ss_conf             68899737712047998689999999769999762792673999999999713466778896189999999999887623


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             22214578879999974456999850222356656899987689999999999998886566765599999998874888
Q gi|254780877|r  406 DTKPEVLDELDRRIICLKIEKEALKKEKDSFSKGRLIELEKELSSLEEKSHSLTLRWQEGQRKILYVADLKKRLESMRNE  485 (853)
Q Consensus       406 ~~~P~~l~~l~r~i~~l~~e~~~L~~e~d~~~~~rl~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~l~~~~~~  485 (853)
                      +++|..|+++++++.+++++..++.++.|....+++..+++++..++.++..+.+.|+.++.....+..++..++.+...
T Consensus       401 ~~~p~~l~~~~~~~~~l~~e~~~l~~e~d~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  480 (852)
T TIGR03346       401 DSKPEELDELDRRIIQLEIEREALKKEKDEASKERLEDLEKELAELEEEYADLEEQWKAEKAAIQGIQQIKEEIEQVRLE  480 (852)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             78946799999999999999999984430667999999999999999999999999999999999999999999999988


Q ss_pred             HHHHHHCCHHHHHHHHHHCCHHHHHHHHHHHHHHHC--CCCCCCHHCCCHHHHHHHHHHHHCCCHHHHHHCCCHHHHHHH
Q ss_conf             888642111567654320110689999999997511--267720001686678999876617866775100000001235
Q gi|254780877|r  486 LAIAQRQGHFERAGELAYGLIPKTEKELDEAEKADS--TAEDMVQEVVTSDNIANIVSRWTGIPVDKMLESDREKFLRIE  563 (853)
Q Consensus       486 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~V~~~dVa~vvS~~TGIPv~kl~~~E~ekLl~l~  563 (853)
                      ++.+.+.++.+.+.++.+..++..++.+...+....  ....+++.+|+.++|++|||+|||||+++++++|.++|++|+
T Consensus       481 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~~ia~vvs~~tgIPv~~~~~~e~~~L~~Le  560 (852)
T TIGR03346       481 LEQAEREGDLAKAAELQYGKLPELEKRLQAAEAKLGEETKPRLLREEVTAEEIAEVVSRWTGIPVSKMLEGEREKLLHME  560 (852)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
T ss_conf             99998750477777754322799999999999876411234423366799999999999968866766654799998788


Q ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCC
Q ss_conf             54776745948999999999987410123656651289872678616889999999872377653002244774034532
Q gi|254780877|r  564 TEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSV  643 (853)
Q Consensus       564 ~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~v  643 (853)
                      +.|+++||||++||++|+++|+++|+||++|+||+|||||+||||||||||||+||++|||++++|||||||||+|+|||
T Consensus       561 ~~L~~rViGQd~AI~~I~~aI~~sraGL~dp~rP~GsFlf~GptGvGKTELAKaLAe~Lfg~~~~LIriDMSEy~E~hsv  640 (852)
T TIGR03346       561 EVLHERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSEYMEKHSV  640 (852)
T ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHCCCCCEEEECHHHHCCHHHH
T ss_conf             88998971709999999999999971888899974589986788776899999999998558520698430443012247


Q ss_pred             CHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHH
Q ss_conf             01304771120356677421132215641022021441498999999998404578879997783033155954851268
Q gi|254780877|r  644 SRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAE  723 (853)
Q Consensus       644 s~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~  723 (853)
                      |||||||||||||++||+|||+||++|||||||||||||||+|+|+||||||+|+|||+.||+|||+|||||||||+|++
T Consensus       641 srLiGaPPGYVGy~egG~Lte~vr~~PysVvL~DEIEKAh~~V~~~lLQilD~G~ltD~~Gr~vdF~NtiiimTSN~Ga~  720 (852)
T TIGR03346       641 ARLIGAPPGYVGYEEGGQLTEAVRRKPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMTSNLGSQ  720 (852)
T ss_pred             HHHCCCCCCCCCCCCCCEECHHHHHCCCEEEEECCHHHHCHHHHHHHHHHHCCCEEECCCCCEEEEEEEEEEEECCCCHH
T ss_conf             78558999767768787423989819887998530543076899999988236743079998885355689861540659


Q ss_pred             HHHCC-----HHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHH
Q ss_conf             76403-----2679999999998628857726668158628899899999999999999999985798999988999999
Q gi|254780877|r  724 YLIED-----GDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWL  798 (853)
Q Consensus       724 ~~~~~-----~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l  798 (853)
                      .+...     .+..+..++++++++|+|||+||||++|+|+||+.+++.+|+.+++.++.++++++++.+.+++++++||
T Consensus       721 ~i~~~~~~~~~~~~~~~~~~~~~~~F~PEflnRid~ii~F~~L~~~~l~~I~~~~l~~l~~~l~~~~i~l~~~~~~~~~l  800 (852)
T TIGR03346       721 FIQELAGGDDYEEMREAVMEVLRAHFRPEFLNRIDEIVVFHPLGREQIARIVEIQLGRLRKRLAERKITLELSDAALDFL  800 (852)
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHCCHHHHHHCCEEEEECCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHH
T ss_conf             99741145557999999999999658998996378689837899999999999999999999997798499888999999


Q ss_pred             HHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEECCEEEE
Q ss_conf             9708982206215799999873349999997086889788999998994898
Q gi|254780877|r  799 SCRGYDPSYGARPLKRVIQRYIQNPLAERVLSQTISDGDSIEVFVDDDNLNF  850 (853)
Q Consensus       799 ~~~~~~~~~GaR~l~r~i~~~i~~~la~~il~~~~~~g~~i~i~~~~~~~~~  850 (853)
                      +++|||+.||||||+|.|++.|.+|||+++|+|.+++|++|+|++++++++|
T Consensus       801 ~~~g~~~~~GAR~l~r~i~~~i~~~la~~iL~g~~~~g~~v~v~~~~~~~~f  852 (852)
T TIGR03346       801 AEAGYDPVYGARPLKRAIQREIENPLAKKILAGEVADGDTIVVDVEGGRLVF  852 (852)
T ss_pred             HHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEECCEEEC
T ss_conf             9848897747156999999998899999997488899598999977999759


No 3  
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit ClpA; InterPro: IPR013461    Proteins in this entry are related to ClpA () from Escherichia coli. ClpA is an ATP-dependent chaperone and part of the ClpAP protease that participates in regulatory protein degradation and the dissolution and degradation of protein aggregates . ClpA recognises sequences in specific proteins, which it then unfolds in an ATP-dependent manner and transports into the degradation chamber of the associated ClpP protein , . A small adaptor-like protein, ClpS, modulates the activity of ClpA and is an important regulatory factor for this protein . It protects ClpA from autodegradation and appears to redirect its activity away from soluble proteins and toward aggregated proteins..
Probab=100.00  E-value=0  Score=2020.17  Aligned_cols=728  Identities=45%  Similarity=0.748  Sum_probs=676.9

Q ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCC-CCHHHHHHHHHHHHHHCCCCC-C-------
Q ss_conf             1799999999999999982899633899999986188766899999739-998999999999997459547-8-------
Q gi|254780877|r    6 YSDLMRNVLQSAQTYALAQGHQNLVPEHVLHIFLEDEQGAVYSLIQCSG-GDIAQLKDYNQTVLSKIPKVT-G-------   76 (853)
Q Consensus         6 FS~~a~~vL~~A~~~A~~~~H~~Vt~EHLLlaLL~~~~s~i~~iL~~~g-vd~~~L~~~le~~L~k~~k~~-~-------   76 (853)
                      +|++++++|..|.++|+.++|+|||+|||||||+.++.  +..+|+.|| +|++.|++.++.|+++.-++. .       
T Consensus         1 ~~~~l~~~L~~A~~~AK~~~HEf~T~EH~Llal~~~~~--~~~il~~cgd~d~~~L~~~L~~yl~~~~~~~~~~qlGyGg   78 (774)
T TIGR02639         1 ISKELERILSEALEEAKERRHEFVTLEHLLLALLDDNE--AIEILEECGDGDVELLRKKLEDYLEENLEVLEEEQLGYGG   78 (774)
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCEECHHHHHHHHHCCHH--HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCC
T ss_conf             98789999999999998618942438999999703767--8999985333118999999999875138877602244688


Q ss_pred             -CCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHH-HHHHHCCCCHHHHHHHHHHHHCCCC------
Q ss_conf             -97777069899999999999999719870259998766872775178-8999759998999999998737788------
Q gi|254780877|r   77 -GGAQVYLSQPLAVILSKSEEIAKKSGDSFVTAEKFLLAMVMETGGIG-ESLKKCGLKFSRLEESIKKLRKGRV------  148 (853)
Q Consensus        77 -~~~~~~~S~~l~rvL~~A~~~A~~~g~~~I~~ehLLlAIl~e~~s~a-~iL~~~gi~~~~l~e~i~~~~~~~~------  148 (853)
                       ...+|..|-.+++||++|..+.+..+++.|+..|||.|||.|..|++ ++|.+.|+++-++.+.+.+-.....      
T Consensus        79 ~~~~ep~~T~g~~~Viq~A~~h~~s~~~~~~~~gD~Lvalf~E~~S~a~Y~Lk~qgi~Rl~~~~~ish~i~~~~~~~~~~  158 (774)
T TIGR02639        79 SEEEEPEQTVGVQRVIQRALLHVKSAGKKEIDIGDLLVALFDEEDSHASYFLKSQGITRLDILNYISHGISKDDKKDQLG  158 (774)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHEECCCCCCHHHHHHHHCCCCHHHHHHHHCCCCCCCCCCCCCC
T ss_conf             86556300144789999999985314886023111001110278613102033217869999997414554578756331


Q ss_pred             --------------------CCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCC
Q ss_conf             --------------------787775467610788644356998729853333357899999996336777866895288
Q gi|254780877|r  149 --------------------ADSVNAEQGFDALKKYCRDLTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLIGDP  208 (853)
Q Consensus       149 --------------------~~~~~~e~~~~~L~ky~~DLTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lvGe~  208 (853)
                                          .+....+...++|++||+|||++|++|||||+||||+||+|+|||||||+|||||+||||
T Consensus       159 ~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~aL~~yt~~Lt~~A~~GkiDPLIGRE~EleRtiQvLCRR~KNNPl~VGEP  238 (774)
T TIGR02639       159 EEAAEEEEELQEEKEDSAREEDTDKAKKQQDALEKYTVDLTEKAKNGKIDPLIGREDELERTIQVLCRRKKNNPLLVGEP  238 (774)
T ss_pred             CCCCCCCHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCEECCC
T ss_conf             22234201431467778766566520046569988415489998608878734566887423332034567887204488


Q ss_pred             CCCHHHHHHHHHHHHHCC-CCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCE-EEEECCHHHHCCC
Q ss_conf             740777999999987348-99844457437887313542174542024545899999986079976-9996362773026
Q gi|254780877|r  209 GVGKTAIIEGLASRIING-DIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEI-ILFIDELHVLVGA  286 (853)
Q Consensus       209 GvGKtaive~la~~i~~~-~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~-ilfide~h~~~ga  286 (853)
                      ||||||||||||++|++| +||+.|+|.+||+||||+|+||||||||||+|||.|++|+.+.+ |. |||||||||||||
T Consensus       239 GVGKTAI~EGLA~~I~~~~kvPe~Lkn~~IY~LDmG~LLAGTKYRGDFE~RLK~V~~Ei~~~~-~anILFIDEIHTIVGA  317 (774)
T TIGR02639       239 GVGKTAIVEGLAQRIAEGQKVPEVLKNAKIYSLDMGTLLAGTKYRGDFEERLKAVVSEIEKEP-NANILFIDEIHTIVGA  317 (774)
T ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHHCCCCEEEECHHHHHHHCCCCCHHHHHHHHHHHHHHCCC-CCCEEEEECCCCEEEC
T ss_conf             864489999999986415646700247834540434564102454247899999999985289-9954664110103317


Q ss_pred             CCCC-CCCCHHHHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             6655-433588887653124660489974489999973001113202311111577767899999997898654149610
Q gi|254780877|r  287 GKTD-GAMDASNLLKPSLARGELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRI  365 (853)
Q Consensus       287 G~~~-g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i  365 (853)
                      |+++ |||||||||||+|+.|.|||||+||++|||+|||||.||.||||+|.|+|||.+||+.||+|||++||+||+|+|
T Consensus       318 GATSGGsmDASNLLKPaL~~G~iRCIGsTTy~EY~~~FeKDrALsRRFQKIDv~EPs~eet~~ILkGLk~~YE~fH~V~Y  397 (774)
T TIGR02639       318 GATSGGSMDASNLLKPALASGKIRCIGSTTYEEYKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLKEQYEEFHHVKY  397 (774)
T ss_pred             CCCCCHHHHHHHHHHHHHHCCCEEEECCCCHHHHHCHHHCCCCCCCCCCEECCCCCCHHHHHHHHHHHHHHHHCCCCEEC
T ss_conf             87875155244321125307877862265248641110102021654233117957888999999865542013250113


Q ss_pred             CHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Q ss_conf             15899999863332024576747789999999998754102221457887999997445699985022235665689998
Q gi|254780877|r  366 SDSALVSAAVLSNRYITDRFLPDKAIDLMDEASARVRMQIDTKPEVLDELDRRIICLKIEKEALKKEKDSFSKGRLIELE  445 (853)
Q Consensus       366 ~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~A~~~i~~~~~P~~l~~l~r~i~~l~~e~~~L~~e~d~~~~~rl~~l~  445 (853)
                      +|+||.+||.||.|||.|||||||||||||||||.++|....+|...+--+                             
T Consensus       398 ~~eal~~Av~LS~ryI~DRfLPDKAIDviDEaGA~~~l~~~~~~~~~eade-----------------------------  448 (774)
T TIGR02639       398 SDEALEAAVELSARYINDRFLPDKAIDVIDEAGAAFRLRAKAKKKANEADE-----------------------------  448 (774)
T ss_pred             CHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCHHH-----------------------------
T ss_conf             869999999998886025789854322889999999971202776432011-----------------------------


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCC
Q ss_conf             76899999999999988865667655999999988748888886421115676543201106899999999975112677
Q gi|254780877|r  446 KELSSLEEKSHSLTLRWQEGQRKILYVADLKKRLESMRNELAIAQRQGHFERAGELAYGLIPKTEKELDEAEKADSTAED  525 (853)
Q Consensus       446 ~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  525 (853)
                                                                                                 .+...
T Consensus       449 ---------------------------------------------------------------------------kGlee  453 (774)
T TIGR02639       449 ---------------------------------------------------------------------------KGLEE  453 (774)
T ss_pred             ---------------------------------------------------------------------------CCCCC
T ss_conf             ---------------------------------------------------------------------------25300


Q ss_pred             CCHHCCCHHHHHHHHHHHHCCCHHHHHHCC-CHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEE
Q ss_conf             200016866789998766178667751000-0000123554776745948999999999987410123656651289872
Q gi|254780877|r  526 MVQEVVTSDNIANIVSRWTGIPVDKMLESD-REKFLRIETEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFL  604 (853)
Q Consensus       526 ~~~~~V~~~dVa~vvS~~TGIPv~kl~~~E-~ekLl~l~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~  604 (853)
                      ...+.|+..||+.|||+||+||...++.|| .++|.||++.|+++|+|||+||++|+.+|++|||||.+|+||+|||||+
T Consensus       454 talPev~~~diE~vvak~a~iP~~~~s~ddD~~~L~~L~~~L~~kIfGQD~AI~~lv~aiK~SrAGl~~~nkP~GSFLF~  533 (774)
T TIGR02639       454 TALPEVNVKDIEEVVAKMAKIPVKTVSSDDDREKLKNLEKELKAKIFGQDEAIEQLVSAIKRSRAGLGEPNKPVGSFLFV  533 (774)
T ss_pred             CCCCCCCHHHHHHHHHHHHCCCCEEECCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEE
T ss_conf             04787854449999988718994154264479887204476301315158999999999999874247788816888864


Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCH
Q ss_conf             67861688999999987237765300224477403453201304771120356677421132215641022021441498
Q gi|254780877|r  605 GPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHS  684 (853)
Q Consensus       605 GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~  684 (853)
                      |||||||||+||+||+.|   .=+|+|||||||||+|+||||||||||||||||||+||+|||++|||||||||||||||
T Consensus       534 GPTGVGKTElak~LA~~L---Gv~l~RFDMSEYmEKHTVsRLIGsPPGYVGfEqGGLLT~AvrK~P~cVLLLDEIEKAHp  610 (774)
T TIGR02639       534 GPTGVGKTELAKQLAEEL---GVHLLRFDMSEYMEKHTVSRLIGSPPGYVGFEQGGLLTDAVRKHPHCVLLLDEIEKAHP  610 (774)
T ss_pred             CCCCCCHHHHHHHHHHHH---CCHHCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHCCCCCEEEHHHHHHHHHH
T ss_conf             798962578899999970---82001046504468999987416888851316777212233128853542346666313


Q ss_pred             HHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCH-----HHHHHHHHHHHHHHCCHHHHCCCCCEEECC
Q ss_conf             999999998404578879997783033155954851268764032-----679999999998628857726668158628
Q gi|254780877|r  685 DVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDG-----DSVHDKVMGIVRSAFKPEFLNRLDEIILFE  759 (853)
Q Consensus       685 ~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~-----~~~~~~~~~~l~~~f~peflnRid~iv~F~  759 (853)
                      |++|+||||||.++||||.||++||||.|+|||||+|+.+..+..     +...+...++++++|.|||.||+|.||.|+
T Consensus       611 DI~NILLQVMD~AtLTDN~GrKaDFRNVILIMTSNaGa~E~~~~~iGF~~~~~~~~~~~Aikk~F~PEFRNRLDaii~F~  690 (774)
T TIGR02639       611 DIYNILLQVMDYATLTDNNGRKADFRNVILIMTSNAGAREMSKNPIGFGGERVEDKSEKAIKKLFSPEFRNRLDAIIAFN  690 (774)
T ss_pred             HHHHHHHHHHCCCEEECCCCCEEEECCEEEEECCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCEEECC
T ss_conf             36667876633543405888576311368884037001023677644255541233488897315874201334644169


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEE
Q ss_conf             89989999999999999999998579899998899999997089822062157999998733499999970868897889
Q gi|254780877|r  760 KLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQRYIQNPLAERVLSQTISDGDSI  839 (853)
Q Consensus       760 ~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~~~la~~il~~~~~~g~~i  839 (853)
                      ||+.+.+.+|+.++|.+|+.+|.+++|.|++++.|+.||+++|||++||||||.|+|+.+|.++|++.||+|.++.|..|
T Consensus       691 ~L~~~~~~~i~~K~l~el~~~L~eK~v~l~l~~~a~~~LA~KGY~~efGARpl~R~I~~~i~~~L~dEILFG~LKkGG~v  770 (774)
T TIGR02639       691 DLSEEVAEKIVKKFLDELQKQLNEKNVELELTDDAIKYLAEKGYDEEFGARPLARVIQEEIKKPLSDEILFGKLKKGGEV  770 (774)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHCCEEEEECHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCEE
T ss_conf             98899999999999999997553065378764789999986367811055448999887412576544205700167268


Q ss_pred             EEEE
Q ss_conf             9999
Q gi|254780877|r  840 EVFV  843 (853)
Q Consensus       840 ~i~~  843 (853)
                      .|++
T Consensus       771 ~~~~  774 (774)
T TIGR02639       771 KISL  774 (774)
T ss_pred             EEEC
T ss_conf             8738


No 4  
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=100.00  E-value=0  Score=1953.78  Aligned_cols=821  Identities=40%  Similarity=0.672  Sum_probs=753.7

Q ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCH
Q ss_conf             17999999999999999828996338999999861887668999997399989999999999974595478977770698
Q gi|254780877|r    6 YSDLMRNVLQSAQTYALAQGHQNLVPEHVLHIFLEDEQGAVYSLIQCSGGDIAQLKDYNQTVLSKIPKVTGGGAQVYLSQ   85 (853)
Q Consensus         6 FS~~a~~vL~~A~~~A~~~~H~~Vt~EHLLlaLL~~~~s~i~~iL~~~gvd~~~L~~~le~~L~k~~k~~~~~~~~~~S~   85 (853)
                      +|+.++++|+.|+.+|++++|.||++||||++|+.++++.+..+|+++|+|+..++.+++.++++.|...  ...+.+|+
T Consensus         1 Lt~~~~~aL~~A~~~A~~~~H~~I~~eHLLlaLl~~~~~~~~~iL~~~gvd~~~l~~~l~~~l~~~~~~~--~~~~~~s~   78 (852)
T TIGR03345         1 LNPTSRRALEQAAALCVARGHPEVELEHWLLALLDQPDSDLAAILRHFGVDLGRLKADLARALDKLPRGN--TRTPVFSP   78 (852)
T ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCC--CCCCCCCH
T ss_conf             9889999999999999985998138999999998399747999999869999999999999996389899--99888787


Q ss_pred             HHHHHHHHHHHHHH-HCCCCCCCHHHHHHHHHHCCCCHHHH---HHH-CCCCHHHHHHHHHHHHCCC-----------CC
Q ss_conf             99999999999999-71987025999876687277517889---997-5999899999999873778-----------87
Q gi|254780877|r   86 PLAVILSKSEEIAK-KSGDSFVTAEKFLLAMVMETGGIGES---LKK-CGLKFSRLEESIKKLRKGR-----------VA  149 (853)
Q Consensus        86 ~l~rvL~~A~~~A~-~~g~~~I~~ehLLlAIl~e~~s~a~i---L~~-~gi~~~~l~e~i~~~~~~~-----------~~  149 (853)
                      .+.++|++|+..+. .+|+.+|+++|||+|++++.+..+..   ... .+++.+.+...+.......           ..
T Consensus        79 ~l~~vl~~A~~~a~~~~g~~~I~~~hlLlall~~~~~~~~~~~~~~~l~~i~~~~l~~~~~~~~~~~~~~~~~~~~~~~~  158 (852)
T TIGR03345        79 HLVELLQEAWLLASLELGDGRIRSGHLLLALLTDPELRRLLGSISPELAKIDREALREALPALVEGSAEASAAAADAGPA  158 (852)
T ss_pred             HHHHHHHHHHHHHHHHCCCCEECHHHHHHHHHCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCC
T ss_conf             99999999999999985998773999999982596256789999888535899999999999835674333333345666


Q ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCC
Q ss_conf             87775467610788644356998729853333357899999996336777866895288740777999999987348998
Q gi|254780877|r  150 DSVNAEQGFDALKKYCRDLTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIP  229 (853)
Q Consensus       150 ~~~~~e~~~~~L~ky~~DLTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp  229 (853)
                      .+..++..+++|++||+|||++|++|++|||||||+||+|++||||||+|||||||||||||||||||||||+|++|+||
T Consensus       159 ~~~~~~~~~~~L~ky~~dLt~~A~~gklDPvIGRd~EI~r~iqIL~Rr~KNNPiLVGepGVGKTAIvEGLA~rI~~g~VP  238 (852)
T TIGR03345       159 AAAAGAAGTSALDQYTTDLTAQAREGKIDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVP  238 (852)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEECCCCCCHHHHHHHHHHHHHCCCCC
T ss_conf             77777666448999978899999839999886949999999999986247997465799987999999999999769998


Q ss_pred             HHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEE
Q ss_conf             44457437887313542174542024545899999986079976999636277302666554335888876531246604
Q gi|254780877|r  230 ESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELH  309 (853)
Q Consensus       230 ~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~  309 (853)
                      +.|+|++||+||+++|+|||+||||||+|||.|++|+++++++|||||||||||||||+++|+|||||||||+||||+||
T Consensus       239 ~~L~~~~i~sLDlg~LvAGtkyRGeFEeRlk~ii~ei~~~~~~iILFIDEiHtlvGAG~~~G~~DaaNiLKPaLarGelr  318 (852)
T TIGR03345       239 PALRNVRLLSLDLGLLQAGASVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALARGELR  318 (852)
T ss_pred             HHHHCCEEEEEEHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCEEEEEEHHHHHCCCCCCCCCCCHHHHHHHHHHCCCCE
T ss_conf             67743856786788886403576359999999999998489976999634877528998888622788751787378734


Q ss_pred             EEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHH
Q ss_conf             89974489999973001113202311111577767899999997898654149610158999998633320245767477
Q gi|254780877|r  310 CIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDK  389 (853)
Q Consensus       310 ~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDK  389 (853)
                      ||||||++|||||||||+||+||||+|.|+|||.++|+.||+|++++||.||+|+|+|+||++||+||+|||+|||||||
T Consensus       319 ~IGATT~~EYrk~iEkD~AL~RRFq~V~V~EPs~eeti~IL~glk~~yE~hH~V~i~d~Ai~aAv~LS~RYI~dR~LPDK  398 (852)
T TIGR03345       319 TIAATTWAEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYIPGRQLPDK  398 (852)
T ss_pred             EEEECCHHHHHHHHHCCHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEHHHHHHHHHHHHHHCCCCCCCHH
T ss_conf             99835789998886426889962475527999879999999987999855479687089999999998721554558427


Q ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             899999999987541022214578879999974456999850222--356656899987689999999999998886566
Q gi|254780877|r  390 AIDLMDEASARVRMQIDTKPEVLDELDRRIICLKIEKEALKKEKD--SFSKGRLIELEKELSSLEEKSHSLTLRWQEGQR  467 (853)
Q Consensus       390 AIDllDeA~A~~~i~~~~~P~~l~~l~r~i~~l~~e~~~L~~e~d--~~~~~rl~~l~~~l~~~~~~~~~~~~~~~~~~~  467 (853)
                      ||||||||||+++++++++|..++++++++.+++.+..++.++..  .....++..+.+++..+++++..+..+|+.++.
T Consensus       399 AIDLlDeA~A~~~~~~~~~p~~l~~~~~~~~~~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~  478 (852)
T TIGR03345       399 AVSLLDTACARVALSQNATPAALEDLRRRIAALELELDALEREAALGADHDERLAELRAELAALEAELAALEARWQQEKE  478 (852)
T ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             89999999999998604895689999999999999999987445227332999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCHHCCCHHHHHHHHHHHHCCC
Q ss_conf             76559999999887488888864211156765432011068999999999751126772000168667899987661786
Q gi|254780877|r  468 KILYVADLKKRLESMRNELAIAQRQGHFERAGELAYGLIPKTEKELDEAEKADSTAEDMVQEVVTSDNIANIVSRWTGIP  547 (853)
Q Consensus       468 ~~~~i~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~dVa~vvS~~TGIP  547 (853)
                      ...++..++..+............         .....++..+..+    ...+...+++..+|+.++|++|||+|||||
T Consensus       479 ~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~l~~~~~~l----~~~~~~~~~~~~~V~~~~ia~vvs~~tgIP  545 (852)
T TIGR03345       479 LVEAILALRAELEADADAPADDDA---------ALRAQLAELEAAL----ASAQGEEPLVFPEVDAQAVAEVVADWTGIP  545 (852)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHH----HHHHCCCCCCCCCCCHHHHHHHHHHHHCCC
T ss_conf             999999999999986651433457---------7888999999999----974045664435568999999999996898


Q ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCC
Q ss_conf             67751000000012355477674594899999999998741012365665128987267861688999999987237765
Q gi|254780877|r  548 VDKMLESDREKFLRIETEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDEN  627 (853)
Q Consensus       548 v~kl~~~E~ekLl~l~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~  627 (853)
                      +++|+.+|.++|++|++.|+++||||++||++|+++|+++|+||++|+||+|||||+||||||||||||+||++|||+++
T Consensus       546 v~~l~~~e~~~l~~le~~L~~~ViGQ~~Av~~v~~ai~~sraGl~d~~rPigsFLFlGPTGVGKTElAK~LA~~LFg~e~  625 (852)
T TIGR03345       546 VGRMVRDEIEAVLSLPDRLAERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQ  625 (852)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCC
T ss_conf             78861788888886799999997284999999999999987179999998568998789987789999999999719861


Q ss_pred             CCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEE
Q ss_conf             30022447740345320130477112035667742113221564102202144149899999999840457887999778
Q gi|254780877|r  628 SMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTV  707 (853)
Q Consensus       628 ~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v  707 (853)
                      +|||||||||||+||||||||||||||||++||+|||+||++|||||||||||||||+|||+||||||+|+|||++||+|
T Consensus       626 ~liR~DMSEy~E~hsvsrLiGaPPGYVGy~eGG~LTe~Vrr~PysVvLfDEIEKAHpdV~nilLQvlD~G~LtD~~Gr~v  705 (852)
T TIGR03345       626 NLITINMSEFQEAHTVSRLKGSPPGYVGYGEGGVLTEAVRRKPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREI  705 (852)
T ss_pred             CEEEECCHHHCCHHHHHHHCCCCCCCCCCCCCCHHHHHHHHCCCEEEEECHHHHCCHHHHHHHHHHHCCCEEECCCCCEE
T ss_conf             14784224321043687863899976674877721098880998688861130028899999998724677757999988


Q ss_pred             ECCCCEEEECCCHHHHHHHCC---------HHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHH
Q ss_conf             303315595485126876403---------26799999999986288577266681586288998999999999999999
Q gi|254780877|r  708 DFRNTLIIMTSNLGAEYLIED---------GDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVL  778 (853)
Q Consensus       708 ~f~n~iii~TsN~G~~~~~~~---------~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~  778 (853)
                      ||+|||||||||+||+.+...         .+.+.+.++.+++++|+|||+||| ++|+|+||+.+++.+|+.++|.++.
T Consensus       706 dF~NtIIImTSN~Gs~~i~~~~~~~~~~~~~~~~~~~v~~~l~~~F~PEFlnRi-~ii~F~~L~~~~l~~Iv~~~l~~l~  784 (852)
T TIGR03345       706 DFKNTVILLTSNAGSDLIMALCADPETAPDPEALLEALRPELLKVFKPAFLGRM-TVIPYLPLDDDVLAAIVRLKLDRIA  784 (852)
T ss_pred             ECEEEEEEECCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHCCHHHHCCE-EEEEECCCCHHHHHHHHHHHHHHHH
T ss_conf             452129997572447999864037655566899999999999834798886456-6897368999999999999999999


Q ss_pred             HHHHHC-CCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEE-EEE
Q ss_conf             999857-98999988999999970898220621579999987334999999708688978899-999
Q gi|254780877|r  779 SLIKER-NISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQRYIQNPLAERVLSQTISDGDSIE-VFV  843 (853)
Q Consensus       779 ~~l~~~-~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~~~la~~il~~~~~~g~~i~-i~~  843 (853)
                      +||.++ +|.|.+++++++||+++||||.||||||+|+|++.|++|||+.||. .+.+|+.+. |.+
T Consensus       785 ~rL~~~~~i~l~~~~~~~~~l~~~g~~~~~GARpl~r~I~~~i~~~la~~iL~-~~~~g~~~~~i~~  850 (852)
T TIGR03345       785 RRLKENHGAELVYSEALVEHIVARCTEVESGARNIDAILNQTLLPELSRQILE-RLAAGEPIERIHL  850 (852)
T ss_pred             HHHHHCCCCEEEECHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHH-HHHCCCCEEEEEE
T ss_conf             99986289689988999999998289977686438999999988999999999-8708997248881


No 5  
>CHL00095 clpC Clp protease ATP binding subunit
Probab=100.00  E-value=0  Score=1931.36  Aligned_cols=787  Identities=47%  Similarity=0.761  Sum_probs=721.5

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf             23717999999999999999828996338999999861887668999997399989999999999974595478977770
Q gi|254780877|r    3 SDKYSDLMRNVLQSAQTYALAQGHQNLVPEHVLHIFLEDEQGAVYSLIQCSGGDIAQLKDYNQTVLSKIPKVTGGGAQVY   82 (853)
Q Consensus         3 ~~kFS~~a~~vL~~A~~~A~~~~H~~Vt~EHLLlaLL~~~~s~i~~iL~~~gvd~~~L~~~le~~L~k~~k~~~~~~~~~   82 (853)
                      ++|||++++++|..|+++|++++|.+|++||||++|+.++++.+..+|+.+++|++.++.+++.++...+.  ....+++
T Consensus         2 ~~kfT~~a~~~L~~A~~~A~~~~h~~V~~eHLLlaLl~~~~~~~~~~L~~~~vd~~~l~~~l~~~~~~~~~--~~~~~~~   79 (823)
T CHL00095          2 FERFTEKAIKVIMLAQEEARRLGHNFVGTEQILLGLIGEGTGIAARALKSLNVNLKDARKEVEKYIGRGSG--FVAVEIP   79 (823)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHCCCC--CCCCCCC
T ss_conf             42366999999999999999859894089999999974998479999998699999999999999842699--8878868


Q ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHH-HHHHHCCCCHHHHHHHHHHHHCCCCCC---CCCCCCCC
Q ss_conf             69899999999999999719870259998766872775178-899975999899999999873778878---77754676
Q gi|254780877|r   83 LSQPLAVILSKSEEIAKKSGDSFVTAEKFLLAMVMETGGIG-ESLKKCGLKFSRLEESIKKLRKGRVAD---SVNAEQGF  158 (853)
Q Consensus        83 ~S~~l~rvL~~A~~~A~~~g~~~I~~ehLLlAIl~e~~s~a-~iL~~~gi~~~~l~e~i~~~~~~~~~~---~~~~e~~~  158 (853)
                      +|+.++++|+.|+..|..+|+.+|+++|||+||+++.++++ ++|..+|++...+++.+....+.....   .......+
T Consensus        80 ~s~~~~~vL~~A~~~a~~~~~~~I~~ehLllall~e~~~~a~~iL~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (823)
T CHL00095         80 FTPRAKRVLELSLEEARILGHNYIGTEHLLLGLIREGEGVAARVLENLNVDLPKVRSLIINLIGEIAEVILGGGTSREKT  159 (823)
T ss_pred             CCHHHHHHHHHHHHHHHHCCCCEECHHHHHHHHHCCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCC
T ss_conf             88799999999999999829980439999999970897479999998799999999999998454565567886666565


Q ss_pred             CHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEE
Q ss_conf             10788644356998729853333357899999996336777866895288740777999999987348998444574378
Q gi|254780877|r  159 DALKKYCRDLTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLM  238 (853)
Q Consensus       159 ~~L~ky~~DLTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~  238 (853)
                      ++|++||+|||++|++|++|||||||+||+|+++|||||+||||||||||||||||||||||++|++|+||+.|+|++||
T Consensus       160 ~~L~ky~~dLT~~A~~GklDpvIGRd~EI~r~i~IL~RR~KNNpiLvGepGVGKTAIvEGLA~rI~~g~VP~~L~~~~i~  239 (823)
T CHL00095        160 PTLEEFGNNLTKMAYEGNLDPVIGRDKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIANRDVPDILEDKLVL  239 (823)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCCEE
T ss_conf             56999978889999838999875956999999999977324885023799987999999999976088998687599368


Q ss_pred             EEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHH
Q ss_conf             87313542174542024545899999986079976999636277302666554335888876531246604899744899
Q gi|254780877|r  239 ALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGATTLDE  318 (853)
Q Consensus       239 ~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaTT~~E  318 (853)
                      +||+++|+|||+||||||+|||+|++++++. +++||||||+|||||||+++|+|||||||||+||||+|||||||||+|
T Consensus       240 sLDl~~L~AGtkyRGeFEeRlk~il~ei~~~-~~iILFIDEiHtlvGaG~~~g~~DaaNlLKPaLarGel~~IGATT~~E  318 (823)
T CHL00095        240 TLDIGLLLAGTKYRGEFEERIKKIMDEIKKA-NNIILVIDEIHTLIGAGAAEGAIDAANILKPALARGKLQCIGATTLEE  318 (823)
T ss_pred             EEEHHHHHHCCCCCHHHHHHHHHHHHHHHHC-CCEEEEECCHHHHCCCCCCCCCHHHHHHHHHHHHCCCCEEEEECCHHH
T ss_conf             8428877533422267999999999999857-986999735165328897666431788765786489866997078899


Q ss_pred             HHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf             99973001113202311111577767899999997898654149610158999998633320245767477899999999
Q gi|254780877|r  319 YRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEAS  398 (853)
Q Consensus       319 yrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~  398 (853)
                      ||||||||+||+||||+|.|+|||.++|+.||+|++++||+||+|+|+|+||++||+||+|||+||+|||||||||||||
T Consensus       319 Yrk~iEkD~AL~RRFq~V~V~EPs~e~t~~IL~gl~~~yE~~H~V~i~d~Ai~aav~LS~RYi~dr~LPDKAIDllDeA~  398 (823)
T CHL00095        319 YRKHIEKDPALERRFQPVYVGEPSVEETIEILLGLRDRYEKHHNLSISDKALEAAAKLSDQYIKDRFLPDKAIDLLDEAG  398 (823)
T ss_pred             HHHHHHCCHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH
T ss_conf             99985305889962684102899879999999999999987508850478999999987764037778217888899998


Q ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             98754102221457887999997445699985022235665689998768999999999999888656676559999999
Q gi|254780877|r  399 ARVRMQIDTKPEVLDELDRRIICLKIEKEALKKEKDSFSKGRLIELEKELSSLEEKSHSLTLRWQEGQRKILYVADLKKR  478 (853)
Q Consensus       399 A~~~i~~~~~P~~l~~l~r~i~~l~~e~~~L~~e~d~~~~~rl~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~  478 (853)
                      |++++.+.+.|..++++++.+..+..+........+......+...+.++.                           ..
T Consensus       399 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------------------~~  451 (823)
T CHL00095        399 SRVRLINKQLPPAARELDKELRHILKDKDEAIRSQDFETAKQLRDREMEVR---------------------------TQ  451 (823)
T ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH---------------------------HH
T ss_conf             999987325867899999999999999999996744999999998899999---------------------------99


Q ss_pred             HHHHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCHHCCCHHHHHHHHHHHHCCCHHHHHHCCCHH
Q ss_conf             88748888886421115676543201106899999999975112677200016866789998766178667751000000
Q gi|254780877|r  479 LESMRNELAIAQRQGHFERAGELAYGLIPKTEKELDEAEKADSTAEDMVQEVVTSDNIANIVSRWTGIPVDKMLESDREK  558 (853)
Q Consensus       479 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~dVa~vvS~~TGIPv~kl~~~E~ek  558 (853)
                      +.....                                ............+.|+.+||++|||+|||||+++++++|.++
T Consensus       452 ~~~~~~--------------------------------~~~~~~~~~~~~~~v~~~dI~~vvs~~tgiPv~~~~~~e~~~  499 (823)
T CHL00095        452 IAAMKQ--------------------------------SKKTEEELQKEVPVVTEKDIAEIVSAWTGIPVNKLTKSESEK  499 (823)
T ss_pred             HHHHHH--------------------------------HHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCHHHHCCCHHHH
T ss_conf             999999--------------------------------987404432367720799999999998689847633458899


Q ss_pred             HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHC
Q ss_conf             01235547767459489999999999874101236566512898726786168899999998723776530022447740
Q gi|254780877|r  559 FLRIETEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYM  638 (853)
Q Consensus       559 Ll~l~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~  638 (853)
                      |++|++.|+++||||++||++|+++|+++|+||++|+||+|||||+||||||||||||+||++|||++++||||||||||
T Consensus       500 l~~le~~L~~~ViGQd~AI~~vs~ai~rsraGl~~~~rPigsFlf~GPTGvGKTElAK~LA~~LFg~e~~liR~DMSEy~  579 (823)
T CHL00095        500 LIHMEETLHKRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFIFCGPTGVGKTELTKALASYFFGSEEAMIRLDMSEYM  579 (823)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCEEEECCCCCC
T ss_conf             98788878778407699999999999999708998999746899878998877999999999974782025885351015


Q ss_pred             CCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECC
Q ss_conf             34532013047711203566774211322156410220214414989999999984045788799977830331559548
Q gi|254780877|r  639 EKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTS  718 (853)
Q Consensus       639 e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~Ts  718 (853)
                      |+||||||||||||||||++||+|||+||++|||||||||||||||+|||+||||||+|+|||+.||+|||+||||||||
T Consensus       580 E~hsvsrLIGaPPGYVGy~eGG~LTeaVrr~PysVvLfDEIEKAHpdV~nilLQvlDdG~LtD~~Gr~vdF~NtIIImTS  659 (823)
T CHL00095        580 EKHTVSKLIGSPPGYVGYNEGGQLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMTS  659 (823)
T ss_pred             CCCCHHHHCCCCCCCCCCCCCCCHHHHHHCCCCEEEEECHHHHCCHHHHHHHHHHCCCCCCCCCCCCEEECEEEEEEECC
T ss_conf             54207674589987667787882019887199869986213113889999887651688434899998843103999716


Q ss_pred             CHHHHHHHCC-------------------HHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             5126876403-------------------267999999999862885772666815862889989999999999999999
Q gi|254780877|r  719 NLGAEYLIED-------------------GDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLS  779 (853)
Q Consensus       719 N~G~~~~~~~-------------------~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~  779 (853)
                      |+||+.+...                   .+.+++.++++++++|+|||+||||+||+|+||+.+++.+|+++++.++.+
T Consensus       660 NlGs~~i~~~~~~~gf~~~~~~~~~~~~~~~~~~~~v~~~l~~~F~PEFlnRiDeii~F~~L~~~~l~~Iv~~~l~~l~~  739 (823)
T CHL00095        660 NLGSKVIEKGGGSLGFKLLEDGTKLDEKQYKRLSNLVNEELKQYFRPEFLNRLDEIIVFRPLTKDEVWEIAEIMLKELFK  739 (823)
T ss_pred             CCCHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCHHHHHHCCEEEEECCCCHHHHHHHHHHHHHHHHH
T ss_conf             50558887413443433344543220235899999999999843798787327827861899999999999999999999


Q ss_pred             HHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEC-CEEEEE
Q ss_conf             998579899998899999997089822062157999998733499999970868897889999989-948989
Q gi|254780877|r  780 LIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQRYIQNPLAERVLSQTISDGDSIEVFVDD-DNLNFR  851 (853)
Q Consensus       780 ~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~~~la~~il~~~~~~g~~i~i~~~~-~~~~~~  851 (853)
                      ++.+++|.+.+++++++||++.||||.||||||+|+|+++|++|||+.||+|.+++|++|+|++++ +++...
T Consensus       740 rl~~~~i~l~~~~~a~~~l~~~gy~~~~GARpl~R~I~~~i~~~ls~~il~g~~~~g~~v~v~~~~~g~i~v~  812 (823)
T CHL00095        740 RLNNQGIQLEVDERFKTLLAKEGYNPLYGARPLRRAIMRLLEDPLAEEVLSFKIKPGDSLVVDVDKEGKVKVL  812 (823)
T ss_pred             HHHHCCCEEEECHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEECCCCCEEEE
T ss_conf             9996898599888999999995879776813688999999889999999748889969899997589978999


No 6  
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=100.00  E-value=0  Score=1922.12  Aligned_cols=773  Identities=60%  Similarity=0.963  Sum_probs=728.5

Q ss_pred             HCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf             71799999999999999982899633899999986188766899999739998999999999997459547897777069
Q gi|254780877|r    5 KYSDLMRNVLQSAQTYALAQGHQNLVPEHVLHIFLEDEQGAVYSLIQCSGGDIAQLKDYNQTVLSKIPKVTGGGAQVYLS   84 (853)
Q Consensus         5 kFS~~a~~vL~~A~~~A~~~~H~~Vt~EHLLlaLL~~~~s~i~~iL~~~gvd~~~L~~~le~~L~k~~k~~~~~~~~~~S   84 (853)
                      +||+.++.+|..|+.+|+.++|.||++||||++|+.++.+.  .++..+|++++.++..++.++.+.++..+.   +.+|
T Consensus         1 ~~~~~~~~~l~~a~~~a~~~~h~~~~~eHll~~ll~~~~~~--~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~---~~~s   75 (786)
T COG0542           1 KLTERAQKALELAQELARMRRHEYVTPEHLLLALLDQPKGD--ELLNLCGIDLDKLRQELEEFIDKLPKVLGS---PYLS   75 (786)
T ss_pred             CCCHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCHH--HHHHHCCCCHHHHHHHHHHHHHCCCCCCCC---CCCC
T ss_conf             94889999999999999985798665999999997486317--999874999999999999998426777777---7878


Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHH-HHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHH
Q ss_conf             899999999999999719870259998766872775178-8999759998999999998737788787775467610788
Q gi|254780877|r   85 QPLAVILSKSEEIAKKSGDSFVTAEKFLLAMVMETGGIG-ESLKKCGLKFSRLEESIKKLRKGRVADSVNAEQGFDALKK  163 (853)
Q Consensus        85 ~~l~rvL~~A~~~A~~~g~~~I~~ehLLlAIl~e~~s~a-~iL~~~gi~~~~l~e~i~~~~~~~~~~~~~~e~~~~~L~k  163 (853)
                      +.+.++++.|+..++.+++++|+++|+|+|++.+..+++ ++|...+++...+.+.+..++++....+.+++...++|++
T Consensus        76 ~~~~~~~~~a~~~a~~~~~~~v~~~~llla~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~  155 (786)
T COG0542          76 PRLKRVLERAWLLAQSLGDEYVSTEHLLLALLNEPESVAAYILKKLGVTRKDVEELIEELRGGNEVDSKNAEEDQDALEK  155 (786)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHCCCCHHHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHH
T ss_conf             77999999999998751576555899999986176227899998665777779999999734666677666532446998


Q ss_pred             HHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHH
Q ss_conf             64435699872985333335789999999633677786689528874077799999998734899844457437887313
Q gi|254780877|r  164 YCRDLTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMG  243 (853)
Q Consensus       164 y~~DLTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~  243 (853)
                      ||+|||++|++|+||||||||+||+|++||||||+||||+|||||||||||||||||+||++|+||+.|++++|++||++
T Consensus       156 ~~~dlt~~Ar~gklDPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g  235 (786)
T COG0542         156 YTRDLTELAREGKLDPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLG  235 (786)
T ss_pred             HHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEECHH
T ss_conf             74114799865898877374799999999983568899847668988899999899999746999978758879971487


Q ss_pred             HHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCC-CCCHHHHHHHHHCCCCEEEEEEECHHHHHHH
Q ss_conf             542174542024545899999986079976999636277302666554-3358888765312466048997448999997
Q gi|254780877|r  244 ALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDG-AMDASNLLKPSLARGELHCIGATTLDEYRKY  322 (853)
Q Consensus       244 ~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g-~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~  322 (853)
                      +|+|||+||||||+|+|.+++|+.+++ ++||||||+|||||||+++| +|||||||||+||||+||||||||++|||||
T Consensus       236 ~LvAGakyRGeFEeRlk~vl~ev~~~~-~vILFIDEiHtiVGAG~~~g~a~DAaNiLKPaLARGeL~~IGATT~~EYRk~  314 (786)
T COG0542         236 SLVAGAKYRGEFEERLKAVLKEVEKSK-NVILFIDEIHTIVGAGATEGGAMDAANLLKPALARGELRCIGATTLDEYRKY  314 (786)
T ss_pred             HHHCCCCCCCCHHHHHHHHHHHHHCCC-CEEEEEECHHHHCCCCCCCCCCCCHHHHHHHHHHCCCEEEEEECCHHHHHHH
T ss_conf             674646535738999999999985179-8499982355405777666665125664677874587379973558999887


Q ss_pred             HHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             30011132023111115777678999999978986541496101589999986333202457674778999999999875
Q gi|254780877|r  323 IEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEASARVR  402 (853)
Q Consensus       323 iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~A~~~  402 (853)
                      ||||+||+||||+|.|.|||+++|+.||||++++||.||+|+|+|+||++||.||+|||+|||||||||||+|||||+++
T Consensus       315 iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGlk~~yE~hH~V~i~D~Al~aAv~LS~RYI~dR~LPDKAIDLiDeA~A~~~  394 (786)
T COG0542         315 IEKDAALERRFQKVLVDEPSVEDTIAILRGLKERYEAHHGVRITDEALVAAVTLSDRYIPDRFLPDKAIDLLDEAGARVR  394 (786)
T ss_pred             HHHCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHCCCCEECHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHH
T ss_conf             33066778467510279989899999998778888770696433799999999998645567899467778899999997


Q ss_pred             HHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             41022214578879999974456999850222356656899987689999999999998886566765599999998874
Q gi|254780877|r  403 MQIDTKPEVLDELDRRIICLKIEKEALKKEKDSFSKGRLIELEKELSSLEEKSHSLTLRWQEGQRKILYVADLKKRLESM  482 (853)
Q Consensus       403 i~~~~~P~~l~~l~r~i~~l~~e~~~L~~e~d~~~~~rl~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~l~~~  482 (853)
                      ++.. .|.+++++++++.+++.|+.++.++.|...                            +.....+..+++     
T Consensus       395 l~~~-~p~~l~~~~~~~~~l~~e~~~~~~e~~~~~----------------------------~~~~~~~~~~~~-----  440 (786)
T COG0542         395 LEID-KPEELDELERELAQLEIEKEALEREQDEKE----------------------------KKLIDEIIKLKE-----  440 (786)
T ss_pred             HCCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHH----------------------------HHHHHHHHHHHH-----
T ss_conf             2034-884056899999998888988744036888----------------------------888778998754-----


Q ss_pred             HHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCHHCCCHHHHHHHHHHHHCCCHHHHHHCCCHHHHHH
Q ss_conf             88888864211156765432011068999999999751126772000168667899987661786677510000000123
Q gi|254780877|r  483 RNELAIAQRQGHFERAGELAYGLIPKTEKELDEAEKADSTAEDMVQEVVTSDNIANIVSRWTGIPVDKMLESDREKFLRI  562 (853)
Q Consensus       483 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~dVa~vvS~~TGIPv~kl~~~E~ekLl~l  562 (853)
                                           ..++..++++.. +             |++++|++|||+|||||+++++++|.++|++|
T Consensus       441 ---------------------~~~~~~~~~~~~-~-------------v~~~~Ia~vv~~~TgIPv~~l~~~e~~kll~l  485 (786)
T COG0542         441 ---------------------GRIPELEKELEA-E-------------VDEDDIAEVVARWTGIPVAKLLEDEKEKLLNL  485 (786)
T ss_pred             ---------------------HHHHHHHHHHHH-C-------------CCHHHHHHHHHHHHCCCHHHHCHHHHHHHHHH
T ss_conf             ---------------------100567888762-2-------------67989999999987898364133258899867


Q ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCC
Q ss_conf             55477674594899999999998741012365665128987267861688999999987237765300224477403453
Q gi|254780877|r  563 ETEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHS  642 (853)
Q Consensus       563 ~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~  642 (853)
                      ++.|+++|+||++||++|+++|+++|+||.+|+||+|||||+||||||||||||+||++|||++++|||||||||||+||
T Consensus       486 e~~L~~rViGQd~AV~~v~~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~EkHs  565 (786)
T COG0542         486 ERRLKKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKHS  565 (786)
T ss_pred             HHHHHCCEECHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCEEECHHHHHHHHH
T ss_conf             99973650173999999999999985699999987357886678865699999999999659974445545687777877


Q ss_pred             CCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHH
Q ss_conf             20130477112035667742113221564102202144149899999999840457887999778303315595485126
Q gi|254780877|r  643 VSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGA  722 (853)
Q Consensus       643 vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~  722 (853)
                      ||||||||||||||+|||+|||+||++|||||||||||||||+|+|+||||||+|+|||++||+|||+|||||||||+|+
T Consensus       566 VSrLIGaPPGYVGyeeGG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdGrLTD~~Gr~VdFrNtiIImTSN~Gs  645 (786)
T COG0542         566 VSRLIGAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSNAGS  645 (786)
T ss_pred             HHHHHCCCCCCCEECCCCCHHHHHHCCCCEEEEECHHHHCCHHHHHHHHHHHCCCCEECCCCCEEECCEEEEEEECCCCH
T ss_conf             99872799987200655400376606998688841264408899999999846780554899888430028998450265


Q ss_pred             HHHHCC--------HHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHH
Q ss_conf             876403--------267999999999862885772666815862889989999999999999999998579899998899
Q gi|254780877|r  723 EYLIED--------GDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQV  794 (853)
Q Consensus       723 ~~~~~~--------~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~  794 (853)
                      +.+.+.        .+..++.+++.++++|+|||+||+|+||+|+||+++++.+|++++|+++.++|.++++++++++++
T Consensus       646 ~~i~~~~~~~~~~~~~~~~~~v~~~l~~~F~PEFLNRid~II~F~~L~~~~l~~Iv~~~L~~l~~~L~~~~i~l~~s~~a  725 (786)
T COG0542         646 EEILRDADGDDFADKEALKEAVMEELKKHFRPEFLNRIDEIIPFNPLSKEVLERIVDLQLNRLAKRLAERGITLELSDEA  725 (786)
T ss_pred             HHHHHHCCCCCCCHHHHHHHHHHHHHHHHCCHHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHH
T ss_conf             98975313432100467889999999853899898512617850679989999999999999999998689559988899


Q ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEECCEEEEEE
Q ss_conf             9999970898220621579999987334999999708688978899999899489897
Q gi|254780877|r  795 IDWLSCRGYDPSYGARPLKRVIQRYIQNPLAERVLSQTISDGDSIEVFVDDDNLNFRV  852 (853)
Q Consensus       795 ~~~l~~~~~~~~~GaR~l~r~i~~~i~~~la~~il~~~~~~g~~i~i~~~~~~~~~~~  852 (853)
                      ++||+++||||.||||||+|+|+++|++|||+.+|.+.+.+|.+|.|+++++.+.|..
T Consensus       726 ~~~l~~~gyd~~~GARpL~R~Iq~~i~~~La~~iL~~~~~~~~~v~v~~~~~~~~~~~  783 (786)
T COG0542         726 KDFLAEKGYDPEYGARPLRRAIQQEIEDPLADEILFGKIEDGGTVKVDVDDEKIKFVS  783 (786)
T ss_pred             HHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCEEEEEE
T ss_conf             9999996468776736799999999989999999846657996799995176378863


No 7  
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=100.00  E-value=0  Score=1803.87  Aligned_cols=723  Identities=39%  Similarity=0.673  Sum_probs=672.3

Q ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCC---CCCCCCC
Q ss_conf             1799999999999999982899633899999986188766899999739998999999999997459547---8977770
Q gi|254780877|r    6 YSDLMRNVLQSAQTYALAQGHQNLVPEHVLHIFLEDEQGAVYSLIQCSGGDIAQLKDYNQTVLSKIPKVT---GGGAQVY   82 (853)
Q Consensus         6 FS~~a~~vL~~A~~~A~~~~H~~Vt~EHLLlaLL~~~~s~i~~iL~~~gvd~~~L~~~le~~L~k~~k~~---~~~~~~~   82 (853)
                      ||+.++.+|+.|+++|++++|.||++||||++|++++.  +..+|..+++|++.++.+++.++++.+...   .....+.
T Consensus         2 ~s~~l~~~L~~A~~~A~~~~H~~v~~EHlLlaLl~~~~--~~~~L~~~~~d~~~l~~~l~~~i~~~~~~~~~~~~~~~~~   79 (758)
T PRK11034          2 LNQELELSLNMAFARAREHRHEFMTVEHLLLALLSNPS--AREALEACSVDLVALRQELEAFIEQTTPVLPASEEERDTQ   79 (758)
T ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCH--HHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCC
T ss_conf             89799999999999999829983229999999986941--8999998599999999999999972588778887756778


Q ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHH-HHHHHCCCCHHHHHHHHHHHHCCC----CCCC------
Q ss_conf             69899999999999999719870259998766872775178-899975999899999999873778----8787------
Q gi|254780877|r   83 LSQPLAVILSKSEEIAKKSGDSFVTAEKFLLAMVMETGGIG-ESLKKCGLKFSRLEESIKKLRKGR----VADS------  151 (853)
Q Consensus        83 ~S~~l~rvL~~A~~~A~~~g~~~I~~ehLLlAIl~e~~s~a-~iL~~~gi~~~~l~e~i~~~~~~~----~~~~------  151 (853)
                      +|..++++|++|+.+++.+|+++|+++|+|+||+.+.++++ ++|.+.|++..++.+.+.+.....    ....      
T Consensus        80 ~t~~~~rvl~~A~~~a~~~g~~~v~~~~lLlall~e~~~~a~~~L~~~~i~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~  159 (758)
T PRK11034         80 PTLSFQRVLQRAVFHVQSSGRSEVTGANVLVAIFSEQESQAAYLLRKHEVSRLDVVNFISHGTRKDEPSQSSDPGSQPNS  159 (758)
T ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHCCCCCHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCC
T ss_conf             77789999999999999839983049999999971785589999997799889999999722433443334455567665


Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHH
Q ss_conf             77546761078864435699872985333335789999999633677786689528874077799999998734899844
Q gi|254780877|r  152 VNAEQGFDALKKYCRDLTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPES  231 (853)
Q Consensus       152 ~~~e~~~~~L~ky~~DLTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~  231 (853)
                      .......++|++||+|||++|++|++||||||++||+|++||||||+||||||||||||||||||||||++|++|+||+.
T Consensus       160 ~~~~~~~~~L~ky~~dLt~~Ar~gklDPviGR~~Ei~r~i~iL~Rr~KNNpiLvGepGVGKTAIvEGLA~rI~~g~VP~~  239 (758)
T PRK11034        160 EEQAGGEERMENFTTNLNQLARVGGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEV  239 (758)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEECCCCCCHHHHHHHHHHHHHCCCCCHH
T ss_conf             33444235899985647999982899987384899999999997632589602169998699999999999973899765


Q ss_pred             HCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCC-CCCCHHHHHHHHHCCCCEEE
Q ss_conf             45743788731354217454202454589999998607997699963627730266655-43358888765312466048
Q gi|254780877|r  232 LKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTD-GAMDASNLLKPSLARGELHC  310 (853)
Q Consensus       232 l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~-g~~Daan~LKP~LarG~l~~  310 (853)
                      |+|++||+||+++|+|||+||||||+|||.|++|++.+ +++||||||+|||||||+++ |+|||||||||+||||+|||
T Consensus       240 L~~~~i~~Ldl~~LiAGtkyRGefEeRlk~vi~e~~~~-~~~ILFIDEiH~ivGaG~~~gg~~DaaNlLKP~LarG~l~~  318 (758)
T PRK11034        240 MADCTIYSLDIGSLLAGTKYRGDFEKRFKALLKQLEQD-TNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRV  318 (758)
T ss_pred             HCCCEEEEEEHHHHHCCCCCCHHHHHHHHHHHHHHHHC-CCEEEEEECHHHHCCCCCCCCCCCCHHHHHHHHHHCCCCEE
T ss_conf             58988998458778616864154999999999999857-98599980434422688767776467887457874697239


Q ss_pred             EEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHH
Q ss_conf             99744899999730011132023111115777678999999978986541496101589999986333202457674778
Q gi|254780877|r  311 IGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKA  390 (853)
Q Consensus       311 IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKA  390 (853)
                      ||||||+|||||||||+||+||||+|.|+|||.++|+.||+|++++||.||+|+|+|+||++||.||+|||+||+|||||
T Consensus       319 IgaTT~~EYrk~iekD~AL~RRFq~V~V~EPs~e~t~~IL~gl~~~yE~~H~v~~~d~al~~av~Ls~rYi~dr~lPDKA  398 (758)
T PRK11034        319 IGSTTYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKA  398 (758)
T ss_pred             EEECCHHHHHHCCCCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHCCCCEECCHHHHHHHHHHHHHHCCCCCCHHH
T ss_conf             99437799875032147888428265318999899999999899987323695774389999999997650268896199


Q ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999987541022214578879999974456999850222356656899987689999999999998886566765
Q gi|254780877|r  391 IDLMDEASARVRMQIDTKPEVLDELDRRIICLKIEKEALKKEKDSFSKGRLIELEKELSSLEEKSHSLTLRWQEGQRKIL  470 (853)
Q Consensus       391 IDllDeA~A~~~i~~~~~P~~l~~l~r~i~~l~~e~~~L~~e~d~~~~~rl~~l~~~l~~~~~~~~~~~~~~~~~~~~~~  470 (853)
                      |||||||||++++...+.                                                              
T Consensus       399 IdllDea~a~~~l~~~~~--------------------------------------------------------------  416 (758)
T PRK11034        399 IDVIDEAGARARLMPVSK--------------------------------------------------------------  416 (758)
T ss_pred             HHHHHHHHHHHHCCHHHH--------------------------------------------------------------
T ss_conf             999999988875134566--------------------------------------------------------------


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCHHCCCHHHHHHHHHHHHCCCHHH
Q ss_conf             59999999887488888864211156765432011068999999999751126772000168667899987661786677
Q gi|254780877|r  471 YVADLKKRLESMRNELAIAQRQGHFERAGELAYGLIPKTEKELDEAEKADSTAEDMVQEVVTSDNIANIVSRWTGIPVDK  550 (853)
Q Consensus       471 ~i~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~dVa~vvS~~TGIPv~k  550 (853)
                                                                              ....|+.+||+.|||+|||||+.+
T Consensus       417 --------------------------------------------------------~~~~v~~~di~~vv~~~t~ip~~~  440 (758)
T PRK11034        417 --------------------------------------------------------RKKTVNVADIESVVARIARIPEKS  440 (758)
T ss_pred             --------------------------------------------------------HCCCCCHHHHHHHHHHHHCCCHHH
T ss_conf             --------------------------------------------------------316589999999998750360767


Q ss_pred             HHHCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             51000000012355477674594899999999998741012365665128987267861688999999987237765300
Q gi|254780877|r  551 MLESDREKFLRIETEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMI  630 (853)
Q Consensus       551 l~~~E~ekLl~l~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~li  630 (853)
                      ++++|.++|++|++.|+++||||++||++|+++|+++|+||++|+||+|||||+||||||||||||+||+.|   +.+||
T Consensus       441 ~~~~~~~~l~~le~~l~~~viGQ~~Ai~~v~~ai~~~raGL~~~~rPigsFlf~GPTGVGKTElak~LA~~L---~~~li  517 (758)
T PRK11034        441 VSQSDRDTLKNLGDRLKMLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL---GIELL  517 (758)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHH---HHHHH
T ss_conf             767799999989999877874549999999999999863888999970589997899877799999999998---66772


Q ss_pred             CCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECC
Q ss_conf             22447740345320130477112035667742113221564102202144149899999999840457887999778303
Q gi|254780877|r  631 RIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFR  710 (853)
Q Consensus       631 r~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~  710 (853)
                      |||||||||+|+||||||||||||||+|||+|||+||++|||||||||||||||+|||+||||||+|+|||+.||+|||+
T Consensus       518 r~DMSEy~e~hsvsrLiGaPPGYVGy~eGG~Lte~Vr~~PysVvL~DEIEKAhpdV~nilLQvlD~G~LtD~~Gr~vdF~  597 (758)
T PRK11034        518 RFDMSEYMERHTVSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVMDNGTLTDNNGRKADFR  597 (758)
T ss_pred             CCCHHHHCCHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCEEEEEHHHHHHCHHHHHHHHHHCCCCCCCCCCCCEEECE
T ss_conf             14266531201477744899866676777701287873987799733675639899998873237783017999988440


Q ss_pred             CCEEEECCCHHHHHHHCCH-----HHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             3155954851268764032-----67999999999862885772666815862889989999999999999999998579
Q gi|254780877|r  711 NTLIIMTSNLGAEYLIEDG-----DSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERN  785 (853)
Q Consensus       711 n~iii~TsN~G~~~~~~~~-----~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~  785 (853)
                      |||||||||+|++.+....     ......++++++++|+|||+||||+||+|+||+.+++.+|+++++.++.++|+.++
T Consensus       598 NtiIImTSN~Ga~~~~~~~~gf~~~~~~~~~~~~l~~~F~PEFlNRiD~ii~F~~L~~~~l~~Iv~~~l~~l~~rL~~~~  677 (758)
T PRK11034        598 NVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQAQLDQKG  677 (758)
T ss_pred             EEEEEEECCCCHHHHHHHCCCCCCCCCHHHHHHHHHHHCCHHHHHHCCEEEEECCCCHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             01999825617487864214755420359999999954798677236747863889999999999999999999999789


Q ss_pred             CEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEC--CEEEEEE
Q ss_conf             899998899999997089822062157999998733499999970868897889999989--9489897
Q gi|254780877|r  786 ISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQRYIQNPLAERVLSQTISDGDSIEVFVDD--DNLNFRV  852 (853)
Q Consensus       786 i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~~~la~~il~~~~~~g~~i~i~~~~--~~~~~~~  852 (853)
                      |.++++++|++||+++||||.||||||+|+|+++|.+|||+.||+|.+++|++|+|++++  +.|+|++
T Consensus       678 i~l~~~~~a~~~l~~~gyd~~~GARpl~R~I~~~i~~~La~~il~g~~~~g~~v~v~~~~~~~~l~f~~  746 (758)
T PRK11034        678 VSLEVSQEARDWLAEKGYDRAMGARPMARVIQDNLKKPLANELLFGSLVDGGQVTVALDKEKNELTYGF  746 (758)
T ss_pred             CEEEECHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEECCCCEEEEEE
T ss_conf             859988999999998488945371128899999988999999972988898989999978998799996


No 8  
>KOG1051 consensus
Probab=100.00  E-value=0  Score=1424.42  Aligned_cols=827  Identities=45%  Similarity=0.674  Sum_probs=774.9

Q ss_pred             CHHHCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCC-CCHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             92371799999999999999982899633899999986188766899999739-99899999999999745954789777
Q gi|254780877|r    2 NSDKYSDLMRNVLQSAQTYALAQGHQNLVPEHVLHIFLEDEQGAVYSLIQCSG-GDIAQLKDYNQTVLSKIPKVTGGGAQ   80 (853)
Q Consensus         2 d~~kFS~~a~~vL~~A~~~A~~~~H~~Vt~EHLLlaLL~~~~s~i~~iL~~~g-vd~~~L~~~le~~L~k~~k~~~~~~~   80 (853)
                      ....||+++..+|..|+.+|++++|.+|||+|++.+||..++|.+++++.+.+ ++...+...+...++++|+..+++..
T Consensus         8 ~~q~lT~~Aa~~L~~a~~~Arrrgh~qvtplH~~~~LLs~~t~~lr~ac~~~~~l~~ralelc~~v~l~rlpt~~~p~~s   87 (898)
T KOG1051           8 VQQTLTEEAATVLKQAVTEARRRGHAQVTPLHVASTLLSSPTGILRRACIKSHPLQCRALELCFNVSLNRLPTSYGPPVS   87 (898)
T ss_pred             HHHHHCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCC
T ss_conf             47650799999999999999970888764699999997098317999999647521778998888998734688998541


Q ss_pred             CCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH-HCCCCHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             706989999999999999971987025999876687-2775178899975999899999999873778878777546761
Q gi|254780877|r   81 VYLSQPLAVILSKSEEIAKKSGDSFVTAEKFLLAMV-METGGIGESLKKCGLKFSRLEESIKKLRKGRVADSVNAEQGFD  159 (853)
Q Consensus        81 ~~~S~~l~rvL~~A~~~A~~~g~~~I~~ehLLlAIl-~e~~s~a~iL~~~gi~~~~l~e~i~~~~~~~~~~~~~~e~~~~  159 (853)
                      ..++.++++++..|......++.++|.++|..+.++ .+++++..+|.++|++...++..+.+.++....++.++....+
T Consensus        88 n~l~aalkr~qa~qrr~~~~~~~~~vkvE~~qli~silDdp~vsrv~rEag~~s~~vK~~ve~~~g~~~~~~~~~~~~~~  167 (898)
T KOG1051          88 NALMAALKRAQAHQRRGCEEQQQQAVKVELEQLILSILDDPSVSRVMREAGFSSSAVKSAVEQPVGQFRSPSRGPLWPLL  167 (898)
T ss_pred             HHHHHHHHHHHHHHHHCCHHHCCCHHHHHHHHHHHEECCCHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCCCCCHH
T ss_conf             37699999889998734624234134476674631130570799999995589589999886302445777767764346


Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCCH-HHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEE
Q ss_conf             078864435699872985333335-7899999996336777866895288740777999999987348998444574378
Q gi|254780877|r  160 ALKKYCRDLTEEARNGKLDPVIGR-DDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLM  238 (853)
Q Consensus       160 ~L~ky~~DLTe~Ar~GkLDPVIGR-e~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~  238 (853)
                      .|.+|+.|||.+|++|++|||||| |+||+|+++||+||+||||+|||+||||||++++|+|+||+.|+||..|.+++++
T Consensus       168 ~L~~~~~dl~p~~~~gk~dPvigr~deeirRvi~iL~Rr~k~NPvLVG~~gvgktaiv~gla~ri~~G~vp~~l~~~~l~  247 (898)
T KOG1051         168 FLENYGTDLTPRARQGKLDPVIGRHDEEIRRVIEILSRKTKNNPVLVGEPGVGKTAIVEGLAQRIATGDVPETLKDKKLI  247 (898)
T ss_pred             HHHHCCCCCCHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCEE
T ss_conf             78750645672443368788658852889999999814678996698368777216899999876617888533455248


Q ss_pred             EEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHH
Q ss_conf             87313542174542024545899999986079976999636277302666554335888876531246604899744899
Q gi|254780877|r  239 ALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGATTLDE  318 (853)
Q Consensus       239 ~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaTT~~E  318 (853)
                      .||+++|+||++||||||+|++.+++++....+.|||||||+|+++|+|++.|+||++|+|||.|+||+++||||||.+|
T Consensus       248 ~l~~g~l~aGa~~rge~E~rlk~l~k~v~~~~~gvILfigelh~lvg~g~~~~~~d~~nlLkp~L~rg~l~~IGatT~e~  327 (898)
T KOG1051         248 ALDFGSLVAGAKRRGEFEERLKELLKEVESGGGGVILFLGELHWLVGSGSNYGAIDAANLLKPLLARGGLWCIGATTLET  327 (898)
T ss_pred             EEEHHHCCCCCCCCHHHHHHHHHHHHHHHCCCCCEEEEECCEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEECCCHHH
T ss_conf             98700003586421278899999999985479868998321432204887411899998658888559748972250999


Q ss_pred             HHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf             99973001113202311111577767899999997898654149610158999998633320245767477899999999
Q gi|254780877|r  319 YRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEAS  398 (853)
Q Consensus       319 yrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~  398 (853)
                      |+|||||||||+||||.+.|.+||.++|+.||+|++++||-||||+|+++|+..|+.+|.||+++|++||+|||+.||||
T Consensus       328 Y~k~iekdPalErrw~l~~v~~pS~~~~~~iL~~l~~~~e~~hg~~~s~~a~~~a~~~s~~~~t~r~lpd~aidl~dEa~  407 (898)
T KOG1051         328 YRKCIEKDPALERRWQLVLVPIPSVENLSLILPGLSERYEVHHGVRISDESLFSAAQLSARYITLSFLPDCAIDLEDEAA  407 (898)
T ss_pred             HHHHHHHCCCHHHCCCEEEECCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHCCCCCCCHHCCCHHHHHH
T ss_conf             99987638205418551671357655314565554342011347712543342202101232123768331045889999


Q ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             98754102221457887999997445699985022235665689998768999999999999888656676559999999
Q gi|254780877|r  399 ARVRMQIDTKPEVLDELDRRIICLKIEKEALKKEKDSFSKGRLIELEKELSSLEEKSHSLTLRWQEGQRKILYVADLKKR  478 (853)
Q Consensus       399 A~~~i~~~~~P~~l~~l~r~i~~l~~e~~~L~~e~d~~~~~rl~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~  478 (853)
                      |.++++..+.|..|+.+++....++.++.+|+++.|....+++.  .+.+...+..+.++...|..++.....++..+..
T Consensus       408 a~~~~~~~~lP~wL~~~~~~~~~~~~e~~~L~kk~d~~~h~r~~--~~~~~~~~~~~~~l~~~~~~~~s~~~~l~~~~~~  485 (898)
T KOG1051         408 ALVKSQAESLPPWLQNLERVDIKLQDEISELQKKWNQALHKRPS--LESLAPSKPTQQPLSASVDSERSVIEELKLKKNS  485 (898)
T ss_pred             HHHHHHHHHCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCC--CCCCCCCCCCCCCCHHHHCCCHHHHHHHCCCCCC
T ss_conf             99863123277988754530000678999999865053223433--2345654311332134433535687664135687


Q ss_pred             HHHHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCHHCCCHHHHHHHHHHHHCCCHHHHHHCCCHH
Q ss_conf             88748888886421115676543201106899999999975112677200016866789998766178667751000000
Q gi|254780877|r  479 LESMRNELAIAQRQGHFERAGELAYGLIPKTEKELDEAEKADSTAEDMVQEVVTSDNIANIVSRWTGIPVDKMLESDREK  558 (853)
Q Consensus       479 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~dVa~vvS~~TGIPv~kl~~~E~ek  558 (853)
                      .+.... +..+.+..++..+.++.+..+|..+.+     .  ...+     ..+.++|+.++|+|||||+.++.+.|.++
T Consensus       486 ~~~~~~-~~k~~r~~d~~~~~~l~~~~~p~~~~~-----~--~~~~-----~~~~~~i~~~~s~~tgip~~~~~~~e~~~  552 (898)
T KOG1051         486 LDRNSL-LAKAHRPNDYTRETDLRYGRIPDELSE-----K--SNDN-----QGGESDISEVVSRWTGIPVDRLAEAEAER  552 (898)
T ss_pred             CCHHHH-HHCCCCCCCCCHHHHCCCCCCCHHHHH-----H--CCCC-----CCCCCCHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             001023-421468877632120123566505543-----2--0113-----47762055540232178214431667899


Q ss_pred             HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHC
Q ss_conf             01235547767459489999999999874101236566512898726786168899999998723776530022447740
Q gi|254780877|r  559 FLRIETEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYM  638 (853)
Q Consensus       559 Ll~l~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~  638 (853)
                      |.+|++.|+++|+||++||.+|+.+|+++|+|+.+| +|+++|||+||||||||+|||+||+++||++.+|||+||||||
T Consensus       553 l~~L~~~L~~~V~gQ~eAv~aIa~AI~~sr~gl~~~-~~~awflflGpdgvGKt~lAkaLA~~~Fgse~~~IriDmse~~  631 (898)
T KOG1051         553 LKKLEERLHERVIGQDEAVAAIAAAIRRSRAGLKDP-NPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLDMSEFQ  631 (898)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCC-CCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCEEEECHHHHH
T ss_conf             999999997544663778999999998432035788-8885899978884138999999999972886426896145555


Q ss_pred             CCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECC
Q ss_conf             34532013047711203566774211322156410220214414989999999984045788799977830331559548
Q gi|254780877|r  639 EKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTS  718 (853)
Q Consensus       639 e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~Ts  718 (853)
                      |   ||+|+|+|||||||++||+|||+||++|||||||||||||||+|++.|+|+||+|++||++||+|||+||||||||
T Consensus       632 e---vskligsp~gyvG~e~gg~LteavrrrP~sVvLfdeIEkAh~~v~n~llq~lD~GrltDs~Gr~Vd~kN~I~IMTs  708 (898)
T KOG1051         632 E---VSKLIGSPPGYVGKEEGGQLTEAVKRRPYSVVLFEEIEKAHPDVLNILLQLLDRGRLTDSHGREVDFKNAIFIMTS  708 (898)
T ss_pred             H---HHHCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEECHHHCCHHHHHHHHHHHHCCCCCCCCCCEEECCCEEEEEEC
T ss_conf             5---6530489955546305778889971699659998302222888999999998627400588867504645999942


Q ss_pred             CHHHHHHHCCHH----------------HHHHHHHHHHH----HHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHH
Q ss_conf             512687640326----------------79999999998----6288577266681586288998999999999999999
Q gi|254780877|r  719 NLGAEYLIEDGD----------------SVHDKVMGIVR----SAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVL  778 (853)
Q Consensus       719 N~G~~~~~~~~~----------------~~~~~~~~~l~----~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~  778 (853)
                      |+|+..+.....                ..+..+++.++    .+|+|||+||+|++++|+||+.+++.+|+..++.++.
T Consensus       709 n~~~~~i~~~~~~~~~l~~~~~~~~~~~~~k~~v~~~~~~~~~~~~r~Ef~nrid~i~lf~~l~~~~~~~i~~~~~~e~~  788 (898)
T KOG1051         709 NVGSSAIANDASLEEKLLDMDEKRGSYRLKKVQVSDAVRIYNKQFFRKEFLNRIDELDLNLPLDRDELIEIVNKQLTEIE  788 (898)
T ss_pred             CCCHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHCCCCEEEEECCCCHHHHHHHHHHHHHHHH
T ss_conf             63166664045410001231000123320133333432013565568678555540554142555666655566778888


Q ss_pred             HHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEECCEE
Q ss_conf             9998579899998899999997089822062157999998733499999970868897889999989948
Q gi|254780877|r  779 SLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQRYIQNPLAERVLSQTISDGDSIEVFVDDDNL  848 (853)
Q Consensus       779 ~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~~~la~~il~~~~~~g~~i~i~~~~~~~  848 (853)
                      +++.++++.+.+++.+.++++.++||+.||||||+|.|++.+.+.++..++ +.+.++.+++|+..++..
T Consensus       789 ~r~~~~~~~~~v~~~~~~~v~~~~~d~~ygAr~ikr~i~~~~~~~la~~~l-~ei~~~~~~~i~~~~~~~  857 (898)
T KOG1051         789 KRLEERELLLLVTDRVDDKVLFKGYDFDYGARPIKRSIEERFENRLAEALL-GEVEDGLTERILVADGWS  857 (898)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHE-EEECCCCEEEEEECCCCC
T ss_conf             776666799998899976653057684777668999999998877765311-432688569997425433


No 9  
>pfam07724 AAA_2 AAA domain (Cdc48 subfamily). This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.
Probab=100.00  E-value=0  Score=411.47  Aligned_cols=160  Identities=68%  Similarity=1.107  Sum_probs=152.5

Q ss_pred             CCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEE
Q ss_conf             65128987267861688999999987237765300224477403453201304771120356677421132215641022
Q gi|254780877|r  596 RPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVL  675 (853)
Q Consensus       596 ~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil  675 (853)
                      ||+|+|||+||||||||+|||+||+.||+++++|+++|||||+++|++++|+|+|||||||+++|.||++++++||||||
T Consensus         1 ~p~~~~l~~GPsGvGKT~lAk~la~~l~~~~~~~i~~dm~e~~~~~~v~~l~g~~~gyvg~~~~G~l~~~v~~~p~~Vil   80 (168)
T pfam07724         1 RPIGSFLFLGPTGVGKTELAKALAELLFGDERALIRIDMSEYMEEHSVSRLIGAPPGYVGYEEGGQLTEAVRRKPYSIVL   80 (168)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCEEEECCCCCCCHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCCEEE
T ss_conf             98379998898998999999999999679853448855756542569998705899872624265078999838984898


Q ss_pred             EHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHC--------CHHHHHHHHHHHHHHHCCHH
Q ss_conf             0214414989999999984045788799977830331559548512687640--------32679999999998628857
Q gi|254780877|r  676 FDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIE--------DGDSVHDKVMGIVRSAFKPE  747 (853)
Q Consensus       676 ~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~--------~~~~~~~~~~~~l~~~f~pe  747 (853)
                      |||||||||+||++|||+||+|+++|+.||+|||+|||||||||+|++.+..        +.+..+..+.+.++++|+||
T Consensus        81 lDEIeKa~~~V~~~LL~ild~g~~~d~~g~~v~~~n~i~i~Tsn~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PE  160 (168)
T pfam07724        81 IDEIEKAHPGVQNDLLQILEGGTLTDKQGRKVDFRNTLFIMTGNFGSEKISDASRLGKSPDYELLKELVMDLLKKGFIPE  160 (168)
T ss_pred             EHHHHHHCHHHHHHHHHHCCCCCEECCCCCEEECCCEEEEECCCCCCHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCHH
T ss_conf             65776658999999998705870636999678446479997687372999986304678547999999999998698846


Q ss_pred             HHCCCCCE
Q ss_conf             72666815
Q gi|254780877|r  748 FLNRLDEI  755 (853)
Q Consensus       748 flnRid~i  755 (853)
                      |+||||.|
T Consensus       161 flnRid~i  168 (168)
T pfam07724       161 FLGRLPII  168 (168)
T ss_pred             HHCCCCCC
T ss_conf             73575839


No 10 
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=99.96  E-value=6.3e-26  Score=229.68  Aligned_cols=436  Identities=20%  Similarity=0.304  Sum_probs=269.9

Q ss_pred             HCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHH
Q ss_conf             00111320231111157776789999999789865414--9610158999998633320245767477899999999987
Q gi|254780877|r  324 EKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHH--KVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEASARV  401 (853)
Q Consensus       324 EkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H--~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~A~~  401 (853)
                      ..++.|.-+.+.+.-.+++..+.-.+++.+...++++-  +-.+.++++...-..     .+   |++   |.|.+|+.+
T Consensus       105 ~~~pyl~A~Ve~l~~~~~d~~E~EAL~r~li~~f~~~v~l~~~ip~E~l~~l~~i-----dd---p~k---LAD~IAs~L  173 (784)
T PRK10787        105 DNGEHFSAKAEYLESPTIDEREQEVLVRTAISQFEGYIKLNKKIPPEVLTSLNSI-----DD---PAR---LADTIAAHM  173 (784)
T ss_pred             CCCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCC-----CC---HHH---HHHHHHHCC
T ss_conf             4789689999980688889668999999999999999985767999999999837-----88---899---999987327


Q ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             54102221457887999997445699985022235665689998768999999999999888656676559999999887
Q gi|254780877|r  402 RMQIDTKPEVLDELDRRIICLKIEKEALKKEKDSFSKGRLIELEKELSSLEEKSHSLTLRWQEGQRKILYVADLKKRLES  481 (853)
Q Consensus       402 ~i~~~~~P~~l~~l~r~i~~l~~e~~~L~~e~d~~~~~rl~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~l~~  481 (853)
                      .+....+...|... .--.+++.-...|.++.+      +.++++++          ...-+..-....+.--|++++..
T Consensus       174 ~ls~eeKQeLLE~~-dvkeRLekll~lL~kElE------ileLe~kI----------~~kVkekm~K~QREyyLREQLka  236 (784)
T PRK10787        174 PLKLADKQSVLEMS-DVNERLEYLMAMMESEID------LLQVEKRI----------RNRVKKQMEKSQREYYLNEQMKA  236 (784)
T ss_pred             CCCHHHHHHHHHHC-CHHHHHHHHHHHHHHHHH------HHHHHHHH----------HHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             99999999998638-999999999999999999------99999999----------99999764067789998741022


Q ss_pred             HHHHHHHHHHCC-HHHHHH-HHHHCCHHHHHHHHHHHHHHHCCCCCCCHHCCCHHHHHHHHHHHHCCCHHHHHHCCCHHH
Q ss_conf             488888864211-156765-432011068999999999751126772000168667899987661786677510000000
Q gi|254780877|r  482 MRNELAIAQRQG-HFERAG-ELAYGLIPKTEKELDEAEKADSTAEDMVQEVVTSDNIANIVSRWTGIPVDKMLESDREKF  559 (853)
Q Consensus       482 ~~~~~~~~~~~~-~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~dVa~vvS~~TGIPv~kl~~~E~ekL  559 (853)
                      ++.++....... +.+... .+....+|+.-++.  +..+......|....-...-+..-+--.+.+||++.+.+.. -|
T Consensus       237 Iq~ELGe~~~~~~e~~~~~~ki~~~~~p~~~~~~--~~~El~rl~~~~~~s~E~~v~r~YLd~l~~LPW~~~t~d~~-dl  313 (784)
T PRK10787        237 IQKELGEMDDAPDENEALKRKIDAAKMPKEAKEK--AEAELQKLKMMSPMSAEATVVRGYIDWMVQVPWNARSKVKK-DL  313 (784)
T ss_pred             CCHHHCCCCCCHHHHHHHHHHHHHCCCCHHHHHH--HHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCC-CH
T ss_conf             2022056764124899999999877999899999--99999999718998941889999999997599888878756-99


Q ss_pred             HHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCC
Q ss_conf             12355477674594899999999998741012365665128987267861688999999987237765300224477403
Q gi|254780877|r  560 LRIETEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYME  639 (853)
Q Consensus       560 l~l~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e  639 (853)
                      ...++.|.+.-+|-+..-+.|...+-..+.. .+...||  ++|+||+|||||.|||++|+.|   .+.++|+-++--.+
T Consensus       314 ~~A~~iLd~dHyGL~~vKeRile~lAv~~~~-~~~kg~I--lclvGpPGvGKTSl~~sIA~al---~r~f~rislGGv~D  387 (784)
T PRK10787        314 RQAQEILDTDHYGLERVKDRILEYLAVQSRV-NKIKGPI--LCLVGPPGVGKTSLGQSIAKAT---GRKYVRMALGGVRD  387 (784)
T ss_pred             HHHHHHHHHHHCCHHHHHHHHHHHHHHHHHC-CCCCCCE--EEEECCCCCCHHHHHHHHHHHH---CCCEEEEECCCCCC
T ss_conf             9999987654306577999999999999862-4677877--9964699877246999999985---89869980688788


Q ss_pred             CCCC----CHHHCCCCHHCCCCCCCCCCHHHHC----CCCCEEEEHHHHHCCHH----HHHHHHHHHH---CCEEECCC-
Q ss_conf             4532----0130477112035667742113221----56410220214414989----9999999840---45788799-
Q gi|254780877|r  640 KHSV----SRLIGSPPGYVGYEEGGALTEAVRR----HPYQVVLFDEIEKAHSD----VHNILLQVLD---DGRLTDSQ-  703 (853)
Q Consensus       640 ~~~v----s~LiGappGYvG~~~gg~Lte~vr~----~P~sVil~DEiEKah~~----v~~~llqild---~G~ltd~~-  703 (853)
                      ...+    -.-+||-||        ....++++    ||  |+|||||+|-..+    --..||.+||   +-.++|.+ 
T Consensus       388 eaeirGHrrTYvgampG--------rii~~l~~a~~~nP--v~llDEiDK~~~~~~Gdp~salLEvLDpeQN~~F~Dhyl  457 (784)
T PRK10787        388 EAEIRGHRRTYIGSMPG--------KLIQKMAKVGVKNP--LFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYL  457 (784)
T ss_pred             HHHHCCCCCCCCCCCCH--------HHHHHHHHHCCCCC--EEEEHHHHHHCCCCCCCHHHHHHHHCCHHHCCCCCCCEE
T ss_conf             88825643343443683--------89999997489885--665003555224558998899998459765564000322


Q ss_pred             CCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             97783033155954851268764032679999999998628857726668158628899899999999999999999985
Q gi|254780877|r  704 GRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKE  783 (853)
Q Consensus       704 G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~  783 (853)
                      +-..|+++++||+|.|-=                    . .++.+++|+ ++|-+..++.++...|+..+|  +.+.+++
T Consensus       458 ~~~~DlS~v~Fi~TaN~~--------------------~-ip~pLlDRm-E~i~~~gYt~~eK~~Ia~~~l--~p~~~~~  513 (784)
T PRK10787        458 EVDYDLSDVMFVATSNSM--------------------N-IPAPLLDRM-EVIRLSGYTEDEKLNIAKRHL--LPKQIER  513 (784)
T ss_pred             ECCCCHHHEEEEEECCCC--------------------C-CCHHHHHHE-EEEEECCCCHHHHHHHHHHHC--HHHHHHH
T ss_conf             046452225899732767--------------------7-876776312-155411676788999999745--3999998


Q ss_pred             CCC---EEEECHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             798---9999889999999708982206215799999873349999997086
Q gi|254780877|r  784 RNI---SMDFDDQVIDWLSCRGYDPSYGARPLKRVIQRYIQNPLAERVLSQT  832 (853)
Q Consensus       784 ~~i---~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~~~la~~il~~~  832 (853)
                      +|+   .+.++++++.+|++ .|..+.|.|.|+|.|.+-. ...+..++.+.
T Consensus       514 ~gl~~~~~~~~~~~~~~ii~-~ytrEaGvR~ler~i~~i~-rk~~~~~~~~~  563 (784)
T PRK10787        514 NALKKGELTVDDSAIIGIIR-YYTREAGVRSLEREISKLC-RKAVKQLLLDK  563 (784)
T ss_pred             HCCCCCCCCCCHHHHHHHHH-HCCCCCCCCCHHHHHHHHH-HHHHHHHHCCC
T ss_conf             28996567439999999875-3365444251688999999-99999997078


No 11 
>TIGR00763 lon ATP-dependent protease La; InterPro: IPR004815   Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes . They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence . Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases .   Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base . The geometric orientations of the catalytic residues are similar between families, despite different protein folds . The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) , .   Peptidases are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry. Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins.   Families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule.    This signature defines the bacterial and eukaryotic lon proteases, which are ATP-dependent serine peptidases belonging to the MEROPS peptidase family S16 (lon protease family, clan SF). This family of sequences does not include the archaeal lon homologs, IPR004663 from INTERPRO. In the eukaryotes the majority of the proteins are located in the mitochondrial matrix , . In yeast, Pim1, is located in the mitochondrial matrix, is required for mitochondrial function, is constitutively expressed but is increased after thermal stress, suggesting that Pim1 may play a role in the heat shock response .; GO: 0004176 ATP-dependent peptidase activity, 0005524 ATP binding, 0006510 ATP-dependent proteolysis.
Probab=99.96  E-value=2.7e-27  Score=240.80  Aligned_cols=252  Identities=26%  Similarity=0.449  Sum_probs=202.1

Q ss_pred             HHHHHHHCCCHHHHHHC-CCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHH---------HCCCC-CCCCC-CEEEEEEC
Q ss_conf             99876617866775100-000001235547767459489999999999874---------10123-65665-12898726
Q gi|254780877|r  538 NIVSRWTGIPVDKMLES-DREKFLRIETEISKSVIGQSAAVESVSNALRRF---------RAGLQ-DPQRP-MGSFMFLG  605 (853)
Q Consensus       538 ~vvS~~TGIPv~kl~~~-E~ekLl~l~~~l~~~v~gq~~ai~~v~~~~~~~---------~~gl~-~~~~p-~~~flf~G  605 (853)
                      .-+--+|-+||++.+.+ +.--|.+..+.|.+--+|=+..-+.|..-|-..         +--|. +-..| |  ++|+|
T Consensus       380 nYLDwl~~lPW~~~S~~f~n~Dl~~A~~~LD~DHYGL~~VK~RIlEYlAV~qllemrrkkkPkL~~~~~GpqI--lClvG  457 (941)
T TIGR00763       380 NYLDWLTDLPWGKYSKEFDNLDLKRAKEILDEDHYGLKKVKERILEYLAVQQLLEMRRKKKPKLRGKMKGPQI--LCLVG  457 (941)
T ss_pred             HHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEE--EEEEC
T ss_conf             9999998377221470266521899999831678888773034135888989998764036444778888767--87207


Q ss_pred             CCCHHHHHHHHHHHHHHCCCCCCCCCC------CHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHH----CCCCCEEE
Q ss_conf             786168899999998723776530022------44774034532013047711203566774211322----15641022
Q gi|254780877|r  606 PTGVGKTELVKSLARLLFDDENSMIRI------DMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVR----RHPYQVVL  675 (853)
Q Consensus       606 ptGvGKTelak~la~~lf~~~~~lir~------dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr----~~P~sVil  675 (853)
                      |+|||||.||+++|++|   ++.|+||      |=+|=.- |= =.-|||-||-        +..+++    .||  |+|
T Consensus       458 PPGVGKTSlg~SIA~AL---nRkFvR~SlGG~~DeAEIrG-HR-RTYvGAMPGr--------iiQ~lk~~~t~NP--l~L  522 (941)
T TIGR00763       458 PPGVGKTSLGKSIAKAL---NRKFVRFSLGGVRDEAEIRG-HR-RTYVGAMPGR--------IIQGLKKAKTKNP--LIL  522 (941)
T ss_pred             CCCCCHHHHHHHHHHHH---CCEEEEEEECCCEEHHHCCC-CC-CCCCCCCHHH--------HHHHHHHCCCCCC--EEE
T ss_conf             26954222789999996---88049995267220311278-64-3203467257--------8999876041588--068


Q ss_pred             EHHHHHCC--HHH----HHHHHHHHH---CCEEECCC-CCEEECCCCE--EEECCCHHHHHHHCCHHHHHHHHHHHHHHH
Q ss_conf             02144149--899----999999840---45788799-9778303315--595485126876403267999999999862
Q gi|254780877|r  676 FDEIEKAH--SDV----HNILLQVLD---DGRLTDSQ-GRTVDFRNTL--IIMTSNLGAEYLIEDGDSVHDKVMGIVRSA  743 (853)
Q Consensus       676 ~DEiEKah--~~v----~~~llqild---~G~ltd~~-G~~v~f~n~i--ii~TsN~G~~~~~~~~~~~~~~~~~~l~~~  743 (853)
                      +|||+|-.  .++    ...||.|||   +-.+.|.+ .-.+|+++.+  ||+|+|-    +-                .
T Consensus       523 lDEIDK~~~~~~~~GDPaSALLEvLDPEQN~~F~DHYldvp~DLS~V~CyFi~TAN~----~d----------------~  582 (941)
T TIGR00763       523 LDEIDKIGLKSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVLCYFIATANS----ID----------------T  582 (941)
T ss_pred             EEEEEEECCCCCCCCCHHHHHHHHCCHHHCCCCCCCCCCCCCCHHHHHHHEEECCCC----CC----------------C
T ss_conf             620220016788655637888641286436042553002340042002100024475----76----------------7


Q ss_pred             CCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCE---EEECHHHHHHHHHCCCCCCCCCHHHHHHHHHHH
Q ss_conf             88577266681586288998999999999999999999857989---999889999999708982206215799999873
Q gi|254780877|r  744 FKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNIS---MDFDDQVIDWLSCRGYDPSYGARPLKRVIQRYI  820 (853)
Q Consensus       744 f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~---l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~i  820 (853)
                      -|+.||+|| |||-...++.++...|++.+|  +.+.+..+|+.   +.++++|+..|++. |.++.|.|+|+|-|++ |
T Consensus       583 IP~PLLDRM-EvI~lsGY~~~EK~~IA~~yL--iP~~~~~~GL~~~~l~~~d~al~~lI~~-YtREaGVRNL~r~I~~-i  657 (941)
T TIGR00763       583 IPRPLLDRM-EVIELSGYTEEEKLEIAKKYL--IPKALEDHGLKPDELKISDEALLLLIKY-YTREAGVRNLERQIEK-I  657 (941)
T ss_pred             CCCCCCCCE-EEEECCCCCHHHHHHHHHHCC--HHHHHHHHCCCCCCEEECHHHHHHHHHH-HHHHHCCHHHHHHHHH-H
T ss_conf             772213740-245238887678999998547--1367987088813221268999999987-5132021338999999-9


Q ss_pred             HHHHHHHHHCC
Q ss_conf             34999999708
Q gi|254780877|r  821 QNPLAERVLSQ  831 (853)
Q Consensus       821 ~~~la~~il~~  831 (853)
                      ....|..++..
T Consensus       658 ~RK~A~~~~~~  668 (941)
T TIGR00763       658 CRKAAVKLVEQ  668 (941)
T ss_pred             HHHHHHHHHHH
T ss_conf             99999999871


No 12 
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=99.95  E-value=1.3e-23  Score=210.99  Aligned_cols=442  Identities=24%  Similarity=0.356  Sum_probs=265.6

Q ss_pred             HHCCHHHHHCCCEEECCCCC-HHHHHHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q ss_conf             30011132023111115777-678999999978986541496--101589999986333202457674778999999999
Q gi|254780877|r  323 IEKDPALARRFQSLLVGEPT-VTDTISILRGLKERYEQHHKV--RISDSALVSAAVLSNRYITDRFLPDKAIDLMDEASA  399 (853)
Q Consensus       323 iEkD~Al~RRFq~i~V~Eps-~~~t~~iL~gl~~~yE~~H~V--~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~A  399 (853)
                      +..+..+.-.++.+.-.+-. ..+.-.+.+.+.+.+|++-..  ++..+.+....     .|.   -|+   .|.|..+|
T Consensus       104 ~~~~~~~~a~~~~i~~~~~~~~~~~~al~~~i~~~~~~~~~l~~~~~~e~l~~~~-----~i~---~~~---klad~iaa  172 (782)
T COG0466         104 SDEEEFFEAEIELLPDEPIDEEREIEALVRSILSEFEEYAKLNKKIPPEELQSLN-----SID---DPG---KLADTIAA  172 (782)
T ss_pred             CCCCCCEEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHH-----CCC---CHH---HHHHHHHH
T ss_conf             2677716999886377765432679999999999999999845578999997775-----156---457---89999998


Q ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             87541022214578879999974456999850222356656899987689999999999998886566765599999998
Q gi|254780877|r  400 RVRMQIDTKPEVLDELDRRIICLKIEKEALKKEKDSFSKGRLIELEKELSSLEEKSHSLTLRWQEGQRKILYVADLKKRL  479 (853)
Q Consensus       400 ~~~i~~~~~P~~l~~l~r~i~~l~~e~~~L~~e~d~~~~~rl~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~l  479 (853)
                      ...+....+.+.+... .--.+++.....+..+.+      +.++++++...-++.          -+...+.--|++++
T Consensus       173 ~l~~~~~~kQ~iLe~~-~v~~Rlek~l~~l~~ei~------~~~~ek~I~~kVk~~----------meK~QREyyL~EQl  235 (782)
T COG0466         173 HLPLKLEEKQEILETL-DVKERLEKLLDLLEKEID------LLQLEKRIRKKVKEQ----------MEKSQREYYLREQL  235 (782)
T ss_pred             HCCCCHHHHHHHHHHC-CHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHH----------HHHHHHHHHHHHHH
T ss_conf             5778789999998718-899999999999999999------999999999999998----------77888999999999


Q ss_pred             HHHHHHHHHHHHCC-HHHHH-HHHHHCCHHHHHHH--HHHHHHHHCCCCCCCHHCCCHHHHHHHHHHHHCCCHHHHHHCC
Q ss_conf             87488888864211-15676-54320110689999--9999975112677200016866789998766178667751000
Q gi|254780877|r  480 ESMRNELAIAQRQG-HFERA-GELAYGLIPKTEKE--LDEAEKADSTAEDMVQEVVTSDNIANIVSRWTGIPVDKMLESD  555 (853)
Q Consensus       480 ~~~~~~~~~~~~~~-~~~~~-~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~V~~~dVa~vvS~~TGIPv~kl~~~E  555 (853)
                      ..++.++....... +.+.. ..+....+|..-++  ..++.+.    ..|....-...-|..-+--.+.+||.+-+.+.
T Consensus       236 KaIqkELG~~~d~~~e~~~~~~kie~~~~p~evkek~~~El~kL----~~m~~~SaE~~ViRnYlDwll~lPW~~~sk~~  311 (782)
T COG0466         236 KAIQKELGEDDDDKDEVEELREKIEKLKLPKEAKEKAEKELKKL----ETMSPMSAEATVIRNYLDWLLDLPWGKRSKDK  311 (782)
T ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH----HCCCCCCCHHHHHHHHHHHHHHCCCCCCCCHH
T ss_conf             99999858886545589999999751699989999999999998----50799991688998999999828876554213


Q ss_pred             CHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHH
Q ss_conf             00001235547767459489999999999874101236566512898726786168899999998723776530022447
Q gi|254780877|r  556 REKFLRIETEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMS  635 (853)
Q Consensus       556 ~ekLl~l~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMs  635 (853)
                      .+ |.+.++.|.+.-+|-+..-+.|...+-..+. ...-..||  ++|+||+|||||.|+|.+|+.|   .+.++||-..
T Consensus       312 ~D-l~~a~~iLd~dHYGLekVKeRIlEyLAV~~l-~~~~kGpI--LcLVGPPGVGKTSLgkSIA~al---~RkfvR~sLG  384 (782)
T COG0466         312 LD-LKKAEKILDKDHYGLEKVKERILEYLAVQKL-TKKLKGPI--LCLVGPPGVGKTSLGKSIAKAL---GRKFVRISLG  384 (782)
T ss_pred             HH-HHHHHHHHCCCCCCCHHHHHHHHHHHHHHHH-HCCCCCCE--EEEECCCCCCCHHHHHHHHHHH---CCCEEEEECC
T ss_conf             22-9999987443556711689999999999986-14678857--9997899887011899999995---8977999547


Q ss_pred             HHCCCCCC----CHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHH----HHHHHHHHHH---CCEEECCC-
Q ss_conf             74034532----013047711203566774211322156410220214414989----9999999840---45788799-
Q gi|254780877|r  636 EYMEKHSV----SRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSD----VHNILLQVLD---DGRLTDSQ-  703 (853)
Q Consensus       636 ey~e~~~v----s~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~----v~~~llqild---~G~ltd~~-  703 (853)
                      --.+...+    -.-|||-||-+=.    -+..+=..||  |+|+|||+|...+    =-..||.+||   +-.+.|.+ 
T Consensus       385 GvrDEAEIRGHRRTYIGaMPGrIiQ----~mkka~~~NP--v~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYL  458 (782)
T COG0466         385 GVRDEAEIRGHRRTYIGAMPGKIIQ----GMKKAGVKNP--VFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYL  458 (782)
T ss_pred             CCCCHHHHCCCCCCCCCCCCHHHHH----HHHHHCCCCC--EEEEECHHHCCCCCCCCHHHHHHHHCCHHHCCCHHHCCC
T ss_conf             6542777535531233568728999----9998677687--478640333167777886888886269765676122201


Q ss_pred             CCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             97783033155954851268764032679999999998628857726668158628899899999999999999999985
Q gi|254780877|r  704 GRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKE  783 (853)
Q Consensus       704 G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~  783 (853)
                      .-..|+++.+||+|+|-    +                ...|..+++|+ +||-+..++.++...|+..+|  +.+.+++
T Consensus       459 ev~yDLS~VmFiaTANs----l----------------~tIP~PLlDRM-EiI~lsgYt~~EKl~IAk~~L--iPk~~~~  515 (782)
T COG0466         459 EVPYDLSKVMFIATANS----L----------------DTIPAPLLDRM-EVIRLSGYTEDEKLEIAKRHL--IPKQLKE  515 (782)
T ss_pred             CCCCCHHHEEEEEECCC----C----------------CCCCHHHHCCE-EEEEECCCCHHHHHHHHHHHC--CHHHHHH
T ss_conf             67664432588860375----1----------------32986784303-056426888699999999844--5689997


Q ss_pred             CCCE---EEECHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             7989---99988999999970898220621579999987334999999708688
Q gi|254780877|r  784 RNIS---MDFDDQVIDWLSCRGYDPSYGARPLKRVIQRYIQNPLAERVLSQTIS  834 (853)
Q Consensus       784 ~~i~---l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~~~la~~il~~~~~  834 (853)
                      +|++   +.++|+|+.+|++. |..+.|.|+|+|.|.+ +....+..++.+..+
T Consensus       516 ~gL~~~el~i~d~ai~~iI~~-YTREAGVR~LeR~i~k-i~RK~~~~i~~~~~k  567 (782)
T COG0466         516 HGLKKGELTITDEAIKDIIRY-YTREAGVRNLEREIAK-ICRKAAKKILLKKEK  567 (782)
T ss_pred             CCCCCCCEEECHHHHHHHHHH-HHHHHHHHHHHHHHHH-HHHHHHHHHHHCCCC
T ss_conf             599823355658999999998-7676210389999999-999999999725756


No 13 
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=99.92  E-value=3.9e-23  Score=207.03  Aligned_cols=251  Identities=27%  Similarity=0.482  Sum_probs=180.3

Q ss_pred             HHHHHHHHHHCCHHHHHHHHHHHH----HHHHCCCCCCC---CCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf             235547767459489999999999----87410123656---65128987267861688999999987237765300224
Q gi|254780877|r  561 RIETEISKSVIGQSAAVESVSNAL----RRFRAGLQDPQ---RPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRID  633 (853)
Q Consensus       561 ~l~~~l~~~v~gq~~ai~~v~~~~----~~~~~gl~~~~---~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~d  633 (853)
                      .+.+.|.+.||||++|-+.++-|+    +|.+......+   =+-...|++||||+|||+||++||+.|   .-.|+.-|
T Consensus        65 eI~~~LD~yVIGQ~~AKk~lsVAvyNHykRi~~~~~~~~~vei~KsNILliGPTG~GKTlla~tLAk~l---~vPF~iaD  141 (411)
T PRK05342         65 EIKAHLDQYVIGQERAKKVLSVAVYNHYKRLRQNGSKSDDVELQKSNILLIGPTGSGKTLLAQTLARIL---NVPFAIAD  141 (411)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEECCCCCCHHHHHHHHHHHH---CCCEEEEE
T ss_conf             999986214028488889999999999999860213356652134538998999977889999999986---99989986


Q ss_pred             HHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHH-------HHCCCCCEEEEHHHHHCC--------------HHHHHHHHH
Q ss_conf             47740345320130477112035667742113-------221564102202144149--------------899999999
Q gi|254780877|r  634 MSEYMEKHSVSRLIGSPPGYVGYEEGGALTEA-------VRRHPYQVVLFDEIEKAH--------------SDVHNILLQ  692 (853)
Q Consensus       634 Msey~e~~~vs~LiGappGYvG~~~gg~Lte~-------vr~~P~sVil~DEiEKah--------------~~v~~~llq  692 (853)
                      -.-|+|           .||||-|--..|..-       |.+--+.+|.+|||+|-.              -.|+..||.
T Consensus       142 AT~lTE-----------aGYVGeDVE~ii~~Llq~Ad~dve~Ae~GIV~IDEIDKIarks~~~s~trDVSgEGVQqaLLk  210 (411)
T PRK05342        142 ATTLTE-----------AGYVGEDVENILLKLLQAADYDVEKAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLK  210 (411)
T ss_pred             ECEECC-----------CCCCCCCHHHHHHHHHHHCCCCHHHHHCCEEEEEEHHHHHHCCCCCCCCCCCCCHHHHHHHHH
T ss_conf             120012-----------674560799999999998288899883682888502345424788888777651248999999


Q ss_pred             HHHCCEEEC---CCCC--------EEECCCCEEEECCCH-HHHHHHCC----------------HHHHHHHH------HH
Q ss_conf             840457887---9997--------783033155954851-26876403----------------26799999------99
Q gi|254780877|r  693 VLDDGRLTD---SQGR--------TVDFRNTLIIMTSNL-GAEYLIED----------------GDSVHDKV------MG  738 (853)
Q Consensus       693 ild~G~ltd---~~G~--------~v~f~n~iii~TsN~-G~~~~~~~----------------~~~~~~~~------~~  738 (853)
                      ++ ||+...   ..||        .||-+|-+||+.--. |-+.+...                .......+      .+
T Consensus       211 ii-EGt~v~vp~~ggrkhp~~~~~~idT~nILFI~gGAF~GL~~II~~R~~~~~iGF~~~~~~~~~~~~~~~l~~v~p~D  289 (411)
T PRK05342        211 IL-EGTVASVPPQGGRKHPQQEFIQVDTTNILFICGGAFDGLEKIIKQRLGKSGIGFGAEVKSKDEKDLGELLAQVEPED  289 (411)
T ss_pred             HH-CCCEECCCCCCCCCCCCCCEEEEECCCEEEEECCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHCCHHH
T ss_conf             87-58714118887777877651676147179991155335899998635788767788766411000567876279878


Q ss_pred             HHHHHCCHHHHCCCCCEEECCCCCHHHHHHHH----HHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHH
Q ss_conf             99862885772666815862889989999999----99999999999857989999889999999708982206215799
Q gi|254780877|r  739 IVRSAFKPEFLNRLDEIILFEKLRKEDMAKIV----RIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKR  814 (853)
Q Consensus       739 ~l~~~f~peflnRid~iv~F~~l~~~~~~~i~----~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r  814 (853)
                      .++--|-|||++|+.-++.+++|+.+++.+|+    .-.+.+.++.++..|+.|+|+++|++.|++.....+.|||.|+.
T Consensus       290 Li~fGlIPEfiGRlPViv~L~~L~~~~L~~ILtePkNaLikQY~~LF~~dgV~L~Ft~~AL~~IA~~A~~~~tGARgLRs  369 (411)
T PRK05342        290 LVKFGLIPEFIGRLPVVATLEELDEEALVRILTEPKNALVKQYQKLFEMDGVELEFTDDALEAIAKKAIERKTGARGLRS  369 (411)
T ss_pred             HHHCCCCHHHHCCCCEEEECCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCEEEECHHHHHHHHHHHHHHCCCHHHHHH
T ss_conf             88738837761466405462447999999996587415999999999754967998689999999999984757457799


Q ss_pred             HHHHHHHHHHHH
Q ss_conf             999873349999
Q gi|254780877|r  815 VIQRYIQNPLAE  826 (853)
Q Consensus       815 ~i~~~i~~~la~  826 (853)
                      ++++.+.+.+=+
T Consensus       370 IlE~iLld~MFe  381 (411)
T PRK05342        370 ILEEVLLDVMFE  381 (411)
T ss_pred             HHHHHHHHHHCC
T ss_conf             999997887544


No 14 
>TIGR00382 clpX ATP-dependent Clp protease, ATP-binding subunit ClpX; InterPro: IPR004487   ClpX is a member of the HSP (heat-shock protein) 100 family. Gel filtration and electron microscopy showed that ClpX subunits associate to form a six-membered ring that is stabilized by binding of ATP or nonhydrolyzable analogs of ATP . It functions as an ATP-depedent  molecular chaperone and is the regulatory subunit of the ClpXP protease .   ClpXP is involved in DNA damage repair, stationary-phase gene expression, and ssrA-mediated protein quality control. To date more than 50 proteins include transcription factors, metabolic enzymes, and proteins involved in the starvation and oxidative stress responses have been identified as substrates .    The N-terminal domain of ClpX is a C4-type zinc binding domain (ZBD) involved in substrate recognition. ZBD forms a very stable dimer that is essential for promoting the degradation of some typical ClpXP substrates such as lO and MuA .  ; GO: 0005515 protein binding, 0005524 ATP binding, 0016887 ATPase activity, 0015031 protein transport.
Probab=99.90  E-value=1.5e-22  Score=202.34  Aligned_cols=264  Identities=26%  Similarity=0.479  Sum_probs=191.9

Q ss_pred             HHHHHHHHHHCCHHHHHHH----HHHHHHHHHC---CCC-CCC-C------------CCEEEEEECCCCHHHHHHHHHHH
Q ss_conf             2355477674594899999----9999987410---123-656-6------------51289872678616889999999
Q gi|254780877|r  561 RIETEISKSVIGQSAAVES----VSNALRRFRA---GLQ-DPQ-R------------PMGSFMFLGPTGVGKTELVKSLA  619 (853)
Q Consensus       561 ~l~~~l~~~v~gq~~ai~~----v~~~~~~~~~---gl~-~~~-~------------p~~~flf~GptGvGKTelak~la  619 (853)
                      .+.+.|...|||||+|-+.    |.+|++|.+.   +-. |+. .            --...|++||||+|||-||++||
T Consensus        94 eik~~LD~YVIGQe~AKKVLsVAVYNHYKRl~~~~~n~~~d~~D~nvelehleeVEL~KSNILLiGPTGSGKTLLAqTLA  173 (452)
T TIGR00382        94 EIKAHLDEYVIGQEQAKKVLSVAVYNHYKRLNLKEKNKKSDNGDSNVELEHLEEVELSKSNILLIGPTGSGKTLLAQTLA  173 (452)
T ss_pred             HHHHHHCCCCCCCCCCCEEEEEEEHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHH
T ss_conf             99997213612310105254324112466653243045558840002354444433300662454688852689999999


Q ss_pred             HHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHH-------CCCCCEEEEHHHHHCCH--------
Q ss_conf             872377653002244774034532013047711203566774211322-------15641022021441498--------
Q gi|254780877|r  620 RLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVR-------RHPYQVVLFDEIEKAHS--------  684 (853)
Q Consensus       620 ~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr-------~~P~sVil~DEiEKah~--------  684 (853)
                      +.|   +-+   |-|++      ++.|.-  +||||=|=-..|+.-+.       +--..+|..|||+|-..        
T Consensus       174 ~~L---~VP---fAiAD------ATtLTE--AGYVGEDVENIL~~Llq~ad~DV~kA~kGIiYIDEIDKIaRkSEN~SIT  239 (452)
T TIGR00382       174 RIL---NVP---FAIAD------ATTLTE--AGYVGEDVENILLKLLQAADYDVEKAQKGIIYIDEIDKIARKSENPSIT  239 (452)
T ss_pred             HHC---CCC---EEECC------HHHHHC--CCCCCCCHHHHHHHHHHHCCCCHHHHCCCEEEEECCCCHHHHCCCCEEE
T ss_conf             873---887---42111------110200--6642422889999998741455245278508984223101215778011


Q ss_pred             ------HHHHHHHHHHHCCEEEC---CCCCEEECCCCEEEECCCH-----H----HHHHHCC--------HH-------H
Q ss_conf             ------99999999840457887---9997783033155954851-----2----6876403--------26-------7
Q gi|254780877|r  685 ------DVHNILLQVLDDGRLTD---SQGRTVDFRNTLIIMTSNL-----G----AEYLIED--------GD-------S  731 (853)
Q Consensus       685 ------~v~~~llqild~G~ltd---~~G~~v~f~n~iii~TsN~-----G----~~~~~~~--------~~-------~  731 (853)
                            -|++.||-++ ||++..   ..||+.--.++|=|=|||+     |    =+.+.+.        ++       .
T Consensus       240 RDVSGEGVQQALLKi~-EGTvA~vPPqGGRKHP~~~~iqiDTs~ILFICGGAF~GL~~iI~~R~~~~~~iGF~~~~~~~~  318 (452)
T TIGR00382       240 RDVSGEGVQQALLKII-EGTVANVPPQGGRKHPQQEFIQIDTSNILFICGGAFVGLEKIIKKRTEKKSSIGFGAEVKKKS  318 (452)
T ss_pred             EEECCCHHHHHHHHHH-HCCEEEECCCCCCCCCCCCEEEECCCCEEEEECCHHHHHHHHHHHHHCCCCCCCCCCCHHHHH
T ss_conf             2217554999999876-032343175448868865768864764001105434448999988745553335455210045


Q ss_pred             HH---HHHH------HHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHH----HHHHHHHHHHHHHCCCEEEECHHHHHHH
Q ss_conf             99---9999------999862885772666815862889989999999----9999999999985798999988999999
Q gi|254780877|r  732 VH---DKVM------GIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIV----RIQLGRVLSLIKERNISMDFDDQVIDWL  798 (853)
Q Consensus       732 ~~---~~~~------~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~----~~~l~~l~~~l~~~~i~l~~~~~~~~~l  798 (853)
                      ..   ..++      +.++--+=|||++|+.-+-..++|+.+++.+|+    +-.+++.+++|.--++.|.|.++|+..|
T Consensus       319 ~~~~~~~~L~~v~~~DL~kFGLIPEfIGRLPV~a~L~~L~~eAL~~IL~~PkNAlvKQY~~lf~ld~VeL~F~~eAl~~I  398 (452)
T TIGR00382       319 KEKSEEELLRQVEPEDLVKFGLIPEFIGRLPVIATLEKLDEEALIAILTKPKNALVKQYQALFKLDNVELEFEEEALKAI  398 (452)
T ss_pred             HHHHHHHHHHHHCHHHHHHHCCCCCCCCCCCCEECCCCCCHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCCHHHHHHH
T ss_conf             78789999975171112210555101105340202787887899998525444488999997164561134558889999


Q ss_pred             HHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEE
Q ss_conf             97089822062157999998733499999970868897889999
Q gi|254780877|r  799 SCRGYDPSYGARPLKRVIQRYIQNPLAERVLSQTISDGDSIEVF  842 (853)
Q Consensus       799 ~~~~~~~~~GaR~l~r~i~~~i~~~la~~il~~~~~~g~~i~i~  842 (853)
                      +++...++.|||.||.+|+..+.+-+=+.=   .+.+...+.|+
T Consensus       399 A~~A~~RkTGARGLRsI~E~~lLDvMfeLP---s~~~~~kv~it  439 (452)
T TIGR00382       399 AKKALERKTGARGLRSIVEGLLLDVMFELP---SLEDLEKVVIT  439 (452)
T ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHCCCCC---CHHCCCEEEEE
T ss_conf             999985076751578999999875314788---61157567870


No 15 
>KOG2004 consensus
Probab=99.89  E-value=4.8e-19  Score=173.77  Aligned_cols=249  Identities=25%  Similarity=0.442  Sum_probs=192.3

Q ss_pred             HH-HCCCHHHHHHCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHH
Q ss_conf             66-17866775100000001235547767459489999999999874101236566512898726786168899999998
Q gi|254780877|r  542 RW-TGIPVDKMLESDREKFLRIETEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLAR  620 (853)
Q Consensus       542 ~~-TGIPv~kl~~~E~ekLl~l~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~  620 (853)
                      .| |-+||++-+.++. .|....+.|.+--+|-+..-+.|...|-..+.- .+...||  ++|.||+|||||.+||.+|+
T Consensus       385 dwlt~LPWgk~S~En~-dl~~Ak~iLdeDHYgm~dVKeRILEfiAV~kLr-gs~qGkI--lCf~GPPGVGKTSI~kSIA~  460 (906)
T KOG2004         385 DWLTSLPWGKSSTENL-DLARAKEILDEDHYGMEDVKERILEFIAVGKLR-GSVQGKI--LCFVGPPGVGKTSIAKSIAR  460 (906)
T ss_pred             HHHHHCCCCCCCHHHH-HHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHC-CCCCCCE--EEEECCCCCCCCCHHHHHHH
T ss_conf             9998488787873530-379898763465301688999999999987514-6678837--99868998773218999999


Q ss_pred             HHCCCCCCCCCCCHHHHCCCCC----CCHHHCCCCHHCCCCCCCCCCHHHHC----CCCCEEEEHHHHHC----CHHHHH
Q ss_conf             7237765300224477403453----20130477112035667742113221----56410220214414----989999
Q gi|254780877|r  621 LLFDDENSMIRIDMSEYMEKHS----VSRLIGSPPGYVGYEEGGALTEAVRR----HPYQVVLFDEIEKA----HSDVHN  688 (853)
Q Consensus       621 ~lf~~~~~lir~dMsey~e~~~----vs~LiGappGYvG~~~gg~Lte~vr~----~P~sVil~DEiEKa----h~~v~~  688 (853)
                      .|   .+.+.||-..-.++...    --.-+||.||        .+..++++    ||  ++|+|||+|-    |-|=-.
T Consensus       461 AL---nRkFfRfSvGG~tDvAeIkGHRRTYVGAMPG--------kiIq~LK~v~t~NP--liLiDEvDKlG~g~qGDPas  527 (906)
T KOG2004         461 AL---NRKFFRFSVGGMTDVAEIKGHRRTYVGAMPG--------KIIQCLKKVKTENP--LILIDEVDKLGSGHQGDPAS  527 (906)
T ss_pred             HH---CCCEEEEECCCCCCHHHHCCCCEEEECCCCH--------HHHHHHHHHCCCCC--EEEEEHHHHHCCCCCCCHHH
T ss_conf             84---8746998536634277642542110014884--------89999986177886--58853223417887798689


Q ss_pred             HHHHHHH---CCEEECCC-CCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHH
Q ss_conf             9999840---45788799-9778303315595485126876403267999999999862885772666815862889989
Q gi|254780877|r  689 ILLQVLD---DGRLTDSQ-GRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKE  764 (853)
Q Consensus       689 ~llqild---~G~ltd~~-G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~  764 (853)
                      .||.+||   +..+.|.+ .-.+|++..+||||.|.=                    ...+|.+++|+ ++|-..-+..+
T Consensus       528 ALLElLDPEQNanFlDHYLdVp~DLSkVLFicTAN~i--------------------dtIP~pLlDRM-EvIelsGYv~e  586 (906)
T KOG2004         528 ALLELLDPEQNANFLDHYLDVPVDLSKVLFICTANVI--------------------DTIPPPLLDRM-EVIELSGYVAE  586 (906)
T ss_pred             HHHHHCCHHHCCCHHHHCCCCCCCHHHEEEEEECCCC--------------------CCCCHHHHHHH-HEEECCCCCHH
T ss_conf             9987439653553454202664211106889853644--------------------56985664122-32203672279


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCE---EEECHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             99999999999999999857989---999889999999708982206215799999873349999997086
Q gi|254780877|r  765 DMAKIVRIQLGRVLSLIKERNIS---MDFDDQVIDWLSCRGYDPSYGARPLKRVIQRYIQNPLAERVLSQT  832 (853)
Q Consensus       765 ~~~~i~~~~l~~l~~~l~~~~i~---l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~~~la~~il~~~  832 (853)
                      +..+|+..+|  +.+.++..|++   +.+++.++.-|+++ |..+.|.|+|+|-|++ |....|-.+..+.
T Consensus       587 EKv~IA~~yL--ip~a~~~~gl~~e~v~is~~al~~lI~~-YcrEaGVRnLqk~iek-I~Rk~Al~vv~~~  653 (906)
T KOG2004         587 EKVKIAERYL--IPQALKDCGLKPEQVKISDDALLALIER-YCREAGVRNLQKQIEK-ICRKVALKVVEGE  653 (906)
T ss_pred             HHHHHHHHHH--HHHHHHHCCCCHHHCCCCHHHHHHHHHH-HHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
T ss_conf             8999999841--2578987499878658629999999999-9888767789999999-9999999999864


No 16 
>PRK05201 hslU ATP-dependent protease ATP-binding subunit; Provisional
Probab=99.86  E-value=7.7e-20  Score=180.23  Aligned_cols=151  Identities=23%  Similarity=0.410  Sum_probs=114.1

Q ss_pred             CCEEEEHHHHHCC------------HHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHH
Q ss_conf             4102202144149------------8999999998404578879997783033155954851268764032679999999
Q gi|254780877|r  671 YQVVLFDEIEKAH------------SDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMG  738 (853)
Q Consensus       671 ~sVil~DEiEKah------------~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~  738 (853)
                      +++|++|||+|-.            -.|+.-||-+++--....-+| .|+-.|-+||+.   ||=...+..+        
T Consensus       249 ~GIVFIDEIDKIa~~~~~~g~DVS~EGVQrdLLpivEGt~V~tK~G-~V~TdhILFIas---GAFh~sKPSD--------  316 (442)
T PRK05201        249 NGIVFIDEIDKIAKRGEGSGPDVSREGVQRDLLPLVEGSTVSTKYG-MVKTDHILFIAS---GAFHVAKPSD--------  316 (442)
T ss_pred             CCCEEECHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCC-CCCCCEEEEECC---CCCCCCCCCH--------
T ss_conf             1704511465653035788989773307888788753885556777-602550345504---5001478202--------


Q ss_pred             HHHHHCCHHHHCCCCCEEECCCCCHHHHHHHH----HHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCC-----CCCCC
Q ss_conf             99862885772666815862889989999999----9999999999985798999988999999970898-----22062
Q gi|254780877|r  739 IVRSAFKPEFLNRLDEIILFEKLRKEDMAKIV----RIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYD-----PSYGA  809 (853)
Q Consensus       739 ~l~~~f~peflnRid~iv~F~~l~~~~~~~i~----~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~-----~~~Ga  809 (853)
                           +-|||.+|+.-++.+++|+.+++.+|+    ...+.+.+..++-.|+.|+|+++++..|++..+.     ...||
T Consensus       317 -----LIPEl~GRlPv~v~L~~L~~~dl~~ILtepknsL~kQy~~Lf~~egv~L~Ft~~Al~~IA~~A~~~n~~~~~iGA  391 (442)
T PRK05201        317 -----LIPELQGRFPIRVELDALTEEDFVRILTEPKASLIKQYQALLATEGVTLEFTDDAIRRIAEIAYQVNEKTENIGA  391 (442)
T ss_pred             -----HHHHHCCCCEEEEECCCCCHHHHHHHHCCCCHHHHHHHHHHHHHCCCEEEECHHHHHHHHHHHHHHCCCCCCCCH
T ss_conf             -----249871755058882449999999996786157899999998624967998479999999999985144766773


Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEE
Q ss_conf             157999998733499999970868897889999
Q gi|254780877|r  810 RPLKRVIQRYIQNPLAERVLSQTISDGDSIEVF  842 (853)
Q Consensus       810 R~l~r~i~~~i~~~la~~il~~~~~~g~~i~i~  842 (853)
                      |.|+-++++.+++..=+.    .-..+.++.|+
T Consensus       392 R~L~tI~E~vl~d~~Fe~----p~~~~~~v~I~  420 (442)
T PRK05201        392 RRLHTVMEKLLEDISFEA----PDRSGEKITID  420 (442)
T ss_pred             HHHHHHHHHHHHHHCCCC----CCCCCCEEEEC
T ss_conf             788999999989861468----89999779988


No 17 
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=99.85  E-value=1.5e-19  Score=177.77  Aligned_cols=264  Identities=25%  Similarity=0.465  Sum_probs=181.2

Q ss_pred             HHHHHHHHHHCCHHHHHHH----HHHHHHHHHCCCCCCC--CCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCH
Q ss_conf             2355477674594899999----9999987410123656--651289872678616889999999872377653002244
Q gi|254780877|r  561 RIETEISKSVIGQSAAVES----VSNALRRFRAGLQDPQ--RPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDM  634 (853)
Q Consensus       561 ~l~~~l~~~v~gq~~ai~~----v~~~~~~~~~gl~~~~--~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dM  634 (853)
                      .+...|.+.||||+.|-+.    |.+|++|.+..-.+.+  =--...|++||||+|||.||++||+.|   +-.   |-|
T Consensus        54 eik~~Ld~YVIGQe~AKKvLsVAVYNHYKRl~~~~~~~dvEL~KSNILLiGPTGsGKTlLAqTLAk~L---nVP---Fai  127 (408)
T COG1219          54 EIKAHLDEYVIGQEQAKKVLSVAVYNHYKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLAQTLAKIL---NVP---FAI  127 (408)
T ss_pred             HHHHHHHHHEECCHHHHCEEEEEEEHHHHHHHCCCCCCCEEEEECCEEEECCCCCCHHHHHHHHHHHH---CCC---EEE
T ss_conf             99998652432625431034664106889986048877635320317998889975779999999984---898---475


Q ss_pred             HHHCCCCCCCHHHCCCCHHCCCCCCCCCCHH-------HHCCCCCEEEEHHHHHC--------------CHHHHHHHHHH
Q ss_conf             7740345320130477112035667742113-------22156410220214414--------------98999999998
Q gi|254780877|r  635 SEYMEKHSVSRLIGSPPGYVGYEEGGALTEA-------VRRHPYQVVLFDEIEKA--------------HSDVHNILLQV  693 (853)
Q Consensus       635 sey~e~~~vs~LiGappGYvG~~~gg~Lte~-------vr~~P~sVil~DEiEKa--------------h~~v~~~llqi  693 (853)
                      .+      ++.|.-  .||||-|--..|..-       |.+--..+|..|||+|-              .-.|++.||.+
T Consensus       128 AD------ATtLTE--AGYVGEDVENillkLlqaadydV~rAerGIIyIDEIDKIarkSen~SITRDVSGEGVQQALLKi  199 (408)
T COG1219         128 AD------ATTLTE--AGYVGEDVENILLKLLQAADYDVERAERGIIYIDEIDKIARKSENPSITRDVSGEGVQQALLKI  199 (408)
T ss_pred             CC------CCCHHH--CCCCCHHHHHHHHHHHHHCCCCHHHHHCCEEEEECHHHHHCCCCCCCCCCCCCCHHHHHHHHHH
T ss_conf             14------441210--6635500899999999876458888828859985102542057898723436735899999999


Q ss_pred             HHCCEEEC---CCCCEEECCCCEEEECCCH---------HHHHHHCC---------H-H-----------HHHHHHH--H
Q ss_conf             40457887---9997783033155954851---------26876403---------2-6-----------7999999--9
Q gi|254780877|r  694 LDDGRLTD---SQGRTVDFRNTLIIMTSNL---------GAEYLIED---------G-D-----------SVHDKVM--G  738 (853)
Q Consensus       694 ld~G~ltd---~~G~~v~f~n~iii~TsN~---------G~~~~~~~---------~-~-----------~~~~~~~--~  738 (853)
                      + ||+...   ..||+..-...|-|=|||+         |-+.+...         + +           ..-..+.  +
T Consensus       200 i-EGTvasVPPqGGRKHP~Qe~iqvDT~NILFIcgGAF~GlekiI~~R~~~~~iGF~a~~~~~~~~~~~~~~l~~vepeD  278 (408)
T COG1219         200 I-EGTVASVPPQGGRKHPQQEFIQVDTSNILFICGGAFAGLEKIIKKRLGKKGIGFGAEVKSKSKKKEEGELLKQVEPED  278 (408)
T ss_pred             H-CCCEECCCCCCCCCCCCCCEEEECCCCEEEEECCCCCCHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHCCHHH
T ss_conf             7-075102399988879842048873763467824401039999998626874245664453444412889987548687


Q ss_pred             HHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHH----HHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHH
Q ss_conf             998628857726668158628899899999999----9999999999857989999889999999708982206215799
Q gi|254780877|r  739 IVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVR----IQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKR  814 (853)
Q Consensus       739 ~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~----~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r  814 (853)
                      .++--.-|||++|+.-+....+|+.+++.+|+.    ..+++.++.++..++.|.|+++|+..++++....+.|||.||.
T Consensus       279 LvkFGLIPEfIGRlPvia~L~~Lde~aLv~ILtePkNAlvKQYq~Lf~~d~V~L~F~~~AL~~IA~~A~~rkTGARGLRs  358 (408)
T COG1219         279 LVKFGLIPEFIGRLPVIATLEELDEDALVQILTEPKNALVKQYQKLFEMDGVELEFTEEALKAIAKKAIERKTGARGLRS  358 (408)
T ss_pred             HHHCCCCHHHHCCCCEEEEHHHCCHHHHHHHHHCCCHHHHHHHHHHHCCCCCEEEECHHHHHHHHHHHHHHCCCHHHHHH
T ss_conf             88708838872666326461015999999997265178999999996446916997489999999999984335357999


Q ss_pred             HHHHHHHHHHHHHHHCCCCCCCCEEEEE
Q ss_conf             9998733499999970868897889999
Q gi|254780877|r  815 VIQRYIQNPLAERVLSQTISDGDSIEVF  842 (853)
Q Consensus       815 ~i~~~i~~~la~~il~~~~~~g~~i~i~  842 (853)
                      +++..+.+.+-+.=   ...+-..+.|+
T Consensus       359 I~E~~lld~MfelP---s~~~v~~v~I~  383 (408)
T COG1219         359 IIEELLLDVMFELP---SLEDVEKVVIT  383 (408)
T ss_pred             HHHHHHHHHHHHCC---CCCCCEEEEEE
T ss_conf             99999999885278---86785089976


No 18 
>KOG0730 consensus
Probab=99.84  E-value=4.7e-18  Score=165.73  Aligned_cols=405  Identities=28%  Similarity=0.414  Sum_probs=247.4

Q ss_pred             CCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEE
Q ss_conf             77786689528874077799999998734899844457437887313542174542024545899999986079976999
Q gi|254780877|r  197 RTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILF  276 (853)
Q Consensus       197 ~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilf  276 (853)
                      +--.++++.|+||+|||-+++.+|+.-          ++.++.++...++.  +|-||-|..+..++.+..+..-+.|+|
T Consensus       216 ~~prg~Ll~gppg~Gkt~l~~aVa~e~----------~a~~~~i~~peli~--k~~gEte~~LR~~f~~a~k~~~psii~  283 (693)
T KOG0730         216 KPPRGLLLYGPPGTGKTFLVRAVANEY----------GAFLFLINGPELIS--KFPGETESNLRKAFAEALKFQVPSIIF  283 (693)
T ss_pred             CCCCCCCCCCCCCCCHHHHHHHHHHHH----------CCEEEECCCHHHHH--HCCCCHHHHHHHHHHHHHCCCCCEEEE
T ss_conf             999874443899998189999999973----------72257406289998--524631778999999986659980775


Q ss_pred             ECCHHHHCCCCCCCCCCC-----HH---HHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHH-CCCE-EECCCCCHHHH
Q ss_conf             636277302666554335-----88---88765312466048997448999997300111320-2311-11157776789
Q gi|254780877|r  277 IDELHVLVGAGKTDGAMD-----AS---NLLKPSLARGELHCIGATTLDEYRKYIEKDPALAR-RFQS-LLVGEPTVTDT  346 (853)
Q Consensus       277 ide~h~~~gaG~~~g~~D-----aa---n~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~R-RFq~-i~V~Eps~~~t  346 (853)
                      |||++.|.+  +.++.-+     .+   -+++-..+++..=||++|---     --=|+||-| ||.. |.|.=|+....
T Consensus       284 IdEld~l~p--~r~~~~~~e~Rv~sqlltL~dg~~~~~~vivl~atnrp-----~sld~alRRgRfd~ev~IgiP~~~~R  356 (693)
T KOG0730         284 IDELDALCP--KREGADDVESRVVSQLLTLLDGLKPDAKVIVLAATNRP-----DSLDPALRRGRFDREVEIGIPGSDGR  356 (693)
T ss_pred             HHHHHHHCC--CCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCC-----CCCCHHHHCCCCCCEEEECCCCCHHH
T ss_conf             876762377--64333248889999999998527676746999715885-----55685652478853157448983358


Q ss_pred             HHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             99999978986541496101589999986333202457674778999999999875410222145788799999744569
Q gi|254780877|r  347 ISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEASARVRMQIDTKPEVLDELDRRIICLKIEK  426 (853)
Q Consensus       347 ~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~A~~~i~~~~~P~~l~~l~r~i~~l~~e~  426 (853)
                      ..||+-+..+++..     ++..+...+..++-|...        ||- --|..+.++         .+           
T Consensus       357 ldIl~~l~k~~~~~-----~~~~l~~iA~~thGyvGa--------DL~-~l~~ea~~~---------~~-----------  402 (693)
T KOG0730         357 LDILRVLTKKMNLL-----SDVDLEDIAVSTHGYVGA--------DLA-ALCREASLQ---------AT-----------  402 (693)
T ss_pred             HHHHHHHHHHCCCC-----CHHHHHHHHHHCCCHHHH--------HHH-HHHHHHHHH---------HH-----------
T ss_conf             89999998616887-----255689999873461478--------799-999998777---------66-----------


Q ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCH
Q ss_conf             99850222356656899987689999999999998886566765599999998874888888642111567654320110
Q gi|254780877|r  427 EALKKEKDSFSKGRLIELEKELSSLEEKSHSLTLRWQEGQRKILYVADLKKRLESMRNELAIAQRQGHFERAGELAYGLI  506 (853)
Q Consensus       427 ~~L~~e~d~~~~~rl~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  506 (853)
                                                                       +.                             
T Consensus       403 -------------------------------------------------r~-----------------------------  404 (693)
T KOG0730         403 -------------------------------------------------RR-----------------------------  404 (693)
T ss_pred             -------------------------------------------------HH-----------------------------
T ss_conf             -------------------------------------------------55-----------------------------


Q ss_pred             HHHHHHHHHHHHHHCCCCCCCHHCCCHHHHHHHHHHHHCCCHHHHHHCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH
Q ss_conf             68999999999751126772000168667899987661786677510000000123554776745948999999999987
Q gi|254780877|r  507 PKTEKELDEAEKADSTAEDMVQEVVTSDNIANIVSRWTGIPVDKMLESDREKFLRIETEISKSVIGQSAAVESVSNALRR  586 (853)
Q Consensus       507 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~dVa~vvS~~TGIPv~kl~~~E~ekLl~l~~~l~~~v~gq~~ai~~v~~~~~~  586 (853)
                           .+...+.+        ...+.++.+.+++-.+..+-|+     +.--+..++..|++.|.   -.++.   .-.-
T Consensus       405 -----~~~~~~~A--------~~~i~psa~Re~~ve~p~v~W~-----dIGGlE~lK~elq~~V~---~p~~~---pe~F  460 (693)
T KOG0730         405 -----TLEIFQEA--------LMGIRPSALREILVEMPNVSWD-----DIGGLEELKRELQQAVE---WPLKH---PEKF  460 (693)
T ss_pred             -----HHHHHHHH--------HHCCCCHHHHHEECCCCCCCHH-----HCCCHHHHHHHHHHHHH---HHHHC---HHHH
T ss_conf             -----57778998--------7068702233200247887822-----04578999999999986---16656---5999


Q ss_pred             HHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCC--CCCCH
Q ss_conf             4101236566512898726786168899999998723776530022447740345320130477112035667--74211
Q gi|254780877|r  587 FRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEG--GALTE  664 (853)
Q Consensus       587 ~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~g--g~Lte  664 (853)
                      .|.|++.|   -| .||.||+|.|||.+||++|..-   .-+|+.+-..|...            =|||-.|-  +.+-.
T Consensus       461 ~r~Gi~pp---kG-VLlyGPPGC~KT~lAkalAne~---~~nFlsvkgpEL~s------------k~vGeSEr~ir~iF~  521 (693)
T KOG0730         461 ARFGISPP---KG-VLLYGPPGCGKTLLAKALANEA---GMNFLSVKGPELFS------------KYVGESERAIREVFR  521 (693)
T ss_pred             HHHCCCCC---CE-EEEECCCCCCHHHHHHHHHHHH---CCCEEECCCHHHHH------------HHCCCHHHHHHHHHH
T ss_conf             87257887---54-7777899862478999986463---58726415789987------------751825899999999


Q ss_pred             HHHCCCCCEEEEHHHHHC-----------CHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHH
Q ss_conf             322156410220214414-----------989999999984045788799977830331559548512687640326799
Q gi|254780877|r  665 AVRRHPYQVVLFDEIEKA-----------HSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVH  733 (853)
Q Consensus       665 ~vr~~P~sVil~DEiEKa-----------h~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~  733 (853)
                      +-|+.+-|||.||||+--           .-.|++-||.-|| |...        -+|.+||.-+|-        ++.+ 
T Consensus       522 kAR~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmD-G~e~--------~k~V~ViAATNR--------pd~I-  583 (693)
T KOG0730         522 KARQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMD-GLEA--------LKNVLVIAATNR--------PDMI-  583 (693)
T ss_pred             HHHHCCCEEEEHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCC-CCCC--------CCCEEEEECCCC--------HHHC-
T ss_conf             986269837744666666630478755148999999998700-4101--------470899950588--------1012-


Q ss_pred             HHHHHHHHHHCCHHHH--CCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHH-HHHHHHHC--CCCCCCC
Q ss_conf             9999999862885772--66681586288998999999999999999999857989999889-99999970--8982206
Q gi|254780877|r  734 DKVMGIVRSAFKPEFL--NRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQ-VIDWLSCR--GYDPSYG  808 (853)
Q Consensus       734 ~~~~~~l~~~f~pefl--nRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~-~~~~l~~~--~~~~~~G  808 (853)
                                 -|+++  +|+|.+|.+.+-+.+.-..|+....+         +..+  ++. -++.|++.  ||+   |
T Consensus       584 -----------D~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~k---------kmp~--~~~vdl~~La~~T~g~S---G  638 (693)
T KOG0730         584 -----------DPALLRPGRLDRIIYVPLPDLEARLEILKQCAK---------KMPF--SEDVDLEELAQATEGYS---G  638 (693)
T ss_pred             -----------CHHHCCCCCCCEEEEECCCCHHHHHHHHHHHHH---------CCCC--CCCCCHHHHHHHHCCCC---H
T ss_conf             -----------697759865330575158347889999999973---------3999--86556999999854677---3


Q ss_pred             CHHHHHHHHHH
Q ss_conf             21579999987
Q gi|254780877|r  809 ARPLKRVIQRY  819 (853)
Q Consensus       809 aR~l~r~i~~~  819 (853)
                       +.|....+.-
T Consensus       639 -Ael~~lCq~A  648 (693)
T KOG0730         639 -AEIVAVCQEA  648 (693)
T ss_pred             -HHHHHHHHHH
T ss_conf             -8999999999


No 19 
>KOG0733 consensus
Probab=99.81  E-value=7.6e-17  Score=155.86  Aligned_cols=506  Identities=22%  Similarity=0.319  Sum_probs=250.6

Q ss_pred             CCCCHHHHHHHHHHHHCC------------CCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHH
Q ss_conf             333357899999996336------------77786689528874077799999998734899844457437887313542
Q gi|254780877|r  179 PVIGRDDEMRRAIQVLSR------------RTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALI  246 (853)
Q Consensus       179 PVIGRe~EI~~~~~iL~r------------~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~  246 (853)
                      -+=|-|+++.++.+++.-            +--..++|-|+||.|||.++..+|..   -.       .-++++....+|
T Consensus       191 diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAge---l~-------vPf~~isApeiv  260 (802)
T KOG0733         191 DIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGE---LG-------VPFLSISAPEIV  260 (802)
T ss_pred             HCCCHHHHHHHHHHHHHHHCCCHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHH---CC-------CCEEEECCHHHH
T ss_conf             41673899999999998852811686628779975164489986478999997521---28-------854851414653


Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCC--CC---HHHHHHHH--HC-----CCCEEEEEEE
Q ss_conf             1745420245458999999860799769996362773026665543--35---88887653--12-----4660489974
Q gi|254780877|r  247 AGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGA--MD---ASNLLKPS--LA-----RGELHCIGAT  314 (853)
Q Consensus       247 ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~--~D---aan~LKP~--La-----rG~l~~IgaT  314 (853)
                      +|.+  ||=|+++..+.+++... .+.|+|||||..|-+.-.. ++  |.   +|.+|--.  |.     .-..-+||||
T Consensus       261 SGvS--GESEkkiRelF~~A~~~-aPcivFiDeIDAI~pkRe~-aqreMErRiVaQLlt~mD~l~~~~~~g~~VlVIgAT  336 (802)
T KOG0733         261 SGVS--GESEKKIRELFDQAKSN-APCIVFIDEIDAITPKREE-AQREMERRIVAQLLTSMDELSNEKTKGDPVLVIGAT  336 (802)
T ss_pred             CCCC--CCCHHHHHHHHHHHHCC-CCEEEEEECCCCCCCCHHH-HHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEECC
T ss_conf             1557--52289999999987366-9759985110013644045-788999999999998510025666689976998247


Q ss_pred             CHHHHHHHHHCCHHHHH--CCCE-EECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHH
Q ss_conf             48999997300111320--2311-11157776789999999789865414961015899999863332024576747789
Q gi|254780877|r  315 TLDEYRKYIEKDPALAR--RFQS-LLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAI  391 (853)
Q Consensus       315 T~~Eyrk~iEkD~Al~R--RFq~-i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAI  391 (853)
                      +--.     -=|+||-|  ||.. |-+.=||...--+||+-+...+- +-+ .|+   ....++|+.-|...        
T Consensus       337 nRPD-----slDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lr-l~g-~~d---~~qlA~lTPGfVGA--------  398 (802)
T KOG0733         337 NRPD-----SLDPALRRAGRFDREICLGVPSETAREEILRIICRGLR-LSG-DFD---FKQLAKLTPGFVGA--------  398 (802)
T ss_pred             CCCC-----CCCHHHHCCCCCCCEEEECCCCHHHHHHHHHHHHHHCC-CCC-CCC---HHHHHHCCCCCCCH--------
T ss_conf             8976-----55877732565532353068966889999999986277-787-768---99997518875214--------


Q ss_pred             HHHH--HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999--99998754102221457887999997445699985022235665689998768999999999999888656676
Q gi|254780877|r  392 DLMD--EASARVRMQIDTKPEVLDELDRRIICLKIEKEALKKEKDSFSKGRLIELEKELSSLEEKSHSLTLRWQEGQRKI  469 (853)
Q Consensus       392 DllD--eA~A~~~i~~~~~P~~l~~l~r~i~~l~~e~~~L~~e~d~~~~~rl~~l~~~l~~~~~~~~~~~~~~~~~~~~~  469 (853)
                      ||.-  .++|++.+..            .+.+..-.....-.-.|..+ +.....+.-+.          .  ...-+..
T Consensus       399 DL~AL~~~Aa~vAikR------------~ld~~~~p~~~~~~~ed~~~-~~~~~d~S~i~----------~--~~~~~~~  453 (802)
T KOG0733         399 DLMALCREAAFVAIKR------------ILDQSSSPLTKVPISEDSSN-KDAEEDQSSIK----------I--TSNAERP  453 (802)
T ss_pred             HHHHHHHHHHHHHHHH------------HHHCCCCCCCCCCCCCCCCC-CCCCCHHHHHH----------C--CCCCCCC
T ss_conf             1999999999999999------------86213576656875456667-77530135540----------5--7764465


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCHHCCCHHHHHHHHHHHHCCCHH
Q ss_conf             55999999988748888886421115676543201106899999999975112677200016866789998766178667
Q gi|254780877|r  470 LYVADLKKRLESMRNELAIAQRQGHFERAGELAYGLIPKTEKELDEAEKADSTAEDMVQEVVTSDNIANIVSRWTGIPVD  549 (853)
Q Consensus       470 ~~i~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~dVa~vvS~~TGIPv~  549 (853)
                      ...          ...++.+..+.......+.....-..    +..++.+...        |-++.-.+.++.--++-|.
T Consensus       454 ~~l----------d~v~~~~i~~~~d~~S~E~~~~L~i~----~eDF~~Al~~--------iQPSakREGF~tVPdVtW~  511 (802)
T KOG0733         454 LEL----------DRVVQDAILNNPDPLSKELLEGLSIK----FEDFEEALSK--------IQPSAKREGFATVPDVTWD  511 (802)
T ss_pred             CCH----------HHHHHHHHHHCCCCCCHHHHCCCEEC----HHHHHHHHHH--------CCCCHHCCCCEECCCCCHH
T ss_conf             447----------89999999718998686773566101----9999999985--------5930203651326998766


Q ss_pred             HHHHCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             75100000001235547767459489999999999874101236566512898726786168899999998723776530
Q gi|254780877|r  550 KMLESDREKFLRIETEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSM  629 (853)
Q Consensus       550 kl~~~E~ekLl~l~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~l  629 (853)
                           +.-.|..+...|.-.|+      .-|-..=.-.+.|+..   |-| +|++||+|-|||-|||++|..-   .-+|
T Consensus       512 -----dIGaL~~vR~eL~~aI~------~PiK~pd~~k~lGi~~---PsG-vLL~GPPGCGKTLlAKAVANEa---g~NF  573 (802)
T KOG0733         512 -----DIGALEEVRLELNMAIL------APIKRPDLFKALGIDA---PSG-VLLCGPPGCGKTLLAKAVANEA---GANF  573 (802)
T ss_pred             -----HCCCHHHHHHHHHHHHH------HHCCCHHHHHHHCCCC---CCC-EEEECCCCCCHHHHHHHHHHHC---CCCE
T ss_conf             -----41249999999999986------0023888999828889---872-3875799861889999985030---4754


Q ss_pred             CCCCHHHHCCCCCCCHHHCCCCHHCCCCCCC--CCCHHHHCCCCCEEEEHHHHHC-----------CHHHHHHHHHHHHC
Q ss_conf             0224477403453201304771120356677--4211322156410220214414-----------98999999998404
Q gi|254780877|r  630 IRIDMSEYMEKHSVSRLIGSPPGYVGYEEGG--ALTEAVRRHPYQVVLFDEIEKA-----------HSDVHNILLQVLDD  696 (853)
Q Consensus       630 ir~dMsey~e~~~vs~LiGappGYvG~~~gg--~Lte~vr~~P~sVil~DEiEKa-----------h~~v~~~llqild~  696 (853)
                      |.+--.|...            -|||-.|--  ++-..-|..--|||+||||+--           ...|.|-||.=||-
T Consensus       574 isVKGPELlN------------kYVGESErAVR~vFqRAR~saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDG  641 (802)
T KOG0733         574 ISVKGPELLN------------KYVGESERAVRQVFQRARASAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDG  641 (802)
T ss_pred             EEECCHHHHH------------HHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHCCCCCCCCCCHHHHHHHHHHHHHHCC
T ss_conf             7623889998------------7742378999999998623898389851112027655777750589999999987316


Q ss_pred             CEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             57887999778303315595485126876403267999999999862885772666815862889989999999999999
Q gi|254780877|r  697 GRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGR  776 (853)
Q Consensus       697 G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~  776 (853)
                      +.         +-++..||--+|        .++-+..++       ++|   +|+|.+.+-.+-..++...|++...+.
T Consensus       642 l~---------~R~gV~viaATN--------RPDiIDpAi-------LRP---GRlDk~LyV~lPn~~eR~~ILK~~tkn  694 (802)
T KOG0733         642 LE---------ERRGVYVIAATN--------RPDIIDPAI-------LRP---GRLDKLLYVGLPNAEERVAILKTITKN  694 (802)
T ss_pred             CC---------CCCCEEEEEECC--------CCCCCCHHH-------CCC---CCCCCEEEECCCCHHHHHHHHHHHHCC
T ss_conf             21---------114259995068--------976555655-------187---755742450699878899999998535


Q ss_pred             HHHHHHHCCCEEEECHH-HHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999857989999889-999999708982206215799999873349999997
Q gi|254780877|r  777 VLSLIKERNISMDFDDQ-VIDWLSCRGYDPSYGARPLKRVIQRYIQNPLAERVL  829 (853)
Q Consensus       777 l~~~l~~~~i~l~~~~~-~~~~l~~~~~~~~~GaR~l~r~i~~~i~~~la~~il  829 (853)
                             ++..+  ++. .++.|+..--...|-.-.|.-.++.--...|-+.+.
T Consensus       695 -------~k~pl--~~dVdl~eia~~~~c~gftGADLaaLvreAsi~AL~~~~~  739 (802)
T KOG0733         695 -------TKPPL--SSDVDLDEIARNTKCEGFTGADLAALVREASILALRESLF  739 (802)
T ss_pred             -------CCCCC--CCCCCHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             -------79988--7545899985123226875365999999999999999986


No 20 
>KOG0745 consensus
Probab=99.79  E-value=1.7e-17  Score=161.14  Aligned_cols=209  Identities=24%  Similarity=0.474  Sum_probs=146.3

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCC----CCCHH---HHCCCCC
Q ss_conf             8987267861688999999987237765300224477403453201304771120356677----42113---2215641
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGG----ALTEA---VRRHPYQ  672 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg----~Lte~---vr~~P~s  672 (853)
                      ..|++||||+|||.||++||+.|   .-.+.--|+...         .-  .||||-|--.    +|++|   |.+---.
T Consensus       228 NvLllGPtGsGKTllaqTLAr~l---dVPfaIcDcTtL---------TQ--AGYVGeDVEsvi~KLl~~A~~nVekAQqG  293 (564)
T KOG0745         228 NVLLLGPTGSGKTLLAQTLARVL---DVPFAICDCTTL---------TQ--AGYVGEDVESVIQKLLQEAEYNVEKAQQG  293 (564)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH---CCCEEEECCCCH---------HH--CCCCCCCHHHHHHHHHHHCCCCHHHHHCC
T ss_conf             47997788876438999999970---887687325522---------00--55345429999999999725789988267


Q ss_pred             EEEEHHHHHCC--------------HHHHHHHHHHHHCCEEECC---------CC--CEEECCCCEEEECC---CHHHHH
Q ss_conf             02202144149--------------8999999998404578879---------99--77830331559548---512687
Q gi|254780877|r  673 VVLFDEIEKAH--------------SDVHNILLQVLDDGRLTDS---------QG--RTVDFRNTLIIMTS---NLGAEY  724 (853)
Q Consensus       673 Vil~DEiEKah--------------~~v~~~llqild~G~ltd~---------~G--~~v~f~n~iii~Ts---N~G~~~  724 (853)
                      +|++||++|-.              ..|++.||.++ ||++..-         .|  -.||-+|-+||+.-   |+- +.
T Consensus       294 IVflDEvDKi~~~~~~i~~~RDVsGEGVQQaLLKll-EGtvVnVpeK~~~~~~rgd~vqiDTtnILFiasGAF~~Ld-k~  371 (564)
T KOG0745         294 IVFLDEVDKITKKAESIHTSRDVSGEGVQQALLKLL-EGTVVNVPEKGSRRKPRGDTVQIDTTNILFIASGAFVGLD-KI  371 (564)
T ss_pred             EEEEEHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHH-CCCEECCCCCCCCCCCCCCEEEEECCCEEEEECCCCCCHH-HH
T ss_conf             388760124413676545444566266999999985-2627702677877789998589713666888034323569-89


Q ss_pred             HHC------------------------CHH----HHHHHHHHH------HHHHCCHHHHCCCCCEEECCCCCHHHHHHHH
Q ss_conf             640------------------------326----799999999------9862885772666815862889989999999
Q gi|254780877|r  725 LIE------------------------DGD----SVHDKVMGI------VRSAFKPEFLNRLDEIILFEKLRKEDMAKIV  770 (853)
Q Consensus       725 ~~~------------------------~~~----~~~~~~~~~------l~~~f~peflnRid~iv~F~~l~~~~~~~i~  770 (853)
                      +.+                        .+.    ..+...++.      +.--.-|||++|+.-+|+|++|+++++.+|+
T Consensus       372 I~rR~~d~slGFg~~s~~~vr~~~~~~s~~~~~~~~~~~lL~~~~~~DLisfGmIPEfVGRfPVlVplh~L~~~~Lv~VL  451 (564)
T KOG0745         372 ISRRLDDKSLGFGAPSSKGVRANMATKSGVENDAEKRDELLEKVESGDLISFGMIPEFVGRFPVLVPLHSLDEDQLVRVL  451 (564)
T ss_pred             HHHHHCCHHCCCCCCCCCCCHHHCCCCCCCCHHHHHHHHHHHHCCCCCHHHHCCCHHHHCCCCEEEECCCCCHHHHHHHH
T ss_conf             88763000015678887420011034667304677889998634632135526728771665257652426888899987


Q ss_pred             H----HHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf             9----99999999998579899998899999997089822062157999998733499
Q gi|254780877|r  771 R----IQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQRYIQNPL  824 (853)
Q Consensus       771 ~----~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~~~l  824 (853)
                      .    -.+.+.++.+...++.|.+++.|++.|++.......|||.||.++++.+..++
T Consensus       452 tEPknaL~~Qyk~lf~~~nV~L~fTe~Al~~IAq~Al~r~TGARgLRsIlE~~Lleam  509 (564)
T KOG0745         452 TEPKNALGKQYKKLFGMDNVELHFTEKALEAIAQLALKRKTGARGLRSILESLLLEAM  509 (564)
T ss_pred             HCCHHHHHHHHHHHHCCCCEEEEECHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHC
T ss_conf             3554668999999855577469866999999999987614346789999999976401


No 21 
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily; InterPro: IPR005938    The ATPase Cdc48 is required for membrane fusion and protein degradation. It possesses chaperone-like activities and can functionally interact with Hsc70. Yeast CDC48 plays a role in cell division control whereas eukaryotic homologues are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.; GO: 0016787 hydrolase activity.
Probab=99.78  E-value=6e-14  Score=132.35  Aligned_cols=463  Identities=23%  Similarity=0.391  Sum_probs=243.4

Q ss_pred             HHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCC
Q ss_conf             96336777866895288740777999999987348998444574378873135421745420245458999999860799
Q gi|254780877|r  192 QVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDG  271 (853)
Q Consensus       192 ~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~  271 (853)
                      +-|+=.--..++|+|+||.|||-+...+|..+          +...++++-..++  .+|-||-|+|++.|.+|.... .
T Consensus       233 ~~lGiePPkG~ll~GPPGtGktllaka~ane~----------~a~f~~inGPeim--sky~Ge~e~~lr~if~eaeen-a  299 (980)
T TIGR01243       233 EKLGIEPPKGVLLYGPPGTGKTLLAKAVANEA----------GAYFIAINGPEIM--SKYYGESEERLREIFKEAEEN-A  299 (980)
T ss_pred             HHCCCCCCCCEEEECCCCCCHHHHHHHHHHHC----------CCEEEEECCCHHH--HHHCCCCHHHHHHHHHHHHHC-C
T ss_conf             86188998735875589861789999987530----------5517885060344--331363078999999865305-8


Q ss_pred             CEEEEECCHHHHCCCCC-CCCCCC---HH---HHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHH--CCCE-EECCCC
Q ss_conf             76999636277302666-554335---88---88765312466048997448999997300111320--2311-111577
Q gi|254780877|r  272 EIILFIDELHVLVGAGK-TDGAMD---AS---NLLKPSLARGELHCIGATTLDEYRKYIEKDPALAR--RFQS-LLVGEP  341 (853)
Q Consensus       272 ~~ilfide~h~~~gaG~-~~g~~D---aa---n~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~R--RFq~-i~V~Ep  341 (853)
                      +.|+|||||..|-.--. ..|.+.   ++   .++...-.||.+-+||||.--+     .=||||-|  ||.+ |.|..|
T Consensus       300 P~iifideidaiaPkr~e~~Geve~r~v~qlltlmdGlk~rG~v~viGatnrP~-----a~dPalrrPGrfdrei~~~~P  374 (980)
T TIGR01243       300 PSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGKVIVIGATNRPD-----ALDPALRRPGRFDREIEIGVP  374 (980)
T ss_pred             CCEEEEECHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCC-----CCCHHHCCCCCCCCEEEECCC
T ss_conf             707874121100764100001688999999999974002487289981468850-----026224278864433574188


Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCCHHHH-HHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Q ss_conf             76789999999789865414961015899-99986333202457674778999999999875410222145788799999
Q gi|254780877|r  342 TVTDTISILRGLKERYEQHHKVRISDSAL-VSAAVLSNRYITDRFLPDKAIDLMDEASARVRMQIDTKPEVLDELDRRII  420 (853)
Q Consensus       342 s~~~t~~iL~gl~~~yE~~H~V~i~d~al-~~av~ls~rYi~~r~lPDKAIDllDeA~A~~~i~~~~~P~~l~~l~r~i~  420 (853)
                      +...-.+||+-...      +.-+.++.= .+.++.-+..-.+..+-...+.-+-+..+.....     .++        
T Consensus       375 d~~~r~eil~~htr------~mP~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~--------  435 (980)
T TIGR01243       375 DKEGRKEILQIHTR------NMPLAEDVDKDAVIKVLKDLEKDERFEKEKIEKIIEKVSKANSE-----DEI--------  435 (980)
T ss_pred             CHHHHHHHHHHHHC------CCCCHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHH--------
T ss_conf             54567888876414------78750110057899999876665566788999999988631026-----789--------


Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHCCHHHHH
Q ss_conf             74456999850222356656899987689999999999998886566765599999998--8748888886421115676
Q gi|254780877|r  421 CLKIEKEALKKEKDSFSKGRLIELEKELSSLEEKSHSLTLRWQEGQRKILYVADLKKRL--ESMRNELAIAQRQGHFERA  498 (853)
Q Consensus       421 ~l~~e~~~L~~e~d~~~~~rl~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~l--~~~~~~~~~~~~~~~~~~~  498 (853)
                           +..+..+......-+    ..-+..+-+.++..+-.|....     ...+-++-  ..++..+....-+   ..+
T Consensus       436 -----~~~~~~~~~~~~~~~----~~~~~~~l~~la~~thG~~Gad-----laal~~eaam~~lrr~~~eg~i~---~ea  498 (980)
T TIGR01243       436 -----KEILKEDGNVYVEVR----NRLIDKLLDKLAEVTHGFVGAD-----LAALAKEAAMAALRRLIREGKIN---LEA  498 (980)
T ss_pred             -----HHHHHHCCHHHHHHH----HHHHHHHHHHHHHHHCCCHHHH-----HHHHHHHHHHHHHHHHHCCCCCC---HHH
T ss_conf             -----999750121246789----9999999998865423620355-----99998999999999874027745---026


Q ss_pred             HHHHHCCHHHHHHHHHHHHHHHCCCCCCCHHCCCHHHHHHHHHHHHCCCHHHHHHCCCHHHHHHHHHHHHHHCCHHHHHH
Q ss_conf             54320110689999999997511267720001686678999876617866775100000001235547767459489999
Q gi|254780877|r  499 GELAYGLIPKTEKELDEAEKADSTAEDMVQEVVTSDNIANIVSRWTGIPVDKMLESDREKFLRIETEISKSVIGQSAAVE  578 (853)
Q Consensus       499 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~dVa~vvS~~TGIPv~kl~~~E~ekLl~l~~~l~~~v~gq~~ai~  578 (853)
                      .+.....+....-......++..        .|.+..+.+|+-..-.+-|..+     --|....+.|+       +||+
T Consensus       499 ~~iP~~vl~~lkvt~~df~ealk--------~~~P~~~re~~~evP~v~W~di-----GGlee~kq~lr-------eave  558 (980)
T TIGR01243       499 EEIPKEVLEELKVTMKDFKEALK--------MVEPSALREVLVEVPNVKWEDI-----GGLEEVKQELR-------EAVE  558 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH--------HCCHHHHHEEEEECCCCCCCCC-----CCHHHHHHHHH-------HHHH
T ss_conf             77579999873222899999985--------1062341100023375110014-----66789999998-------7752


Q ss_pred             HHHHHH-HHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCC
Q ss_conf             999999-8741012365665128987267861688999999987237765300224477403453201304771120356
Q gi|254780877|r  579 SVSNAL-RRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYE  657 (853)
Q Consensus       579 ~v~~~~-~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~  657 (853)
                      --.++- .-.+.|+..|   -|++|| ||+|+|||-|||++|..   ++-++|..-..|-     .|+-+|-       .
T Consensus       559 WPlk~~~~f~k~G~~PP---~Gvll~-GPPGtGktllakava~e---s~anfi~v~GPe~-----lskWvGe-------s  619 (980)
T TIGR01243       559 WPLKAPEVFEKLGIRPP---KGVLLF-GPPGTGKTLLAKAVATE---SGANFIAVRGPEI-----LSKWVGE-------S  619 (980)
T ss_pred             CCCCHHHHHHHCCCCCC---CCEEEE-CCCCCCHHHHHHHHHHC---CCCCEEEECCCHH-----HHHHHCH-------H
T ss_conf             34440589986078899---734874-68986168888877401---4564677407312-----2344032-------4


Q ss_pred             CC--CCCCHHHHCCCCCEEEEHHHHHCCHH-------------HHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHH
Q ss_conf             67--74211322156410220214414989-------------9999999840457887999778303315595485126
Q gi|254780877|r  658 EG--GALTEAVRRHPYQVVLFDEIEKAHSD-------------VHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGA  722 (853)
Q Consensus       658 ~g--g~Lte~vr~~P~sVil~DEiEKah~~-------------v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~  722 (853)
                      |-  -..-++-|+.--+||+||||+--.|.             |.|-+|.=+| |        ....++.++|..+|-  
T Consensus       620 e~~ir~if~~arq~aP~~~f~deidaiaP~rG~~~~~~~vtd~~~nqll~e~d-G--------~~~~~~vvvi~atnr--  688 (980)
T TIGR01243       620 EKAIREIFRKARQAAPAIIFFDEIDAIAPARGASLDEKGVTDRIVNQLLTELD-G--------LEELSDVVVIAATNR--  688 (980)
T ss_pred             HHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCCCCHHHHHHHHHHHHHH-C--------CCCCCCEEEEEECCC--
T ss_conf             79999999986412873787302111054124421001026899999998640-4--------434366589861588--


Q ss_pred             HHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHH
Q ss_conf             8764032679999999998628857726668158628899899999999999
Q gi|254780877|r  723 EYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQL  774 (853)
Q Consensus       723 ~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l  774 (853)
                            ++-....       .++|   +|+|.+|..-+-+.+....|+..+-
T Consensus       689 ------Pdi~dPa-------llrP---Gr~dr~i~vP~Pd~~ar~~ifk~ht  724 (980)
T TIGR01243       689 ------PDILDPA-------LLRP---GRLDRLILVPAPDEEARLEIFKIHT  724 (980)
T ss_pred             ------CCCCCCC-------CCCC---CCCCEEEEECCCCHHHHHHHHHHHH
T ss_conf             ------7423610-------0488---7412168605985567676765531


No 22 
>KOG0736 consensus
Probab=99.70  E-value=5e-13  Score=124.82  Aligned_cols=160  Identities=24%  Similarity=0.344  Sum_probs=115.6

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHCCCCCC---------CEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHH
Q ss_conf             298533333578999999963367778---------66895288740777999999987348998444574378873135
Q gi|254780877|r  174 NGKLDPVIGRDDEMRRAIQVLSRRTKN---------NPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGA  244 (853)
Q Consensus       174 ~GkLDPVIGRe~EI~~~~~iL~r~~k~---------n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~  244 (853)
                      .+.+ +.-+++.-+..+.++|.-+..-         -++|-|+||+|||.+|...|+.          -+..++++|-.+
T Consensus       398 ~n~~-~~~~~~~~~~~l~~vl~p~~~~s~~~~~~~~~vLLhG~~g~GK~t~V~~vas~----------lg~h~~evdc~e  466 (953)
T KOG0736         398 WNSL-SPPGLEAKVLELVAVLSPQKQPSGALLTLNPSVLLHGPPGSGKTTVVRAVASE----------LGLHLLEVDCYE  466 (953)
T ss_pred             HCCC-CCCCCHHHHHHHHHHHCCCCCCCHHCCCCCEEEEEECCCCCCHHHHHHHHHHH----------HCCCEEECCHHH
T ss_conf             5158-87660279999999848655853001335537998679998757999999998----------387257013898


Q ss_pred             HHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCH--HHHHHH-------HHCCCCEEEEEEEC
Q ss_conf             421745420245458999999860799769996362773026665543358--888765-------31246604899744
Q gi|254780877|r  245 LIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDA--SNLLKP-------SLARGELHCIGATT  315 (853)
Q Consensus       245 l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Da--an~LKP-------~LarG~l~~IgaTT  315 (853)
                      |+|-+  ++--|-+++.+..-.+.. .+.|||+-.+..+-  +.++|+.|+  ...+.-       --.++..-+||+|+
T Consensus       467 l~~~s--~~~~etkl~~~f~~a~~~-~pavifl~~~dvl~--id~dgged~rl~~~i~~~ls~e~~~~~~~~~ivv~t~~  541 (953)
T KOG0736         467 LVAES--ASHTETKLQAIFSRARRC-SPAVLFLRNLDVLG--IDQDGGEDARLLKVIRHLLSNEDFKFSCPPVIVVATTS  541 (953)
T ss_pred             HHHCC--CCHHHHHHHHHHHHHHHC-CCEEEEEECCCEEE--ECCCCCHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECC
T ss_conf             86436--331378999999987526-86289872242455--33777442779999999972023567799659999625


Q ss_pred             HHHHHHHHHCCHHHHHC--CCEEECCCCCHHHHHHHHHHHHH
Q ss_conf             89999973001113202--31111157776789999999789
Q gi|254780877|r  316 LDEYRKYIEKDPALARR--FQSLLVGEPTVTDTISILRGLKE  355 (853)
Q Consensus       316 ~~Eyrk~iEkD~Al~RR--Fq~i~V~Eps~~~t~~iL~gl~~  355 (853)
                      ..|      +=|+--|+  |..|.|..||.++-++|||....
T Consensus       542 s~~------~lp~~i~~~f~~ei~~~~lse~qRl~iLq~y~~  577 (953)
T KOG0736         542 SIE------DLPADIQSLFLHEIEVPALSEEQRLEILQWYLN  577 (953)
T ss_pred             CCC------CCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHH
T ss_conf             302------398789875265213778887889999999983


No 23 
>PRK13342 recombination factor protein RarA; Reviewed
Probab=99.68  E-value=4.9e-15  Score=141.15  Aligned_cols=195  Identities=27%  Similarity=0.391  Sum_probs=145.9

Q ss_pred             HHHHHHCCCCCCCCCHHHHHH---HHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHH
Q ss_conf             569987298533333578999---99996336777866895288740777999999987348998444574378873135
Q gi|254780877|r  168 LTEEARNGKLDPVIGRDDEMR---RAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGA  244 (853)
Q Consensus       168 LTe~Ar~GkLDPVIGRe~EI~---~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~  244 (853)
                      |-++-|=..||-+||-+.=+.   -+-+.+...+-.+.||-|+||||||++++-+|...          ++.+++|+.. 
T Consensus         3 LAer~RP~~lde~vGQ~hllg~~~~L~~~i~~~~~~s~Il~GPPG~GKTTlA~iiA~~~----------~~~f~~lnA~-   71 (417)
T PRK13342          3 LAERMRPKTLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGAT----------DAEFEALSAV-   71 (417)
T ss_pred             CHHHHCCCCHHHHCCCHHHHCCCHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHH----------CCCEEEEECC-
T ss_conf             71644999888857987760897199999976999759988969998999999999986----------8988996141-


Q ss_pred             HHCCCCCCCHHHHHHHHHHHHHHHC--CCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHHHH
Q ss_conf             4217454202454589999998607--99769996362773026665543358888765312466048997448999997
Q gi|254780877|r  245 LIAGAKFRGEFEERLKSLLCEIRSE--DGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGATTLDEYRKY  322 (853)
Q Consensus       245 l~ag~~~rg~~e~r~~~i~~~~~~~--~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~  322 (853)
                       .+|.       ..++.++++.+..  .+..||||||||.+=        -+.-+.|-|++.+|.+..|||||..-|   
T Consensus        72 -~~gv-------~dir~ii~~a~~~~~~~~tilfiDEIHRfn--------K~QQD~LLp~vE~g~iiLIgATTENP~---  132 (417)
T PRK13342         72 -TSGV-------KDLREVIEEAKQSRLGRRTILFIDEIHRFN--------KAQQDALLPHVEDGTITLIGATTENPS---  132 (417)
T ss_pred             -CCCH-------HHHHHHHHHHHHHHCCCCEEEEEECHHHCC--------HHHHHHHHHHHHCCCEEEEEECCCCCH---
T ss_conf             -0388-------999999999886314896599997820058--------899999987511265699974157922---


Q ss_pred             HHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHH-HHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf             3001113202311111577767899999997898-654149610158999998633320245767477899999999
Q gi|254780877|r  323 IEKDPALARRFQSLLVGEPTVTDTISILRGLKER-YEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEAS  398 (853)
Q Consensus       323 iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~-yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~  398 (853)
                      |+-.+||-.|-+.+.++..+.++-..||+..... ....+++.++++|+...+..|.==      =-+|+.+|+-|.
T Consensus       133 f~in~aLlSRc~vf~l~~L~~~di~~iL~ral~~e~~~~~~i~i~~~al~~i~~~s~GD------aR~aLN~LE~a~  203 (417)
T PRK13342        133 FEVNPALLSRAQVFELKPLSEEDLEQLLKRALEDERGLGRKLELDDEALDALARLADGD------ARRALNLLELAA  203 (417)
T ss_pred             HHCCHHHHHHHHHEECCCCCHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHCCCC------HHHHHHHHHHHH
T ss_conf             53489898565700205899999999999999877433788776999999999814985------999999999998


No 24 
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=99.66  E-value=4.8e-13  Score=124.98  Aligned_cols=178  Identities=26%  Similarity=0.361  Sum_probs=111.1

Q ss_pred             CCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCC--CCCCHHHHCCCCCE
Q ss_conf             6512898726786168899999998723776530022447740345320130477112035667--74211322156410
Q gi|254780877|r  596 RPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEG--GALTEAVRRHPYQV  673 (853)
Q Consensus       596 ~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~g--g~Lte~vr~~P~sV  673 (853)
                      +|...+||.||+|+|||.|||++|..+   ..+++.+++++|..            .|||-.+-  -.+-...++..-||
T Consensus       274 ~~~~giLl~GpPGtGKT~lAkava~~~---~~~fi~v~~~~l~s------------k~vGesek~ir~~F~~A~~~~p~i  338 (494)
T COG0464         274 RPPKGVLLYGPPGTGKTLLAKAVALES---RSRFISVKGSELLS------------KWVGESEKNIRELFEKARKLAPSI  338 (494)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHC---CCCEEEECCHHHHH------------HHHHHHHHHHHHHHHHHHHCCCCE
T ss_conf             888369998899975899999987544---98248843355540------------776599999999999999669988


Q ss_pred             EEEHHHHHC----C-------HHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHH
Q ss_conf             220214414----9-------89999999984045788799977830331559548512687640326799999999986
Q gi|254780877|r  674 VLFDEIEKA----H-------SDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRS  742 (853)
Q Consensus       674 il~DEiEKa----h-------~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~  742 (853)
                      |+||||++-    +       ..+.+-||..+|.-.         ..+++++|.++|-        .+.           
T Consensus       339 ifiDEiDs~~~~r~~~~~~~~~rv~~~ll~~~d~~e---------~~~~v~vi~aTN~--------p~~-----------  390 (494)
T COG0464         339 IFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIE---------KAEGVLVIAATNR--------PDD-----------  390 (494)
T ss_pred             EEHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCC---------CCCCEEEEECCCC--------CCC-----------
T ss_conf             974886667412899876379999999999974754---------4376489964798--------332-----------


Q ss_pred             HCCHHHH--CCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHHHH
Q ss_conf             2885772--66681586288998999999999999999999857989999889999999708982206215799999873
Q gi|254780877|r  743 AFKPEFL--NRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQRYI  820 (853)
Q Consensus       743 ~f~pefl--nRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~i  820 (853)
                       ..|+++  +|+|.++.|.+-+..+...|+...+.+....        ..++-..+.+++.  ...|-...+...++...
T Consensus       391 -ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~~~~~--------~~~~~~~~~l~~~--t~~~sgadi~~i~~ea~  459 (494)
T COG0464         391 -LDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKPP--------LAEDVDLEELAEI--TEGYSGADIAALVREAA  459 (494)
T ss_pred             -CCHHHHCCCCCEEEEEECCCCHHHHHHHHHHHHCCCCCC--------HHHHHHHHHHHHH--HCCCCHHHHHHHHHHHH
T ss_conf             -687562436630378717989899999999985415651--------1556419999987--52778999999999999


Q ss_pred             HHHHHHH
Q ss_conf             3499999
Q gi|254780877|r  821 QNPLAER  827 (853)
Q Consensus       821 ~~~la~~  827 (853)
                      ...+.+.
T Consensus       460 ~~~~~~~  466 (494)
T COG0464         460 LEALREA  466 (494)
T ss_pred             HHHHHHC
T ss_conf             9899854


No 25 
>CHL00195 ycf46 Ycf46; Provisional
Probab=99.63  E-value=7.3e-13  Score=123.52  Aligned_cols=139  Identities=27%  Similarity=0.432  Sum_probs=103.8

Q ss_pred             HCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCC---CCCH
Q ss_conf             1012365665128987267861688999999987237765300224477403453201304771120356677---4211
Q gi|254780877|r  588 RAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGG---ALTE  664 (853)
Q Consensus       588 ~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg---~Lte  664 (853)
                      ..|+..   |-|+ |++||+|+|||.+||++|...   .-+++++|||++..            +|||-.|..   .+..
T Consensus       253 ~~gl~~---PkGv-LL~GpPG~GKtl~AKAvA~e~---~~p~l~l~~~~l~~------------~~vGesE~~~r~~f~~  313 (491)
T CHL00195        253 NYGLPT---PRGL-LLVGIQGTGKSLTAKAIANEW---NLPLLRLDVGKLFG------------GIVGESESRMRQMIQL  313 (491)
T ss_pred             HCCCCC---CCEE-EEECCCCCCHHHHHHHHHHHH---CCCEEEEEHHHHHH------------HHCCHHHHHHHHHHHH
T ss_conf             459999---9879-997999987899999998663---89469966799756------------0067049999999999


Q ss_pred             HHHCCCCCEEEEHHHHHC------------CHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHH
Q ss_conf             322156410220214414------------98999999998404578879997783033155954851268764032679
Q gi|254780877|r  665 AVRRHPYQVVLFDEIEKA------------HSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSV  732 (853)
Q Consensus       665 ~vr~~P~sVil~DEiEKa------------h~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~  732 (853)
                      +=...| |||.+|||||+            +..|++.||.-|++-           -+..+||.|+|-        .   
T Consensus       314 A~~~aP-~ilfiDEidk~~~~~~~~~d~g~s~rv~~~~Lt~m~e~-----------~~~VfViattN~--------~---  370 (491)
T CHL00195        314 AETISP-CILWIDEIDKAFSGLDSKGDSGTSNRVLATFITWLSEK-----------KSPVFVVATANN--------I---  370 (491)
T ss_pred             HHHHCC-EEEEEEHHHHHCCCCCCCCCCCHHHHHHHHHHHHHCCC-----------CCCEEEEEECCC--------C---
T ss_conf             986198-58997465454258888888723289999999986468-----------997699995899--------7---


Q ss_pred             HHHHHHHHHHHCCHHHHC--CCCCEEECCCCCHHHHHHHHHHHHHHH
Q ss_conf             999999998628857726--668158628899899999999999999
Q gi|254780877|r  733 HDKVMGIVRSAFKPEFLN--RLDEIILFEKLRKEDMAKIVRIQLGRV  777 (853)
Q Consensus       733 ~~~~~~~l~~~f~pefln--Rid~iv~F~~l~~~~~~~i~~~~l~~l  777 (853)
                               ..++|||+-  |+|+++.+..-+.++...|++.++.+.
T Consensus       371 ---------~~L~pellR~GRFD~~~~v~lP~~~~R~~I~~ihl~~~  408 (491)
T CHL00195        371 ---------DSLPLELLRKGRFDEIFFLDLPNLEERELIFKIHLKRF  408 (491)
T ss_pred             ---------CCCCHHHCCCCCCCEEEECCCCCHHHHHHHHHHHHHCC
T ss_conf             ---------55898770898777047648959899999999998544


No 26 
>KOG2170 consensus
Probab=99.60  E-value=3e-14  Score=134.76  Aligned_cols=218  Identities=26%  Similarity=0.379  Sum_probs=151.0

Q ss_pred             HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHC
Q ss_conf             01235547767459489999999999874101236566512898726786168899999998723776530022447740
Q gi|254780877|r  559 FLRIETEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYM  638 (853)
Q Consensus       559 Ll~l~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~  638 (853)
                      +-.|+..|...++||.-|.+.|.++++-..+.= .|.||+ ++=|-|+||+||...++.||+.+|-+.-      ||.|-
T Consensus        73 ~~~Le~dL~~~lfGQHla~~~Vv~alk~~~~n~-~p~KPL-vLSfHG~tGTGKN~Va~iiA~n~~~~Gl------~S~~V  144 (344)
T KOG2170          73 LDGLEKDLARALFGQHLAKQLVVNALKSHWANP-NPRKPL-VLSFHGWTGTGKNYVAEIIAENLYRGGL------RSPFV  144 (344)
T ss_pred             CHHHHHHHHHHHHCHHHHHHHHHHHHHHHHCCC-CCCCCE-EEEECCCCCCCHHHHHHHHHHHHHHCCC------CCHHH
T ss_conf             067899999986320879999999999986289-999875-8983089987564899999999875112------56268


Q ss_pred             CCCCCCHHHCCCCHHCC-CCCCCCCCHH----HHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCE
Q ss_conf             34532013047711203-5667742113----221564102202144149899999999840457887999778303315
Q gi|254780877|r  639 EKHSVSRLIGSPPGYVG-YEEGGALTEA----VRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTL  713 (853)
Q Consensus       639 e~~~vs~LiGappGYvG-~~~gg~Lte~----vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~i  713 (853)
                      . |.++++==.-|-|+- |.+  +|-++    ++.-+.|+..|||+||.||.+++.+=.-||--    ....-+||+++|
T Consensus       145 ~-~fvat~hFP~~~~ie~Yk~--eL~~~v~~~v~~C~rslFIFDE~DKmp~gLld~lkpfLdyy----p~v~gv~frkaI  217 (344)
T KOG2170         145 H-HFVATLHFPHASKIEDYKE--ELKNRVRGTVQACQRSLFIFDEVDKLPPGLLDVLKPFLDYY----PQVSGVDFRKAI  217 (344)
T ss_pred             H-HHHHHCCCCCHHHHHHHHH--HHHHHHHHHHHHCCCCEEEECHHHHCCHHHHHHHHHHHCCC----CCCCCCCCCCEE
T ss_conf             8-7655415997678999999--99999999998557754873105435876999876663046----321355455148


Q ss_pred             EEECCCHHHHHHHCCHH------------HHHHHHHHH-HHHHCCH----------HHHCCCCCEEECCCCCHHHHHHHH
Q ss_conf             59548512687640326------------799999999-9862885----------772666815862889989999999
Q gi|254780877|r  714 IIMTSNLGAEYLIEDGD------------SVHDKVMGI-VRSAFKP----------EFLNRLDEIILFEKLRKEDMAKIV  770 (853)
Q Consensus       714 ii~TsN~G~~~~~~~~~------------~~~~~~~~~-l~~~f~p----------eflnRid~iv~F~~l~~~~~~~i~  770 (853)
                      +|+-||.|+..|.+..-            +++.. ... ....|.+          ==.|+||.+|||-||++..+..-+
T Consensus       218 FIfLSN~gg~eI~~~aL~~~~~g~~re~~~l~~~-E~~L~~~~~n~~~~Gl~~S~li~~~lid~fIPFLPLek~hV~~C~  296 (344)
T KOG2170         218 FIFLSNAGGSEIARIALENARNGKPREQLRLKSF-EPALMQSAFNEKAGGLVHSRLISNNLIDHFIPFLPLEKRHVRSCI  296 (344)
T ss_pred             EEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHH-HHHHHHHHHCCCCCCCCCCCCCHHHHHHHCCCCCCCCHHHHHHHH
T ss_conf             9997178614779999999974797564526552-699987553544566401421546677650576762389999999


Q ss_pred             HHHHHHHHHHHHHCCCEEEECHHHHHHHHHC
Q ss_conf             9999999999985798999988999999970
Q gi|254780877|r  771 RIQLGRVLSLIKERNISMDFDDQVIDWLSCR  801 (853)
Q Consensus       771 ~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~  801 (853)
                      +-++.       .+|  +..+.+.++.+++.
T Consensus       297 r~el~-------~rg--~~~d~~~~erva~~  318 (344)
T KOG2170         297 RAELR-------KRG--LAPDQDFVERVANS  318 (344)
T ss_pred             HHHHH-------HCC--CCCCHHHHHHHHHH
T ss_conf             99998-------654--65526899999986


No 27 
>TIGR00390 hslU heat shock protein HslVU, ATPase subunit HslU; InterPro: IPR004491   This family of proteins represent HslU, a bacterial clpX homolog, which is an ATPase and chaperone belonging to the AAA Clp/Hsp100 family and a component of the eubacterial proteasome.    ATP-dependent protease complexes are present in all three kingdoms of life, where they rid the cell of misfolded or damaged proteins and control the level of certain regulatory proteins. They include the proteasome in Eukaryotes, Archaea, and Actinomycetales and the HslVU (ClpQY, ClpXP) complex in other eubacteria. Genes homologous to eubacterial HslV, IPR001353 from INTERPRO, (ClpQ,) and HslU (ClpY, ClpX) have also been demonstrated in to be present in the genome of trypanosomatid protozoa. They are expressed as precursors, with a propeptide that is removed to produce the active protease. The protease is probably located in the kinetoplast (mitochondrion). Phylogenetic analysis shows that HslV and HslU from trypanosomatids form a single clad with other eubacterial homologs . ; GO: 0005515 protein binding, 0005524 ATP binding, 0009377 HslUV protease activity, 0016887 ATPase activity, 0005737 cytoplasm, 0009376 HslUV protease complex.
Probab=99.59  E-value=7.9e-14  Score=131.35  Aligned_cols=259  Identities=26%  Similarity=0.476  Sum_probs=175.0

Q ss_pred             HHHHHHHCCHHHHHHHHHHHHHH--HHCCC----CCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHH
Q ss_conf             54776745948999999999987--41012----3656651289872678616889999999872377653002244774
Q gi|254780877|r  564 TEISKSVIGQSAAVESVSNALRR--FRAGL----QDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEY  637 (853)
Q Consensus       564 ~~l~~~v~gq~~ai~~v~~~~~~--~~~gl----~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey  637 (853)
                      ..|-+.||||++|-++|+-|++-  -|.-|    ++.=-|= ..|..|||||||||.|+.||+..   +-+||.+-=+-|
T Consensus         8 ~~LD~yIiGQ~~AKk~VAiALrNRyrR~~L~~~L~~EV~PK-NILMiGpTGVGKTEIARRlAKL~---~aPFiKVEAtKf   83 (463)
T TIGR00390         8 AELDKYIIGQDEAKKAVAIALRNRYRRSQLEEELKDEVTPK-NILMIGPTGVGKTEIARRLAKLA---NAPFIKVEATKF   83 (463)
T ss_pred             HHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC-CEEEECCCCCCHHHHHHHHHHHH---CCCCEEEEEEEE
T ss_conf             75144220636678899999886677612871113565874-30432788985447999999984---489146664100


Q ss_pred             CCCCCCCHHHCCCCHHCCCCCCCC---CC------------HHHH-------------------------CCCCCEEEEH
Q ss_conf             034532013047711203566774---21------------1322-------------------------1564102202
Q gi|254780877|r  638 MEKHSVSRLIGSPPGYVGYEEGGA---LT------------EAVR-------------------------RHPYQVVLFD  677 (853)
Q Consensus       638 ~e~~~vs~LiGappGYvG~~~gg~---Lt------------e~vr-------------------------~~P~sVil~D  677 (853)
                      +|           =||||-|=-..   |+            +.+|                         ++||.. +|.
T Consensus        84 TE-----------VGYVGrdVeSmvRDL~~~aV~lV~~e~~~~~r~~aee~~~erI~~~L~pp~~n~sGvknPfe~-f~~  151 (463)
T TIGR00390        84 TE-----------VGYVGRDVESMVRDLVDTAVKLVKEEKIEKVRDRAEEAAEERIVDKLLPPAKNQSGVKNPFEM-FWG  151 (463)
T ss_pred             EE-----------CCEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHH-EEC
T ss_conf             11-----------021424100367878999999999988998899999999889998728889887766672230-005


Q ss_pred             HHH----HCCHHHHHHHHHHHHC--------CEEECCCCCEEECCCCE--EEECCCHHHHHH-------------H-C--
Q ss_conf             144----1498999999998404--------57887999778303315--595485126876-------------4-0--
Q gi|254780877|r  678 EIE----KAHSDVHNILLQVLDD--------GRLTDSQGRTVDFRNTL--IIMTSNLGAEYL-------------I-E--  727 (853)
Q Consensus       678 EiE----Kah~~v~~~llqild~--------G~ltd~~G~~v~f~n~i--ii~TsN~G~~~~-------------~-~--  727 (853)
                      +.|    +++......+-+=+-.        |.|-|.. -.|+.+...  +-.-++.|+...             . +  
T Consensus       152 ~~ePN~~~e~~~~~~~~~~klr~r~ahqlalGeLDd~~-iei~v~~~~pf~~~e~~~pp~~e~~~~~l~~~l~~l~~~~k  230 (463)
T TIGR00390       152 SEEPNEKDEEESSREALRKKLRERMAHQLALGELDDKE-IEIEVSAKSPFSGIEILAPPGMEEMTMNLQSLLQNLGPDKK  230 (463)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCE-EEEEEECCCCEEEEECCCCCCHHHHHHHHHHHHHHHCCCCC
T ss_conf             66874024689999999999999877663036646715-89986137871267505888556776789999862045320


Q ss_pred             -----------------------CHHHHHHHHHHHH--------------------------------------------
Q ss_conf             -----------------------3267999999999--------------------------------------------
Q gi|254780877|r  728 -----------------------DGDSVHDKVMGIV--------------------------------------------  740 (853)
Q Consensus       728 -----------------------~~~~~~~~~~~~l--------------------------------------------  740 (853)
                                             +.++.++...+.+                                            
T Consensus       231 kkr~l~ik~A~~~L~~Ee~~kL~d~e~~~~~A~~~vE~~GiiFIDEIDKIa~~~~e~S~~DvSrEGVQRDlLPiVEGS~V  310 (463)
T TIGR00390       231 KKRKLKIKEAKKALIAEEAAKLVDPEEIKQEAIDRVEQSGIIFIDEIDKIAKKGKESSGADVSREGVQRDLLPIVEGSTV  310 (463)
T ss_pred             EECCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCEEEECCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCEE
T ss_conf             00114569999998999887336966643899999984782898530354216888678887655651011420226664


Q ss_pred             ----------------HHHC--------CHHHHCCCCCEEECCCCCHHHHHHHH----HHHHHHHHHHHHHCCCEEEECH
Q ss_conf             ----------------8628--------85772666815862889989999999----9999999999985798999988
Q gi|254780877|r  741 ----------------RSAF--------KPEFLNRLDEIILFEKLRKEDMAKIV----RIQLGRVLSLIKERNISMDFDD  792 (853)
Q Consensus       741 ----------------~~~f--------~peflnRid~iv~F~~l~~~~~~~i~----~~~l~~l~~~l~~~~i~l~~~~  792 (853)
                                      .+.|        =|||-+|+.=-|-.+.||.+++.+|+    .-.+.+.+..++-.|+.|.|++
T Consensus       311 ~TKyG~VkTdHiLFIAaGAF~lAKPSDLIPELQGRfPirVEL~~Lt~~d~~rIL~~p~~Sl~kQY~ALl~~eGv~i~F~d  390 (463)
T TIGR00390       311 NTKYGSVKTDHILFIAAGAFHLAKPSDLIPELQGRFPIRVELEALTVDDFERILTEPKNSLIKQYQALLKVEGVNIEFSD  390 (463)
T ss_pred             EEECCEEECCHHHHHHHHHHCCCCCCCCCCHHHCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCEEECH
T ss_conf             31001042215787675232027776666311066737787676329999996208343689999998876276403355


Q ss_pred             HHHHHHHHCCCC-----CCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEE
Q ss_conf             999999970898-----220621579999987334999999708688978899999
Q gi|254780877|r  793 QVIDWLSCRGYD-----PSYGARPLKRVIQRYIQNPLAERVLSQTISDGDSIEVFV  843 (853)
Q Consensus       793 ~~~~~l~~~~~~-----~~~GaR~l~r~i~~~i~~~la~~il~~~~~~g~~i~i~~  843 (853)
                      +|++.|++-+|.     ...|||.|.-++++.+.+    .--.-.=..|.+|.|+.
T Consensus       391 ~AI~~iAe~ay~~N~~teniGARRLHTv~E~lled----isFea~D~~~~~~~I~~  442 (463)
T TIGR00390       391 EAIKKIAELAYNVNQKTENIGARRLHTVLERLLED----ISFEAPDVSGQKVTITA  442 (463)
T ss_pred             HHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHH----HCCCCCCCCCCEEEECH
T ss_conf             68999999999816442334650466899999987----51266686343245078


No 28 
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=99.59  E-value=1e-13  Score=130.47  Aligned_cols=181  Identities=25%  Similarity=0.385  Sum_probs=134.4

Q ss_pred             CCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHH
Q ss_conf             33357899999996336777866895288740777999999987348998444574378873135421745420245458
Q gi|254780877|r  180 VIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERL  259 (853)
Q Consensus       180 VIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~  259 (853)
                      ++|...=++++|   ...+-.+.||-|+||+|||+++.-+|...          +...+.|  ++..+|.+       .+
T Consensus        36 llg~g~~Lrr~i---~~~~~~S~Il~GPPGtGKTTLA~iIA~~t----------~~~F~~l--sAv~sgvk-------dl   93 (726)
T PRK13341         36 ILGEGRLLRRAI---KADRVGSLILYGPPGVGKTTLARIIANHT----------RAHFSSL--NAVLAGVK-------DL   93 (726)
T ss_pred             HCCCCCHHHHHH---HCCCCCEEEEECCCCCCHHHHHHHHHHHH----------CCCEEEE--ECCCCCHH-------HH
T ss_conf             428982899999---76999827888979999999999998874----------8867998--56203779-------99


Q ss_pred             HHHHHHHHH----CCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHCCCE
Q ss_conf             999999860----7997699963627730266655433588887653124660489974489999973001113202311
Q gi|254780877|r  260 KSLLCEIRS----EDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGATTLDEYRKYIEKDPALARRFQS  335 (853)
Q Consensus       260 ~~i~~~~~~----~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~  335 (853)
                      +.++++.+.    ...++||||||||-+=-        .--+.|-|++.+|.|..|||||..-|   |+=.+||-.|-+.
T Consensus        94 r~ii~~A~~~~~~~g~~tILFIDEIHRfNK--------~QQD~LLp~vE~G~i~LIGATTENP~---F~vn~ALlSR~~v  162 (726)
T PRK13341         94 RAEVDAAKERLERHGKRTILFIDEVHRFNK--------AQQDALLPWVENGTVTLIGATTENPY---FEVNKALVSRSRL  162 (726)
T ss_pred             HHHHHHHHHHHHHCCCCEEEEEECHHHCCH--------HHHHHHHHHHCCCEEEEEEECCCCCC---EEECHHHHHHCEE
T ss_conf             999999999987459965999862542588--------78998788860683899970478974---3642988832346


Q ss_pred             EECCCCCHHHHHHHHHH-HHHHHHH--HCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q ss_conf             11157776789999999-7898654--1496101589999986333202457674778999999999
Q gi|254780877|r  336 LLVGEPTVTDTISILRG-LKERYEQ--HHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEASA  399 (853)
Q Consensus       336 i~V~Eps~~~t~~iL~g-l~~~yE~--~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~A  399 (853)
                      +..+..+.++...||+. +...+-.  .+.|.++++|+...+.+|.==      --+|+.+|+-|..
T Consensus       163 f~L~~L~~~dl~~il~rAl~d~~~g~~~~~i~i~~~al~~l~~~s~GD------aR~aLN~LElav~  223 (726)
T PRK13341        163 FRLKSLEDEDLHQLLKRALQDKERGYGDRNIDLEPEAEKHLVDVANGD------ARSLLNALELAVE  223 (726)
T ss_pred             EEECCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHCCCC------HHHHHHHHHHHHH
T ss_conf             674389999999999999876743256678775989999999975973------9999999999997


No 29 
>PRK10923 glnG nitrogen regulation protein NR(I); Provisional
Probab=99.59  E-value=1.2e-11  Score=113.74  Aligned_cols=224  Identities=20%  Similarity=0.278  Sum_probs=163.3

Q ss_pred             HHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHC
Q ss_conf             74594899999999998741012365665128987267861688999999987237765300224477403453201304
Q gi|254780877|r  569 SVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIG  648 (853)
Q Consensus       569 ~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiG  648 (853)
                      .++|+..++..+.+.+.+.    ...+.|+   |+.|++|+||..+|+++-..=.-....++.+||+...+..--+.|+|
T Consensus       139 ~liG~S~~m~~v~~~i~~~----a~~~~pV---LI~GE~GTGK~~~Ar~IH~~S~r~~~pfi~vnC~~~~~~~~e~eLFG  211 (469)
T PRK10923        139 DIIGEAPAMQDVFRIIGRL----SRSSISV---LINGESGTGKELVAHALHRHSPRAKAPFIALNMAAIPKDLIESELFG  211 (469)
T ss_pred             CCEECCHHHHHHHHHHHHH----HCCCCCE---EEECCCCCCHHHHHHHHHHCCCCCCCCCEEEECCCCCHHHHHHHHHC
T ss_conf             6546899999999999998----5889978---99898982699999999974887799957876788997789999708


Q ss_pred             CCCHH-CCCCC--CCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHH
Q ss_conf             77112-03566--7742113221564102202144149899999999840457887999778303315595485126876
Q gi|254780877|r  649 SPPGY-VGYEE--GGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYL  725 (853)
Q Consensus       649 appGY-vG~~~--gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~  725 (853)
                      ...|+ .|-.+  -|.+    .+--.+.++||||+.-.++++.-||++|++|.+.--.|.+---.|+=||+|||.-    
T Consensus       212 ~~~gaf~ga~~~~~g~~----e~a~~GTLfLdeI~~L~~~~Q~kLl~~L~~~~~~~~g~~~~~~~d~RiIaat~~~----  283 (469)
T PRK10923        212 HEKGAFTGANTIRQGRF----EQADGGTLFLDEIGDMPLDVQTRLLRVLADGQFYRVGGYAPVKVDVRIIAATHQN----  283 (469)
T ss_pred             CCCCCCCCCCCCCCCCH----HHCCCCCEEHHHHHHCCHHHHHHHHHHHHCCCEEECCCCCEEEECCEEEEECCCC----
T ss_conf             76678788642458736----6438992656636648999999999998559378579985122143799707879----


Q ss_pred             HCCHHHHHHHHHH-HHHHHCCHHHHCCCCC-EEECCCCCH--HHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHC
Q ss_conf             4032679999999-9986288577266681-586288998--99999999999999999985798999988999999970
Q gi|254780877|r  726 IEDGDSVHDKVMG-IVRSAFKPEFLNRLDE-IILFEKLRK--EDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCR  801 (853)
Q Consensus       726 ~~~~~~~~~~~~~-~l~~~f~peflnRid~-iv~F~~l~~--~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~  801 (853)
                                ..+ .-.+.|+++|+.|+.. .|..-||.+  +|+..++...+.+..++..  .-...+++++...|.. 
T Consensus       284 ----------L~~~v~~g~Fr~dLyyrL~~~~I~lPpLReR~eDI~~L~~~fl~~~~~~~~--~~~~~~s~~a~~~L~~-  350 (469)
T PRK10923        284 ----------LEQRVQEGKFREDLFHRLNVIRVHLPPLRERREDIPRLARHFLQVAARELG--VEAKLLHPETEAALTR-  350 (469)
T ss_pred             ----------HHHHHHHCCHHHHHHHHHHHHCCCCCCHHHCHHHHHHHHHHHHHHHHHHCC--CCCCCCCHHHHHHHHC-
T ss_conf             ----------999866081779999864424015846544653499999999999999859--9978789999999974-


Q ss_pred             CCCCCCCCHHHHHHHHHHHH
Q ss_conf             89822062157999998733
Q gi|254780877|r  802 GYDPSYGARPLKRVIQRYIQ  821 (853)
Q Consensus       802 ~~~~~~GaR~l~r~i~~~i~  821 (853)
                       |+=--..|.|+.++++.+.
T Consensus       351 -y~WPGNvrEL~n~ier~~~  369 (469)
T PRK10923        351 -LAWPGNVRQLENTCRWLTV  369 (469)
T ss_pred             -CCCCCHHHHHHHHHHHHHH
T ss_conf             -9999879999999999998


No 30 
>KOG0735 consensus
Probab=99.59  E-value=7.8e-11  Score=107.00  Aligned_cols=148  Identities=20%  Similarity=0.238  Sum_probs=97.4

Q ss_pred             CCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEE
Q ss_conf             67778668952887407779999999873489984445743788731354217454202454589999998607997699
Q gi|254780877|r  196 RRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIIL  275 (853)
Q Consensus       196 r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~il  275 (853)
                      --+..|.+|-|++|.|||.+|+.++...-...      .+.+.-.| ++-+.|++ ---+..-+.+++.+...+ ++.|.
T Consensus       428 v~~~~~Ill~G~~GsGKT~L~kal~~~~~k~~------~~hv~~v~-Cs~l~~~~-~e~iQk~l~~vfse~~~~-~PSiI  498 (952)
T KOG0735         428 VFRHGNILLNGPKGSGKTNLVKALFDYYSKDL------IAHVEIVS-CSTLDGSS-LEKIQKFLNNVFSEALWY-APSII  498 (952)
T ss_pred             CCCCCCEEEECCCCCCHHHHHHHHHHHHCCCC------CEEEEEEE-CHHCCCHH-HHHHHHHHHHHHHHHHHH-CCCEE
T ss_conf             33466189867998777699999998751565------06999975-22104204-899999999999998863-78089


Q ss_pred             EECCHHHHCCCCCCCCCCC--HH--------HHHHHHHCCCCE-EEEEEECHHHHHHHHHCCHHHHHCCCEE-ECCCCCH
Q ss_conf             9636277302666554335--88--------887653124660-4899744899999730011132023111-1157776
Q gi|254780877|r  276 FIDELHVLVGAGKTDGAMD--AS--------NLLKPSLARGEL-HCIGATTLDEYRKYIEKDPALARRFQSL-LVGEPTV  343 (853)
Q Consensus       276 fide~h~~~gaG~~~g~~D--aa--------n~LKP~LarG~l-~~IgaTT~~Eyrk~iEkD~Al~RRFq~i-~V~Eps~  343 (853)
                      +.|++|.|+|+...+++-|  ++        .+.|-++.++.+ .+|++  ..|... |-+-=-..++||.+ .+..|..
T Consensus       499 vLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat--~qe~qt-l~~~L~s~~~Fq~~~~L~ap~~  575 (952)
T KOG0735         499 VLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIAT--GQELQT-LNPLLVSPLLFQIVIALPAPAV  575 (952)
T ss_pred             EECCHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEEEEE--CHHHHH-CCHHHCCCCCEEEEEECCCCCH
T ss_conf             9705035405684447730289999999999999998706857999985--143420-3853347631478881589235


Q ss_pred             HHHHHHHHHHHH
Q ss_conf             789999999789
Q gi|254780877|r  344 TDTISILRGLKE  355 (853)
Q Consensus       344 ~~t~~iL~gl~~  355 (853)
                      .+--+||+.+-+
T Consensus       576 ~~R~~IL~~~~s  587 (952)
T KOG0735         576 TRRKEILTTIFS  587 (952)
T ss_pred             HHHHHHHHHHHH
T ss_conf             679999999997


No 31 
>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional
Probab=99.57  E-value=3.1e-11  Score=110.27  Aligned_cols=219  Identities=21%  Similarity=0.316  Sum_probs=159.9

Q ss_pred             HHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHC
Q ss_conf             74594899999999998741012365665128987267861688999999987237765300224477403453201304
Q gi|254780877|r  569 SVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIG  648 (853)
Q Consensus       569 ~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiG  648 (853)
                      .++|+..++..+...+.+.    ...+.|   .|+.|+||+||.-+|+++-..=.-.+..|+.+||+-..+.---|-|+|
T Consensus       144 ~lig~S~~m~~v~~~i~~~----A~s~~~---VLI~GEsGTGKe~~Ar~IH~~S~r~~~pFv~vnc~ai~~~l~eseLFG  216 (457)
T PRK11361        144 HILTNSPAMMDICKDTAKI----ALSQAS---VLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAALPESLLESELFG  216 (457)
T ss_pred             CCEECCHHHHHHHHHHHHH----HCCCCC---EEEECCCCCCHHHHHHHHHHHCCCCCCCEEEEECCCCCHHHHHHHHHC
T ss_conf             7454699999999999998----488995---899889985789999999983798899838764787985778999718


Q ss_pred             CCCHHCCCCCCCCCCHHHHCC-------CCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHH
Q ss_conf             771120356677421132215-------6410220214414989999999984045788799977830331559548512
Q gi|254780877|r  649 SPPGYVGYEEGGALTEAVRRH-------PYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLG  721 (853)
Q Consensus       649 appGYvG~~~gg~Lte~vr~~-------P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G  721 (853)
                      .-.|        ..|.+...+       -.+-++||||+...++++.-||.+|++|.+.--.|...--.|+=||.+||. 
T Consensus       217 ~~kg--------aftga~~~~~G~~e~A~gGTLfLdeI~~l~~~~Q~kLLr~L~~~~~~~~g~~~~~~~dvRiIaaT~~-  287 (457)
T PRK11361        217 HEKG--------AFTGAQTLRQGLFERANEGTLLLDEIGEMPLVLQAKLLRILQEREFERIGGHQTIKVDIRIIAATNR-  287 (457)
T ss_pred             CCCC--------CCCCCCCCCCCCHHHCCCCCEECCCHHHHHHHHHHHHHHHHHCCCEEECCCCCEEEECCEEEECCCC-
T ss_conf             7667--------8788531469861335998263146645239999999999864927856997136653489965787-


Q ss_pred             HHHHHCCHHHHHHHHHHHH-HHHCCHHHHCCCCCE-EECCCCC--HHHHHHHHHHHHHHHHHHHHHCCCE-EEECHHHHH
Q ss_conf             6876403267999999999-862885772666815-8628899--8999999999999999999857989-999889999
Q gi|254780877|r  722 AEYLIEDGDSVHDKVMGIV-RSAFKPEFLNRLDEI-ILFEKLR--KEDMAKIVRIQLGRVLSLIKERNIS-MDFDDQVID  796 (853)
Q Consensus       722 ~~~~~~~~~~~~~~~~~~l-~~~f~peflnRid~i-v~F~~l~--~~~~~~i~~~~l~~l~~~l~~~~i~-l~~~~~~~~  796 (853)
                                   .+.+.+ .+.|+++|+-|+..+ |..-||-  .+|+..++...+.++..+.   +.. ..+++++++
T Consensus       288 -------------~L~~~v~~g~Fr~DLyyrL~~~~i~lPpLReR~eDI~~L~~~fl~~~~~~~---~~~~~~~s~~a~~  351 (457)
T PRK11361        288 -------------DLQAMVKEGTFREDLFYRLNVIHLILPPLRDRREDISLLANHFLQKFSSEN---QRDIIDIDPMAMS  351 (457)
T ss_pred             -------------CHHHHHHCCCCHHHHHHHHCEEEEECCCHHHCHHHHHHHHHHHHHHHHHHC---CCCCCCCCHHHHH
T ss_conf             -------------859998758323889953022125173854587549999999999999974---9998988999999


Q ss_pred             HHHHCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             9997089822062157999998733
Q gi|254780877|r  797 WLSCRGYDPSYGARPLKRVIQRYIQ  821 (853)
Q Consensus       797 ~l~~~~~~~~~GaR~l~r~i~~~i~  821 (853)
                      .|..  |+=--..|.|+++|++.+.
T Consensus       352 ~L~~--y~WPGNvREL~n~ierav~  374 (457)
T PRK11361        352 LLTA--WSWPGNIRELSNVIERAVV  374 (457)
T ss_pred             HHHC--CCCCCHHHHHHHHHHHHHH
T ss_conf             9956--9999799999999999998


No 32 
>pfam05496 RuvB_N Holliday junction DNA helicase ruvB N-terminus. The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This family contains the N-terminal region of the protein.
Probab=99.55  E-value=6.7e-13  Score=123.79  Aligned_cols=195  Identities=20%  Similarity=0.298  Sum_probs=127.3

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHH
Q ss_conf             76745948999999999987410123656651289872678616889999999872377653002244774034532013
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRL  646 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~L  646 (853)
                      -+.+|||++.+..+..++..+    ...+.++.++||.||+|+|||.||+.+|+.+-   .++....-.....   +.-+
T Consensus        23 l~e~vGQehl~~~l~~~i~a~----~~~~~~l~h~lf~GPPG~GKTTlAriiAk~~~---~~~~~~s~~~i~~---~~di   92 (234)
T pfam05496        23 LDEYIGQEKVKENLKIFIEAA----KKRGEALDHVLLYGPPGLGKTTLANIIANEMG---VNIRITSGPALEK---PGDL   92 (234)
T ss_pred             HHHCCCHHHHHHHHHHHHHHH----HHCCCCCCEEEEECCCCCCHHHHHHHHHHHHC---CCEEEECCHHHHH---HHHH
T ss_conf             666069499999999999988----74277766278878999988899999998408---7537614266643---8999


Q ss_pred             HCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEE--CCC---CCEEECCCC---EEEECC
Q ss_conf             047711203566774211322156410220214414989999999984045788--799---977830331---559548
Q gi|254780877|r  647 IGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLT--DSQ---GRTVDFRNT---LIIMTS  718 (853)
Q Consensus       647 iGappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~lt--d~~---G~~v~f~n~---iii~Ts  718 (853)
                      .            +.++   ..+...|+..|||+.-.+..++.||..+++|++-  =+.   -+++.+.+-   +|-.|+
T Consensus        93 ~------------~~l~---~~~~~~ILFIDEIHr~nK~qqd~Llp~vE~g~i~i~ig~~~~A~~~~~e~P~FtLIgATT  157 (234)
T pfam05496        93 A------------AILT---NLEPGDVLFIDEIHRLNRAVEEILYPAMEDFRLDIVIGKGPSARSIRLDLPPFTLVGATT  157 (234)
T ss_pred             H------------HHHH---HCCCCCEEEEECHHHCCHHHHHHCCCCCCCCEEEEEECCCCCCEEEECCCCCEEEEEECC
T ss_conf             9------------9998---458998899966543587688744553346169999636766324652689759985215


Q ss_pred             CHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHH
Q ss_conf             51268764032679999999998628857726668158628899899999999999999999985798999988999999
Q gi|254780877|r  719 NLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWL  798 (853)
Q Consensus       719 N~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l  798 (853)
                      -                     ...+++.|+.|+.-+..|+||+.+++.+|+..-+..         ..+.++++++++|
T Consensus       158 e---------------------~~~l~~pl~sR~~i~~~l~~l~~edl~~il~r~~~~---------l~i~i~~eal~~I  207 (234)
T pfam05496       158 R---------------------AGLLTSPLRDRFGIVLRLEFYSVEELEEIVKRSARI---------LGVEIDEEGAAEI  207 (234)
T ss_pred             C---------------------CCCCCHHHHHHHHHEEECCCCCHHHHHHHHHHHHHH---------CCCCCCHHHHHHH
T ss_conf             6---------------------664777799762112442468999999999999998---------3999599999999


Q ss_pred             HHCCCCCCCCCHHHHHHHHHH
Q ss_conf             970898220621579999987
Q gi|254780877|r  799 SCRGYDPSYGARPLKRVIQRY  819 (853)
Q Consensus       799 ~~~~~~~~~GaR~l~r~i~~~  819 (853)
                      +..+   .-.+|..-+.+++-
T Consensus       208 A~~s---~Gd~R~ALnlLe~v  225 (234)
T pfam05496       208 ARRS---RGTPRIANRLLRRV  225 (234)
T ss_pred             HHHC---CCCHHHHHHHHHHH
T ss_conf             9977---99899998999999


No 33 
>pfam05496 RuvB_N Holliday junction DNA helicase ruvB N-terminus. The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This family contains the N-terminal region of the protein.
Probab=99.53  E-value=4.1e-13  Score=125.56  Aligned_cols=193  Identities=22%  Similarity=0.287  Sum_probs=126.5

Q ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHCC--C--C--CCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEE
Q ss_conf             56998729853333357899999996336--7--7--7866895288740777999999987348998444574378873
Q gi|254780877|r  168 LTEEARNGKLDPVIGRDDEMRRAIQVLSR--R--T--KNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALD  241 (853)
Q Consensus       168 LTe~Ar~GkLDPVIGRe~EI~~~~~iL~r--~--~--k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld  241 (853)
                      +-..-|=-.+|-+||-+.=+ .....+.+  +  .  =.+.++-|+||||||+++.-+|+.+-          +.+..++
T Consensus        14 ~~~~lRP~~l~e~vGQehl~-~~l~~~i~a~~~~~~~l~h~lf~GPPG~GKTTlAriiAk~~~----------~~~~~~s   82 (234)
T pfam05496        14 VERSLRPRRLDEYIGQEKVK-ENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMG----------VNIRITS   82 (234)
T ss_pred             HHHCCCCCCHHHCCCHHHHH-HHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHC----------CCEEEEC
T ss_conf             78554989766606949999-999999998874277766278878999988899999998408----------7537614


Q ss_pred             HHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCE-------------
Q ss_conf             1354217454202454589999998607997699963627730266655433588887653124660-------------
Q gi|254780877|r  242 MGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGEL-------------  308 (853)
Q Consensus       242 ~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l-------------  308 (853)
                      -..          + ++.+.+..-+.....+.||||||||.+=        -..-+.|-|++..|.+             
T Consensus        83 ~~~----------i-~~~~di~~~l~~~~~~~ILFIDEIHr~n--------K~qqd~Llp~vE~g~i~i~ig~~~~A~~~  143 (234)
T pfam05496        83 GPA----------L-EKPGDLAAILTNLEPGDVLFIDEIHRLN--------RAVEEILYPAMEDFRLDIVIGKGPSARSI  143 (234)
T ss_pred             CHH----------H-HHHHHHHHHHHHCCCCCEEEEECHHHCC--------HHHHHHCCCCCCCCEEEEEECCCCCCEEE
T ss_conf             266----------6-4389999999845899889996654358--------76887445533461699996367663246


Q ss_pred             -------EEEEEECHHHHHHHHHCCHHHHHCCCEEE-CCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHH
Q ss_conf             -------48997448999997300111320231111-1577767899999997898654149610158999998633320
Q gi|254780877|r  309 -------HCIGATTLDEYRKYIEKDPALARRFQSLL-VGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRY  380 (853)
Q Consensus       309 -------~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~-V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rY  380 (853)
                             ..|||||-.  .+   =.++|-.||..+. .+.-+.++...||+....    ..++.++++|++..++.|.==
T Consensus       144 ~~e~P~FtLIgATTe~--~~---l~~pl~sR~~i~~~l~~l~~edl~~il~r~~~----~l~i~i~~eal~~IA~~s~Gd  214 (234)
T pfam05496       144 RLDLPPFTLVGATTRA--GL---LTSPLRDRFGIVLRLEFYSVEELEEIVKRSAR----ILGVEIDEEGAAEIARRSRGT  214 (234)
T ss_pred             ECCCCCEEEEEECCCC--CC---CCHHHHHHHHHEEECCCCCHHHHHHHHHHHHH----HCCCCCCHHHHHHHHHHCCCC
T ss_conf             5268975998521566--64---77779976211244246899999999999999----839995999999999977998


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             2457674778999999999875410
Q gi|254780877|r  381 ITDRFLPDKAIDLMDEASARVRMQI  405 (853)
Q Consensus       381 i~~r~lPDKAIDllDeA~A~~~i~~  405 (853)
                            |-.|+.||+.+.++..++.
T Consensus       215 ------~R~ALnlLe~v~d~a~~~~  233 (234)
T pfam05496       215 ------PRIANRLLRRVRDFAQVKG  233 (234)
T ss_pred             ------HHHHHHHHHHHHHHHHHHC
T ss_conf             ------9999899999999998734


No 34 
>PRK10365 transcriptional regulatory protein ZraR; Provisional
Probab=99.52  E-value=4e-11  Score=109.35  Aligned_cols=220  Identities=19%  Similarity=0.286  Sum_probs=161.7

Q ss_pred             HHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHC
Q ss_conf             74594899999999998741012365665128987267861688999999987237765300224477403453201304
Q gi|254780877|r  569 SVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIG  648 (853)
Q Consensus       569 ~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiG  648 (853)
                      .+||+..|+..+.+.+.+.    ...+.|   .|+.|.||+||.-+|+++-..=.-.+..|+.+||+...+..--+-|+|
T Consensus       140 ~liG~S~am~~v~~~i~~~----A~s~~p---VLI~GE~GTGK~~~Ar~IH~~S~r~~~pfv~vnC~~l~~~l~eseLFG  212 (441)
T PRK10365        140 GMVGKSPAMQHLLSEIALV----APSEAT---VLIHGDSGTGKELVARAIHASSARSEKPLVTLNCAALNESLLESELFG  212 (441)
T ss_pred             CCEECCHHHHHHHHHHHHH----HCCCCC---EEEECCCCHHHHHHHHHHHHCCCCCCCCCEEEECCCCCHHHHHHHHCC
T ss_conf             8666899999999999998----488994---899899981099999999965787789807987898984555898617


Q ss_pred             CCCHHCCCCCCCCCCHHHHC-------CCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHH
Q ss_conf             77112035667742113221-------56410220214414989999999984045788799977830331559548512
Q gi|254780877|r  649 SPPGYVGYEEGGALTEAVRR-------HPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLG  721 (853)
Q Consensus       649 appGYvG~~~gg~Lte~vr~-------~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G  721 (853)
                      .-.|.        .|.+...       --.+.++||||+...++++.-||.++++|.++--.|...--.|+=||.+||.-
T Consensus       213 ~~~ga--------ftga~~~~~g~~~~A~gGTLfLdeI~~l~~~~Q~kLl~~l~~~~~~~~g~~~~~~~d~RiIaat~~~  284 (441)
T PRK10365        213 HEKGA--------FTGADKRREGRFVEADGGTLFLDEIGDISPMMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRD  284 (441)
T ss_pred             CCCCC--------CCCCCCCCCCCEEECCCCEECCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEECCCEEEECCCCC
T ss_conf             75568--------7896534689877889982550231529999999999877752100058873441363799837889


Q ss_pred             HHHHHCCHHHHHHHHHHHH-HHHCCHHHHCCCCC-EEECCCCC--HHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHH
Q ss_conf             6876403267999999999-86288577266681-58628899--89999999999999999998579899998899999
Q gi|254780877|r  722 AEYLIEDGDSVHDKVMGIV-RSAFKPEFLNRLDE-IILFEKLR--KEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDW  797 (853)
Q Consensus       722 ~~~~~~~~~~~~~~~~~~l-~~~f~peflnRid~-iv~F~~l~--~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~  797 (853)
                                    +.+.+ .+.|+++|+-|+.. .|..-||.  .+|+..++...+.++..+...  -.-.+++++.+.
T Consensus       285 --------------l~~~v~~g~Fr~dLy~rL~~~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~~--~~~~~s~~a~~~  348 (441)
T PRK10365        285 --------------LAAEVNAGRFRQDLYYRLNVVAIEVPSLRQRREDIPLLAGHFLQRFAERNRK--AVKGFTPQAMDL  348 (441)
T ss_pred             --------------HHHHHHCCCCHHHHHHHHCCHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCC--CCCCCCHHHHHH
T ss_conf             --------------9999881982589998860111378260006200999999999999998499--988889999999


Q ss_pred             HHHCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             997089822062157999998733
Q gi|254780877|r  798 LSCRGYDPSYGARPLKRVIQRYIQ  821 (853)
Q Consensus       798 l~~~~~~~~~GaR~l~r~i~~~i~  821 (853)
                      |..  |+=--..|.|+.+|++.+.
T Consensus       349 L~~--y~WPGNvREL~n~iera~~  370 (441)
T PRK10365        349 LIH--YDWPGNIRELENAVERAVV  370 (441)
T ss_pred             HHC--CCCCCHHHHHHHHHHHHHH
T ss_conf             970--9999899999999999999


No 35 
>pfam10431 ClpB_D2-small C-terminal, D2-small domain, of ClpB protein. This is the C-terminal domain of ClpB protein, referred to as the D2-small domain, and is a mixed alpha-beta structure. Compared with the D1-small domain (included in AAA, pfam00004) it lacks the long coiled-coil insertion, and instead of helix C4 contains a beta-strand (e3) that is part of a three stranded beta-pleated sheet. In Thermophilus the whole protein forms a hexamer with the D1-small and D2-small domains located on the outside of the hexamer, with the long coiled-coil being exposed on the surface. The D2-small domain is essential for oligomerisation, forming a tight interface with the D2-large domain of a neighbouring subunit and thereby providing enough binding energy to stabilize the functional assembly. The domain is associated with two Clp_N, pfam02861, at the N-terminus as well as AAA, pfam00004 and AAA_2, pfam07724.
Probab=99.50  E-value=4.6e-13  Score=125.14  Aligned_cols=85  Identities=49%  Similarity=0.899  Sum_probs=83.1

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEE
Q ss_conf             99899999999999999999985798999988999999970898220621579999987334999999708688978899
Q gi|254780877|r  761 LRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQRYIQNPLAERVLSQTISDGDSIE  840 (853)
Q Consensus       761 l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~~~la~~il~~~~~~g~~i~  840 (853)
                      |+.+++.+|++++++++.+|+..+++.+.+++++++||+++||++.||||||+|.|+++|++|||+.++.+.+.+|++++
T Consensus         1 L~~~~l~~Iv~~~l~~l~~rl~~~~i~l~~~~~~~~~i~~~~~~~~~GAR~l~r~I~~~i~~~la~~il~~~~~~~~~i~   80 (89)
T pfam10431         1 LSKEELRQIVDLQLKRLQKRLAERGITLELTDAAKDWLAEKGYDPEYGARPLRRAIQREIEDPLAEEILSGELKEGDTVR   80 (89)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHCCEEEEECHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEE
T ss_conf             98899999999999999999997890799868999999983567567947899999999999999999849899979999


Q ss_pred             EEEEC
Q ss_conf             99989
Q gi|254780877|r  841 VFVDD  845 (853)
Q Consensus       841 i~~~~  845 (853)
                      +++++
T Consensus        81 i~~~~   85 (89)
T pfam10431        81 VDVDD   85 (89)
T ss_pred             EEECC
T ss_conf             97158


No 36 
>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=99.49  E-value=3.9e-12  Score=117.57  Aligned_cols=96  Identities=22%  Similarity=0.427  Sum_probs=74.8

Q ss_pred             CCHHHHCCCCCEEECCCCCHHHHHHHHH----HHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCC-----CCCCCHHHHH
Q ss_conf             8857726668158628899899999999----999999999985798999988999999970898-----2206215799
Q gi|254780877|r  744 FKPEFLNRLDEIILFEKLRKEDMAKIVR----IQLGRVLSLIKERNISMDFDDQVIDWLSCRGYD-----PSYGARPLKR  814 (853)
Q Consensus       744 f~peflnRid~iv~F~~l~~~~~~~i~~----~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~-----~~~GaR~l~r  814 (853)
                      +-||+-+|+.--|-..+|+.+++.+|+.    -.+++....++-.++.+.|++++++.|++-.|.     ...|||.|.-
T Consensus       319 LiPELQGRfPIRVEL~~Lt~~Df~rILtep~~sLikQY~aLlkTE~v~l~FtddaI~~iAeiA~~vN~~~ENIGARRLhT  398 (444)
T COG1220         319 LIPELQGRFPIRVELDALTKEDFERILTEPKASLIKQYKALLKTEGVELEFTDDAIKRIAEIAYQVNEKTENIGARRLHT  398 (444)
T ss_pred             CCHHHCCCCCEEEECCCCCHHHHHHHHCCCHHHHHHHHHHHHHHCCEEEEECHHHHHHHHHHHHHHCCCCCCHHHHHHHH
T ss_conf             17666277734887044899899999637607899999999731583488537999999999998554300011788999


Q ss_pred             HHHHHHHHHHHHHHHCCCCCCCCEEEEEE
Q ss_conf             99987334999999708688978899999
Q gi|254780877|r  815 VIQRYIQNPLAERVLSQTISDGDSIEVFV  843 (853)
Q Consensus       815 ~i~~~i~~~la~~il~~~~~~g~~i~i~~  843 (853)
                      ++++.+++    .-....-.+|.+|.|+.
T Consensus       399 vlErlLed----iSFeA~d~~g~~v~Id~  423 (444)
T COG1220         399 VLERLLED----ISFEAPDMSGQKVTIDA  423 (444)
T ss_pred             HHHHHHHH----HCCCCCCCCCCEEEECH
T ss_conf             99999987----07058778997589758


No 37 
>PRK13342 recombination factor protein RarA; Reviewed
Probab=99.46  E-value=4.9e-12  Score=116.80  Aligned_cols=184  Identities=22%  Similarity=0.388  Sum_probs=124.4

Q ss_pred             HHHCCHHHHHHH---HHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCC
Q ss_conf             674594899999---99999874101236566512898726786168899999998723776530022447740345320
Q gi|254780877|r  568 KSVIGQSAAVES---VSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVS  644 (853)
Q Consensus       568 ~~v~gq~~ai~~---v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs  644 (853)
                      +.||||++.+..   +.+.|.        .++ +.|++|.||+|||||.+|+.||..+   ...++.++-+.    ..+.
T Consensus        13 de~vGQ~hllg~~~~L~~~i~--------~~~-~~s~Il~GPPG~GKTTlA~iiA~~~---~~~f~~lnA~~----~gv~   76 (417)
T PRK13342         13 DEVVGQEHLLGPGKPLRRMIE--------AGR-LSSMILWGPPGTGKTTLARIIAGAT---DAEFEALSAVT----SGVK   76 (417)
T ss_pred             HHHCCCHHHHCCCHHHHHHHH--------CCC-CCEEEEECCCCCCHHHHHHHHHHHH---CCCEEEEECCC----CCHH
T ss_conf             885798776089719999997--------699-9759988969998999999999986---89889961410----3889


Q ss_pred             HHHCCCCHHCCCCCCCCCCHHHHC---CCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHH
Q ss_conf             130477112035667742113221---56410220214414989999999984045788799977830331559548512
Q gi|254780877|r  645 RLIGSPPGYVGYEEGGALTEAVRR---HPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLG  721 (853)
Q Consensus       645 ~LiGappGYvG~~~gg~Lte~vr~---~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G  721 (853)
                      -+-             ...+..++   .-..|+++|||..-+..-+|.||..+++|++            ++|-.||.  
T Consensus        77 dir-------------~ii~~a~~~~~~~~tilfiDEIHRfnK~QQD~LLp~vE~g~i------------iLIgATTE--  129 (417)
T PRK13342         77 DLR-------------EVIEEAKQSRLGRRTILFIDEIHRFNKAQQDALLPHVEDGTI------------TLIGATTE--  129 (417)
T ss_pred             HHH-------------HHHHHHHHHHCCCCEEEEEECHHHCCHHHHHHHHHHHHCCCE------------EEEEECCC--
T ss_conf             999-------------999998863148965999978200588999999875112656------------99974157--


Q ss_pred             HHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHC
Q ss_conf             68764032679999999998628857726668158628899899999999999999999985798999988999999970
Q gi|254780877|r  722 AEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCR  801 (853)
Q Consensus       722 ~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~  801 (853)
                            ++.           -...|.++.|. .++.|+||+.+++..|+.+-++. .   ...+..+.++++++++|++.
T Consensus       130 ------NP~-----------f~in~aLlSRc-~vf~l~~L~~~di~~iL~ral~~-e---~~~~~~i~i~~~al~~i~~~  187 (417)
T PRK13342        130 ------NPS-----------FEVNPALLSRA-QVFELKPLSEEDLEQLLKRALED-E---RGLGRKLELDDEALDALARL  187 (417)
T ss_pred             ------CCH-----------HHCCHHHHHHH-HHEECCCCCHHHHHHHHHHHHHH-H---HCCCCCCCCCHHHHHHHHHH
T ss_conf             ------922-----------53489898565-70020589999999999999987-7---43378877699999999981


Q ss_pred             CCCCCCCCHHHHHHHHHH
Q ss_conf             898220621579999987
Q gi|254780877|r  802 GYDPSYGARPLKRVIQRY  819 (853)
Q Consensus       802 ~~~~~~GaR~l~r~i~~~  819 (853)
                      +   .--||..-..++--
T Consensus       188 s---~GDaR~aLN~LE~a  202 (417)
T PRK13342        188 A---DGDARRALNLLELA  202 (417)
T ss_pred             C---CCCHHHHHHHHHHH
T ss_conf             4---98599999999999


No 38 
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=99.43  E-value=4.3e-12  Score=117.21  Aligned_cols=208  Identities=22%  Similarity=0.266  Sum_probs=140.7

Q ss_pred             HHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHH----------HCCCEEE
Q ss_conf             699872985333335789999999633677786689528874077799999998734899844----------4574378
Q gi|254780877|r  169 TEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPES----------LKGKRLM  238 (853)
Q Consensus       169 Te~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~----------l~~~~i~  238 (853)
                      +++.|=-.+|-|+|-+.-++.+...+..++-.+.++.|+||+|||+.+..+|+.+.-......          -+++..+
T Consensus         6 veKYRP~~~~dvvGq~~i~~~L~~~~~~~~~phlLf~GPpG~GKTt~A~~lA~~l~~~~~~~~~~~~nasd~~~~~~~~i   85 (337)
T PRK12402          6 TEKYRPSLFEDILGQESVVDHLSALAASGNLPHLVVYGPSGSGKTAAVRALARELYGDPWENNFTYFNVSDFFDQGKKYL   85 (337)
T ss_pred             CCCCCCCCHHHHCCCHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCEECCCCCCCCCCCEE
T ss_conf             21418897998039799999999999779987698889298489999999999967997567833311653113564001


Q ss_pred             EEEH--HHHHCCCCCCCH-HHHHHHHHHHHHHHCC----CCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHC--CCCEE
Q ss_conf             8731--354217454202-4545899999986079----9769996362773026665543358888765312--46604
Q gi|254780877|r  239 ALDM--GALIAGAKFRGE-FEERLKSLLCEIRSED----GEIILFIDELHVLVGAGKTDGAMDASNLLKPSLA--RGELH  309 (853)
Q Consensus       239 ~ld~--~~l~ag~~~rg~-~e~r~~~i~~~~~~~~----~~~ilfide~h~~~gaG~~~g~~Daan~LKP~La--rG~l~  309 (853)
                      .-|-  ..++.+..-.+. .-.-++.++++.....    +--|++|||+|.+        +-+|.|-|...|.  ....+
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~d~i~~ii~~~a~~~p~~~~~KiiIlDEad~l--------t~~Aq~aLlk~lEe~~~~~~  157 (337)
T PRK12402         86 VEDPRFAHFYDDPKRKYKSVIDNFKHILKEYASMRPLSADYKLILFDNAEAL--------REDAQQALRRIMERYSETCR  157 (337)
T ss_pred             ECCCCHHHHHCCHHHCCCCHHHHHHHHHHHHHCCCCCCCCEEEEEEECCCCC--------CHHHHHHHHHHHHCCCCCEE
T ss_conf             0166423442015332773789999999998614887788049997071317--------99999999988740887669


Q ss_pred             EEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHH
Q ss_conf             89974489999973001113202311111577767899999997898654149610158999998633320245767477
Q gi|254780877|r  310 CIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDK  389 (853)
Q Consensus       310 ~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDK  389 (853)
                      +|-+||.-  .+.+   +++-.|-+.+....|+.++....|+.+...    .++.|+++++...+..|.--      .-+
T Consensus       158 fIl~t~~~--~~ii---~tI~SRC~~i~F~~~s~~~i~~~L~~I~~~----E~i~~~~~~l~~ia~~s~Gd------lR~  222 (337)
T PRK12402        158 FIFSTTQP--SKLI---PPIRSRCLPLFFRPVPDDEIRSVLESIAAA----EGVEISDDGLDLIAYYAEGD------LRK  222 (337)
T ss_pred             EEEECCCC--CCCC---HHHHHHCEEEECCCCCHHHHHHHHHHHHHH----CCCCCCHHHHHHHHHHCCCC------HHH
T ss_conf             98723864--4475---247762445435898999999999999998----49998999999999986998------999


Q ss_pred             HHHHHHHHHHH
Q ss_conf             89999999998
Q gi|254780877|r  390 AIDLMDEASAR  400 (853)
Q Consensus       390 AIDllDeA~A~  400 (853)
                      ||.+|. +++.
T Consensus       223 ain~Lq-~~~~  232 (337)
T PRK12402        223 AILTLQ-LAAE  232 (337)
T ss_pred             HHHHHH-HHHH
T ss_conf             999999-9987


No 39 
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=99.43  E-value=4.5e-12  Score=117.07  Aligned_cols=193  Identities=28%  Similarity=0.418  Sum_probs=134.5

Q ss_pred             HHHHHHHCCCCCCCCC------HHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEE
Q ss_conf             3569987298533333------5789999999633677786689528874077799999998734899844457437887
Q gi|254780877|r  167 DLTEEARNGKLDPVIG------RDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMAL  240 (853)
Q Consensus       167 DLTe~Ar~GkLDPVIG------Re~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~l  240 (853)
                      -|..+-|-..||-+||      -+.-++|+++   -.+=.+-||-|+||||||+|.+-+|+..          ++.+..+
T Consensus        13 PLA~rmRP~~lde~vGQ~HLlg~~~~lrr~v~---~~~l~SmIl~GPPG~GKTTlA~liA~~~----------~~~f~~~   79 (436)
T COG2256          13 PLAERLRPKSLDEVVGQEHLLGEGKPLRRAVE---AGHLHSMILWGPPGTGKTTLARLIAGTT----------NAAFEAL   79 (436)
T ss_pred             CHHHHHCCCCHHHHCCHHHHHCCCCHHHHHHH---CCCCCEEEEECCCCCCHHHHHHHHHHHH----------CCCEEEE
T ss_conf             76777097778785571866189943899996---4998605777899988889999998761----------7766995


Q ss_pred             EHHHHHCCCCCCCHHHHHHHHHHHHHHHCCC---CEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEECHH
Q ss_conf             3135421745420245458999999860799---7699963627730266655433588887653124660489974489
Q gi|254780877|r  241 DMGALIAGAKFRGEFEERLKSLLCEIRSEDG---EIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGATTLD  317 (853)
Q Consensus       241 d~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~---~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaTT~~  317 (853)
                      +  +..+|.       ..++.++++.++..+   ..||||||||-+=-   +  .   -..|-|++.+|.|..|||||..
T Consensus        80 s--Av~~gv-------kdlr~i~e~a~~~~~~gr~tiLflDEIHRfnK---~--Q---QD~lLp~vE~G~iilIGATTEN  142 (436)
T COG2256          80 S--AVTSGV-------KDLREIIEEARKNRLLGRRTILFLDEIHRFNK---A--Q---QDALLPHVENGTIILIGATTEN  142 (436)
T ss_pred             C--CCCCCH-------HHHHHHHHHHHHHHHCCCCEEEEEEHHHHCCH---H--H---HHHHHHHHCCCEEEEEECCCCC
T ss_conf             1--523467-------99999999999987258834998722533374---4--5---6551033248868999626789


Q ss_pred             HHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHH-HHHHHHHHC--CCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q ss_conf             99997300111320231111157776789999999-789865414--961015899999863332024576747789999
Q gi|254780877|r  318 EYRKYIEKDPALARRFQSLLVGEPTVTDTISILRG-LKERYEQHH--KVRISDSALVSAAVLSNRYITDRFLPDKAIDLM  394 (853)
Q Consensus       318 Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~g-l~~~yE~~H--~V~i~d~al~~av~ls~rYi~~r~lPDKAIDll  394 (853)
                      -|   |+=.+||-.|-+.-..+.-|.++....|+- +...-..+-  .+.++++|+...|.+|+-=      --+|+.+|
T Consensus       143 Ps---F~ln~ALlSR~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD------~R~aLN~L  213 (436)
T COG2256         143 PS---FELNPALLSRARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGD------ARRALNLL  213 (436)
T ss_pred             CC---EEECHHHHHHHHEEEEECCCHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHCCCH------HHHHHHHH
T ss_conf             87---1403888611041565169989999999999865413777655668889999999862861------99998899


Q ss_pred             HHHH
Q ss_conf             9999
Q gi|254780877|r  395 DEAS  398 (853)
Q Consensus       395 DeA~  398 (853)
                      +.+.
T Consensus       214 E~~~  217 (436)
T COG2256         214 ELAA  217 (436)
T ss_pred             HHHH
T ss_conf             9999


No 40 
>KOG0741 consensus
Probab=99.42  E-value=1.7e-11  Score=112.43  Aligned_cols=195  Identities=27%  Similarity=0.444  Sum_probs=119.0

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEE
Q ss_conf             78864435699872985333335789999999633677786689528874077799999998734899844457437887
Q gi|254780877|r  161 LKKYCRDLTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMAL  240 (853)
Q Consensus       161 L~ky~~DLTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~l  240 (853)
                      |++--.++=.+|..-+.=|-        .+++-|.-++-...+|-|+||.|||-++.-+.... +..-|...-|-.|.  
T Consensus       226 Ld~EFs~IFRRAFAsRvFpp--------~vie~lGi~HVKGiLLyGPPGTGKTLiARqIGkML-NArePKIVNGPeIL--  294 (744)
T KOG0741         226 LDKEFSDIFRRAFASRVFPP--------EVIEQLGIKHVKGILLYGPPGTGKTLIARQIGKML-NAREPKIVNGPEIL--  294 (744)
T ss_pred             CHHHHHHHHHHHHHHHCCCH--------HHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHH-CCCCCCCCCCHHHH--
T ss_conf             11789999999877632998--------89987195112357887799987018999987874-57998634757889--


Q ss_pred             EHHHHHCCCCCCCHHHHHHHHHHHHHHHC-------CCCEEEEECCHHHHCC-CCCCCCC---CC-HHHHHHHHH----C
Q ss_conf             31354217454202454589999998607-------9976999636277302-6665543---35-888876531----2
Q gi|254780877|r  241 DMGALIAGAKFRGEFEERLKSLLCEIRSE-------DGEIILFIDELHVLVG-AGKTDGA---MD-ASNLLKPSL----A  304 (853)
Q Consensus       241 d~~~l~ag~~~rg~~e~r~~~i~~~~~~~-------~~~~ilfide~h~~~g-aG~~~g~---~D-aan~LKP~L----a  304 (853)
                              .||.||=|+-++.+..++++-       .+=-|+.+|||..|-- -|+..|+   -| +-|-|-.-+    +
T Consensus       295 --------~KYVGeSE~NvR~LFaDAEeE~r~~g~~SgLHIIIFDEiDAICKqRGS~~g~TGVhD~VVNQLLsKmDGVeq  366 (744)
T KOG0741         295 --------NKYVGESEENVRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRGSMAGSTGVHDTVVNQLLSKMDGVEQ  366 (744)
T ss_pred             --------HHHHCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHCCCHHH
T ss_conf             --------876063078899998757999984376677259996346799974488789886318999999985322876


Q ss_pred             CCCEEEEEEECHHHHHHHHHCCHHHHH--CCCE-EECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHH
Q ss_conf             466048997448999997300111320--2311-111577767899999997898654149610158999998633320
Q gi|254780877|r  305 RGELHCIGATTLDEYRKYIEKDPALAR--RFQS-LLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRY  380 (853)
Q Consensus       305 rG~l~~IgaTT~~Eyrk~iEkD~Al~R--RFq~-i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rY  380 (853)
                      --.|-+||.|--..   .|  |-||-|  ||+. +.|.=|++.--+.||+-...+++.|.-. =.|=-+...+.|++-|
T Consensus       367 LNNILVIGMTNR~D---lI--DEALLRPGRlEVqmEIsLPDE~gRlQIl~IHT~rMre~~~l-~~dVdl~elA~lTKNf  439 (744)
T KOG0741         367 LNNILVIGMTNRKD---LI--DEALLRPGRLEVQMEISLPDEKGRLQILKIHTKRMRENNKL-SADVDLKELAALTKNF  439 (744)
T ss_pred             HHCEEEEECCCCHH---HH--HHHHCCCCCEEEEEEEECCCCCCCEEEEEHHHHHHHHCCCC-CCCCCHHHHHHHHCCC
T ss_conf             61678994047366---67--88755887169999984688767278887144556651787-7776989999985578


No 41 
>pfam07728 AAA_5 AAA domain (dynein-related subfamily). This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.
Probab=99.41  E-value=1e-12  Score=122.26  Aligned_cols=113  Identities=31%  Similarity=0.510  Sum_probs=86.8

Q ss_pred             EEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCC---CHHCCCCCCCCCCHHHHCCCCCEEEEH
Q ss_conf             98726786168899999998723776530022447740345320130477---112035667742113221564102202
Q gi|254780877|r  601 FMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSP---PGYVGYEEGGALTEAVRRHPYQVVLFD  677 (853)
Q Consensus       601 flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGap---pGYvG~~~gg~Lte~vr~~P~sVil~D  677 (853)
                      .|+.||+|+|||++|+.+|+.+.+  ..+.++.+++.++.   +.|+|..   +|...|.. |.|+.+++. + .|++||
T Consensus         2 vll~Gp~G~GKT~la~~la~~l~~--~~~~~i~~~~~~~~---~dl~G~~~~~~~~~~~~~-g~l~~a~~~-g-~vl~lD   73 (139)
T pfam07728         2 VLLVGPPGTGKSELAERLAAALSN--RPVFYVQLTRDTTE---EDLKGRRNIANGTTSWVD-GPLVRAARE-G-EIAVLD   73 (139)
T ss_pred             EEEECCCCCHHHHHHHHHHHHCCC--CCCHHHCCCCCCCH---HHCCCCEECCCCCEEEEC-CHHHCCCCC-C-CEEEEC
T ss_conf             899989975699999999998079--83111214655652---220573423799357815-514101012-8-689963


Q ss_pred             HHHHCCHHHHHHHHHHHHCCEEECCCC-CEEEC------CCCEEEECCCHH
Q ss_conf             144149899999999840457887999-77830------331559548512
Q gi|254780877|r  678 EIEKAHSDVHNILLQVLDDGRLTDSQG-RTVDF------RNTLIIMTSNLG  721 (853)
Q Consensus       678 EiEKah~~v~~~llqild~G~ltd~~G-~~v~f------~n~iii~TsN~G  721 (853)
                      ||++|||+|++.|+++||+++++-..+ ..+..      .|..||+|+|-+
T Consensus        74 Ein~a~~~v~~~L~~~le~~~~~~~~~~~~~~~~~~~~~~~f~viaT~N~~  124 (139)
T pfam07728        74 EINRANPDVLNSLLSLLDERRLLLPEGGELVKVAPDDFAKRFRLIATMNPL  124 (139)
T ss_pred             CHHHCCHHHHHHHHHHHCCCEEEECCCCEEECCCCCCCCCCEEEEEEECCC
T ss_conf             434489999999999974896983689727336666789996999975896


No 42 
>CHL00181 cbbX CbbX; Provisional
Probab=99.41  E-value=3.9e-11  Score=109.42  Aligned_cols=163  Identities=22%  Similarity=0.305  Sum_probs=107.8

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCH
Q ss_conf             66895288740777999999987348998444574378873135421745420245458999999860799769996362
Q gi|254780877|r  201 NPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDEL  280 (853)
Q Consensus       201 n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~  280 (853)
                      |.++.|+||+|||+++.-+|+-...=.   .|..-.+++.+-+.|+++  |.|+-+.+.+.+++..  ..|  ||||||.
T Consensus        61 h~vF~GnPGTGKTTVARl~a~il~~lG---~L~~g~vve~~r~dLvg~--yvG~Ta~kt~~~i~~a--~GG--VLfIDEA  131 (287)
T CHL00181         61 HMSFTGSPGTGKTTVALKMADILYRLG---YIKKGHLITVTRDDLVGQ--YIGHTAPKTKEVLKKA--MGG--VLFIDEA  131 (287)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCC---CCCCCEEEEECHHHHCCC--CCCCCHHHHHHHHHHC--CCC--EEEEECH
T ss_conf             388878998679999999999999869---955895899535884163--5352169999999964--598--7998244


Q ss_pred             HHHCCCCCCC-CCCCHHHHHHHHHC--CCCEEEEEEECHHHHHHHHHCCHHHHHCCCE-EECCCCCHHHHHHHHHHHHHH
Q ss_conf             7730266655-43358888765312--4660489974489999973001113202311-111577767899999997898
Q gi|254780877|r  281 HVLVGAGKTD-GAMDASNLLKPSLA--RGELHCIGATTLDEYRKYIEKDPALARRFQS-LLVGEPTVTDTISILRGLKER  356 (853)
Q Consensus       281 h~~~gaG~~~-g~~Daan~LKP~La--rG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~-i~V~Eps~~~t~~iL~gl~~~  356 (853)
                      |+|...++.. -+..|-+.|-..+.  |+++-||-|--++|-.++++.+|+|.+||.. +..+.-|.++-..|++.... 
T Consensus       132 Y~L~~~~~~~dfg~eaidtLl~~me~~~~~lvvI~AGY~~eM~~fl~~NpGL~sRf~~~i~F~dYt~~EL~~I~~~~~~-  210 (287)
T CHL00181        132 YYLYKPDNERDYGAEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRVANHVDFPDYTPEELLQIAKMMLE-  210 (287)
T ss_pred             HHHCCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHCCCHHHHCCCEEECCCCCHHHHHHHHHHHHH-
T ss_conf             6535788999837999999999987079988999846789999999859047876887237798599999999999999-


Q ss_pred             HHHHCCCCCCHHHHHHHHHH
Q ss_conf             65414961015899999863
Q gi|254780877|r  357 YEQHHKVRISDSALVSAAVL  376 (853)
Q Consensus       357 yE~~H~V~i~d~al~~av~l  376 (853)
                         .++..++++|.......
T Consensus       211 ---~~~~~l~~~a~~~l~~~  227 (287)
T CHL00181        211 ---EQQYQLTPEAEKVLLDY  227 (287)
T ss_pred             ---HCCCCCCHHHHHHHHHH
T ss_conf             ---86982587999999999


No 43 
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=99.39  E-value=1.9e-11  Score=111.96  Aligned_cols=229  Identities=19%  Similarity=0.303  Sum_probs=163.7

Q ss_pred             HHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCH
Q ss_conf             77674594899999999998741012365665128987267861688999999987237765300224477403453201
Q gi|254780877|r  566 ISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSR  645 (853)
Q Consensus       566 l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~  645 (853)
                      .+..+||+..++..+...+++.    ...+.|+   |+.|-+|+||+.+|+++-..=.-....|+.+||+.+.+..--+.
T Consensus         4 ~~~~liG~S~~m~~v~~~~~~~----A~~~~pV---LI~GE~GtGK~~~Ar~IH~~S~r~~~pfi~v~C~~l~~~~~e~~   76 (325)
T PRK11608          4 YKDNLLGEANSFLEVLEQVSHL----APLDKPV---LIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENLLDSE   76 (325)
T ss_pred             CCCCCEECCHHHHHHHHHHHHH----HCCCCCE---EEECCCCCCHHHHHHHHHHCCCCCCCCCEEEECCCCCHHHHHHH
T ss_conf             7899858999999999999999----6889998---98898983799999999965886799977887798997788998


Q ss_pred             HHCCCCH-HCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHH
Q ss_conf             3047711-203566774211322156410220214414989999999984045788799977830331559548512687
Q gi|254780877|r  646 LIGSPPG-YVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEY  724 (853)
Q Consensus       646 LiGappG-YvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~  724 (853)
                      |+|..+| +.|....  ....+.+--.+.++||||+...++++.-||+++++|.+.--.|..--..|+=||+|||.-   
T Consensus        77 LFG~~~g~~~~~~~~--~~g~le~a~gGTL~L~eI~~l~~~~Q~~Ll~~l~~~~~~r~g~~~~~~~~~RiIa~t~~~---  151 (325)
T PRK11608         77 LFGHEAGAFTGAQKR--HPGRFERADGGTLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNAD---  151 (325)
T ss_pred             HCCCCCCCCCCCCCC--CCCHHHCCCCCEEEEECHHHCCHHHHHHHHHHHHCCCEEECCCCCCCCCCEEEEECCCHH---
T ss_conf             727755676775324--687343568986997374547999999999998649088579987665646887133220---


Q ss_pred             HHCCHHHHHHHHHHHHHHHCCHHHHCCCCC-EEECCCCCH--HHHHHHHHHHHHHHHHHHHHCCCEE--EECHHHHHHHH
Q ss_conf             640326799999999986288577266681-586288998--9999999999999999998579899--99889999999
Q gi|254780877|r  725 LIEDGDSVHDKVMGIVRSAFKPEFLNRLDE-IILFEKLRK--EDMAKIVRIQLGRVLSLIKERNISM--DFDDQVIDWLS  799 (853)
Q Consensus       725 ~~~~~~~~~~~~~~~l~~~f~peflnRid~-iv~F~~l~~--~~~~~i~~~~l~~l~~~l~~~~i~l--~~~~~~~~~l~  799 (853)
                                .....-...|+++|+.|+.. .|..-||.+  +|+..+++.++.++.+++   +..+  .+++++.+.|.
T Consensus       152 ----------l~~lv~~g~fr~dLy~rL~~~~I~lPpLReR~eDI~~L~~~fl~~~~~~~---~~~~~~~~s~~a~~~L~  218 (325)
T PRK11608        152 ----------LPAMVNEGTFRADLLDRLAFDVVQLPPLRERQSDIMLMAEHFAIQMCREL---GLPLFPGFTERARETLL  218 (325)
T ss_pred             ----------HHHHHHHCCCHHHHHHHHHHHHCCCCCHHHCCCCHHHHHHHHHHHHHHHC---CCCCCCCCCHHHHHHHH
T ss_conf             ----------89999839567999856530111586845471019999999999999982---99988888999999996


Q ss_pred             HCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             7089822062157999998733
Q gi|254780877|r  800 CRGYDPSYGARPLKRVIQRYIQ  821 (853)
Q Consensus       800 ~~~~~~~~GaR~l~r~i~~~i~  821 (853)
                      .  |+=--..|.|+++|++.+.
T Consensus       219 ~--y~WPGNvrEL~n~ierav~  238 (325)
T PRK11608        219 N--YRWPGNIRELKNVVERSVY  238 (325)
T ss_pred             C--CCCCCHHHHHHHHHHHHHH
T ss_conf             1--9999659999999999998


No 44 
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=99.39  E-value=5.3e-12  Score=116.50  Aligned_cols=198  Identities=26%  Similarity=0.413  Sum_probs=124.2

Q ss_pred             HHHHCCHHHHHHHHHHHHHHH--------HCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHC
Q ss_conf             767459489999999999874--------101236566512898726786168899999998723776530022447740
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRF--------RAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYM  638 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~--------~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~  638 (853)
                      -.-|-|.+++++.+-.+|...        +.|+..|   - -.||.||+|+|||.+||++|..+   .-++++++.|++.
T Consensus       131 ~~dIGGl~~~k~el~E~velPl~~pe~f~~~Gi~pP---k-GvLLyGPPGtGKTllAkAvA~e~---~~~fi~v~~s~l~  203 (390)
T PRK03992        131 YEDIGGLDEQIREVREAVELPLKNPELFEEVGIEPP---K-GVLLYGPPGTGKTLLAKAVAHET---NATFIRVVGSELV  203 (390)
T ss_pred             HHHHCCHHHHHHHHHHHHHHHHHCHHHHHHCCCCCC---C-EEEEECCCCCCHHHHHHHHHHHH---CCCEEEEEHHHHH
T ss_conf             466149899999999999998659899997699999---7-27868989997899999999874---8887996679975


Q ss_pred             CCCCCCHHHCCCCHHCCCCCC--CCCCHHHH-CCCCCEEEEHHHHH-----------CCHHHHHHHHHHHHC--CEEECC
Q ss_conf             345320130477112035667--74211322-15641022021441-----------498999999998404--578879
Q gi|254780877|r  639 EKHSVSRLIGSPPGYVGYEEG--GALTEAVR-RHPYQVVLFDEIEK-----------AHSDVHNILLQVLDD--GRLTDS  702 (853)
Q Consensus       639 e~~~vs~LiGappGYvG~~~g--g~Lte~vr-~~P~sVil~DEiEK-----------ah~~v~~~llqild~--G~ltd~  702 (853)
                      .     +       |+|-.+.  -.+-+.-| ..| |||+||||+-           ++.+|...++|+|.+  |.  ++
T Consensus       204 s-----k-------~vGesek~vr~lF~~Ar~~aP-~IiFiDEiDai~~~R~~~~~~g~~ev~r~l~qLL~emDG~--~~  268 (390)
T PRK03992        204 Q-----K-------FIGEGARLVRELFELAREKAP-SIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGF--DP  268 (390)
T ss_pred             H-----C-------CCCHHHHHHHHHHHHHHHHCC-CEEEHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHCCCC--CC
T ss_conf             2-----4-------541799999999999997099-0897143256633567788862088999999999974487--77


Q ss_pred             CCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHH--CCCCCEEECCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             99778303315595485126876403267999999999862885772--6668158628899899999999999999999
Q gi|254780877|r  703 QGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFL--NRLDEIILFEKLRKEDMAKIVRIQLGRVLSL  780 (853)
Q Consensus       703 ~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~pefl--nRid~iv~F~~l~~~~~~~i~~~~l~~l~~~  780 (853)
                            -.|.+||++||-        .+.            .-|.|+  +|+|..|.|.+-+.+....|++.++..    
T Consensus       269 ------~~~V~VIaATNr--------pd~------------LDpAllRpGRFDr~I~iplPd~~~R~~Ilki~~~~----  318 (390)
T PRK03992        269 ------RGNVKIIAATNR--------PDI------------LDPALLRPGRFDRIIEVPLPDEEGRLEILKIHTRK----  318 (390)
T ss_pred             ------CCCEEEEEECCC--------CHH------------CCHHHHCCCCCCEEEEECCCCHHHHHHHHHHHHCC----
T ss_conf             ------788279960698--------100------------59777547765238870894999999999998479----


Q ss_pred             HHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf             98579899998899999997089822062157999998733499
Q gi|254780877|r  781 IKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQRYIQNPL  824 (853)
Q Consensus       781 l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~~~l  824 (853)
                           +.+. ++--++.|++.  ...|-+..|+.+.+.--..++
T Consensus       319 -----~~l~-~dvdl~~lA~~--T~G~SGADI~~lc~EA~m~Ai  354 (390)
T PRK03992        319 -----MNLA-DDVDLEELAEL--TEGASGADLKAICTEAGMFAI  354 (390)
T ss_pred             -----CCCC-CCCCHHHHHHH--CCCCCHHHHHHHHHHHHHHHH
T ss_conf             -----9999-88899999976--879989999999999999999


No 45 
>CHL00195 ycf46 Ycf46; Provisional
Probab=99.39  E-value=7e-10  Score=99.28  Aligned_cols=139  Identities=22%  Similarity=0.331  Sum_probs=101.7

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCH
Q ss_conf             66895288740777999999987348998444574378873135421745420245458999999860799769996362
Q gi|254780877|r  201 NPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDEL  280 (853)
Q Consensus       201 n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~  280 (853)
                      .++|+|+||+|||-++..+|..          -+.-++.+|++.+++  +|.|+-|.+++.++..++.. .++|||||||
T Consensus       261 GvLL~GpPG~GKtl~AKAvA~e----------~~~p~l~l~~~~l~~--~~vGesE~~~r~~f~~A~~~-aP~ilfiDEi  327 (491)
T CHL00195        261 GLLLVGIQGTGKSLTAKAIANE----------WNLPLLRLDVGKLFG--GIVGESESRMRQMIQLAETI-SPCILWIDEI  327 (491)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH----------HCCCEEEEEHHHHHH--HHCCHHHHHHHHHHHHHHHH-CCEEEEEEHH
T ss_conf             7999799998789999999866----------389469966799756--00670499999999999861-9858997465


Q ss_pred             HHHCCCCCCC--CCCC---HHHHHHHHHC-CCCEEEEEEECHHHHHHHHHCCHHHHH--CCCE-EECCCCCHHHHHHHHH
Q ss_conf             7730266655--4335---8888765312-466048997448999997300111320--2311-1115777678999999
Q gi|254780877|r  281 HVLVGAGKTD--GAMD---ASNLLKPSLA-RGELHCIGATTLDEYRKYIEKDPALAR--RFQS-LLVGEPTVTDTISILR  351 (853)
Q Consensus       281 h~~~gaG~~~--g~~D---aan~LKP~La-rG~l~~IgaTT~~Eyrk~iEkD~Al~R--RFq~-i~V~Eps~~~t~~iL~  351 (853)
                      -..++.+++.  ++..   .+.+|. .|. +..--+|-|||..    --.=|+||.|  ||.. +.|.-|+.++-.+|++
T Consensus       328 dk~~~~~~~~~d~g~s~rv~~~~Lt-~m~e~~~~VfViattN~----~~~L~pellR~GRFD~~~~v~lP~~~~R~~I~~  402 (491)
T CHL00195        328 DKAFSGLDSKGDSGTSNRVLATFIT-WLSEKKSPVFVVATANN----IDSLPLELLRKGRFDEIFFLDLPNLEERELIFK  402 (491)
T ss_pred             HHHCCCCCCCCCCCHHHHHHHHHHH-HHCCCCCCEEEEEECCC----CCCCCHHHCCCCCCCEEEECCCCCHHHHHHHHH
T ss_conf             4542588888887232899999999-86468997699995899----755898770898777047648959899999999


Q ss_pred             HHHHHH
Q ss_conf             978986
Q gi|254780877|r  352 GLKERY  357 (853)
Q Consensus       352 gl~~~y  357 (853)
                      -...++
T Consensus       403 ihl~~~  408 (491)
T CHL00195        403 IHLKRF  408 (491)
T ss_pred             HHHHCC
T ss_conf             998544


No 46 
>CHL00181 cbbX CbbX; Provisional
Probab=99.38  E-value=1.4e-10  Score=104.94  Aligned_cols=230  Identities=21%  Similarity=0.352  Sum_probs=145.6

Q ss_pred             CCHHHHHHHHHHHHHHCCHHHHHHHHHH---H----HHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCC
Q ss_conf             0000012355477674594899999999---9----98741012365665128987267861688999999987237765
Q gi|254780877|r  555 DREKFLRIETEISKSVIGQSAAVESVSN---A----LRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDEN  627 (853)
Q Consensus       555 E~ekLl~l~~~l~~~v~gq~~ai~~v~~---~----~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~  627 (853)
                      +..++..+-+.|.+.+||-+...+.|-.   .    ..|...|+..+... --++|+||+|+|||..|+.+|+.|+.-  
T Consensus        10 ~~~~lee~L~eLd~eliGL~~VK~~v~~l~~~~~~~~~R~~~Gl~~~~~s-~h~vF~GnPGTGKTTVARl~a~il~~l--   86 (287)
T CHL00181         10 NKTQIQEVLDELDEELIGLVPVKTRIREIAALLLVDRLRKNLGLVSSSPG-LHMSFTGSPGTGKTTVALKMADILYRL--   86 (287)
T ss_pred             HHCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCC-CEEEEECCCCCCHHHHHHHHHHHHHHC--
T ss_conf             45349999999988646969999999999999999999998799988876-538887899867999999999999986--


Q ss_pred             CCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCC-HHHHCCCCCEEEEHHHHH---------CCHHHHHHHHHHHHCC
Q ss_conf             300224477403453201304771120356677421-132215641022021441---------4989999999984045
Q gi|254780877|r  628 SMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALT-EAVRRHPYQVVLFDEIEK---------AHSDVHNILLQVLDDG  697 (853)
Q Consensus       628 ~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lt-e~vr~~P~sVil~DEiEK---------ah~~v~~~llqild~G  697 (853)
                      .++.  =..+.| -+-+.|+|   +|||...  .-| +.+.+.--+|+++||---         ...++++.|++.+++.
T Consensus        87 G~L~--~g~vve-~~r~dLvg---~yvG~Ta--~kt~~~i~~a~GGVLfIDEAY~L~~~~~~~dfg~eaidtLl~~me~~  158 (287)
T CHL00181         87 GYIK--KGHLIT-VTRDDLVG---QYIGHTA--PKTKEVLKKAMGGVLFIDEAYYLYKPDNERDYGAEAIEILLQVMENQ  158 (287)
T ss_pred             CCCC--CCEEEE-ECHHHHCC---CCCCCCH--HHHHHHHHHCCCCEEEEECHHHHCCCCCCCCCHHHHHHHHHHHHHHC
T ss_conf             9955--895899-53588416---3535216--99999999645987998244653578899983799999999998707


Q ss_pred             EEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHH
Q ss_conf             78879997783033155954851268764032679999999998628857726668158628899899999999999999
Q gi|254780877|r  698 RLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRV  777 (853)
Q Consensus       698 ~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l  777 (853)
                      +     +      +.++|+.-         ..+.     |+.... ..|-|-.|+...+.|..++.+++.+|+..++.  
T Consensus       159 ~-----~------~lvvI~AG---------Y~~e-----M~~fl~-~NpGL~sRf~~~i~F~dYt~~EL~~I~~~~~~--  210 (287)
T CHL00181        159 R-----D------DLVVIFAG---------YKDR-----MDKFYE-SNPGLSSRVANHVDFPDYTPEELLQIAKMMLE--  210 (287)
T ss_pred             C-----C------CEEEEEEC---------CHHH-----HHHHHH-HCCCHHHHCCCEEECCCCCHHHHHHHHHHHHH--
T ss_conf             9-----9------88999846---------7899-----999998-59047876887237798599999999999999--


Q ss_pred             HHHHHHCCCEEEECHHH----HHHHHHCCCCCCCC-CHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             99998579899998899----99999708982206-2157999998733499999970
Q gi|254780877|r  778 LSLIKERNISMDFDDQV----IDWLSCRGYDPSYG-ARPLKRVIQRYIQNPLAERVLS  830 (853)
Q Consensus       778 ~~~l~~~~i~l~~~~~~----~~~l~~~~~~~~~G-aR~l~r~i~~~i~~~la~~il~  830 (853)
                           .+++.  +++++    .+++....-.+.|| ||.+++.+++.+...-.+....
T Consensus       211 -----~~~~~--l~~~a~~~l~~~~~~~~~~~~FGNaR~vrnl~e~a~~~qa~Rl~~~  261 (287)
T CHL00181        211 -----EQQYQ--LTPEAEKVLLDYIKRRMEQPLFANARSVRNAIDRARMRQANRIFAS  261 (287)
T ss_pred             -----HCCCC--CCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             -----86982--5879999999999985089998748999999999999999886567


No 47 
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=99.37  E-value=5.2e-11  Score=108.42  Aligned_cols=218  Identities=22%  Similarity=0.312  Sum_probs=162.1

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHH
Q ss_conf             67459489999999999874101236566512898726786168899999998723776530022447740345320130
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLI  647 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~Li  647 (853)
                      ..+|||..++..+-+.|.+.    .+.+-|+   |..|-|||||..+|+++-..=--.+..||.+||+-..+.-.-|.|+
T Consensus       186 ~elIG~S~~m~~l~~~i~~v----A~sd~pV---LI~GEtGTGKelvAr~IH~~S~R~~~Pfv~vNCaalpe~l~EseLF  258 (510)
T PRK05022        186 GEMIGQSPAMQQLKKEIEVV----AASDLNV---LITGETGVGKELVARAIHQASPRAVKPLVYLNCAALPESLAESELF  258 (510)
T ss_pred             CCEEECCHHHHHHHHHHHHH----HCCCCCE---EEECCCCCCHHHHHHHHHHCCCCCCCCCEEEECCCCCHHHHHHHHC
T ss_conf             97520899999999999999----6899988---9889898139999999996688789985788899998567899865


Q ss_pred             CCCCHHCCCCCCCCCCHHHHCCC-------CCEEEEHHHHHCCHHHHHHHHHHHHCCEEEC---CCCCEEECCCCEEEEC
Q ss_conf             47711203566774211322156-------4102202144149899999999840457887---9997783033155954
Q gi|254780877|r  648 GSPPGYVGYEEGGALTEAVRRHP-------YQVVLFDEIEKAHSDVHNILLQVLDDGRLTD---SQGRTVDFRNTLIIMT  717 (853)
Q Consensus       648 GappGYvG~~~gg~Lte~vr~~P-------~sVil~DEiEKah~~v~~~llqild~G~ltd---~~G~~v~f~n~iii~T  717 (853)
                      |--.        |..|.++..+|       .+.++||||+...++++.-||.+|++|.+.-   ..-+.+|+|   ||.+
T Consensus       259 Gh~k--------GaFtGA~~~r~G~fe~A~gGTLfLDEI~~Lpl~~Q~KLLrvLq~g~iqrvG~~~~~~vdvR---IIAA  327 (510)
T PRK05022        259 GHVK--------GAFTGAISNRSGKFELADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVR---VIAA  327 (510)
T ss_pred             CCCC--------CCCCCCCCCCCCCEEECCCCEEEEECHHHCCHHHHHHHHHHHHCCEEEECCCCCEEEEEEE---EEEE
T ss_conf             9777--------8868865567881017789879875745499999999999984795885589946666689---9960


Q ss_pred             CCHHHHHHHCCHHHHHHHHHHH-HHHHCCHHHHCCCCCE-EECCCCCH--HHHHHHHHHHHHHHHHHHHHCCCEEEECHH
Q ss_conf             8512687640326799999999-9862885772666815-86288998--999999999999999999857989999889
Q gi|254780877|r  718 SNLGAEYLIEDGDSVHDKVMGI-VRSAFKPEFLNRLDEI-ILFEKLRK--EDMAKIVRIQLGRVLSLIKERNISMDFDDQ  793 (853)
Q Consensus       718 sN~G~~~~~~~~~~~~~~~~~~-l~~~f~peflnRid~i-v~F~~l~~--~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~  793 (853)
                      ||-              ...+. -.+.|+.+|..|+..+ |..-||-+  +|+.-++..++++...++....  +.++++
T Consensus       328 Tnr--------------dL~~~V~~G~FR~DLYyRLsv~~I~vPPLRER~eDI~lLa~~FLe~~~~~~g~~~--~~ls~e  391 (510)
T PRK05022        328 TNR--------------DLREEVLAGRFRADLYHRLSVFPLPVPPLRERGDDVLLLAGYFLEQNRLRLGLSS--LRLSPD  391 (510)
T ss_pred             CCC--------------CHHHHHHCCCHHHHHHHHHHCCCCCCCCHHHCHHHHHHHHHHHHHHHHHHCCCCC--CCCCHH
T ss_conf             783--------------5999988396389999876204034808655554099999999999999829898--988899


Q ss_pred             HHHHHHHCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             9999997089822062157999998733
Q gi|254780877|r  794 VIDWLSCRGYDPSYGARPLKRVIQRYIQ  821 (853)
Q Consensus       794 ~~~~l~~~~~~~~~GaR~l~r~i~~~i~  821 (853)
                      +.+.|..  |+=--..|.|+.+|++.+.
T Consensus       392 Al~~L~~--Y~WPGNVRELenvIeRA~l  417 (510)
T PRK05022        392 AQAALLQ--YDWPGNVRELEHVISRAAL  417 (510)
T ss_pred             HHHHHHC--CCCCCHHHHHHHHHHHHHH
T ss_conf             9999970--9999789999999999999


No 48 
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=99.36  E-value=8.3e-11  Score=106.78  Aligned_cols=223  Identities=19%  Similarity=0.264  Sum_probs=163.5

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHH
Q ss_conf             67459489999999999874101236566512898726786168899999998723776530022447740345320130
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLI  647 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~Li  647 (853)
                      ..++|++.++..+....+++-    ..+-|   .|..|.||+||+.+|+++-..=--....++.+||+-..+..--+.|+
T Consensus       325 ~~l~g~s~~~~~~~~~a~~~a----~~~~p---VLI~GE~GtGKe~lAraIH~~S~r~~~pfv~vnC~ai~~~~~e~elf  397 (639)
T PRK11388        325 DHMPQDSPQMRRLIHFGRQAA----KSSFP---ILLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLLPDEALAEEFL  397 (639)
T ss_pred             HHCCCCCHHHHHHHHHHHHHH----CCCCC---EEEECCCCCCHHHHHHHHHHCCCCCCCCEEEEECCCCCHHHHHHHHC
T ss_conf             544679999999999999996----88996---89889898109999999995577789981898789898467899873


Q ss_pred             CCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHC
Q ss_conf             47711203566774211322156410220214414989999999984045788799977830331559548512687640
Q gi|254780877|r  648 GSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIE  727 (853)
Q Consensus       648 GappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~  727 (853)
                      |.-+|   ...+|.+ .++..-..+.++||||+--.++++.-||++|++|.++-..|.+.---++-||.+||.       
T Consensus       398 G~~~~---~~~~g~~-g~~e~A~gGTL~LdeI~~lp~~~Q~~LlrvL~~~~~~r~g~~~~~~vdvRiiaat~~-------  466 (639)
T PRK11388        398 GSDRT---DSENGRL-SKFELAHGGTLFLEKVEYLSVELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTA-------  466 (639)
T ss_pred             CCCCC---CCCCCCC-CHHHCCCCCEEEECCHHHCCHHHHHHHHHHHHCCCEEECCCCCEEEEEEEEEEECCH-------
T ss_conf             87767---6434668-624403698288467264999999999999865937856999466642799973645-------


Q ss_pred             CHHHHHHHHHHHH-HHHCCHHHHCCCCC-EEECCCCCH--HHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCC
Q ss_conf             3267999999999-86288577266681-586288998--9999999999999999998579899998899999997089
Q gi|254780877|r  728 DGDSVHDKVMGIV-RSAFKPEFLNRLDE-IILFEKLRK--EDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGY  803 (853)
Q Consensus       728 ~~~~~~~~~~~~l-~~~f~peflnRid~-iv~F~~l~~--~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~  803 (853)
                             ...+.+ .+.|+.+|+-|+.. .|..-||-+  +|+..++...+.++..+.   +..+.+++++...|..  |
T Consensus       467 -------~l~~~v~~g~fr~dLyyrl~~~~i~lPpLReR~~Di~~L~~~~l~~~~~~~---~~~~~ls~~a~~~L~~--y  534 (639)
T PRK11388        467 -------DLAMLVEQNRFSRQLYYALHAFEITIPPLRMRREDIPALVNNKLRSLEKRF---STRLKIDDDALARLVS--Y  534 (639)
T ss_pred             -------HHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHCHHHHHHHHHHHHHHHHHHC---CCCCCCCHHHHHHHHC--C
T ss_conf             -------089998749854999987674410573323253439999999999999971---9999989999999972--8


Q ss_pred             CCCCCCHHHHHHHHHHH
Q ss_conf             82206215799999873
Q gi|254780877|r  804 DPSYGARPLKRVIQRYI  820 (853)
Q Consensus       804 ~~~~GaR~l~r~i~~~i  820 (853)
                      +=--.-|.|+.++++.+
T Consensus       535 ~WPGNvrEL~nvl~~a~  551 (639)
T PRK11388        535 RWPGNDFELRSVIENLA  551 (639)
T ss_pred             CCCCHHHHHHHHHHHHH
T ss_conf             99979999999999999


No 49 
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=99.35  E-value=1.2e-11  Score=113.54  Aligned_cols=205  Identities=29%  Similarity=0.433  Sum_probs=128.4

Q ss_pred             HHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCC
Q ss_conf             12355477674594899999999998741012365665128987267861688999999987237765300224477403
Q gi|254780877|r  560 LRIETEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYME  639 (853)
Q Consensus       560 l~l~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e  639 (853)
                      ..+...+.+.++|+++++..+..++...        +|   .||.||+|||||.+|+++|+.+.   ..+.|+.+.....
T Consensus        16 ~~~~~~~~~~~~g~~~~~~~~l~a~~~~--------~~---vll~G~PG~gKT~la~~lA~~l~---~~~~~i~~t~~l~   81 (329)
T COG0714          16 GKIRSELEKVVVGDEEVIELALLALLAG--------GH---VLLEGPPGVGKTLLARALARALG---LPFVRIQCTPDLL   81 (329)
T ss_pred             HHHHHHCCCCCCCCHHHHHHHHHHHHCC--------CC---EEEECCCCCCHHHHHHHHHHHHC---CCCEEEECCCCCC
T ss_conf             6666522565526699999999999859--------97---78779898777999999999838---9818995689988


Q ss_pred             CCCCCHHHCCC--------CHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCC
Q ss_conf             45320130477--------1120356677421132215641022021441498999999998404578879997783033
Q gi|254780877|r  640 KHSVSRLIGSP--------PGYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRN  711 (853)
Q Consensus       640 ~~~vs~LiGap--------pGYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n  711 (853)
                      +..   ++|..        +++-=|-. |-|+.+++    +|+|+|||.+|.|++.+.||++|++++.|...-..+.+..
T Consensus        82 p~d---~~G~~~~~~~~~~~~~~~~~~-gpl~~~~~----~ill~DEInra~p~~q~aLl~~l~e~~vt~~~~~~~~~~~  153 (329)
T COG0714          82 PSD---LLGTYAYAALLLEPGEFRFVP-GPLFAAVR----VILLLDEINRAPPEVQNALLEALEERQVTVPGLTTIRLPP  153 (329)
T ss_pred             HHH---HCCHHHHHHHHCCCCEEEEEC-CCCCCCCC----EEEEEECCCCCCHHHHHHHHHHHHHCEEEECCCCCCCCCC
T ss_conf             888---205688876642577189846-87334513----3899870345898899999999972689707966533799


Q ss_pred             -CEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHH---------H----
Q ss_conf             -15595485126876403267999999999862885772666815862889989999999999999---------9----
Q gi|254780877|r  712 -TLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGR---------V----  777 (853)
Q Consensus       712 -~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~---------l----  777 (853)
                       .++|.|+|=+-.               +-....+..+++|+.-.+.+..........++......         +    
T Consensus       154 ~f~viaT~Np~e~---------------~g~~~l~eA~ldRf~~~~~v~yp~~~~e~~~i~~~~~~~~~~~~~~~v~~~~  218 (329)
T COG0714         154 PFIVIATQNPGEY---------------EGTYPLPEALLDRFLLRIYVDYPDSEEEERIILARVGGVDELDLESLVKPVL  218 (329)
T ss_pred             CCEEEEECCCCCC---------------CCCCCCCHHHHCCCEEEEECCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHC
T ss_conf             8789982686765---------------7887899888810388776489973889999987365644320234466542


Q ss_pred             --HHHHH-HCCC-EEEECHHHHHHHHHC
Q ss_conf             --99998-5798-999988999999970
Q gi|254780877|r  778 --LSLIK-ERNI-SMDFDDQVIDWLSCR  801 (853)
Q Consensus       778 --~~~l~-~~~i-~l~~~~~~~~~l~~~  801 (853)
                        ...++ ...+ ...+++++.+|+..-
T Consensus       219 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l  246 (329)
T COG0714         219 SDEELLRLQKEVKKVPVSDEVIDYIVTL  246 (329)
T ss_pred             CHHHHHHHHHHHCCCCCHHHHHHHHHHH
T ss_conf             8799998766524887619999999999


No 50 
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=99.35  E-value=4.4e-10  Score=100.91  Aligned_cols=141  Identities=28%  Similarity=0.422  Sum_probs=107.5

Q ss_pred             CCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEE
Q ss_conf             77786689528874077799999998734899844457437887313542174542024545899999986079976999
Q gi|254780877|r  197 RTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILF  276 (853)
Q Consensus       197 ~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilf  276 (853)
                      +--..++|.|+||+|||.++..+|..          .+..++.++.+.++  .+|-||-|..++.+++.+... .+.|+|
T Consensus       164 ~pPkGvLLyGPPGtGKTllAkAvA~e----------~~~~fi~v~~s~l~--sk~vGesek~vr~lF~~Ar~~-aP~IiF  230 (390)
T PRK03992        164 EPPKGVLLYGPPGTGKTLLAKAVAHE----------TNATFIRVVGSELV--QKFIGEGARLVRELFELAREK-APSIIF  230 (390)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHH----------HCCCEEEEEHHHHH--HCCCCHHHHHHHHHHHHHHHH-CCCEEE
T ss_conf             99972786898999789999999987----------48887996679975--245417999999999999970-990897


Q ss_pred             ECCHHHHCCCCCCCC-CCC--HHHHHHHHH-------CCCCEEEEEEECHHHHHHHHHCCHHHHH--CCC-EEECCCCCH
Q ss_conf             636277302666554-335--888876531-------2466048997448999997300111320--231-111157776
Q gi|254780877|r  277 IDELHVLVGAGKTDG-AMD--ASNLLKPSL-------ARGELHCIGATTLDEYRKYIEKDPALAR--RFQ-SLLVGEPTV  343 (853)
Q Consensus       277 ide~h~~~gaG~~~g-~~D--aan~LKP~L-------arG~l~~IgaTT~~Eyrk~iEkD~Al~R--RFq-~i~V~Eps~  343 (853)
                      |||+..|.+.-...| +.|  +..++-..|       .++.+.+||||---+     .=|+||-|  ||+ .|.|.-|+.
T Consensus       231 iDEiDai~~~R~~~~~~g~~ev~r~l~qLL~emDG~~~~~~V~VIaATNrpd-----~LDpAllRpGRFDr~I~iplPd~  305 (390)
T PRK03992        231 IDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRPD-----ILDPALLRPGRFDRIIEVPLPDE  305 (390)
T ss_pred             HHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCEEEEEECCCCH-----HCCHHHHCCCCCCEEEEECCCCH
T ss_conf             1432566335677888620889999999999744877778827996069810-----05977754776523887089499


Q ss_pred             HHHHHHHHHHHH
Q ss_conf             789999999789
Q gi|254780877|r  344 TDTISILRGLKE  355 (853)
Q Consensus       344 ~~t~~iL~gl~~  355 (853)
                      ++-..||+-...
T Consensus       306 ~~R~~Ilki~~~  317 (390)
T PRK03992        306 EGRLEILKIHTR  317 (390)
T ss_pred             HHHHHHHHHHHC
T ss_conf             999999999847


No 51 
>PRK06674 DNA polymerase III subunits gamma and tau; Validated
Probab=99.33  E-value=8.7e-11  Score=106.63  Aligned_cols=203  Identities=23%  Similarity=0.324  Sum_probs=143.0

Q ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCE-EEECCCCCCHHHHHHHHHHHHHCCCCCH------------HHCC
Q ss_conf             56998729853333357899999996336777866-8952887407779999999873489984------------4457
Q gi|254780877|r  168 LTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNP-VLIGDPGVGKTAIIEGLASRIINGDIPE------------SLKG  234 (853)
Q Consensus       168 LTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~-~lvGe~GvGKtaive~la~~i~~~~vp~------------~l~~  234 (853)
                      |-.+-|--.++-|||-+.-++.+...+...+=.+. ++.|++|||||+++--+|+-+.-..-|.            ...+
T Consensus         6 LyrkyRP~~F~dvvGQ~~v~~~L~nai~~~ri~HAyLF~GprGtGKts~Ari~AkaLnC~~~~~~~pC~~C~~C~~i~~g   85 (563)
T PRK06674          6 LYRVFRPQKFEDVVGQEHVTKTLQNALLQEKVSHAYLFSGPRGTGKTSIAKVFAKAVNCEHAPVAEPCNECPSCLGITNG   85 (563)
T ss_pred             HHHHHCCCCHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCC
T ss_conf             88763899765524809999999999984996503431289986899999999998579999998877668789998558


Q ss_pred             --CEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCC---CCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC--CC
Q ss_conf             --437887313542174542024545899999986079---97699963627730266655433588887653124--66
Q gi|254780877|r  235 --KRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSED---GEIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR--GE  307 (853)
Q Consensus       235 --~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~---~~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar--G~  307 (853)
                        .-++++|.++-      +|=  +.++.|.+.+.-++   .--|..|||.|++        +.+|+|-|--.|..  ..
T Consensus        86 ~~~DviEiDaasn------~gV--d~IR~i~~~v~~~P~~~~yKV~IIDeah~L--------t~~A~NALLKtLEEPP~~  149 (563)
T PRK06674         86 SISDVLEIDAASN------NGV--DEIRDIRDKVKFAPSAVEYKVYIIDEVHML--------SIGAFNALLKTLEEPPGH  149 (563)
T ss_pred             CCCCEEEECCCCC------CCH--HHHHHHHHHHCCCCCCCCEEEEEEECHHHC--------CHHHHHHHHHHHHCCCCC
T ss_conf             9987798525555------787--999999998264886787379998545637--------999999999986388756


Q ss_pred             EEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCH
Q ss_conf             04899744899999730011132023111115777678999999978986541496101589999986333202457674
Q gi|254780877|r  308 LHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLP  387 (853)
Q Consensus       308 l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lP  387 (853)
                      ..+|-+||.-+  |..   +.+-.|-|+....--+.++...-|+.+...    -++.|+++||...++.|+-=+.|    
T Consensus       150 viFILaTtep~--ki~---~TI~SRCQrf~F~ri~~~~i~~rL~~I~~~----E~i~~~~~aL~~Ia~~a~GsmRD----  216 (563)
T PRK06674        150 VIFILATTEPH--KIP---PTIISRCQRFDFRRISVNDIVERLSTVVTN----EGTQVEDEALQIIARAADGGMRD----  216 (563)
T ss_pred             EEEEEECCCHH--HCC---HHHHHHHEEEECCCCCHHHHHHHHHHHHHH----CCCCCCHHHHHHHHHHCCCCHHH----
T ss_conf             49999659947--584---788733103127889999999999999998----49998788999999976997889----


Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             77899999999987
Q gi|254780877|r  388 DKAIDLMDEASARV  401 (853)
Q Consensus       388 DKAIDllDeA~A~~  401 (853)
                        |+.+||.+-|.-
T Consensus       217 --AlsiLdQ~~s~~  228 (563)
T PRK06674        217 --ALSLLDQAISFS  228 (563)
T ss_pred             --HHHHHHHHHHHC
T ss_conf             --999999999715


No 52 
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=99.32  E-value=1.5e-11  Score=112.74  Aligned_cols=197  Identities=22%  Similarity=0.289  Sum_probs=138.5

Q ss_pred             HHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCC
Q ss_conf             69987298533333578999999963367778668952887407779999999873489984445743788731354217
Q gi|254780877|r  169 TEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAG  248 (853)
Q Consensus       169 Te~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag  248 (853)
                      +++.|=.++|-++|-++-++.+...+...+-.|.++-|+||+|||+++..||..+.....     ...+++++.+.    
T Consensus         7 ~eKYRP~~l~di~g~~~~~~~L~~~i~~~~~phlLf~GppG~GKTt~a~~la~~l~~~~~-----~~~~lelnasd----   77 (318)
T PRK00440          7 VEKYRPRSLDEVVGQEEIVERLKSFVKEKNMPHLLFAGPPGTGKTTAALALARELYGEYW-----RENFLELNASD----   77 (318)
T ss_pred             HHCCCCCCHHHHCCCHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCC-----CCCEEEECCCC----
T ss_conf             460198989994196999999999998799866988895998899999999999769864-----34768951645----


Q ss_pred             CCCCC--HHHHHHHHHHHHHHHCC-CCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC--CCEEEEEEECHHHHHHHH
Q ss_conf             45420--24545899999986079-97699963627730266655433588887653124--660489974489999973
Q gi|254780877|r  249 AKFRG--EFEERLKSLLCEIRSED-GEIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR--GELHCIGATTLDEYRKYI  323 (853)
Q Consensus       249 ~~~rg--~~e~r~~~i~~~~~~~~-~~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar--G~l~~IgaTT~~Eyrk~i  323 (853)
                        .||  ...++++.......... +--|++|||+|.+-        .+|.|-|...+..  ...++|-+|+  .+.+.+
T Consensus        78 --~r~id~vr~~i~~~~~~~~~~~~~~kiiiiDE~d~l~--------~~aq~aL~~~mE~~~~~~~fil~~n--~~~kii  145 (318)
T PRK00440         78 --ERGIDVIRNKIKEFARTAPVGGAPFKIIFLDEADNLT--------SDAQQALRRTMEMYSQTTRFILSCN--YSSKII  145 (318)
T ss_pred             --CCCHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCCCC--------HHHHHHHHHHHHCCCCCCEEEEECC--CCCCCC
T ss_conf             --6671789999999997267789973899986855322--------5567888764310566625886348--833376


Q ss_pred             HCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q ss_conf             0011132023111115777678999999978986541496101589999986333202457674778999999999
Q gi|254780877|r  324 EKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEASA  399 (853)
Q Consensus       324 EkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~A  399 (853)
                         +++-.|.+.+....|+.++....|+.+..+    .++.++++|+...+..|+-=      --+||.+|..++.
T Consensus       146 ---~~i~SRc~~i~f~~~~~~~i~~~L~~I~~~----E~i~~~~~~l~~i~~~s~gd------lR~ain~Lq~~~~  208 (318)
T PRK00440        146 ---DPIQSRCAVFRFSPLPKEAVIERLRYIAKN----EGLEITDDALEAIYYVSEGD------MRKAINALQAAAA  208 (318)
T ss_pred             ---CCHHHHHEEEECCCCCHHHHHHHHHHHHHH----CCCCCCHHHHHHHHHHCCCC------HHHHHHHHHHHHH
T ss_conf             ---155655101115789999999999999998----59998999999999864998------9999999999997


No 53 
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=99.32  E-value=9.9e-11  Score=106.18  Aligned_cols=203  Identities=20%  Similarity=0.199  Sum_probs=144.4

Q ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCE-EEECCCCCCHHHHHHHHHHHHHCCCCCH------------HHCC
Q ss_conf             56998729853333357899999996336777866-8952887407779999999873489984------------4457
Q gi|254780877|r  168 LTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNP-VLIGDPGVGKTAIIEGLASRIINGDIPE------------SLKG  234 (853)
Q Consensus       168 LTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~-~lvGe~GvGKtaive~la~~i~~~~vp~------------~l~~  234 (853)
                      |..+-|--.++-|||-+.-++.+...+...+=.+. ++.|++|+|||+.+.-||+.+.-.+-|.            ...+
T Consensus         6 la~KYRP~~F~dvvGQe~vv~~L~nai~~~rl~HAyLFsGprG~GKTt~ArilAk~LnC~~~~~~~PCg~C~sC~~i~~g   85 (560)
T PRK06647          6 TATKRRPRDFNSLEGQDFVVETLKHSIEKNKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTIMPCGECFSCKSIDND   85 (560)
T ss_pred             HHHHHCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCC
T ss_conf             77642898654403949999999999974997743663289987899999999999659999998888788788887459


Q ss_pred             --CEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCC---CCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC--CC
Q ss_conf             --437887313542174542024545899999986079---97699963627730266655433588887653124--66
Q gi|254780877|r  235 --KRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSED---GEIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR--GE  307 (853)
Q Consensus       235 --~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~---~~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar--G~  307 (853)
                        .-++++|.+      +-+|-  +-++.+++.+.-++   +--|..|||+|+|        +.+|+|-|--.|..  ..
T Consensus        86 ~~~DviEidaa------sn~~V--ddIR~l~e~v~~~P~~~~yKV~IIDEahmL--------t~~A~NALLKtLEEPP~~  149 (560)
T PRK06647         86 SSLDVIEIDGA------SNTSV--QDVRQIKEEIMFPPASSRYRVYIIDEVHML--------SNSAFNALLKTIEEPPPY  149 (560)
T ss_pred             CCCCEEEECCC------CCCCH--HHHHHHHHHHCCCCCCCCEEEEEECCHHHC--------CHHHHHHHHHHHHCCCCC
T ss_conf             99875764364------54888--999999998632876687069996465655--------999999999986348875


Q ss_pred             EEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCH
Q ss_conf             04899744899999730011132023111115777678999999978986541496101589999986333202457674
Q gi|254780877|r  308 LHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLP  387 (853)
Q Consensus       308 l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lP  387 (853)
                      ..+|-+||.-  .|..   +..-.|-|...-..-+.++...-|+.+...    -+|.|.++||...++.|.-=+.|    
T Consensus       150 ~~FILaTte~--~KI~---~TI~SRCQ~f~Fk~i~~~~I~~~L~~I~~~----E~i~~e~~AL~lIa~~a~Gs~RD----  216 (560)
T PRK06647        150 IVFIFATTEV--HKLP---ATIKSRCQHFNFRLLSLEKIYEMLKKVCLE----DDIKYEDEALKWIAYKSGGSVRD----  216 (560)
T ss_pred             EEEEEECCCH--HHCH---HHHHHHHEEEECCCCCHHHHHHHHHHHHHH----CCCCCCHHHHHHHHHHCCCCHHH----
T ss_conf             5999977994--7684---899965104105559999999999999986----79887999999999977895888----


Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             77899999999987
Q gi|254780877|r  388 DKAIDLMDEASARV  401 (853)
Q Consensus       388 DKAIDllDeA~A~~  401 (853)
                        |..+||.+.|.-
T Consensus       217 --alslldq~i~~~  228 (560)
T PRK06647        217 --AYTLFDQIVSFS  228 (560)
T ss_pred             --HHHHHHHHHHCC
T ss_conf             --999999999607


No 54 
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=99.32  E-value=9.2e-11  Score=106.43  Aligned_cols=203  Identities=21%  Similarity=0.229  Sum_probs=145.5

Q ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCC-EEEECCCCCCHHHHHHHHHHHHHCCC-CCHH------------H-
Q ss_conf             5699872985333335789999999633677786-68952887407779999999873489-9844------------4-
Q gi|254780877|r  168 LTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNN-PVLIGDPGVGKTAIIEGLASRIINGD-IPES------------L-  232 (853)
Q Consensus       168 LTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n-~~lvGe~GvGKtaive~la~~i~~~~-vp~~------------l-  232 (853)
                      |..+.|=..++-|||-+.-++.+...+...+-.+ -++.|++|||||++..-||+.+.-.+ .++.            . 
T Consensus         7 larKYRP~~F~dvVGQ~~vv~~L~nai~~~ri~HAyLF~GprGtGKTT~ArilAkaLnC~~~~~~~~pCg~C~~C~~I~~   86 (462)
T PRK06305          7 SSRKYRPQTFSEILGQDAVVTVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCAICKEISS   86 (462)
T ss_pred             HHHHHCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHC
T ss_conf             88763889876604909999999999984997623430389985999999999999679999888898876688899863


Q ss_pred             -CCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHC--CC-CEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC--C
Q ss_conf             -5743788731354217454202454589999998607--99-7699963627730266655433588887653124--6
Q gi|254780877|r  233 -KGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSE--DG-EIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR--G  306 (853)
Q Consensus       233 -~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~--~~-~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar--G  306 (853)
                       ...-|+++|      +++-||=  +.++.+++.+.-.  .+ --|..|||.|+|        +.+|.|-|--.|..  .
T Consensus        87 g~~~DViEiD------aAs~~gV--ddIRel~e~v~~~P~~~~yKVyIIDEvhmL--------s~~AfNALLKtLEEPP~  150 (462)
T PRK06305         87 GTSLDVIEID------GASHRGI--EDIRQINETVLFTPSKSQYKIYIIDEVHML--------TKEAFNSLLKTLEEPPQ  150 (462)
T ss_pred             CCCCCEEEEC------CCCCCCH--HHHHHHHHHHCCCCCCCCEEEEEEECHHHC--------CHHHHHHHHHHHHCCCC
T ss_conf             8999868643------5534466--899999977100886775059998152117--------99999999998618987


Q ss_pred             CEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCC
Q ss_conf             60489974489999973001113202311111577767899999997898654149610158999998633320245767
Q gi|254780877|r  307 ELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFL  386 (853)
Q Consensus       307 ~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~l  386 (853)
                      ...+|=+||.-+  |..   +.+-.|-|+.....-+.++...-|+.+...    -++.|.++||...++.|+-=+.|   
T Consensus       151 ~v~FILaTTe~~--KIp---~TIlSRCQrf~F~~i~~~~I~~~L~~I~~~----E~i~~e~~AL~lIA~~a~GsmRD---  218 (462)
T PRK06305        151 HVKFFLATTEIH--KIP---GTILSRCQKMHLKRIPEETIIDKLALIAQQ----DGIETSREALLPIARAAQGSLRD---  218 (462)
T ss_pred             CEEEEEEECCHH--HCC---HHHHHHHHEEECCCCCHHHHHHHHHHHHHH----CCCCCCHHHHHHHHHHCCCCHHH---
T ss_conf             749999818814--285---478765402332579999999999999998----39985999999999985895878---


Q ss_pred             HHHHHHHHHHHHHHH
Q ss_conf             477899999999987
Q gi|254780877|r  387 PDKAIDLMDEASARV  401 (853)
Q Consensus       387 PDKAIDllDeA~A~~  401 (853)
                         |+.+||.+.+.-
T Consensus       219 ---AlslLDQ~i~~~  230 (462)
T PRK06305        219 ---AESLYDYVVGLF  230 (462)
T ss_pred             ---HHHHHHHHHHHC
T ss_conf             ---999999999847


No 55 
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=99.31  E-value=2.8e-10  Score=102.49  Aligned_cols=222  Identities=18%  Similarity=0.274  Sum_probs=161.2

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHH
Q ss_conf             76745948999999999987410123656651289872678616889999999872377653002244774034532013
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRL  646 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~L  646 (853)
                      -..++|+..++..+....++.    ...+.|+   |..|-||+||.-+|+++-..=--....|+.+||+-..+...-|.|
T Consensus       203 F~~iig~S~~m~~v~~~a~r~----A~~d~pV---LI~GEsGTGKellAraIH~~S~R~~~pFv~vnC~alp~~l~eseL  275 (513)
T PRK10820        203 FSQIVAVSPKMKHVVEQARKL----AMLSAPL---LITGDTGTGKDLFAYACHLASPRAKKPYLALNCASIPEDAVESEL  275 (513)
T ss_pred             HHHHEECCHHHHHHHHHHHHH----HCCCCCE---EEECCCCCCHHHHHHHHHHCCCCCCCCCEEEECCCCCHHHHHHHH
T ss_conf             777510899999999999998----5989988---998989824999999999668878998268889989967899986


Q ss_pred             HCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHH
Q ss_conf             04771120356677421132215641022021441498999999998404578879997783033155954851268764
Q gi|254780877|r  647 IGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLI  726 (853)
Q Consensus       647 iGappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~  726 (853)
                      +|..+    -+.-|.+-    .--.+-++||||+-..++++.-||++|++|.+.--.|...---|+=||++||.      
T Consensus       276 FG~a~----~~~~G~fe----~A~gGTLfLdEI~~l~~~~Q~kLLr~Lq~~~~~rvG~~~~~~~dvRiIaaT~~------  341 (513)
T PRK10820        276 FGHAP----EGKKGFFE----QANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQK------  341 (513)
T ss_pred             CCCCC----CCCCCCEE----ECCCCEEEEECHHHCCHHHHHHHHHHHHCCEEEECCCCCEEEEEEEEEECCCH------
T ss_conf             38766----68897557----85898899978365999999999999868979965998535677899962653------


Q ss_pred             CCHHHHHHHHHHHH-HHHCCHHHHCCCCC-EEECCCCCH--HHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCC
Q ss_conf             03267999999999-86288577266681-586288998--999999999999999999857989999889999999708
Q gi|254780877|r  727 EDGDSVHDKVMGIV-RSAFKPEFLNRLDE-IILFEKLRK--EDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRG  802 (853)
Q Consensus       727 ~~~~~~~~~~~~~l-~~~f~peflnRid~-iv~F~~l~~--~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~  802 (853)
                              .+.+.+ .+.|+.+|.-|+.. .+..-||-+  +|+.-++...+.++..+....  ...+++++.+.|..  
T Consensus       342 --------dL~~lv~~g~FReDLyyRL~v~~I~lPpLReR~eDI~~L~~~fl~~~~~~~g~~--~~~ls~~a~~~L~~--  409 (513)
T PRK10820        342 --------NLVELVQKGLFREDLYYRLNVLTLNLPPLRDCPQDIMPLTELFVARFADEQGVP--RPKLSADLSTVLTR--  409 (513)
T ss_pred             --------HHHHHHHCCCCCHHHHHHHHCCCCCCCCHHHCHHHHHHHHHHHHHHHHHHCCCC--CCCCCHHHHHHHHH--
T ss_conf             --------099998729850889998616725588834465569999999999999975999--89847999999970--


Q ss_pred             CCCCCCCHHHHHHHHHHHH
Q ss_conf             9822062157999998733
Q gi|254780877|r  803 YDPSYGARPLKRVIQRYIQ  821 (853)
Q Consensus       803 ~~~~~GaR~l~r~i~~~i~  821 (853)
                      |+=--..|.|+.+|++.+.
T Consensus       410 y~WPGNVREL~n~iera~~  428 (513)
T PRK10820        410 YGWPGNVRQLKNAIYRALT  428 (513)
T ss_pred             CCCCCHHHHHHHHHHHHHH
T ss_conf             8999799999999999999


No 56 
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=99.31  E-value=1.1e-10  Score=105.71  Aligned_cols=204  Identities=20%  Similarity=0.271  Sum_probs=144.0

Q ss_pred             HHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCC-EEEECCCCCCHHHHHHHHHHHHHCCCCCH--HH-----------
Q ss_conf             35699872985333335789999999633677786-68952887407779999999873489984--44-----------
Q gi|254780877|r  167 DLTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNN-PVLIGDPGVGKTAIIEGLASRIINGDIPE--SL-----------  232 (853)
Q Consensus       167 DLTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n-~~lvGe~GvGKtaive~la~~i~~~~vp~--~l-----------  232 (853)
                      .|.++.|-..++-|||-+.=++.+...+.+.+=.+ -++.|++|||||+++..+|..+.-.+.++  ..           
T Consensus         5 alyrKYRPk~F~eIIGQe~iv~~L~nAI~~~RiaHAYLFsGPrGvGKTTlArifAkaLnC~~~~~~dpCg~C~sC~~I~~   84 (613)
T PRK05896          5 TFYRKYRPHNFKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESINT   84 (613)
T ss_pred             CHHHHCCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHC
T ss_conf             12450179976552382999999999998499762277558998488999999999966999999998888878999856


Q ss_pred             -CCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCC---CCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC--C
Q ss_conf             -57437887313542174542024545899999986079---97699963627730266655433588887653124--6
Q gi|254780877|r  233 -KGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSED---GEIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR--G  306 (853)
Q Consensus       233 -~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~---~~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar--G  306 (853)
                       ...-++++|.++      .+|  =+.++.+++.+.-.+   +--|..|||+|+|        +..|+|-|--.|..  .
T Consensus        85 g~h~DviEIdaas------n~g--IDeIReLie~~~~~P~~gkyKV~IIDEah~L--------n~~AaNALLKtLEEPP~  148 (613)
T PRK05896         85 NQSVDIVELDAAS------NNG--VDEIRNIIDNINYLPTTFKYKVYIIDEAHML--------STSAWNALLKTLEEPPK  148 (613)
T ss_pred             CCCCCEEEEECCC------CCC--HHHHHHHHHHHCCCCCCCCCEEEEECCHHHC--------CHHHHHHHHHHCCCCCC
T ss_conf             9999868840655------578--8999999997085875799459998162217--------99999999985348987


Q ss_pred             CEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCC
Q ss_conf             60489974489999973001113202311111577767899999997898654149610158999998633320245767
Q gi|254780877|r  307 ELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFL  386 (853)
Q Consensus       307 ~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~l  386 (853)
                      ...+|=+||.-+  +..   +..-.|-|+....-.+.++-..-|+.+...    .++.|.++||...++.|+-=+.|   
T Consensus       149 ~viFIL~Ttep~--KLL---pTIlSRCQrf~Fkri~~~~I~~~L~~I~~k----E~i~ie~~AL~~Ia~~adGs~RD---  216 (613)
T PRK05896        149 HVVFIFATTEFQ--KIP---LTIISRCQRYNFKKLNNSELQELLKSIAKK----EKIKIEDNAIDKIADLADGSLRD---  216 (613)
T ss_pred             CCEEEEEECCHH--HCC---HHHHHCCCCEECCCCCHHHHHHHHHHHHHH----CCCCCCHHHHHHHHHHCCCCHHH---
T ss_conf             837999828815--493---766403550017889989999999999997----39987899999999976884878---


Q ss_pred             HHHHHHHHHHHHHHH
Q ss_conf             477899999999987
Q gi|254780877|r  387 PDKAIDLMDEASARV  401 (853)
Q Consensus       387 PDKAIDllDeA~A~~  401 (853)
                         |+.+||.+.+..
T Consensus       217 ---AlslLdQ~~~~~  228 (613)
T PRK05896        217 ---GLSILDQLSTFK  228 (613)
T ss_pred             ---HHHHHHHHHHHC
T ss_conf             ---988999999835


No 57 
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=99.31  E-value=5.1e-11  Score=108.51  Aligned_cols=92  Identities=11%  Similarity=0.039  Sum_probs=38.5

Q ss_pred             HCCHHHHHHHHHHHHHHHHCCC----CCCCHHHHHHHHHHCCCCHHHHHHHHCCC-----------CHHHHHHHHHHHHH
Q ss_conf             7179999999999999998289----96338999999861887668999997399-----------98999999999997
Q gi|254780877|r    5 KYSDLMRNVLQSAQTYALAQGH----QNLVPEHVLHIFLEDEQGAVYSLIQCSGG-----------DIAQLKDYNQTVLS   69 (853)
Q Consensus         5 kFS~~a~~vL~~A~~~A~~~~H----~~Vt~EHLLlaLL~~~~s~i~~iL~~~gv-----------d~~~L~~~le~~L~   69 (853)
                      -|+.....-.....=+|.+++-    .+|+=+||+-     +.+.+++++++-.+           --..+.+.+-+..+
T Consensus         3 lf~~~~~~~~~~~aPLA~rmRP~~Lde~vGQ~hllg-----~g~~Lrr~i~~~~~~S~Il~GPPGtGKTTLA~iIA~~t~   77 (726)
T PRK13341          3 LFAFHGEQQRRSEAPLADRLRPRTLEEFVGQDHILG-----EGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHTR   77 (726)
T ss_pred             HHHHHHHHHHHCCCCCHHHHCCCCHHHHCCCHHHCC-----CCCHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHC
T ss_conf             155647765332698568629998777359575428-----982899999769998278889799999999999988748


Q ss_pred             H-CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCC
Q ss_conf             4-5954789777706989999999999999971987
Q gi|254780877|r   70 K-IPKVTGGGAQVYLSQPLAVILSKSEEIAKKSGDS  104 (853)
Q Consensus        70 k-~~k~~~~~~~~~~S~~l~rvL~~A~~~A~~~g~~  104 (853)
                      . +...+.   -..-..+++++++.|...-..+|..
T Consensus        78 ~~F~~lsA---v~sgvkdlr~ii~~A~~~~~~~g~~  110 (726)
T PRK13341         78 AHFSSLNA---VLAGVKDLRAEVDAAKERLERHGKR  110 (726)
T ss_pred             CCEEEEEC---CCCCHHHHHHHHHHHHHHHHHCCCC
T ss_conf             86799856---2037799999999999998745996


No 58 
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=99.31  E-value=1.3e-07  Score=80.79  Aligned_cols=61  Identities=20%  Similarity=0.395  Sum_probs=28.7

Q ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHH-HHHHHCCCCHHHHHHHHHHH
Q ss_conf             69899999999999999719870259998766872775178-89997599989999999987
Q gi|254780877|r   83 LSQPLAVILSKSEEIAKKSGDSFVTAEKFLLAMVMETGGIG-ESLKKCGLKFSRLEESIKKL  143 (853)
Q Consensus        83 ~S~~l~rvL~~A~~~A~~~g~~~I~~ehLLlAIl~e~~s~a-~iL~~~gi~~~~l~e~i~~~  143 (853)
                      ||+.++.+|..|...|..+++.+|+++|+|+|++.+..+.+ .+|..+|++...+.+.+...
T Consensus         1 ft~~a~~aL~~A~~~A~~~~h~~V~~eHlLlaLl~~~~~~~~~~L~~~gvd~~~l~~~l~~~   62 (852)
T TIGR03346         1 FTEKFQEALQAAQSLALGRDHQQIEPEHLLKALLDQEGGLARRLLQKAGVNVGALRQALEKE   62 (852)
T ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             98899999999999999859990279999999973998479999998598999999999999


No 59 
>PRK10865 protein disaggregation chaperone; Provisional
Probab=99.31  E-value=1.1e-07  Score=81.31  Aligned_cols=136  Identities=13%  Similarity=0.196  Sum_probs=79.3

Q ss_pred             CCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCH-HHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCC--CCC
Q ss_conf             06989999999999999971987025999876687277517-889997599989999999987377887877754--676
Q gi|254780877|r   82 YLSQPLAVILSKSEEIAKKSGDSFVTAEKFLLAMVMETGGI-GESLKKCGLKFSRLEESIKKLRKGRVADSVNAE--QGF  158 (853)
Q Consensus        82 ~~S~~l~rvL~~A~~~A~~~g~~~I~~ehLLlAIl~e~~s~-a~iL~~~gi~~~~l~e~i~~~~~~~~~~~~~~e--~~~  158 (853)
                      .+|+.++.+|..|...|..+++.+|+++|+|+||+.+.++. ..+|..+|++...+.+.+...............  ...
T Consensus         5 k~t~~~~~al~~A~~~A~~~~h~~v~~eHll~all~~~~~~~~~~l~~~~~d~~~l~~~l~~~l~~~~~~~~~~~~~~~s   84 (857)
T PRK10865          5 RLTNKFQLALADAQSLALGHDNQFIEPLHLMSALLNQEGGSVRPLLTSAGINAGQLRTDINQALNRLPQVEGTGGDVQPS   84 (857)
T ss_pred             HCCHHHHHHHHHHHHHHHHCCCCEEHHHHHHHHHHCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCC
T ss_conf             53999999999999999985988435999999997699747999999869999999999999986278878988880878


Q ss_pred             CHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHH
Q ss_conf             1078864435699872985333335789999999633677786689528874077799999998
Q gi|254780877|r  159 DALKKYCRDLTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASR  222 (853)
Q Consensus       159 ~~L~ky~~DLTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~  222 (853)
                      +.+.+-. ++.....+..-+..|+-+    -++-.+..-.-...=+.-..|+.+..+.+.+.+.
T Consensus        85 ~~~~~~l-~~a~~~a~~~~~~~i~~~----~llla~l~~~~~~~~~l~~~~~~~~~~~~~~~~~  143 (857)
T PRK10865         85 QDLVRVL-NLCDKLAQKRGDNFISSE----LFVLAALESRGTLADILKAAGATTANITQAIEQM  143 (857)
T ss_pred             HHHHHHH-HHHHHHHHHCCCCCCHHH----HHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             7999999-999999998599824299----9999997188779999998799999999999987


No 60 
>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]
Probab=99.30  E-value=1.2e-08  Score=89.33  Aligned_cols=222  Identities=21%  Similarity=0.334  Sum_probs=161.4

Q ss_pred             HHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCH
Q ss_conf             77674594899999999998741012365665128987267861688999999987237765300224477403453201
Q gi|254780877|r  566 ISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSR  645 (853)
Q Consensus       566 l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~  645 (853)
                      ....++|+..|+..+...+.+.    .+.+-|   .|..|.||+||--.|+++-+.=--....||.+||....+.--=|-
T Consensus       139 ~~~~liG~S~am~~l~~~i~kv----A~s~a~---VLI~GESGtGKElvAr~IH~~S~R~~~PFVavNcaAip~~l~ESE  211 (464)
T COG2204         139 LGGELVGESPAMQQLRRLIAKV----APSDAS---VLITGESGTGKELVARAIHQASPRAKGPFIAVNCAAIPENLLESE  211 (464)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHH----HCCCCC---EEEECCCCCCHHHHHHHHHHHCCCCCCCCEEEECCCCCHHHHHHH
T ss_conf             5677520699999999999998----477997---899778987589999999860744589925633464898887777


Q ss_pred             HHCCCCHHCCCCCCCCCCHHHHCCC-------CCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECC
Q ss_conf             3047711203566774211322156-------410220214414989999999984045788799977830331559548
Q gi|254780877|r  646 LIGSPPGYVGYEEGGALTEAVRRHP-------YQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTS  718 (853)
Q Consensus       646 LiGappGYvG~~~gg~Lte~vr~~P-------~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~Ts  718 (853)
                      |+|       |++ |--|.+..++.       -..+++|||+....+++.-||.+|.+|.++--.|++.-=-|+=||.+|
T Consensus       212 LFG-------hek-GAFTGA~~~r~G~fE~A~GGTLfLDEI~~mpl~~Q~kLLRvLqe~~~~rvG~~~~i~vdvRiIaaT  283 (464)
T COG2204         212 LFG-------HEK-GAFTGAITRRIGRFEQANGGTLFLDEIGEMPLELQVKLLRVLQEREFERVGGNKPIKVDVRIIAAT  283 (464)
T ss_pred             HHC-------CCC-CCCCCCCCCCCCCEEECCCCEEEEECCCCCCHHHHHHHHHHHHCCEEEECCCCCEECEEEEEEEEC
T ss_conf             614-------565-676776434576157737965873231109999999999998707067358886000016999605


Q ss_pred             CHHHHHHHCCHHHHHHHHHHH-HHHHCCHHHHCCCCCEEECC--CCC--HHHHHHHHHHHHHHHHHHHHHCCCEEEECHH
Q ss_conf             512687640326799999999-98628857726668158628--899--8999999999999999999857989999889
Q gi|254780877|r  719 NLGAEYLIEDGDSVHDKVMGI-VRSAFKPEFLNRLDEIILFE--KLR--KEDMAKIVRIQLGRVLSLIKERNISMDFDDQ  793 (853)
Q Consensus       719 N~G~~~~~~~~~~~~~~~~~~-l~~~f~peflnRid~iv~F~--~l~--~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~  793 (853)
                      |.              .+.+. -.+.|+.++.-|+. +++.+  ||-  .+|+.-++...+.++.++..  .-...++++
T Consensus       284 ~~--------------dL~~~v~~G~FReDLyyRLn-V~~i~iPpLRER~EDIp~L~~hfl~~~~~~~~--~~~~~~s~~  346 (464)
T COG2204         284 NR--------------DLEEEVAAGRFREDLYYRLN-VVPLRLPPLRERKEDIPLLAEHFLKRFAAELG--RPPKGFSPE  346 (464)
T ss_pred             CC--------------CHHHHHHCCCCHHHHHHHHC-CCEECCCCCCCCCHHHHHHHHHHHHHHHHHHC--CCCCCCCHH
T ss_conf             77--------------89999881973788886523-31104876223620079999999999999809--998887999


Q ss_pred             HHHHHHHCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             9999997089822062157999998733
Q gi|254780877|r  794 VIDWLSCRGYDPSYGARPLKRVIQRYIQ  821 (853)
Q Consensus       794 ~~~~l~~~~~~~~~GaR~l~r~i~~~i~  821 (853)
                      +...|..  |+=--..|.|+..+++.+.
T Consensus       347 a~~~L~~--y~WPGNVREL~N~ver~~i  372 (464)
T COG2204         347 ALAALLA--YDWPGNVRELENVVERAVI  372 (464)
T ss_pred             HHHHHHH--CCCCHHHHHHHHHHHHHHH
T ss_conf             9999973--8998189999999999985


No 61 
>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=99.30  E-value=3e-11  Score=110.34  Aligned_cols=154  Identities=32%  Similarity=0.471  Sum_probs=107.9

Q ss_pred             CCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCC-------HHHH
Q ss_conf             665128987267861688999999987237765300224477403453201304771120356677421-------1322
Q gi|254780877|r  595 QRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALT-------EAVR  667 (853)
Q Consensus       595 ~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lt-------e~vr  667 (853)
                      .|||   |+-|.+|||||.|-.+||+..   ...++|||.||-++   .--|+||   |+--++||+..       -+.|
T Consensus      1543 ~kpi---lLEGsPGVGKTSlItaLAr~t---G~kliRINLSeQTd---L~DLfGs---d~Pve~~Gef~w~dapfL~amr 1610 (4600)
T COG5271        1543 GKPI---LLEGSPGVGKTSLITALARKT---GKKLIRINLSEQTD---LCDLFGS---DLPVEEGGEFRWMDAPFLHAMR 1610 (4600)
T ss_pred             CCCE---EECCCCCCCHHHHHHHHHHHH---CCCEEEEECCCCCH---HHHHHCC---CCCCCCCCEEEECCCHHHHHHH
T ss_conf             8854---622799866789999999974---57247863201102---8987377---8875567616742468999853


Q ss_pred             CCCCCEEEEHHHHHCCHHHHHHHHHHHHCCE-E-ECCCCCEEECC-CCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHC
Q ss_conf             1564102202144149899999999840457-8-87999778303-3155954851268764032679999999998628
Q gi|254780877|r  668 RHPYQVVLFDEIEKAHSDVHNILLQVLDDGR-L-TDSQGRTVDFR-NTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAF  744 (853)
Q Consensus       668 ~~P~sVil~DEiEKah~~v~~~llqild~G~-l-td~~G~~v~f~-n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f  744 (853)
                      .  -.-||+||+.-|..+|+.=|=-.||.-+ . .--...++++- |..|+.+-|--              ...--++..
T Consensus      1611 ~--G~WVlLDEiNLaSQSVlEGLNacLDhR~eayIPEld~~f~~HpnfrVFAaqNPq--------------~qggGRKgL 1674 (4600)
T COG5271        1611 D--GGWVLLDEINLASQSVLEGLNACLDHRREAYIPELDKTFDVHPNFRVFAAQNPQ--------------DQGGGRKGL 1674 (4600)
T ss_pred             C--CCEEEEEHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEECCCCEEEEEECCCH--------------HCCCCCCCC
T ss_conf             4--987996241032788998889988501442563113325216870554204811--------------027985668


Q ss_pred             CHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHH
Q ss_conf             857726668158628899899999999999999
Q gi|254780877|r  745 KPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRV  777 (853)
Q Consensus       745 ~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l  777 (853)
                      |--|+||+. +|....|+.+++..|+..+.-.+
T Consensus      1675 PkSF~nRFs-vV~~d~lt~dDi~~Ia~~~yp~v 1706 (4600)
T COG5271        1675 PKSFLNRFS-VVKMDGLTTDDITHIANKMYPQV 1706 (4600)
T ss_pred             CHHHHHHHH-EEEECCCCCCHHHHHHHHHCCCC
T ss_conf             788862211-57750345300999998517765


No 62 
>PRK07270 DNA polymerase III subunits gamma and tau; Validated
Probab=99.29  E-value=1.9e-10  Score=103.95  Aligned_cols=204  Identities=19%  Similarity=0.209  Sum_probs=144.5

Q ss_pred             HHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCE-EEECCCCCCHHHHHHHHHHHHHCCCCCH------------HHC
Q ss_conf             356998729853333357899999996336777866-8952887407779999999873489984------------445
Q gi|254780877|r  167 DLTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNP-VLIGDPGVGKTAIIEGLASRIINGDIPE------------SLK  233 (853)
Q Consensus       167 DLTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~-~lvGe~GvGKtaive~la~~i~~~~vp~------------~l~  233 (853)
                      -|..+-|--.+|-|||-+.=++.+...+.+.+=.+. ++.|++|||||+.+.-||+.+.-.+-+.            ...
T Consensus         4 aLyrkyRP~~F~dvvGQe~i~~~L~nal~~~ri~HAyLF~GP~GtGKts~ArifAkaLnC~~~~~~~pC~~C~~C~~i~~   83 (557)
T PRK07270          4 ALYRKYRSQTFDEMVGQEVVATTLKQAVESGKISHAYLFSGPRGTGKTSAAKIFAKAMNCPNQVDGEPCNNCDICRDITN   83 (557)
T ss_pred             HHHHHHCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHC
T ss_conf             76766089987671481999999999998599540442108998689999999999957999899998887779999875


Q ss_pred             C--CEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCC---CCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHC--CC
Q ss_conf             7--437887313542174542024545899999986079---9769996362773026665543358888765312--46
Q gi|254780877|r  234 G--KRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSED---GEIILFIDELHVLVGAGKTDGAMDASNLLKPSLA--RG  306 (853)
Q Consensus       234 ~--~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~---~~~ilfide~h~~~gaG~~~g~~Daan~LKP~La--rG  306 (853)
                      +  ..++++|.+      +-+|=  +.++.+.+.+.-++   +--|..|||+|+|        +.+|+|-|--.|.  ..
T Consensus        84 g~~~DviEidaa------s~~gV--d~IRei~~~~~~~P~~~~yKV~IIDEah~L--------s~~A~NALLKtLEEPP~  147 (557)
T PRK07270         84 GSLEDVIEIDAA------SNNGV--DEIRDIRDKSTYAPSRATYKVYIIDEVHML--------STGAFNALLKTLEEPTE  147 (557)
T ss_pred             CCCCCEEEECCC------CCCCH--HHHHHHHHHHCCCCCCCCEEEEEECCHHHC--------CHHHHHHHHHHHHCCCC
T ss_conf             899974873477------76788--999999998423877788389997144534--------99999989998528998


Q ss_pred             CEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCC
Q ss_conf             60489974489999973001113202311111577767899999997898654149610158999998633320245767
Q gi|254780877|r  307 ELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFL  386 (853)
Q Consensus       307 ~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~l  386 (853)
                      ...+|-+||.-  .|..   +.+-.|-|+..-.--+.++...-|+.+...    -++.|+++||...++.|.-=+.|   
T Consensus       148 ~~vFIL~Ttep--~kIl---~TI~SRCQrf~F~~i~~~~i~~~L~~I~~~----E~i~~~~~aL~~Ia~~a~G~mRd---  215 (557)
T PRK07270        148 NVVFILATTEL--HKIP---ATILSRVQRFEFKSIKTKAIREHLAWILDK----EGISFEVEALNLIARRAEGGMRD---  215 (557)
T ss_pred             CEEEEEEECCH--HHCC---HHHHHHHHHCCCCCCCHHHHHHHHHHHHHH----CCCCCCHHHHHHHHHHCCCCHHH---
T ss_conf             76999984994--7592---888743000108889999999999999998----39986999999999977996878---


Q ss_pred             HHHHHHHHHHHHHHH
Q ss_conf             477899999999987
Q gi|254780877|r  387 PDKAIDLMDEASARV  401 (853)
Q Consensus       387 PDKAIDllDeA~A~~  401 (853)
                         |+.+||.+-|.-
T Consensus       216 ---AlsiLdQ~~s~~  227 (557)
T PRK07270        216 ---ALSILDQALSLS  227 (557)
T ss_pred             ---HHHHHHHHHHCC
T ss_conf             ---999999999717


No 63 
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=99.29  E-value=1.5e-10  Score=104.71  Aligned_cols=204  Identities=24%  Similarity=0.301  Sum_probs=145.5

Q ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCE-EEECCCCCCHHHHHHHHHHHHHCCCCCHH------------HCC
Q ss_conf             56998729853333357899999996336777866-89528874077799999998734899844------------457
Q gi|254780877|r  168 LTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNP-VLIGDPGVGKTAIIEGLASRIINGDIPES------------LKG  234 (853)
Q Consensus       168 LTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~-~lvGe~GvGKtaive~la~~i~~~~vp~~------------l~~  234 (853)
                      |..+.|--.+|-|||-+.-++.+...+...+=.+. ++.|++|||||+++..||+.+.-.+-|..            ..+
T Consensus         4 LarKYRP~~F~evIGQe~iv~~L~nAi~~~Rl~HAYLFsGPrGvGKTt~ArifAkaLnC~~~~~~~PCg~C~sC~~i~~g   83 (523)
T PRK08451          4 LALKYRPKHFDELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFSRALVCEQGPSSTPCGTCAQCQAALEG   83 (523)
T ss_pred             HHHHHCCCCHHHCCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCC
T ss_conf             44420899654404949999999999985996715875789986889999999999759999998988878889998648


Q ss_pred             C--EEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHC---CCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC--CC
Q ss_conf             4--3788731354217454202454589999998607---997699963627730266655433588887653124--66
Q gi|254780877|r  235 K--RLMALDMGALIAGAKFRGEFEERLKSLLCEIRSE---DGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR--GE  307 (853)
Q Consensus       235 ~--~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~---~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar--G~  307 (853)
                      .  -|+++|      +++.+|  =+.++.+++.+.-.   .+--|..|||+|+|        +..|+|-|--.|..  ..
T Consensus        84 ~hpDViEiD------aasn~g--ID~IReLie~~~~~P~~gryKV~IIDEah~L--------t~~A~NALLKTLEEPP~~  147 (523)
T PRK08451         84 RHIDIIEMD------AASNRG--IDDIRNLIEQTKYKPSMARFKIFIIDEVHML--------TKEAFNALLKTLEEPPSY  147 (523)
T ss_pred             CCCCEEEEC------CCCCCC--HHHHHHHHHHHCCCCCCCCEEEEEEECCCCC--------CHHHHHHHHHHCCCCCCC
T ss_conf             999855105------533368--9999999997235886797279998260304--------899999999970389878


Q ss_pred             EEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCH
Q ss_conf             04899744899999730011132023111115777678999999978986541496101589999986333202457674
Q gi|254780877|r  308 LHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLP  387 (853)
Q Consensus       308 l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lP  387 (853)
                      ..+|-+||.-  .|..   +..-.|-|.......+.++-..-|+.+...    .++.|.++||...++.|+-=+.|    
T Consensus       148 vvFILaTTep--~KLp---~TIlSRCQ~f~Fk~I~~~~I~~~L~~I~~~----E~i~~e~~AL~~IA~~a~GslRD----  214 (523)
T PRK08451        148 VKFILATTDP--LKLP---ATILSRTQHFRFKQIPQNSIISHLKTILNK----EGVSYEPEALEILARSGSGSLRD----  214 (523)
T ss_pred             CEEEEECCCH--HHCH---HHHHHHHHCCCCCCCCHHHHHHHHHHHHHH----CCCCCCHHHHHHHHHHCCCCHHH----
T ss_conf             3799975994--7684---888742031103379999999999999998----39987999999999977894868----


Q ss_pred             HHHHHHHHHHHHHHH
Q ss_conf             778999999999875
Q gi|254780877|r  388 DKAIDLMDEASARVR  402 (853)
Q Consensus       388 DKAIDllDeA~A~~~  402 (853)
                        |+.+||.|-|.-.
T Consensus       215 --alslLdQ~i~~~~  227 (523)
T PRK08451        215 --TLTLLDQAIIFCK  227 (523)
T ss_pred             --HHHHHHHHHHHCC
T ss_conf             --9879999998479


No 64 
>CHL00176 ftsH cell division protein; Validated
Probab=99.28  E-value=2e-09  Score=95.51  Aligned_cols=160  Identities=24%  Similarity=0.434  Sum_probs=115.7

Q ss_pred             CCCCCCCHHH---HHHHHHHHH---------CCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHH
Q ss_conf             8533333578---999999963---------3677786689528874077799999998734899844457437887313
Q gi|254780877|r  176 KLDPVIGRDD---EMRRAIQVL---------SRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMG  243 (853)
Q Consensus       176 kLDPVIGRe~---EI~~~~~iL---------~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~  243 (853)
                      .++-|.|-|+   |+++++.-|         .-|--..++|+|+||+|||-++..+|-   +..|       -.|++.-+
T Consensus       175 tF~DVaG~~eaK~el~EivdfLk~P~k~~~~Gak~PkGvLL~GpPGTGKTlLAkAvAg---Ea~v-------pF~~~sgs  244 (631)
T CHL00176        175 TFNDVAGVEEAKEELEEVVTFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAG---EAEV-------PFFSISGS  244 (631)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHCCHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHC---CCCC-------CEEEEEHH
T ss_conf             7532288589999999999983595887644996896589889899878899999856---5588-------46998837


Q ss_pred             HHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCC---CCCCCCCCCHHHHHHHHH-------CCCCEEEEEE
Q ss_conf             542174542024545899999986079976999636277302---666554335888876531-------2466048997
Q gi|254780877|r  244 ALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVG---AGKTDGAMDASNLLKPSL-------ARGELHCIGA  313 (853)
Q Consensus       244 ~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~g---aG~~~g~~Daan~LKP~L-------arG~l~~Iga  313 (853)
                      .++  ..|.|.=..|++.+.+.+++. .++|+|||||-.+=+   +|.+.|.-.-.+.|-..|       .+..+=+|||
T Consensus       245 ~F~--e~~vGvga~rVR~LF~~Ar~~-aP~IiFIDEiDaig~~Rg~~~~gg~~e~e~tlnqLL~emDGf~~~~gViViaA  321 (631)
T CHL00176        245 EFV--EMFVGVGAARVRDLFKKAKEN-SPCIVFIDEIDAVGRQRGAGVGGGNDEREQTLNQLLTEMDGFEGNKGVIVIAA  321 (631)
T ss_pred             HHH--HHHCCHHHHHHHHHHHHHHHC-CCEEEEEEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCEEEEEE
T ss_conf             855--642155589999999999863-99699987101201147898889850899999999998428887888699982


Q ss_pred             ECHHHHHHHHHCCHHHHH--CCC-EEECCCCCHHHHHHHHHHH
Q ss_conf             448999997300111320--231-1111577767899999997
Q gi|254780877|r  314 TTLDEYRKYIEKDPALAR--RFQ-SLLVGEPTVTDTISILRGL  353 (853)
Q Consensus       314 TT~~Eyrk~iEkD~Al~R--RFq-~i~V~Eps~~~t~~iL~gl  353 (853)
                      |---+-     =|+||-|  ||. .|.|.-|+.+.-..||+-.
T Consensus       322 TNrpd~-----LDpALlRPGRFDR~I~V~lPD~~gR~~IL~vh  359 (631)
T CHL00176        322 TNRIDI-----LDAALLRPGRFDRQVTVSLPDFEGRLDILKVH  359 (631)
T ss_pred             CCCCCC-----CCHHHCCCCCCCEEEEECCCCHHHHHHHHHHH
T ss_conf             588554-----56866268877549982698989999999999


No 65 
>CHL00095 clpC Clp protease ATP binding subunit
Probab=99.26  E-value=6.4e-07  Score=75.18  Aligned_cols=191  Identities=14%  Similarity=0.208  Sum_probs=113.1

Q ss_pred             HCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCCC-CCCCC
Q ss_conf             71799999999999999982899633899999986188766899999739998999999999997459547897-77706
Q gi|254780877|r    5 KYSDLMRNVLQSAQTYALAQGHQNLVPEHVLHIFLEDEQGAVYSLIQCSGGDIAQLKDYNQTVLSKIPKVTGGG-AQVYL   83 (853)
Q Consensus         5 kFS~~a~~vL~~A~~~A~~~~H~~Vt~EHLLlaLL~~~~s~i~~iL~~~gvd~~~L~~~le~~L~k~~k~~~~~-~~~~~   83 (853)
                      .||+.++.+|..|...|..+++.+|+++|||++|+++.++.+..+|..+|++...++..+...+.......... ....-
T Consensus        79 ~~s~~~~~vL~~A~~~a~~~~~~~I~~ehLllall~e~~~~a~~iL~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (823)
T CHL00095         79 PFTPRAKRVLELSLEEARILGHNYIGTEHLLLGLIREGEGVAARVLENLNVDLPKVRSLIINLIGEIAEVILGGGTSREK  158 (823)
T ss_pred             CCCHHHHHHHHHHHHHHHHCCCCEECHHHHHHHHHCCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCC
T ss_conf             88879999999999999982998043999999997089747999999879999999999999845456556788666656


Q ss_pred             CHHHHHHHHHHHHHHHHCC-CCCCC----HHHHHHHHHHCCCCHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf             9899999999999999719-87025----999876687277517889997599989999999987377887877754676
Q gi|254780877|r   84 SQPLAVILSKSEEIAKKSG-DSFVT----AEKFLLAMVMETGGIGESLKKCGLKFSRLEESIKKLRKGRVADSVNAEQGF  158 (853)
Q Consensus        84 S~~l~rvL~~A~~~A~~~g-~~~I~----~ehLLlAIl~e~~s~a~iL~~~gi~~~~l~e~i~~~~~~~~~~~~~~e~~~  158 (853)
                      ++.+++--..--..|..-. ++.|+    ...++--+.+....-.-+.-.-|+-...+.+.+.........+..-  .. 
T Consensus       159 ~~~L~ky~~dLT~~A~~GklDpvIGRd~EI~r~i~IL~RR~KNNpiLvGepGVGKTAIvEGLA~rI~~g~VP~~L--~~-  235 (823)
T CHL00095        159 TPTLEEFGNNLTKMAYEGNLDPVIGRDKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIANRDVPDIL--ED-  235 (823)
T ss_pred             CHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEECCCCCCHHHHHHHHHHHHHCCCCCHHH--CC-
T ss_conf             556999978889999838999875956999999999977324885023799987999999999976088998687--59-


Q ss_pred             CHHHHHHHHHHHHHHCCCCCCCCC-HHHHHHHHHHHHCCCCCCCEEEE
Q ss_conf             107886443569987298533333-57899999996336777866895
Q gi|254780877|r  159 DALKKYCRDLTEEARNGKLDPVIG-RDDEMRRAIQVLSRRTKNNPVLI  205 (853)
Q Consensus       159 ~~L~ky~~DLTe~Ar~GkLDPVIG-Re~EI~~~~~iL~r~~k~n~~lv  205 (853)
                        -.-|.-|+..+..--+.   -| =|+-+..++.-+. ..+ |+||.
T Consensus       236 --~~i~sLDl~~L~AGtky---RGeFEeRlk~il~ei~-~~~-~iILF  276 (823)
T CHL00095        236 --KLVLTLDIGLLLAGTKY---RGEFEERIKKIMDEIK-KAN-NIILV  276 (823)
T ss_pred             --CCEEEEEHHHHHHCCCC---CHHHHHHHHHHHHHHH-HCC-CEEEE
T ss_conf             --93688428877533422---2679999999999998-579-86999


No 66 
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=99.26  E-value=2.3e-10  Score=103.12  Aligned_cols=202  Identities=21%  Similarity=0.271  Sum_probs=147.4

Q ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCE-EEECCCCCCHHHHHHHHHHHHHCCCCCH--H----------HCC
Q ss_conf             56998729853333357899999996336777866-8952887407779999999873489984--4----------457
Q gi|254780877|r  168 LTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNP-VLIGDPGVGKTAIIEGLASRIINGDIPE--S----------LKG  234 (853)
Q Consensus       168 LTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~-~lvGe~GvGKtaive~la~~i~~~~vp~--~----------l~~  234 (853)
                      |-.+-|--.++-|+|-+.-++.+...+...+-.++ ++-|++|||||+.+.-||.-+.--+-|.  .          -.|
T Consensus         6 LyrkyRP~~f~dvvgQ~~v~~~L~n~i~~~~i~hayLf~GprG~GKTs~Ari~akalnc~~~~~~~pC~~C~~C~~i~~g   85 (541)
T PRK05563          6 LYREWRPRTFEDVVGQEHITTTLKNQIINNRIAHAYLFCGTRGTGKTSTAKIFAKAVNCLNPQDGEPCNECEICKKINEG   85 (541)
T ss_pred             HHHHHCCCCHHHHCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCC
T ss_conf             88764899776624849999999999984993204530387995899999999999579998889857514889998568


Q ss_pred             C--EEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCC---CCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC--CC
Q ss_conf             4--37887313542174542024545899999986079---97699963627730266655433588887653124--66
Q gi|254780877|r  235 K--RLMALDMGALIAGAKFRGEFEERLKSLLCEIRSED---GEIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR--GE  307 (853)
Q Consensus       235 ~--~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~---~~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar--G~  307 (853)
                      .  -|+++|.      ++-||=  +-++.+++.+.-++   .--|..|||+|+|        +.+|.|-|--.|..  ..
T Consensus        86 ~~~Dv~Eida------as~~gv--d~iR~~~~~~~~~p~~~~~Kv~IiDEvhml--------s~~a~nallKtlEePp~~  149 (541)
T PRK05563         86 LLMDVIEIDA------ASNNGV--DDIREIIENVKYPPQEGKYKVYIMDEVHML--------SQGAVNAFLKTLEEPPSN  149 (541)
T ss_pred             CCCCEEEECC------CCCCCH--HHHHHHHHHCEECCCCCCEEEEEEECCCCC--------CHHHHHHHHHHHHCCCCC
T ss_conf             9887366244------444788--999999976104876787059999772338--------999999999998548777


Q ss_pred             EEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCH
Q ss_conf             04899744899999730011132023111115777678999999978986541496101589999986333202457674
Q gi|254780877|r  308 LHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLP  387 (853)
Q Consensus       308 l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lP  387 (853)
                      ..+|=|||.  ++|..   +.+-.|-|+......+.++-..-|+.+...    -++.|+++||...++.|.==+.|    
T Consensus       150 ~~Filatte--~~ki~---~tI~SRcq~f~f~~i~~~~i~~~L~~I~~~----E~i~~~~~al~lIa~~s~GsmRD----  216 (541)
T PRK05563        150 VIFILATTD--PQKLP---ITILSRCQRFDFKRIKVKDIFKRLRKIVEE----QGIFADDKSLNLIARMSDGAMRD----  216 (541)
T ss_pred             CEEEEECCC--CCCCC---HHHHHHEEEEEEEECCHHHHHHHHHHHHHH----CCCCCCHHHHHHHHHHCCCCHHH----
T ss_conf             569997698--44274---556742135775438999999999999998----49998789999999745997788----


Q ss_pred             HHHHHHHHHHHHH
Q ss_conf             7789999999998
Q gi|254780877|r  388 DKAIDLMDEASAR  400 (853)
Q Consensus       388 DKAIDllDeA~A~  400 (853)
                        |+.+||.+.|.
T Consensus       217 --AlslLdQ~is~  227 (541)
T PRK05563        217 --ALSILDQAISM  227 (541)
T ss_pred             --HHHHHHHHHHH
T ss_conf             --99999999983


No 67 
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=99.26  E-value=2.4e-10  Score=103.08  Aligned_cols=197  Identities=23%  Similarity=0.338  Sum_probs=129.7

Q ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCC
Q ss_conf             54776745948999999999987410123656651289872678616889999999872377653002244774034532
Q gi|254780877|r  564 TEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSV  643 (853)
Q Consensus       564 ~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~v  643 (853)
                      -.--+..+||++.++.+.-.|.-++    ..+.|+.-.||.||+|.|||.||..+|+.|-   .++-...-.-       
T Consensus        21 P~~l~efiGQ~~i~~~L~v~i~Aak----~r~e~ldH~Ll~GPPGlGKTTLA~iiA~E~~---~~~~~tsGP~-------   86 (328)
T PRK00080         21 PKSLDEFIGQEKVKENLKIFIEAAK----KRGEALDHVLLYGPPGLGKTTLANIIANEMG---VNIRITSGPA-------   86 (328)
T ss_pred             CCCHHHCCCHHHHHHHHHHHHHHHH----HCCCCCCCEEEECCCCCCHHHHHHHHHHHHC---CCCEECCCCC-------
T ss_conf             8857663595999999999999999----6499988057658899889999999999868---8815624500-------


Q ss_pred             CHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEEC--CCC---CEEECC---CCEEE
Q ss_conf             0130477112035667742113221564102202144149899999999840457887--999---778303---31559
Q gi|254780877|r  644 SRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTD--SQG---RTVDFR---NTLII  715 (853)
Q Consensus       644 s~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd--~~G---~~v~f~---n~iii  715 (853)
                         +-- ||    |=-+.||.   -+|..|++.|||..-++.|-.+|+..|+|.++.=  +.|   |.+.+.   =|+|=
T Consensus        87 ---lek-~~----DL~~iLt~---l~~~dvLFIDEIHRl~~~vEE~LY~AMEDf~iDi~iG~g~~Ar~~~i~L~pFTLIG  155 (328)
T PRK00080         87 ---LEK-AG----DLAALLTN---LEEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIG  155 (328)
T ss_pred             ---CCC-HH----HHHHHHHH---CCCCCEEEEHHHHHCCHHHHHHHHHHHHHCEEEEEECCCCCCEEEECCCCCEEEEE
T ss_conf             ---167-47----89999960---88787676506532488899885798775234578647865324555899834740


Q ss_pred             ECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHH
Q ss_conf             54851268764032679999999998628857726668158628899899999999999999999985798999988999
Q gi|254780877|r  716 MTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVI  795 (853)
Q Consensus       716 ~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~  795 (853)
                      .|+-.|.                     .+..|.+|+.-+.-|+.++.+++.+|+..-.         .-..+.+++++.
T Consensus       156 ATTr~g~---------------------Ls~PLrdRFGi~~~l~~Y~~eeL~~Ii~rsa---------~~l~i~i~~~~~  205 (328)
T PRK00080        156 ATTRAGL---------------------LTSPLRDRFGIVQRLEFYTVEELEKIVKRSA---------RILGIEIDEEGA  205 (328)
T ss_pred             CCCCCCC---------------------CCHHHHHHCCCEEEECCCCHHHHHHHHHHHH---------HHHCCCCCHHHH
T ss_conf             1367665---------------------7767897579336634589999999999999---------983988789999


Q ss_pred             HHHHHCCC-CCCCCCHHHHHH
Q ss_conf             99997089-822062157999
Q gi|254780877|r  796 DWLSCRGY-DPSYGARPLKRV  815 (853)
Q Consensus       796 ~~l~~~~~-~~~~GaR~l~r~  815 (853)
                      ..|+.++- .|..--|=|+|+
T Consensus       206 ~eIA~rSRGTPRiAnrLLrRv  226 (328)
T PRK00080        206 LEIARRSRGTPRIANRLLRRV  226 (328)
T ss_pred             HHHHHHCCCCCHHHHHHHHHH
T ss_conf             999986389839999999999


No 68 
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=99.25  E-value=3e-11  Score=110.37  Aligned_cols=149  Identities=28%  Similarity=0.388  Sum_probs=102.6

Q ss_pred             CHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCC
Q ss_conf             94899999999998741012365665128987267861688999999987237765300224477403453201304771
Q gi|254780877|r  572 GQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPP  651 (853)
Q Consensus       572 gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGapp  651 (853)
                      ||+.....+...+...         |....||.||+|+|||.+|+++|+.+....-.++.++.+++......+...+.. 
T Consensus         2 ~~~~~~~~l~~~~~~~---------~~~~ill~GppGtGKT~la~~ia~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-   71 (151)
T cd00009           2 GQEEAIEALREALELP---------PPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHF-   71 (151)
T ss_pred             CCHHHHHHHHHHHHCC---------CCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCEEEEEHHHCCHHHHHHHHHHHH-
T ss_conf             8579999999998187---------998089989999886599999999712137982785477704677775760577-


Q ss_pred             HHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHH
Q ss_conf             12035667742113221564102202144149899999999840457887999778303315595485126876403267
Q gi|254780877|r  652 GYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDS  731 (853)
Q Consensus       652 GYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~  731 (853)
                            ..............+|+++|||+++.+...+.++++|+...-.     .....++.+|++||-...        
T Consensus        72 ------~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~l~~~~~~-----~~~~~~~~vI~~tn~~~~--------  132 (151)
T cd00009          72 ------LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDL-----RIDRENVRVIGATNRPLL--------  132 (151)
T ss_pred             ------HHHHHHHHHHHCCCCEEEEECHHHCCHHHHHHHHHHHHHHCCC-----CCCCCCEEEEEEECCCCC--------
T ss_conf             ------8898999999769986982016655999999999999871575-----406788899995289988--------


Q ss_pred             HHHHHHHHHHHHCCHHHHCCCCCEEECC
Q ss_conf             9999999998628857726668158628
Q gi|254780877|r  732 VHDKVMGIVRSAFKPEFLNRLDEIILFE  759 (853)
Q Consensus       732 ~~~~~~~~l~~~f~peflnRid~iv~F~  759 (853)
                                ..|.+.+.+|++..+.|.
T Consensus       133 ----------~~~~~~~~~R~~~~i~~~  150 (151)
T cd00009         133 ----------GDLDRALYDRLDIRIVIP  150 (151)
T ss_pred             ----------CCHHHHHHCCCCEEEECC
T ss_conf             ----------683776425598698638


No 69 
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=99.24  E-value=7.1e-10  Score=99.24  Aligned_cols=222  Identities=23%  Similarity=0.351  Sum_probs=149.7

Q ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCC--CCCCCCCCHHHHCCC
Q ss_conf             554776745948999999999987410123656651289872678616889999999872377--653002244774034
Q gi|254780877|r  563 ETEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDD--ENSMIRIDMSEYMEK  640 (853)
Q Consensus       563 ~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~--~~~lir~dMsey~e~  640 (853)
                      .......+||.+.+...+.+.++.    +...+.|+   |..|+||+||+-.|..+. .+-..  +..+|.|||+.|++.
T Consensus        73 ~~~~~~~LIG~~~~~~~~~eqik~----~ap~~~~v---Li~GetGtGKel~A~~iH-~~s~r~~~~PFI~~NCa~~~en  144 (403)
T COG1221          73 KSEALDDLIGESPSLQELREQIKA----YAPSGLPV---LIIGETGTGKELFARLIH-ALSARRAEAPFIAFNCAAYSEN  144 (403)
T ss_pred             CCHHHHHHHCCCHHHHHHHHHHHH----HCCCCCCE---EEECCCCCCHHHHHHHHH-HHHHCCCCCCEEEEEHHHHCCC
T ss_conf             221566663568889999999986----18999847---986688753889999999-8612135898799777773767


Q ss_pred             CCCCHHHCCCCHHCCCCCCCCCCHHHHCCC-------CCEEEEHHHHHCCHHHHHHHHHHHHCCEEEC---CCCCEEECC
Q ss_conf             532013047711203566774211322156-------4102202144149899999999840457887---999778303
Q gi|254780877|r  641 HSVSRLIGSPPGYVGYEEGGALTEAVRRHP-------YQVVLFDEIEKAHSDVHNILLQVLDDGRLTD---SQGRTVDFR  710 (853)
Q Consensus       641 ~~vs~LiGappGYvG~~~gg~Lte~vr~~P-------~sVil~DEiEKah~~v~~~llqild~G~ltd---~~G~~v~f~  710 (853)
                      .--+.|+|--.        |.+|.+-..+|       -..+++|||--..|.++..||+++|+|.++-   ...+.+|++
T Consensus       145 ~~~~eLFG~~k--------GaftGa~~~k~Glfe~A~GGtLfLDEI~~LP~~~Q~kLl~~le~g~~~rvG~~~~~~~dVR  216 (403)
T COG1221         145 LQEAELFGHEK--------GAFTGAQGGKAGLFEQANGGTLFLDEIHRLPPEGQEKLLRVLEEGEYRRVGGSQPRPVDVR  216 (403)
T ss_pred             HHHHHHHCCCC--------CEEECCCCCCCCHHEECCCCEEEHHHHHHCCHHHHHHHHHHHHCCCEEECCCCCCCCCCCE
T ss_conf             77777732000--------0002566786764205279777656365379858999999987186576688888677740


Q ss_pred             CCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHC-CCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEE
Q ss_conf             3155954851268764032679999999998628857726-668158628899899999999999999999985798999
Q gi|254780877|r  711 NTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLN-RLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMD  789 (853)
Q Consensus       711 n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~pefln-Rid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~  789 (853)
                         +|+-||.          ...    +.+..-  ..|.- |+..+|-.-||... ...|..+.--=+.......++.+.
T Consensus       217 ---li~AT~~----------~l~----~~~~~g--~dl~~rl~~~~I~LPpLrER-~~Di~~L~e~Fl~~~~~~l~~~~~  276 (403)
T COG1221         217 ---LICATTE----------DLE----EAVLAG--ADLTRRLNILTITLPPLRER-KEDILLLAEHFLKSEARRLGLPLS  276 (403)
T ss_pred             ---EEECCCC----------CHH----HHHHHH--CCHHHHHCCCEECCCCHHHC-HHHHHHHHHHHHHHHHHHCCCCCC
T ss_conf             ---4513566----------879----998740--52556416754318972435-555999999999999997399988


Q ss_pred             EC-HHHHHHHHHCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             98-8999999970898220621579999987334
Q gi|254780877|r  790 FD-DQVIDWLSCRGYDPSYGARPLKRVIQRYIQN  822 (853)
Q Consensus       790 ~~-~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~~  822 (853)
                      .. +.+...+.  .|+-.-..|.|+..|+..+..
T Consensus       277 ~~~~~a~~~L~--~y~~pGNirELkN~Ve~~~~~  308 (403)
T COG1221         277 VDSPEALRALL--AYDWPGNIRELKNLVERAVAQ  308 (403)
T ss_pred             CCCHHHHHHHH--HCCCCCCHHHHHHHHHHHHHH
T ss_conf             88899999998--488998399999999999997


No 70 
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=99.23  E-value=2.1e-10  Score=103.54  Aligned_cols=125  Identities=22%  Similarity=0.412  Sum_probs=60.9

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCC----CCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCC
Q ss_conf             674594899999999998741012----3656651289872678616889999999872377653002244774034532
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGL----QDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSV  643 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl----~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~v  643 (853)
                      ..|+||+++++.+-++++..|+|+    ..+++-.-.|||+||.|+|||.+|+++|..|+-....--  .+.+.   .+.
T Consensus         5 ~~ivGQe~v~~~L~~A~~~~R~~~~~~~~~~~~~~HAyLF~Gp~G~Gk~~~A~~~A~~l~C~~~~~~--~cg~C---~~C   79 (395)
T PRK07940          5 DRLVGQDAVVAELRAAARAARADSAHSAAAGSGMTHAWLFTGPPGSGRSNAARAFAAALQCTDPGVP--GCGEC---RAC   79 (395)
T ss_pred             HHHCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCC--CCCCC---HHH
T ss_conf             1315929999999999983634344333346876603763689987889999999999669999999--99878---789


Q ss_pred             C-HHHCCCCHHC---------CCCCCCCCCHHHHCCC----CCEEEEHHHHHCCHHHHHHHHHHHHCC
Q ss_conf             0-1304771120---------3566774211322156----410220214414989999999984045
Q gi|254780877|r  644 S-RLIGSPPGYV---------GYEEGGALTEAVRRHP----YQVVLFDEIEKAHSDVHNILLQVLDDG  697 (853)
Q Consensus       644 s-~LiGappGYv---------G~~~gg~Lte~vr~~P----~sVil~DEiEKah~~v~~~llqild~G  697 (853)
                      - -.-|+-|-+.         |-|+=-.|.+.+..+|    |-|+++|+.|+..+.-.|.||..|+|-
T Consensus        80 ~~i~~g~hpDv~~i~p~~~~i~id~iR~l~~~~~~~p~~~~~kv~ii~~a~~m~~~a~NalLKtLEEP  147 (395)
T PRK07940         80 RTVLAGTHPDVRVVVPEGLSIGVDEVREIVQIAARRPTTGRWRIVVIEDADRLTERAANALLKAVEEP  147 (395)
T ss_pred             HHHHCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEEECHHHHCHHHHHHHHHHHCCC
T ss_conf             99876899871898268776889999999999852730379559998077874899999999852178


No 71 
>PRK04195 replication factor C large subunit; Provisional
Probab=99.23  E-value=1e-10  Score=106.15  Aligned_cols=181  Identities=18%  Similarity=0.307  Sum_probs=120.7

Q ss_pred             HHHHHCCCCCCCCCHHHHHHHHHHHHC-----CCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHH
Q ss_conf             699872985333335789999999633-----677786689528874077799999998734899844457437887313
Q gi|254780877|r  169 TEEARNGKLDPVIGRDDEMRRAIQVLS-----RRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMG  243 (853)
Q Consensus       169 Te~Ar~GkLDPVIGRe~EI~~~~~iL~-----r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~  243 (853)
                      +++-|=..++-++|-++-++.+..-+.     +..+...+|.|+||||||+++..+|...          |..+++++.+
T Consensus         5 veKYRPk~~~divg~~~~v~~l~~Wl~~w~~g~~~~k~lLL~GPpGvGKTT~a~~lAk~~----------g~~viElNAS   74 (403)
T PRK04195          5 VEKYRPKSLSDVVGNEKAKKQLREWIESWLKGKPPKKALLLYGPPGVGKTSLAHALANDY----------GWEVIELNAS   74 (403)
T ss_pred             CCCCCCCCHHHHHCCHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHH----------CCCEEEECCC
T ss_conf             402189989998588999999999999987399657469988939987999999999984----------9985997710


Q ss_pred             HHHCCCCCCCHHHHHHHHHHHHHHHC-----CCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHH
Q ss_conf             54217454202454589999998607-----9976999636277302666554335888876531246604899744899
Q gi|254780877|r  244 ALIAGAKFRGEFEERLKSLLCEIRSE-----DGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGATTLDE  318 (853)
Q Consensus       244 ~l~ag~~~rg~~e~r~~~i~~~~~~~-----~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaTT~~E  318 (853)
                          ......    .++.++......     .+.-|+++||+|.+-|.+-.+|--..-+++|.    ....+|.+++ +-
T Consensus        75 ----D~R~~~----~I~~~i~~~~~~~sl~~~~~KlIIlDEvD~l~~~~d~gg~~al~~~ik~----s~~PiIli~N-d~  141 (403)
T PRK04195         75 ----DQRTKD----VIERVAGEASTSGSLFGAKRKLILLDEVDGIHGNADRGGVRAILEIIKK----AKNPIILTAN-DP  141 (403)
T ss_pred             ----CCCCHH----HHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHC----CCCEEEEEEC-CC
T ss_conf             ----114789----9999999876068877887349996343445724447999999999854----8870899826-84


Q ss_pred             HHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q ss_conf             9997300111320231111157776789999999789865414961015899999863332
Q gi|254780877|r  319 YRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNR  379 (853)
Q Consensus       319 yrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~r  379 (853)
                      |.+.+   ..|-.|-+.|....|+.++....|+-+...    .|++++++||...+..|+-
T Consensus       142 ~~~~~---~~lrs~c~~i~F~~~~~~~I~~~L~~I~~~----Egi~i~~~aL~~Ia~~s~G  195 (403)
T PRK04195        142 YDPSL---RPLRNACLMIEFKRLSKRSIVPVLKRICRK----EGIECEEEALREIAERSGG  195 (403)
T ss_pred             CCCCH---HHHHHHHHHCCCCCCCHHHHHHHHHHHHHH----CCCCCCHHHHHHHHHHCCC
T ss_conf             55671---779976612217994999999999999997----6999999999999998797


No 72 
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=99.22  E-value=1.3e-07  Score=80.82  Aligned_cols=66  Identities=18%  Similarity=0.279  Sum_probs=57.6

Q ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCH-HHHHHHCCCCHHHHHHHHHHHHCCCC
Q ss_conf             6989999999999999971987025999876687277517-88999759998999999998737788
Q gi|254780877|r   83 LSQPLAVILSKSEEIAKKSGDSFVTAEKFLLAMVMETGGI-GESLKKCGLKFSRLEESIKKLRKGRV  148 (853)
Q Consensus        83 ~S~~l~rvL~~A~~~A~~~g~~~I~~ehLLlAIl~e~~s~-a~iL~~~gi~~~~l~e~i~~~~~~~~  148 (853)
                      +|+.++.+|+.|...|..+++.+|+++|||+||+.+.++. ..+|.++|++...+.+.+.......+
T Consensus         1 Lt~~~~~aL~~A~~~A~~~~H~~I~~eHLLlaLl~~~~~~~~~iL~~~gvd~~~l~~~l~~~l~~~~   67 (852)
T TIGR03345         1 LNPTSRRALEQAAALCVARGHPEVELEHWLLALLDQPDSDLAAILRHFGVDLGRLKADLARALDKLP   67 (852)
T ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHCC
T ss_conf             9889999999999999985998138999999998399747999999869999999999999996389


No 73 
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=99.22  E-value=4.3e-08  Score=84.72  Aligned_cols=208  Identities=21%  Similarity=0.305  Sum_probs=138.4

Q ss_pred             CCCCCHHHHHHHHHHHH----CCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHH---------
Q ss_conf             33333578999999963----36777866895288740777999999987348998444574378873135---------
Q gi|254780877|r  178 DPVIGRDDEMRRAIQVL----SRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGA---------  244 (853)
Q Consensus       178 DPVIGRe~EI~~~~~iL----~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~---------  244 (853)
                      |-+.|||+|++++...|    ....-+|.++.|+||+|||+.|.-+...+.+..     .+..++.+|-..         
T Consensus        30 ~~l~~Re~Ei~~l~~~l~~~l~g~~~~n~~I~G~pGTGKT~~vk~v~~~l~~~~-----~~~~~vyINc~~~~t~~~i~~  104 (394)
T PRK00411         30 ENLPHREEQIEELAFALRPALRGSRPSNVLILGPPGTGKTTTVKKVFEELEEAA-----LKVVYVYINCQIDRTRYAILS  104 (394)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHC-----CCCEEEEEECCCCCCHHHHHH
T ss_conf             989885999999999999997599998479988999989999999999999746-----896599996966898999999


Q ss_pred             -H---HCCCC--CCCH-HHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHH-H-HHCCCCEEEEEEEC
Q ss_conf             -4---21745--4202-4545899999986079976999636277302666554335888876-5-31246604899744
Q gi|254780877|r  245 -L---IAGAK--FRGE-FEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLK-P-SLARGELHCIGATT  315 (853)
Q Consensus       245 -l---~ag~~--~rg~-~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LK-P-~LarG~l~~IgaTT  315 (853)
                       +   +-|.+  .+|- +.+-+..+.+.+....+.+|+.+||+..|+.   ..|.--.=+++. | .+..-.+-+||.+.
T Consensus       105 ~i~~~L~~~~~p~~G~s~~~~~~~l~~~l~~~~~~~ivvLDEiD~L~~---~~~~~vLY~L~r~~~~~~~~~~~vI~IsN  181 (394)
T PRK00411        105 EIARSLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLVE---KEGNDVLYSLLRAHEEYPGARIGVIGISS  181 (394)
T ss_pred             HHHHHHCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCCCC---CCCCHHHHHHHHCCCCCCCCCEEEEEEEC
T ss_conf             999995699898778789999999999861669758999965540203---66508999998540226887389999976


Q ss_pred             HHHHHHHHHCCHHHHHCC--CEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHH
Q ss_conf             899999730011132023--111115777678999999978986541496101589999986333202457674778999
Q gi|254780877|r  316 LDEYRKYIEKDPALARRF--QSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDL  393 (853)
Q Consensus       316 ~~Eyrk~iEkD~Al~RRF--q~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDl  393 (853)
                      .-.+...+  |+.+..||  +.|.-.+=+.++...||+.-..  +.|+.=.++++||..|+.++.+==.|   --+|||+
T Consensus       182 ~~~~~~~L--dprv~S~l~~~~i~F~PY~~~qL~~IL~~R~~--~af~~gv~~~~~i~~~A~~~a~~~GD---aR~Aldl  254 (394)
T PRK00411        182 DLTFLYIL--DPRVKSVFGPEEIVFPPYTADEIFDILKDRVE--EGFYPGVVSDEVLELIADLTGREHGD---ARVAIDL  254 (394)
T ss_pred             CCCHHHHH--HHHHHCCCCCEEEEECCCCHHHHHHHHHHHHH--HCCCCCCCCHHHHHHHHHHHHHCCCC---HHHHHHH
T ss_conf             87177664--07775027862898589998999999999998--41455678978999999998550475---8999999


Q ss_pred             HHHHHHH
Q ss_conf             9999998
Q gi|254780877|r  394 MDEASAR  400 (853)
Q Consensus       394 lDeA~A~  400 (853)
                      +-.|+-.
T Consensus       255 lr~A~e~  261 (394)
T PRK00411        255 LRRAGEI  261 (394)
T ss_pred             HHHHHHH
T ss_conf             9999999


No 74 
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=99.22  E-value=1.1e-10  Score=105.74  Aligned_cols=185  Identities=13%  Similarity=0.261  Sum_probs=117.1

Q ss_pred             CCCCCCHHHHHHHHHHHHCCCCCCC-EEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHH
Q ss_conf             5333335789999999633677786-689528874077799999998734899844457437887313542174542024
Q gi|254780877|r  177 LDPVIGRDDEMRRAIQVLSRRTKNN-PVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEF  255 (853)
Q Consensus       177 LDPVIGRe~EI~~~~~iL~r~~k~n-~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~  255 (853)
                      ++-|||-+.=++.+..-+...+=++ -++.|++|||||+.+..+|+.+....-...-.+  ++.++..   .+.+. |  
T Consensus         3 f~~iiGq~~i~~~L~~~i~~~rl~HAyLF~Gp~G~GK~~~A~~~A~~ll~~~~~~~~~D--~~~~~~~---~~~~I-~--   74 (313)
T PRK05564          3 FRTIIGHENIKNRIDNSIIKGKFSHASLIVGEDGIGKSILAKEIANKILGKSEQREYVD--IIEYKPI---NKKSI-G--   74 (313)
T ss_pred             HHHCCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCC--EEEEECC---CCCCC-C--
T ss_conf             32326829999999999987998750432799985099999999999828997788986--5886332---25699-9--


Q ss_pred             HHHHHHHHHHHHHC---CCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC--CCEEEEEEECHHHHHHHHHCCHHHH
Q ss_conf             54589999998607---997699963627730266655433588887653124--6604899744899999730011132
Q gi|254780877|r  256 EERLKSLLCEIRSE---DGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR--GELHCIGATTLDEYRKYIEKDPALA  330 (853)
Q Consensus       256 e~r~~~i~~~~~~~---~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar--G~l~~IgaTT~~Eyrk~iEkD~Al~  330 (853)
                      =+.++.+++.+...   .+.-|.+||+.|++        +..|+|-|-=.|..  +..-+|=+||..  .+-.   +-+-
T Consensus        75 vd~IR~l~~~~~~~p~~g~~KV~II~~ae~m--------~~~AaNALLKtLEEPP~~t~fIL~t~~~--~~lL---pTI~  141 (313)
T PRK05564         75 VDDIRNIIEEVNKKPYEGDKKVIIIYKSEKM--------TEQAQNAFLKTIEEPPKGVFIILLCENL--EQIL---DTIK  141 (313)
T ss_pred             HHHHHHHHHHHHHCCCCCCCEEEEECCHHHH--------CHHHHHHHHHCCCCCCCCEEEEEEECCH--HHCC---CHHH
T ss_conf             8999999999840862589569998077775--------8999999845503689985899864983--5475---7787


Q ss_pred             HCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             023111115777678999999978986541496101589999986333202457674778999999
Q gi|254780877|r  331 RRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDE  396 (853)
Q Consensus       331 RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDe  396 (853)
                      .|-|.+.+..++.++....|.      +.+++  ++.++...++.+|+-      .|.+|.+++..
T Consensus       142 SRCQ~~~f~~l~~~~i~~~L~------~~~~~--~~~~~~~~~~~~s~G------~~~~a~~~~~~  193 (313)
T PRK05564        142 SRCQIYKLNRLSKEDIEKFIS------YKYND--IDEENKNSAIAFSDG------IPGKVEKFIED  193 (313)
T ss_pred             CCCEEEECCCCCHHHHHHHHH------HHCCC--CCHHHHHHHHHHCCC------CHHHHHHHHHH
T ss_conf             065356689989999999999------86258--999999999998299------87999998405


No 75 
>pfam00158 Sigma54_activat Sigma-54 interaction domain.
Probab=99.22  E-value=1.9e-10  Score=103.84  Aligned_cols=162  Identities=20%  Similarity=0.357  Sum_probs=118.8

Q ss_pred             HCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCC
Q ss_conf             45948999999999987410123656651289872678616889999999872377653002244774034532013047
Q gi|254780877|r  570 VIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGS  649 (853)
Q Consensus       570 v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGa  649 (853)
                      +||+..++..+.+.+.+.    ...+.|+   |..|++|+||+.+|+++-+.=.-...+++++||+.+.+..--+.|+|.
T Consensus         1 lIG~S~~m~~l~~~i~~~----a~~~~pV---LI~GE~GtGK~~lAr~IH~~S~r~~~pfi~vnc~~~~~~~le~~LFG~   73 (168)
T pfam00158         1 LIGESPAMQEVLELAKRV----APTDATV---LITGESGTGKELFARAIHQLSPRADGPFVAVNCAAIPEELLESELFGH   73 (168)
T ss_pred             CEECCHHHHHHHHHHHHH----HCCCCCE---EEECCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHCCC
T ss_conf             973899999999999999----5889988---998999888899999999852435688312567899877999987587


Q ss_pred             CCH-HCCCC--CCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHH
Q ss_conf             711-20356--677421132215641022021441498999999998404578879997783033155954851268764
Q gi|254780877|r  650 PPG-YVGYE--EGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLI  726 (853)
Q Consensus       650 ppG-YvG~~--~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~  726 (853)
                      .+| |-|-.  .-|.|.    +--.+.++||||+...++++.-||+++++|.++--.+..---.|+=||.||+.      
T Consensus        74 ~~g~f~ga~~~~~G~le----~A~gGTL~LdeI~~L~~~~Q~~Ll~~L~~~~~~~~g~~~~~~~~vRiIast~~------  143 (168)
T pfam00158        74 EKGAFTGAVSDRKGLFE----LADGGTLFLDEIGELPLELQAKLLRVLQEGEFERVGGTKPIKVDVRIIAATNR------  143 (168)
T ss_pred             CCCCCCCCCCCCCCCEE----ECCCCEEECCCHHHCCHHHHHHHHHHHHCCEEEECCCCCEEEEEEEEEEECCC------
T ss_conf             66766898757899642----26998788024413999999999999857969977998458885499996598------


Q ss_pred             CCHHHHHHHHHHH-HHHHCCHHHHCCCCCEEE
Q ss_conf             0326799999999-986288577266681586
Q gi|254780877|r  727 EDGDSVHDKVMGI-VRSAFKPEFLNRLDEIIL  757 (853)
Q Consensus       727 ~~~~~~~~~~~~~-l~~~f~peflnRid~iv~  757 (853)
                              .+.+. -+..|+++|+-|+. ++.
T Consensus       144 --------~L~~~v~~G~Fr~DLyyrLn-v~~  166 (168)
T pfam00158       144 --------DLEEAVAEGRFREDLYYRLN-VVP  166 (168)
T ss_pred             --------CHHHHHHCCCCHHHHHHHHC-EEE
T ss_conf             --------89999883996399888865-232


No 76 
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=99.22  E-value=4.4e-09  Score=92.77  Aligned_cols=159  Identities=25%  Similarity=0.437  Sum_probs=117.0

Q ss_pred             CCCCCCCHHHHH---HHHHHHH---------CCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHH
Q ss_conf             853333357899---9999963---------3677786689528874077799999998734899844457437887313
Q gi|254780877|r  176 KLDPVIGRDDEM---RRAIQVL---------SRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMG  243 (853)
Q Consensus       176 kLDPVIGRe~EI---~~~~~iL---------~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~  243 (853)
                      .++-|.|-|+.-   +++++-|         .-|--..++|+|+||+|||-++..+|-   +..|       -+|++.-+
T Consensus       150 tF~DVaG~~eaK~el~EiVdfLk~P~k~~~~Gak~PkGvLL~GPPGtGKTlLAkAvAg---Ea~v-------pF~~~sgs  219 (644)
T PRK10733        150 TFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAG---EAKV-------PFFTISGS  219 (644)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHCHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHC---CCCC-------EEEEEEHH
T ss_conf             7104089789999999999981297999974997998517779899877899999864---5598-------08997847


Q ss_pred             HHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCC--CCCCC-HHHHHHHHH-------CCCCEEEEEE
Q ss_conf             5421745420245458999999860799769996362773026665--54335-888876531-------2466048997
Q gi|254780877|r  244 ALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKT--DGAMD-ASNLLKPSL-------ARGELHCIGA  313 (853)
Q Consensus       244 ~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~--~g~~D-aan~LKP~L-------arG~l~~Iga  313 (853)
                      .++  .+|.|.=+.|++.+...+++. .++|+|||||..+-+.-++  .|+-| -.+.|-+.|       .+..+-+|||
T Consensus       220 ef~--e~~vGvga~rVR~lF~~Ar~~-aP~IIFIDEiDaig~~R~~~~~gg~~e~~~tlNqlL~EmDGf~~~~~ViviaA  296 (644)
T PRK10733        220 DFV--EMFVGVGASRVRDMFEQAKKA-APCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAA  296 (644)
T ss_pred             HHH--HEEEECCHHHHHHHHHHHHHC-CCEEEEEECHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEEEE
T ss_conf             730--222530689999999999966-99799995322036667898889832888789999999548888787699962


Q ss_pred             ECHHHHHHHHHCCHHHHH--CCCE-EECCCCCHHHHHHHHHH
Q ss_conf             448999997300111320--2311-11157776789999999
Q gi|254780877|r  314 TTLDEYRKYIEKDPALAR--RFQS-LLVGEPTVTDTISILRG  352 (853)
Q Consensus       314 TT~~Eyrk~iEkD~Al~R--RFq~-i~V~Eps~~~t~~iL~g  352 (853)
                      |---+     -=|+||-|  ||.+ |.|.-|+.+.-.+||+-
T Consensus       297 TNrpd-----~LD~ALlRPGRFDr~I~V~lPd~~~R~~ILkv  333 (644)
T PRK10733        297 TNRPD-----VLDPALLRPGRFDRQVVVGLPDVRGREQILKV  333 (644)
T ss_pred             CCCCC-----CCCHHHHCCCCCCEEEEECCCCHHHHHHHHHH
T ss_conf             69975-----54777716888655999779898899999999


No 77 
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=99.22  E-value=8.2e-10  Score=98.69  Aligned_cols=203  Identities=22%  Similarity=0.273  Sum_probs=142.8

Q ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEE-ECCCCCCHHHHHHHHHHHHHCCCCCHH----------H-CCC
Q ss_conf             5699872985333335789999999633677786689-528874077799999998734899844----------4-574
Q gi|254780877|r  168 LTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVL-IGDPGVGKTAIIEGLASRIINGDIPES----------L-KGK  235 (853)
Q Consensus       168 LTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~l-vGe~GvGKtaive~la~~i~~~~vp~~----------l-~~~  235 (853)
                      |..+.|-..++-|||-+.-++.+...+.+.+-..+.| .|+.|||||+++.-+|..+.-..-++.          . ...
T Consensus         8 L~RKYRPk~F~EVIGQe~Vv~tL~nAI~~gRIaHAYLF~GPRGvGKTT~ARIfAKaLNC~~~~d~~~pC~~C~~~~~~s~   87 (718)
T PRK07133          8 LYRKYRPKKFDEIKGQDHIIETLKNIIKSGKISHAYLFSGPHGTGKTSVAKIFANALNCSHKTDLIEPCQNCIENFNNNL   87 (718)
T ss_pred             HHHHHCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHCCCCCC
T ss_conf             99872899754422859999999999974997505862389986889999999999679999999997702143047898


Q ss_pred             EEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCC--C-CEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC--CCEEE
Q ss_conf             37887313542174542024545899999986079--9-7699963627730266655433588887653124--66048
Q gi|254780877|r  236 RLMALDMGALIAGAKFRGEFEERLKSLLCEIRSED--G-EIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR--GELHC  310 (853)
Q Consensus       236 ~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~--~-~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar--G~l~~  310 (853)
                      -++++|.      ++-+|=  +.++.+++.+.-.+  | --|.-|||+|+|-        ..|.|-|--.|..  ....+
T Consensus        88 DViEIDA------ASn~gV--DdIReLie~v~y~P~~gkYKVyIIDEvHMLS--------~~AfNALLKtLEEPP~hvvF  151 (718)
T PRK07133         88 DIIEMDA------ASNNGV--DEIRELRENVKNLPQISKYKIYIIDEVHMLS--------KSAFNALLKTLEEPPKHVIF  151 (718)
T ss_pred             CEEEECC------CCCCCH--HHHHHHHHHHCCCCCCCCEEEEEEECCCCCC--------HHHHHHHHHHHCCCCCCCEE
T ss_conf             7377545------566888--9999999982558877872499996620079--------99999999850279878279


Q ss_pred             EEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHH
Q ss_conf             99744899999730011132023111115777678999999978986541496101589999986333202457674778
Q gi|254780877|r  311 IGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKA  390 (853)
Q Consensus       311 IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKA  390 (853)
                      |-|||.-+  |.-   +..-.|-|+....-.+.++...-|+.+...    .++.|.++||...++.|.-=+.|      |
T Consensus       152 ILaTTep~--KIP---~TIlSRCQrFdFkrI~~~~I~~~L~~I~~k----E~I~~e~eAL~lIA~~a~GSmRD------A  216 (718)
T PRK07133        152 ILATTDVQ--KIP---LTILSRVQRFNFRRISEDVIVHQLENILEK----EKIKYEKNALKLIASLASGSLRD------A  216 (718)
T ss_pred             EEEECCHH--HCC---HHHHHCCEEEECCCCCHHHHHHHHHHHHHH----CCCCCCHHHHHHHHHHCCCCHHH------H
T ss_conf             99708825--484---877412203358889999999999999998----59977899999999976884888------9


Q ss_pred             HHHHHHHHHHH
Q ss_conf             99999999987
Q gi|254780877|r  391 IDLMDEASARV  401 (853)
Q Consensus       391 IDllDeA~A~~  401 (853)
                      +.+||.+.+.-
T Consensus       217 lSlLDQv~~f~  227 (718)
T PRK07133        217 LSIADQVSIFG  227 (718)
T ss_pred             HHHHHHHHHHC
T ss_conf             87999999854


No 78 
>TIGR02902 spore_lonB ATP-dependent protease LonB; InterPro: IPR014251   This entry represents LonB, a paralog of the ATP-dependent protease La (LonA, IPR004815 from INTERPRO). LonB proteins are unassigned peptidases belonging to the MEROPS peptidase family S16 (lon protease family, clan SJ) and are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore during sporulation, under control of sigmaF . The lonB gene, despite being located immediately upstream of lonA, was shown to be monocistronic. LonB appears to be involved in the post-translation control of sigmaH, but lonB mutation did not produce an obvious sporulation defect under the conditions tested . Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and these are excluded from this entry. .
Probab=99.21  E-value=3.7e-10  Score=101.51  Aligned_cols=206  Identities=28%  Similarity=0.490  Sum_probs=145.6

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHH-------CCCCCCCCCCCHHH--H
Q ss_conf             76745948999999999987410123656651289872678616889999999872-------37765300224477--4
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLL-------FDDENSMIRIDMSE--Y  637 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~l-------f~~~~~lir~dMse--y  637 (853)
                      -+.||||++-|+++       ||-|.-|| |.-+.++ ||+|||||--|+..=++=       |+++-+|+=+|=.-  |
T Consensus        64 F~EIiGQe~GI~AL-------KAALCGPN-PQHVIiY-GPPGVGKTAAARLVLeeAKk~~~SPFke~A~FVEiDATT~RF  134 (532)
T TIGR02902        64 FDEIIGQEEGIKAL-------KAALCGPN-PQHVIIY-GPPGVGKTAAARLVLEEAKKNPASPFKEEAAFVEIDATTARF  134 (532)
T ss_pred             CCCCCCCHHHHHHH-------HHHCCCCC-CCEEEEE-CCCCCCHHHHHHHHHHHHHCCCCCCCCCCCEEEEEECCCCCC
T ss_conf             33256735568999-------98606868-9638987-886961789999999986508753789886689850510360


Q ss_pred             CCCCCCCHHHCC--CCHHCCCCCCCCC---------CHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCE
Q ss_conf             034532013047--7112035667742---------11322156410220214414989999999984045788799977
Q gi|254780877|r  638 MEKHSVSRLIGS--PPGYVGYEEGGAL---------TEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRT  706 (853)
Q Consensus       638 ~e~~~vs~LiGa--ppGYvG~~~gg~L---------te~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~  706 (853)
                      =|+-=+-=||||  -|=|=|=   |-|         ..||-+---.|+++|||==-||=-+|-||-||+|=        +
T Consensus       135 DERGIADPLIGSVHDPIYQGA---GplG~AGIPQPK~GAVT~AHGGvLFIDEIGELHP~~MNKLLKVLEDR--------K  203 (532)
T TIGR02902       135 DERGIADPLIGSVHDPIYQGA---GPLGVAGIPQPKPGAVTKAHGGVLFIDEIGELHPVQMNKLLKVLEDR--------K  203 (532)
T ss_pred             CCCCCCCCCCCCCCCCCCCCC---CCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCHHHHHHHHHHHHCC--------C
T ss_conf             214666656776158533376---54578855758777632025865512124665824353141133022--------2


Q ss_pred             EECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHH-----------------CCHHHHCCCCCEEECCCCCHHHHHHH
Q ss_conf             8303315595485126876403267999999999862-----------------88577266681586288998999999
Q gi|254780877|r  707 VDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSA-----------------FKPEFLNRLDEIILFEKLRKEDMAKI  769 (853)
Q Consensus       707 v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~-----------------f~peflnRid~iv~F~~l~~~~~~~i  769 (853)
                      |=|-.+..           ..+..++-+.+.+.-.+-                 .+|.+..|.=| |.|++|..++++.|
T Consensus       204 VFLdSAYY-----------~s~~pniP~hI~dIFqnGlPADFRLiGATTR~PeEIpPAlRSRC~E-IFFR~L~~EEi~~i  271 (532)
T TIGR02902       204 VFLDSAYY-----------SSEDPNIPSHIRDIFQNGLPADFRLIGATTRNPEEIPPALRSRCVE-IFFRPLLKEEIKEI  271 (532)
T ss_pred             CHHHCCCC-----------CCCCCCCCHHHHHHHCCCCCCCEECCCCCCCCCCCCCHHHHCCCEE-EEECCCCHHHHHHH
T ss_conf             00001235-----------8777865427899720678734012133369877678346505226-77168887899999


Q ss_pred             HHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHH
Q ss_conf             999999999999857989999889999999708982206215799999
Q gi|254780877|r  770 VRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQ  817 (853)
Q Consensus       770 ~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~  817 (853)
                      +++-.         .+|.+.+++++.+.|..+.   ..| |..-..||
T Consensus       272 Ak~Aa---------eKIg~~l~~~Al~~I~~Ya---~nG-REAvN~~Q  306 (532)
T TIGR02902       272 AKNAA---------EKIGLNLEKEALDLIAKYA---SNG-REAVNLVQ  306 (532)
T ss_pred             HHHHH---------HHCCCCCCHHHHHHHHHHH---CCC-CHHHHHHH
T ss_conf             87656---------5304654754799999874---054-06778999


No 79 
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=99.21  E-value=6.8e-10  Score=99.37  Aligned_cols=203  Identities=20%  Similarity=0.184  Sum_probs=134.2

Q ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCC-CEEEECCCCCCHHHHHHHHHHHHHCCCCCH-----------HH-C-
Q ss_conf             569987298533333578999999963367778-668952887407779999999873489984-----------44-5-
Q gi|254780877|r  168 LTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKN-NPVLIGDPGVGKTAIIEGLASRIINGDIPE-----------SL-K-  233 (853)
Q Consensus       168 LTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~-n~~lvGe~GvGKtaive~la~~i~~~~vp~-----------~l-~-  233 (853)
                      |-.+.|-..++-|||-+.-++.+..-+...+-+ --|+.|+-|||||++..-||+.+.-.+-|.           .+ . 
T Consensus         5 LyrkyRP~~F~eviGQe~v~~~L~~Ai~~gri~HAYLFsGprG~GKTt~ARilAkaLNC~~~~~~~PCg~C~sC~~i~~g   84 (775)
T PRK07764          5 LYRRYRPATFAEVVGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCAQGPTSTPCGVCDSCVALAPG   84 (775)
T ss_pred             HHHHHCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCC
T ss_conf             66550788766622859999999999981997633762378887888999999999668999998988887637888638


Q ss_pred             ---CCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCC---CCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC--
Q ss_conf             ---7437887313542174542024545899999986079---97699963627730266655433588887653124--
Q gi|254780877|r  234 ---GKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSED---GEIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR--  305 (853)
Q Consensus       234 ---~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~---~~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar--  305 (853)
                         +.-|+++|      +++++|=  +.++.|++.+.-.+   .--|..|||.|+|-        -.+.|-|--.|..  
T Consensus        85 ~~~~~DviEiD------AAS~~gV--ddiReL~e~~~y~P~~~ryKVyIIDEaHmls--------~~afNALLKtLEEPP  148 (775)
T PRK07764         85 GPGSLDVVEID------AASHGGV--DDARELRERAFFAPAQSRYRIFIIDEAHMVT--------TAGFNALLKIVEEPP  148 (775)
T ss_pred             CCCCCCEEEEC------CCCCCCH--HHHHHHHHHCCCCCCCCCEEEEEEECHHHHC--------HHHHHHHHHHHCCCC
T ss_conf             98888668731------5655688--9999999854768767863599985354407--------999999988622786


Q ss_pred             CCEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCC
Q ss_conf             66048997448999997300111320231111157776789999999789865414961015899999863332024576
Q gi|254780877|r  306 GELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRF  385 (853)
Q Consensus       306 G~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~  385 (853)
                      ..+.+|=+||.-  .|..   +-+-.|-|.....--+.++...-|..+..    ..+|.|.+++|...++.+.--+.|  
T Consensus       149 ~hvvFIlaTTep--~kip---~TI~SRcq~f~Fr~i~~~~~~~~l~~i~~----~E~i~~~~~al~li~r~~~Gs~RD--  217 (775)
T PRK07764        149 EHLIFIFATTEP--EKVI---GTIRSRTHHYPFRLVPPGTMRPYLERICA----QEGVVVDDAVLPLVIRAGGGSPRD--  217 (775)
T ss_pred             CCEEEEEECCCH--HHCC---HHHHHHCCCCCCCCCCHHHHHHHHHHHHH----HCCCCCCHHHHHHHHHHCCCCHHH--
T ss_conf             462799954873--5471---67764102345266999999999999999----839987989999999982896676--


Q ss_pred             CHHHHHHHHHHHHHHH
Q ss_conf             7477899999999987
Q gi|254780877|r  386 LPDKAIDLMDEASARV  401 (853)
Q Consensus       386 lPDKAIDllDeA~A~~  401 (853)
                          |+.|||.+.|..
T Consensus       218 ----alS~ldQl~a~~  229 (775)
T PRK07764        218 ----TLSVLDQLLAGA  229 (775)
T ss_pred             ----HHHHHHHHHHCC
T ss_conf             ----899999998404


No 80 
>pfam07726 AAA_3 ATPase family associated with various cellular activities (AAA). This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.
Probab=99.19  E-value=9.3e-11  Score=106.39  Aligned_cols=108  Identities=26%  Similarity=0.372  Sum_probs=80.7

Q ss_pred             EEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCC--CCEEEEHH
Q ss_conf             9872678616889999999872377653002244774034532013047711203566774211322156--41022021
Q gi|254780877|r  601 FMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHP--YQVVLFDE  678 (853)
Q Consensus       601 flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P--~sVil~DE  678 (853)
                      .|+.||+|||||.+|+++|+.+   ...++|+++|+-.+   .+-|+|++-  ...+.| ...  .+.-|  -+|+++||
T Consensus         2 VLL~GppG~GKT~l~~~lA~~~---~~~~~~i~~~~~~~---~~Dl~G~~~--~~~~~~-~~~--~~~G~l~~~vl~lDE   70 (131)
T pfam07726         2 VLLEGVPGLAKTLLARTLARSL---GLDFRRIQFTPDLL---PSDITGTEV--YDQKTR-EFE--FRPGPIFANVLLADE   70 (131)
T ss_pred             EEEECCCCCHHHHHHHHHHHHH---CCCCEEEEECCCCC---CCCCCCCEE--ECCCCC-EEE--EECCCCCCCCEEEEH
T ss_conf             8789899876999999999995---99816888337767---000368454--237874-089--845731037056401


Q ss_pred             HHHCCHHHHHHHHHHHHCCEEECCCCCEEECC-CCEEEECCCH
Q ss_conf             44149899999999840457887999778303-3155954851
Q gi|254780877|r  679 IEKAHSDVHNILLQVLDDGRLTDSQGRTVDFR-NTLIIMTSNL  720 (853)
Q Consensus       679 iEKah~~v~~~llqild~G~ltd~~G~~v~f~-n~iii~TsN~  720 (853)
                      |..|+|+|++.||+++++++++- .|.++.+- ++.+|.|+|=
T Consensus        71 in~a~~~v~~~Ll~~l~er~v~~-~g~~~~~p~~f~viAt~NP  112 (131)
T pfam07726        71 INRAPPKTQSALLEAMQERQVTI-GGETHPLPEPFFVLATQNP  112 (131)
T ss_pred             HHCCCHHHHHHHHHHHHCEEEEE-CCEEEECCCCEEEEECCCC
T ss_conf             20399899999997632649977-9988527998499971698


No 81 
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=99.19  E-value=2.3e-10  Score=103.15  Aligned_cols=166  Identities=20%  Similarity=0.390  Sum_probs=109.9

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCC-CCHHHHCCCCCCCH
Q ss_conf             76745948999999999987410123656651289872678616889999999872377653002-24477403453201
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIR-IDMSEYMEKHSVSR  645 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir-~dMsey~e~~~vs~  645 (853)
                      ..++|||++++..+.+++...|.       | -.+||.||.|||||.+|..+|..|+.....--. -...+-...+.+.+
T Consensus        22 ~~~liGq~~~~~~L~~a~~~gRl-------~-HA~Lf~GP~GiGKaTlA~~~A~~Ll~~~~~~~~~~~~~~pd~~~~~~r   93 (352)
T PRK09112         22 NNRLFGHEEARAFLAQAYREGRL-------H-HALLFEGPEGIGKATLAFHLANHILSHPDPNEAPETLADPDPASPLWR   93 (352)
T ss_pred             HHHHCCHHHHHHHHHHHHHCCCC-------C-CEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHH
T ss_conf             64627869999999999984996-------5-246535899808999999999998669986668655678887877899


Q ss_pred             HH--CCCCHHCC----CCCC-C-----CCCHHHH-------CCC----CCEEEEHHHHHCCHHHHHHHHHHHHCCEEECC
Q ss_conf             30--47711203----5667-7-----4211322-------156----41022021441498999999998404578879
Q gi|254780877|r  646 LI--GSPPGYVG----YEEG-G-----ALTEAVR-------RHP----YQVVLFDEIEKAHSDVHNILLQVLDDGRLTDS  702 (853)
Q Consensus       646 Li--GappGYvG----~~~g-g-----~Lte~vr-------~~P----~sVil~DEiEKah~~v~~~llqild~G~ltd~  702 (853)
                      .+  |+.|+.+-    +++. |     .-.+.||       ..|    |-|+++||.|+-+.+-+|.||.+|+|=     
T Consensus        94 ~i~~g~hpdl~~i~r~~d~k~~~~~~~I~vd~iR~l~~~~~~~~~~~~~kv~Iid~ad~m~~~aaNALLK~LEEP-----  168 (352)
T PRK09112         94 QIAQGAHPNLLHLTRPFDEKTGKFKTAITVDEIRRVTHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEP-----  168 (352)
T ss_pred             HHHCCCCCCEEEEECCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCEEEEEECCHHHHHHHHHHHHHHHHHCC-----
T ss_conf             997489999565534322021454335777999999998454886688069998187874699999999985348-----


Q ss_pred             CCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHH
Q ss_conf             9977830331559548512687640326799999999986288577266681586288998999999999
Q gi|254780877|r  703 QGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRI  772 (853)
Q Consensus       703 ~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~  772 (853)
                            -.||+||+.||--.                    ...|-...|. ..+.|+||+.+++.+.+..
T Consensus       169 ------p~~~~fiLit~~~~--------------------~ll~TI~SRC-q~~~f~pL~~~di~~~L~~  211 (352)
T PRK09112        169 ------PARALFILISHSSG--------------------RLLPTIRSRC-QPISLKPLDDDELKKALSH  211 (352)
T ss_pred             ------CCCEEEEEEECCHH--------------------HCHHHHHHHC-CCCCCCCCCHHHHHHHHHH
T ss_conf             ------98748998869977--------------------7768999743-3214889398999999998


No 82 
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=99.18  E-value=1.9e-10  Score=103.85  Aligned_cols=188  Identities=22%  Similarity=0.359  Sum_probs=119.2

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHH
Q ss_conf             67459489999999999874101236566512898726786168899999998723776530022447740345320130
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLI  647 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~Li  647 (853)
                      ..|+||++-+.. -..+++.-   .  ..-+.|+.|-||+|||||.+|+.+|...   ..++..|+-.-.    ++..+-
T Consensus        24 de~vGQ~HLlg~-~~~lrr~v---~--~~~l~SmIl~GPPG~GKTTlA~liA~~~---~~~f~~~sAv~~----gvkdlr   90 (436)
T COG2256          24 DEVVGQEHLLGE-GKPLRRAV---E--AGHLHSMILWGPPGTGKTTLARLIAGTT---NAAFEALSAVTS----GVKDLR   90 (436)
T ss_pred             HHHCCHHHHHCC-CCHHHHHH---H--CCCCCEEEEECCCCCCHHHHHHHHHHHH---CCCEEEECCCCC----CHHHHH
T ss_conf             785571866189-94389999---6--4998605777899988889999998761---776699515234----679999


Q ss_pred             CCCCHHCCCCCCCCCCHHHHCCC----CCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHH
Q ss_conf             47711203566774211322156----41022021441498999999998404578879997783033155954851268
Q gi|254780877|r  648 GSPPGYVGYEEGGALTEAVRRHP----YQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAE  723 (853)
Q Consensus       648 GappGYvG~~~gg~Lte~vr~~P----~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~  723 (853)
                      .            . .|.-++.-    -.|+++|||..-...-+++||-.+++|.++            +|=.||     
T Consensus        91 ~------------i-~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~lLp~vE~G~ii------------lIGATT-----  140 (436)
T COG2256          91 E------------I-IEEARKNRLLGRRTILFLDEIHRFNKAQQDALLPHVENGTII------------LIGATT-----  140 (436)
T ss_pred             H------------H-HHHHHHHHHCCCCEEEEEEHHHHCCHHHHHHHHHHHCCCEEE------------EEECCC-----
T ss_conf             9------------9-999999872588349987225333744565510332488689------------996267-----


Q ss_pred             HHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCC
Q ss_conf             76403267999999999862885772666815862889989999999999999999998579899998899999997089
Q gi|254780877|r  724 YLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGY  803 (853)
Q Consensus       724 ~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~  803 (853)
                         +++.-           ...|.++.|. .|+.|.||+.+++.+++..-+......+.  +..+.++++++++|+..+ 
T Consensus       141 ---ENPsF-----------~ln~ALlSR~-~vf~lk~L~~~di~~~l~ra~~~~~rgl~--~~~~~i~~~a~~~l~~~s-  202 (436)
T COG2256         141 ---ENPSF-----------ELNPALLSRA-RVFELKPLSSEDIKKLLKRALLDEERGLG--GQIIVLDEEALDYLVRLS-  202 (436)
T ss_pred             ---CCCCE-----------EECHHHHHHH-HEEEEECCCHHHHHHHHHHHHHHHHCCCC--CCCCCCCHHHHHHHHHHC-
T ss_conf             ---89871-----------4038886110-41565169989999999999865413777--655668889999999862-


Q ss_pred             CCCCCCHHHHHHHHH
Q ss_conf             822062157999998
Q gi|254780877|r  804 DPSYGARPLKRVIQR  818 (853)
Q Consensus       804 ~~~~GaR~l~r~i~~  818 (853)
                        .--||..-..++-
T Consensus       203 --~GD~R~aLN~LE~  215 (436)
T COG2256         203 --NGDARRALNLLEL  215 (436)
T ss_pred             --CCHHHHHHHHHHH
T ss_conf             --8619999889999


No 83 
>PRK08853 DNA polymerase III subunits gamma and tau; Validated
Probab=99.17  E-value=7.2e-10  Score=99.16  Aligned_cols=203  Identities=22%  Similarity=0.220  Sum_probs=141.0

Q ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEE-CCCCCCHHHHHHHHHHHHHCCC---------CCH---HH--
Q ss_conf             56998729853333357899999996336777866895-2887407779999999873489---------984---44--
Q gi|254780877|r  168 LTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLI-GDPGVGKTAIIEGLASRIINGD---------IPE---SL--  232 (853)
Q Consensus       168 LTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lv-Ge~GvGKtaive~la~~i~~~~---------vp~---~l--  232 (853)
                      |-.+-|-..++-|||-+.-++-+...|...+-.+..|. |.-|||||++..-||+-+.-..         ++.   .-  
T Consensus         6 lark~RP~~f~e~vGQ~~v~~~L~nal~~~rl~haylf~G~rGvGKTt~ARi~Ak~lNC~~~~~~~pcg~C~~C~~i~~g   85 (717)
T PRK08853          6 LARKWRPTQFKEVVGQSHVLTALENALAHNRLHHAYLFSGTRGVGKTTIGRLFAKGLNCETGITSTPCGQCATCKEIDEG   85 (717)
T ss_pred             HHHHHCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHCC
T ss_conf             77651798565513859999999999970997405761088988898999999998678999999978887026767447


Q ss_pred             CCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCC---CCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC--CC
Q ss_conf             57437887313542174542024545899999986079---97699963627730266655433588887653124--66
Q gi|254780877|r  233 KGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSED---GEIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR--GE  307 (853)
Q Consensus       233 ~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~---~~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar--G~  307 (853)
                      +..-++++|.      ++.+|=  +.++.+++.+.-.+   .--|..|||+|||-        ..+-|-|-..|..  .-
T Consensus        86 ~~~d~~EiDa------As~~~v--dd~rel~~~~~y~p~~~~yKvyiiDEvHmls--------~~afnAlLKtlEEPP~h  149 (717)
T PRK08853         86 RFVDLLEIDA------ASRTKV--EDTRELLDNVQYKPARGRFKVYLIDEVHMLS--------RHSFNALLKTLEEPPEY  149 (717)
T ss_pred             CCCCEEEECC------CCCCCH--HHHHHHHHHCCCCCCCCCEEEEEEECHHHCC--------HHHHHHHHHHHCCCCCC
T ss_conf             8775245405------656788--9999999855548877854799983054438--------99999998760378756


Q ss_pred             EEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCH
Q ss_conf             04899744899999730011132023111115777678999999978986541496101589999986333202457674
Q gi|254780877|r  308 LHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLP  387 (853)
Q Consensus       308 l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lP  387 (853)
                      ..+|-|||.-  +| |- . ..-.|-|....+--+.++...-|..+...    .+|.+.++||...++.++--+.|    
T Consensus       150 v~FilaTT~~--~k-ip-~-TilSRc~~f~l~~~~~~~i~~~l~~i~~~----E~i~~~~~al~~ia~~a~Gs~Rd----  216 (717)
T PRK08853        150 VKFLLATTDP--QK-LP-V-TILSRCLQFHLKPISVDQIHQQLDFVLDK----EQVSAEARALGLIAHAADGSMRD----  216 (717)
T ss_pred             EEEEEECCCH--HH-CC-H-HHHHHHHHCCCCCCCHHHHHHHHHHHHHH----CCCCCCHHHHHHHHHHCCCCHHH----
T ss_conf             4899843873--43-73-8-89876544232689999999999999997----59876999999999976883778----


Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             77899999999987
Q gi|254780877|r  388 DKAIDLMDEASARV  401 (853)
Q Consensus       388 DKAIDllDeA~A~~  401 (853)
                        |+.|+|.|-|+-
T Consensus       217 --alsl~dqaia~~  228 (717)
T PRK08853        217 --ALSLTDQAIALG  228 (717)
T ss_pred             --HHHHHHHHHHHC
T ss_conf             --888999999965


No 84 
>TIGR02397 dnaX_nterm DNA polymerase III, subunits gamma and tau; InterPro: IPR012763    This entry represents the well-conserved first N-terminal domain of DnaX, approx. 365 aa. The full-length product of the dnaX gene in Escherichia coli encodes the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the extreme thermophile Thermus thermophilis.; GO: 0003887 DNA-directed DNA polymerase activity, 0005524 ATP binding, 0006260 DNA replication, 0009360 DNA polymerase III complex.
Probab=99.17  E-value=7.1e-10  Score=99.23  Aligned_cols=192  Identities=23%  Similarity=0.420  Sum_probs=124.4

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCH---------HHHC
Q ss_conf             6745948999999999987410123656651289872678616889999999872377653002244---------7740
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDM---------SEYM  638 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dM---------sey~  638 (853)
                      +.||||++.|..+.+||...|-+        -+|||.||-|||||..||.||+.|    +.. --|+         .+..
T Consensus        14 ~d~~GQ~~iv~tL~NAi~~~ri~--------HAYLF~GpRGtGKTS~ARIfAKaL----NC~-~~~~~PCn~C~~C~~i~   80 (363)
T TIGR02397        14 EDVIGQEHIVKTLKNAIKNGRIA--------HAYLFSGPRGTGKTSIARIFAKAL----NCQ-GPDGEPCNECESCKEIN   80 (363)
T ss_pred             CCCCCCHHHHHHHHHHHHHCCCC--------CEEEECCCCCCCHHHHHHHHHHHH----CCC-CCCCCCCCCCCHHHHHH
T ss_conf             10235179999999999718966--------234502859976355899999986----588-78778777750227765


Q ss_pred             CCCCCCHH-HCCCCHHCCCCCCCCCCHHHHCCC----CCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCE
Q ss_conf             34532013-047711203566774211322156----4102202144149899999999840457887999778303315
Q gi|254780877|r  639 EKHSVSRL-IGSPPGYVGYEEGGALTEAVRRHP----YQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTL  713 (853)
Q Consensus       639 e~~~vs~L-iGappGYvG~~~gg~Lte~vr~~P----~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~i  713 (853)
                      ...++.=+ |.| +..=|=|+==.|.|.|+-.|    |=|-..||++-=...=||.||--|+|==           ++++
T Consensus        81 ~g~~~DviEiDA-ASN~gVD~IR~l~e~v~y~P~~~kYKvYIIDEVHMLS~~AFNALLKTLEEPP-----------~hV~  148 (363)
T TIGR02397        81 SGSSLDVIEIDA-ASNNGVDDIRELRENVKYAPSKGKYKVYIIDEVHMLSKSAFNALLKTLEEPP-----------EHVV  148 (363)
T ss_pred             CCCCCCEEEECC-CCCCCHHHHHHHHHHHCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHCCCC-----------CCEE
T ss_conf             289866688648-6568788999998730368755443358873230286568999876522798-----------7628


Q ss_pred             EE-ECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECH
Q ss_conf             59-54851268764032679999999998628857726668158628899899999999999999999985798999988
Q gi|254780877|r  714 II-MTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDD  792 (853)
Q Consensus       714 ii-~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~  792 (853)
                      || .||..         .            ..|+=-|.|.. -+-|+.++.+++..-+..       -+...+  +.+++
T Consensus       149 FIlATTE~---------~------------KiP~TIlSRCQ-rF~Fk~i~~~~i~~~L~~-------I~~~E~--I~~e~  197 (363)
T TIGR02397       149 FILATTEP---------H------------KIPATILSRCQ-RFDFKRIPLEDIVERLKK-------ILDKEG--IKIED  197 (363)
T ss_pred             EEEECCCH---------H------------HCCCCCEEECE-EECCCCCCHHHHHHHHHH-------HHHHHC--CCCCH
T ss_conf             88734871---------1------------20554021000-312678998999999999-------998708--83177


Q ss_pred             HHHHHHHHCCCCCCCCCHHHHHHHHH
Q ss_conf             99999997089822062157999998
Q gi|254780877|r  793 QVIDWLSCRGYDPSYGARPLKRVIQR  818 (853)
Q Consensus       793 ~~~~~l~~~~~~~~~GaR~l~r~i~~  818 (853)
                      +|+.+|+..+   .-|.|.--..+++
T Consensus       198 ~AL~~IA~~a---~GS~RDAlsllDQ  220 (363)
T TIGR02397       198 EALELIARAA---DGSMRDALSLLDQ  220 (363)
T ss_pred             HHHHHHHHHC---CCCCCHHHHHHHH
T ss_conf             8999999962---8961068899999


No 85 
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=99.16  E-value=3.1e-09  Score=94.02  Aligned_cols=175  Identities=22%  Similarity=0.401  Sum_probs=112.9

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCC--CCCCCCCHHHHCCCCCCCH
Q ss_conf             67459489999999999874101236566512898726786168899999998723776--5300224477403453201
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDE--NSMIRIDMSEYMEKHSVSR  645 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~--~~lir~dMsey~e~~~vs~  645 (853)
                      ..++||+++++.+...+..       .+-|  .+||.||+|+|||.+|+++|+.+||+.  .+++-+|-|+...-+.|..
T Consensus        16 ~di~g~~~~~~~L~~~i~~-------~~~p--hlLf~GppG~GKTt~a~~la~~l~~~~~~~~~lelnasd~r~id~vr~   86 (318)
T PRK00440         16 DEVVGQEEIVERLKSFVKE-------KNMP--HLLFAGPPGTGKTTAALALARELYGEYWRENFLELNASDERGIDVIRN   86 (318)
T ss_pred             HHHCCCHHHHHHHHHHHHC-------CCCC--EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCHHHHHH
T ss_conf             9941969999999999987-------9986--698889599889999999999976986434768951645667178999


Q ss_pred             HHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHH
Q ss_conf             30477112035667742113221564102202144149899999999840457887999778303315595485126876
Q gi|254780877|r  646 LIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYL  725 (853)
Q Consensus       646 LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~  725 (853)
                      .|..   +.-       +..+...||-|+++||++..+.+-++.|+.++++-           -+||.|||++|--+.. 
T Consensus        87 ~i~~---~~~-------~~~~~~~~~kiiiiDE~d~l~~~aq~aL~~~mE~~-----------~~~~~fil~~n~~~ki-  144 (318)
T PRK00440         87 KIKE---FAR-------TAPVGGAPFKIIFLDEADNLTSDAQQALRRTMEMY-----------SQTTRFILSCNYSSKI-  144 (318)
T ss_pred             HHHH---HHH-------HCCCCCCCEEEEEEECCCCCCHHHHHHHHHHHHCC-----------CCCCEEEEECCCCCCC-
T ss_conf             9999---997-------26778997389998685532255678887643105-----------6662588634883337-


Q ss_pred             HCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCC
Q ss_conf             40326799999999986288577266681586288998999999999999999999857989999889999999708
Q gi|254780877|r  726 IEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRG  802 (853)
Q Consensus       726 ~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~  802 (853)
                                         .|.+.+|. ..+.|+|++.+++...+..-       ....+  +.+++++++.|+..+
T Consensus       145 -------------------i~~i~SRc-~~i~f~~~~~~~i~~~L~~I-------~~~E~--i~~~~~~l~~i~~~s  192 (318)
T PRK00440        145 -------------------IDPIQSRC-AVFRFSPLPKEAVIERLRYI-------AKNEG--LEITDDALEAIYYVS  192 (318)
T ss_pred             -------------------CCCHHHHH-EEEECCCCCHHHHHHHHHHH-------HHHCC--CCCCHHHHHHHHHHC
T ss_conf             -------------------61556551-01115789999999999999-------99859--998999999999864


No 86 
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=99.16  E-value=7e-09  Score=91.14  Aligned_cols=142  Identities=27%  Similarity=0.448  Sum_probs=108.1

Q ss_pred             CCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEE
Q ss_conf             77786689528874077799999998734899844457437887313542174542024545899999986079976999
Q gi|254780877|r  197 RTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILF  276 (853)
Q Consensus       197 ~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilf  276 (853)
                      +.....+|.|+||.|||.++..+|.          ..+.++++++.+.++  .+|-||.|..++.+...+... .+.|+|
T Consensus       274 ~~~~giLl~GpPGtGKT~lAkava~----------~~~~~fi~v~~~~l~--sk~vGesek~ir~~F~~A~~~-~p~iif  340 (494)
T COG0464         274 RPPKGVLLYGPPGTGKTLLAKAVAL----------ESRSRFISVKGSELL--SKWVGESEKNIRELFEKARKL-APSIIF  340 (494)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHH----------HCCCCEEEECCHHHH--HHHHHHHHHHHHHHHHHHHHC-CCCEEE
T ss_conf             8883699988999758999999875----------449824884335554--077659999999999999966-998897


Q ss_pred             ECCHHHHCCCCCCC--CCC-CH-HHHHHHH--H-CCCCEEEEEEECHHHHHHHHHCCHHHHH--CCCE-EECCCCCHHHH
Q ss_conf             63627730266655--433-58-8887653--1-2466048997448999997300111320--2311-11157776789
Q gi|254780877|r  277 IDELHVLVGAGKTD--GAM-DA-SNLLKPS--L-ARGELHCIGATTLDEYRKYIEKDPALAR--RFQS-LLVGEPTVTDT  346 (853)
Q Consensus       277 ide~h~~~gaG~~~--g~~-Da-an~LKP~--L-arG~l~~IgaTT~~Eyrk~iEkD~Al~R--RFq~-i~V~Eps~~~t  346 (853)
                      |||+..+....+..  ++. .+ .++|.-.  + ....+.+||||..-.     .=|+|+-|  ||+. |.|..|+.++-
T Consensus       341 iDEiDs~~~~r~~~~~~~~~rv~~~ll~~~d~~e~~~~v~vi~aTN~p~-----~ld~a~lR~gRfd~~i~v~~pd~~~r  415 (494)
T COG0464         341 IDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPD-----DLDPALLRPGRFDRLIYVPLPDLEER  415 (494)
T ss_pred             HHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCC-----CCCHHHHCCCCCEEEEEECCCCHHHH
T ss_conf             4886667412899876379999999999974754437648996479833-----26875624366303787179898999


Q ss_pred             HHHHHHHHHH
Q ss_conf             9999997898
Q gi|254780877|r  347 ISILRGLKER  356 (853)
Q Consensus       347 ~~iL~gl~~~  356 (853)
                      ..|++-....
T Consensus       416 ~~i~~~~~~~  425 (494)
T COG0464         416 LEIFKIHLRD  425 (494)
T ss_pred             HHHHHHHHCC
T ss_conf             9999998541


No 87 
>pfam00004 AAA ATPase family associated with various cellular activities (AAA). AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.
Probab=99.15  E-value=4.8e-10  Score=100.60  Aligned_cols=118  Identities=31%  Similarity=0.555  Sum_probs=86.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHH
Q ss_conf             68952887407779999999873489984445743788731354217454202454589999998607997699963627
Q gi|254780877|r  202 PVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELH  281 (853)
Q Consensus       202 ~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h  281 (853)
                      ++|.|+||+|||.+++.+|...          +..+++++.+.+.  .+|.|+-+++++.+++.++.. .+.||||||+|
T Consensus         1 iLl~GppGtGKT~~a~~la~~~----------~~~~~~v~~~~~~--~~~~g~~~~~i~~~f~~a~~~-~p~Il~iDe~d   67 (131)
T pfam00004         1 LLLYGPPGTGKTTLAKAVAKEL----------GAPFIEISGSELV--SKYVGESEKRLRELFEAAKKL-APCVIFIDEID   67 (131)
T ss_pred             CEEECCCCCCHHHHHHHHHHHH----------CCCCEECCCCCCC--CCCCCHHHHHHHHHHHHHHHC-CCCEEEECHHH
T ss_conf             9878999999999999999997----------8985332420122--233450688899999999974-99189831167


Q ss_pred             HHCCCCCCCCC---CCHHHHHHHHHCC-----CCEEEEEEECHHHHHHHHHCCHHHHH-CCCEEE
Q ss_conf             73026665543---3588887653124-----66048997448999997300111320-231111
Q gi|254780877|r  282 VLVGAGKTDGA---MDASNLLKPSLAR-----GELHCIGATTLDEYRKYIEKDPALAR-RFQSLL  337 (853)
Q Consensus       282 ~~~gaG~~~g~---~Daan~LKP~Lar-----G~l~~IgaTT~~Eyrk~iEkD~Al~R-RFq~i~  337 (853)
                      .+.+.....+.   ..+.+.|.+.|..     +.+-+||+|..-   ..+  |+|+-| ||+.+.
T Consensus        68 ~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v~~I~tTN~~---~~l--d~al~r~Rfd~~i  127 (131)
T pfam00004        68 ALAGSRGSGGDSESRRVVNQLLTELDGFTSSLSKVIVIAATNRP---DKL--DPALLRGRFDRII  127 (131)
T ss_pred             HHHCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEEECCCH---HHC--CHHHHCCCCEEEE
T ss_conf             77516788888751326878999985022468876999975990---449--9779628332899


No 88 
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=99.15  E-value=3.9e-10  Score=101.31  Aligned_cols=141  Identities=26%  Similarity=0.395  Sum_probs=101.2

Q ss_pred             CCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHH
Q ss_conf             33578999999963367778668952887407779999999873489984445743788731354217454202454589
Q gi|254780877|r  181 IGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLK  260 (853)
Q Consensus       181 IGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~  260 (853)
                      .|++.+++.+...+......|.+|.|+||+|||.++..+|+...       ..+..++.++.+.+..+....+++.....
T Consensus         1 ~~~~~~~~~l~~~~~~~~~~~ill~GppGtGKT~la~~ia~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   73 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELF-------RPGAPFLYLNASDLLEGLVVAELFGHFLV   73 (151)
T ss_pred             CCCHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHC-------CCCCCEEEEEHHHCCHHHHHHHHHHHHHH
T ss_conf             98579999999998187998089989999886599999999712-------13798278547770467777576057788


Q ss_pred             HHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHH----CCCCEEEEEEECHHHHHHHHHCCHHHHHCCCE
Q ss_conf             9999986079976999636277302666554335888876531----24660489974489999973001113202311
Q gi|254780877|r  261 SLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSL----ARGELHCIGATTLDEYRKYIEKDPALARRFQS  335 (853)
Q Consensus       261 ~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~L----arG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~  335 (853)
                      ...........+.||||||++.+-. +...   ...++|.-.+    ..+..++|++|+..+.   ...+.++..||..
T Consensus        74 ~~~~~~~~~~~~~vl~iDEi~~l~~-~~~~---~~~~~l~~~~~~~~~~~~~~vI~~tn~~~~---~~~~~~~~~R~~~  145 (151)
T cd00009          74 RLLFELAEKAKPGVLFIDEIDSLSR-GAQN---ALLRVLETLNDLRIDRENVRVIGATNRPLL---GDLDRALYDRLDI  145 (151)
T ss_pred             HHHHHHHHHCCCCEEEEECHHHCCH-HHHH---HHHHHHHHHCCCCCCCCCEEEEEEECCCCC---CCHHHHHHCCCCE
T ss_conf             9899999976998698201665599-9999---999999871575406788899995289988---6837764255986


No 89 
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=99.14  E-value=1.1e-09  Score=97.67  Aligned_cols=165  Identities=24%  Similarity=0.396  Sum_probs=109.6

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCC--CCCCCHH---HHCCCC
Q ss_conf             76745948999999999987410123656651289872678616889999999872377653--0022447---740345
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENS--MIRIDMS---EYMEKH  641 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~--lir~dMs---ey~e~~  641 (853)
                      ...||||++++..+.+++...|.       | -++||.||.|||||.+|..+|++|+.....  .-.-...   +....|
T Consensus        16 ~~~liGqe~~~~~L~~a~~~grl-------~-HA~Lf~Gp~GiGK~tlA~~~A~~ll~~~~~~~~~~~~~~~~l~~~~~~   87 (363)
T PRK07471         16 TTALFGHAAAEAALLDAYRSGRL-------H-HAWLIGGPQGIGKATLAYRMARFLLATPPPGGDAVFPPPASLAVDPDH   87 (363)
T ss_pred             CCCCCCHHHHHHHHHHHHHCCCC-------C-CEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHCCCCCC
T ss_conf             27316819999999999985997-------6-458767999818899999999998579997777767870531258777


Q ss_pred             CCCHHH--CCCCHHCC----CCCC-C-----CCCHHHH-------CCC----CCEEEEHHHHHCCHHHHHHHHHHHHCCE
Q ss_conf             320130--47711203----5667-7-----4211322-------156----4102202144149899999999840457
Q gi|254780877|r  642 SVSRLI--GSPPGYVG----YEEG-G-----ALTEAVR-------RHP----YQVVLFDEIEKAHSDVHNILLQVLDDGR  698 (853)
Q Consensus       642 ~vs~Li--GappGYvG----~~~g-g-----~Lte~vr-------~~P----~sVil~DEiEKah~~v~~~llqild~G~  698 (853)
                      .+.+.|  |+-|++..    +++. +     +-.+.||       ..|    |=|+++|+.|+.+.+-+|.||.+|+|= 
T Consensus        88 p~~r~i~~~~hpdl~~i~r~~d~k~~~~~~~I~Vd~iR~l~~~~~~~p~~g~~kV~IId~ad~mn~~aaNALLK~LEEP-  166 (363)
T PRK07471         88 PVARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRETIGFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEP-  166 (363)
T ss_pred             CHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCEEEEEECHHHHCHHHHHHHHHHHCCC-
T ss_conf             2899995269998466762001133321244539999999999724852489669998687873889999999972158-


Q ss_pred             EECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHH
Q ss_conf             8879997783033155954851268764032679999999998628857726668158628899899999999
Q gi|254780877|r  699 LTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVR  771 (853)
Q Consensus       699 ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~  771 (853)
                                -.|++|||.|+--.                    .+.|-.+.|. ..+.|+||+.+++.+.+.
T Consensus       167 ----------P~~t~fiLit~~~~--------------------~llpTI~SRC-q~~~~~~l~~~~~~~~L~  208 (363)
T PRK07471        167 ----------PARSLLLLVSHAPA--------------------RLLPTIRSRC-RKLRLRPLAPEDVIAALA  208 (363)
T ss_pred             ----------CCCEEEEEEECCHH--------------------HCHHHHHHHC-CCCCCCCCCHHHHHHHHH
T ss_conf             ----------98838998639977--------------------7779999735-242589959999999999


No 90 
>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=99.14  E-value=1.4e-06  Score=72.43  Aligned_cols=143  Identities=32%  Similarity=0.521  Sum_probs=93.6

Q ss_pred             CCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCC------CCCCHHHHC
Q ss_conf             66512898726786168899999998723776530022447740345320130477112035667------742113221
Q gi|254780877|r  595 QRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEG------GALTEAVRR  668 (853)
Q Consensus       595 ~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~g------g~Lte~vr~  668 (853)
                      +=|+   |.-|||.+|||.+-+-||+..   ...++|||-.|-++   ..--||+   ||--+.|      |.|.||+|+
T Consensus       888 ~fP~---LiQGpTSSGKTSMI~yla~~t---ghkfVRINNHEHTd---lqeYiGT---yvTdd~G~lsFkEGvLVeAlR~  955 (4600)
T COG5271         888 NFPL---LIQGPTSSGKTSMILYLARET---GHKFVRINNHEHTD---LQEYIGT---YVTDDDGSLSFKEGVLVEALRR  955 (4600)
T ss_pred             CCCE---EEECCCCCCCCHHHHHHHHHH---CCCEEEECCCCCCH---HHHHHHC---EEECCCCCEEEEHHHHHHHHHC
T ss_conf             7867---986688877004999999873---76079865855434---9987430---3506898565401078998856


Q ss_pred             CCCCEEEEHHHHHCCHHHHHHHHHHHHCCE-EE--CCCCCEEECCCCEEEECCCH----HHHHHHCCHHHHHHHHHHHHH
Q ss_conf             564102202144149899999999840457-88--79997783033155954851----268764032679999999998
Q gi|254780877|r  669 HPYQVVLFDEIEKAHSDVHNILLQVLDDGR-LT--DSQGRTVDFRNTLIIMTSNL----GAEYLIEDGDSVHDKVMGIVR  741 (853)
Q Consensus       669 ~P~sVil~DEiEKah~~v~~~llqild~G~-lt--d~~G~~v~f~n~iii~TsN~----G~~~~~~~~~~~~~~~~~~l~  741 (853)
                      --  -|.+||..-|..||+..|=.+|||-| |.  .-.--.+---|-.++.|-|-    |.+              +.+ 
T Consensus       956 Gy--WIVLDELNLApTDVLEaLNRLLDDNRelfIPETqevV~PHp~F~lFATQNppg~YgGR--------------K~L- 1018 (4600)
T COG5271         956 GY--WIVLDELNLAPTDVLEALNRLLDDNRELFIPETQEVVVPHPNFRLFATQNPPGGYGGR--------------KGL- 1018 (4600)
T ss_pred             CC--EEEEECCCCCCHHHHHHHHHHHCCCCCEECCCCCEEECCCCCEEEEEECCCCCCCCCH--------------HHH-
T ss_conf             86--7996102467077999999864466402067755243358873688613898653412--------------777-


Q ss_pred             HHCCHHHHCCCCCEEECCCCCHHHHHHHH
Q ss_conf             62885772666815862889989999999
Q gi|254780877|r  742 SAFKPEFLNRLDEIILFEKLRKEDMAKIV  770 (853)
Q Consensus       742 ~~f~peflnRid~iv~F~~l~~~~~~~i~  770 (853)
                         +-.|.||+= -+.|..+..+++..|+
T Consensus      1019 ---SrAFRNRFl-E~hFddipedEle~IL 1043 (4600)
T COG5271        1019 ---SRAFRNRFL-EMHFDDIPEDELEEIL 1043 (4600)
T ss_pred             ---HHHHHHHHH-HHHCCCCCHHHHHHHH
T ss_conf             ---799986567-6421358578999999


No 91 
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=99.14  E-value=2.5e-09  Score=94.78  Aligned_cols=202  Identities=18%  Similarity=0.207  Sum_probs=139.3

Q ss_pred             HHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCC-CEEEECCCCCCHHHHHHHHHHHHHCCC----CCH----H--------
Q ss_conf             69987298533333578999999963367778-668952887407779999999873489----984----4--------
Q gi|254780877|r  169 TEEARNGKLDPVIGRDDEMRRAIQVLSRRTKN-NPVLIGDPGVGKTAIIEGLASRIINGD----IPE----S--------  231 (853)
Q Consensus       169 Te~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~-n~~lvGe~GvGKtaive~la~~i~~~~----vp~----~--------  231 (853)
                      -.+.|-..++-|||-+.-++.+...+...+=. .-++-|+.|||||+.+.-+|.-+.-..    -|.    .        
T Consensus        12 a~KyRP~~f~~liGQ~~~~~~l~n~i~~~~~~~aylf~G~rG~GKTt~Ari~ak~lnc~~~~~~~~~~~~c~~c~~c~~i   91 (507)
T PRK06645         12 ARKYRPSNFAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEKCTNCISF   91 (507)
T ss_pred             EECCCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHH
T ss_conf             32007997656239399999999999739966347745879978899999999996799988889988888887678998


Q ss_pred             HC--CCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCC---CCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHC--
Q ss_conf             45--7437887313542174542024545899999986079---9769996362773026665543358888765312--
Q gi|254780877|r  232 LK--GKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSED---GEIILFIDELHVLVGAGKTDGAMDASNLLKPSLA--  304 (853)
Q Consensus       232 l~--~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~---~~~ilfide~h~~~gaG~~~g~~Daan~LKP~La--  304 (853)
                      -.  ..-|+++|.++-      +|=  +.++.+++.+.-++   .--|..|||+|++        +-+|-|-|--.|.  
T Consensus        92 ~~~~~~dv~EiDaas~------~gv--~~ir~l~~~~~~~p~~~~~kv~iidE~hml--------s~~a~nallktlEep  155 (507)
T PRK06645         92 NNHNHPDIIEIDAASK------TSV--DDIRRIIESAEYKPLQGKHKIFIIDEVHML--------SKGAFNALLKTLEEP  155 (507)
T ss_pred             HCCCCCCEEEEECCCC------CCH--HHHHHHHHHCCCCCCCCCEEEEEECCHHHC--------CHHHHHHHHHHHHCC
T ss_conf             6589998599637888------888--999999863551787674358995214224--------899999999974278


Q ss_pred             CCCEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCC
Q ss_conf             46604899744899999730011132023111115777678999999978986541496101589999986333202457
Q gi|254780877|r  305 RGELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDR  384 (853)
Q Consensus       305 rG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r  384 (853)
                      -....+|=|||.-  +|..  . ..-.|-|+....--+.++-..-|+.+...    .++.|+++||...++.|.-=+.| 
T Consensus       156 p~~~~Fi~atte~--~kip--~-ti~srcq~f~~~~i~~~~i~~~l~~i~~~----E~~~~~~~al~~ia~~a~Gs~RD-  225 (507)
T PRK06645        156 PPHIIFIFATTEV--QKIP--A-TIISRCQRYDLRRLSFEEIFKLLEYITKQ----ENLKADIEALRIIAYKSEGSARD-  225 (507)
T ss_pred             CCCEEEEEECCCH--HHCC--H-HHHHHCEEEEEECCCHHHHHHHHHHHHHH----CCCCCCHHHHHHHHHHCCCCHHH-
T ss_conf             6443899974853--6483--7-88854327875459979999999999997----68777789999999855998678-


Q ss_pred             CCHHHHHHHHHHHHHHH
Q ss_conf             67477899999999987
Q gi|254780877|r  385 FLPDKAIDLMDEASARV  401 (853)
Q Consensus       385 ~lPDKAIDllDeA~A~~  401 (853)
                           |+.|||.|.|.-
T Consensus       226 -----alslldqai~~~  237 (507)
T PRK06645        226 -----AVSILDQAASMS  237 (507)
T ss_pred             -----HHHHHHHHHHHH
T ss_conf             -----999999999975


No 92 
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=99.14  E-value=4.7e-09  Score=92.54  Aligned_cols=217  Identities=19%  Similarity=0.268  Sum_probs=130.5

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCC---CCCCCCCC----HHHHCCC
Q ss_conf             6745948999999999987410123656651289872678616889999999872377---65300224----4774034
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDD---ENSMIRID----MSEYMEK  640 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~---~~~lir~d----Msey~e~  640 (853)
                      ..|+||++|..++.-+.       -+|+  +|..|+.||.|+|||.+|++|+..|=.-   +..-+-.+    +.++.+.
T Consensus         8 s~IvGQe~~K~AL~laa-------v~p~--~ggvLi~G~~GtgKStlaR~l~~iLP~~~~~e~~~~~~~~~~~~~~~~~~   78 (334)
T PRK13407          8 SAIVGQEEMKQAMVLTA-------IDPG--IGGVLVFGDRGTGKSTAVRALAALLPLIKAVEGCPVNSARPEDCPEWAEV   78 (334)
T ss_pred             HHHCCCHHHHHHHHHHH-------CCCC--CCEEEEECCCCCCHHHHHHHHHHHCCCCCHHCCCCCCCCCCCCCHHHHHC
T ss_conf             37649399999999977-------2789--86089978998659999999997289951103675566774211334311


Q ss_pred             ----------------CCCC--HHHCCC---CHHCC---CCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHC
Q ss_conf             ----------------5320--130477---11203---56677421132215641022021441498999999998404
Q gi|254780877|r  641 ----------------HSVS--RLIGSP---PGYVG---YEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDD  696 (853)
Q Consensus       641 ----------------~~vs--~LiGap---pGYvG---~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~  696 (853)
                                      +.++  +++|+-   ..-+|   -=+-|.|..|=    ..|+++|||.-....+.+.|||.+++
T Consensus        79 ~~~~~~~~~~p~v~lPl~atedr~~G~ldie~al~~G~~~~~PGlLa~Ah----~GVLylDEinll~~~vld~Ll~~~e~  154 (334)
T PRK13407         79 SSTTMVERPTPVIDLPLGATEDRVVGALDIERALTRGEKAFEPGLLARAN----RGYLYIDEVNLLEDHIVDLLLDVAQS  154 (334)
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCCCCCHHHHCC----CCEEEEECHHHCCHHHHHHHHHHHHC
T ss_conf             45553448998767899999866447421888862698778860543402----88678720533338899999988716


Q ss_pred             CEEEC-CCCCEEEC-CCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCC-CHHHHHHHHHHH
Q ss_conf             57887-99977830-3315595485126876403267999999999862885772666815862889-989999999999
Q gi|254780877|r  697 GRLTD-SQGRTVDF-RNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKL-RKEDMAKIVRIQ  773 (853)
Q Consensus       697 G~ltd-~~G~~v~f-~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l-~~~~~~~i~~~~  773 (853)
                      |+.+= -.|.++.+ .+.++|-|.|=         +          ...++|.++.||+-.|..... +.++-..|++..
T Consensus       155 G~~~IeReg~s~~~ParF~LVatmNP---------e----------Eg~Lrp~lLDRf~l~v~v~~~~~~~~r~eiv~r~  215 (334)
T PRK13407        155 GENVVEREGLSIRHPARFVLVGSGNP---------E----------EGELRPQLLDRFGLSVEVRSPRDVETRVEVITRR  215 (334)
T ss_pred             CCEEEEECCEEEECCCCCEEEEEECC---------C----------CCCCCHHHHHHHCEEEEECCCCCHHHHHHHHHHH
T ss_conf             95799977634603662658982088---------8----------7775989983610068714878877766889999


Q ss_pred             H-----------------HHHHHHH-H--HCCCEEEECHHHHHHHHHCCCCC-CCCCHHHHHHH
Q ss_conf             9-----------------9999999-8--57989999889999999708982-20621579999
Q gi|254780877|r  774 L-----------------GRVLSLI-K--ERNISMDFDDQVIDWLSCRGYDP-SYGARPLKRVI  816 (853)
Q Consensus       774 l-----------------~~l~~~l-~--~~~i~l~~~~~~~~~l~~~~~~~-~~GaR~l~r~i  816 (853)
                      .                 ..+..++ +  .+=-.+.++++...+++..+... ..|.|.--+.+
T Consensus       216 ~~~~~~~~~~~~~~~~e~~~l~~~i~~Ar~~l~~v~~~d~~~~~~~~~~~~~~~~g~Ra~i~l~  279 (334)
T PRK13407        216 DAYDADHDAFMAKWGAEDMQLRGRILGARAALPQLKTPDTVLHDCAALCIALGSDGLRGELTLL  279 (334)
T ss_pred             HHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCHHHHHHH
T ss_conf             9865387999998898999999999999875114689999999999999985898710999999


No 93 
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=99.14  E-value=1.2e-06  Score=73.04  Aligned_cols=63  Identities=13%  Similarity=0.126  Sum_probs=54.0

Q ss_pred             HCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             717999999999999999828996338999999861887668999997399989999999999
Q gi|254780877|r    5 KYSDLMRNVLQSAQTYALAQGHQNLVPEHVLHIFLEDEQGAVYSLIQCSGGDIAQLKDYNQTV   67 (853)
Q Consensus         5 kFS~~a~~vL~~A~~~A~~~~H~~Vt~EHLLlaLL~~~~s~i~~iL~~~gvd~~~L~~~le~~   67 (853)
                      .+|..++.+|+.|...|...++.+|+++|+|++|+.++++.+..+|...+++...+.+.+...
T Consensus        79 ~~t~~~~rvl~~A~~~a~~~g~~~v~~~~lLlall~e~~~~a~~~L~~~~i~~~~~~~~i~~~  141 (758)
T PRK11034         79 QPTLSFQRVLQRAVFHVQSSGRSEVTGANVLVAIFSEQESQAAYLLRKHEVSRLDVVNFISHG  141 (758)
T ss_pred             CCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHCCCCCHHHHHHHHCCCCHHHHHHHHHHC
T ss_conf             877789999999999999839983049999999971785589999997799889999999722


No 94 
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=99.13  E-value=3e-09  Score=94.13  Aligned_cols=184  Identities=18%  Similarity=0.381  Sum_probs=120.7

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCC--CCCCCCCHHHHCCCCCC--
Q ss_conf             67459489999999999874101236566512898726786168899999998723776--53002244774034532--
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDE--NSMIRIDMSEYMEKHSV--  643 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~--~~lir~dMsey~e~~~v--  643 (853)
                      +.|+||+++++.+.+.+..       .+-|  .+||.||+|+|||.+|+++|+.||++.  .+.+.++-|++.+....  
T Consensus        15 ~dvvGq~~i~~~L~~~~~~-------~~~p--hlLf~GPpG~GKTt~A~~lA~~l~~~~~~~~~~~~nasd~~~~~~~~i   85 (337)
T PRK12402         15 EDILGQESVVDHLSALAAS-------GNLP--HLVVYGPSGSGKTAAVRALARELYGDPWENNFTYFNVSDFFDQGKKYL   85 (337)
T ss_pred             HHHCCCHHHHHHHHHHHHC-------CCCC--EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCEECCCCCCCCCCCEE
T ss_conf             9803979999999999977-------9987--698889298489999999999967997567833311653113564001


Q ss_pred             ------CHHHCCCCHHCCCCCCCCCCHHH----H----CCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEEC
Q ss_conf             ------01304771120356677421132----2----156410220214414989999999984045788799977830
Q gi|254780877|r  644 ------SRLIGSPPGYVGYEEGGALTEAV----R----RHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDF  709 (853)
Q Consensus       644 ------s~LiGappGYvG~~~gg~Lte~v----r----~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f  709 (853)
                            ...++.| +-.|-..-....+.+    .    ..+|-|+++||.+.-+++.++.|+.++++-           -
T Consensus        86 ~~~~~~~~~~~~~-~~~~~~~~d~i~~ii~~~a~~~p~~~~~KiiIlDEad~lt~~Aq~aLlk~lEe~-----------~  153 (337)
T PRK12402         86 VEDPRFAHFYDDP-KRKYKSVIDNFKHILKEYASMRPLSADYKLILFDNAEALREDAQQALRRIMERY-----------S  153 (337)
T ss_pred             ECCCCHHHHHCCH-HHCCCCHHHHHHHHHHHHHCCCCCCCCEEEEEEECCCCCCHHHHHHHHHHHHCC-----------C
T ss_conf             0166423442015-332773789999999998614887788049997071317999999999887408-----------8


Q ss_pred             CCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEE
Q ss_conf             33155954851268764032679999999998628857726668158628899899999999999999999985798999
Q gi|254780877|r  710 RNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMD  789 (853)
Q Consensus       710 ~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~  789 (853)
                      .+|.||+++|--+                    ...|.+.+|. ..+.|+|++.+++...+..       -....++  .
T Consensus       154 ~~~~fIl~t~~~~--------------------~ii~tI~SRC-~~i~F~~~s~~~i~~~L~~-------I~~~E~i--~  203 (337)
T PRK12402        154 ETCRFIFSTTQPS--------------------KLIPPIRSRC-LPLFFRPVPDDEIRSVLES-------IAAAEGV--E  203 (337)
T ss_pred             CCEEEEEECCCCC--------------------CCCHHHHHHC-EEEECCCCCHHHHHHHHHH-------HHHHCCC--C
T ss_conf             7669987238644--------------------4752477624-4543589899999999999-------9998499--9


Q ss_pred             ECHHHHHHHHHCC
Q ss_conf             9889999999708
Q gi|254780877|r  790 FDDQVIDWLSCRG  802 (853)
Q Consensus       790 ~~~~~~~~l~~~~  802 (853)
                      +++++++.|++.+
T Consensus       204 ~~~~~l~~ia~~s  216 (337)
T PRK12402        204 ISDDGLDLIAYYA  216 (337)
T ss_pred             CCHHHHHHHHHHC
T ss_conf             8999999999986


No 95 
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=99.13  E-value=2.6e-06  Score=70.30  Aligned_cols=189  Identities=14%  Similarity=0.182  Sum_probs=98.7

Q ss_pred             HCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf             71799999999999999982899633899999986188766899999739998999999999997459547897777069
Q gi|254780877|r    5 KYSDLMRNVLQSAQTYALAQGHQNLVPEHVLHIFLEDEQGAVYSLIQCSGGDIAQLKDYNQTVLSKIPKVTGGGAQVYLS   84 (853)
Q Consensus         5 kFS~~a~~vL~~A~~~A~~~~H~~Vt~EHLLlaLL~~~~s~i~~iL~~~gvd~~~L~~~le~~L~k~~k~~~~~~~~~~S   84 (853)
                      .||+....++..|..+|...++.||+++|||++++..+.+.+..+|...+++...+.+.+..+-... .......+... 
T Consensus        73 ~~s~~~~~~~~~a~~~a~~~~~~~v~~~~llla~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~-  150 (786)
T COG0542          73 YLSPRLKRVLERAWLLAQSLGDEYVSTEHLLLALLNEPESVAAYILKKLGVTRKDVEELIEELRGGN-EVDSKNAEEDQ-  150 (786)
T ss_pred             CCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHCCCCHHHHHHHHHCCCCHHHHHHHHHHHHCCC-CCCCCCCCCCH-
T ss_conf             8787799999999999875157655589999998617622789999866577777999999973466-66776665324-


Q ss_pred             HHHHHHHHHHHHHHHHC-CCCCCCHHH---HHHHHH-HCCCCHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             89999999999999971-987025999---876687-2775178899975999899999999873778878777546761
Q gi|254780877|r   85 QPLAVILSKSEEIAKKS-GDSFVTAEK---FLLAMV-METGGIGESLKKCGLKFSRLEESIKKLRKGRVADSVNAEQGFD  159 (853)
Q Consensus        85 ~~l~rvL~~A~~~A~~~-g~~~I~~eh---LLlAIl-~e~~s~a~iL~~~gi~~~~l~e~i~~~~~~~~~~~~~~e~~~~  159 (853)
                      +.+.+--..--..|..- =++.|+=.+   =.+.+| +-...-.-+.-+.|+....+.+.+..-......+..=  ..  
T Consensus       151 ~~L~~~~~dlt~~Ar~gklDPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L--~~--  226 (786)
T COG0542         151 DALEKYTRDLTELAREGKLDPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESL--KD--  226 (786)
T ss_pred             HHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEECCCCCCHHHHHHHHHHHHHCCCCCHHH--CC--
T ss_conf             46998741147998658988773747999999999835688998476689888999998999997469999787--58--


Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCC-HHHHHHHHHHHHCCCCCCCEEEE
Q ss_conf             07886443569987298533333-57899999996336777866895
Q gi|254780877|r  160 ALKKYCRDLTEEARNGKLDPVIG-RDDEMRRAIQVLSRRTKNNPVLI  205 (853)
Q Consensus       160 ~L~ky~~DLTe~Ar~GkLDPVIG-Re~EI~~~~~iL~r~~k~n~~lv  205 (853)
                       -.-|+-||..+-.--+..   | =|+=++.++.=+....  |+||.
T Consensus       227 -~~i~sLD~g~LvAGakyR---GeFEeRlk~vl~ev~~~~--~vILF  267 (786)
T COG0542         227 -KRIYSLDLGSLVAGAKYR---GEFEERLKAVLKEVEKSK--NVILF  267 (786)
T ss_pred             -CEEEEECHHHHHCCCCCC---CCHHHHHHHHHHHHHCCC--CEEEE
T ss_conf             -879971487674646535---738999999999985179--84999


No 96 
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=99.12  E-value=2.4e-09  Score=94.98  Aligned_cols=203  Identities=22%  Similarity=0.268  Sum_probs=134.1

Q ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHCCCC-CCCEEEECCCCCCHHHHHHHHHHHHHCCC-C---CH----------HH
Q ss_conf             5699872985333335789999999633677-78668952887407779999999873489-9---84----------44
Q gi|254780877|r  168 LTEEARNGKLDPVIGRDDEMRRAIQVLSRRT-KNNPVLIGDPGVGKTAIIEGLASRIINGD-I---PE----------SL  232 (853)
Q Consensus       168 LTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~-k~n~~lvGe~GvGKtaive~la~~i~~~~-v---p~----------~l  232 (853)
                      |-.+-|-..++-|||-+.-++-+...|...+ -.--++-|.-|||||++..-||+.+.-.+ +   |-          .-
T Consensus         6 lark~RP~~F~e~vGQ~~v~~~L~nal~~~rl~haylf~G~rGvGKTt~Ari~Ak~lNC~~~~~~~pCg~C~~C~~i~~g   85 (704)
T PRK08691          6 LARKWRPKTFADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAG   85 (704)
T ss_pred             HHHHHCCCCHHHHCCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCC
T ss_conf             77651887475641869999999999981997523750278987888999999999679999999978777767878558


Q ss_pred             CCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCC---CCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHC--CCC
Q ss_conf             57437887313542174542024545899999986079---9769996362773026665543358888765312--466
Q gi|254780877|r  233 KGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSED---GEIILFIDELHVLVGAGKTDGAMDASNLLKPSLA--RGE  307 (853)
Q Consensus       233 ~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~---~~~ilfide~h~~~gaG~~~g~~Daan~LKP~La--rG~  307 (853)
                      ...-++++|.+      +.+|=  +.++.|++.+.-.+   .--|..|||+|||-        -.+-|-|--.|.  -.-
T Consensus        86 ~~~D~~EiDaA------s~~~v--dd~R~l~~~~~y~P~~~~yKVyiiDEvhmLs--------~~afNAlLKtLEEPP~~  149 (704)
T PRK08691         86 RYVDLLEIDAA------SNTGI--DNIREVLENAQYAPTAGKYKVYIIDEVHMLS--------KSAFNAMLKTLEEPPEH  149 (704)
T ss_pred             CCCCEEEEECC------CCCCH--HHHHHHHHHCCCCCCCCCEEEEEEECHHHCC--------HHHHHHHHHHHCCCCCC
T ss_conf             99874774245------44588--9999999853468867853599983154438--------99999999861479756


Q ss_pred             EEEEEEECHHHHHHHHHCCH-HHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCC
Q ss_conf             04899744899999730011-13202311111577767899999997898654149610158999998633320245767
Q gi|254780877|r  308 LHCIGATTLDEYRKYIEKDP-ALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFL  386 (853)
Q Consensus       308 l~~IgaTT~~Eyrk~iEkD~-Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~l  386 (853)
                      ..+|-|||.-+  |    =+ ..-.|-|....+--+.++-..-|..+..    ..+|.|.++||...++.++--+.|   
T Consensus       150 v~FilaTTdp~--K----lp~TIlSRC~~f~l~~~~~~~i~~~L~~i~~----~E~i~~e~~al~~ia~~a~Gs~RD---  216 (704)
T PRK08691        150 VKFILATTDPH--K----VPVTVLSRCLQFVLRNMTAQQVADHLAHVLD----SEKIAYEPPALQLLGRAAAGSMRD---  216 (704)
T ss_pred             EEEEEECCCHH--H----CCHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----HCCCCCCHHHHHHHHHHCCCCHHH---
T ss_conf             08998548846--4----7589998887710268999999999999999----839856899999999975785777---


Q ss_pred             HHHHHHHHHHHHHHHH
Q ss_conf             4778999999999875
Q gi|254780877|r  387 PDKAIDLMDEASARVR  402 (853)
Q Consensus       387 PDKAIDllDeA~A~~~  402 (853)
                         |+.|+|.|-|+-.
T Consensus       217 ---alslldQaia~~~  229 (704)
T PRK08691        217 ---ALSLLDQAIALGS  229 (704)
T ss_pred             ---HHHHHHHHHHHCC
T ss_conf             ---9889999999648


No 97 
>KOG0989 consensus
Probab=99.12  E-value=4.7e-09  Score=92.55  Aligned_cols=176  Identities=24%  Similarity=0.413  Sum_probs=97.3

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCC---CCCCCCHHHHCCC---
Q ss_conf             7674594899999999998741012365665128987267861688999999987237765---3002244774034---
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDEN---SMIRIDMSEYMEK---  640 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~---~lir~dMsey~e~---  640 (853)
                      -..++||++.|..+.+++.+ +      +-|  .+||-||+|+|||.+|+++|..||+.+.   .++-.+-|.....   
T Consensus        35 ~de~~gQe~vV~~L~~a~~~-~------~lp--~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisvv  105 (346)
T KOG0989          35 FDELAGQEHVVQVLKNALLR-R------ILP--HYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVV  105 (346)
T ss_pred             HHHHCCHHHHHHHHHHHHHH-C------CCC--EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCHHHHCCCCCCCCCCH
T ss_conf             77650159999999999860-6------886--07866899986768999999985574235554243136600143100


Q ss_pred             ----CCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEE
Q ss_conf             ----5320130477112035667742113221564102202144149899999999840457887999778303315595
Q gi|254780877|r  641 ----HSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIM  716 (853)
Q Consensus       641 ----~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~  716 (853)
                          ..-++|.+.-++-.||          --.||-||.|||.+-...+-|+.|..++|+-           -+++.||+
T Consensus       106 r~Kik~fakl~~~~~~~~~~----------~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~-----------s~~trFiL  164 (346)
T KOG0989         106 REKIKNFAKLTVLLKRSDGY----------PCPPFKIIILDECDSMTSDAQAALRRTMEDF-----------SRTTRFIL  164 (346)
T ss_pred             HHHHCCHHHHHHCCCCCCCC----------CCCCCEEEEEECHHHHHHHHHHHHHHHHHCC-----------CCCEEEEE
T ss_conf             66523799875025565678----------8986328997416453099999999998625-----------46659999


Q ss_pred             CCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHH
Q ss_conf             48512687640326799999999986288577266681586288998999999999999999999857989999889999
Q gi|254780877|r  717 TSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVID  796 (853)
Q Consensus       717 TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~  796 (853)
                      -+|-=+.                    .++.+..|.. -+.|.+|..+++...+.       .-....|+  .+++.+++
T Consensus       165 Icnylsr--------------------ii~pi~SRC~-KfrFk~L~d~~iv~rL~-------~Ia~~E~v--~~d~~al~  214 (346)
T KOG0989         165 ICNYLSR--------------------IIRPLVSRCQ-KFRFKKLKDEDIVDRLE-------KIASKEGV--DIDDDALK  214 (346)
T ss_pred             ECCCHHH--------------------CCHHHHHHHH-HHCCCCCCHHHHHHHHH-------HHHHHHCC--CCCHHHHH
T ss_conf             7388564--------------------7728774677-71288764478999999-------99888589--97878999


Q ss_pred             HHHHCC
Q ss_conf             999708
Q gi|254780877|r  797 WLSCRG  802 (853)
Q Consensus       797 ~l~~~~  802 (853)
                      +|++.+
T Consensus       215 ~I~~~S  220 (346)
T KOG0989         215 LIAKIS  220 (346)
T ss_pred             HHHHHC
T ss_conf             999973


No 98 
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=99.09  E-value=2.6e-09  Score=94.60  Aligned_cols=204  Identities=26%  Similarity=0.288  Sum_probs=132.8

Q ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHC-CCCCCCEEEECCCCCCHHHHHHHHHHHHHCCC-C---C--------HHHCC
Q ss_conf             5699872985333335789999999633-67778668952887407779999999873489-9---8--------44457
Q gi|254780877|r  168 LTEEARNGKLDPVIGRDDEMRRAIQVLS-RRTKNNPVLIGDPGVGKTAIIEGLASRIINGD-I---P--------ESLKG  234 (853)
Q Consensus       168 LTe~Ar~GkLDPVIGRe~EI~~~~~iL~-r~~k~n~~lvGe~GvGKtaive~la~~i~~~~-v---p--------~~l~~  234 (853)
                      |-.+-|-..++-|||-+.-++.+...|. .|--.--++.|..|||||++..-||+.+.-.+ +   |        ....|
T Consensus         6 lark~Rp~~f~~~vGQ~~v~~~l~na~~~~r~~haylf~G~rG~GKtt~ari~ak~lnc~~~~~~~pcg~c~~c~~i~~g   85 (643)
T PRK07994          6 LARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQG   85 (643)
T ss_pred             HHHHHCCCCHHHHCCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCC
T ss_conf             77652888666653879999999999982986634874589988888999999999679999999978767768988658


Q ss_pred             --CEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCC--C-CEEEEECCHHHHCCCCCCCCCCCHHH-HHHHHHCC-CC
Q ss_conf             --437887313542174542024545899999986079--9-76999636277302666554335888-87653124-66
Q gi|254780877|r  235 --KRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSED--G-EIILFIDELHVLVGAGKTDGAMDASN-LLKPSLAR-GE  307 (853)
Q Consensus       235 --~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~--~-~~ilfide~h~~~gaG~~~g~~Daan-~LKP~Lar-G~  307 (853)
                        .-++++|      +++-+|-  +-++.+++.+.-.+  | --|-.|||+|||-        -.+-| +||..=.- --
T Consensus        86 ~~~d~~eid------aas~~~v--d~~rel~~~~~y~p~~~r~kvyiidEvhmls--------~~afnalLKtlEePp~h  149 (643)
T PRK07994         86 RFVDLIEID------AASRTKV--EDTRDLLDNVQYAPARGRFKVYLIDEVHMLS--------RHSFNALLKTLEEPPAH  149 (643)
T ss_pred             CCCCEEEEE------CCCCCCH--HHHHHHHHHCCCCCCCCCEEEEEEECHHHCC--------HHHHHHHHHHHCCCCHH
T ss_conf             988758863------6777888--9999999844668877853699972210158--------99999999862378610


Q ss_pred             EEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCH
Q ss_conf             04899744899999730011132023111115777678999999978986541496101589999986333202457674
Q gi|254780877|r  308 LHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLP  387 (853)
Q Consensus       308 l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lP  387 (853)
                      ..+|-|||.-  +|.  ...-|.| -|.-..+.-+.++-..-|..+..    ..+|.|.++||...++.++--+.|    
T Consensus       150 v~filaTT~~--~k~--p~TilSR-C~~f~~~~~~~~~i~~~l~~i~~----~e~i~~~~~al~~ia~~a~gs~rd----  216 (643)
T PRK07994        150 VKFLLATTDP--QKL--PVTILSR-CLQFHLKALDVEQIRHQLEHILN----EEHIAHEPRALQLLARAADGSLRD----  216 (643)
T ss_pred             CEEEEECCCH--HHC--CHHHHHH-HHHEECCCCCHHHHHHHHHHHHH----HCCCCCCHHHHHHHHHHCCCCHHH----
T ss_conf             0899860774--548--4789977-76500166999999999999999----759987889999999974786566----


Q ss_pred             HHHHHHHHHHHHHHH
Q ss_conf             778999999999875
Q gi|254780877|r  388 DKAIDLMDEASARVR  402 (853)
Q Consensus       388 DKAIDllDeA~A~~~  402 (853)
                        |..|+|.|-|+-.
T Consensus       217 --alsl~dq~i~~~~  229 (643)
T PRK07994        217 --ALSLTDQAIASGD  229 (643)
T ss_pred             --HHHHHHHHHHHCC
T ss_conf             --8889999998658


No 99 
>PRK04195 replication factor C large subunit; Provisional
Probab=99.08  E-value=1.5e-09  Score=96.55  Aligned_cols=176  Identities=22%  Similarity=0.411  Sum_probs=117.3

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHH
Q ss_conf             67459489999999999874101236566512898726786168899999998723776530022447740345320130
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLI  647 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~Li  647 (853)
                      ..|+||+++++.+..-+..-..| ..+.|   .+||.||+|||||.+|++||+.+.   -.++-+|-|+.-....+.+.+
T Consensus        14 ~divg~~~~v~~l~~Wl~~w~~g-~~~~k---~lLL~GPpGvGKTT~a~~lAk~~g---~~viElNASD~R~~~~I~~~i   86 (403)
T PRK04195         14 SDVVGNEKAKKQLREWIESWLKG-KPPKK---ALLLYGPPGVGKTSLAHALANDYG---WEVIELNASDQRTKDVIERVA   86 (403)
T ss_pred             HHHHCCHHHHHHHHHHHHHHHCC-CCCCC---EEEEECCCCCCHHHHHHHHHHHHC---CCEEEECCCCCCCHHHHHHHH
T ss_conf             99858899999999999998739-96574---699889399879999999999849---985997710114789999999


Q ss_pred             CCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHH----HHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHH
Q ss_conf             47711203566774211322156410220214414989----99999998404578879997783033155954851268
Q gi|254780877|r  648 GSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSD----VHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAE  723 (853)
Q Consensus       648 GappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~----v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~  723 (853)
                      +..-.      .+.|+    ..++-+|++||++--|..    -+..+++++.+.             ..-|||++|=   
T Consensus        87 ~~~~~------~~sl~----~~~~KlIIlDEvD~l~~~~d~gg~~al~~~ik~s-------------~~PiIli~Nd---  140 (403)
T PRK04195         87 GEAST------SGSLF----GAKRKLILLDEVDGIHGNADRGGVRAILEIIKKA-------------KNPIILTAND---  140 (403)
T ss_pred             HHHHH------CCCCC----CCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHCC-------------CCEEEEEECC---
T ss_conf             98760------68877----8873499963434457244479999999998548-------------8708998268---


Q ss_pred             HHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCC
Q ss_conf             7640326799999999986288577266681586288998999999999999999999857989999889999999708
Q gi|254780877|r  724 YLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRG  802 (853)
Q Consensus       724 ~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~  802 (853)
                           ..   .        ...+.+.+|. ..+.|+|++..++.+.+..-       ....|+  .+++.+++.|++.+
T Consensus       141 -----~~---~--------~~~~~lrs~c-~~i~F~~~~~~~I~~~L~~I-------~~~Egi--~i~~~aL~~Ia~~s  193 (403)
T PRK04195        141 -----PY---D--------PSLRPLRNAC-LMIEFKRLSKRSIVPVLKRI-------CRKEGI--ECEEEALREIAERS  193 (403)
T ss_pred             -----CC---C--------CCHHHHHHHH-HHCCCCCCCHHHHHHHHHHH-------HHHCCC--CCCHHHHHHHHHHC
T ss_conf             -----45---5--------6717799766-12217994999999999999-------997699--99999999999987


No 100
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=99.07  E-value=3.2e-09  Score=93.89  Aligned_cols=203  Identities=23%  Similarity=0.261  Sum_probs=135.5

Q ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEE-CCCCCCHHHHHHHHHHHHHCCCC----CH--------HHC-
Q ss_conf             56998729853333357899999996336777866895-28874077799999998734899----84--------445-
Q gi|254780877|r  168 LTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLI-GDPGVGKTAIIEGLASRIINGDI----PE--------SLK-  233 (853)
Q Consensus       168 LTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lv-Ge~GvGKtaive~la~~i~~~~v----p~--------~l~-  233 (853)
                      |-.+-|-..++-|||-+.-++-+...|...+-.+..|. |.-|||||++..-||+-+.-..-    |-        .-. 
T Consensus         6 lark~RP~~f~e~vGQ~~v~~~l~nal~~~rl~haylf~G~rGvGKTt~aRi~Ak~lnC~~~~~~~pcg~C~~C~~i~~g   85 (816)
T PRK07003          6 LARKWRPKDFASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEG   85 (816)
T ss_pred             HHHHHCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCC
T ss_conf             77550898576623849999999999970986314751178988888999999998678999998978775557877558


Q ss_pred             -CCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCC---CCEEEEECCHHHHCCCCCCCCCCCHHH-HHHHHHCC--C
Q ss_conf             -7437887313542174542024545899999986079---976999636277302666554335888-87653124--6
Q gi|254780877|r  234 -GKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSED---GEIILFIDELHVLVGAGKTDGAMDASN-LLKPSLAR--G  306 (853)
Q Consensus       234 -~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~---~~~ilfide~h~~~gaG~~~g~~Daan-~LKP~Lar--G  306 (853)
                       ..-++++|.+      +-+|-  +.++.+++.+.-.+   .--|.+|||+|||-.        .+=| ||| .|..  .
T Consensus        86 ~~~d~iEiDaA------S~~~v--d~~r~l~~~~~y~p~~~r~KvyiiDEvHmls~--------~afnalLK-tlEepP~  148 (816)
T PRK07003         86 RFVDYVEMDAA------SNRGV--DEMAALLERAVYAPVDARFKVYMIDEVHMLTN--------HAFNAMLK-TLEEPPP  148 (816)
T ss_pred             CCCCEEEEECC------CCCCH--HHHHHHHHHCCCCCCCCCEEEEEEECHHHCCH--------HHHHHHHH-HHCCCCC
T ss_conf             87754786355------43576--89999998622478667447999841543399--------99999998-4037986


Q ss_pred             CEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCC
Q ss_conf             60489974489999973001113202311111577767899999997898654149610158999998633320245767
Q gi|254780877|r  307 ELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFL  386 (853)
Q Consensus       307 ~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~l  386 (853)
                      -..+|-|||.-  .| | ... .-.|-|.-..+--+.++...-|..+...    .+|.|.++||...++.++--|.|   
T Consensus       149 hv~FilaTTd~--~k-~-p~t-ilSRc~~f~l~~~~~~~i~~~l~~i~~~----E~i~~e~~al~lia~~a~GsmRD---  216 (816)
T PRK07003        149 HVKFILATTDP--QK-I-PVT-VLSRCLQFNLKQMPAGHIVSHLERILGE----ERIAFEPQALRLLARAAQGSMRD---  216 (816)
T ss_pred             CEEEEEECCCH--HH-C-CHH-HHHHHHHCCCCCCCHHHHHHHHHHHHHH----CCCCCCHHHHHHHHHHCCCCHHH---
T ss_conf             64899955880--11-5-288-9877765223679999999999999998----29977999999999976773788---


Q ss_pred             HHHHHHHHHHHHHHHH
Q ss_conf             4778999999999875
Q gi|254780877|r  387 PDKAIDLMDEASARVR  402 (853)
Q Consensus       387 PDKAIDllDeA~A~~~  402 (853)
                         |+.|+|.|-|+-.
T Consensus       217 ---alsl~dQaia~~~  229 (816)
T PRK07003        217 ---ALSLTDQAIAYSA  229 (816)
T ss_pred             ---HHHHHHHHHHHCC
T ss_conf             ---8859999998469


No 101
>KOG2028 consensus
Probab=99.07  E-value=2e-09  Score=95.53  Aligned_cols=188  Identities=26%  Similarity=0.382  Sum_probs=122.3

Q ss_pred             HHHHHHHCCCCCCCCCHHHHHHH--HHH-HHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHH
Q ss_conf             35699872985333335789999--999-633677786689528874077799999998734899844457437887313
Q gi|254780877|r  167 DLTEEARNGKLDPVIGRDDEMRR--AIQ-VLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMG  243 (853)
Q Consensus       167 DLTe~Ar~GkLDPVIGRe~EI~~--~~~-iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~  243 (853)
                      -|.+++|-..||-.+|-+.-+-+  ++. .+...+-+..||-|+||+|||+|+.-+|.--   .-+    .++.+++.  
T Consensus       127 PLaermRPktL~dyvGQ~hlv~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~ts---k~~----SyrfvelS--  197 (554)
T KOG2028         127 PLAERMRPKTLDDYVGQSHLVGQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTS---KKH----SYRFVELS--  197 (554)
T ss_pred             CHHHHCCCCHHHHHCCHHHHCCCCHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHHC---CCC----CEEEEEEE--
T ss_conf             745541843687750534414832689999870888705886699876588999998605---777----42799974--


Q ss_pred             HHHCCCC-CCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHHHH
Q ss_conf             5421745-420245458999999860799769996362773026665543358888765312466048997448999997
Q gi|254780877|r  244 ALIAGAK-FRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGATTLDEYRKY  322 (853)
Q Consensus       244 ~l~ag~~-~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~  322 (853)
                      +.-|++. .|+-||.- ++..   .-.+.+.||||||||-.--  ++      -.++-|....|.|..|||||..-   .
T Consensus       198 At~a~t~dvR~ife~a-q~~~---~l~krkTilFiDEiHRFNk--sQ------QD~fLP~VE~G~I~lIGATTENP---S  262 (554)
T KOG2028         198 ATNAKTNDVRDIFEQA-QNEK---SLTKRKTILFIDEIHRFNK--SQ------QDTFLPHVENGDITLIGATTENP---S  262 (554)
T ss_pred             CCCCCHHHHHHHHHHH-HHHH---HHHCCEEEEEEHHHHHHHH--HH------HHCCCCEECCCCEEEEECCCCCC---C
T ss_conf             1456618899999998-8787---6524406987377655323--21------10034213067069985366897---6


Q ss_pred             HHCCHHHHHCCCEEECCCCCHHHHHHHH-HHHHHHHHH--------HCCCCCCHHHHHHHHHHHH
Q ss_conf             3001113202311111577767899999-997898654--------1496101589999986333
Q gi|254780877|r  323 IEKDPALARRFQSLLVGEPTVTDTISIL-RGLKERYEQ--------HHKVRISDSALVSAAVLSN  378 (853)
Q Consensus       323 iEkD~Al~RRFq~i~V~Eps~~~t~~iL-~gl~~~yE~--------~H~V~i~d~al~~av~ls~  378 (853)
                      |.-+.||-.|--.+.++...++....|| |++..--+.        +--+++.|.+|++.+.+|+
T Consensus       263 Fqln~aLlSRC~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsd  327 (554)
T KOG2028         263 FQLNAALLSRCRVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSD  327 (554)
T ss_pred             CCHHHHHHHCCCEEEECCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHCC
T ss_conf             01127787316066733688899999999998763210256889998312456889999987047


No 102
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=99.07  E-value=3.5e-08  Score=85.42  Aligned_cols=46  Identities=13%  Similarity=0.273  Sum_probs=22.4

Q ss_pred             CCCCEEEEHHHHHCCHHHHHHHHHHHH-CCEEE----CCCCCEEECCCCEEEECC
Q ss_conf             564102202144149899999999840-45788----799977830331559548
Q gi|254780877|r  669 HPYQVVLFDEIEKAHSDVHNILLQVLD-DGRLT----DSQGRTVDFRNTLIIMTS  718 (853)
Q Consensus       669 ~P~sVil~DEiEKah~~v~~~llqild-~G~lt----d~~G~~v~f~n~iii~Ts  718 (853)
                      ++.+-+-++.+.+.-++|++    .+. +..+.    -..|+.++|.+-.+.+.-
T Consensus       425 ~~~s~~~~~~v~~~W~~ILe----~lk~~r~~~l~alL~~~~pv~~~~~~l~I~f  475 (541)
T PRK05563        425 NVDSKLTIDNVKKVWKDILE----AFKARRKMVLYAALVTGKLVKCKKGVITINY  475 (541)
T ss_pred             CCCCCCCHHHHHHHHHHHHH----HHHHCCCHHHHHHHHCCEEEEEECCEEEEEE
T ss_conf             64441348999989999999----9885254209999855957998799899998


No 103
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=99.07  E-value=1.2e-08  Score=89.29  Aligned_cols=199  Identities=25%  Similarity=0.327  Sum_probs=137.9

Q ss_pred             HHHHCCCCCCCCCHHHHHHHHHHHHCC-CCCCCEEEECCCCCCHHHHHHHHHHHHHC-------CCCCHHH---------
Q ss_conf             998729853333357899999996336-77786689528874077799999998734-------8998444---------
Q gi|254780877|r  170 EEARNGKLDPVIGRDDEMRRAIQVLSR-RTKNNPVLIGDPGVGKTAIIEGLASRIIN-------GDIPESL---------  232 (853)
Q Consensus       170 e~Ar~GkLDPVIGRe~EI~~~~~iL~r-~~k~n~~lvGe~GvGKtaive~la~~i~~-------~~vp~~l---------  232 (853)
                      .+.|--.++-|||-+.-++.+...+.. |--+--++.|.-|||||+++.-||.-+.-       |-.++.-         
T Consensus        15 ~k~rp~~f~~~~gq~~~~~~l~~~~~~~~~~~a~l~~g~rg~gktt~ari~a~~lnc~~~~~~~~~~~~~c~~c~~c~~i   94 (600)
T PRK09111         15 RKYRPQTFDDLIGQEAMVRTLRNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYKGPDGVGGPTIDPCGVGEHCQAI   94 (600)
T ss_pred             ECCCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHH
T ss_conf             10179877663385999999999997298420476457898789999999999966988766689988989988658988


Q ss_pred             -CC--CEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCC---CEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC-
Q ss_conf             -57--4378873135421745420245458999999860799---7699963627730266655433588887653124-
Q gi|254780877|r  233 -KG--KRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDG---EIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR-  305 (853)
Q Consensus       233 -~~--~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~---~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar-  305 (853)
                       .|  .-|+++|.      ++.+|=  +-++.|++.+.-.+.   --|..|||+|||        |-.|-|-|--.|.. 
T Consensus        95 ~~~~~~d~~e~da------as~~~v--~~~r~~~~~~~~~p~~~~~kv~iidevhml--------s~~afnallktleep  158 (600)
T PRK09111         95 MEGRHVDVIEMDA------ASHTGV--DDIREIIESVRYRPVSARYKVYIIDEVHML--------STAAFNALLKTLEEP  158 (600)
T ss_pred             HCCCCCCEEEEEC------CCCCCH--HHHHHHHHHHCCCCCCCCEEEEEEECCCCC--------CHHHHHHHHHHHHCC
T ss_conf             6689987588515------545788--899999986053887775469996001105--------799999999876259


Q ss_pred             -CCEEEEEEECHHHHHHHHHCCH-HHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCC
Q ss_conf             -6604899744899999730011-13202311111577767899999997898654149610158999998633320245
Q gi|254780877|r  306 -GELHCIGATTLDEYRKYIEKDP-ALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITD  383 (853)
Q Consensus       306 -G~l~~IgaTT~~Eyrk~iEkD~-Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~  383 (853)
                       .-+.+|=|||.  .+    |=| ..-.|-|+-...--+.++...-|..+...    .++.|+++||...++.|.==+.|
T Consensus       159 p~~~~fi~att~--~~----k~p~ti~src~~f~~~~~~~~~~~~~l~~i~~~----e~~~~~~~al~~ia~~a~GS~RD  228 (600)
T PRK09111        159 PPHVKFIFATTE--IR----KVPVTVLSRCQRFDLRRIEAEVLAAHLARIAEK----EGVEVEPDALALIARAAEGSVRD  228 (600)
T ss_pred             CCCEEEEEECCC--HH----HCCHHHHHHHHEECCCCCCHHHHHHHHHHHHHH----CCCCCCHHHHHHHHHHCCCCCCH
T ss_conf             865499996285--34----375899854412010579999999999999986----07686677999999974898421


Q ss_pred             CCCHHHHHHHHHHHHHH
Q ss_conf             76747789999999998
Q gi|254780877|r  384 RFLPDKAIDLMDEASAR  400 (853)
Q Consensus       384 r~lPDKAIDllDeA~A~  400 (853)
                            |..|||.|.|.
T Consensus       229 ------aLSlLDQai~~  239 (600)
T PRK09111        229 ------GLSLLDQAIAH  239 (600)
T ss_pred             ------HHHHHHHHHHC
T ss_conf             ------89999999972


No 104
>TIGR02928 TIGR02928 orc1/cdc6 family replication initiation protein; InterPro: IPR014277   This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. The proteins in this entry are found exclusively in the archaea. Several members may be found in a genome and interact with each other..
Probab=99.06  E-value=1.9e-07  Score=79.53  Aligned_cols=215  Identities=19%  Similarity=0.289  Sum_probs=151.9

Q ss_pred             CCCCHHHHHHHHHHHH----C-CCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEH----------H
Q ss_conf             3333578999999963----3-67778668952887407779999999873489984445743788731----------3
Q gi|254780877|r  179 PVIGRDDEMRRAIQVL----S-RRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDM----------G  243 (853)
Q Consensus       179 PVIGRe~EI~~~~~iL----~-r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~----------~  243 (853)
                      -+.|||++|+++...|    . ..+=+|+++-|.+||||||++.-+.+++...---....+..+..+|-          .
T Consensus        18 ~i~hRdeqI~~l~~~L~~~l~PG~~P~Ni~iYGkTGtGKT~vt~~v~~~l~~~~~~~d~~D~~~~~~NC~~~~T~y~~~~   97 (383)
T TIGR02928        18 RIVHRDEQIEELAKALRPILRPGSRPSNIFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRDVSTVYINCQILDTSYQVLV   97 (383)
T ss_pred             CCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCHHHHHH
T ss_conf             46686789999999988750674898725887888987889999999999998622699715899977854684699999


Q ss_pred             HHHCCC---------CCCCH-HHHHHHHHHHHHH-HCCCCEEEEECCHHHHCCCCCCCC-----CCCHHHHHH----HHH
Q ss_conf             542174---------54202-4545899999986-079976999636277302666554-----335888876----531
Q gi|254780877|r  244 ALIAGA---------KFRGE-FEERLKSLLCEIR-SEDGEIILFIDELHVLVGAGKTDG-----AMDASNLLK----PSL  303 (853)
Q Consensus       244 ~l~ag~---------~~rg~-~e~r~~~i~~~~~-~~~~~~ilfide~h~~~gaG~~~g-----~~Daan~LK----P~L  303 (853)
                      .|+.--         .++|= +.+-++.+.+++. +..+-+|..+|||-.|+ -+..+.     .+-  .|++    -.+
T Consensus        98 ~L~~~ln~~~~~~~vP~tG~s~~~~~~~l~~~l~~~~~~~~~ivLDEiD~Lv-~~~~d~PAyS~~LY--~L~Ra~~~~~~  174 (383)
T TIGR02928        98 ELANQLNRRGSGEEVPTTGLSTSEVFRELYKELNRERGDSLIIVLDEIDKLV-RKDDDDPAYSKLLY--QLSRARENGDL  174 (383)
T ss_pred             HHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEEECCCCHHH-CCCCCCHHHHHHHH--HHHHHHHCCCC
T ss_conf             9999851577888898877878999999999983201887999862310221-58888807878853--43310003577


Q ss_pred             CCCCEEEEEEECHHHHHHHHHCCHHHHHCCCE--EECCCCCHHHHHHHHHHHHHHH-H-HHCCCCCCHHHHHHHHHHHHH
Q ss_conf             24660489974489999973001113202311--1115777678999999978986-5-414961015899999863332
Q gi|254780877|r  304 ARGELHCIGATTLDEYRKYIEKDPALARRFQS--LLVGEPTVTDTISILRGLKERY-E-QHHKVRISDSALVSAAVLSNR  379 (853)
Q Consensus       304 arG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~--i~V~Eps~~~t~~iL~gl~~~y-E-~~H~V~i~d~al~~av~ls~r  379 (853)
                      ....+-+||.|=--.|+..+.  +=-...|++  |.=.+=+.++-..||   ..|- | .||.=-++|++|.-|+.++.|
T Consensus       175 ~~~~vgvIgISND~~f~~~Ld--~RVkSsL~~eei~FpPYdA~eL~~IL---~~R~v~~AF~dGvl~d~VI~lcAA~aAq  249 (383)
T TIGR02928       175 ENAKVGVIGISNDLKFRENLD--PRVKSSLCEEEIVFPPYDAEELRDIL---ENRAVEKAFYDGVLDDGVIPLCAALAAQ  249 (383)
T ss_pred             CCCCEEEEEEECCCHHHHHCC--CCEECCCCCCCCEECCCCHHHHHHHH---HHHHHHHCCCCCCCCHHHHHHHHHHHHC
T ss_conf             885348999865714364457--53013248740040798869999999---7203120336885462279999998620


Q ss_pred             HCCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             0245767477899999999987541
Q gi|254780877|r  380 YITDRFLPDKAIDLMDEASARVRMQ  404 (853)
Q Consensus       380 Yi~~r~lPDKAIDllDeA~A~~~i~  404 (853)
                      ==.|   ==||||||=.||=.+.-+
T Consensus       250 ~hGD---AR~AiDLLR~AGe~A~~~  271 (383)
T TIGR02928       250 EHGD---ARKAIDLLRVAGEIAERE  271 (383)
T ss_pred             CCCC---HHHHHHHHHHHHHHHHHC
T ss_conf             6787---899999999876875315


No 105
>pfam00004 AAA ATPase family associated with various cellular activities (AAA). AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.
Probab=99.06  E-value=3.4e-10  Score=101.86  Aligned_cols=115  Identities=35%  Similarity=0.533  Sum_probs=78.9

Q ss_pred             EEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCC---CCCCHHHHCCCCCEEEEH
Q ss_conf             98726786168899999998723776530022447740345320130477112035667---742113221564102202
Q gi|254780877|r  601 FMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEG---GALTEAVRRHPYQVVLFD  677 (853)
Q Consensus       601 flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~g---g~Lte~vr~~P~sVil~D  677 (853)
                      .||.||+|+|||.+|+++|..+   ...++.++.+++..            .|+|..+.   ..+..+-+..| ||+++|
T Consensus         1 iLl~GppGtGKT~~a~~la~~~---~~~~~~v~~~~~~~------------~~~g~~~~~i~~~f~~a~~~~p-~Il~iD   64 (131)
T pfam00004         1 LLLYGPPGTGKTTLAKAVAKEL---GAPFIEISGSELVS------------KYVGESEKRLRELFEAAKKLAP-CVIFID   64 (131)
T ss_pred             CEEECCCCCCHHHHHHHHHHHH---CCCCEECCCCCCCC------------CCCCHHHHHHHHHHHHHHHCCC-CEEEEC
T ss_conf             9878999999999999999997---89853324201222------------3345068889999999997499-189831


Q ss_pred             HHHHCCH-----------HHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCH
Q ss_conf             1441498-----------99999999840457887999778303315595485126876403267999999999862885
Q gi|254780877|r  678 EIEKAHS-----------DVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKP  746 (853)
Q Consensus       678 EiEKah~-----------~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~p  746 (853)
                      |+|.-.+           .+.+.||+.+|.-        ..+..+.++|+|||-        .            ..+.|
T Consensus        65 e~d~l~~~~~~~~~~~~~~~~~~ll~~ld~~--------~~~~~~v~~I~tTN~--------~------------~~ld~  116 (131)
T pfam00004        65 EIDALAGSRGSGGDSESRRVVNQLLTELDGF--------TSSLSKVIVIAATNR--------P------------DKLDP  116 (131)
T ss_pred             HHHHHHCCCCCCCCCCCHHHHHHHHHHHHHC--------CCCCCCEEEEEECCC--------H------------HHCCH
T ss_conf             1677751678888875132687899998502--------246887699997599--------0------------44997


Q ss_pred             HHH-CCCCCEEECC
Q ss_conf             772-6668158628
Q gi|254780877|r  747 EFL-NRLDEIILFE  759 (853)
Q Consensus       747 efl-nRid~iv~F~  759 (853)
                      .++ +|+|.+|.|.
T Consensus       117 al~r~Rfd~~i~~p  130 (131)
T pfam00004       117 ALLRGRFDRIIEFP  130 (131)
T ss_pred             HHHCCCCEEEEEEC
T ss_conf             79628332899806


No 106
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=99.06  E-value=1.9e-09  Score=95.75  Aligned_cols=164  Identities=24%  Similarity=0.423  Sum_probs=102.9

Q ss_pred             HHHHCCHHHHHHHHHHHHHH-------HHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCC
Q ss_conf             76745948999999999987-------41012365665128987267861688999999987237765300224477403
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRR-------FRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYME  639 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~-------~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e  639 (853)
                      -+-|.|+++|.+.+...+--       .+.|-+-   |-| .||.||+|+|||.|||++|..-   .-+++.+..|||.|
T Consensus       151 F~DVaG~~eaK~el~EiVdfLk~P~k~~~~Gak~---PkG-vLL~GPPGtGKTlLAkAvAgEa---~vpF~~~sgsef~e  223 (644)
T PRK10733        151 FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKI---PKG-VLMVGPPGTGKTLLAKAIAGEA---KVPFFTISGSDFVE  223 (644)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHCHHHHHHCCCCC---CCC-EEEECCCCCCHHHHHHHHHCCC---CCEEEEEEHHHHHH
T ss_conf             1040897899999999999812979999749979---985-1777989987789999986455---98089978477302


Q ss_pred             CCCCCHHHCCCCHHCCCCCC--CCCCHHHHCCCCCEEEEHHHHHC-----------CH---HHHHHHHHHHHCCEEECCC
Q ss_conf             45320130477112035667--74211322156410220214414-----------98---9999999984045788799
Q gi|254780877|r  640 KHSVSRLIGSPPGYVGYEEG--GALTEAVRRHPYQVVLFDEIEKA-----------HS---DVHNILLQVLDDGRLTDSQ  703 (853)
Q Consensus       640 ~~~vs~LiGappGYvG~~~g--g~Lte~vr~~P~sVil~DEiEKa-----------h~---~v~~~llqild~G~ltd~~  703 (853)
                      .            |||-+..  -.|-+.-|++.-|||++|||+--           |.   .++|-||-=|| |. ..+ 
T Consensus       224 ~------------~vGvga~rVR~lF~~Ar~~aP~IIFIDEiDaig~~R~~~~~gg~~e~~~tlNqlL~EmD-Gf-~~~-  288 (644)
T PRK10733        224 M------------FVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMD-GF-EGN-  288 (644)
T ss_pred             E------------EEECCHHHHHHHHHHHHHCCCEEEEEECHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHH-CC-CCC-
T ss_conf             2------------25306899999999999669979999532203666789888983288878999999954-88-887-


Q ss_pred             CCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             9778303315595485126876403267999999999862885772666815862889989999999999999
Q gi|254780877|r  704 GRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGR  776 (853)
Q Consensus       704 G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~  776 (853)
                            .+.|+|..+|-        .+....++       .||   +|+|..|.+..-+......|++.+++.
T Consensus       289 ------~~ViviaATNr--------pd~LD~AL-------lRP---GRFDr~I~V~lPd~~~R~~ILkvh~~~  337 (644)
T PRK10733        289 ------EGIIVIAATNR--------PDVLDPAL-------LRP---GRFDRQVVVGLPDVRGREQILKVHMRR  337 (644)
T ss_pred             ------CCEEEEEECCC--------CCCCCHHH-------HCC---CCCCEEEEECCCCHHHHHHHHHHHHCC
T ss_conf             ------87699962699--------75547777-------168---886559997798988999999999648


No 107
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family; InterPro: IPR014252   This entry shows some relation to the widely distributed ATP-dependent protease La, also called Lon or LonA (IPR004815 from INTERPRO), but is more closely related to LonB (IPR014251 from INTERPRO), a LonA paralog found only in endospore-forming bacteria. Proteins in this entry are unassigned peptidases belonging to the MEROPS peptidase family S16 (lon protease family, clan SJ). They are restricted to a subset of endospore-forming species, and probably participate in the program of endospore formation. We propose the designation LonC..
Probab=99.06  E-value=2.5e-09  Score=94.76  Aligned_cols=227  Identities=26%  Similarity=0.449  Sum_probs=147.8

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHH-------CCCCCCCCCCCHHHHC-
Q ss_conf             76745948999999999987410123656651289872678616889999999872-------3776530022447740-
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLL-------FDDENSMIRIDMSEYM-  638 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~l-------f~~~~~lir~dMsey~-  638 (853)
                      -+.||||+.||+++..-       +.+|= |. -.++-||+|||||..|+..=|.-       |...-+|+=.|-...- 
T Consensus       154 f~EiVGQerAI~aLlaK-------~aSPf-PQ-HiiLYGPPGVGKTTaARl~LEe~K~~~~tPF~~DA~FvEVDGtTLRW  224 (616)
T TIGR02903       154 FSEIVGQERAIKALLAK-------LASPF-PQ-HIILYGPPGVGKTTAARLALEEAKKLKNTPFAEDAPFVEVDGTTLRW  224 (616)
T ss_pred             CCCCCCHHHHHHHHHHH-------HCCCC-CC-CEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCEEEECCCCCCC
T ss_conf             76433346899999976-------31888-66-07855733884789999987621368744761137857515762667


Q ss_pred             CCCC-CCHHHCC--CCHHCCCC-----C------CCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCC
Q ss_conf             3453-2013047--71120356-----6------7742113221564102202144149899999999840457887999
Q gi|254780877|r  639 EKHS-VSRLIGS--PPGYVGYE-----E------GGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQG  704 (853)
Q Consensus       639 e~~~-vs~LiGa--ppGYvG~~-----~------gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G  704 (853)
                      |+-. .+=|+||  -|=|=|..     .      .|+-|+|   | -.|++.|||=--.|=.+|-||.||+|=       
T Consensus       225 DPREvTNPLLGSVHDPIYQGa~RDLAE~GvPEPk~GLVT~A---H-GGvLFIDEIGELD~lLQnKLLKVLEDK-------  293 (616)
T TIGR02903       225 DPREVTNPLLGSVHDPIYQGARRDLAETGVPEPKLGLVTDA---H-GGVLFIDEIGELDPLLQNKLLKVLEDK-------  293 (616)
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCC---C-CCEEEEECHHHHHHHHHHHHHHHHCCC-------
T ss_conf             74101477677625765567640110478798989871004---7-756765021122278763244432264-------


Q ss_pred             CEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHC---------------------CHHHHCCCCCEEECCCCCH
Q ss_conf             7783033155954851268764032679999999998628---------------------8577266681586288998
Q gi|254780877|r  705 RTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAF---------------------KPEFLNRLDEIILFEKLRK  763 (853)
Q Consensus       705 ~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f---------------------~peflnRid~iv~F~~l~~  763 (853)
                       +|.|+.+.               +|...+.+=+=+|+.|                     .|.|..|+-| |.|.||+.
T Consensus       294 -rV~F~SsY---------------YDpdD~NvPkYIK~lFe~GAPADFvLIGATTr~P~eINpALRSRCaE-vfFePL~p  356 (616)
T TIGR02903       294 -RVEFSSSY---------------YDPDDENVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAE-VFFEPLTP  356 (616)
T ss_pred             -EEEEEECC---------------CCCCCCCCCHHHHHHHCCCCCCCEEEECCCCCCHHHCCHHHHCCCCE-EECCCCCH
T ss_conf             -36653212---------------48753786558888522688825687266158824405123301431-32179887


Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEE
Q ss_conf             99999999999999999985798999988999999970898220621579999987334999999708688978899999
Q gi|254780877|r  764 EDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQRYIQNPLAERVLSQTISDGDSIEVFV  843 (853)
Q Consensus       764 ~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~~~la~~il~~~~~~g~~i~i~~  843 (853)
                      .++..|+..--         ..+++.+.+.|.+.|+.  |.-+ | |---.++-.--  -++.+--.....+++.|.|+.
T Consensus       357 ~dI~~Iv~~AA---------~klnv~L~~gV~e~Ia~--YTie-G-RkAvnILAD~Y--g~~ly~~~~~~~~~d~~~I~~  421 (616)
T TIGR02903       357 EDIKEIVLNAA---------EKLNVKLAEGVEELIAR--YTIE-G-RKAVNILADVY--GYALYKKAEALKEEDKVTITA  421 (616)
T ss_pred             HHHHHHHHHHH---------HHCCCCCCCCHHHHHHH--CCCC-C-HHHHHHHHHHH--HHHHHCCCCCCCCCCCEEEEH
T ss_conf             89999999988---------86177000364878721--4713-1-12223465467--676530455567777426618


Q ss_pred             EC
Q ss_conf             89
Q gi|254780877|r  844 DD  845 (853)
Q Consensus       844 ~~  845 (853)
                      ++
T Consensus       422 ~d  423 (616)
T TIGR02903       422 DD  423 (616)
T ss_pred             HH
T ss_conf             67


No 108
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=99.06  E-value=3.3e-09  Score=93.78  Aligned_cols=201  Identities=26%  Similarity=0.459  Sum_probs=123.9

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCCC-----CCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCC
Q ss_conf             767459489999999999874101236566-----512898726786168899999998723776530022447740345
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRFRAGLQDPQR-----PMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKH  641 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~-----p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~  641 (853)
                      -..||||++|-.+-.-.+.-    |.+|.+     |- ..||.||||+|||.+||+||...   ...++-+         
T Consensus       120 ~ddViGqEeAK~kcrli~~y----LenPe~Fg~WAPk-nVLFyGppGTGKTm~Akalane~---kvp~l~v---------  182 (368)
T COG1223         120 LDDVIGQEEAKRKCRLIMEY----LENPERFGDWAPK-NVLFYGPPGTGKTMMAKALANEA---KVPLLLV---------  182 (368)
T ss_pred             HHHHHCHHHHHHHHHHHHHH----HHCHHHHCCCCCC-EEEEECCCCCCHHHHHHHHHCCC---CCCEEEE---------
T ss_conf             76641639888887999999----6496876345754-16877899964879999872545---7854871---------


Q ss_pred             CCCHHHCCCCHHCCCCCC--CCCCHHHHCCCCCEEEEHHHHHCC------------HHHHHHHHHHHHCCEEECCCCCEE
Q ss_conf             320130477112035667--742113221564102202144149------------899999999840457887999778
Q gi|254780877|r  642 SVSRLIGSPPGYVGYEEG--GALTEAVRRHPYQVVLFDEIEKAH------------SDVHNILLQVLDDGRLTDSQGRTV  707 (853)
Q Consensus       642 ~vs~LiGappGYvG~~~g--g~Lte~vr~~P~sVil~DEiEKah------------~~v~~~llqild~G~ltd~~G~~v  707 (853)
                      .++.|||   -|||-+.-  ..|-+.-++.--|||++||++--.            .+|.|.||.=|| |. ..+.|   
T Consensus       183 kat~liG---ehVGdgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelD-gi-~eneG---  254 (368)
T COG1223         183 KATELIG---EHVGDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELD-GI-KENEG---  254 (368)
T ss_pred             CHHHHHH---HHHHHHHHHHHHHHHHHHHCCCEEEEEHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCC-CC-CCCCC---
T ss_conf             1688888---7743598999999998875198499840024555304578864549999999998501-74-45775---


Q ss_pred             ECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCE
Q ss_conf             30331559548512687640326799999999986288577266681586288998999999999999999999857989
Q gi|254780877|r  708 DFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNIS  787 (853)
Q Consensus       708 ~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~  787 (853)
                          .+.|..+|-        .+            .+-|...+|+.+-|-|.--+.++...|++.+++.       -.+.
T Consensus       255 ----VvtIaaTN~--------p~------------~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~-------~Plp  303 (368)
T COG1223         255 ----VVTIAATNR--------PE------------LLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKK-------FPLP  303 (368)
T ss_pred             ----EEEEEECCC--------HH------------HCCHHHHHHHHHEEEEECCCHHHHHHHHHHHHHH-------CCCC
T ss_conf             ----699950598--------46------------5078888655650656488858999999998985-------8976


Q ss_pred             EEECHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             99988999999970898220621579999987334999999708
Q gi|254780877|r  788 MDFDDQVIDWLSCRGYDPSYGARPLKRVIQRYIQNPLAERVLSQ  831 (853)
Q Consensus       788 l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~~~la~~il~~  831 (853)
                      +...   .++++.+  ...+..|.|+   ++-+.+.|-+.|+.+
T Consensus       304 v~~~---~~~~~~~--t~g~SgRdik---ekvlK~aLh~Ai~ed  339 (368)
T COG1223         304 VDAD---LRYLAAK--TKGMSGRDIK---EKVLKTALHRAIAED  339 (368)
T ss_pred             CCCC---HHHHHHH--HCCCCCHHHH---HHHHHHHHHHHHHHC
T ss_conf             5568---9999998--4787720689---999999999998713


No 109
>CHL00176 ftsH cell division protein; Validated
Probab=99.05  E-value=2.5e-09  Score=94.83  Aligned_cols=163  Identities=26%  Similarity=0.447  Sum_probs=108.1

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCCC--------CCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHC
Q ss_conf             767459489999999999874101236566--------512898726786168899999998723776530022447740
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRFRAGLQDPQR--------PMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYM  638 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~--------p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~  638 (853)
                      -+-|.|+++|.+.+...+--    |++|.|        |-| .||+||+|+|||.|||++|..-   .-+++.+.-|||.
T Consensus       176 F~DVaG~~eaK~el~Eivdf----Lk~P~k~~~~Gak~PkG-vLL~GpPGTGKTlLAkAvAgEa---~vpF~~~sgs~F~  247 (631)
T CHL00176        176 FNDVAGVEEAKEELEEVVTF----LKKPERFTAVGAKIPKG-VLLVGPPGTGKTLLAKAIAGEA---EVPFFSISGSEFV  247 (631)
T ss_pred             CCCCCCCHHHHHHHHHHHHH----HCCHHHHHHCCCCCCCE-EEEECCCCCCHHHHHHHHHCCC---CCCEEEEEHHHHH
T ss_conf             53228858999999999998----35958876449968965-8988989987889999985655---8846998837855


Q ss_pred             CCCCCCHHHCCCCHHCCCCCC--CCCCHHHHCCCCCEEEEHHHHHC-----------CHH---HHHHHHHHHHCCEEECC
Q ss_conf             345320130477112035667--74211322156410220214414-----------989---99999998404578879
Q gi|254780877|r  639 EKHSVSRLIGSPPGYVGYEEG--GALTEAVRRHPYQVVLFDEIEKA-----------HSD---VHNILLQVLDDGRLTDS  702 (853)
Q Consensus       639 e~~~vs~LiGappGYvG~~~g--g~Lte~vr~~P~sVil~DEiEKa-----------h~~---v~~~llqild~G~ltd~  702 (853)
                      |.            |||-+..  -.|-+.-|++.-|||+.|||+--           |.+   .+|-||.=|| |. ..+
T Consensus       248 e~------------~vGvga~rVR~LF~~Ar~~aP~IiFIDEiDaig~~Rg~~~~gg~~e~e~tlnqLL~emD-Gf-~~~  313 (631)
T CHL00176        248 EM------------FVGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGVGGGNDEREQTLNQLLTEMD-GF-EGN  313 (631)
T ss_pred             HH------------HCCHHHHHHHHHHHHHHHCCCEEEEEEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHC-CC-CCC
T ss_conf             64------------21555899999999998639969998710120114789888985089999999999842-88-878


Q ss_pred             CCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             99778303315595485126876403267999999999862885772666815862889989999999999999
Q gi|254780877|r  703 QGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGR  776 (853)
Q Consensus       703 ~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~  776 (853)
                             .+.|+|..||-        .+....++       .||   +|+|..|....-+......|++.+++.
T Consensus       314 -------~gViViaATNr--------pd~LDpAL-------lRP---GRFDR~I~V~lPD~~gR~~IL~vh~k~  362 (631)
T CHL00176        314 -------KGVIVIAATNR--------IDILDAAL-------LRP---GRFDRQVTVSLPDFEGRLDILKVHARN  362 (631)
T ss_pred             -------CCEEEEEECCC--------CCCCCHHH-------CCC---CCCCEEEEECCCCHHHHHHHHHHHHHC
T ss_conf             -------88699982588--------55456866-------268---877549982698989999999999707


No 110
>TIGR02902 spore_lonB ATP-dependent protease LonB; InterPro: IPR014251   This entry represents LonB, a paralog of the ATP-dependent protease La (LonA, IPR004815 from INTERPRO). LonB proteins are unassigned peptidases belonging to the MEROPS peptidase family S16 (lon protease family, clan SJ) and are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore during sporulation, under control of sigmaF . The lonB gene, despite being located immediately upstream of lonA, was shown to be monocistronic. LonB appears to be involved in the post-translation control of sigmaH, but lonB mutation did not produce an obvious sporulation defect under the conditions tested . Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and these are excluded from this entry. .
Probab=99.04  E-value=2.2e-09  Score=95.28  Aligned_cols=214  Identities=23%  Similarity=0.335  Sum_probs=145.9

Q ss_pred             HHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCC-CCCHHHCCCEEEEEEHH
Q ss_conf             44356998729853333357899999996336777866895288740777999999987348-99844457437887313
Q gi|254780877|r  165 CRDLTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIING-DIPESLKGKRLMALDMG  243 (853)
Q Consensus       165 ~~DLTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~-~vp~~l~~~~i~~ld~~  243 (853)
                      |.=|||+.|=..+|-+||=|+=|+-|---||.-+=..+|+-|+|||||||=+. |+..=+.. ...++=-+...+++|.+
T Consensus        52 t~PL~Ek~RP~SF~EIiGQe~GI~ALKAALCGPNPQHVIiYGPPGVGKTAAAR-LVLeeAKk~~~SPFke~A~FVEiDAT  130 (532)
T TIGR02902        52 TEPLSEKTRPKSFDEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAAR-LVLEEAKKNPASPFKEEAAFVEIDAT  130 (532)
T ss_pred             CCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHH-HHHHHHHCCCCCCCCCCCEEEEEECC
T ss_conf             78877466777633256735568999986068689638987886961789999-99998650875378988668985051


Q ss_pred             HHHCCCCCCCHHHHH------HHHHHHHH--------------------HHCCCCEEEEECCH---HHH-----------
Q ss_conf             542174542024545------89999998--------------------60799769996362---773-----------
Q gi|254780877|r  244 ALIAGAKFRGEFEER------LKSLLCEI--------------------RSEDGEIILFIDEL---HVL-----------  283 (853)
Q Consensus       244 ~l~ag~~~rg~~e~r------~~~i~~~~--------------------~~~~~~~ilfide~---h~~-----------  283 (853)
                      .+        -|-||      +-++.|=+                    .++.|. |||||||   |=+           
T Consensus       131 T~--------RFDERGIADPLIGSVHDPIYQGAGplG~AGIPQPK~GAVT~AHGG-vLFIDEIGELHP~~MNKLLKVLED  201 (532)
T TIGR02902       131 TA--------RFDERGIADPLIGSVHDPIYQGAGPLGVAGIPQPKPGAVTKAHGG-VLFIDEIGELHPVQMNKLLKVLED  201 (532)
T ss_pred             CC--------CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-EEEECCCCCCCHHHHHHHHHHHHC
T ss_conf             03--------602146666567761585333765457885575877763202586-551212466582435314113302


Q ss_pred             ----C-CCCCCCCCCCHHHHHHHHHCCC---CEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHH
Q ss_conf             ----0-2666554335888876531246---6048997448999997300111320231111157776789999999789
Q gi|254780877|r  284 ----V-GAGKTDGAMDASNLLKPSLARG---ELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKE  355 (853)
Q Consensus       284 ----~-gaG~~~g~~Daan~LKP~LarG---~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~  355 (853)
                          + .|-=++..-..=+-.+=.-..|   ++|.|||||-    +==|=.|||-.|==-|-=.+...||-..|=+.-.+
T Consensus       202 RKVFLdSAYY~s~~pniP~hI~dIFqnGlPADFRLiGATTR----~PeEIpPAlRSRC~EIFFR~L~~EEi~~iAk~Aae  277 (532)
T TIGR02902       202 RKVFLDSAYYSSEDPNIPSHIRDIFQNGLPADFRLIGATTR----NPEEIPPALRSRCVEIFFRPLLKEEIKEIAKNAAE  277 (532)
T ss_pred             CCCHHHCCCCCCCCCCCCHHHHHHHCCCCCCCEECCCCCCC----CCCCCCHHHHCCCEEEEECCCCHHHHHHHHHHHHH
T ss_conf             22000012358777865427899720678734012133369----87767834650522677168887899999876565


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             865414961015899999863332024576747789999999998754
Q gi|254780877|r  356 RYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEASARVRM  403 (853)
Q Consensus       356 ~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~A~~~i  403 (853)
                      +-    ++.+..+|++..+.+|.    +   =--||.|+==||-.+--
T Consensus       278 KI----g~~l~~~Al~~I~~Ya~----n---GREAvN~~QLAaG~a~~  314 (532)
T TIGR02902       278 KI----GLNLEKEALDLIAKYAS----N---GREAVNLVQLAAGIALG  314 (532)
T ss_pred             HC----CCCCCHHHHHHHHHHHC----C---CCHHHHHHHHHHHHEEC
T ss_conf             30----46547547999998740----5---40677899997314012


No 111
>pfam01078 Mg_chelatase Magnesium chelatase, subunit ChlI. Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. Due to this, it is thought that Mg-chelatase has an important role in channelling inter- mediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weight between 38-42 kDa.
Probab=99.04  E-value=3.6e-09  Score=93.50  Aligned_cols=180  Identities=27%  Similarity=0.356  Sum_probs=109.7

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHH-
Q ss_conf             6745948999999999987410123656651289872678616889999999872377653002244774034532013-
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRL-  646 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~L-  646 (853)
                      +.|+||+.|..++.-+    -+|-.       .+|+.||+|+|||.+|+.++..|=.    |-.-.+-|.+.-||++.+ 
T Consensus         3 ~di~GQ~~akrAl~iA----aaG~H-------~lLl~GpPG~GKTmlA~rl~~iLP~----l~~~e~le~~~i~S~~g~~   67 (207)
T pfam01078         3 ADVKGQEQAKRALEIA----AAGGH-------NLLMIGPPGSGKTMLAKRLPGILPP----LTEQEALEVTAIHSVAGLG   67 (207)
T ss_pred             HHHCCCHHHHHHHHHH----HCCCC-------CEEEECCCCCCHHHHHHHHHCCCCC----CCHHHHHHHHHHHCCCCCC
T ss_conf             6863859999999998----54787-------5897889980299999763014899----8789988777642303687


Q ss_pred             -----HCCCC-----------HHCCCC---CCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCC-CCE
Q ss_conf             -----04771-----------120356---6774211322156410220214414989999999984045788799-977
Q gi|254780877|r  647 -----IGSPP-----------GYVGYE---EGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQ-GRT  706 (853)
Q Consensus       647 -----iGapp-----------GYvG~~---~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~-G~~  706 (853)
                           +..||           +.||-+   .-|.+|-    --..|++|||+-.-+++|++.|+|.|++|+++-++ |.+
T Consensus        68 ~~~~l~~~rPfr~PHhs~s~~aliGGg~~~~PGeIsl----AH~GVLFLDE~~Ef~~~vle~LrqpLE~~~v~IsRa~~~  143 (207)
T pfam01078        68 GDGGLIRRRPFRAPHHSASAAALVGGGSIPRPGEISL----AHNGVLFLDELPEFSRRVLESLRQPLEDGEITISRARAK  143 (207)
T ss_pred             CCCCCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCEEE----CCCCEEEECCHHHCCHHHHHHHHHHHCCCCEEEEECCCE
T ss_conf             7777445798657887643633226888899970666----368788847646539889999987660494899956758


Q ss_pred             EEC-CCCEEEECCCHHHHHHHCCHH---HHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHH
Q ss_conf             830-331559548512687640326---799999999986288577266681586288998999
Q gi|254780877|r  707 VDF-RNTLIIMTSNLGAEYLIEDGD---SVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDM  766 (853)
Q Consensus       707 v~f-~n~iii~TsN~G~~~~~~~~~---~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~  766 (853)
                      +.| .+.++|+++|-=--....+.+   .-...-...-...++-.+++|||-.|...+++.+++
T Consensus       144 ~~~PA~f~LvaA~NPCpCG~~~~~~~~C~C~~~~~~~Y~~rlSgPllDRiDl~v~~~~~~~~~l  207 (207)
T pfam01078       144 VTFPARFQLVAAMNPCPCGYLGDPDKRCRCTPRQIRRYLSRLSGPLLDRIDLQVEVPRLSAEEL  207 (207)
T ss_pred             EEECCCEEEEEECCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCHHHHCCEEEEEECCCCCHHHC
T ss_conf             9860434888850577778788999975788999999987645220206878997789995769


No 112
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=99.04  E-value=4.3e-09  Score=92.84  Aligned_cols=162  Identities=28%  Similarity=0.519  Sum_probs=114.0

Q ss_pred             HHHCCHHHHHHHHHHHHHHH--------HCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCC
Q ss_conf             67459489999999999874--------1012365665128987267861688999999987237765300224477403
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRF--------RAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYME  639 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~--------~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e  639 (853)
                      +-|=|-++-|+.+-.++-..        +.|+..   |-|++| .||+|+|||-|||++|..-   .-.|||.--||+  
T Consensus       151 ~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~P---PKGVLL-YGPPGTGKTLLAkAVA~~T---~AtFIrvvgSEl--  221 (406)
T COG1222         151 EDIGGLDEQIQEIREVVELPLKNPELFEELGIDP---PKGVLL-YGPPGTGKTLLAKAVANQT---DATFIRVVGSEL--  221 (406)
T ss_pred             HHCCCHHHHHHHHHHHHCCCCCCHHHHHHCCCCC---CCCEEE-ECCCCCCHHHHHHHHHHCC---CCEEEEECCHHH--
T ss_conf             5335889999999998403366888999749999---971276-6899975889999987205---866999421999--


Q ss_pred             CCCCCHHHCCCCHHCCCCCCCCCCH----HHHCCCCCEEEEHHHHH-----------CCHHHHHHHHHHHHC--CEEECC
Q ss_conf             4532013047711203566774211----32215641022021441-----------498999999998404--578879
Q gi|254780877|r  640 KHSVSRLIGSPPGYVGYEEGGALTE----AVRRHPYQVVLFDEIEK-----------AHSDVHNILLQVLDD--GRLTDS  702 (853)
Q Consensus       640 ~~~vs~LiGappGYvG~~~gg~Lte----~vr~~P~sVil~DEiEK-----------ah~~v~~~llqild~--G~ltd~  702 (853)
                         |.+.||         ||..|..    --|.+--|+|++|||+-           +..+|+..+||+|.+  |+  |.
T Consensus       222 ---VqKYiG---------EGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGF--D~  287 (406)
T COG1222         222 ---VQKYIG---------EGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGF--DP  287 (406)
T ss_pred             ---HHHHHC---------CCHHHHHHHHHHHHHCCCEEEEEECHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCCC--CC
T ss_conf             ---999834---------1169999999987414984999831122311113688885099999999999860588--97


Q ss_pred             CCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             99778303315595485126876403267999999999862885772666815862889989999999999999
Q gi|254780877|r  703 QGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGR  776 (853)
Q Consensus       703 ~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~  776 (853)
                      .      .|.=|||-+|=        .+....++       .+|   +|+|..|-|-.-+.....+|++..-..
T Consensus       288 ~------~nvKVI~ATNR--------~D~LDPAL-------LRP---GR~DRkIEfplPd~~gR~~Il~IHtrk  337 (406)
T COG1222         288 R------GNVKVIMATNR--------PDILDPAL-------LRP---GRFDRKIEFPLPDEEGRAEILKIHTRK  337 (406)
T ss_pred             C------CCEEEEEECCC--------CCCCCHHH-------CCC---CCCCCEEECCCCCHHHHHHHHHHHHHH
T ss_conf             8------87689985588--------55557665-------088---754530116898978999999987621


No 113
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=99.03  E-value=2.2e-08  Score=87.10  Aligned_cols=210  Identities=21%  Similarity=0.265  Sum_probs=128.9

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHH----------CCCCCCCCCCCHHHH
Q ss_conf             6745948999999999987410123656651289872678616889999999872----------377653002244774
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLL----------FDDENSMIRIDMSEY  637 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~l----------f~~~~~lir~dMsey  637 (853)
                      ..|+||+++..++.-+.       -+|+  +|-.|..||.|+|||.++++||+.|          |+... .----|+..
T Consensus        12 ~aIvGQe~~k~aLll~a-------v~p~--iGgVLi~G~~GtgKStlvRala~lLP~i~~v~~~~f~~~p-~~p~~~~~~   81 (347)
T CHL00081         12 TAIVGQEEMKLALLLNV-------IDPK--IGGVMIMGDRGTGKSTTIRALVDLLPEIEVVKNDPFNSDP-RDPDLMSDE   81 (347)
T ss_pred             HHHCCHHHHHHHHHHHH-------CCCC--CCEEEEECCCCCCHHHHHHHHHHHCCCCEEECCCCCCCCC-CCCCCCCHH
T ss_conf             06538499999999982-------5788--7869987899874999999999857874220688767898-981002426


Q ss_pred             -------CC--------------CCCC--CHHHCCCCHHC----C--CCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHH
Q ss_conf             -------03--------------4532--01304771120----3--566774211322156410220214414989999
Q gi|254780877|r  638 -------ME--------------KHSV--SRLIGSPPGYV----G--YEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHN  688 (853)
Q Consensus       638 -------~e--------------~~~v--s~LiGappGYv----G--~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~  688 (853)
                             .+              +..+  -|++|+=--.-    |  -=+.|.|.++=    ..|++.|||.-+.+.+.+
T Consensus        82 ~~~~~~~~~~~~~~~~~~p~v~lPlgaTEDrv~GslDie~al~~G~~~f~pGlLa~A~----rGiLyvDEINll~d~~v~  157 (347)
T CHL00081         82 VRERIRNGEKIPTKKIKIPMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKAN----RGILYVDEVNLLDDHLVD  157 (347)
T ss_pred             HHHHHCCCCCCCCEECCCCEEECCCCCCCCEECCCHHHHHHHHCCCCCCCCCHHHHCC----CCEEEEEHHHHHHHHHHH
T ss_conf             6654314666752114686253688885230114000998984587115653122203----885886145432379999


Q ss_pred             HHHHHHHCCEEEC-CCCCEEEC-CCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECC-CCCHHH
Q ss_conf             9999840457887-99977830-33155954851268764032679999999998628857726668158628-899899
Q gi|254780877|r  689 ILLQVLDDGRLTD-SQGRTVDF-RNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFE-KLRKED  765 (853)
Q Consensus       689 ~llqild~G~ltd-~~G~~v~f-~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~-~l~~~~  765 (853)
                      .||+++.+|+.+- ..|..+.. ...++|-|.|=         ++          +-++|.++.|+.-.+... +.+.++
T Consensus       158 ~LLda~a~G~~~VEReG~S~~~Pa~F~liaT~NP---------eE----------geLrp~llDRF~l~v~v~~~~~~e~  218 (347)
T CHL00081        158 ILLDSAASGWNTVEREGISIRHPARFVLIGSGNP---------EE----------GELRPQLLDRFGMHAEIRTVKDPEL  218 (347)
T ss_pred             HHHHHHHCCEEEECCCCEEECCCCCEEEEECCCC---------CC----------CCCCHHHHHHEEEEEECCCCCCHHH
T ss_conf             9999985580898046423305750068855786---------55----------6748888826322674588789899


Q ss_pred             HHHHHHHHHH-----------------HHHHHH-H--HCCCEEEECHHHHHHHHHCCCCCCCCCHHH
Q ss_conf             9999999999-----------------999999-8--579899998899999997089822062157
Q gi|254780877|r  766 MAKIVRIQLG-----------------RVLSLI-K--ERNISMDFDDQVIDWLSCRGYDPSYGARPL  812 (853)
Q Consensus       766 ~~~i~~~~l~-----------------~l~~~l-~--~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l  812 (853)
                      ...|++..+.                 .+..++ .  +.=-.+.++++.+.|+++.+-  .+|.-+.
T Consensus       219 R~eiv~~r~~f~~~p~~f~~~~~~~~~~l~~~I~~Ar~~L~~V~v~~~~~~~i~~~~~--~~~v~g~  283 (347)
T CHL00081        219 RVKIVEQRSNFDKNPENFREKYSESQDALKTQIILARQLLPNVEIDYDLRVKISQICS--ELDVDGL  283 (347)
T ss_pred             HHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHH--HHCCCCC
T ss_conf             9999999997651969999998878999999999998644773559999999999999--8489987


No 114
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=99.02  E-value=1.6e-08  Score=88.19  Aligned_cols=209  Identities=21%  Similarity=0.263  Sum_probs=128.5

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCC--CCCCCCCHHHHCCCCCCC
Q ss_conf             767459489999999999874101236566512898726786168899999998723776--530022447740345320
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDE--NSMIRIDMSEYMEKHSVS  644 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~--~~lir~dMsey~e~~~vs  644 (853)
                      -.++.|-++-++.++.++.-.-.|    ++|- +.+..||||+|||-++|.+.+.|=...  -..+.+|+..+..++.+-
T Consensus        29 P~~l~~Re~Ei~~l~~~l~~~l~g----~~~~-n~~I~G~pGTGKT~~vk~v~~~l~~~~~~~~~vyINc~~~~t~~~i~  103 (394)
T PRK00411         29 PENLPHREEQIEELAFALRPALRG----SRPS-NVLILGPPGTGKTTTVKKVFEELEEAALKVVYVYINCQIDRTRYAIL  103 (394)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHCC----CCCC-CEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCHHHHH
T ss_conf             998988599999999999999759----9998-47998899998999999999999974689659999696689899999


Q ss_pred             -----HHHCCCCHHCCCCCCCCCCHHH-----HCCCCCEEEEHHHHHCC-HHHHHHHHHHHHCCEEECCCCCEEECCCCE
Q ss_conf             -----1304771120356677421132-----21564102202144149-899999999840457887999778303315
Q gi|254780877|r  645 -----RLIGSPPGYVGYEEGGALTEAV-----RRHPYQVVLFDEIEKAH-SDVHNILLQVLDDGRLTDSQGRTVDFRNTL  713 (853)
Q Consensus       645 -----~LiGappGYvG~~~gg~Lte~v-----r~~P~sVil~DEiEKah-~~v~~~llqild~G~ltd~~G~~v~f~n~i  713 (853)
                           .|.|.++..-|+... .+-+.+     .+..+.||++|||++-- .+-.++|++++.-..   .    ..-..+.
T Consensus       104 ~~i~~~L~~~~~p~~G~s~~-~~~~~l~~~l~~~~~~~ivvLDEiD~L~~~~~~~vLY~L~r~~~---~----~~~~~~~  175 (394)
T PRK00411        104 SEIARSLFGHPPPSSGLSFD-ELFDKIAEYLDERDRVLIVALDDINYLVEKEGNDVLYSLLRAHE---E----YPGARIG  175 (394)
T ss_pred             HHHHHHHCCCCCCCCCCCHH-HHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCHHHHHHHHCCC---C----CCCCCEE
T ss_conf             99999956998987787899-99999999861669758999965540203665089999985402---2----6887389


Q ss_pred             EEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHH
Q ss_conf             59548512687640326799999999986288577266681586288998999999999999999999857989999889
Q gi|254780877|r  714 IIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQ  793 (853)
Q Consensus       714 ii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~  793 (853)
                      +|+-||-         ....+.+.+.++..|.|       +.|.|.|++.+++..|+...++..   +. .|   .+++.
T Consensus       176 vI~IsN~---------~~~~~~Ldprv~S~l~~-------~~i~F~PY~~~qL~~IL~~R~~~a---f~-~g---v~~~~  232 (394)
T PRK00411        176 VIGISSD---------LTFLYILDPRVKSVFGP-------EEIVFPPYTADEIFDILKDRVEEG---FY-PG---VVSDE  232 (394)
T ss_pred             EEEEECC---------CCHHHHHHHHHHCCCCC-------EEEEECCCCHHHHHHHHHHHHHHC---CC-CC---CCCHH
T ss_conf             9999768---------71776640777502786-------289858999899999999999841---45-56---78978


Q ss_pred             HHHHHHHCCCCCCCCCHH
Q ss_conf             999999708982206215
Q gi|254780877|r  794 VIDWLSCRGYDPSYGARP  811 (853)
Q Consensus       794 ~~~~l~~~~~~~~~GaR~  811 (853)
                      ++.+++...-...--||-
T Consensus       233 ~i~~~A~~~a~~~GDaR~  250 (394)
T PRK00411        233 VLELIADLTGREHGDARV  250 (394)
T ss_pred             HHHHHHHHHHHCCCCHHH
T ss_conf             999999998550475899


No 115
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=99.02  E-value=8.3e-09  Score=90.54  Aligned_cols=166  Identities=23%  Similarity=0.415  Sum_probs=96.4

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCC----CCCCHHHHCCCCC
Q ss_conf             767459489999999999874101236566512898726786168899999998723776530----0224477403453
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSM----IRIDMSEYMEKHS  642 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~l----ir~dMsey~e~~~  642 (853)
                      -+.||||+.+++.+.+++...|.       | -++||.||.|+||+.+|..+|+.++.....-    .++.-...-+-|-
T Consensus         3 F~~iiGq~~~~~~L~~ai~~~rl-------~-hAyLF~Gp~G~GK~~~A~~fa~~Ll~~~~~~~~~~~ri~~~nHPDl~~   74 (314)
T PRK07399          3 FANLIGQPLAIELLTAAIEQNRI-------A-PAYLFAGPEGVGRKLAALRFIEGLLSQGSPSKNIRRRLEEGNHPDLLW   74 (314)
T ss_pred             CCCCCCCHHHHHHHHHHHHCCCC-------C-CEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCEEE
T ss_conf             33125949999999999985996-------7-448778999832999999999998578999976655875189997788


Q ss_pred             CC-------HHHC-----------CCCHHCCCCCCCCCCHHHHCCC----CCEEEEHHHHHCCHHHHHHHHHHHHCCEEE
Q ss_conf             20-------1304-----------7711203566774211322156----410220214414989999999984045788
Q gi|254780877|r  643 VS-------RLIG-----------SPPGYVGYEEGGALTEAVRRHP----YQVVLFDEIEKAHSDVHNILLQVLDDGRLT  700 (853)
Q Consensus       643 vs-------~LiG-----------appGYvG~~~gg~Lte~vr~~P----~sVil~DEiEKah~~v~~~llqild~G~lt  700 (853)
                      +.       +++.           ..|..++-++=-.+.+.+..+|    |.|+++|+.|+.+.+-.|.||-.|+|=   
T Consensus        75 i~P~~~~~g~~~~~~~~~~~~~~~~~~~~I~idqIR~l~~~l~~~p~~~~~kVvII~~ae~m~~~AaNaLLKtLEEP---  151 (314)
T PRK07399         75 VEPTYQHQGKLITASEAEEAGLKRKSPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEP---  151 (314)
T ss_pred             EECCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCCCCCCEEEEECCHHHCCHHHHHHHHHHHCCC---
T ss_conf             60562003454557789876530268777879999999999731885688479998897871999999999861478---


Q ss_pred             CCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHH
Q ss_conf             7999778303315595485126876403267999999999862885772666815862889989999999999
Q gi|254780877|r  701 DSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQ  773 (853)
Q Consensus       701 d~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~  773 (853)
                       ++       +++|+.|+|..                     ...|-...|. .+|.|+||+.+++.+++...
T Consensus       152 -~~-------~~fILit~~~~---------------------~lLpTI~SRC-Q~i~F~~l~~~~i~~~L~~~  194 (314)
T PRK07399        152 -GN-------GTLILIAPSPE---------------------SLLPTIVSRC-QIIPFYRLSDEQLEQVLKRL  194 (314)
T ss_pred             -CC-------CEEEEEECCHH---------------------HCCHHHHCCC-EEEECCCCCHHHHHHHHHHC
T ss_conf             -78-------56999979936---------------------4914664187-56338998999999999971


No 116
>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]
Probab=98.99  E-value=5.4e-08  Score=83.93  Aligned_cols=216  Identities=22%  Similarity=0.375  Sum_probs=164.6

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHH
Q ss_conf             67459489999999999874101236566512898726786168899999998723776530022447740345320130
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLI  647 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~Li  647 (853)
                      ..||||..|+..+.+.|...    ...+-   +.|..|-|||||--.||++-+.=--.++.|+.+||+-.-|.-.=|-|+
T Consensus       223 ~~iIG~S~am~~ll~~i~~V----A~Sd~---tVLi~GETGtGKElvAraIH~~S~R~~kPfV~~NCAAlPesLlESELF  295 (550)
T COG3604         223 GGIIGRSPAMRQLLKEIEVV----AKSDS---TVLIRGETGTGKELVARAIHQLSPRRDKPFVKLNCAALPESLLESELF  295 (550)
T ss_pred             CCCCCCCHHHHHHHHHHHHH----HCCCC---EEEEECCCCCCHHHHHHHHHHHCCCCCCCCEEEECCCCCHHHHHHHHH
T ss_conf             56230699999999999987----26898---079845888538999999987375557986663122253788888874


Q ss_pred             CCCCHHCCCCCCCCCCHHHHCCC-------CCEEEEHHHHHCCHHHHHHHHHHHHCCEEEC---CCCCEEECCCCEEEEC
Q ss_conf             47711203566774211322156-------4102202144149899999999840457887---9997783033155954
Q gi|254780877|r  648 GSPPGYVGYEEGGALTEAVRRHP-------YQVVLFDEIEKAHSDVHNILLQVLDDGRLTD---SQGRTVDFRNTLIIMT  717 (853)
Q Consensus       648 GappGYvG~~~gg~Lte~vr~~P-------~sVil~DEiEKah~~v~~~llqild~G~ltd---~~G~~v~f~n~iii~T  717 (853)
                      |       |+. |.-|.|+..++       .+-+++|||---.+.++--||.+|.+|.+.-   .+-.+||   .=||.-
T Consensus       296 G-------HeK-GAFTGA~~~r~GrFElAdGGTLFLDEIGelPL~lQaKLLRvLQegEieRvG~~r~ikVD---VRiIAA  364 (550)
T COG3604         296 G-------HEK-GAFTGAINTRRGRFELADGGTLFLDEIGELPLALQAKLLRVLQEGEIERVGGDRTIKVD---VRVIAA  364 (550)
T ss_pred             C-------CCC-CCCCCCHHCCCCCEEECCCCEEECHHHCCCCHHHHHHHHHHHHHCCEEECCCCCEEEEE---EEEEEC
T ss_conf             5-------332-23335101467635655797576022036787788999999863652534799636777---899821


Q ss_pred             CCHHHHHHHCCHHHHHHHHHHHH-HHHCCHHHHCCCCCEEEC--CCCC--HHHHHHHHHHHHHHHHHHHHHCCC-EEEEC
Q ss_conf             85126876403267999999999-862885772666815862--8899--899999999999999999985798-99998
Q gi|254780877|r  718 SNLGAEYLIEDGDSVHDKVMGIV-RSAFKPEFLNRLDEIILF--EKLR--KEDMAKIVRIQLGRVLSLIKERNI-SMDFD  791 (853)
Q Consensus       718 sN~G~~~~~~~~~~~~~~~~~~l-~~~f~peflnRid~iv~F--~~l~--~~~~~~i~~~~l~~l~~~l~~~~i-~l~~~  791 (853)
                      +|-              .+.+++ ...|+..+.-|++ ++|.  -||-  ++|+.-.+..+++++..+   .|. .+.++
T Consensus       365 TNR--------------DL~~~V~~G~FRaDLYyRLs-V~Pl~lPPLRER~~DIplLA~~Fle~~~~~---~gr~~l~ls  426 (550)
T COG3604         365 TNR--------------DLEEMVRDGEFRADLYYRLS-VFPLELPPLRERPEDIPLLAGYFLEKFRRR---LGRAILSLS  426 (550)
T ss_pred             CCH--------------HHHHHHHCCCCHHHHHHCCC-CCCCCCCCCCCCCCCHHHHHHHHHHHHHHH---CCCCCCCCC
T ss_conf             353--------------09999874951554532102-001378983458866799999999999886---397640339


Q ss_pred             HHHHHHHHHCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             899999997089822062157999998733
Q gi|254780877|r  792 DQVIDWLSCRGYDPSYGARPLKRVIQRYIQ  821 (853)
Q Consensus       792 ~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~  821 (853)
                      ++|.+.|.+  |+---..|.|...|++.+.
T Consensus       427 ~~Al~~L~~--y~wPGNVRELen~veRavl  454 (550)
T COG3604         427 AEALELLSS--YEWPGNVRELENVVERAVL  454 (550)
T ss_pred             HHHHHHHHC--CCCCCCHHHHHHHHHHHHH
T ss_conf             899999973--9999719999989999999


No 117
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=98.99  E-value=7.3e-08  Score=82.88  Aligned_cols=187  Identities=25%  Similarity=0.343  Sum_probs=114.3

Q ss_pred             HHCCCCCCCCCHHHHHHHHHHHH---CCCCC---CCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHH
Q ss_conf             87298533333578999999963---36777---8668952887407779999999873489984445743788731354
Q gi|254780877|r  172 ARNGKLDPVIGRDDEMRRAIQVL---SRRTK---NNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGAL  245 (853)
Q Consensus       172 Ar~GkLDPVIGRe~EI~~~~~iL---~r~~k---~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l  245 (853)
                      -|-..++-.||-++=.++ +.+.   +++++   ..++|-|+||.|||+++.-+|..+-.+        .++  .+-.++
T Consensus        19 lRP~~l~efiGQ~~i~~~-L~v~i~Aak~r~e~ldH~Ll~GPPGlGKTTLA~iiA~E~~~~--------~~~--tsGP~l   87 (328)
T PRK00080         19 LRPKSLDEFIGQEKVKEN-LKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVN--------IRI--TSGPAL   87 (328)
T ss_pred             CCCCCHHHCCCHHHHHHH-HHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCC--------CEE--CCCCCC
T ss_conf             598857663595999999-999999999649998805765889988999999999986888--------156--245001


Q ss_pred             HCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC--------------------
Q ss_conf             217454202454589999998607997699963627730266655433588887653124--------------------
Q gi|254780877|r  246 IAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR--------------------  305 (853)
Q Consensus       246 ~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar--------------------  305 (853)
                      -    -.|    -+-+++.-+   +.+-||||||||-+=        -.+-.+|=|++.-                    
T Consensus        88 e----k~~----DL~~iLt~l---~~~dvLFIDEIHRl~--------~~vEE~LY~AMEDf~iDi~iG~g~~Ar~~~i~L  148 (328)
T PRK00080         88 E----KAG----DLAALLTNL---EEGDVLFIDEIHRLS--------PVVEEILYPAMEDFRLDIMIGKGPAARSIRLDL  148 (328)
T ss_pred             C----CHH----HHHHHHHHC---CCCCEEEEHHHHHCC--------HHHHHHHHHHHHHCEEEEEECCCCCCEEEECCC
T ss_conf             6----747----899999608---878767650653248--------889988579877523457864786532455589


Q ss_pred             CCEEEEEEECHHHHHHHHHCCHHHHHCCCEEE-CCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCC
Q ss_conf             66048997448999997300111320231111-15777678999999978986541496101589999986333202457
Q gi|254780877|r  306 GELHCIGATTLDEYRKYIEKDPALARRFQSLL-VGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDR  384 (853)
Q Consensus       306 G~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~-V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r  384 (853)
                      -.+..|||||-..-     =-+.|-.||-.+. .+.=+.++-..|++.-...+    +|.+++++....++-|      |
T Consensus       149 ~pFTLIGATTr~g~-----Ls~PLrdRFGi~~~l~~Y~~eeL~~Ii~rsa~~l----~i~i~~~~~~eIA~rS------R  213 (328)
T PRK00080        149 PPFTLIGATTRAGL-----LTSPLRDRFGIVQRLEFYTVEELEKIVKRSARIL----GIEIDEEGALEIARRS------R  213 (328)
T ss_pred             CCEEEEECCCCCCC-----CCHHHHHHCCCEEEECCCCHHHHHHHHHHHHHHH----CCCCCHHHHHHHHHHC------C
T ss_conf             98347401367665-----7767897579336634589999999999999983----9887899999999863------8


Q ss_pred             CCHHHHHHHHHHHHHHHHH
Q ss_conf             6747789999999998754
Q gi|254780877|r  385 FLPDKAIDLMDEASARVRM  403 (853)
Q Consensus       385 ~lPDKAIDllDeA~A~~~i  403 (853)
                      --|--|.-||...--...+
T Consensus       214 GTPRiAnrLLrRvrDfa~v  232 (328)
T PRK00080        214 GTPRIANRLLRRVRDFAQV  232 (328)
T ss_pred             CCCHHHHHHHHHHHHHHHH
T ss_conf             9839999999999999998


No 118
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.97  E-value=1.4e-08  Score=88.75  Aligned_cols=203  Identities=23%  Similarity=0.258  Sum_probs=134.6

Q ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCC-CCEEEECCCCCCHHHHHHHHHHHHHCCC---------CCH-------
Q ss_conf             56998729853333357899999996336777-8668952887407779999999873489---------984-------
Q gi|254780877|r  168 LTEEARNGKLDPVIGRDDEMRRAIQVLSRRTK-NNPVLIGDPGVGKTAIIEGLASRIINGD---------IPE-------  230 (853)
Q Consensus       168 LTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k-~n~~lvGe~GvGKtaive~la~~i~~~~---------vp~-------  230 (853)
                      |-.+-|-..++-|||-+.-++-+...|...+= .--++.|.-|||||++..-||+-+.-..         -|-       
T Consensus         6 lark~RP~~F~~~vGQ~~v~~~l~na~~~~r~~haylf~G~rGvGKTt~ari~Ak~lnc~~~~~~~g~~~~pcg~C~~C~   85 (721)
T PRK12323          6 LARKWRPRDFTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGPDGEGGITAQPCGQCRACT   85 (721)
T ss_pred             HHHHHCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHH
T ss_conf             76540798665532859999999999971997544750279988898999999999768998667898788787765468


Q ss_pred             -HH--CCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCC--C-CEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHC
Q ss_conf             -44--57437887313542174542024545899999986079--9-769996362773026665543358888765312
Q gi|254780877|r  231 -SL--KGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSED--G-EIILFIDELHVLVGAGKTDGAMDASNLLKPSLA  304 (853)
Q Consensus       231 -~l--~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~--~-~~ilfide~h~~~gaG~~~g~~Daan~LKP~La  304 (853)
                       .-  +..-++++|.+      +.+|=  +.++.|++.+.-.+  | --|-.|||+|||-        ..+-|-|--.|.
T Consensus        86 ~i~~g~~~d~~EiDaa------s~~~v--~~~r~l~~~~~y~P~~~~~KvyiiDevhmls--------~~afnalLKtlE  149 (721)
T PRK12323         86 EIDAGRFVDYIEMDAA------SNRGV--DEMAQLLDQAVYAPTAGRFKVYMIDEVHMLT--------NHAFNAMLKTLE  149 (721)
T ss_pred             HHHCCCCCCEEEEECC------CCCCH--HHHHHHHHHCCCCCCCCCEEEEEEECCCCCC--------HHHHHHHHHHHC
T ss_conf             7756898764774367------67888--9999999854558876644699985400058--------999999998401


Q ss_pred             C--CCEEEEEEECHHHHHHHHHCCHH-HHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHC
Q ss_conf             4--66048997448999997300111-32023111115777678999999978986541496101589999986333202
Q gi|254780877|r  305 R--GELHCIGATTLDEYRKYIEKDPA-LARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYI  381 (853)
Q Consensus       305 r--G~l~~IgaTT~~Eyrk~iEkD~A-l~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi  381 (853)
                      .  .-..+|-|||.-  +|    =+. .-.|-|.-..+--+.++-..-|..+..    ..+|.|.++||...++.++--|
T Consensus       150 ePP~hv~FilaTT~~--~K----ip~TilSRc~~f~~~~~~~~~i~~~l~~i~~----~E~i~~~~~al~~ia~~a~Gs~  219 (721)
T PRK12323        150 EPPPHVKFILATTDP--QK----IPVTVLSRCLQFNLKQMPPGHIVSHLDAILG----QEGIGHEGNALRLLAQAAHGSM  219 (721)
T ss_pred             CCCCCEEEEEECCCH--HH----CCHHHHHHHHHCCCCCCCHHHHHHHHHHHHH----HCCCCCCHHHHHHHHHHCCCCH
T ss_conf             797553899943863--44----8588987765423478999999999999999----8399779999999999758964


Q ss_pred             CCCCCHHHHHHHHHHHHHHHH
Q ss_conf             457674778999999999875
Q gi|254780877|r  382 TDRFLPDKAIDLMDEASARVR  402 (853)
Q Consensus       382 ~~r~lPDKAIDllDeA~A~~~  402 (853)
                      .|      |+.|+|.|-|+-.
T Consensus       220 RD------alslldQaia~~~  234 (721)
T PRK12323        220 RD------ALSLTDQAIAYSA  234 (721)
T ss_pred             HH------HHHHHHHHHHHCC
T ss_conf             76------8889999998658


No 119
>KOG0740 consensus
Probab=98.96  E-value=2.1e-08  Score=87.28  Aligned_cols=166  Identities=25%  Similarity=0.340  Sum_probs=127.3

Q ss_pred             CCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEE
Q ss_conf             36777866895288740777999999987348998444574378873135421745420245458999999860799769
Q gi|254780877|r  195 SRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEII  274 (853)
Q Consensus       195 ~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~i  274 (853)
                      +|.--...+|.|+||.|||.|+..+|--          .+..+|.+...+|.  .+|.|+-|.-+.+++.-. ....+-|
T Consensus       182 lr~p~rglLLfGPpgtGKtmL~~aiAsE----------~~atff~iSassLt--sK~~Ge~eK~vralf~vA-r~~qPsv  248 (428)
T KOG0740         182 LREPVRGLLLFGPPGTGKTMLAKAIATE----------SGATFFNISASSLT--SKYVGESEKLVRALFKVA-RSLQPSV  248 (428)
T ss_pred             CCCCCCHHHEECCCCCCHHHHHHHHHHH----------HCCEEEECCHHHHH--HHCCCHHHHHHHHHHHHH-HHCCCEE
T ss_conf             5445311120058988447999999862----------06657630688865--324670778999999998-7139708


Q ss_pred             EEECCHHHHCCCCCCCCCCCHH----------HHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHCCCEE-ECCCCCH
Q ss_conf             9963627730266655433588----------8876531246604899744899999730011132023111-1157776
Q gi|254780877|r  275 LFIDELHVLVGAGKTDGAMDAS----------NLLKPSLARGELHCIGATTLDEYRKYIEKDPALARRFQSL-LVGEPTV  343 (853)
Q Consensus       275 lfide~h~~~gaG~~~g~~Daa----------n~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i-~V~Eps~  343 (853)
                      .||||+|.++..- +++..+.+          -..++.-+...+.+||||-     +..|-|-|+-|||+++ .|.-|+.
T Consensus       249 ifidEidslls~R-s~~e~e~srr~ktefLiq~~~~~s~~~drvlvigaTN-----~P~e~Dea~~Rrf~kr~yiplPd~  322 (428)
T KOG0740         249 IFIDEIDSLLSKR-SDNEHESSRRLKTEFLLQFDGKNSAPDDRVLVIGATN-----RPWELDEAARRRFVKRLYIPLPDY  322 (428)
T ss_pred             EEECHHHHHHHHC-CCCCCCCCHHHHHHHHHHHCCCCCCCCCEEEEEECCC-----CCHHHHHHHHHHHCCEEEECCCCH
T ss_conf             9840256788636-8754544555655777654044578887079981588-----836778888887103155359887


Q ss_pred             HHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCC
Q ss_conf             7899999997898654149610158999998633320245
Q gi|254780877|r  344 TDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITD  383 (853)
Q Consensus       344 ~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~  383 (853)
                      ++-..++.++-..+    +...++..+.+.|+++.-|-..
T Consensus       323 etr~~~~~~ll~~~----~~~l~~~d~~~l~~~Tegysgs  358 (428)
T KOG0740         323 ETRSLLWKQLLKEQ----PNGLSDLDISLLAKVTEGYSGS  358 (428)
T ss_pred             HHHHHHHHHHHHHC----CCCCCHHHHHHHHHHHCCCCCC
T ss_conf             89999999999768----7874177899999886175622


No 120
>KOG0738 consensus
Probab=98.96  E-value=7.3e-08  Score=82.87  Aligned_cols=166  Identities=25%  Similarity=0.390  Sum_probs=110.7

Q ss_pred             HHCCCCCCCCCHHHHHHHHHH--HH----------CCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEE
Q ss_conf             872985333335789999999--63----------367778668952887407779999999873489984445743788
Q gi|254780877|r  172 ARNGKLDPVIGRDDEMRRAIQ--VL----------SRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMA  239 (853)
Q Consensus       172 Ar~GkLDPVIGRe~EI~~~~~--iL----------~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~  239 (853)
                      --.=+.|-|.|=.+-.+-+-+  +|          .||-=..++|+|+||.|||-|+..+|--          .+...|.
T Consensus       206 np~ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvATE----------c~tTFFN  275 (491)
T KOG0738         206 NPNIKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATE----------CGTTFFN  275 (491)
T ss_pred             CCCCCHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHH----------HCCEEEE
T ss_conf             998676763164999999998875444248887424465300055679997478999999886----------1672787


Q ss_pred             EEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHC-----------C-CC
Q ss_conf             73135421745420245458999999860799769996362773026665543358888765312-----------4-66
Q gi|254780877|r  240 LDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLA-----------R-GE  307 (853)
Q Consensus       240 ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~La-----------r-G~  307 (853)
                      +.-+.|+  .|||||=|.-++-+. |+....-+.++|||||.+|.+.-++++--.|+-=+|-.|-           . --
T Consensus       276 VSsstlt--SKwRGeSEKlvRlLF-emARfyAPStIFiDEIDslcs~RG~s~EHEaSRRvKsELLvQmDG~~~t~e~~k~  352 (491)
T KOG0738         276 VSSSTLT--SKWRGESEKLVRLLF-EMARFYAPSTIFIDEIDSLCSQRGGSSEHEASRRVKSELLVQMDGVQGTLENSKV  352 (491)
T ss_pred             ECHHHHH--HHHCCCHHHHHHHHH-HHHHHHCCCEEEHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCEE
T ss_conf             4024565--553252699999999-9998748853533567788725798650367888888999986334444456516


Q ss_pred             EEEEEEECHHHHHHHHHCCHHHHHCCCE-EECCCCCHHHHHHHHHHHHH
Q ss_conf             0489974489999973001113202311-11157776789999999789
Q gi|254780877|r  308 LHCIGATTLDEYRKYIEKDPALARRFQS-LLVGEPTVTDTISILRGLKE  355 (853)
Q Consensus       308 l~~IgaTT~~Eyrk~iEkD~Al~RRFq~-i~V~Eps~~~t~~iL~gl~~  355 (853)
                      +-+.+||-.-     -+=|-||-|||++ |.|.=|+.+.--.+|+-.-.
T Consensus       353 VmVLAATN~P-----WdiDEAlrRRlEKRIyIPLP~~~~R~~Li~~~l~  396 (491)
T KOG0738         353 VMVLAATNFP-----WDIDEALRRRLEKRIYIPLPDAEARSALIKILLR  396 (491)
T ss_pred             EEEEECCCCC-----CCHHHHHHHHHHHHEEEECCCHHHHHHHHHHHHC
T ss_conf             9998436898-----2057999998763033128787899999997623


No 121
>PRK05648 DNA polymerase III subunits gamma and tau; Reviewed
Probab=98.94  E-value=2.5e-08  Score=86.67  Aligned_cols=200  Identities=23%  Similarity=0.261  Sum_probs=131.2

Q ss_pred             HHHHHCCCCCCCCCHHHHHHHHHHHHCCCC-CCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHH-CC-C----------
Q ss_conf             699872985333335789999999633677-7866895288740777999999987348998444-57-4----------
Q gi|254780877|r  169 TEEARNGKLDPVIGRDDEMRRAIQVLSRRT-KNNPVLIGDPGVGKTAIIEGLASRIINGDIPESL-KG-K----------  235 (853)
Q Consensus       169 Te~Ar~GkLDPVIGRe~EI~~~~~iL~r~~-k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l-~~-~----------  235 (853)
                      -.+-|-..++-|||-+.-++-+..-|...+ -.--++.|.-|||||+|..-||+-+.-..-+..- .| |          
T Consensus         7 ark~rp~~f~~~~gq~~~~~~l~~~~~~~~~~~a~l~~g~rg~gkt~~ar~~ak~lnc~~~~~~~pc~~c~~c~~i~~~~   86 (705)
T PRK05648          7 ARKWRPRSFREMVGQTHVLKALINALDNQRLHHAYLFTGTRGVGKTTIARIIAKCLNCETGVSSTPCGECSVCREIDEGR   86 (705)
T ss_pred             HHHHCCCCHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCC
T ss_conf             55317875766328199999999999709863046500789888989999999986778999889787760046662489


Q ss_pred             --EEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCC--C-CEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC--CCE
Q ss_conf             --37887313542174542024545899999986079--9-7699963627730266655433588887653124--660
Q gi|254780877|r  236 --RLMALDMGALIAGAKFRGEFEERLKSLLCEIRSED--G-EIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR--GEL  308 (853)
Q Consensus       236 --~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~--~-~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar--G~l  308 (853)
                        -++++|.      ++-+|=  +-++.|++.+.-.+  | --|..|||+|||-        -.+-|-|--.|..  --.
T Consensus        87 ~~d~~e~d~------as~~~v--~~~r~~~~~~~~~p~~~~~kv~~idevhmls--------~~~fnallktleepp~~v  150 (705)
T PRK05648         87 FVDLIEVDA------ASRTKV--EDTRELLDNVQYAPTRGRYKVYLIDEVHMLS--------SHSFNALLKTLEEPPPHV  150 (705)
T ss_pred             CCCEEEECC------CCCCCH--HHHHHHHHHCCCCCCCCCEEEEEEEHHHHCC--------HHHHHHHHHHCCCCCCCE
T ss_conf             776344515------544788--9999999855517767745799984265417--------999999987404797545


Q ss_pred             EEEEEECHHHHHHHHHCCH--HHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCC
Q ss_conf             4899744899999730011--13202311111577767899999997898654149610158999998633320245767
Q gi|254780877|r  309 HCIGATTLDEYRKYIEKDP--ALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFL  386 (853)
Q Consensus       309 ~~IgaTT~~Eyrk~iEkD~--Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~l  386 (853)
                      ++|-|||.-      +|=+  .|.| -+.-..+--+.++-..-|..+..    ..+|.|.++||...++.+.--|.|   
T Consensus       151 ~f~~att~~------~k~p~t~~sr-c~~~~~~~~~~~~~~~~l~~~~~----~e~~~~~~~~~~~~~~~~~g~~rd---  216 (705)
T PRK05648        151 KFLLATTDP------QKLPVTILSR-CLQFSLKNMSPERVVEHLSHVLG----AENVPFEEDALWLLGRAADGSMRD---  216 (705)
T ss_pred             EEEEECCCH------HHCCHHHHHH-HHHCCCCCCCHHHHHHHHHHHHH----HCCCCCCHHHHHHHHHHCCCCHHH---
T ss_conf             999842873------5375899976-64302368999999999999999----759977899999999974896777---


Q ss_pred             HHHHHHHHHHHHHHH
Q ss_conf             477899999999987
Q gi|254780877|r  387 PDKAIDLMDEASARV  401 (853)
Q Consensus       387 PDKAIDllDeA~A~~  401 (853)
                         |..|+|.|.|+-
T Consensus       217 ---~ls~~dq~~~~~  228 (705)
T PRK05648        217 ---AMSLTDQAIAFG  228 (705)
T ss_pred             ---HHHHHHHHHHCC
T ss_conf             ---999999998606


No 122
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN; InterPro: IPR013462    The GvpN protein is associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy , . It belongs to a larger family of ATPases .; GO: 0000166 nucleotide binding, 0005524 ATP binding, 0031412 gas vesicle organization and biogenesis, 0031411 gas vesicle.
Probab=98.94  E-value=2.9e-09  Score=94.22  Aligned_cols=129  Identities=34%  Similarity=0.564  Sum_probs=90.3

Q ss_pred             CHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCH-HHHCCCCCCCHHHCCC
Q ss_conf             948999999999987410123656651289872678616889999999872377653002244-7740345320130477
Q gi|254780877|r  572 GQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDM-SEYMEKHSVSRLIGSP  650 (853)
Q Consensus       572 gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dM-sey~e~~~vs~LiGap  650 (853)
                      -|+++|+.|..-..+.    -+.+.|+   =|.||+|.|||.||..||+.+   .++.+-+.. .|+    .-+=|||+-
T Consensus         2 i~t~~v~~v~~R~l~y----L~~G~Pv---Hl~GPaG~GKT~LA~hvA~~r---~RPV~l~~Gd~eL----~~~DLvG~~   67 (265)
T TIGR02640         2 IETDAVKRVTSRALRY----LKSGYPV---HLRGPAGTGKTTLAMHVARKR---DRPVVLINGDAEL----TTSDLVGSY   67 (265)
T ss_pred             CCCHHHHHHHHHHHHH----HCCCCCE---EEECCCCCCHHHHHHHHHHHC---CCCEEEEECCCCC----CCCCCCCCC
T ss_conf             8772379999987663----2278866---744788855689999999736---8968998658232----654423154


Q ss_pred             CHHCCC---C-----------------CCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCC----CCE
Q ss_conf             112035---6-----------------6774211322156410220214414989999999984045788799----977
Q gi|254780877|r  651 PGYVGY---E-----------------EGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQ----GRT  706 (853)
Q Consensus       651 pGYvG~---~-----------------~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~----G~~  706 (853)
                      .||---   |                 .=+.||.|+|. .| =+..||+-..-|.+.|+||.||+||.|.---    -+-
T Consensus        68 ~g~~~~kv~DqfihnV~K~~d~~~~~W~D~rLt~Av~e-G~-TLVYdEF~RskP~~nNVLLSvlEE~vL~LPg~~~~~~Y  145 (265)
T TIGR02640        68 AGYTRKKVVDQFIHNVVKLEDIVRQNWVDNRLTLAVRE-GF-TLVYDEFTRSKPETNNVLLSVLEEGVLELPGKRGESRY  145 (265)
T ss_pred             CCCEEEEEEECCEEEEECCCCCCCCCCCCCHHHHHHHC-CC-EEEECCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCC
T ss_conf             67522223201211134251220026678357899756-97-27664757886204565675555232158887877872


Q ss_pred             E----ECCCCEEEECCC
Q ss_conf             8----303315595485
Q gi|254780877|r  707 V----DFRNTLIIMTSN  719 (853)
Q Consensus       707 v----~f~n~iii~TsN  719 (853)
                      |    +||   +|+|||
T Consensus       146 v~VhP~FR---~IfTSN  159 (265)
T TIGR02640       146 VDVHPEFR---VIFTSN  159 (265)
T ss_pred             EEECCCCC---EEECCC
T ss_conf             25788702---463148


No 123
>pfam01637 Arch_ATPase Archaeal ATPase. This family contain a conserved P-loop motif that is involved in binding ATP. This family is almost exclusively found in archaebacteria and particularly in Methanococcus jannaschii that encodes sixteen members of this family.
Probab=98.94  E-value=4.6e-07  Score=76.36  Aligned_cols=189  Identities=15%  Similarity=0.084  Sum_probs=118.6

Q ss_pred             CCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHH--------------
Q ss_conf             333578999999963367778668952887407779999999873489984445743788731354--------------
Q gi|254780877|r  180 VIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGAL--------------  245 (853)
Q Consensus       180 VIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l--------------  245 (853)
                      .+||++|++.+.+.+.+...+..++.|+-++|||+++.-.+.+.-....      ..+|-.+...-              
T Consensus         1 F~~Re~EL~~L~~~~~~~~~~~ivi~G~RR~GKTsLi~~~~~~~~~~~~------~~i~~~~~~~~~~~~~~~~~~~~~l   74 (223)
T pfam01637         1 FFDREKELKELEEWAERGTYPIIVVYGPRRCGKTALLREFLEELRELGY------RVIYYDPLRREFEEKLDRFEEAKRL   74 (223)
T ss_pred             CCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHCCCCCC------EEEEEECHHHHHHHHHHHHHHHHHH
T ss_conf             9897999999999996699718999868878799999999986334685------2899951444379999988888999


Q ss_pred             ---H--CCCCCCCH----HHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCC-CCHHHHHHHHHCCCCEEEEEEE-
Q ss_conf             ---2--17454202----45458999999860799769996362773026665543-3588887653124660489974-
Q gi|254780877|r  246 ---I--AGAKFRGE----FEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGA-MDASNLLKPSLARGELHCIGAT-  314 (853)
Q Consensus       246 ---~--ag~~~rg~----~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~-~Daan~LKP~LarG~l~~IgaT-  314 (853)
                         +  +.-+..+.    ...-+..+++.+.....++|++|||++.+.+..+...- -...++.--.+....+..|-+. 
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDEfq~l~~~~~~~~~~~~l~~~~d~~~~~~~~~~I~~GS  154 (223)
T pfam01637        75 AEALGDALPKIGIAKSKLAFLSLTLLFELLKRKGKKIAIIIDEVQYAIGLNGAESYVKLLLNLIDYPPKEYHLIVVLCGS  154 (223)
T ss_pred             HHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEECHHHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEEEECC
T ss_conf             99987651233222112078899999999985599659997016776402443059999999999752457758999727


Q ss_pred             CHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf             4899999730011132023111115777678999999978986541496101589999986333
Q gi|254780877|r  315 TLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSN  378 (853)
Q Consensus       315 T~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~  378 (853)
                      ...--++.+..+..|-.|+..|.+++-+.+++.+.++..-.    -.++.++++.++.++.+..
T Consensus       155 ~~~~m~~~~~~~~plygR~~~i~l~p~~~~~~~efl~~~f~----e~~~~~~~~~~~~iy~~~g  214 (223)
T pfam01637       155 SEGLTIELLDYKSPLYGRHRWALLKPFDFETAWNFLREGFE----ELYEPGPKEEFEEVWRLLG  214 (223)
T ss_pred             HHHHHHHHHCCCCCCCCCCCEEEECCCCHHHHHHHHHHHHH----HHCCCCCHHHHHHHHHHHC
T ss_conf             19999998620565357502277268998999999999999----8478999899999999969


No 124
>TIGR00635 ruvB Holliday junction DNA helicase RuvB; InterPro: IPR004605 All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.; GO: 0003677 DNA binding, 0005524 ATP binding, 0009378 Holliday junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination.
Probab=98.93  E-value=1.9e-08  Score=87.64  Aligned_cols=176  Identities=23%  Similarity=0.365  Sum_probs=96.7

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHH
Q ss_conf             67459489999999999874101236566512898726786168899999998723776530022447740345320130
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLI  647 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~Li  647 (853)
                      +..|||++..+.+.-.|+-+|    ..+-++.-.||.||||+|||.||..+|.+|-   .+ |++              +
T Consensus         4 ~eFiGQ~~vk~~L~l~I~AAk----~R~e~LDH~LL~GPPGLGKTTLA~IiA~Emg---~~-l~i--------------T   61 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAK----MRQEALDHLLLYGPPGLGKTTLAHIIANEMG---VN-LKI--------------T   61 (305)
T ss_pred             HHCCCCHHHHHHHHHHHHHHH----HCCCCCCCEEEECCCCCCHHHHHHHHHHHHC---CC-CEE--------------E
T ss_conf             110582889999999999998----2489734166317568746789999999838---93-267--------------4


Q ss_pred             CCCCHHCCCCC----CCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEE--CCC---CCEEECC---CCEEE
Q ss_conf             47711203566----774211322156410220214414989999999984045788--799---9778303---31559
Q gi|254780877|r  648 GSPPGYVGYEE----GGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLT--DSQ---GRTVDFR---NTLII  715 (853)
Q Consensus       648 GappGYvG~~~----gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~lt--d~~---G~~v~f~---n~iii  715 (853)
                      .+|.    -+.    -|.||.   =.|.+|++.|||+.-+|.|-.+|+-.|||=+|-  =++   .|+|...   =|+|=
T Consensus        62 sGP~----L~kPgDlaaiLt~---L~~gDVLFIDEIHRL~p~~EE~LYpAMEDF~lDi~IG~Gp~Ar~v~ldLpPFTLvG  134 (305)
T TIGR00635        62 SGPA----LEKPGDLAAILTN---LEEGDVLFIDEIHRLSPAIEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVG  134 (305)
T ss_pred             ECCC----CCCHHHHHHHHHH---CCCCCEEECCHHHHCCHHHHHHCCCCCCCEEEEEEEECCCCCCEEEECCCCCCCCC
T ss_conf             0675----5475789999970---56896310125650483345310530012178778712898525760686944200


Q ss_pred             ECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHH
Q ss_conf             54851268764032679999999998628857726668158628899899999999999999999985798999988999
Q gi|254780877|r  716 MTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVI  795 (853)
Q Consensus       716 ~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~  795 (853)
                      .||-.|.             +        ...|..|+-=+--|+-++.+++.+|+.+.=         .-..+++++++.
T Consensus       135 ATTR~G~-------------l--------t~PLrdRFG~~~rl~fY~~~EL~~Iv~R~A---------~~L~~ei~~~~a  184 (305)
T TIGR00635       135 ATTRAGM-------------L--------TSPLRDRFGIILRLEFYTPEELAEIVSRSA---------GLLNIEIEQEAA  184 (305)
T ss_pred             CCCCCCC-------------C--------CCCHHHHHHHHHHCCCCCHHHHHHHHHHHH---------HHCCCCCCHHHH
T ss_conf             0034774-------------1--------031334544745402689878999987533---------441430077899


Q ss_pred             HHHHHCC
Q ss_conf             9999708
Q gi|254780877|r  796 DWLSCRG  802 (853)
Q Consensus       796 ~~l~~~~  802 (853)
                      ..|++++
T Consensus       185 ~~IArrS  191 (305)
T TIGR00635       185 LEIARRS  191 (305)
T ss_pred             HHHHHHC
T ss_conf             9998754


No 125
>PRK08770 DNA polymerase III subunits gamma and tau; Validated
Probab=98.92  E-value=2.4e-08  Score=86.84  Aligned_cols=203  Identities=21%  Similarity=0.280  Sum_probs=132.4

Q ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHCCCC-CCCEEEECCCCCCHHHHHHHHHHHHHCCC-CCHHH-------------
Q ss_conf             5699872985333335789999999633677-78668952887407779999999873489-98444-------------
Q gi|254780877|r  168 LTEEARNGKLDPVIGRDDEMRRAIQVLSRRT-KNNPVLIGDPGVGKTAIIEGLASRIINGD-IPESL-------------  232 (853)
Q Consensus       168 LTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~-k~n~~lvGe~GvGKtaive~la~~i~~~~-vp~~l-------------  232 (853)
                      |-.+-|-..++-|||-+.-++-+..-|...+ -.--++.|.-|||||+|..-||+-+.-.. +...-             
T Consensus         6 ~a~k~rp~~f~~~~gq~~~~~~l~~~~~~~~~~~a~lf~g~rg~gkt~~ar~~a~~lnc~~~~~~~pc~~c~~c~~i~~~   85 (663)
T PRK08770          6 LARKWRPKRFAELVGQEHVVRALSNALDSGRVHHAFLFTGTRGVGKTTIARIFAKSLNCETGTSADPCGQCPACLDIDAG   85 (663)
T ss_pred             HHHHHCCCCHHHHCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCC
T ss_conf             77550887464522859999999999970997404762279988888999999998678999999978778778988548


Q ss_pred             CCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCC--C-CEEEEECCHHHHCCCCCCCCCCCHHH-HHHHHHC--CC
Q ss_conf             57437887313542174542024545899999986079--9-76999636277302666554335888-8765312--46
Q gi|254780877|r  233 KGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSED--G-EIILFIDELHVLVGAGKTDGAMDASN-LLKPSLA--RG  306 (853)
Q Consensus       233 ~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~--~-~~ilfide~h~~~gaG~~~g~~Daan-~LKP~La--rG  306 (853)
                      +..-++++|.++      -+|=  +-++.+++.+.-.+  | --|..|||+|||-        -.+-| +|| .|.  -.
T Consensus        86 ~~~d~~e~daas------~~~v--~~~r~~~~~~~~~p~~~~~kvy~idevhmls--------~~~fna~lk-tleepp~  148 (663)
T PRK08770         86 RYIDLLEIDAAS------NTGV--DDVREVIENAQYMPSRGKFKVYLIDEVHMLS--------KAAFNALLK-TLEEPPE  148 (663)
T ss_pred             CCCCEEEEECCC------CCCH--HHHHHHHHHCCCCCCCCCEEEEEEECHHHCC--------HHHHHHHHH-HHCCCCC
T ss_conf             988658864676------5888--9999999844358877743699970043328--------999999987-4027864


Q ss_pred             CEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCC
Q ss_conf             60489974489999973001113202311111577767899999997898654149610158999998633320245767
Q gi|254780877|r  307 ELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFL  386 (853)
Q Consensus       307 ~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~l  386 (853)
                      -.++|-|||.-+  | | +-.-|.| -+.-..+--+.++...-|..+..    ..+|.|.++||....+.+.--|.|   
T Consensus       149 ~v~f~~att~~~--k-~-p~t~~sr-c~~f~~~~~~~~~~~~~l~~~~~----~e~~~~~~~~~~~~~~~~~gs~rd---  216 (663)
T PRK08770        149 HVKFLLATTDPQ--K-L-PVTVLSR-CLQFNLKRLDEDQIQGQMTRILA----AEQIESDPSAIVQLSKAADGSLRD---  216 (663)
T ss_pred             CEEEEEECCCHH--H-C-CHHHHHH-HHHCCCCCCCHHHHHHHHHHHHH----HCCCCCCHHHHHHHHHHCCCCHHH---
T ss_conf             428998548733--3-7-4899988-87634377999999999999999----839976999999999974785677---


Q ss_pred             HHHHHHHHHHHHHHHH
Q ss_conf             4778999999999875
Q gi|254780877|r  387 PDKAIDLMDEASARVR  402 (853)
Q Consensus       387 PDKAIDllDeA~A~~~  402 (853)
                         |..|+|.|-|+-.
T Consensus       217 ---~lsl~~q~~~~~~  229 (663)
T PRK08770        217 ---GLSLLDQAIAYAG  229 (663)
T ss_pred             ---HHHHHHHHHHHCC
T ss_conf             ---8889999998668


No 126
>TIGR00635 ruvB Holliday junction DNA helicase RuvB; InterPro: IPR004605 All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.; GO: 0003677 DNA binding, 0005524 ATP binding, 0009378 Holliday junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination.
Probab=98.91  E-value=8.9e-09  Score=90.28  Aligned_cols=160  Identities=25%  Similarity=0.380  Sum_probs=85.3

Q ss_pred             CCCCCCCHHHHHHHHHHHHCCCCCC------CEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCC
Q ss_conf             8533333578999999963367778------6689528874077799999998734899844457437887313542174
Q gi|254780877|r  176 KLDPVIGRDDEMRRAIQVLSRRTKN------NPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGA  249 (853)
Q Consensus       176 kLDPVIGRe~EI~~~~~iL~r~~k~------n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~  249 (853)
                      +|+-.|| .++|++-+++--+-.|+      ..+|.||||+|||++++=+|.-+-.+        .+|-|=  ..|.   
T Consensus         2 ~L~eFiG-Q~~vk~~L~l~I~AAk~R~e~LDH~LL~GPPGLGKTTLA~IiA~Emg~~--------l~iTsG--P~L~---   67 (305)
T TIGR00635         2 LLAEFIG-QEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVN--------LKITSG--PALE---   67 (305)
T ss_pred             CCHHCCC-CHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCC--------CEEEEC--CCCC---
T ss_conf             8011058-2889999999999998248973416631756874678999999983893--------267406--7554---


Q ss_pred             CCCCHHHHHHHHHHHHHHHCCCCEEEEECCHH--------------------HHCCCCCCCC--CCCHHHHHHHHHCCCC
Q ss_conf             54202454589999998607997699963627--------------------7302666554--3358888765312466
Q gi|254780877|r  250 KFRGEFEERLKSLLCEIRSEDGEIILFIDELH--------------------VLVGAGKTDG--AMDASNLLKPSLARGE  307 (853)
Q Consensus       250 ~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h--------------------~~~gaG~~~g--~~Daan~LKP~LarG~  307 (853)
                      | .||    |-+++--+++   .-||||||||                    -+||.|-+.-  .||.          --
T Consensus        68 k-PgD----laaiLt~L~~---gDVLFIDEIHRL~p~~EE~LYpAMEDF~lDi~IG~Gp~Ar~v~ldL----------pP  129 (305)
T TIGR00635        68 K-PGD----LAAILTNLEE---GDVLFIDEIHRLSPAIEELLYPAMEDFRLDIVIGKGPSARSVRLDL----------PP  129 (305)
T ss_pred             C-HHH----HHHHHHHCCC---CCEEECCHHHHCCHHHHHHCCCCCCCEEEEEEEECCCCCCEEEECC----------CC
T ss_conf             7-578----9999970568---9631012565048334531053001217877871289852576068----------69


Q ss_pred             EEEEEEECHHHHHHHHHCCHHHHHCCCEE-ECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             04899744899999730011132023111-1157776789999999789865414961015899999863
Q gi|254780877|r  308 LHCIGATTLDEYRKYIEKDPALARRFQSL-LVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVL  376 (853)
Q Consensus       308 l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i-~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~l  376 (853)
                      +..|||||-.--  -.   .-|.-||=.| .++==|.+|-..|+.--+..    =+|.|..+|..+.++-
T Consensus       130 FTLvGATTR~G~--lt---~PLrdRFG~~~rl~fY~~~EL~~Iv~R~A~~----L~~ei~~~~a~~IArr  190 (305)
T TIGR00635       130 FTLVGATTRAGM--LT---SPLRDRFGIILRLEFYTPEELAEIVSRSAGL----LNIEIEQEAALEIARR  190 (305)
T ss_pred             CCCCCCCCCCCC--CC---CCHHHHHHHHHHCCCCCHHHHHHHHHHHHHH----CCCCCCHHHHHHHHHH
T ss_conf             442000034774--10---3133454474540268987899998753344----1430077899999875


No 127
>TIGR01241 FtsH_fam ATP-dependent metallopeptidase HflB; InterPro: IPR005936   Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site . The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases .   Peptidases are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry. Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins.   Families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule.    This group of metallopeptidases belong to MEROPS peptidase family M41 (FtsH endopeptidase family, clan MA(E)). The predicted active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH.    FtsH is a membrane-anchored ATP-dependent protease that degrades misfolded or misassembled membrane proteins as well as a subset of cytoplasmic regulatory proteins. FtsH is a 647-residue protein of 70 kDa, with two putative transmembrane segments towards its N terminus which anchor the protein to the membrane, giving rise to a periplasmic domain of 70 residues and a cytoplasmic segment of 520 residues containing the ATPase and protease domains . ; GO: 0004222 metalloendopeptidase activity, 0030163 protein catabolic process, 0016020 membrane.
Probab=98.91  E-value=2.4e-09  Score=94.85  Aligned_cols=160  Identities=27%  Similarity=0.491  Sum_probs=105.4

Q ss_pred             CCCCCCHHHHHHHHHHHH------------CCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHH
Q ss_conf             533333578999999963------------36777866895288740777999999987348998444574378873135
Q gi|254780877|r  177 LDPVIGRDDEMRRAIQVL------------SRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGA  244 (853)
Q Consensus       177 LDPVIGRe~EI~~~~~iL------------~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~  244 (853)
                      +.-|=|-|++=+++++|-            .-|-=..+|||||||+|||=|+...|=   +-.||       .|++.=+.
T Consensus        58 F~DVAG~dEAKeEl~EiVdFLK~P~kf~~LGaKIPKGVLLvGPPGTGKTLLAKAvAG---EA~VP-------FF~iSGSd  127 (505)
T TIGR01241        58 FKDVAGIDEAKEELVEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAG---EAGVP-------FFSISGSD  127 (505)
T ss_pred             ECCCCCCHHHHHHHHHHHHHCCCCHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHC---CCCCC-------CEEECCCC
T ss_conf             234445323334333134222696379872788987147317878424678875202---58896-------24740761


Q ss_pred             HHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHH---CCCCCCCCCCCH-HHHHHHHH-------CCCCEEEEEE
Q ss_conf             421745420245458999999860799769996362773---026665543358-88876531-------2466048997
Q gi|254780877|r  245 LIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVL---VGAGKTDGAMDA-SNLLKPSL-------ARGELHCIGA  313 (853)
Q Consensus       245 l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~---~gaG~~~g~~Da-an~LKP~L-------arG~l~~Iga  313 (853)
                      .|=  .+.|==..|++.+.+.+++. -++|.|||||-.+   =|||.-.|+-|= =+-|=..|       ++-.+=+|+|
T Consensus       128 FVE--MFVGVGASRVRDLFeqAK~n-APCIIFIDEIDAVGr~RGaG~lGGGnDEREQTLNQLLVEMDGF~~~~gvIv~AA  204 (505)
T TIGR01241       128 FVE--MFVGVGASRVRDLFEQAKKN-APCIIFIDEIDAVGRQRGAGELGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAA  204 (505)
T ss_pred             EEE--CCCCCCCEEHHHHHHHHHHH-CCCEEEEECHHHCCCCCCCCCCCCCCCHHHHHHHHHHEECCCCCCCCCEEEEEE
T ss_conf             011--12056400014457999971-897056401000033356436676541355433233133178589885799850


Q ss_pred             EC-HHHHHHHHHCCHHHHH--CCCE-EECCCCCHHHHHHHHHHHHH
Q ss_conf             44-8999997300111320--2311-11157776789999999789
Q gi|254780877|r  314 TT-LDEYRKYIEKDPALAR--RFQS-LLVGEPTVTDTISILRGLKE  355 (853)
Q Consensus       314 TT-~~Eyrk~iEkD~Al~R--RFq~-i~V~Eps~~~t~~iL~gl~~  355 (853)
                      |= ||=      =|+||.|  ||.+ |.|.-|+...=.+||+=...
T Consensus       205 TNRPDv------LD~ALLRPGRFDRQv~V~~PD~~GR~~IL~VH~~  244 (505)
T TIGR01241       205 TNRPDV------LDPALLRPGRFDRQVVVDLPDIKGREEILKVHAK  244 (505)
T ss_pred             CCCCCC------CCCCCCCCCCCCCEEECCCCCHHHHHHHHHHHHC
T ss_conf             488411------6510068787445134588874678999999854


No 128
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=98.91  E-value=5.5e-08  Score=83.86  Aligned_cols=176  Identities=27%  Similarity=0.402  Sum_probs=92.1

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHCCCCC------CCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHC
Q ss_conf             29853333357899999996336777------866895288740777999999987348998444574378873135421
Q gi|254780877|r  174 NGKLDPVIGRDDEMRRAIQVLSRRTK------NNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIA  247 (853)
Q Consensus       174 ~GkLDPVIGRe~EI~~~~~iL~r~~k------~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~a  247 (853)
                      -..|+-.|| .+.++.-+++.-+-.|      ..++|.|+||.|||+++.-+|.-+-.+        .++-+  -..| .
T Consensus        22 P~~l~efiG-Q~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn--------~k~ts--Gp~l-e   89 (332)
T COG2255          22 PKTLDEFIG-QEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVN--------LKITS--GPAL-E   89 (332)
T ss_pred             CCCHHHHCC-HHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCC--------EEECC--CCCC-C
T ss_conf             654888518-3999999999999998449876747864799876888999999985677--------37636--6201-5


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC--------------------CC
Q ss_conf             7454202454589999998607997699963627730266655433588887653124--------------------66
Q gi|254780877|r  248 GAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR--------------------GE  307 (853)
Q Consensus       248 g~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar--------------------G~  307 (853)
                      -   .|+    +-+++..++   .+-||||||||-+        +.-+-.+|=|++.-                    --
T Consensus        90 K---~gD----laaiLt~Le---~~DVLFIDEIHrl--------~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLpp  151 (332)
T COG2255          90 K---PGD----LAAILTNLE---EGDVLFIDEIHRL--------SPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPP  151 (332)
T ss_pred             C---HHH----HHHHHHCCC---CCCEEEEEHHHHC--------CHHHHHHHHHHHHHEEEEEEECCCCCCCEEECCCCC
T ss_conf             7---265----999986398---6776777255314--------742898964675310577897248755347637998


Q ss_pred             EEEEEEECHHHHHHHHHCCHHHHHCCCEE-ECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCC
Q ss_conf             04899744899999730011132023111-11577767899999997898654149610158999998633320245767
Q gi|254780877|r  308 LHCIGATTLDEYRKYIEKDPALARRFQSL-LVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFL  386 (853)
Q Consensus       308 l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i-~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~l  386 (853)
                      +..|||||-..-   +  -..|..||-.+ .++--+.++-..|+.    ++-..-++.+++++....++-|.      --
T Consensus       152 FTLIGATTr~G~---l--t~PLrdRFGi~~rlefY~~~eL~~Iv~----r~a~~l~i~i~~~~a~eIA~rSR------GT  216 (332)
T COG2255         152 FTLIGATTRAGM---L--TNPLRDRFGIIQRLEFYTVEELEEIVK----RSAKILGIEIDEEAALEIARRSR------GT  216 (332)
T ss_pred             EEEEEECCCCCC---C--CCHHHHHCCCEEEEECCCHHHHHHHHH----HHHHHHCCCCCHHHHHHHHHHCC------CC
T ss_conf             137510134664---5--633688628604540588899999999----88887387768579999998636------99


Q ss_pred             HHHHHHHH
Q ss_conf             47789999
Q gi|254780877|r  387 PDKAIDLM  394 (853)
Q Consensus       387 PDKAIDll  394 (853)
                      |--|.-||
T Consensus       217 PRIAnRLL  224 (332)
T COG2255         217 PRIANRLL  224 (332)
T ss_pred             CHHHHHHH
T ss_conf             38999999


No 129
>PRK06872 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.89  E-value=4.8e-08  Score=84.34  Aligned_cols=201  Identities=23%  Similarity=0.248  Sum_probs=130.1

Q ss_pred             HHHHHCCCCCCCCCHHHHHHHHHHHHCC-CCCCCEEEECCCCCCHHHHHHHHHHHHHCCC--CCHH----------HC--
Q ss_conf             6998729853333357899999996336-7778668952887407779999999873489--9844----------45--
Q gi|254780877|r  169 TEEARNGKLDPVIGRDDEMRRAIQVLSR-RTKNNPVLIGDPGVGKTAIIEGLASRIINGD--IPES----------LK--  233 (853)
Q Consensus       169 Te~Ar~GkLDPVIGRe~EI~~~~~iL~r-~~k~n~~lvGe~GvGKtaive~la~~i~~~~--vp~~----------l~--  233 (853)
                      -.+-|-..++-|||-+.-++-+...|.. |--.--++-|.-|||||++..-||+-+.-..  -++.          -.  
T Consensus         7 ark~rp~~f~~~vgq~~v~~~l~~a~~~~r~~haylf~g~rg~gktt~ari~ak~lnc~~~~~~~pcg~c~~c~~i~~g~   86 (696)
T PRK06872          7 ARKWRPKTFSEVVGQEHILTALSNGLKENRLHHAYLFSGTRGVGKTSIARLFAKGLNCVHGVTATPCGECENCKAIEEGN   86 (696)
T ss_pred             HHHHCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCC
T ss_conf             76518875645238599999999999719863047511789888889999999986789999999788862257674478


Q ss_pred             CCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCC--C-CEEEEECCHHHHCCCCCCCCCCCHHH-HHHHHHCC--CC
Q ss_conf             7437887313542174542024545899999986079--9-76999636277302666554335888-87653124--66
Q gi|254780877|r  234 GKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSED--G-EIILFIDELHVLVGAGKTDGAMDASN-LLKPSLAR--GE  307 (853)
Q Consensus       234 ~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~--~-~~ilfide~h~~~gaG~~~g~~Daan-~LKP~Lar--G~  307 (853)
                      ..-++++|.++-      +|  =+.++.+++.+.-.+  | --|-.|||+|||-.        .+=| ||| .|..  .-
T Consensus        87 ~~d~~eidaas~------~~--v~~~r~l~~~~~~~p~~~~~kvy~idevhmls~--------~~fnallk-tleepp~~  149 (696)
T PRK06872         87 FIDLIEIDAASR------TK--VEDTRELLDNVQYKPVVGRFKVYLIDEVHMLSR--------HSFNALLK-TLEEPPEY  149 (696)
T ss_pred             CCCEEEEECCCC------CC--HHHHHHHHHHCCCCCCCCCEEEEEEEHHHHCCH--------HHHHHHHH-HHCCCCCC
T ss_conf             775467505655------78--899999998454577677547999700544389--------99999987-50279754


Q ss_pred             EEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCH
Q ss_conf             04899744899999730011132023111115777678999999978986541496101589999986333202457674
Q gi|254780877|r  308 LHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLP  387 (853)
Q Consensus       308 l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lP  387 (853)
                      .++|-|||.-  +|.  +-.-|.| -+....+--+.+.-..-|..+..    ..+|.|.++||+..++.++--|.|    
T Consensus       150 v~f~latt~~--~k~--p~tilsr-c~~f~~~~~~~~~i~~~l~~i~~----~e~~~~~~~al~~~a~~a~gs~rd----  216 (696)
T PRK06872        150 VKFLLATTDP--QKL--PITILSR-CMQFHLKALDQTQIAQHLEFILT----QENIPFESPALEKLAKAAQGSIRD----  216 (696)
T ss_pred             EEEEEECCCH--HHC--CHHHHHH-HHHEECCCCCHHHHHHHHHHHHH----HCCCCCCHHHHHHHHHHCCCCHHH----
T ss_conf             4899843863--227--4889876-65300268999999999999999----849977999999999975895677----


Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             77899999999987
Q gi|254780877|r  388 DKAIDLMDEASARV  401 (853)
Q Consensus       388 DKAIDllDeA~A~~  401 (853)
                        |+.|+|.|-|+-
T Consensus       217 --alsl~dqai~~~  228 (696)
T PRK06872        217 --SLSLTDQAIAMS  228 (696)
T ss_pred             --HHHHHHHHHHHC
T ss_conf             --888999999975


No 130
>KOG0730 consensus
Probab=98.89  E-value=9.1e-08  Score=82.09  Aligned_cols=159  Identities=28%  Similarity=0.444  Sum_probs=116.9

Q ss_pred             CCCHHHHHHHHHH--HH------------CCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHH
Q ss_conf             3335789999999--63------------367778668952887407779999999873489984445743788731354
Q gi|254780877|r  180 VIGRDDEMRRAIQ--VL------------SRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGAL  245 (853)
Q Consensus       180 VIGRe~EI~~~~~--iL------------~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l  245 (853)
                      -||=-+++++-+|  |+            .=..-..++|-||||.|||.++..+|.-          .++-++++....|
T Consensus       435 dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne----------~~~nFlsvkgpEL  504 (693)
T KOG0730         435 DIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANE----------AGMNFLSVKGPEL  504 (693)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHH----------HCCCEEECCCHHH
T ss_conf             045789999999999861665659998725788754777789986247899998646----------3587264157899


Q ss_pred             HCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHH-----HHH---HHHHCCCCEEEEEEECHH
Q ss_conf             217454202454589999998607997699963627730266655433588-----887---653124660489974489
Q gi|254780877|r  246 IAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDAS-----NLL---KPSLARGELHCIGATTLD  317 (853)
Q Consensus       246 ~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daa-----n~L---KP~LarG~l~~IgaTT~~  317 (853)
                      .  ++|-||=|.-+..+.+...... +.|+|+|||.++.++-+++++ +++     .+|   --..+...+-+||||--.
T Consensus       505 ~--sk~vGeSEr~ir~iF~kAR~~a-P~IiFfDEiDsi~~~R~g~~~-~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRp  580 (693)
T KOG0730         505 F--SKYVGESERAIREVFRKARQVA-PCIIFFDEIDALAGSRGGSSS-GVTDRVLSQLLTEMDGLEALKNVLVIAATNRP  580 (693)
T ss_pred             H--HHHCCCHHHHHHHHHHHHHHCC-CEEEEHHHHHHHHHCCCCCCC-CHHHHHHHHHHHHCCCCCCCCCEEEEECCCCH
T ss_conf             8--7751825899999999986269-837744666666630478755-14899999999870041014708999505881


Q ss_pred             HHHHHHHCCHHHHH--CCCE-EECCCCCHHHHHHHHHHHHHHH
Q ss_conf             99997300111320--2311-1115777678999999978986
Q gi|254780877|r  318 EYRKYIEKDPALAR--RFQS-LLVGEPTVTDTISILRGLKERY  357 (853)
Q Consensus       318 Eyrk~iEkD~Al~R--RFq~-i~V~Eps~~~t~~iL~gl~~~y  357 (853)
                      .     .=|+||.|  ||.. |.|.-|+.+.-.+||+.-..++
T Consensus       581 d-----~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkm  618 (693)
T KOG0730         581 D-----MIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKM  618 (693)
T ss_pred             H-----HCCHHHCCCCCCCEEEEECCCCHHHHHHHHHHHHHCC
T ss_conf             0-----1269775986533057515834788999999997339


No 131
>PRK07270 DNA polymerase III subunits gamma and tau; Validated
Probab=98.89  E-value=4.4e-07  Score=76.51  Aligned_cols=116  Identities=18%  Similarity=0.192  Sum_probs=54.8

Q ss_pred             CHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEE--EEECCHHHHCCCCCCCCCCCHHHHHHHHHCC-
Q ss_conf             8444574378873135421745420245458999999860799769--9963627730266655433588887653124-
Q gi|254780877|r  229 PESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEII--LFIDELHVLVGAGKTDGAMDASNLLKPSLAR-  305 (853)
Q Consensus       229 p~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~i--lfide~h~~~gaG~~~g~~Daan~LKP~Lar-  305 (853)
                      .+....++||-+|-.-++..        +-..++++-+++.+.+++  |.-.+.|.|..               +.++| 
T Consensus       113 ~P~~~~yKV~IIDEah~Ls~--------~A~NALLKtLEEPP~~~vFIL~Ttep~kIl~---------------TI~SRC  169 (557)
T PRK07270        113 APSRATYKVYIIDEVHMLST--------GAFNALLKTLEEPTENVVFILATTELHKIPA---------------TILSRV  169 (557)
T ss_pred             CCCCCCEEEEEECCHHHCCH--------HHHHHHHHHHHCCCCCEEEEEEECCHHHCCH---------------HHHHHH
T ss_conf             87778838999714453499--------9999899985289987699998499475928---------------887430


Q ss_pred             --CCEEEEEEECHHHHHHHHHCC-------HHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHH
Q ss_conf             --660489974489999973001-------11320231111157776789999999789865414961015899999
Q gi|254780877|r  306 --GELHCIGATTLDEYRKYIEKD-------PALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSA  373 (853)
Q Consensus       306 --G~l~~IgaTT~~Eyrk~iEkD-------~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~a  373 (853)
                        =+++-|.....-+.=++|-..       .||.-   .....+-+.-+++.||--..+.+   .+-+|+.+.+...
T Consensus       170 Qrf~F~~i~~~~i~~~L~~I~~~E~i~~~~~aL~~---Ia~~a~G~mRdAlsiLdQ~~s~~---~~~~it~~~v~~~  240 (557)
T PRK07270        170 QRFEFKSIKTKAIREHLAWILDKEGISFEVEALNL---IARRAEGGMRDALSILDQALSLS---QDNQVTIAIAEEI  240 (557)
T ss_pred             HHCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHH---HHHHCCCCHHHHHHHHHHHHHCC---CCCCCCHHHHHHH
T ss_conf             00108889999999999999998399869999999---99977996878999999999717---9997679999999


No 132
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=98.88  E-value=5.4e-08  Score=83.90  Aligned_cols=182  Identities=16%  Similarity=0.205  Sum_probs=101.6

Q ss_pred             CCCCCHHHHH-HHHHHHHCCCCCCCE-EEECCCCCCHHHHHHHHHHHHHCCCCCH-HHCC-------------CEEEEEE
Q ss_conf             3333357899-999996336777866-8952887407779999999873489984-4457-------------4378873
Q gi|254780877|r  178 DPVIGRDDEM-RRAIQVLSRRTKNNP-VLIGDPGVGKTAIIEGLASRIINGDIPE-SLKG-------------KRLMALD  241 (853)
Q Consensus       178 DPVIGRe~EI-~~~~~iL~r~~k~n~-~lvGe~GvGKtaive~la~~i~~~~vp~-~l~~-------------~~i~~ld  241 (853)
                      |-++|-.+.| +.+...+.+.+=.+. ++.|++|+||++++..+|+.+.-.+... .=.|             --++.+.
T Consensus         5 ~~~~~~Q~~i~~~L~~~i~~~rl~HA~Lf~Gp~G~GK~~~A~~~A~~LlC~~~~~~~~Cg~C~~C~~~~~~~HPD~~~i~   84 (329)
T PRK08058          5 EQLTALQPIVVKMLQNSIAKNRLAHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIESGNHPDVHLVA   84 (329)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEEC
T ss_conf             88883189999999999985996615655789998899999999999739999999988788899998769999767745


Q ss_pred             HHHHHCCCCCCCHHHHHHHHHHHHHHHCC---CCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCC--CEEEEEEECH
Q ss_conf             13542174542024545899999986079---976999636277302666554335888876531246--6048997448
Q gi|254780877|r  242 MGALIAGAKFRGEFEERLKSLLCEIRSED---GEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARG--ELHCIGATTL  316 (853)
Q Consensus       242 ~~~l~ag~~~rg~~e~r~~~i~~~~~~~~---~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG--~l~~IgaTT~  316 (853)
                      .    .|.+..   =+.++.+.+++...+   +.-|..||+.|++        +..|||-|-=.|..-  ..-+|=+|| 
T Consensus        85 p----~~~~i~---idqiR~L~~~~~~~p~~g~~KV~II~~Ae~m--------~~~AaNALLKtLEEPp~~t~fIL~t~-  148 (329)
T PRK08058         85 P----DGQSIK---KDQIRYLKEEFSKSGVESNKKVYIIEHADKM--------TASAANSLLKFLEEPSGDTTAILLTE-  148 (329)
T ss_pred             C----CCCCCC---HHHHHHHHHHHCCCCCCCCCEEEEEECHHHH--------CHHHHHHHHHHHHCCCCCCEEEEEEC-
T ss_conf             6----614077---9999999999643875788679997347762--------99999999998646897867998729-


Q ss_pred             HHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             99999730011132023111115777678999999978986541496101589999986333202457674778999999
Q gi|254780877|r  317 DEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDE  396 (853)
Q Consensus       317 ~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDe  396 (853)
                       +..+-.   +-+-.|=|.+.+..|+.++....|.       + ++|.  ++....++.++.       -|.+|.++.+.
T Consensus       149 -~~~~lL---pTI~SRCq~i~f~~~~~~~i~~~L~-------~-~~i~--~~~a~l~a~~~g-------s~~~A~~l~~~  207 (329)
T PRK08058        149 -NKHQIL---PTILSRCQVVEFRPLPPESLIQRLQ-------E-EGIS--ESLATLLAQLTN-------SVEEALALSED  207 (329)
T ss_pred             -CHHHHH---HHHHHCCEEEECCCCCHHHHHHHHH-------H-CCCC--HHHHHHHHHHCC-------CHHHHHHHHCC
T ss_conf             -966643---6886314256588999999999999-------8-7999--899999998789-------99999988426


No 133
>pfam06068 TIP49 TIP49 C-terminus. This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the pfam00004 domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear
Probab=98.88  E-value=6.1e-08  Score=83.51  Aligned_cols=103  Identities=19%  Similarity=0.353  Sum_probs=79.3

Q ss_pred             CEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCC
Q ss_conf             10220214414989999999984045788799977830331559548512687640326799999999986288577266
Q gi|254780877|r  672 QVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNR  751 (853)
Q Consensus       672 sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnR  751 (853)
                      .|++.||+.--+.+-|.+|-..|+.-           |. -||||.||-|-..+.......        -.-.|.+||.|
T Consensus       277 GVLFIDEvHMLDiEcFsfLnralEs~-----------la-PivI~ATNRG~~~IRGTd~~s--------PHGiP~DlLDR  336 (395)
T pfam06068       277 GVLFIDEVHMLDIECFSFLNRALESE-----------LA-PIVILATNRGICTIRGTDIIS--------PHGIPLDLLDR  336 (395)
T ss_pred             CCEEEECCHHCCHHHHHHHHHHHCCC-----------CC-CEEEEEECCCCEEECCCCCCC--------CCCCCHHHHHH
T ss_conf             74688500000058998887765056-----------78-769998446520352567758--------88998777730


Q ss_pred             CCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCC
Q ss_conf             68158628899899999999999999999985798999988999999970898
Q gi|254780877|r  752 LDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYD  804 (853)
Q Consensus       752 id~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~  804 (853)
                      + -||.-.|++.+++++|+....         +.-.+.++++|+++|++-|..
T Consensus       337 l-lII~T~py~~~ei~~Ii~iRa---------~~E~v~l~~~al~~L~~ig~~  379 (395)
T pfam06068       337 L-LIITTEPYTREEIKQILEIRA---------QEEGVEISEEALDLLAKIGEE  379 (395)
T ss_pred             E-EEEECCCCCHHHHHHHHHHHH---------HHHCCCCCHHHHHHHHHHHHH
T ss_conf             2-588568899899999999877---------760787798999999986532


No 134
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=98.85  E-value=3.9e-07  Score=76.94  Aligned_cols=160  Identities=16%  Similarity=0.307  Sum_probs=81.9

Q ss_pred             EEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHH
Q ss_conf             98726786168899999998723776530022447740345320130477112035667742113221564102202144
Q gi|254780877|r  601 FMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIE  680 (853)
Q Consensus       601 flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEiE  680 (853)
                      +.+.||+|+|||.|+.+++..+.....+.+.++|.++..... .-+                 +.+  ..+.++++|+|+
T Consensus        41 l~i~G~~GsGKTHLl~a~~~~~~~~~~~~~yl~~~~~~~~~~-~~l-----------------~~l--~~~d~l~iDDi~  100 (226)
T TIGR03420        41 LYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELAQADP-EVL-----------------EGL--EQADLVCLDDVE  100 (226)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHCCCCCEEEECHHHHHHHHH-HHH-----------------HHC--CCCCEEEEECHH
T ss_conf             999899999889999999999862699579952999877539-999-----------------727--448999996633


Q ss_pred             HCC--HHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCC--CCEE
Q ss_conf             149--899999999840457887999778303315595485126876403267999999999862885772666--8158
Q gi|254780877|r  681 KAH--SDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRL--DEII  756 (853)
Q Consensus       681 Kah--~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRi--d~iv  756 (853)
                      .-.  +.....|+.++..  +.        -+++-|++||+.....                -..+.|.+..|+  --++
T Consensus       101 ~i~~~~~~e~~lF~l~N~--~~--------~~~~~ilits~~~p~~----------------l~~~l~dL~SRl~~~~~~  154 (226)
T TIGR03420       101 AIAGQPEWQEALFHLYNR--VR--------EAGGRLLIAGRAAPAQ----------------LPLRLPDLRTRLAWGLVF  154 (226)
T ss_pred             HHCCCHHHHHHHHHHHHH--HH--------HHCCEEEEECCCCHHH----------------CCCCHHHHHHHHHCCCEE
T ss_conf             343783789999999999--98--------6528289867888232----------------032017799999688568


Q ss_pred             ECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHH
Q ss_conf             62889989999999999999999998579899998899999997089822062157999998
Q gi|254780877|r  757 LFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQR  818 (853)
Q Consensus       757 ~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~  818 (853)
                      ...+++.+.+..|+.+..       ..+++  .+++++++||+++. +..+  |.+..++.+
T Consensus       155 ~I~~pdd~~~~~iL~k~~-------~~r~i--~i~~~vi~yl~~r~-~R~~--~~l~~~l~~  204 (226)
T TIGR03420       155 QLPPLSDEEKIAALQSRA-------ARRGL--QLPDEVADYLLRHG-SRDM--GSLMALLDA  204 (226)
T ss_pred             ECCCCCHHHHHHHHHHHH-------HHCCC--CCCHHHHHHHHHHC-CCCH--HHHHHHHHH
T ss_conf             527999999999999999-------98599--88999999999863-7989--999999999


No 135
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=98.85  E-value=9.4e-07  Score=73.83  Aligned_cols=23  Identities=26%  Similarity=0.501  Sum_probs=8.7

Q ss_pred             EEEEHHHHHCCHHHHHHHHHHHH
Q ss_conf             02202144149899999999840
Q gi|254780877|r  673 VVLFDEIEKAHSDVHNILLQVLD  695 (853)
Q Consensus       673 Vil~DEiEKah~~v~~~llqild  695 (853)
                      |+++||++..+.+-+|.||..|+
T Consensus       122 V~IIDEahmLt~~A~NALLKtLE  144 (560)
T PRK06647        122 VYIIDEVHMLSNSAFNALLKTIE  144 (560)
T ss_pred             EEEECCHHHCCHHHHHHHHHHHH
T ss_conf             99964656559999999999863


No 136
>PRK06674 DNA polymerase III subunits gamma and tau; Validated
Probab=98.83  E-value=1.4e-06  Score=72.45  Aligned_cols=115  Identities=16%  Similarity=0.247  Sum_probs=51.7

Q ss_pred             HHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEE---CCHHHHCCCCCCCCCCCHHHHHHHHHCCC
Q ss_conf             444574378873135421745420245458999999860799769996---36277302666554335888876531246
Q gi|254780877|r  230 ESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFI---DELHVLVGAGKTDGAMDASNLLKPSLARG  306 (853)
Q Consensus       230 ~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfi---de~h~~~gaG~~~g~~Daan~LKP~LarG  306 (853)
                      +.-..++||-+|-.-++.-        +-..++++-+++.+.++ +||   -|.|.|               +-..++|-
T Consensus       115 P~~~~yKV~IIDeah~Lt~--------~A~NALLKtLEEPP~~v-iFILaTtep~ki---------------~~TI~SRC  170 (563)
T PRK06674        115 PSAVEYKVYIIDEVHMLSI--------GAFNALLKTLEEPPGHV-IFILATTEPHKI---------------PPTIISRC  170 (563)
T ss_pred             CCCCCEEEEEEECHHHCCH--------HHHHHHHHHHHCCCCCE-EEEEECCCHHHC---------------CHHHHHHH
T ss_conf             8678737999854563799--------99999999863887564-999965994758---------------47887331


Q ss_pred             ---CEEEEEEECHHHHHHHHHCC-------HHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q ss_conf             ---60489974489999973001-------1132023111115777678999999978986541496101589999986
Q gi|254780877|r  307 ---ELHCIGATTLDEYRKYIEKD-------PALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAV  375 (853)
Q Consensus       307 ---~l~~IgaTT~~Eyrk~iEkD-------~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~  375 (853)
                         +++-|.....-++=+||-..       .||.   -.....+-|.-+++.||--..+ |   .+=+++.+.+....-
T Consensus       171 Qrf~F~ri~~~~i~~rL~~I~~~E~i~~~~~aL~---~Ia~~a~GsmRDAlsiLdQ~~s-~---~~~~i~~~~v~~~lG  242 (563)
T PRK06674        171 QRFDFRRISVNDIVERLSTVVTNEGTQVEDEALQ---IIARAADGGMRDALSLLDQAIS-F---SDERVTTEDVLAVTG  242 (563)
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHCCCCCCHHHHH---HHHHHCCCCHHHHHHHHHHHHH-H---CCCCCCHHHHHHHHC
T ss_conf             0312788999999999999999849998788999---9999769978899999999997-1---599768999999868


No 137
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=98.82  E-value=1.2e-06  Score=72.93  Aligned_cols=199  Identities=17%  Similarity=0.288  Sum_probs=119.1

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCC----CCC-----CCCCCHHHH
Q ss_conf             76745948999999999987410123656651289872678616889999999872377----653-----002244774
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDD----ENS-----MIRIDMSEY  637 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~----~~~-----lir~dMsey  637 (853)
                      -..++||++.+..+.+++...|.       | -.|||.||.|||||.+|+.+|+.|--.    +..     -..-.+-++
T Consensus        20 f~~liGQ~~~~~~l~n~i~~~~~-------~-~aylf~G~rG~GKTt~Ari~ak~lnc~~~~~~~~~~~~c~~c~~c~~i   91 (507)
T PRK06645         20 FAELQGQEVLVKVLSYTILNDRL-------A-GGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEKCTNCISF   91 (507)
T ss_pred             HHHHCCCHHHHHHHHHHHHCCCC-------C-CEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHH
T ss_conf             65623939999999999973996-------6-347745879978899999999996799988889988888887678998


Q ss_pred             CCCCCCCHH-HCCCCHHCCCCCCCCCCHHHHCCC----CCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCC
Q ss_conf             034532013-047711203566774211322156----410220214414989999999984045788799977830331
Q gi|254780877|r  638 MEKHSVSRL-IGSPPGYVGYEEGGALTEAVRRHP----YQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNT  712 (853)
Q Consensus       638 ~e~~~vs~L-iGappGYvG~~~gg~Lte~vr~~P----~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~  712 (853)
                      .+..++.-+ +-| .---|-++=-.|.+.++..|    |-|..+||++.-..+.||.||..|++--           .++
T Consensus        92 ~~~~~~dv~EiDa-as~~gv~~ir~l~~~~~~~p~~~~~kv~iidE~hmls~~a~nallktlEepp-----------~~~  159 (507)
T PRK06645         92 NNHNHPDIIEIDA-ASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPP-----------PHI  159 (507)
T ss_pred             HCCCCCCEEEEEC-CCCCCHHHHHHHHHHCCCCCCCCCEEEEEECCHHHCCHHHHHHHHHHHHCCC-----------CCE
T ss_conf             6589998599637-8888889999998635517876743589952142248999999999742786-----------443


Q ss_pred             EEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECH
Q ss_conf             55954851268764032679999999998628857726668158628899899999999999999999985798999988
Q gi|254780877|r  713 LIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDD  792 (853)
Q Consensus       713 iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~  792 (853)
                      +|||.++-                   . ...++-.+.|. ..+-|++++..++..-+.       .-....  .+.+++
T Consensus       160 ~Fi~atte-------------------~-~kip~ti~src-q~f~~~~i~~~~i~~~l~-------~i~~~E--~~~~~~  209 (507)
T PRK06645        160 IFIFATTE-------------------V-QKIPATIISRC-QRYDLRRLSFEEIFKLLE-------YITKQE--NLKADI  209 (507)
T ss_pred             EEEEECCC-------------------H-HHCCHHHHHHC-EEEEEECCCHHHHHHHHH-------HHHHHC--CCCCCH
T ss_conf             89997485-------------------3-64837888543-278754599799999999-------999976--877778


Q ss_pred             HHHHHHHHCCCCCCCCCHHHHHHHHH
Q ss_conf             99999997089822062157999998
Q gi|254780877|r  793 QVIDWLSCRGYDPSYGARPLKRVIQR  818 (853)
Q Consensus       793 ~~~~~l~~~~~~~~~GaR~l~r~i~~  818 (853)
                      +++..|++.+-   -+.|.--..+++
T Consensus       210 ~al~~ia~~a~---Gs~RDalslldq  232 (507)
T PRK06645        210 EALRIIAYKSE---GSARDAVSILDQ  232 (507)
T ss_pred             HHHHHHHHHCC---CCHHHHHHHHHH
T ss_conf             99999998559---986789999999


No 138
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=98.81  E-value=1.5e-06  Score=72.28  Aligned_cols=192  Identities=19%  Similarity=0.295  Sum_probs=123.0

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCC------CCCCCHHHHCCC
Q ss_conf             76745948999999999987410123656651289872678616889999999872377653------002244774034
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENS------MIRIDMSEYMEK  640 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~------lir~dMsey~e~  640 (853)
                      -+.|+||++++..+.+++...|.       | -.|||.||.|||||.+|+.+|+.|+.....      --.-.+.++.+ 
T Consensus        16 F~dvVGQ~~vv~~L~nai~~~ri-------~-HAyLF~GprGtGKTT~ArilAkaLnC~~~~~~~~pCg~C~~C~~I~~-   86 (462)
T PRK06305         16 FSEILGQDAVVTVLKNALRFNRA-------A-HAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCAICKEISS-   86 (462)
T ss_pred             HHHHCCCHHHHHHHHHHHHCCCC-------C-CEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHC-
T ss_conf             76604909999999999984997-------6-23430389985999999999999679999888898876688899863-


Q ss_pred             CCCCHHHCCCCHHC--------CCCCCCCCCHHHHCCC----CCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEE
Q ss_conf             53201304771120--------3566774211322156----41022021441498999999998404578879997783
Q gi|254780877|r  641 HSVSRLIGSPPGYV--------GYEEGGALTEAVRRHP----YQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVD  708 (853)
Q Consensus       641 ~~vs~LiGappGYv--------G~~~gg~Lte~vr~~P----~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~  708 (853)
                             |+.+-.+        |-|+=-.|.+.++..|    |-|+++||++.-+.+-||.||..|+|=-          
T Consensus        87 -------g~~~DViEiDaAs~~gVddIRel~e~v~~~P~~~~yKVyIIDEvhmLs~~AfNALLKtLEEPP----------  149 (462)
T PRK06305         87 -------GTSLDVIEIDGASHRGIEDIRQINETVLFTPSKSQYKIYIIDEVHMLTKEAFNSLLKTLEEPP----------  149 (462)
T ss_pred             -------CCCCCEEEECCCCCCCHHHHHHHHHHHCCCCCCCCEEEEEEECHHHCCHHHHHHHHHHHHCCC----------
T ss_conf             -------899986864355344668999999771008867750599981521179999999999861898----------


Q ss_pred             CCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEE
Q ss_conf             03315595485126876403267999999999862885772666815862889989999999999999999998579899
Q gi|254780877|r  709 FRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISM  788 (853)
Q Consensus       709 f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l  788 (853)
                       .+++|||.++-        .            ...+|-.+.|.. .+-|++++.+++..-+.       .-+...+  +
T Consensus       150 -~~v~FILaTTe--------~------------~KIp~TIlSRCQ-rf~F~~i~~~~I~~~L~-------~I~~~E~--i  198 (462)
T PRK06305        150 -QHVKFFLATTE--------I------------HKIPGTILSRCQ-KMHLKRIPEETIIDKLA-------LIAQQDG--I  198 (462)
T ss_pred             -CCEEEEEEECC--------H------------HHCCHHHHHHHH-EEECCCCCHHHHHHHHH-------HHHHHCC--C
T ss_conf             -77499998188--------1------------428547876540-23325799999999999-------9999839--9


Q ss_pred             EECHHHHHHHHHCCCCCCCCCHHHHHHHHH
Q ss_conf             998899999997089822062157999998
Q gi|254780877|r  789 DFDDQVIDWLSCRGYDPSYGARPLKRVIQR  818 (853)
Q Consensus       789 ~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~  818 (853)
                      .+++++++.|++.+   .-+.|.--..+++
T Consensus       199 ~~e~~AL~lIA~~a---~GsmRDAlslLDQ  225 (462)
T PRK06305        199 ETSREALLPIARAA---QGSLRDAESLYDY  225 (462)
T ss_pred             CCCHHHHHHHHHHC---CCCHHHHHHHHHH
T ss_conf             85999999999985---8958789999999


No 139
>TIGR01241 FtsH_fam ATP-dependent metallopeptidase HflB; InterPro: IPR005936   Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site . The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases .   Peptidases are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry. Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins.   Families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule.    This group of metallopeptidases belong to MEROPS peptidase family M41 (FtsH endopeptidase family, clan MA(E)). The predicted active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH.    FtsH is a membrane-anchored ATP-dependent protease that degrades misfolded or misassembled membrane proteins as well as a subset of cytoplasmic regulatory proteins. FtsH is a 647-residue protein of 70 kDa, with two putative transmembrane segments towards its N terminus which anchor the protein to the membrane, giving rise to a periplasmic domain of 70 residues and a cytoplasmic segment of 520 residues containing the ATPase and protease domains . ; GO: 0004222 metalloendopeptidase activity, 0030163 protein catabolic process, 0016020 membrane.
Probab=98.80  E-value=1e-07  Score=81.60  Aligned_cols=194  Identities=24%  Similarity=0.445  Sum_probs=131.3

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCCC--------CCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHC
Q ss_conf             767459489999999999874101236566--------512898726786168899999998723776530022447740
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRFRAGLQDPQR--------PMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYM  638 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~--------p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~  638 (853)
                      =+-|-|.|||.+.|..-+-=    |++|+|        |-|+ |++||||+|||-||||+|-+=   .-+|.++--|+| 
T Consensus        58 F~DVAG~dEAKeEl~EiVdF----LK~P~kf~~LGaKIPKGV-LLvGPPGTGKTLLAKAvAGEA---~VPFF~iSGSdF-  128 (505)
T TIGR01241        58 FKDVAGIDEAKEELVEIVDF----LKNPSKFTKLGAKIPKGV-LLVGPPGTGKTLLAKAVAGEA---GVPFFSISGSDF-  128 (505)
T ss_pred             ECCCCCCHHHHHHHHHHHHH----CCCCHHHHHCCCCCCCCE-EEECCCCCCHHHHHHHHHCCC---CCCCEEECCCCE-
T ss_conf             23444532333433313422----269637987278898714-731787842467887520258---896247407610-


Q ss_pred             CCCCCCHHHCCCCHHCCCCCCCCCCH-HHHCCCCCEEEEHHHHH------------CCHHHHHHHHHHHHC--CEEECCC
Q ss_conf             34532013047711203566774211-32215641022021441------------498999999998404--5788799
Q gi|254780877|r  639 EKHSVSRLIGSPPGYVGYEEGGALTE-AVRRHPYQVVLFDEIEK------------AHSDVHNILLQVLDD--GRLTDSQ  703 (853)
Q Consensus       639 e~~~vs~LiGappGYvG~~~gg~Lte-~vr~~P~sVil~DEiEK------------ah~~v~~~llqild~--G~ltd~~  703 (853)
                          |=.++|     ||=.====|-| |=++-| |+|..|||+=            +|-+.=+.|=|+|=|  |. +.+.
T Consensus       129 ----VEMFVG-----VGASRVRDLFeqAK~nAP-CIIFIDEIDAVGr~RGaG~lGGGnDEREQTLNQLLVEMDGF-~~~~  197 (505)
T TIGR01241       129 ----VEMFVG-----VGASRVRDLFEQAKKNAP-CIIFIDEIDAVGRQRGAGELGGGNDEREQTLNQLLVEMDGF-GTNT  197 (505)
T ss_pred             ----EECCCC-----CCCEEHHHHHHHHHHHCC-CEEEEECHHHCCCCCCCCCCCCCCCHHHHHHHHHHEECCCC-CCCC
T ss_conf             ----111205-----640001445799997189-70564010000333564366765413554332331331785-8988


Q ss_pred             CCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             97783033155954851268764032679999999998628857726668158628899899999999999999999985
Q gi|254780877|r  704 GRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKE  783 (853)
Q Consensus       704 G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~  783 (853)
                             +.|||.-||        .+|=...++       .||   +|+|.=|+-+.-+-.--..|+..+.         
T Consensus       198 -------gvIv~AATN--------RPDvLD~AL-------LRP---GRFDRQv~V~~PD~~GR~~IL~VH~---------  243 (505)
T TIGR01241       198 -------GVIVIAATN--------RPDVLDPAL-------LRP---GRFDRQVVVDLPDIKGREEILKVHA---------  243 (505)
T ss_pred             -------CEEEEEECC--------CCCCCCCCC-------CCC---CCCCCEEECCCCCHHHHHHHHHHHH---------
T ss_conf             -------579985048--------841165100-------687---8744513458887467899999985---------


Q ss_pred             CCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHH
Q ss_conf             7989999889999999708982206215799999
Q gi|254780877|r  784 RNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQ  817 (853)
Q Consensus       784 ~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~  817 (853)
                      ++++|. .+--++.|++.  .|.|-.=.|.+.|.
T Consensus       244 ~~~kLa-~~vdL~~~Ar~--TPGfSGADLaNl~N  274 (505)
T TIGR01241       244 KNKKLA-PDVDLKAVARR--TPGFSGADLANLLN  274 (505)
T ss_pred             CCCCCC-CCCCHHHHHHH--CCCCCHHHHHHHHH
T ss_conf             488997-02477999701--56876788999999


No 140
>PRK09862 putative ATP-dependent protease; Provisional
Probab=98.78  E-value=5.3e-07  Score=75.83  Aligned_cols=227  Identities=19%  Similarity=0.248  Sum_probs=121.0

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCC---CCCC
Q ss_conf             6745948999999999987410123656651289872678616889999999872377653002244774034---5320
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEK---HSVS  644 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~---~~vs  644 (853)
                      ..|.||+.|..++    ..+-+|-.       .+|+.||+|+|||.||+.|.-.|=.       ++..|..|-   ||++
T Consensus       191 ~dv~Gq~~akral----eIAAAGgH-------nlLl~GpPG~GKTMlA~rlp~ILPp-------Lt~~e~lEv~~I~Sva  252 (506)
T PRK09862        191 SDVVGQEQGKRGL----EITAAGGH-------NLLLIGPPGTGKTMLASRINGLLPD-------LSNEEALESAAILSLV  252 (506)
T ss_pred             HHHCCCHHHHHHH----HHHHCCCC-------CEEEECCCCCCHHHHHHHHHHCCCC-------CCHHHHHHHHHHHHHH
T ss_conf             6536979999999----99744688-------6598769994598999775123899-------8989999999999871


Q ss_pred             HHH------CCC-----------CHHCCCCCCCCC--CHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCC--
Q ss_conf             130------477-----------112035667742--11322156410220214414989999999984045788799--
Q gi|254780877|r  645 RLI------GSP-----------PGYVGYEEGGAL--TEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQ--  703 (853)
Q Consensus       645 ~Li------Gap-----------pGYvG~~~gg~L--te~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~--  703 (853)
                      .+.      ..+           ++-||   ||.-  -..|-.--+.|++|||+---.++|++.|-|=|++|.++=++  
T Consensus       253 g~~~~~~~~~~rPfR~PHHs~S~~aliG---GG~~~~PGEISLAH~GVLFLDElpEF~r~vLe~LRqPLE~g~I~IsRa~  329 (506)
T PRK09862        253 NAESVQKQWRQRPFRSPHHSASLTAMVG---GGAIPGPGEISLAHNGVLFLDELPEFERRTLDALREPIESGQIHLSRTR  329 (506)
T ss_pred             CCCCCCCCCCCCCEECCCCCCCHHHHHC---CCCCCCCCCEEECCCCEEEECCHHCCCHHHHHHHHHHHCCCEEEEEECC
T ss_conf             8987777546685037887654766637---9999999722213575788455000688899987762247759999668


Q ss_pred             CCEEECCCCEEEECCCH---HHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHH-------------HH
Q ss_conf             97783033155954851---268764032679999999998628857726668158628899899-------------99
Q gi|254780877|r  704 GRTVDFRNTLIIMTSNL---GAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKED-------------MA  767 (853)
Q Consensus       704 G~~v~f~n~iii~TsN~---G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~-------------~~  767 (853)
                      |...--.+-..|+++|-   |-  .......-...-...-...++-.|++|||-.|.-...+...             ++
T Consensus       330 ~~~~~PA~F~LVaAmNPCPCG~--~~~~~~~Ct~~~~~rY~~rlSGPllDRiDl~v~v~~~~~~~l~~~~~~~esS~~ir  407 (506)
T PRK09862        330 AKITYPARFQLVAAMNPSPTGH--YQGNHNRCTPEQTLRYLNRLSGPFLDRFDLSLEIPLPPPGILSKTVVPGESSATVK  407 (506)
T ss_pred             CEEEECCHHHHEHHCCCCCCCC--CCCCCCCCCHHHHHHHHHHCCHHHHHCEEEEEECCCCCHHHHHCCCCCCCCHHHHH
T ss_conf             6798615331111037888888--99997778989999998656622130364799816899666632489898889999


Q ss_pred             HHHHHHHHHHHHHHHHCC---------CEEEECHHHHHHHHHCCCCCCCCCHHHHHHHH
Q ss_conf             999999999999998579---------89999889999999708982206215799999
Q gi|254780877|r  768 KIVRIQLGRVLSLIKERN---------ISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQ  817 (853)
Q Consensus       768 ~i~~~~l~~l~~~l~~~~---------i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~  817 (853)
                      +-+...-+.-.+|....+         -...+++++..++.+..-...+.+|...|++.
T Consensus       408 ~rV~~Ar~~q~~R~~~~Na~l~~~~l~~~~~l~~~~~~~L~~a~~~~~lS~R~~~riLr  466 (506)
T PRK09862        408 QRVMAARERQFKRQNKLNAWLDSPEIRQFCKLESEDARWLEETLIHLGLSIRAWQRLLK  466 (506)
T ss_pred             HHHHHHHHHHHHHCCCCCCCCCHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             99999999999855165657998999765499978999999999965957999999999


No 141
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=98.77  E-value=1.7e-06  Score=71.81  Aligned_cols=125  Identities=22%  Similarity=0.381  Sum_probs=74.6

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCC--C---CCCCHHHHCCCCC
Q ss_conf             6745948999999999987410123656651289872678616889999999872377653--0---0224477403453
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENS--M---IRIDMSEYMEKHS  642 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~--l---ir~dMsey~e~~~  642 (853)
                      ..|+||++++..+.+++...|.        --.|||.||.|||||.+|+.+|+.|.-....  -   ..-.+...     
T Consensus        14 ~evIGQe~iv~~L~nAi~~~Rl--------~HAYLFsGPrGvGKTt~ArifAkaLnC~~~~~~~PCg~C~sC~~i-----   80 (523)
T PRK08451         14 DELIGQESVSKTLSLALDNNRL--------AHAYLFSGLRGSGKTSSARIFSRALVCEQGPSSTPCGTCAQCQAA-----   80 (523)
T ss_pred             HHCCCCHHHHHHHHHHHHCCCC--------CCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHH-----
T ss_conf             4404949999999999985996--------715875789986889999999999759999998988878889998-----


Q ss_pred             CCHHHCCCCHHC--------CCCCCCCCCHHHHCCC----CCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECC
Q ss_conf             201304771120--------3566774211322156----4102202144149899999999840457887999778303
Q gi|254780877|r  643 VSRLIGSPPGYV--------GYEEGGALTEAVRRHP----YQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFR  710 (853)
Q Consensus       643 vs~LiGappGYv--------G~~~gg~Lte~vr~~P----~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~  710 (853)
                         .-|.-|-++        |-++=-.|.+.++..|    |-|+++||.+.-+++-+|.||-.|+|-           -.
T Consensus        81 ---~~g~hpDViEiDaasn~gID~IReLie~~~~~P~~gryKV~IIDEah~Lt~~A~NALLKTLEEP-----------P~  146 (523)
T PRK08451         81 ---LEGRHIDIIEMDAASNRGIDDIRNLIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEP-----------PS  146 (523)
T ss_pred             ---HCCCCCCEEEECCCCCCCHHHHHHHHHHHCCCCCCCCEEEEEEECCCCCCHHHHHHHHHHCCCC-----------CC
T ss_conf             ---6489998551055333689999999997235886797279998260304899999999970389-----------87


Q ss_pred             CCEEEECCC
Q ss_conf             315595485
Q gi|254780877|r  711 NTLIIMTSN  719 (853)
Q Consensus       711 n~iii~TsN  719 (853)
                      +++|||.|+
T Consensus       147 ~vvFILaTT  155 (523)
T PRK08451        147 YVKFILATT  155 (523)
T ss_pred             CCEEEEECC
T ss_conf             837999759


No 142
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=98.76  E-value=6.9e-06  Score=66.78  Aligned_cols=207  Identities=21%  Similarity=0.322  Sum_probs=136.0

Q ss_pred             CCCHHHHHHHHHHHH----CCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEH----------HHH
Q ss_conf             333578999999963----367778668952887407779999999873489984445743788731----------354
Q gi|254780877|r  180 VIGRDDEMRRAIQVL----SRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDM----------GAL  245 (853)
Q Consensus       180 VIGRe~EI~~~~~iL----~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~----------~~l  245 (853)
                      +-+||+|++++..+|    ..-...|.++.|.||+|||+++.-+++.+.+... .  .+  .+.++-          ..+
T Consensus        19 l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~-~--~~--~~yINc~~~~t~~~i~~~i   93 (366)
T COG1474          19 LPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSA-N--VE--VVYINCLELRTPYQVLSKI   93 (366)
T ss_pred             CCCHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHCC-C--CC--EEEEEEEECCCHHHHHHHH
T ss_conf             10348899999999999855899860799889998732899999999973315-6--75--7999513078787999999


Q ss_pred             HC---CCCCCCH-HHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHH-HHCCCCEEEEEEECHHHHH
Q ss_conf             21---7454202-45458999999860799769996362773026665543358888765-3124660489974489999
Q gi|254780877|r  246 IA---GAKFRGE-FEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKP-SLARGELHCIGATTLDEYR  320 (853)
Q Consensus       246 ~a---g~~~rg~-~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP-~LarG~l~~IgaTT~~Eyr  320 (853)
                      ..   .....|- .-+-++.+.+.+....+.+|+.+||+-.|+...+ + .  .-+++.- ..-...+-+||.+....|.
T Consensus        94 ~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~-~-~--LY~L~r~~~~~~~~v~vi~i~n~~~~~  169 (366)
T COG1474          94 LNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDG-E-V--LYSLLRAPGENKVKVSIIAVSNDDKFL  169 (366)
T ss_pred             HHHHCCCCCCCCCHHHHHHHHHHHHHHCCCEEEEEECCHHHHHCCCC-C-H--HHHEECCCCCCCEEEEEEEEECCHHHH
T ss_conf             99826899767632689999999777418759999764765415464-1-4--551112477675379999973548899


Q ss_pred             HHHHCCHHHHHCCCE--EECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf             973001113202311--111577767899999997898654149610158999998633320245767477899999999
Q gi|254780877|r  321 KYIEKDPALARRFQS--LLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEAS  398 (853)
Q Consensus       321 k~iEkD~Al~RRFq~--i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~  398 (853)
                      .++  |+-+..+|.+  |...+=+.++-..||+.-..  +.+-.=.++++++..|+.++.+.-.|   --+|||++..||
T Consensus       170 ~~l--d~rv~s~l~~~~I~F~pY~a~el~~Il~~R~~--~~~~~~~~~~~vl~lia~~~a~~~GD---AR~aidilr~A~  242 (366)
T COG1474         170 DYL--DPRVKSSLGPSEIVFPPYTAEELYDILRERVE--EGFSAGVIDDDVLKLIAALVAAESGD---ARKAIDILRRAG  242 (366)
T ss_pred             HHH--HHHHHHCCCCCEEEECCCCHHHHHHHHHHHHH--HHHCCCCCCHHHHHHHHHHHHHCCCC---HHHHHHHHHHHH
T ss_conf             987--56676506876355289898999999999998--54046874803999999988761864---776089999999


Q ss_pred             HHHH
Q ss_conf             9875
Q gi|254780877|r  399 ARVR  402 (853)
Q Consensus       399 A~~~  402 (853)
                      -.+.
T Consensus       243 eiAe  246 (366)
T COG1474         243 EIAE  246 (366)
T ss_pred             HHHH
T ss_conf             9865


No 143
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=98.76  E-value=1.8e-06  Score=71.49  Aligned_cols=58  Identities=14%  Similarity=0.293  Sum_probs=23.9

Q ss_pred             CEEECC-CCEEEECCCHHHH-HHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHH
Q ss_conf             778303-3155954851268-7640326799999999986288577266681586288998999999999
Q gi|254780877|r  705 RTVDFR-NTLIIMTSNLGAE-YLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRI  772 (853)
Q Consensus       705 ~~v~f~-n~iii~TsN~G~~-~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~  772 (853)
                      +.+.|+ |.|++.|.+.+.. .|.+..  ......+.+.+.|.-       ...+| .+++....+|.+.
T Consensus       511 kii~~~~~~iv~~~~~~~~~~~in~~~--~~~~~~~~i~~~f~k-------~~~vf-AisK~q~~~i~~~  570 (613)
T PRK05896        511 KVLWVSPNAIVLLVEDLGLIERINKVN--ISFEFVKTIFKKFNK-------NKLVI-AISKKQATKITNI  570 (613)
T ss_pred             EEEEECCCEEEEEECCHHHHHHHHHHH--HHHHHHHHHHHHHCC-------EEEEE-EECHHHHHHHHHH
T ss_conf             699964976999835188999988987--512899999999488-------04999-9757887656416


No 144
>TIGR02928 TIGR02928 orc1/cdc6 family replication initiation protein; InterPro: IPR014277   This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. The proteins in this entry are found exclusively in the archaea. Several members may be found in a genome and interact with each other..
Probab=98.76  E-value=5.8e-08  Score=83.67  Aligned_cols=219  Identities=20%  Similarity=0.288  Sum_probs=141.5

Q ss_pred             HHH--HHCCHHHHHHHHHHHHHHHHC-CCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHH------CCCC-CCCCCCCHH
Q ss_conf             776--745948999999999987410-123656651289872678616889999999872------3776-530022447
Q gi|254780877|r  566 ISK--SVIGQSAAVESVSNALRRFRA-GLQDPQRPMGSFMFLGPTGVGKTELVKSLARLL------FDDE-NSMIRIDMS  635 (853)
Q Consensus       566 l~~--~v~gq~~ai~~v~~~~~~~~~-gl~~~~~p~~~flf~GptGvGKTelak~la~~l------f~~~-~~lir~dMs  635 (853)
                      +=+  +++|=|+-|+.++.+++-... |-.    |- ..+.-||||||||-.+|.+.+.|      ++.. =..+.+||.
T Consensus        13 ~Pden~i~hRdeqI~~l~~~L~~~l~PG~~----P~-Ni~iYGkTGtGKT~vt~~v~~~l~~~~~~~d~~D~~~~~~NC~   87 (383)
T TIGR02928        13 VPDENRIVHRDEQIEELAKALRPILRPGSR----PS-NIFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRDVSTVYINCQ   87 (383)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHCCCCC----CC-CEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEECCC
T ss_conf             027424668678999999998875067489----87-2588788898788999999999999862269971589997785


Q ss_pred             HHCCCCCC-----CHH----HCCCCHHCCCCCC---CCCCHHHH-C-CCCCEEEEHHHHHC---CHH---HHHHHHHHHH
Q ss_conf             74034532-----013----0477112035667---74211322-1-56410220214414---989---9999999840
Q gi|254780877|r  636 EYMEKHSV-----SRL----IGSPPGYVGYEEG---GALTEAVR-R-HPYQVVLFDEIEKA---HSD---VHNILLQVLD  695 (853)
Q Consensus       636 ey~e~~~v-----s~L----iGappGYvG~~~g---g~Lte~vr-~-~P~sVil~DEiEKa---h~~---v~~~llqild  695 (853)
                      .+.....+     ..|    .|.-+=+-|+-.-   ..|.+.+. . ...-||.||||++-   +.+   .-.+|+|+.-
T Consensus        88 ~~~T~y~~~~~L~~~ln~~~~~~~vP~tG~s~~~~~~~l~~~l~~~~~~~~~ivLDEiD~Lv~~~~d~PAyS~~LY~L~R  167 (383)
T TIGR02928        88 ILDTSYQVLVELANQLNRRGSGEEVPTTGLSTSEVFRELYKELNRERGDSLIIVLDEIDKLVRKDDDDPAYSKLLYQLSR  167 (383)
T ss_pred             CCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEEECCCCHHHCCCCCCHHHHHHHHHHHH
T ss_conf             46846999999999851577888898877878999999999983201887999862310221588888078788534331


Q ss_pred             CCEEECCCCCEEE-CCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHH
Q ss_conf             4578879997783-033155954851268764032679999999998628857726668158628899899999999999
Q gi|254780877|r  696 DGRLTDSQGRTVD-FRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQL  774 (853)
Q Consensus       696 ~G~ltd~~G~~v~-f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l  774 (853)
                      -..    +| .++ ++=++|-.|.+          -+..+.+.+.++..|.|       +-|.|.|++.++++.|+... 
T Consensus       168 a~~----~~-~~~~~~vgvIgISND----------~~f~~~Ld~RVkSsL~~-------eei~FpPYdA~eL~~IL~~R-  224 (383)
T TIGR02928       168 ARE----NG-DLENAKVGVIGISND----------LKFRENLDPRVKSSLCE-------EEIVFPPYDAEELRDILENR-  224 (383)
T ss_pred             HHH----CC-CCCCCCEEEEEEECC----------CHHHHHCCCCEECCCCC-------CCCEECCCCHHHHHHHHHHH-
T ss_conf             000----35-778853489998657----------14364457530132487-------40040798869999999720-


Q ss_pred             HHHHHHH-HHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHH
Q ss_conf             9999999-8579899998899999997089822062157999998
Q gi|254780877|r  775 GRVLSLI-KERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQR  818 (853)
Q Consensus       775 ~~l~~~l-~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~  818 (853)
                            . ..--..=.++|.|+...+.-+=...--||--=+.++.
T Consensus       225 ------~v~~AF~dGvl~d~VI~lcAA~aAq~hGDAR~AiDLLR~  263 (383)
T TIGR02928       225 ------AVEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRV  263 (383)
T ss_pred             ------HHHHCCCCCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHH
T ss_conf             ------312033688546227999999862067878999999998


No 145
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=98.76  E-value=2.4e-07  Score=78.65  Aligned_cols=199  Identities=23%  Similarity=0.307  Sum_probs=127.4

Q ss_pred             HHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCC--CCCCCHHHHCCCCCC
Q ss_conf             776745948999999999987410123656651289872678616889999999872377653--002244774034532
Q gi|254780877|r  566 ISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENS--MIRIDMSEYMEKHSV  643 (853)
Q Consensus       566 l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~--lir~dMsey~e~~~v  643 (853)
                      +-+++.+-++-++++...+.-...|    .+|. +++..||||+|||-++|-+++.+......  .+.+|+-+|..+..+
T Consensus        15 iP~~l~~Re~ei~~l~~~l~~~~~~----~~p~-n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i   89 (366)
T COG1474          15 IPEELPHREEEINQLASFLAPALRG----ERPS-NIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQV   89 (366)
T ss_pred             CCHHCCCHHHHHHHHHHHHHHHHCC----CCCC-CEEEECCCCCCHHHHHHHHHHHHHHHCCCCCEEEEEEEECCCHHHH
T ss_conf             8220103488999999999998558----9986-0799889998732899999999973315675799951307878799


Q ss_pred             CHHH----CCCCHHCCCCCC---CCCCHHHH-CCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEE
Q ss_conf             0130----477112035667---74211322-156410220214414989999999984045788799977830331559
Q gi|254780877|r  644 SRLI----GSPPGYVGYEEG---GALTEAVR-RHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLII  715 (853)
Q Consensus       644 s~Li----GappGYvG~~~g---g~Lte~vr-~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii  715 (853)
                      ...|    |.+|- -|....   ..|-+.+. +....||.+||++.--..-.++|++++.-..   ..     -...++|
T Consensus        90 ~~~i~~~~~~~p~-~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~---~~-----~~~v~vi  160 (366)
T COG1474          90 LSKILNKLGKVPL-TGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPG---EN-----KVKVSII  160 (366)
T ss_pred             HHHHHHHHCCCCC-CCCCHHHHHHHHHHHHHHCCCEEEEEECCHHHHHCCCCCHHHHEECCCC---CC-----CEEEEEE
T ss_conf             9999998268997-6763268999999977741875999976476541546414551112477---67-----5379999


Q ss_pred             ECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHH
Q ss_conf             54851268764032679999999998628857726668158628899899999999999999999985798999988999
Q gi|254780877|r  716 MTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVI  795 (853)
Q Consensus       716 ~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~  795 (853)
                      +.+|-         ....+.+.+.++..|.|      .+ |+|.|++.+++..|+....+..       -..-.+++.++
T Consensus       161 ~i~n~---------~~~~~~ld~rv~s~l~~------~~-I~F~pY~a~el~~Il~~R~~~~-------~~~~~~~~~vl  217 (366)
T COG1474         161 AVSND---------DKFLDYLDPRVKSSLGP------SE-IVFPPYTAEELYDILRERVEEG-------FSAGVIDDDVL  217 (366)
T ss_pred             EEECC---------HHHHHHHHHHHHHCCCC------CE-EEECCCCHHHHHHHHHHHHHHH-------HCCCCCCHHHH
T ss_conf             97354---------88999875667650687------63-5528989899999999999854-------04687480399


Q ss_pred             HHHHHC
Q ss_conf             999970
Q gi|254780877|r  796 DWLSCR  801 (853)
Q Consensus       796 ~~l~~~  801 (853)
                      ++++..
T Consensus       218 ~lia~~  223 (366)
T COG1474         218 KLIAAL  223 (366)
T ss_pred             HHHHHH
T ss_conf             999998


No 146
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=98.75  E-value=5.7e-07  Score=75.60  Aligned_cols=173  Identities=16%  Similarity=0.186  Sum_probs=113.8

Q ss_pred             CCCHHHHHHHHHHHHCCCCCCCEE-EECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHH
Q ss_conf             333578999999963367778668-9528874077799999998734899844457437887313542174542024545
Q gi|254780877|r  180 VIGRDDEMRRAIQVLSRRTKNNPV-LIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEER  258 (853)
Q Consensus       180 VIGRe~EI~~~~~iL~r~~k~n~~-lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r  258 (853)
                      ++|.....-..+.-......+|++ +.|++|.|||.+.++++..+...       +++++.++...+          ...
T Consensus        18 i~~~N~~~~~~l~~~~~~~~~~~l~i~G~~GsGKTHLl~a~~~~~~~~-------~~~~~yl~~~~~----------~~~   80 (226)
T TIGR03420        18 YAGGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEER-------GKSAIYLPLAEL----------AQA   80 (226)
T ss_pred             CCCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHHCC-------CCCEEEECHHHH----------HHH
T ss_conf             658679999999987646688869998999998899999999998626-------995799529998----------775


Q ss_pred             HHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHC---CCE
Q ss_conf             89999998607997699963627730266655433588887653124660489974489999973001113202---311
Q gi|254780877|r  259 LKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGATTLDEYRKYIEKDPALARR---FQS  335 (853)
Q Consensus       259 ~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RR---Fq~  335 (853)
                      ...+++.++..   -+|+||++|.+.|....+-.  .-+++--...+|.--+|+++++-..-+...+|  |..|   +..
T Consensus        81 ~~~~l~~l~~~---d~l~iDDi~~i~~~~~~e~~--lF~l~N~~~~~~~~ilits~~~p~~l~~~l~d--L~SRl~~~~~  153 (226)
T TIGR03420        81 DPEVLEGLEQA---DLVCLDDVEAIAGQPEWQEA--LFHLYNRVREAGGRLLIAGRAAPAQLPLRLPD--LRTRLAWGLV  153 (226)
T ss_pred             HHHHHHHCCCC---CEEEEECHHHHCCCHHHHHH--HHHHHHHHHHHCCEEEEECCCCHHHCCCCHHH--HHHHHHCCCE
T ss_conf             39999727448---99999663334378378999--99999999865282898678882320320177--9999968856


Q ss_pred             EECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHH
Q ss_conf             111577767899999997898654149610158999998633320
Q gi|254780877|r  336 LLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRY  380 (853)
Q Consensus       336 i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rY  380 (853)
                      +.+++|+.++-..||+...    .-+++.++++++.+.++-..|=
T Consensus       154 ~~I~~pdd~~~~~iL~k~~----~~r~i~i~~~vi~yl~~r~~R~  194 (226)
T TIGR03420       154 FQLPPLSDEEKIAALQSRA----ARRGLQLPDEVADYLLRHGSRD  194 (226)
T ss_pred             EECCCCCHHHHHHHHHHHH----HHCCCCCCHHHHHHHHHHCCCC
T ss_conf             8527999999999999999----9859988999999999863798


No 147
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=98.74  E-value=3.6e-06  Score=69.12  Aligned_cols=194  Identities=15%  Similarity=0.138  Sum_probs=80.4

Q ss_pred             CCCCCCHHHHHHHHHH----CCCCHHHHH-HHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCC
Q ss_conf             9870259998766872----775178899-97599989999999987377887877754676107886443569987298
Q gi|254780877|r  102 GDSFVTAEKFLLAMVM----ETGGIGESL-KKCGLKFSRLEESIKKLRKGRVADSVNAEQGFDALKKYCRDLTEEARNGK  176 (853)
Q Consensus       102 g~~~I~~ehLLlAIl~----e~~s~a~iL-~~~gi~~~~l~e~i~~~~~~~~~~~~~~e~~~~~L~ky~~DLTe~Ar~Gk  176 (853)
                      -++.|+.+|++-+|..    .+-.++++| -.-|+-+..+-..+.+..+-.......+-...+        -+....+|.
T Consensus        15 f~e~vGQ~~v~~~l~nal~~~rl~haylf~G~rGvGKTt~aRi~Ak~lnC~~~~~~~pcg~C~--------~C~~i~~g~   86 (816)
T PRK07003         15 FASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCR--------ACREIDEGR   86 (816)
T ss_pred             HHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCH--------HHHHHHCCC
T ss_conf             766238499999999999709863147511789888889999999986789999989787755--------578775588


Q ss_pred             CCCCCC-------HHHHHHHHHHHHC---CCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCC-----------
Q ss_conf             533333-------5789999999633---6777866895288740777999999987348998444574-----------
Q gi|254780877|r  177 LDPVIG-------RDDEMRRAIQVLS---RRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGK-----------  235 (853)
Q Consensus       177 LDPVIG-------Re~EI~~~~~iL~---r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~-----------  235 (853)
                      .--||-       .-++++.+++-..   -+.+--+.||-|--.=-+.--..|-+-+ +. -|++.+..           
T Consensus        87 ~~d~iEiDaAS~~~vd~~r~l~~~~~y~p~~~r~KvyiiDEvHmls~~afnalLKtl-Ee-pP~hv~FilaTTd~~k~p~  164 (816)
T PRK07003         87 FVDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTL-EE-PPPHVKFILATTDPQKIPV  164 (816)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHCCCCCCCCCEEEEEEECHHHCCHHHHHHHHHHH-CC-CCCCEEEEEECCCHHHCCH
T ss_conf             775478635543576899999986224786674479998415433999999999840-37-9866489995588011528


Q ss_pred             ----EEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCC-CCHHHHHHHHHCCCCEEE
Q ss_conf             ----378873135421745420245458999999860799769996362773026665543-358888765312466048
Q gi|254780877|r  236 ----RLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGA-MDASNLLKPSLARGELHC  310 (853)
Q Consensus       236 ----~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~-~Daan~LKP~LarG~l~~  310 (853)
                          |-..+++..|-     ..+.-++|..|+.    .++  |-|=++.-.++ |-.++|| -||-+||.-+++-|.   
T Consensus       165 tilSRc~~f~l~~~~-----~~~i~~~l~~i~~----~E~--i~~e~~al~li-a~~a~GsmRDalsl~dQaia~~~---  229 (816)
T PRK07003        165 TVLSRCLQFNLKQMP-----AGHIVSHLERILG----EER--IAFEPQALRLL-ARAAQGSMRDALSLTDQAIAYSA---  229 (816)
T ss_pred             HHHHHHHHCCCCCCC-----HHHHHHHHHHHHH----HCC--CCCCHHHHHHH-HHHCCCCHHHHHHHHHHHHHHCC---
T ss_conf             898777652236799-----9999999999999----829--97799999999-99767737888859999998469---


Q ss_pred             EEEECHHHHHH
Q ss_conf             99744899999
Q gi|254780877|r  311 IGATTLDEYRK  321 (853)
Q Consensus       311 IgaTT~~Eyrk  321 (853)
                       |..|.+.-+.
T Consensus       230 -g~~~~~~v~~  239 (816)
T PRK07003        230 -NEVTETAVSG  239 (816)
T ss_pred             -CCCCHHHHHH
T ss_conf             -9737999999


No 148
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=98.73  E-value=1.2e-06  Score=73.13  Aligned_cols=152  Identities=22%  Similarity=0.265  Sum_probs=89.8

Q ss_pred             CCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCH--HH
Q ss_conf             3333578999999963367778668952887407779999999873489984445743788731354217454202--45
Q gi|254780877|r  179 PVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGE--FE  256 (853)
Q Consensus       179 PVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~--~e  256 (853)
                      .++|+++++..+..-+....  +++|.|+||||||.+++.+|+.+...        ...+.+  ..-+..+---|.  |.
T Consensus        25 ~~~g~~~~~~~~l~a~~~~~--~vll~G~PG~gKT~la~~lA~~l~~~--------~~~i~~--t~~l~p~d~~G~~~~~   92 (329)
T COG0714          25 VVVGDEEVIELALLALLAGG--HVLLEGPPGVGKTLLARALARALGLP--------FVRIQC--TPDLLPSDLLGTYAYA   92 (329)
T ss_pred             CCCCCHHHHHHHHHHHHCCC--CEEEECCCCCCHHHHHHHHHHHHCCC--------CEEEEC--CCCCCHHHHCCHHHHH
T ss_conf             55266999999999998599--77877989877799999999983898--------189956--8998888820568887


Q ss_pred             HHHHH--HHHHHHH-CCCC--EEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC--------------CCEEEEEEECHH
Q ss_conf             45899--9999860-7997--699963627730266655433588887653124--------------660489974489
Q gi|254780877|r  257 ERLKS--LLCEIRS-EDGE--IILFIDELHVLVGAGKTDGAMDASNLLKPSLAR--------------GELHCIGATTLD  317 (853)
Q Consensus       257 ~r~~~--i~~~~~~-~~~~--~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar--------------G~l~~IgaTT~~  317 (853)
                      .+.+.  ....... -..+  .|||+|||-..        ..+.-|.|-++|..              -.+.+|++..+.
T Consensus        93 ~~~~~~~~~~~~~gpl~~~~~~ill~DEInra--------~p~~q~aLl~~l~e~~vt~~~~~~~~~~~~f~viaT~Np~  164 (329)
T COG0714          93 ALLLEPGEFRFVPGPLFAAVRVILLLDEINRA--------PPEVQNALLEALEERQVTVPGLTTIRLPPPFIVIATQNPG  164 (329)
T ss_pred             HHHCCCCEEEEECCCCCCCCCEEEEEECCCCC--------CHHHHHHHHHHHHHCEEEECCCCCCCCCCCCEEEEECCCC
T ss_conf             66425771898468733451338998703458--------9889999999997268970796653379987899826867


Q ss_pred             HHHHHHHCCHHHHHCC-CEEECCCCCHHHHHHHH
Q ss_conf             9999730011132023-11111577767899999
Q gi|254780877|r  318 EYRKYIEKDPALARRF-QSLLVGEPTVTDTISIL  350 (853)
Q Consensus       318 Eyrk~iEkD~Al~RRF-q~i~V~Eps~~~t~~iL  350 (853)
                      ||--..+-..|+.+|| =.+.|.-|..++...++
T Consensus       165 e~~g~~~l~eA~ldRf~~~~~v~yp~~~~e~~~i  198 (329)
T COG0714         165 EYEGTYPLPEALLDRFLLRIYVDYPDSEEEERII  198 (329)
T ss_pred             CCCCCCCCCHHHHCCCEEEEECCCCCCHHHHHHH
T ss_conf             6578878998888103887764899738899999


No 149
>KOG0734 consensus
Probab=98.73  E-value=4.3e-07  Score=76.58  Aligned_cols=155  Identities=28%  Similarity=0.479  Sum_probs=103.5

Q ss_pred             CCCCCCCCCHH---HHHHHHHHHH---------CCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEE
Q ss_conf             29853333357---8999999963---------36777866895288740777999999987348998444574378873
Q gi|254780877|r  174 NGKLDPVIGRD---DEMRRAIQVL---------SRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALD  241 (853)
Q Consensus       174 ~GkLDPVIGRe---~EI~~~~~iL---------~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld  241 (853)
                      +-+++-|-|-|   .|++++++-|         ..|--..++|||+||.|||-++...|-   +..||-+.         
T Consensus       300 nv~F~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAG---EA~VPFF~---------  367 (752)
T KOG0734         300 NVTFEDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAG---EAGVPFFY---------  367 (752)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHC---CCCCCEEE---------
T ss_conf             655002147278999999999986090876431475888538768999755699998605---56897474---------


Q ss_pred             HHHHHCCC----CCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHH-HHHHHHH-------CCCCEE
Q ss_conf             13542174----54202454589999998607997699963627730266655433588-8876531-------246604
Q gi|254780877|r  242 MGALIAGA----KFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDAS-NLLKPSL-------ARGELH  309 (853)
Q Consensus       242 ~~~l~ag~----~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daa-n~LKP~L-------arG~l~  309 (853)
                          .||.    .|.|.=..|++.+....++. .++|+|||||..+ |..+....+--+ .-|-..|       -.-.+-
T Consensus       368 ----~sGSEFdEm~VGvGArRVRdLF~aAk~~-APcIIFIDEiDav-G~kR~~~~~~y~kqTlNQLLvEmDGF~qNeGiI  441 (752)
T KOG0734         368 ----ASGSEFDEMFVGVGARRVRDLFAAAKAR-APCIIFIDEIDAV-GGKRNPSDQHYAKQTLNQLLVEMDGFKQNEGII  441 (752)
T ss_pred             ----CCCCCHHHHHHCCCHHHHHHHHHHHHHC-CCEEEEEECHHHH-CCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCEE
T ss_conf             ----1662044542201489999999998734-9859997200220-566786277899989999999842867688669


Q ss_pred             EEEEECHHHHHHHHHCCHHHHH--CCCE-EECCCCCHHHHHHHHH
Q ss_conf             8997448999997300111320--2311-1115777678999999
Q gi|254780877|r  310 CIGATTLDEYRKYIEKDPALAR--RFQS-LLVGEPTVTDTISILR  351 (853)
Q Consensus       310 ~IgaTT~~Eyrk~iEkD~Al~R--RFq~-i~V~Eps~~~t~~iL~  351 (853)
                      +||||-.-|-     =|+||.|  ||.+ |.|.-|++.--.+||.
T Consensus       442 vigATNfpe~-----LD~AL~RPGRFD~~v~Vp~PDv~GR~eIL~  481 (752)
T KOG0734         442 VIGATNFPEA-----LDKALTRPGRFDRHVTVPLPDVRGRTEILK  481 (752)
T ss_pred             EEECCCCHHH-----HHHHHCCCCCCCEEEECCCCCCCCHHHHHH
T ss_conf             9951687455-----568734887553367468977332899999


No 150
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family; InterPro: IPR014252   This entry shows some relation to the widely distributed ATP-dependent protease La, also called Lon or LonA (IPR004815 from INTERPRO), but is more closely related to LonB (IPR014251 from INTERPRO), a LonA paralog found only in endospore-forming bacteria. Proteins in this entry are unassigned peptidases belonging to the MEROPS peptidase family S16 (lon protease family, clan SJ). They are restricted to a subset of endospore-forming species, and probably participate in the program of endospore formation. We propose the designation LonC..
Probab=98.72  E-value=5.5e-07  Score=75.72  Aligned_cols=205  Identities=25%  Similarity=0.394  Sum_probs=137.3

Q ss_pred             HHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCC-CCCHHHCCCEEEEEEHHHHHCCCC
Q ss_conf             8729853333357899999996336777866895288740777999999987348-998444574378873135421745
Q gi|254780877|r  172 ARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIING-DIPESLKGKRLMALDMGALIAGAK  250 (853)
Q Consensus       172 Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~-~vp~~l~~~~i~~ld~~~l~ag~~  250 (853)
                      -|=-.+.-|+|-|.=|+-++-=|+--.=..+||-||||||||+.+. ||.-=++. .-.++-.+...+++|      ||+
T Consensus       149 LRP~~f~EiVGQerAI~aLlaK~aSPfPQHiiLYGPPGVGKTTaAR-l~LEe~K~~~~tPF~~DA~FvEVD------GtT  221 (616)
T TIGR02903       149 LRPRAFSEIVGQERAIKALLAKLASPFPQHIILYGPPGVGKTTAAR-LALEEAKKLKNTPFAEDAPFVEVD------GTT  221 (616)
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHH-HHHHHCCCCCCCCCCCCCCEEEEC------CCC
T ss_conf             2876676433346899999976318886607855733884789999-987621368744761137857515------762


Q ss_pred             CCCHHHHHH----------------------------HHHHHHHHHCCCCEEEEECCHHHH---CC--------CCCC--
Q ss_conf             420245458----------------------------999999860799769996362773---02--------6665--
Q gi|254780877|r  251 FRGEFEERL----------------------------KSLLCEIRSEDGEIILFIDELHVL---VG--------AGKT--  289 (853)
Q Consensus       251 ~rg~~e~r~----------------------------~~i~~~~~~~~~~~ilfide~h~~---~g--------aG~~--  289 (853)
                      .|=|==|=-                            .+|+-+   +.|. |||||||=-|   +.        -.+-  
T Consensus       222 LRWDPREvTNPLLGSVHDPIYQGa~RDLAE~GvPEPk~GLVT~---AHGG-vLFIDEIGELD~lLQnKLLKVLEDKrV~F  297 (616)
T TIGR02903       222 LRWDPREVTNPLLGSVHDPIYQGARRDLAETGVPEPKLGLVTD---AHGG-VLFIDEIGELDPLLQNKLLKVLEDKRVEF  297 (616)
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCCC---CCCC-EEEEECHHHHHHHHHHHHHHHHCCCEEEE
T ss_conf             6677410147767762576556764011047879898987100---4775-67650211222787632444322643665


Q ss_pred             CCC---CCHHHH---HHHHHCCC---CEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             543---358888---76531246---604899744899999730011132023111115777678999999978986541
Q gi|254780877|r  290 DGA---MDASNL---LKPSLARG---ELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQH  360 (853)
Q Consensus       290 ~g~---~Daan~---LKP~LarG---~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~  360 (853)
                      ++|   -|=-|+   +|-.-..|   ++=.|||||-+=    =|=+|||-.|-.-|.-++-|.++-..|.+.-+.+.   
T Consensus       298 ~SsYYDpdD~NvPkYIK~lFe~GAPADFvLIGATTr~P----~eINpALRSRCaEvfFePL~p~dI~~Iv~~AA~kl---  370 (616)
T TIGR02903       298 SSSYYDPDDENVPKYIKKLFEEGAPADFVLIGATTRDP----EEINPALRSRCAEVFFEPLTPEDIKEIVLNAAEKL---  370 (616)
T ss_pred             EECCCCCCCCCCCHHHHHHHCCCCCCCEEEECCCCCCH----HHCCHHHHCCCCEEECCCCCHHHHHHHHHHHHHHC---
T ss_conf             32124875378655888852268882568726615882----44051233014313217988789999999988861---


Q ss_pred             CCCCCCHHHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             49610158999998633320-24576747789999999998754
Q gi|254780877|r  361 HKVRISDSALVSAAVLSNRY-ITDRFLPDKAIDLMDEASARVRM  403 (853)
Q Consensus       361 H~V~i~d~al~~av~ls~rY-i~~r~lPDKAIDllDeA~A~~~i  403 (853)
                       +|...++.=+...    +| |.+|    |||.+|=-+=+.+.-
T Consensus       371 -nv~L~~gV~e~Ia----~YTieGR----kAvnILAD~Yg~~ly  405 (616)
T TIGR02903       371 -NVKLAEGVEELIA----RYTIEGR----KAVNILADVYGYALY  405 (616)
T ss_pred             -CCCCCCCHHHHHH----HCCCCCH----HHHHHHHHHHHHHHH
T ss_conf             -7700036487872----1471311----222346546767653


No 151
>KOG0733 consensus
Probab=98.72  E-value=2.2e-06  Score=70.77  Aligned_cols=215  Identities=24%  Similarity=0.432  Sum_probs=141.2

Q ss_pred             HHHHCCCCH-HHHHHHCCCCHHHHHHHHHHHHCCCCCCCCC--CC---CCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHH
Q ss_conf             687277517-8899975999899999999873778878777--54---67610788644356998729853333357899
Q gi|254780877|r  114 AMVMETGGI-GESLKKCGLKFSRLEESIKKLRKGRVADSVN--AE---QGFDALKKYCRDLTEEARNGKLDPVIGRDDEM  187 (853)
Q Consensus       114 AIl~e~~s~-a~iL~~~gi~~~~l~e~i~~~~~~~~~~~~~--~e---~~~~~L~ky~~DLTe~Ar~GkLDPVIGRe~EI  187 (853)
                      ++....++. .+.+..+.+.++++.+.+..+.+...-....  |.   ...-+|++.-.-|+....    -|+  +-.| 
T Consensus       463 ~i~~~~d~~S~E~~~~L~i~~eDF~~Al~~iQPSakREGF~tVPdVtW~dIGaL~~vR~eL~~aI~----~Pi--K~pd-  535 (802)
T KOG0733         463 AILNNPDPLSKELLEGLSIKFEDFEEALSKIQPSAKREGFATVPDVTWDDIGALEEVRLELNMAIL----API--KRPD-  535 (802)
T ss_pred             HHHHCCCCCCHHHHCCCEECHHHHHHHHHHCCCCHHCCCCEECCCCCHHHCCCHHHHHHHHHHHHH----HHC--CCHH-
T ss_conf             997189986867735661019999999985593020365132699876641249999999999986----002--3888-


Q ss_pred             HHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             99999633677786689528874077799999998734899844457437887313542174542024545899999986
Q gi|254780877|r  188 RRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIR  267 (853)
Q Consensus       188 ~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~  267 (853)
                        +.+-|.=..-..++|-|+||.|||-++...|.-          .+.-.+++--.-|+  -+|.||=|.-++.+..-+.
T Consensus       536 --~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVANE----------ag~NFisVKGPELl--NkYVGESErAVR~vFqRAR  601 (802)
T KOG0733         536 --LFKALGIDAPSGVLLCGPPGCGKTLLAKAVANE----------AGANFISVKGPELL--NKYVGESERAVRQVFQRAR  601 (802)
T ss_pred             --HHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHH----------CCCCEEEECCHHHH--HHHHHHHHHHHHHHHHHHH
T ss_conf             --999828889872387579986188999998503----------04754762388999--8774237899999999862


Q ss_pred             HCCCCEEEEECCHHHHCCCC---CCCCCCCHHHHHHHHH----CCCCEEEEEEECHHHHHHHHHCCHHHHH--CCCEE-E
Q ss_conf             07997699963627730266---6554335888876531----2466048997448999997300111320--23111-1
Q gi|254780877|r  268 SEDGEIILFIDELHVLVGAG---KTDGAMDASNLLKPSL----ARGELHCIGATTLDEYRKYIEKDPALAR--RFQSL-L  337 (853)
Q Consensus       268 ~~~~~~ilfide~h~~~gaG---~~~g~~Daan~LKP~L----arG~l~~IgaTT~~Eyrk~iEkD~Al~R--RFq~i-~  337 (853)
                      ++ .+.|+|+||+..|+.--   .++++.-+-|-|--.|    .|-.+-+||||---.   .|  |+|+-|  ||.++ .
T Consensus       602 ~s-aPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPD---iI--DpAiLRPGRlDk~Ly  675 (802)
T KOG0733         602 AS-APCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPD---II--DPAILRPGRLDKLLY  675 (802)
T ss_pred             CC-CCEEEEECCHHHCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEEEECCCCC---CC--CHHHCCCCCCCCEEE
T ss_conf             38-9838985111202765577775058999999998731621114259995068976---55--565518775574245


Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             157776789999999789
Q gi|254780877|r  338 VGEPTVTDTISILRGLKE  355 (853)
Q Consensus       338 V~Eps~~~t~~iL~gl~~  355 (853)
                      |.-|+.++-..||+.+..
T Consensus       676 V~lPn~~eR~~ILK~~tk  693 (802)
T KOG0733         676 VGLPNAEERVAILKTITK  693 (802)
T ss_pred             ECCCCHHHHHHHHHHHHC
T ss_conf             069987889999999853


No 152
>PRK04132 replication factor C small subunit; Provisional
Probab=98.71  E-value=1.9e-08  Score=87.66  Aligned_cols=54  Identities=30%  Similarity=0.510  Sum_probs=45.4

Q ss_pred             HHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHH
Q ss_conf             998729853333357899999996336777866895288740777999999987
Q gi|254780877|r  170 EEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRI  223 (853)
Q Consensus       170 e~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i  223 (853)
                      ++.|-.+||-++|-|.=+.|+-.-.-+..=.+-+.-||||||||+-.-.||...
T Consensus        17 EKYRPk~LddIVgQehIVkRLK~YVk~~smPHLLFaGPPGvGKt~~al~lar~l   70 (863)
T PRK04132         17 EKYRPQRLDEIVGQDHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALAREL   70 (863)
T ss_pred             HHCCCCCHHHHCCHHHHHHHHHHHHCCCCCCCEEECCCCCCCCHHHHHHHHHHH
T ss_conf             531876165522749999999988623888544304899877144788888876


No 153
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=98.70  E-value=5.2e-06  Score=67.82  Aligned_cols=188  Identities=19%  Similarity=0.217  Sum_probs=94.9

Q ss_pred             HHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCC-HHHCCCEEEEEEHHHHHC---CCCCCC----HH
Q ss_conf             7899999996336777866895288740777999999987348998-444574378873135421---745420----24
Q gi|254780877|r  184 DDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIP-ESLKGKRLMALDMGALIA---GAKFRG----EF  255 (853)
Q Consensus       184 e~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp-~~l~~~~i~~ld~~~l~a---g~~~rg----~~  255 (853)
                      -+|.-..+.-..+.++.-.+++||+|+|||+++..|+..+-...+. ..+.+..+=.-++-..++   |..+.+    ++
T Consensus        28 h~~al~~L~~~l~~~~g~~lltGe~GtGKTtllr~l~~~l~~~~~~~~~i~~~~l~~~~ll~~i~~~lg~~~~~~~~~~~  107 (269)
T TIGR03015        28 HKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKRLDQERVVAAKLVNTRVDAEDLLRMVAADFGLETEGRDKAAL  107 (269)
T ss_pred             HHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHCCCCCCCCCHHHH
T ss_conf             99999999999964896599972998988999999998459345489997699999999999999985989889899999


Q ss_pred             HHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHH----HC-CCCEEEEEEECHHHHHHHHHCC--HH
Q ss_conf             54589999998607997699963627730266655433588887653----12-4660489974489999973001--11
Q gi|254780877|r  256 EERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPS----LA-RGELHCIGATTLDEYRKYIEKD--PA  328 (853)
Q Consensus       256 e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~----La-rG~l~~IgaTT~~Eyrk~iEkD--~A  328 (853)
                      -..+...+.+.......++|.|||.|.+        +.|+-+-|+=.    .. ..-+++|-.-.|+ .+..+...  ..
T Consensus       108 ~~~l~~~L~~~~~~g~~~vliIDEAq~L--------~~~~Le~Lr~L~n~e~~~~~ll~iiL~Gqpe-L~~~L~~~~~~~  178 (269)
T TIGR03015       108 LRELEDFLIEQFAAGKRALLVVDEAQNL--------TPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQ  178 (269)
T ss_pred             HHHHHHHHHHHHHCCCCEEEEEECHHHC--------CHHHHHHHHHHHCCCCCCCCCEEEEEECCHH-HHHHHCCCCHHH
T ss_conf             9999999999996699469997242219--------9999999999970135888704899957867-999872740254


Q ss_pred             HHHC-CCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHH
Q ss_conf             3202-311111577767899999997898654149610158999998633320
Q gi|254780877|r  329 LARR-FQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRY  380 (853)
Q Consensus       329 l~RR-Fq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rY  380 (853)
                      |..| -....+..-|.++|...++.--..=...+..-++++|+......|.=+
T Consensus       179 l~qRI~~~~~L~pl~~eet~~YI~~RL~~AG~~~~~~Ft~~A~~~I~~~S~G~  231 (269)
T TIGR03015       179 LRQRIIASCHLGPLDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGI  231 (269)
T ss_pred             HHHCEEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCC
T ss_conf             55507679984799989999999999986699999985999999999986990


No 154
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=98.70  E-value=5.2e-06  Score=67.78  Aligned_cols=46  Identities=11%  Similarity=0.269  Sum_probs=23.0

Q ss_pred             HHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEE--EEECCHHHH
Q ss_conf             444574378873135421745420245458999999860799769--996362773
Q gi|254780877|r  230 ESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEII--LFIDELHVL  283 (853)
Q Consensus       230 ~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~i--lfide~h~~  283 (853)
                      +.-..++||-+|-.-|++..        -+.++++-+++.+..+|  |.-.|.|.|
T Consensus       114 P~~gkYKVyIIDEvHMLS~~--------AfNALLKtLEEPP~hvvFILaTTep~KI  161 (718)
T PRK07133        114 PQISKYKIYIIDEVHMLSKS--------AFNALLKTLEEPPKHVIFILATTDVQKI  161 (718)
T ss_pred             CCCCCEEEEEEECCCCCCHH--------HHHHHHHHHCCCCCCCEEEEEECCHHHC
T ss_conf             87787249999662007999--------9999998502798782799970882548


No 155
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=98.68  E-value=5.7e-07  Score=75.63  Aligned_cols=199  Identities=24%  Similarity=0.357  Sum_probs=132.7

Q ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCC
Q ss_conf             35547767459489999999999874101236566512898726786168899999998723776530022447740345
Q gi|254780877|r  562 IETEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKH  641 (853)
Q Consensus       562 l~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~  641 (853)
                      +.-+.-+..+||++..+.+.-.|+-++    ..+.++.-.||.||+|.|||.||..+|..|-.   ++ +          
T Consensus        20 lRP~~l~efiGQ~~vk~~L~ifI~AAk----~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgv---n~-k----------   81 (332)
T COG2255          20 LRPKTLDEFIGQEKVKEQLQIFIKAAK----KRGEALDHVLLFGPPGLGKTTLAHIIANELGV---NL-K----------   81 (332)
T ss_pred             CCCCCHHHHCCHHHHHHHHHHHHHHHH----HCCCCCCEEEEECCCCCCHHHHHHHHHHHHCC---CE-E----------
T ss_conf             586548885183999999999999998----44987674786479987688899999998567---73-7----------


Q ss_pred             CCCHHHCCCCHHCC-CCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEEC--CCC---CEEEC--C-CC
Q ss_conf             32013047711203-5667742113221564102202144149899999999840457887--999---77830--3-31
Q gi|254780877|r  642 SVSRLIGSPPGYVG-YEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTD--SQG---RTVDF--R-NT  712 (853)
Q Consensus       642 ~vs~LiGappGYvG-~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd--~~G---~~v~f--~-n~  712 (853)
                           +-|-|---- -|=-+.||+   -.|+.|++.|||...+|.|-.+|+-.|+|-++-=  +.|   |.|..  . =|
T Consensus        82 -----~tsGp~leK~gDlaaiLt~---Le~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFT  153 (332)
T COG2255          82 -----ITSGPALEKPGDLAAILTN---LEEGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFT  153 (332)
T ss_pred             -----ECCCCCCCCHHHHHHHHHC---CCCCCEEEEEHHHHCCHHHHHHHHHHHHHEEEEEEECCCCCCCEEECCCCCEE
T ss_conf             -----6366201572659999863---98677677725531474289896467531057789724875534763799813


Q ss_pred             EEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECH
Q ss_conf             55954851268764032679999999998628857726668158628899899999999999999999985798999988
Q gi|254780877|r  713 LIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDD  792 (853)
Q Consensus       713 iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~  792 (853)
                      +|=.|+-+|.                     ....+..|+.-+.-++-++.+++.+|+.+.-         +-..+++++
T Consensus       154 LIGATTr~G~---------------------lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a---------~~l~i~i~~  203 (332)
T COG2255         154 LIGATTRAGM---------------------LTNPLRDRFGIIQRLEFYTVEELEEIVKRSA---------KILGIEIDE  203 (332)
T ss_pred             EEEECCCCCC---------------------CCCHHHHHCCCEEEEECCCHHHHHHHHHHHH---------HHHCCCCCH
T ss_conf             7510134664---------------------5633688628604540588899999999888---------873877685


Q ss_pred             HHHHHHHHCCC-CCCCCCHHHHHHH
Q ss_conf             99999997089-8220621579999
Q gi|254780877|r  793 QVIDWLSCRGY-DPSYGARPLKRVI  816 (853)
Q Consensus       793 ~~~~~l~~~~~-~~~~GaR~l~r~i  816 (853)
                      ++...|+.++- .|..--|=|||+-
T Consensus       204 ~~a~eIA~rSRGTPRIAnRLLrRVR  228 (332)
T COG2255         204 EAALEIARRSRGTPRIANRLLRRVR  228 (332)
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHH
T ss_conf             7999999863699389999999999


No 156
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=98.67  E-value=2.6e-06  Score=70.20  Aligned_cols=217  Identities=26%  Similarity=0.406  Sum_probs=156.7

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHH
Q ss_conf             67459489999999999874101236566512898726786168899999998723776530022447740345320130
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLI  647 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~Li  647 (853)
                      ..|+|...++..+....++.-    ..+   .+.|..|-||+||--+|+++-..=--...+||++||.-.-|.--=|-|+
T Consensus       245 ~~Iig~S~~m~~~~~~akr~A----~td---stVLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaAiPe~LlESELF  317 (560)
T COG3829         245 DDIIGESPAMLRVLELAKRIA----KTD---STVLILGESGTGKELFARAIHNLSPRANGPFIAINCAAIPETLLESELF  317 (560)
T ss_pred             HHHCCCCHHHHHHHHHHHHHC----CCC---CCEEEECCCCCCHHHHHHHHHHCCCCCCCCEEEEECCCCCHHHHHHHHH
T ss_conf             002058999999999998633----899---8289953788668999999874484347980787643388888888872


Q ss_pred             CCCCHHCCCCCCCCCCHHHHC-CC-------CCEEEEHHHHHCCHHHHHHHHHHHHCCEEE---CCCCCEEECCCCEEEE
Q ss_conf             477112035667742113221-56-------410220214414989999999984045788---7999778303315595
Q gi|254780877|r  648 GSPPGYVGYEEGGALTEAVRR-HP-------YQVVLFDEIEKAHSDVHNILLQVLDDGRLT---DSQGRTVDFRNTLIIM  716 (853)
Q Consensus       648 GappGYvG~~~gg~Lte~vr~-~P-------~sVil~DEiEKah~~v~~~llqild~G~lt---d~~G~~v~f~n~iii~  716 (853)
                      |       |+ .|.-|.|.+. +|       ..-++||||--.....+--||.+|.|+.+-   +.....||.|   ||.
T Consensus       318 G-------ye-~GAFTGA~~~GK~GlfE~A~gGTLFLDEIgempl~LQaKLLRVLQEkei~rvG~t~~~~vDVR---IIA  386 (560)
T COG3829         318 G-------YE-KGAFTGASKGGKPGLFELANGGTLFLDEIGEMPLPLQAKLLRVLQEKEIERVGGTKPIPVDVR---IIA  386 (560)
T ss_pred             C-------CC-CCCCCCCCCCCCCCCEEECCCCEEEEHHHCCCCHHHHHHHHHHHHHCEEEECCCCCCEEEEEE---EEE
T ss_conf             7-------67-764246445799760544169837712320399899999999875353785378875356789---994


Q ss_pred             CCCHHHHHHHCCHHHHHHHHHHHH-HHHCCHHHHCCCCCEEEC-CCCC--HHHHHHHHHHHHHHHHHHHHHCCCEEE-EC
Q ss_conf             485126876403267999999999-862885772666815862-8899--899999999999999999985798999-98
Q gi|254780877|r  717 TSNLGAEYLIEDGDSVHDKVMGIV-RSAFKPEFLNRLDEIILF-EKLR--KEDMAKIVRIQLGRVLSLIKERNISMD-FD  791 (853)
Q Consensus       717 TsN~G~~~~~~~~~~~~~~~~~~l-~~~f~peflnRid~iv~F-~~l~--~~~~~~i~~~~l~~l~~~l~~~~i~l~-~~  791 (853)
                      ++|-              ...+.+ .+.||-++.=|++-+-++ -||-  ++|+..++...++++.+++   +-.+. ++
T Consensus       387 ATN~--------------nL~~~i~~G~FReDLYYRLNV~~i~iPPLReR~eDI~~L~~~Fl~k~s~~~---~~~v~~ls  449 (560)
T COG3829         387 ATNR--------------NLEKMIAEGTFREDLYYRLNVIPITIPPLRERKEDIPLLAEYFLDKFSRRY---GRNVKGLS  449 (560)
T ss_pred             CCCC--------------CHHHHHHCCCCHHHHEEEECEEEECCCCCCCCCCHHHHHHHHHHHHHHHHC---CCCCCCCC
T ss_conf             2575--------------899998639616553003040111477723382018999999999999872---88766689


Q ss_pred             HHHHHHHHHCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             899999997089822062157999998733
Q gi|254780877|r  792 DQVIDWLSCRGYDPSYGARPLKRVIQRYIQ  821 (853)
Q Consensus       792 ~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~  821 (853)
                      +++...|..  |+---..|.|...|++.+.
T Consensus       450 ~~a~~~L~~--y~WPGNVRELeNviER~v~  477 (560)
T COG3829         450 PDALALLLR--YDWPGNVRELENVIERAVN  477 (560)
T ss_pred             HHHHHHHHH--CCCCCHHHHHHHHHHHHHH
T ss_conf             999999986--8999609999999999981


No 157
>PRK08853 DNA polymerase III subunits gamma and tau; Validated
Probab=98.67  E-value=2e-06  Score=71.16  Aligned_cols=195  Identities=17%  Similarity=0.136  Sum_probs=82.3

Q ss_pred             CCCCCCHHHHHHHHHH----CCCCHHHHH-HHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCH---H-HHHHHHHHHH-
Q ss_conf             9870259998766872----775178899-9759998999999998737788787775467610---7-8864435699-
Q gi|254780877|r  102 GDSFVTAEKFLLAMVM----ETGGIGESL-KKCGLKFSRLEESIKKLRKGRVADSVNAEQGFDA---L-KKYCRDLTEE-  171 (853)
Q Consensus       102 g~~~I~~ehLLlAIl~----e~~s~a~iL-~~~gi~~~~l~e~i~~~~~~~~~~~~~~e~~~~~---L-~ky~~DLTe~-  171 (853)
                      -.+.|+.+|++-++..    .+-.++++| -.-|+-+..+-..+.+..+-.......+-.....   + +--..|+.+. 
T Consensus        15 f~e~vGQ~~v~~~L~nal~~~rl~haylf~G~rGvGKTt~ARi~Ak~lNC~~~~~~~pcg~C~~C~~i~~g~~~d~~EiD   94 (717)
T PRK08853         15 FKEVVGQSHVLTALENALAHNRLHHAYLFSGTRGVGKTTIGRLFAKGLNCETGITSTPCGQCATCKEIDEGRFVDLLEID   94 (717)
T ss_pred             HHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHCCCCCCEEEEC
T ss_conf             65513859999999999970997405761088988898999999998678999999978887026767447877524540


Q ss_pred             -HHCCCCCCCCCHHHHHHHHHHH---HCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCC------------
Q ss_conf             -8729853333357899999996---336777866895288740777999999987348998444574------------
Q gi|254780877|r  172 -ARNGKLDPVIGRDDEMRRAIQV---LSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGK------------  235 (853)
Q Consensus       172 -Ar~GkLDPVIGRe~EI~~~~~i---L~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~------------  235 (853)
                       |-..+       -+++|.+++-   .--+.|--+.+|-|--.=-++--..|-+-+-+  -|+..+..            
T Consensus        95 aAs~~~-------vdd~rel~~~~~y~p~~~~yKvyiiDEvHmls~~afnAlLKtlEE--PP~hv~FilaTT~~~kip~T  165 (717)
T PRK08853         95 AASRTK-------VEDTRELLDNVQYKPARGRFKVYLIDEVHMLSRHSFNALLKTLEE--PPEYVKFLLATTDPQKLPVT  165 (717)
T ss_pred             CCCCCC-------HHHHHHHHHHCCCCCCCCCEEEEEEECHHHCCHHHHHHHHHHHCC--CCCCEEEEEECCCHHHCCHH
T ss_conf             565678-------899999998555488778547999830544389999999876037--87564899843873437388


Q ss_pred             ---EEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCC-CCHHHHHHHHHCCCCEEEE
Q ss_conf             ---378873135421745420245458999999860799769996362773026665543-3588887653124660489
Q gi|254780877|r  236 ---RLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGA-MDASNLLKPSLARGELHCI  311 (853)
Q Consensus       236 ---~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~-~Daan~LKP~LarG~l~~I  311 (853)
                         |-..+++..|-     ..+.-++|..|+    ..++  |=|=++.-.++ |..++|| -||-.+|.-+++-|.    
T Consensus       166 ilSRc~~f~l~~~~-----~~~i~~~l~~i~----~~E~--i~~~~~al~~i-a~~a~Gs~Rdalsl~dqaia~~~----  229 (717)
T PRK08853        166 ILSRCLQFHLKPIS-----VDQIHQQLDFVL----DKEQ--VSAEARALGLI-AHAADGSMRDALSLTDQAIALGN----  229 (717)
T ss_pred             HHHHHHHCCCCCCC-----HHHHHHHHHHHH----HHCC--CCCCHHHHHHH-HHHCCCCHHHHHHHHHHHHHHCC----
T ss_conf             98765442326899-----999999999999----9759--87699999999-99768837788889999999658----


Q ss_pred             EEECHHHHHH
Q ss_conf             9744899999
Q gi|254780877|r  312 GATTLDEYRK  321 (853)
Q Consensus       312 gaTT~~Eyrk  321 (853)
                      |..|.+.-+.
T Consensus       230 g~~~~~~v~~  239 (717)
T PRK08853        230 GQVTTDIVSH  239 (717)
T ss_pred             CCCCHHHHHH
T ss_conf             9716999999


No 158
>KOG0727 consensus
Probab=98.67  E-value=6.9e-07  Score=74.93  Aligned_cols=141  Identities=30%  Similarity=0.568  Sum_probs=91.5

Q ss_pred             HCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHH
Q ss_conf             10123656651289872678616889999999872377653002244774034532013047711203566774211322
Q gi|254780877|r  588 RAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVR  667 (853)
Q Consensus       588 ~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr  667 (853)
                      ..|+..   |.|++|| ||+|.|||.|||++|..-   .-++||...|||     |.+-+|-.|-.|--     .-.--|
T Consensus       183 qigidp---prgvlly-gppg~gktml~kava~~t---~a~firvvgsef-----vqkylgegprmvrd-----vfrlak  245 (408)
T KOG0727         183 QIGIDP---PRGVLLY-GPPGTGKTMLAKAVANHT---TAAFIRVVGSEF-----VQKYLGEGPRMVRD-----VFRLAK  245 (408)
T ss_pred             HHCCCC---CCCEEEE-CCCCCCHHHHHHHHHHCC---CHHEEEECCHHH-----HHHHHCCCCHHHHH-----HHHHHH
T ss_conf             708899---8622775-799975789999986126---111446301899-----99985548389999-----999876


Q ss_pred             CCCCCEEEEHHHHH-----------CCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHH
Q ss_conf             15641022021441-----------4989999999984045788799977830331559548512687640326799999
Q gi|254780877|r  668 RHPYQVVLFDEIEK-----------AHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKV  736 (853)
Q Consensus       668 ~~P~sVil~DEiEK-----------ah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~  736 (853)
                      .+.-|+|+.|||+-           |..+|+.+|+.+|..   -|+....   .|.-+||.+|-        .+....+ 
T Consensus       246 enapsiifideidaiatkrfdaqtgadrevqril~ellnq---mdgfdq~---~nvkvimatnr--------adtldpa-  310 (408)
T KOG0727         246 ENAPSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQ---MDGFDQT---TNVKVIMATNR--------ADTLDPA-  310 (408)
T ss_pred             CCCCCEEEEEHHHHHHHHHCCCCCCCCHHHHHHHHHHHHH---CCCCCCC---CCEEEEEECCC--------CCCCCHH-
T ss_conf             1698379862245676641244446318999999999975---1476766---65589983275--------5566876-


Q ss_pred             HHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHH
Q ss_conf             9999862885772666815862889989999999
Q gi|254780877|r  737 MGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIV  770 (853)
Q Consensus       737 ~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~  770 (853)
                            .++|   +|+|.-|-|- |...--++++
T Consensus       311 ------llrp---grldrkiefp-lpdrrqkrlv  334 (408)
T KOG0727         311 ------LLRP---GRLDRKIEFP-LPDRRQKRLV  334 (408)
T ss_pred             ------HCCC---CCCCCCCCCC-CCCHHHHHHH
T ss_conf             ------6287---6434443577-9854665222


No 159
>TIGR01817 nifA Nif-specific regulatory protein; InterPro: IPR010113   This entry represents NifA, a DNA-binding regulatory protein for nitrogen fixation. Not included in this group are: the homologue in Aquifex aeolicus (which lacks nitrogenase), transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.   In diazotrophic proteobacteria, the sigma54-dependent activator NifA activates transcription of the nif (nitrogen fixation) genes by a conserved mechanism common to members of the enhancer binding protein family. Although NifA proteins have similar domain structures, both transcriptional regulation of nifA expression and posttranslational regulation of NifA activity by oxygen and fixed nitrogen vary significantly from one organism to another. In Klebsiella pneumoniae and Azotobacter vinelandii, nifA is co-ordinately transcribed with a second gene, nifL, whose product inhibits NifA activity in response to oxygen and fixed nitrogen .; GO: 0003677 DNA binding, 0016563 transcription activator activity, 0009399 nitrogen fixation.
Probab=98.66  E-value=1.2e-06  Score=72.92  Aligned_cols=215  Identities=22%  Similarity=0.398  Sum_probs=161.1

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHH
Q ss_conf             76745948999999999987410123656651289872678616889999999872377653002244774034532013
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRL  646 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~L  646 (853)
                      ..-|||.-.|+..|.+.++..    ...|   .+.|+-|=||+||=-.||++=+.===-.+.||++||.-..|.===|=|
T Consensus       211 ~~~i~G~Spam~~v~~~~~~v----A~~n---STVLlRGESGTGKEl~A~AIH~~SpR~~~PFVK~NCAALse~lLESEL  283 (574)
T TIGR01817       211 EDGIVGKSPAMRQVVDQIKVV----ARSN---STVLLRGESGTGKELIAKAIHELSPRAKRPFVKLNCAALSETLLESEL  283 (574)
T ss_pred             CCCCCCCCHHHHHHHHHHHHH----CCCC---CEEEEECCCCCCHHHHHHHHCCCCCCCCCCCEEEECCCCCCCHHHHHH
T ss_conf             474012478999999886520----1317---667850565744334442340466455788545006447761124545


Q ss_pred             HCCCCHHCCCCCCCCCCHHHHCCC-------CCEEEEHHHHHCCHHHHHHHHHHHHCCEEEC-C--CCCEEECCCCEEEE
Q ss_conf             047711203566774211322156-------4102202144149899999999840457887-9--99778303315595
Q gi|254780877|r  647 IGSPPGYVGYEEGGALTEAVRRHP-------YQVVLFDEIEKAHSDVHNILLQVLDDGRLTD-S--QGRTVDFRNTLIIM  716 (853)
Q Consensus       647 iGappGYvG~~~gg~Lte~vr~~P-------~sVil~DEiEKah~~v~~~llqild~G~ltd-~--~G~~v~f~n~iii~  716 (853)
                      +|       |++ |--|.||.++-       -.=++||||==-.|..+--||-||.||-+-= |  +--+||=|   ||+
T Consensus       284 FG-------HEK-GAFTGA~~~RkGRFElAdGGTLFLDEIGEISPaFQAKLLRVLQEGEFERVGG~~TlKVdVR---lva  352 (574)
T TIGR01817       284 FG-------HEK-GAFTGAVAQRKGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVR---LVA  352 (574)
T ss_pred             HC-------CCC-HHHHHHHHHCCCCEEECCCCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEECCCEEEEEEEE---EEE
T ss_conf             13-------430-1468887517775330278832000014678568889988752100253278724887367---886


Q ss_pred             CCCHHHHHHHCCHHHHHHHHHHHH-HHHCCHHHHCCCCCEEE--CCCCC--HHHHHHHHHHHHHHHHHHHHHCCCE-EEE
Q ss_conf             485126876403267999999999-86288577266681586--28899--8999999999999999999857989-999
Q gi|254780877|r  717 TSNLGAEYLIEDGDSVHDKVMGIV-RSAFKPEFLNRLDEIIL--FEKLR--KEDMAKIVRIQLGRVLSLIKERNIS-MDF  790 (853)
Q Consensus       717 TsN~G~~~~~~~~~~~~~~~~~~l-~~~f~peflnRid~iv~--F~~l~--~~~~~~i~~~~l~~l~~~l~~~~i~-l~~  790 (853)
                      =||              ..+.+++ +..||-+|.=||. ||+  .-||-  ..|+-.+++..|++++.   +++-. |.+
T Consensus       353 ATN--------------rdLE~aV~~GeFRaDLYYRin-VvPl~lPPLRER~~DIP~LA~~fL~kf~~---en~R~mL~~  414 (574)
T TIGR01817       353 ATN--------------RDLEEAVAKGEFRADLYYRIN-VVPLILPPLRERREDIPLLAEAFLEKFNR---ENGRPMLTL  414 (574)
T ss_pred             CCC--------------CCHHHHHHCCCCCCHHHHHHH-HHHHHCCCCCCCCCHHHHHHHHHHHHHHH---HHCCCEEEE
T ss_conf             137--------------355889727897302355442-22340787778731168999999998766---518720322


Q ss_pred             CHHHHHHHHHCCCCCCCCCHHHHHHHHHH
Q ss_conf             88999999970898220621579999987
Q gi|254780877|r  791 DDQVIDWLSCRGYDPSYGARPLKRVIQRY  819 (853)
Q Consensus       791 ~~~~~~~l~~~~~~~~~GaR~l~r~i~~~  819 (853)
                      +++|++.|.. ||=|.. .|.|..=|++.
T Consensus       415 ~~~Ai~~Lm~-c~wPGN-VRELENC~eRt  441 (574)
T TIGR01817       415 SPSAIRVLMS-CKWPGN-VRELENCVERT  441 (574)
T ss_pred             CHHHHHHHHC-CCCCCC-CEEHHHHHHHH
T ss_conf             6789989751-789997-40044378778


No 160
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=98.66  E-value=6.5e-06  Score=67.03  Aligned_cols=173  Identities=20%  Similarity=0.380  Sum_probs=108.6

Q ss_pred             CCCHHHHHHH--HHHHHCCCCC-CCEE-EECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHC----CCCC
Q ss_conf             3335789999--9996336777-8668-95288740777999999987348998444574378873135421----7454
Q gi|254780877|r  180 VIGRDDEMRR--AIQVLSRRTK-NNPV-LIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIA----GAKF  251 (853)
Q Consensus       180 VIGRe~EI~~--~~~iL~r~~k-~n~~-lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~a----g~~~  251 (853)
                      |+|...+.--  ...|-....+ -||+ +-|.+|+|||.+.++++..+.+.. |    +++|+.+....++.    ..+ 
T Consensus       122 VvG~sN~lA~aAA~~Va~~pg~~yNPLfIyG~~GlGKTHLl~AIgn~~~~~~-p----~~~v~Y~tae~F~~~~v~al~-  195 (447)
T PRK00149        122 VVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKN-P----NAKVVYVSSEKFTNDFVKALR-  195 (447)
T ss_pred             EECCCCHHHHHHHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHC-C----CCEEEEEEHHHHHHHHHHHHH-
T ss_conf             2269859999999999837676778558977998878899999999999858-9----972899549999999999985-


Q ss_pred             CCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEE-ECHHHHHHHHHCCHHHH
Q ss_conf             20245458999999860799769996362773026665543358888765312466048997-44899999730011132
Q gi|254780877|r  252 RGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGA-TTLDEYRKYIEKDPALA  330 (853)
Q Consensus       252 rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~Iga-TT~~Eyrk~iEkD~Al~  330 (853)
                       .   ..+...-+.....   -+|.||+||-+-|-.++  ..-.-+++.-....|.-=++.+ ..|.|... +  |.-|.
T Consensus       196 -~---~~~~~Fr~~yr~~---DvLliDDiqfl~gk~~t--qeeff~~fn~l~~~~kqiv~tsd~~P~~l~~-l--~~rL~  263 (447)
T PRK00149        196 -N---NAMEEFKEKYRSV---DVLLIDDIQFLAGKEKT--QEEFFHTFNALHENNKQIVITSDRPPKELEG-L--EDRLR  263 (447)
T ss_pred             -C---CCHHHHHHHHHCC---CEEEECHHHHHHCCHHH--HHHHHHHHHHHHHCCCEEEEECCCCHHHCCC-C--CHHHH
T ss_conf             -1---8699999999728---85432148886055779--9999999999998499689957889676565-1--17788


Q ss_pred             HCCC---EEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q ss_conf             0231---1111577767899999997898654149610158999998
Q gi|254780877|r  331 RRFQ---SLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAA  374 (853)
Q Consensus       331 RRFq---~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av  374 (853)
                      .||+   .+.+++|+.+.-+.||+.....    +++.++++++++.+
T Consensus       264 SRf~~Gl~~~i~~Pd~e~r~~Il~~k~~~----~~~~l~~~v~~~iA  306 (447)
T PRK00149        264 SRFEWGLTVDIEPPDLETRVAILQKKAEE----EGINLPNEVLEFIA  306 (447)
T ss_pred             HHHHCCEEEECCCCCHHHHHHHHHHHHHH----CCCCCCHHHHHHHH
T ss_conf             67637626510599999999999999997----28999989999999


No 161
>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]
Probab=98.65  E-value=1.9e-07  Score=79.54  Aligned_cols=200  Identities=24%  Similarity=0.308  Sum_probs=125.7

Q ss_pred             HHHHHCCCCCCCCCHHHHHHHHHHHHCCCCC-CCEEEECCCCCCHHHHHHHHHHHHHCCC--CCHHHCCC----------
Q ss_conf             6998729853333357899999996336777-8668952887407779999999873489--98444574----------
Q gi|254780877|r  169 TEEARNGKLDPVIGRDDEMRRAIQVLSRRTK-NNPVLIGDPGVGKTAIIEGLASRIINGD--IPESLKGK----------  235 (853)
Q Consensus       169 Te~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k-~n~~lvGe~GvGKtaive~la~~i~~~~--vp~~l~~~----------  235 (853)
                      -.+.|--.++-|+|-+.=+..+...+...+- +--++-|+-|||||++..-+|.-+.-.+  ..+..-.|          
T Consensus         7 ~rKyRP~~F~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I~~g~   86 (515)
T COG2812           7 ARKYRPKTFDDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEINEGS   86 (515)
T ss_pred             HHHHCCCCHHHHCCCHHHHHHHHHHHHHCCCHHHHHHCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHCCC
T ss_conf             98858300777636489999999999808423336513777767104999999995688987777225316668651488


Q ss_pred             --EEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCC---CCEEEEECCHHHHCCCCCCCCCCCHHH-HHHHHHCC--CC
Q ss_conf             --37887313542174542024545899999986079---976999636277302666554335888-87653124--66
Q gi|254780877|r  236 --RLMALDMGALIAGAKFRGEFEERLKSLLCEIRSED---GEIILFIDELHVLVGAGKTDGAMDASN-LLKPSLAR--GE  307 (853)
Q Consensus       236 --~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~---~~~ilfide~h~~~gaG~~~g~~Daan-~LKP~Lar--G~  307 (853)
                        -|+++|.++=      +|=  +-++.|++.+.-++   ..-|..|||+||+-        --|-| +|| .|..  --
T Consensus        87 ~~DviEiDaASn------~gV--ddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS--------~~afNALLK-TLEEPP~h  149 (515)
T COG2812          87 LIDVIEIDAASN------TGV--DDIREIIEKVNYAPSEGRYKVYIIDEVHMLS--------KQAFNALLK-TLEEPPSH  149 (515)
T ss_pred             CCCCHHHHHHHC------CCH--HHHHHHHHHHCCCCCCCCCEEEEEECHHHHH--------HHHHHHHHC-CCCCCCCC
T ss_conf             641011364445------486--7999999872468866664189983187643--------788888751-11368667


Q ss_pred             EEEEEEECHHHHHHHHHCCHH-HHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCC
Q ss_conf             048997448999997300111-3202311111577767899999997898654149610158999998633320245767
Q gi|254780877|r  308 LHCIGATTLDEYRKYIEKDPA-LARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFL  386 (853)
Q Consensus       308 l~~IgaTT~~Eyrk~iEkD~A-l~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~l  386 (853)
                      +.+|=|||.  .+|    =|. .-.|-|.-...--+.++-..-|..+..    --++.+.++||....+.|+-=+.|   
T Consensus       150 V~FIlATTe--~~K----ip~TIlSRcq~f~fkri~~~~I~~~L~~i~~----~E~I~~e~~aL~~ia~~a~Gs~RD---  216 (515)
T COG2812         150 VKFILATTE--PQK----IPNTILSRCQRFDFKRLDLEEIAKHLAAILD----KEGINIEEDALSLIARAAEGSLRD---  216 (515)
T ss_pred             EEEEEECCC--CCC----CCHHHHHCCCCCCCCCCCHHHHHHHHHHHHH----HCCCCCCHHHHHHHHHHCCCCHHH---
T ss_conf             489985388--676----8404552122022257999999999999987----448754799999999982897456---


Q ss_pred             HHHHHHHHHHHHHHH
Q ss_conf             477899999999987
Q gi|254780877|r  387 PDKAIDLMDEASARV  401 (853)
Q Consensus       387 PDKAIDllDeA~A~~  401 (853)
                         |..|||.|-+.-
T Consensus       217 ---alslLDq~i~~~  228 (515)
T COG2812         217 ---ALSLLDQAIAFG  228 (515)
T ss_pred             ---HHHHHHHHHHCC
T ss_conf             ---777899999706


No 162
>PRK05642 DNA replication initiation factor; Validated
Probab=98.65  E-value=4.8e-06  Score=68.11  Aligned_cols=157  Identities=18%  Similarity=0.402  Sum_probs=81.2

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHH
Q ss_conf             89872678616889999999872377653002244774034532013047711203566774211322156410220214
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEI  679 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEi  679 (853)
                      .+.+.||+|+|||.|..+++...-......+.++|+++.+..         |...         +.+  ..+.++++|.|
T Consensus        47 ~l~i~G~~G~GKTHLL~A~~~~~~~~~~~~~yl~~~~~~~~~---------~~~~---------~~l--~~~d~l~IDDi  106 (234)
T PRK05642         47 LIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLAELLDRG---------PELL---------DNL--EQYELVCIDDL  106 (234)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEHHHHHHHH---------HHHH---------HHH--HHCCEEEEECH
T ss_conf             389988999988999999999998079967997899987544---------9998---------624--22798989364


Q ss_pred             HHC--CHH----HHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCC
Q ss_conf             414--989----99999998404578879997783033155954851268764032679999999998628857726668
Q gi|254780877|r  680 EKA--HSD----VHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLD  753 (853)
Q Consensus       680 EKa--h~~----v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid  753 (853)
                      +.-  .++    +|++|=++.+.|              +-+++||+.....+.                ..-|.+..|+-
T Consensus       107 ~~i~g~~~~e~~lF~l~N~~~~~~--------------~~llits~~~P~~l~----------------~~l~DL~SRl~  156 (234)
T PRK05642        107 DVIAGKADWEEALFHLFNRLRDSG--------------RRLLLAASKSPRELP----------------VKLPDLKSRLT  156 (234)
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHCC--------------CEEEEECCCCHHHHC----------------CCHHHHHHHHH
T ss_conf             554688599999999999999839--------------959995787955523----------------00167999995


Q ss_pred             --CEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHH
Q ss_conf             --15862889989999999999999999998579899998899999997089822062157999998
Q gi|254780877|r  754 --EIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQR  818 (853)
Q Consensus       754 --~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~  818 (853)
                        -++.-.|++.++...|+..       +...+|+  .+++++.+||+++. +..+  |.|..++.+
T Consensus       157 ~~~~~~i~~l~d~~~~~iL~~-------~a~~rgi--~l~~~v~~yl~~r~-~R~~--~~L~~~l~~  211 (234)
T PRK05642        157 LALVFQMRGLSDEDKLRALQL-------RASRRGL--HLTDEVGHFILTRG-TRSM--SALFDLLER  211 (234)
T ss_pred             CCCEEEECCCCHHHHHHHHHH-------HHHHCCC--CCCHHHHHHHHHHC-CCCH--HHHHHHHHH
T ss_conf             781275148998999999999-------9775468--99989999999973-5889--999999999


No 163
>KOG0736 consensus
Probab=98.64  E-value=1.4e-06  Score=72.45  Aligned_cols=221  Identities=22%  Similarity=0.380  Sum_probs=114.3

Q ss_pred             CCCCCCHHCCCHHHHHHHHHHH-------HCCCHHHHHHCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH-------H
Q ss_conf             2677200016866789998766-------1786677510000000123554776745948999999999987-------4
Q gi|254780877|r  522 TAEDMVQEVVTSDNIANIVSRW-------TGIPVDKMLESDREKFLRIETEISKSVIGQSAAVESVSNALRR-------F  587 (853)
Q Consensus       522 ~~~~~~~~~V~~~dVa~vvS~~-------TGIPv~kl~~~E~ekLl~l~~~l~~~v~gq~~ai~~v~~~~~~-------~  587 (853)
                      .+.-+....++++|+..-.+++       -|-|          |+   -+---.-|=|-+++-..|.+.|++       -
T Consensus       632 ~~~~~~~~~l~~edf~kals~~~~~fs~aiGAP----------KI---PnV~WdDVGGLeevK~eIldTIqlPL~hpeLf  698 (953)
T KOG0736         632 GELCAAGFLLTEEDFDKALSRLQKEFSDAIGAP----------KI---PNVSWDDVGGLEEVKTEILDTIQLPLKHPELF  698 (953)
T ss_pred             CCCCCCCCEECHHHHHHHHHHHHHHHHHHCCCC----------CC---CCCCHHCCCCHHHHHHHHHHHHCCCCCCHHHH
T ss_conf             540124641019888889889888655530798----------88---96460015578999999998754754375665


Q ss_pred             HCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCC--CCHH
Q ss_conf             10123656651289872678616889999999872377653002244774034532013047711203566774--2113
Q gi|254780877|r  588 RAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGA--LTEA  665 (853)
Q Consensus       588 ~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~--Lte~  665 (853)
                      -.||    ||..-.||.||+|+|||-+||++|-.+   .-+++..-..|.         +   -=|||-.|-..  .-++
T Consensus       699 ssgl----rkRSGILLYGPPGTGKTLlAKAVATEc---sL~FlSVKGPEL---------L---NMYVGqSE~NVR~VFer  759 (953)
T KOG0736         699 SSGL----RKRSGILLYGPPGTGKTLLAKAVATEC---SLNFLSVKGPEL---------L---NMYVGQSEENVREVFER  759 (953)
T ss_pred             HCCC----CCCCEEEEECCCCCCHHHHHHHHHHHC---EEEEEEECCHHH---------H---HHHHCCHHHHHHHHHHH
T ss_conf             1254----313505887799985579999987543---036785058899---------8---87743018889999998


Q ss_pred             HHC-CCCCEEEEHHHHHCCHH---------HHH-HHHHHHHC-CEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHH
Q ss_conf             221-56410220214414989---------999-99998404-5788799977830331559548512687640326799
Q gi|254780877|r  666 VRR-HPYQVVLFDEIEKAHSD---------VHN-ILLQVLDD-GRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVH  733 (853)
Q Consensus       666 vr~-~P~sVil~DEiEKah~~---------v~~-~llqild~-G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~  733 (853)
                      -|. .| |||+|||++--.|.         |+| +.-|+|-| --|.|+     +-+..+||--||        .++=..
T Consensus       760 AR~A~P-CVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~-----~s~~VFViGATN--------RPDLLD  825 (953)
T KOG0736         760 ARSAAP-CVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDS-----SSQDVFVIGATN--------RPDLLD  825 (953)
T ss_pred             HHCCCC-EEEEECCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCC-----CCCCEEEEECCC--------CCCCCC
T ss_conf             544697-499831212327567887886540899999999986266678-----888659982588--------855457


Q ss_pred             HHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHH-HHHHHHHHHHHHHHHHHCCCEEEECHHH-HHHHHHCCCCCCCCC
Q ss_conf             999999986288577266681586288998999-9999999999999998579899998899-999997089822062
Q gi|254780877|r  734 DKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDM-AKIVRIQLGRVLSLIKERNISMDFDDQV-IDWLSCRGYDPSYGA  809 (853)
Q Consensus       734 ~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~-~~i~~~~l~~l~~~l~~~~i~l~~~~~~-~~~l~~~~~~~~~Ga  809 (853)
                      .++       .+|   +|+|..+...|=...+- .+|+    +.+.++       +.+++.+ +..|+++|-..-.||
T Consensus       826 pAL-------LRP---GRFDKLvyvG~~~d~esk~~vL----~AlTrk-------FkLdedVdL~eiAk~cp~~~TGA  882 (953)
T KOG0736         826 PAL-------LRP---GRFDKLVYVGPNEDAESKLRVL----EALTRK-------FKLDEDVDLVEIAKKCPPNMTGA  882 (953)
T ss_pred             HHH-------CCC---CCCCEEEEECCCCCHHHHHHHH----HHHHHH-------CCCCCCCCHHHHHHHCCCCCCHH
T ss_conf             655-------388---7655248855885678899999----998877-------02878767999996389677524


No 164
>pfam05621 TniB Bacterial TniB protein. This family consists of several bacterial TniB NTP-binding proteins. TniB is a probable ATP-binding protein which is involved in Tn5053 mercury resistance transposition.
Probab=98.64  E-value=2.5e-07  Score=78.56  Aligned_cols=157  Identities=28%  Similarity=0.383  Sum_probs=105.6

Q ss_pred             HHHHHHHHC---CCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEH------H----HHHC--CCCC
Q ss_conf             999999633---67778668952887407779999999873489984445743788731------3----5421--7454
Q gi|254780877|r  187 MRRAIQVLS---RRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDM------G----ALIA--GAKF  251 (853)
Q Consensus       187 I~~~~~iL~---r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~------~----~l~a--g~~~  251 (853)
                      ++++-..|.   +-+-.|.+|||++|.|||.|++-++..--...-++ -..+.|+.+.+      .    +++.  |+.|
T Consensus        46 L~~Le~Ll~~P~~~Rmp~lLlvGdsnnGKT~Iv~rF~~~hp~~~d~~-~~~~PVl~vq~P~~p~~~~lY~~IL~~l~aP~  124 (302)
T pfam05621        46 LNRLEALYAWPNKQRMPNLLLVGPTNNGKSMIVEKFRRAHPAGSDAD-QEHIPVLVVQMPSEPSVIRFYVALLAAMGAPL  124 (302)
T ss_pred             HHHHHHHHHCCCCCCCCCEEEEECCCCCHHHHHHHHHHHCCCCCCCC-CCCCEEEEEECCCCCCHHHHHHHHHHHHCCCC
T ss_conf             99999998468646887558870798878999999999679987866-67021899976999886899999999837877


Q ss_pred             C-----CHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHHHHHHCC
Q ss_conf             2-----02454589999998607997699963627730266655433588887653124660489974489999973001
Q gi|254780877|r  252 R-----GEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGATTLDEYRKYIEKD  326 (853)
Q Consensus       252 r-----g~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD  326 (853)
                      |     .+.+..+..+++.+    +-=+|.|||+|+++ +|+..---..-|.||-.--...|-+||+-|.+-|+- |-.|
T Consensus       125 ~~~~~~~~~~~~~~~ll~~~----~vrmLIIDEiHnlL-~Gs~~~qr~~ln~LK~L~Nel~IpiV~vGt~eA~~a-i~tD  198 (302)
T pfam05621       125 RPRPRLPEMEQLALALLRKV----GVRMLVIDELHNVL-AGNSVNRREFLNLLRFLGNELRIPLVGVGTRDAYLA-IRSD  198 (302)
T ss_pred             CCCCCHHHHHHHHHHHHHHC----CCCEEEEECHHHHC-CCCHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHH-HHCC
T ss_conf             88877899999999999974----98789985436560-486889999999999986365878699531999999-7068


Q ss_pred             HHHHHCCCEEECCCCCHHHHHHHH
Q ss_conf             113202311111577767899999
Q gi|254780877|r  327 PALARRFQSLLVGEPTVTDTISIL  350 (853)
Q Consensus       327 ~Al~RRFq~i~V~Eps~~~t~~iL  350 (853)
                      +-|.+||+++.+..=..++....|
T Consensus       199 ~QlasRF~~~~Lp~W~~d~ef~~L  222 (302)
T pfam05621       199 DQLENRFEPMLLPPWEANDDCCSL  222 (302)
T ss_pred             HHHHHHCCCCCCCCCCCCCHHHHH
T ss_conf             888850586116888898089999


No 165
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=98.61  E-value=2.9e-06  Score=69.91  Aligned_cols=160  Identities=27%  Similarity=0.389  Sum_probs=112.0

Q ss_pred             CCCHHHHHHHHHHHH-------------CCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHH
Q ss_conf             333578999999963-------------3677786689528874077799999998734899844457437887313542
Q gi|254780877|r  180 VIGRDDEMRRAIQVL-------------SRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALI  246 (853)
Q Consensus       180 VIGRe~EI~~~~~iL-------------~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~  246 (853)
                      |=|=++.|+++-++.             .=.--..++|-|+||.|||-++...|..          -++..+-+--+.||
T Consensus       153 IGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~----------T~AtFIrvvgSElV  222 (406)
T COG1222         153 IGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQ----------TDATFIRVVGSELV  222 (406)
T ss_pred             CCCHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHC----------CCCEEEEECCHHHH
T ss_conf             35889999999998403366888999749999971276689997588999998720----------58669994219999


Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCC-C-CCC---------HHHHHHHHHCCCCEEEEEEEC
Q ss_conf             17454202454589999998607997699963627730266655-4-335---------888876531246604899744
Q gi|254780877|r  247 AGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTD-G-AMD---------ASNLLKPSLARGELHCIGATT  315 (853)
Q Consensus       247 ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~-g-~~D---------aan~LKP~LarG~l~~IgaTT  315 (853)
                        -||-||=-.-++.+..-++.. .+.|+|||||..|- +.+.+ + |.|         .-|=|--.=.+|++++|+||-
T Consensus       223 --qKYiGEGaRlVRelF~lArek-aPsIIFiDEIDAIg-~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATN  298 (406)
T COG1222         223 --QKYIGEGARLVRELFELAREK-APSIIFIDEIDAIG-AKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVIMATN  298 (406)
T ss_pred             --HHHHCCCHHHHHHHHHHHHHC-CCEEEEEECHHHHH-CCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEEEEECC
T ss_conf             --998341169999999987414-98499983112231-11136888850999999999998605889788768998558


Q ss_pred             HHHHHHHHHCCHHHHH--CCC-EEECCCCCHHHHHHHHHHHHHHHH
Q ss_conf             8999997300111320--231-111157776789999999789865
Q gi|254780877|r  316 LDEYRKYIEKDPALAR--RFQ-SLLVGEPTVTDTISILRGLKERYE  358 (853)
Q Consensus       316 ~~Eyrk~iEkD~Al~R--RFq-~i~V~Eps~~~t~~iL~gl~~~yE  358 (853)
                      --.     -=||||-|  ||. +|.+.-|+.+.-.+||+-...++-
T Consensus       299 R~D-----~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~  339 (406)
T COG1222         299 RPD-----ILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMN  339 (406)
T ss_pred             CCC-----CCCHHHCCCCCCCCEEECCCCCHHHHHHHHHHHHHHCC
T ss_conf             855-----55766508875453011689897899999998762146


No 166
>TIGR01242 26Sp45 26S proteasome subunit P45 family; InterPro: IPR005937    Intracellular proteins, including short-lived proteins such as cyclin, Mos, Myc, p53, NF-kappaB, and IkappaB, are degraded by the ubiquitin-proteasome system. The 26S proteasome (a 2 MDa complex) is made up of two subcomplexes: the 20S proteasome and the regulatory complex. The former is a 700 kDa cylindrical protease complex consisting of four stacks of heptameric rings with 28 subunits (i.e., 7777) with molecular masses of about 20-35 kDa, whereas the latter is a 700-1000 kDa complex consisting of at least 18 subunits with molecular masses of 28-110 kDa, including 6 putative ATPases (Rpt1-Rpt6) and 12 non-ATPase subunits (Rpn1-12).     Members of the 26S proteasome subunit P45 family: ATPase p45/Sug1/Rpt6 may be phosphorylated within the proteasome. This phosphorylation event may play a key role in ATP-dependent proteolysis because a good correlation exists between the inhibition pattern of protein kinase inhibitors against the phosphorylation of p45 and that against the ATP-dependent proteolytic activity , .   More information about these protein can be found at Protein of the Month: AAA ATPases .; GO: 0016787 hydrolase activity, 0030163 protein catabolic process, 0005634 nucleus, 0005737 cytoplasm.
Probab=98.61  E-value=1.4e-07  Score=80.63  Aligned_cols=160  Identities=30%  Similarity=0.527  Sum_probs=108.2

Q ss_pred             HHHHCCHHHHHHHHHHHHHHH--------HCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHC
Q ss_conf             767459489999999999874--------101236566512898726786168899999998723776530022447740
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRF--------RAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYM  638 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~--------~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~  638 (853)
                      -+.|=|-++-+..|..++.+-        ..|+..|   -|++|+ ||+|+|||-|||++|...   +--|||+=-||| 
T Consensus       121 y~diGGL~~Q~~E~~E~v~LPlk~PeLF~~vGI~PP---KGvLLy-GPPGtGKTLlAKAvA~et---~ATFIrvVgSEl-  192 (364)
T TIGR01242       121 YEDIGGLEKQIREIREAVELPLKKPELFEEVGIEPP---KGVLLY-GPPGTGKTLLAKAVAHET---NATFIRVVGSEL-  192 (364)
T ss_pred             EECCCCHHHHHHHHHHHHHCCCCCCHHHHHCCCCCC---CCEEEE-CCCCCCHHHHHHHHHCCC---CCEEEEEEHHHH-
T ss_conf             402678789999998887346888316776288989---865700-757976889999863145---512688604444-


Q ss_pred             CCCCCCHHHCCCCHHCCCCCCCCCCHHHH-----CCCCCEEEEHHHHHC-----------CHHHHHHHHHHHHC--CEEE
Q ss_conf             34532013047711203566774211322-----156410220214414-----------98999999998404--5788
Q gi|254780877|r  639 EKHSVSRLIGSPPGYVGYEEGGALTEAVR-----RHPYQVVLFDEIEKA-----------HSDVHNILLQVLDD--GRLT  700 (853)
Q Consensus       639 e~~~vs~LiGappGYvG~~~gg~Lte~vr-----~~P~sVil~DEiEKa-----------h~~v~~~llqild~--G~lt  700 (853)
                          |.|.||         ||-.|...|-     +-| |+|+.|||+--           ..+|...|+|+|-|  |+  
T Consensus       193 ----V~KyIG---------EGArLV~~~F~LAkEKaP-sIiFIDEiDAiaakR~~~~TsGdREV~RTlmQLLAElDGF--  256 (364)
T TIGR01242       193 ----VRKYIG---------EGARLVREVFELAKEKAP-SIIFIDEIDAIAAKRVDSSTSGDREVQRTLMQLLAELDGF--  256 (364)
T ss_pred             ----HHHHHC---------CHHHHHHHHHHHHHCCCC-CEEEEECHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCC--
T ss_conf             ----444413---------316899999998530698-1686101333543211467787315788999999752488--


Q ss_pred             CCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHH
Q ss_conf             79997783033155954851268764032679999999998628857726668158628899899999999999
Q gi|254780877|r  701 DSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQL  774 (853)
Q Consensus       701 d~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l  774 (853)
                      |..|      |.-||..||        ..|=...+       .+||   +|+|.+|-----+.+--..|+..+-
T Consensus       257 d~rg------~VkviaATN--------R~DilDPA-------~LRP---GRFDR~IEVPlP~~~GR~eIlkiHT  306 (364)
T TIGR01242       257 DPRG------NVKVIAATN--------RPDILDPA-------ILRP---GRFDRIIEVPLPDFEGRLEILKIHT  306 (364)
T ss_pred             CCCC------CEEEEEECC--------CCHHCCCC-------CCCC---CCCCCEEECCCCCCCCHHHHHHHHH
T ss_conf             8767------616887207--------62020432-------1488---8613257316978322056655521


No 167
>KOG0731 consensus
Probab=98.61  E-value=2.9e-07  Score=77.97  Aligned_cols=159  Identities=25%  Similarity=0.402  Sum_probs=104.4

Q ss_pred             CCCCCCHH---HHHHHHHHHH---------CCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHH
Q ss_conf             53333357---8999999963---------36777866895288740777999999987348998444574378873135
Q gi|254780877|r  177 LDPVIGRD---DEMRRAIQVL---------SRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGA  244 (853)
Q Consensus       177 LDPVIGRe---~EI~~~~~iL---------~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~  244 (853)
                      ++-|-|-|   +||++++..|         .=|--..++|+|+||+|||-++...|-   +..||       .++..-+-
T Consensus       310 FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAG---EAgVP-------F~svSGSE  379 (774)
T KOG0731         310 FKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAG---EAGVP-------FFSVSGSE  379 (774)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHCCHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHC---CCCCC-------EEEECHHH
T ss_conf             010267089999999999984398999874776767517878999867899998853---05896-------46413378


Q ss_pred             HHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCC----CCCCCCCHHHHHHHHH-------CCCCEEEEEE
Q ss_conf             4217454202454589999998607997699963627730266----6554335888876531-------2466048997
Q gi|254780877|r  245 LIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAG----KTDGAMDASNLLKPSL-------ARGELHCIGA  313 (853)
Q Consensus       245 l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG----~~~g~~Daan~LKP~L-------arG~l~~Iga  313 (853)
                      ++..-.-.|  ..|++.+....+. +-+.|+|||||..+-+.-    ...|.-+..+-|-..|       ..+..-++++
T Consensus       380 FvE~~~g~~--asrvr~lf~~ar~-~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~~a~  456 (774)
T KOG0731         380 FVEMFVGVG--ASRVRDLFPLARK-NAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVIVLAA  456 (774)
T ss_pred             HHHHHCCCC--HHHHHHHHHHHHC-CCCEEEEECCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEEEC
T ss_conf             888760343--4888999987432-6980797145420031255666678880788899988787527767784799811


Q ss_pred             ECHHHHHHHHHCCHHHHH--CCCE-EECCCCCHHHHHHHHHHH
Q ss_conf             448999997300111320--2311-111577767899999997
Q gi|254780877|r  314 TTLDEYRKYIEKDPALAR--RFQS-LLVGEPTVTDTISILRGL  353 (853)
Q Consensus       314 TT~~Eyrk~iEkD~Al~R--RFq~-i~V~Eps~~~t~~iL~gl  353 (853)
                      |---     =.-|+||-|  ||.+ |.|..|+...-..|+.-.
T Consensus       457 tnr~-----d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h  494 (774)
T KOG0731         457 TNRP-----DILDPALLRPGRFDRQIQIDLPDVKGRASILKVH  494 (774)
T ss_pred             CCCC-----CCCCHHHCCCCCCCCCEECCCCCHHHHHHHHHHH
T ss_conf             6886-----6428876498755552324698514168999998


No 168
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=98.61  E-value=2e-06  Score=71.26  Aligned_cols=87  Identities=30%  Similarity=0.432  Sum_probs=57.9

Q ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCH-HHHHHHHHHHHHH----HCCCC
Q ss_conf             778668952887407779999999873489984445743788731354217454202-4545899999986----07997
Q gi|254780877|r  198 TKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGE-FEERLKSLLCEIR----SEDGE  272 (853)
Q Consensus       198 ~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~-~e~r~~~i~~~~~----~~~~~  272 (853)
                      .|+|++|||+.|+|||-|++-||+.+   +||-...++       .++ .-+.|.|+ -|.-+..++....    .+. .
T Consensus       108 ~KsNILliGPTG~GKTlla~tLAk~l---~vPF~iaDA-------T~l-TEaGYVGeDVE~ii~~Llq~Ad~dve~Ae-~  175 (411)
T PRK05342        108 QKSNILLIGPTGSGKTLLAQTLARIL---NVPFAIADA-------TTL-TEAGYVGEDVENILLKLLQAADYDVEKAQ-R  175 (411)
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHH---CCCEEEEEE-------CEE-CCCCCCCCCHHHHHHHHHHHCCCCHHHHH-C
T ss_conf             34538998999977889999999986---999899861-------200-12674560799999999998288899883-6


Q ss_pred             EEEEECCHHHHCCCCC-CCCCCCHH
Q ss_conf             6999636277302666-55433588
Q gi|254780877|r  273 IILFIDELHVLVGAGK-TDGAMDAS  296 (853)
Q Consensus       273 ~ilfide~h~~~gaG~-~~g~~Daa  296 (853)
                      =|.|||||.-|--.+. .+.+-|++
T Consensus       176 GIV~IDEIDKIarks~~~s~trDVS  200 (411)
T PRK05342        176 GIVYIDEIDKIARKSENPSITRDVS  200 (411)
T ss_pred             CEEEEEEHHHHHHCCCCCCCCCCCC
T ss_conf             8288850234542478888877765


No 169
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=98.61  E-value=1.6e-06  Score=71.99  Aligned_cols=111  Identities=21%  Similarity=0.403  Sum_probs=81.4

Q ss_pred             CEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCC
Q ss_conf             10220214414989999999984045788799977830331559548512687640326799999999986288577266
Q gi|254780877|r  672 QVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNR  751 (853)
Q Consensus       672 sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnR  751 (853)
                      .|++.||+.--.-+-|.+|-+.|++-           |. -||||-||-|-..+.......        ---.|+.||+|
T Consensus       293 GVLFIDEvHmLDIE~FsFlnrAlEse-----------~a-PIii~AtNRG~~kiRGTd~~s--------PhGIP~DlLDR  352 (450)
T COG1224         293 GVLFIDEVHMLDIECFSFLNRALESE-----------LA-PIIILATNRGMTKIRGTDIES--------PHGIPLDLLDR  352 (450)
T ss_pred             CEEEEECHHHHHHHHHHHHHHHHHCC-----------CC-CEEEEECCCCEEEECCCCCCC--------CCCCCHHHHHH
T ss_conf             42897321345578999999876314-----------67-579997177500121667768--------88898766622


Q ss_pred             CCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHH
Q ss_conf             681586288998999999999999999999857989999889999999708982206215799999
Q gi|254780877|r  752 LDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQ  817 (853)
Q Consensus       752 id~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~  817 (853)
                      + -||.-+|++.++++.|++...         +--.+.++++|+++|++-|-.     .+||-.++
T Consensus       353 l-lII~t~py~~~EireIi~iRa---------~ee~i~l~~~Ale~L~~ig~e-----tSLRYa~q  403 (450)
T COG1224         353 L-LIISTRPYSREEIREIIRIRA---------KEEDIELSDDALEYLTDIGEE-----TSLRYAVQ  403 (450)
T ss_pred             E-EEEECCCCCHHHHHHHHHHHH---------HHHCCCCCHHHHHHHHHHCHH-----HHHHHHHH
T ss_conf             5-677447798899999999764---------354030488899999751503-----44899998


No 170
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=98.60  E-value=0.0001  Score=57.27  Aligned_cols=157  Identities=20%  Similarity=0.396  Sum_probs=108.1

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHH
Q ss_conf             67459489999999999874101236566512898726786168899999998723776530022447740345320130
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLI  647 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~Li  647 (853)
                      +.|+||+++++.+.+++...|.       | -++||.||.|||||.+|+.+|..+++....--..|+-++.-..      
T Consensus         4 ~~iiGq~~i~~~L~~~i~~~rl-------~-HAyLF~Gp~G~GK~~~A~~~A~~ll~~~~~~~~~D~~~~~~~~------   69 (313)
T PRK05564          4 RTIIGHENIKNRIDNSIIKGKF-------S-HASLIVGEDGIGKSILAKEIANKILGKSEQREYVDIIEYKPIN------   69 (313)
T ss_pred             HHCCCHHHHHHHHHHHHHCCCC-------C-CEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCEEEEECCC------
T ss_conf             2326829999999999987998-------7-5043279998509999999999982899778898658863322------


Q ss_pred             CCCCHHCCCCCCCCCCHHHHCCCC----CEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHH
Q ss_conf             477112035667742113221564----1022021441498999999998404578879997783033155954851268
Q gi|254780877|r  648 GSPPGYVGYEEGGALTEAVRRHPY----QVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAE  723 (853)
Q Consensus       648 GappGYvG~~~gg~Lte~vr~~P~----sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~  723 (853)
                         ..-+|-|+==.|.+.+..+|+    -|+++|+.|+.+.+-.|.||-.|+|=           -.+|+|||+|+--. 
T Consensus        70 ---~~~I~vd~IR~l~~~~~~~p~~g~~KV~II~~ae~m~~~AaNALLKtLEEP-----------P~~t~fIL~t~~~~-  134 (313)
T PRK05564         70 ---KKSIGVDDIRNIIEEVNKKPYEGDKKVIIIYKSEKMTEQAQNAFLKTIEEP-----------PKGVFIILLCENLE-  134 (313)
T ss_pred             ---CCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCHHHHCHHHHHHHHHCCCCC-----------CCCEEEEEEECCHH-
T ss_conf             ---569998999999999840862589569998077775899999984550368-----------99858998649835-


Q ss_pred             HHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHH
Q ss_conf             76403267999999999862885772666815862889989999999999
Q gi|254780877|r  724 YLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQ  773 (853)
Q Consensus       724 ~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~  773 (853)
                                         ...|-.+.|. ..+.|+|++.+++...+...
T Consensus       135 -------------------~lLpTI~SRC-Q~~~f~~l~~~~i~~~L~~~  164 (313)
T PRK05564        135 -------------------QILDTIKSRC-QIYKLNRLSKEDIEKFISYK  164 (313)
T ss_pred             -------------------HCCCHHHCCC-EEEECCCCCHHHHHHHHHHH
T ss_conf             -------------------4757787065-35668998999999999986


No 171
>KOG2028 consensus
Probab=98.60  E-value=2.5e-07  Score=78.49  Aligned_cols=225  Identities=20%  Similarity=0.324  Sum_probs=129.3

Q ss_pred             CCHHCCCHHHHHHHHHHHHCCCHHHHHHCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEEC
Q ss_conf             20001686678999876617866775100000001235547767459489999999999874101236566512898726
Q gi|254780877|r  526 MVQEVVTSDNIANIVSRWTGIPVDKMLESDREKFLRIETEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLG  605 (853)
Q Consensus       526 ~~~~~V~~~dVa~vvS~~TGIPv~kl~~~E~ekLl~l~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~G  605 (853)
                      .........++.+.   ..+-|++.     +-|     -+--..++||++++..  +.+.++.  +. .++ +-|+.|-|
T Consensus       109 ~~~~~l~~~e~R~~---~qh~PLae-----rmR-----PktL~dyvGQ~hlv~q--~gllrs~--ie-q~~-ipSmIlWG  169 (554)
T KOG2028         109 PHKRALAAEEIRQM---LQHKPLAE-----RMR-----PKTLDDYVGQSHLVGQ--DGLLRSL--IE-QNR-IPSMILWG  169 (554)
T ss_pred             CCCCHHHHHHHHHH---HCCCCHHH-----HCC-----CCHHHHHCCHHHHCCC--CHHHHHH--HH-CCC-CCCEEEEC
T ss_conf             64211204888877---51697455-----418-----4368775053441483--2689999--87-088-87058866


Q ss_pred             CCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHH
Q ss_conf             78616889999999872377653002244774034532013047711203566774211322156410220214414989
Q gi|254780877|r  606 PTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSD  685 (853)
Q Consensus       606 ptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~  685 (853)
                      |+|+|||.||+.||..--...-.||.+  |--  ...+.-+-+.      +++.-  .+..--+-..|+++|||..-+..
T Consensus       170 ppG~GKTtlArlia~tsk~~Syrfvel--SAt--~a~t~dvR~i------fe~aq--~~~~l~krkTilFiDEiHRFNks  237 (554)
T KOG2028         170 PPGTGKTTLARLIASTSKKHSYRFVEL--SAT--NAKTNDVRDI------FEQAQ--NEKSLTKRKTILFIDEIHRFNKS  237 (554)
T ss_pred             CCCCCHHHHHHHHHHHCCCCCEEEEEE--ECC--CCCHHHHHHH------HHHHH--HHHHHHCCEEEEEEHHHHHHHHH
T ss_conf             998765889999986057774279997--414--5661889999------99988--78765244069873776553232


Q ss_pred             HHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHH
Q ss_conf             99999998404578879997783033155954851268764032679999999998628857726668158628899899
Q gi|254780877|r  686 VHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKED  765 (853)
Q Consensus       686 v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~  765 (853)
                      -+++||-..++|.+|            +|=.|+--       ....            ....++.|. .|++.++|..+.
T Consensus       238 QQD~fLP~VE~G~I~------------lIGATTEN-------PSFq------------ln~aLlSRC-~VfvLekL~~n~  285 (554)
T KOG2028         238 QQDTFLPHVENGDIT------------LIGATTEN-------PSFQ------------LNAALLSRC-RVFVLEKLPVNA  285 (554)
T ss_pred             HHHCCCCEECCCCEE------------EEECCCCC-------CCCC------------HHHHHHHCC-CEEEECCCCHHH
T ss_conf             110034213067069------------98536689-------7601------------127787316-066733688899


Q ss_pred             HHHHHHHHHHHHHHHHHH----CCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHH
Q ss_conf             999999999999999985----798999988999999970898220621579999
Q gi|254780877|r  766 MAKIVRIQLGRVLSLIKE----RNISMDFDDQVIDWLSCRGYDPSYGARPLKRVI  816 (853)
Q Consensus       766 ~~~i~~~~l~~l~~~l~~----~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i  816 (853)
                      +..|+..-+.-|...-+.    -+-.+++++++++|++..+-   -.||.--..+
T Consensus       286 v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsd---GDaR~aLN~L  337 (554)
T KOG2028         286 VVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSD---GDARAALNAL  337 (554)
T ss_pred             HHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHCC---CHHHHHHHHH
T ss_conf             999999998763210256889998312456889999987047---3188887789


No 172
>PRK08084 DNA replication initiation factor; Provisional
Probab=98.60  E-value=7.7e-06  Score=66.43  Aligned_cols=157  Identities=19%  Similarity=0.307  Sum_probs=72.3

Q ss_pred             EEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHH
Q ss_conf             98726786168899999998723776530022447740345320130477112035667742113221564102202144
Q gi|254780877|r  601 FMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIE  680 (853)
Q Consensus       601 flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEiE  680 (853)
                      +.+.||+|+|||.|..++.............+.+.++.+.         .|.+         .+.+  .-+.+|++|.|+
T Consensus        48 l~l~G~~G~GKTHLLqA~~~~~~~~~~~~~yl~~~~~~~~---------~~~~---------l~~l--~~~dll~iDDi~  107 (235)
T PRK08084         48 IYLWGREGAGRSHLLHAACAELSQRGDAVGYVPLDKRAWF---------VPEV---------LEGM--EQLSLVCIDNIE  107 (235)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHCCCCCEEEEEHHHHHHH---------HHHH---------HHHH--HHCCEEEEECHH
T ss_conf             9998999988899999999999707985799877986651---------7999---------9876--418989982745


Q ss_pred             HCC--H----HHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCC-
Q ss_conf             149--8----999999998404578879997783033155954851268764032679999999998628857726668-
Q gi|254780877|r  681 KAH--S----DVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLD-  753 (853)
Q Consensus       681 Kah--~----~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid-  753 (853)
                      .-.  +    .+|++|=.+.+.|+             |-|++||+.....+.                .+-|.+..|+. 
T Consensus       108 ~i~g~~~~ee~lF~l~N~~~~~g~-------------~~ll~ts~~~P~~l~----------------~~l~DL~SRl~~  158 (235)
T PRK08084        108 CIAGDELWEMAIFDLYNRILESGK-------------TRLLITGDRPPRQLN----------------LGLPDLASRLDW  158 (235)
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHCC-------------CEEEEECCCCHHHCC----------------CCCHHHHHHHHC
T ss_conf             546997899999999999998489-------------669996798824302----------------312889999956


Q ss_pred             -CEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHH
Q ss_conf             -15862889989999999999999999998579899998899999997089822062157999998
Q gi|254780877|r  754 -EIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQR  818 (853)
Q Consensus       754 -~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~  818 (853)
                       -++--.|++.++...|+..       +...+|+.  +++++.+||+++. +..+  |.|..++.+
T Consensus       159 g~~~~i~~~dde~~~~iL~~-------~a~~rgl~--l~~~V~~yl~~~~-~R~~--~~L~~~l~~  212 (235)
T PRK08084        159 GQIYKLQPLSDEEKLQALQL-------RARLRGFE--LPEDVGRFLLKRL-DREM--RTLFMTLDQ  212 (235)
T ss_pred             CCEEEECCCCHHHHHHHHHH-------HHHHCCCC--CCHHHHHHHHHHC-CCCH--HHHHHHHHH
T ss_conf             97278559998999999999-------99973999--9989999999861-5889--999999999


No 173
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=98.59  E-value=7.1e-07  Score=74.81  Aligned_cols=181  Identities=21%  Similarity=0.264  Sum_probs=111.8

Q ss_pred             CCCCHHHHHHHHHHHHC-CCCCCC-EEEECCCCCCHHHHHHHHHHHHHCCCCCHHHC---------------CCEEEEEE
Q ss_conf             33335789999999633-677786-68952887407779999999873489984445---------------74378873
Q gi|254780877|r  179 PVIGRDDEMRRAIQVLS-RRTKNN-PVLIGDPGVGKTAIIEGLASRIINGDIPESLK---------------GKRLMALD  241 (853)
Q Consensus       179 PVIGRe~EI~~~~~iL~-r~~k~n-~~lvGe~GvGKtaive~la~~i~~~~vp~~l~---------------~~~i~~ld  241 (853)
                      .++|-+..+.++..-.. ..+-.+ .++.|+||+|||+.+..||..+...... ...               .-.+++++
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~d~lel~   80 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPT-GLLPCGHCRSCKLIPAGNHPDFLELN   80 (325)
T ss_pred             CCCCCHHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCC-CCCCCCHHHHHHHHCCCCCCCEEEEC
T ss_conf             64332358999999998658887610037999997899999999996586643-34552002244432025688659977


Q ss_pred             HHHHHCCCCCCCHHHHHHHHHHHHHHHC---CCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC--CCEEEEEEECH
Q ss_conf             1354217454202454589999998607---997699963627730266655433588887653124--66048997448
Q gi|254780877|r  242 MGALIAGAKFRGEFEERLKSLLCEIRSE---DGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR--GELHCIGATTL  316 (853)
Q Consensus       242 ~~~l~ag~~~rg~~e~r~~~i~~~~~~~---~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar--G~l~~IgaTT~  316 (853)
                      ....-    ...-..+.++.+.+.....   .+.-|.+|||+..+        +.||+|.|-..+..  ...++|-.|. 
T Consensus        81 ~s~~~----~~~i~~~~vr~~~~~~~~~~~~~~~kviiidead~m--------t~~A~nallk~lEep~~~~~~il~~n-  147 (325)
T COG0470          81 PSDLR----KIDIIVEQVRELAEFLSESPLEGGYKVVIIDEADKL--------TEDAANALLKTLEEPPKNTRFILITN-  147 (325)
T ss_pred             CCCCC----CCCCHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCC--------CHHHHHHHHHHCCCCCCCEEEEEEEC-
T ss_conf             32133----330069999999986044656677269997320326--------98888767543324888716999749-


Q ss_pred             HHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHH
Q ss_conf             9999973001113202311111577767899999997898654149610158999998633320245767477899
Q gi|254780877|r  317 DEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAID  392 (853)
Q Consensus       317 ~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAID  392 (853)
                       .+.+-+.   -+-.|-+.+.+..|+....+..+.               ++++...+..+...+...--|..|..
T Consensus       148 -~~~~il~---tI~SRc~~i~f~~~~~~~~i~~~e---------------~~~l~~i~~~~~gd~r~~i~~lq~~~  204 (325)
T COG0470         148 -DPSKILP---TIRSRCQRIRFKPPSRLEAIAWLE---------------DQGLEEIAAVAEGDARKAINPLQALA  204 (325)
T ss_pred             -CHHHCHH---HHHHHEEEEECCCCCHHHHHHHHH---------------HHHHHHHHHHHCCHHHHHCCHHHHHH
T ss_conf             -8555647---877560788767741889999850---------------75799999870406887348999998


No 174
>pfam00493 MCM MCM2/3/5 family.
Probab=98.59  E-value=4.3e-06  Score=68.46  Aligned_cols=218  Identities=18%  Similarity=0.271  Sum_probs=125.3

Q ss_pred             HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCC----CC---CCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             0123554776745948999999999987410123----65---6651289872678616889999999872377653002
Q gi|254780877|r  559 FLRIETEISKSVIGQSAAVESVSNALRRFRAGLQ----DP---QRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIR  631 (853)
Q Consensus       559 Ll~l~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~----~~---~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir  631 (853)
                      +..|-+.+--.|+|.+..-..+.-.+.   .|-.    +.   +.-+ -.|++|-+|+|||.|.|..++..   .+    
T Consensus        15 ~~~l~~siaP~i~G~~~vK~ai~l~l~---gg~~~~~~~~~~~Rg~i-hiLLvGdPG~gKSqlLk~~~~~~---pr----   83 (327)
T pfam00493        15 YDKLARSIAPSIYGHEDVKKAILLQLF---GGVKKNLPDGTRLRGDI-NVLLVGDPGTAKSQLLKYVAKLA---PR----   83 (327)
T ss_pred             HHHHHHHHCCCCCCCHHHHHHHHHHHC---CCCCCCCCCCCCCCCCC-EEEEECCCCCCHHHHHHHHHHHC---CC----
T ss_conf             999999859712498799999999980---89876588886203651-18984699815609999999868---87----


Q ss_pred             CCHHHHCCC--CCCCHHHCCCC---HHCCC-CCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCC-C
Q ss_conf             244774034--53201304771---12035-66774211322156410220214414989999999984045788799-9
Q gi|254780877|r  632 IDMSEYMEK--HSVSRLIGSPP---GYVGY-EEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQ-G  704 (853)
Q Consensus       632 ~dMsey~e~--~~vs~LiGapp---GYvG~-~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~-G  704 (853)
                         |-|...  .+..-|.++.-   .-=+| =++|.|.-   .+ ..|++.||++|+.+.....|++.|+++++|=++ |
T Consensus        84 ---~~~tsg~~ss~~GLTa~~~~d~~~~~~~leaGalvl---Ad-~Gv~cIDEfdk~~~~d~saL~EAMEqqtVsIaKaG  156 (327)
T pfam00493        84 ---AVYTSGKGSSAAGLTAAVVRDPDTGEWTLEAGALVL---AD-GGVCCIDEFDKMNEEDRVAIHEAMEQQTISIAKAG  156 (327)
T ss_pred             ---CEEECCCCCCCCCCEEEEEEECCCCCEEEECCCEEE---CC-CCEEEEECCCCCCHHHHHHHHHHHHHCEEEEECCC
T ss_conf             ---088317766567761589980688836983684775---58-98278500555887679999999986817763385


Q ss_pred             CEEECC-CCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCC-HHHHHHHHHHHHH-------
Q ss_conf             778303-3155954851268764032679999999998628857726668158628899-8999999999999-------
Q gi|254780877|r  705 RTVDFR-NTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLR-KEDMAKIVRIQLG-------  775 (853)
Q Consensus       705 ~~v~f~-n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~-~~~~~~i~~~~l~-------  775 (853)
                      -+..+. .|-||.|.|--    ...++... .+.+  .-.++|.+|.|+|-+++..... .+.=.+|++..+.       
T Consensus       157 i~~tL~ar~sVlAaaNP~----~g~yd~~~-~~~~--ni~Lp~~lLsRFDLif~l~D~~~~~~D~~ia~~i~~~~~~~~~  229 (327)
T pfam00493       157 IVATLNARCSVLAAANPI----FGRYDPKK-SVAE--NINLPPPLLSRFDLIFVLLDKPDEEKDEELAKHIVDLHRHGEE  229 (327)
T ss_pred             EEEEECCCCEEEEEECCC----CCCCCCCC-CHHH--HCCCCHHHHCCEEEEEEEECCCCHHHHHHHHHHHHHHHHCCCC
T ss_conf             389725871799852776----77378888-9888--5589767745010798840689868899999999998744688


Q ss_pred             ------------HHHHHH--HHCCCEEEECHHHHHHHHHC
Q ss_conf             ------------999999--85798999988999999970
Q gi|254780877|r  776 ------------RVLSLI--KERNISMDFDDQVIDWLSCR  801 (853)
Q Consensus       776 ------------~l~~~l--~~~~i~l~~~~~~~~~l~~~  801 (853)
                                  .+.+.+  ..+.+.-.+++++.++|.+.
T Consensus       230 ~~~~~~~~~~~~~l~~yi~~ar~~~~P~ls~ea~~~i~~~  269 (327)
T pfam00493       230 EEIETEDYVDPELLRKYIAYARENIFPKLSDEAREKLVNY  269 (327)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
T ss_conf             6555688799999999999998527887798999999999


No 175
>pfam06309 Torsin Torsin. This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterized by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of (pfam00004) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia.
Probab=98.59  E-value=1.6e-07  Score=80.17  Aligned_cols=71  Identities=21%  Similarity=0.463  Sum_probs=61.6

Q ss_pred             HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCC--CCCCCC
Q ss_conf             0123554776745948999999999987410123656651289872678616889999999872377--653002
Q gi|254780877|r  559 FLRIETEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDD--ENSMIR  631 (853)
Q Consensus       559 Ll~l~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~--~~~lir  631 (853)
                      +..|+..|+.+++||.-|.+.|..+++-.... .+|+||+ ++-|-||||+||+..|+.||+.||.+  .+.+++
T Consensus        16 ~~~Le~~L~~~lfGQhla~~~v~~al~~~l~~-~~p~KpL-VlSfHG~tGtGKn~vs~liA~~Ly~~G~~S~~Vh   88 (127)
T pfam06309        16 YHGLERDLARRLFGQHLVKQLVVRSVKGHWEN-PKPRKPL-VLSFHGWTGTGKNFVAEIIADNLYRDGLRSPYVH   88 (127)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCC-CCCCCCE-EEEECCCCCCCHHHHHHHHHHHHHHCCCCCCCEE
T ss_conf             79999999875347798999999999999748-9999974-8870189998798999999999875434787568


No 176
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=98.57  E-value=1.4e-06  Score=72.47  Aligned_cols=49  Identities=27%  Similarity=0.489  Sum_probs=34.8

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHH
Q ss_conf             298533333578999999963367778668952887407779999999873
Q gi|254780877|r  174 NGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRII  224 (853)
Q Consensus       174 ~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~  224 (853)
                      .+-+|-|||-|+-++-+.-....|+  |++|||+||+||+-+++.+++.+-
T Consensus        27 ~~lidqVIGQe~Av~~i~~Aa~qrr--hvlliG~PGtGKSmlakam~elLp   75 (637)
T PRK13765         27 KLLIDQVIGQEHAVEVIKKAAKQRR--HVMLIGSPGTGKSMLAKAMAELLP   75 (637)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHC--CEEEECCCCCCHHHHHHHHHHHCC
T ss_conf             8523324571999999999998437--389868999879999999997579


No 177
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=98.57  E-value=7.3e-05  Score=58.50  Aligned_cols=172  Identities=20%  Similarity=0.357  Sum_probs=106.3

Q ss_pred             CCCCHHHHHHH-HHHHHCCCC------CCCEEE-ECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHH----HH
Q ss_conf             33335789999-999633677------786689-5288740777999999987348998444574378873135----42
Q gi|254780877|r  179 PVIGRDDEMRR-AIQVLSRRT------KNNPVL-IGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGA----LI  246 (853)
Q Consensus       179 PVIGRe~EI~~-~~~iL~r~~------k~n~~l-vGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~----l~  246 (853)
                      -|+|...++-- ..+-.+..-      .-||+. -|.+|+|||.+.++++..+.+   |    +++|+.+....    ++
T Consensus       113 FVvG~~N~lA~~aa~~va~~~~~~~g~~yNPLfIyG~~GlGKTHLL~AIgn~i~~---~----~~kV~Yvtae~F~~~~v  185 (455)
T PRK12422        113 FLVTPENDLPFRILQEFAKVSEQGKGFPFNPIYLFGPEGSGKTHLMQAAVSALRE---S----GGKILYVSSELFTEHLV  185 (455)
T ss_pred             EEECCCCHHHHHHHHHHHHCCCCCCCCCCCCEEEECCCCCCHHHHHHHHHHHHHC---C----CCEEEEECHHHHHHHHH
T ss_conf             3315860999999999983755358876787588789999789999999998537---9----98699974999999999


Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEE-CHHHHHHHHHC
Q ss_conf             17454202454589999998607997699963627730266655433588887653124660489974-48999997300
Q gi|254780877|r  247 AGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGAT-TLDEYRKYIEK  325 (853)
Q Consensus       247 ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaT-T~~Eyrk~iEk  325 (853)
                      ...+ .|+    +...-+.....   -+|.||+||-+-|-.++  ..-.-+++--....|.-=+|.+- .|.|... +  
T Consensus       186 ~ai~-~~~----~~~Fr~~yr~~---DvLLIDDIQfl~gK~~t--qeEff~tfN~L~~~~KQIVitsDr~P~el~~-l--  252 (455)
T PRK12422        186 SAIR-SGE----MQRFRSFYRNV---DALFIEDIEVFSGKGAT--QEEFFHTFNSLHTEGKLIVISSSYAPGDLKA-M--  252 (455)
T ss_pred             HHHH-CCC----HHHHHHHHHCC---CEEEEEHHHHHHCCHHH--HHHHHHHHHHHHHCCCEEEEECCCCHHHHHH-H--
T ss_conf             9997-588----99999999638---87763147887284889--9999999999998599699968989576512-6--


Q ss_pred             CHHHHHCCC---EEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q ss_conf             111320231---1111577767899999997898654149610158999998
Q gi|254780877|r  326 DPALARRFQ---SLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAA  374 (853)
Q Consensus       326 D~Al~RRFq---~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av  374 (853)
                      +.-|..||+   .+.|++|+.++-+.||+....    .+++.++++++++.+
T Consensus       253 ~~RL~SRf~~GL~v~I~~Pd~etr~~Il~~k~~----~~~~~l~~ev~~~iA  300 (455)
T PRK12422        253 EERLISRFEWGIAIPIHPLTREGLRSFLMRQAE----QLSIRIEETALDFLI  300 (455)
T ss_pred             HHHHHHHHHCCEEECCCCCCHHHHHHHHHHHHH----HCCCCCCHHHHHHHH
T ss_conf             899998863761321689998999999999998----718888446899999


No 178
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=98.57  E-value=9e-07  Score=73.99  Aligned_cols=185  Identities=17%  Similarity=0.208  Sum_probs=107.9

Q ss_pred             HHHHHHHHHHCCCCCCC-EEEECCCCCCHHHHHHHHHHHHHCCCCCHHHC-------------CCEEEEEEHHHHHCCCC
Q ss_conf             89999999633677786-68952887407779999999873489984445-------------74378873135421745
Q gi|254780877|r  185 DEMRRAIQVLSRRTKNN-PVLIGDPGVGKTAIIEGLASRIINGDIPESLK-------------GKRLMALDMGALIAGAK  250 (853)
Q Consensus       185 ~EI~~~~~iL~r~~k~n-~~lvGe~GvGKtaive~la~~i~~~~vp~~l~-------------~~~i~~ld~~~l~ag~~  250 (853)
                      +-.+++...+.+.+=.+ -++.|++|+||++++..+|+.+......+.-.             +.++++.  ..--.|.+
T Consensus        11 ~~~~~L~~~i~~~rl~HA~Lf~Gp~G~GK~~~A~~~A~~llc~~~~~~~~~~~~~~i~~g~HPD~~~i~~--~~~~~~~k   88 (319)
T PRK08769         11 RAFDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLASGPDPALAQRTRQLIAAGTHPDLQLVSF--IPNRTGDK   88 (319)
T ss_pred             HHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCCEEEEEC--CCCCCCCC
T ss_conf             9999999999769942068758999878999999999998379979765433889996689989687753--44445431


Q ss_pred             CCCHH-HHHHHHHHHHHHHCC---CCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC--CCEEEEEEECHHHHHHHHH
Q ss_conf             42024-545899999986079---97699963627730266655433588887653124--6604899744899999730
Q gi|254780877|r  251 FRGEF-EERLKSLLCEIRSED---GEIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR--GELHCIGATTLDEYRKYIE  324 (853)
Q Consensus       251 ~rg~~-e~r~~~i~~~~~~~~---~~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar--G~l~~IgaTT~~Eyrk~iE  324 (853)
                      .+.+. =+.++.+++.+...+   +.-|..||+.|++        +..++|-|--.|..  ...-+|=.|+..  .+.  
T Consensus        89 ~k~~I~IdqiR~l~~~~~~~p~~g~~KV~IId~Ad~m--------n~~AaNalLK~LEEPp~~~~~iL~~~~~--~~l--  156 (319)
T PRK08769         89 LRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAI--------NRSACNALLKTLEEPSPGRYLWLISAQP--ARL--  156 (319)
T ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCHHHC--------CHHHHHHHHHHHCCCCCCEEEEEEECCH--HHC--
T ss_conf             1234869999999999613720279569998066752--------8999999999822799884899986993--658--


Q ss_pred             CCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHH
Q ss_conf             0111320231111157776789999999789865414961015899999863332024576747789999999998
Q gi|254780877|r  325 KDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEASAR  400 (853)
Q Consensus       325 kD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~A~  400 (853)
                       =+.+-.|-|.|....|+.+++...|.+-        |  +.+.....++.++      +..|-.|+.++.+....
T Consensus       157 -l~TI~SRCq~~~~~~p~~~~~~~~L~~~--------g--~~~~~a~~~l~~a------~g~p~~A~~~~~~~~~~  215 (319)
T PRK08769        157 -PATIRSRCQRLEFKLPPAHEALAWLLSQ--------G--VSERAAQEALDAA------RGHPGLAAQWLREDGLA  215 (319)
T ss_pred             -CHHHHHCCEEECCCCCCHHHHHHHHHHC--------C--CCHHHHHHHHHHH------CCCHHHHHHHHCCCCHH
T ss_conf             -2477648501118996999999999975--------9--9918999999982------79968999984367277


No 179
>PRK13531 regulatory ATPase RavA; Provisional
Probab=98.57  E-value=4e-07  Score=76.87  Aligned_cols=101  Identities=24%  Similarity=0.399  Sum_probs=61.4

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCC----------CCH
Q ss_conf             7886443569987298533333578999999963367778668952887407779999999873489----------984
Q gi|254780877|r  161 LKKYCRDLTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGD----------IPE  230 (853)
Q Consensus       161 L~ky~~DLTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~----------vp~  230 (853)
                      |.+=-..|+..-.+|    ++.|+++|+-++--+.-..  +++|+|+||++|++|+..++..+..+.          .|+
T Consensus         7 l~eri~~l~~~L~~g----l~ERe~~i~l~lLaalage--hvlllGPPGtAKS~larrl~~~~~~a~~FeyLltRFstPe   80 (498)
T PRK13531          7 LAERISRLSSALEKG----LYERSHAIRLCLLAALSGE--SVFLLGPPGIAKSLIARRLKFAFQHARAFEYLMTRFSTPE   80 (498)
T ss_pred             HHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHCCC--CEEEECCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCHH
T ss_conf             899999999999701----1446999999999997289--4698889951388999999998557408999987469888


Q ss_pred             HHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHH
Q ss_conf             445743788731354217454202454589999998607997699963627
Q gi|254780877|r  231 SLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELH  281 (853)
Q Consensus       231 ~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h  281 (853)
                      .+.|-    +|+.+|--.    |.++....+-   +   +.--|.|+|||-
T Consensus        81 ElFGP----~si~~Lk~~----g~y~R~t~G~---L---P~A~iaFLDEIf  117 (498)
T PRK13531         81 EVFGP----LSIQALKDE----GRYERLTSGY---L---PEAEIVFLDEIW  117 (498)
T ss_pred             HHCCC----CCHHHHHHC----CEEEEECCCC---C---CCCEEEHHHHHH
T ss_conf             85383----329987117----8489722675---8---866131578786


No 180
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=98.56  E-value=1.8e-05  Score=63.37  Aligned_cols=129  Identities=22%  Similarity=0.245  Sum_probs=60.5

Q ss_pred             HHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEE---CCHHHHCCCCCCCCCCCHHHHHHHHHC--
Q ss_conf             444574378873135421745420245458999999860799769996---362773026665543358888765312--
Q gi|254780877|r  230 ESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFI---DELHVLVGAGKTDGAMDASNLLKPSLA--  304 (853)
Q Consensus       230 ~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfi---de~h~~~gaG~~~g~~Daan~LKP~La--  304 (853)
                      +.-.-++||-+|=--|++..        -+.++++-+++.+. -+.||   -|+|-+--               -.|+  
T Consensus       127 p~~~~~kv~iidevhmls~~--------afnallktleepp~-~~~fi~att~~~k~p~---------------ti~src  182 (600)
T PRK09111        127 PVSARYKVYIIDEVHMLSTA--------AFNALLKTLEEPPP-HVKFIFATTEIRKVPV---------------TVLSRC  182 (600)
T ss_pred             CCCCCEEEEEEECCCCCCHH--------HHHHHHHHHHCCCC-CEEEEEECCCHHHCCH---------------HHHHHH
T ss_conf             87775469996001105799--------99999987625986-5499996285343758---------------998544


Q ss_pred             -CCCEEEEEEECHHHHHHHHHCC-------HHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             -4660489974489999973001-------11320231111157776789999999789865414961015899999863
Q gi|254780877|r  305 -RGELHCIGATTLDEYRKYIEKD-------PALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVL  376 (853)
Q Consensus       305 -rG~l~~IgaTT~~Eyrk~iEkD-------~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~l  376 (853)
                       |=+++-|..-...+|=++|-+.       .||.   -...-.|-|.-+++.+|--...    |.+=.++.+.+....-+
T Consensus       183 ~~f~~~~~~~~~~~~~l~~i~~~e~~~~~~~al~---~ia~~a~GS~RDaLSlLDQai~----~~~~~i~~~~v~~mLGl  255 (600)
T PRK09111        183 QRFDLRRIEAEVLAAHLARIAEKEGVEVEPDALA---LIARAAEGSVRDGLSLLDQAIA----HGAGEVTAEQVRDMLGL  255 (600)
T ss_pred             HEECCCCCCHHHHHHHHHHHHHHCCCCCCHHHHH---HHHHHCCCCCCHHHHHHHHHHH----CCCCCCCHHHHHHHHCC
T ss_conf             1201057999999999999998607686677999---9999748984218999999997----27987569999998688


Q ss_pred             HHHHCCCCCCHHHHHHHHHHH
Q ss_conf             332024576747789999999
Q gi|254780877|r  377 SNRYITDRFLPDKAIDLMDEA  397 (853)
Q Consensus       377 s~rYi~~r~lPDKAIDllDeA  397 (853)
                      ++|        +.-+||++..
T Consensus       256 ~d~--------~~i~~Ll~~i  268 (600)
T PRK09111        256 ADR--------ARVIDLFEAL  268 (600)
T ss_pred             CCH--------HHHHHHHHHH
T ss_conf             767--------7899999999


No 181
>PRK08116 hypothetical protein; Validated
Probab=98.55  E-value=4.2e-07  Score=76.69  Aligned_cols=149  Identities=20%  Similarity=0.314  Sum_probs=87.6

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHH
Q ss_conf             89872678616889999999872377653002244774034532013047711203566774211322156410220214
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEI  679 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEi  679 (853)
                      .++|.||+|+|||.||-++|..|-......+-++.+++.+.-..+.  +.+ +.-++   ..+.+.+..  ..|+.+|++
T Consensus       110 GLll~G~~GtGKThLa~aIa~~l~~~g~~V~~~~~~~ll~~lk~~~--~~~-~~~~~---~e~l~~l~~--~dLLIiDDl  181 (262)
T PRK08116        110 GLLLWGSPGNGKTYLAAAIANELIEKGVPVVFVNVPELLNRIKSTY--NSE-GKEDE---NEIIRALDN--ADLLILDDL  181 (262)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEHHHHHHHHHHHH--HCC-CCHHH---HHHHHHHHC--CCEEEEEHH
T ss_conf             1899898999899999999999998799399988999999999998--635-61019---999998612--998998322


Q ss_pred             H--HCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEE
Q ss_conf             4--14989999999984045788799977830331559548512687640326799999999986288577266681586
Q gi|254780877|r  680 E--KAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIIL  757 (853)
Q Consensus       680 E--Kah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~  757 (853)
                      =  +..+-+.+.|++|+|.=. .         .+--+|.|||+.-+.+.+               .|.+-.+.||-+-..
T Consensus       182 G~e~~t~w~~e~lf~IIn~Ry-~---------~~kptIiTTNl~~~eL~~---------------~~~~Ri~sRl~e~~~  236 (262)
T PRK08116        182 GAEKDTEWVREKLYNIIDSRY-R---------KGLPTIFTTNLSLEELKN---------------QYGKRTYSRILEMCT  236 (262)
T ss_pred             CCCCCCHHHHHHHHHHHHHHH-H---------CCCCEEEECCCCHHHHHH---------------HHHHHHHHHHHHCCE
T ss_conf             145698789999999999999-7---------699989987999999999---------------863799999986778


Q ss_pred             CCCCCHHHH-HHHHHHHHHHHHHHH
Q ss_conf             288998999-999999999999999
Q gi|254780877|r  758 FEKLRKEDM-AKIVRIQLGRVLSLI  781 (853)
Q Consensus       758 F~~l~~~~~-~~i~~~~l~~l~~~l  781 (853)
                      .-.++.++. ..++...++.+.++|
T Consensus       237 ~v~~~G~d~R~~~a~~k~~~~~~~l  261 (262)
T PRK08116        237 PVKNEGKSYRREIAKEKLERLKELL  261 (262)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHH
T ss_conf             9985177887999999999999860


No 182
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=98.55  E-value=1.3e-05  Score=64.64  Aligned_cols=215  Identities=22%  Similarity=0.347  Sum_probs=123.5

Q ss_pred             CCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHH-CCCCHHCCCC-CCCCCC---HHHHCCC
Q ss_conf             6512898726786168899999998723776530022447740345320130-4771120356-677421---1322156
Q gi|254780877|r  596 RPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLI-GSPPGYVGYE-EGGALT---EAVRRHP  670 (853)
Q Consensus       596 ~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~Li-GappGYvG~~-~gg~Lt---e~vr~~P  670 (853)
                      ||  ...+.||+|||||.+||.||..|-|.. .--|+.|-.|....|-.-.+ |=-|.=.||. ..|.+.   ++-+++|
T Consensus       194 Kk--nvIL~G~pGtGKT~lAk~lA~~l~g~~-~~~rv~~VqfhpsysYEDfi~Gyrp~~~gf~~~~G~f~~~~~~A~~~p  270 (459)
T PRK11331        194 KK--NIILQGPPGVGKTFVARRLAYLLTGEK-APQRVNMVQFHQSYSYEDFIQGYRPNGVGFRRKDGIFYNFCQQAKEQP  270 (459)
T ss_pred             CC--CEEEECCCCCCHHHHHHHHHHHHHCCC-CCCCEEEEEECCCCCHHHHHCCCCCCCCCCEECCCHHHHHHHHHHHCC
T ss_conf             88--279658999887899999999970788-778468998358866178764605688861326836999999998498


Q ss_pred             C--CEEEEHHHHHCCHH-HHHHHHHHHHC-CE-----EE--CCC--CCEE-ECCCCEEEECCCHHHHHHHCCHHHHHHHH
Q ss_conf             4--10220214414989-99999998404-57-----88--799--9778-30331559548512687640326799999
Q gi|254780877|r  671 Y--QVVLFDEIEKAHSD-VHNILLQVLDD-GR-----LT--DSQ--GRTV-DFRNTLIIMTSNLGAEYLIEDGDSVHDKV  736 (853)
Q Consensus       671 ~--sVil~DEiEKah~~-v~~~llqild~-G~-----lt--d~~--G~~v-~f~n~iii~TsN~G~~~~~~~~~~~~~~~  736 (853)
                      .  .|+++|||..++.. +|.=||.+++. .|     ++  =+.  |... =-.|..||-|-|..        +..-..+
T Consensus       271 ~~~y~~iideinr~~~~~~fgel~~liE~dkR~~~~~~~l~ys~~~~~~f~vP~Nl~iigtmNta--------drs~~~~  342 (459)
T PRK11331        271 EKKYVFIIDEINRANLSKVFGEVMMLMEHDKRGENWSVPLTYSENDEERFYVPENVYIIGLMNTA--------DRSLAVV  342 (459)
T ss_pred             CCCEEEEEEHHHCCCHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCEECCCCCEEEEEECCCC--------CHHHHHH
T ss_conf             98769998432033889999999999641256765225630036888533468865999850334--------1068878


Q ss_pred             HHHHHHHCC-----HHHHCCCCCEEECC------CCCHHHHHHHHHHHHHHHHHHHHHC----CCEEEECHHHHHHHHHC
Q ss_conf             999986288-----57726668158628------8998999999999999999999857----98999988999999970
Q gi|254780877|r  737 MGIVRSAFK-----PEFLNRLDEIILFE------KLRKEDMAKIVRIQLGRVLSLIKER----NISMDFDDQVIDWLSCR  801 (853)
Q Consensus       737 ~~~l~~~f~-----peflnRid~iv~F~------~l~~~~~~~i~~~~l~~l~~~l~~~----~i~l~~~~~~~~~l~~~  801 (853)
                      --+|+..|.     |+|     ++.-|.      ......... +...+..+++++...    +-...+--+   |++..
T Consensus       343 d~alrRrf~f~~~~pd~-----d~~~~~~~l~~~~~~~~~~~~-l~~~l~~LN~rI~~de~lLgrd~~IGHS---YF~~~  413 (459)
T PRK11331        343 DYALRRRFSFIDIEPGF-----DTPQFRNFLLNKKAEPSFVES-LCQKMNELNQEISKEATILGKGFRIGHS---YFCCG  413 (459)
T ss_pred             HHHHHHHHCCEECCCCC-----CHHHHHHHHHHCCCCHHHHHH-HHHHHHHHHHHHHHCCCCCCCCCEECHH---HHCCC
T ss_conf             99998650212158986-----605554333203433147999-9999999999986321137998772103---20666


Q ss_pred             C-CCCCCCCHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             8-9822062157999998733499999970
Q gi|254780877|r  802 G-YDPSYGARPLKRVIQRYIQNPLAERVLS  830 (853)
Q Consensus       802 ~-~~~~~GaR~l~r~i~~~i~~~la~~il~  830 (853)
                      . -...-...-++++++.+|.+.|-++.-.
T Consensus       414 ~~~~~~~~~~~L~~I~~~eIiPLLqEYfFD  443 (459)
T PRK11331        414 LEDGTSPDTQWLREIVMTDIAPLLEEYFFD  443 (459)
T ss_pred             CCCCCCHHHHHHHHHHHHCHHHHHHHHCCC
T ss_conf             555664368999999985327877887059


No 183
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=98.55  E-value=2.3e-06  Score=70.73  Aligned_cols=169  Identities=27%  Similarity=0.432  Sum_probs=119.9

Q ss_pred             HHHHHCCCCCCCCCHHHHHHHHHHHHCCC----------CCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEE
Q ss_conf             69987298533333578999999963367----------77866895288740777999999987348998444574378
Q gi|254780877|r  169 TEEARNGKLDPVIGRDDEMRRAIQVLSRR----------TKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLM  238 (853)
Q Consensus       169 Te~Ar~GkLDPVIGRe~EI~~~~~iL~r~----------~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~  238 (853)
                      ++.-.+-.+|-|||.++- .+-..++.+-          .-.|++.-|+||.|||-.+..||.   +.+||       ++
T Consensus       112 ~e~~~~it~ddViGqEeA-K~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalan---e~kvp-------~l  180 (368)
T COG1223         112 REIISDITLDDVIGQEEA-KRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALAN---EAKVP-------LL  180 (368)
T ss_pred             HHHHCCCCHHHHHCHHHH-HHHHHHHHHHHHCHHHHCCCCCCEEEEECCCCCCHHHHHHHHHC---CCCCC-------EE
T ss_conf             566136617664163988-88879999996496876345754168778999648799998725---45785-------48


Q ss_pred             EEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHH-CCCCCCCCCCCHHHHHHHHH-------CCCCEEE
Q ss_conf             873135421745420245458999999860799769996362773-02666554335888876531-------2466048
Q gi|254780877|r  239 ALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVL-VGAGKTDGAMDASNLLKPSL-------ARGELHC  310 (853)
Q Consensus       239 ~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~-~gaG~~~g~~Daan~LKP~L-------arG~l~~  310 (853)
                      .+....|+.  .|.|+-..|+..+.+-+.+.. ++|.||||+..| +.-+-++=-.|++.+.-..|       .+-.+-+
T Consensus       181 ~vkat~liG--ehVGdgar~Ihely~rA~~~a-PcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvt  257 (368)
T COG1223         181 LVKATELIG--EHVGDGARRIHELYERARKAA-PCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVT  257 (368)
T ss_pred             EECHHHHHH--HHHHHHHHHHHHHHHHHHHCC-CEEEEEHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCEEE
T ss_conf             711688888--774359899999999887519-84998400245553045788645499999999985017445775699


Q ss_pred             EEEECHHHHHHHHHCCHHHHHCCC-EEECCCCCHHHHHHHHHHHHHH
Q ss_conf             997448999997300111320231-1111577767899999997898
Q gi|254780877|r  311 IGATTLDEYRKYIEKDPALARRFQ-SLLVGEPTVTDTISILRGLKER  356 (853)
Q Consensus       311 IgaTT~~Eyrk~iEkD~Al~RRFq-~i~V~Eps~~~t~~iL~gl~~~  356 (853)
                      |+||..-+-     =|+|.-.||+ -|.-.=|+.++-+.||+.-...
T Consensus       258 IaaTN~p~~-----LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~  299 (368)
T COG1223         258 IAATNRPEL-----LDPAIRSRFEEEIEFKLPNDEERLEILEYYAKK  299 (368)
T ss_pred             EEECCCHHH-----CCHHHHHHHHHEEEEECCCHHHHHHHHHHHHHH
T ss_conf             950598465-----078888655650656488858999999998985


No 184
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=98.54  E-value=3.1e-06  Score=69.64  Aligned_cols=261  Identities=19%  Similarity=0.271  Sum_probs=135.8

Q ss_pred             HCCCHHHHHHHHHHHHCC---CHHHHHHCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEEC
Q ss_conf             016866789998766178---66775100000001235547767459489999999999874101236566512898726
Q gi|254780877|r  529 EVVTSDNIANIVSRWTGI---PVDKMLESDREKFLRIETEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLG  605 (853)
Q Consensus       529 ~~V~~~dVa~vvS~~TGI---Pv~kl~~~E~ekLl~l~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~G  605 (853)
                      ++....+..+|+....|-   |..........  .+..-.+ +-|+||++|-+++.-+    -+|-.       .+||.|
T Consensus       140 ~v~~~~~l~ev~~~l~g~~~l~~~~~~~~~~~--~~~~~D~-~DV~GQ~~AKrAleiA----AAGgH-------nLl~~G  205 (490)
T COG0606         140 PVYGARYLEEVVNFLEGKLRLPIPIPSEVIES--FSLAPDF-KDVKGQEQAKRALEIA----AAGGH-------NLLLVG  205 (490)
T ss_pred             CCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCC--CCCCCCH-HHHCCCHHHHHHHHHH----HHCCC-------CEEEEC
T ss_conf             72533029999998648867787786421134--4457666-6643849999999999----84388-------678756


Q ss_pred             CCCHHHHHHHHHHHHHHCCC------CCCCCCC-C-----------HHHHCCC-CCC--CHHHCCCCHHCCCCCCCCCCH
Q ss_conf             78616889999999872377------6530022-4-----------4774034-532--013047711203566774211
Q gi|254780877|r  606 PTGVGKTELVKSLARLLFDD------ENSMIRI-D-----------MSEYMEK-HSV--SRLIGSPPGYVGYEEGGALTE  664 (853)
Q Consensus       606 ptGvGKTelak~la~~lf~~------~~~lir~-d-----------Msey~e~-~~v--s~LiGappGYvG~~~gg~Lte  664 (853)
                      |+|+|||.+|+.+...|=--      |-+.|.. +           ---|.-+ |++  ..|+|   || |.-+    +.
T Consensus       206 pPGtGKTmla~Rl~~lLPpls~~E~lE~s~I~s~~~~~~~~~~~~~~rPFr~PHHsaS~~aLvG---GG-~~p~----PG  277 (490)
T COG0606         206 PPGTGKTMLASRLPGLLPPLSIPEALEVSAIHSLAGDLHEGCPLKIHRPFRAPHHSASLAALVG---GG-GVPR----PG  277 (490)
T ss_pred             CCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCEECCCCCCCCCCHHHHHHC---CC-CCCC----CC
T ss_conf             9988656764231025999870888999888763543246786411078768874022889737---89-9889----87


Q ss_pred             HHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECC--CCCEEECCCCEEEECCCHHHHHHHCC-------HHHHHHH
Q ss_conf             32215641022021441498999999998404578879--99778303315595485126876403-------2679999
Q gi|254780877|r  665 AVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDS--QGRTVDFRNTLIIMTSNLGAEYLIED-------GDSVHDK  735 (853)
Q Consensus       665 ~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~--~G~~v~f~n~iii~TsN~G~~~~~~~-------~~~~~~~  735 (853)
                      .|-.--+.|++|||+--=..+|++.|-|=|++|.++=+  .++.....+-+.+...|.---.....       .......
T Consensus       278 eIsLAH~GVLFLDElpef~~~iLe~LR~PLE~g~i~IsRa~~~v~ypa~Fqlv~AmNpcpcG~~~~~~~~C~c~~~~~~~  357 (490)
T COG0606         278 EISLAHNGVLFLDELPEFKRSILEALREPLENGKIIISRAGSKVTYPARFQLVAAMNPCPCGNLGAPLRRCPCSPRQIKR  357 (490)
T ss_pred             CEEEECCCEEEEECCCHHHHHHHHHHHCCCCCCCEEEEECCCEEEEEEEEEEHHHCCCCCCCCCCCCCCCCCCCHHHHHH
T ss_conf             35430387788614421059999997374125817999758716872126775223999764788877775788788778


Q ss_pred             HHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHH----------HHHHHHHHH-HHHHHHCC--CEEEECHHHHHHHHHCC
Q ss_conf             999998628857726668158628899899999----------999999999-99998579--89999889999999708
Q gi|254780877|r  736 VMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAK----------IVRIQLGRV-LSLIKERN--ISMDFDDQVIDWLSCRG  802 (853)
Q Consensus       736 ~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~----------i~~~~l~~l-~~~l~~~~--i~l~~~~~~~~~l~~~~  802 (853)
                      ..+.+    +--|+.|||..|.-..++..++.+          +-.....-- .+..+..+  ++-.++...++..+.  
T Consensus       358 Y~~kl----Sgp~lDRiDl~vev~~~~~~e~~~~~~~~ess~~v~~rVa~AR~~Q~~R~~~~~~Na~l~~~~l~k~~~--  431 (490)
T COG0606         358 YLNKL----SGPFLDRIDLMVEVPRLSAGELIRQVPTGESSAGVRERVAKAREAQIARAGRIGINAELSEEALRKFCA--  431 (490)
T ss_pred             HHHHH----HHHHHHHHHHEECCCCCCHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCHHCCHHHHHHHCC--
T ss_conf             89874----378775524110046789787614789898758899999999999999853568542128999997626--


Q ss_pred             CCCCCCCHHHHHHHHH
Q ss_conf             9822062157999998
Q gi|254780877|r  803 YDPSYGARPLKRVIQR  818 (853)
Q Consensus       803 ~~~~~GaR~l~r~i~~  818 (853)
                       =...++.-++..+++
T Consensus       432 -L~~~~~~~L~~al~~  446 (490)
T COG0606         432 -LQREDADLLKAALER  446 (490)
T ss_pred             -CCHHHHHHHHHHHHH
T ss_conf             -577679999999996


No 185
>pfam00308 Bac_DnaA Bacterial dnaA protein.
Probab=98.53  E-value=5.2e-06  Score=67.83  Aligned_cols=174  Identities=21%  Similarity=0.391  Sum_probs=96.0

Q ss_pred             CCCCCEEEEEECCCCHHHHHHHHHHHHHHCCC--CCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHC--C
Q ss_conf             56651289872678616889999999872377--6530022447740345320130477112035667742113221--5
Q gi|254780877|r  594 PQRPMGSFMFLGPTGVGKTELVKSLARLLFDD--ENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRR--H  669 (853)
Q Consensus       594 ~~~p~~~flf~GptGvGKTelak~la~~lf~~--~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~--~  669 (853)
                      |..|...+++.||+|+|||.|..+++......  ....+-+++++|... .+..+-.          ++  .+..+.  .
T Consensus        30 ~~~~~npl~i~G~~G~GKTHLLqA~~~~~~~~~~~~~v~yl~~~~~~~~-~~~~l~~----------~~--~~~f~~~l~   96 (219)
T pfam00308        30 PGKAYNPLFIYGGVGLGKTHLLHAIGNYALRNFPNLRVVYLTSEEFLND-FVDALRD----------NK--IEAFKKSYR   96 (219)
T ss_pred             CCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEEEHHHHHHH-HHHHHHC----------CC--HHHHHHHHH
T ss_conf             5876782699889999888999999999998499982888439999998-8999981----------88--889999976


Q ss_pred             CCCEEEEHHHHHC--CHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHH
Q ss_conf             6410220214414--98999999998404578879997783033155954851268764032679999999998628857
Q gi|254780877|r  670 PYQVVLFDEIEKA--HSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPE  747 (853)
Q Consensus       670 P~sVil~DEiEKa--h~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~pe  747 (853)
                      -..++++|+|+.-  .+.....|+.+++.=  .++        +.-+++||+.....+                ..+.|.
T Consensus        97 ~~d~l~iDDi~~l~~~~~~ee~lf~l~N~~--~~~--------~~~lllts~~~p~~l----------------~~~~~d  150 (219)
T pfam00308        97 NVDLLLIDDIQFLAGKEKTQEEFFHTFNAL--HEN--------NKQIVLTSDRPPKEL----------------EGFEDR  150 (219)
T ss_pred             HCCHHHHCCHHHHCCCHHHHHHHHHHHHHH--HHC--------CCEEEEECCCCCCCC----------------CCCCHH
T ss_conf             323365223676568647899999999999--972--------986999779981002----------------453277


Q ss_pred             HHCCC--CCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHH
Q ss_conf             72666--815862889989999999999999999998579899998899999997089822062157999998
Q gi|254780877|r  748 FLNRL--DEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQR  818 (853)
Q Consensus       748 flnRi--d~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~  818 (853)
                      +..|+  .-++.-.+++.++...|+...       ...+|+.  +++++.+||+.+. +..  .|.|-..+.+
T Consensus       151 L~SRL~~g~~~~i~~pdd~~~~~iL~~~-------a~~r~l~--l~~~v~~yl~~r~-~R~--~r~L~~~L~~  211 (219)
T pfam00308       151 LRSRFEWGLIIAIEPPDLETRLAILRKK-------AEEENIN--IPNEVLNFIAQRI-TDN--VRELEGALNR  211 (219)
T ss_pred             HHHHHHCCEEEECCCCCHHHHHHHHHHH-------HHHCCCC--CCHHHHHHHHHHC-CCC--HHHHHHHHHH
T ss_conf             9999868756611699999999999999-------9984999--9999999999842-798--9999999999


No 186
>PRK12377 putative replication protein; Provisional
Probab=98.53  E-value=4.6e-07  Score=76.36  Aligned_cols=105  Identities=26%  Similarity=0.413  Sum_probs=69.0

Q ss_pred             CEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHC--CCCCEEE
Q ss_conf             12898726786168899999998723776530022447740345320130477112035667742113221--5641022
Q gi|254780877|r  598 MGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRR--HPYQVVL  675 (853)
Q Consensus       598 ~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~--~P~sVil  675 (853)
                      .++++|+||||||||.||.+|+..+.......+-+.+++.     +.+|-.+      |++| .+-+.+.+  .-+.++.
T Consensus       101 ~~NlIf~G~pGtGKTHLA~AIg~~a~~~G~sVlF~t~~dL-----v~~L~~a------~~~g-~~~~k~l~~l~~~dLLI  168 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVPDV-----MSRLHES------YDNG-QSGEKFLQELCKVDLLV  168 (248)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEHHHH-----HHHHHHH------HHCC-CCHHHHHHHHHCCCEEE
T ss_conf             8608998999987889999999999987996999889999-----9999999------9848-50999999973389898


Q ss_pred             EHHHH--HCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHH
Q ss_conf             02144--14989999999984045788799977830331559548512687
Q gi|254780877|r  676 FDEIE--KAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEY  724 (853)
Q Consensus       676 ~DEiE--Kah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~  724 (853)
                      +||+=  ...+.--.+|.|+++.-.-          +..=+|+|||+....
T Consensus       169 IDElG~~~~s~~~~~llfqlI~~Ry~----------~~ks~IiTTNL~f~e  209 (248)
T PRK12377        169 LDEIGIQRETKNEQVVLNQIIDRRTA----------SMRSVGMLTNLNHEA  209 (248)
T ss_pred             EHHCCCCCCCHHHHHHHHHHHHHHHH----------CCCCEEEECCCCHHH
T ss_conf             60005788986799999999999985----------579868975899779


No 187
>PRK05642 DNA replication initiation factor; Validated
Probab=98.53  E-value=1.2e-05  Score=64.89  Aligned_cols=186  Identities=17%  Similarity=0.233  Sum_probs=117.5

Q ss_pred             CCCHHHHHHHHHHHHCCCC---CCCE-EEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHH
Q ss_conf             3335789999999633677---7866-89528874077799999998734899844457437887313542174542024
Q gi|254780877|r  180 VIGRDDEMRRAIQVLSRRT---KNNP-VLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEF  255 (853)
Q Consensus       180 VIGRe~EI~~~~~iL~r~~---k~n~-~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~  255 (853)
                      ++|...+.-..+.-++...   .+|| .|.|++|.|||.+.++.+....+.       +++++.+++..+.         
T Consensus        22 i~g~N~~a~~~~~~l~~~~~~~~~~~l~i~G~~G~GKTHLL~A~~~~~~~~-------~~~~~yl~~~~~~---------   85 (234)
T PRK05642         22 YPGANAAALGYVERLCEADAGWTESLIYLWGKDGVGRSHLLQAACLRFEQR-------GEPAVYLPLAELL---------   85 (234)
T ss_pred             CCCCCHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHC-------CCCEEEEEHHHHH---------
T ss_conf             718759999999998760678778838998899998899999999999807-------9967997899987---------


Q ss_pred             HHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEE-CHHHHHHHHHCCHHHHHCCC
Q ss_conf             54589999998607997699963627730266655433588887653124660489974-48999997300111320231
Q gi|254780877|r  256 EERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGAT-TLDEYRKYIEKDPALARRFQ  334 (853)
Q Consensus       256 e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaT-T~~Eyrk~iEkD~Al~RRFq  334 (853)
                       +..-.+++.+...+   .+.||++|.+.|-...+-.  .-+++--....|.=-++.++ .|.+.. ...+  -|..||+
T Consensus        86 -~~~~~~~~~l~~~d---~l~IDDi~~i~g~~~~e~~--lF~l~N~~~~~~~~llits~~~P~~l~-~~l~--DL~SRl~  156 (234)
T PRK05642         86 -DRGPELLDNLEQYE---LVCIDDLDVIAGKADWEEA--LFHLFNRLRDSGRRLLLAASKSPRELP-VKLP--DLKSRLT  156 (234)
T ss_pred             -HHHHHHHHHHHHCC---EEEEECHHHHCCCHHHHHH--HHHHHHHHHHCCCEEEEECCCCHHHHC-CCHH--HHHHHHH
T ss_conf             -54499986242279---8989364554688599999--999999999839959995787955523-0016--7999995


Q ss_pred             ---EEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             ---111157776789999999789865414961015899999863332024576747789999999
Q gi|254780877|r  335 ---SLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEA  397 (853)
Q Consensus       335 ---~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA  397 (853)
                         .+.+++|+.++-+.+|+...    ...|+.++++++.+.++-..|=+..   =..+++-||.+
T Consensus       157 ~~~~~~i~~l~d~~~~~iL~~~a----~~rgi~l~~~v~~yl~~r~~R~~~~---L~~~l~~Ld~~  215 (234)
T PRK05642        157 LALVFQMRGLSDEDKLRALQLRA----SRRGLHLTDEVGHFILTRGTRSMSA---LFDLLERLDQA  215 (234)
T ss_pred             CCCEEEECCCCHHHHHHHHHHHH----HHCCCCCCHHHHHHHHHHCCCCHHH---HHHHHHHHHHH
T ss_conf             78127514899899999999997----7546899989999999973588999---99999999999


No 188
>KOG0735 consensus
Probab=98.52  E-value=2.5e-06  Score=70.38  Aligned_cols=157  Identities=24%  Similarity=0.383  Sum_probs=88.8

Q ss_pred             HCCHHHHHHHHHHHHHH--------HHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCC
Q ss_conf             45948999999999987--------4101236566512898726786168899999998723776530022447740345
Q gi|254780877|r  570 VIGQSAAVESVSNALRR--------FRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKH  641 (853)
Q Consensus       570 v~gq~~ai~~v~~~~~~--------~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~  641 (853)
                      |-|-.++.+.+-+.|..        ...+|.   -+-|. |+.||+|.|||.||-++|..-   .-++|..-..|.    
T Consensus       669 igg~~~~k~~l~~~i~~P~kyp~if~~~plr---~~~gi-LLyGppGcGKT~la~a~a~~~---~~~fisvKGPEl----  737 (952)
T KOG0735         669 IGGLFEAKKVLEEVIEWPSKYPQIFANCPLR---LRTGI-LLYGPPGCGKTLLASAIASNS---NLRFISVKGPEL----  737 (952)
T ss_pred             CCCHHHHHHHHHHHHHCCCCCHHHHHHCCCC---CCCCE-EEECCCCCCHHHHHHHHHHHC---CEEEEEECCHHH----
T ss_conf             3358999999999985541036788608866---65545-887799985788888888537---805998258899----


Q ss_pred             CCCHHHCCCCHHCCCCCC-CCCCHHHH-CCCCCEEEEHHHHHCCH-----------HHHHHHHHHHHCCEEECCCCCEEE
Q ss_conf             320130477112035667-74211322-15641022021441498-----------999999998404578879997783
Q gi|254780877|r  642 SVSRLIGSPPGYVGYEEG-GALTEAVR-RHPYQVVLFDEIEKAHS-----------DVHNILLQVLDDGRLTDSQGRTVD  708 (853)
Q Consensus       642 ~vs~LiGappGYvG~~~g-g~Lte~vr-~~P~sVil~DEiEKah~-----------~v~~~llqild~G~ltd~~G~~v~  708 (853)
                       .++-||+.      +|+ --|-++-+ .+| ||++|||++--.|           .|.|-||.-||-..-         
T Consensus       738 -L~KyIGaS------Eq~vR~lF~rA~~a~P-CiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Eg---------  800 (952)
T KOG0735         738 -LSKYIGAS------EQNVRDLFERAQSAKP-CILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEG---------  800 (952)
T ss_pred             -HHHHHCCC------HHHHHHHHHHHHCCCC-EEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCC---------
T ss_conf             -99874500------7889999998651497-489712102437666877777429999999876036334---------


Q ss_pred             CCC-CEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHH
Q ss_conf             033-15595485126876403267999999999862885772666815862889989999999999
Q gi|254780877|r  709 FRN-TLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQ  773 (853)
Q Consensus       709 f~n-~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~  773 (853)
                      +.. .|+-.||.-         +-+..+       .+||   +|+|..|.-.+-++.+...|+...
T Consensus       801 l~GV~i~aaTsRp---------dliDpA-------LLRp---GRlD~~v~C~~P~~~eRl~il~~l  847 (952)
T KOG0735         801 LDGVYILAATSRP---------DLIDPA-------LLRP---GRLDKLVYCPLPDEPERLEILQVL  847 (952)
T ss_pred             CCEEEEEEECCCC---------CCCCHH-------HCCC---CCCCEEEECCCCCCHHHHHHHHHH
T ss_conf             4538999733783---------436776-------6288---765401567998928999999998


No 189
>PRK08903 hypothetical protein; Validated
Probab=98.51  E-value=2.6e-06  Score=70.28  Aligned_cols=153  Identities=16%  Similarity=0.290  Sum_probs=93.7

Q ss_pred             EEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHH
Q ss_conf             98726786168899999998723776530022447740345320130477112035667742113221564102202144
Q gi|254780877|r  601 FMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIE  680 (853)
Q Consensus       601 flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEiE  680 (853)
                      +.+.||+|+|||.|..+++..........+.+++.++.+     .+.+       +            .-..++++|.|+
T Consensus        45 l~i~G~~G~GKTHLl~a~~~~~~~~~~~~~yl~~~~~~~-----~~~~-------~------------~~~d~l~iDDi~  100 (227)
T PRK08903         45 FYLWGEAGSGRSHLLQALVAAASEGGKNARYLDPASPLL-----AFDF-------D------------PRAELYAVDDVE  100 (227)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECCCCCHH-----HHHH-------H------------HCCCEEEEECCC
T ss_conf             999899999888999999999980699749965110457-----7742-------0------------018989996411


Q ss_pred             HCCHH----HHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCC--C
Q ss_conf             14989----99999998404578879997783033155954851268764032679999999998628857726668--1
Q gi|254780877|r  681 KAHSD----VHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLD--E  754 (853)
Q Consensus       681 Kah~~----v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid--~  754 (853)
                      .-...    +|+++=.+.+.|.             +++++||+.....               +  .+.|.+..|+-  -
T Consensus       101 ~i~~~~q~~lF~l~N~~~~~~~-------------~~ll~s~~~~p~~---------------l--~~~~DL~SRl~~gl  150 (227)
T PRK08903        101 RLDDAQQIALFNLFNRVRAHGK-------------TALLVAGPAAPLA---------------L--DVREDLRTRLGWGL  150 (227)
T ss_pred             CCCCHHHHHHHHHHHHHHHCCC-------------CEEEECCCCCHHH---------------C--CCCHHHHHHHHCCC
T ss_conf             4895699999999999997299-------------4899718997120---------------1--20089999993897


Q ss_pred             EEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHHH
Q ss_conf             58628899899999999999999999985798999988999999970898220621579999987
Q gi|254780877|r  755 IILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQRY  819 (853)
Q Consensus       755 iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~  819 (853)
                      ++...|++.+.+..|+..       +...+|+  .+++++++||+.+ ++..+  |.|..++.+.
T Consensus       151 ~~~i~~pdde~~~~iL~~-------~a~~rgl--~l~~~v~~yl~~r-~~R~~--~~L~~~l~~L  203 (227)
T PRK08903        151 VYEVKPLSDEDKIAALKA-------AAAERGL--QLADEVPDYLLTH-FRRDM--PSLMALLDAL  203 (227)
T ss_pred             EEEEECCCHHHHHHHHHH-------HHHHCCC--CCCHHHHHHHHHH-HCCCH--HHHHHHHHHH
T ss_conf             389979799999999999-------9996299--9988999999998-34789--9999999999


No 190
>KOG0731 consensus
Probab=98.50  E-value=8.9e-06  Score=65.90  Aligned_cols=170  Identities=25%  Similarity=0.393  Sum_probs=103.0

Q ss_pred             HHHHCCHHHHHHHHHHHHHHH-------HCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCC
Q ss_conf             767459489999999999874-------1012365665128987267861688999999987237765300224477403
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRF-------RAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYME  639 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~-------~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e  639 (853)
                      -+-|.|.++|.+.+-.-+.-.       +.|.+-   |-|+ |++||+|+|||-|||++|-.=   .-.++...-|||.|
T Consensus       310 FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKi---PkGv-LL~GPPGTGKTLLAKAiAGEA---gVPF~svSGSEFvE  382 (774)
T KOG0731         310 FKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKI---PKGV-LLVGPPGTGKTLLAKAIAGEA---GVPFFSVSGSEFVE  382 (774)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHCCHHHHHHCCCCC---CCCE-EEECCCCCCHHHHHHHHHCCC---CCCEEEECHHHHHH
T ss_conf             0102670899999999999843989998747767---6751-787899986789999885305---89646413378888


Q ss_pred             CCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHC------------CHHHHHHHHHHHH--CCEEECCCCC
Q ss_conf             4532013047711203566774211322156410220214414------------9899999999840--4578879997
Q gi|254780877|r  640 KHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKA------------HSDVHNILLQVLD--DGRLTDSQGR  705 (853)
Q Consensus       640 ~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKa------------h~~v~~~llqild--~G~ltd~~G~  705 (853)
                           .+.|--+--|     --|...-|.+--|+|..|||+--            +.+-=+.|-|+|-  ||..+     
T Consensus       383 -----~~~g~~asrv-----r~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~-----  447 (774)
T KOG0731         383 -----MFVGVGASRV-----RDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFET-----  447 (774)
T ss_pred             -----HHCCCCHHHH-----HHHHHHHHCCCCEEEEECCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCC-----
T ss_conf             -----7603434888-----9999874326980797145420031255666678880788899988787527767-----


Q ss_pred             EEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             78303315595485126876403267999999999862885772666815862889989999999999999999
Q gi|254780877|r  706 TVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLS  779 (853)
Q Consensus       706 ~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~  779 (853)
                        + ++.|++.++|-        .+...    .+   ..+|   +|+|..|.-..-+...-..|...++..++-
T Consensus       448 --~-~~vi~~a~tnr--------~d~ld----~a---llrp---GRfdr~i~i~~p~~~~r~~i~~~h~~~~~~  500 (774)
T KOG0731         448 --S-KGVIVLAATNR--------PDILD----PA---LLRP---GRFDRQIQIDLPDVKGRASILKVHLRKKKL  500 (774)
T ss_pred             --C-CCEEEEECCCC--------CCCCC----HH---HCCC---CCCCCCEECCCCCHHHHHHHHHHHHHCCCC
T ss_conf             --7-84799811688--------66428----87---6498---755552324698514168999998621577


No 191
>pfam00308 Bac_DnaA Bacterial dnaA protein.
Probab=98.50  E-value=1.4e-06  Score=72.37  Aligned_cols=198  Identities=18%  Similarity=0.253  Sum_probs=117.1

Q ss_pred             CCCH-HHHHHHHHHHHCCC-CC--CCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHH
Q ss_conf             3335-78999999963367-77--86689528874077799999998734899844457437887313542174542024
Q gi|254780877|r  180 VIGR-DDEMRRAIQVLSRR-TK--NNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEF  255 (853)
Q Consensus       180 VIGR-e~EI~~~~~iL~r~-~k--~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~  255 (853)
                      ++|- ....-...+-+++. ..  |...|.|++|+|||.+.++++..+.++.     .+.++..++...+..- -..+=.
T Consensus        11 ~vg~~N~~a~~~~~~i~~~~~~~~npl~i~G~~G~GKTHLLqA~~~~~~~~~-----~~~~v~yl~~~~~~~~-~~~~l~   84 (219)
T pfam00308        11 VIGSSNRFAHAAALAVAEAPGKAYNPLFIYGGVGLGKTHLLHAIGNYALRNF-----PNLRVVYLTSEEFLND-FVDALR   84 (219)
T ss_pred             CCCCCHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHC-----CCCEEEEEEHHHHHHH-HHHHHH
T ss_conf             2368389999999999967587678269988999988899999999999849-----9982888439999998-899998


Q ss_pred             HHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEE-CHHHHHHHHHCCHHHHHCC-
Q ss_conf             54589999998607997699963627730266655433588887653124660489974-4899999730011132023-
Q gi|254780877|r  256 EERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGAT-TLDEYRKYIEKDPALARRF-  333 (853)
Q Consensus       256 e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaT-T~~Eyrk~iEkD~Al~RRF-  333 (853)
                      ++.+....+.+...+   +|+||++|.+.|....+-  -.-+++.-...+|.--+|.+. .|.+. ..+.+|  |..|| 
T Consensus        85 ~~~~~~f~~~l~~~d---~l~iDDi~~l~~~~~~ee--~lf~l~N~~~~~~~~lllts~~~p~~l-~~~~~d--L~SRL~  156 (219)
T pfam00308        85 DNKIEAFKKSYRNVD---LLLIDDIQFLAGKEKTQE--EFFHTFNALHENNKQIVLTSDRPPKEL-EGFEDR--LRSRFE  156 (219)
T ss_pred             CCCHHHHHHHHHHCC---HHHHCCHHHHCCCHHHHH--HHHHHHHHHHHCCCEEEEECCCCCCCC-CCCCHH--HHHHHH
T ss_conf             188889999976323---365223676568647899--999999999972986999779981002-453277--999986


Q ss_pred             --CEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHH
Q ss_conf             --11111577767899999997898654149610158999998633320245767477899999999987
Q gi|254780877|r  334 --QSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEASARV  401 (853)
Q Consensus       334 --q~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~A~~  401 (853)
                        -.+.+++|+.++-..||+...    ...++.++++++.+.++-..|=      +-.=+.+||.-+++.
T Consensus       157 ~g~~~~i~~pdd~~~~~iL~~~a----~~r~l~l~~~v~~yl~~r~~R~------~r~L~~~L~~L~~~~  216 (219)
T pfam00308       157 WGLIIAIEPPDLETRLAILRKKA----EEENINIPNEVLNFIAQRITDN------VRELEGALNRLLAFA  216 (219)
T ss_pred             CCEEEECCCCCHHHHHHHHHHHH----HHCCCCCCHHHHHHHHHHCCCC------HHHHHHHHHHHHHHH
T ss_conf             87566116999999999999999----9849999999999999842798------999999999999855


No 192
>PRK07132 DNA polymerase III subunit delta'; Validated
Probab=98.49  E-value=3.9e-06  Score=68.82  Aligned_cols=132  Identities=17%  Similarity=0.132  Sum_probs=78.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHHCCCCCH-HHCC--CEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCC---C-CEE
Q ss_conf             68952887407779999999873489984-4457--437887313542174542024545899999986079---9-769
Q gi|254780877|r  202 PVLIGDPGVGKTAIIEGLASRIINGDIPE-SLKG--KRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSED---G-EII  274 (853)
Q Consensus       202 ~~lvGe~GvGKtaive~la~~i~~~~vp~-~l~~--~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~---~-~~i  274 (853)
                      -++.|++|+|||+.+.-+|+.+...+... ...+  .-+..+|....-+. +      ++....++++...+   | .-|
T Consensus        23 YLF~G~~G~Gk~~~a~~~a~~l~~~~~~~~~~~~~~~~~~~id~~~~~i~-~------~~i~~~i~~~~~~~~~~~~~Kv   95 (303)
T PRK07132         23 FLLKSNYNNDLDESILYFLNKFNNLQSLNLNLEELPYNIFLFDIFDEDLS-K------EEFLSAIEKFSFSSFVSNQKKI   95 (303)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCEEECCCCCCHH-H------HHHHHHHHHHHHCCCCCCCEEE
T ss_conf             88678998679999999999972998788875456532304133222001-6------8899999999736655687069


Q ss_pred             EEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHH
Q ss_conf             99636277302666554335888876531246604899744899999730011132023111115777678999999
Q gi|254780877|r  275 LFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILR  351 (853)
Q Consensus       275 lfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~  351 (853)
                      ..|||+|++        +..|+|-|--.|..-.-.++.--...+..+..   +..-.|-|.+....++.++-...|.
T Consensus        96 ~IIdea~~l--------t~~A~NaLLKtLEEPp~~~~fil~t~~~~~il---~TI~SRCq~~~f~~~~~~~i~~~l~  161 (303)
T PRK07132         96 LIIKNIEKT--------SNSSLNALLKTIEEPSKNTYFLLTTKNINKVI---PTIVSRCQVINVKEPDQQKILAKLL  161 (303)
T ss_pred             EEEECHHHC--------CHHHHHHHHHHCCCCCCCEEEEEEECCHHHCC---HHHHHCCEEEECCCCCHHHHHHHHH
T ss_conf             998165533--------99999999987038986848999728824383---7786366566378899999999998


No 193
>PRK08084 DNA replication initiation factor; Provisional
Probab=98.48  E-value=4.4e-05  Score=60.27  Aligned_cols=189  Identities=15%  Similarity=0.155  Sum_probs=119.0

Q ss_pred             CCCHHHHHHHHHHHHCCCCCCC-EEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHH
Q ss_conf             3335789999999633677786-689528874077799999998734899844457437887313542174542024545
Q gi|254780877|r  180 VIGRDDEMRRAIQVLSRRTKNN-PVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEER  258 (853)
Q Consensus       180 VIGRe~EI~~~~~iL~r~~k~n-~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r  258 (853)
                      +.|-..++-..++.......++ ..|.|++|+|||.+.++....+.+.       +++++.+.+...          .+.
T Consensus        25 i~g~n~~~~~al~~~~~~~~~~~l~l~G~~G~GKTHLLqA~~~~~~~~-------~~~~~yl~~~~~----------~~~   87 (235)
T PRK08084         25 YPGDNDSLLAALQNVLRQEHSGYIYLWGREGAGRSHLLHAACAELSQR-------GDAVGYVPLDKR----------AWF   87 (235)
T ss_pred             CCCCCHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHHCC-------CCCEEEEEHHHH----------HHH
T ss_conf             448869999999999857898769998999988899999999999707-------985799877986----------651


Q ss_pred             HHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEE-EEEECHHHHHHHHHCCHHHHHCCC---
Q ss_conf             8999999860799769996362773026665543358888765312466048-997448999997300111320231---
Q gi|254780877|r  259 LKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHC-IGATTLDEYRKYIEKDPALARRFQ---  334 (853)
Q Consensus       259 ~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~-IgaTT~~Eyrk~iEkD~Al~RRFq---  334 (853)
                      ...+++.+...   -++.||++|.+.|....+-+  .-|++--....|.-++ +.+..+-..-....+  -|..||+   
T Consensus        88 ~~~~l~~l~~~---dll~iDDi~~i~g~~~~ee~--lF~l~N~~~~~g~~~ll~ts~~~P~~l~~~l~--DL~SRl~~g~  160 (235)
T PRK08084         88 VPEVLEGMEQL---SLVCIDNIECIAGDELWEMA--IFDLYNRILESGKTRLLITGDRPPRQLNLGLP--DLASRLDWGQ  160 (235)
T ss_pred             HHHHHHHHHHC---CEEEEECHHHHCCCHHHHHH--HHHHHHHHHHHCCCEEEEECCCCHHHCCCCCH--HHHHHHHCCC
T ss_conf             79999876418---98998274554699789999--99999999984896699967988243023128--8999995697


Q ss_pred             EEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q ss_conf             11115777678999999978986541496101589999986333202457674778999999999
Q gi|254780877|r  335 SLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEASA  399 (853)
Q Consensus       335 ~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~A  399 (853)
                      .+.+++|+.++-+.||+...    ...|+.++++.+.+.++-..|=+..   =..+++-||.++-
T Consensus       161 ~~~i~~~dde~~~~iL~~~a----~~rgl~l~~~V~~yl~~~~~R~~~~---L~~~l~~Ld~~Sl  218 (235)
T PRK08084        161 IYKLQPLSDEEKLQALQLRA----RLRGFELPEDVGRFLLKRLDREMRT---LFMTLDQLDKASI  218 (235)
T ss_pred             EEEECCCCHHHHHHHHHHHH----HHCCCCCCHHHHHHHHHHCCCCHHH---HHHHHHHHHHHHH
T ss_conf             27855999899999999999----9739999989999999861588999---9999999999999


No 194
>TIGR02881 spore_V_K stage V sporulation protein K; InterPro: IPR014232   Proteins in this entry include the stage V sporulation protein K (SpoVK), a close homologue of the Rubisco expression protein CbbX (IPR000470 from INTERPRO), and are members of an ATPase family associated with various cellular activities. These proteins are strictly limited to bacterial endospore-forming species, but are not found universally among members of this group; they are missing from the Clostridium species..
Probab=98.47  E-value=5.8e-06  Score=67.41  Aligned_cols=206  Identities=19%  Similarity=0.358  Sum_probs=129.0

Q ss_pred             HHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCC----CHHHCCCCHHC
Q ss_conf             99999987410123656651289872678616889999999872377653002244774034532----01304771120
Q gi|254780877|r  579 SVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSV----SRLIGSPPGYV  654 (853)
Q Consensus       579 ~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~v----s~LiGappGYv  654 (853)
                      -+.-.-+|...||+..+.-+ -++|-|.||+|||..|+.||+.+++         |+=.+=-|-|    +=|+|   -|+
T Consensus        24 ~i~i~~kR~~~GLk~~~~~L-HMiFKGNPGTGKTTVAR~~gklf~e---------mnvL~KGH~iE~ERADLVG---EYI   90 (261)
T TIGR02881        24 WIQINEKRKEEGLKTSKQVL-HMIFKGNPGTGKTTVARLLGKLFKE---------MNVLSKGHLIEVERADLVG---EYI   90 (261)
T ss_pred             HHHHHHHHHHHHHCCCCCEE-EEEEECCCCCCHHHHHHHHHHHHHH---------CCCCCCCCEEEEEECCCCC---CCC
T ss_conf             99998888751011488447-8774278668438999999999853---------3756788678876222122---320


Q ss_pred             CCCCCCCCC-HHHHCCCCCEEEEHHHHHC--------CHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHH
Q ss_conf             356677421-1322156410220214414--------9899999999840457887999778303315595485126876
Q gi|254780877|r  655 GYEEGGALT-EAVRRHPYQVVLFDEIEKA--------HSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYL  725 (853)
Q Consensus       655 G~~~gg~Lt-e~vr~~P~sVil~DEiEKa--------h~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~  725 (853)
                      ||..  +=| +.|++---.|++.||-=--        ..+-.|.|-.-++|-+           .+-|+|+-        
T Consensus        91 GHTA--qkTRe~~kkA~GGvLFiDEAYSLaRGGEKDFGKEAIDtLVK~mEd~~-----------~~lvlILA--------  149 (261)
T TIGR02881        91 GHTA--QKTREVIKKALGGVLFIDEAYSLARGGEKDFGKEAIDTLVKAMEDQR-----------NELVLILA--------  149 (261)
T ss_pred             CCHH--HHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCC-----------CCEEEEEE--------
T ss_conf             3004--89999999863880055777776148888766208889999876156-----------98689970--------


Q ss_pred             HCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHH----HHHHHHHC
Q ss_conf             40326799999999986288577266681586288998999999999999999999857989999889----99999970
Q gi|254780877|r  726 IEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQ----VIDWLSCR  801 (853)
Q Consensus       726 ~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~----~~~~l~~~  801 (853)
                       .-.++|.--+      .+.|-|-.|+.=.+-|..++.+++-.|+..++++       +.+.|  |++    +.++|...
T Consensus       150 -GY~~EM~yFL------~~NPGL~SRFPi~i~FPdY~~eeL~~Ia~~m~~~-------ReY~L--t~~A~~~lr~~l~~~  213 (261)
T TIGR02881       150 -GYSDEMDYFL------SLNPGLRSRFPISIDFPDYTVEELMEIAERMVKE-------REYKL--TEEAKWKLREHLAKV  213 (261)
T ss_pred             -CCHHHHHHHH------HCCCCCCCCCCCEEECCCCCHHHHHHHHHHHHHH-------HHHCC--CHHHHHHHHHHHHHH
T ss_conf             -8768999986------2077977766505418899888999999999864-------64225--788999999997412


Q ss_pred             C--CCCCC-CCHHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             8--98220-621579999987334999999708688
Q gi|254780877|r  802 G--YDPSY-GARPLKRVIQRYIQNPLAERVLSQTIS  834 (853)
Q Consensus       802 ~--~~~~~-GaR~l~r~i~~~i~~~la~~il~~~~~  834 (853)
                      .  ....+ .||-+|..|++-|-..=-+.+-...+.
T Consensus       214 ~~~~~~~~sNaR~vRN~iE~AIR~QAvRlL~~~~~~  249 (261)
T TIGR02881       214 DQLSSREFSNARYVRNIIEKAIRRQAVRLLKKSDYS  249 (261)
T ss_pred             HHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCC
T ss_conf             444210057620124288999999998764346435


No 195
>TIGR02397 dnaX_nterm DNA polymerase III, subunits gamma and tau; InterPro: IPR012763    This entry represents the well-conserved first N-terminal domain of DnaX, approx. 365 aa. The full-length product of the dnaX gene in Escherichia coli encodes the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the extreme thermophile Thermus thermophilis.; GO: 0003887 DNA-directed DNA polymerase activity, 0005524 ATP binding, 0006260 DNA replication, 0009360 DNA polymerase III complex.
Probab=98.47  E-value=3.3e-05  Score=61.28  Aligned_cols=200  Identities=24%  Similarity=0.295  Sum_probs=140.3

Q ss_pred             HHHCCCCCCCCCHHHHHHHHHHHHCCCCCCC-EEEECCCCCCHHHHHHHHHHHHHCC-CCCHHHCCC------------E
Q ss_conf             9872985333335789999999633677786-6895288740777999999987348-998444574------------3
Q gi|254780877|r  171 EARNGKLDPVIGRDDEMRRAIQVLSRRTKNN-PVLIGDPGVGKTAIIEGLASRIING-DIPESLKGK------------R  236 (853)
Q Consensus       171 ~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n-~~lvGe~GvGKtaive~la~~i~~~-~vp~~l~~~------------~  236 (853)
                      +-|=-.++=|||=|-=++-+...|-..+=++ =++-|+=|||||+++.=||.-+.=. .-+++=-.|            =
T Consensus         7 KyRP~~F~d~~GQ~~iv~tL~NAi~~~ri~HAYLF~GpRGtGKTS~ARIfAKaLNC~~~~~~PCn~C~~C~~i~~g~~~D   86 (363)
T TIGR02397         7 KYRPQTFEDVIGQEHIVKTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQGPDGEPCNECESCKEINSGSSLD   86 (363)
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEECCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHCCCCCC
T ss_conf             23788611023517999999999971896623450285997635589999998658878778777750227765289866


Q ss_pred             EEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCC---CEEEEECCHHHHCCCCCCCCCCCHHH-HHHHHHCCC--CEEE
Q ss_conf             78873135421745420245458999999860799---76999636277302666554335888-876531246--6048
Q gi|254780877|r  237 LMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDG---EIILFIDELHVLVGAGKTDGAMDASN-LLKPSLARG--ELHC  310 (853)
Q Consensus       237 i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~---~~ilfide~h~~~gaG~~~g~~Daan-~LKP~LarG--~l~~  310 (853)
                      |+++|      |||.+|=  +-++.|++.+.=+|-   ==|--|||+|||        |..|=| +|| .|..-  -..+
T Consensus        87 viEiD------AASN~gV--D~IR~l~e~v~y~P~~~kYKvYIIDEVHML--------S~~AFNALLK-TLEEPP~hV~F  149 (363)
T TIGR02397        87 VIEID------AASNNGV--DDIRELRENVKYAPSKGKYKVYIIDEVHML--------SKSAFNALLK-TLEEPPEHVVF  149 (363)
T ss_pred             EEEEC------CCCCCCH--HHHHHHHHHHCCCCCCCCCCEEEEECCCCC--------CHHHHHHHHH-HHCCCCCCEEE
T ss_conf             68864------8656878--899999873036875544335887323028--------6568999876-52279876288


Q ss_pred             EEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHH
Q ss_conf             99744899999730011132023111115777678999999978986541496101589999986333202457674778
Q gi|254780877|r  311 IGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKA  390 (853)
Q Consensus       311 IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKA  390 (853)
                      |=|||  |++|--  .. .-.|=|+-.-+-=+.++-+.-|+.+...=    ++.|.++||+..++.|+==+.|      |
T Consensus       150 IlATT--E~~KiP--~T-IlSRCQrF~Fk~i~~~~i~~~L~~I~~~E----~I~~e~~AL~~IA~~a~GS~RD------A  214 (363)
T TIGR02397       150 ILATT--EPHKIP--AT-ILSRCQRFDFKRIPLEDIVERLKKILDKE----GIKIEDEALELIARAADGSMRD------A  214 (363)
T ss_pred             EEECC--CHHHCC--CC-CEEECEEECCCCCCHHHHHHHHHHHHHHH----CCCCCHHHHHHHHHHCCCCCCH------H
T ss_conf             87348--711205--54-02100031267899899999999999870----8831778999999962896106------8


Q ss_pred             HHHHHHHHHHHH
Q ss_conf             999999999875
Q gi|254780877|r  391 IDLMDEASARVR  402 (853)
Q Consensus       391 IDllDeA~A~~~  402 (853)
                      ..|||.+.+.-.
T Consensus       215 lsllDQ~~~~~~  226 (363)
T TIGR02397       215 LSLLDQAISFGN  226 (363)
T ss_pred             HHHHHHHHHHCC
T ss_conf             899999998268


No 196
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=98.46  E-value=5.9e-05  Score=59.23  Aligned_cols=43  Identities=14%  Similarity=0.050  Sum_probs=22.2

Q ss_pred             CCCCCHHHHHHHHHH----CCCCHHHHH-HHCCCCHHHHHHHHHHHHC
Q ss_conf             870259998766872----775178899-9759998999999998737
Q gi|254780877|r  103 DSFVTAEKFLLAMVM----ETGGIGESL-KKCGLKFSRLEESIKKLRK  145 (853)
Q Consensus       103 ~~~I~~ehLLlAIl~----e~~s~a~iL-~~~gi~~~~l~e~i~~~~~  145 (853)
                      ++.|+.+|++-++..    .+-.++++| -.-|+-+..+-..+.+..+
T Consensus        16 ~e~vGQ~~v~~~L~nal~~~rl~haylf~G~rGvGKTt~Ari~Ak~lN   63 (704)
T PRK08691         16 ADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLN   63 (704)
T ss_pred             HHHCCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHC
T ss_conf             564186999999999998199752375027898788899999999967


No 197
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=98.46  E-value=9.7e-08  Score=81.85  Aligned_cols=119  Identities=24%  Similarity=0.275  Sum_probs=72.3

Q ss_pred             EEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCH---HH-CCCCHHCCCCCCCCCCHHHHCCCCCEE
Q ss_conf             28987267861688999999987237765300224477403453201---30-477112035667742113221564102
Q gi|254780877|r  599 GSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSR---LI-GSPPGYVGYEEGGALTEAVRRHPYQVV  674 (853)
Q Consensus       599 ~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~---Li-GappGYvG~~~gg~Lte~vr~~P~sVi  674 (853)
                      ...++.||+|+|||.+++.+|..+......++.++++.+.+......   .. ...+.+.+...-..+.+.+++.+++|+
T Consensus         3 ~~ill~G~~GsGKTtl~~~la~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi   82 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLKPDVL   82 (148)
T ss_pred             CEEEEECCCCHHHHHHHHHHHHHHCCCCCCEEEEEHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCEE
T ss_conf             78999999970299999999987266899689987599898889876530001122105199999999999984499899


Q ss_pred             EEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCH
Q ss_conf             2021441498999999998404578879997783033155954851
Q gi|254780877|r  675 LFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNL  720 (853)
Q Consensus       675 l~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~  720 (853)
                      ++||+++..+............   ...........+..+|+|+|.
T Consensus        83 iiDei~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~vi~~~n~  125 (148)
T smart00382       83 ILDEITSLLDAEQEALLLLLEE---LRLLLLLKSEKNLTVILTTND  125 (148)
T ss_pred             EEECCHHHCCCCCHHHHHHHHH---HHHHCCCCCCCCEEEEEEECC
T ss_conf             9827502147620799999999---998517657899899995699


No 198
>PRK10923 glnG nitrogen regulation protein NR(I); Provisional
Probab=98.46  E-value=4.3e-06  Score=68.51  Aligned_cols=204  Identities=21%  Similarity=0.362  Sum_probs=118.4

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHCC--CCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHH------
Q ss_conf             29853333357899999996336--7778668952887407779999999873489984445743788731354------
Q gi|254780877|r  174 NGKLDPVIGRDDEMRRAIQVLSR--RTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGAL------  245 (853)
Q Consensus       174 ~GkLDPVIGRe~EI~~~~~iL~r--~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l------  245 (853)
                      .+...++||....++++.+.+.|  ++..++++.||+|+||..++..+-+.=       .-.+...+.+|.+++      
T Consensus       134 ~~~~~~liG~S~~m~~v~~~i~~~a~~~~pVLI~GE~GTGK~~~Ar~IH~~S-------~r~~~pfi~vnC~~~~~~~~e  206 (469)
T PRK10923        134 NGPTTDIIGEAPAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHALHRHS-------PRAKAPFIALNMAAIPKDLIE  206 (469)
T ss_pred             CCCCCCCEECCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHCC-------CCCCCCCEEEECCCCCHHHHH
T ss_conf             0675565468999999999999985889978998989826999999999748-------877999578767889977899


Q ss_pred             --HCCCCCCCHHHHH---HHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCC-------------C
Q ss_conf             --2174542024545---899999986079976999636277302666554335888876531246-------------6
Q gi|254780877|r  246 --IAGAKFRGEFEER---LKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARG-------------E  307 (853)
Q Consensus       246 --~ag~~~rg~~e~r---~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG-------------~  307 (853)
                        +-| ..+|.|..-   ..+.+++   +++. -||+|||+.+        +.+.-.-|--.|..|             +
T Consensus       207 ~eLFG-~~~gaf~ga~~~~~g~~e~---a~~G-TLfLdeI~~L--------~~~~Q~kLl~~L~~~~~~~~g~~~~~~~d  273 (469)
T PRK10923        207 SELFG-HEKGAFTGANTIRQGRFEQ---ADGG-TLFLDEIGDM--------PLDVQTRLLRVLADGQFYRVGGYAPVKVD  273 (469)
T ss_pred             HHHHC-CCCCCCCCCCCCCCCCHHH---CCCC-CEEHHHHHHC--------CHHHHHHHHHHHHCCCEEECCCCCEEEEC
T ss_conf             99708-7667878864245873664---3899-2656636648--------99999999999855937857998512214


Q ss_pred             EEEEEEECHHHHHHHHHCC---HHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHH-CCC
Q ss_conf             0489974489999973001---113202311111577767899999997898654149610158999998633320-245
Q gi|254780877|r  308 LHCIGATTLDEYRKYIEKD---PALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRY-ITD  383 (853)
Q Consensus       308 l~~IgaTT~~Eyrk~iEkD---~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rY-i~~  383 (853)
                      +|+|.+|+.+= ...++..   .-|--|+..+.|.=|+-.+-.+=+.-+...|               .-..+.+| ..-
T Consensus       274 ~RiIaat~~~L-~~~v~~g~Fr~dLyyrL~~~~I~lPpLReR~eDI~~L~~~f---------------l~~~~~~~~~~~  337 (469)
T PRK10923        274 VRIIAATHQNL-EQRVQEGKFREDLFHRLNVIRVHLPPLRERREDIPRLARHF---------------LQVAARELGVEA  337 (469)
T ss_pred             CEEEEECCCCH-HHHHHHCCHHHHHHHHHHHHCCCCCCHHHCHHHHHHHHHHH---------------HHHHHHHCCCCC
T ss_conf             37997078799-99866081779999864424015846544653499999999---------------999999859997


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Q ss_conf             767477899999999987541022214578879999974
Q gi|254780877|r  384 RFLPDKAIDLMDEASARVRMQIDTKPEVLDELDRRIICL  422 (853)
Q Consensus       384 r~lPDKAIDllDeA~A~~~i~~~~~P~~l~~l~r~i~~l  422 (853)
                      +.+...|+.+         +..+.+|-.+.++++.++++
T Consensus       338 ~~~s~~a~~~---------L~~y~WPGNvrEL~n~ier~  367 (469)
T PRK10923        338 KLLHPETEAA---------LTRLAWPGNVRQLENTCRWL  367 (469)
T ss_pred             CCCCHHHHHH---------HHCCCCCCHHHHHHHHHHHH
T ss_conf             8789999999---------97499998799999999999


No 199
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=98.46  E-value=2.6e-05  Score=62.06  Aligned_cols=150  Identities=31%  Similarity=0.487  Sum_probs=86.7

Q ss_pred             CCCHHHHHHHHHHHHC-CCCCCCEEEECCCCCCHHHHHHHHHHHHHC-----C---------CCCHHH---------CCC
Q ss_conf             3335789999999633-677786689528874077799999998734-----8---------998444---------574
Q gi|254780877|r  180 VIGRDDEMRRAIQVLS-RRTKNNPVLIGDPGVGKTAIIEGLASRIIN-----G---------DIPESL---------KGK  235 (853)
Q Consensus       180 VIGRe~EI~~~~~iL~-r~~k~n~~lvGe~GvGKtaive~la~~i~~-----~---------~vp~~l---------~~~  235 (853)
                      |+| .++.++-+.+.. --.-.|+++.|+||.|||.++.+|+..+-.     +         ..|+..         +..
T Consensus        10 IvG-Qe~~K~AL~laav~p~~ggvLi~G~~GtgKStlaR~l~~iLP~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (334)
T PRK13407         10 IVG-QEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAALLPLIKAVEGCPVNSARPEDCPEWAEVSSTTMVERPT   88 (334)
T ss_pred             HCC-CHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHCCCCCHHCCCCCCCCCCCCCHHHHHCCCCCCCCCCC
T ss_conf             649-3999999999772789860899789986599999999972899511036755667742113343114555344899


Q ss_pred             EE-------------EEEEHH-HHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHH
Q ss_conf             37-------------887313-5421745420245458999999860799769996362773026665543358888765
Q gi|254780877|r  236 RL-------------MALDMG-ALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKP  301 (853)
Q Consensus       236 ~i-------------~~ld~~-~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP  301 (853)
                      .+             -++|+. +|..|.+   .|+-   +++.   .++ +=|||+||+.-+=        -..-++|--
T Consensus        89 p~v~lPl~atedr~~G~ldie~al~~G~~---~~~P---GlLa---~Ah-~GVLylDEinll~--------~~vld~Ll~  150 (334)
T PRK13407         89 PVIDLPLGATEDRVVGALDIERALTRGEK---AFEP---GLLA---RAN-RGYLYIDEVNLLE--------DHIVDLLLD  150 (334)
T ss_pred             CCCCCCCCCCCCCCCCCCCHHHHHHCCCC---CCCC---CHHH---HCC-CCEEEEECHHHCC--------HHHHHHHHH
T ss_conf             87678999998664474218888626987---7886---0543---402-8867872053333--------889999998


Q ss_pred             HHCCCC---------------EEEEEEECHHHHHHHHHCCHHHHHCCC-EEECCCC-CHHHHHHHHHH
Q ss_conf             312466---------------048997448999997300111320231-1111577-76789999999
Q gi|254780877|r  302 SLARGE---------------LHCIGATTLDEYRKYIEKDPALARRFQ-SLLVGEP-TVTDTISILRG  352 (853)
Q Consensus       302 ~LarG~---------------l~~IgaTT~~Eyrk~iEkD~Al~RRFq-~i~V~Ep-s~~~t~~iL~g  352 (853)
                      +++.|.               +.+||+.-|+|-    +=-+.|-.||- .|.|..| +.++-++|++.
T Consensus       151 ~~e~G~~~IeReg~s~~~ParF~LVatmNPeEg----~Lrp~lLDRf~l~v~v~~~~~~~~r~eiv~r  214 (334)
T PRK13407        151 VAQSGENVVEREGLSIRHPARFVLVGSGNPEEG----ELRPQLLDRFGLSVEVRSPRDVETRVEVITR  214 (334)
T ss_pred             HHHCCCEEEEECCEEEECCCCCEEEEEECCCCC----CCCHHHHHHHCEEEEECCCCCHHHHHHHHHH
T ss_conf             871695799977634603662658982088877----7598998361006871487887776688999


No 200
>pfam07728 AAA_5 AAA domain (dynein-related subfamily). This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.
Probab=98.45  E-value=3e-07  Score=77.86  Aligned_cols=116  Identities=23%  Similarity=0.273  Sum_probs=65.0

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCC---CCHHHHHHHHHHHHHHHCCCCEEEEE
Q ss_conf             668952887407779999999873489984445743788731354217454---20245458999999860799769996
Q gi|254780877|r  201 NPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKF---RGEFEERLKSLLCEIRSEDGEIILFI  277 (853)
Q Consensus       201 n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~---rg~~e~r~~~i~~~~~~~~~~~ilfi  277 (853)
                      +++|+|+||+|||++++.+|+.+....+  ...... -..+...|+.+..+   ...|..  ..+...+ . + .-+||+
T Consensus         1 ~vll~Gp~G~GKT~la~~la~~l~~~~~--~~i~~~-~~~~~~dl~G~~~~~~~~~~~~~--g~l~~a~-~-~-g~vl~l   72 (139)
T pfam07728         1 GVLLVGPPGTGKSELAERLAAALSNRPV--FYVQLT-RDTTEEDLKGRRNIANGTTSWVD--GPLVRAA-R-E-GEIAVL   72 (139)
T ss_pred             CEEEECCCCCHHHHHHHHHHHHCCCCCC--HHHCCC-CCCCHHHCCCCEECCCCCEEEEC--CHHHCCC-C-C-CCEEEE
T ss_conf             9899989975699999999998079831--112146-55652220573423799357815--5141010-1-2-868996


Q ss_pred             CCHHHHCCCCCCCCCCCHHHHHHHHHCCC--------------------CEEEEEEECHHHHHHHHHCCHHHHHCC
Q ss_conf             36277302666554335888876531246--------------------604899744899999730011132023
Q gi|254780877|r  278 DELHVLVGAGKTDGAMDASNLLKPSLARG--------------------ELHCIGATTLDEYRKYIEKDPALARRF  333 (853)
Q Consensus       278 de~h~~~gaG~~~g~~Daan~LKP~LarG--------------------~l~~IgaTT~~Eyrk~iEkD~Al~RRF  333 (853)
                      |||...        +-++-+.|-+.|..+                    .+++|++.-+. |+...+=|+||.+||
T Consensus        73 DEin~a--------~~~v~~~L~~~le~~~~~~~~~~~~~~~~~~~~~~~f~viaT~N~~-~~g~~~l~~Al~~RF  139 (139)
T pfam07728        73 DEINRA--------NPDVLNSLLSLLDERRLLLPEGGELVKVAPDDFAKRFRLIATMNPL-DRGLNELSPALRSRF  139 (139)
T ss_pred             CCHHHC--------CHHHHHHHHHHHCCCEEEECCCCEEECCCCCCCCCCEEEEEEECCC-CCCCCCCCHHHHCCC
T ss_conf             343448--------9999999999974896983689727336666789996999975896-547800998997509


No 201
>PRK08727 hypothetical protein; Validated
Probab=98.45  E-value=2.2e-05  Score=62.70  Aligned_cols=169  Identities=22%  Similarity=0.320  Sum_probs=100.6

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHH
Q ss_conf             89872678616889999999872377653002244774034532013047711203566774211322156410220214
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEI  679 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEi  679 (853)
                      .+.+.||+|+|||.|+.+++...-........+++.++..         .+|.-         .+.+  ....+|.+|.|
T Consensus        43 ~lyl~G~~GsGKTHLl~a~~~~~~~~~~~~~yl~l~~~~~---------~~~~~---------l~~l--e~~~ll~iDDi  102 (233)
T PRK08727         43 WLYLSGPAGTGKTHLALSLCAAAEQAGRSSAYLPLQAAAG---------RLRDA---------LEAL--EGRSLVALDGV  102 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEHHHHHH---------HHHHH---------HHHH--CCCCEEEEECC
T ss_conf             8999899999889999999999982799728844788532---------02567---------7531--03897898550


Q ss_pred             HHCC--HH----HHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCC
Q ss_conf             4149--89----99999998404578879997783033155954851268764032679999999998628857726668
Q gi|254780877|r  680 EKAH--SD----VHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLD  753 (853)
Q Consensus       680 EKah--~~----v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid  753 (853)
                      |...  ++    +|+++=++.+.|              +-+++||+.....+.                ...|.+..|+.
T Consensus       103 d~i~g~~~~e~aLFhL~N~~~~~~--------------~~ll~ts~~~P~~l~----------------~~l~DL~SRL~  152 (233)
T PRK08727        103 DSIAGQREDEVALFDFHNRARAAG--------------ITLLYTARQMPDGLA----------------LVLPDLRSRLS  152 (233)
T ss_pred             HHCCCCHHHHHHHHHHHHHHHHCC--------------CEEEEECCCCHHHHC----------------CCHHHHHHHHH
T ss_conf             112698279999999999998619--------------838997798956623----------------10021999996


Q ss_pred             --CEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHHH----------HH
Q ss_conf             --158628899899999999999999999985798999988999999970898220621579999987----------33
Q gi|254780877|r  754 --EIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQRY----------IQ  821 (853)
Q Consensus       754 --~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~----------i~  821 (853)
                        .++...|++.+....++..       +...+|+.  +++++.+||+.+. +..+  +.+.+++.+.          |.
T Consensus       153 ~~~~~~l~~~dD~~~~~iL~~-------~a~~rgl~--l~~~V~~Yll~r~-~R~~--~~l~~~l~~LD~~SL~~kr~iT  220 (233)
T PRK08727        153 QCIRIGLPVLDDVARAAVLRD-------RAQRRGLA--LDEAAIDWLLTHG-EREL--AGLVALLDRLDRESLAAKRRIT  220 (233)
T ss_pred             CCCEEEECCCCHHHHHHHHHH-------HHHHCCCC--CCHHHHHHHHHHC-CCCH--HHHHHHHHHHHHHHHHCCCCCC
T ss_conf             692288578897999999999-------99986999--9989999999856-8899--9999999999999998089888


Q ss_pred             HHHHHHHHC
Q ss_conf             499999970
Q gi|254780877|r  822 NPLAERVLS  830 (853)
Q Consensus       822 ~~la~~il~  830 (853)
                      -|+++.+|.
T Consensus       221 ip~vk~vL~  229 (233)
T PRK08727        221 VPFLRRVLE  229 (233)
T ss_pred             HHHHHHHHH
T ss_conf             999999997


No 202
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=98.43  E-value=1.2e-05  Score=64.74  Aligned_cols=204  Identities=19%  Similarity=0.220  Sum_probs=114.8

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHCC--CCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHC----
Q ss_conf             29853333357899999996336--777866895288740777999999987348998444574378873135421----
Q gi|254780877|r  174 NGKLDPVIGRDDEMRRAIQVLSR--RTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIA----  247 (853)
Q Consensus       174 ~GkLDPVIGRe~EI~~~~~iL~r--~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~a----  247 (853)
                      .|-.|-+||...-++++.+.+.|  ++..++++.||+|+||+.++..+-..=-.       .+..++.+|.+.+-.    
T Consensus         2 ~~~~~~liG~S~~m~~v~~~~~~~A~~~~pVLI~GE~GtGK~~~Ar~IH~~S~r-------~~~pfi~v~C~~l~~~~~e   74 (325)
T PRK11608          2 AEYKDNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSSR-------WQGPFISLNCAALNENLLD   74 (325)
T ss_pred             CCCCCCCEECCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHCCCC-------CCCCCEEEECCCCCHHHHH
T ss_conf             877899858999999999999999688999898898983799999999965886-------7999778877989977889


Q ss_pred             ----CCCCCCHHHHH---HHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC-------------CC
Q ss_conf             ----74542024545---89999998607997699963627730266655433588887653124-------------66
Q gi|254780877|r  248 ----GAKFRGEFEER---LKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR-------------GE  307 (853)
Q Consensus       248 ----g~~~rg~~e~r---~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar-------------G~  307 (853)
                          |.. .|-|-.-   -.+.+   ..++|. -||+|||+.+        +.++-.-|--+|..             -+
T Consensus        75 ~~LFG~~-~g~~~~~~~~~~g~l---e~a~gG-TL~L~eI~~l--------~~~~Q~~Ll~~l~~~~~~r~g~~~~~~~~  141 (325)
T PRK11608         75 SELFGHE-AGAFTGAQKRHPGRF---ERADGG-TLFLDELATA--------PMLVQEKLLRVIEYGELERVGGSQPLQVN  141 (325)
T ss_pred             HHHCCCC-CCCCCCCCCCCCCHH---HCCCCC-EEEEECHHHC--------CHHHHHHHHHHHHCCCEEECCCCCCCCCC
T ss_conf             9872775-567677532468734---356898-6997374547--------99999999999864908857998766564


Q ss_pred             EEEEEEECHHHHHHHHHCC---HHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCC
Q ss_conf             0489974489999973001---1132023111115777678999999978986541496101589999986333202457
Q gi|254780877|r  308 LHCIGATTLDEYRKYIEKD---PALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDR  384 (853)
Q Consensus       308 l~~IgaTT~~Eyrk~iEkD---~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r  384 (853)
                      +|+|++|+- .-.+.++..   .-|--||..+.|.=|+-.+-.+=+.-+...|               ...++.+|=...
T Consensus       142 ~RiIa~t~~-~l~~lv~~g~fr~dLy~rL~~~~I~lPpLReR~eDI~~L~~~f---------------l~~~~~~~~~~~  205 (325)
T PRK11608        142 VRLVCATNA-DLPAMVNEGTFRADLLDRLAFDVVQLPPLRERQSDIMLMAEHF---------------AIQMCRELGLPL  205 (325)
T ss_pred             EEEEECCCH-HHHHHHHHCCCHHHHHHHHHHHHCCCCCHHHCCCCHHHHHHHH---------------HHHHHHHCCCCC
T ss_conf             688713322-0899998395679998565301115868454710199999999---------------999999829998


Q ss_pred             --CCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Q ss_conf             --67477899999999987541022214578879999974
Q gi|254780877|r  385 --FLPDKAIDLMDEASARVRMQIDTKPEVLDELDRRIICL  422 (853)
Q Consensus       385 --~lPDKAIDllDeA~A~~~i~~~~~P~~l~~l~r~i~~l  422 (853)
                        .+.+.|+         -.+..+.+|-.+.++++.+++.
T Consensus       206 ~~~~s~~a~---------~~L~~y~WPGNvrEL~n~iera  236 (325)
T PRK11608        206 FPGFTERAR---------ETLLNYRWPGNIRELKNVVERS  236 (325)
T ss_pred             CCCCCHHHH---------HHHHCCCCCCHHHHHHHHHHHH
T ss_conf             888899999---------9996199996599999999999


No 203
>PRK13531 regulatory ATPase RavA; Provisional
Probab=98.43  E-value=0.00013  Score=56.46  Aligned_cols=34  Identities=38%  Similarity=0.351  Sum_probs=15.6

Q ss_pred             HCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             024576747789999999998754102221457887
Q gi|254780877|r  380 YITDRFLPDKAIDLMDEASARVRMQIDTKPEVLDEL  415 (853)
Q Consensus       380 Yi~~r~lPDKAIDllDeA~A~~~i~~~~~P~~l~~l  415 (853)
                      |++||+.- ||+-|| .|||..-=+..-.|..+--+
T Consensus       247 YVSDRRWk-Kav~LL-kasAf~~GR~eV~~~DllLL  280 (498)
T PRK13531        247 YVSDRRWK-KAIRLL-QASAFFSGRDAVAPIDLILL  280 (498)
T ss_pred             EEECHHHH-HHHHHH-HHHHHCCCCCCCCHHHHHHH
T ss_conf             55766899-999999-99875169553779888998


No 204
>TIGR01242 26Sp45 26S proteasome subunit P45 family; InterPro: IPR005937    Intracellular proteins, including short-lived proteins such as cyclin, Mos, Myc, p53, NF-kappaB, and IkappaB, are degraded by the ubiquitin-proteasome system. The 26S proteasome (a 2 MDa complex) is made up of two subcomplexes: the 20S proteasome and the regulatory complex. The former is a 700 kDa cylindrical protease complex consisting of four stacks of heptameric rings with 28 subunits (i.e., 7777) with molecular masses of about 20-35 kDa, whereas the latter is a 700-1000 kDa complex consisting of at least 18 subunits with molecular masses of 28-110 kDa, including 6 putative ATPases (Rpt1-Rpt6) and 12 non-ATPase subunits (Rpn1-12).     Members of the 26S proteasome subunit P45 family: ATPase p45/Sug1/Rpt6 may be phosphorylated within the proteasome. This phosphorylation event may play a key role in ATP-dependent proteolysis because a good correlation exists between the inhibition pattern of protein kinase inhibitors against the phosphorylation of p45 and that against the ATP-dependent proteolytic activity , .   More information about these protein can be found at Protein of the Month: AAA ATPases .; GO: 0016787 hydrolase activity, 0030163 protein catabolic process, 0005634 nucleus, 0005737 cytoplasm.
Probab=98.42  E-value=4.4e-06  Score=68.41  Aligned_cols=138  Identities=26%  Similarity=0.412  Sum_probs=100.6

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCH
Q ss_conf             66895288740777999999987348998444574378873135421745420245458999999860799769996362
Q gi|254780877|r  201 NPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDEL  280 (853)
Q Consensus       201 n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~  280 (853)
                      .++|-|+||.|||-++..+|...          +...+.+=-+-||  .||=||=..-++.|.+-+++. .+.|+|||||
T Consensus       158 GvLLyGPPGtGKTLlAKAvA~et----------~ATFIrvVgSElV--~KyIGEGArLV~~~F~LAkEK-aPsIiFIDEi  224 (364)
T TIGR01242       158 GVLLYGPPGTGKTLLAKAVAHET----------NATFIRVVGSELV--RKYIGEGARLVREVFELAKEK-APSIIFIDEI  224 (364)
T ss_pred             CEEEECCCCCCHHHHHHHHHCCC----------CCEEEEEEHHHHH--HHHHCCHHHHHHHHHHHHHCC-CCCEEEEECH
T ss_conf             65700757976889999863145----------5126886044444--444133168999999985306-9816861013


Q ss_pred             HHHCCCCCCC--CCCC--HHH-------HHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHH--CCCEE-ECCCCCHHHH
Q ss_conf             7730266655--4335--888-------8765312466048997448999997300111320--23111-1157776789
Q gi|254780877|r  281 HVLVGAGKTD--GAMD--ASN-------LLKPSLARGELHCIGATTLDEYRKYIEKDPALAR--RFQSL-LVGEPTVTDT  346 (853)
Q Consensus       281 h~~~gaG~~~--g~~D--aan-------~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~R--RFq~i-~V~Eps~~~t  346 (853)
                      -.| +|-+.+  .|.|  +--       =|--.=+||+.++||||---.-     =|||+-|  ||.++ .|.=|+.+--
T Consensus       225 DAi-aakR~~~~TsGdREV~RTlmQLLAElDGFd~rg~VkviaATNR~Di-----lDPA~LRPGRFDR~IEVPlP~~~GR  298 (364)
T TIGR01242       225 DAI-AAKRVDSSTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDI-----LDPAILRPGRFDRIIEVPLPDFEGR  298 (364)
T ss_pred             HHH-HHHHCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEEEECCCCHH-----CCCCCCCCCCCCCEEECCCCCCCCH
T ss_conf             335-4321146778731578899999975248887676168872076202-----0432148886132573169783220


Q ss_pred             HHHHHHHHHHH
Q ss_conf             99999978986
Q gi|254780877|r  347 ISILRGLKERY  357 (853)
Q Consensus       347 ~~iL~gl~~~y  357 (853)
                      ++||+=...+.
T Consensus       299 ~eIlkiHTr~~  309 (364)
T TIGR01242       299 LEILKIHTRKM  309 (364)
T ss_pred             HHHHHHHHCCC
T ss_conf             56655521000


No 205
>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional
Probab=98.42  E-value=1.5e-05  Score=64.15  Aligned_cols=203  Identities=16%  Similarity=0.205  Sum_probs=114.4

Q ss_pred             CCCCCCCCHHHHHHHHHHHHCC--CCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHC-----
Q ss_conf             9853333357899999996336--777866895288740777999999987348998444574378873135421-----
Q gi|254780877|r  175 GKLDPVIGRDDEMRRAIQVLSR--RTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIA-----  247 (853)
Q Consensus       175 GkLDPVIGRe~EI~~~~~iL~r--~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~a-----  247 (853)
                      ...+.+||+..-++++.+.+.|  .+..++++.||+|+||..++..+-+.=       .-++.-.+.+|.+++-.     
T Consensus       140 ~~~~~lig~S~~m~~v~~~i~~~A~s~~~VLI~GEsGTGKe~~Ar~IH~~S-------~r~~~pFv~vnc~ai~~~l~es  212 (457)
T PRK11361        140 WQWGHILTNSPAMMDICKDTAKIALSQASVLISGESGTGKELIARAIHYNS-------RRAKGPFIKVNCAALPESLLES  212 (457)
T ss_pred             CCCCCCEECCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHC-------CCCCCCEEEEECCCCCHHHHHH
T ss_conf             456774546999999999999984889958998899857899999999837-------9889983876478798577899


Q ss_pred             ---CCCCCCHHHHHH---HHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCC-------------CE
Q ss_conf             ---745420245458---99999986079976999636277302666554335888876531246-------------60
Q gi|254780877|r  248 ---GAKFRGEFEERL---KSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARG-------------EL  308 (853)
Q Consensus       248 ---g~~~rg~~e~r~---~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG-------------~l  308 (853)
                         |-. +|.|-.-.   .++++.   ++|. -||+|||+.+        +.+.-.-|--.|..|             ++
T Consensus       213 eLFG~~-kgaftga~~~~~G~~e~---A~gG-TLfLdeI~~l--------~~~~Q~kLLr~L~~~~~~~~g~~~~~~~dv  279 (457)
T PRK11361        213 ELFGHE-KGAFTGAQTLRQGLFER---ANEG-TLLLDEIGEM--------PLVLQAKLLRILQEREFERIGGHQTIKVDI  279 (457)
T ss_pred             HHHCCC-CCCCCCCCCCCCCCHHH---CCCC-CEECCCHHHH--------HHHHHHHHHHHHHCCCEEECCCCCEEEECC
T ss_conf             971876-67878853146986133---5998-2631466452--------399999999998649278569971366534


Q ss_pred             EEEEEECHHHHHHHHHC---CHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHC-CCC
Q ss_conf             48997448999997300---11132023111115777678999999978986541496101589999986333202-457
Q gi|254780877|r  309 HCIGATTLDEYRKYIEK---DPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYI-TDR  384 (853)
Q Consensus       309 ~~IgaTT~~Eyrk~iEk---D~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi-~~r  384 (853)
                      |+|+||+.+= .+.++.   ..-|--|+..+.+.=|.--+-.+=+.-+...|               .-.++.+|= +-+
T Consensus       280 RiIaaT~~~L-~~~v~~g~Fr~DLyyrL~~~~i~lPpLReR~eDI~~L~~~f---------------l~~~~~~~~~~~~  343 (457)
T PRK11361        280 RIIAATNRDL-QAMVKEGTFREDLFYRLNVIHLILPPLRDRREDISLLANHF---------------LQKFSSENQRDII  343 (457)
T ss_pred             EEEECCCCCH-HHHHHCCCCHHHHHHHHCEEEEECCCHHHCHHHHHHHHHHH---------------HHHHHHHCCCCCC
T ss_conf             8996578785-99987583238899530221251738545875499999999---------------9999997499989


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Q ss_conf             67477899999999987541022214578879999974
Q gi|254780877|r  385 FLPDKAIDLMDEASARVRMQIDTKPEVLDELDRRIICL  422 (853)
Q Consensus       385 ~lPDKAIDllDeA~A~~~i~~~~~P~~l~~l~r~i~~l  422 (853)
                      .+.+.|+..         +..+.+|-.+.++++.+++.
T Consensus       344 ~~s~~a~~~---------L~~y~WPGNvREL~n~iera  372 (457)
T PRK11361        344 DIDPMAMSL---------LTAWSWPGNIRELSNVIERA  372 (457)
T ss_pred             CCCHHHHHH---------HHCCCCCCHHHHHHHHHHHH
T ss_conf             889999999---------95699997999999999999


No 206
>PRK06893 DNA replication initiation factor; Validated
Probab=98.41  E-value=1.7e-05  Score=63.61  Aligned_cols=163  Identities=19%  Similarity=0.324  Sum_probs=96.5

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHH
Q ss_conf             89872678616889999999872377653002244774034532013047711203566774211322156410220214
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEI  679 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEi  679 (853)
                      .|.+.||+|+|||.|..++...+.......+.++|++..+.         +|-.         .+.++  ...++++|.|
T Consensus        41 ~l~i~G~~gsGKTHLLqa~~~~~~~~~~~~~yi~~~~~~~~---------~~~~---------l~~l~--~~d~l~iDDi  100 (229)
T PRK06893         41 FFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQYF---------SPAV---------LENLE--QQDLVCLDDL  100 (229)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHHCCCEEEEEHHHHHHC---------CHHH---------HHHHH--HCCEEEEECH
T ss_conf             79998999998899999999999971898599973775640---------6999---------98765--4797999672


Q ss_pred             HHC--CHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCC--CE
Q ss_conf             414--98999999998404578879997783033155954851268764032679999999998628857726668--15
Q gi|254780877|r  680 EKA--HSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLD--EI  755 (853)
Q Consensus       680 EKa--h~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid--~i  755 (853)
                      +.-  .++....|+.++..         ..+-.++++++||+.....+.                ..-|.+..|+-  .+
T Consensus       101 ~~i~g~~~~e~~lF~l~N~---------l~~~~~~~ll~ss~~~p~~l~----------------~~l~DL~SRl~~~~~  155 (229)
T PRK06893        101 QAVIGNEEWELAIFDLFNR---------IKESGKTLLLISANQSPHALQ----------------IKLPDLASRLTWGEI  155 (229)
T ss_pred             HHHCCCHHHHHHHHHHHHH---------HHHCCCCEEEEECCCCHHHHC----------------CHHHHHHHHHHCCEE
T ss_conf             3424883899999999999---------997599179985798833221----------------002679999968836


Q ss_pred             EECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHHH
Q ss_conf             8628899899999999999999999985798999988999999970898220621579999987
Q gi|254780877|r  756 ILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQRY  819 (853)
Q Consensus       756 v~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~  819 (853)
                      +...|++.+....|+..       +...+|+.  +++++++||+++ ++..+  |.+..++.+.
T Consensus       156 ~~i~~~dd~~~~~iL~~-------~a~~rgl~--l~~~v~~yl~~r-~~R~~--~~l~~~l~~L  207 (229)
T PRK06893        156 YQLNDLTDEQKIEVLQR-------NAYQRGIE--LSDETANFLLKR-LDRDM--HTLFDALDLL  207 (229)
T ss_pred             EEECCCCHHHHHHHHHH-------HHHHCCCC--CCHHHHHHHHHH-HCCCH--HHHHHHHHHH
T ss_conf             99667775799999999-------99964999--998999999998-34789--9999999999


No 207
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.41  E-value=0.00012  Score=56.68  Aligned_cols=44  Identities=14%  Similarity=0.051  Sum_probs=26.0

Q ss_pred             CCCCCCHHHHHHHHHH----CCCCHHHHH-HHCCCCHHHHHHHHHHHHC
Q ss_conf             9870259998766872----775178899-9759998999999998737
Q gi|254780877|r  102 GDSFVTAEKFLLAMVM----ETGGIGESL-KKCGLKFSRLEESIKKLRK  145 (853)
Q Consensus       102 g~~~I~~ehLLlAIl~----e~~s~a~iL-~~~gi~~~~l~e~i~~~~~  145 (853)
                      -++.|+.+|++-++-.    .+-.++++| -.-|+-+..+-..+.+..+
T Consensus        15 F~~~vGQ~~v~~~l~na~~~~r~~haylf~G~rGvGKTt~ari~Ak~ln   63 (721)
T PRK12323         15 FTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLN   63 (721)
T ss_pred             HHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHC
T ss_conf             6553285999999999997199754475027998889899999999976


No 208
>KOG0732 consensus
Probab=98.40  E-value=3.4e-06  Score=69.30  Aligned_cols=164  Identities=30%  Similarity=0.393  Sum_probs=100.6

Q ss_pred             CCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECC
Q ss_conf             86689528874077799999998734899844457437887313542174542024545899999986079976999636
Q gi|254780877|r  200 NNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDE  279 (853)
Q Consensus       200 ~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide  279 (853)
                      +.+++-|+||.|||.++-.||--...+.     +..-.|.-+-+...  .++.||-|+-++-+.+|.+.. .+.|.|.||
T Consensus       300 rgvL~~GppGTGkTl~araLa~~~s~~~-----~kisffmrkgaD~l--skwvgEaERqlrllFeeA~k~-qPSIIffde  371 (1080)
T KOG0732         300 RGVLFHGPPGTGKTLMARALAAACSRGN-----RKISFFMRKGADCL--SKWVGEAERQLRLLFEEAQKT-QPSIIFFDE  371 (1080)
T ss_pred             CCEEECCCCCCCHHHHHHHHHHHHCCCC-----CCCCHHHHCCCHHH--CCCCCCHHHHHHHHHHHHHCC-CCEEEECCC
T ss_conf             6323028998725688886665405411-----02024431484433--254475778899889887444-851773055


Q ss_pred             HHHHC--CCCCCC--CCCCHHHHH---HHHHCCCCEEEEEEECHHHHHHHHHCCHHHHH--CCCEE-ECCCCCHHHHHHH
Q ss_conf             27730--266655--433588887---65312466048997448999997300111320--23111-1157776789999
Q gi|254780877|r  280 LHVLV--GAGKTD--GAMDASNLL---KPSLARGELHCIGATTLDEYRKYIEKDPALAR--RFQSL-LVGEPTVTDTISI  349 (853)
Q Consensus       280 ~h~~~--gaG~~~--g~~Daan~L---KP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~R--RFq~i-~V~Eps~~~t~~i  349 (853)
                      |.-+-  -+..++  .+-=.+++|   --.=+||...+||||--..|     -|+||-|  ||... .-.=|+.+.-..|
T Consensus       372 IdGlapvrSskqEqih~SIvSTLLaLmdGldsRgqVvvigATnRpda-----~dpaLRRPgrfdref~f~lp~~~ar~~I  446 (1080)
T KOG0732         372 IDGLAPVRSSKQEQIHASIVSTLLALMDGLDSRGQVVVIGATNRPDA-----IDPALRRPGRFDREFYFPLPDVDARAKI  446 (1080)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCEEEECCCCCCCC-----CCHHHCCCCCCCEEEEEECCCHHHHHHH
T ss_conf             56646565366777445677778876047777786589715678332-----4654428866652575037866788899


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHH
Q ss_conf             9997898654149610158999998633320
Q gi|254780877|r  350 LRGLKERYEQHHKVRISDSALVSAAVLSNRY  380 (853)
Q Consensus       350 L~gl~~~yE~~H~V~i~d~al~~av~ls~rY  380 (853)
                      |.--....+    =.++..-+...+..+.-|
T Consensus       447 l~Ihtrkw~----~~i~~~l~~~la~~t~gy  473 (1080)
T KOG0732         447 LDIHTRKWE----PPISRELLLWLAEETSGY  473 (1080)
T ss_pred             HHHHCCCCC----CCCCHHHHHHHHHHCCCC
T ss_conf             987515777----887778999998862340


No 209
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=98.40  E-value=7.5e-05  Score=58.37  Aligned_cols=204  Identities=19%  Similarity=0.291  Sum_probs=111.7

Q ss_pred             CCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHC-----C-------CCCH-----------------
Q ss_conf             3335789999999633677786689528874077799999998734-----8-------9984-----------------
Q gi|254780877|r  180 VIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIIN-----G-------DIPE-----------------  230 (853)
Q Consensus       180 VIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~-----~-------~vp~-----------------  230 (853)
                      |+|-++=...++-.+--.+-.++++-|++|+|||++|.+||..+-.     |       ..|+                 
T Consensus        14 IvGQe~~k~aLll~av~p~iGgVLi~G~~GtgKStlvRala~lLP~i~~v~~~~f~~~p~~p~~~~~~~~~~~~~~~~~~   93 (347)
T CHL00081         14 IVGQEEMKLALLLNVIDPKIGGVMIMGDRGTGKSTTIRALVDLLPEIEVVKNDPFNSDPRDPDLMSDEVRERIRNGEKIP   93 (347)
T ss_pred             HCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHCCCCEEECCCCCCCCCCCCCCCCHHHHHHHCCCCCCC
T ss_conf             53849999999998257887869987899874999999999857874220688767898981002426665431466675


Q ss_pred             -HHCCCEEEEEEHHHH---HCCCC--------CCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHH
Q ss_conf             -445743788731354---21745--------420245458999999860799769996362773026665543358888
Q gi|254780877|r  231 -SLKGKRLMALDMGAL---IAGAK--------FRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNL  298 (853)
Q Consensus       231 -~l~~~~i~~ld~~~l---~ag~~--------~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~  298 (853)
                       ......+++|-+++-   +-|+-        .+--|+.   .++.+   ++++ |||||||.-+=        -...|.
T Consensus        94 ~~~~~~p~v~lPlgaTEDrv~GslDie~al~~G~~~f~p---GlLa~---A~rG-iLyvDEINll~--------d~~v~~  158 (347)
T CHL00081         94 TKKIKIPMVDLPLGATEDRVCGTIDIEKALTEGVKAFEP---GLLAK---ANRG-ILYVDEVNLLD--------DHLVDI  158 (347)
T ss_pred             CEECCCCEEECCCCCCCCEECCCHHHHHHHHCCCCCCCC---CHHHH---CCCC-EEEEEHHHHHH--------HHHHHH
T ss_conf             211468625368888523011400099898458711565---31222---0388-58861454323--------799999


Q ss_pred             HHHHHCCCC---------------EEEEEEECHHHHHHHHHCCHHHHHCCC-EEECC-CCCHHHHHHHHHHHHHHHHHH-
Q ss_conf             765312466---------------048997448999997300111320231-11115-777678999999978986541-
Q gi|254780877|r  299 LKPSLARGE---------------LHCIGATTLDEYRKYIEKDPALARRFQ-SLLVG-EPTVTDTISILRGLKERYEQH-  360 (853)
Q Consensus       299 LKP~LarG~---------------l~~IgaTT~~Eyrk~iEkD~Al~RRFq-~i~V~-Eps~~~t~~iL~gl~~~yE~~-  360 (853)
                      |--+++.|.               +-+||+.-|+|.-    =-++|.-||- .|.|. +++.++-++|++--. .|+.. 
T Consensus       159 LLda~a~G~~~VEReG~S~~~Pa~F~liaT~NPeEge----Lrp~llDRF~l~v~v~~~~~~e~R~eiv~~r~-~f~~~p  233 (347)
T CHL00081        159 LLDSAASGWNTVEREGISIRHPARFVLIGSGNPEEGE----LRPQLLDRFGMHAEIRTVKDPELRVKIVEQRS-NFDKNP  233 (347)
T ss_pred             HHHHHHCCEEEECCCCEEECCCCCEEEEECCCCCCCC----CCHHHHHHEEEEEECCCCCCHHHHHHHHHHHH-HHHHCH
T ss_conf             9999855808980464233057500688557865567----48888826322674588789899999999999-765196


Q ss_pred             ----CCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             ----4961015899999863332024576747789999999998754
Q gi|254780877|r  361 ----HKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEASARVRM  403 (853)
Q Consensus       361 ----H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~A~~~i  403 (853)
                          ....-..+.+..-+..+...+++=..||..+..+-+.|....+
T Consensus       234 ~~f~~~~~~~~~~l~~~I~~Ar~~L~~V~v~~~~~~~i~~~~~~~~v  280 (347)
T CHL00081        234 ENFREKYSESQDALKTQIILARQLLPNVEIDYDLRVKISQICSELDV  280 (347)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCC
T ss_conf             99999988789999999999986447735599999999999998489


No 210
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=98.40  E-value=0.00042  Score=52.29  Aligned_cols=155  Identities=19%  Similarity=0.312  Sum_probs=97.9

Q ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHH----HHHHHHCCCCE
Q ss_conf             77866895288740777999999987348998444574378873135421745420245458999----99986079976
Q gi|254780877|r  198 TKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSL----LCEIRSEDGEI  273 (853)
Q Consensus       198 ~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i----~~~~~~~~~~~  273 (853)
                      ..|-..|.|+.|.|||.+.+..+-.+.....     +.+++-+......         .+-+.++    +++.++.-.--
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~~~-----~a~v~y~~se~f~---------~~~v~a~~~~~~~~Fk~~y~~d  177 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEALANGP-----NARVVYLTSEDFT---------NDFVKALRDNEMEKFKEKYSLD  177 (408)
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHHHCC-----CCEEEECCHHHHH---------HHHHHHHHHHHHHHHHHHHCCC
T ss_conf             6895799879999789999999999986299-----8648850489989---------9999998850488888764267


Q ss_pred             EEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEE--CHHHHHHHHHCCHHHHHCCC---EEECCCCCHHHHHH
Q ss_conf             99963627730266655433588887653124660489974--48999997300111320231---11115777678999
Q gi|254780877|r  274 ILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGAT--TLDEYRKYIEKDPALARRFQ---SLLVGEPTVTDTIS  348 (853)
Q Consensus       274 ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaT--T~~Eyrk~iEkD~Al~RRFq---~i~V~Eps~~~t~~  348 (853)
                      .|.||+|+-+.|..+.+  .-.=+++--....|. |+|-+.  +|.|---   .++-|..||+   .+.+++|+.++-+.
T Consensus       178 lllIDDiq~l~gk~~~q--eefFh~FN~l~~~~k-qIvltsdr~P~~l~~---~~~rL~SR~~~Gl~~~I~~Pd~e~r~a  251 (408)
T COG0593         178 LLLIDDIQFLAGKERTQ--EEFFHTFNALLENGK-QIVLTSDRPPKELNG---LEDRLRSRLEWGLVVEIEPPDDETRLA  251 (408)
T ss_pred             EEEECHHHHHCCCHHHH--HHHHHHHHHHHHCCC-EEEEECCCCCHHHCC---CCHHHHHHHHCEEEEEECCCCHHHHHH
T ss_conf             35551386756771579--999999998885088-799970788322110---358899898630577527988899999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             9999789865414961015899999863
Q gi|254780877|r  349 ILRGLKERYEQHHKVRISDSALVSAAVL  376 (853)
Q Consensus       349 iL~gl~~~yE~~H~V~i~d~al~~av~l  376 (853)
                      ||+..    ....++.++++++...+.-
T Consensus       252 iL~kk----a~~~~~~i~~ev~~~la~~  275 (408)
T COG0593         252 ILRKK----AEDRGIEIPDEVLEFLAKR  275 (408)
T ss_pred             HHHHH----HHHCCCCCCHHHHHHHHHH
T ss_conf             99999----9865888887999999997


No 211
>KOG0744 consensus
Probab=98.40  E-value=3.7e-06  Score=69.01  Aligned_cols=144  Identities=32%  Similarity=0.454  Sum_probs=94.9

Q ss_pred             CCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCC------CCCCCCCCHHHHCCCCCC-CHHHCCCCHHCCCCCCCCC
Q ss_conf             123656651289872678616889999999872377------653002244774034532-0130477112035667742
Q gi|254780877|r  590 GLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDD------ENSMIRIDMSEYMEKHSV-SRLIGSPPGYVGYEEGGAL  662 (853)
Q Consensus       590 gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~------~~~lir~dMsey~e~~~v-s~LiGappGYvG~~~gg~L  662 (853)
                      .|-.-||   ..|+-||+|+|||.|+|+||+-|--.      -.-||-++.      |+. ||-         |.|.|.|
T Consensus       172 nlIt~NR---liLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEins------hsLFSKW---------FsESgKl  233 (423)
T KOG0744         172 NLITWNR---LILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINS------HSLFSKW---------FSESGKL  233 (423)
T ss_pred             CEEEEEE---EEEEECCCCCCHHHHHHHHHHHHEEEECCCCCCCEEEEEEH------HHHHHHH---------HHHHHHH
T ss_conf             4466414---89985799988227999998751465237644406999704------6788988---------7121138


Q ss_pred             CHHHH-------CCCCC--EEEEHHHHHC---------------CHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECC
Q ss_conf             11322-------15641--0220214414---------------989999999984045788799977830331559548
Q gi|254780877|r  663 TEAVR-------RHPYQ--VVLFDEIEKA---------------HSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTS  718 (853)
Q Consensus       663 te~vr-------~~P~s--Vil~DEiEKa---------------h~~v~~~llqild~G~ltd~~G~~v~f~n~iii~Ts  718 (853)
                      ..++-       .-|.+  .||.||+|--               .-.|.|.+|.-+|         |.-...|.+|+.||
T Consensus       234 V~kmF~kI~ELv~d~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlD---------rlK~~~NvliL~TS  304 (423)
T KOG0744         234 VAKMFQKIQELVEDRGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLD---------RLKRYPNVLILATS  304 (423)
T ss_pred             HHHHHHHHHHHHHCCCCEEEEEEHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHH---------HHCCCCCEEEEECC
T ss_conf             999999999997178968999807878889998754137998218999999999899---------86047977999626


Q ss_pred             CHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             51268764032679999999998628857726668158628899899999999999999999
Q gi|254780877|r  719 NLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSL  780 (853)
Q Consensus       719 N~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~  780 (853)
                      |+-..        +.            -.|++|-|-+..-.|-+...+..|..-.+.++...
T Consensus       305 Nl~~s--------iD------------~AfVDRADi~~yVG~Pt~~ai~~IlkscieEL~~~  346 (423)
T KOG0744         305 NLTDS--------ID------------VAFVDRADIVFYVGPPTAEAIYEILKSCIEELISS  346 (423)
T ss_pred             CHHHH--------HH------------HHHHHHHHHEEECCCCCHHHHHHHHHHHHHHHHHC
T ss_conf             26777--------78------------88611754211038963999999999999999863


No 212
>PRK07952 DNA replication protein DnaC; Validated
Probab=98.40  E-value=1.6e-06  Score=72.05  Aligned_cols=107  Identities=21%  Similarity=0.337  Sum_probs=71.4

Q ss_pred             CEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCC----CCCHHHHCCCCCE
Q ss_conf             128987267861688999999987237765300224477403453201304771120356677----4211322156410
Q gi|254780877|r  598 MGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGG----ALTEAVRRHPYQV  673 (853)
Q Consensus       598 ~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg----~Lte~vr~~P~sV  673 (853)
                      .++|+|.||+|+|||.||-++|..|-......+-+.++++.+.     |-.+      |++++    .+...+.  -+.+
T Consensus        96 ~~gLlF~G~~GTGKThLA~aIan~Li~~G~sVlf~t~~dLl~~-----lr~t------~~~~~~~e~~~l~~l~--~~dL  162 (242)
T PRK07952         96 IASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITVADIMSA-----MKDT------FRNSETSEEQLLNDLS--NVDL  162 (242)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEHHHHHHH-----HHHH------HHCCCCCHHHHHHHHH--CCCE
T ss_conf             8717997899997899999999999987994999779999999-----9999------8068756999999863--1898


Q ss_pred             EEEHHHH--HCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHC
Q ss_conf             2202144--14989999999984045788799977830331559548512687640
Q gi|254780877|r  674 VLFDEIE--KAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIE  727 (853)
Q Consensus       674 il~DEiE--Kah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~  727 (853)
                      +.+||+-  +........|.||+|.=..        +-+  =.|+|||+..+.+..
T Consensus       163 LIiDdlG~e~~t~~~~~~lf~iId~Ry~--------~~k--p~IitTNl~~~eL~~  208 (242)
T PRK07952        163 LVIDEIGVQTESRYEKVIINQIVDRRSS--------SKR--PTGMLTNSNMEEMTK  208 (242)
T ss_pred             EEEECCCCCCCCHHHHHHHHHHHHHHHH--------CCC--CEEEEECCCHHHHHH
T ss_conf             9873014665888899999999999997--------169--889981799999999


No 213
>pfam05673 DUF815 Protein of unknown function (DUF815). This family consists of several bacterial proteins of unknown function.
Probab=98.39  E-value=8.3e-05  Score=58.02  Aligned_cols=189  Identities=24%  Similarity=0.407  Sum_probs=105.0

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHH
Q ss_conf             67459489999999999874101236566512898726786168899999998723776530022447740345320130
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLI  647 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~Li  647 (853)
                      +..+|-+...+.+.+....--.|+     |--..|+-|..|+||+.|.|++-..+....-+||-++-....+=       
T Consensus        28 ~~L~Gie~Qk~~l~~NT~~F~~G~-----pAnnvLLwG~RGtGKSSlVKall~~~~~~gLrlIEv~k~~L~~L-------   95 (248)
T pfam05673        28 DDLVGIDRQKEALLRNTEQFLAGL-----PANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVDKDDLGDL-------   95 (248)
T ss_pred             HHHCCHHHHHHHHHHHHHHHHCCC-----CCCCEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEECHHHHCCH-------
T ss_conf             893493999999999999998089-----86136767689898889999999986314956999878887219-------


Q ss_pred             CCCCHHCCCCCCCCCCHHHHCCCCC-EEEEHHHH-HCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHH
Q ss_conf             4771120356677421132215641-02202144-149899999999840457887999778303315595485126876
Q gi|254780877|r  648 GSPPGYVGYEEGGALTEAVRRHPYQ-VVLFDEIE-KAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYL  725 (853)
Q Consensus       648 GappGYvG~~~gg~Lte~vr~~P~s-Vil~DEiE-Kah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~  725 (853)
                                  ..|.+.++..|+- ||++|.+- .++..=+..|--+||-|.       ...-.|.+|-.|||-  +.+
T Consensus        96 ------------p~i~~~l~~~~~kFIiF~DDLSFe~~d~~yk~LKs~LeG~l-------~~~p~NvliYaTSNR--RHL  154 (248)
T pfam05673        96 ------------PDIVDLLRGRPYRFILFCDDLSFEEGESSYKALKSVLEGGL-------EARPDNVLIYATSNR--RHL  154 (248)
T ss_pred             ------------HHHHHHHHCCCCCEEEEECCCCCCCCCHHHHHHHHHHCCCC-------CCCCCEEEEEEECCC--HHC
T ss_conf             ------------99999996499757999635576789736999999965764-------468873899984270--003


Q ss_pred             HCC-----H--HHH--HHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEE---CHH
Q ss_conf             403-----2--679--9999999986288577266681586288998999999999999999999857989999---889
Q gi|254780877|r  726 IED-----G--DSV--HDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDF---DDQ  793 (853)
Q Consensus       726 ~~~-----~--~~~--~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~---~~~  793 (853)
                      ...     .  +++  .+.+.+.      -.+-.|+.-.+.|.|.+.++...|++.+++.       .++.+.-   ...
T Consensus       155 i~e~~~d~~~~~ei~~~d~~eEk------lSLsDRFGL~l~F~~~~q~~YL~IV~~~~~~-------~~~~~~~e~l~~~  221 (248)
T pfam05673       155 IPEYMSDNEGDGEIHPGDAVEEK------LSLSDRFGLWLGFHPFDQDEYLAIVRGYAAR-------LGLPLDEEELRRE  221 (248)
T ss_pred             CCHHHCCCCCCCCCCCCHHHHHH------HHHHHHCCEEEEECCCCHHHHHHHHHHHHHH-------CCCCCCHHHHHHH
T ss_conf             63332347774436725577745------3489867717850799999999999999998-------2999998999999


Q ss_pred             HHHHHHHCC
Q ss_conf             999999708
Q gi|254780877|r  794 VIDWLSCRG  802 (853)
Q Consensus       794 ~~~~l~~~~  802 (853)
                      |+.|-..+|
T Consensus       222 Al~wa~~rg  230 (248)
T pfam05673       222 ALQWALTRG  230 (248)
T ss_pred             HHHHHHHCC
T ss_conf             999999838


No 214
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=98.38  E-value=0.0001  Score=57.20  Aligned_cols=121  Identities=25%  Similarity=0.335  Sum_probs=76.8

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCC------CCCCCHHHHCCC
Q ss_conf             76745948999999999987410123656651289872678616889999999872377653------002244774034
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENS------MIRIDMSEYMEK  640 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~------lir~dMsey~e~  640 (853)
                      -..||||+++++.+.++|...|.        --.|||+||.|||||.+|+.||+.|.- +..      -..-.|-+...-
T Consensus        14 F~eviGQe~v~~~L~~Ai~~gri--------~HAYLFsGprG~GKTt~ARilAkaLNC-~~~~~~~PCg~C~sC~~i~~g   84 (775)
T PRK07764         14 FAEVVGQEHVTEPLSTALDSGRI--------NHAYLFSGPRGCGKTSSARILARSLNC-AQGPTSTPCGVCDSCVALAPG   84 (775)
T ss_pred             HHHHCCCHHHHHHHHHHHHCCCC--------CCEEEEECCCCCCHHHHHHHHHHHHCC-CCCCCCCCCCCCHHHHHHHCC
T ss_conf             66622859999999999981997--------633762378887888999999999668-999998988887637888638


Q ss_pred             C----CCCHHHCCCCHHCCCCCCCCCCHHHHCCC----CCEEEEHHHHHCCHHHHHHHHHHHHCCE
Q ss_conf             5----32013047711203566774211322156----4102202144149899999999840457
Q gi|254780877|r  641 H----SVSRLIGSPPGYVGYEEGGALTEAVRRHP----YQVVLFDEIEKAHSDVHNILLQVLDDGR  698 (853)
Q Consensus       641 ~----~vs~LiGappGYvG~~~gg~Lte~vr~~P----~sVil~DEiEKah~~v~~~llqild~G~  698 (853)
                      +    .|--+=++.  +-|-|+--.|.+.++..|    |-|.++||++.-...-||.||.+|+|=-
T Consensus        85 ~~~~~DviEiDAAS--~~gVddiReL~e~~~y~P~~~ryKVyIIDEaHmls~~afNALLKtLEEPP  148 (775)
T PRK07764         85 GPGSLDVVEIDAAS--HGGVDDARELRERAFFAPAQSRYRIFIIDEAHMVTTAGFNALLKIVEEPP  148 (775)
T ss_pred             CCCCCCEEEECCCC--CCCHHHHHHHHHHCCCCCCCCCEEEEEEECHHHHCHHHHHHHHHHHCCCC
T ss_conf             98888668731565--56889999999854768767863599985354407999999988622786


No 215
>KOG0728 consensus
Probab=98.38  E-value=2.9e-06  Score=69.88  Aligned_cols=150  Identities=30%  Similarity=0.545  Sum_probs=103.0

Q ss_pred             CCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCC----H
Q ss_conf             012365665128987267861688999999987237765300224477403453201304771120356677421----1
Q gi|254780877|r  589 AGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALT----E  664 (853)
Q Consensus       589 ~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lt----e  664 (853)
                      .|+.   +|-|++| .||+|+|||-||+++|-.-   +-.+||..-||.     |.+.||         ||..+.    -
T Consensus       176 LGIa---QPKGvlL-ygppgtGktLlaraVahht---~c~firvsgsel-----vqk~ig---------egsrmvrelfv  234 (404)
T KOG0728         176 LGIA---QPKGVLL-YGPPGTGKTLLARAVAHHT---DCTFIRVSGSEL-----VQKYIG---------EGSRMVRELFV  234 (404)
T ss_pred             CCCC---CCCCEEE-ECCCCCCHHHHHHHHHHHC---CEEEEEECHHHH-----HHHHHH---------HHHHHHHHHHH
T ss_conf             1878---8760488-4699975629999987541---407999644999-----999850---------13899999999


Q ss_pred             HHHCCCCCEEEEHHHHHC-----------CHHHHHHHHHHHH--CCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHH
Q ss_conf             322156410220214414-----------9899999999840--457887999778303315595485126876403267
Q gi|254780877|r  665 AVRRHPYQVVLFDEIEKA-----------HSDVHNILLQVLD--DGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDS  731 (853)
Q Consensus       665 ~vr~~P~sVil~DEiEKa-----------h~~v~~~llqild--~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~  731 (853)
                      .-|.+.-|+|+.|||+--           .++|+...|.+|.  ||+=+        -+|.-+||.+|-  -.+.     
T Consensus       235 marehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfea--------tknikvimatnr--idil-----  299 (404)
T KOG0728         235 MAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEA--------TKNIKVIMATNR--IDIL-----  299 (404)
T ss_pred             HHHHCCCCEEEEHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCC--------CCCEEEEEECCC--CCCC-----
T ss_conf             9875088267500001212343457898638999999999974024000--------366269984164--2224-----


Q ss_pred             HHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEE
Q ss_conf             999999999862885772666815862889989999999999999999998579899
Q gi|254780877|r  732 VHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISM  788 (853)
Q Consensus       732 ~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l  788 (853)
                       .    .   ..++|   +|||.-|-|.|-+.+....|++..-...+-   -+||++
T Consensus       300 -d----~---allrp---gridrkiefp~p~e~ar~~ilkihsrkmnl---~rgi~l  342 (404)
T KOG0728         300 -D----P---ALLRP---GRIDRKIEFPPPNEEARLDILKIHSRKMNL---TRGINL  342 (404)
T ss_pred             -C----H---HHCCC---CCCCCCCCCCCCCHHHHHHHHHHHHHHHHH---HCCCCH
T ss_conf             -6----8---66387---754555648998778887899885553013---306678


No 216
>KOG0739 consensus
Probab=98.37  E-value=5.9e-06  Score=67.37  Aligned_cols=132  Identities=27%  Similarity=0.475  Sum_probs=93.5

Q ss_pred             HHHCCCC--CCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHC
Q ss_conf             9633677--78668952887407779999999873489984445743788731354217454202454589999998607
Q gi|254780877|r  192 QVLSRRT--KNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSE  269 (853)
Q Consensus       192 ~iL~r~~--k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~  269 (853)
                      |....++  -...+|.|+||.||+-++..+|-.          .|...|++.-+-|++  +.-||-|.-++++.+-..+.
T Consensus       157 qlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATE----------AnSTFFSvSSSDLvS--KWmGESEkLVknLFemARe~  224 (439)
T KOG0739         157 QLFTGKRKPWRGILLYGPPGTGKSYLAKAVATE----------ANSTFFSVSSSDLVS--KWMGESEKLVKNLFEMAREN  224 (439)
T ss_pred             HHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHH----------CCCCEEEEEHHHHHH--HHHCCHHHHHHHHHHHHHHC
T ss_conf             541588775425788679997577999998741----------477068730178899--87321799999999998734


Q ss_pred             CCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHC---------CCCEEEEEEECHHHHHHHHHCCHHHHHCCCE-EECC
Q ss_conf             99769996362773026665543358888765312---------4660489974489999973001113202311-1115
Q gi|254780877|r  270 DGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLA---------RGELHCIGATTLDEYRKYIEKDPALARRFQS-LLVG  339 (853)
Q Consensus       270 ~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~La---------rG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~-i~V~  339 (853)
                       .+-|+|||||..+-|++ +++--+++--+|-.+-         ...+-+.|||..-     .--|.|+-|||++ |.+.
T Consensus       225 -kPSIIFiDEiDslcg~r-~enEseasRRIKTEfLVQMqGVG~d~~gvLVLgATNiP-----w~LDsAIRRRFekRIYIP  297 (439)
T KOG0739         225 -KPSIIFIDEIDSLCGSR-SENESEASRRIKTEFLVQMQGVGNDNDGVLVLGATNIP-----WVLDSAIRRRFEKRIYIP  297 (439)
T ss_pred             -CCCEEEEEHHHHHCCCC-CCCCHHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCC-----HHHHHHHHHHHHCCEECC
T ss_conf             -99479863444432688-77711777777778887640666588864897237884-----367799998765023010


Q ss_pred             CCC
Q ss_conf             777
Q gi|254780877|r  340 EPT  342 (853)
Q Consensus       340 Eps  342 (853)
                      =|.
T Consensus       298 LPe  300 (439)
T KOG0739         298 LPE  300 (439)
T ss_pred             CCC
T ss_conf             873


No 217
>PRK08727 hypothetical protein; Validated
Probab=98.36  E-value=8.3e-05  Score=58.04  Aligned_cols=188  Identities=16%  Similarity=0.190  Sum_probs=115.4

Q ss_pred             CCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHH
Q ss_conf             33357899999996336777866895288740777999999987348998444574378873135421745420245458
Q gi|254780877|r  180 VIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERL  259 (853)
Q Consensus       180 VIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~  259 (853)
                      +.|.+..+.++........-+-..|.|++|+|||.+.++++.....       .++....+++...          ....
T Consensus        22 i~~~n~~~a~l~~~~~~~~~~~lyl~G~~GsGKTHLl~a~~~~~~~-------~~~~~~yl~l~~~----------~~~~   84 (233)
T PRK08727         22 IAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALSLCAAAEQ-------AGRSSAYLPLQAA----------AGRL   84 (233)
T ss_pred             CCCCHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHH-------CCCCEEEEEHHHH----------HHHH
T ss_conf             6785599999998743888898999899999889999999999982-------7997288447885----------3202


Q ss_pred             HHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHCC---CEE
Q ss_conf             99999986079976999636277302666554335888876531246604899744899999730011132023---111
Q gi|254780877|r  260 KSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGATTLDEYRKYIEKDPALARRF---QSL  336 (853)
Q Consensus       260 ~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RRF---q~i  336 (853)
                      ..+++.+...   -.+.||++|.+.|....+-+  .=|++--...+|.--++.+..+--.-....+|  |..|+   ..+
T Consensus        85 ~~~l~~le~~---~ll~iDDid~i~g~~~~e~a--LFhL~N~~~~~~~~ll~ts~~~P~~l~~~l~D--L~SRL~~~~~~  157 (233)
T PRK08727         85 RDALEALEGR---SLVALDGVDSIAGQREDEVA--LFDFHNRARAAGITLLYTARQMPDGLALVLPD--LRSRLSQCIRI  157 (233)
T ss_pred             HHHHHHHCCC---CEEEEECCHHCCCCHHHHHH--HHHHHHHHHHCCCEEEEECCCCHHHHCCCHHH--HHHHHHCCCEE
T ss_conf             5677531038---97898550112698279999--99999999861983899779895662310021--99999669228


Q ss_pred             ECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf             11577767899999997898654149610158999998633320245767477899999999
Q gi|254780877|r  337 LVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEAS  398 (853)
Q Consensus       337 ~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~  398 (853)
                      .+.+|+.++-..+|+....    ..|+.++++++.+.++-..|=+..   =-+.+|-||.+.
T Consensus       158 ~l~~~dD~~~~~iL~~~a~----~rgl~l~~~V~~Yll~r~~R~~~~---l~~~l~~LD~~S  212 (233)
T PRK08727        158 GLPVLDDVARAAVLRDRAQ----RRGLALDEAAIDWLLTHGERELAG---LVALLDRLDRES  212 (233)
T ss_pred             EECCCCHHHHHHHHHHHHH----HCCCCCCHHHHHHHHHHCCCCHHH---HHHHHHHHHHHH
T ss_conf             8578897999999999999----869999989999999856889999---999999999999


No 218
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF; InterPro: IPR014317   Members of this protein are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, found in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol and filamentous phage infection..
Probab=98.36  E-value=2.2e-05  Score=62.71  Aligned_cols=219  Identities=26%  Similarity=0.377  Sum_probs=164.3

Q ss_pred             HCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCC---CCCCCCCCHHHHCCCCCCCHH
Q ss_conf             45948999999999987410123656651289872678616889999999872377---653002244774034532013
Q gi|254780877|r  570 VIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDD---ENSMIRIDMSEYMEKHSVSRL  646 (853)
Q Consensus       570 v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~---~~~lir~dMsey~e~~~vs~L  646 (853)
                      +|||..|--.|.+.+.+    +..-+||+   |.+|=-|+||=-.|..|.= |  |   +.++|.+||+-.+|.--=|=|
T Consensus         1 liG~S~aFL~vLeqvS~----lA~l~rPV---LiiGERGTGKELiA~RLHy-L--S~RW~~Plv~LNCAALse~LldSEL   70 (349)
T TIGR02974         1 LIGESNAFLEVLEQVSR----LAPLDRPV---LIIGERGTGKELIAARLHY-L--SKRWQQPLVKLNCAALSENLLDSEL   70 (349)
T ss_pred             CCCCCHHHHHHHHHHHH----CCCCCCCE---EEEECCCCCHHHHHHHHHH-H--HHHHCCCCEEEECCCCCCHHHHHHH
T ss_conf             98872789999998751----04678866---8861467468999988533-2--4655488626610127825555665


Q ss_pred             HCCCCHHCCCCCCCCCCHHHHCCC-------CCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCC
Q ss_conf             047711203566774211322156-------4102202144149899999999840457887999778303315595485
Q gi|254780877|r  647 IGSPPGYVGYEEGGALTEAVRRHP-------YQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSN  719 (853)
Q Consensus       647 iGappGYvG~~~gg~Lte~vr~~P-------~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN  719 (853)
                      +|       || .|--|.|-++|+       -.=+.||||=.|...|+.-||-|.+.|.+-==.|...==.|+=||+-||
T Consensus        71 FG-------HE-aGAFTGA~~rh~GRFERAdGGTLFLDElAtas~~VQEKLLRViEYG~fERVGG~~~l~vDVRlvaATN  142 (349)
T TIGR02974        71 FG-------HE-AGAFTGAKKRHEGRFERADGGTLFLDELATASLAVQEKLLRVIEYGEFERVGGSQTLKVDVRLVAATN  142 (349)
T ss_pred             HH-------HC-CCCHHHHCCCCCCCCEECCCCCCHHHHHHCCCHHHHHHHHHHHCCCCEEECCCCCEEEECCEEEECCC
T ss_conf             31-------00-10013030468898544368873888871421676786612010130330178604773513676214


Q ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCC-CEEECCCCCH--HHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHH
Q ss_conf             1268764032679999999998628857726668-1586288998--999999999999999999857989999889999
Q gi|254780877|r  720 LGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLD-EIILFEKLRK--EDMAKIVRIQLGRVLSLIKERNISMDFDDQVID  796 (853)
Q Consensus       720 ~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid-~iv~F~~l~~--~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~  796 (853)
                      .       +      .-.=+-.+.||-+||+|+- +||..-||-.  +|+.-+++.+=-.+..-| ......-||+.|..
T Consensus       143 ~-------D------LP~lA~~G~FRaDLLDRLAFDVi~LPPLR~R~~DI~lLAe~FA~~Ma~EL-~~~~F~GFt~~A~~  208 (349)
T TIGR02974       143 A-------D------LPALAAEGRFRADLLDRLAFDVITLPPLRERQEDIMLLAEHFAIRMAREL-GLPLFPGFTPQARE  208 (349)
T ss_pred             C-------C------HHHHHHCCCCCCHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHH-CCCCCHHHHHHHHH
T ss_conf             1-------3------69898658984014554456550797888872327899999999999970-78655114389999


Q ss_pred             HHHHCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             99970898220621579999987334
Q gi|254780877|r  797 WLSCRGYDPSYGARPLKRVIQRYIQN  822 (853)
Q Consensus       797 ~l~~~~~~~~~GaR~l~r~i~~~i~~  822 (853)
                      .|.+  |+=---.|.||.+||+.|..
T Consensus       209 ~L~~--Y~WPGNvRELkNvvERsVyR  232 (349)
T TIGR02974       209 QLLE--YHWPGNVRELKNVVERSVYR  232 (349)
T ss_pred             HHHC--CCCCCCCHHHHHHHHHHHHH
T ss_conf             9970--68888521244467666530


No 219
>KOG0737 consensus
Probab=98.36  E-value=3.8e-06  Score=68.94  Aligned_cols=140  Identities=24%  Similarity=0.434  Sum_probs=105.4

Q ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEE
Q ss_conf             77866895288740777999999987348998444574378873135421745420245458999999860799769996
Q gi|254780877|r  198 TKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFI  277 (853)
Q Consensus       198 ~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfi  277 (853)
                      --.+++|-|+||.|||-++..+|.+          .+...+.++++.+..  |.=||=|.-++.+.--..+- .+.|+||
T Consensus       126 p~kGiLL~GPpG~GKTmlAKA~Ake----------aga~fInv~~s~lt~--KWfgE~eKlv~AvFslAsKl-~P~iIFI  192 (386)
T KOG0737         126 PPKGILLYGPPGTGKTMLAKAIAKE----------AGANFINVSVSNLTS--KWFGEAQKLVKAVFSLASKL-QPSIIFI  192 (386)
T ss_pred             CCCCCEECCCCCCHHHHHHHHHHHH----------CCCCCCEEECCCCCH--HHHHHHHHHHHHHHHHHHHC-CCCEEEH
T ss_conf             8643051189982188999999987----------279710001365532--66777888999998206534-8615656


Q ss_pred             CCHHHHCCCCCCCCCCCHHHHHHHH--------HCCCC--EEEEEEECHHHHHHHHHCCHHHHHCCC-EEECCCCCHHHH
Q ss_conf             3627730266655433588887653--------12466--048997448999997300111320231-111157776789
Q gi|254780877|r  278 DELHVLVGAGKTDGAMDASNLLKPS--------LARGE--LHCIGATTLDEYRKYIEKDPALARRFQ-SLLVGEPTVTDT  346 (853)
Q Consensus       278 de~h~~~gaG~~~g~~Daan~LKP~--------LarG~--l~~IgaTT~~Eyrk~iEkD~Al~RRFq-~i~V~Eps~~~t  346 (853)
                      ||+-+.+|.- +.+--.|--++|-.        .+.+.  +-+.|||--     -++=|.|.-|||- ...|.=|+.+.-
T Consensus       193 DEvds~L~~R-~s~dHEa~a~mK~eFM~~WDGl~s~~~~rVlVlgATNR-----P~DlDeAiiRR~p~rf~V~lP~~~qR  266 (386)
T KOG0737         193 DEVDSFLGQR-RSTDHEATAMMKNEFMALWDGLSSKDSERVLVLGATNR-----PFDLDEAIIRRLPRRFHVGLPDAEQR  266 (386)
T ss_pred             HHHHHHHHHC-CCCHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEECCCC-----CCCHHHHHHHHCCCEEEECCCCHHHH
T ss_conf             6588898640-46427999999999999861646788715999707999-----84378999984764365379844449


Q ss_pred             HHHHHHHHHH
Q ss_conf             9999997898
Q gi|254780877|r  347 ISILRGLKER  356 (853)
Q Consensus       347 ~~iL~gl~~~  356 (853)
                      -.||+-+...
T Consensus       267 ~kILkviLk~  276 (386)
T KOG0737         267 RKILKVILKK  276 (386)
T ss_pred             HHHHHHHHCC
T ss_conf             9999999424


No 220
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=98.35  E-value=0.00019  Score=55.14  Aligned_cols=45  Identities=13%  Similarity=-0.020  Sum_probs=23.9

Q ss_pred             CCCCCCHHHHHHHHHH----CCCCHHHHH-HHCCCCHHHHHHHHHHHHCC
Q ss_conf             9870259998766872----775178899-97599989999999987377
Q gi|254780877|r  102 GDSFVTAEKFLLAMVM----ETGGIGESL-KKCGLKFSRLEESIKKLRKG  146 (853)
Q Consensus       102 g~~~I~~ehLLlAIl~----e~~s~a~iL-~~~gi~~~~l~e~i~~~~~~  146 (853)
                      -++.|+.+|++-++-.    .+-.++++| -.-|+-+..+-..+.+..+-
T Consensus        15 f~~~vGQ~~v~~~l~na~~~~r~~haylf~G~rG~GKtt~ari~ak~lnc   64 (643)
T PRK07994         15 FADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNC   64 (643)
T ss_pred             HHHHCCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             66653879999999999982986634874589988888999999999679


No 221
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=98.35  E-value=2e-05  Score=63.04  Aligned_cols=174  Identities=19%  Similarity=0.400  Sum_probs=110.9

Q ss_pred             CCCHHHHHHHHHHHHCCCCCCC------EEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHC-----C
Q ss_conf             3335789999999633677786------6895288740777999999987348998444574378873135421-----7
Q gi|254780877|r  180 VIGRDDEMRRAIQVLSRRTKNN------PVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIA-----G  248 (853)
Q Consensus       180 VIGRe~EI~~~~~iL~r~~k~n------~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~a-----g  248 (853)
                      -.|=++-=+|+++-|+=+..++      .||||+||||||+|...+|.-+          |+..+.+.+|.+--     |
T Consensus       324 HyGL~~vKeRile~lAv~~~~~~~kg~IlclvGpPGvGKTSl~~sIA~al----------~r~f~rislGGv~DeaeirG  393 (784)
T PRK10787        324 HYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKAT----------GRKYVRMALGGVRDEAEIRG  393 (784)
T ss_pred             HCCHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHH----------CCCEEEEECCCCCCHHHHCC
T ss_conf             30657799999999999986246778779964699877246999999985----------89869980688788888256


Q ss_pred             --CCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHH----HHHHHH---------HC----CCCEE
Q ss_conf             --454202454589999998607997699963627730266655433588----887653---------12----46604
Q gi|254780877|r  249 --AKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDAS----NLLKPS---------LA----RGELH  309 (853)
Q Consensus       249 --~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daa----n~LKP~---------La----rG~l~  309 (853)
                        -.|-|-.-.|+-.-|..+...+ +| ..+|||.-+ |.+ ..  .|-|    .+|-|.         |.    =...-
T Consensus       394 HrrTYvgampGrii~~l~~a~~~n-Pv-~llDEiDK~-~~~-~~--Gdp~salLEvLDpeQN~~F~Dhyl~~~~DlS~v~  467 (784)
T PRK10787        394 HRRTYIGSMPGKLIQKMAKVGVKN-PL-FLLDEIDKM-SSD-MR--GDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVM  467 (784)
T ss_pred             CCCCCCCCCCHHHHHHHHHHCCCC-CE-EEEHHHHHH-CCC-CC--CCHHHHHHHHCCHHHCCCCCCCEEECCCCHHHEE
T ss_conf             433434436838999999748988-56-650035552-245-58--9988999984597655640003220464522258


Q ss_pred             EEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHH-HHHHHHHHHCC-----CCCCHHHHHHHHH
Q ss_conf             899744899999730011132023111115777678999999-97898654149-----6101589999986
Q gi|254780877|r  310 CIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILR-GLKERYEQHHK-----VRISDSALVSAAV  375 (853)
Q Consensus       310 ~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~-gl~~~yE~~H~-----V~i~d~al~~av~  375 (853)
                      +|+  |-..    ..--++|-.|.+.|.+.-=+.+|-+.|-+ -+.|+--+.||     +.|+|+||...++
T Consensus       468 Fi~--TaN~----~~ip~pLlDRmE~i~~~gYt~~eK~~Ia~~~l~p~~~~~~gl~~~~~~~~~~~~~~ii~  533 (784)
T PRK10787        468 FVA--TSNS----MNIPAPLLDRMEVIRLSGYTEDEKLNIAKRHLLPKQIERNALKKGELTVDDSAIIGIIR  533 (784)
T ss_pred             EEE--ECCC----CCCCHHHHHHEEEEEECCCCHHHHHHHHHHHCHHHHHHHHCCCCCCCCCCHHHHHHHHH
T ss_conf             997--3276----77876776312155411676788999999745399999828996567439999999875


No 222
>TIGR00368 TIGR00368 Mg chelatase homolog; InterPro: IPR004482   This family of bacterial proteins are variously described as 'hypothetical protein yifB', 'competence protein', 'hypothetical protein' or 'Mg chelatase-related protein'. These proteins are a subset of the magnesium chelatase, ChlI subunit family and either belong to or show significant homology to the non-peptidase homologs of the MEROPS peptidase family S16 (lon protease family, clan SF), IPR001984 from INTERPRO. .
Probab=98.34  E-value=1e-06  Score=73.62  Aligned_cols=219  Identities=22%  Similarity=0.324  Sum_probs=119.2

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHH
Q ss_conf             67459489999999999874101236566512898726786168899999998723776530022447740345320130
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLI  647 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~Li  647 (853)
                      +-|+||++|-+++.-++    ||=.       .+||+||+|+|||-+|+.+.-.|=.       +.--|--|..+|..|.
T Consensus       194 ~dv~GQ~~akRAleIAa----AGGH-------Nlll~GPPGsGKTmla~r~~giLP~-------L~~~EalE~~~v~S~~  255 (505)
T TIGR00368       194 KDVKGQQHAKRALEIAA----AGGH-------NLLLLGPPGSGKTMLASRLQGILPP-------LTNEEALETARVLSLV  255 (505)
T ss_pred             CCCCCHHHCCHHHHHHH----HCCC-------CEEEECCCCCCHHHHHHHHHCCCCC-------CCCHHHHHHHHHHHHH
T ss_conf             22545101102677753----1356-------4376782496268999875105786-------4512666678888888


Q ss_pred             C---------------------CCCHHCCCC---CCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCC
Q ss_conf             4---------------------771120356---6774211322156410220214414989999999984045788799
Q gi|254780877|r  648 G---------------------SPPGYVGYE---EGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQ  703 (853)
Q Consensus       648 G---------------------appGYvG~~---~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~  703 (853)
                      |                     |-||-||=+   ..|...=|    -..|++|||.-==-..|++.|=|=+++|.++=  
T Consensus       256 ~~l~~~~~~~rQRPFR~PHHsAS~~~lvGGG~~P~PGEiSLA----hnGvLFLDEl~EF~r~vL~~LR~PlEdg~i~i--  329 (505)
T TIGR00368       256 GKLIDRKQWKRQRPFRSPHHSASKPALVGGGSIPKPGEISLA----HNGVLFLDELPEFKRKVLDALREPLEDGSISI--  329 (505)
T ss_pred             HHHHHCCCHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEHH----CCCCHHHHCCHHHHHHHHHHHCCCCCCCCEEE--
T ss_conf             757652301106867786500256664058752228512020----05410432220446789987178742670688--


Q ss_pred             CCEEECCCCEEE-ECCCHH---HHHHH------C---CHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCC-HHHHHH-
Q ss_conf             977830331559-548512---68764------0---32679999999998628857726668158628899-899999-
Q gi|254780877|r  704 GRTVDFRNTLII-MTSNLG---AEYLI------E---DGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLR-KEDMAK-  768 (853)
Q Consensus       704 G~~v~f~n~iii-~TsN~G---~~~~~------~---~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~-~~~~~~-  768 (853)
                          |=.++-|. +=.|.-   |....      +   +.....++.+.=+++ ++-.||+|||--|.-+-+. ...|.. 
T Consensus       330 ----SRa~~ki~kyPA~FqL~aAmNpcPcG~~~~~~~~c~cSp~q~~~Yl~k-Lsgp~LDRiDl~v~v~~~~n~~~L~~t  404 (505)
T TIGR00368       330 ----SRAKAKIFKYPARFQLVAAMNPCPCGHYGGKITHCRCSPQQISRYLNK-LSGPFLDRIDLSVEVPLLPNPGLLSET  404 (505)
T ss_pred             ----EECCCHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHH-CCCHHHCHHCCEECCCCCCCCCHHHHC
T ss_conf             ----632201000872455675617887767778744465897899999874-271120001140013788874134424


Q ss_pred             -------------HHHHHHHHHHHHHHH-CCCEE-------------EECHHHHHHHHHCCCCCCCCCHHHHHHH
Q ss_conf             -------------999999999999985-79899-------------9988999999970898220621579999
Q gi|254780877|r  769 -------------IVRIQLGRVLSLIKE-RNISM-------------DFDDQVIDWLSCRGYDPSYGARPLKRVI  816 (853)
Q Consensus       769 -------------i~~~~l~~l~~~l~~-~~i~l-------------~~~~~~~~~l~~~~~~~~~GaR~l~r~i  816 (853)
                                   |+...=-.+ .|... -+|.+             ++++....+|...=--...-+|...|++
T Consensus       405 ~~~GESS~~vkqrv~kaR~~q~-~R~~k~A~I~~Na~L~s~~i~~FC~L~~~~~~~Le~~L~kLglS~RA~~riL  478 (505)
T TIGR00368       405 GVRGESSAEVKQRVLKAREIQI-KRYEKFAKINLNAELNSDEIEQFCKLDEKDANLLEGALNKLGLSVRATHRIL  478 (505)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHH-HHCCCCCCCCCCCCCCCHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHH
T ss_conf             7899526789999999999999-7303545503373358245654057156889999999987085166887688


No 223
>PRK05648 DNA polymerase III subunits gamma and tau; Reviewed
Probab=98.31  E-value=0.0002  Score=54.99  Aligned_cols=44  Identities=14%  Similarity=0.045  Sum_probs=25.5

Q ss_pred             CCCCCCHHHHHHHHHH----CCCCHHHHH-HHCCCCHHHHHHHHHHHHC
Q ss_conf             9870259998766872----775178899-9759998999999998737
Q gi|254780877|r  102 GDSFVTAEKFLLAMVM----ETGGIGESL-KKCGLKFSRLEESIKKLRK  145 (853)
Q Consensus       102 g~~~I~~ehLLlAIl~----e~~s~a~iL-~~~gi~~~~l~e~i~~~~~  145 (853)
                      -.+.|+.+|++-++..    .+-.++++| ..-|+-+..+-..+.+-.+
T Consensus        15 f~~~~gq~~~~~~l~~~~~~~~~~~a~l~~g~rg~gkt~~ar~~ak~ln   63 (705)
T PRK05648         15 FREMVGQTHVLKALINALDNQRLHHAYLFTGTRGVGKTTIARIIAKCLN   63 (705)
T ss_pred             HHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHC
T ss_conf             7663281999999999997098630465007898889899999999867


No 224
>pfam00493 MCM MCM2/3/5 family.
Probab=98.30  E-value=0.00036  Score=52.84  Aligned_cols=176  Identities=20%  Similarity=0.290  Sum_probs=91.4

Q ss_pred             CCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHH----HHCCC---CCCCHHHHHHHHHHHHHHHC
Q ss_conf             777866895288740777999999987348998444574378873135----42174---54202454589999998607
Q gi|254780877|r  197 RTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGA----LIAGA---KFRGEFEERLKSLLCEIRSE  269 (853)
Q Consensus       197 ~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~----l~ag~---~~rg~~e~r~~~i~~~~~~~  269 (853)
                      |..-|++|||+||+|||.+....++ +...         -+|.-..++    |.|..   ++-|+|-=+--.++    -+
T Consensus        55 Rg~ihiLLvGdPG~gKSqlLk~~~~-~~pr---------~~~tsg~~ss~~GLTa~~~~d~~~~~~~leaGalv----lA  120 (327)
T pfam00493        55 RGDINVLLVGDPGTAKSQLLKYVAK-LAPR---------AVYTSGKGSSAAGLTAAVVRDPDTGEWTLEAGALV----LA  120 (327)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHH-HCCC---------CEEECCCCCCCCCCEEEEEEECCCCCEEEECCCEE----EC
T ss_conf             3651189846998156099999998-6887---------08831776656776158998068883698368477----55


Q ss_pred             CCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCE---------------EEEEEECHHH--H------HHHHHCC
Q ss_conf             997699963627730266655433588887653124660---------------4899744899--9------9973001
Q gi|254780877|r  270 DGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGEL---------------HCIGATTLDE--Y------RKYIEKD  326 (853)
Q Consensus       270 ~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l---------------~~IgaTT~~E--y------rk~iEkD  326 (853)
                      ++ =|++|||+.-+-       .-|-+-|+. +|..+.+               .+|+|.-|.+  |      ...|.=.
T Consensus       121 d~-Gv~cIDEfdk~~-------~~d~saL~E-AMEqqtVsIaKaGi~~tL~ar~sVlAaaNP~~g~yd~~~~~~~ni~Lp  191 (327)
T pfam00493       121 DG-GVCCIDEFDKMN-------EEDRVAIHE-AMEQQTISIAKAGIVATLNARCSVLAAANPIFGRYDPKKSVAENINLP  191 (327)
T ss_pred             CC-CEEEEECCCCCC-------HHHHHHHHH-HHHHCEEEEECCCEEEEECCCCEEEEEECCCCCCCCCCCCHHHHCCCC
T ss_conf             89-827850055588-------767999999-998681776338538972587179985277677378888988855897


Q ss_pred             HHHHHCCCEE--ECCCCCHHHHHHHHHHHHHHHHHHC------CCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             1132023111--1157776789999999789865414------96101589999986333202457674778999999
Q gi|254780877|r  327 PALARRFQSL--LVGEPTVTDTISILRGLKERYEQHH------KVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDE  396 (853)
Q Consensus       327 ~Al~RRFq~i--~V~Eps~~~t~~iL~gl~~~yE~~H------~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDe  396 (853)
                      +++-.||.-|  ....|+.+.-..|.+.+...+....      ...++.+-+..-+.++.+++.- .+++.|.+.|=.
T Consensus       192 ~~lLsRFDLif~l~D~~~~~~D~~ia~~i~~~~~~~~~~~~~~~~~~~~~~l~~yi~~ar~~~~P-~ls~ea~~~i~~  268 (327)
T pfam00493       192 PPLLSRFDLIFVLLDKPDEEKDEELAKHIVDLHRHGEEEEIETEDYVDPELLRKYIAYARENIFP-KLSDEAREKLVN  268 (327)
T ss_pred             HHHHCCEEEEEEEECCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCC-CCCHHHHHHHHH
T ss_conf             67745010798840689868899999999998744688655568879999999999999852788-779899999999


No 225
>PRK06893 DNA replication initiation factor; Validated
Probab=98.30  E-value=0.00017  Score=55.53  Aligned_cols=187  Identities=16%  Similarity=0.192  Sum_probs=110.2

Q ss_pred             CCCHHHHHHHHHHHHCCCCCCC-EEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHH
Q ss_conf             3335789999999633677786-689528874077799999998734899844457437887313542174542024545
Q gi|254780877|r  180 VIGRDDEMRRAIQVLSRRTKNN-PVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEER  258 (853)
Q Consensus       180 VIGRe~EI~~~~~iL~r~~k~n-~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r  258 (853)
                      +.|...+.-..++-.....+++ ..+.|++|+|||-+.+++........       +....+++....          .-
T Consensus        19 ~~~~n~~~~~~l~~~~~~~~~~~l~i~G~~gsGKTHLLqa~~~~~~~~~-------~~~~yi~~~~~~----------~~   81 (229)
T PRK06893         19 YSDNNLLLLDSLRKNFIDLKQPFFYIWGGKSSGKSHLLKAVSNHYLLNQ-------RTAIYIPLSKSQ----------YF   81 (229)
T ss_pred             CCCCHHHHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHC-------CCEEEEEHHHHH----------HC
T ss_conf             4687499999999755024698799989999988999999999999718-------985999737756----------40


Q ss_pred             HHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEE-EEEE-CHHHHHHHHHCCHHHHHCC---
Q ss_conf             8999999860799769996362773026665543358888765312466048-9974-4899999730011132023---
Q gi|254780877|r  259 LKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHC-IGAT-TLDEYRKYIEKDPALARRF---  333 (853)
Q Consensus       259 ~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~-IgaT-T~~Eyrk~iEkD~Al~RRF---  333 (853)
                      -..+++.+...  + .+.||++|.+.|....+-.  .=|++--...+|.-.+ +.+. .|.+.. ...+|  |..||   
T Consensus        82 ~~~~l~~l~~~--d-~l~iDDi~~i~g~~~~e~~--lF~l~N~l~~~~~~~ll~ss~~~p~~l~-~~l~D--L~SRl~~~  153 (229)
T PRK06893         82 SPAVLENLEQQ--D-LVCLDDLQAVIGNEEWELA--IFDLFNRIKESGKTLLLISANQSPHALQ-IKLPD--LASRLTWG  153 (229)
T ss_pred             CHHHHHHHHHC--C-EEEEECHHHHCCCHHHHHH--HHHHHHHHHHCCCCEEEEECCCCHHHHC-CHHHH--HHHHHHCC
T ss_conf             69999876547--9-7999672342488389999--9999999997599179985798833221-00267--99999688


Q ss_pred             CEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf             11111577767899999997898654149610158999998633320245767477899999999
Q gi|254780877|r  334 QSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEAS  398 (853)
Q Consensus       334 q~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~  398 (853)
                      ..+.+++|+.++-..||+....    -.|+.++++++.+.++-..|=+..   =..+++-||.++
T Consensus       154 ~~~~i~~~dd~~~~~iL~~~a~----~rgl~l~~~v~~yl~~r~~R~~~~---l~~~l~~Ld~~s  211 (229)
T PRK06893        154 EIYQLNDLTDEQKIEVLQRNAY----QRGIELSDETANFLLKRLDRDMHT---LFDALDLLDKAS  211 (229)
T ss_pred             EEEEECCCCHHHHHHHHHHHHH----HCCCCCCHHHHHHHHHHHCCCHHH---HHHHHHHHHHHH
T ss_conf             3699667775799999999999----649999989999999983478999---999999999999


No 226
>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]
Probab=98.28  E-value=4.8e-05  Score=59.98  Aligned_cols=158  Identities=24%  Similarity=0.399  Sum_probs=102.5

Q ss_pred             CCCCCCCHHHHHHHHHHHHC------------CCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHH
Q ss_conf             85333335789999999633------------677786689528874077799999998734899844457437887313
Q gi|254780877|r  176 KLDPVIGRDDEMRRAIQVLS------------RRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMG  243 (853)
Q Consensus       176 kLDPVIGRe~EI~~~~~iL~------------r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~  243 (853)
                      +.+-|.|+|+..+.+.+++.            .|--..++|+|+||+|||-++...|-   +-+||       .|+..-+
T Consensus       148 ~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAg---EA~VP-------Ff~iSGS  217 (596)
T COG0465         148 TFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAG---EAGVP-------FFSISGS  217 (596)
T ss_pred             CHHHHCCCHHHHHHHHHHHHHHHCCHHHHHCCCCCCCCEEEECCCCCCCHHHHHHHHC---CCCCC-------CEECCCH
T ss_conf             7566418679999999999986385566752353456526855999872789999845---46898-------3530344


Q ss_pred             HHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCC--CCCCCC-----HHHHHHHH---HCCCCEEEEEE
Q ss_conf             542174542024545899999986079976999636277302666--554335-----88887653---12466048997
Q gi|254780877|r  244 ALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGK--TDGAMD-----ASNLLKPS---LARGELHCIGA  313 (853)
Q Consensus       244 ~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~--~~g~~D-----aan~LKP~---LarG~l~~Iga  313 (853)
                      ..|-  .|.|==..|++.+....++. .+.|+|||||-.+-...+  ..|+-|     ...+|--.   -++..+-+|+|
T Consensus       218 ~FVe--mfVGvGAsRVRdLF~qAkk~-aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~~gviviaa  294 (596)
T COG0465         218 DFVE--MFVGVGASRVRDLFEQAKKN-APCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGVIVIAA  294 (596)
T ss_pred             HHHH--HHCCCCCHHHHHHHHHHHCC-CCCEEEEEHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECC
T ss_conf             4644--31478838889999985515-99669876343314545778899806999999888852015788875488526


Q ss_pred             ECHHHHHHHHHCCHHHH---HCCCEEECCCCCHHHHHHHHH
Q ss_conf             44899999730011132---023111115777678999999
Q gi|254780877|r  314 TTLDEYRKYIEKDPALA---RRFQSLLVGEPTVTDTISILR  351 (853)
Q Consensus       314 TT~~Eyrk~iEkD~Al~---RRFq~i~V~Eps~~~t~~iL~  351 (853)
                      |-..+-     -|+||-   |++..|.|+-|+...--.||+
T Consensus       295 TNRpdV-----lD~ALlRpgRFDRqI~V~~PDi~gRe~Ilk  330 (596)
T COG0465         295 TNRPDV-----LDPALLRPGRFDRQILVELPDIKGREQILK  330 (596)
T ss_pred             CCCCCC-----CHHHHCCCCCCCEEEECCCCCHHHHHHHHH
T ss_conf             787433-----317652887766255447851565788878


No 227
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=98.28  E-value=2.4e-05  Score=62.41  Aligned_cols=175  Identities=21%  Similarity=0.369  Sum_probs=110.7

Q ss_pred             CCCHHHHHHHHHHHHC---CCCC---CCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHC-----C
Q ss_conf             3335789999999633---6777---866895288740777999999987348998444574378873135421-----7
Q gi|254780877|r  180 VIGRDDEMRRAIQVLS---RRTK---NNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIA-----G  248 (853)
Q Consensus       180 VIGRe~EI~~~~~iL~---r~~k---~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~a-----g  248 (853)
                      =.|=++-=+|+++-|+   |+.+   .=.||||+||||||+|....|.-+          |+..+-+.+|.+=-     |
T Consensus       325 HYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al----------~RkfvR~sLGGvrDEAEIRG  394 (782)
T COG0466         325 HYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKAL----------GRKFVRISLGGVRDEAEIRG  394 (782)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHHHHHHHH----------CCCEEEEECCCCCCHHHHCC
T ss_conf             56711689999999999986146788579997899887011899999995----------89779995476542777535


Q ss_pred             --CCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCC-HH---HHHHHH---------HC-C---CCEE
Q ss_conf             --4542024545899999986079976999636277302666554335-88---887653---------12-4---6604
Q gi|254780877|r  249 --AKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMD-AS---NLLKPS---------LA-R---GELH  309 (853)
Q Consensus       249 --~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~D-aa---n~LKP~---------La-r---G~l~  309 (853)
                        -.|-|-.-.|+-.-|+.+...+ +++ .+|||.-+-    ++--.| ||   .+|-|-         |. .   .+.-
T Consensus       395 HRRTYIGaMPGrIiQ~mkka~~~N-Pv~-LLDEIDKm~----ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~Vm  468 (782)
T COG0466         395 HRRTYIGAMPGKIIQGMKKAGVKN-PVF-LLDEIDKMG----SSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVM  468 (782)
T ss_pred             CCCCCCCCCCHHHHHHHHHHCCCC-CEE-EEECHHHCC----CCCCCCHHHHHHHHCCHHHCCCHHHCCCCCCCCHHHEE
T ss_conf             531233568728999999867768-747-864033316----77778868888862697656761222016766443258


Q ss_pred             EEEEECHHHHHHHHHC-CHHHHHCCCEEECCCCCHHHHHHHHH-HHHHHHHHHCC-----CCCCHHHHHHHHHH
Q ss_conf             8997448999997300-11132023111115777678999999-97898654149-----61015899999863
Q gi|254780877|r  310 CIGATTLDEYRKYIEK-DPALARRFQSLLVGEPTVTDTISILR-GLKERYEQHHK-----VRISDSALVSAAVL  376 (853)
Q Consensus       310 ~IgaTT~~Eyrk~iEk-D~Al~RRFq~i~V~Eps~~~t~~iL~-gl~~~yE~~H~-----V~i~d~al~~av~l  376 (853)
                      +|  +| ..   +++. -++|-.|-+.|.+.-=+.+|-++|-+ .+-|+-=+-||     +.|+|+||...++.
T Consensus       469 Fi--aT-AN---sl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~LiPk~~~~~gL~~~el~i~d~ai~~iI~~  536 (782)
T COG0466         469 FI--AT-AN---SLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHLIPKQLKEHGLKKGELTITDEAIKDIIRY  536 (782)
T ss_pred             EE--EE-CC---CCCCCCHHHHCCEEEEEECCCCHHHHHHHHHHHCCHHHHHHCCCCCCCEEECHHHHHHHHHH
T ss_conf             88--60-37---51329867843030564268886999999998445689997599823355658999999998


No 228
>PRK08770 DNA polymerase III subunits gamma and tau; Validated
Probab=98.26  E-value=0.00039  Score=52.56  Aligned_cols=45  Identities=11%  Similarity=-0.008  Sum_probs=25.8

Q ss_pred             CCCCCCHHHHHHHHHH--C--CCCHHHHH-HHCCCCHHHHHHHHHHHHCC
Q ss_conf             9870259998766872--7--75178899-97599989999999987377
Q gi|254780877|r  102 GDSFVTAEKFLLAMVM--E--TGGIGESL-KKCGLKFSRLEESIKKLRKG  146 (853)
Q Consensus       102 g~~~I~~ehLLlAIl~--e--~~s~a~iL-~~~gi~~~~l~e~i~~~~~~  146 (853)
                      -.+.|+.+|++-++..  +  +-.++++| ..-|+-+..+-..+.+-.+-
T Consensus        15 f~~~~gq~~~~~~l~~~~~~~~~~~a~lf~g~rg~gkt~~ar~~a~~lnc   64 (663)
T PRK08770         15 FAELVGQEHVVRALSNALDSGRVHHAFLFTGTRGVGKTTIARIFAKSLNC   64 (663)
T ss_pred             HHHHCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             64522859999999999970997404762279988888999999998678


No 229
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=98.26  E-value=3.2e-05  Score=61.42  Aligned_cols=148  Identities=20%  Similarity=0.301  Sum_probs=89.1

Q ss_pred             HHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEE----EHHHHHCCCCC-CCHHH--
Q ss_conf             789999999633677786689528874077799999998734899844457437887----31354217454-20245--
Q gi|254780877|r  184 DDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMAL----DMGALIAGAKF-RGEFE--  256 (853)
Q Consensus       184 e~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~l----d~~~l~ag~~~-rg~~e--  256 (853)
                      +.-|+..  +++-++|.|+||-|.||+|||-++.-||.-+..++.|...   +++..    .-...+-|-+- .+.|+  
T Consensus       181 ~~~i~~~--~~sLktKknvIL~G~pGtGKT~lAk~lA~~l~g~~~~~rv---~~VqfhpsysYEDfi~Gyrp~~~gf~~~  255 (459)
T PRK11331        181 ETTIETI--LKRLTIKKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRV---NMVQFHQSYSYEDFIQGYRPNGVGFRRK  255 (459)
T ss_pred             CHHHHHH--HHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCCCE---EEEEECCCCCHHHHHCCCCCCCCCCEEC
T ss_conf             1359999--9985458827965899988789999999997078877846---8998358866178764605688861326


Q ss_pred             -HHHHHHHHHHHHC-CCCEEEEECCHH------------HHCCCCCCCCCCCHHHHHHHHHC--------CCCEEEEEEE
Q ss_conf             -4589999998607-997699963627------------73026665543358888765312--------4660489974
Q gi|254780877|r  257 -ERLKSLLCEIRSE-DGEIILFIDELH------------VLVGAGKTDGAMDASNLLKPSLA--------RGELHCIGAT  314 (853)
Q Consensus       257 -~r~~~i~~~~~~~-~~~~ilfide~h------------~~~gaG~~~g~~Daan~LKP~La--------rG~l~~IgaT  314 (853)
                       ..+..+++.+.+. +.+-+++||||.            +++.+......   -.+--|+..        --.+-+||+.
T Consensus       256 ~G~f~~~~~~A~~~p~~~y~~iideinr~~~~~~fgel~~liE~dkR~~~---~~~~l~ys~~~~~~f~vP~Nl~iigtm  332 (459)
T PRK11331        256 DGIFYNFCQQAKEQPEKKYVFIIDEINRANLSKVFGEVMMLMEHDKRGEN---WSVPLTYSENDEERFYVPENVYIIGLM  332 (459)
T ss_pred             CCHHHHHHHHHHHCCCCCEEEEEEHHHCCCHHHHHHHHHHHHHHCCCCCC---CEEEEECCCCCCCEECCCCCEEEEEEC
T ss_conf             83699999999849898769998432033889999999999641256765---225630036888533468865999850


Q ss_pred             CHHHHHHHHHCCHHHHHCCCEEECCC
Q ss_conf             48999997300111320231111157
Q gi|254780877|r  315 TLDEYRKYIEKDPALARRFQSLLVGE  340 (853)
Q Consensus       315 T~~Eyrk~iEkD~Al~RRFq~i~V~E  340 (853)
                      -.+. |.+---|.||-|||.-+.+.+
T Consensus       333 Ntad-rs~~~~d~alrRrf~f~~~~p  357 (459)
T PRK11331        333 NTAD-RSLAVVDYALRRRFSFIDIEP  357 (459)
T ss_pred             CCCC-HHHHHHHHHHHHHHCCEECCC
T ss_conf             3341-068878999986502121589


No 230
>KOG0989 consensus
Probab=98.26  E-value=6e-05  Score=59.14  Aligned_cols=204  Identities=22%  Similarity=0.263  Sum_probs=143.0

Q ss_pred             HHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHH
Q ss_conf             43569987298533333578999999963367778668952887407779999999873489984445743788731354
Q gi|254780877|r  166 RDLTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGAL  245 (853)
Q Consensus       166 ~DLTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l  245 (853)
                      .-.|++.+-..+|-++|-+..+.-+...+.||.-.|-++-|+||.|||+-+..+|..+.-    +.+.-+++.+++.+-.
T Consensus        24 ~swteKYrPkt~de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~~----~~~~~~rvl~lnaSde   99 (346)
T KOG0989          24 RSWTEKYRPKTFDELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALNC----EQLFPCRVLELNASDE   99 (346)
T ss_pred             CCHHHHHCCCCHHHHCCHHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHHCC----CCCCCCCHHHHCCCCC
T ss_conf             553787478737765015999999999986068860786689998676899999998557----4235554243136600


Q ss_pred             HCCCCCCCHHHHHHHHHHHHHH-----HCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC--CCEEEEEEECHHH
Q ss_conf             2174542024545899999986-----07997699963627730266655433588887653124--6604899744899
Q gi|254780877|r  246 IAGAKFRGEFEERLKSLLCEIR-----SEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR--GELHCIGATTLDE  318 (853)
Q Consensus       246 ~ag~~~rg~~e~r~~~i~~~~~-----~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar--G~l~~IgaTT~~E  318 (853)
                       .|-+.-.+=-..+-.+..-..     ..+.--|+.+||.|++-        -||-+-|.-.+.+  ..-++|=.|+.=+
T Consensus       100 -rGisvvr~Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmt--------sdaq~aLrr~mE~~s~~trFiLIcnyls  170 (346)
T KOG0989         100 -RGISVVREKIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMT--------SDAQAALRRTMEDFSRTTRFILICNYLS  170 (346)
T ss_pred             -CCCCCHHHHHCCHHHHHHCCCCCCCCCCCCCEEEEEECHHHHH--------HHHHHHHHHHHHCCCCCEEEEEECCCHH
T ss_conf             -1431006652379987502556567889863289974164530--------9999999999862546659999738856


Q ss_pred             HHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             9997300111320231111157776789999999789865414961015899999863332024576747789999999
Q gi|254780877|r  319 YRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEA  397 (853)
Q Consensus       319 yrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA  397 (853)
                        +.|   ..+..|-|+..-+....+..+..|+.+.+.    .||.|+++|+...+..|.-=+.      +||..|+.+
T Consensus       171 --rii---~pi~SRC~KfrFk~L~d~~iv~rL~~Ia~~----E~v~~d~~al~~I~~~S~GdLR------~Ait~Lqsl  234 (346)
T KOG0989         171 --RII---RPLVSRCQKFRFKKLKDEDIVDRLEKIASK----EGVDIDDDALKLIAKISDGDLR------RAITTLQSL  234 (346)
T ss_pred             --HCC---HHHHHHHHHHCCCCCCHHHHHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHH------HHHHHHHHH
T ss_conf             --477---287746777128876447899999999888----5899787899999997387289------999999986


No 231
>KOG0737 consensus
Probab=98.25  E-value=8e-06  Score=66.30  Aligned_cols=165  Identities=23%  Similarity=0.398  Sum_probs=94.2

Q ss_pred             CCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCH
Q ss_conf             00000123554776745948999999999987410123656651289872678616889999999872377653002244
Q gi|254780877|r  555 DREKFLRIETEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDM  634 (853)
Q Consensus       555 E~ekLl~l~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dM  634 (853)
                      +--.|-...+.|++.|+=+-.-.+..+      +.+|..  .|.|++|| ||+|.|||-+||++|+..   +.++|-+.|
T Consensus        93 DIggLe~v~~~L~e~VilPlr~pelF~------~g~Ll~--p~kGiLL~-GPpG~GKTmlAKA~Akea---ga~fInv~~  160 (386)
T KOG0737          93 DIGGLEEVKDALQELVILPLRRPELFA------KGKLLR--PPKGILLY-GPPGTGKTMLAKAIAKEA---GANFINVSV  160 (386)
T ss_pred             HCCCHHHHHHHHHHHHHHCCCCHHHHC------CCCCCC--CCCCCEEC-CCCCCHHHHHHHHHHHHC---CCCCCEEEC
T ss_conf             133528999999987752012466641------453146--86430511-899821889999999872---797100013


Q ss_pred             HHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHH-----HCCCCCEEEEHHHHHC-----------CHHHHHHHHHHHHCCE
Q ss_conf             77403453201304771120356677421132-----2156410220214414-----------9899999999840457
Q gi|254780877|r  635 SEYMEKHSVSRLIGSPPGYVGYEEGGALTEAV-----RRHPYQVVLFDEIEKA-----------HSDVHNILLQVLDDGR  698 (853)
Q Consensus       635 sey~e~~~vs~LiGappGYvG~~~gg~Lte~v-----r~~P~sVil~DEiEKa-----------h~~v~~~llqild~G~  698 (853)
                      |.-+++..     |         |+-.|+.+|     +-+| |+|..|||+--           ..-.-+=|+-.+ ||-
T Consensus       161 s~lt~KWf-----g---------E~eKlv~AvFslAsKl~P-~iIFIDEvds~L~~R~s~dHEa~a~mK~eFM~~W-DGl  224 (386)
T KOG0737         161 SNLTSKWF-----G---------EAQKLVKAVFSLASKLQP-SIIFIDEVDSFLGQRRSTDHEATAMMKNEFMALW-DGL  224 (386)
T ss_pred             CCCCHHHH-----H---------HHHHHHHHHHHHHHHCCC-CEEEHHHHHHHHHHCCCCHHHHHHHHHHHHHHHH-CCC
T ss_conf             65532667-----7---------788899999820653486-1565665888986404642799999999999986-164


Q ss_pred             EECCCCCEEECCCCEEEE-CCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHH
Q ss_conf             887999778303315595-4851268764032679999999998628857726668158628899899999999999
Q gi|254780877|r  699 LTDSQGRTVDFRNTLIIM-TSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQL  774 (853)
Q Consensus       699 ltd~~G~~v~f~n~iii~-TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l  774 (853)
                      .|+..-|       +++| -+|        .+....++            .+-|+...+.-+--+.....+|+...|
T Consensus       225 ~s~~~~r-------VlVlgATN--------RP~DlDeA------------iiRR~p~rf~V~lP~~~qR~kILkviL  274 (386)
T KOG0737         225 SSKDSER-------VLVLGATN--------RPFDLDEA------------IIRRLPRRFHVGLPDAEQRRKILKVIL  274 (386)
T ss_pred             CCCCCCE-------EEEEECCC--------CCCCHHHH------------HHHHCCCEEEECCCCHHHHHHHHHHHH
T ss_conf             6788715-------99970799--------98437899------------998476436537984444999999994


No 232
>pfam06068 TIP49 TIP49 C-terminus. This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the pfam00004 domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear
Probab=98.24  E-value=8.9e-05  Score=57.76  Aligned_cols=45  Identities=24%  Similarity=0.487  Sum_probs=32.0

Q ss_pred             CCEEEECCCCCCHHHHHHHHHHHHHCCCCC-HHHCCCEEEEEEHHHH
Q ss_conf             866895288740777999999987348998-4445743788731354
Q gi|254780877|r  200 NNPVLIGDPGVGKTAIIEGLASRIINGDIP-ESLKGKRLMALDMGAL  245 (853)
Q Consensus       200 ~n~~lvGe~GvGKtaive~la~~i~~~~vp-~~l~~~~i~~ld~~~l  245 (853)
                      ...+|.|+||.|||||+-|+|+-+-.. || -.+.+..|||+.+..-
T Consensus        51 raiLlaGppGTGKTAlA~aiakeLG~~-vPF~~i~gSEvyS~E~kKT   96 (395)
T pfam06068        51 RAVLIAGPPGTGKTALAIAISKELGED-TPFCPISGSEVYSLEMKKT   96 (395)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHCCC-CCEEEEEHHEEECCCCCHH
T ss_conf             389987799988899999999974879-9734500111212565488


No 233
>PRK05201 hslU ATP-dependent protease ATP-binding subunit; Provisional
Probab=98.24  E-value=5.6e-05  Score=59.39  Aligned_cols=72  Identities=38%  Similarity=0.669  Sum_probs=30.6

Q ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHH------CCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHH
Q ss_conf             5477674594899999999998741------0123656651289872678616889999999872377653002244774
Q gi|254780877|r  564 TEISKSVIGQSAAVESVSNALRRFR------AGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEY  637 (853)
Q Consensus       564 ~~l~~~v~gq~~ai~~v~~~~~~~~------~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey  637 (853)
                      +.|.+.||||++|-++|+-|++-..      ..+++.--|- ..|++|||||||||+|+.||+.+   .-.|+..|-+-|
T Consensus        11 ~~LD~yIIGQ~~AKkavAVAlrNr~RR~~l~~~lr~Ei~pk-NILmIGPTGvGKTeIARrLAkl~---~aPFvkveATk~   86 (442)
T PRK05201         11 SELDKYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPK-NILMIGPTGVGKTEIARRLAKLA---NAPFIKVEATKF   86 (442)
T ss_pred             HHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC-CEEEECCCCCCHHHHHHHHHHHH---CCCEEEEECCCC
T ss_conf             98536010827766787778877787531662212334643-16887888866789999999984---898587521310


Q ss_pred             CC
Q ss_conf             03
Q gi|254780877|r  638 ME  639 (853)
Q Consensus       638 ~e  639 (853)
                      +|
T Consensus        87 TE   88 (442)
T PRK05201         87 TE   88 (442)
T ss_pred             CC
T ss_conf             00


No 234
>KOG1942 consensus
Probab=98.24  E-value=4.3e-05  Score=60.38  Aligned_cols=118  Identities=21%  Similarity=0.378  Sum_probs=83.9

Q ss_pred             CEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCC
Q ss_conf             10220214414989999999984045788799977830331559548512687640326799999999986288577266
Q gi|254780877|r  672 QVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNR  751 (853)
Q Consensus       672 sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnR  751 (853)
                      .|++.||+.--.-+.|..|-+.|+.-.            .-++|+.||-|--.+....+-...       .-.+|++|+|
T Consensus       298 GVLFIDEVhMLDiEcFTyL~kalES~i------------aPivifAsNrG~~~irGt~d~~sP-------hGip~dllDR  358 (456)
T KOG1942         298 GVLFIDEVHMLDIECFTYLHKALESPI------------APIVIFASNRGMCTIRGTEDILSP-------HGIPPDLLDR  358 (456)
T ss_pred             CCEEEEEHHHHHHHHHHHHHHHHCCCC------------CCEEEEECCCCCEEECCCCCCCCC-------CCCCHHHHHH
T ss_conf             626863013242699999999862778------------756999627761022177678787-------8899778612


Q ss_pred             CCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             68158628899899999999999999999985798999988999999970898220621579999987334999
Q gi|254780877|r  752 LDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQRYIQNPLA  825 (853)
Q Consensus       752 id~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~~~la  825 (853)
                      + -||.-.+++++++++|+....         +-=.+.+++++.++++.-|.+     ++||-.++  +.+|.+
T Consensus       359 l-~Iirt~~y~~~e~r~Ii~~Ra---------~~E~l~~~e~a~~~l~~~gt~-----tsLRy~vq--Ll~p~~  415 (456)
T KOG1942         359 L-LIIRTLPYDEEEIRQIIKIRA---------QVEGLQVEEEALDLLAEIGTS-----TSLRYAVQ--LLTPAS  415 (456)
T ss_pred             E-EEEEECCCCHHHHHHHHHHHH---------HHHCCEECHHHHHHHHHHCCC-----HHHHHHHH--HCCHHH
T ss_conf             6-678603699899999999987---------651423228899998760541-----45788988--537888


No 235
>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]
Probab=98.24  E-value=0.00011  Score=57.02  Aligned_cols=219  Identities=19%  Similarity=0.310  Sum_probs=144.9

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHH
Q ss_conf             67459489999999999874101236566512898726786168899999998723776530022447740345320130
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLI  647 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~Li  647 (853)
                      +.++++...+..+...-++.    .--+.|   +|..|-||+||--+||+---.=--..+.++-+|+.-.-|..+-|-|+
T Consensus       204 ~~~v~~S~~mk~~v~qA~k~----AmlDAP---LLI~GeTGTGKdLlAkaCH~~S~R~~~pFlalNCA~lPe~~aEsElF  276 (511)
T COG3283         204 EQIVAVSPKMKHVVEQAQKL----AMLDAP---LLITGETGTGKDLLAKACHLASPRHSKPFLALNCASLPEDAAESELF  276 (511)
T ss_pred             HHHHHCCHHHHHHHHHHHHH----HCCCCC---EEEECCCCCHHHHHHHHHHHCCCCCCCCEEEEECCCCCHHHHHHHHH
T ss_conf             77873039999999999865----403787---68744888618899998744384558973676447796667677773


Q ss_pred             CCCCH---HCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHH
Q ss_conf             47711---203566774211322156410220214414989999999984045788799977830331559548512687
Q gi|254780877|r  648 GSPPG---YVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEY  724 (853)
Q Consensus       648 GappG---YvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~  724 (853)
                      |-.||   |+|+=|         .---.-||+|||--.+|..+--||..|.||+..--.+..--.-|.=+|+||..--..
T Consensus       277 G~apg~~gk~GffE---------~AngGTVlLDeIgEmSp~lQaKLLRFL~DGtFRRVGee~Ev~vdVRVIcatq~nL~~  347 (511)
T COG3283         277 GHAPGDEGKKGFFE---------QANGGTVLLDEIGEMSPRLQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQVNLVE  347 (511)
T ss_pred             CCCCCCCCCCCHHH---------HCCCCEEEEEHHHHCCHHHHHHHHHHHCCCCCCCCCCCCEEEEEEEEEECCCCCHHH
T ss_conf             56888777634634---------026974885003324998999999986277600037754578778999616666999


Q ss_pred             HHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEE--CCCCC--HHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHH
Q ss_conf             640326799999999986288577266681586--28899--89999999999999999998579899998899999997
Q gi|254780877|r  725 LIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIIL--FEKLR--KEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSC  800 (853)
Q Consensus       725 ~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~--F~~l~--~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~  800 (853)
                                   =.-+..|+-.++-|+. |..  .-||-  ..++.-.++..+.+....+.-  -.-.+++....++..
T Consensus       348 -------------lv~~g~fReDLfyRLN-VLtl~~PpLRer~~di~pL~e~Fv~q~s~elg~--p~pkl~~~~~~~L~~  411 (511)
T COG3283         348 -------------LVQKGKFREDLFYRLN-VLTLNLPPLRERPQDIMPLAELFVQQFSDELGV--PRPKLAADLLTVLTR  411 (511)
T ss_pred             -------------HHHCCCHHHHHHHHHH-EEEECCCCCCCCCCCCHHHHHHHHHHHHHHHCC--CCCCCCHHHHHHHHH
T ss_conf             -------------9863725887887750-134238850006521068999999999997589--987668789999987


Q ss_pred             CCCCCCCCCHHHHHHHHHHH
Q ss_conf             08982206215799999873
Q gi|254780877|r  801 RGYDPSYGARPLKRVIQRYI  820 (853)
Q Consensus       801 ~~~~~~~GaR~l~r~i~~~i  820 (853)
                      .++  .-..|.|...|.+-+
T Consensus       412 y~W--pGNVRqL~N~iyRA~  429 (511)
T COG3283         412 YAW--PGNVRQLKNAIYRAL  429 (511)
T ss_pred             CCC--CCCHHHHHHHHHHHH
T ss_conf             799--960999999999999


No 236
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=98.23  E-value=9.5e-06  Score=65.67  Aligned_cols=128  Identities=23%  Similarity=0.252  Sum_probs=79.0

Q ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCC------------CCHHHHHHHHHHHHH
Q ss_conf             78668952887407779999999873489984445743788731354217454------------202454589999998
Q gi|254780877|r  199 KNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKF------------RGEFEERLKSLLCEI  266 (853)
Q Consensus       199 k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~------------rg~~e~r~~~i~~~~  266 (853)
                      .++.+++|+||+|||+++..+|+.+....       ..++.++..........            -..-+..+..++..+
T Consensus         2 ~~~ill~G~~GsGKTtl~~~la~~~~~~~-------~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   74 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPG-------GGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALA   74 (148)
T ss_pred             CCEEEEECCCCHHHHHHHHHHHHHHCCCC-------CCEEEEEHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHH
T ss_conf             97899999997029999999998726689-------96899875998988898765300011221051999999999999


Q ss_pred             HHCCCCEEEEECCHHHHCCCCCCCCC--CCHHHHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHCCCEEEC
Q ss_conf             60799769996362773026665543--3588887653124660489974489999973001113202311111
Q gi|254780877|r  267 RSEDGEIILFIDELHVLVGAGKTDGA--MDASNLLKPSLARGELHCIGATTLDEYRKYIEKDPALARRFQSLLV  338 (853)
Q Consensus       267 ~~~~~~~ilfide~h~~~gaG~~~g~--~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V  338 (853)
                      +... ..|+||||++.+.........  ........+......+.+|+++.+    ........+.+||.....
T Consensus        75 ~~~~-~~viiiDei~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~~~n~----~~~~~~~~~~~~~~~~~~  143 (148)
T smart00382       75 RKLK-PDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTND----EKDLGPALLRRRFDRRIV  143 (148)
T ss_pred             HHCC-CCEEEEECCHHHCCCCCHHHHHHHHHHHHHCCCCCCCCEEEEEEECC----CCCCCHHHHCCCCCEEEE
T ss_conf             8449-98999827502147620799999999998517657899899995699----522498770744787999


No 237
>PRK06835 DNA replication protein DnaC; Validated
Probab=98.23  E-value=7.8e-06  Score=66.39  Aligned_cols=145  Identities=20%  Similarity=0.339  Sum_probs=88.4

Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHC
Q ss_conf             99999999998741012365665128987267861688999999987237765300224477403453201304771120
Q gi|254780877|r  575 AAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYV  654 (853)
Q Consensus       575 ~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYv  654 (853)
                      +.+..|....+..-..+..   +-.++||.||||||||.||-++|..|-......+-+...++.+.-.-.+.-       
T Consensus       163 enm~~i~~~~~~fi~~F~~---~~~nLlf~G~~G~GKTfLa~~IA~ell~~g~sViy~ta~~L~~~l~~~~~~-------  232 (330)
T PRK06835        163 ENMENILEKCLNFIKNFDK---NNENLLFYGNTGTGKTFLSNCIAKELLDRGKTVIYRTSDELIENLREIRFN-------  232 (330)
T ss_pred             HHHHHHHHHHHHHHHHCCC---CCCCEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEHHHHHHHHHHHHCC-------
T ss_conf             9999999999999872478---888669889999988999999999999879949996299999999997545-------


Q ss_pred             CCCCC--CCCCHHHHCCCCCEEEEHHH--HHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHH
Q ss_conf             35667--74211322156410220214--414989999999984045788799977830331559548512687640326
Q gi|254780877|r  655 GYEEG--GALTEAVRRHPYQVVLFDEI--EKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGD  730 (853)
Q Consensus       655 G~~~g--g~Lte~vr~~P~sVil~DEi--EKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~  730 (853)
                        .++  -.+.+.+..  ..++.+|++  |...+-+...|++++++=..          ++.=.|.|||++-+.+.+.  
T Consensus       233 --~~~~~~~~~~~l~~--~DLLIIDDLG~E~~t~~~~~~Lf~iIN~R~~----------~~k~tIITTNl~~~eL~~~--  296 (330)
T PRK06835        233 --NDNDAPELEDLLIN--CDLLIIDDLGTESITEFSKTELFNLINKRLL----------MNKKMIISTNLSLEELLKT--  296 (330)
T ss_pred             --CCCCHHHHHHHHHH--CCEEEEECCCCCCCCHHHHHHHHHHHHHHHH----------CCCCEEEECCCCHHHHHHH--
T ss_conf             --76448999999961--8989972103455886899999999999986----------7999799889998999998--


Q ss_pred             HHHHHHHHHHHHHCCH
Q ss_conf             7999999999862885
Q gi|254780877|r  731 SVHDKVMGIVRSAFKP  746 (853)
Q Consensus       731 ~~~~~~~~~l~~~f~p  746 (853)
                       ..+.+...+...|.|
T Consensus       297 -y~eRi~SRi~~~~~~  311 (330)
T PRK06835        297 -YSERIASRLLGNFTL  311 (330)
T ss_pred             -HHHHHHHHHHHCCEE
T ss_conf             -748999999818549


No 238
>PRK08903 hypothetical protein; Validated
Probab=98.22  E-value=0.00015  Score=56.02  Aligned_cols=181  Identities=15%  Similarity=0.188  Sum_probs=108.6

Q ss_pred             CCCHHHHHHHHH-HHHCCCCCCCEE-EECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHH
Q ss_conf             333578999999-963367778668-952887407779999999873489984445743788731354217454202454
Q gi|254780877|r  180 VIGRDDEMRRAI-QVLSRRTKNNPV-LIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEE  257 (853)
Q Consensus       180 VIGRe~EI~~~~-~iL~r~~k~n~~-lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~  257 (853)
                      |+|...+.-..+ ++......++++ +.|++|+|||-+.++++.......       +++..++....            
T Consensus        21 v~g~n~~~~~~l~~~~~~~~~~~~l~i~G~~G~GKTHLl~a~~~~~~~~~-------~~~~yl~~~~~------------   81 (227)
T PRK08903         21 IAGENAELVTRLRELAAGPVADRFFYLWGEAGSGRSHLLQALVAAASEGG-------KNARYLDPASP------------   81 (227)
T ss_pred             CCCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCC-------CCEEEECCCCC------------
T ss_conf             57775999999998874388786699989999988899999999998069-------97499651104------------


Q ss_pred             HHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEE-EEECHHHHHHHHHCCHHHHHCC---
Q ss_conf             589999998607997699963627730266655433588887653124660489-9744899999730011132023---
Q gi|254780877|r  258 RLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCI-GATTLDEYRKYIEKDPALARRF---  333 (853)
Q Consensus       258 r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~I-gaTT~~Eyrk~iEkD~Al~RRF---  333 (853)
                        ...+.....   .-.+.||++|.+-  +..+  .-.=|++--...+|.-+++ ++..+-..-. +.+  -|..||   
T Consensus        82 --~~~~~~~~~---~d~l~iDDi~~i~--~~~q--~~lF~l~N~~~~~~~~~ll~s~~~~p~~l~-~~~--DL~SRl~~g  149 (227)
T PRK08903         82 --LLAFDFDPR---AELYAVDDVERLD--DAQQ--IALFNLFNRVRAHGKTALLVAGPAAPLALD-VRE--DLRTRLGWG  149 (227)
T ss_pred             --HHHHHHHHC---CCEEEEECCCCCC--CHHH--HHHHHHHHHHHHCCCCEEEECCCCCHHHCC-CCH--HHHHHHHCC
T ss_conf             --577742001---8989996411489--5699--999999999997299489971899712012-008--999999389


Q ss_pred             CEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf             11111577767899999997898654149610158999998633320245767477899999999
Q gi|254780877|r  334 QSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEAS  398 (853)
Q Consensus       334 q~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~  398 (853)
                      -.+.+++|+.+.-..||+....    -.|+.++++++.+.++-..|=+..   =-.+++-||..+
T Consensus       150 l~~~i~~pdde~~~~iL~~~a~----~rgl~l~~~v~~yl~~r~~R~~~~---L~~~l~~Ld~~s  207 (227)
T PRK08903        150 LVYEVKPLSDEDKIAALKAAAA----ERGLQLADEVPDYLLTHFRRDMPS---LMALLDALDRYS  207 (227)
T ss_pred             CEEEEECCCHHHHHHHHHHHHH----HCCCCCCHHHHHHHHHHHCCCHHH---HHHHHHHHHHHH
T ss_conf             7389979799999999999999----629999889999999983478999---999999999999


No 239
>pfam02861 Clp_N Clp amino terminal domain. This short domain is found in one or two copies at the amino terminus of ClpA and ClpB proteins from bacteria and eukaryotes. The function of these domains is uncertain but they may form a protein binding site.
Probab=98.22  E-value=3.4e-06  Score=69.32  Aligned_cols=52  Identities=33%  Similarity=0.502  Sum_probs=49.2

Q ss_pred             HHHHHHHCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf             9999998289963389999998618876689999973999899999999999
Q gi|254780877|r   17 AQTYALAQGHQNLVPEHVLHIFLEDEQGAVYSLIQCSGGDIAQLKDYNQTVL   68 (853)
Q Consensus        17 A~~~A~~~~H~~Vt~EHLLlaLL~~~~s~i~~iL~~~gvd~~~L~~~le~~L   68 (853)
                      |+++|++++|.||++||||++|+.++++.+..+|..+|+|++.+++.++..+
T Consensus         1 A~~~A~~~~~~~i~~EHlLlall~~~~~~~~~il~~~g~~~~~l~~~i~~~~   52 (53)
T pfam02861         1 AQELAKELGHQYIGTEHLLLALLEEDDGIAARLLKKAGVDLDALREAIEKLL   52 (53)
T ss_pred             CHHHHHHCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHH
T ss_conf             9888978699853499999999865885899999995989999999999870


No 240
>PHA02244 ATPase-like protein
Probab=98.22  E-value=9.4e-05  Score=57.57  Aligned_cols=114  Identities=18%  Similarity=0.253  Sum_probs=74.7

Q ss_pred             CCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHC-CC
Q ss_conf             36566512898726786168899999998723776530022447740345320130477112035667742113221-56
Q gi|254780877|r  592 QDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRR-HP  670 (853)
Q Consensus       592 ~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~-~P  670 (853)
                      -+.|-|+  | +.||.|+|||..|+.+|+.|--+- .+.--=|+||    .....+-|.--|+-       |.-.|. +-
T Consensus       116 v~~nipV--~-L~G~AGsGKt~~A~qIA~aLdl~F-Yf~gAI~~ef----~L~Gf~DAnG~yh~-------T~f~kaFk~  180 (383)
T PHA02244        116 VNANIPV--F-LKGGAGSGKNHIAEQIAEALDLDF-YFMNAIMDEF----ELKGFIDANGKFHE-------TPFYEAFKK  180 (383)
T ss_pred             HHCCCCE--E-EECCCCCCHHHHHHHHHHHHCCCC-EECHHHHHHH----HCCCEECCCCCEEC-------CHHHHHHHC
T ss_conf             7359856--9-975888863489999999858882-4413230134----30125648996726-------389999861


Q ss_pred             CCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCH
Q ss_conf             41022021441498999999998404578879997783033155954851
Q gi|254780877|r  671 YQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNL  720 (853)
Q Consensus       671 ~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~  720 (853)
                      -.|+|||||+-++|+++-.|=+.|-+|.+.=.-|+..--.++.+|.+.|-
T Consensus       181 GGLfLlDEiDASnP~aL~~lNaALAN~fm~FPdG~V~~HedFr~IAagNT  230 (383)
T PHA02244        181 GGLFFIDEIDASIPEALIIINSAIANKFFDFADERVTAHEDFRVISAGNT  230 (383)
T ss_pred             CCEEEEEHHCCCCHHHHHHHHHHHHCCCCCCCCCHHHCCCCEEEEEECCC
T ss_conf             88799732004487999999899864763476421100576389972465


No 241
>TIGR00763 lon ATP-dependent protease La; InterPro: IPR004815   Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes . They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence . Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases .   Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base . The geometric orientations of the catalytic residues are similar between families, despite different protein folds . The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) , .   Peptidases are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry. Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins.   Families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule.    This signature defines the bacterial and eukaryotic lon proteases, which are ATP-dependent serine peptidases belonging to the MEROPS peptidase family S16 (lon protease family, clan SF). This family of sequences does not include the archaeal lon homologs, IPR004663 from INTERPRO. In the eukaryotes the majority of the proteins are located in the mitochondrial matrix , . In yeast, Pim1, is located in the mitochondrial matrix, is required for mitochondrial function, is constitutively expressed but is increased after thermal stress, suggesting that Pim1 may play a role in the heat shock response .; GO: 0004176 ATP-dependent peptidase activity, 0005524 ATP binding, 0006510 ATP-dependent proteolysis.
Probab=98.21  E-value=1.7e-05  Score=63.63  Aligned_cols=159  Identities=25%  Similarity=0.420  Sum_probs=110.4

Q ss_pred             CCCE---EEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHC-----C--CCCCCHHHHHHHHHHHHHHH
Q ss_conf             7866---895288740777999999987348998444574378873135421-----7--45420245458999999860
Q gi|254780877|r  199 KNNP---VLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIA-----G--AKFRGEFEERLKSLLCEIRS  268 (853)
Q Consensus       199 k~n~---~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~a-----g--~~~rg~~e~r~~~i~~~~~~  268 (853)
                      ...|   |||||||||||+|....|.-+          |+..|-+.+|.|-=     |  =+|-|-+=+||-.-|+.+..
T Consensus       447 ~~GpqIlClvGPPGVGKTSlg~SIA~AL----------nRkFvR~SlGG~~DeAEIrGHRRTYvGAMPGriiQ~lk~~~t  516 (941)
T TIGR00763       447 MKGPQILCLVGPPGVGKTSLGKSIAKAL----------NRKFVRFSLGGVRDEAEIRGHRRTYVGAMPGRIIQGLKKAKT  516 (941)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHH----------CCEEEEEEECCCEEHHHCCCCCCCCCCCCHHHHHHHHHHCCC
T ss_conf             8887678720726954222789999996----------880499952672203112786432034672578999876041


Q ss_pred             CCCCEEEEECCHHHHC-CCCCCCCCCC-HH---HHHHHH---------HCC-CCE-EEE--EEECHHHHHHHHHCCHH-H
Q ss_conf             7997699963627730-2666554335-88---887653---------124-660-489--97448999997300111-3
Q gi|254780877|r  269 EDGEIILFIDELHVLV-GAGKTDGAMD-AS---NLLKPS---------LAR-GEL-HCI--GATTLDEYRKYIEKDPA-L  329 (853)
Q Consensus       269 ~~~~~ilfide~h~~~-gaG~~~g~~D-aa---n~LKP~---------Lar-G~l-~~I--gaTT~~Eyrk~iEkD~A-l  329 (853)
                      .+ ++|| ||||-=|- ++|-.   .| ||   -+|-|-         |-= =+| ++|  =.+|-    .+|+.=|+ |
T Consensus       517 ~N-Pl~L-lDEIDK~~~~~~~~---GDPaSALLEvLDPEQN~~F~DHYldvp~DLS~V~CyFi~TA----N~~d~IP~PL  587 (941)
T TIGR00763       517 KN-PLIL-LDEIDKIGLKSSFR---GDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVLCYFIATA----NSIDTIPRPL  587 (941)
T ss_pred             CC-CEEE-EEEEEEECCCCCCC---CCHHHHHHHHCCHHHCCCCCCCCCCCCCCHHHHHHHEEECC----CCCCCCCCCC
T ss_conf             58-8068-62022001678865---56378886412864360425530023400420021000244----7576777221


Q ss_pred             HHCCCEEECCCCCHHHHHHHHHH-HHHHHHHHCC-----CCCCHHHHHHHHHH
Q ss_conf             20231111157776789999999-7898654149-----61015899999863
Q gi|254780877|r  330 ARRFQSLLVGEPTVTDTISILRG-LKERYEQHHK-----VRISDSALVSAAVL  376 (853)
Q Consensus       330 ~RRFq~i~V~Eps~~~t~~iL~g-l~~~yE~~H~-----V~i~d~al~~av~l  376 (853)
                      -.|=+.|.|.-=+.+|=+.|-++ |-|+.=.-||     |.|+|+||...++.
T Consensus       588 LDRMEvI~lsGY~~~EK~~IA~~yLiP~~~~~~GL~~~~l~~~d~al~~lI~~  640 (941)
T TIGR00763       588 LDRMEVIELSGYTEEEKLEIAKKYLIPKALEDHGLKPDELKISDEALLLLIKY  640 (941)
T ss_pred             CCCEEEEECCCCCHHHHHHHHHHCCHHHHHHHHCCCCCCEEECHHHHHHHHHH
T ss_conf             37402452388876789999985471367987088813221268999999987


No 242
>PRK09183 transposase/IS protein; Provisional
Probab=98.21  E-value=4.7e-06  Score=68.15  Aligned_cols=117  Identities=22%  Similarity=0.328  Sum_probs=75.3

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHC--CCCCEEEEH
Q ss_conf             898726786168899999998723776530022447740345320130477112035667742113221--564102202
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRR--HPYQVVLFD  677 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~--~P~sVil~D  677 (853)
                      ..+|+||||||||.||.+|+...........-+.|++..+.-..++--|            .+...+++  ..+.++.+|
T Consensus       103 Nvil~G~~GtGKThLA~Alg~~A~~~G~~v~f~~~~~L~~~L~~a~~~~------------~~~~~l~r~l~~~dLLIiD  170 (258)
T PRK09183        103 NIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAADLLLQLSTAQRQG------------RYKTTLQRGVMAPRLLIID  170 (258)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEHHHHHHHHHHHHHCC------------CHHHHHHHHHCCCCEEEEH
T ss_conf             6799899998689999999999998799399978999999999998768------------5999999874346514431


Q ss_pred             HH--HHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHC-C-HH-HHHHHHHHH
Q ss_conf             14--414989999999984045788799977830331559548512687640-3-26-799999999
Q gi|254780877|r  678 EI--EKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIE-D-GD-SVHDKVMGI  739 (853)
Q Consensus       678 Ei--EKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~-~-~~-~~~~~~~~~  739 (853)
                      |+  ..-.+..-++|+|++++=+     ++     .+ +|+|||+.-..-.+ . ++ .+..++.+.
T Consensus       171 dlG~~~~~~~~~~~lfeli~~Ry-----e~-----~S-~IiTSn~~~~~W~~~f~~D~~la~AilDR  226 (258)
T PRK09183        171 EIGYLPFSQEEANLFFQVIAKRY-----EK-----GA-MILTSNLPFGQWDQTFAGDAALTSAMLDR  226 (258)
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHH-----CC-----CC-EEEECCCCHHHHHHHCCCCHHHHHHHHHH
T ss_conf             33154688889999999999985-----76-----77-89988999789856516869999999998


No 243
>PRK05917 DNA polymerase III subunit delta'; Validated
Probab=98.21  E-value=7e-06  Score=66.78  Aligned_cols=105  Identities=22%  Similarity=0.409  Sum_probs=48.8

Q ss_pred             HHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHH
Q ss_conf             89999999999874101236566512898726786168899999998723776530022447740345320130477112
Q gi|254780877|r  574 SAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGY  653 (853)
Q Consensus       574 ~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGY  653 (853)
                      .+|-+.+.++++..|.       | -.+||.||.|+||+.+|..+|..|+-....--...++.-           .-|-+
T Consensus         3 ~~~We~L~~~i~~~Rl-------~-HAyLf~Gp~G~GK~~~A~~~A~~LLc~~~p~~~~~i~~~-----------~HPD~   63 (290)
T PRK05917          3 NAAWEALLQRVRDQKV-------P-SAILLHGQDLSNLSQYAYELASLILLESSPEAQYKISQK-----------IHPDI   63 (290)
T ss_pred             CHHHHHHHHHHHCCCC-------C-EEEEEECCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHC-----------CCCCE
T ss_conf             5499999999983996-------6-068768999865999999999998578996168898746-----------89985


Q ss_pred             CC-CCCC-CC---------CCHHHHCCC----CCEEEEHHHHHCCHHHHHHHHHHHHCC
Q ss_conf             03-5667-74---------211322156----410220214414989999999984045
Q gi|254780877|r  654 VG-YEEG-GA---------LTEAVRRHP----YQVVLFDEIEKAHSDVHNILLQVLDDG  697 (853)
Q Consensus       654 vG-~~~g-g~---------Lte~vr~~P----~sVil~DEiEKah~~v~~~llqild~G  697 (853)
                      .- ..+| |.         |.+.+...|    |-|+++|+.|+.+.+-.|.||-.|+|-
T Consensus        64 ~~i~pe~k~~~~~Id~iR~l~~~i~~~p~~g~~KV~IId~Ad~Mn~~AaNALLKtLEEP  122 (290)
T PRK05917         64 HEFFPEGKGRLHSIETPRAIKKQIWIHPYEANYKIYIIHEADRMTLDAISAFLKVLEDP  122 (290)
T ss_pred             EEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCCEEEEECCHHHHCHHHHHHHHHHHCCC
T ss_conf             99615777887867899999999641864688269997567763899999999973479


No 244
>TIGR02880 cbbX_cfxQ CbbX protein; InterPro: IPR000470 Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. The Cfx genes in Alcaligenes eutrophus encode a number of Calvin cycle enzymes . The observed sizes of two of the gene products, CfxX and CfxY, are 35 kDa and 27 kDa respectively . No functions could be assigned to CfxX and CfxY. These proteins show a high degree of similarity to the Bacillus subtilis stage V sporulation protein K . ; GO: 0005524 ATP binding.
Probab=98.21  E-value=0.00017  Score=55.43  Aligned_cols=196  Identities=22%  Similarity=0.391  Sum_probs=136.6

Q ss_pred             HHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCC----CCHHHCCCCHHCCCCCCCC
Q ss_conf             741012365665128987267861688999999987237765300224477403453----2013047711203566774
Q gi|254780877|r  586 RFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHS----VSRLIGSPPGYVGYEEGGA  661 (853)
Q Consensus       586 ~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~----vs~LiGappGYvG~~~gg~  661 (853)
                      +...||... .|---+.|+|.+|+|||..|...|..||.  -.++|       ..|-    -.-|+|   -||||... .
T Consensus        47 r~~~~l~~~-~P~lhm~ftG~PGtGkttva~~m~~~l~~--lGy~r-------~G~~~~~trddlvG---qy~GhtaP-k  112 (284)
T TIGR02880        47 RQKLGLASA-APSLHMSFTGNPGTGKTTVALRMAQILHR--LGYVR-------KGHLVSVTRDDLVG---QYIGHTAP-K  112 (284)
T ss_pred             HHHHHHHHC-CCCEEEEECCCCCCCHHHHHHHHHHHHHH--CCCCC-------CCCEEEEEHHHHHH---HHHCCCCC-H
T ss_conf             987422104-88326775168987248999999999987--15400-------36267853001311---22125772-2


Q ss_pred             CCHHHHCCCCCEEEEHHHHHC---------CHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHH
Q ss_conf             211322156410220214414---------98999999998404578879997783033155954851268764032679
Q gi|254780877|r  662 LTEAVRRHPYQVVLFDEIEKA---------HSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSV  732 (853)
Q Consensus       662 Lte~vr~~P~sVil~DEiEKa---------h~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~  732 (853)
                      --|-+++---+|++.||--.-         ..+-..+|||++++-+           .+.+||+..              
T Consensus       113 tke~lk~a~GGvlfideayyly~P~nerdyG~eaieillq~men~r-----------~~lvvi~aG--------------  167 (284)
T TIGR02880       113 TKEVLKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQR-----------DDLVVILAG--------------  167 (284)
T ss_pred             HHHHHHHHCCCEEEEECHHHHCCCCCCCHHHHHHHHHHHHHHHCCC-----------CCEEEEEEC--------------
T ss_conf             6899987428736642203321776410223799999999872365-----------537888717--------------


Q ss_pred             HHHHHHHHHHHC--CHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCC-C
Q ss_conf             999999998628--8577266681586288998999999999999999999857989999889999999708982206-2
Q gi|254780877|r  733 HDKVMGIVRSAF--KPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYG-A  809 (853)
Q Consensus       733 ~~~~~~~l~~~f--~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~G-a  809 (853)
                         ..+.+..+|  .|-|-.|+-+-|-|..++.+++..|+..+|.+-.-++.     -+-.....+|+..+-..|.|. |
T Consensus       168 ---y~~rm~~f~~snPG~~sr~a~h~~fPdy~~~~l~~ia~~~l~~~~y~~~-----~~~~~~~~~y~~~r~~~P~f~na  239 (284)
T TIGR02880       168 ---YKDRMDSFFESNPGLSSRVAHHVDFPDYSEEELLAIAELMLEEQQYRLS-----AEAEEALADYIALRRKQPFFANA  239 (284)
T ss_pred             ---CHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHCCHH-----HHHHHHHHHHHHHHHCCCCHHHH
T ss_conf             ---0788888751178624677643158887767899999998865412111-----88999999999986317831467


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q ss_conf             1579999987334999999
Q gi|254780877|r  810 RPLKRVIQRYIQNPLAERV  828 (853)
Q Consensus       810 R~l~r~i~~~i~~~la~~i  828 (853)
                      |+++..|.+.=...-.+.+
T Consensus       240 rs~rna~dr~rlr~a~rl~  258 (284)
T TIGR02880       240 RSIRNALDRARLRQANRLL  258 (284)
T ss_pred             HHHHHHHHHHHHHHHHHHH
T ss_conf             8899999889888899999


No 245
>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]
Probab=98.20  E-value=5.1e-05  Score=59.76  Aligned_cols=205  Identities=20%  Similarity=0.284  Sum_probs=96.8

Q ss_pred             HHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCC---CCC--------H
Q ss_conf             77674594899999999998741012365665128987267861688999999987237765300---224--------4
Q gi|254780877|r  566 ISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMI---RID--------M  634 (853)
Q Consensus       566 l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~li---r~d--------M  634 (853)
                      +-.-++|||.--..+..         ..-+--+|.-|..|+-|+|||.++++||..|=.  -..+   +|+        |
T Consensus        15 pf~aivGqd~lk~aL~l---------~av~P~iggvLI~G~kGtaKSt~~Rala~LLp~--~~~V~gc~f~cdP~~P~~~   83 (423)
T COG1239          15 PFTAIVGQDPLKLALGL---------NAVDPQIGGALIAGEKGTAKSTLARALADLLPE--IEVVIGCPFNCDPDDPEEM   83 (423)
T ss_pred             CHHHHCCCHHHHHHHHH---------HHCCCCCCEEEEECCCCCCHHHHHHHHHHHCCC--CCEECCCCCCCCCCCHHHH
T ss_conf             65654375377788765---------302631042687668875277999999986796--3321688788998870555


Q ss_pred             HHHCCCC-----------------------CCCHHHCC-CCHHC-CCC----CCCCCCHHHHCCCCCEEEEHHHHHCCHH
Q ss_conf             7740345-----------------------32013047-71120-356----6774211322156410220214414989
Q gi|254780877|r  635 SEYMEKH-----------------------SVSRLIGS-PPGYV-GYE----EGGALTEAVRRHPYQVVLFDEIEKAHSD  685 (853)
Q Consensus       635 sey~e~~-----------------------~vs~LiGa-ppGYv-G~~----~gg~Lte~vr~~P~sVil~DEiEKah~~  685 (853)
                      .+.+-.+                       +--||+|+ -|-.+ .++    +.|.|-.+=    -.|+.+||+--.+..
T Consensus        84 c~~c~~k~~e~~~~~~~~r~v~~v~lPl~ateDrvvGslDi~ka~~~g~~af~PGlLa~An----RGIlYvDEvnlL~d~  159 (423)
T COG1239          84 CDECRAKGDELEWLPREKRKVPFVALPLGATEDRLVGSLDIEKALEEGPKAFQPGLLARAN----RGILYVDEVNLLDDH  159 (423)
T ss_pred             HHHHHHHCCCCCCCCCCCEECCEECCCCCCCHHHHCCCCCHHHHHHCCCCCCCCCCHHHCC----CCEEEEECCCCCCHH
T ss_conf             1999862023244542210031223887630433004567999972683002775110035----887987233435189


Q ss_pred             HHHHHHHHHHCCE-EECCCCCEEEC-CCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCC-EEECCCCC
Q ss_conf             9999999840457-88799977830-331559548512687640326799999999986288577266681-58628899
Q gi|254780877|r  686 VHNILLQVLDDGR-LTDSQGRTVDF-RNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDE-IILFEKLR  762 (853)
Q Consensus       686 v~~~llqild~G~-ltd~~G~~v~f-~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~-iv~F~~l~  762 (853)
                      +.+.||+++.+|+ ..--.|-.+.. -+.++|-|.|--                   ..-.+|.|+.||.. |=+-.|.+
T Consensus       160 lvd~LLd~aaeG~n~vereGisi~hpa~fvligTmNPE-------------------eGeLrpqLlDRfg~~v~~~~~~~  220 (423)
T COG1239         160 LVDALLDVAAEGVNDVEREGISIRHPARFLLIGTMNPE-------------------EGELRPQLLDRFGLEVDTHYPLD  220 (423)
T ss_pred             HHHHHHHHHHHCCCEEEECCEEECCCCCEEEEEECCCC-------------------CCCCCHHHHHHHCCEEECCCCCC
T ss_conf             99999999971774033575031367617999644854-------------------46632466754111562347887


Q ss_pred             HHHHHHHHHHH-----------------HHHHHHHH-HHC--CCEEEECHHHHHHHHHCCCC
Q ss_conf             89999999999-----------------99999999-857--98999988999999970898
Q gi|254780877|r  763 KEDMAKIVRIQ-----------------LGRVLSLI-KER--NISMDFDDQVIDWLSCRGYD  804 (853)
Q Consensus       763 ~~~~~~i~~~~-----------------l~~l~~~l-~~~--~i~l~~~~~~~~~l~~~~~~  804 (853)
                      .++...|++..                 ...+..++ ..+  -..+++++.+..++++.|..
T Consensus       221 ~~~rv~Ii~r~~~f~~~Pe~f~~~~~~~~~~lR~~ii~ar~~l~~V~l~~~~~~~ia~~~~~  282 (423)
T COG1239         221 LEERVEIIRRRLAFEAVPEAFLEKYADAQRALRARIIAARSLLSEVELDDDAETKIAELCAR  282 (423)
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHH
T ss_conf             88889999998875008299999999999999999999984466646767799999999998


No 246
>PRK06872 DNA polymerase III subunits gamma and tau; Provisional
Probab=98.20  E-value=0.00053  Score=51.50  Aligned_cols=46  Identities=13%  Similarity=-0.030  Sum_probs=27.5

Q ss_pred             CCCCCCHHHHHHHHHH--C--CCCHHHHH-HHCCCCHHHHHHHHHHHHCCC
Q ss_conf             9870259998766872--7--75178899-975999899999999873778
Q gi|254780877|r  102 GDSFVTAEKFLLAMVM--E--TGGIGESL-KKCGLKFSRLEESIKKLRKGR  147 (853)
Q Consensus       102 g~~~I~~ehLLlAIl~--e--~~s~a~iL-~~~gi~~~~l~e~i~~~~~~~  147 (853)
                      -++.|+.+|++-++..  +  +-.++++| ..-|+-+..+-..+.+-.+-.
T Consensus        15 f~~~vgq~~v~~~l~~a~~~~r~~haylf~g~rg~gktt~ari~ak~lnc~   65 (696)
T PRK06872         15 FSEVVGQEHILTALSNGLKENRLHHAYLFSGTRGVGKTSIARLFAKGLNCV   65 (696)
T ss_pred             HHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCC
T ss_conf             645238599999999999719863047511789888889999999986789


No 247
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=98.19  E-value=8e-05  Score=58.16  Aligned_cols=76  Identities=30%  Similarity=0.496  Sum_probs=54.6

Q ss_pred             CCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCH-HHHHHHHHHHHH----HHCCC
Q ss_conf             7778668952887407779999999873489984445743788731354217454202-454589999998----60799
Q gi|254780877|r  197 RTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGE-FEERLKSLLCEI----RSEDG  271 (853)
Q Consensus       197 ~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~-~e~r~~~i~~~~----~~~~~  271 (853)
                      -.|+|.+|||+.|.|||-+++-||+.+   +||-...++.       + +.-+.|.|| -|.-+..++...    ..+. 
T Consensus        95 L~KSNILLiGPTGsGKTlLAqTLAk~L---nVPFaiADAT-------t-LTEAGYVGEDVENillkLlqaadydV~rAe-  162 (408)
T COG1219          95 LSKSNILLIGPTGSGKTLLAQTLAKIL---NVPFAIADAT-------T-LTEAGYVGEDVENILLKLLQAADYDVERAE-  162 (408)
T ss_pred             EEECCEEEECCCCCCHHHHHHHHHHHH---CCCEEECCCC-------C-HHHCCCCCHHHHHHHHHHHHHCCCCHHHHH-
T ss_conf             320317998889975779999999984---8984751444-------1-210663550089999999987645888882-


Q ss_pred             CEEEEECCHHHHC
Q ss_conf             7699963627730
Q gi|254780877|r  272 EIILFIDELHVLV  284 (853)
Q Consensus       272 ~~ilfide~h~~~  284 (853)
                      .=|.|||||.-|-
T Consensus       163 rGIIyIDEIDKIa  175 (408)
T COG1219         163 RGIIYIDEIDKIA  175 (408)
T ss_pred             CCEEEEECHHHHH
T ss_conf             8859985102542


No 248
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=98.19  E-value=3.1e-06  Score=69.61  Aligned_cols=101  Identities=27%  Similarity=0.470  Sum_probs=69.4

Q ss_pred             EEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCC---CCCCHHHHCCCCCEEE
Q ss_conf             2898726786168899999998723776530022447740345320130477112035667---7421132215641022
Q gi|254780877|r  599 GSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEG---GALTEAVRRHPYQVVL  675 (853)
Q Consensus       599 ~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~g---g~Lte~vr~~P~sVil  675 (853)
                      .+++|.||+|||||.||-+++..+-......+-+..+|+     +++|..+      +++|   ..|...+  ..+-|+.
T Consensus       106 ~nl~l~G~~G~GKthLa~Ai~~~l~~~g~sv~f~~~~el-----~~~Lk~~------~~~~~~~~~l~~~l--~~~dlLI  172 (254)
T COG1484         106 ENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDL-----LSKLKAA------FDEGRLEEKLLREL--KKVDLLI  172 (254)
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEHHHH-----HHHHHHH------HHCCCHHHHHHHHH--HHCCEEE
T ss_conf             828998999987999999999999983984999885999-----9999998------74552689999887--5289899


Q ss_pred             EHHHHH--CCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHH
Q ss_conf             021441--498999999998404578879997783033155954851268
Q gi|254780877|r  676 FDEIEK--AHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAE  723 (853)
Q Consensus       676 ~DEiEK--ah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~  723 (853)
                      +|||=.  .++.+-+.|+|+++.=+          -+... |+|||.--.
T Consensus       173 iDDlG~~~~~~~~~~~~~q~I~~r~----------~~~~~-~~tsN~~~~  211 (254)
T COG1484         173 IDDIGYEPFSQEEADLLFQLISRRY----------ESRSL-IITSNLSFG  211 (254)
T ss_pred             EECCCCCCCCCHHHHHHHHHHHHHH----------HHCCC-CEEECCCHH
T ss_conf             8236776688155879999999999----------73054-202058827


No 249
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=98.18  E-value=6.4e-05  Score=58.95  Aligned_cols=208  Identities=14%  Similarity=0.211  Sum_probs=113.4

Q ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCC
Q ss_conf             54776745948999999999987410123656651289872678616889999999872377653002244774034532
Q gi|254780877|r  564 TEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSV  643 (853)
Q Consensus       564 ~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~v  643 (853)
                      -....-|+|-......- .+...+.+--..+..|.--+...|++|.|||.|..+++.++-......+-+...+|+....-
T Consensus       108 ytFd~FVvG~~N~lA~~-aa~~va~~~~~~~g~~yNPLfIyG~~GlGKTHLL~AIgn~i~~~~~kV~Yvtae~F~~~~v~  186 (455)
T PRK12422        108 MTFANFLVTPENDLPFR-ILQEFAKVSEQGKGFPFNPIYLFGPEGSGKTHLMQAAVSALRESGGKILYVSSELFTEHLVS  186 (455)
T ss_pred             CCCCCEEECCCCHHHHH-HHHHHHHCCCCCCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCEEEEECHHHHHHHHHH
T ss_conf             83558331586099999-99999837553588767875887899997899999999985379986999749999999999


Q ss_pred             CHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHC--CHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHH
Q ss_conf             013047711203566774211322156410220214414--989999999984045788799977830331559548512
Q gi|254780877|r  644 SRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKA--HSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLG  721 (853)
Q Consensus       644 s~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKa--h~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G  721 (853)
                      +-=-|..         ...-+..  +-.-|+|+|.|.--  -+..+.-|+.+|+.  |.+        .+--||+||.--
T Consensus       187 ai~~~~~---------~~Fr~~y--r~~DvLLIDDIQfl~gK~~tqeEff~tfN~--L~~--------~~KQIVitsDr~  245 (455)
T PRK12422        187 AIRSGEM---------QRFRSFY--RNVDALFIEDIEVFSGKGATQEEFFHTFNS--LHT--------EGKLIVISSSYA  245 (455)
T ss_pred             HHHCCCH---------HHHHHHH--HCCCEEEEEHHHHHHCCHHHHHHHHHHHHH--HHH--------CCCEEEEECCCC
T ss_conf             9975889---------9999999--638877631478872848899999999999--998--------599699968989


Q ss_pred             HHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHC
Q ss_conf             68764032679999999998628857726668158628899899999999999999999985798999988999999970
Q gi|254780877|r  722 AEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCR  801 (853)
Q Consensus       722 ~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~  801 (853)
                      -..+        ..+.+.|...|.-      .-++-..|.+.+....|+....       ...+  +.+++++++||++.
T Consensus       246 P~el--------~~l~~RL~SRf~~------GL~v~I~~Pd~etr~~Il~~k~-------~~~~--~~l~~ev~~~iA~~  302 (455)
T PRK12422        246 PGDL--------KAMEERLISRFEW------GIAIPIHPLTREGLRSFLMRQA-------EQLS--IRIEETALDFLIQA  302 (455)
T ss_pred             HHHH--------HHHHHHHHHHHHC------CEEECCCCCCHHHHHHHHHHHH-------HHCC--CCCCHHHHHHHHHH
T ss_conf             5765--------1268999988637------6132168999899999999999-------8718--88844689999999


Q ss_pred             CCCCCCCCHHHHHHHHHH
Q ss_conf             898220621579999987
Q gi|254780877|r  802 GYDPSYGARPLKRVIQRY  819 (853)
Q Consensus       802 ~~~~~~GaR~l~r~i~~~  819 (853)
                      -   ....|.|.+.+.+.
T Consensus       303 i---~~niReLeGal~~l  317 (455)
T PRK12422        303 L---SSNVKTLLHALTLL  317 (455)
T ss_pred             H---HHHHHHHHHHHHHH
T ss_conf             7---55179999999999


No 250
>KOG0738 consensus
Probab=98.18  E-value=8.9e-06  Score=65.92  Aligned_cols=109  Identities=28%  Similarity=0.403  Sum_probs=65.3

Q ss_pred             HHCCHHHHHHHHHHHHHH------HHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCC
Q ss_conf             745948999999999987------41012365665128987267861688999999987237765300224477403453
Q gi|254780877|r  569 SVIGQSAAVESVSNALRR------FRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHS  642 (853)
Q Consensus       569 ~v~gq~~ai~~v~~~~~~------~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~  642 (853)
                      -|.|-.+|.+-+-.|+.+      ...|+.   ||--..|++||+|+|||-|||++|..-     .-.-||.|-   ..-
T Consensus       213 DIagl~~AK~lL~EAVvlPi~mPe~F~Gir---rPWkgvLm~GPPGTGKTlLAKAvATEc-----~tTFFNVSs---stl  281 (491)
T KOG0738         213 DIAGLHEAKKLLKEAVVLPIWMPEFFKGIR---RPWKGVLMVGPPGTGKTLLAKAVATEC-----GTTFFNVSS---STL  281 (491)
T ss_pred             HHCCHHHHHHHHHHHHHHHHHHHHHHHHCC---CCCCEEEEECCCCCCHHHHHHHHHHHH-----CCEEEEECH---HHH
T ss_conf             631649999999988754442488874244---653000556799974789999998861-----672787402---456


Q ss_pred             CCHHHCCCCHHCCCCCC--CCCCHHHHCCCCCEEEEHHHHH------------CCHHHHHHHHHHHH
Q ss_conf             20130477112035667--7421132215641022021441------------49899999999840
Q gi|254780877|r  643 VSRLIGSPPGYVGYEEG--GALTEAVRRHPYQVVLFDEIEK------------AHSDVHNILLQVLD  695 (853)
Q Consensus       643 vs~LiGappGYvG~~~g--g~Lte~vr~~P~sVil~DEiEK------------ah~~v~~~llqild  695 (853)
                      +|+       |-|-.|-  -.|-|.-|..--|+|++|||+-            |...|-+=||+-+|
T Consensus       282 tSK-------wRGeSEKlvRlLFemARfyAPStIFiDEIDslcs~RG~s~EHEaSRRvKsELLvQmD  341 (491)
T KOG0738         282 TSK-------WRGESEKLVRLLFEMARFYAPSTIFIDEIDSLCSQRGGSSEHEASRRVKSELLVQMD  341 (491)
T ss_pred             HHH-------HCCCHHHHHHHHHHHHHHHCCCEEEHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHH
T ss_conf             555-------325269999999999987488535335677887257986503678888889999863


No 251
>pfam03215 Rad17 Rad17 cell cycle checkpoint protein.
Probab=98.17  E-value=0.00015  Score=56.04  Aligned_cols=142  Identities=17%  Similarity=0.120  Sum_probs=72.2

Q ss_pred             CCCCHHHHHH-HHHHHHHHCCCCCCCCCHHHHHHHHHHH--HCCCCCCCEEEECCCCCCHHHHHHHHHHHHH----CCCC
Q ss_conf             6761078864-4356998729853333357899999996--3367778668952887407779999999873----4899
Q gi|254780877|r  156 QGFDALKKYC-RDLTEEARNGKLDPVIGRDDEMRRAIQV--LSRRTKNNPVLIGDPGVGKTAIIEGLASRII----NGDI  228 (853)
Q Consensus       156 ~~~~~L~ky~-~DLTe~Ar~GkLDPVIGRe~EI~~~~~i--L~r~~k~n~~lvGe~GvGKtaive~la~~i~----~~~v  228 (853)
                      +..++.++|. .++.++|-..|      .-+||++-++-  ..++.+.=-+|.|+||+||||.|.-||..+-    +=.-
T Consensus         5 ~~epW~ekyaP~~l~ELAVHKK------KV~eV~~WL~~~~~~~~~~~iLlLtGPaG~GKTTTI~lLAkeLG~ei~EW~N   78 (490)
T pfam03215         5 EHELWTEKYKPRRRDELAIHKK------KIAEVDHWLKAVFLESNKQLILLLTGPSGCGKSTTVKVLSKELGIEIIEWSN   78 (490)
T ss_pred             CCCCCHHHCCCCCHHHHHHHHH------HHHHHHHHHHHHHCCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCEEEEECC
T ss_conf             3586414308887899855354------3999999999985477773189987989988999999999975968998148


Q ss_pred             CHHHCCCEE-EEEEH---HHHHCCCCCCCHHHHHHHHHHHH--HH-HCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHH
Q ss_conf             844457437-88731---35421745420245458999999--86-0799769996362773026665543358888765
Q gi|254780877|r  229 PESLKGKRL-MALDM---GALIAGAKFRGEFEERLKSLLCE--IR-SEDGEIILFIDELHVLVGAGKTDGAMDASNLLKP  301 (853)
Q Consensus       229 p~~l~~~~i-~~ld~---~~l~ag~~~rg~~e~r~~~i~~~--~~-~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP  301 (853)
                      |..+.+... +..+-   ..-.-+.+.-.+|++-+..--..  +. .....-|+.|+|+-+..- +.   +...-+.|.-
T Consensus        79 P~~~~~~~~~~q~~d~~g~~~~~~~S~~~~F~eFLlr~~ky~sL~~~~~~kriILIEE~Pn~~~-~d---~~~fr~~L~~  154 (490)
T pfam03215        79 PEYLHNPDNECQKPDFRGDCIVNSLSQMEQFREFLLRGARYGSLQGGGLKKKLILVEELPNQFY-SD---AEKFREVIRE  154 (490)
T ss_pred             CCCCCCCCCHHHCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCEEEEEECCCCCCC-CC---HHHHHHHHHH
T ss_conf             6545677502210121234576666377776788762233565445788735999965887442-36---6999999999


Q ss_pred             HHCCCC
Q ss_conf             312466
Q gi|254780877|r  302 SLARGE  307 (853)
Q Consensus       302 ~LarG~  307 (853)
                      +|+.+.
T Consensus       155 ~L~s~~  160 (490)
T pfam03215       155 VLQSIW  160 (490)
T ss_pred             HHHHCC
T ss_conf             997089


No 252
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily; InterPro: IPR005938    The ATPase Cdc48 is required for membrane fusion and protein degradation. It possesses chaperone-like activities and can functionally interact with Hsc70. Yeast CDC48 plays a role in cell division control whereas eukaryotic homologues are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.; GO: 0016787 hydrolase activity.
Probab=98.17  E-value=6.1e-05  Score=59.13  Aligned_cols=291  Identities=20%  Similarity=0.349  Sum_probs=170.7

Q ss_pred             HHCCCCCCCHHHHHHHHHH-CCCCHHHHHHHHCCCCHHHHHH-HHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf             9828996338999999861-8876689999973999899999-9999997459547897777069899999999999999
Q gi|254780877|r   22 LAQGHQNLVPEHVLHIFLE-DEQGAVYSLIQCSGGDIAQLKD-YNQTVLSKIPKVTGGGAQVYLSQPLAVILSKSEEIAK   99 (853)
Q Consensus        22 ~~~~H~~Vt~EHLLlaLL~-~~~s~i~~iL~~~gvd~~~L~~-~le~~L~k~~k~~~~~~~~~~S~~l~rvL~~A~~~A~   99 (853)
                      +......-..+.++-.+-. +.+..+..++...+--+-.++. .+...|+.+...+.+    +...++..+-..|.-.+.
T Consensus       410 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~la~~thG----~~Gadlaal~~eaam~~l  485 (980)
T TIGR01243       410 KDERFEKEKIEKIIEKVSKANSEDEIKEILKEDGNVYVEVRNRLIDKLLDKLAEVTHG----FVGADLAALAKEAAMAAL  485 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHCC----CHHHHHHHHHHHHHHHHH
T ss_conf             6556678899999998863102678999975012124678999999999988654236----203559999899999999


Q ss_pred             H--CCCCCCCHHHHHHHHHHCCCCH-HHHHHHCCCCHHHHHHHHHHHHCCCCCCC--CCCC---CCCCHHHHHHHHHHHH
Q ss_conf             7--1987025999876687277517-88999759998999999998737788787--7754---6761078864435699
Q gi|254780877|r  100 K--SGDSFVTAEKFLLAMVMETGGI-GESLKKCGLKFSRLEESIKKLRKGRVADS--VNAE---QGFDALKKYCRDLTEE  171 (853)
Q Consensus       100 ~--~g~~~I~~ehLLlAIl~e~~s~-a~iL~~~gi~~~~l~e~i~~~~~~~~~~~--~~~e---~~~~~L~ky~~DLTe~  171 (853)
                      .  .....|+.+.         ..+ ..+|.++.++..++.+.+....+..--.-  .-|.   +...-|+..-..|-+ 
T Consensus       486 rr~~~eg~i~~ea---------~~iP~~vl~~lkvt~~df~ealk~~~P~~~re~~~evP~v~W~diGGlee~kq~lre-  555 (980)
T TIGR01243       486 RRLIREGKINLEA---------EEIPKEVLEELKVTMKDFKEALKMVEPSALREVLVEVPNVKWEDIGGLEEVKQELRE-  555 (980)
T ss_pred             HHHHCCCCCCHHH---------HHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHEEEEECCCCCCCCCCCHHHHHHHHHH-
T ss_conf             9874027745026---------775799998732228999999851062341100023375110014667899999987-


Q ss_pred             HHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCC
Q ss_conf             87298533333578999999963367778668952887407779999999873489984445743788731354217454
Q gi|254780877|r  172 ARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKF  251 (853)
Q Consensus       172 Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~  251 (853)
                      |-+-   |+  +   ..++++-++=+--..++|.|+||.|||-+....|..-          +.-.+++--..++  .++
T Consensus       556 aveW---Pl--k---~~~~f~k~G~~PP~Gvll~GPPGtGktllakava~es----------~anfi~v~GPe~l--skW  615 (980)
T TIGR01243       556 AVEW---PL--K---APEVFEKLGIRPPKGVLLFGPPGTGKTLLAKAVATES----------GANFIAVRGPEIL--SKW  615 (980)
T ss_pred             HHHC---CC--C---HHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHCC----------CCCEEEECCCHHH--HHH
T ss_conf             7523---44--4---0589986078899734874689861688888774014----------5646774073122--344


Q ss_pred             CCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCC-CC---CC-HHHH----HHHHHCCCCEEEEEEECHHHHHHH
Q ss_conf             202454589999998607997699963627730266655-43---35-8888----765312466048997448999997
Q gi|254780877|r  252 RGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTD-GA---MD-ASNL----LKPSLARGELHCIGATTLDEYRKY  322 (853)
Q Consensus       252 rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~-g~---~D-aan~----LKP~LarG~l~~IgaTT~~Eyrk~  322 (853)
                      -||-|.+++.|......+. +.|+|+|||..|-.+-+.. ++   .| +-|-    +...-...++-+|+||.--.-   
T Consensus       616 vGese~~ir~if~~arq~a-P~~~f~deidaiaP~rG~~~~~~~vtd~~~nqll~e~dG~~~~~~vvvi~atnrPdi---  691 (980)
T TIGR01243       616 VGESEKAIREIFRKARQAA-PAIIFFDEIDAIAPARGASLDEKGVTDRIVNQLLTELDGLEELSDVVVIAATNRPDI---  691 (980)
T ss_pred             HCHHHHHHHHHHHHHHHCC-CEEEEEECHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCC---
T ss_conf             0324799999999864128-737873021110541244210010268999999986404434366589861588742---


Q ss_pred             HHCCHHHHH--CCCE-EECCCCCHHHHHHHHHH
Q ss_conf             300111320--2311-11157776789999999
Q gi|254780877|r  323 IEKDPALAR--RFQS-LLVGEPTVTDTISILRG  352 (853)
Q Consensus       323 iEkD~Al~R--RFq~-i~V~Eps~~~t~~iL~g  352 (853)
                        =||||-|  ||.+ |.|..|+.+.-.+|.+-
T Consensus       692 --~dPallrPGr~dr~i~vP~Pd~~ar~~ifk~  722 (980)
T TIGR01243       692 --LDPALLRPGRLDRLILVPAPDEEARLEIFKI  722 (980)
T ss_pred             --CCCCCCCCCCCCEEEEECCCCHHHHHHHHHH
T ss_conf             --3610048874121686059855676767655


No 253
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=98.17  E-value=0.00022  Score=54.54  Aligned_cols=66  Identities=27%  Similarity=0.581  Sum_probs=44.9

Q ss_pred             CCCCCHHHHHHHHHHHH------CCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCC-HHHCCCEEEEEEHHHH
Q ss_conf             33333578999999963------36777866895288740777999999987348998-4445743788731354
Q gi|254780877|r  178 DPVIGRDDEMRRAIQVL------SRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIP-ESLKGKRLMALDMGAL  245 (853)
Q Consensus       178 DPVIGRe~EI~~~~~iL------~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp-~~l~~~~i~~ld~~~l  245 (853)
                      |-++| ..|-|+..-|.      .|..-..++++|+||.|||||+-|+|+-.-.+ || -.+.+-.||++++..-
T Consensus        39 dG~VG-Q~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~d-vPF~~isgsEiYS~E~kKT  111 (450)
T COG1224          39 DGLVG-QEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGED-VPFVAISGSEIYSLEVKKT  111 (450)
T ss_pred             CCCCC-HHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCC-CCCEEECCCEEEEECCCHH
T ss_conf             86112-4988876259999997176666179997899976889999999985899-9821501332233100088


No 254
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=98.16  E-value=0.0003  Score=53.51  Aligned_cols=199  Identities=16%  Similarity=0.194  Sum_probs=122.9

Q ss_pred             CCCCCHHHHHHHHHHHHCCCCCCC-EEEECCCCCCHHHHHHHHHHHHHCCCC----CHHHCCCEEEEEEHHHHHCCCC--
Q ss_conf             333335789999999633677786-689528874077799999998734899----8444574378873135421745--
Q gi|254780877|r  178 DPVIGRDDEMRRAIQVLSRRTKNN-PVLIGDPGVGKTAIIEGLASRIINGDI----PESLKGKRLMALDMGALIAGAK--  250 (853)
Q Consensus       178 DPVIGRe~EI~~~~~iL~r~~k~n-~~lvGe~GvGKtaive~la~~i~~~~v----p~~l~~~~i~~ld~~~l~ag~~--  250 (853)
                      +-+||-+.-++.+.+.+...+=.+ -++.|++|||||+++..+|+.+....-    |..+.+.-.-+.....+.+|+.  
T Consensus        23 ~~liGq~~~~~~L~~a~~~gRl~HA~Lf~GP~GiGKaTlA~~~A~~Ll~~~~~~~~~~~~~~pd~~~~~~r~i~~g~hpd  102 (352)
T PRK09112         23 NRLFGHEEARAFLAQAYREGRLHHALLFEGPEGIGKATLAFHLANHILSHPDPNEAPETLADPDPASPLWRQIAQGAHPN  102 (352)
T ss_pred             HHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCC
T ss_conf             46278699999999999849965246535899808999999999998669986668655678887877899997489999


Q ss_pred             --------------CCCHH-HHHHHHHHHHHHHC---CCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCC--CEEE
Q ss_conf             --------------42024-54589999998607---9976999636277302666554335888876531246--6048
Q gi|254780877|r  251 --------------FRGEF-EERLKSLLCEIRSE---DGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARG--ELHC  310 (853)
Q Consensus       251 --------------~rg~~-e~r~~~i~~~~~~~---~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG--~l~~  310 (853)
                                    .+... -+.++.+++.+..+   .+.-|..||+.|++        +.+|+|-|--.|..-  ...+
T Consensus       103 l~~i~r~~d~k~~~~~~~I~vd~iR~l~~~~~~~~~~~~~kv~Iid~ad~m--------~~~aaNALLK~LEEPp~~~~f  174 (352)
T PRK09112        103 LLHLTRPFDEKTGKFKTAITVDEIRRVTHFLSQTSGDGNWRIVIIDPADDM--------NRNAANAILKTLEEPPARALF  174 (352)
T ss_pred             EEEEECCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCEEEEEECCHHHH--------HHHHHHHHHHHHHCCCCCEEE
T ss_conf             565534322021454335777999999998454886688069998187874--------699999999985348987489


Q ss_pred             EEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHH
Q ss_conf             99744899999730011132023111115777678999999978986541496101589999986333202457674778
Q gi|254780877|r  311 IGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKA  390 (853)
Q Consensus       311 IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKA  390 (853)
                      |=.||.-+  +..   +.+-.|-|++.....+.++....|+.+.+.    .++ ..++++...+.+|.==      |-.|
T Consensus       175 iLit~~~~--~ll---~TI~SRCq~~~f~pL~~~di~~~L~~i~~~----~~~-~~~~~~~~l~~~a~GS------~~~A  238 (352)
T PRK09112        175 ILISHSSG--RLL---PTIRSRCQPISLKPLDDDELKKALSHLGSK----QGI-SAGEETEALLQRSEGS------VRKA  238 (352)
T ss_pred             EEEECCHH--HCH---HHHHHHCCCCCCCCCCHHHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHCCC------HHHH
T ss_conf             98869977--776---899974332148893989999999987512----689-9879999999870899------8899


Q ss_pred             HHHHHHHHHH
Q ss_conf             9999999998
Q gi|254780877|r  391 IDLMDEASAR  400 (853)
Q Consensus       391 IDllDeA~A~  400 (853)
                      +.|++.-|..
T Consensus       239 l~L~~~~gl~  248 (352)
T PRK09112        239 LLLLNYGGLE  248 (352)
T ss_pred             HHHHCCCHHH
T ss_conf             9874487799


No 255
>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]
Probab=98.15  E-value=5.1e-05  Score=59.75  Aligned_cols=110  Identities=28%  Similarity=0.452  Sum_probs=72.5

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCC--------CCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHC
Q ss_conf             76745948999999999987410123656--------6512898726786168899999998723776530022447740
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRFRAGLQDPQ--------RPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYM  638 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~~~gl~~~~--------~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~  638 (853)
                      -.-|.|.|+|.+.+...+--.    ++|+        =|-|+ |++||+|+|||-|||+.|..-   +-.+..+--|+|-
T Consensus       149 F~DVAG~dEakeel~EiVdfL----k~p~ky~~lGakiPkGv-lLvGpPGTGKTLLAkAvAgEA---~VPFf~iSGS~FV  220 (596)
T COG0465         149 FADVAGVDEAKEELSELVDFL----KNPKKYQALGAKIPKGV-LLVGPPGTGKTLLAKAVAGEA---GVPFFSISGSDFV  220 (596)
T ss_pred             HHHHCCCHHHHHHHHHHHHHH----HCCHHHHHCCCCCCCCE-EEECCCCCCCHHHHHHHHCCC---CCCCEECCCHHHH
T ss_conf             566418679999999999986----38556675235345652-685599987278999984546---8983530344464


Q ss_pred             CCCCCCHHHCCCCHHCCCCCCCCCCH-HHHCCCCCEEEEHHHHHC-----------CHHHHHHHHHHHH
Q ss_conf             34532013047711203566774211-322156410220214414-----------9899999999840
Q gi|254780877|r  639 EKHSVSRLIGSPPGYVGYEEGGALTE-AVRRHPYQVVLFDEIEKA-----------HSDVHNILLQVLD  695 (853)
Q Consensus       639 e~~~vs~LiGappGYvG~~~gg~Lte-~vr~~P~sVil~DEiEKa-----------h~~v~~~llqild  695 (853)
                           -..+|-|.-+|=     .|-+ +-++.| |+|.+|||+.-           |-+--+.|=|+|-
T Consensus       221 -----emfVGvGAsRVR-----dLF~qAkk~aP-~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLv  278 (596)
T COG0465         221 -----EMFVGVGASRVR-----DLFEQAKKNAP-CIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLV  278 (596)
T ss_pred             -----HHHCCCCCHHHH-----HHHHHHHCCCC-CEEEEEHHHHCCCCCCCCCCCCCHHHHHHHHHHHH
T ss_conf             -----431478838889-----99998551599-66987634331454577889980699999988885


No 256
>pfam08298 AAA_PrkA PrkA AAA domain. This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.
Probab=98.15  E-value=0.0001  Score=57.21  Aligned_cols=108  Identities=20%  Similarity=0.212  Sum_probs=68.4

Q ss_pred             CEEEEHHHHHCCHHHHHHHHHHHHCCEEE-CCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHC
Q ss_conf             10220214414989999999984045788-79997783033155954851268764032679999999998628857726
Q gi|254780877|r  672 QVVLFDEIEKAHSDVHNILLQVLDDGRLT-DSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLN  750 (853)
Q Consensus       672 sVil~DEiEKah~~v~~~llqild~G~lt-d~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~pefln  750 (853)
                      .++=|-|+=|++.+++..||.+-++|.+. +++.-.++|. .+||-+||- +++-.-            ....+-..|++
T Consensus       235 Gl~efvE~~K~~~~~L~~lL~atQE~~i~~~~~~~~i~~D-~vIiahsNe-~E~~~f------------~~~~~~eA~~d  300 (358)
T pfam08298       235 GLMEFVEMFKAPIKVLHPLLTATQEGNYNSTEKFSAIPFD-GIILAHSNE-SEWNSF------------KSNKNNEAFLD  300 (358)
T ss_pred             CCEEEHHHHCCCHHHHHHHHCCCCCCCCCCCCCCCCEECC-EEEECCCCH-HHHHHH------------HCCCCCHHHHC
T ss_conf             7554098761829999998522124622477875603314-268768984-999987------------44864346656


Q ss_pred             CCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCC-EEEECHHHHHHHHH
Q ss_conf             668158628899899999999999999999985798-99998899999997
Q gi|254780877|r  751 RLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNI-SMDFDDQVIDWLSC  800 (853)
Q Consensus       751 Rid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i-~l~~~~~~~~~l~~  800 (853)
                      |+.-|=+=.-|.-.+=.+|.++.+.+       ..+ ...+.|.+++..+.
T Consensus       301 R~~~v~vPY~lr~~eE~kIY~k~l~~-------s~~~~~h~APhtl~~aa~  344 (358)
T pfam08298       301 RIVVIKVPYCLRVSEEIKIYEKLLKE-------SELADAHCAPHTLEVAAM  344 (358)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHH-------CCCCCCCCCCCHHHHHHH
T ss_conf             37999676326717899999998630-------446677829648999999


No 257
>KOG2004 consensus
Probab=98.15  E-value=0.00011  Score=57.08  Aligned_cols=184  Identities=24%  Similarity=0.446  Sum_probs=118.0

Q ss_pred             HHHCCCCCC-CCCHHHHHHHHHHHHCC-CCCCC-----EEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHH
Q ss_conf             987298533-33357899999996336-77786-----689528874077799999998734899844457437887313
Q gi|254780877|r  171 EARNGKLDP-VIGRDDEMRRAIQVLSR-RTKNN-----PVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMG  243 (853)
Q Consensus       171 ~Ar~GkLDP-VIGRe~EI~~~~~iL~r-~~k~n-----~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~  243 (853)
                      .+...-||- =.|-++-=+|+++-++= +-+++     .|++|+||||||+|...+|.-+          |+..|.+.+|
T Consensus       403 ~~Ak~iLdeDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~AL----------nRkFfRfSvG  472 (906)
T KOG2004         403 ARAKEILDEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARAL----------NRKFFRFSVG  472 (906)
T ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCCCHHHHHHHHH----------CCCEEEEECC
T ss_conf             989876346530168899999999998751466788379986899877321899999984----------8746998536


Q ss_pred             HHHC-----C--CCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCC--------C---HHHHHHHHHC-
Q ss_conf             5421-----7--454202454589999998607997699963627730266655433--------5---8888765312-
Q gi|254780877|r  244 ALIA-----G--AKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAM--------D---ASNLLKPSLA-  304 (853)
Q Consensus       244 ~l~a-----g--~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~--------D---aan~LKP~La-  304 (853)
                      .|--     |  -.|-|-.-.|+-..++-+... +++|| |||+.-+ |.|-+ |.-        |   -+|+|.-||- 
T Consensus       473 G~tDvAeIkGHRRTYVGAMPGkiIq~LK~v~t~-NPliL-iDEvDKl-G~g~q-GDPasALLElLDPEQNanFlDHYLdV  548 (906)
T KOG2004         473 GMTDVAEIKGHRRTYVGAMPGKIIQCLKKVKTE-NPLIL-IDEVDKL-GSGHQ-GDPASALLELLDPEQNANFLDHYLDV  548 (906)
T ss_pred             CCCCHHHHCCCCEEEECCCCHHHHHHHHHHCCC-CCEEE-EEHHHHH-CCCCC-CCHHHHHHHHCCHHHCCCHHHHCCCC
T ss_conf             634277642542110014884899999861778-86588-5322341-78877-98689998743965355345420266


Q ss_pred             ---CCCEEEEEEECHHHHHHHHHC-CHHHHHCCCEEECCCCCHHHHHHHHH-HHHHHHHHHCC-----CCCCHHHHHHHH
Q ss_conf             ---466048997448999997300-11132023111115777678999999-97898654149-----610158999998
Q gi|254780877|r  305 ---RGELHCIGATTLDEYRKYIEK-DPALARRFQSLLVGEPTVTDTISILR-GLKERYEQHHK-----VRISDSALVSAA  374 (853)
Q Consensus       305 ---rG~l~~IgaTT~~Eyrk~iEk-D~Al~RRFq~i~V~Eps~~~t~~iL~-gl~~~yE~~H~-----V~i~d~al~~av  374 (853)
                         -...-+|++--      .|+. -++|-.|.+.|.+.--..+|-+.|-+ .+-++--.-||     |+|+++|+.+.+
T Consensus       549 p~DLSkVLFicTAN------~idtIP~pLlDRMEvIelsGYv~eEKv~IA~~yLip~a~~~~gl~~e~v~is~~al~~lI  622 (906)
T KOG2004         549 PVDLSKVLFICTAN------VIDTIPPPLLDRMEVIELSGYVAEEKVKIAERYLIPQALKDCGLKPEQVKISDDALLALI  622 (906)
T ss_pred             CCCHHHEEEEEECC------CCCCCCHHHHHHHHEEECCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHCCCCHHHHHHHH
T ss_conf             42111068898536------445698566412232203672279899999984125789874998786586299999999


No 258
>pfam01078 Mg_chelatase Magnesium chelatase, subunit ChlI. Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. Due to this, it is thought that Mg-chelatase has an important role in channelling inter- mediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weight between 38-42 kDa.
Probab=98.14  E-value=3.3e-05  Score=61.33  Aligned_cols=111  Identities=25%  Similarity=0.337  Sum_probs=61.0

Q ss_pred             CCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEE--------------------
Q ss_conf             333578999999963367778668952887407779999999873489984445743788--------------------
Q gi|254780877|r  180 VIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMA--------------------  239 (853)
Q Consensus       180 VIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~--------------------  239 (853)
                      |+|.+.-.+-+.-..+..+  |.+|+|+||+|||.+++.++.-+-.=.--+.+.-..|++                    
T Consensus         5 i~GQ~~akrAl~iAaaG~H--~lLl~GpPG~GKTmlA~rl~~iLP~l~~~e~le~~~i~S~~g~~~~~~l~~~rPfr~PH   82 (207)
T pfam01078         5 VKGQEQAKRALEIAAAGGH--NLLMIGPPGSGKTMLAKRLPGILPPLTEQEALEVTAIHSVAGLGGDGGLIRRRPFRAPH   82 (207)
T ss_pred             HCCCHHHHHHHHHHHCCCC--CEEEECCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCC
T ss_conf             6385999999999854787--58978899802999997630148998789988777642303687777744579865788


Q ss_pred             --EEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEE
Q ss_conf             --73135421745420245458999999860799769996362773026665543358888765312466048
Q gi|254780877|r  240 --LDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHC  310 (853)
Q Consensus       240 --ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~  310 (853)
                        ....+|+.|.+--         .--|+.-+. +=|||+||+.-+        .-++-+.|...|..|.+.+
T Consensus        83 hs~s~~aliGGg~~~---------~PGeIslAH-~GVLFLDE~~Ef--------~~~vle~LrqpLE~~~v~I  137 (207)
T pfam01078        83 HSASAAALVGGGSIP---------RPGEISLAH-NGVLFLDELPEF--------SRRVLESLRQPLEDGEITI  137 (207)
T ss_pred             CCCCHHHCCCCCCCC---------CCCCEEECC-CCEEEECCHHHC--------CHHHHHHHHHHHCCCCEEE
T ss_conf             764363322688889---------997066636-878884764653--------9889999987660494899


No 259
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=98.13  E-value=7.3e-05  Score=58.46  Aligned_cols=201  Identities=20%  Similarity=0.250  Sum_probs=104.6

Q ss_pred             CCCCCCCHHHHHHHHHHHHCC--CCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHH--------
Q ss_conf             853333357899999996336--7778668952887407779999999873489984445743788731354--------
Q gi|254780877|r  176 KLDPVIGRDDEMRRAIQVLSR--RTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGAL--------  245 (853)
Q Consensus       176 kLDPVIGRe~EI~~~~~iL~r--~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l--------  245 (853)
                      .++.++|.+.-++++++.-.|  +...+++|.||+|+||+.++..+-..=       .-++..++.+|-+++        
T Consensus       323 ~f~~l~g~s~~~~~~~~~a~~~a~~~~pVLI~GE~GtGKe~lAraIH~~S-------~r~~~pfv~vnC~ai~~~~~e~e  395 (639)
T PRK11388        323 TFDHMPQDSPQMRRLIHFGRQAAKSSFPILLCGEEGVGKALLAQAIHNES-------ERAAGPYIAVNCQLLPDEALAEE  395 (639)
T ss_pred             CHHHCCCCCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHCC-------CCCCCCEEEEECCCCCHHHHHHH
T ss_conf             85544679999999999999996889968988989810999999999557-------77899818987898984678998


Q ss_pred             HCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC-------------CCEEEEE
Q ss_conf             217454202454589999998607997699963627730266655433588887653124-------------6604899
Q gi|254780877|r  246 IAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR-------------GELHCIG  312 (853)
Q Consensus       246 ~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar-------------G~l~~Ig  312 (853)
                      +-|.. .|.....-.+.+.   .++|. .||+|||+.|        +.+.-.-|--.|..             -++|+|+
T Consensus       396 lfG~~-~~~~~~g~~g~~e---~A~gG-TL~LdeI~~l--------p~~~Q~~LlrvL~~~~~~r~g~~~~~~vdvRiia  462 (639)
T PRK11388        396 FLGSD-RTDSENGRLSKFE---LAHGG-TLFLEKVEYL--------SVELQSALLQVLKTGVITRLDSRRLIPVDVRVIA  462 (639)
T ss_pred             HCCCC-CCCCCCCCCCHHH---CCCCC-EEEECCHHHC--------CHHHHHHHHHHHHCCCEEECCCCCEEEEEEEEEE
T ss_conf             73877-6764346686244---03698-2884672649--------9999999999986593785699946664279997


Q ss_pred             EECHHHHHHHHHCC---HHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHH
Q ss_conf             74489999973001---113202311111577767899999997898654149610158999998633320245767477
Q gi|254780877|r  313 ATTLDEYRKYIEKD---PALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDK  389 (853)
Q Consensus       313 aTT~~Eyrk~iEkD---~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDK  389 (853)
                      ||+.+- ...++..   ..|--|+....|.=|+--+-.+=+.-+...|               .-.++.++-+...+.+.
T Consensus       463 at~~~l-~~~v~~g~fr~dLyyrl~~~~i~lPpLReR~~Di~~L~~~~---------------l~~~~~~~~~~~~ls~~  526 (639)
T PRK11388        463 TTTADL-AMLVEQNRFSRQLYYALHAFEITIPPLRMRREDIPALVNNK---------------LRSLEKRFSTRLKIDDD  526 (639)
T ss_pred             ECCHHH-HHHHHCCCCHHHHHHHHHHHHCCCCCHHHCHHHHHHHHHHH---------------HHHHHHHCCCCCCCCHH
T ss_conf             364508-99987498549999876744105733232534399999999---------------99999971999998999


Q ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             89999999998754102221457887999997
Q gi|254780877|r  390 AIDLMDEASARVRMQIDTKPEVLDELDRRIIC  421 (853)
Q Consensus       390 AIDllDeA~A~~~i~~~~~P~~l~~l~r~i~~  421 (853)
                      |.         ..+..+.+|-.+.++++-+.+
T Consensus       527 a~---------~~L~~y~WPGNvrEL~nvl~~  549 (639)
T PRK11388        527 AL---------ARLVSYRWPGNDFELRSVIEN  549 (639)
T ss_pred             HH---------HHHHCCCCCCHHHHHHHHHHH
T ss_conf             99---------999728999799999999999


No 260
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=98.11  E-value=0.00017  Score=55.46  Aligned_cols=199  Identities=17%  Similarity=0.213  Sum_probs=113.5

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHCC--CCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCC
Q ss_conf             29853333357899999996336--7778668952887407779999999873489984445743788731354217454
Q gi|254780877|r  174 NGKLDPVIGRDDEMRRAIQVLSR--RTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKF  251 (853)
Q Consensus       174 ~GkLDPVIGRe~EI~~~~~iL~r--~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~  251 (853)
                      ...+|.+||+...++++++..-|  .....+++.||+|+||.-++..+-+.=.       -++.-.+.+|-+++-..   
T Consensus       200 ~~~F~~iig~S~~m~~v~~~a~r~A~~d~pVLI~GEsGTGKellAraIH~~S~-------R~~~pFv~vnC~alp~~---  269 (513)
T PRK10820        200 VSAFSQIVAVSPKMKHVVEQARKLAMLSAPLLITGDTGTGKDLFAYACHLASP-------RAKKPYLALNCASIPED---  269 (513)
T ss_pred             CCCHHHHEECCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHCCC-------CCCCCCEEEECCCCCHH---
T ss_conf             16877751089999999999999859899889989898249999999996688-------78998268889989967---


Q ss_pred             CCHHHHHH--------HHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCC-------------CEEE
Q ss_conf             20245458--------99999986079976999636277302666554335888876531246-------------6048
Q gi|254780877|r  252 RGEFEERL--------KSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARG-------------ELHC  310 (853)
Q Consensus       252 rg~~e~r~--------~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG-------------~l~~  310 (853)
                        .+|..|        +++++   .++|. -||+|||+.+        +.+.-.-|--.|..|             ++|+
T Consensus       270 --l~eseLFG~a~~~~~G~fe---~A~gG-TLfLdEI~~l--------~~~~Q~kLLr~Lq~~~~~rvG~~~~~~~dvRi  335 (513)
T PRK10820        270 --AVESELFGHAPEGKKGFFE---QANGG-SVLLDEIGEM--------SPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRV  335 (513)
T ss_pred             --HHHHHHCCCCCCCCCCCEE---ECCCC-EEEEECHHHC--------CHHHHHHHHHHHHCCEEEECCCCCEEEEEEEE
T ss_conf             --8999863876668897557---85898-8999783659--------99999999999868979965998535677899


Q ss_pred             EEEECHHHHHHHHHCC---HHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHC-CCCCC
Q ss_conf             9974489999973001---1132023111115777678999999978986541496101589999986333202-45767
Q gi|254780877|r  311 IGATTLDEYRKYIEKD---PALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYI-TDRFL  386 (853)
Q Consensus       311 IgaTT~~Eyrk~iEkD---~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi-~~r~l  386 (853)
                      |+||+.+=- +.++..   ..|--|+..+.+.=|.--+-.+=+--+...|               .-.++.+|= +-..+
T Consensus       336 IaaT~~dL~-~lv~~g~FReDLyyRL~v~~I~lPpLReR~eDI~~L~~~f---------------l~~~~~~~g~~~~~l  399 (513)
T PRK10820        336 ICATQKNLV-ELVQKGLFREDLYYRLNVLTLNLPPLRDCPQDIMPLTELF---------------VARFADEQGVPRPKL  399 (513)
T ss_pred             EECCCHHHH-HHHHCCCCCHHHHHHHHCCCCCCCCHHHCHHHHHHHHHHH---------------HHHHHHHCCCCCCCC
T ss_conf             962653099-9987298508899986167255888344655699999999---------------999999759998984


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             47789999999998754102221457887999997
Q gi|254780877|r  387 PDKAIDLMDEASARVRMQIDTKPEVLDELDRRIIC  421 (853)
Q Consensus       387 PDKAIDllDeA~A~~~i~~~~~P~~l~~l~r~i~~  421 (853)
                      ...|.         -.+.++.+|-.+.++++.+.+
T Consensus       400 s~~a~---------~~L~~y~WPGNVREL~n~ier  425 (513)
T PRK10820        400 SADLS---------TVLTRYGWPGNVRQLKNAIYR  425 (513)
T ss_pred             CHHHH---------HHHHHCCCCCHHHHHHHHHHH
T ss_conf             79999---------999708999799999999999


No 261
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=98.11  E-value=2e-05  Score=62.96  Aligned_cols=162  Identities=18%  Similarity=0.269  Sum_probs=94.0

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHHCCCCCHH-----------------HCCCEEEEEEH-HHHHCCCCCCCHHHHHHHHH
Q ss_conf             6689528874077799999998734899844-----------------45743788731-35421745420245458999
Q gi|254780877|r  201 NPVLIGDPGVGKTAIIEGLASRIINGDIPES-----------------LKGKRLMALDM-GALIAGAKFRGEFEERLKSL  262 (853)
Q Consensus       201 n~~lvGe~GvGKtaive~la~~i~~~~vp~~-----------------l~~~~i~~ld~-~~l~ag~~~rg~~e~r~~~i  262 (853)
                      --++.|++|+||++++..+|+.+.-.+ |..                 -.|..+++-+- +.-|     +   =+.++.+
T Consensus        24 A~Lf~G~~G~GK~~lA~~~A~~LlC~~-~~~~~~Cg~C~sC~~~~~~~HPD~~~i~pe~~~~~I-----~---IdqIR~l   94 (328)
T PRK05707         24 AYLLHGPAGIGKRALAERLAAFLLCEA-PQGGGACGSCKGCQLLAAGSHPDNFVLEPEEADKPI-----K---VDQVREL   94 (328)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHCCC-CCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCCC-----C---HHHHHHH
T ss_conf             464479998679999999999984899-999899988889999875899987998426667769-----7---9999999


Q ss_pred             HHHHHHC---CCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHCCCEEECC
Q ss_conf             9998607---9976999636277302666554335888876531246604899744899999730011132023111115
Q gi|254780877|r  263 LCEIRSE---DGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGATTLDEYRKYIEKDPALARRFQSLLVG  339 (853)
Q Consensus       263 ~~~~~~~---~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~  339 (853)
                      ++++..+   .+.-|..||+.|.+        +..|||-|-=.|..--=.++---..+...+-.   |.+-.|=|.+...
T Consensus        95 ~~~~~~~~~~g~~KV~iI~~Ae~m--------~~~AaNALLKtLEEPp~~t~fiL~t~~~~~lL---pTI~SRCq~~~~~  163 (328)
T PRK05707         95 VSFVVQTAQLGGRKVVLIEPAEAM--------NRNAANALLKSLEEPSGQTVLLLISHQPSRLL---PTIKSRCQQLACP  163 (328)
T ss_pred             HHHHHHCCCCCCCEEEEEEHHHHH--------CHHHHHHHHHHHHCCCCCEEEEEEECCHHHCH---HHHHHCCEEEECC
T ss_conf             999831766789579995028773--------89999999998507898759998609934482---5887414133489


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             777678999999978986541496101589999986333202457674778999999
Q gi|254780877|r  340 EPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDE  396 (853)
Q Consensus       340 Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDe  396 (853)
                      .|+.++....|..-.+        ....+....++.+|.-      -|.+|+.+.++
T Consensus       164 ~p~~e~~~~~L~~~~~--------~~~~~~a~~ll~la~G------~p~~A~~l~~~  206 (328)
T PRK05707        164 LPSNEPSLQWLQQALP--------ESDAEERIELLTLAAG------SPLRALQLHAQ  206 (328)
T ss_pred             CCCHHHHHHHHHHHCC--------CCCHHHHHHHHHHCCC------CHHHHHHHHCC
T ss_conf             9899999999997556--------5578999999997499------99999987486


No 262
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=98.11  E-value=7.1e-05  Score=58.59  Aligned_cols=198  Identities=17%  Similarity=0.359  Sum_probs=115.7

Q ss_pred             HHHHHHCCHHHHHH-HHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCC--CCCCCCCCCHHHHCCCC
Q ss_conf             47767459489999-9999998741012365665128987267861688999999987237--76530022447740345
Q gi|254780877|r  565 EISKSVIGQSAAVE-SVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFD--DENSMIRIDMSEYMEKH  641 (853)
Q Consensus       565 ~l~~~v~gq~~ai~-~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~--~~~~lir~dMsey~e~~  641 (853)
                      ....-|+|...... +.+.++  +    .+|.++---+++.|++|+|||.|..+++.++..  .+..++-+...+|+...
T Consensus       117 TFdnFVvG~sN~lA~aAA~~V--a----~~pg~~yNPLfIyG~~GlGKTHLl~AIgn~~~~~~p~~~v~Y~tae~F~~~~  190 (447)
T PRK00149        117 TFDNFVVGKSNRLAHAAALAV--A----ENPGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVSSEKFTNDF  190 (447)
T ss_pred             CCCCCEECCCCHHHHHHHHHH--H----HCCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEEEHHHHHHHH
T ss_conf             032622269859999999999--8----3767677855897799887889999999999985899728995499999999


Q ss_pred             CCCHHHCCCCHHCCCCCCCCCCHHHHC--CCCCEEEEHHHHHC--CHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEEC
Q ss_conf             320130477112035667742113221--56410220214414--98999999998404578879997783033155954
Q gi|254780877|r  642 SVSRLIGSPPGYVGYEEGGALTEAVRR--HPYQVVLFDEIEKA--HSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMT  717 (853)
Q Consensus       642 ~vs~LiGappGYvG~~~gg~Lte~vr~--~P~sVil~DEiEKa--h~~v~~~llqild~G~ltd~~G~~v~f~n~iii~T  717 (853)
                      . +.|-.           +. ++..|+  +-.-|+|+|.|.--  ....+.-|+++|+.  |.++        +--||+|
T Consensus       191 v-~al~~-----------~~-~~~Fr~~yr~~DvLliDDiqfl~gk~~tqeeff~~fn~--l~~~--------~kqiv~t  247 (447)
T PRK00149        191 V-KALRN-----------NA-MEEFKEKYRSVDVLLIDDIQFLAGKEKTQEEFFHTFNA--LHEN--------NKQIVIT  247 (447)
T ss_pred             H-HHHHC-----------CC-HHHHHHHHHCCCEEEECHHHHHHCCHHHHHHHHHHHHH--HHHC--------CCEEEEE
T ss_conf             9-99851-----------86-99999999728854321488860557799999999999--9984--------9968995


Q ss_pred             CCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCC--CEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHH
Q ss_conf             851268764032679999999998628857726668--158628899899999999999999999985798999988999
Q gi|254780877|r  718 SNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLD--EIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVI  795 (853)
Q Consensus       718 sN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid--~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~  795 (853)
                      |.---..+.                .|.+.+..|+.  -++...|.+.+....|+.....       ..+  +.++++++
T Consensus       248 sd~~P~~l~----------------~l~~rL~SRf~~Gl~~~i~~Pd~e~r~~Il~~k~~-------~~~--~~l~~~v~  302 (447)
T PRK00149        248 SDRPPKELE----------------GLEDRLRSRFEWGLTVDIEPPDLETRVAILQKKAE-------EEG--INLPNEVL  302 (447)
T ss_pred             CCCCHHHCC----------------CCCHHHHHHHHCCEEEECCCCCHHHHHHHHHHHHH-------HCC--CCCCHHHH
T ss_conf             788967656----------------51177886763762651059999999999999999-------728--99998999


Q ss_pred             HHHHHCCCCCCCCCHHHHHHHHHH
Q ss_conf             999970898220621579999987
Q gi|254780877|r  796 DWLSCRGYDPSYGARPLKRVIQRY  819 (853)
Q Consensus       796 ~~l~~~~~~~~~GaR~l~r~i~~~  819 (853)
                      +||+++-   ..-.|.|...+.+.
T Consensus       303 ~~iA~~~---~~nvR~LeGal~~l  323 (447)
T PRK00149        303 EFIAKRI---RSNIRELEGALNRL  323 (447)
T ss_pred             HHHHHHC---CCCHHHHHHHHHHH
T ss_conf             9999712---68899999999999


No 263
>pfam07726 AAA_3 ATPase family associated with various cellular activities (AAA). This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.
Probab=98.10  E-value=2.7e-06  Score=70.07  Aligned_cols=110  Identities=21%  Similarity=0.267  Sum_probs=61.3

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEE-E--EEEHHHHHCCCC-C---CCHHHHHHHHHHHHHHHCCCCE
Q ss_conf             6689528874077799999998734899844457437-8--873135421745-4---2024545899999986079976
Q gi|254780877|r  201 NPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRL-M--ALDMGALIAGAK-F---RGEFEERLKSLLCEIRSEDGEI  273 (853)
Q Consensus       201 n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i-~--~ld~~~l~ag~~-~---rg~~e~r~~~i~~~~~~~~~~~  273 (853)
                      |++|.|+||||||++++.+|...-..       -.+| +  .++...|+ |+. +   .|+|+=+--.+.       + -
T Consensus         1 hVLL~GppG~GKT~l~~~lA~~~~~~-------~~~i~~~~~~~~~Dl~-G~~~~~~~~~~~~~~~G~l~-------~-~   64 (131)
T pfam07726         1 HVLLEGVPGLAKTLLARTLARSLGLD-------FRRIQFTPDLLPSDIT-GTEVYDQKTREFEFRPGPIF-------A-N   64 (131)
T ss_pred             CEEEECCCCCHHHHHHHHHHHHHCCC-------CEEEEECCCCCCCCCC-CCEEECCCCCEEEEECCCCC-------C-C
T ss_conf             98789899876999999999995998-------1688833776700036-84542378740898457310-------3-7


Q ss_pred             EEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCC-------------EEEEEEECHHHHHHHHHCCHHHHHCCC
Q ss_conf             9996362773026665543358888765312466-------------048997448999997300111320231
Q gi|254780877|r  274 ILFIDELHVLVGAGKTDGAMDASNLLKPSLARGE-------------LHCIGATTLDEYRKYIEKDPALARRFQ  334 (853)
Q Consensus       274 ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~-------------l~~IgaTT~~Eyrk~iEkD~Al~RRFq  334 (853)
                      |+|+|||+..=        -++-|.|-+.|..+.             +++|+|.-|.||.-..+=++||..||=
T Consensus        65 vl~lDEin~a~--------~~v~~~Ll~~l~er~v~~~g~~~~~p~~f~viAt~NP~e~~G~~~L~~al~dRF~  130 (131)
T pfam07726        65 VLLADEINRAP--------PKTQSALLEAMQERQVTIGGETHPLPEPFFVLATQNPIEQEGTYPLPEAQLDRFL  130 (131)
T ss_pred             CEEEEHHHCCC--------HHHHHHHHHHHHCEEEEECCEEEECCCCEEEEECCCCCCCCCCEECCHHHHCCCC
T ss_conf             05640120399--------8999999976326499779988527998499971698755576449988965615


No 264
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=98.09  E-value=6.7e-05  Score=58.78  Aligned_cols=199  Identities=22%  Similarity=0.283  Sum_probs=109.6

Q ss_pred             CCCCHHHHHHHHHHHHCC--CCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHC--------C
Q ss_conf             333357899999996336--777866895288740777999999987348998444574378873135421--------7
Q gi|254780877|r  179 PVIGRDDEMRRAIQVLSR--RTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIA--------G  248 (853)
Q Consensus       179 PVIGRe~EI~~~~~iL~r--~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~a--------g  248 (853)
                      -+||+..-++++.+.+.+  .+..|+++.||+||||.-++..+-+.=       .-+++-++.+|-+++-.        |
T Consensus       187 elIG~S~~m~~l~~~i~~vA~sd~pVLI~GEtGTGKelvAr~IH~~S-------~R~~~Pfv~vNCaalpe~l~EseLFG  259 (510)
T PRK05022        187 EMIGQSPAMQQLKKEIEVVAASDLNVLITGETGVGKELVARAIHQAS-------PRAVKPLVYLNCAALPESLAESELFG  259 (510)
T ss_pred             CEEECCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHCC-------CCCCCCCEEEECCCCCHHHHHHHHCC
T ss_conf             75208999999999999996899988988989813999999999668-------87899857888999985678998659


Q ss_pred             CCCCCHHHHHH---HHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCC-------------EEEEE
Q ss_conf             45420245458---999999860799769996362773026665543358888765312466-------------04899
Q gi|254780877|r  249 AKFRGEFEERL---KSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGE-------------LHCIG  312 (853)
Q Consensus       249 ~~~rg~~e~r~---~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~-------------l~~Ig  312 (853)
                       ..+|.|-.-.   .+.+   ..++|. .||+|||..+        +.++-.-|--.|..|+             +|+|+
T Consensus       260 -h~kGaFtGA~~~r~G~f---e~A~gG-TLfLDEI~~L--------pl~~Q~KLLrvLq~g~iqrvG~~~~~~vdvRIIA  326 (510)
T PRK05022        260 -HVKGAFTGAISNRSGKF---ELADGG-TLFLDEIGEL--------PLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIA  326 (510)
T ss_pred             -CCCCCCCCCCCCCCCCE---EECCCC-EEEEECHHHC--------CHHHHHHHHHHHHCCEEEECCCCCEEEEEEEEEE
T ss_conf             -77788688655678810---177898-7987574549--------9999999999984795885589946666689996


Q ss_pred             EECHHHHHHHHHCC---HHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHH-CCCCCCHH
Q ss_conf             74489999973001---113202311111577767899999997898654149610158999998633320-24576747
Q gi|254780877|r  313 ATTLDEYRKYIEKD---PALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRY-ITDRFLPD  388 (853)
Q Consensus       313 aTT~~Eyrk~iEkD---~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rY-i~~r~lPD  388 (853)
                      ||.-+ -.+-++.-   .-|--|...+.|.=|.--+-.+=+.-+...|               .-..+.|| .+...+..
T Consensus       327 ATnrd-L~~~V~~G~FR~DLYyRLsv~~I~vPPLRER~eDI~lLa~~F---------------Le~~~~~~g~~~~~ls~  390 (510)
T PRK05022        327 ATNRD-LREEVLAGRFRADLYHRLSVFPLPVPPLRERGDDVLLLAGYF---------------LEQNRLRLGLSSLRLSP  390 (510)
T ss_pred             ECCCC-HHHHHHCCCHHHHHHHHHHCCCCCCCCHHHCHHHHHHHHHHH---------------HHHHHHHCCCCCCCCCH
T ss_conf             07835-999988396389999876204034808655554099999999---------------99999982989898889


Q ss_pred             HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Q ss_conf             7899999999987541022214578879999974
Q gi|254780877|r  389 KAIDLMDEASARVRMQIDTKPEVLDELDRRIICL  422 (853)
Q Consensus       389 KAIDllDeA~A~~~i~~~~~P~~l~~l~r~i~~l  422 (853)
                      .|+..|         ..+.+|-.+.++++.+.+.
T Consensus       391 eAl~~L---------~~Y~WPGNVRELenvIeRA  415 (510)
T PRK05022        391 DAQAAL---------LQYDWPGNVRELEHVISRA  415 (510)
T ss_pred             HHHHHH---------HCCCCCCHHHHHHHHHHHH
T ss_conf             999999---------7099997899999999999


No 265
>TIGR00678 holB DNA polymerase III, delta' subunit; InterPro: IPR004622   DNA-directed DNA polymerase (2.7.7.7 from EC) catalyzes DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. DNA polymerase III is a complex, multi-chain enzyme responsible for most of the replicative synthesis in bacteria. The enzyme also has 3' to 5' exonuclease activity. It has a core composed of alpha, epsilon and theta chains, that associate with a tau subunit which allows the core dimerisation to form the PolIII' complex. PolIII' associates with the gamma complex (gamma, delta, delta', psi and chi chains) and with the beta chain. This domain is the N-terminal half of the delta' subunit of DNA polymerase III. Delta' is homologous to the gamma and tau subunits, which form an outgroup for phylogenetic comparison. The gamma/tau branch of the tree is much more tightly conserved than the delta' branch, and some members of that branch score more highly against this model than some proteins classified as delta'. The noise cut-off is set to detect weakly scoring delta' subunits rather than to exclude gamma/tau subunits.; GO: 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication.
Probab=98.08  E-value=4.1e-05  Score=60.48  Aligned_cols=143  Identities=26%  Similarity=0.407  Sum_probs=97.4

Q ss_pred             CCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCC-CCCCCHH-HCCCCHHCCC----CCCC---------
Q ss_conf             65128987267861688999999987237765300224477403-4532013-0477112035----6677---------
Q gi|254780877|r  596 RPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYME-KHSVSRL-IGSPPGYVGY----EEGG---------  660 (853)
Q Consensus       596 ~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e-~~~vs~L-iGappGYvG~----~~gg---------  660 (853)
                      |---.+||.||.|+||..+|..+|+.||-....     -.+.+. -++.-++ -|+=|.|.=.    ..++         
T Consensus        12 r~~HA~LF~G~~G~Gk~~~A~~~A~~l~C~~~~-----~~~~Cg~C~~C~~~~~G~HPD~~~~~P~~~~~~~~~de~~~~   86 (216)
T TIGR00678        12 RLAHAYLFTGPEGVGKELLALALAKALLCEPRG-----GGEPCGECHSCRLIEAGNHPDLHRLEPEGQSKSLTADEAAEG   86 (216)
T ss_pred             CCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCC-----CCCCCCCCHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHHHH
T ss_conf             788612544488874899999999998077857-----788888588899987079982378742347777776458976


Q ss_pred             ------------CCCHHHHC-----------CCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEEC
Q ss_conf             ------------42113221-----------5641022021441498999999998404578879997783033155954
Q gi|254780877|r  661 ------------ALTEAVRR-----------HPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMT  717 (853)
Q Consensus       661 ------------~Lte~vr~-----------~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~T  717 (853)
                                  +-++.||.           .+|=||++|..|+.++.==|.||-.|+|=-           .+|+|||.
T Consensus        87 ~~g~a~~~~~~~Ik~dq~R~l~~~~~~~~~~~~~rVviI~~Ae~mn~~AANALLKtLEEPp-----------~~t~fiL~  155 (216)
T TIGR00678        87 EEGSAKRRALPQIKVDQVRELVEFLSLTPQESGRRVVIIEDAERMNEAAANALLKTLEEPP-----------PNTLFILI  155 (216)
T ss_pred             HCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCHHHCCHHHHHHHHHHEECCC-----------CCEEEEEE
T ss_conf             2564211367878727899999998606421475179976732325898986510101279-----------87079885


Q ss_pred             CCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHH
Q ss_conf             85126876403267999999999862885772666815862889989999999999
Q gi|254780877|r  718 SNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQ  773 (853)
Q Consensus       718 sN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~  773 (853)
                      |+--      +++.            .-|=...|. .++.|.|++.+++.+++..+
T Consensus       156 ~~~~------DP~~------------lLpTI~SRC-q~~~f~~l~~~~~~~~L~~~  192 (216)
T TIGR00678       156 THSP------DPER------------LLPTIRSRC-QVLPFPPLSEEALLQWLIEQ  192 (216)
T ss_pred             CCCC------CHHH------------HCCCCCCCE-EEEEECCCCHHHHHHHHHHC
T ss_conf             0888------8433------------221110320-15862599889999999970


No 266
>PRK06526 transposase; Provisional
Probab=98.07  E-value=1.2e-05  Score=64.86  Aligned_cols=103  Identities=20%  Similarity=0.349  Sum_probs=69.6

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHH-CCCCCEEEEHH
Q ss_conf             89872678616889999999872377653002244774034532013047711203566774211322-15641022021
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVR-RHPYQVVLFDE  678 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr-~~P~sVil~DE  678 (853)
                      ..+|+||||||||.||.+|+.......-...-+.|++..+.-..++--|            .+...++ -..+.++.+||
T Consensus       100 Nvil~G~~GtGKThLA~Alg~~A~~~G~~v~f~~~~~L~~~L~~a~~~g------------~~~~~~~~l~~~dLLIiDe  167 (254)
T PRK06526        100 NVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAAQWVARLAAAHHAG------------RLQDELVKLGRIPLLIVDE  167 (254)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEHHHHHHHHHHHHHCC------------CHHHHHHHHHCCCEEEEEC
T ss_conf             7899899998689999999999998699679987799999999988558------------0999999851368776502


Q ss_pred             HHHC--CHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHH
Q ss_conf             4414--9899999999840457887999778303315595485126876
Q gi|254780877|r  679 IEKA--HSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYL  725 (853)
Q Consensus       679 iEKa--h~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~  725 (853)
                      +=-.  .+.--++|+|++++=+     ++      .=+|+|||++...-
T Consensus       168 ~g~~~~~~~~a~~lf~li~~Ry-----e~------~S~IiTSn~~~~~W  205 (254)
T PRK06526        168 VGYIPFEAEAANLFFQLVSSRY-----ER------ASLIVTSNKPFGRW  205 (254)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHH-----CC------CCEEEECCCCHHHH
T ss_conf             1364478899999999999997-----45------88676658986688


No 267
>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]
Probab=98.07  E-value=0.00021  Score=54.74  Aligned_cols=214  Identities=23%  Similarity=0.362  Sum_probs=139.9

Q ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCC
Q ss_conf             59489999999999874101236566512898726786168899999998723776530022447740345320130477
Q gi|254780877|r  571 IGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSP  650 (853)
Q Consensus       571 ~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGap  650 (853)
                      ++++-.+......+.+.    ...+-|+   |..|-||+||-.+|+++-+.-- .+..++-+|+.-+.+.+.-|-|+|--
T Consensus       316 ~~~d~s~a~l~rk~~rv----~~~~~pv---ll~GEtGtGKe~laraiH~~s~-~~gpfvAvNCaAip~~liesELFGy~  387 (606)
T COG3284         316 PLLDPSRATLLRKAERV----AATDLPV---LLQGETGTGKEVLARAIHQNSE-AAGPFVAVNCAAIPEALIESELFGYV  387 (606)
T ss_pred             CCCCHHHHHHHHHHHHH----HHCCCCE---EECCCCCHHHHHHHHHHHHCCC-CCCCEEEEEECCCHHHHHHHHHHCCC
T ss_conf             45578899999999887----6247876---8538765568999999985365-56983799850344776467774457


Q ss_pred             CHH-CC-CCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCC--CEEECCCCEEEECCCHHHHHHH
Q ss_conf             112-03-5667742113221564102202144149899999999840457887999--7783033155954851268764
Q gi|254780877|r  651 PGY-VG-YEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQG--RTVDFRNTLIIMTSNLGAEYLI  726 (853)
Q Consensus       651 pGY-vG-~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G--~~v~f~n~iii~TsN~G~~~~~  726 (853)
                      ||= -| |-+| . +..+.+-+-.-+++|||.-..-..+.-||+||.||.+|--.|  .+||++   ||.+|+--=..+.
T Consensus       388 ~GafTga~~kG-~-~g~~~~A~gGtlFldeIgd~p~~~Qs~LLrVl~e~~v~p~g~~~~~vdir---vi~ath~dl~~lv  462 (606)
T COG3284         388 AGAFTGARRKG-Y-KGKLEQADGGTLFLDEIGDMPLALQSRLLRVLQEGVVTPLGGTRIKVDIR---VIAATHRDLAQLV  462 (606)
T ss_pred             CCCCCCCHHCC-C-CCCCEECCCCCCHHHHHHHCHHHHHHHHHHHHHHCCEECCCCCCEEEEEE---EEECCCCCHHHHH
T ss_conf             65643300106-6-55410157876089876114189999999998618252358852157799---9834675799998


Q ss_pred             CCHHHHHHHHHHHHHHHCCHHHHCCCCC-EEECCCCCHHH--HHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCC
Q ss_conf             0326799999999986288577266681-58628899899--99999999999999998579899998899999997089
Q gi|254780877|r  727 EDGDSVHDKVMGIVRSAFKPEFLNRLDE-IILFEKLRKED--MAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGY  803 (853)
Q Consensus       727 ~~~~~~~~~~~~~l~~~f~peflnRid~-iv~F~~l~~~~--~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~  803 (853)
                      +             ...|+-.+.-|+.. +|..-||.+..  ..-+..+     ..+  +..-.+.+++.+...|..  |
T Consensus       463 ~-------------~g~fredLyyrL~~~~i~lP~lr~R~d~~~~l~~~-----~~~--~~~~~~~l~~~~~~~l~~--~  520 (606)
T COG3284         463 E-------------QGRFREDLYYRLNAFVITLPPLRERSDRIPLLDRI-----LKR--ENDWRLQLDDDALARLLA--Y  520 (606)
T ss_pred             H-------------CCCCHHHHHHHHCCEEECCCCHHCCCCCHHHHHHH-----HHH--CCCCCCCCCHHHHHHHHH--C
T ss_conf             7-------------59714878887447155068611046657899999-----987--268775689999999985--7


Q ss_pred             CCCCCCHHHHHHHHHH
Q ss_conf             8220621579999987
Q gi|254780877|r  804 DPSYGARPLKRVIQRY  819 (853)
Q Consensus       804 ~~~~GaR~l~r~i~~~  819 (853)
                      .=--.-|.|..+|+..
T Consensus       521 ~WPGNirel~~v~~~~  536 (606)
T COG3284         521 RWPGNIRELDNVIERL  536 (606)
T ss_pred             CCCCCHHHHHHHHHHH
T ss_conf             8998289999999999


No 268
>KOG0743 consensus
Probab=98.06  E-value=4e-05  Score=60.61  Aligned_cols=172  Identities=19%  Similarity=0.314  Sum_probs=101.6

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHH
Q ss_conf             89872678616889999999872377653002244774034532013047711203566774211322156410220214
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEI  679 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEi  679 (853)
                      -+|+-||+|+|||.+--|+|.+|   +=.+.-++.++-..-...-+|+=+                  ..+.||||++.|
T Consensus       237 GYLLYGPPGTGKSS~IaAmAn~L---~ydIydLeLt~v~~n~dLr~LL~~------------------t~~kSIivIEDI  295 (457)
T KOG0743         237 GYLLYGPPGTGKSSFIAAMANYL---NYDIYDLELTEVKLDSDLRHLLLA------------------TPNKSILLIEDI  295 (457)
T ss_pred             CCEEECCCCCCHHHHHHHHHHHC---CCCEEEEEECCCCCCHHHHHHHHH------------------CCCCCEEEEEEC
T ss_conf             41204799998889999997205---873677440023683899999972------------------899718999612


Q ss_pred             HHCC----------HHH--------HHHHHHHHHCCEEECCCCCEEEC-CCCEEEECCCHHHHHHHCCHHHHHHHHHHHH
Q ss_conf             4149----------899--------99999984045788799977830-3315595485126876403267999999999
Q gi|254780877|r  680 EKAH----------SDV--------HNILLQVLDDGRLTDSQGRTVDF-RNTLIIMTSNLGAEYLIEDGDSVHDKVMGIV  740 (853)
Q Consensus       680 EKah----------~~v--------~~~llqild~G~ltd~~G~~v~f-~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l  740 (853)
                      +-|-          ++-        +.=||.-+| |-       --+| ..-|||||+|-        .           
T Consensus       296 Dcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiD-Gl-------wSscg~ERIivFTTNh--------~-----------  348 (457)
T KOG0743         296 DCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLD-GL-------WSSCGDERIIVFTTNH--------K-----------  348 (457)
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCEEEHHHHHHHHC-CC-------CCCCCCCEEEEEECCC--------H-----------
T ss_conf             4323044345556645467766066477566413-43-------0048873499994687--------1-----------


Q ss_pred             HHHCCHHHHC--CCCCEEECCCCCHHHHHHHHHHHHHH-----HHHHHHHCCCEEEECHH-HHHHHHHCCCCCCCCCHHH
Q ss_conf             8628857726--66815862889989999999999999-----99999857989999889-9999997089822062157
Q gi|254780877|r  741 RSAFKPEFLN--RLDEIILFEKLRKEDMAKIVRIQLGR-----VLSLIKERNISMDFDDQ-VIDWLSCRGYDPSYGARPL  812 (853)
Q Consensus       741 ~~~f~pefln--Rid~iv~F~~l~~~~~~~i~~~~l~~-----l~~~l~~~~i~l~~~~~-~~~~l~~~~~~~~~GaR~l  812 (853)
                       ..+-|.++-  |+|--|.+.--+...++..+.++|.-     +...++.---..+++|+ +-+.+....-|+.--.+.|
T Consensus       349 -EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~nYL~~~~~h~L~~eie~l~~~~~~tPA~V~e~lm~~~~dad~~lk~L  427 (457)
T KOG0743         349 -EKLDPALLRPGRMDMHIYMGYCTFEAFKTLASNYLGIEEDHRLFDEIERLIEETEVTPAQVAEELMKNKNDADVALKGL  427 (457)
T ss_pred             -HHCCHHHCCCCCCEEEEECCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHH
T ss_conf             -0068866288752256672669879999999983389887306799998763374689999999863565388999999


Q ss_pred             HHHHHHHH
Q ss_conf             99999873
Q gi|254780877|r  813 KRVIQRYI  820 (853)
Q Consensus       813 ~r~i~~~i  820 (853)
                      .+.+++..
T Consensus       428 v~~l~~~~  435 (457)
T KOG0743         428 VEALESKK  435 (457)
T ss_pred             HHHHHHHH
T ss_conf             99987634


No 269
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=98.05  E-value=0.0008  Score=50.02  Aligned_cols=168  Identities=24%  Similarity=0.368  Sum_probs=70.6

Q ss_pred             HCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCC
Q ss_conf             45948999999999987410123656651289872678616889999999872377653002244774034532013047
Q gi|254780877|r  570 VIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGS  649 (853)
Q Consensus       570 v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGa  649 (853)
                      ++|-|.--+.+.+.-.+--.|+     |--..|+-|.-|+||+.|.|++-..+.+..-.+|-++-++.         ..=
T Consensus        62 l~Gvd~qk~~L~~NT~~F~~G~-----pANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLVEV~k~dl---------~~L  127 (287)
T COG2607          62 LVGVDRQKEALVRNTEQFAEGL-----PANNVLLWGARGTGKSSLVKALLNEYADEGLRLVEVDKEDL---------ATL  127 (287)
T ss_pred             HHCCHHHHHHHHHHHHHHHCCC-----CCCCEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEECHHHH---------HHH
T ss_conf             7273189999999899997288-----65236776377777479999999998741770799768888---------657


Q ss_pred             CCHHCCCCCCCCCCHHHHCCCCCEEEE-HHHHHC-CHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHH---HHH
Q ss_conf             711203566774211322156410220-214414-989999999984045788799977830331559548512---687
Q gi|254780877|r  650 PPGYVGYEEGGALTEAVRRHPYQVVLF-DEIEKA-HSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLG---AEY  724 (853)
Q Consensus       650 ppGYvG~~~gg~Lte~vr~~P~sVil~-DEiEKa-h~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G---~~~  724 (853)
                      |          .|.+.+|..|.-+|+| |..-=- +.+-+..|=-+||-|.       .--..|.+|..|||=-   .+.
T Consensus       128 p----------~l~~~Lr~~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG~v-------e~rP~NVl~YATSNRRHLl~e~  190 (287)
T COG2607         128 P----------DLVELLRARPEKFILFCDDLSFEEGDDAYKALKSALEGGV-------EGRPANVLFYATSNRRHLLPED  190 (287)
T ss_pred             H----------HHHHHHHCCCCEEEEEECCCCCCCCCHHHHHHHHHHCCCC-------CCCCCEEEEEEECCCCCCCCHH
T ss_conf             9----------9999996188608999567777778138999999853885-------5688707999715875336276


Q ss_pred             HHCCHH-----HHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHH
Q ss_conf             640326-----79999999998628857726668158628899899999999999
Q gi|254780877|r  725 LIEDGD-----SVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQL  774 (853)
Q Consensus       725 ~~~~~~-----~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l  774 (853)
                      ..++..     +..+.+.+.+      -|=.|+.--..|.|-+.++..+|++...
T Consensus       191 ~~dn~~~~~eih~~eaveEKl------SlSDRFGLwL~F~~~~Q~~YL~~V~~~a  239 (287)
T COG2607         191 MKDNEGSTGEIHPSEAVEEKL------SLSDRFGLWLSFYPCDQDEYLKIVDHYA  239 (287)
T ss_pred             HHHCCCCCCCCCHHHHHHHHH------CHHHHCCEEECCCCCCHHHHHHHHHHHH
T ss_conf             642778402358067787762------5464234045036878899999999999


No 270
>PRK08939 primosomal protein DnaI; Reviewed
Probab=98.05  E-value=5.8e-05  Score=59.30  Aligned_cols=127  Identities=24%  Similarity=0.367  Sum_probs=77.7

Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHC
Q ss_conf             99999999998741012365665128987267861688999999987237765300224477403453201304771120
Q gi|254780877|r  575 AAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYV  654 (853)
Q Consensus       575 ~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYv  654 (853)
                      .|+..+.+-+....     ++...--+++.||.|||||.|+.++|..|-...-..+-+.|++|...-.-+  ++.     
T Consensus       139 ~a~~~a~~F~~~y~-----~~~~~kGlyl~G~~G~GKTyL~~aian~La~~g~~v~~v~~p~~~~~lK~s--~~d-----  206 (306)
T PRK08939        139 DALMAALDFLEAYK-----PGEKVKGLYLYGDFGVGKTYLLAAIANELAKKGVSSTLVHFPEFIRELKNA--ISD-----  206 (306)
T ss_pred             HHHHHHHHHHHHHC-----CCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEHHHHHHHHHHH--HCC-----
T ss_conf             99999999999737-----698887788989999989999999999999869929998759999999998--648-----


Q ss_pred             CCCCCCCCCHHHHCCCCCEEEEHHH--HHCCHHHHHHHHH-HHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHC
Q ss_conf             3566774211322156410220214--4149899999999-84045788799977830331559548512687640
Q gi|254780877|r  655 GYEEGGALTEAVRRHPYQVVLFDEI--EKAHSDVHNILLQ-VLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIE  727 (853)
Q Consensus       655 G~~~gg~Lte~vr~~P~sVil~DEi--EKah~~v~~~llq-ild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~  727 (853)
                        +.-..+.+++++-|  |++||+|  |...+=+-+-+|+ ||+ .|+..         +--.++|||+.-+.+..
T Consensus       207 --~s~~~~i~~~k~~~--vLiLDDiGaE~~t~W~rd~vl~~IL~-~Rm~~---------~lPTffTSN~~~~eLe~  268 (306)
T PRK08939        207 --GSVKEKIDAVKEAP--VLMLDDIGAEQMSSWVRDEVLGVILQ-YRMQE---------ELPTFFTSNFDFDELEH  268 (306)
T ss_pred             --CCHHHHHHHHHCCC--EEEEECCCCCCCCHHHHHHHHHHHHH-HHHHC---------CCCEEEECCCCHHHHHH
T ss_conf             --98899999984499--89984446542677789989999999-99974---------99979977999999999


No 271
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=98.05  E-value=0.0011  Score=48.82  Aligned_cols=193  Identities=17%  Similarity=0.239  Sum_probs=117.7

Q ss_pred             CCCCHHHHHHHHHHHHCCCCCCCE-EEECCCCCCHHHHHHHHHHHHHCCCCCHHHCC-CE--EEEEE----HHHHH-CCC
Q ss_conf             333357899999996336777866-89528874077799999998734899844457-43--78873----13542-174
Q gi|254780877|r  179 PVIGRDDEMRRAIQVLSRRTKNNP-VLIGDPGVGKTAIIEGLASRIINGDIPESLKG-KR--LMALD----MGALI-AGA  249 (853)
Q Consensus       179 PVIGRe~EI~~~~~iL~r~~k~n~-~lvGe~GvGKtaive~la~~i~~~~vp~~l~~-~~--i~~ld----~~~l~-ag~  249 (853)
                      -|||-+.-++.+.+.+...+=.+. ++.|++||||++++-.+|+.+.....+..... ..  -+.++    +...| +|+
T Consensus        18 ~liGqe~~~~~L~~a~~~grl~HA~Lf~Gp~GiGK~tlA~~~A~~ll~~~~~~~~~~~~~~~~l~~~~~~p~~r~i~~~~   97 (363)
T PRK07471         18 ALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDAVFPPPASLAVDPDHPVARRIAAGA   97 (363)
T ss_pred             CCCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHCCCCCCCHHHHHHCCC
T ss_conf             31681999999999998599764587679998188999999999985799977777678705312587772899995269


Q ss_pred             ----------------CCCCHH-HHHHHHHHHHHHHC---CCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC---C
Q ss_conf             ----------------542024-54589999998607---997699963627730266655433588887653124---6
Q gi|254780877|r  250 ----------------KFRGEF-EERLKSLLCEIRSE---DGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR---G  306 (853)
Q Consensus       250 ----------------~~rg~~-e~r~~~i~~~~~~~---~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar---G  306 (853)
                                      +.+++. =+-+..+...+.-+   .+.-|..||+.|.+        ...++|-|--.|..   .
T Consensus        98 hpdl~~i~r~~d~k~~~~~~~I~Vd~iR~l~~~~~~~p~~g~~kV~IId~ad~m--------n~~aaNALLK~LEEPP~~  169 (363)
T PRK07471         98 HGGLLTLERSWNEKGKRLRTVITVDEVRETIGFFGLTAAEGGWRVVIVDTADEM--------NANAANALLKVLEEPPAR  169 (363)
T ss_pred             CCCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCEEEEEECHHHH--------CHHHHHHHHHHHCCCCCC
T ss_conf             998466762001133321244539999999999724852489669998687873--------889999999972158988


Q ss_pred             CEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCC
Q ss_conf             60489974489999973001113202311111577767899999997898654149610158999998633320245767
Q gi|254780877|r  307 ELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFL  386 (853)
Q Consensus       307 ~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~l  386 (853)
                      .+=+..++.++---      +.+-.|-|++.....+.++....|       ...+++.++++.+.+++.+|.==      
T Consensus       170 t~fiLit~~~~~ll------pTI~SRCq~~~~~~l~~~~~~~~L-------~~~~~~~~~~~~~~~la~~a~Gs------  230 (363)
T PRK07471        170 SLLLLVSHAPARLL------PTIRSRCRKLRLRPLAPEDVIAAL-------AEAGGPALDDAELAALAALAEGS------  230 (363)
T ss_pred             EEEEEEECCHHHCH------HHHHHHCCCCCCCCCCHHHHHHHH-------HHHCCCCCCHHHHHHHHHHCCCC------
T ss_conf             38998639977777------999973524258995999999999-------98438999989999999975899------


Q ss_pred             HHHHHHHHHHHH
Q ss_conf             477899999999
Q gi|254780877|r  387 PDKAIDLMDEAS  398 (853)
Q Consensus       387 PDKAIDllDeA~  398 (853)
                      |-+|+.|++.-+
T Consensus       231 ~~~Al~l~~~~~  242 (363)
T PRK07471        231 VGRALRLAGGDG  242 (363)
T ss_pred             HHHHHHHHCCCH
T ss_conf             999998747985


No 272
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=98.05  E-value=0.00019  Score=55.12  Aligned_cols=124  Identities=28%  Similarity=0.375  Sum_probs=79.8

Q ss_pred             HHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCC----------CCCHHHHC
Q ss_conf             74594899999999998741012365665128987267861688999999987237765300----------22447740
Q gi|254780877|r  569 SVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMI----------RIDMSEYM  638 (853)
Q Consensus       569 ~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~li----------r~dMsey~  638 (853)
                      .++|+++++..+...+....      +-|- .+||.||+|+|||.+|.+||+.||+....-.          .+.+..+.
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~------~~~h-alL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~   74 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESG------RLPH-ALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHP   74 (325)
T ss_pred             CCCCCHHHHHHHHHHHHHCC------CCCC-CEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHCCCCCC
T ss_conf             64332358999999998658------8876-1003799999789999999999658664334552002244432025688


Q ss_pred             CCCCCCHHHCCCCHHCCCCCCC--CCCHHHH-----------CCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCC
Q ss_conf             3453201304771120356677--4211322-----------15641022021441498999999998404578879997
Q gi|254780877|r  639 EKHSVSRLIGSPPGYVGYEEGG--ALTEAVR-----------RHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGR  705 (853)
Q Consensus       639 e~~~vs~LiGappGYvG~~~gg--~Lte~vr-----------~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~  705 (853)
                         .+.-|.-+       ++.+  ...+.||           ..++-||++||+|+-+++..|.|+-.+++         
T Consensus        75 ---d~lel~~s-------~~~~~~i~~~~vr~~~~~~~~~~~~~~~kviiidead~mt~~A~nallk~lEe---------  135 (325)
T COG0470          75 ---DFLELNPS-------DLRKIDIIVEQVRELAEFLSESPLEGGYKVVIIDEADKLTEDAANALLKTLEE---------  135 (325)
T ss_pred             ---CEEEECCC-------CCCCCCCHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHCCC---------
T ss_conf             ---65997732-------13333006999999998604465667726999732032698888767543324---------


Q ss_pred             EEECCCCEEEECCCH
Q ss_conf             783033155954851
Q gi|254780877|r  706 TVDFRNTLIIMTSNL  720 (853)
Q Consensus       706 ~v~f~n~iii~TsN~  720 (853)
                        .-.||.|||++|-
T Consensus       136 --p~~~~~~il~~n~  148 (325)
T COG0470         136 --PPKNTRFILITND  148 (325)
T ss_pred             --CCCCEEEEEEECC
T ss_conf             --8887169997498


No 273
>KOG0734 consensus
Probab=98.04  E-value=5.2e-05  Score=59.67  Aligned_cols=126  Identities=26%  Similarity=0.402  Sum_probs=67.8

Q ss_pred             HHHCCHHHHHHHHHHHHH-------HHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCC
Q ss_conf             674594899999999998-------7410123656651289872678616889999999872377653002244774034
Q gi|254780877|r  568 KSVIGQSAAVESVSNALR-------RFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEK  640 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~-------~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~  640 (853)
                      +-|-|-|+|-..+-..+-       -.+.|=+   =|-|+ |++||+|+|||-||+++|-.-   .-.+..---|||-| 
T Consensus       304 ~dVkG~DEAK~ELeEiVefLkdP~kftrLGGK---LPKGV-LLvGPPGTGKTlLARAvAGEA---~VPFF~~sGSEFdE-  375 (752)
T KOG0734         304 EDVKGVDEAKQELEEIVEFLKDPTKFTRLGGK---LPKGV-LLVGPPGTGKTLLARAVAGEA---GVPFFYASGSEFDE-  375 (752)
T ss_pred             CCCCCHHHHHHHHHHHHHHHCCCHHHHHCCCC---CCCCE-EEECCCCCCHHHHHHHHHCCC---CCCEEECCCCCHHH-
T ss_conf             02147278999999999986090876431475---88853-876899975569999860556---89747416620445-


Q ss_pred             CCCCHHHCCCCHHCCCCCC--CCCCHHHHCCCCCEEEEHHHHHC----CHH----HHHHHHHHHH--CCEEECCCCCEEE
Q ss_conf             5320130477112035667--74211322156410220214414----989----9999999840--4578879997783
Q gi|254780877|r  641 HSVSRLIGSPPGYVGYEEG--GALTEAVRRHPYQVVLFDEIEKA----HSD----VHNILLQVLD--DGRLTDSQGRTVD  708 (853)
Q Consensus       641 ~~vs~LiGappGYvG~~~g--g~Lte~vr~~P~sVil~DEiEKa----h~~----v~~~llqild--~G~ltd~~G~~v~  708 (853)
                                 -|||-+.-  --|-.+-|.+--|||+.|||+--    .|.    --+.+=|+|-  ||. +-|.|    
T Consensus       376 -----------m~VGvGArRVRdLF~aAk~~APcIIFIDEiDavG~kR~~~~~~y~kqTlNQLLvEmDGF-~qNeG----  439 (752)
T KOG0734         376 -----------MFVGVGARRVRDLFAAAKARAPCIIFIDEIDAVGGKRNPSDQHYAKQTLNQLLVEMDGF-KQNEG----  439 (752)
T ss_pred             -----------HHHCCCHHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCHHHHHHHHHHHHHHHHCCC-CCCCC----
T ss_conf             -----------42201489999999998734985999720022056678627789998999999984286-76886----


Q ss_pred             CCCCEEEECCCH
Q ss_conf             033155954851
Q gi|254780877|r  709 FRNTLIIMTSNL  720 (853)
Q Consensus       709 f~n~iii~TsN~  720 (853)
                         .|||--+|.
T Consensus       440 ---iIvigATNf  448 (752)
T KOG0734         440 ---IIVIGATNF  448 (752)
T ss_pred             ---EEEEECCCC
T ss_conf             ---699951687


No 274
>TIGR01818 ntrC nitrogen regulation protein NR(I); InterPro: IPR010114   This entry represents Nitrogen regulatory protein C (NtrC), which is a bacterial enhancer-binding protein that activates the transcription of genes encoding enzymes required for nitrogen metabolism. It is phosphorylated by NtrB and interacts with sigma-54. One of the best studied examples is its activation of the gene glnA, which encodes the enzyme glutamine synthetase.. NtrC is composed of three domains , . The 124 residue N-terminal domain is homologous to receiver domains of other response regulator proteins in two-component signal transduction systems , . The 240 residue central domain of NtrC is homologous to a domain found in all activators of the sigma-54 RNA polymerase holoenzyme , . The C-terminal domain has been indicated to contain the determinants necessary for both DNA-binding and dimerization of full-length NtrC.; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0009399 nitrogen fixation, 0050906 detection of stimulus during sensory perception.
Probab=98.04  E-value=0.0012  Score=48.47  Aligned_cols=233  Identities=27%  Similarity=0.420  Sum_probs=155.4

Q ss_pred             HHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHH----HHCCCC
Q ss_conf             7767459489999999999874101236566512898726786168899999998723776530022447----740345
Q gi|254780877|r  566 ISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMS----EYMEKH  641 (853)
Q Consensus       566 l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMs----ey~e~~  641 (853)
                      =...+||.--|...|-++|-|.-      +.+| +.|-.|=||+||=-.|++|-++=-=....||-+||.    |..|  
T Consensus       133 ~~~~liG~aPAMQevfR~igRL~------~~~l-~VlI~GESGTGKELVA~ALH~~s~R~~~PFiAlNmAAIP~~L~E--  203 (471)
T TIGR01818       133 DSAELIGEAPAMQEVFRAIGRLS------RSDL-SVLINGESGTGKELVARALHRHSPRARGPFIALNMAAIPKDLIE--  203 (471)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHC------CCCC-EEEEECCCCCCHHHHHHHHHCCCCCCCCCCEEECHHHCCHHHHH--
T ss_conf             56212368851689999999751------6960-58885575775899999840137555777327302322246655--


Q ss_pred             CCCHHHCCCCHHCCCCCCCCCCHHHHCC-------CCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEE
Q ss_conf             3201304771120356677421132215-------641022021441498999999998404578879997783033155
Q gi|254780877|r  642 SVSRLIGSPPGYVGYEEGGALTEAVRRH-------PYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLI  714 (853)
Q Consensus       642 ~vs~LiGappGYvG~~~gg~Lte~vr~~-------P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~ii  714 (853)
                        |-|+|       |+. |--|.|..++       --.-++||||=-..-+++.=||.||.+|..+-=.|++.==.+.=|
T Consensus       204 --SELFG-------HEk-GAFTGA~~~~~GRFEQA~GGTLFLDEIGDMPl~~QTRLLRVL~~G~f~rVGG~~p~k~DVRi  273 (471)
T TIGR01818       204 --SELFG-------HEK-GAFTGANTRRQGRFEQADGGTLFLDEIGDMPLDLQTRLLRVLADGEFYRVGGRTPIKVDVRI  273 (471)
T ss_pred             --HHHCC-------CCC-CCCCCCCCCCCCCEEECCCCCEECCCCCCCCHHHHHHHHHHHCCCCEEEECCCEEEEEEEEE
T ss_conf             --43214-------565-30001025567772534888210102167877687779886407865772682024550466


Q ss_pred             EECCCHHHHHHHCCHHHHHHHHHHHH-HHHCCHHHHCCCCCEEECC--CCC--HHHHHHHHHHHHHHHHHHHHHCCCEE-
Q ss_conf             95485126876403267999999999-8628857726668158628--899--89999999999999999998579899-
Q gi|254780877|r  715 IMTSNLGAEYLIEDGDSVHDKVMGIV-RSAFKPEFLNRLDEIILFE--KLR--KEDMAKIVRIQLGRVLSLIKERNISM-  788 (853)
Q Consensus       715 i~TsN~G~~~~~~~~~~~~~~~~~~l-~~~f~peflnRid~iv~F~--~l~--~~~~~~i~~~~l~~l~~~l~~~~i~l-  788 (853)
                      |.-||              +.+...+ .+.||-+++-|++ ||..+  ||-  .+|+.++++.+|..-.+.+   ++.. 
T Consensus       274 ~AATh--------------q~Le~lv~~G~FReDLfhRL~-Vi~i~lPpLrER~eDi~~L~rhFL~~a~~~l---~~~~k  335 (471)
T TIGR01818       274 VAATH--------------QDLEALVRQGKFREDLFHRLN-VIRIHLPPLRERREDIPRLARHFLALAAKEL---DVEPK  335 (471)
T ss_pred             EECCC--------------HHHHHHHHCCCCHHHHHHHHC-EEEECCCCCCCHHHHHHHHHHHHHHHHHHHC---CCCCC
T ss_conf             73366--------------568999655881355555123-3462168721226689999999999988742---86511


Q ss_pred             EECHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEECCEE
Q ss_conf             998899999997089822062157999998733499999970868897889999989948
Q gi|254780877|r  789 DFDDQVIDWLSCRGYDPSYGARPLKRVIQRYIQNPLAERVLSQTISDGDSIEVFVDDDNL  848 (853)
Q Consensus       789 ~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~~~la~~il~~~~~~g~~i~i~~~~~~~  848 (853)
                      .+++.+.++|-+  |+=--..|.|......         |-  -+-+++.|.++.-+.+|
T Consensus       336 ~L~~~~~~~L~~--~~WPGNVR~LEN~cR~---------l~--~la~~~~v~~~d~~~eL  382 (471)
T TIGR01818       336 LLSPEALEALKR--YDWPGNVRELENVCRR---------LT--VLASGDEVLVSDLPAEL  382 (471)
T ss_pred             CCCHHHHHHHHH--CCCCCCHHHHHHHHHH---------HH--HHCCCCEEEEEECCHHH
T ss_conf             348899999972--5889852457789999---------98--73467646777757655


No 275
>KOG0739 consensus
Probab=98.03  E-value=9.8e-05  Score=57.42  Aligned_cols=129  Identities=25%  Similarity=0.433  Sum_probs=75.9

Q ss_pred             HCCHHHHHHHHHHHHHHH--HCC-CCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHH
Q ss_conf             459489999999999874--101-23656651289872678616889999999872377653002244774034532013
Q gi|254780877|r  570 VIGQSAAVESVSNALRRF--RAG-LQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRL  646 (853)
Q Consensus       570 v~gq~~ai~~v~~~~~~~--~~g-l~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~L  646 (853)
                      |-|-+.|-+++-.++.+.  .-. +...++|---+|+.||+|+||++|||++|..-   ..-+..+--|+.     ||+-
T Consensus       135 VAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEA---nSTFFSvSSSDL-----vSKW  206 (439)
T KOG0739         135 VAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEA---NSTFFSVSSSDL-----VSKW  206 (439)
T ss_pred             HCCCHHHHHHHHHHEEECCCCHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHHC---CCCEEEEEHHHH-----HHHH
T ss_conf             01405689998754350002535415887754257886799975779999987414---770687301788-----9987


Q ss_pred             HCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHC-----------CHHHH-HHHHHHHHCCEEECCCCCEEECCCCEE
Q ss_conf             047711203566774211322156410220214414-----------98999-999998404578879997783033155
Q gi|254780877|r  647 IGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKA-----------HSDVH-NILLQVLDDGRLTDSQGRTVDFRNTLI  714 (853)
Q Consensus       647 iGappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKa-----------h~~v~-~~llqild~G~ltd~~G~~v~f~n~ii  714 (853)
                      .|-.--.|     -.|-|.-|.+--|+|+.|||+-.           ...+- .+|.|+-  |.=.|+.|       .++
T Consensus       207 mGESEkLV-----knLFemARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMq--GVG~d~~g-------vLV  272 (439)
T KOG0739         207 MGESEKLV-----KNLFEMARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQ--GVGNDNDG-------VLV  272 (439)
T ss_pred             HCCHHHHH-----HHHHHHHHHCCCCEEEEEHHHHHCCCCCCCCHHHHHHHHHHHHHHHH--CCCCCCCC-------EEE
T ss_conf             32179999-----99999987349947986344443268877711777777778887640--66658886-------489


Q ss_pred             EECCCH
Q ss_conf             954851
Q gi|254780877|r  715 IMTSNL  720 (853)
Q Consensus       715 i~TsN~  720 (853)
                      +-.+|+
T Consensus       273 LgATNi  278 (439)
T KOG0739         273 LGATNI  278 (439)
T ss_pred             EECCCC
T ss_conf             723788


No 276
>pfam01695 IstB IstB-like ATP binding protein. This protein contains an ATP/GTP binding P-loop motif. It is found associated with IS21 family insertion sequences. The function of this protein is unknown, but it may perform a transposase function.
Probab=98.02  E-value=1.6e-05  Score=63.83  Aligned_cols=104  Identities=26%  Similarity=0.409  Sum_probs=65.0

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHC-CCCCEEEEHH
Q ss_conf             898726786168899999998723776530022447740345320130477112035667742113221-5641022021
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRR-HPYQVVLFDE  678 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~-~P~sVil~DE  678 (853)
                      +++|.||||||||.||.+++..+.....+..-+.++++.+.-..++--|            .+.+.+++ .-..|+++||
T Consensus        49 Nlll~G~~GtGKThLA~Ai~~~~~~~g~~v~f~~~~~L~~~l~~~~~~~------------~~~~~l~~~~~~dlLIiDD  116 (178)
T pfam01695        49 NLLLLGPPGVGKTHLACALGHQACRAGYSVLFTRTPDLVEQLKRARGDG------------RLARTLQRLAKADLLILDD  116 (178)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECHHHHHHHHHHHHCC------------CHHHHHHHHHCCCEEEEEH
T ss_conf             6899899998789999999999998698599996167999999875267------------4999999962589788720


Q ss_pred             HHHC--CHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHH
Q ss_conf             4414--98999999998404578879997783033155954851268764
Q gi|254780877|r  679 IEKA--HSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLI  726 (853)
Q Consensus       679 iEKa--h~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~  726 (853)
                      +=..  .+.-.+.|++++++-.     ++    + + +|.|||+.-....
T Consensus       117 lG~~~~s~~~~~~lf~li~~Ry-----e~----~-s-tIiTSN~~~~~W~  155 (178)
T pfam01695       117 IGYLPLSQEAAHLLFELISDRY-----ER----R-S-TILTSNLPFGEWH  155 (178)
T ss_pred             HCCCCCCHHHHHHHHHHHHHHH-----CC----C-C-EEEECCCCHHHHH
T ss_conf             0165689899999999999997-----56----8-8-6877689978998


No 277
>PRK09087 hypothetical protein; Validated
Probab=98.00  E-value=8.3e-05  Score=58.01  Aligned_cols=170  Identities=21%  Similarity=0.326  Sum_probs=95.5

Q ss_pred             CCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCE
Q ss_conf             56651289872678616889999999872377653002244774034532013047711203566774211322156410
Q gi|254780877|r  594 PQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQV  673 (853)
Q Consensus       594 ~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sV  673 (853)
                      |+-|...+.+.||+|+|||.|+.+.++.-    ++ +.++......                        +.........
T Consensus        40 ~~w~~~~~~L~Gp~gsGKTHL~~~~~~~~----~a-~~~~~~~~~~------------------------~~~~~~~~~~   90 (226)
T PRK09087         40 PNWPSPVVVLAGPVGSGKTHLASIWREKA----DA-LLVHPNEIGS------------------------DAANAAAERP   90 (226)
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHHHH----CC-EEECHHHCCH------------------------HHHHHHCCCC
T ss_conf             26777758998999998869999999980----99-6836687474------------------------6676532798


Q ss_pred             EEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCC
Q ss_conf             22021441498999999998404578879997783033155954851268764032679999999998628857726668
Q gi|254780877|r  674 VLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLD  753 (853)
Q Consensus       674 il~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid  753 (853)
                      +++|++++..-+ -..|+.++.          .+--+++-++|||+.....+.-                --|.+..|+-
T Consensus        91 ~~idd~d~~~~d-Ee~LFhl~N----------~~~~~~~~LLlts~~~p~~l~~----------------~L~DL~SRL~  143 (226)
T PRK09087         91 VLIEDIDAGGFD-ETGLFHLIN----------SVRQAGTSLLMTSRLWPSAWNV----------------KLPDLKSRLK  143 (226)
T ss_pred             EEEECCCCCCCC-HHHHHHHHH----------HHHHCCCEEEEECCCCHHHCCC----------------CCHHHHHHHH
T ss_conf             899748777747-899999999----------9985398799988989566676----------------2468999985


Q ss_pred             --CEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHH----------HHHH
Q ss_conf             --1586288998999999999999999999857989999889999999708982206215799999----------8733
Q gi|254780877|r  754 --EIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQ----------RYIQ  821 (853)
Q Consensus       754 --~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~----------~~i~  821 (853)
                        -++...+.+.+.+..++.+       +++.+|  +.+++.+++||+.+. ++.|  ..+..+++          +.|.
T Consensus       144 ~~~~~~I~~pdD~ll~~~L~k-------~~~~r~--l~l~~~v~~yll~r~-~Rs~--~~l~~~l~~LD~~SL~~kr~IT  211 (226)
T PRK09087        144 AATVVEIGEPDDALLSGVIFK-------LFADRQ--LYVEPHVVYYLVSRM-ERSL--FAAQTIVERLDRLALERKSRIT  211 (226)
T ss_pred             CCEEEEECCCCHHHHHHHHHH-------HHHHCC--CCCCHHHHHHHHHHC-CCCH--HHHHHHHHHHHHHHHHCCCCCC
T ss_conf             785798359998999999999-------987576--578888999999845-8899--9999999999999998189998


Q ss_pred             HHHHHHHHCC
Q ss_conf             4999999708
Q gi|254780877|r  822 NPLAERVLSQ  831 (853)
Q Consensus       822 ~~la~~il~~  831 (853)
                      -|+++.+|..
T Consensus       212 iplikevL~~  221 (226)
T PRK09087        212 RALAAEVLNE  221 (226)
T ss_pred             HHHHHHHHHH
T ss_conf             9999999985


No 278
>PRK09862 putative ATP-dependent protease; Provisional
Probab=97.99  E-value=0.0005  Score=51.69  Aligned_cols=114  Identities=25%  Similarity=0.449  Sum_probs=66.1

Q ss_pred             CCCCCCCHHHHHHHHHHHH-CCCCCCCEEEECCCCCCHHHHHHHHHH--------------HH--HCCCCC-HHHCCCEE
Q ss_conf             8533333578999999963-367778668952887407779999999--------------87--348998-44457437
Q gi|254780877|r  176 KLDPVIGRDDEMRRAIQVL-SRRTKNNPVLIGDPGVGKTAIIEGLAS--------------RI--INGDIP-ESLKGKRL  237 (853)
Q Consensus       176 kLDPVIGRe~EI~~~~~iL-~r~~k~n~~lvGe~GvGKtaive~la~--------------~i--~~~~vp-~~l~~~~i  237 (853)
                      .+.-|.|.+. .+|.++|= +..+  |.+|+|+||+|||-+.+.|.-              +|  +.|..+ ..+-..|=
T Consensus       189 D~~dv~Gq~~-akraleIAAAGgH--nlLl~GpPG~GKTMlA~rlp~ILPpLt~~e~lEv~~I~Svag~~~~~~~~~~rP  265 (506)
T PRK09862        189 DLSDVVGQEQ-GKRGLEITAAGGH--NLLLIGPPGTGKTMLASRINGLLPDLSNEEALESAAILSLVNAESVQKQWRQRP  265 (506)
T ss_pred             CHHHHCCCHH-HHHHHHHHHCCCC--CEEEECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCC
T ss_conf             7565369799-9999999744688--659876999459899977512389989899999999998718987777546685


Q ss_pred             -----EEEEHHHHHCCCCC--CCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEE
Q ss_conf             -----88731354217454--20245458999999860799769996362773026665543358888765312466048
Q gi|254780877|r  238 -----MALDMGALIAGAKF--RGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHC  310 (853)
Q Consensus       238 -----~~ld~~~l~ag~~~--rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~  310 (853)
                           .+....+|+.|-+.  .|           |+.-+. +=|||.||+.-.        +-++-+.|...|..|.+++
T Consensus       266 fR~PHHs~S~~aliGGG~~~~PG-----------EISLAH-~GVLFLDElpEF--------~r~vLe~LRqPLE~g~I~I  325 (506)
T PRK09862        266 FRSPHHSASLTAMVGGGAIPGPG-----------EISLAH-NGVLFLDELPEF--------ERRTLDALREPIESGQIHL  325 (506)
T ss_pred             EECCCCCCCHHHHHCCCCCCCCC-----------CEEECC-CCEEEECCHHCC--------CHHHHHHHHHHHCCCEEEE
T ss_conf             03788765476663799999997-----------222135-757884550006--------8889998776224775999


Q ss_pred             EE
Q ss_conf             99
Q gi|254780877|r  311 IG  312 (853)
Q Consensus       311 Ig  312 (853)
                      -=
T Consensus       326 sR  327 (506)
T PRK09862        326 SR  327 (506)
T ss_pred             EE
T ss_conf             96


No 279
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=97.99  E-value=0.001  Score=49.19  Aligned_cols=150  Identities=22%  Similarity=0.301  Sum_probs=91.2

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHH--CCC
Q ss_conf             489999999999874101236566512898726786168899999998723776530022447740345320130--477
Q gi|254780877|r  573 QSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLI--GSP  650 (853)
Q Consensus       573 q~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~Li--Gap  650 (853)
                      |..+.+.+..++...|.       |- .+||.||.|+||+.+|+.+|+.|+.....-.        ......+++  |+-
T Consensus         9 q~~~~~~L~~~i~~~rl-------~H-A~Lf~Gp~G~GK~~~A~~~A~~llc~~~~~~--------~~~~~~~~i~~g~H   72 (319)
T PRK08769          9 QQRAFDQTVAALDAGRL-------GH-GLLICGPEGLGKRAVALALAEHVLASGPDPA--------LAQRTRQLIAAGTH   72 (319)
T ss_pred             CHHHHHHHHHHHHCCCC-------CC-EEEEECCCCCCHHHHHHHHHHHHHCCCCCCC--------CCCHHHHHHHCCCC
T ss_conf             68999999999976994-------20-6875899987899999999999837997976--------54338899966899


Q ss_pred             CHHCCC----CCCC------CCCHHHH-------CCC----CCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEEC
Q ss_conf             112035----6677------4211322-------156----410220214414989999999984045788799977830
Q gi|254780877|r  651 PGYVGY----EEGG------ALTEAVR-------RHP----YQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDF  709 (853)
Q Consensus       651 pGYvG~----~~gg------~Lte~vr-------~~P----~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f  709 (853)
                      |-|.-.    ++.|      .-++.||       ..|    |-|+++|+.|+.+++-.|.||-.|+|=-           
T Consensus        73 PD~~~i~~~~~~~~~k~k~~I~IdqiR~l~~~~~~~p~~g~~KV~IId~Ad~mn~~AaNalLK~LEEPp-----------  141 (319)
T PRK08769         73 PDLQLVSFIPNRTGDKLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRSACNALLKTLEEPS-----------  141 (319)
T ss_pred             CCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCHHHCCHHHHHHHHHHHCCCC-----------
T ss_conf             896877534444543112348699999999996137202795699980667528999999999822799-----------


Q ss_pred             CCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHH
Q ss_conf             3315595485126876403267999999999862885772666815862889989999999
Q gi|254780877|r  710 RNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIV  770 (853)
Q Consensus       710 ~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~  770 (853)
                      .+++||++|+--..                    +.|-...|. ..+.|.+.+.++....+
T Consensus       142 ~~~~~iL~~~~~~~--------------------ll~TI~SRC-q~~~~~~p~~~~~~~~L  181 (319)
T PRK08769        142 PGRYLWLISAQPAR--------------------LPATIRSRC-QRLEFKLPPAHEALAWL  181 (319)
T ss_pred             CCEEEEEEECCHHH--------------------CCHHHHHCC-EEECCCCCCHHHHHHHH
T ss_conf             88489998699365--------------------824776485-01118996999999999


No 280
>TIGR00382 clpX ATP-dependent Clp protease, ATP-binding subunit ClpX; InterPro: IPR004487   ClpX is a member of the HSP (heat-shock protein) 100 family. Gel filtration and electron microscopy showed that ClpX subunits associate to form a six-membered ring that is stabilized by binding of ATP or nonhydrolyzable analogs of ATP . It functions as an ATP-depedent  molecular chaperone and is the regulatory subunit of the ClpXP protease .   ClpXP is involved in DNA damage repair, stationary-phase gene expression, and ssrA-mediated protein quality control. To date more than 50 proteins include transcription factors, metabolic enzymes, and proteins involved in the starvation and oxidative stress responses have been identified as substrates .    The N-terminal domain of ClpX is a C4-type zinc binding domain (ZBD) involved in substrate recognition. ZBD forms a very stable dimer that is essential for promoting the degradation of some typical ClpXP substrates such as lO and MuA .  ; GO: 0005515 protein binding, 0005524 ATP binding, 0016887 ATPase activity, 0015031 protein transport.
Probab=97.99  E-value=1.4e-05  Score=64.33  Aligned_cols=138  Identities=28%  Similarity=0.390  Sum_probs=85.5

Q ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHC
Q ss_conf             56998729853333357899999996336777866895288740777999999987348998444574378873135421
Q gi|254780877|r  168 LTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIA  247 (853)
Q Consensus       168 LTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~a  247 (853)
                      |+.+-+..+.|+= --.-|++.+-+|=.  .|+|.+||||.|-|||=+++-||+.+   +||-...+.+       + +.
T Consensus       124 l~~~~~n~~~d~~-D~nvelehleeVEL--~KSNILLiGPTGSGKTLLAqTLA~~L---~VPfAiADAT-------t-LT  189 (452)
T TIGR00382       124 LNLKEKNKKSDNG-DSNVELEHLEEVEL--SKSNILLIGPTGSGKTLLAQTLARIL---NVPFAIADAT-------T-LT  189 (452)
T ss_pred             HHHHHHCCCCCCC-CCHHHHHHHHHHHH--HCCCEEEECCCCCCHHHHHHHHHHHC---CCCEEECCHH-------H-HH
T ss_conf             5324304555884-00023544444333--00662454688852689999999873---8874211111-------0-20


Q ss_pred             CCCCCCH-HHHHHHHHHHHHH----HCCCCEEEEECCHHHHCCCCCCCC---CCCHH------HHHHHHHCCCCEEEEEE
Q ss_conf             7454202-4545899999986----079976999636277302666554---33588------88765312466048997
Q gi|254780877|r  248 GAKFRGE-FEERLKSLLCEIR----SEDGEIILFIDELHVLVGAGKTDG---AMDAS------NLLKPSLARGELHCIGA  313 (853)
Q Consensus       248 g~~~rg~-~e~r~~~i~~~~~----~~~~~~ilfide~h~~~gaG~~~g---~~Daa------n~LKP~LarG~l~~Iga  313 (853)
                      =|.|.|| -|.=|..+|....    .+. +=|.|||||-=|-  -.+++   +-|+|      -|||  |-.|.   |++
T Consensus       190 EAGYVGEDVENIL~~Llq~ad~DV~kA~-kGIiYIDEIDKIa--RkSEN~SITRDVSGEGVQQALLK--i~EGT---vA~  261 (452)
T TIGR00382       190 EAGYVGEDVENILLKLLQAADYDVEKAQ-KGIIYIDEIDKIA--RKSENPSITRDVSGEGVQQALLK--IIEGT---VAN  261 (452)
T ss_pred             CCCCCCCCHHHHHHHHHHHCCCCHHHHC-CCEEEEECCCCHH--HHCCCCEEEEEECCCHHHHHHHH--HHHCC---EEE
T ss_conf             0664242288999999874145524527-8508984223101--21577801122175549999998--76032---343


Q ss_pred             ECHHHHHHHHHCCH
Q ss_conf             44899999730011
Q gi|254780877|r  314 TTLDEYRKYIEKDP  327 (853)
Q Consensus       314 TT~~Eyrk~iEkD~  327 (853)
                      -=|..=|||=+.|-
T Consensus       262 vPPqGGRKHP~~~~  275 (452)
T TIGR00382       262 VPPQGGRKHPQQEF  275 (452)
T ss_pred             ECCCCCCCCCCCCE
T ss_conf             17544886886576


No 281
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=97.98  E-value=7e-05  Score=58.62  Aligned_cols=174  Identities=21%  Similarity=0.229  Sum_probs=94.2

Q ss_pred             HHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCC-CCHH------------HCCC--EEEEEEHHHHHCCCCCCCHH-
Q ss_conf             963367778668952887407779999999873489-9844------------4574--37887313542174542024-
Q gi|254780877|r  192 QVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGD-IPES------------LKGK--RLMALDMGALIAGAKFRGEF-  255 (853)
Q Consensus       192 ~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~-vp~~------------l~~~--~i~~ld~~~l~ag~~~rg~~-  255 (853)
                      +-+..|--+--++.|+.|+||.+++..+|+.+.-.+ .++.            -.+.  -++.+..-.+-++..-.++. 
T Consensus        14 ~~~~~rl~HA~Lf~Gp~G~Gk~~lA~~~A~~llC~~~~~~~~~Cg~C~sC~~~~~~~HPD~~~i~Pe~~~~~~~~~~~~~   93 (342)
T PRK06964         14 QALRARWPHALLLHGQAGIGKLAFAQHLAQGLLCETPQPNGEPCGTCAACTWFAQGNHPDYRIVRPEALAAEAPGAADDA   93 (342)
T ss_pred             HHCCCCHHEEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEECCCHHCCCCCCCCCHH
T ss_conf             98068713057657999867999999999998389999888978677778888627999745534002102233321001


Q ss_pred             --------------------HHHHHHHHHHHHHC---CCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCC--CEEE
Q ss_conf             --------------------54589999998607---9976999636277302666554335888876531246--6048
Q gi|254780877|r  256 --------------------EERLKSLLCEIRSE---DGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARG--ELHC  310 (853)
Q Consensus       256 --------------------e~r~~~i~~~~~~~---~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG--~l~~  310 (853)
                                          =+.++.+.+.+.-+   .+.-|..||+.+.+-        ..|||-|--.|..-  .-.+
T Consensus        94 ~~~~~~~~~~~~~~~~~~I~idqiR~l~~~l~~~~~~g~~kVviI~~Ae~mn--------~~aaNalLK~LEEPp~~~~~  165 (342)
T PRK06964         94 KAADADEGGKKTRAPSKEIKIEQVRALLDFCGVGSHRGGARVVVLYPAEALN--------VAAANALLKTLEEPPPGVVF  165 (342)
T ss_pred             HHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCHHHHC--------HHHHHHHHHHHCCCCCCEEE
T ss_conf             0111222101235655645499999999997007545884499982778738--------99999999972379878489


Q ss_pred             EEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHH
Q ss_conf             99744899999730011132023111115777678999999978986541496101589999986333202457674778
Q gi|254780877|r  311 IGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKA  390 (853)
Q Consensus       311 IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKA  390 (853)
                      |=.|+.  ..+..   +-+-.|-|.|.+..|+.++....|+.        .+|.  + +- +.+.++      .--|.+|
T Consensus       166 iL~~~~--~~~ll---pTI~SRcq~~~~~~~~~~~~~~~L~~--------~~v~--~-a~-~lla~a------~G~p~~A  222 (342)
T PRK06964        166 LLVSAR--IDRLL---PTILSRCRQWPMTVPAPEAAAAWLAA--------QGVA--D-AN-ALLAEA------GGAPLAA  222 (342)
T ss_pred             EEEECC--HHHCC---HHHHHCCEEECCCCCCHHHHHHHHHH--------CCCC--C-HH-HHHHHC------CCCHHHH
T ss_conf             998699--25483---68876764302899599999999987--------3986--3-99-999880------9998999


Q ss_pred             HHHHHH
Q ss_conf             999999
Q gi|254780877|r  391 IDLMDE  396 (853)
Q Consensus       391 IDllDe  396 (853)
                      +.+.++
T Consensus       223 l~l~~~  228 (342)
T PRK06964        223 LALASD  228 (342)
T ss_pred             HHHHCC
T ss_conf             987167


No 282
>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]
Probab=97.98  E-value=0.00079  Score=50.07  Aligned_cols=243  Identities=19%  Similarity=0.256  Sum_probs=134.5

Q ss_pred             HHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCE-------EEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf             235547767459489999999999874101236566512-------8987267861688999999987237765300224
Q gi|254780877|r  561 RIETEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMG-------SFMFLGPTGVGKTELVKSLARLLFDDENSMIRID  633 (853)
Q Consensus       561 ~l~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~-------~flf~GptGvGKTelak~la~~lf~~~~~lir~d  633 (853)
                      .+-..+--.|+|.+..-++++-.+    .|=...+-|-|       ..|++|-+|+||+.|-|.+++..   .++.-.  
T Consensus       279 ~l~~SiaPsIyG~e~VKkAilLqL----fgGv~k~~~~g~~iRGDInILLvGDPgtaKSqlLk~v~~~a---Pr~vyt--  349 (682)
T COG1241         279 ILIKSIAPSIYGHEDVKKAILLQL----FGGVKKNLPDGTRIRGDIHILLVGDPGTAKSQLLKYVAKLA---PRGVYT--  349 (682)
T ss_pred             HHHHHHCCCCCCCHHHHHHHHHHH----CCCCCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHC---CCEEEE--
T ss_conf             999974151038199999999996----08976647998620242269981798251999999988648---840797--


Q ss_pred             HHHHCCCCCCCHHHCC---CCHHCC--CCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEE
Q ss_conf             4774034532013047---711203--56677421132215641022021441498999999998404578879997783
Q gi|254780877|r  634 MSEYMEKHSVSRLIGS---PPGYVG--YEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVD  708 (853)
Q Consensus       634 Msey~e~~~vs~LiGa---ppGYvG--~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~  708 (853)
                         .....|...|..|   -|. .|  +=|+|.|.-|    -.+|.+.||++|+.-...+.+...|+..+++=+++=   
T Consensus       350 ---sgkgss~~GLTAav~rd~~-tge~~LeaGALVlA----D~Gv~cIDEfdKm~~~dr~aihEaMEQQtIsIaKAG---  418 (682)
T COG1241         350 ---SGKGSSAAGLTAAVVRDKV-TGEWVLEAGALVLA----DGGVCCIDEFDKMNEEDRVAIHEAMEQQTISIAKAG---  418 (682)
T ss_pred             ---CCCCCCCCCCEEEEEECCC-CCEEEEECCEEEEE----CCCEEEEEECCCCCHHHHHHHHHHHHHCEEEECCCC---
T ss_conf             ---2641254573069997067-76078867779992----497799970567776789999999875275120554---


Q ss_pred             CCCCEEEECCCHHHHHHHCC---------HHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCC-CH----HHHHHHHHHHH
Q ss_conf             03315595485126876403---------267999999999862885772666815862889-98----99999999999
Q gi|254780877|r  709 FRNTLIIMTSNLGAEYLIED---------GDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKL-RK----EDMAKIVRIQL  774 (853)
Q Consensus       709 f~n~iii~TsN~G~~~~~~~---------~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l-~~----~~~~~i~~~~l  774 (853)
                           |..|-|.=+..+...         .....+.+      -|+|.||.|+|-|++...- ++    .-...|+..+.
T Consensus       419 -----I~atLnARcsvLAAaNP~~Gryd~~~~~~enI------~l~~~lLSRFDLifvl~D~~d~~~D~~ia~hil~~h~  487 (682)
T COG1241         419 -----ITATLNARCSVLAAANPKFGRYDPKKTVAENI------NLPAPLLSRFDLIFVLKDDPDEEKDEEIAEHILDKHR  487 (682)
T ss_pred             -----EEEECCHHHHHHHHHCCCCCCCCCCCCHHHHC------CCCHHHHHHCCEEEEECCCCCCCCHHHHHHHHHHHHH
T ss_conf             -----25411144445665188777679999978855------8983577517754770578885335999999999863


Q ss_pred             --------------------HH-HHHHH--HHCCCEEEECHHHHHHHHHCCCCC-C------------CCCHHHHHHHHH
Q ss_conf             --------------------99-99999--857989999889999999708982-2------------062157999998
Q gi|254780877|r  775 --------------------GR-VLSLI--KERNISMDFDDQVIDWLSCRGYDP-S------------YGARPLKRVIQR  818 (853)
Q Consensus       775 --------------------~~-l~~~l--~~~~i~l~~~~~~~~~l~~~~~~~-~------------~GaR~l~r~i~~  818 (853)
                                          -+ +.+-+  +.+.+.-.+++++.+.|.+.--+. +            .-+|.|..+|+ 
T Consensus       488 ~~~~~~~~~~~~~~~~~~~~~~~lrkYI~YAR~~v~P~lt~ea~e~l~~~Yv~~Rk~~~~~~~~~~~piT~RqLEsiiR-  566 (682)
T COG1241         488 GEEPEETISLDGVDEVEERDFELLRKYISYARKNVTPVLTEEAREELEDYYVEMRKKSALVEEKRTIPITARQLESIIR-  566 (682)
T ss_pred             CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHH-
T ss_conf             4565322333322222346589999999987505896128999999999998765201223456754561999999999-


Q ss_pred             HHHHHHHHHHHCCCCCCC
Q ss_conf             733499999970868897
Q gi|254780877|r  819 YIQNPLAERVLSQTISDG  836 (853)
Q Consensus       819 ~i~~~la~~il~~~~~~g  836 (853)
                       +.-..|++-|+..+.+.
T Consensus       567 -LaeA~Ak~rLS~~V~~e  583 (682)
T COG1241         567 -LAEAHAKMRLSDVVEEE  583 (682)
T ss_pred             -HHHHHHHHHCCCCCCHH
T ss_conf             -99998865444777889


No 283
>KOG0726 consensus
Probab=97.97  E-value=7e-06  Score=66.75  Aligned_cols=161  Identities=24%  Similarity=0.463  Sum_probs=102.1

Q ss_pred             HHCCHHHHHHHHHHHHHHH--------HCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCC
Q ss_conf             7459489999999999874--------10123656651289872678616889999999872377653002244774034
Q gi|254780877|r  569 SVIGQSAAVESVSNALRRF--------RAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEK  640 (853)
Q Consensus       569 ~v~gq~~ai~~v~~~~~~~--------~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~  640 (853)
                      -|=|-++-|..+-.++-..        --|++.   |-|+. +.|++|+|||-|||++|..-   .--|+|+--||.   
T Consensus       186 diGGle~QiQEiKEsvELPLthPE~YeemGikp---PKGVI-lyG~PGTGKTLLAKAVANqT---SATFlRvvGseL---  255 (440)
T KOG0726         186 DIGGLESQIQEIKESVELPLTHPEYYEEMGIKP---PKGVI-LYGEPGTGKTLLAKAVANQT---SATFLRVVGSEL---  255 (440)
T ss_pred             CCCCHHHHHHHHHHHHCCCCCCHHHHHHCCCCC---CCEEE-EECCCCCCHHHHHHHHHCCC---CHHHHHHHHHHH---
T ss_conf             442578999999986338889878999728899---97058-86799975368888772455---212455650899---


Q ss_pred             CCCCHHHCCCCHHCCCCCCCCCCHHHH----CCCCCEEEEHHHHHC-----------CHHHHHHHHHHHHCCEEECCCCC
Q ss_conf             532013047711203566774211322----156410220214414-----------98999999998404578879997
Q gi|254780877|r  641 HSVSRLIGSPPGYVGYEEGGALTEAVR----RHPYQVVLFDEIEKA-----------HSDVHNILLQVLDDGRLTDSQGR  705 (853)
Q Consensus       641 ~~vs~LiGappGYvG~~~gg~Lte~vr----~~P~sVil~DEiEKa-----------h~~v~~~llqild~G~ltd~~G~  705 (853)
                        +.+-.|         +|..|...+-    .+--|+|+.|||+--           ..+|+..+|.+|..=-=.|++| 
T Consensus       256 --iQkylG---------dGpklvRqlF~vA~e~apSIvFiDEIdAiGtKRyds~SggerEiQrtmLELLNQldGFdsrg-  323 (440)
T KOG0726         256 --IQKYLG---------DGPKLVRELFRVAEEHAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRG-  323 (440)
T ss_pred             --HHHHHC---------CCHHHHHHHHHHHHHCCCCEEEEEHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCC-
T ss_conf             --998736---------55199999998887529826986400110452134788507899999999987426866567-


Q ss_pred             EEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHH
Q ss_conf             783033155954851268764032679999999998628857726668158628899899999999999
Q gi|254780877|r  706 TVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQL  774 (853)
Q Consensus       706 ~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l  774 (853)
                           +.-+||.+|-    |    +....+       ..+|   +|||.-|-|.--+....++|+.+.-
T Consensus       324 -----DvKvimATnr----i----e~LDPa-------LiRP---GrIDrKIef~~pDe~TkkkIf~IHT  369 (440)
T KOG0726         324 -----DVKVIMATNR----I----ETLDPA-------LIRP---GRIDRKIEFPLPDEKTKKKIFQIHT  369 (440)
T ss_pred             -----CEEEEEECCC----C----CCCCHH-------HCCC---CCCCCCCCCCCCCHHHHCEEEEEEE
T ss_conf             -----7589974165----3----446775-------5278---7543111257975563231568750


No 284
>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]
Probab=97.97  E-value=0.00023  Score=54.40  Aligned_cols=203  Identities=19%  Similarity=0.311  Sum_probs=121.6

Q ss_pred             CCCCCCCHHHHHHHHHHHHCC--CCCCCEEEECCCCCCHHHHHHHHHHHHHC----------CCCCHHHCCCEEEEEEHH
Q ss_conf             853333357899999996336--77786689528874077799999998734----------899844457437887313
Q gi|254780877|r  176 KLDPVIGRDDEMRRAIQVLSR--RTKNNPVLIGDPGVGKTAIIEGLASRIIN----------GDIPESLKGKRLMALDMG  243 (853)
Q Consensus       176 kLDPVIGRe~EI~~~~~iL~r--~~k~n~~lvGe~GvGKtaive~la~~i~~----------~~vp~~l~~~~i~~ld~~  243 (853)
                      .-.++||+..-++++.+.+.+  .+..++++.||.|+||--++..+-+.=..          +.+|+.|-...+|.-.-|
T Consensus       139 ~~~~liG~S~am~~l~~~i~kvA~s~a~VLI~GESGtGKElvAr~IH~~S~R~~~PFVavNcaAip~~l~ESELFGhekG  218 (464)
T COG2204         139 LGGELVGESPAMQQLRRLIAKVAPSDASVLITGESGTGKELVARAIHQASPRAKGPFIAVNCAAIPENLLESELFGHEKG  218 (464)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHCCCCCCCCEEEECCCCCHHHHHHHHHCCCCC
T ss_conf             56775206999999999999984779978997789875899999998607445899256334648988877776145656


Q ss_pred             HHHCC-CCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCH-HHHHHHHHCCC-------------CE
Q ss_conf             54217-45420245458999999860799769996362773026665543358-88876531246-------------60
Q gi|254780877|r  244 ALIAG-AKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDA-SNLLKPSLARG-------------EL  308 (853)
Q Consensus       244 ~l~ag-~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Da-an~LKP~LarG-------------~l  308 (853)
                      ++-.. ++-.|-||+           ++|. .||+|||..+        ++++ +.+|+ .|..|             ++
T Consensus       219 AFTGA~~~r~G~fE~-----------A~GG-TLfLDEI~~m--------pl~~Q~kLLR-vLqe~~~~rvG~~~~i~vdv  277 (464)
T COG2204         219 AFTGAITRRIGRFEQ-----------ANGG-TLFLDEIGEM--------PLELQVKLLR-VLQEREFERVGGNKPIKVDV  277 (464)
T ss_pred             CCCCCCCCCCCCEEE-----------CCCC-EEEEECCCCC--------CHHHHHHHHH-HHHCCEEEECCCCCEECEEE
T ss_conf             767764345761577-----------3796-5873231109--------9999999999-98707067358886000016


Q ss_pred             EEEEEECHHHHHHHHHCC---HHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHH-CCCC
Q ss_conf             489974489999973001---113202311111577767899999997898654149610158999998633320-2457
Q gi|254780877|r  309 HCIGATTLDEYRKYIEKD---PALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRY-ITDR  384 (853)
Q Consensus       309 ~~IgaTT~~Eyrk~iEkD---~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rY-i~~r  384 (853)
                      |+|+||.-+= .+.++.-   .-|--|+.++.+.=|.--+-.+=+--+...|               ..+.|.+| .+-+
T Consensus       278 RiIaaT~~dL-~~~v~~G~FReDLyyRLnV~~i~iPpLRER~EDIp~L~~hf---------------l~~~~~~~~~~~~  341 (464)
T COG2204         278 RIIAATNRDL-EEEVAAGRFREDLYYRLNVVPLRLPPLRERKEDIPLLAEHF---------------LKRFAAELGRPPK  341 (464)
T ss_pred             EEEEECCCCH-HHHHHCCCCHHHHHHHHCCCEECCCCCCCCCHHHHHHHHHH---------------HHHHHHHHCCCCC
T ss_conf             9996057789-99988197378888652331104876223620079999999---------------9999998099988


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Q ss_conf             6747789999999998754102221457887999997445
Q gi|254780877|r  385 FLPDKAIDLMDEASARVRMQIDTKPEVLDELDRRIICLKI  424 (853)
Q Consensus       385 ~lPDKAIDllDeA~A~~~i~~~~~P~~l~~l~r~i~~l~~  424 (853)
                      .+-..         |...+..+.+|-.+.++++-+++.-.
T Consensus       342 ~~s~~---------a~~~L~~y~WPGNVREL~N~ver~~i  372 (464)
T COG2204         342 GFSPE---------ALAALLAYDWPGNVRELENVVERAVI  372 (464)
T ss_pred             CCCHH---------HHHHHHHCCCCHHHHHHHHHHHHHHH
T ss_conf             87999---------99999738998189999999999985


No 285
>PRK08181 transposase; Validated
Probab=97.96  E-value=1.2e-05  Score=64.93  Aligned_cols=102  Identities=18%  Similarity=0.369  Sum_probs=67.2

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHC-CCCCEEEEHH
Q ss_conf             898726786168899999998723776530022447740345320130477112035667742113221-5641022021
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRR-HPYQVVLFDE  678 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~-~P~sVil~DE  678 (853)
                      ..+|+||||||||.||.+|+.......-...-+.|++..+.-..++.-|            .+...+++ ..+.++.+||
T Consensus       108 Nvil~Gp~GtGKThLA~Alg~~A~~~G~~V~f~~~~~L~~~L~~a~~~~------------~~~~~~~~l~~~dLLIiDe  175 (269)
T PRK08181        108 NLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTDLVQKLQVARREL------------QLESAIAKLDKFDLLILDD  175 (269)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEHHHHHHHHHHHHHCC------------CHHHHHHHHHCCCEEEEHH
T ss_conf             0899899998788999999999998799399978999999999977558------------3999999974446012201


Q ss_pred             HHHC--CHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHH
Q ss_conf             4414--989999999984045788799977830331559548512687
Q gi|254780877|r  679 IEKA--HSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEY  724 (853)
Q Consensus       679 iEKa--h~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~  724 (853)
                      +=-.  .+.--++|+|++++=+     ++      .=+|.|||+....
T Consensus       176 ~G~~~~~~~~~~~lf~lI~~Ry-----e~------~S~IITSn~~~~~  212 (269)
T PRK08181        176 LAYVTKDQAETSVLFELISARY-----ER------RSILITANQPFGE  212 (269)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHH-----CC------CCEEEECCCCHHH
T ss_conf             0566799899999999999985-----78------8889988999778


No 286
>smart00350 MCM minichromosome  maintenance proteins.
Probab=97.96  E-value=0.00036  Score=52.81  Aligned_cols=221  Identities=15%  Similarity=0.214  Sum_probs=122.3

Q ss_pred             HHHHHHHHHHCCHHHHHHHHHHHHHHH-HCCCCCCCCCC--EEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHH
Q ss_conf             235547767459489999999999874-10123656651--289872678616889999999872377653002244774
Q gi|254780877|r  561 RIETEISKSVIGQSAAVESVSNALRRF-RAGLQDPQRPM--GSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEY  637 (853)
Q Consensus       561 ~l~~~l~~~v~gq~~ai~~v~~~~~~~-~~gl~~~~~p~--~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey  637 (853)
                      .|-+.+--.|+|.+..-.++.-.+.-. .-.+.+..+-.  -..|++|-+|+||+.|-|..++..   .++...=-+   
T Consensus       196 ~L~~SiaP~I~G~~~vK~allL~L~GG~~~~~~~g~~~Rg~ihiLLvGDPGtgKSqlLk~~~~ia---prsvytsG~---  269 (509)
T smart00350      196 RLSRSLAPSIYGHEDIKKAILLLLFGGVHKNLPDGMKIRGDINILLLGDPGTAKSQLLKYVEKTA---PRAVYTTGK---  269 (509)
T ss_pred             HHHHHHCCCCCCCHHHHHHHHHHHCCCCCCCCCCCCEECCCEEEEEECCCCCCHHHHHHHHHHHC---CCEEEEECC---
T ss_conf             99985497323878899999999708876648988504154149984699823629999999858---860687344---


Q ss_pred             CCCCCCCHHHCCCC-HHCC---CCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCC-EEEC-CC
Q ss_conf             03453201304771-1203---56677421132215641022021441498999999998404578879997-7830-33
Q gi|254780877|r  638 MEKHSVSRLIGSPP-GYVG---YEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGR-TVDF-RN  711 (853)
Q Consensus       638 ~e~~~vs~LiGapp-GYvG---~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~-~v~f-~n  711 (853)
                        ..|.+.|..|-- ...+   .=|+|.|.-    .--+|...||++|..++-...++..|+.++++=+++- ...+ ..
T Consensus       270 --gsS~aGLTaav~rd~~~ge~~leaGALVl----AD~GiccIDEfdKm~~~dr~alhEaMEQQtisiaKaGi~~tL~aR  343 (509)
T smart00350      270 --GSSAVGLTAAVTRDPETREFTLEGGALVL----ADNGVCCIDEFDKMDDSDRTAIHEAMEQQTISIAKAGITTTLNAR  343 (509)
T ss_pred             --CCCCCCCEEEEEECCCCCCEEECCCCEEC----CCCCEEEEEEHHHCCHHHHHHHHHHHHHCEEEEECCCEEEEEECC
T ss_conf             --45557706899981788837872564120----567547852132078778999999997487787437517998557


Q ss_pred             CEEEECCCH-HHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCC-CCHHHHHHHHHHHHH--------------
Q ss_conf             155954851-2687640326799999999986288577266681586288-998999999999999--------------
Q gi|254780877|r  712 TLIIMTSNL-GAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEK-LRKEDMAKIVRIQLG--------------  775 (853)
Q Consensus       712 ~iii~TsN~-G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~-l~~~~~~~i~~~~l~--------------  775 (853)
                      |-|+...|- +...-  ......+      .-.|+|.+|.|+|-|++... .+++.=..|++..+.              
T Consensus       344 ~sVlAAaNP~~g~yd--~~~s~~e------ni~l~~~LLSRFDLIf~l~D~~~~~~D~~ia~hil~~h~~~~~~~~~~~~  415 (509)
T smart00350      344 CSVLAAANPIGGRYD--PKLTPEE------NIDLPAPILSRFDLLFVVLDEVDEERDRELAKHVVDLHRYSHPEPDEADE  415 (509)
T ss_pred             CEEEEEECCCCCCCC--CCCCHHH------HCCCCHHHHHHCCEEEEEECCCCHHHHHHHHHHHHHHHHCCCCCCCCCCC
T ss_conf             359986556556378--8899999------46898035410238999615898788999999999987415887545568


Q ss_pred             ------HHHHHHH--HCCCEEEECHHHHHHHHHC
Q ss_conf             ------9999998--5798999988999999970
Q gi|254780877|r  776 ------RVLSLIK--ERNISMDFDDQVIDWLSCR  801 (853)
Q Consensus       776 ------~l~~~l~--~~~i~l~~~~~~~~~l~~~  801 (853)
                            -+.+-+.  ...+.=.++++|.+.|.+.
T Consensus       416 ~~~~~~~lrkYI~yar~~~~P~ls~eA~~~i~~~  449 (509)
T smart00350      416 VPISQEFLRKYIAYAREKIKPKLSEEAAEKLVKA  449 (509)
T ss_pred             CCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH
T ss_conf             8689999999999998628997899999999999


No 287
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=97.96  E-value=0.0035  Score=44.79  Aligned_cols=195  Identities=16%  Similarity=0.214  Sum_probs=117.3

Q ss_pred             CCCCCCCHHHHHHHHHHHHCCCCCCC-EEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEE--------EEEEHHHHH
Q ss_conf             85333335789999999633677786-689528874077799999998734899844457437--------887313542
Q gi|254780877|r  176 KLDPVIGRDDEMRRAIQVLSRRTKNN-PVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRL--------MALDMGALI  246 (853)
Q Consensus       176 kLDPVIGRe~EI~~~~~iL~r~~k~n-~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i--------~~ld~~~l~  246 (853)
                      .++.|||-+.-++.+...+...+=.+ -+++|+.|+||++.+..+|+.+....-+..-..+++        +.+......
T Consensus         2 ~F~~iiGq~~~~~~L~~ai~~~rl~hAyLF~Gp~G~GK~~~A~~fa~~Ll~~~~~~~~~~~ri~~~nHPDl~~i~P~~~~   81 (314)
T PRK07399          2 LFANLIGQPLAIELLTAAIEQNRIAPAYLFAGPEGVGRKLAALRFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQH   81 (314)
T ss_pred             CCCCCCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCEEEEECCCCC
T ss_conf             83312594999999999998599674487789998329999999999985789999766558751899977886056200


Q ss_pred             CCCCCCC-HHH--------------HHHHHHHHHHHHC---CCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC-CC
Q ss_conf             1745420-245--------------4589999998607---997699963627730266655433588887653124-66
Q gi|254780877|r  247 AGAKFRG-EFE--------------ERLKSLLCEIRSE---DGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR-GE  307 (853)
Q Consensus       247 ag~~~rg-~~e--------------~r~~~i~~~~~~~---~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar-G~  307 (853)
                      .|..+.. +.+              +.++.+...+..+   .+.-|..||++|++        +..|||-|-=.|.. +.
T Consensus        82 ~g~~~~~~~~~~~~~~~~~~~~I~idqIR~l~~~l~~~p~~~~~kVvII~~ae~m--------~~~AaNaLLKtLEEP~~  153 (314)
T PRK07399         82 QGKLITASEAEEAGLKRKSPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETM--------NEAAANALLKTLEEPGN  153 (314)
T ss_pred             CCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCCCCCCEEEEECCHHHC--------CHHHHHHHHHHHCCCCC
T ss_conf             3454557789876530268777879999999999731885688479998897871--------99999999986147878


Q ss_pred             EEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCH
Q ss_conf             04899744899999730011132023111115777678999999978986541496101589999986333202457674
Q gi|254780877|r  308 LHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLP  387 (853)
Q Consensus       308 l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lP  387 (853)
                      -.+|=.|+..+  +-.   +-+-.|-|.|.....+.++...+|......    -.-.+..+++.+.+.=|         |
T Consensus       154 ~~fILit~~~~--~lL---pTI~SRCQ~i~F~~l~~~~i~~~L~~~~~~----~~~~~~~~~l~~~A~Gs---------p  215 (314)
T PRK07399        154 GTLILIAPSPE--SLL---PTIVSRCQIIPFYRLSDEQLEQVLKRLGDN----INEILDHPELLALAQGS---------P  215 (314)
T ss_pred             CEEEEEECCHH--HCC---HHHHCCCEEEECCCCCHHHHHHHHHHCCCC----CCCCCCHHHHHHHHCCC---------H
T ss_conf             56999979936--491---466418756338998999999999971664----33102789999881799---------7


Q ss_pred             HHHHHHHHH
Q ss_conf             778999999
Q gi|254780877|r  388 DKAIDLMDE  396 (853)
Q Consensus       388 DKAIDllDe  396 (853)
                      .+||+.++.
T Consensus       216 G~a~~~~~~  224 (314)
T PRK07399        216 GAAIANIEQ  224 (314)
T ss_pred             HHHHHHHHH
T ss_conf             999999999


No 288
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=97.96  E-value=0.00044  Score=52.15  Aligned_cols=202  Identities=16%  Similarity=0.229  Sum_probs=114.6

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCC-----CHHHHCCCCCCCHHH
Q ss_conf             489999999999874101236566512898726786168899999998723776530022-----447740345320130
Q gi|254780877|r  573 QSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRI-----DMSEYMEKHSVSRLI  647 (853)
Q Consensus       573 q~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~-----dMsey~e~~~vs~Li  647 (853)
                      +.+|...+..++..       . +  |.-+++|+.|+|||.+.+.+.+.|-.+.-..+.+     ...|+-.  .+..-+
T Consensus        28 h~~al~~L~~~l~~-------~-~--g~~lltGe~GtGKTtllr~l~~~l~~~~~~~~~i~~~~l~~~~ll~--~i~~~l   95 (269)
T TIGR03015        28 HKRAMAYLEYGLSQ-------R-E--GFILITGEVGAGKTTLIRNLLKRLDQERVVAAKLVNTRVDAEDLLR--MVAADF   95 (269)
T ss_pred             HHHHHHHHHHHHHC-------C-C--CEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHH--HHHHHC
T ss_conf             99999999999964-------8-9--6599972998988999999998459345489997699999999999--999985


Q ss_pred             CCCCHHCCCCCCC---CCCH----HHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCH
Q ss_conf             4771120356677---4211----32215641022021441498999999998404578879997783033155954851
Q gi|254780877|r  648 GSPPGYVGYEEGG---ALTE----AVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNL  720 (853)
Q Consensus       648 GappGYvG~~~gg---~Lte----~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~  720 (853)
                      |.||...  +...   .|++    .....-..|+++||-..-++++++-|-.+++-  -+|+.. .     .-+|+.   
T Consensus        96 g~~~~~~--~~~~~~~~l~~~L~~~~~~g~~~vliIDEAq~L~~~~Le~Lr~L~n~--e~~~~~-l-----l~iiL~---  162 (269)
T TIGR03015        96 GLETEGR--DKAALLRELEDFLIEQFAAGKRALLVVDEAQNLTPELLEELRMLSNF--QTDNAK-L-----LQIFLV---  162 (269)
T ss_pred             CCCCCCC--CHHHHHHHHHHHHHHHHHCCCCEEEEEECHHHCCHHHHHHHHHHHCC--CCCCCC-C-----EEEEEE---
T ss_conf             9898898--99999999999999999669946999724221999999999999701--358887-0-----489995---


Q ss_pred             HHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCC--EEEECHHHHHHH
Q ss_conf             268764032679999999998628857726668158628899899999999999999999985798--999988999999
Q gi|254780877|r  721 GAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNI--SMDFDDQVIDWL  798 (853)
Q Consensus       721 G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i--~l~~~~~~~~~l  798 (853)
                      |...+           .+.+...--+.|-.||.--+...||+.++...-++-.|       +.-|.  ..-+++++++.|
T Consensus       163 GqpeL-----------~~~L~~~~~~~l~qRI~~~~~L~pl~~eet~~YI~~RL-------~~AG~~~~~~Ft~~A~~~I  224 (269)
T TIGR03015       163 GQPEF-----------RETLQSPQLQQLRQRIIASCHLGPLDREETREYIEHRL-------ERAGNRDAPVFSEGAFDAI  224 (269)
T ss_pred             CCHHH-----------HHHHCCCCHHHHHHCEEEEEEECCCCHHHHHHHHHHHH-------HHCCCCCCCCCCHHHHHHH
T ss_conf             78679-----------99872740254555076799847999899999999999-------8669999998599999999


Q ss_pred             HHCCCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf             97089822062157999998733499
Q gi|254780877|r  799 SCRGYDPSYGARPLKRVIQRYIQNPL  824 (853)
Q Consensus       799 ~~~~~~~~~GaR~l~r~i~~~i~~~l  824 (853)
                      .+.+       +++.|.|...-...|
T Consensus       225 ~~~S-------~G~PR~IN~Lc~~aL  243 (269)
T TIGR03015       225 HRFS-------RGIPRLINILCDRLL  243 (269)
T ss_pred             HHHC-------CCCHHHHHHHHHHHH
T ss_conf             9986-------990089999999999


No 289
>KOG0729 consensus
Probab=97.95  E-value=5.5e-05  Score=59.46  Aligned_cols=77  Identities=30%  Similarity=0.526  Sum_probs=36.3

Q ss_pred             ECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCC--CCCCHHHHCCCCCEEEEHHHHH
Q ss_conf             26786168899999998723776530022447740345320130477112035667--7421132215641022021441
Q gi|254780877|r  604 LGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEG--GALTEAVRRHPYQVVLFDEIEK  681 (853)
Q Consensus       604 ~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~g--g~Lte~vr~~P~sVil~DEiEK  681 (853)
                      .||+|+|||-+|+++|.--   .-.+||.=-||.-+            -|||-+.-  -.|-+.-|.+..|+|+||||+-
T Consensus       217 yGPPGtGKTL~ARAVANRT---dAcFIRViGSELVQ------------KYvGEGARMVRElFeMAr~KKACiiFFDEiDA  281 (435)
T KOG0729         217 YGPPGTGKTLCARAVANRT---DACFIRVIGSELVQ------------KYVGEGARMVRELFEMARTKKACIIFFDEIDA  281 (435)
T ss_pred             ECCCCCCHHHHHHHHHCCC---CCEEEEEHHHHHHH------------HHHHHHHHHHHHHHHHHCCCCEEEEEEECCCC
T ss_conf             6899986108999874566---74587631189999------------98624689999999985236527998410102


Q ss_pred             -----------CCHHHHHHHHHHHH
Q ss_conf             -----------49899999999840
Q gi|254780877|r  682 -----------AHSDVHNILLQVLD  695 (853)
Q Consensus       682 -----------ah~~v~~~llqild  695 (853)
                                 ...+|+..+|.++.
T Consensus       282 iGGaRFDDg~ggDNEVQRTMLEli~  306 (435)
T KOG0729         282 IGGARFDDGAGGDNEVQRTMLELIN  306 (435)
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHH
T ss_conf             2672035788872799999999998


No 290
>pfam05673 DUF815 Protein of unknown function (DUF815). This family consists of several bacterial proteins of unknown function.
Probab=97.94  E-value=0.00047  Score=51.88  Aligned_cols=114  Identities=29%  Similarity=0.418  Sum_probs=80.9

Q ss_pred             CCCCCCHHHHHHHHH----HHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCC
Q ss_conf             533333578999999----9633677786689528874077799999998734899844457437887313542174542
Q gi|254780877|r  177 LDPVIGRDDEMRRAI----QVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFR  252 (853)
Q Consensus       177 LDPVIGRe~EI~~~~----~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~r  252 (853)
                      ++-++|-|.+.+.++    +-+....-||++|-|+.|.||+++|.++......       ++-|+++++-..|       
T Consensus        27 l~~L~Gie~Qk~~l~~NT~~F~~G~pAnnvLLwG~RGtGKSSlVKall~~~~~-------~gLrlIEv~k~~L-------   92 (248)
T pfam05673        27 LDDLVGIDRQKEALLRNTEQFLAGLPANNVLLWGARGTGKSSLVKALLNEYAD-------QGLRLIEVDKDDL-------   92 (248)
T ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHH-------CCCEEEEECHHHH-------
T ss_conf             88934939999999999999980898613676768989888999999998631-------4956999878887-------


Q ss_pred             CHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCC-----EEEEEEEC
Q ss_conf             0245458999999860799769996362773026665543358888765312466-----04899744
Q gi|254780877|r  253 GEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGE-----LHCIGATT  315 (853)
Q Consensus       253 g~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~-----l~~IgaTT  315 (853)
                          .-+-.|++.+...+.+-|||+|++-       -+..-+--..||..|..|-     =-+|-||+
T Consensus        93 ----~~Lp~i~~~l~~~~~kFIiF~DDLS-------Fe~~d~~yk~LKs~LeG~l~~~p~NvliYaTS  149 (248)
T pfam05673        93 ----GDLPDIVDLLRGRPYRFILFCDDLS-------FEEGESSYKALKSVLEGGLEARPDNVLIYATS  149 (248)
T ss_pred             ----CCHHHHHHHHHCCCCCEEEEECCCC-------CCCCCHHHHHHHHHHCCCCCCCCCEEEEEEEC
T ss_conf             ----2199999999649975799963557-------67897369999999657644688738999842


No 291
>PRK10365 transcriptional regulatory protein ZraR; Provisional
Probab=97.93  E-value=9.7e-05  Score=57.48  Aligned_cols=200  Identities=19%  Similarity=0.270  Sum_probs=106.7

Q ss_pred             CCCCCHHHHHHHHHHHHCC--CCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHC--------
Q ss_conf             3333357899999996336--777866895288740777999999987348998444574378873135421--------
Q gi|254780877|r  178 DPVIGRDDEMRRAIQVLSR--RTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIA--------  247 (853)
Q Consensus       178 DPVIGRe~EI~~~~~iL~r--~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~a--------  247 (853)
                      ..+||...-++++.+.+.|  ++..++++.||+|+||..++..+-+.=..       ++.-++.+|.+++-.        
T Consensus       139 ~~liG~S~am~~v~~~i~~~A~s~~pVLI~GE~GTGK~~~Ar~IH~~S~r-------~~~pfv~vnC~~l~~~l~eseLF  211 (441)
T PRK10365        139 FGMVGKSPAMQHLLSEIALVAPSEATVLIHGDSGTGKELVARAIHASSAR-------SEKPLVTLNCAALNESLLESELF  211 (441)
T ss_pred             CCCEECCHHHHHHHHHHHHHHCCCCCEEEECCCCHHHHHHHHHHHHCCCC-------CCCCCEEEECCCCCHHHHHHHHC
T ss_conf             78666899999999999998488994899899981099999999965787-------78980798789898455589861


Q ss_pred             CCCCCCHHHH---HHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC-------------CCEEEE
Q ss_conf             7454202454---589999998607997699963627730266655433588887653124-------------660489
Q gi|254780877|r  248 GAKFRGEFEE---RLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR-------------GELHCI  311 (853)
Q Consensus       248 g~~~rg~~e~---r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar-------------G~l~~I  311 (853)
                      |. -+|.|-.   +-.+.+.   .++|. -||+|||+.+        +.+.-.-|--.|..             -++|+|
T Consensus       212 G~-~~gaftga~~~~~g~~~---~A~gG-TLfLdeI~~l--------~~~~Q~kLl~~l~~~~~~~~g~~~~~~~d~RiI  278 (441)
T PRK10365        212 GH-EKGAFTGADKRREGRFV---EADGG-TLFLDEIGDI--------SPMMQVRLLRAIQEREVQRVGSNQTISVDVRLI  278 (441)
T ss_pred             CC-CCCCCCCCCCCCCCCEE---ECCCC-EECCCCCCCC--------CHHHHHHHHHHHHHHHHCCCCCCCEEECCCEEE
T ss_conf             77-55687896534689877---88998-2550231529--------999999999877752100058873441363799


Q ss_pred             EEECHHHHHHHHHC---CHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCC-CCCCH
Q ss_conf             97448999997300---111320231111157776789999999789865414961015899999863332024-57674
Q gi|254780877|r  312 GATTLDEYRKYIEK---DPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYIT-DRFLP  387 (853)
Q Consensus       312 gaTT~~Eyrk~iEk---D~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~-~r~lP  387 (853)
                      ++|+.+=- +.++.   ...|--|+..+.|.=|.--+-.+=+.-+...|               .-.++.+|-. -+.+.
T Consensus       279 aat~~~l~-~~v~~g~Fr~dLy~rL~~~~i~lPpLReR~eDI~~L~~~f---------------l~~~~~~~~~~~~~~s  342 (441)
T PRK10365        279 AATHRDLA-AEVNAGRFRQDLYYRLNVVAIEVPSLRQRREDIPLLAGHF---------------LQRFAERNRKAVKGFT  342 (441)
T ss_pred             ECCCCCHH-HHHHCCCCHHHHHHHHCCHHCCCCCCCCCCCHHHHHHHHH---------------HHHHHHHCCCCCCCCC
T ss_conf             83788999-9988198258999886011137826000620099999999---------------9999998499988889


Q ss_pred             HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Q ss_conf             77899999999987541022214578879999974
Q gi|254780877|r  388 DKAIDLMDEASARVRMQIDTKPEVLDELDRRIICL  422 (853)
Q Consensus       388 DKAIDllDeA~A~~~i~~~~~P~~l~~l~r~i~~l  422 (853)
                      ..|+..         +..+.+|-.+.++++.+++.
T Consensus       343 ~~a~~~---------L~~y~WPGNvREL~n~iera  368 (441)
T PRK10365        343 PQAMDL---------LIHYDWPGNIRELENAVERA  368 (441)
T ss_pred             HHHHHH---------HHCCCCCCHHHHHHHHHHHH
T ss_conf             999999---------97099998999999999999


No 292
>smart00763 AAA_PrkA PrkA AAA domain. This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.
Probab=97.92  E-value=0.00048  Score=51.81  Aligned_cols=107  Identities=19%  Similarity=0.207  Sum_probs=66.8

Q ss_pred             CEEEEHHHHHCCHHHHHHHHHHHHCCEEE-CCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHH-HHCCHHHH
Q ss_conf             10220214414989999999984045788-79997783033155954851268764032679999999998-62885772
Q gi|254780877|r  672 QVVLFDEIEKAHSDVHNILLQVLDDGRLT-DSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVR-SAFKPEFL  749 (853)
Q Consensus       672 sVil~DEiEKah~~v~~~llqild~G~lt-d~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~-~~f~pefl  749 (853)
                      .++=|-|+=|++.+.+..||.+-++|... |...-.++|. .+||.+||- +++             +..+ ...-+.|+
T Consensus       238 Gi~ef~E~~K~~~~~L~~LL~~tqE~~vk~~~~~~~~~~d-~viia~sNe-~E~-------------~~f~~~~~~ea~~  302 (361)
T smart00763      238 GILEFVEMFKADIKFLHPLLTATQEGNIKGTGGFAMIPID-GLIIAHSNE-SEW-------------QRFKSNKKNEALL  302 (361)
T ss_pred             CCEEHHHHHHCCHHHHHHHHCCCCCCEECCCCCCCCCCCC-EEEEECCCH-HHH-------------HHHHCCCCCHHHH
T ss_conf             6000487751759999998420103604178865653245-158824985-999-------------8764484105555


Q ss_pred             CCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHH
Q ss_conf             66681586288998999999999999999999857989999889999999
Q gi|254780877|r  750 NRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLS  799 (853)
Q Consensus       750 nRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~  799 (853)
                      .|+.-|=+=.-|.-.+=.+|.++.+..-      .-....+.|.+++..+
T Consensus       303 dR~~~i~vPY~l~~~~E~kIY~k~l~~~------~~~~~h~aPhtl~~aa  346 (361)
T smart00763      303 DRIIKVKVPYCLRVSEEAQIYEKLLRNS------DLTEAHIAPHTLEMAA  346 (361)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHCCC------CCCCCCCCCCHHHHHH
T ss_conf             0279986874167388999999995656------5668772986899999


No 293
>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator; InterPro: IPR014264   Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC (see Q06065 from SWISSPROT). These proteins have a Fis family DNA binding sequence, a response regulator receiver domain, and sigma-54 interaction domain. They are found strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system  common in Gram-positive bacteria, where members of IPR014265 from INTERPRO and IPR014266 from INTERPRO also occur..
Probab=97.90  E-value=0.00083  Score=49.88  Aligned_cols=218  Identities=24%  Similarity=0.403  Sum_probs=155.7

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHH
Q ss_conf             67459489999999999874101236566512898726786168899999998723776530022447740345320130
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLI  647 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~Li  647 (853)
                      .=+||++.-+.+|+..|.+.    .+.+  + +-|++|=||+||==+||+|-+.=.=.++.||-|||.-==|.===|=|+
T Consensus       142 ~Gli~~~~~m~kic~tIekv----A~sd--~-TvllLGESGTGKEV~ArA~H~~S~R~~~~FVAINCAAIPEnLLEsELF  214 (451)
T TIGR02915       142 EGLITSSPGMQKICRTIEKV----APSD--I-TVLLLGESGTGKEVLARALHELSDRKDKRFVAINCAAIPENLLESELF  214 (451)
T ss_pred             CCEEECCCCHHHHHHHHHHH----CCCC--C-EEEEECCCCCHHHHHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHH
T ss_conf             65220685067898886521----2000--0-130104667117899989842057897773444167457524667760


Q ss_pred             CCCCHHCCCCCCCCCCHHHHCCCC-------CEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCE---EECCCCEEEEC
Q ss_conf             477112035667742113221564-------10220214414989999999984045788799977---83033155954
Q gi|254780877|r  648 GSPPGYVGYEEGGALTEAVRRHPY-------QVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRT---VDFRNTLIIMT  717 (853)
Q Consensus       648 GappGYvG~~~gg~Lte~vr~~P~-------sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~---v~f~n~iii~T  717 (853)
                             ||+. |--|.|+|+.+-       .=++||||=--.-..+--||.-|.|=.+.==-||.   ||-|   |||-
T Consensus       215 -------GyEK-GAFTGA~k~T~GKIE~A~~GTLFLDEIGDLP~~LQAKLLRFLQErVIER~GGR~eIPVDVR---vvCA  283 (451)
T TIGR02915       215 -------GYEK-GAFTGAVKQTLGKIEYAHGGTLFLDEIGDLPLNLQAKLLRFLQERVIERLGGREEIPVDVR---VVCA  283 (451)
T ss_pred             -------CCCC-HHHHHHHCCCCCCEEEECCCCCCCCCHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCEE---EEEC
T ss_conf             -------3410-1242200347761675068830111122067668999998754666310588724561426---7503


Q ss_pred             CCHHHHHHHCCHHHHHHHHHHHH-HHHCCHHHHCCCCCE-EECCCCCH--HHHHHHHHHHHHHHHHHHHHCCCEEEECHH
Q ss_conf             85126876403267999999999-862885772666815-86288998--999999999999999999857989999889
Q gi|254780877|r  718 SNLGAEYLIEDGDSVHDKVMGIV-RSAFKPEFLNRLDEI-ILFEKLRK--EDMAKIVRIQLGRVLSLIKERNISMDFDDQ  793 (853)
Q Consensus       718 sN~G~~~~~~~~~~~~~~~~~~l-~~~f~peflnRid~i-v~F~~l~~--~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~  793 (853)
                      ||-              .+...+ .+.||=.|+=||-+| |-.-||-.  .|..=++...++++....+  .-.-.||+.
T Consensus       284 Tnq--------------dL~~~i~eg~FREDLfYRl~Eisi~iPPLR~R~gDa~lLA~~Fl~rf~~~~k--~~~~~F~~D  347 (451)
T TIGR02915       284 TNQ--------------DLKKMIAEGTFREDLFYRLAEISITIPPLRDRDGDAVLLANAFLERFARELK--RKAKGFTDD  347 (451)
T ss_pred             CCH--------------HHHHHHHCCCCCCCCEEEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHC--CCCCCHHHH
T ss_conf             224--------------6899985489720001346667862588998601899999999998878733--021660699


Q ss_pred             HHHHHHHCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             9999997089822062157999998733
Q gi|254780877|r  794 VIDWLSCRGYDPSYGARPLKRVIQRYIQ  821 (853)
Q Consensus       794 ~~~~l~~~~~~~~~GaR~l~r~i~~~i~  821 (853)
                      ++.+|-.  |.=--..|.|...|++-|.
T Consensus       348 A~~ale~--h~WPGNvRELEN~vKRAVI  373 (451)
T TIGR02915       348 ALRALEA--HKWPGNVRELENKVKRAVI  373 (451)
T ss_pred             HHHHHHC--CCCCCCHHHHHCHHHEEEE
T ss_conf             9999760--6998841544030021345


No 294
>KOG0652 consensus
Probab=97.90  E-value=0.00016  Score=55.67  Aligned_cols=155  Identities=26%  Similarity=0.510  Sum_probs=70.5

Q ss_pred             HCCHHHHHHHHHHHHHHH--------HCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCC
Q ss_conf             459489999999999874--------101236566512898726786168899999998723776530022447740345
Q gi|254780877|r  570 VIGQSAAVESVSNALRRF--------RAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKH  641 (853)
Q Consensus       570 v~gq~~ai~~v~~~~~~~--------~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~  641 (853)
                      |=|-+.-|+.+..+|...        ..|+..   |-|+ |+.||+|+|||-+|++-|..-   ..-++.+-     .+.
T Consensus       173 iGGldkQIqELvEAiVLpmth~ekF~~lgi~p---PKGv-LmYGPPGTGKTlmARAcAaqT---~aTFLKLA-----gPQ  240 (424)
T KOG0652         173 IGGLDKQIQELVEAIVLPMTHKEKFENLGIRP---PKGV-LMYGPPGTGKTLMARACAAQT---NATFLKLA-----GPQ  240 (424)
T ss_pred             CCCHHHHHHHHHHHHCCCCCCHHHHHHCCCCC---CCCE-EEECCCCCCHHHHHHHHHHHC---CCHHHHHC-----CHH
T ss_conf             32578999999988614565687887468889---9722-765799975779999998740---10688732-----647


Q ss_pred             CCCHHHCCCCHHCCCCCCCCCCH-----HHHCCCCCEEEEHHHHH----------C-CHHHHHHHHHHHH--CCEEECCC
Q ss_conf             32013047711203566774211-----32215641022021441----------4-9899999999840--45788799
Q gi|254780877|r  642 SVSRLIGSPPGYVGYEEGGALTE-----AVRRHPYQVVLFDEIEK----------A-HSDVHNILLQVLD--DGRLTDSQ  703 (853)
Q Consensus       642 ~vs~LiGappGYvG~~~gg~Lte-----~vr~~P~sVil~DEiEK----------a-h~~v~~~llqild--~G~ltd~~  703 (853)
                      -|...||         +|..|..     +-.+.| ++|+.||++-          + ..+|+..+|.+|.  +|+-.|..
T Consensus       241 LVQMfIG---------dGAkLVRDAFaLAKEkaP-~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDGFss~~~  310 (424)
T KOG0652         241 LVQMFIG---------DGAKLVRDAFALAKEKAP-TIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGFSSDDR  310 (424)
T ss_pred             HHHHHHC---------CHHHHHHHHHHHHHCCCC-EEEEEECHHHHCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCC
T ss_conf             7766533---------418899999987533498-389973002323343653123438999999999986048997562


Q ss_pred             CCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHH--CCCCCEEECCCCCHHHHHHHHHHHH
Q ss_conf             9778303315595485126876403267999999999862885772--6668158628899899999999999
Q gi|254780877|r  704 GRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFL--NRLDEIILFEKLRKEDMAKIVRIQL  774 (853)
Q Consensus       704 G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~pefl--nRid~iv~F~~l~~~~~~~i~~~~l  774 (853)
                      =+.+--+|-+=|                            +-|.++  +|+|.-|-|.--+.+...+|..+.-
T Consensus       311 vKviAATNRvDi----------------------------LDPALlRSGRLDRKIEfP~Pne~aRarIlQIHs  355 (424)
T KOG0652         311 VKVIAATNRVDI----------------------------LDPALLRSGRLDRKIEFPHPNEEARARILQIHS  355 (424)
T ss_pred             EEEEEECCCCCC----------------------------CCHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHH
T ss_conf             678852164343----------------------------488886446644443488997789889998864


No 295
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=97.89  E-value=6.7e-05  Score=58.78  Aligned_cols=141  Identities=17%  Similarity=0.259  Sum_probs=75.4

Q ss_pred             CCCCCEEEECCCCCCHHHHHHHHHHHHHCCC-CCH-----HHCCCE---------EEEEEH--HHHHCCCCCCCH-HHHH
Q ss_conf             7778668952887407779999999873489-984-----445743---------788731--354217454202-4545
Q gi|254780877|r  197 RTKNNPVLIGDPGVGKTAIIEGLASRIINGD-IPE-----SLKGKR---------LMALDM--GALIAGAKFRGE-FEER  258 (853)
Q Consensus       197 ~~k~n~~lvGe~GvGKtaive~la~~i~~~~-vp~-----~l~~~~---------i~~ld~--~~l~ag~~~rg~-~e~r  258 (853)
                      |--.--++.|+.|+||++++..+|+.+.-.+ .+.     .-..|+         ++.+..  ..--.|.+-. + ==+.
T Consensus        19 rl~HA~L~~Gp~G~Gk~~~A~~~A~~llC~~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~~g~~~~-~I~idq   97 (325)
T PRK08699         19 RRPNAWLFVGKKGTGKTAFARFAAKALLCETPAPGCKPCGECMSCHLFGQGSHPDFYEITPLADEPENGRKLL-QIKIDA   97 (325)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCCCCCCCC-CCCHHH
T ss_conf             5011797579999789999999999982899988899898888899986599999688513445300166556-676999


Q ss_pred             HHHHHHHHHHC---CCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCC--EEEEEEECHHHHHHHHHCCHHHHHCC
Q ss_conf             89999998607---99769996362773026665543358888765312466--04899744899999730011132023
Q gi|254780877|r  259 LKSLLCEIRSE---DGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGE--LHCIGATTLDEYRKYIEKDPALARRF  333 (853)
Q Consensus       259 ~~~i~~~~~~~---~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~--l~~IgaTT~~Eyrk~iEkD~Al~RRF  333 (853)
                      ++.+.+.+..+   .+.-|..||+.|.+-        ..|+|-|--.|..--  .-+|=.|+.-  .+.   =+.+-.|-
T Consensus        98 iR~l~~~~~~~~~~~~~kV~ii~~ae~mn--------~~aaNaLLK~LEEPp~~~~fiL~t~~~--~~l---lpTI~SRc  164 (325)
T PRK08699         98 VREIIDNVYLTSVRGGLRVILIHPAESMN--------VQAANSLLKVLEEPPPQVVFLLVSHAA--DKV---LPTIKSRC  164 (325)
T ss_pred             HHHHHHHHCCCCCCCCCEEEEECCHHHHC--------HHHHHHHHHHHCCCCCCEEEEEEECCH--HHC---CCHHHHCC
T ss_conf             99999997108656894699985777758--------999999999841788884899987984--646---23398645


Q ss_pred             CEEECCCCCHHHHHHHHH
Q ss_conf             111115777678999999
Q gi|254780877|r  334 QSLLVGEPTVTDTISILR  351 (853)
Q Consensus       334 q~i~V~Eps~~~t~~iL~  351 (853)
                      |.+.+..|+.++....|+
T Consensus       165 ~~~~~~~p~~~~~~~~L~  182 (325)
T PRK08699        165 RKMVLPAPSHEEALAYLR  182 (325)
T ss_pred             CCCCCCCCCHHHHHHHHH
T ss_conf             421089959999999999


No 296
>KOG0744 consensus
Probab=97.86  E-value=0.00064  Score=50.84  Aligned_cols=150  Identities=25%  Similarity=0.328  Sum_probs=94.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCC-CCCCHHHHHHHHHHHHHHHCCCC-EEEEECC
Q ss_conf             689528874077799999998734899844457437887313542174-54202454589999998607997-6999636
Q gi|254780877|r  202 PVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGA-KFRGEFEERLKSLLCEIRSEDGE-IILFIDE  279 (853)
Q Consensus       202 ~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~-~~rg~~e~r~~~i~~~~~~~~~~-~ilfide  279 (853)
                      .+|-|+||.|||++..+|||+..=.-- ..-....+++++-.+|-+-- +--|-.=.+|-.-|+|+.+.+|+ |-+.|||
T Consensus       180 iLlhGPPGTGKTSLCKaLaQkLSIR~~-~~y~~~~liEinshsLFSKWFsESgKlV~kmF~kI~ELv~d~~~lVfvLIDE  258 (423)
T KOG0744         180 ILLHGPPGTGKTSLCKALAQKLSIRTN-DRYYKGQLIEINSHSLFSKWFSESGKLVAKMFQKIQELVEDRGNLVFVLIDE  258 (423)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHEEEEC-CCCCCCEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEHH
T ss_conf             998579998822799999875146523-7644406999704678898871211389999999999971789689998078


Q ss_pred             HHHHCCCCC----CCCCCC---HHHHHHHHHCC---CCEEEEEEECHHHHHHHHHCCHHHHHCCCEE-ECCCCCHHHHHH
Q ss_conf             277302666----554335---88887653124---6604899744899999730011132023111-115777678999
Q gi|254780877|r  280 LHVLVGAGK----TDGAMD---ASNLLKPSLAR---GELHCIGATTLDEYRKYIEKDPALARRFQSL-LVGEPTVTDTIS  348 (853)
Q Consensus       280 ~h~~~gaG~----~~g~~D---aan~LKP~Lar---G~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i-~V~Eps~~~t~~  348 (853)
                      +-.|--|-.    ..-+-|   +-|-|--.|-|   -.=-+|-||..=+  ..|  |-||..|=..+ .|..|+.+.-++
T Consensus       259 VESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK~~~NvliL~TSNl~--~si--D~AfVDRADi~~yVG~Pt~~ai~~  334 (423)
T KOG0744         259 VESLAAARTSASSRNEPSDAIRVVNALLTQLDRLKRYPNVLILATSNLT--DSI--DVAFVDRADIVFYVGPPTAEAIYE  334 (423)
T ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEECCCHH--HHH--HHHHHHHHHHEEECCCCCHHHHHH
T ss_conf             7888999875413799821899999999989986047977999626267--777--888611754211038963999999


Q ss_pred             HHHHHHHH
Q ss_conf             99997898
Q gi|254780877|r  349 ILRGLKER  356 (853)
Q Consensus       349 iL~gl~~~  356 (853)
                      ||++-...
T Consensus       335 IlkscieE  342 (423)
T KOG0744         335 ILKSCIEE  342 (423)
T ss_pred             HHHHHHHH
T ss_conf             99999999


No 297
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=97.85  E-value=0.00027  Score=53.90  Aligned_cols=152  Identities=23%  Similarity=0.352  Sum_probs=86.5

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHCC--CCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCC-
Q ss_conf             29853333357899999996336--777866895288740777999999987348998444574378873135421745-
Q gi|254780877|r  174 NGKLDPVIGRDDEMRRAIQVLSR--RTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAK-  250 (853)
Q Consensus       174 ~GkLDPVIGRe~EI~~~~~iL~r--~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~-  250 (853)
                      ....+-+||-....+++.+.+.+  ...-++++.||+|+||+-++.-+. .+....     .+.-.++++-+.+-.+.- 
T Consensus        74 ~~~~~~LIG~~~~~~~~~eqik~~ap~~~~vLi~GetGtGKel~A~~iH-~~s~r~-----~~~PFI~~NCa~~~en~~~  147 (403)
T COG1221          74 SEALDDLIGESPSLQELREQIKAYAPSGLPVLIIGETGTGKELFARLIH-ALSARR-----AEAPFIAFNCAAYSENLQE  147 (403)
T ss_pred             CHHHHHHHCCCHHHHHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHH-HHHHCC-----CCCCEEEEEHHHHCCCHHH
T ss_conf             2156666356888999999998618999847986688753889999999-861213-----5898799777773767777


Q ss_pred             ----------CCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCC-------------C
Q ss_conf             ----------42024545899999986079976999636277302666554335888876531246-------------6
Q gi|254780877|r  251 ----------FRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARG-------------E  307 (853)
Q Consensus       251 ----------~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG-------------~  307 (853)
                                |-|-.+. =.++++   .++|. +||.||||.+--.|        =-.|--.|..|             +
T Consensus       148 ~eLFG~~kGaftGa~~~-k~Glfe---~A~GG-tLfLDEI~~LP~~~--------Q~kLl~~le~g~~~rvG~~~~~~~d  214 (403)
T COG1221         148 AELFGHEKGAFTGAQGG-KAGLFE---QANGG-TLFLDEIHRLPPEG--------QEKLLRVLEEGEYRRVGGSQPRPVD  214 (403)
T ss_pred             HHHHCCCCCEEECCCCC-CCCHHE---ECCCC-EEEHHHHHHCCHHH--------HHHHHHHHHCCCEEECCCCCCCCCC
T ss_conf             77732000000256678-676420---52797-77656365379858--------9999999871865766888886777


Q ss_pred             EEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHH
Q ss_conf             04899744899999730011132023111115777678
Q gi|254780877|r  308 LHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTD  345 (853)
Q Consensus       308 l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~  345 (853)
                      .|+|+|||-+==++.+.. .-|.||--++.|+=|+..+
T Consensus       215 VRli~AT~~~l~~~~~~g-~dl~~rl~~~~I~LPpLrE  251 (403)
T COG1221         215 VRLICATTEDLEEAVLAG-ADLTRRLNILTITLPPLRE  251 (403)
T ss_pred             CEEEECCCCCHHHHHHHH-CCHHHHHCCCEECCCCHHH
T ss_conf             404513566879998740-5255641675431897243


No 298
>PRK06921 hypothetical protein; Provisional
Probab=97.85  E-value=2.1e-05  Score=62.94  Aligned_cols=118  Identities=19%  Similarity=0.316  Sum_probs=73.9

Q ss_pred             EEEEEECCCCHHHHHHHHHHHHHHCCCC-CCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEH
Q ss_conf             2898726786168899999998723776-530022447740345320130477112035667742113221564102202
Q gi|254780877|r  599 GSFMFLGPTGVGKTELVKSLARLLFDDE-NSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFD  677 (853)
Q Consensus       599 ~~flf~GptGvGKTelak~la~~lf~~~-~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~D  677 (853)
                      .+++|.|++|+|||.||-++|..|.... ...+-+...++...     |-..   |-.++   ...+.++.-  -|+++|
T Consensus       117 ~~l~f~G~~G~GKThLa~aIa~~Ll~~~~~~Vly~~~~~~~~~-----lk~~---~~~~~---~~l~~~~~~--dlLIID  183 (265)
T PRK06921        117 NSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVEGFGD-----LKDD---FDLLE---AKLNRMKKV--EVLFID  183 (265)
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHHHHHCCCEEEEEEHHHHHHH-----HHHH---HHHHH---HHHHHHHCC--CEEEEE
T ss_conf             6279972898988999999999999962971999887999999-----9988---88899---999986329--999982


Q ss_pred             HH-------HHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHH
Q ss_conf             14-------414989999999984045788799977830331559548512687640326799999999
Q gi|254780877|r  678 EI-------EKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGI  739 (853)
Q Consensus       678 Ei-------EKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~  739 (853)
                      .+       |+...-..+.++++++.=.+          .+--+|.|||+.-+.+.+..+.....+.+.
T Consensus       184 DLfk~~~G~e~~te~~~~~lf~iIN~Ry~----------~~kptIiSSNl~~~~L~~i~e~i~SRi~em  242 (265)
T PRK06921        184 DLFKPVNGKPRATEWQIEQTYSVVNYRYL----------NHKPILISSELTIDELLDIDEALGSRIVEM  242 (265)
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHH----------CCCCEEEECCCCHHHHHHHHHHHHHHHHHH
T ss_conf             21223479878988999999999999997----------699989986899899987637988889997


No 299
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=97.84  E-value=0.00028  Score=53.78  Aligned_cols=113  Identities=26%  Similarity=0.365  Sum_probs=83.2

Q ss_pred             HHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCH----HHHHHH--
Q ss_conf             99999963367778668952887407779999999873489984445743788731354217454202----454589--
Q gi|254780877|r  187 MRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGE----FEERLK--  260 (853)
Q Consensus       187 I~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~----~e~r~~--  260 (853)
                      ++-+++.|-.....|.+++|+||||||++...+|+.+..|--  .+..+++.-+|-.+=+|| ..+|-    +-.|+.  
T Consensus       125 ~~~li~~ly~~g~lntLiigpP~~GKTTlLRdiaR~~s~g~~--~~l~kkv~IiDersEIag-~~~gvpq~~~g~R~dVl  201 (308)
T COG3854         125 ANPLIKDLYQNGWLNTLIIGPPQVGKTTLLRDIARLLSDGIN--QFLPKKVGIIDERSEIAG-CLNGVPQHGRGRRMDVL  201 (308)
T ss_pred             CHHHHHHHHHCCCEEEEEECCCCCCHHHHHHHHHHHHHCCCC--CCCCCEEEEEECCCHHHC-CCCCCCHHHHHHHHHHC
T ss_conf             218899998437224699659988707799999998631511--267732899715004303-43588603232210104


Q ss_pred             -------HHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEE
Q ss_conf             -------999998607997699963627730266655433588887653124660489974
Q gi|254780877|r  261 -------SLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGAT  314 (853)
Q Consensus       261 -------~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaT  314 (853)
                             .+|.-+.... +-++.+|||-+..         |+-. +.-++.+| .++|++.
T Consensus       202 d~cpk~~gmmmaIrsm~-PEViIvDEIGt~~---------d~~A-~~ta~~~G-Vkli~Ta  250 (308)
T COG3854         202 DPCPKAEGMMMAIRSMS-PEVIIVDEIGTEE---------DALA-ILTALHAG-VKLITTA  250 (308)
T ss_pred             CCCHHHHHHHHHHHHCC-CCEEEEECCCCHH---------HHHH-HHHHHHCC-CEEEEEE
T ss_conf             65617888999999549-9579983436477---------7999-99998548-5899950


No 300
>KOG0651 consensus
Probab=97.84  E-value=5.8e-05  Score=59.29  Aligned_cols=123  Identities=24%  Similarity=0.452  Sum_probs=73.1

Q ss_pred             HHCCHHHHHHHHHHHH--------HHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCC
Q ss_conf             7459489999999999--------87410123656651289872678616889999999872377653002244774034
Q gi|254780877|r  569 SVIGQSAAVESVSNAL--------RRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEK  640 (853)
Q Consensus       569 ~v~gq~~ai~~v~~~~--------~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~  640 (853)
                      .|-|--..+....+.|        ...+.|++.   |.| .++-||+|.|||-+|+++|..+   .-+++..-+|+.-  
T Consensus       133 ~~ggl~~qirelre~ielpl~np~lf~rvgIk~---Pkg-~ll~GppGtGKTlla~~Vaa~m---g~nfl~v~ss~lv--  203 (388)
T KOG0651         133 NVGGLFYQIRELREVIELPLTNPELFLRVGIKP---PKG-LLLYGPPGTGKTLLARAVAATM---GVNFLKVVSSALV--  203 (388)
T ss_pred             HHCCHHHHHHHHHHHEEEECCCCHHCCCCCCCC---CCE-EEEECCCCCCHHHHHHHHHHHC---CCCEEEEEHHHHH--
T ss_conf             717838888998865574024810023457778---825-6876799986459999999865---9854774476663--


Q ss_pred             CCCCHHHCCCCHHCCCCCCCCCC-----HHHHCCCCCEEEEHHHHH-----------CCHHHHHHHHHHHHCCEEECCCC
Q ss_conf             53201304771120356677421-----132215641022021441-----------49899999999840457887999
Q gi|254780877|r  641 HSVSRLIGSPPGYVGYEEGGALT-----EAVRRHPYQVVLFDEIEK-----------AHSDVHNILLQVLDDGRLTDSQG  704 (853)
Q Consensus       641 ~~vs~LiGappGYvG~~~gg~Lt-----e~vr~~P~sVil~DEiEK-----------ah~~v~~~llqild~G~ltd~~G  704 (853)
                         ++-+|-         .+.|.     .|-...| |++..|||+-           +...|+..|+.++|.=.=.|..|
T Consensus       204 ---~kyiGE---------saRlIRemf~yA~~~~p-ciifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdgfd~l~  270 (388)
T KOG0651         204 ---DKYIGE---------SARLIRDMFRYAREVIP-CIIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDGFDTLH  270 (388)
T ss_pred             ---HHHCCC---------HHHHHHHHHHHHHHHCC-EEEEEHHHHHHCCEEECCCCCHHHHHHHHHHHHHHHHCCCHHCC
T ss_conf             ---300265---------78899999977865275-57751012311457733555205999999999987421401206


Q ss_pred             CEEECCCCEEEECCC
Q ss_conf             778303315595485
Q gi|254780877|r  705 RTVDFRNTLIIMTSN  719 (853)
Q Consensus       705 ~~v~f~n~iii~TsN  719 (853)
                      |      .-+|||+|
T Consensus       271 r------Vk~ImatN  279 (388)
T KOG0651         271 R------VKTIMATN  279 (388)
T ss_pred             C------CCEEEECC
T ss_conf             6------31798538


No 301
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=97.84  E-value=0.00017  Score=55.43  Aligned_cols=174  Identities=17%  Similarity=0.230  Sum_probs=100.7

Q ss_pred             HHHHHHHC-CCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHH-------------CCC--EEEEEEHHHHHCCCCC
Q ss_conf             99999633-6777866895288740777999999987348998444-------------574--3788731354217454
Q gi|254780877|r  188 RRAIQVLS-RRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESL-------------KGK--RLMALDMGALIAGAKF  251 (853)
Q Consensus       188 ~~~~~iL~-r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l-------------~~~--~i~~ld~~~l~ag~~~  251 (853)
                      +++.+.+. .|--.--++.|++|+||++++..+|+.+.-.+ |..-             .|.  -++.++..   .|.+ 
T Consensus        11 ~~l~~~~~~~r~~HA~L~~G~~G~Gk~~la~~~a~~llC~~-~~~~~~Cg~C~sC~l~~~g~HPD~~~i~~~---~~k~-   85 (324)
T PRK06871         11 QQITQTFLQGRGHHALLFKADSGLGTEQLIRALAQWLMCQA-PGDEQPCGQCHSCHLFQAGNHPDFHILEPI---DGKD-   85 (324)
T ss_pred             HHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHCCC-CCCCCCCCCCHHHHHHHCCCCCCEEEEECC---CCCC-
T ss_conf             99999998699543787689999789999999999982899-999998888989999973899987998467---8887-


Q ss_pred             CCHHHHHHHHHHHHHHHC---CCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCC--EEEEEEECHHHHHHHHHCC
Q ss_conf             202454589999998607---99769996362773026665543358888765312466--0489974489999973001
Q gi|254780877|r  252 RGEFEERLKSLLCEIRSE---DGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGE--LHCIGATTLDEYRKYIEKD  326 (853)
Q Consensus       252 rg~~e~r~~~i~~~~~~~---~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~--l~~IgaTT~~Eyrk~iEkD  326 (853)
                      -|  =+-++.+++.+...   .+.-|.+||+.|.+-        ..|+|-|--.|..--  .-+|=.|+.-  .+.   =
T Consensus        86 I~--vd~IR~l~~~~~~~~~~g~~KV~iI~~ae~m~--------~~AaNALLKtLEEPp~~~~fiL~t~~~--~~l---l  150 (324)
T PRK06871         86 IG--VDQVREINEKVSQFAQQGGNKVVYIQGAERLT--------EAAANALLKTLEEPRPNTYFLLQADLS--ASL---L  150 (324)
T ss_pred             CC--HHHHHHHHHHHHHCCCCCCCEEEEECCHHHHH--------HHHHHHHHHHHCCCCCCEEEEEEECCC--CCC---C
T ss_conf             88--99999999998646220596699975888857--------999999999833898783899987870--103---2


Q ss_pred             HHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             1132023111115777678999999978986541496101589999986333202457674778999999
Q gi|254780877|r  327 PALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDE  396 (853)
Q Consensus       327 ~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDe  396 (853)
                      +.+-.|-|.+.+..|+.+++...|+.-.         ...++++..+.++|.      --|-+|+.++.+
T Consensus       151 ~TI~SRCq~~~~~~p~~~~~~~wL~~~~---------~~~~~~~~~al~~~~------g~pl~A~~~~~~  205 (324)
T PRK06871        151 ATIYSRCQTWLIHVPEEQIALDWLQAQS---------SGEIQEIQTALRINY------GRPLLALTFLEQ  205 (324)
T ss_pred             CHHHHCCCCEECCCCCHHHHHHHHHHHC---------CCCHHHHHHHHHHCC------CCHHHHHHHHCC
T ss_conf             4086266120089949999999999746---------887299999999769------987999998687


No 302
>pfam07724 AAA_2 AAA domain (Cdc48 subfamily). This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.
Probab=97.82  E-value=0.00011  Score=57.19  Aligned_cols=94  Identities=27%  Similarity=0.384  Sum_probs=63.3

Q ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHC--------C--CCCCCHHHHHHHHHHHHHH
Q ss_conf             77866895288740777999999987348998444574378873135421--------7--4542024545899999986
Q gi|254780877|r  198 TKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIA--------G--AKFRGEFEERLKSLLCEIR  267 (853)
Q Consensus       198 ~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~a--------g--~~~rg~~e~r~~~i~~~~~  267 (853)
                      -..|.+++|++|||||.++..||..+-.+..       .++.+|++.+..        |  ..|.|-=|..  .+.+.+.
T Consensus         2 p~~~~l~~GPsGvGKT~lAk~la~~l~~~~~-------~~i~~dm~e~~~~~~v~~l~g~~~gyvg~~~~G--~l~~~v~   72 (168)
T pfam07724         2 PIGSFLFLGPTGVGKTELAKALAELLFGDER-------ALIRIDMSEYMEEHSVSRLIGAPPGYVGYEEGG--QLTEAVR   72 (168)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHCCCCC-------CEEEECCCCCCCHHHHHHHCCCCCCCCCCCCCC--CHHHHHH
T ss_conf             8379998898998999999999999679853-------448855756542569998705899872624265--0789998


Q ss_pred             HCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEE
Q ss_conf             079976999636277302666554335888876531246604
Q gi|254780877|r  268 SEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELH  309 (853)
Q Consensus       268 ~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~  309 (853)
                      ..+ +-|+|+|||.-.        ..++-|.|-+.|..|.++
T Consensus        73 ~~p-~~VillDEIeKa--------~~~V~~~LL~ild~g~~~  105 (168)
T pfam07724        73 RKP-YSIVLIDEIEKA--------HPGVQNDLLQILEGGTLT  105 (168)
T ss_pred             HCC-CCEEEEHHHHHH--------CHHHHHHHHHHCCCCCEE
T ss_conf             389-848986577665--------899999999870587063


No 303
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=97.81  E-value=0.00018  Score=55.38  Aligned_cols=163  Identities=18%  Similarity=0.255  Sum_probs=97.7

Q ss_pred             CCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHH------C-----------CCEEEEEEHHHHHCCCCCCCHHHHHHHHH
Q ss_conf             866895288740777999999987348998444------5-----------74378873135421745420245458999
Q gi|254780877|r  200 NNPVLIGDPGVGKTAIIEGLASRIINGDIPESL------K-----------GKRLMALDMGALIAGAKFRGEFEERLKSL  262 (853)
Q Consensus       200 ~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l------~-----------~~~i~~ld~~~l~ag~~~rg~~e~r~~~i  262 (853)
                      ..-++.|++|+||.+++..+|+.+.-.+ |...      .           |.+++.-+-    +|.+- |  =+.++.+
T Consensus        25 HA~L~~G~~G~Gk~~la~~~a~~llC~~-~~~~~~Cg~C~~C~l~~~~~HPD~~~i~pe~----~~~~I-~--IdqIR~l   96 (334)
T PRK07993         25 HALLIQALPGMGDDALIYALSRYLLCQQ-PQGHKSCGHCRGCQLMQAGTHPDYYTLTPEK----GKSSL-G--VDAVREV   96 (334)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHCCCC-CCCCCCCCCCHHHHHHHCCCCCCEEEECCCC----CCCCC-C--HHHHHHH
T ss_conf             4675479999889999999999981899-9999999999789998668999847753422----34559-9--9999999


Q ss_pred             HHHHHHC---CCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHCCCEEECC
Q ss_conf             9998607---9976999636277302666554335888876531246604899744899999730011132023111115
Q gi|254780877|r  263 LCEIRSE---DGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGATTLDEYRKYIEKDPALARRFQSLLVG  339 (853)
Q Consensus       263 ~~~~~~~---~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~  339 (853)
                      .+.+..+   .+.-|.+||+.+.+        ...|||-|-=.|..-.=.++---+.+.+...   -+-+-.|-|.+.+.
T Consensus        97 ~~~~~~~~~~g~~kV~iI~~Ae~m--------n~~AaNaLLKtLEEPp~~t~~iL~t~~~~~l---LpTI~SRCq~~~~~  165 (334)
T PRK07993         97 TEKLYEHARLGGAKVVWLPDAALL--------TDAAANALLKTLEEPPEKTWFFLACREPARL---LATLRSRCRLHYLA  165 (334)
T ss_pred             HHHHHHCCCCCCCEEEEECCHHHH--------CHHHHHHHHHHHCCCCCCEEEEEECCCHHHC---CCHHHHHCCCCCCC
T ss_conf             999843665699479997667775--------9999999998612799884999866985657---23887523041589


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             777678999999978986541496101589999986333202457674778999999
Q gi|254780877|r  340 EPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDE  396 (853)
Q Consensus       340 Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDe  396 (853)
                      .|+.+++...|..-         +..+++....++.+|.--      |-+|.++++.
T Consensus       166 ~~~~~~~~~wL~~~---------~~~~~~~~~~al~la~Gs------pl~A~~l~~~  207 (334)
T PRK07993        166 PPPEQYALTWLSRE---------VTMSQEALLAALRLSAGA------PGAALALLQP  207 (334)
T ss_pred             CCCHHHHHHHHHHH---------CCCCHHHHHHHHHHCCCC------HHHHHHHHCC
T ss_conf             97999999999873---------689889999999984998------9999998256


No 304
>PRK07276 DNA polymerase III subunit delta'; Validated
Probab=97.81  E-value=0.00048  Score=51.86  Aligned_cols=120  Identities=20%  Similarity=0.278  Sum_probs=68.2

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCC--CCCCCHHHHCCCCCCCH-HHCC
Q ss_conf             48999999999987410123656651289872678616889999999872377653--00224477403453201-3047
Q gi|254780877|r  573 QSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENS--MIRIDMSEYMEKHSVSR-LIGS  649 (853)
Q Consensus       573 q~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~--lir~dMsey~e~~~vs~-LiGa  649 (853)
                      |+.+++.+.+++...|        ---.|||.|  |+||+.+|+.+|..|+-.+..  .-.-.+...      .+ .-|.
T Consensus         7 Qp~i~~~l~~~i~~~r--------l~HAyLf~G--~~Gk~~~A~~~A~~l~C~~~~~~~pCg~C~~C------~~i~~~~   70 (290)
T PRK07276          7 QPKLFQRFQTILEQDR--------LNHAYLFSG--DFASFEMALFLAQSLFCEQKEDVLPCGHCRSC------RLIEQGD   70 (290)
T ss_pred             HHHHHHHHHHHHHCCC--------CCEEEECCC--CCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHH------HHHHCCC
T ss_conf             8999999999998499--------650542169--86879999999999818999998989889999------9987699


Q ss_pred             CCHHCC-CCCCC-CCCHHHH-------CCC----CCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEE
Q ss_conf             711203-56677-4211322-------156----4102202144149899999999840457887999778303315595
Q gi|254780877|r  650 PPGYVG-YEEGG-ALTEAVR-------RHP----YQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIM  716 (853)
Q Consensus       650 ppGYvG-~~~gg-~Lte~vr-------~~P----~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~  716 (853)
                      .|-+.- ..+|. .=++.||       ..|    |-|+.+|+.|+.+++-.|.||-.|+|--           .|++||+
T Consensus        71 hpDv~~i~~~~~~I~vd~IR~l~~~~~~~~~~g~~KV~II~~Ad~mt~~AaNaLLK~LEEPp-----------~~t~~iL  139 (290)
T PRK07276         71 FSDVTVIEPQGQVIKTDTIRELTANFSQSGYEGKRQVFIIKDADKMHVNAANSLLKVIEEPQ-----------SEIYIFL  139 (290)
T ss_pred             CCCCEEECCCCCCCCHHHHHHHHHHHHHCCCCCCEEEEEECCHHHCCHHHHHHHHHHHCCCC-----------CCCEEEE
T ss_conf             98713771677757688999999998445613782799977656529999999999703898-----------8837998


Q ss_pred             CCC
Q ss_conf             485
Q gi|254780877|r  717 TSN  719 (853)
Q Consensus       717 TsN  719 (853)
                      +|+
T Consensus       140 lt~  142 (290)
T PRK07276        140 LTN  142 (290)
T ss_pred             EEC
T ss_conf             879


No 305
>KOG0740 consensus
Probab=97.77  E-value=0.00054  Score=51.43  Aligned_cols=180  Identities=24%  Similarity=0.297  Sum_probs=91.1

Q ss_pred             HCCHHHHHHHHHHHHHHHHC---CCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHH
Q ss_conf             45948999999999987410---123656651289872678616889999999872377653002244774034532013
Q gi|254780877|r  570 VIGQSAAVESVSNALRRFRA---GLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRL  646 (853)
Q Consensus       570 v~gq~~ai~~v~~~~~~~~~---gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~L  646 (853)
                      +-|.+.|-..+-.++...-.   .+..-+.|..+.|+.||+|+|||-|++++|-..--   .+  ||-       |.|-|
T Consensus       155 i~gl~~~k~~l~e~vi~p~lr~d~F~glr~p~rglLLfGPpgtGKtmL~~aiAsE~~a---tf--f~i-------SassL  222 (428)
T KOG0740         155 IAGLEDAKQSLKEAVILPLLRPDLFLGLREPVRGLLLFGPPGTGKTMLAKAIATESGA---TF--FNI-------SASSL  222 (428)
T ss_pred             CCCHHHHHHHHHHHHHHCCCCHHHHHCCCCCCCHHHEECCCCCCHHHHHHHHHHHHCC---EE--EEC-------CHHHH
T ss_conf             7405668998654232204553765235445311120058988447999999862066---57--630-------68886


Q ss_pred             HCCCCHHCCCCCC-CCCCHHH-HCCCCCEEEEHHHHH--------CCHHH----HHHHHHHHHCCEEECCCCCEEECCCC
Q ss_conf             0477112035667-7421132-215641022021441--------49899----99999984045788799977830331
Q gi|254780877|r  647 IGSPPGYVGYEEG-GALTEAV-RRHPYQVVLFDEIEK--------AHSDV----HNILLQVLDDGRLTDSQGRTVDFRNT  712 (853)
Q Consensus       647 iGappGYvG~~~g-g~Lte~v-r~~P~sVil~DEiEK--------ah~~v----~~~llqild~G~ltd~~G~~v~f~n~  712 (853)
                      .+-   |||-.|- +....+| |..-+|||..|||++        +|+..    ..+|+|..  |..+-...      +.
T Consensus       223 tsK---~~Ge~eK~vralf~vAr~~qPsvifidEidslls~Rs~~e~e~srr~ktefLiq~~--~~~s~~~d------rv  291 (428)
T KOG0740         223 TSK---YVGESEKLVRALFKVARSLQPSVIFIDEIDSLLSKRSDNEHESSRRLKTEFLLQFD--GKNSAPDD------RV  291 (428)
T ss_pred             HHH---CCCHHHHHHHHHHHHHHHCCCEEEEECHHHHHHHHCCCCCCCCCHHHHHHHHHHHC--CCCCCCCC------EE
T ss_conf             532---46707789999999987139708984025678863687545445556557776540--44578887------07


Q ss_pred             EEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECH
Q ss_conf             55954851268764032679999999998628857726668158628899899999999999999999985798999988
Q gi|254780877|r  713 LIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDD  792 (853)
Q Consensus       713 iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~  792 (853)
                      ++|-|||.        +.+..+    +++.        |+..++.+..-+.+....+....|       .++  .-.+++
T Consensus       292 lvigaTN~--------P~e~De----a~~R--------rf~kr~yiplPd~etr~~~~~~ll-------~~~--~~~l~~  342 (428)
T KOG0740         292 LVIGATNR--------PWELDE----AARR--------RFVKRLYIPLPDYETRSLLWKQLL-------KEQ--PNGLSD  342 (428)
T ss_pred             EEEECCCC--------CHHHHH----HHHH--------HHCCEEEECCCCHHHHHHHHHHHH-------HHC--CCCCCH
T ss_conf             99815888--------367788----8888--------710315535988789999999999-------768--787417


Q ss_pred             HHHHHHHHC
Q ss_conf             999999970
Q gi|254780877|r  793 QVIDWLSCR  801 (853)
Q Consensus       793 ~~~~~l~~~  801 (853)
                      .-++.|++.
T Consensus       343 ~d~~~l~~~  351 (428)
T KOG0740         343 LDISLLAKV  351 (428)
T ss_pred             HHHHHHHHH
T ss_conf             789999988


No 306
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=97.76  E-value=0.0011  Score=49.00  Aligned_cols=77  Identities=27%  Similarity=0.492  Sum_probs=43.0

Q ss_pred             EEEEEECCCCHHHHHHHHHHHH-HH--CCCC-CCCCCCCHH---HHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHC-CC
Q ss_conf             2898726786168899999998-72--3776-530022447---740345320130477112035667742113221-56
Q gi|254780877|r  599 GSFMFLGPTGVGKTELVKSLAR-LL--FDDE-NSMIRIDMS---EYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRR-HP  670 (853)
Q Consensus       599 ~~flf~GptGvGKTelak~la~-~l--f~~~-~~lir~dMs---ey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~-~P  670 (853)
                      ++++|+||||||||.++-.||- +.  +|.. -+||.+|--   -.-.=.+.++++|-| =||=++. ..|.+++.+ ..
T Consensus       195 ~vi~lvGPTGVGKTTTiAKLAa~~~l~~~~~~V~lIT~DtyRigA~eQLk~ya~il~vp-~~vv~~~-~~l~~~l~~~~~  272 (282)
T TIGR03499       195 GVIALVGPTGVGKTTTLAKLAARFVLEHGKKKVALITTDTYRIGAVEQLKTYAKILGVP-VKVARDP-KELAKALERLRD  272 (282)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCE-EEEECCH-HHHHHHHHHCCC
T ss_conf             27999778887578899999999999738996799980777678999999999995974-8993999-999999986579


Q ss_pred             CCEEEEH
Q ss_conf             4102202
Q gi|254780877|r  671 YQVVLFD  677 (853)
Q Consensus       671 ~sVil~D  677 (853)
                      +-+||.|
T Consensus       273 ~d~IlID  279 (282)
T TIGR03499       273 KDLILID  279 (282)
T ss_pred             CCEEEEE
T ss_conf             8999981


No 307
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=97.75  E-value=0.00029  Score=53.63  Aligned_cols=163  Identities=18%  Similarity=0.257  Sum_probs=94.2

Q ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCC----CE---------EEEEEHHHHHCCCCCCCHHHHHHHHHHH
Q ss_conf             7786689528874077799999998734899844457----43---------7887313542174542024545899999
Q gi|254780877|r  198 TKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKG----KR---------LMALDMGALIAGAKFRGEFEERLKSLLC  264 (853)
Q Consensus       198 ~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~----~~---------i~~ld~~~l~ag~~~rg~~e~r~~~i~~  264 (853)
                      --+--++.|++|+||++++..+|+.+.-.+-+..-.|    ++         ++.+...   .+.+.-  -=+.++.+.+
T Consensus        24 l~HA~L~~g~~G~Gk~~la~~la~~LlC~~~~~~~Cg~C~sC~l~~~g~HPD~~~i~pe---~~~k~I--~vd~IR~l~~   98 (319)
T PRK06090         24 IPGALLLQSDEGLGVESLVELFSHALLCQNYQSEACGFCHSCELMKSGNHPDLHVIKPE---KEGKSI--TVEQIRQCNR   98 (319)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHCCCCCCCEEEECC---CCCCCC--CHHHHHHHHH
T ss_conf             63067667999857999999999998089999998877877999875899982366123---356768--7999999999


Q ss_pred             HHHHC---CCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC--CCEEEEEEECHHHHHHHHHCCHHHHHCCCEEECC
Q ss_conf             98607---997699963627730266655433588887653124--6604899744899999730011132023111115
Q gi|254780877|r  265 EIRSE---DGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR--GELHCIGATTLDEYRKYIEKDPALARRFQSLLVG  339 (853)
Q Consensus       265 ~~~~~---~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar--G~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~  339 (853)
                      .+..+   .|.-|.+||+.|.+        +..|+|-|--.|..  +.--+|=.|+.-  .+.   =+.+-.|-|++.+.
T Consensus        99 ~~~~~~~~g~~KV~iI~~ae~m--------~~~AaNALLKtLEEPp~~t~fiL~t~~~--~~l---l~TI~SRCq~~~l~  165 (319)
T PRK06090         99 LAQESSQLGGYRLFVIEPADAM--------NESASNALLKTLEEPAPNCLFLLVTHNQ--KRL---LPTIVSRCQQWVVT  165 (319)
T ss_pred             HHHHCCCCCCCEEEEECCHHHC--------CHHHHHHHHHHHCCCCCCEEEEEEECCH--HHC---CCCHHHCCCCCCCC
T ss_conf             9754521069369998144434--------9999999999842899883899876851--208---64187614450289


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             777678999999978986541496101589999986333202457674778999999
Q gi|254780877|r  340 EPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDE  396 (853)
Q Consensus       340 Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDe  396 (853)
                      .|+.+++...|..        +++...+.|    .+++    .+  -|=+|++++..
T Consensus       166 ~p~~~~~~~WL~~--------q~~~~~~~a----L~l~----~g--~Pl~a~~~l~~  204 (319)
T PRK06090        166 PPSTDQAMQWLKG--------QGISVPAYA----LKLN----MG--SPLKTLAMMKE  204 (319)
T ss_pred             CCCHHHHHHHHHH--------HCCCCHHHH----HHHC----CC--CCHHHHHHHCC
T ss_conf             9599999999988--------487557999----9884----99--94999998638


No 308
>COG3899 Predicted ATPase [General function prediction only]
Probab=97.75  E-value=0.00012  Score=56.63  Aligned_cols=49  Identities=24%  Similarity=0.580  Sum_probs=43.1

Q ss_pred             CCCCHHHHHHHHHHHHCCCCCCC---EEEECCCCCCHHHHHHHHHHHHHCCC
Q ss_conf             33335789999999633677786---68952887407779999999873489
Q gi|254780877|r  179 PVIGRDDEMRRAIQVLSRRTKNN---PVLIGDPGVGKTAIIEGLASRIINGD  227 (853)
Q Consensus       179 PVIGRe~EI~~~~~iL~r~~k~n---~~lvGe~GvGKtaive~la~~i~~~~  227 (853)
                      |++||+.|+.++.+.++|..+..   .+++|++|.|||+||..+..+|....
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~   52 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQR   52 (849)
T ss_pred             CCCCHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCHHHHHHHHHHHHHCCC
T ss_conf             9787076899999999998377716999875587748999999999874240


No 309
>KOG1969 consensus
Probab=97.75  E-value=0.00038  Score=52.62  Aligned_cols=88  Identities=20%  Similarity=0.269  Sum_probs=59.4

Q ss_pred             CCCHHHHHHHHHHHHCCC-CCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHH
Q ss_conf             333578999999963367-7786689528874077799999998734899844457437887313542174542024545
Q gi|254780877|r  180 VIGRDDEMRRAIQVLSRR-TKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEER  258 (853)
Q Consensus       180 VIGRe~EI~~~~~iL~r~-~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r  258 (853)
                      --++++|+-.+.--.++| .|.=.+|-|+||.|||++++-.|..          .|+++++++.+-==+    --.+++|
T Consensus       306 ~~~~~ke~~~~~~~~s~RP~kKilLL~GppGlGKTTLAHViAkq----------aGYsVvEINASDeRt----~~~v~~k  371 (877)
T KOG1969         306 KGPTEKEVLDMELDPSKRPPKKILLLCGPPGLGKTTLAHVIAKQ----------AGYSVVEINASDERT----APMVKEK  371 (877)
T ss_pred             CCCCHHHHHHCCCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHH----------CCCEEEEECCCCCCC----HHHHHHH
T ss_conf             46643455632468667984006875368878724799999986----------285488732555434----7889999


Q ss_pred             HHHHHHHHHHC---CCCEEEEECCHH
Q ss_conf             89999998607---997699963627
Q gi|254780877|r  259 LKSLLCEIRSE---DGEIILFIDELH  281 (853)
Q Consensus       259 ~~~i~~~~~~~---~~~~ilfide~h  281 (853)
                      +-+.+.--..-   ..++-|.||||-
T Consensus       372 I~~avq~~s~l~adsrP~CLViDEID  397 (877)
T KOG1969         372 IENAVQNHSVLDADSRPVCLVIDEID  397 (877)
T ss_pred             HHHHHHHCCCCCCCCCCCEEEEECCC
T ss_conf             99988641122568886359984246


No 310
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit ClpA; InterPro: IPR013461    Proteins in this entry are related to ClpA () from Escherichia coli. ClpA is an ATP-dependent chaperone and part of the ClpAP protease that participates in regulatory protein degradation and the dissolution and degradation of protein aggregates . ClpA recognises sequences in specific proteins, which it then unfolds in an ATP-dependent manner and transports into the degradation chamber of the associated ClpP protein , . A small adaptor-like protein, ClpS, modulates the activity of ClpA and is an important regulatory factor for this protein . It protects ClpA from autodegradation and appears to redirect its activity away from soluble proteins and toward aggregated proteins..
Probab=97.74  E-value=0.00014  Score=56.15  Aligned_cols=178  Identities=24%  Similarity=0.447  Sum_probs=110.6

Q ss_pred             HCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCC-C-------CCCCCCCHHHHCCCC
Q ss_conf             45948999999999987410123656651289872678616889999999872377-6-------530022447740345
Q gi|254780877|r  570 VIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDD-E-------NSMIRIDMSEYMEKH  641 (853)
Q Consensus       570 v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~-~-------~~lir~dMsey~e~~  641 (853)
                      +||-+.-++...+-+-|     +..|=|    ||+|=+|||||-+|-=||.-...+ .       ..+-.+||+..    
T Consensus       210 LIGRE~EleRtiQvLCR-----R~KNNP----l~VGEPGVGKTAI~EGLA~~I~~~~kvPe~Lkn~~IY~LDmG~L----  276 (774)
T TIGR02639       210 LIGREDELERTIQVLCR-----RKKNNP----LLVGEPGVGKTAIVEGLAQRIAEGQKVPEVLKNAKIYSLDMGTL----  276 (774)
T ss_pred             CCCCHHHHHHHHHHHCC-----CCCCCC----CEECCCCCCHHHHHHHHHHHHHCCCCCCHHHCCCCEEEECHHHH----
T ss_conf             34566887423332034-----567887----20448886448999999998641564670024783454043456----


Q ss_pred             CCCHHHCCCCHHCC-CCCC-CCCCHHHHCCCCC-EEEEHHHHH---------CCHHHHHHHHHHHHCCEEECCCCCEEEC
Q ss_conf             32013047711203-5667-7421132215641-022021441---------4989999999984045788799977830
Q gi|254780877|r  642 SVSRLIGSPPGYVG-YEEG-GALTEAVRRHPYQ-VVLFDEIEK---------AHSDVHNILLQVLDDGRLTDSQGRTVDF  709 (853)
Q Consensus       642 ~vs~LiGappGYvG-~~~g-g~Lte~vr~~P~s-Vil~DEiEK---------ah~~v~~~llqild~G~ltd~~G~~v~f  709 (853)
                          |=|+  =|=| |++- =.-.+-|.+.|.. |+..|||+=         .|=|-=|+|=-+|.+|.|.     .   
T Consensus       277 ----LAGT--KYRGDFE~RLK~V~~Ei~~~~~anILFIDEIHTIVGAGATSGGsmDASNLLKPaL~~G~iR-----C---  342 (774)
T TIGR02639       277 ----LAGT--KYRGDFEERLKAVVSEIEKEPNANILFIDEIHTIVGAGATSGGSMDASNLLKPALASGKIR-----C---  342 (774)
T ss_pred             ----HHHC--CCCCHHHHHHHHHHHHHHCCCCCCEEEEECCCCEEECCCCCCHHHHHHHHHHHHHHCCCEE-----E---
T ss_conf             ----4102--4542478999999999852899954664110103317878751552443211253078778-----6---


Q ss_pred             CCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCC--HHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCE
Q ss_conf             331559548512687640326799999999986288--577266681586288998999999999999999999857989
Q gi|254780877|r  710 RNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFK--PEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNIS  787 (853)
Q Consensus       710 ~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~--peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~  787 (853)
                                +||.-.            ++-+++|-  -.|--|+..|=+=.| |.++-.+|+    +.|..+.+. --.
T Consensus       343 ----------IGsTTy------------~EY~~~FeKDrALsRRFQKIDv~EP-s~eet~~IL----kGLk~~YE~-fH~  394 (774)
T TIGR02639       343 ----------IGSTTY------------EEYKNHFEKDRALSRRFQKIDVGEP-SIEETVKIL----KGLKEQYEE-FHH  394 (774)
T ss_pred             ----------ECCCCH------------HHHHCHHHCCCCCCCCCCEECCCCC-CHHHHHHHH----HHHHHHHHC-CCC
T ss_conf             ----------226524------------8641110102021654233117957-888999999----865542013-250


Q ss_pred             EEECHHHHHHHHHCC
Q ss_conf             999889999999708
Q gi|254780877|r  788 MDFDDQVIDWLSCRG  802 (853)
Q Consensus       788 l~~~~~~~~~l~~~~  802 (853)
                      +.|++++++.-|+.+
T Consensus       395 V~Y~~eal~~Av~LS  409 (774)
T TIGR02639       395 VKYSDEALEAAVELS  409 (774)
T ss_pred             EECCHHHHHHHHHHH
T ss_conf             113869999999998


No 311
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=97.73  E-value=0.0049  Score=43.65  Aligned_cols=162  Identities=21%  Similarity=0.333  Sum_probs=99.5

Q ss_pred             HHHCC-HHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCC--C---CCCCHHHHCC-C
Q ss_conf             67459-48999999999987410123656651289872678616889999999872377653--0---0224477403-4
Q gi|254780877|r  568 KSVIG-QSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENS--M---IRIDMSEYME-K  640 (853)
Q Consensus       568 ~~v~g-q~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~--l---ir~dMsey~e-~  640 (853)
                      .+++| |++++..+.+++...|        .--++||.||.|+||+.+|+++|+.|...+..  .   ..-.+.-+.. .
T Consensus         5 ~~~~~~Q~~i~~~L~~~i~~~r--------l~HA~Lf~Gp~G~GK~~~A~~~A~~LlC~~~~~~~~Cg~C~~C~~~~~~~   76 (329)
T PRK08058          5 EQLTALQPIVVKMLQNSIAKNR--------LAHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIESGN   76 (329)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCC--------CCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCC
T ss_conf             8888318999999999998599--------66156557899988999999999997399999999887888999987699


Q ss_pred             CCCCHHHCCCCH-HCCCCCCCCCCHHHHCCCC----CEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEE
Q ss_conf             532013047711-2035667742113221564----10220214414989999999984045788799977830331559
Q gi|254780877|r  641 HSVSRLIGSPPG-YVGYEEGGALTEAVRRHPY----QVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLII  715 (853)
Q Consensus       641 ~~vs~LiGappG-YvG~~~gg~Lte~vr~~P~----sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii  715 (853)
                      |.=-..+ .|-| -++-|+=-.|.+.+..+|+    -|+++|+.|+.+.+-.|.||-.|+|=-           .+|+||
T Consensus        77 HPD~~~i-~p~~~~i~idqiR~L~~~~~~~p~~g~~KV~II~~Ae~m~~~AaNALLKtLEEPp-----------~~t~fI  144 (329)
T PRK08058         77 HPDVHLV-APDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPS-----------GDTTAI  144 (329)
T ss_pred             CCCEEEE-CCCCCCCCHHHHHHHHHHHCCCCCCCCCEEEEEECHHHHCHHHHHHHHHHHHCCC-----------CCCEEE
T ss_conf             9976774-5661407799999999996438757886799973477629999999999864689-----------786799


Q ss_pred             ECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHH
Q ss_conf             5485126876403267999999999862885772666815862889989999999
Q gi|254780877|r  716 MTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIV  770 (853)
Q Consensus       716 ~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~  770 (853)
                      ++|+--.                    ...|-.+.|. .++.|.|++.+++...+
T Consensus       145 L~t~~~~--------------------~lLpTI~SRC-q~i~f~~~~~~~i~~~L  178 (329)
T PRK08058        145 LLTENKH--------------------QILPTILSRC-QVVEFRPLPPESLIQRL  178 (329)
T ss_pred             EEECCHH--------------------HHHHHHHHCC-EEEECCCCCHHHHHHHH
T ss_conf             8729966--------------------6436886314-25658899999999999


No 312
>pfam05729 NACHT NACHT domain. This NTPase domain is found in apoptosis proteins as well as those involved in MHC transcription activation. This family is closely related to pfam00931.
Probab=97.73  E-value=0.0024  Score=46.15  Aligned_cols=140  Identities=21%  Similarity=0.226  Sum_probs=81.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHH-----------HHHHHHHHHHCC
Q ss_conf             689528874077799999998734899844457437887313542174542024545-----------899999986079
Q gi|254780877|r  202 PVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEER-----------LKSLLCEIRSED  270 (853)
Q Consensus       202 ~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r-----------~~~i~~~~~~~~  270 (853)
                      +++.|+||+|||+++.-+|...++|+.+..  ...++-+.+..+-. .+.. -+++-           ...+...+...+
T Consensus         3 i~i~G~aG~GKTtll~kl~~~wa~g~~~~~--~~~vf~~~~r~~~~-~~~~-sl~~ll~~~~~~~~~~~~~~~~~~~~~~   78 (165)
T pfam05729         3 VILQGEAGSGKTTLLQKLALLWAQGKLPQD--FDFVFFLPCRELSR-SGEA-SLADLLFSQWPEPAAPVSEVWAVILELP   78 (165)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHCCCCCCC--CCEEEEEEHHHHCC-CCCC-CHHHHHHHHCCCCCCCHHHHHHHHHHCC
T ss_conf             999827989899999999999986984369--72899999567077-7668-9999999876774576378999998397


Q ss_pred             CCEEEEECCHHHHCCCCCC-CCCCC----HHHHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHH
Q ss_conf             9769996362773026665-54335----888876531246604899744899999730011132023111115777678
Q gi|254780877|r  271 GEIILFIDELHVLVGAGKT-DGAMD----ASNLLKPSLARGELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTD  345 (853)
Q Consensus       271 ~~~ilfide~h~~~gaG~~-~g~~D----aan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~  345 (853)
                      +++.+.+|.+.-+-..-.. +....    .+|+|+..+-.+ -+++-+|.|.-|++    .+..-+.|+.+.|..-|.++
T Consensus        79 ~k~L~ilDGlDE~~~~~~~~~~~~~~~~~l~~ll~~~~lp~-~~vliTsRp~~~~~----l~~~~~~~~~~ei~GFs~~~  153 (165)
T pfam05729        79 ERVLLILDGLDELASDLGQLDGPLPVLTLLSSLLRKKLLPG-ASLLLTSRPDALRD----LRRGLEEPRYLEVLGFSEED  153 (165)
T ss_pred             CCEEEEECCHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCC-CEEEEEECCCHHHH----HHHHCCCCCEEEECCCCHHH
T ss_conf             72899964845514443564445779999999984152788-64999968037988----57764887189988999999


Q ss_pred             HHHHH
Q ss_conf             99999
Q gi|254780877|r  346 TISIL  350 (853)
Q Consensus       346 t~~iL  350 (853)
                      -..-+
T Consensus       154 ~~~yi  158 (165)
T pfam05729       154 RKQYV  158 (165)
T ss_pred             HHHHH
T ss_conf             99999


No 313
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=97.72  E-value=0.00062  Score=50.92  Aligned_cols=212  Identities=19%  Similarity=0.392  Sum_probs=114.9

Q ss_pred             HHHHHHCCHHH-HHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCC--CCCCHHHHCCCC
Q ss_conf             47767459489-999999999874101236566512898726786168899999998723776530--022447740345
Q gi|254780877|r  565 EISKSVIGQSA-AVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSM--IRIDMSEYMEKH  641 (853)
Q Consensus       565 ~l~~~v~gq~~-ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~l--ir~dMsey~e~~  641 (853)
                      ....-|+|-.. ...+++.++..      .|.+|-.-+++.||+|.|||.|..++.........+.  +-+.-+.|....
T Consensus        85 tFdnFv~g~~N~~A~aa~~~va~------~~g~~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~~~  158 (408)
T COG0593          85 TFDNFVVGPSNRLAYAAAKAVAE------NPGGAYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDF  158 (408)
T ss_pred             CHHHEEECCCHHHHHHHHHHHHH------CCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHHHHH
T ss_conf             55422047744999999999875------668868957998799997899999999999862998648850489989999


Q ss_pred             CCCHHHCCCCHHCCCCCCCCCCHHHHCC-CCCEEEEHHHHHCCH------HHHHHHHHHHHCCEEECCCCCEEECCCCEE
Q ss_conf             3201304771120356677421132215-641022021441498------999999998404578879997783033155
Q gi|254780877|r  642 SVSRLIGSPPGYVGYEEGGALTEAVRRH-PYQVVLFDEIEKAHS------DVHNILLQVLDDGRLTDSQGRTVDFRNTLI  714 (853)
Q Consensus       642 ~vs~LiGappGYvG~~~gg~Lte~vr~~-P~sVil~DEiEKah~------~v~~~llqild~G~ltd~~G~~v~f~n~ii  714 (853)
                       |+-+-.          ++  ++.-|++ -.-++|+|.|+--..      ..|++|=.+.++|.              -|
T Consensus       159 -v~a~~~----------~~--~~~Fk~~y~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~k--------------qI  211 (408)
T COG0593         159 -VKALRD----------NE--MEKFKEKYSLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGK--------------QI  211 (408)
T ss_pred             -HHHHHH----------HH--HHHHHHHHCCCEEEECHHHHHCCCHHHHHHHHHHHHHHHHCCC--------------EE
T ss_conf             -999885----------04--8888876426735551386756771579999999998885088--------------79


Q ss_pred             EECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCC--CEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECH
Q ss_conf             954851268764032679999999998628857726668--158628899899999999999999999985798999988
Q gi|254780877|r  715 IMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLD--EIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDD  792 (853)
Q Consensus       715 i~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid--~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~  792 (853)
                      ++||.---       .+.         ..+.|.+..|+.  -++.-.|++.+....|+.+       +...++  +.+++
T Consensus       212 vltsdr~P-------~~l---------~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~k-------ka~~~~--~~i~~  266 (408)
T COG0593         212 VLTSDRPP-------KEL---------NGLEDRLRSRLEWGLVVEIEPPDDETRLAILRK-------KAEDRG--IEIPD  266 (408)
T ss_pred             EEECCCCC-------HHH---------CCCCHHHHHHHHCEEEEEECCCCHHHHHHHHHH-------HHHHCC--CCCCH
T ss_conf             99707883-------221---------103588998986305775279888999999999-------998658--88887


Q ss_pred             HHHHHHHHCCCCCCCCCHHHHHHHHH----------HHHHHHHHHHHCCCCCCCC
Q ss_conf             99999997089822062157999998----------7334999999708688978
Q gi|254780877|r  793 QVIDWLSCRGYDPSYGARPLKRVIQR----------YIQNPLAERVLSQTISDGD  837 (853)
Q Consensus       793 ~~~~~l~~~~~~~~~GaR~l~r~i~~----------~i~~~la~~il~~~~~~g~  837 (853)
                      ++.+|++.+. +..  .|.|..++.+          .|.-+++..+|......+.
T Consensus       267 ev~~~la~~~-~~n--vReLegaL~~l~~~a~~~~~~iTi~~v~e~L~~~~~~~~  318 (408)
T COG0593         267 EVLEFLAKRL-DRN--VRELEGALNRLDAFALFTKRAITIDLVKEILKDLLRAGE  318 (408)
T ss_pred             HHHHHHHHHH-HCC--HHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCC
T ss_conf             9999999970-030--999999999999999853875769999999998640145


No 314
>PRK00131 aroK shikimate kinase; Reviewed
Probab=97.69  E-value=0.0016  Score=47.50  Aligned_cols=145  Identities=23%  Similarity=0.305  Sum_probs=71.2

Q ss_pred             CCCCCEEEECCCCCCHHHHHHHHHHHHHCC--CCCHHHCCCEEEEEEHHHHHCCCCCCCH--HHHHHHHHHHHHHHCCCC
Q ss_conf             777866895288740777999999987348--9984445743788731354217454202--454589999998607997
Q gi|254780877|r  197 RTKNNPVLIGDPGVGKTAIIEGLASRIING--DIPESLKGKRLMALDMGALIAGAKFRGE--FEERLKSLLCEIRSEDGE  272 (853)
Q Consensus       197 ~~k~n~~lvGe~GvGKtaive~la~~i~~~--~vp~~l~~~~i~~ld~~~l~ag~~~rg~--~e~r~~~i~~~~~~~~~~  272 (853)
                      ..+.|.+|||-||+|||+|-..||+++--.  |....+.  ..+..++..+.+-   .||  |-+.=..++.++...+ +
T Consensus         2 ~~~~nI~liG~~GsGKTtvgk~LA~~L~~~fiD~D~~Ie--~~~g~si~~if~~---~Ge~~FR~~E~~~l~~l~~~~-~   75 (175)
T PRK00131          2 LKGPNIVLIGMMGAGKSTIGRLLAKRLGYEFIDTDHLIE--ARAGKSIPEIFEE---EGEAGFRELEEEVLAELLQRH-N   75 (175)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCHHHH--HHHCCCHHHHHHH---HCHHHHHHHHHHHHHHHCCCC-C
T ss_conf             999808988899999899999999995969023988999--7616999999998---588999999999999651479-8


Q ss_pred             EEEEECCHHHHCCCCCCC-CCCCHHHHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHH
Q ss_conf             699963627730266655-4335888876531246604899744899999730011132023111115777678999999
Q gi|254780877|r  273 IILFIDELHVLVGAGKTD-GAMDASNLLKPSLARGELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILR  351 (853)
Q Consensus       273 ~ilfide~h~~~gaG~~~-g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~  351 (853)
                      .|         |..|++- -.-+..+.|+   ..|- -+-=-+.+++--+-+.++.  .|   |+.-.+...++-..++.
T Consensus        76 ~V---------IstGGG~v~~~~~~~~L~---~~g~-vV~L~~~~e~l~~Rl~~~~--~R---Pll~~~~~~~~l~~l~~  137 (175)
T PRK00131         76 LV---------ISTGGGAVLREENRALLR---ERGT-VVYLDASFEELLRRLARDR--NR---PLLQTEDPKEKLRALYE  137 (175)
T ss_pred             EE---------EECCCCCCCCHHHHHHHH---CCCC-EEEEECCHHHHHHHHCCCC--CC---CCCCCCCHHHHHHHHHH
T ss_conf             59---------974898226889999998---1693-7998579999999864899--99---87889986999999999


Q ss_pred             HHHHHHHHHCCCCC
Q ss_conf             97898654149610
Q gi|254780877|r  352 GLKERYEQHHKVRI  365 (853)
Q Consensus       352 gl~~~yE~~H~V~i  365 (853)
                      .-.+.|++...+.|
T Consensus       138 ~R~~~Y~~~Ad~~I  151 (175)
T PRK00131        138 ERDPLYEEVADLTI  151 (175)
T ss_pred             HHHHHHHHHCCEEE
T ss_conf             99998975389999


No 315
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=97.69  E-value=0.00065  Score=50.77  Aligned_cols=112  Identities=22%  Similarity=0.340  Sum_probs=68.4

Q ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHC---CCCCCCHHHHHHHHHHHHHHHCCCCEE
Q ss_conf             77866895288740777999999987348998444574378873135421---745420245458999999860799769
Q gi|254780877|r  198 TKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIA---GAKFRGEFEERLKSLLCEIRSEDGEII  274 (853)
Q Consensus       198 ~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~a---g~~~rg~~e~r~~~i~~~~~~~~~~~i  274 (853)
                      ..+|.++.|+||||||-++-++|..++..       |.+++-+.+..++.   .+-..|..|+++...   +.+.+   +
T Consensus       104 ~~~nl~l~G~~G~GKthLa~Ai~~~l~~~-------g~sv~f~~~~el~~~Lk~~~~~~~~~~~l~~~---l~~~d---l  170 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELLKA-------GISVLFITAPDLLSKLKAAFDEGRLEEKLLRE---LKKVD---L  170 (254)
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHHC-------CCEEEEEEHHHHHHHHHHHHHCCCHHHHHHHH---HHHCC---E
T ss_conf             58828998999987999999999999983-------98499988599999999987455268999988---75289---8


Q ss_pred             EEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHHHHHH
Q ss_conf             99636277302666554335888876531246604899744899999730
Q gi|254780877|r  275 LFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGATTLDEYRKYIE  324 (853)
Q Consensus       275 lfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iE  324 (853)
                      |+|||+-..--  ...+.-+.-+++--...+..+-+.--..+++...++-
T Consensus       171 LIiDDlG~~~~--~~~~~~~~~q~I~~r~~~~~~~~tsN~~~~~~~~~~~  218 (254)
T COG1484         171 LIIDDIGYEPF--SQEEADLLFQLISRRYESRSLIITSNLSFGEWDELFG  218 (254)
T ss_pred             EEEECCCCCCC--CCHHHHHHHHHHHHHHHHCCCCEEECCCHHHHHHHCC
T ss_conf             99823677668--8155879999999999730542020588278886606


No 316
>KOG0991 consensus
Probab=97.68  E-value=0.00026  Score=53.98  Aligned_cols=181  Identities=24%  Similarity=0.347  Sum_probs=102.0

Q ss_pred             HHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCC
Q ss_conf             69987298533333578999999963367778668952887407779999999873489984445743788731354217
Q gi|254780877|r  169 TEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAG  248 (853)
Q Consensus       169 Te~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag  248 (853)
                      .++.+--+++-++|-|+-++|+-.+---++-.|.++-|+||+|||+-+.-||....-...-+     -+.+|+.+.    
T Consensus        18 VeKYrP~~l~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke-----~vLELNASd----   88 (333)
T KOG0991          18 VEKYRPSVLQDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLGDSYKE-----AVLELNASD----   88 (333)
T ss_pred             HHHHCCHHHHHHHCCHHHHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHHHHCHHHHH-----HHHHCCCCC----
T ss_conf             88608529988217798999999999728998667527999861648999999983806665-----763205765----


Q ss_pred             CCCCCH--HHHHHHHHHHH-HHHCCC-CEEEEECCHHHHCCCCCCCCCCCHHHHHHHHH--CCCCEEEEEEECHHHHHHH
Q ss_conf             454202--45458999999-860799-76999636277302666554335888876531--2466048997448999997
Q gi|254780877|r  249 AKFRGE--FEERLKSLLCE-IRSEDG-EIILFIDELHVLVGAGKTDGAMDASNLLKPSL--ARGELHCIGATTLDEYRKY  322 (853)
Q Consensus       249 ~~~rg~--~e~r~~~i~~~-~~~~~~-~~ilfide~h~~~gaG~~~g~~Daan~LKP~L--arG~l~~IgaTT~~Eyrk~  322 (853)
                        -||=  --.++|.--.. +.-.+| .-|...||...+- +|++       .-|.-.+  -..+-|++-|+-..  -|.
T Consensus        89 --eRGIDvVRn~IK~FAQ~kv~lp~grhKIiILDEADSMT-~gAQ-------QAlRRtMEiyS~ttRFalaCN~s--~KI  156 (333)
T KOG0991          89 --ERGIDVVRNKIKMFAQKKVTLPPGRHKIIILDEADSMT-AGAQ-------QALRRTMEIYSNTTRFALACNQS--EKI  156 (333)
T ss_pred             --CCCCHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHH-HHHH-------HHHHHHHHHHCCCCHHHHHHCCH--HHH
T ss_conf             --54608999999999872034899852489961522020-6899-------99999999970632000001542--132


Q ss_pred             HHCC---HHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHH
Q ss_conf             3001---113202311111577767899999997898654149610158999998633320
Q gi|254780877|r  323 IEKD---PALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRY  380 (853)
Q Consensus       323 iEkD---~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rY  380 (853)
                      ||+=   .|+- ||.++     |..+   ||.-+..- -+-.+|.|++++|++.+..+.--
T Consensus       157 iEPIQSRCAiL-Ryskl-----sd~q---iL~Rl~~v-~k~Ekv~yt~dgLeaiifta~GD  207 (333)
T KOG0991         157 IEPIQSRCAIL-RYSKL-----SDQQ---ILKRLLEV-AKAEKVNYTDDGLEAIIFTAQGD  207 (333)
T ss_pred             HHHHHHHHHHH-HHCCC-----CHHH---HHHHHHHH-HHHHCCCCCCCHHHHHHHHCCCH
T ss_conf             22677345765-32226-----7899---99999999-98707887711477855441661


No 317
>PRK06620 hypothetical protein; Validated
Probab=97.68  E-value=0.0012  Score=48.57  Aligned_cols=145  Identities=20%  Similarity=0.391  Sum_probs=83.9

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHH
Q ss_conf             89872678616889999999872377653002244774034532013047711203566774211322156410220214
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEI  679 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEi  679 (853)
                      +++..||+|.|||.|++..++.-    .+.+ ++ ..+                        +.+... ..+.++++|.+
T Consensus        46 ~l~I~Gp~gSGKTHL~~i~~~~~----~a~~-~~-~~~------------------------~~~~~~-~~~~~~iiddi   94 (214)
T PRK06620         46 TLLIKGPSSSGKTYLTKIWQNLS----NAYI-IK-DIF------------------------FNEEIL-EKYNAFIIEDI   94 (214)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH----CCEE-EC-HHH------------------------CCHHHH-HHCCCEEEECC
T ss_conf             59998799998899999999982----8588-15-121------------------------458788-43793798467


Q ss_pred             HHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCC--CEEE
Q ss_conf             41498999999998404578879997783033155954851268764032679999999998628857726668--1586
Q gi|254780877|r  680 EKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLD--EIIL  757 (853)
Q Consensus       680 EKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid--~iv~  757 (853)
                      |+.....   |++++.          .+.-.++.+++||+.-..       ..           =-|.+..|+-  .++.
T Consensus        95 d~~~e~~---lfhlfN----------~~~~~~~~llits~~~p~-------~~-----------~L~DL~SRl~~~~~~~  143 (214)
T PRK06620         95 ENWQEPA---LLHIFN----------IINEKQKYLLLTSSDKSR-------NF-----------TLPDLSSRIKSVLSIL  143 (214)
T ss_pred             CCCCHHH---HHHHHH----------HHHHCCCEEEEEECCCCC-------CC-----------CCCCHHHHHHCCCEEE
T ss_conf             7574679---999999----------997159879998279852-------24-----------5357899985464433


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHH
Q ss_conf             2889989999999999999999998579899998899999997089822062157999998
Q gi|254780877|r  758 FEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQR  818 (853)
Q Consensus       758 F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~  818 (853)
                      ..+.+.+.+..++.+       .++.+++.+  ++.+++||+.+. ++.|  +.+.+++.+
T Consensus       144 i~~PdD~l~~~ll~k-------~~~~r~i~i--~~~vi~yl~~ri-~Rs~--~~l~~~v~~  192 (214)
T PRK06620        144 LNSPDDELIKILIFK-------HFSISSVTI--SRQIIDFLLVNL-PREY--SKIIEILEN  192 (214)
T ss_pred             CCCCCHHHHHHHHHH-------HHHHCCCCC--CHHHHHHHHHHH-CCCH--HHHHHHHHH
T ss_conf             269898999999999-------999869988--755999999985-1789--999999999


No 318
>PRK08181 transposase; Validated
Probab=97.67  E-value=0.00017  Score=55.49  Aligned_cols=89  Identities=20%  Similarity=0.294  Sum_probs=59.4

Q ss_pred             HHHHHHHHHHH-CCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHH
Q ss_conf             78999999963-36777866895288740777999999987348998444574378873135421745420245458999
Q gi|254780877|r  184 DDEMRRAIQVL-SRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSL  262 (853)
Q Consensus       184 e~EI~~~~~iL-~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i  262 (853)
                      ...+..+...+ =-+++.|+|++|+||||||-++.+|+..-+.       +|++++-..+..|+.--. ...-+..+...
T Consensus        90 ~~~i~~L~~~~~fi~~~~Nvil~Gp~GtGKThLA~Alg~~A~~-------~G~~V~f~~~~~L~~~L~-~a~~~~~~~~~  161 (269)
T PRK08181         90 KAQVMALAAGDSWLAKGANLLLFGPPGGGKSHLAAAIGLALIE-------NGWRVLFTRTTDLVQKLQ-VARRELQLESA  161 (269)
T ss_pred             HHHHHHHHCCCHHHHCCCEEEEECCCCCCHHHHHHHHHHHHHH-------CCCEEEEEEHHHHHHHHH-HHHHCCCHHHH
T ss_conf             9999999656758864870899899998788999999999998-------799399978999999999-97755839999


Q ss_pred             HHHHHHCCCCEEEEECCHHHH
Q ss_conf             999860799769996362773
Q gi|254780877|r  263 LCEIRSEDGEIILFIDELHVL  283 (853)
Q Consensus       263 ~~~~~~~~~~~ilfide~h~~  283 (853)
                      ++.+.+.+   +|.|||+-.+
T Consensus       162 ~~~l~~~d---LLIiDe~G~~  179 (269)
T PRK08181        162 IAKLDKFD---LLILDDLAYV  179 (269)
T ss_pred             HHHHHCCC---EEEEHHCCCC
T ss_conf             99974446---0122010566


No 319
>KOG0728 consensus
Probab=97.66  E-value=0.0026  Score=45.87  Aligned_cols=149  Identities=23%  Similarity=0.344  Sum_probs=102.5

Q ss_pred             HHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCC
Q ss_conf             99633677786689528874077799999998734899844457437887313542174542024545899999986079
Q gi|254780877|r  191 IQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSED  270 (853)
Q Consensus       191 ~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~  270 (853)
                      ++.|.--.-..++|-|+||.|||-++...|.-          -++.++.+.-+.|+  .+|-||-..-++.++--..++ 
T Consensus       173 F~aLGIaQPKGvlLygppgtGktLlaraVahh----------t~c~firvsgselv--qk~igegsrmvrelfvmareh-  239 (404)
T KOG0728         173 FEALGIAQPKGVLLYGPPGTGKTLLARAVAHH----------TDCTFIRVSGSELV--QKYIGEGSRMVRELFVMAREH-  239 (404)
T ss_pred             HHHCCCCCCCCEEEECCCCCCHHHHHHHHHHH----------CCEEEEEECHHHHH--HHHHHHHHHHHHHHHHHHHHC-
T ss_conf             98518788760488469997562999998754----------14079996449999--998501389999999998750-


Q ss_pred             CCEEEEECCHHHHCCCCCCCC--CCC---------HHHHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHC---CCEE
Q ss_conf             976999636277302666554--335---------88887653124660489974489999973001113202---3111
Q gi|254780877|r  271 GEIILFIDELHVLVGAGKTDG--AMD---------ASNLLKPSLARGELHCIGATTLDEYRKYIEKDPALARR---FQSL  336 (853)
Q Consensus       271 ~~~ilfide~h~~~gaG~~~g--~~D---------aan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RR---Fq~i  336 (853)
                      .+.|+|.|||..| |..+.+|  +.|         .-|-|...=|...|++|-||.--.     =-|+||-|-   =.+|
T Consensus       240 apsiifmdeidsi-gs~r~e~~~ggdsevqrtmlellnqldgfeatknikvimatnrid-----ild~allrpgridrki  313 (404)
T KOG0728         240 APSIIFMDEIDSI-GSSRVESGSGGDSEVQRTMLELLNQLDGFEATKNIKVIMATNRID-----ILDPALLRPGRIDRKI  313 (404)
T ss_pred             CCCEEEEHHCCCC-CCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCEEEEEECCCCC-----CCCHHHCCCCCCCCCC
T ss_conf             8826750000121-234345789863899999999997402400036626998416422-----2468663877545556


Q ss_pred             ECCCCCHHHHHHHHHHHHHHHH
Q ss_conf             1157776789999999789865
Q gi|254780877|r  337 LVGEPTVTDTISILRGLKERYE  358 (853)
Q Consensus       337 ~V~Eps~~~t~~iL~gl~~~yE  358 (853)
                      .-..|+.+.-.+||+-...++.
T Consensus       314 efp~p~e~ar~~ilkihsrkmn  335 (404)
T KOG0728         314 EFPPPNEEARLDILKIHSRKMN  335 (404)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHH
T ss_conf             4899877888789988555301


No 320
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=97.66  E-value=0.002  Score=46.80  Aligned_cols=90  Identities=26%  Similarity=0.437  Sum_probs=53.7

Q ss_pred             CCCCEEEEEECCCCHHHHHHHHHHHH-H-H-CCC-CCCCCCCCHH---HHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHH
Q ss_conf             66512898726786168899999998-7-2-377-6530022447---74034532013047711203566774211322
Q gi|254780877|r  595 QRPMGSFMFLGPTGVGKTELVKSLAR-L-L-FDD-ENSMIRIDMS---EYMEKHSVSRLIGSPPGYVGYEEGGALTEAVR  667 (853)
Q Consensus       595 ~~p~~~flf~GptGvGKTelak~la~-~-l-f~~-~~~lir~dMs---ey~e~~~vs~LiGappGYvG~~~gg~Lte~vr  667 (853)
                      ...-+++.|+||||||||.+.-.||- + | +|. .-.||.+|--   ---.=.+.++++|-| =+|=++. ..|.++++
T Consensus       207 ~~~~~vvalVGPTGVGKTTTiAKLAA~~~l~~~~~kV~lIT~DtyRigA~eQLk~Ya~ilgvp-~~v~~~~-~~l~~al~  284 (412)
T PRK05703        207 LEQGGVVALVGPTGVGKTTTLAKLAARYALEEGKDKVALITLDTYRIGAVEQLKTYAKIMGIP-VKVAYDP-KELAKALE  284 (412)
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHHHCCCE-EEEECCH-HHHHHHHH
T ss_conf             456736999888887567699999999999729981799983767777999999999971973-7984799-99999998


Q ss_pred             CC-CCCEEEEHHHHHCCHHH
Q ss_conf             15-64102202144149899
Q gi|254780877|r  668 RH-PYQVVLFDEIEKAHSDV  686 (853)
Q Consensus       668 ~~-P~sVil~DEiEKah~~v  686 (853)
                      +. .+-+||.|--=..|.+.
T Consensus       285 ~~~~~dlILIDTaG~s~~d~  304 (412)
T PRK05703        285 QLANCDLILIDTAGRSQRDP  304 (412)
T ss_pred             HHCCCCEEEEECCCCCCCCH
T ss_conf             71589979996898897899


No 321
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit; InterPro: IPR012804   Cobalamin (vitamin B12) can be complexed with metal via ATP-dependent reactions (aerobic pathway) (e.g., in Pseudomonas denitrificans) or via ATP-independent reactions (anaerobic pathway) (e.g., in Salmonella typhimurium) , . The corresponding cobalt chelatases are not homologous.   Cobaltochelatase is responsible for the insertion of cobalt into the corrin ring of coenzyme B12 during its biosynthesis. Two versions have been well described. CbiK/CbiX is a monomeric, anaerobic version which acts early in the biosynthesis (IPR010388 from INTERPRO). CobNST is a trimeric, ATP-dependent, aerobic version which acts late in the biosynthesis, (IPR011953 from INTERPRO, IPR006537 from INTERPRO, IPR006538 from INTERPRO) .    The two pathways differ in the point of cobalt insertion during corrin ring formation . There are apparently a number of variations on these two pathways, where the major differences seem to be concerned with the process of ring contraction .   Cobaltochelatase shows similarities with magnesium chelatase, which is also a complex ATP-dependent enzyme made up of two separable components. However, unlike the situation in cobaltochelatase, one of these two components is membrane bound in magnesium chelatase . .
Probab=97.65  E-value=0.0054  Score=43.27  Aligned_cols=207  Identities=21%  Similarity=0.350  Sum_probs=123.9

Q ss_pred             CCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHH-----HCC---C----------------------CC
Q ss_conf             33357899999996336777866895288740777999999987-----348---9----------------------98
Q gi|254780877|r  180 VIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRI-----ING---D----------------------IP  229 (853)
Q Consensus       180 VIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i-----~~~---~----------------------vp  229 (853)
                      |+|-|+=-.=++-..-.-+=+.+++-||=|+|||+.|-||+-.+     ++|   .                      .|
T Consensus         6 iVGQe~LK~ALLL~Av~P~iGGVLirG~KGTAKSTaaR~L~~LLP~i~~v~gC~f~cdP~~P~~~C~~C~~~~~~~G~~~   85 (688)
T TIGR02442         6 IVGQEDLKLALLLNAVNPRIGGVLIRGEKGTAKSTAARGLAALLPDIDVVAGCPFSCDPDDPEEWCEECRRKLEEQGTLP   85 (688)
T ss_pred             CCCHHHHHHHHHHEEECCCCCEEEEECCCCCHHHHHHHHHHHHCCHHHHHCCCCCCCCCCCCCCCCHHHHHHHHCCCCCC
T ss_conf             21427986532100252663707887788862789888487616023664047888777887040067675552047753


Q ss_pred             HHHCCCEEEEEEHHH---HHCCCCCCCHHHHHHH--------HHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHH
Q ss_conf             444574378873135---4217454202454589--------99999860799769996362773026665543358888
Q gi|254780877|r  230 ESLKGKRLMALDMGA---LIAGAKFRGEFEERLK--------SLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNL  298 (853)
Q Consensus       230 ~~l~~~~i~~ld~~~---l~ag~~~rg~~e~r~~--------~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~  298 (853)
                      ..=....++.|-+|+   .|-|+=   +||.=|+        +||.++  +.|  |||||||--| .       =...|+
T Consensus        86 ~~~~~~~~V~LPlgATEDRVvG~L---Di~~al~~G~~~FqPGLLA~A--hrG--iLYiDEVNLL-d-------DhlVD~  150 (688)
T TIGR02442        86 SEQRPVPFVNLPLGATEDRVVGSL---DIERALKEGEKAFQPGLLAEA--HRG--ILYIDEVNLL-D-------DHLVDV  150 (688)
T ss_pred             CCCCCCEEEECCCCCCHHHHCCHH---HHHHHHHHCHHHHCCCCHHHH--CCC--EEEEEEECCC-C-------CHHHHH
T ss_conf             135873588658775233221305---489998718566078861754--687--1678520014-4-------147789


Q ss_pred             HHHHHCCCCE---------------EEEEEECHHHHHHHHHCCHHHHHCCC-EEECCCCC-HHHHHHHHHHHHHHH----
Q ss_conf             7653124660---------------48997448999997300111320231-11115777-678999999978986----
Q gi|254780877|r  299 LKPSLARGEL---------------HCIGATTLDEYRKYIEKDPALARRFQ-SLLVGEPT-VTDTISILRGLKERY----  357 (853)
Q Consensus       299 LKP~LarG~l---------------~~IgaTT~~Eyrk~iEkD~Al~RRFq-~i~V~Eps-~~~t~~iL~gl~~~y----  357 (853)
                      |-=+.|.|.-               -.||+.=|||=    |=-|=|--||= .|.|.-+. .++=++|++--. .|    
T Consensus       151 lLDaaA~G~n~VEREG~S~~Hparf~L~GTMNPEEG----~LRPQLLDRFGL~V~v~~~~d~~~R~Ev~~Rrl-~~d~dP  225 (688)
T TIGR02442       151 LLDAAAMGVNRVEREGLSVSHPARFVLIGTMNPEEG----DLRPQLLDRFGLCVDVAASRDPEERVEVIRRRL-AFDADP  225 (688)
T ss_pred             HHHHHHCCCEEEEECCCCHHCHHHHHHHCCCCCCHH----HHCHHHHHHHHCEEEECCCCCHHHHHHHHHHHH-HHCCCC
T ss_conf             999876480067635743001145532203785221----102232424401155024358668999999997-540267


Q ss_pred             HHH-CCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHC
Q ss_conf             541-4961015899999863332024576747789999999998754102
Q gi|254780877|r  358 EQH-HKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEASARVRMQID  406 (853)
Q Consensus       358 E~~-H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~A~~~i~~~  406 (853)
                      |.| +.-+=.+++|..-+..+...+++=.|||..+-.|=+-|...-+..+
T Consensus       226 ~~F~~~~~~~~~~L~~~I~~AR~lLp~V~l~d~~~~~I~~lc~~~~V~Gh  275 (688)
T TIGR02442       226 EAFAARWAAEQEELRERIAAARSLLPSVRLSDSLLRFISELCIEFGVDGH  275 (688)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCCCC
T ss_conf             78899999999999999999997547765888999999999997288852


No 322
>pfam01695 IstB IstB-like ATP binding protein. This protein contains an ATP/GTP binding P-loop motif. It is found associated with IS21 family insertion sequences. The function of this protein is unknown, but it may perform a transposase function.
Probab=97.63  E-value=0.00054  Score=51.40  Aligned_cols=70  Identities=26%  Similarity=0.457  Sum_probs=50.6

Q ss_pred             CCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHC---CCCCCCHHHHHHHHHHHHHHHCCCCE
Q ss_conf             777866895288740777999999987348998444574378873135421---74542024545899999986079976
Q gi|254780877|r  197 RTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIA---GAKFRGEFEERLKSLLCEIRSEDGEI  273 (853)
Q Consensus       197 ~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~a---g~~~rg~~e~r~~~i~~~~~~~~~~~  273 (853)
                      +.+.|.++.|+||+|||-++-+++...++.       +++++-+.+..|+.   .+.-.|.++    ..++.+.+.+   
T Consensus        45 ~~~~Nlll~G~~GtGKThLA~Ai~~~~~~~-------g~~v~f~~~~~L~~~l~~~~~~~~~~----~~l~~~~~~d---  110 (178)
T pfam01695        45 EQAENLLLLGPPGVGKTHLACALGHQACRA-------GYSVLFTRTPDLVEQLKRARGDGRLA----RTLQRLAKAD---  110 (178)
T ss_pred             HCCCCEEEECCCCCCHHHHHHHHHHHHHHC-------CCEEEEEECHHHHHHHHHHHHCCCHH----HHHHHHHCCC---
T ss_conf             158768998999987899999999999986-------98599996167999999875267499----9999962589---


Q ss_pred             EEEECCH
Q ss_conf             9996362
Q gi|254780877|r  274 ILFIDEL  280 (853)
Q Consensus       274 ilfide~  280 (853)
                      +|.|||+
T Consensus       111 lLIiDDl  117 (178)
T pfam01695       111 LLILDDI  117 (178)
T ss_pred             EEEEEHH
T ss_conf             7887200


No 323
>pfam00437 GSPII_E Type II/IV secretion system protein. This family contains both type II and type IV pathway secretion proteins from bacteria. VirB11 ATPase is a subunit of the Agrobacterium tumefaciens transfer DNA (T-DNA) transfer system, a type IV secretion pathway required for delivery of T-DNA and effector proteins to plant cells during infection.
Probab=97.63  E-value=7e-05  Score=58.64  Aligned_cols=95  Identities=25%  Similarity=0.390  Sum_probs=63.0

Q ss_pred             CEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCC-CHHHHCCCCCCC-HHHCCCCHHCCCCCCCCCCHHHHCCCCCEEE
Q ss_conf             12898726786168899999998723776530022-447740345320-1304771120356677421132215641022
Q gi|254780877|r  598 MGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRI-DMSEYMEKHSVS-RLIGSPPGYVGYEEGGALTEAVRRHPYQVVL  675 (853)
Q Consensus       598 ~~~flf~GptGvGKTelak~la~~lf~~~~~lir~-dMsey~e~~~vs-~LiGappGYvG~~~gg~Lte~vr~~P~sVil  675 (853)
                      -|.+|++||||.|||.+.++|..++-..+.+++.+ |--||.-+|--. .+.- ..+-+.++  -.+-.++|.+| .+|+
T Consensus       139 ~~~ilIsG~TGSGKTT~l~all~~i~~~~~riitiED~~El~l~~~~~v~l~~-~~~~~t~~--~ll~~~LR~~P-D~Ii  214 (283)
T pfam00437       139 RGNILVSGGTGSGKTTLLYALLNEINTDDERIVTIEDPVEIQLEGPNQVQLNT-RLAGVTFA--DLLRAALRQRP-DRIM  214 (283)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHCCCCCCCEEEECCCCEECCCCCCEEEEEE-CCCCCCHH--HHHHHHHCCCC-CEEE
T ss_conf             97599988999988999999998408777627873378523179887899985-58876999--99999638899-9897


Q ss_pred             EHHHHHCCHHHHHHHHHHHHCCEE
Q ss_conf             021441498999999998404578
Q gi|254780877|r  676 FDEIEKAHSDVHNILLQVLDDGRL  699 (853)
Q Consensus       676 ~DEiEKah~~v~~~llqild~G~l  699 (853)
                      +.||--  .+.+++ ++.+..|++
T Consensus       215 vGEiR~--~Ea~~~-l~a~~TGH~  235 (283)
T pfam00437       215 VGEIRD--GETADI-LRAANTGHP  235 (283)
T ss_pred             ECCCCC--HHHHHH-HHHHHCCCC
T ss_conf             578699--899999-999975998


No 324
>KOG0729 consensus
Probab=97.62  E-value=0.001  Score=49.25  Aligned_cols=154  Identities=27%  Similarity=0.383  Sum_probs=100.1

Q ss_pred             CCCHHHHHHHHHHHHC-------------CCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHH
Q ss_conf             3335789999999633-------------677786689528874077799999998734899844457437887313542
Q gi|254780877|r  180 VIGRDDEMRRAIQVLS-------------RRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALI  246 (853)
Q Consensus       180 VIGRe~EI~~~~~iL~-------------r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~  246 (853)
                      |=|..++|+++-++..             ----..++|-|+||.|||-.+...|.|-          +.-.+.+=-+.||
T Consensus       179 vGGCKeqIEklREVVE~PlL~PErfv~LGIdPPKGvllyGPPGtGKTL~ARAVANRT----------dAcFIRViGSELV  248 (435)
T KOG0729         179 VGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRT----------DACFIRVIGSELV  248 (435)
T ss_pred             CCCHHHHHHHHHHHHHCCCCCHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHCCC----------CCEEEEEHHHHHH
T ss_conf             536699999999988432558888875278998733786899986108999874566----------7458763118999


Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCC-CC---------HHHHHHHHHCCCCEEEEEEECH
Q ss_conf             1745420245458999999860799769996362773026665543-35---------8888765312466048997448
Q gi|254780877|r  247 AGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGA-MD---------ASNLLKPSLARGELHCIGATTL  316 (853)
Q Consensus       247 ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~-~D---------aan~LKP~LarG~l~~IgaTT~  316 (853)
                        .+|.||-..-++.+. ++...+.-.|+|+|||..+=||-=-+|. .|         .-|-|...=.||.|++.-||.-
T Consensus       249 --QKYvGEGARMVRElF-eMAr~KKACiiFFDEiDAiGGaRFDDg~ggDNEVQRTMLEli~QLDGFDpRGNIKVlmATNR  325 (435)
T KOG0729         249 --QKYVGEGARMVRELF-EMARTKKACIIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLDGFDPRGNIKVLMATNR  325 (435)
T ss_pred             --HHHHHHHHHHHHHHH-HHHCCCCEEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCEEEEEECCC
T ss_conf             --998624689999999-98523652799841010226720357888727999999999986037788887589863489


Q ss_pred             HHHHHHHHCCHHHHHC---CCEEECCCCCHHHHHHHHH
Q ss_conf             9999973001113202---3111115777678999999
Q gi|254780877|r  317 DEYRKYIEKDPALARR---FQSLLVGEPTVTDTISILR  351 (853)
Q Consensus       317 ~Eyrk~iEkD~Al~RR---Fq~i~V~Eps~~~t~~iL~  351 (853)
                      -     =.-|+||.|-   =.+|.-.=|+.+--..|++
T Consensus       326 P-----dtLDpALlRPGRlDRKVEF~LPDlegR~~I~k  358 (435)
T KOG0729         326 P-----DTLDPALLRPGRLDRKVEFGLPDLEGRTHIFK  358 (435)
T ss_pred             C-----CCCCHHHCCCCCCCCCEECCCCCCCCCCEEEE
T ss_conf             8-----87687662876423112105876235512577


No 325
>smart00350 MCM minichromosome  maintenance proteins.
Probab=97.62  E-value=0.011  Score=40.82  Aligned_cols=190  Identities=21%  Similarity=0.321  Sum_probs=99.3

Q ss_pred             CCC-CCCHHHHHHHHHHHH---CC---------CCCCCEEEECCCCCCHHHHHHHHHHHH-----HCCCCC--HHH----
Q ss_conf             533-333578999999963---36---------777866895288740777999999987-----348998--444----
Q gi|254780877|r  177 LDP-VIGRDDEMRRAIQVL---SR---------RTKNNPVLIGDPGVGKTAIIEGLASRI-----INGDIP--ESL----  232 (853)
Q Consensus       177 LDP-VIGRe~EI~~~~~iL---~r---------~~k~n~~lvGe~GvGKtaive~la~~i-----~~~~vp--~~l----  232 (853)
                      +-| +.|.+..=.-++-.|   ++         |..-|++|||+||+||+.+....++..     +.|.-.  ..|    
T Consensus       201 iaP~I~G~~~vK~allL~L~GG~~~~~~~g~~~Rg~ihiLLvGDPGtgKSqlLk~~~~iaprsvytsG~gsS~aGLTaav  280 (509)
T smart00350      201 LAPSIYGHEDIKKAILLLLFGGVHKNLPDGMKIRGDINILLLGDPGTAKSQLLKYVEKTAPRAVYTTGKGSSAVGLTAAV  280 (509)
T ss_pred             HCCCCCCCHHHHHHHHHHHCCCCCCCCCCCCEECCCEEEEEECCCCCCHHHHHHHHHHHCCCEEEEECCCCCCCCCEEEE
T ss_conf             49732387889999999970887664898850415414998469982362999999985886068734445557706899


Q ss_pred             -CC--CEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCC----
Q ss_conf             -57--43788731354217454202454589999998607997699963627730266655433588887653124----
Q gi|254780877|r  233 -KG--KRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLAR----  305 (853)
Q Consensus       233 -~~--~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~Lar----  305 (853)
                       ++  ..-|.|+.|+||                     -+++. |.+|||+.-+=.       -|-+. |--+|..    
T Consensus       281 ~rd~~~ge~~leaGALV---------------------lAD~G-iccIDEfdKm~~-------~dr~a-lhEaMEQQtis  330 (509)
T smart00350      281 TRDPETREFTLEGGALV---------------------LADNG-VCCIDEFDKMDD-------SDRTA-IHEAMEQQTIS  330 (509)
T ss_pred             EECCCCCCEEECCCCEE---------------------CCCCC-EEEEEEHHHCCH-------HHHHH-HHHHHHHCEEE
T ss_conf             98178883787256412---------------------05675-478521320787-------78999-99999748778


Q ss_pred             ---C--------CEEEEEEECHHH--------HHHHHHCCHHHHHCCCEEE--CCCCCHHHHHHHHHHHHHHH-------
Q ss_conf             ---6--------604899744899--------9997300111320231111--15777678999999978986-------
Q gi|254780877|r  306 ---G--------ELHCIGATTLDE--------YRKYIEKDPALARRFQSLL--VGEPTVTDTISILRGLKERY-------  357 (853)
Q Consensus       306 ---G--------~l~~IgaTT~~E--------yrk~iEkD~Al~RRFq~i~--V~Eps~~~t~~iL~gl~~~y-------  357 (853)
                         +        .-.+++|+-|..        ....|.=.++|-.||.-|.  .++|+.+.-..|-+.+...+       
T Consensus       331 iaKaGi~~tL~aR~sVlAAaNP~~g~yd~~~s~~eni~l~~~LLSRFDLIf~l~D~~~~~~D~~ia~hil~~h~~~~~~~  410 (509)
T smart00350      331 IAKAGITTTLNARCSVLAAANPIGGRYDPKLTPEENIDLPAPILSRFDLLFVVLDEVDEERDRELAKHVVDLHRYSHPEP  410 (509)
T ss_pred             EECCCEEEEEECCCEEEEEECCCCCCCCCCCCHHHHCCCCHHHHHHCCEEEEEECCCCHHHHHHHHHHHHHHHHCCCCCC
T ss_conf             74375179985573599865565563788899999468980354102389996158987889999999999874158875


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             5414961015899999863332024576747789999999
Q gi|254780877|r  358 EQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEA  397 (853)
Q Consensus       358 E~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA  397 (853)
                      +......++.+-|..-+.++..+++= .|++.|.++|-+.
T Consensus       411 ~~~~~~~~~~~~lrkYI~yar~~~~P-~ls~eA~~~i~~~  449 (509)
T smart00350      411 DEADEVPISQEFLRKYIAYAREKIKP-KLSEEAAEKLVKA  449 (509)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHCCCC-CCCHHHHHHHHHH
T ss_conf             45568868999999999999862899-7899999999999


No 326
>pfam01637 Arch_ATPase Archaeal ATPase. This family contain a conserved P-loop motif that is involved in binding ATP. This family is almost exclusively found in archaebacteria and particularly in Methanococcus jannaschii that encodes sixteen members of this family.
Probab=97.61  E-value=0.0024  Score=46.18  Aligned_cols=187  Identities=14%  Similarity=0.118  Sum_probs=95.5

Q ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHH---------HHCCCC
Q ss_conf             59489999999999874101236566512898726786168899999998723776530022447---------740345
Q gi|254780877|r  571 IGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMS---------EYMEKH  641 (853)
Q Consensus       571 ~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMs---------ey~e~~  641 (853)
                      +|-++-++.+.+.+..      .++.|   .+..||-++|||.|.+..++.+-+.....+-+|..         ++...-
T Consensus         2 ~~Re~EL~~L~~~~~~------~~~~~---ivi~G~RR~GKTsLi~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~   72 (223)
T pfam01637         2 FDREKELKELEEWAER------GTYPI---IVVYGPRRCGKTALLREFLEELRELGYRVIYYDPLRREFEEKLDRFEEAK   72 (223)
T ss_pred             CCHHHHHHHHHHHHHC------CCCCE---EEEECCCCCCHHHHHHHHHHHCCCCCCEEEEEECHHHHHHHHHHHHHHHH
T ss_conf             8979999999999966------99718---99986887879999999998633468528999514443799999888889


Q ss_pred             CC----CHHHCCCCHHCCCCCCCCCC---HHHH-CCCCCEEEEHHHHHC-----CHHHHHHHHHHHHCCEEECCCCCEEE
Q ss_conf             32----01304771120356677421---1322-156410220214414-----98999999998404578879997783
Q gi|254780877|r  642 SV----SRLIGSPPGYVGYEEGGALT---EAVR-RHPYQVVLFDEIEKA-----HSDVHNILLQVLDDGRLTDSQGRTVD  708 (853)
Q Consensus       642 ~v----s~LiGappGYvG~~~gg~Lt---e~vr-~~P~sVil~DEiEKa-----h~~v~~~llqild~G~ltd~~G~~v~  708 (853)
                      .+    ...++...+.........+.   +.+. +.+..||.|||+-..     .|++...|..++|  ++...      
T Consensus        73 ~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDEfq~l~~~~~~~~~~~~l~~~~d--~~~~~------  144 (223)
T pfam01637        73 RLAEALGDALPKIGIAKSKLAFLSLTLLFELLKRKGKKIAIIIDEVQYAIGLNGAESYVKLLLNLID--YPPKE------  144 (223)
T ss_pred             HHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEECHHHHHHCCCCHHHHHHHHHHHH--HHHCC------
T ss_conf             9999987651233222112078899999999985599659997016776402443059999999999--75245------


Q ss_pred             CCC-CEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCE
Q ss_conf             033-1559548512687640326799999999986288577266681586288998999999999999999999857989
Q gi|254780877|r  709 FRN-TLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNIS  787 (853)
Q Consensus       709 f~n-~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~  787 (853)
                       +| ++|++.|..|-              +..+-.. ...|.+|.+. +...|++..+....+...+.+       .++ 
T Consensus       145 -~~~~~I~~GS~~~~--------------m~~~~~~-~~plygR~~~-i~l~p~~~~~~~efl~~~f~e-------~~~-  199 (223)
T pfam01637       145 -YHLIVVLCGSSEGL--------------TIELLDY-KSPLYGRHRW-ALLKPFDFETAWNFLREGFEE-------LYE-  199 (223)
T ss_pred             -CCEEEEEECCHHHH--------------HHHHHCC-CCCCCCCCCE-EEECCCCHHHHHHHHHHHHHH-------HCC-
T ss_conf             -77589997271999--------------9998620-5653575022-772689989999999999998-------478-


Q ss_pred             EEECHHHHHHHHH
Q ss_conf             9998899999997
Q gi|254780877|r  788 MDFDDQVIDWLSC  800 (853)
Q Consensus       788 l~~~~~~~~~l~~  800 (853)
                       .++++.+..+..
T Consensus       200 -~~~~~~~~~iy~  211 (223)
T pfam01637       200 -PGPKEEFEEVWR  211 (223)
T ss_pred             -CCCHHHHHHHHH
T ss_conf             -999899999999


No 327
>KOG1808 consensus
Probab=97.58  E-value=0.00015  Score=55.96  Aligned_cols=27  Identities=33%  Similarity=0.366  Sum_probs=13.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHHCCCC
Q ss_conf             689528874077799999998734899
Q gi|254780877|r  202 PVLIGDPGVGKTAIIEGLASRIINGDI  228 (853)
Q Consensus       202 ~~lvGe~GvGKtaive~la~~i~~~~v  228 (853)
                      .+|.|+.|.|||+|+.+||.+.-.+-|
T Consensus       443 illqG~tssGKtsii~~la~~~g~~~v  469 (1856)
T KOG1808         443 ILLQGPTSSGKTSIIKELARATGKNIV  469 (1856)
T ss_pred             EEEECCCCCCCHHHHHHHHHHHCCCCE
T ss_conf             677547676811599999998546734


No 328
>pfam07693 KAP_NTPase KAP family P-loop domain. The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals. Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side.
Probab=97.58  E-value=0.0065  Score=42.65  Aligned_cols=124  Identities=14%  Similarity=0.271  Sum_probs=71.5

Q ss_pred             CEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCH-----
Q ss_conf             102202144149899999999840457887999778303315595485126876403267999999999862885-----
Q gi|254780877|r  672 QVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKP-----  746 (853)
Q Consensus       672 sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~p-----  746 (853)
                      =||+.|+++.+.|+-.--+|....         ...||.||++|+-.+             .+.+..++++.|.+     
T Consensus       162 iVviIDDLDRc~p~~~v~~Le~Ik---------~~~d~~n~vfVLa~D-------------~~~v~~al~~~~~~~~~~~  219 (301)
T pfam07693       162 IVVIIDDLDRCEPEEAVELLEAVR---------LLFDFPNVVFILAYD-------------EEIIKKAIEHNYGGGEIDG  219 (301)
T ss_pred             EEEEECCCCCCCHHHHHHHHHHHH---------HHHCCCCEEEEEECC-------------HHHHHHHHHHHCCCCCCCH
T ss_conf             899973655488789999999999---------972679818999758-------------9999999998738787418


Q ss_pred             -HHHCCCCC-EEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCC-CCCCHHHHHHHHH
Q ss_conf             -77266681-586288998999999999999999999857989999889999999708982-2062157999998
Q gi|254780877|r  747 -EFLNRLDE-IILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDP-SYGARPLKRVIQR  818 (853)
Q Consensus       747 -eflnRid~-iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~-~~GaR~l~r~i~~  818 (853)
                       +||.+|=. -+...+++..+++..+...+..+........-.-.....-...+.. +.+. ..--|.++|++..
T Consensus       220 ~~YLeKiIq~p~~lP~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~nPR~ikR~lN~  293 (301)
T pfam07693       220 QDYLEKIIQLPFKLPPLGLRELRRFLMTLFDALEKGTPSEDRDRGLRADDLNIILD-SEDKSNINPRELKRLINA  293 (301)
T ss_pred             HHHHHHHEECEEECCCCCHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHH-HHCCCCCCHHHHHHHHHE
T ss_conf             99998541024767998789999999999999852444443202346789999997-411147999999998733


No 329
>pfam00158 Sigma54_activat Sigma-54 interaction domain.
Probab=97.54  E-value=0.00012  Score=56.81  Aligned_cols=118  Identities=25%  Similarity=0.452  Sum_probs=68.6

Q ss_pred             CCCHHHHHHHHHHHHCC--CCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHH--------HCCC
Q ss_conf             33357899999996336--7778668952887407779999999873489984445743788731354--------2174
Q gi|254780877|r  180 VIGRDDEMRRAIQVLSR--RTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGAL--------IAGA  249 (853)
Q Consensus       180 VIGRe~EI~~~~~iL~r--~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l--------~ag~  249 (853)
                      +||....++++.+.+.|  ....++++.||+|+||+.+++.+-+.=...       +...+.+|.+++        +=|.
T Consensus         1 lIG~S~~m~~l~~~i~~~a~~~~pVLI~GE~GtGK~~lAr~IH~~S~r~-------~~pfi~vnc~~~~~~~le~~LFG~   73 (168)
T pfam00158         1 LIGESPAMQEVLELAKRVAPTDATVLITGESGTGKELFARAIHQLSPRA-------DGPFVAVNCAAIPEELLESELFGH   73 (168)
T ss_pred             CEECCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHCCCC-------CCCCCCCCCCCCCHHHHHHHHCCC
T ss_conf             9738999999999999995889988998999888899999999852435-------688312567899877999987587


Q ss_pred             CCCCHHH---HHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCC-------------CEEEEEE
Q ss_conf             5420245---45899999986079976999636277302666554335888876531246-------------6048997
Q gi|254780877|r  250 KFRGEFE---ERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARG-------------ELHCIGA  313 (853)
Q Consensus       250 ~~rg~~e---~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG-------------~l~~Iga  313 (853)
                      . +|.|.   ..-..+++   .+++. .||+|||+.+        +.++-.-|--.|..|             ++|+|.+
T Consensus        74 ~-~g~f~ga~~~~~G~le---~A~gG-TL~LdeI~~L--------~~~~Q~~Ll~~L~~~~~~~~g~~~~~~~~vRiIas  140 (168)
T pfam00158        74 E-KGAFTGAVSDRKGLFE---LADGG-TLFLDEIGEL--------PLELQAKLLRVLQEGEFERVGGTKPIKVDVRIIAA  140 (168)
T ss_pred             C-CCCCCCCCCCCCCCEE---ECCCC-EEECCCHHHC--------CHHHHHHHHHHHHCCEEEECCCCCEEEEEEEEEEE
T ss_conf             6-6766898757899642---26998-7880244139--------99999999999857969977998458885499996


Q ss_pred             ECHH
Q ss_conf             4489
Q gi|254780877|r  314 TTLD  317 (853)
Q Consensus       314 TT~~  317 (853)
                      |+.+
T Consensus       141 t~~~  144 (168)
T pfam00158       141 TNRD  144 (168)
T ss_pred             CCCC
T ss_conf             5988


No 330
>PRK12377 putative replication protein; Provisional
Probab=97.54  E-value=0.00038  Score=52.68  Aligned_cols=102  Identities=22%  Similarity=0.405  Sum_probs=65.4

Q ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCC---CCCCCHHHHHHHHHHHHHHHCCCCEE
Q ss_conf             778668952887407779999999873489984445743788731354217---45420245458999999860799769
Q gi|254780877|r  198 TKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAG---AKFRGEFEERLKSLLCEIRSEDGEII  274 (853)
Q Consensus       198 ~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag---~~~rg~~e~r~~~i~~~~~~~~~~~i  274 (853)
                      ...|.|++|+||||||-++-+++...+.       +|++++-..+..|+.-   +.-.|..++   .+++.+...+   .
T Consensus       100 ~~~NlIf~G~pGtGKTHLA~AIg~~a~~-------~G~sVlF~t~~dLv~~L~~a~~~g~~~~---k~l~~l~~~d---L  166 (248)
T PRK12377        100 GCTNFVFSGKPGTGKNHLAAAIGNRLLA-------KGRSVIVVTVPDVMSRLHESYDNGQSGE---KFLQELCKVD---L  166 (248)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHH-------CCCEEEEEEHHHHHHHHHHHHHCCCCHH---HHHHHHHCCC---E
T ss_conf             8860899899998788999999999998-------7996999889999999999998485099---9999973389---8


Q ss_pred             EEECCHHHHCCCCCCCCCCCHHHHHHHHHC-C-CCEEEEEEECHHH
Q ss_conf             996362773026665543358888765312-4-6604899744899
Q gi|254780877|r  275 LFIDELHVLVGAGKTDGAMDASNLLKPSLA-R-GELHCIGATTLDE  318 (853)
Q Consensus       275 lfide~h~~~gaG~~~g~~Daan~LKP~La-r-G~l~~IgaTT~~E  318 (853)
                      |.|||+-..      ..+-..+++|=-.++ | .+.+-+..||.-+
T Consensus       167 LIIDElG~~------~~s~~~~~llfqlI~~Ry~~~ks~IiTTNL~  206 (248)
T PRK12377        167 LVLDEIGIQ------RETKNEQVVLNQIIDRRTASMRSVGMLTNLN  206 (248)
T ss_pred             EEEHHCCCC------CCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
T ss_conf             986000578------8986799999999999985579868975899


No 331
>PRK06526 transposase; Provisional
Probab=97.54  E-value=0.00027  Score=53.83  Aligned_cols=87  Identities=24%  Similarity=0.357  Sum_probs=57.4

Q ss_pred             HHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHH
Q ss_conf             99999996336777866895288740777999999987348998444574378873135421745420245458999999
Q gi|254780877|r  186 EMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCE  265 (853)
Q Consensus       186 EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~  265 (853)
                      -|+++...==-+.+.|++++|+||+|||-++.+|+...+.       +|+++.-..+..|+.--. ...-+.++...+..
T Consensus        85 ~i~~La~~~fi~~~~Nvil~G~~GtGKThLA~Alg~~A~~-------~G~~v~f~~~~~L~~~L~-~a~~~g~~~~~~~~  156 (254)
T PRK06526         85 TIAHLGTLDFVTGKENVVFLGPPGTGKTHLAIGLGIRACQ-------AGHRVLFATAAQWVARLA-AAHHAGRLQDELVK  156 (254)
T ss_pred             HHHHHHCCCHHHCCCCEEEECCCCCCHHHHHHHHHHHHHH-------CCCCEEEEEHHHHHHHHH-HHHHCCCHHHHHHH
T ss_conf             9999863717765887899899998689999999999998-------699679987799999999-98855809999998


Q ss_pred             HHHCCCCEEEEECCHHHH
Q ss_conf             860799769996362773
Q gi|254780877|r  266 IRSEDGEIILFIDELHVL  283 (853)
Q Consensus       266 ~~~~~~~~ilfide~h~~  283 (853)
                      +...+   +|.|||+-..
T Consensus       157 l~~~d---LLIiDe~g~~  171 (254)
T PRK06526        157 LGRIP---LLIVDEVGYI  171 (254)
T ss_pred             HHCCC---EEEEECCCCC
T ss_conf             51368---7765021364


No 332
>KOG0991 consensus
Probab=97.52  E-value=0.0017  Score=47.37  Aligned_cols=121  Identities=21%  Similarity=0.418  Sum_probs=80.6

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCC--CCCCCCCCHHHHC------
Q ss_conf             76745948999999999987410123656651289872678616889999999872377--6530022447740------
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDD--ENSMIRIDMSEYM------  638 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~--~~~lir~dMsey~------  638 (853)
                      -+.|+|.++.|+.+..-.       .+.|-|  .++|.||+|+|||..++.||..|.|+  ..+++-+|-|+=.      
T Consensus        26 l~dIVGNe~tv~rl~via-------~~gnmP--~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGIDvVR   96 (333)
T KOG0991          26 LQDIVGNEDTVERLSVIA-------KEGNMP--NLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGIDVVR   96 (333)
T ss_pred             HHHHHCCHHHHHHHHHHH-------HCCCCC--CEEEECCCCCCHHHHHHHHHHHHHCHHHHHHHHHCCCCCCCCCHHHH
T ss_conf             988217798999999999-------728998--66752799986164899999998380666576320576554608999


Q ss_pred             --CCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEE
Q ss_conf             --345320130477112035667742113221564102202144149899999999840457887999778303315595
Q gi|254780877|r  639 --EKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIM  716 (853)
Q Consensus       639 --e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~  716 (853)
                        =++.+.+=+--|||-                 |-+|.+||-+-....-++.|-..++           +.-+.|=|.+
T Consensus        97 n~IK~FAQ~kv~lp~gr-----------------hKIiILDEADSMT~gAQQAlRRtME-----------iyS~ttRFal  148 (333)
T KOG0991          97 NKIKMFAQKKVTLPPGR-----------------HKIIILDEADSMTAGAQQALRRTME-----------IYSNTTRFAL  148 (333)
T ss_pred             HHHHHHHHHHCCCCCCC-----------------EEEEEEECCCHHHHHHHHHHHHHHH-----------HHCCCCHHHH
T ss_conf             99999987203489985-----------------2489961522020689999999999-----------9706320000


Q ss_pred             CCCHHHHH
Q ss_conf             48512687
Q gi|254780877|r  717 TSNLGAEY  724 (853)
Q Consensus       717 TsN~G~~~  724 (853)
                      -.|.-.+.
T Consensus       149 aCN~s~KI  156 (333)
T KOG0991         149 ACNQSEKI  156 (333)
T ss_pred             HHCCHHHH
T ss_conf             01542132


No 333
>KOG0745 consensus
Probab=97.52  E-value=0.0002  Score=54.85  Aligned_cols=118  Identities=28%  Similarity=0.398  Sum_probs=73.9

Q ss_pred             CCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCH-HHHHHHHHHHHHH----HCCC
Q ss_conf             7778668952887407779999999873489984445743788731354217454202-4545899999986----0799
Q gi|254780877|r  197 RTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGE-FEERLKSLLCEIR----SEDG  271 (853)
Q Consensus       197 ~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~-~e~r~~~i~~~~~----~~~~  271 (853)
                      -.|+|++|+|+.|+|||-+..-||.-.   +||-.+.++.-        +.-+.|.|| .|.-+..++.++.    ++ +
T Consensus       224 LeKSNvLllGPtGsGKTllaqTLAr~l---dVPfaIcDcTt--------LTQAGYVGeDVEsvi~KLl~~A~~nVekA-Q  291 (564)
T KOG0745         224 LEKSNVLLLGPTGSGKTLLAQTLARVL---DVPFAICDCTT--------LTQAGYVGEDVESVIQKLLQEAEYNVEKA-Q  291 (564)
T ss_pred             EECCCEEEECCCCCCHHHHHHHHHHHH---CCCEEEECCCC--------HHHCCCCCCCHHHHHHHHHHHCCCCHHHH-H
T ss_conf             403547997788876438999999970---88768732552--------20055345429999999999725789988-2


Q ss_pred             CEEEEECCHHHHCCCC-CCCCCCCHH------HHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHCCCEEECC
Q ss_conf             7699963627730266-655433588------8876531246604899744899999730011132023111115
Q gi|254780877|r  272 EIILFIDELHVLVGAG-KTDGAMDAS------NLLKPSLARGELHCIGATTLDEYRKYIEKDPALARRFQSLLVG  339 (853)
Q Consensus       272 ~~ilfide~h~~~gaG-~~~g~~Daa------n~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~  339 (853)
                      .=|.|+||+.-|--+- +...+-|++      .|||  |-.|.+--|           =||++-=.-|=+.|.|+
T Consensus       292 qGIVflDEvDKi~~~~~~i~~~RDVsGEGVQQaLLK--llEGtvVnV-----------peK~~~~~~rgd~vqiD  353 (564)
T KOG0745         292 QGIVFLDEVDKITKKAESIHTSRDVSGEGVQQALLK--LLEGTVVNV-----------PEKGSRRKPRGDTVQID  353 (564)
T ss_pred             CCEEEEEHHHHHCCCCCCCCCCCCCCCHHHHHHHHH--HHCCCEECC-----------CCCCCCCCCCCCEEEEE
T ss_conf             673887601244136765454445662669999999--852627702-----------67787778999858971


No 334
>PRK09183 transposase/IS protein; Provisional
Probab=97.51  E-value=0.00031  Score=53.42  Aligned_cols=84  Identities=24%  Similarity=0.355  Sum_probs=54.2

Q ss_pred             HHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHC---CCCCCCHHHHHHHHHH
Q ss_conf             9999996336777866895288740777999999987348998444574378873135421---7454202454589999
Q gi|254780877|r  187 MRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIA---GAKFRGEFEERLKSLL  263 (853)
Q Consensus       187 I~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~a---g~~~rg~~e~r~~~i~  263 (853)
                      |.++...===..+.|+||+|+||||||-++-+|+...+.       +|++++-..+..|+.   .+...|.+...++.. 
T Consensus        89 i~~La~~~fi~~~~Nvil~G~~GtGKThLA~Alg~~A~~-------~G~~v~f~~~~~L~~~L~~a~~~~~~~~~l~r~-  160 (258)
T PRK09183         89 LQSLRSLSFIERNENIVLLGPSGVGKTHLAIALGYEAVR-------AGIKVRFTTAADLLLQLSTAQRQGRYKTTLQRG-  160 (258)
T ss_pred             HHHHHCCCHHHCCCCEEEECCCCCCHHHHHHHHHHHHHH-------CCCEEEEEEHHHHHHHHHHHHHCCCHHHHHHHH-
T ss_conf             998825816655886799899998689999999999998-------799399978999999999998768599999987-


Q ss_pred             HHHHHCCCCEEEEECCHHHH
Q ss_conf             99860799769996362773
Q gi|254780877|r  264 CEIRSEDGEIILFIDELHVL  283 (853)
Q Consensus       264 ~~~~~~~~~~ilfide~h~~  283 (853)
                        +..   .-+|.|||+-..
T Consensus       161 --l~~---~dLLIiDdlG~~  175 (258)
T PRK09183        161 --VMA---PRLLIIDEIGYL  175 (258)
T ss_pred             --HCC---CCEEEEHHHHCC
T ss_conf             --434---651443133154


No 335
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=97.50  E-value=0.0019  Score=46.90  Aligned_cols=206  Identities=25%  Similarity=0.369  Sum_probs=115.0

Q ss_pred             CCCCCCCCHHHHHHHHHHHHCC--CCCCCEEEECCCCCCHHHHHHHHHHH----------HHCCCCCHHHCCCEEEEEEH
Q ss_conf             9853333357899999996336--77786689528874077799999998----------73489984445743788731
Q gi|254780877|r  175 GKLDPVIGRDDEMRRAIQVLSR--RTKNNPVLIGDPGVGKTAIIEGLASR----------IINGDIPESLKGKRLMALDM  242 (853)
Q Consensus       175 GkLDPVIGRe~EI~~~~~iL~r--~~k~n~~lvGe~GvGKtaive~la~~----------i~~~~vp~~l~~~~i~~ld~  242 (853)
                      -.+|-+||...++.++++..-|  ++-+++++.||.|+||--++++.-+.          |.-+..|+.|-...+|.-.-
T Consensus       242 y~f~~Iig~S~~m~~~~~~akr~A~tdstVLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaAiPe~LlESELFGye~  321 (560)
T COG3829         242 YTFDDIIGESPAMLRVLELAKRIAKTDSTVLILGESGTGKELFARAIHNLSPRANGPFIAINCAAIPETLLESELFGYEK  321 (560)
T ss_pred             CCHHHHCCCCHHHHHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHCCCCCCCCEEEEECCCCCHHHHHHHHHCCCC
T ss_conf             66100205899999999999863389982899537886689999998744843479807876433888888888727677


Q ss_pred             HHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHC-------------CCCEE
Q ss_conf             35421745420245458999999860799769996362773026665543358888765312-------------46604
Q gi|254780877|r  243 GALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLA-------------RGELH  309 (853)
Q Consensus       243 ~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~La-------------rG~l~  309 (853)
                      |++ .||+--|.     +++++.   ++|. -||.|||--+=      -.| =|-+|. .|.             +-++|
T Consensus       322 GAF-TGA~~~GK-----~GlfE~---A~gG-TLFLDEIgemp------l~L-QaKLLR-VLQEkei~rvG~t~~~~vDVR  383 (560)
T COG3829         322 GAF-TGASKGGK-----PGLFEL---ANGG-TLFLDEIGEMP------LPL-QAKLLR-VLQEKEIERVGGTKPIPVDVR  383 (560)
T ss_pred             CCC-CCCCCCCC-----CCCEEE---CCCC-EEEEHHHCCCC------HHH-HHHHHH-HHHHCEEEECCCCCCEEEEEE
T ss_conf             642-46445799-----760544---1698-37712320399------899-999999-875353785378875356789


Q ss_pred             EEEEECHHHHHHHHHCCH---HHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCC-
Q ss_conf             899744899999730011---1320231111157776789999999789865414961015899999863332024576-
Q gi|254780877|r  310 CIGATTLDEYRKYIEKDP---ALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRF-  385 (853)
Q Consensus       310 ~IgaTT~~Eyrk~iEkD~---Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~-  385 (853)
                      +|+||- ..-.+.|++-.   -|==|..++.|.=|-.-+-.+=+-.+..++               ..++|.+|=.+-. 
T Consensus       384 IIAATN-~nL~~~i~~G~FReDLYYRLNV~~i~iPPLReR~eDI~~L~~~F---------------l~k~s~~~~~~v~~  447 (560)
T COG3829         384 IIAATN-RNLEKMIAEGTFREDLYYRLNVIPITIPPLRERKEDIPLLAEYF---------------LDKFSRRYGRNVKG  447 (560)
T ss_pred             EEECCC-CCHHHHHHCCCCHHHHEEEECEEEECCCCCCCCCCHHHHHHHHH---------------HHHHHHHCCCCCCC
T ss_conf             994257-58999986396165530030401114777233820189999999---------------99999872887666


Q ss_pred             CHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Q ss_conf             74778999999999875410222145788799999744
Q gi|254780877|r  386 LPDKAIDLMDEASARVRMQIDTKPEVLDELDRRIICLK  423 (853)
Q Consensus       386 lPDKAIDllDeA~A~~~i~~~~~P~~l~~l~r~i~~l~  423 (853)
                      +++.|+++|         .++.+|-.+.++++-++++-
T Consensus       448 ls~~a~~~L---------~~y~WPGNVRELeNviER~v  476 (560)
T COG3829         448 LSPDALALL---------LRYDWPGNVRELENVIERAV  476 (560)
T ss_pred             CCHHHHHHH---------HHCCCCCHHHHHHHHHHHHH
T ss_conf             899999999---------86899960999999999998


No 336
>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator; InterPro: IPR014264   Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC (see Q06065 from SWISSPROT). These proteins have a Fis family DNA binding sequence, a response regulator receiver domain, and sigma-54 interaction domain. They are found strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system  common in Gram-positive bacteria, where members of IPR014265 from INTERPRO and IPR014266 from INTERPRO also occur..
Probab=97.50  E-value=0.00052  Score=51.54  Aligned_cols=230  Identities=21%  Similarity=0.356  Sum_probs=138.4

Q ss_pred             HHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHC---CCCCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf             8899975999899999999873778878777546761078864435699872---9853333357899999996336777
Q gi|254780877|r  123 GESLKKCGLKFSRLEESIKKLRKGRVADSVNAEQGFDALKKYCRDLTEEARN---GKLDPVIGRDDEMRRAIQVLSRRTK  199 (853)
Q Consensus       123 a~iL~~~gi~~~~l~e~i~~~~~~~~~~~~~~e~~~~~L~ky~~DLTe~Ar~---GkLDPVIGRe~EI~~~~~iL~r~~k  199 (853)
                      ||-|-+-.++.+.+.=.+++...            ...|++==|-|+. +..   -.+.=+||+++++.++.+..-|=--
T Consensus        97 AYDFyqKP~d~d~L~liv~RAf~------------L~~Le~ENRrL~~-~~~~Gst~~~Gli~~~~~m~kic~tIekvA~  163 (451)
T TIGR02915        97 AYDFYQKPIDPDVLKLIVDRAFR------------LYTLETENRRLQS-ALGGGSTALEGLITSSPGMQKICRTIEKVAP  163 (451)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHH------------HHHHHHHHHHHHH-CCCCCCCCCCCEEECCCCHHHHHHHHHHHCC
T ss_conf             51013578757899999999888------------8888887699874-0688741036522068506789888652120


Q ss_pred             CC--EEEECCCCCCHHHHHHHHHHHH----------HCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             86--6895288740777999999987----------34899844457437887313542174542024545899999986
Q gi|254780877|r  200 NN--PVLIGDPGVGKTAIIEGLASRI----------INGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIR  267 (853)
Q Consensus       200 ~n--~~lvGe~GvGKtaive~la~~i----------~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~  267 (853)
                      +|  ++|.||+|.||=-++.++-+.=          .=+-+|+.|-...+|.-.=|++          -.=+|..+-.++
T Consensus       164 sd~TvllLGESGTGKEV~ArA~H~~S~R~~~~FVAINCAAIPEnLLEsELFGyEKGAF----------TGA~k~T~GKIE  233 (451)
T TIGR02915       164 SDITVLLLGESGTGKEVLARALHELSDRKDKRFVAINCAAIPENLLESELFGYEKGAF----------TGAVKQTLGKIE  233 (451)
T ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHCCCCHHH----------HHHHCCCCCCEE
T ss_conf             0001301046671178999898420578977734441674575246677603410124----------220034776167


Q ss_pred             HCCCCEEEEECCHH-----------------HH--CCCCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHHHHHHCCHH
Q ss_conf             07997699963627-----------------73--026665543358888765312466048997448999997300111
Q gi|254780877|r  268 SEDGEIILFIDELH-----------------VL--VGAGKTDGAMDASNLLKPSLARGELHCIGATTLDEYRKYIEKDPA  328 (853)
Q Consensus       268 ~~~~~~ilfide~h-----------------~~--~gaG~~~g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~A  328 (853)
                      -+.+. =||.|||=                 .|  +| |+.+-.+             +.|+|+||-. .-+++|+...=
T Consensus       234 ~A~~G-TLFLDEIGDLP~~LQAKLLRFLQErVIER~G-GR~eIPV-------------DVRvvCATnq-dL~~~i~eg~F  297 (451)
T TIGR02915       234 YAHGG-TLFLDEIGDLPLNLQAKLLRFLQERVIERLG-GREEIPV-------------DVRVVCATNQ-DLKKMIAEGTF  297 (451)
T ss_pred             EECCC-CCCCCCHHCCCHHHHHHHHHHHHHHHHHCCC-CCCCCCC-------------CEEEEECCCH-HHHHHHHCCCC
T ss_conf             50688-3011112206766899999875466631058-8724561-------------4267503224-68999854897


Q ss_pred             ---HHHCCCEEECCCCC----HHHHHHHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf             ---32023111115777----67899999997898654149---610158999998633320245767477899999999
Q gi|254780877|r  329 ---LARRFQSLLVGEPT----VTDTISILRGLKERYEQHHK---VRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEAS  398 (853)
Q Consensus       329 ---l~RRFq~i~V~Eps----~~~t~~iL~gl~~~yE~~H~---V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~  398 (853)
                         |==|.-.|.|.=|-    .++++-+=+....+|-.-|+   -.+|++|+.+                          
T Consensus       298 REDLfYRl~Eisi~iPPLR~R~gDa~lLA~~Fl~rf~~~~k~~~~~F~~DA~~a--------------------------  351 (451)
T TIGR02915       298 REDLFYRLAEISITIPPLRDRDGDAVLLANAFLERFARELKRKAKGFTDDALRA--------------------------  351 (451)
T ss_pred             CCCCEEEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHH--------------------------
T ss_conf             200013466678625889986018999999999988787330216606999999--------------------------


Q ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             98754102221457887999997
Q gi|254780877|r  399 ARVRMQIDTKPEVLDELDRRIIC  421 (853)
Q Consensus       399 A~~~i~~~~~P~~l~~l~r~i~~  421 (853)
                          ++.+++|=.+.++++++.+
T Consensus       352 ----le~h~WPGNvRELEN~vKR  370 (451)
T TIGR02915       352 ----LEAHKWPGNVRELENKVKR  370 (451)
T ss_pred             ----HHCCCCCCCHHHHHCHHHE
T ss_conf             ----7606998841544030021


No 337
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=97.50  E-value=0.0089  Score=41.54  Aligned_cols=105  Identities=23%  Similarity=0.378  Sum_probs=68.9

Q ss_pred             EEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHH-CCCCCCCHH--HCCCCHHC--CCCCCC--CCCHHHHC---
Q ss_conf             289872678616889999999872377653002244774-034532013--04771120--356677--42113221---
Q gi|254780877|r  599 GSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEY-MEKHSVSRL--IGSPPGYV--GYEEGG--ALTEAVRR---  668 (853)
Q Consensus       599 ~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey-~e~~~vs~L--iGappGYv--G~~~gg--~Lte~vr~---  668 (853)
                      -.+||.||.|+||+.+|..+|+.|.-....      ++- ..-|+. +|  -|+-|-|.  .-+++|  .-.+.||.   
T Consensus        26 HA~L~~g~~G~Gk~~la~~la~~LlC~~~~------~~~Cg~C~sC-~l~~~g~HPD~~~i~pe~~~k~I~vd~IR~l~~   98 (319)
T PRK06090         26 GALLLQSDEGLGVESLVELFSHALLCQNYQ------SEACGFCHSC-ELMKSGNHPDLHVIKPEKEGKSITVEQIRQCNR   98 (319)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHCCCCC------CCCCCCCHHH-HHHHCCCCCCCEEEECCCCCCCCCHHHHHHHHH
T ss_conf             067667999857999999999998089999------9988778779-998758999823661233567687999999999


Q ss_pred             --------CCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHH
Q ss_conf             --------56410220214414989999999984045788799977830331559548512
Q gi|254780877|r  669 --------HPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLG  721 (853)
Q Consensus       669 --------~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G  721 (853)
                              ..|-|+++|+.|+-+..-.|.||-.|+|=-           .||+||++|+--
T Consensus        99 ~~~~~~~~g~~KV~iI~~ae~m~~~AaNALLKtLEEPp-----------~~t~fiL~t~~~  148 (319)
T PRK06090         99 LAQESSQLGGYRLFVIEPADAMNESASNALLKTLEEPA-----------PNCLFLLVTHNQ  148 (319)
T ss_pred             HHHHCCCCCCCEEEEECCHHHCCHHHHHHHHHHHCCCC-----------CCEEEEEEECCH
T ss_conf             97545210693699981444349999999999842899-----------883899876851


No 338
>KOG0652 consensus
Probab=97.48  E-value=0.0036  Score=44.77  Aligned_cols=168  Identities=24%  Similarity=0.338  Sum_probs=104.5

Q ss_pred             CCCHHHHHHHHHHHH-------------CCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHH
Q ss_conf             333578999999963-------------3677786689528874077799999998734899844457437887313542
Q gi|254780877|r  180 VIGRDDEMRRAIQVL-------------SRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALI  246 (853)
Q Consensus       180 VIGRe~EI~~~~~iL-------------~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~  246 (853)
                      +=|-|+.|+.+++..             .-+--..+++-|+||.|||-++..-|-.-..-  --.|.+-.++.       
T Consensus       173 iGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aT--FLKLAgPQLVQ-------  243 (424)
T KOG0652         173 IGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNAT--FLKLAGPQLVQ-------  243 (424)
T ss_pred             CCCHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHCCCH--HHHHCCHHHHH-------
T ss_conf             325789999999886145656878874688899722765799975779999998740106--88732647776-------


Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCC--CCCC---------HHHHHHHHHCCCCEEEEEEEC
Q ss_conf             17454202454589999998607997699963627730266655--4335---------888876531246604899744
Q gi|254780877|r  247 AGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTD--GAMD---------ASNLLKPSLARGELHCIGATT  315 (853)
Q Consensus       247 ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~--g~~D---------aan~LKP~LarG~l~~IgaTT  315 (853)
                         .|-|+-..-++.-+.-.++ +.+.|+||||+..| |+.+.+  -+.|         .-|-|...-+..++++|+||.
T Consensus       244 ---MfIGdGAkLVRDAFaLAKE-kaP~IIFIDElDAI-GtKRfDSek~GDREVQRTMLELLNQLDGFss~~~vKviAATN  318 (424)
T KOG0652         244 ---MFIGDGAKLVRDAFALAKE-KAPTIIFIDELDAI-GTKRFDSEKAGDREVQRTMLELLNQLDGFSSDDRVKVIAATN  318 (424)
T ss_pred             ---HHHCCHHHHHHHHHHHHHC-CCCEEEEEECHHHH-CCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCEEEEEECC
T ss_conf             ---6533418899999987533-49838997300232-334365312343899999999998604899756267885216


Q ss_pred             HHHHHHHHHCCHHHHH--C-CCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             8999997300111320--2-3111115777678999999978986541496101
Q gi|254780877|r  316 LDEYRKYIEKDPALAR--R-FQSLLVGEPTVTDTISILRGLKERYEQHHKVRIS  366 (853)
Q Consensus       316 ~~Eyrk~iEkD~Al~R--R-Fq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~  366 (853)
                      --.     =-||||-|  | =.+|...-|+.+.--.||+-...++-.+..|.+.
T Consensus       319 RvD-----iLDPALlRSGRLDRKIEfP~Pne~aRarIlQIHsRKMnv~~DvNfe  367 (424)
T KOG0652         319 RVD-----ILDPALLRSGRLDRKIEFPHPNEEARARILQIHSRKMNVSDDVNFE  367 (424)
T ss_pred             CCC-----CCCHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCHH
T ss_conf             434-----3488886446644443488997789889998864005778887989


No 339
>TIGR02881 spore_V_K stage V sporulation protein K; InterPro: IPR014232   Proteins in this entry include the stage V sporulation protein K (SpoVK), a close homologue of the Rubisco expression protein CbbX (IPR000470 from INTERPRO), and are members of an ATPase family associated with various cellular activities. These proteins are strictly limited to bacterial endospore-forming species, but are not found universally among members of this group; they are missing from the Clostridium species..
Probab=97.47  E-value=0.01  Score=41.01  Aligned_cols=161  Identities=25%  Similarity=0.428  Sum_probs=117.1

Q ss_pred             HHHHHHHHHHCCCCCCC---------EEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHH
Q ss_conf             89999999633677786---------689528874077799999998734899844457437887313542174542024
Q gi|254780877|r  185 DEMRRAIQVLSRRTKNN---------PVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEF  255 (853)
Q Consensus       185 ~EI~~~~~iL~r~~k~n---------~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~  255 (853)
                      .||--.++|=.||.+..         =|.-|-||.|||+++--+|+..-+=+|   |.-=++++..=+-||.  =|=|.=
T Consensus        19 ~EiYA~i~i~~kR~~~GLk~~~~~LHMiFKGNPGTGKTTVAR~~gklf~emnv---L~KGH~iE~ERADLVG--EYIGHT   93 (261)
T TIGR02881        19 KEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARLLGKLFKEMNV---LSKGHLIEVERADLVG--EYIGHT   93 (261)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHCCC---CCCCCEEEEEECCCCC--CCCCCH
T ss_conf             99999999988887510114884478774278668438999999999853375---6788678876222122--320300


Q ss_pred             HHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHC--CCCEEEEEEECHHHHHHHHHCCHHHHHCC
Q ss_conf             5458999999860799769996362773026665543358888765312--46604899744899999730011132023
Q gi|254780877|r  256 EERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLA--RGELHCIGATTLDEYRKYIEKDPALARRF  333 (853)
Q Consensus       256 e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~La--rG~l~~IgaTT~~Eyrk~iEkD~Al~RRF  333 (853)
                      .+|.+.+++-  +.-|  ||||||..+|---|-=+=+=.|-..|--.+.  +.++=+|=|==++|=--+.+-+|.|..||
T Consensus        94 AqkTRe~~kk--A~GG--vLFiDEAYSLaRGGEKDFGKEAIDtLVK~mEd~~~~lvlILAGY~~EM~yFL~~NPGL~SRF  169 (261)
T TIGR02881        94 AQKTREVIKK--ALGG--VLFIDEAYSLARGGEKDFGKEAIDTLVKAMEDQRNELVLILAGYSDEMDYFLSLNPGLRSRF  169 (261)
T ss_pred             HHHHHHHHHH--HCCC--CHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHCCCCCCCCC
T ss_conf             4899999998--6388--00557777761488887662088899998761569868997087689999862077977766


Q ss_pred             CEEECCCC--CHHHHHHHHHHHHH
Q ss_conf             11111577--76789999999789
Q gi|254780877|r  334 QSLLVGEP--TVTDTISILRGLKE  355 (853)
Q Consensus       334 q~i~V~Ep--s~~~t~~iL~gl~~  355 (853)
                       ||.++=|  ++++-+.|......
T Consensus       170 -Pi~i~FPdY~~eeL~~Ia~~m~~  192 (261)
T TIGR02881       170 -PISIDFPDYTVEELMEIAERMVK  192 (261)
T ss_pred             -CCEEECCCCCHHHHHHHHHHHHH
T ss_conf             -50541889988899999999986


No 340
>pfam00910 RNA_helicase RNA helicase. This family includes RNA helicases thought to be involved in duplex unwinding during viral RNA replication. Members of this family are found in a variety of single stranded RNA viruses.
Probab=97.47  E-value=0.0002  Score=54.85  Aligned_cols=95  Identities=28%  Similarity=0.458  Sum_probs=59.1

Q ss_pred             EEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCC---CCHHCCCCCCCCCCHHHHCCCCCEEEEHH
Q ss_conf             872678616889999999872377653002244774034532013047---71120356677421132215641022021
Q gi|254780877|r  602 MFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGS---PPGYVGYEEGGALTEAVRRHPYQVVLFDE  678 (853)
Q Consensus       602 lf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGa---ppGYvG~~~gg~Lte~vr~~P~sVil~DE  678 (853)
                      .|.||+|+|||.+|+.||..+-..   +      .+....++...-..   =.||.|             +  -|+++|+
T Consensus         2 ~l~G~~G~GKS~~a~~la~~~~~~---~------~~~~~~~~Y~~~~~~~~wdgY~g-------------q--~vvi~DD   57 (105)
T pfam00910         2 WLYGPPGCGKSTLAKYLARALLDH---L------GLPKKDSVYSRNPDDDFWDGYTG-------------Q--PVVIIDD   57 (105)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHH---H------CCCCCCCEEECCCCCCCCCCCCC-------------C--EEEEEEC
T ss_conf             897999898899999999999998---3------77878977967887765678899-------------8--5799965


Q ss_pred             HHHCCHH--HHHHHHHHHHCCEEE----CCCCCEEECCCCEEEECCCH
Q ss_conf             4414989--999999984045788----79997783033155954851
Q gi|254780877|r  679 IEKAHSD--VHNILLQVLDDGRLT----DSQGRTVDFRNTLIIMTSNL  720 (853)
Q Consensus       679 iEKah~~--v~~~llqild~G~lt----d~~G~~v~f~n~iii~TsN~  720 (853)
                      +-....+  .+..|.|+.+.-.+.    +-.++-.-|+.-+||+|||.
T Consensus        58 ~~~~~~~~~~~~~~~~lvs~~p~~~~ma~le~Kg~~f~s~~vi~tsN~  105 (105)
T pfam00910        58 FGQNPDGPSDEAELIRLVSSTPYPPPMAALEEKGTPFTSKFVIVTSNF  105 (105)
T ss_pred             CCCCCCCCHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCEEEEECCC
T ss_conf             777888628899999875699838886676148884468889994799


No 341
>KOG0742 consensus
Probab=97.46  E-value=0.017  Score=39.25  Aligned_cols=191  Identities=22%  Similarity=0.359  Sum_probs=104.7

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHC---CCCH
Q ss_conf             9999999998741012365665128987267861688999999987237765300224477403453201304---7711
Q gi|254780877|r  576 AVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIG---SPPG  652 (853)
Q Consensus       576 ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiG---appG  652 (853)
                      +.+.-...|-++-++-+..+-|.-..||.||+|+|||..||.||.--.        +|   |      +.+.|   ||-|
T Consensus       362 sLe~Rie~lA~aTaNTK~h~apfRNilfyGPPGTGKTm~ArelAr~SG--------lD---Y------A~mTGGDVAPlG  424 (630)
T KOG0742         362 SLEKRIEDLAIATANTKKHQAPFRNILFYGPPGTGKTMFARELARHSG--------LD---Y------AIMTGGDVAPLG  424 (630)
T ss_pred             HHHHHHHHHHHHHCCCCCCCCHHHHEEEECCCCCCHHHHHHHHHHHCC--------CC---E------EHHCCCCCCCCH
T ss_conf             799999999887404300243044003247999860499999988528--------74---1------001378755521


Q ss_pred             HCCCCCCCCCCHHHHCCCCCEEE-EHHHHH------------CCHHHHHHHHHHHHCCEEECCCCCEEECCCC-EEEECC
Q ss_conf             20356677421132215641022-021441------------4989999999984045788799977830331-559548
Q gi|254780877|r  653 YVGYEEGGALTEAVRRHPYQVVL-FDEIEK------------AHSDVHNILLQVLDDGRLTDSQGRTVDFRNT-LIIMTS  718 (853)
Q Consensus       653 YvG~~~gg~Lte~vr~~P~sVil-~DEiEK------------ah~~v~~~llqild~G~ltd~~G~~v~f~n~-iii~Ts  718 (853)
                      --|-..=..|-.+-++.-...+| .||-+-            |...-+|.||  |          |+-|-++- +.++-|
T Consensus       425 ~qaVTkiH~lFDWakkS~rGLllFIDEADAFLceRnktymSEaqRsaLNAlL--f----------RTGdqSrdivLvlAt  492 (630)
T KOG0742         425 AQAVTKIHKLFDWAKKSRRGLLLFIDEADAFLCERNKTYMSEAQRSALNALL--F----------RTGDQSRDIVLVLAT  492 (630)
T ss_pred             HHHHHHHHHHHHHHHHCCCCEEEEEHHHHHHHHHHCCCCCCHHHHHHHHHHH--H----------HCCCCCCCEEEEEEC
T ss_conf             7889999998788751566449986116789987520102588999998898--7----------625655426899605


Q ss_pred             CHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHH-------------H--H
Q ss_conf             512687640326799999999986288577266681586288998999999999999999999-------------8--5
Q gi|254780877|r  719 NLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLI-------------K--E  783 (853)
Q Consensus       719 N~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l-------------~--~  783 (853)
                      |-        +..            |--..-+|||++|-|.--..++..+++.++|++....-             +  .
T Consensus       493 Nr--------pgd------------lDsAV~DRide~veFpLPGeEERfkll~lYlnkyi~~~~~~~~~~~~~~lfkk~s  552 (630)
T KOG0742         493 NR--------PGD------------LDSAVNDRIDEVVEFPLPGEEERFKLLNLYLNKYILKPATSGKPGKWSHLFKKES  552 (630)
T ss_pred             CC--------CCC------------HHHHHHHHHHHHEECCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHH
T ss_conf             88--------321------------0167876555413068997789999999999998147777789721557776440


Q ss_pred             CCCEEE--ECHHHHHHHHHCCCCCCCCCHHHHHHHH
Q ss_conf             798999--9889999999708982206215799999
Q gi|254780877|r  784 RNISMD--FDDQVIDWLSCRGYDPSYGARPLKRVIQ  817 (853)
Q Consensus       784 ~~i~l~--~~~~~~~~l~~~~~~~~~GaR~l~r~i~  817 (853)
                      +.|++.  .++......+.+  ...|..|.|...+-
T Consensus       553 Q~i~l~~~~t~~~~~EaAkk--TeGfSGREiakLva  586 (630)
T KOG0742         553 QRIKLAGFDTGRKCSEAAKK--TEGFSGREIAKLVA  586 (630)
T ss_pred             HEEEECCCHHHHHHHHHHHH--CCCCCHHHHHHHHH
T ss_conf             15544343188899999986--06875789999999


No 342
>KOG0743 consensus
Probab=97.45  E-value=0.0011  Score=48.91  Aligned_cols=112  Identities=28%  Similarity=0.366  Sum_probs=77.6

Q ss_pred             CCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEE
Q ss_conf             36777866895288740777999999987348998444574378873135421745420245458999999860799769
Q gi|254780877|r  195 SRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEII  274 (853)
Q Consensus       195 ~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~i  274 (853)
                      .|--|..=+|-||||.|||+.|-.+|.-          -++-||-|++++.      +...|  ++.++...   +++-|
T Consensus       231 GkawKRGYLLYGPPGTGKSS~IaAmAn~----------L~ydIydLeLt~v------~~n~d--Lr~LL~~t---~~kSI  289 (457)
T KOG0743         231 GKAWKRGYLLYGPPGTGKSSFIAAMANY----------LNYDIYDLELTEV------KLDSD--LRHLLLAT---PNKSI  289 (457)
T ss_pred             CCCCCCCCEEECCCCCCHHHHHHHHHHH----------CCCCEEEEEECCC------CCCHH--HHHHHHHC---CCCCE
T ss_conf             8450004120479999888999999720----------5873677440023------68389--99999728---99718


Q ss_pred             EEECCHHHHCC---CCCC--------CCCCCHHHH---HHHHH-CCCCEEEEEEECHHHHHHHHHC-CHHHHHC
Q ss_conf             99636277302---6665--------543358888---76531-2466048997448999997300-1113202
Q gi|254780877|r  275 LFIDELHVLVG---AGKT--------DGAMDASNL---LKPSL-ARGELHCIGATTLDEYRKYIEK-DPALARR  332 (853)
Q Consensus       275 lfide~h~~~g---aG~~--------~g~~Daan~---LKP~L-arG~l~~IgaTT~~Eyrk~iEk-D~Al~RR  332 (853)
                      |.|.+|-+=+.   ....        .+.+..+-+   +--.- +-|+=|+|--||.     |+|| ||||-|+
T Consensus       290 ivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTN-----h~EkLDPALlRp  358 (457)
T KOG0743         290 LLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTN-----HKEKLDPALLRP  358 (457)
T ss_pred             EEEEECCCCCCCCCCCCCCCCCCCCCCCEEEHHHHHHHHCCCCCCCCCCEEEEEECC-----CHHHCCHHHCCC
T ss_conf             999612432304434555664546776606647756641343004887349999468-----710068866288


No 343
>KOG2035 consensus
Probab=97.44  E-value=0.0016  Score=47.65  Aligned_cols=199  Identities=20%  Similarity=0.254  Sum_probs=126.2

Q ss_pred             HHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHC---------CCEE----
Q ss_conf             987298533333578999999963367778668952887407779999999873489984445---------7437----
Q gi|254780877|r  171 EARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLK---------GKRL----  237 (853)
Q Consensus       171 ~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~---------~~~i----  237 (853)
                      +-+-..+|-++++++--..+....+-..=.+-++-|+.|.||.+.+-.|-..+.--.|+.---         ++++    
T Consensus         6 kyrpksl~~l~~~~e~~~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEist   85 (351)
T KOG2035           6 KYRPKSLDELIYHEELANLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEIST   85 (351)
T ss_pred             HCCCCHHHHCCCHHHHHHHHHHHCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHCCCCHHEEEEEEEEECCCCCEEEEEE
T ss_conf             50751143033188888999874145778707888889887211189999988578724505666788648886379999


Q ss_pred             ----EEEEHHHHHCCCCCCCHHHHH--HHHHHHHHHHCCC--------CEEEEECCHHHHCCCCCCCCCCCHHHHHHHHH
Q ss_conf             ----887313542174542024545--8999999860799--------76999636277302666554335888876531
Q gi|254780877|r  238 ----MALDMGALIAGAKFRGEFEER--LKSLLCEIRSEDG--------EIILFIDELHVLVGAGKTDGAMDASNLLKPSL  303 (853)
Q Consensus       238 ----~~ld~~~l~ag~~~rg~~e~r--~~~i~~~~~~~~~--------~~ilfide~h~~~gaG~~~g~~Daan~LKP~L  303 (853)
                          +-|.+.-==||      +-.|  ++.+++++.+..+        =-++.|-|...+        +-||-.-|.-.+
T Consensus        86 vsS~yHlEitPSDaG------~~DRvViQellKevAQt~qie~~~qr~fKvvvi~ead~L--------T~dAQ~aLRRTM  151 (351)
T KOG2035          86 VSSNYHLEITPSDAG------NYDRVVIQELLKEVAQTQQIETQGQRPFKVVVINEADEL--------TRDAQHALRRTM  151 (351)
T ss_pred             ECCCCEEEECHHHCC------CCCHHHHHHHHHHHHHHCCHHHCCCCCEEEEEEECHHHH--------HHHHHHHHHHHH
T ss_conf             425651774734337------511799999999987414133326665489998035765--------088999999999


Q ss_pred             C--CCCEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHC
Q ss_conf             2--46604899744899999730011132023111115777678999999978986541496101589999986333202
Q gi|254780877|r  304 A--RGELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYI  381 (853)
Q Consensus       304 a--rG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi  381 (853)
                      .  .+.+|+|-..  .+-.+.||+   +-.|-=-|.|..||.++-..+|..+..+    .+....++.+...+.-|.|-+
T Consensus       152 EkYs~~~RlIl~c--ns~SriIep---IrSRCl~iRvpaps~eeI~~vl~~v~~k----E~l~lp~~~l~rIa~kS~~nL  222 (351)
T KOG2035         152 EKYSSNCRLILVC--NSTSRIIEP---IRSRCLFIRVPAPSDEEITSVLSKVLKK----EGLQLPKELLKRIAEKSNRNL  222 (351)
T ss_pred             HHHHCCCEEEEEE--CCCCCCHHH---HHHHEEEEECCCCCHHHHHHHHHHHHHH----HCCCCCHHHHHHHHHHHCCCH
T ss_conf             9986071699992--674302267---7622058767899878999999999987----334484999999999706439


Q ss_pred             CCCCCHHHHHHHHHHHH
Q ss_conf             45767477899999999
Q gi|254780877|r  382 TDRFLPDKAIDLMDEAS  398 (853)
Q Consensus       382 ~~r~lPDKAIDllDeA~  398 (853)
                            -+||=.+..++
T Consensus       223 ------RrAllmlE~~~  233 (351)
T KOG2035         223 ------RRALLMLEAVR  233 (351)
T ss_pred             ------HHHHHHHHHHH
T ss_conf             ------99999999998


No 344
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=97.43  E-value=0.012  Score=40.57  Aligned_cols=106  Identities=24%  Similarity=0.425  Sum_probs=65.2

Q ss_pred             CEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCC-CCCCH-HHCCCCHHCCC--CCCC--------CCCHH
Q ss_conf             1289872678616889999999872377653002244774034-53201-30477112035--6677--------42113
Q gi|254780877|r  598 MGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEK-HSVSR-LIGSPPGYVGY--EEGG--------ALTEA  665 (853)
Q Consensus       598 ~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~-~~vs~-LiGappGYvG~--~~gg--------~Lte~  665 (853)
                      --.+||.||.|+||+.+|+.+|..|.-....    + .+-+.. |+.-. .-|+-|-|.-.  .+|.        .|.+.
T Consensus        23 ~HA~L~~G~~G~Gk~~la~~~a~~llC~~~~----~-~~~Cg~C~sC~l~~~g~HPD~~~i~~~~~k~I~vd~IR~l~~~   97 (324)
T PRK06871         23 HHALLFKADSGLGTEQLIRALAQWLMCQAPG----D-EQPCGQCHSCHLFQAGNHPDFHILEPIDGKDIGVDQVREINEK   97 (324)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHCCCCC----C-CCCCCCCHHHHHHHCCCCCCEEEEECCCCCCCCHHHHHHHHHH
T ss_conf             4378768999978999999999998289999----9-9988889899999738999879984678887889999999999


Q ss_pred             HHCCC----CCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCC
Q ss_conf             22156----4102202144149899999999840457887999778303315595485
Q gi|254780877|r  666 VRRHP----YQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSN  719 (853)
Q Consensus       666 vr~~P----~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN  719 (853)
                      +...|    +-|++.|+.|+-...-.|.||-.|+|--           .||+||++|+
T Consensus        98 ~~~~~~~g~~KV~iI~~ae~m~~~AaNALLKtLEEPp-----------~~~~fiL~t~  144 (324)
T PRK06871         98 VSQFAQQGGNKVVYIQGAERLTEAAANALLKTLEEPR-----------PNTYFLLQAD  144 (324)
T ss_pred             HHHCCCCCCCEEEEECCHHHHHHHHHHHHHHHHCCCC-----------CCEEEEEEEC
T ss_conf             8646220596699975888857999999999833898-----------7838999878


No 345
>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]
Probab=97.42  E-value=0.019  Score=38.92  Aligned_cols=200  Identities=18%  Similarity=0.211  Sum_probs=79.8

Q ss_pred             CCCCCHHHHHHHHH----HCCCCHHHHHH-HCCCCHHHHHHHHHHHHCCCCCCCCCCCCCC---CHHHHH-HHHHHHH-H
Q ss_conf             87025999876687----27751788999-7599989999999987377887877754676---107886-4435699-8
Q gi|254780877|r  103 DSFVTAEKFLLAMV----METGGIGESLK-KCGLKFSRLEESIKKLRKGRVADSVNAEQGF---DALKKY-CRDLTEE-A  172 (853)
Q Consensus       103 ~~~I~~ehLLlAIl----~e~~s~a~iL~-~~gi~~~~l~e~i~~~~~~~~~~~~~~e~~~---~~L~ky-~~DLTe~-A  172 (853)
                      ++.|+.+|+.-++-    ..+-.++++|. .-|+-...+-..+.+..+-.......|=...   ..+++. ..|+++. |
T Consensus        16 ~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I~~g~~~DviEiDa   95 (515)
T COG2812          16 DDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEINEGSLIDVIEIDA   95 (515)
T ss_pred             HHHCCCHHHHHHHHHHHHHCCCHHHHHHCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHCCCCCCCHHHHH
T ss_conf             77636489999999999808423336513777767104999999995688987777225316668651488641011364


Q ss_pred             HCCCCCCCCCHHHHHHHHHHHH---CCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEE---EHHHHH
Q ss_conf             7298533333578999999963---3677786689528874077799999998734899844457437887---313542
Q gi|254780877|r  173 RNGKLDPVIGRDDEMRRAIQVL---SRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMAL---DMGALI  246 (853)
Q Consensus       173 r~GkLDPVIGRe~EI~~~~~iL---~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~l---d~~~l~  246 (853)
                      ..+.     | =++||++++-.   --+.|.-+.+|-|.-.=.|..-.+|=.-+-+   |+.   +.+|-|   +...+-
T Consensus        96 ASn~-----g-VddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEE---PP~---hV~FIlATTe~~Kip  163 (515)
T COG2812          96 ASNT-----G-VDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEE---PPS---HVKFILATTEPQKIP  163 (515)
T ss_pred             HHCC-----C-HHHHHHHHHHHCCCCCCCCCEEEEEECHHHHHHHHHHHHHCCCCC---CCC---CEEEEEECCCCCCCC
T ss_conf             4454-----8-679999998724688666641899831876437888887511136---866---748998538867684


Q ss_pred             CCCCCCCH-------HHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCC-CCHHHHHHHHHCCCCEEEEEEECHHH
Q ss_conf             17454202-------45458999999860799769996362773026665543-35888876531246604899744899
Q gi|254780877|r  247 AGAKFRGE-------FEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGA-MDASNLLKPSLARGELHCIGATTLDE  318 (853)
Q Consensus       247 ag~~~rg~-------~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~-~Daan~LKP~LarG~l~~IgaTT~~E  318 (853)
                      .---.|-+       =++.+..-++.+...++  |-+-|+.-.++. -.++|| -|+.++|--+++-|+    |.-|.+.
T Consensus       164 ~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~--I~~e~~aL~~ia-~~a~Gs~RDalslLDq~i~~~~----~~It~~~  236 (515)
T COG2812         164 NTILSRCQRFDFKRLDLEEIAKHLAAILDKEG--INIEEDALSLIA-RAAEGSLRDALSLLDQAIAFGE----GEITLES  236 (515)
T ss_pred             HHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCC--CCCCHHHHHHHH-HHCCCCHHHHHHHHHHHHHCCC----CCCCHHH
T ss_conf             04552122022257999999999999987448--754799999999-9828974567778999997067----7656999


Q ss_pred             HHH
Q ss_conf             999
Q gi|254780877|r  319 YRK  321 (853)
Q Consensus       319 yrk  321 (853)
                      -++
T Consensus       237 v~~  239 (515)
T COG2812         237 VRD  239 (515)
T ss_pred             HHH
T ss_conf             999


No 346
>pfam02861 Clp_N Clp amino terminal domain. This short domain is found in one or two copies at the amino terminus of ClpA and ClpB proteins from bacteria and eukaryotes. The function of these domains is uncertain but they may form a protein binding site.
Probab=97.41  E-value=0.00043  Score=52.25  Aligned_cols=51  Identities=39%  Similarity=0.668  Sum_probs=45.5

Q ss_pred             HHHHHHHCCCCCCCHHHHHHHHHHCCCCHH-HHHHHCCCCHHHHHHHHHHHH
Q ss_conf             999999719870259998766872775178-899975999899999999873
Q gi|254780877|r   94 SEEIAKKSGDSFVTAEKFLLAMVMETGGIG-ESLKKCGLKFSRLEESIKKLR  144 (853)
Q Consensus        94 A~~~A~~~g~~~I~~ehLLlAIl~e~~s~a-~iL~~~gi~~~~l~e~i~~~~  144 (853)
                      |...|..+|+++|++||||+|++.++++.+ .+|.++|++.+.+++.+...+
T Consensus         1 A~~~A~~~~~~~i~~EHlLlall~~~~~~~~~il~~~g~~~~~l~~~i~~~~   52 (53)
T pfam02861         1 AQELAKELGHQYIGTEHLLLALLEEDDGIAARLLKKAGVDLDALREAIEKLL   52 (53)
T ss_pred             CHHHHHHCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHH
T ss_conf             9888978699853499999999865885899999995989999999999870


No 347
>pfam00931 NB-ARC NB-ARC domain.
Probab=97.40  E-value=0.013  Score=40.28  Aligned_cols=150  Identities=13%  Similarity=0.089  Sum_probs=82.1

Q ss_pred             HHHHHHHHHHHHCCCCCC--CEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHH--------------HH
Q ss_conf             578999999963367778--66895288740777999999987348998444574378873135--------------42
Q gi|254780877|r  183 RDDEMRRAIQVLSRRTKN--NPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGA--------------LI  246 (853)
Q Consensus       183 Re~EI~~~~~iL~r~~k~--n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~--------------l~  246 (853)
                      ||+++++++.-|....++  =+-++|.+|||||+++..+....   .+.... +.++|- .++.              +.
T Consensus         1 r~~~~~~i~~~L~~~~~~~~vI~I~G~gGiGKTtLA~~v~~~~---~i~~~F-~~~~wv-~vs~~~~~~~i~~~i~~~l~   75 (285)
T pfam00931         1 REDMIEALIEKLLEMSENLGVVGIVGMGGVGKTTLAKQIYNDD---SVGGHF-DSVAWV-VVSKTYTEFRLQKDILQELG   75 (285)
T ss_pred             CHHHHHHHHHHHHCCCCCCEEEEEECCCCCCHHHHHHHHHCCH---HHHHCC-CEEEEE-EECCCCCHHHHHHHHHHHHC
T ss_conf             9689999999986489895399988999563999999997165---565059-838999-97976668999999999856


Q ss_pred             C--CCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCC-CEEEEEEECHHHHHHHH
Q ss_conf             1--74542024545899999986079976999636277302666554335888876531246-60489974489999973
Q gi|254780877|r  247 A--GAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARG-ELHCIGATTLDEYRKYI  323 (853)
Q Consensus       247 a--g~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG-~l~~IgaTT~~Eyrk~i  323 (853)
                      .  +.....+.++....+-+.+.  .++..|++|++-.-         -+...+..|....+ .-++|-+|-..+--+++
T Consensus        76 ~~~~~~~~~~~~~l~~~l~~~L~--~kr~LiVLDDVw~~---------~~~~~l~~~~~~~~~gSrIIvTTR~~~V~~~~  144 (285)
T pfam00931        76 LDDSDWVEKNESELAVKIKEALL--RKRFLLVLDDVWEK---------NDWDKIGVPFPDGENGSRVIVTTRSESVAGRM  144 (285)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHC--CCCEEEEECCCCCH---------HHHHHHHCCCCCCCCCCEEEEECCCHHHHHHC
T ss_conf             66545555789999999999972--79669996388878---------99999734575789982799855758999873


Q ss_pred             HCCHHHHHCCCEEECCCCCHHHHHHHHHHHH
Q ss_conf             0011132023111115777678999999978
Q gi|254780877|r  324 EKDPALARRFQSLLVGEPTVTDTISILRGLK  354 (853)
Q Consensus       324 EkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~  354 (853)
                            ...-..+.|+..+.+++..++...+
T Consensus       145 ------~~~~~~~~l~~L~~~es~~Lf~~~a  169 (285)
T pfam00931       145 ------GGTSKPHEVESLEPEESWELFSNKV  169 (285)
T ss_pred             ------CCCCCEEECCCCCHHHHHHHHHHHH
T ss_conf             ------7888347616898799999999984


No 348
>KOG1970 consensus
Probab=97.37  E-value=0.0071  Score=42.31  Aligned_cols=168  Identities=18%  Similarity=0.191  Sum_probs=85.7

Q ss_pred             CCCCCHHHHHHHH-HHHHHHCCCCCCCCCHHHHHHHHHHHHCC---CCCCCE-EEECCCCCCHHHHHHHHHHHHH----C
Q ss_conf             4676107886443-56998729853333357899999996336---777866-8952887407779999999873----4
Q gi|254780877|r  155 EQGFDALKKYCRD-LTEEARNGKLDPVIGRDDEMRRAIQVLSR---RTKNNP-VLIGDPGVGKTAIIEGLASRII----N  225 (853)
Q Consensus       155 e~~~~~L~ky~~D-LTe~Ar~GkLDPVIGRe~EI~~~~~iL~r---~~k~n~-~lvGe~GvGKtaive~la~~i~----~  225 (853)
                      +....+.++|--+ +-++|-..|      .=+||++-++.+.-   .-++++ +|.|++|+|||+.|+-|+.-..    +
T Consensus        67 d~~elW~eKy~P~t~eeLAVHkk------KI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskelg~~~~E  140 (634)
T KOG1970          67 DEFELWVEKYKPRTLEELAVHKK------KISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKELGYQLIE  140 (634)
T ss_pred             CCCCHHHHHHCCCCHHHHHHHHH------HHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCHHHHHHHHHHHCCEEEE
T ss_conf             33322577608562888755177------489999999999974536676079985798887131999999864802123


Q ss_pred             C------CCCHHHCCCEEEEEEHHHHHCCCCCCC---HHH---HHH-H-HHHHHH--HHCCCCEEEEECCHHHHCCCCCC
Q ss_conf             8------998444574378873135421745420---245---458-9-999998--60799769996362773026665
Q gi|254780877|r  226 G------DIPESLKGKRLMALDMGALIAGAKFRG---EFE---ERL-K-SLLCEI--RSEDGEIILFIDELHVLVGAGKT  289 (853)
Q Consensus       226 ~------~vp~~l~~~~i~~ld~~~l~ag~~~rg---~~e---~r~-~-~i~~~~--~~~~~~~ilfide~h~~~gaG~~  289 (853)
                      -      +.|+.+.+-..+.-        -.|-.   +||   +|. | +.+.-.  .....+.+|+|||+....+--  
T Consensus       141 w~Npi~~~~~~~~h~~t~~~~--------~~~~s~L~~fesFler~~kyg~l~~~g~~~~~~~~liLveDLPn~~~~d--  210 (634)
T KOG1970         141 WSNPINLKEPENLHNETSFLM--------FPYQSQLAVFESFLLRATKYGSLQMSGDDLRTDKKLILVEDLPNQFYRD--  210 (634)
T ss_pred             ECCCCCCCCCCCCCCCCHHCC--------CCHHHHHHHHHHHHHHHHHHCHHHHCCCCCCCCCEEEEEECCCHHHHHH--
T ss_conf             047766566555455440013--------3036678999989999876231653133334675079850261444003--


Q ss_pred             CCCCCHHHHHHHHHCCCCEEEEEEECHHH-------HHHHHHCCHHHHHCCCEEECCC
Q ss_conf             54335888876531246604899744899-------9997300111320231111157
Q gi|254780877|r  290 DGAMDASNLLKPSLARGELHCIGATTLDE-------YRKYIEKDPALARRFQSLLVGE  340 (853)
Q Consensus       290 ~g~~Daan~LKP~LarG~l~~IgaTT~~E-------yrk~iEkD~Al~RRFq~i~V~E  340 (853)
                       ..--.-|+|.-+.++|.+-+|-.-|..+       ||++. +|--..-|-..|.-++
T Consensus       211 -~~~~f~evL~~y~s~g~~PlIf~iTd~~~~g~nnq~rlf~-~d~q~~~ri~~IsFNP  266 (634)
T KOG1970         211 -DSETFREVLRLYVSIGRCPLIFIITDSLSNGNNNQDRLFP-KDIQEEPRISNISFNP  266 (634)
T ss_pred             -HHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCHHHHCH-HHHHHCCCCCEEEECC
T ss_conf             -6999999999998457776799986353578763434242-6565335852476157


No 349
>pfam03266 DUF265 Protein of unknown function, DUF265.
Probab=97.31  E-value=0.002  Score=46.72  Aligned_cols=132  Identities=22%  Similarity=0.357  Sum_probs=64.0

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHHCCCC-------CHHH-CCCEEEEEEHHHHHCCC----------------CCC---C
Q ss_conf             6689528874077799999998734899-------8444-57437887313542174----------------542---0
Q gi|254780877|r  201 NPVLIGDPGVGKTAIIEGLASRIINGDI-------PESL-KGKRLMALDMGALIAGA----------------KFR---G  253 (853)
Q Consensus       201 n~~lvGe~GvGKtaive~la~~i~~~~v-------p~~l-~~~~i~~ld~~~l~ag~----------------~~r---g  253 (853)
                      ..++.|+||||||+++.-++..+.+..+       ++.. .+.| +..++-.+.+|.                +|.   .
T Consensus         1 ki~ITG~pGvGKTTli~kv~~~l~~~~~~v~GF~T~evre~g~R-~GF~iv~l~~g~~~~la~~~~~~~~~vGky~v~~~   79 (168)
T pfam03266         1 RIFITGPPGVGKTTLVKKVIELLKSEGVKVGGFYTPEVREGGRR-IGFDIVDLASGERGPLARVGGVSGPRVGKYVVNLE   79 (168)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEECCEECCCCE-EEEEEEECCCCCEEEEEEECCCCCCCCCCCEECHH
T ss_conf             98997899988999999999999867970748993021258937-89999990478267744406887754577166689


Q ss_pred             HHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCC-CCCCHHHHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHC
Q ss_conf             2454589999998607997699963627730266655-433588887653124660489974489999973001113202
Q gi|254780877|r  254 EFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTD-GAMDASNLLKPSLARGELHCIGATTLDEYRKYIEKDPALARR  332 (853)
Q Consensus       254 ~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~-g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RR  332 (853)
                      .||.-...+++.....  .-+++||||--      -| -|-.....+...|.. .-.+||+---.-+.-++   ..+.+|
T Consensus        80 ~fe~~~~~~L~~a~~~--~dlivIDEIG~------mEl~s~~F~~~v~~~l~~-~~~vl~ti~~~~~~~~v---~~i~~~  147 (168)
T pfam03266        80 EFEEIALPALRRALEE--ADLIIIDEIGP------MELKSPKFREAIEEVLSS-NKPVLAVVHRRSDSPLV---ERIRRR  147 (168)
T ss_pred             HHHHHHHHHHHHCCCC--CCEEEEECCCH------HHHHHHHHHHHHHHHHCC-CCCEEEEEEECCCCHHH---HHHHCC
T ss_conf             9999999999840668--98999976314------533149999999999669-99799999725898389---997417


Q ss_pred             --CCEEECCCCCHHH
Q ss_conf             --3111115777678
Q gi|254780877|r  333 --FQSLLVGEPTVTD  345 (853)
Q Consensus       333 --Fq~i~V~Eps~~~  345 (853)
                        ++.+.|.+-+.+.
T Consensus       148 ~d~~i~~vt~~NRd~  162 (168)
T pfam03266       148 PDVKIFVVTEENRDA  162 (168)
T ss_pred             CCCEEEEECHHHHHH
T ss_conf             993899978688664


No 350
>PRK07132 DNA polymerase III subunit delta'; Validated
Probab=97.30  E-value=0.003  Score=45.40  Aligned_cols=152  Identities=14%  Similarity=0.174  Sum_probs=88.1

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCH
Q ss_conf             48999999999987410123656651289872678616889999999872377653002244774034532013047711
Q gi|254780877|r  573 QSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPG  652 (853)
Q Consensus       573 q~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappG  652 (853)
                      +++.++.+.++++..|        ---.+||.||.|+|||.+|+.+|..+.+....-..  ...  .+..+. .+-....
T Consensus         3 ~e~iv~~L~nai~~~k--------lsHAYLF~G~~G~Gk~~~a~~~a~~l~~~~~~~~~--~~~--~~~~~~-~id~~~~   69 (303)
T PRK07132          3 DNNIIKSLDNLAKQNK--------ISHSFLLKSNYNNDLDESILYFLNKFNNLQSLNLN--LEE--LPYNIF-LFDIFDE   69 (303)
T ss_pred             CHHHHHHHHHHHHCCC--------CCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCC--CCC--CCCCCE-EECCCCC
T ss_conf             0389999999998499--------76168867899867999999999997299878887--545--653230-4133222


Q ss_pred             HCCCCCCCCCCHHHHCCC-----CCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHC
Q ss_conf             203566774211322156-----410220214414989999999984045788799977830331559548512687640
Q gi|254780877|r  653 YVGYEEGGALTEAVRRHP-----YQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIE  727 (853)
Q Consensus       653 YvG~~~gg~Lte~vr~~P-----~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~  727 (853)
                      -..-+++=.+.+.+...|     |-|+.+||+|+.+++-+|.||-.|+|--           .|+++|+.|+--.     
T Consensus        70 ~i~~~~i~~~i~~~~~~~~~~~~~Kv~IIdea~~lt~~A~NaLLKtLEEPp-----------~~~~fil~t~~~~-----  133 (303)
T PRK07132         70 DLSKEEFLSAIEKFSFSSFVSNQKKILIIKNIEKTSNSSLNALLKTIEEPS-----------KNTYFLLTTKNIN-----  133 (303)
T ss_pred             CHHHHHHHHHHHHHHHCCCCCCCEEEEEEECHHHCCHHHHHHHHHHCCCCC-----------CCEEEEEEECCHH-----
T ss_conf             001688999999997366556870699981655339999999998703898-----------6848999728824-----


Q ss_pred             CHHHHHHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHH
Q ss_conf             326799999999986288577266681586288998999999
Q gi|254780877|r  728 DGDSVHDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKI  769 (853)
Q Consensus       728 ~~~~~~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i  769 (853)
                                     ..+|-.+.|. .++-|+|++.+++...
T Consensus       134 ---------------~il~TI~SRC-q~~~f~~~~~~~i~~~  159 (303)
T PRK07132        134 ---------------KVIPTIVSRC-QVINVKEPDQQKILAK  159 (303)
T ss_pred             ---------------HCCHHHHHCC-EEEECCCCCHHHHHHH
T ss_conf             ---------------3837786366-5663788999999999


No 351
>KOG0742 consensus
Probab=97.29  E-value=0.0052  Score=43.40  Aligned_cols=134  Identities=21%  Similarity=0.273  Sum_probs=84.9

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCH
Q ss_conf             66895288740777999999987348998444574378873135421745420245458999999860799769996362
Q gi|254780877|r  201 NPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDEL  280 (853)
Q Consensus       201 n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~  280 (853)
                      |.++-|+||.|||-....||++  +|-      +   |.+-.|.=||-..  .|---.+..|.+..++++...+|||||.
T Consensus       386 NilfyGPPGTGKTm~ArelAr~--SGl------D---YA~mTGGDVAPlG--~qaVTkiH~lFDWakkS~rGLllFIDEA  452 (630)
T KOG0742         386 NILFYGPPGTGKTMFARELARH--SGL------D---YAIMTGGDVAPLG--AQAVTKIHKLFDWAKKSRRGLLLFIDEA  452 (630)
T ss_pred             HEEEECCCCCCHHHHHHHHHHH--CCC------C---EEHHCCCCCCCCH--HHHHHHHHHHHHHHHHCCCCEEEEEHHH
T ss_conf             0032479998604999999885--287------4---1001378755521--7889999998788751566449986116


Q ss_pred             HHHCCCCCCCC-CCCHHHHHHHHHC-----CCCEEEEEEE-CHHHHHHHHHCCHHHHHCC-CEEECCCCCHHHHHHHHHH
Q ss_conf             77302666554-3358888765312-----4660489974-4899999730011132023-1111157776789999999
Q gi|254780877|r  281 HVLVGAGKTDG-AMDASNLLKPSLA-----RGELHCIGAT-TLDEYRKYIEKDPALARRF-QSLLVGEPTVTDTISILRG  352 (853)
Q Consensus       281 h~~~gaG~~~g-~~Daan~LKP~La-----rG~l~~IgaT-T~~Eyrk~iEkD~Al~RRF-q~i~V~Eps~~~t~~iL~g  352 (853)
                      ...+---+..+ |-|--.-|-..|-     .-+|-.+-|| -|..+      |.|...|| |.|.-.=|..++-..+|+-
T Consensus       453 DAFLceRnktymSEaqRsaLNAlLfRTGdqSrdivLvlAtNrpgdl------DsAV~DRide~veFpLPGeEERfkll~l  526 (630)
T KOG0742         453 DAFLCERNKTYMSEAQRSALNALLFRTGDQSRDIVLVLATNRPGDL------DSAVNDRIDEVVEFPLPGEEERFKLLNL  526 (630)
T ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCH------HHHHHHHHHHHEECCCCCHHHHHHHHHH
T ss_conf             7899875201025889999988987625655426899605883210------1678765554130689977899999999


Q ss_pred             H
Q ss_conf             7
Q gi|254780877|r  353 L  353 (853)
Q Consensus       353 l  353 (853)
                      -
T Consensus       527 Y  527 (630)
T KOG0742         527 Y  527 (630)
T ss_pred             H
T ss_conf             9


No 352
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=97.28  E-value=0.00058  Score=51.15  Aligned_cols=100  Identities=29%  Similarity=0.414  Sum_probs=68.1

Q ss_pred             CCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCC-CHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCE
Q ss_conf             66512898726786168899999998723776530022-44774034532013047711203566774211322156410
Q gi|254780877|r  595 QRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRI-DMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQV  673 (853)
Q Consensus       595 ~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~-dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sV  673 (853)
                      ++|-|-+||+||||+|||.+--+.-..++..+.+++++ |=-||.-+.-..--+-.   -+|..-...|--.+|+.| -|
T Consensus       255 ~~p~GliLvTGPTGSGKTTTLY~~L~~ln~~~~nI~TiEDPVE~~~~gI~Q~qVN~---k~gltfa~~LRa~LRqDP-Dv  330 (500)
T COG2804         255 NRPQGLILVTGPTGSGKTTTLYAALSELNTPERNIITIEDPVEYQLPGINQVQVNP---KIGLTFARALRAILRQDP-DV  330 (500)
T ss_pred             HCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEECCEEEECCCCCEEECCC---CCCCCHHHHHHHHHCCCC-CE
T ss_conf             28970899968999988999999999862788508984078045159851563140---359978999999866599-85


Q ss_pred             EEEHHHHHCCHHHHHHHHHHHHCCEEE
Q ss_conf             220214414989999999984045788
Q gi|254780877|r  674 VLFDEIEKAHSDVHNILLQVLDDGRLT  700 (853)
Q Consensus       674 il~DEiEKah~~v~~~llqild~G~lt  700 (853)
                      |+..||.-  .+.-.+..|.--.|+|-
T Consensus       331 ImVGEIRD--~ETAeiavqAalTGHLV  355 (500)
T COG2804         331 IMVGEIRD--LETAEIAVQAALTGHLV  355 (500)
T ss_pred             EEEECCCC--HHHHHHHHHHHHCCCEE
T ss_conf             99835577--88999999998428867


No 353
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=97.27  E-value=0.0041  Score=44.26  Aligned_cols=143  Identities=24%  Similarity=0.382  Sum_probs=74.3

Q ss_pred             CCCCCEEEECCCCCCHHHHHHHHHHHHHCC--CCCHHHCCCEEEEEEHHHHHCCCCCCCH--HHHHHHHHHHHHHHCCCC
Q ss_conf             777866895288740777999999987348--9984445743788731354217454202--454589999998607997
Q gi|254780877|r  197 RTKNNPVLIGDPGVGKTAIIEGLASRIING--DIPESLKGKRLMALDMGALIAGAKFRGE--FEERLKSLLCEIRSEDGE  272 (853)
Q Consensus       197 ~~k~n~~lvGe~GvGKtaive~la~~i~~~--~vp~~l~~~~i~~ld~~~l~ag~~~rg~--~e~r~~~i~~~~~~~~~~  272 (853)
                      ..|+|.+|||-||+|||+|-.-||+++-..  |....+.  +-+..++..+.+   ..||  |-+.=..++.++...+ +
T Consensus         2 ~~kknI~LiG~mGsGKstvgk~LA~~l~~~fiD~D~~Ie--~~~g~si~~If~---~~Ge~~FR~~E~~~l~~l~~~~-~   75 (172)
T PRK05057          2 AEKRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSDQEIE--KRTGADIGWVFD---VEGEEGFRDREEKVINELTEKQ-G   75 (172)
T ss_pred             CCCCCEEEECCCCCCHHHHHHHHHHHHCCCEEECHHHHH--HHHCCCHHHHHH---HHHHHHHHHHHHHHHHHHHCCC-C
T ss_conf             988828988999998899999999996999687809999--997989999999---9749999999999999885479-9


Q ss_pred             EEEEECCHHHHCCCCCCCCCCCHH--HHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHH-H
Q ss_conf             699963627730266655433588--8876531246604899744899999730011132023111115777678999-9
Q gi|254780877|r  273 IILFIDELHVLVGAGKTDGAMDAS--NLLKPSLARGELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTIS-I  349 (853)
Q Consensus       273 ~ilfide~h~~~gaG~~~g~~Daa--n~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~-i  349 (853)
                      +|+         ..|++- -++-.  +.|+   ..|.+=.+- ++++.-.+.+..++  .|.    .+...+..++++ +
T Consensus        76 ~VI---------stGGG~-v~~~~~~~~L~---~~g~vv~L~-~~~~~~~~R~~~~~--~RP----ll~~~~~~~~~~~l  135 (172)
T PRK05057         76 IVL---------ATGGGS-VKSRETRNRLS---ARGVVVYLE-TTIEKQLARTQRDK--KRP----LLQVDDPREVLEAL  135 (172)
T ss_pred             EEE---------ECCCCC-CCCHHHHHHHH---HCCEEEEEE-CCHHHHHHHHCCCC--CCC----CCCCCCHHHHHHHH
T ss_conf             799---------789853-58899999999---669589995-99899999805899--999----79899879999999


Q ss_pred             HHHHHHHHHHHCCCCC
Q ss_conf             9997898654149610
Q gi|254780877|r  350 LRGLKERYEQHHKVRI  365 (853)
Q Consensus       350 L~gl~~~yE~~H~V~i  365 (853)
                      +..-.+.|+++..+.|
T Consensus       136 ~~~R~~~Y~~~Ad~~I  151 (172)
T PRK05057        136 ANERNPLYEEIADVTV  151 (172)
T ss_pred             HHHHHHHHHHHCCEEE
T ss_conf             9999999998699999


No 354
>KOG2680 consensus
Probab=97.27  E-value=0.0022  Score=46.53  Aligned_cols=139  Identities=25%  Similarity=0.411  Sum_probs=96.3

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHH
Q ss_conf             89872678616889999999872377653002244774034532013047711203566774211322156410220214
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEI  679 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEi  679 (853)
                      .-||.|-||-=|.|.-.++..-.            .|+.|                  ||-  .|   -.| .|++.||+
T Consensus       254 lALFsGdTGEIr~EvRdqin~KV------------~eWre------------------EGK--Ae---ivp-GVLFIDEv  297 (454)
T KOG2680         254 LALFSGDTGEIRSEVRDQINTKV------------AEWRE------------------EGK--AE---IVP-GVLFIDEV  297 (454)
T ss_pred             EEEEECCCCCCCHHHHHHHHHHH------------HHHHH------------------CCC--EE---ECC-CEEEEEEE
T ss_conf             89970786520188898887888------------98886------------------177--24---225-51787400


Q ss_pred             HHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCCEEECC
Q ss_conf             41498999999998404578879997783033155954851268764032679999999998628857726668158628
Q gi|254780877|r  680 EKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDEIILFE  759 (853)
Q Consensus       680 EKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~iv~F~  759 (853)
                      .--.-+-|.+|-..+++           ||. -++||.+|-|-..+........        .-.|-.||+|+ -||.-.
T Consensus       298 HMLDIEcFsFlNrAlE~-----------d~~-PiiimaTNrgit~iRGTn~~Sp--------hGiP~D~lDR~-lII~t~  356 (454)
T KOG2680         298 HMLDIECFSFLNRALEN-----------DMA-PIIIMATNRGITRIRGTNYRSP--------HGIPIDLLDRM-LIISTQ  356 (454)
T ss_pred             HHHHHHHHHHHHHHHHH-----------CCC-CEEEEECCCCEEEEECCCCCCC--------CCCCHHHHHHH-HEEECC
T ss_conf             21115799988887650-----------468-5799972775577605777898--------88867776441-255256


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCC
Q ss_conf             899899999999999999999985798999988999999970898
Q gi|254780877|r  760 KLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYD  804 (853)
Q Consensus       760 ~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~  804 (853)
                      |++.+++++|++..+         +.=.+.+++.|+++|..-|-+
T Consensus       357 py~~~d~~~IL~iRc---------~EEdv~m~~~A~d~Lt~i~~~  392 (454)
T KOG2680         357 PYTEEDIKKILRIRC---------QEEDVEMNPDALDLLTKIGEA  392 (454)
T ss_pred             CCCHHHHHHHHHHHH---------HHHCCCCCHHHHHHHHHHHHH
T ss_conf             576889999987550---------052133587899999986131


No 355
>KOG0741 consensus
Probab=97.25  E-value=0.00085  Score=49.81  Aligned_cols=87  Identities=26%  Similarity=0.450  Sum_probs=59.4

Q ss_pred             CCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCC----CHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHC
Q ss_conf             6566512898726786168899999998723776530022----447740345320130477112035667742113221
Q gi|254780877|r  593 DPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRI----DMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRR  668 (853)
Q Consensus       593 ~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~----dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~  668 (853)
                      ..+.|+-|.||.||+|+|||-||-.+|..   +.=.+|++    ||.-|+|..-++-+-+.             -+---+
T Consensus       533 s~~s~lvSvLl~Gp~~sGKTaLAA~iA~~---S~FPFvKiiSpe~miG~sEsaKc~~i~k~-------------F~DAYk  596 (744)
T KOG0741         533 SERSPLVSVLLEGPPGSGKTALAAKIALS---SDFPFVKIISPEDMIGLSESAKCAHIKKI-------------FEDAYK  596 (744)
T ss_pred             CCCCCCEEEEEECCCCCCHHHHHHHHHHH---CCCCEEEEECHHHHCCCCHHHHHHHHHHH-------------HHHHHC
T ss_conf             46676358998669988768899999752---79984797377870374667889999998-------------887633


Q ss_pred             CCCCEEEEHHHHHC------CHHHHHHHHHHHH
Q ss_conf             56410220214414------9899999999840
Q gi|254780877|r  669 HPYQVVLFDEIEKA------HSDVHNILLQVLD  695 (853)
Q Consensus       669 ~P~sVil~DEiEKa------h~~v~~~llqild  695 (853)
                      .|-|||++|+||.-      .|..-|+.||.|-
T Consensus       597 S~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~  629 (744)
T KOG0741         597 SPLSIIVVDDIERLLDYVPIGPRFSNLVLQALL  629 (744)
T ss_pred             CCCEEEEECCHHHHHCCCCCCCCHHHHHHHHHH
T ss_conf             865089981556562002468403579999999


No 356
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP).  It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=97.25  E-value=0.00073  Score=50.37  Aligned_cols=99  Identities=26%  Similarity=0.447  Sum_probs=66.0

Q ss_pred             CCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCC-CHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCE
Q ss_conf             66512898726786168899999998723776530022-44774034532013047711203566774211322156410
Q gi|254780877|r  595 QRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRI-DMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQV  673 (853)
Q Consensus       595 ~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~-dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sV  673 (853)
                      ++|-|.+||+||||.|||.+.-++-..+-....+++.+ |=-||.-++....=+....| ..|.  ..|...+|+.| -|
T Consensus        77 ~~~~GlilitGptGSGKtTtl~a~l~~~~~~~~~i~tiEdPvE~~~~~~~Q~~v~~~~g-~~~~--~~lr~~LR~dP-Dv  152 (264)
T cd01129          77 EKPHGIILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDPVEYQIPGINQVQVNEKAG-LTFA--RGLRAILRQDP-DI  152 (264)
T ss_pred             HCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCEEEECCCCC-CCHH--HHHHHHHCCCC-CE
T ss_conf             08998899978999977999999998643688508998676314568873576166668-7899--99999855699-98


Q ss_pred             EEEHHHHHCCHHHHHHHHHHHHCCEE
Q ss_conf             22021441498999999998404578
Q gi|254780877|r  674 VLFDEIEKAHSDVHNILLQVLDDGRL  699 (853)
Q Consensus       674 il~DEiEKah~~v~~~llqild~G~l  699 (853)
                      |++.||-  .++.....++.-..|++
T Consensus       153 i~igEiR--D~eta~~a~~aa~tGhl  176 (264)
T cd01129         153 IMVGEIR--DAETAEIAVQAALTGHL  176 (264)
T ss_pred             EEECCCC--CHHHHHHHHHHHHHCCE
T ss_conf             8746889--99999999999970996


No 357
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=97.24  E-value=0.001  Score=49.13  Aligned_cols=88  Identities=23%  Similarity=0.348  Sum_probs=52.8

Q ss_pred             CCEEEEEECCCCHHHHHH-HHHHHHHHCC--CCCCCCCCCH---HHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCC
Q ss_conf             512898726786168899-9999987237--7653002244---774034532013047711203566774211322156
Q gi|254780877|r  597 PMGSFMFLGPTGVGKTEL-VKSLARLLFD--DENSMIRIDM---SEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHP  670 (853)
Q Consensus       597 p~~~flf~GptGvGKTel-ak~la~~lf~--~~~~lir~dM---sey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P  670 (853)
                      +-+++.|+||||||||.+ ||.=|++.+.  ..-+||+.|-   +-.-+=-..++++|-| =||-++- -.|-+++.++-
T Consensus       222 ~~kvi~lVGPTGVGKTTTiAKLAA~~~l~~~kkVaLIT~DTYRIgAvEQLktYa~Il~iP-v~vv~~~-~el~~al~~~~  299 (432)
T PRK12724        222 QRKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTMGMP-FYPVKDI-KKFKETLARDG  299 (432)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHHHHHCCC-EEEEECH-HHHHHHHHHCC
T ss_conf             762999989999888999999999999974992799952665377999999999985994-5995189-99999998569


Q ss_pred             CCEEEEHHHHHCCHHH
Q ss_conf             4102202144149899
Q gi|254780877|r  671 YQVVLFDEIEKAHSDV  686 (853)
Q Consensus       671 ~sVil~DEiEKah~~v  686 (853)
                      +-+||.|-.=..|.+.
T Consensus       300 ~DlILIDTAGrS~rd~  315 (432)
T PRK12724        300 SELILIDTAGYSHRNL  315 (432)
T ss_pred             CCEEEEECCCCCCCCH
T ss_conf             9999992999897899


No 358
>KOG0478 consensus
Probab=97.24  E-value=0.0044  Score=44.01  Aligned_cols=228  Identities=18%  Similarity=0.216  Sum_probs=125.2

Q ss_pred             HHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHC-CCCC---CCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             000123554776745948999999999987410-1236---566512898726786168899999998723776530022
Q gi|254780877|r  557 EKFLRIETEISKSVIGQSAAVESVSNALRRFRA-GLQD---PQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRI  632 (853)
Q Consensus       557 ekLl~l~~~l~~~v~gq~~ai~~v~~~~~~~~~-gl~~---~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~  632 (853)
                      +...-|...+.-.|+|.+..-..+.-.+--... .+..   -+.-| ..|+||-+|+||+.+-+-.++.+   ++..   
T Consensus       418 diy~lLa~SiAPsIye~edvKkglLLqLfGGt~k~~~~~~~~R~~I-NILL~GDPGtsKSqlLqyv~~l~---pRg~---  490 (804)
T KOG0478         418 DIYELLARSIAPSIYELEDVKKGLLLQLFGGTRKEDEKSGRFRGDI-NILLVGDPGTSKSQLLQYCHRLL---PRGV---  490 (804)
T ss_pred             CHHHHHHHHHCHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCC-EEEEECCCCCCHHHHHHHHHHHC---CCCE---
T ss_conf             0999998850656534422666677887568763223344424552-28994699867899999999747---7540---


Q ss_pred             CHHHHCC--CCCCCHHHCCCCHHCCCC-CCCCC---CHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCE
Q ss_conf             4477403--453201304771120356-67742---11322156410220214414989999999984045788799977
Q gi|254780877|r  633 DMSEYME--KHSVSRLIGSPPGYVGYE-EGGAL---TEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRT  706 (853)
Q Consensus       633 dMsey~e--~~~vs~LiGappGYvG~~-~gg~L---te~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~  706 (853)
                          |..  ..|...|.    -||-.| ++++|   +.++--.-..|-.+||++|....-.+.|+++|+--+++=     
T Consensus       491 ----yTSGkGsSavGLT----ayVtrd~dtkqlVLesGALVLSD~GiCCIDEFDKM~dStrSvLhEvMEQQTvSI-----  557 (804)
T KOG0478         491 ----YTSGKGSSAVGLT----AYVTKDPDTRQLVLESGALVLSDNGICCIDEFDKMSDSTRSVLHEVMEQQTLSI-----  557 (804)
T ss_pred             ----EECCCCCCHHCCE----EEEEECCCCCEEEEECCCEEECCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHH-----
T ss_conf             ----4058763022003----567765765546650484897289657711233332778899999998763117-----


Q ss_pred             EECCCCEEEECCCHHHHHHHCCH-HHHHH-HHHHHHH-HHCCHHHHCCCCCEE-ECCCCCHHH----HHHHHHHHHH---
Q ss_conf             83033155954851268764032-67999-9999998-628857726668158-628899899----9999999999---
Q gi|254780877|r  707 VDFRNTLIIMTSNLGAEYLIEDG-DSVHD-KVMGIVR-SAFKPEFLNRLDEII-LFEKLRKED----MAKIVRIQLG---  775 (853)
Q Consensus       707 v~f~n~iii~TsN~G~~~~~~~~-~~~~~-~~~~~l~-~~f~peflnRid~iv-~F~~l~~~~----~~~i~~~~l~---  775 (853)
                         --+=||.|-|.-.-.++..+ ...+- .-...++ =..+|-+|.|+|-|+ .|.+-++..    ..+|+.++.+   
T Consensus       558 ---AKAGII~sLNAR~SVLAaANP~~skynp~k~i~eNI~LpptLLSRFDLIylllD~~DE~~Dr~La~HivsLy~e~~~  634 (804)
T KOG0478         558 ---AKAGIIASLNARCSVLAAANPIRSKYNPNKSIIENINLPPTLLSRFDLIFLLLDKPDERSDRRLADHIVALYPETGE  634 (804)
T ss_pred             ---HHCCEEEECCCCCEEEEEECCCCCCCCCCCCHHHCCCCCHHHHHHHCEEEEEECCCCHHHHHHHHHHHHHHCCCCCC
T ss_conf             ---43022342166530344535432457999762321678805643233789984275326778999999984145552


Q ss_pred             ------------HHHHHHHHCCCEEEECHHHHHHHHHCCCCCCC
Q ss_conf             ------------99999985798999988999999970898220
Q gi|254780877|r  776 ------------RVLSLIKERNISMDFDDQVIDWLSCRGYDPSY  807 (853)
Q Consensus       776 ------------~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~  807 (853)
                                  +..-+.+.+.+.-.+++++...+....++..-
T Consensus       635 ~~~~~~~d~~~lr~yi~yArk~i~p~l~~ea~~~l~~ayvd~rk  678 (804)
T KOG0478         635 KQGSEAIDMNLLRDYIRYARKNIHPALSPEASQALIQAYVDMRK  678 (804)
T ss_pred             CCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHH
T ss_conf             10257786899999999974257865568999999998665665


No 359
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=97.22  E-value=0.0011  Score=48.82  Aligned_cols=94  Identities=26%  Similarity=0.516  Sum_probs=64.4

Q ss_pred             EEEEEECCCCHHHHHHHHHHHHHHCCC-CCCCCCC-CHHHHCCCCCCCHH----HCCCCHHCCCCCCCCCCHHHHCCCCC
Q ss_conf             289872678616889999999872377-6530022-44774034532013----04771120356677421132215641
Q gi|254780877|r  599 GSFMFLGPTGVGKTELVKSLARLLFDD-ENSMIRI-DMSEYMEKHSVSRL----IGSPPGYVGYEEGGALTEAVRRHPYQ  672 (853)
Q Consensus       599 ~~flf~GptGvGKTelak~la~~lf~~-~~~lir~-dMsey~e~~~vs~L----iGappGYvG~~~gg~Lte~vr~~P~s  672 (853)
                      |-+|++||||.|||.+..++.+++-.. ...++.+ |=-||..++..+-.    +|..  ...|.+  .|..++|+.| .
T Consensus         2 GliLitG~TGSGKTTtl~all~~i~~~~~~~IiTiEDPiE~~~~~~~~~i~q~e~g~~--~~sf~~--~lr~aLR~~P-D   76 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIEDPIEFVHESKRSLINQREVGLD--TLSFEN--ALKAALRQDP-D   76 (198)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHCCCCCCEEEEECCCHHHHCCCCCEEEEECCCCCC--CCCHHH--HHHHHHHHCC-C
T ss_conf             3899989999979999999998536378836999647377523676448873330788--637999--9999985488-8


Q ss_pred             EEEEHHHHHCCHHHHHHHHHHHHCCEE
Q ss_conf             022021441498999999998404578
Q gi|254780877|r  673 VVLFDEIEKAHSDVHNILLQVLDDGRL  699 (853)
Q Consensus       673 Vil~DEiEKah~~v~~~llqild~G~l  699 (853)
                      ||++.|+-  .++.....++.-..|++
T Consensus        77 vI~vGEiR--d~et~~~al~aa~TGHl  101 (198)
T cd01131          77 VILVGEMR--DLETIRLALTAAETGHL  101 (198)
T ss_pred             EEECCCCC--CHHHHHHHHHHHHCCCE
T ss_conf             57527778--99999999999971993


No 360
>KOG2680 consensus
Probab=97.22  E-value=0.003  Score=45.33  Aligned_cols=75  Identities=29%  Similarity=0.309  Sum_probs=31.2

Q ss_pred             HHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH----HHHHCCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             320231111157776789999999789865414961015899999863----3320245767477899999999987541
Q gi|254780877|r  329 LARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVL----SNRYITDRFLPDKAIDLMDEASARVRMQ  404 (853)
Q Consensus       329 l~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~l----s~rYi~~r~lPDKAIDllDeA~A~~~i~  404 (853)
                      |-.|.-.|.-.+-+.+++..||+--   . .-..|.+.++|+..-+.+    |-||         ||.|+ .|++.+.++
T Consensus       346 ~lDR~lII~t~py~~~d~~~IL~iR---c-~EEdv~m~~~A~d~Lt~i~~~tsLRY---------ai~Li-t~a~~~~~k  411 (454)
T KOG2680         346 LLDRMLIISTQPYTEEDIKKILRIR---C-QEEDVEMNPDALDLLTKIGEATSLRY---------AIHLI-TAASLVCLK  411 (454)
T ss_pred             HHHHHHEEECCCCCHHHHHHHHHHH---H-HHHCCCCCHHHHHHHHHHHHHHHHHH---------HHHHH-HHHHHHHHH
T ss_conf             7644125525657688999998755---0-05213358789999998613123789---------99998-899999987


Q ss_pred             HCCCHHHHHHHHH
Q ss_conf             0222145788799
Q gi|254780877|r  405 IDTKPEVLDELDR  417 (853)
Q Consensus       405 ~~~~P~~l~~l~r  417 (853)
                      ..+.-.+.++++|
T Consensus       412 rk~~~v~~~di~r  424 (454)
T KOG2680         412 RKGKVVEVDDIER  424 (454)
T ss_pred             HCCCEEEHHHHHH
T ss_conf             5485654467899


No 361
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit; InterPro: IPR012804   Cobalamin (vitamin B12) can be complexed with metal via ATP-dependent reactions (aerobic pathway) (e.g., in Pseudomonas denitrificans) or via ATP-independent reactions (anaerobic pathway) (e.g., in Salmonella typhimurium) , . The corresponding cobalt chelatases are not homologous.   Cobaltochelatase is responsible for the insertion of cobalt into the corrin ring of coenzyme B12 during its biosynthesis. Two versions have been well described. CbiK/CbiX is a monomeric, anaerobic version which acts early in the biosynthesis (IPR010388 from INTERPRO). CobNST is a trimeric, ATP-dependent, aerobic version which acts late in the biosynthesis, (IPR011953 from INTERPRO, IPR006537 from INTERPRO, IPR006538 from INTERPRO) .    The two pathways differ in the point of cobalt insertion during corrin ring formation . There are apparently a number of variations on these two pathways, where the major differences seem to be concerned with the process of ring contraction .   Cobaltochelatase shows similarities with magnesium chelatase, which is also a complex ATP-dependent enzyme made up of two separable components. However, unlike the situation in cobaltochelatase, one of these two components is membrane bound in magnesium chelatase . .
Probab=97.20  E-value=0.0069  Score=42.41  Aligned_cols=213  Identities=21%  Similarity=0.330  Sum_probs=128.8

Q ss_pred             HHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCC-CCCCCCCCH-----H-------
Q ss_conf             745948999999999987410123656651289872678616889999999872377-653002244-----7-------
Q gi|254780877|r  569 SVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDD-ENSMIRIDM-----S-------  635 (853)
Q Consensus       569 ~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~-~~~lir~dM-----s-------  635 (853)
                      -||||+....++.-..       -||  -||..|-.|.=|+||+..|+.|+..|=.- --+-|+|++     +       
T Consensus         5 AiVGQe~LK~ALLL~A-------v~P--~iGGVLirG~KGTAKSTaaR~L~~LLP~i~~v~gC~f~cdP~~P~~~C~~C~   75 (688)
T TIGR02442         5 AIVGQEDLKLALLLNA-------VNP--RIGGVLIRGEKGTAKSTAARGLAALLPDIDVVAGCPFSCDPDDPEEWCEECR   75 (688)
T ss_pred             CCCCHHHHHHHHHHEE-------ECC--CCCEEEEECCCCCHHHHHHHHHHHHCCHHHHHCCCCCCCCCCCCCCCCHHHH
T ss_conf             2214279865321002-------526--6370788778886278988848761602366404788877788704006767


Q ss_pred             -HHCCCCCC------------------CHHHCC-------CCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHH
Q ss_conf             -74034532------------------013047-------7112035667742113221564102202144149899999
Q gi|254780877|r  636 -EYMEKHSV------------------SRLIGS-------PPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNI  689 (853)
Q Consensus       636 -ey~e~~~v------------------s~LiGa-------ppGYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~  689 (853)
                       .|.+..+.                  -|++|+       --|--=| |.|+|-+|=|    .|+..|||-==|-.+.|+
T Consensus        76 ~~~~~~G~~~~~~~~~~~V~LPlgATEDRVvG~LDi~~al~~G~~~F-qPGLLA~Ahr----GiLYiDEVNLLdDhlVD~  150 (688)
T TIGR02442        76 RKLEEQGTLPSEQRPVPFVNLPLGATEDRVVGSLDIERALKEGEKAF-QPGLLAEAHR----GILYIDEVNLLDDHLVDV  150 (688)
T ss_pred             HHHHCCCCCCCCCCCCEEEECCCCCCHHHHCCHHHHHHHHHHCHHHH-CCCCHHHHCC----CEEEEEEECCCCCHHHHH
T ss_conf             55520477531358735886587752332213054899987185660-7886175468----716785200144147789


Q ss_pred             HHHHHHCCEEEC-CCCCEEEC-CCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCCC-EEECCCCCHHHH
Q ss_conf             999840457887-99977830-331559548512687640326799999999986288577266681-586288998999
Q gi|254780877|r  690 LLQVLDDGRLTD-SQGRTVDF-RNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLDE-IILFEKLRKEDM  766 (853)
Q Consensus       690 llqild~G~ltd-~~G~~v~f-~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid~-iv~F~~l~~~~~  766 (853)
                      ||...-.|..+= -.|-.++- ...+.|=|=|                   .=.+.++|.||.||-- |=+=.+.+.+..
T Consensus       151 lLDaaA~G~n~VEREG~S~~Hparf~L~GTMN-------------------PEEG~LRPQLLDRFGL~V~v~~~~d~~~R  211 (688)
T TIGR02442       151 LLDAAAMGVNRVEREGLSVSHPARFVLIGTMN-------------------PEEGDLRPQLLDRFGLCVDVAASRDPEER  211 (688)
T ss_pred             HHHHHHCCCEEEEECCCCHHCHHHHHHHCCCC-------------------CCHHHHCHHHHHHHHCEEEECCCCCHHHH
T ss_conf             99987648006763574300114553220378-------------------52211022324244011550243586689


Q ss_pred             HHHHHHH-----------------HHHHHHHHH-HCCC--EEEECHHHHHHHHHCCCCCCCCCHHHHHHH
Q ss_conf             9999999-----------------999999998-5798--999988999999970898220621579999
Q gi|254780877|r  767 AKIVRIQ-----------------LGRVLSLIK-ERNI--SMDFDDQVIDWLSCRGYDPSYGARPLKRVI  816 (853)
Q Consensus       767 ~~i~~~~-----------------l~~l~~~l~-~~~i--~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i  816 (853)
                      ..|++..                 -++|..+|. .+.+  .+.++++.+.+|++-|.  .+|..+.|-=|
T Consensus       212 ~Ev~~Rrl~~d~dP~~F~~~~~~~~~~L~~~I~~AR~lLp~V~l~d~~~~~I~~lc~--~~~V~GhRAdi  279 (688)
T TIGR02442       212 VEVIRRRLAFDADPEAFAARWAAEQEELRERIAAARSLLPSVRLSDSLLRFISELCI--EFGVDGHRADI  279 (688)
T ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHH--HCCCCCCHHHH
T ss_conf             999999975402677889999999999999999999754776588899999999999--72888525999


No 362
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=97.19  E-value=0.022  Score=38.40  Aligned_cols=110  Identities=24%  Similarity=0.400  Sum_probs=67.1

Q ss_pred             CCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHH--CCCCHH-----------CCCCCCCC
Q ss_conf             66512898726786168899999998723776530022447740345320130--477112-----------03566774
Q gi|254780877|r  595 QRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLI--GSPPGY-----------VGYEEGGA  661 (853)
Q Consensus       595 ~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~Li--GappGY-----------vG~~~gg~  661 (853)
                      +|=--.+||.||.|+||+.+|+.+|..|+-....    + .+.+..-..-+++  |+-|-|           +|-|+-=.
T Consensus        19 ~rl~HA~Lf~G~~G~GK~~lA~~~A~~LlC~~~~----~-~~~Cg~C~sC~~~~~~~HPD~~~i~pe~~~~~I~IdqIR~   93 (328)
T PRK05707         19 GRHAHAYLLHGPAGIGKRALAERLAAFLLCEAPQ----G-GGACGSCKGCQLLAAGSHPDNFVLEPEEADKPIKVDQVRE   93 (328)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHCCCCC----C-CCCCCCCHHHHHHHCCCCCCEEEEECCCCCCCCCHHHHHH
T ss_conf             9822046447999867999999999998489999----9-8999888899998758999879984266677697999999


Q ss_pred             CCHHHHCCC----CCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCH
Q ss_conf             211322156----41022021441498999999998404578879997783033155954851
Q gi|254780877|r  662 LTEAVRRHP----YQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNL  720 (853)
Q Consensus       662 Lte~vr~~P----~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~  720 (853)
                      |.+.+...|    |-|++.|+.|+.+..-.|.||-.|+|=-           .||+||+.|+-
T Consensus        94 l~~~~~~~~~~g~~KV~iI~~Ae~m~~~AaNALLKtLEEPp-----------~~t~fiL~t~~  145 (328)
T PRK05707         94 LVSFVVQTAQLGGRKVVLIEPAEAMNRNAANALLKSLEEPS-----------GQTVLLLISHQ  145 (328)
T ss_pred             HHHHHHHCCCCCCCEEEEEEHHHHHCHHHHHHHHHHHHCCC-----------CCEEEEEEECC
T ss_conf             99998317667895799950287738999999999850789-----------87599986099


No 363
>PRK09087 hypothetical protein; Validated
Probab=97.17  E-value=0.033  Score=36.85  Aligned_cols=170  Identities=14%  Similarity=0.143  Sum_probs=86.6

Q ss_pred             HHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHH
Q ss_conf             78999999963367778668952887407779999999873489984445743788731354217454202454589999
Q gi|254780877|r  184 DDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLL  263 (853)
Q Consensus       184 e~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~  263 (853)
                      .++.-.+++-...-..+-.+|.|++|.|||.+.+.++.+.-.          ..  ++...+          ..   .+.
T Consensus        29 N~~a~~~l~~~~~w~~~~~~L~Gp~gsGKTHL~~~~~~~~~a----------~~--~~~~~~----------~~---~~~   83 (226)
T PRK09087         29 NRAAVSLVDRWPNWPSPVVVLAGPVGSGKTHLASIWREKADA----------LL--VHPNEI----------GS---DAA   83 (226)
T ss_pred             HHHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHCC----------EE--ECHHHC----------CH---HHH
T ss_conf             999999998472677775899899999886999999998099----------68--366874----------74---667


Q ss_pred             HHHHHCCCCEEEEECCHHHHCCCCCCCCC-CCHHHHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHC---CCEEECC
Q ss_conf             99860799769996362773026665543-3588887653124660489974489999973001113202---3111115
Q gi|254780877|r  264 CEIRSEDGEIILFIDELHVLVGAGKTDGA-MDASNLLKPSLARGELHCIGATTLDEYRKYIEKDPALARR---FQSLLVG  339 (853)
Q Consensus       264 ~~~~~~~~~~ilfide~h~~~gaG~~~g~-~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RR---Fq~i~V~  339 (853)
                      ...  ..+.  ++||+++.+   +-.+-. ...=|.++  -..+.|-+.+.+.|.+..-   +-+-|..|   +..+.++
T Consensus        84 ~~~--~~~~--~~idd~d~~---~~dEe~LFhl~N~~~--~~~~~LLlts~~~p~~l~~---~L~DL~SRL~~~~~~~I~  151 (226)
T PRK09087         84 NAA--AERP--VLIEDIDAG---GFDETGLFHLINSVR--QAGTSLLMTSRLWPSAWNV---KLPDLKSRLKAATVVEIG  151 (226)
T ss_pred             HHH--CCCC--EEEECCCCC---CCCHHHHHHHHHHHH--HCCCEEEEECCCCHHHCCC---CCHHHHHHHHCCEEEEEC
T ss_conf             653--2798--899748777---747899999999998--5398799988989566676---246899998578579835


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             7776789999999789865414961015899999863332024576747789999999
Q gi|254780877|r  340 EPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEA  397 (853)
Q Consensus       340 Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA  397 (853)
                      +|+.+.-..+|+...    .-.++.++++.+.+.++-..|=++.   =-+.++-||++
T Consensus       152 ~pdD~ll~~~L~k~~----~~r~l~l~~~v~~yll~r~~Rs~~~---l~~~l~~LD~~  202 (226)
T PRK09087        152 EPDDALLSGVIFKLF----ADRQLYVEPHVVYYLVSRMERSLFA---AQTIVERLDRL  202 (226)
T ss_pred             CCCHHHHHHHHHHHH----HHCCCCCCHHHHHHHHHHCCCCHHH---HHHHHHHHHHH
T ss_conf             999899999999998----7576578888999999845889999---99999999999


No 364
>KOG1051 consensus
Probab=97.16  E-value=0.0087  Score=41.59  Aligned_cols=68  Identities=10%  Similarity=0.050  Sum_probs=55.8

Q ss_pred             HHCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHC
Q ss_conf             37179999999999999998289963389999998618876689999973999899999999999745
Q gi|254780877|r    4 DKYSDLMRNVLQSAQTYALAQGHQNLVPEHVLHIFLEDEQGAVYSLIQCSGGDIAQLKDYNQTVLSKI   71 (853)
Q Consensus         4 ~kFS~~a~~vL~~A~~~A~~~~H~~Vt~EHLLlaLL~~~~s~i~~iL~~~gvd~~~L~~~le~~L~k~   71 (853)
                      +.++...+.+...+...+...++.+|.+||+.+.+.-.++..+.+++..+|++...++..++...+.+
T Consensus        88 n~l~aalkr~qa~qrr~~~~~~~~~vkvE~~qli~silDdp~vsrv~rEag~~s~~vK~~ve~~~g~~  155 (898)
T KOG1051          88 NALMAALKRAQAHQRRGCEEQQQQAVKVELEQLILSILDDPSVSRVMREAGFSSSAVKSAVEQPVGQF  155 (898)
T ss_pred             HHHHHHHHHHHHHHHHCCHHHCCCHHHHHHHHHHHEECCCHHHHHHHHHHCCCHHHHHHHHHHCCCCC
T ss_conf             37699999889998734624234134476674631130570799999995589589999886302445


No 365
>KOG0651 consensus
Probab=97.15  E-value=0.0081  Score=41.87  Aligned_cols=158  Identities=24%  Similarity=0.327  Sum_probs=99.9

Q ss_pred             CCCCCCCHHHHHHHHHHHHCCCCCCC-------------EEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEH
Q ss_conf             85333335789999999633677786-------------68952887407779999999873489984445743788731
Q gi|254780877|r  176 KLDPVIGRDDEMRRAIQVLSRRTKNN-------------PVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDM  242 (853)
Q Consensus       176 kLDPVIGRe~EI~~~~~iL~r~~k~n-------------~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~  242 (853)
                      .++-+-|=-.-++.+.+++.=.-+||             .+|-|+||.|||-+.+..|..+--          -.+-...
T Consensus       130 s~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~----------nfl~v~s  199 (388)
T KOG0651         130 SFENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGV----------NFLKVVS  199 (388)
T ss_pred             CHHHHCCHHHHHHHHHHHEEEECCCCHHCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHCCC----------CEEEEEH
T ss_conf             787717838888998865574024810023457778825687679998645999999986598----------5477447


Q ss_pred             HHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCC----------CHHHHHHHHHCCCCEEEEE
Q ss_conf             354217454202454589999998607997699963627730266655433----------5888876531246604899
Q gi|254780877|r  243 GALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAM----------DASNLLKPSLARGELHCIG  312 (853)
Q Consensus       243 ~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~----------Daan~LKP~LarG~l~~Ig  312 (853)
                      ++++.  +|-||-..-++.-..++... .++|+|+|||+.+-|---++|+.          ..+|=+.-.=.-|...+|.
T Consensus       200 s~lv~--kyiGEsaRlIRemf~yA~~~-~pciifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdgfd~l~rVk~Im  276 (388)
T KOG0651         200 SALVD--KYIGESARLIRDMFRYAREV-IPCIIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDGFDTLHRVKTIM  276 (388)
T ss_pred             HHHHH--HHCCCHHHHHHHHHHHHHHH-CCEEEEEHHHHHHCCEEECCCCCHHHHHHHHHHHHHHHHCCCHHCCCCCEEE
T ss_conf             66633--00265788999999778652-7557751012311457733555205999999999987421401206631798


Q ss_pred             EECHHHHHHHHHCCHHHHH--CCC-EEECCCCCHHHHHHHHH
Q ss_conf             7448999997300111320--231-11115777678999999
Q gi|254780877|r  313 ATTLDEYRKYIEKDPALAR--RFQ-SLLVGEPTVTDTISILR  351 (853)
Q Consensus       313 aTT~~Eyrk~iEkD~Al~R--RFq-~i~V~Eps~~~t~~iL~  351 (853)
                      ||---     =-=||||-|  |.+ ++.+.=|++..-+.|++
T Consensus       277 atNrp-----dtLdpaLlRpGRldrk~~iPlpne~~r~~I~K  313 (388)
T KOG0651         277 ATNRP-----DTLDPALLRPGRLDRKVEIPLPNEQARLGILK  313 (388)
T ss_pred             ECCCC-----CCCCHHHCCCCCCCCEECCCCCCHHHCEEEEE
T ss_conf             53886-----65665542875211100268855442402676


No 366
>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=97.13  E-value=0.01  Score=41.11  Aligned_cols=27  Identities=26%  Similarity=0.559  Sum_probs=11.3

Q ss_pred             CEEEEHHHHHCCHHHHHHHHHHHHCCE
Q ss_conf             102202144149899999999840457
Q gi|254780877|r  672 QVVLFDEIEKAHSDVHNILLQVLDDGR  698 (853)
Q Consensus       672 sVil~DEiEKah~~v~~~llqild~G~  698 (853)
                      ..+++|||-.-..|-+..||...++-+
T Consensus       284 gmlfldeigelgadeqamllkaieekr  310 (531)
T COG4650         284 GMLFLDEIGELGADEQAMLLKAIEEKR  310 (531)
T ss_pred             CEEEHHHHHHCCCCHHHHHHHHHHHHC
T ss_conf             657567433247527889999988712


No 367
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=97.12  E-value=0.035  Score=36.66  Aligned_cols=108  Identities=22%  Similarity=0.345  Sum_probs=68.6

Q ss_pred             EEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHH--CCCCHH--CCCCCCC--CCCHHHH-----
Q ss_conf             2898726786168899999998723776530022447740345320130--477112--0356677--4211322-----
Q gi|254780877|r  599 GSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLI--GSPPGY--VGYEEGG--ALTEAVR-----  667 (853)
Q Consensus       599 ~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~Li--GappGY--vG~~~gg--~Lte~vr-----  667 (853)
                      -.+||.||.|+||..+|+.+|..|+-....=     .+.+..-..-+|+  |+-|-|  +.-+++|  .-.+.||     
T Consensus        25 HA~L~~G~~G~Gk~~la~~~a~~llC~~~~~-----~~~Cg~C~~C~l~~~~~HPD~~~i~pe~~~~~I~IdqIR~l~~~   99 (334)
T PRK07993         25 HALLIQALPGMGDDALIYALSRYLLCQQPQG-----HKSCGHCRGCQLMQAGTHPDYYTLTPEKGKSSLGVDAVREVTEK   99 (334)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHCCCCCCC-----CCCCCCCHHHHHHHCCCCCCEEEECCCCCCCCCCHHHHHHHHHH
T ss_conf             4675479999889999999999981899999-----99999997899986689998477534223455999999999999


Q ss_pred             --CCC----CCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHH
Q ss_conf             --156----4102202144149899999999840457887999778303315595485126
Q gi|254780877|r  668 --RHP----YQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGA  722 (853)
Q Consensus       668 --~~P----~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~  722 (853)
                        .+|    +-|+++|+.|+.+..--|.||-.|+|=-           .||+||++|+-.+
T Consensus       100 ~~~~~~~g~~kV~iI~~Ae~mn~~AaNaLLKtLEEPp-----------~~t~~iL~t~~~~  149 (334)
T PRK07993        100 LYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPP-----------EKTWFFLACREPA  149 (334)
T ss_pred             HHHCCCCCCCEEEEECCHHHHCHHHHHHHHHHHCCCC-----------CCEEEEEECCCHH
T ss_conf             8436656994799976677759999999998612799-----------8849998669856


No 368
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=97.11  E-value=0.0014  Score=48.07  Aligned_cols=178  Identities=20%  Similarity=0.301  Sum_probs=85.0

Q ss_pred             EEEEEECCCCHHHHHHHHHHH-HHH--CCC-CCCCCCCCHHH---HCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCC-C
Q ss_conf             289872678616889999999-872--377-65300224477---403453201304771120356677421132215-6
Q gi|254780877|r  599 GSFMFLGPTGVGKTELVKSLA-RLL--FDD-ENSMIRIDMSE---YMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRH-P  670 (853)
Q Consensus       599 ~~flf~GptGvGKTelak~la-~~l--f~~-~~~lir~dMse---y~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~-P  670 (853)
                      |+|.|+||||||||.+.-.|| .+.  +|. .-+||+.|---   .-.=...++++|-| =||=|+. ..|-.++.+. -
T Consensus       177 gV~alVGPTGVGKTTTiAKLAAr~~l~~g~~kVaLIT~DTYRIgAvEQLktYa~IlgvP-v~vv~~~-~eL~~aL~~l~~  254 (404)
T PRK06995        177 GVFALVGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILGVP-VHAVKDA-ADLRLALAELRN  254 (404)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHHHCCCE-EEEECCH-HHHHHHHHHHCC
T ss_conf             55898668887637589999999999838983799976875478999999999875955-9995999-999999997089


Q ss_pred             CCEEEEHHHHHCCHHHH-HHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHH
Q ss_conf             41022021441498999-99999840457887999778303315595485126876403267999999999862885772
Q gi|254780877|r  671 YQVVLFDEIEKAHSDVH-NILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFL  749 (853)
Q Consensus       671 ~sVil~DEiEKah~~v~-~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~pefl  749 (853)
                      +-+||.|-.=..|.|-. .-.++.|...      +..+   ..+.+|..+...            ..+..+-..|+.  +
T Consensus       255 ~dlILIDTaGrs~rD~~~~e~l~~l~~~------~~~~---~~~LVLsat~~~------------~dl~~i~~~f~~--~  311 (404)
T PRK06995        255 KHIVLIDTVGMSQRDRMVSEQIAMLHGA------GAPV---QRLLLLNATSHG------------DTLNEVVQAYRG--P  311 (404)
T ss_pred             CCEEEEECCCCCCCCHHHHHHHHHHHHC------CCCC---EEEEEECCCCCH------------HHHHHHHHHHCC--C
T ss_conf             9999980999897688899999999735------7885---289997798999------------999999998446--9


Q ss_pred             CCCCCEEECCCCCHHHHHH-HHHHHHHHHHHHH----HHCCCEEEECHHHHHHHHHCCCC
Q ss_conf             6668158628899899999-9999999999999----85798999988999999970898
Q gi|254780877|r  750 NRLDEIILFEKLRKEDMAK-IVRIQLGRVLSLI----KERNISMDFDDQVIDWLSCRGYD  804 (853)
Q Consensus       750 nRid~iv~F~~l~~~~~~~-i~~~~l~~l~~~l----~~~~i~l~~~~~~~~~l~~~~~~  804 (853)
                      + + .-++|-.|++..-.. |++..+ +...-+    -.+.+.=.+..+-.++|+.+.+.
T Consensus       312 ~-~-~~~I~TKLDEt~~~G~iln~~~-~~~lPlsy~T~GQ~VPeDi~~A~~~~Lv~ra~~  368 (404)
T PRK06995        312 G-L-AGCILTKLDEAASLGGALDTVI-RHKLPLHYVSNGQRVPEDLHVANAKFLLHRAFC  368 (404)
T ss_pred             C-C-CEEEEECCCCCCCHHHHHHHHH-HHCCCEEEECCCCCCCCCHHCCCHHHHHHHHHH
T ss_conf             9-9-8399830406797239999999-978985998189958421210898999999862


No 369
>KOG0726 consensus
Probab=97.10  E-value=0.0014  Score=48.01  Aligned_cols=137  Identities=28%  Similarity=0.439  Sum_probs=88.2

Q ss_pred             CCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEE
Q ss_conf             36777866895288740777999999987348998444574378873135421745420245458999999860799769
Q gi|254780877|r  195 SRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEII  274 (853)
Q Consensus       195 ~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~i  274 (853)
                      .-+--..+||-|+||.|||-++...|..    .-..+|   |++.   +-||  .+|-|+--.-++.++.-+... .+.|
T Consensus       215 GikpPKGVIlyG~PGTGKTLLAKAVANq----TSATFl---RvvG---seLi--QkylGdGpklvRqlF~vA~e~-apSI  281 (440)
T KOG0726         215 GIKPPKGVILYGEPGTGKTLLAKAVANQ----TSATFL---RVVG---SELI--QKYLGDGPKLVRELFRVAEEH-APSI  281 (440)
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHCC----CCHHHH---HHHH---HHHH--HHHHCCCHHHHHHHHHHHHHC-CCCE
T ss_conf             8899970588679997536888877245----521245---5650---8999--987365519999999888752-9826


Q ss_pred             EEECCHHHHCCCCCC---CCC--------CCHHHHHHHHHCCCCEEEEEEECHHHHHHHHH-CCHHHHHC---CCEEECC
Q ss_conf             996362773026665---543--------35888876531246604899744899999730-01113202---3111115
Q gi|254780877|r  275 LFIDELHVLVGAGKT---DGA--------MDASNLLKPSLARGELHCIGATTLDEYRKYIE-KDPALARR---FQSLLVG  339 (853)
Q Consensus       275 lfide~h~~~gaG~~---~g~--------~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iE-kD~Al~RR---Fq~i~V~  339 (853)
                      .|||||..+ |..+-   +|+        +..-|-|--.=+||++++|-||.-      || -||||-|-   =.+|...
T Consensus       282 vFiDEIdAi-GtKRyds~SggerEiQrtmLELLNQldGFdsrgDvKvimATnr------ie~LDPaLiRPGrIDrKIef~  354 (440)
T KOG0726         282 VFIDEIDAI-GTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIMATNR------IETLDPALIRPGRIDRKIEFP  354 (440)
T ss_pred             EEEEHHHHH-CCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCEEEEEECCC------CCCCCHHHCCCCCCCCCCCCC
T ss_conf             986400110-4521347885078999999999874268665677589974165------344677552787543111257


Q ss_pred             CCCHHHHHHHHH
Q ss_conf             777678999999
Q gi|254780877|r  340 EPTVTDTISILR  351 (853)
Q Consensus       340 Eps~~~t~~iL~  351 (853)
                      -|+..+-..|.+
T Consensus       355 ~pDe~TkkkIf~  366 (440)
T KOG0726         355 LPDEKTKKKIFQ  366 (440)
T ss_pred             CCCHHHHCEEEE
T ss_conf             975563231568


No 370
>TIGR02880 cbbX_cfxQ CbbX protein; InterPro: IPR000470 Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. The Cfx genes in Alcaligenes eutrophus encode a number of Calvin cycle enzymes . The observed sizes of two of the gene products, CfxX and CfxY, are 35 kDa and 27 kDa respectively . No functions could be assigned to CfxX and CfxY. These proteins show a high degree of similarity to the Bacillus subtilis stage V sporulation protein K . ; GO: 0005524 ATP binding.
Probab=97.10  E-value=0.0088  Score=41.56  Aligned_cols=164  Identities=24%  Similarity=0.336  Sum_probs=112.9

Q ss_pred             CCCCCCHHHHHHHHHHHHCCCC---------CCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHC
Q ss_conf             5333335789999999633677---------7866895288740777999999987348998444574378873135421
Q gi|254780877|r  177 LDPVIGRDDEMRRAIQVLSRRT---------KNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIA  247 (853)
Q Consensus       177 LDPVIGRe~EI~~~~~iL~r~~---------k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~a  247 (853)
                      |.||-.|=.++-.++-|=--|.         .-.-...|.||.|||++.-.+|+-+..=   -.++.-.++++---.||.
T Consensus        27 l~Pvk~r~~~~a~lllv~~~r~~~~l~~~~P~lhm~ftG~PGtGkttva~~m~~~l~~l---Gy~r~G~~~~~trddlvG  103 (284)
T TIGR02880        27 LKPVKTRIREIAALLLVERLRQKLGLASAAPSLHMSFTGNPGTGKTTVALRMAQILHRL---GYVRKGHLVSVTRDDLVG  103 (284)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHHHHC---CCCCCCCEEEEEHHHHHH
T ss_conf             41588999999999999999987422104883267751689872489999999999871---540036267853001311


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCC-CCCCCHHHHHHHHHC--CCCEEEEEEECHHHHHHHHH
Q ss_conf             745420245458999999860799769996362773026665-543358888765312--46604899744899999730
Q gi|254780877|r  248 GAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKT-DGAMDASNLLKPSLA--RGELHCIGATTLDEYRKYIE  324 (853)
Q Consensus       248 g~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~-~g~~Daan~LKP~La--rG~l~~IgaTT~~Eyrk~iE  324 (853)
                        .|-|.-.-+-|.+++..   .|. +|||||..-+--...- +-+..|-.+|-..+.  |.++-+|-|--.+-...+++
T Consensus       104 --qy~GhtaPktke~lk~a---~GG-vlfideayyly~P~nerdyG~eaieillq~men~r~~lvvi~aGy~~rm~~f~~  177 (284)
T TIGR02880       104 --QYIGHTAPKTKEVLKRA---MGG-VLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFE  177 (284)
T ss_pred             --HHHCCCCCHHHHHHHHH---CCC-EEEEECHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCCEEEEEECCHHHHHHHHH
T ss_conf             --22125772268999874---287-366422033217764102237999999998723655378887170788888751


Q ss_pred             CCHHHHHCCCE-EECCCCCHHHHHHH
Q ss_conf             01113202311-11157776789999
Q gi|254780877|r  325 KDPALARRFQS-LLVGEPTVTDTISI  349 (853)
Q Consensus       325 kD~Al~RRFq~-i~V~Eps~~~t~~i  349 (853)
                      .+|.|..|... |....-+.++-..|
T Consensus       178 snPG~~sr~a~h~~fPdy~~~~l~~i  203 (284)
T TIGR02880       178 SNPGLSSRVAHHVDFPDYSEEELLAI  203 (284)
T ss_pred             CCCCHHHHHHHHCCCCCCCHHHHHHH
T ss_conf             17862467764315888776789999


No 371
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=97.05  E-value=0.0093  Score=41.37  Aligned_cols=164  Identities=23%  Similarity=0.250  Sum_probs=89.8

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHHCC----CCCHHHCCCEE-EEEEHHHHHC-CCCCCCHHHHHHHHHHHHHHHCCCCEE
Q ss_conf             66895288740777999999987348----99844457437-8873135421-745420245458999999860799769
Q gi|254780877|r  201 NPVLIGDPGVGKTAIIEGLASRIING----DIPESLKGKRL-MALDMGALIA-GAKFRGEFEERLKSLLCEIRSEDGEII  274 (853)
Q Consensus       201 n~~lvGe~GvGKtaive~la~~i~~~----~vp~~l~~~~i-~~ld~~~l~a-g~~~rg~~e~r~~~i~~~~~~~~~~~i  274 (853)
                      .+++-|+.|.+|++.+.+|+..+-.+    ++|...-.-++ =+||+..-+. |-.   .|+.   .|+.+   ++ +-|
T Consensus        27 Gvlirg~~Gtakst~~r~l~~llp~~~p~~~lPl~~tedrl~G~lDi~~tL~~G~~---v~~~---GLLa~---A~-~gv   96 (584)
T PRK13406         27 GVVLRARAGPVRDRWLAALRALLPAGTPLRRLPPGIADDRLLGGLDLAATLRAGRP---VAER---GLLAE---AD-GGV   96 (584)
T ss_pred             CEEEECCCCCHHHHHHHHHHHHCCCCCCEEECCCCCCHHHHCCCCCHHHHHHCCCE---ECCC---CHHHC---CC-CCE
T ss_conf             18997799957999999999756899984656999974151471259999976898---5257---53330---36-998


Q ss_pred             EEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEE---------------EEEECHHHHHHHHHCC----HHHHHCCCE
Q ss_conf             996362773026665543358888765312466048---------------9974489999973001----113202311
Q gi|254780877|r  275 LFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHC---------------IGATTLDEYRKYIEKD----PALARRFQS  335 (853)
Q Consensus       275 lfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~---------------IgaTT~~Eyrk~iEkD----~Al~RRFq~  335 (853)
                      ||+||+.-+=        -...++|--+++.|..++               ||....      .|.|    ++|.+||--
T Consensus        97 Lyvdevnll~--------d~lv~~Ll~a~~~G~~~vEReGiS~~~parf~LIa~deg------~e~de~~~~~l~dRla~  162 (584)
T PRK13406         97 LVLAMAERLE--------PGTAARLAAALDAGEVAIERDGLALRMPARFGLVALDEG------AEEDERAPAALADRLAF  162 (584)
T ss_pred             EEEECHHHCC--------HHHHHHHHHHHHCCCCCCCCCCCCCCCCCEEEEEEECCC------CCCCCCHHHHHHHHHCC
T ss_conf             9985147378--------889999999985487400258766356650589994678------87643110788876507


Q ss_pred             -EECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHC
Q ss_conf             -11157776789999999789865414961015899999863332024576747789999999998754102
Q gi|254780877|r  336 -LLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEASARVRMQID  406 (853)
Q Consensus       336 -i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~A~~~i~~~  406 (853)
                       |.++.            +..++..      ........+.-+...++.=.+||..+..+-+.|+...+...
T Consensus       163 ~vd~~~------------~~~~~~~------~~~~~~~~i~~Ar~~L~~V~i~d~~~~~l~~~a~~~gv~g~  216 (584)
T PRK13406        163 HLDLDG------------LALRDTR------EFPIDADDIAAARARLAAVRVPPEAIEALCAAAAALGIASL  216 (584)
T ss_pred             CCCHHH------------HHHHHHH------HHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCCC
T ss_conf             068167------------6666401------11123689999998678666699999999999998399862


No 372
>PRK05917 DNA polymerase III subunit delta'; Validated
Probab=97.04  E-value=0.043  Score=35.95  Aligned_cols=124  Identities=17%  Similarity=0.118  Sum_probs=68.9

Q ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHC----C--CEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHC---
Q ss_conf             78668952887407779999999873489984445----7--43788731354217454202454589999998607---
Q gi|254780877|r  199 KNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLK----G--KRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSE---  269 (853)
Q Consensus       199 k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~----~--~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~---  269 (853)
                      -+--++.|++|+||++++..+|+.+...+.|..-.    +  --++.+..    .|...-... +-++.+.+.+..+   
T Consensus        19 ~HAyLf~Gp~G~GK~~~A~~~A~~LLc~~~p~~~~~i~~~~HPD~~~i~p----e~k~~~~~I-d~iR~l~~~i~~~p~~   93 (290)
T PRK05917         19 PSAILLHGQDLSNLSQYAYELASLILLESSPEAQYKISQKIHPDIHEFFP----EGKGRLHSI-ETPRAIKKQIWIHPYE   93 (290)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCCEEEECC----CCCCCCCCH-HHHHHHHHHHCCCCCC
T ss_conf             60687689998659999999999985789961688987468998599615----777887867-8999999996418646


Q ss_pred             CCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCC--CEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCC
Q ss_conf             9976999636277302666554335888876531246--6048997448999997300111320231111157
Q gi|254780877|r  270 DGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARG--ELHCIGATTLDEYRKYIEKDPALARRFQSLLVGE  340 (853)
Q Consensus       270 ~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG--~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~E  340 (853)
                      .+.-|..||+.|.+        +..|||-|--.|..-  ..-+|=.|+.-+  +-   =+.+-.|-|+|.+.-
T Consensus        94 g~~KV~IId~Ad~M--------n~~AaNALLKtLEEPP~~tvfILit~~~~--~l---LpTI~SRCQ~I~i~~  153 (290)
T PRK05917         94 ANYKIYIIHEADRM--------TLDAISAFLKVLEDPPKHSVIILTSAKPQ--RL---PPTIRSRSLSIHIPG  153 (290)
T ss_pred             CCCEEEEECCHHHH--------CHHHHHHHHHHHCCCCCCEEEEEEECCHH--HC---CHHHHHCCCEEECCC
T ss_conf             88269997567763--------89999999997347987859999869925--48---237763351167776


No 373
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=97.03  E-value=0.0022  Score=46.43  Aligned_cols=109  Identities=19%  Similarity=0.266  Sum_probs=51.6

Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCC--CCCCCH---HHHCCCCCCCHHHCC
Q ss_conf             999999999987410123656651289872678616889999999872377653--002244---774034532013047
Q gi|254780877|r  575 AAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENS--MIRIDM---SEYMEKHSVSRLIGS  649 (853)
Q Consensus       575 ~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~--lir~dM---sey~e~~~vs~LiGa  649 (853)
                      +.++.+.+.+...........++.-+++|+||+|||||.++--||..+-....+  ++..|-   .-+-+=-..++.+|-
T Consensus        52 ~vi~~l~~~l~~~~~~~~~~~~~~~vI~lvG~~G~GKTTT~AKLA~~~~~~~~kV~lia~DtyR~aA~eQLk~~a~~l~v  131 (270)
T PRK06731         52 EVIEYILEDMSSHFNTENVFEKEVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGF  131 (270)
T ss_pred             HHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEECCCCHHHHHHHHHHHHHHCC
T ss_conf             99999999998750766546799818999888989889999999999986799089998388888899999999998199


Q ss_pred             CCHHCCCCCCCCCCHHHH----CCCCCEEEEHHHHHCCHH
Q ss_conf             711203566774211322----156410220214414989
Q gi|254780877|r  650 PPGYVGYEEGGALTEAVR----RHPYQVVLFDEIEKAHSD  685 (853)
Q Consensus       650 ppGYvG~~~gg~Lte~vr----~~P~sVil~DEiEKah~~  685 (853)
                      | -|+.+++ ..+..++.    ..-+-|||.|--=.-|.+
T Consensus       132 ~-~~~~~~~-~~~~~~~~~~~~~~~~DvilIDTAGR~~~d  169 (270)
T PRK06731        132 E-VIAVRDE-AAMTRALTYFKEEARVDYILIDTAGKNYRA  169 (270)
T ss_pred             C-EECCCCH-HHHHHHHHHHHHHCCCCEEEEECCCCCCCC
T ss_conf             5-3545887-899999999999769999999799987146


No 374
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=97.02  E-value=0.045  Score=35.84  Aligned_cols=174  Identities=17%  Similarity=0.269  Sum_probs=102.8

Q ss_pred             CCCCCCCHHHHHHHHHHHHCCC-------------CCCCEEEECCCCCCHHHHHHHHHHHHHCCC--CCH---------H
Q ss_conf             8533333578999999963367-------------778668952887407779999999873489--984---------4
Q gi|254780877|r  176 KLDPVIGRDDEMRRAIQVLSRR-------------TKNNPVLIGDPGVGKTAIIEGLASRIINGD--IPE---------S  231 (853)
Q Consensus       176 kLDPVIGRe~EI~~~~~iL~r~-------------~k~n~~lvGe~GvGKtaive~la~~i~~~~--vp~---------~  231 (853)
                      -+|-|||-+.-++.+-.-+..-             --.--+..|++|+|||++...||+.+.-.+  .++         .
T Consensus         3 ~f~~ivGQe~v~~~L~~A~~~~R~~~~~~~~~~~~~~HAyLF~Gp~G~Gk~~~A~~~A~~l~C~~~~~~~cg~C~~C~~i   82 (395)
T PRK07940          3 VWDRLVGQDAVVAELRAAARAARADSAHSAAAGSGMTHAWLFTGPPGSGRSNAARAFAAALQCTDPGVPGCGECRACRTV   82 (395)
T ss_pred             CCHHHCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHH
T ss_conf             70131592999999999998363434433334687660376368998788999999999966999999999878789998


Q ss_pred             HCCC--EEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHC--CC-CEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCC
Q ss_conf             4574--3788731354217454202454589999998607--99-76999636277302666554335888876531246
Q gi|254780877|r  232 LKGK--RLMALDMGALIAGAKFRGEFEERLKSLLCEIRSE--DG-EIILFIDELHVLVGAGKTDGAMDASNLLKPSLARG  306 (853)
Q Consensus       232 l~~~--~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~--~~-~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG  306 (853)
                      ..+.  -+..+..    .|++.+   =+-++.+++++...  .| .-|..||+.|++-        .-|+|-|--.|..-
T Consensus        83 ~~g~hpDv~~i~p----~~~~i~---id~iR~l~~~~~~~p~~~~~kv~ii~~a~~m~--------~~a~NalLKtLEEP  147 (395)
T PRK07940         83 LAGTHPDVRVVVP----EGLSIG---VDEVREIVQIAARRPTTGRWRIVVIEDADRLT--------ERAANALLKAVEEP  147 (395)
T ss_pred             HCCCCCCEEEEEC----CCCCCC---HHHHHHHHHHHHHCCCCCCCEEEEEECHHHHC--------HHHHHHHHHHHCCC
T ss_conf             7689987189826----877688---99999999998527303795599980778748--------99999999852178


Q ss_pred             C---EEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q ss_conf             6---048997448999997300111320231111157776789999999789865414961015899999863332
Q gi|254780877|r  307 E---LHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNR  379 (853)
Q Consensus       307 ~---l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~r  379 (853)
                      -   +-+..+|.++..=      +-+-.|-|.|....|+.++....|.       ..+||  +.+....++.+|.-
T Consensus       148 p~~~~fiL~t~~~~~ll------pTI~SRcq~~~f~~~~~~~i~~~L~-------~~~gi--~~~~A~~aA~~s~G  208 (395)
T PRK07940        148 PPRTVWLLCAPSVEDVL------PTIRSRCRHVALRTPSVEAVADVLV-------RRDGV--DPETAQWAARASGG  208 (395)
T ss_pred             CCCEEEEEEECCHHHHH------HHHHHHHEECCCCCCCHHHHHHHHH-------HCCCC--CHHHHHHHHHHHCC
T ss_conf             88869998739978744------6887440002379999999999998-------70199--98999999998089


No 375
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=97.01  E-value=0.0018  Score=47.24  Aligned_cols=179  Identities=22%  Similarity=0.280  Sum_probs=94.7

Q ss_pred             CCCCCHHHHHHHHHHHHCCCCCC----CE-EEECCCCCCHHHHHHHHHH----HHHCCCCCHHHCCCEEEEEEHHHHHC-
Q ss_conf             33333578999999963367778----66-8952887407779999999----87348998444574378873135421-
Q gi|254780877|r  178 DPVIGRDDEMRRAIQVLSRRTKN----NP-VLIGDPGVGKTAIIEGLAS----RIINGDIPESLKGKRLMALDMGALIA-  247 (853)
Q Consensus       178 DPVIGRe~EI~~~~~iL~r~~k~----n~-~lvGe~GvGKtaive~la~----~i~~~~vp~~l~~~~i~~ld~~~l~a-  247 (853)
                      +-+-|||+|.+++-.-+--.-|+    +. -+-|-||.||||-|....+    ...+|++|+    ...++++-..|.. 
T Consensus       267 e~lpcRe~E~~~I~~Fie~~i~q~GtG~cLYISGVPGTGKTATV~eVIr~L~~~~~~~~lp~----F~fVEINGMkLt~P  342 (650)
T PTZ00112        267 EYILGREKEAKEIRTFLETGIKQGGTGQILYISGVPGTGKTATVYMVIKELQNKKLKGQLPW----FNLFEINGVNLVHP  342 (650)
T ss_pred             CCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCCCC----CEEEEECCEECCCH
T ss_conf             44777078999999999864116886656999789999800369999999999997089998----15999736377987


Q ss_pred             ------------CCCCCCHHHHHHHHHHHHH-HHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHH-HHHHCCCCEEEEE-
Q ss_conf             ------------7454202454589999998-607997699963627730266655433588887-6531246604899-
Q gi|254780877|r  248 ------------GAKFRGEFEERLKSLLCEI-RSEDGEIILFIDELHVLVGAGKTDGAMDASNLL-KPSLARGELHCIG-  312 (853)
Q Consensus       248 ------------g~~~rg~~e~r~~~i~~~~-~~~~~~~ilfide~h~~~gaG~~~g~~Daan~L-KP~LarG~l~~Ig-  312 (853)
                                  |-+... ...- -.+++.. ......+||.+||+-.|+- ..+. -  .=|++ =|.+....|-+|| 
T Consensus       343 ~qaY~~L~e~Ltg~k~~~-~~~A-~~lL~k~F~~~r~p~VlLvDELD~LvT-kkQ~-V--lYNLFdWPT~~~SkLIVIaI  416 (650)
T PTZ00112        343 NAAYRVFYKKLFNKKPPN-ALNS-YKELDKLFNNNRTPSILIVDEADYIVT-KTQK-V--LFTLFDWPTKKNSKLILIII  416 (650)
T ss_pred             HHHHHHHHHHHHCCCCCC-HHHH-HHHHHHHHCCCCCCEEEEECHHHHHHH-CCCC-E--EEECCCCCCCCCCEEEEEEE
T ss_conf             889999999984898886-7899-999999826899718999715777763-6774-5--77736688988870799998


Q ss_pred             EECHHHHHHHHHCCHHHHHC--CCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q ss_conf             74489999973001113202--311111577767899999997898654149610158999998
Q gi|254780877|r  313 ATTLDEYRKYIEKDPALARR--FQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAA  374 (853)
Q Consensus       313 aTT~~Eyrk~iEkD~Al~RR--Fq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av  374 (853)
                      |-|.|==-+..   +-...|  ++++.-.+=+.++-.+|+..   |++..  --+.++||..|.
T Consensus       417 ANTMDLPERL~---~RVsSRLGltRltF~PYt~~QL~eII~s---RL~~~--~~f~~dAIQl~A  472 (650)
T PTZ00112        417 SNTMDLPYKMK---PSCRSRLAFGRLVFSPYKYQQIEKVIKE---RLENC--EIIDHTALQLCA  472 (650)
T ss_pred             EECCCCCHHHH---HHHHHHCCCCEECCCCCCHHHHHHHHHH---HHCCC--CCCCHHHHHHHH
T ss_conf             50678606566---6655522885004399899999999999---86267--778878999998


No 376
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=97.01  E-value=0.00096  Score=49.39  Aligned_cols=143  Identities=28%  Similarity=0.417  Sum_probs=87.8

Q ss_pred             CCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHH----------------HHHCCCCCHH--HCCCEE---
Q ss_conf             3333578999999963367778668952887407779999999----------------8734899844--457437---
Q gi|254780877|r  179 PVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLAS----------------RIINGDIPES--LKGKRL---  237 (853)
Q Consensus       179 PVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~----------------~i~~~~vp~~--l~~~~i---  237 (853)
                      -|+| .++-+|.++|=+--.+ |-+++|+||.|||-++..+..                ..+.++-...  +...|=   
T Consensus       180 DV~G-Q~~AKrAleiAAAGgH-nLl~~GpPGtGKTmla~Rl~~lLPpls~~E~lE~s~I~s~~~~~~~~~~~~~~rPFr~  257 (490)
T COG0606         180 DVKG-QEQAKRALEIAAAGGH-NLLLVGPPGTGKTMLASRLPGLLPPLSIPEALEVSAIHSLAGDLHEGCPLKIHRPFRA  257 (490)
T ss_pred             HHCC-CHHHHHHHHHHHHCCC-CEEEECCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCEECCCCC
T ss_conf             6438-4999999999984388-6787569988656764231025999870888999888763543246786411078768


Q ss_pred             --EEEEHHHHHCCC-CCC-CHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEE
Q ss_conf             --887313542174-542-0245458999999860799769996362773026665543358888765312466048997
Q gi|254780877|r  238 --MALDMGALIAGA-KFR-GEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGA  313 (853)
Q Consensus       238 --~~ld~~~l~ag~-~~r-g~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~Iga  313 (853)
                        -+..+.+|+.|- .|| |           |+.-+. |=+||+||+--.        .-++-|-|.-.|..|++.+--+
T Consensus       258 PHHsaS~~aLvGGG~~p~PG-----------eIsLAH-~GVLFLDElpef--------~~~iLe~LR~PLE~g~i~IsRa  317 (490)
T COG0606         258 PHHSASLAALVGGGGVPRPG-----------EISLAH-NGVLFLDELPEF--------KRSILEALREPLENGKIIISRA  317 (490)
T ss_pred             CCCCCHHHHHHCCCCCCCCC-----------CEEEEC-CCEEEEECCCHH--------HHHHHHHHHCCCCCCCEEEEEC
T ss_conf             87402288973789988987-----------354303-877886144210--------5999999737412581799975


Q ss_pred             ECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             44899999730011132023111115777678999999978986541496
Q gi|254780877|r  314 TTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKV  363 (853)
Q Consensus       314 TT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V  363 (853)
                      .+.-+|.          -|||.|----|+.          --.|+.+|+.
T Consensus       318 ~~~v~yp----------a~Fqlv~AmNpcp----------cG~~~~~~~~  347 (490)
T COG0606         318 GSKVTYP----------ARFQLVAAMNPCP----------CGNLGAPLRR  347 (490)
T ss_pred             CCEEEEE----------EEEEEHHHCCCCC----------CCCCCCCCCC
T ss_conf             8716872----------1267752239997----------6478887777


No 377
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=97.01  E-value=0.0012  Score=48.71  Aligned_cols=125  Identities=19%  Similarity=0.297  Sum_probs=58.2

Q ss_pred             EEEEECCHHHHC-C----------------CCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHCCC-
Q ss_conf             699963627730-2----------------6665543358888765312466048997448999997300111320231-
Q gi|254780877|r  273 IILFIDELHVLV-G----------------AGKTDGAMDASNLLKPSLARGELHCIGATTLDEYRKYIEKDPALARRFQ-  334 (853)
Q Consensus       273 ~ilfide~h~~~-g----------------aG~~~g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq-  334 (853)
                      =+|||||+.+|= +                .|.++-|  .+.+++|-=---++++|++++++-|+..   .+||-.|.+ 
T Consensus       228 GvL~IDei~~L~~~~q~~Ll~alq~~k~~I~g~~e~S--sgA~v~tepvP~Df~lV~aGn~d~~~~m---~palrsri~g  302 (637)
T PRK13765        228 GVLFIDEINTLRLESQQSLLTAMQEKKYPITGQSERS--SGAMVRTEPVPCDFIMVAAGNLDAIENM---HPALRSRIRG  302 (637)
T ss_pred             CEEEEEHHHHCCHHHHHHHHHHHHCCCEECCCCCCCC--CCCCCCCCCCCEEEEEEEECCHHHHHHC---CHHHHHHHHC
T ss_conf             5699844564798899999999965915323688666--7762578986613699995372766643---9988865104


Q ss_pred             ---EEECC---CCCHHHHHHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHHHCCCC-CCH---HHHHHHHHHHHHHHH
Q ss_conf             ---11115---7776789999999789865414961-01589999986333202457-674---778999999999875
Q gi|254780877|r  335 ---SLLVG---EPTVTDTISILRGLKERYEQHHKVR-ISDSALVSAAVLSNRYITDR-FLP---DKAIDLMDEASARVR  402 (853)
Q Consensus       335 ---~i~V~---Eps~~~t~~iL~gl~~~yE~~H~V~-i~d~al~~av~ls~rYi~~r-~lP---DKAIDllDeA~A~~~  402 (853)
                         .|..+   +-+.+....++|=+....++.-.+- ++.+|+...+..+.|.=.++ +|-   -.-.+|+-+|+..++
T Consensus       303 ~gyev~~~~~m~dt~enr~k~arfiaqev~~dg~iPhfdr~AVaeII~eA~R~AG~k~kLTLrLReL~~LIReAgdiA~  381 (637)
T PRK13765        303 YGYEVYMNDTMEDTPENRKKLVRFVAQEVKRDGKIPHFDREAVEEIIREARRRAGRKGHLTLKLRDLGGLVRVAGDIAR  381 (637)
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf             7749982356778788999999999999974388899998999999999997405456630528988749999889999


No 378
>PRK08116 hypothetical protein; Validated
Probab=97.01  E-value=0.0029  Score=45.45  Aligned_cols=70  Identities=26%  Similarity=0.498  Sum_probs=50.3

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCC--CCCHHHHHHHHHHHHHHHCCCCEEEEEC
Q ss_conf             66895288740777999999987348998444574378873135421745--4202454589999998607997699963
Q gi|254780877|r  201 NPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAK--FRGEFEERLKSLLCEIRSEDGEIILFID  278 (853)
Q Consensus       201 n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~--~rg~~e~r~~~i~~~~~~~~~~~ilfid  278 (853)
                      .-+|.|+||+|||-++-.+|..+.+.       ++.++-.++..|+.--+  |...-.+....+++.+...+   +|+||
T Consensus       110 GLll~G~~GtGKThLa~aIa~~l~~~-------g~~V~~~~~~~ll~~lk~~~~~~~~~~~~e~l~~l~~~d---LLIiD  179 (262)
T PRK08116        110 GLLLWGSPGNGKTYLAAAIANELIEK-------GVPVVFVNVPELLNRIKSTYNSEGKEDENEIIRALDNAD---LLILD  179 (262)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC-------CCEEEEEEHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCC---EEEEE
T ss_conf             18998989998999999999999987-------993999889999999999986356101999999861299---89983


Q ss_pred             CH
Q ss_conf             62
Q gi|254780877|r  279 EL  280 (853)
Q Consensus       279 e~  280 (853)
                      |+
T Consensus       180 Dl  181 (262)
T PRK08116        180 DL  181 (262)
T ss_pred             HH
T ss_conf             22


No 379
>pfam00931 NB-ARC NB-ARC domain.
Probab=96.99  E-value=0.015  Score=39.58  Aligned_cols=121  Identities=19%  Similarity=0.259  Sum_probs=61.5

Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHH-----HHCCCCCCCCCCCHHHHCCCCC----CCH
Q ss_conf             9999999999874101236566512898726786168899999998-----7237765300224477403453----201
Q gi|254780877|r  575 AAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLAR-----LLFDDENSMIRIDMSEYMEKHS----VSR  645 (853)
Q Consensus       575 ~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~-----~lf~~~~~lir~dMsey~e~~~----vs~  645 (853)
                      +-++.+...+..       .+.-+++.--+|+.|+|||.||+.+-+     ..|+ ....+  .+|.-.....    +.+
T Consensus         3 ~~~~~i~~~L~~-------~~~~~~vI~I~G~gGiGKTtLA~~v~~~~~i~~~F~-~~~wv--~vs~~~~~~~i~~~i~~   72 (285)
T pfam00931         3 DMIEALIEKLLE-------MSENLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFD-SVAWV--VVSKTYTEFRLQKDILQ   72 (285)
T ss_pred             HHHHHHHHHHHC-------CCCCCEEEEEECCCCCCHHHHHHHHHCCHHHHHCCC-EEEEE--EECCCCCHHHHHHHHHH
T ss_conf             899999999864-------898953999889995639999999971655650598-38999--97976668999999999


Q ss_pred             HHCCCCHHCCCCC----CCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCC
Q ss_conf             3047711203566----7742113221564102202144149899999999840457887999778303315595485
Q gi|254780877|r  646 LIGSPPGYVGYEE----GGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSN  719 (853)
Q Consensus       646 LiGappGYvG~~~----gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN  719 (853)
                      -++...+=.....    -..|.+.++.+. ..|+||.+.  +...|+.+...+.++    +.       .+-||+||.
T Consensus        73 ~l~~~~~~~~~~~~~~l~~~l~~~L~~kr-~LiVLDDVw--~~~~~~~l~~~~~~~----~~-------gSrIIvTTR  136 (285)
T pfam00931        73 ELGLDDSDWVEKNESELAVKIKEALLRKR-FLLVLDDVW--EKNDWDKIGVPFPDG----EN-------GSRVIVTTR  136 (285)
T ss_pred             HHCCCCCCCCCCCHHHHHHHHHHHHCCCC-EEEEECCCC--CHHHHHHHHCCCCCC----CC-------CCEEEEECC
T ss_conf             85666545555789999999999972796-699963888--789999973457578----99-------827998557


No 380
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=96.99  E-value=0.009  Score=41.48  Aligned_cols=143  Identities=19%  Similarity=0.277  Sum_probs=77.2

Q ss_pred             EEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHH
Q ss_conf             98726786168899999998723776530022447740345320130477112035667742113221564102202144
Q gi|254780877|r  601 FMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIE  680 (853)
Q Consensus       601 flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEiE  680 (853)
                      .+.+|++|||||..|+.|+ .| |    +-.+.|++|.         .-.+-|-||+++       |  -+-+|=+|..-
T Consensus         3 I~ITGTPGvGKTT~~~~L~-~l-g----~~~i~l~el~---------~e~~~~~~~de~-------r--~s~~vD~d~~~   58 (180)
T COG1936           3 IAITGTPGVGKTTVCKLLR-EL-G----YKVIELNELA---------KENGLYTEYDEL-------R--KSVIVDVDKLR   58 (180)
T ss_pred             EEEECCCCCCHHHHHHHHH-HH-C----CCEEEHHHHH---------HHCCCEECCCCC-------C--CEEEEEHHHHH
T ss_conf             7993799986687999999-82-9----8466199999---------866971143776-------6--15886679999


Q ss_pred             HCCHHHHHHHHHHHHCCEEECCCC-CEEECCCCEEEECCCHHH--HHHHC---CHHHHHHHHHHHHHHHCCHHHHCCCCC
Q ss_conf             149899999999840457887999-778303315595485126--87640---326799999999986288577266681
Q gi|254780877|r  681 KAHSDVHNILLQVLDDGRLTDSQG-RTVDFRNTLIIMTSNLGA--EYLIE---DGDSVHDKVMGIVRSAFKPEFLNRLDE  754 (853)
Q Consensus       681 Kah~~v~~~llqild~G~ltd~~G-~~v~f~n~iii~TsN~G~--~~~~~---~~~~~~~~~~~~l~~~f~peflnRid~  754 (853)
                      +.-...   +   ...+.+.|++= ..+.--+.+|++..|--.  +.+..   +.+.+.+.+..++...+.-|-+-+.+.
T Consensus        59 ~~le~~---~---~~~~~Ivd~H~~hl~~~~dlVvVLR~~p~~L~~RLk~RGy~~eKI~ENveAEi~~vi~~EA~E~~~~  132 (180)
T COG1936          59 KRLEEL---L---REGSGIVDSHLSHLLPDCDLVVVLRADPEVLYERLKGRGYSEEKILENVEAEILDVILIEAVERFEA  132 (180)
T ss_pred             HHHHHH---H---CCCCEEEECHHHHCCCCCCEEEEECCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             888887---5---0588476126662178788899971898999999987699878988779999999999999973476


Q ss_pred             EEECCCCCHHHHHHHHHHHH
Q ss_conf             58628899899999999999
Q gi|254780877|r  755 IILFEKLRKEDMAKIVRIQL  774 (853)
Q Consensus       755 iv~F~~l~~~~~~~i~~~~l  774 (853)
                      ++.|+. +......++..-+
T Consensus       133 v~evdt-t~~s~ee~~~~i~  151 (180)
T COG1936         133 VIEVDT-TNRSPEEVAEEII  151 (180)
T ss_pred             EEEEEC-CCCCHHHHHHHHH
T ss_conf             499978-9999999999999


No 381
>PRK03731 aroL shikimate kinase II; Reviewed
Probab=96.98  E-value=0.02  Score=38.73  Aligned_cols=147  Identities=18%  Similarity=0.259  Sum_probs=72.7

Q ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHHCC--CCCHHHCCCEEEEEEHHHHHCCCCCCCH--HHHHHHHHHHHHHHCCCCEE
Q ss_conf             7866895288740777999999987348--9984445743788731354217454202--45458999999860799769
Q gi|254780877|r  199 KNNPVLIGDPGVGKTAIIEGLASRIING--DIPESLKGKRLMALDMGALIAGAKFRGE--FEERLKSLLCEIRSEDGEII  274 (853)
Q Consensus       199 k~n~~lvGe~GvGKtaive~la~~i~~~--~vp~~l~~~~i~~ld~~~l~ag~~~rg~--~e~r~~~i~~~~~~~~~~~i  274 (853)
                      ++|.+|||-||+|||+|-.-||+++-..  |....+..  -+...+..+.+-   .||  |-+.=..++..+.. + +. 
T Consensus         2 ~~~I~LiG~mGsGKstiGk~LA~~L~~~fiD~D~~Ie~--~~g~sI~eif~~---~Ge~~FR~~E~~~l~~l~~-~-~~-   73 (172)
T PRK03731          2 TQPLFLVGPRGCGKTTVGMALAQALGYRFVDTDLWLQS--TLQMTVAEIVER---EGWAGFRARESAALEAVTA-P-ST-   73 (172)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHCCCEEECCHHHHH--HHCCCHHHHHHH---HCHHHHHHHHHHHHHHHCC-C-CE-
T ss_conf             99889988999988999999999859997978699998--839899999998---3989999999999998427-8-82-


Q ss_pred             EEECCHHHHCCCCCCC-CCCCHHHHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHH
Q ss_conf             9963627730266655-433588887653124660489974489999973001113202311111577767899999997
Q gi|254780877|r  275 LFIDELHVLVGAGKTD-GAMDASNLLKPSLARGELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGL  353 (853)
Q Consensus       275 lfide~h~~~gaG~~~-g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl  353 (853)
                              +|..|++- -.-+.-.+|+   ..|-+=. =-++++.--+.+..|+--..  -|..-..|..++-.+++..-
T Consensus        74 --------VIstGGG~v~~~~n~~~L~---~~g~vv~-L~~~~~~l~~Rl~~~~~~~~--RPll~~~~~~~~i~~l~~~R  139 (172)
T PRK03731         74 --------VVATGGGIILTEENRAFMR---NNGIVIY-LCAPVSVLANRLEADPEEDQ--RPTLTGKPLSEEVAEVLAER  139 (172)
T ss_pred             --------EEEECCCCCCCHHHHHHHH---HCCEEEE-EECCHHHHHHHHHCCCCCCC--CCCCCCCCHHHHHHHHHHHH
T ss_conf             --------8980786426899999999---6899999-97999999999813877898--98788998799999999999


Q ss_pred             HHHHHHHCCCCCCH
Q ss_conf             89865414961015
Q gi|254780877|r  354 KERYEQHHKVRISD  367 (853)
Q Consensus       354 ~~~yE~~H~V~i~d  367 (853)
                      .+.|++...+.+++
T Consensus       140 ~~~Y~~~a~~ii~~  153 (172)
T PRK03731        140 DALYREVAHHIIDA  153 (172)
T ss_pred             HHHHHHHCCEEECC
T ss_conf             99999848998879


No 382
>pfam05729 NACHT NACHT domain. This NTPase domain is found in apoptosis proteins as well as those involved in MHC transcription activation. This family is closely related to pfam00931.
Probab=96.98  E-value=0.0072  Score=42.28  Aligned_cols=141  Identities=21%  Similarity=0.268  Sum_probs=78.0

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHH-----CCCCCCCCCCCHHHHCCC--CCCCHHHCCCCHHCCCCCCCCCCH---HHHCC
Q ss_conf             89872678616889999999872-----377653002244774034--532013047711203566774211---32215
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLL-----FDDENSMIRIDMSEYMEK--HSVSRLIGSPPGYVGYEEGGALTE---AVRRH  669 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~l-----f~~~~~lir~dMsey~e~--~~vs~LiGappGYvG~~~gg~Lte---~vr~~  669 (853)
                      ..+..|++|+|||.+++.+|...     +.+.+-.+-+.+.++...  -++.-+|-..-.    +.+...++   .+..+
T Consensus         2 ~i~i~G~aG~GKTtll~kl~~~wa~g~~~~~~~~vf~~~~r~~~~~~~~sl~~ll~~~~~----~~~~~~~~~~~~~~~~   77 (165)
T pfam05729         2 TVILQGEAGSGKTTLLQKLALLWAQGKLPQDFDFVFFLPCRELSRSGEASLADLLFSQWP----EPAAPVSEVWAVILEL   77 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCEEEEEEHHHHCCCCCCCHHHHHHHHCC----CCCCCHHHHHHHHHHC
T ss_conf             899982798989999999999998698436972899999567077766899999998767----7457637899999839


Q ss_pred             C-CCEEEEHHHHHCCH---------HHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHH
Q ss_conf             6-41022021441498---------9999999984045788799977830331559548512687640326799999999
Q gi|254780877|r  670 P-YQVVLFDEIEKAHS---------DVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGI  739 (853)
Q Consensus       670 P-~sVil~DEiEKah~---------~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~  739 (853)
                      | ..+++||-+|....         .|..++..++.          .--|.+|-++.||--.+-              ..
T Consensus        78 ~~k~L~ilDGlDE~~~~~~~~~~~~~~~~~l~~ll~----------~~~lp~~~vliTsRp~~~--------------~~  133 (165)
T pfam05729        78 PERVLLILDGLDELASDLGQLDGPLPVLTLLSSLLR----------KKLLPGASLLLTSRPDAL--------------RD  133 (165)
T ss_pred             CCCEEEEECCHHHHCCCCCCCCCCCCHHHHHHHHHH----------HCCCCCCEEEEEECCCHH--------------HH
T ss_conf             772899964845514443564445779999999984----------152788649999680379--------------88


Q ss_pred             HHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHH
Q ss_conf             98628857726668158628899899999999999
Q gi|254780877|r  740 VRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQL  774 (853)
Q Consensus       740 l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l  774 (853)
                      +...+.+      +..+.-..++.+++...+.+.+
T Consensus       134 l~~~~~~------~~~~ei~GFs~~~~~~yi~~~F  162 (165)
T pfam05729       134 LRRGLEE------PRYLEVLGFSEEDRKQYVRKYF  162 (165)
T ss_pred             HHHHCCC------CCEEEECCCCHHHHHHHHHHHC
T ss_conf             5776488------7189988999999999999867


No 383
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=96.96  E-value=0.0015  Score=47.81  Aligned_cols=90  Identities=24%  Similarity=0.375  Sum_probs=58.3

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHH-C-CCCCCCCCC-CHHHHCCC--CCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEE
Q ss_conf             89872678616889999999872-3-776530022-44774034--5320130477112035667742113221564102
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLL-F-DDENSMIRI-DMSEYMEK--HSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVV  674 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~l-f-~~~~~lir~-dMsey~e~--~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVi  674 (853)
                      +++.+|+||.|||.+.++|...+ + ....+++.+ |-.|.+-.  +.+. +..  .+.|.+.+  .|-.++|.+|.-| 
T Consensus       151 nilI~G~TgsGKTTll~all~~i~~~~p~eRivtIED~~EL~~~~~n~v~-~~~--~~~vt~~~--Ll~~aLR~rPDRI-  224 (320)
T PRK13894        151 NILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIEDTGEIQCAAENYVQ-YHT--SIDVNMTA--LLKTTLRMRPDRI-  224 (320)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCCCCEEEECCHHHHCCCCCCEEE-EEC--CCCCCHHH--HHHHHHCCCCCEE-
T ss_conf             58998588865689999998632026952017752587880787777357-644--78868999--9999736799858-


Q ss_pred             EEHHHHHCCHHHHHHHHHHHHCCE
Q ss_conf             202144149899999999840457
Q gi|254780877|r  675 LFDEIEKAHSDVHNILLQVLDDGR  698 (853)
Q Consensus       675 l~DEiEKah~~v~~~llqild~G~  698 (853)
                      ++-|+-  .+++++ ||+.+..|+
T Consensus       225 ivGEvR--g~Ea~~-~l~A~nTGH  245 (320)
T PRK13894        225 LVGEVR--GPEALD-LLMAWNTGH  245 (320)
T ss_pred             EECCCC--CHHHHH-HHHHHHCCC
T ss_conf             766547--489999-999996699


No 384
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=96.95  E-value=0.0012  Score=48.46  Aligned_cols=90  Identities=21%  Similarity=0.402  Sum_probs=59.5

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCC-CHHHHC---CCCCCCHHHCCCCHHCCCCCCC-----CCCHHHHCCC
Q ss_conf             898726786168899999998723776530022-447740---3453201304771120356677-----4211322156
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDENSMIRI-DMSEYM---EKHSVSRLIGSPPGYVGYEEGG-----ALTEAVRRHP  670 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~~lir~-dMsey~---e~~~vs~LiGappGYvG~~~gg-----~Lte~vr~~P  670 (853)
                      +++++|+||+|||.++++|+.++=.++ .++.+ |-.|..   .++.| .|.-.++|   -+.++     .|..++|.+|
T Consensus       162 NilI~G~TgSGKTTll~aL~~~ip~~e-RiitIEDt~EL~l~~~pn~v-~l~~~~~~---~g~~~vt~~~Ll~~aLR~rP  236 (332)
T PRK13900        162 NIIISGGTSTGKTTFTNAALREIPAIE-RLITVEDAREIVLSSHPNRV-HLLASKGG---QGRAKVTTQDLIEACLRLRP  236 (332)
T ss_pred             CEEEECCCCCCHHHHHHHHHHCCCCCC-CEEEECCCHHHCCCCCCCEE-EEEECCCC---CCCCEECHHHHHHHHHCCCC
T ss_conf             199988889889999999983589535-35663140663566688889-99971688---88660869999999756899


Q ss_pred             CCEEEEHHHHHCCHHHHHHHHHHHHCCE
Q ss_conf             4102202144149899999999840457
Q gi|254780877|r  671 YQVVLFDEIEKAHSDVHNILLQVLDDGR  698 (853)
Q Consensus       671 ~sVil~DEiEKah~~v~~~llqild~G~  698 (853)
                      .- |++-|+=  .++.|+ |||.+..|+
T Consensus       237 DR-IivGEvR--G~EA~~-~l~A~nTGH  260 (332)
T PRK13900        237 DR-IIVGELR--GAEAFS-FLRAINTGH  260 (332)
T ss_pred             CE-EEECCCC--HHHHHH-HHHHHHCCC
T ss_conf             75-8445557--199999-999997699


No 385
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=96.93  E-value=0.002  Score=46.76  Aligned_cols=148  Identities=30%  Similarity=0.451  Sum_probs=68.3

Q ss_pred             CCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHH-HHHHHHH--CCCCCHHHCCCEEEEEEHHHHHC---CC---
Q ss_conf             333357899999996336777866895288740777999-9999873--48998444574378873135421---74---
Q gi|254780877|r  179 PVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIE-GLASRII--NGDIPESLKGKRLMALDMGALIA---GA---  249 (853)
Q Consensus       179 PVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive-~la~~i~--~~~vp~~l~~~~i~~ld~~~l~a---g~---  249 (853)
                      ||....+||-..+   ..  ..-++++||+|.|||+-+- -|-....  .|.+ -.++=.||=..+++.=+|   |.   
T Consensus        50 Pv~~~~~~i~~ai---~~--~~vvii~getGsGKTTqlP~~lle~g~~~~g~I-~~tQPRRlAArsvA~RvAeel~~~~G  123 (845)
T COG1643          50 PVTAVRDEILKAI---EQ--NQVVIIVGETGSGKTTQLPQFLLEEGLGIAGKI-GCTQPRRLAARSVAERVAEELGEKLG  123 (845)
T ss_pred             CCHHHHHHHHHHH---HH--CCEEEEECCCCCCHHHHHHHHHHHHHCCCCCEE-EECCCHHHHHHHHHHHHHHHHCCCCC
T ss_conf             8188899999999---86--978998679988758788999996001668759-96584389999999999998389867


Q ss_pred             ---CCCCHHHHHH-----------HHHHHHHHHC---CCCEEEEECCHHHHCCCCCCCCCCCH-HHHHHHHHC--CCCEE
Q ss_conf             ---5420245458-----------9999998607---99769996362773026665543358-888765312--46604
Q gi|254780877|r  250 ---KFRGEFEERL-----------KSLLCEIRSE---DGEIILFIDELHVLVGAGKTDGAMDA-SNLLKPSLA--RGELH  309 (853)
Q Consensus       250 ---~~rg~~e~r~-----------~~i~~~~~~~---~~~~ilfide~h~~~gaG~~~g~~Da-an~LKP~La--rG~l~  309 (853)
                         .|+=-||.+.           .-++.|+...   .+--++-|||+|-=     +- ..|. --+||-.++  |.+++
T Consensus       124 ~~VGY~iRfe~~~s~~Trik~mTdGiLlrei~~D~~Ls~ys~vIiDEaHER-----Sl-~tDilLgllk~~~~~rr~DLK  197 (845)
T COG1643         124 ETVGYSIRFESKVSPRTRIKVMTDGILLREIQNDPLLSGYSVVIIDEAHER-----SL-NTDILLGLLKDLLARRRDDLK  197 (845)
T ss_pred             CEEEEEEEEECCCCCCCEEEEECCHHHHHHHHHCCCCCCCCEEEEECHHHH-----HH-HHHHHHHHHHHHHHHCCCCCE
T ss_conf             654379996226787714689514799999843802045877997013355-----68-889999999999864688705


Q ss_pred             EEE--EE-CHHHHHHHHHCCHHH--HHCCCEEEC
Q ss_conf             899--74-489999973001113--202311111
Q gi|254780877|r  310 CIG--AT-TLDEYRKYIEKDPAL--ARRFQSLLV  338 (853)
Q Consensus       310 ~Ig--aT-T~~Eyrk~iEkD~Al--~RRFq~i~V  338 (853)
                      +|-  || -.+.|.+||..-|.+  +-|=-+|.+
T Consensus       198 iIimSATld~~rfs~~f~~apvi~i~GR~fPVei  231 (845)
T COG1643         198 LIIMSATLDAERFSAYFGNAPVIEIEGRTYPVEI  231 (845)
T ss_pred             EEEEECCCCHHHHHHHCCCCCEEEECCCCCCEEE
T ss_conf             9997253588999976289987875588664478


No 386
>PRK10436 hypothetical protein; Provisional
Probab=96.93  E-value=0.00078  Score=50.12  Aligned_cols=100  Identities=25%  Similarity=0.355  Sum_probs=66.5

Q ss_pred             CCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCC-CHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCE
Q ss_conf             66512898726786168899999998723776530022-44774034532013047711203566774211322156410
Q gi|254780877|r  595 QRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRI-DMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQV  673 (853)
Q Consensus       595 ~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~-dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sV  673 (853)
                      .+|-|.+|++||||.|||.+--++-+.+-..+.+++++ |=-||.-+.-..-=+..-   .|.+-...|...+|+.| -|
T Consensus       212 ~~p~GliLvtGPTGSGKTTTLya~L~~l~~~~~~I~TiEDPVE~~l~gi~Q~~vn~~---~g~tfa~~lrs~LRqDP-DV  287 (461)
T PRK10436        212 QQPQGLVLVTGPTGSGKTVTLYSALQTLNTAQINICSVEDPVEIPLAGINQTQIHPR---AGLTFQRVLRALLRQDP-DV  287 (461)
T ss_pred             HCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCEECCC---CCHHHHHHHHHHHCCCC-CE
T ss_conf             389977999789999569999999974346771699960774355467545231322---13139999999874699-99


Q ss_pred             EEEHHHHHCCHHHHHHHHHHHHCCEEE
Q ss_conf             220214414989999999984045788
Q gi|254780877|r  674 VLFDEIEKAHSDVHNILLQVLDDGRLT  700 (853)
Q Consensus       674 il~DEiEKah~~v~~~llqild~G~lt  700 (853)
                      |++.||--  .+...+-++.--.|+|.
T Consensus       288 ImvGEIRD--~eTA~~Ai~AAlTGHLV  312 (461)
T PRK10436        288 IMVGEIRD--GETAEIAIKAAQTGHLV  312 (461)
T ss_pred             EEECCCCC--HHHHHHHHHHHHHCCEE
T ss_conf             98657788--99999999999719848


No 387
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB.  This alignment contains the C-terminal domain, which is the ATPase.
Probab=96.92  E-value=0.0012  Score=48.47  Aligned_cols=94  Identities=28%  Similarity=0.446  Sum_probs=57.6

Q ss_pred             EEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCC-CHHHHC--CCCCCCHHHCCCCHHCCCC---CCCCCCHHHHCCCCC
Q ss_conf             2898726786168899999998723776530022-447740--3453201304771120356---677421132215641
Q gi|254780877|r  599 GSFMFLGPTGVGKTELVKSLARLLFDDENSMIRI-DMSEYM--EKHSVSRLIGSPPGYVGYE---EGGALTEAVRRHPYQ  672 (853)
Q Consensus       599 ~~flf~GptGvGKTelak~la~~lf~~~~~lir~-dMsey~--e~~~vs~LiGappGYvG~~---~gg~Lte~vr~~P~s  672 (853)
                      +++|++||||.|||.+.++|..++-.++ .++.+ |-.|+.  .++.++-.. .++.+-|..   -.-.+-.++|.+| .
T Consensus        26 ~nIlIsG~tGSGKTTll~al~~~i~~~~-rivtiEd~~El~l~~~~~v~l~~-~~~~~~~~~~~~~~~li~~aLR~~p-d  102 (186)
T cd01130          26 KNILISGGTGSGKTTLLNALLAFIPPDE-RIITIEDTAELQLPHPNWVRLVT-RPGNVEGSGEVTMADLLRSALRMRP-D  102 (186)
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHCCCCC-CEEEECCCHHHCCCCCCEEEEEE-ECCCCCCCCEECHHHHHHHHCCCCC-C
T ss_conf             9899989999989999999996133456-45984153540477775688886-0464578650349999887366899-7


Q ss_pred             EEEEHHHHHCCHHHHHHHHHHHHCCE
Q ss_conf             02202144149899999999840457
Q gi|254780877|r  673 VVLFDEIEKAHSDVHNILLQVLDDGR  698 (853)
Q Consensus       673 Vil~DEiEKah~~v~~~llqild~G~  698 (853)
                      .|++-|+--  ++.+. +++.+..|+
T Consensus       103 ~iivGEiR~--~Ea~~-~l~a~~tGh  125 (186)
T cd01130         103 RIIVGEVRG--GEALD-LLQAMNTGH  125 (186)
T ss_pred             EEECCCCCC--HHHHH-HHHHHHCCC
T ss_conf             373175683--99999-999997489


No 388
>KOG0732 consensus
Probab=96.91  E-value=0.0057  Score=43.12  Aligned_cols=88  Identities=23%  Similarity=0.373  Sum_probs=56.2

Q ss_pred             HHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHH
Q ss_conf             57899999996336777866895288740777999999987348998444574378873135421745420245458999
Q gi|254780877|r  183 RDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSL  262 (853)
Q Consensus       183 Re~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i  262 (853)
                      |+.|..-.+..+||..   -++-|..|+|-+.+--.+-.         .|.+-.+.++++.+|++-... ++.++-+..+
T Consensus       579 ~~~e~~~~i~lic~~~---lli~~~~~~g~~~lg~aIlh---------~~~~~~v~s~~issll~d~~~-~~~~~~iv~i  645 (1080)
T KOG0732         579 RSFESNFAIRLICRPR---LLINGGKGSGQDYLGPAILH---------RLEGLPVQSLDISSLLSDEGT-EDLEEEIVHI  645 (1080)
T ss_pred             HHHHCCCCHHHHCCCH---HHCCCCCCCCCCCCCHHHHH---------HHHCCCHHHHHHHHHHHCCCC-CCHHHHHHHH
T ss_conf             7541110123432708---76079866565755089999---------885140577778898755665-2478999999


Q ss_pred             HHHHHHCCCCEEEEECCHHHHC
Q ss_conf             9998607997699963627730
Q gi|254780877|r  263 LCEIRSEDGEIILFIDELHVLV  284 (853)
Q Consensus       263 ~~~~~~~~~~~ilfide~h~~~  284 (853)
                      .-|... .++.|+||..+|-+.
T Consensus       646 ~~eaR~-~~psi~~ip~~d~w~  666 (1080)
T KOG0732         646 FMEARK-TTPSIVFIPNVDEWA  666 (1080)
T ss_pred             HHHHHC-CCCCEEECCCHHHHH
T ss_conf             998731-588334235325565


No 389
>PTZ00111 DNA replication licensing factor MCM4; Provisional
Probab=96.90  E-value=0.038  Score=36.39  Aligned_cols=182  Identities=18%  Similarity=0.226  Sum_probs=99.4

Q ss_pred             HHHHHHHHHHCCHHHHHHHHHHHHHHHHC-CCCCCCCCC-----------EEEEEECCCCHHHHHHHHHHHHHHCCCCCC
Q ss_conf             23554776745948999999999987410-123656651-----------289872678616889999999872377653
Q gi|254780877|r  561 RIETEISKSVIGQSAAVESVSNALRRFRA-GLQDPQRPM-----------GSFMFLGPTGVGKTELVKSLARLLFDDENS  628 (853)
Q Consensus       561 ~l~~~l~~~v~gq~~ai~~v~~~~~~~~~-gl~~~~~p~-----------~~flf~GptGvGKTelak~la~~lf~~~~~  628 (853)
                      .|...+.-.|+|.+..-+.+.-.+--... .......|-           -..|++|-+|++|+.|-+.+++.-   .+.
T Consensus       444 ~L~~SiAPSI~~~~dvKkgillqLFGg~~k~~~~~~~~~~~~~~~~~RgdIniLl~GDPgtaKSQlL~yv~~ia---PRg  520 (916)
T PTZ00111        444 ILLDSFAPSIKARNNVKIGLLCQLFSCNANSSDNNKSPDACYKVDNFRGIINVLLCGDPGTAKSQLLHYTHLLS---PRS  520 (916)
T ss_pred             HHHHHHCCHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHC---CCE
T ss_conf             99873086211522699999999848875456778776544444443454059995799601899999999728---742


Q ss_pred             CCCCCHHHHCC--CCCCCHHHCCCCHHCCCC--CCCCCC---HHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEEC
Q ss_conf             00224477403--453201304771120356--677421---13221564102202144149899999999840457887
Q gi|254780877|r  629 MIRIDMSEYME--KHSVSRLIGSPPGYVGYE--EGGALT---EAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTD  701 (853)
Q Consensus       629 lir~dMsey~e--~~~vs~LiGappGYvG~~--~gg~Lt---e~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd  701 (853)
                      +       |..  ..|...|..    ||-.+  +.|.++   .|+----..|...||++|...+-...+..+++-.++  
T Consensus       521 v-------ytsGkgsSavGLTA----~v~~~d~~tg~~~LEaGALVLaD~GvccIDEFDKM~~~~rs~lhEaMEQQtv--  587 (916)
T PTZ00111        521 I-------YTSGKSSSSVGLTA----SIKFNESDNGRAMIQPGAVVLANGGVCCIDELDKCHNESRLSLYEVMEQQTV--  587 (916)
T ss_pred             E-------EECCCCCCCCCCEE----EEEECCCCCCCEEEECCCEEECCCCEEEEEHHHCCCHHHHHHHHHHHHHHHH--
T ss_conf             6-------74598654226468----9983268878689854808972798799622203685678899998866312--


Q ss_pred             CCCCEEECCCCEEEECCCHHHHHHHCCH-HHH----HHHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHH
Q ss_conf             9997783033155954851268764032-679----9999999986288577266681586288998999
Q gi|254780877|r  702 SQGRTVDFRNTLIIMTSNLGAEYLIEDG-DSV----HDKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDM  766 (853)
Q Consensus       702 ~~G~~v~f~n~iii~TsN~G~~~~~~~~-~~~----~~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~  766 (853)
                            +-..+=|+.|-|.-...++..+ ...    ...+.+.  =.++|.+|.|+|-|+..-.-..++.
T Consensus       588 ------SIAKAGI~~tLnARtSvLAaANP~~gry~~~~~v~en--I~lpp~LLSRFDLIfl~lD~~de~~  649 (916)
T PTZ00111        588 ------TIAKAGIVATLKAETAILASCNPINSRYNKNKAVIEN--INISPSLFTRFDLIYLVLDHIDQDT  649 (916)
T ss_pred             ------HHHHCCEEEEECHHHHHHHHCCCCCCCCCCCCCHHHH--CCCCCHHHHHHHEEEEEECCCCHHH
T ss_conf             ------3532350454120345655328655657878676764--5799403312204677505786566


No 390
>PRK06696 uridine kinase; Validated
Probab=96.89  E-value=0.0026  Score=45.83  Aligned_cols=68  Identities=21%  Similarity=0.341  Sum_probs=49.4

Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHC
Q ss_conf             99999999998741012365665128987267861688999999987237765300224477403453201304
Q gi|254780877|r  575 AAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIG  648 (853)
Q Consensus       575 ~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiG  648 (853)
                      +-|+.+++.|..     ..|.+|+ ..-..||+|.|||.+|+.|++.|-......+++.|-.|-...+.-.-.|
T Consensus         9 ~~~~~~~~~i~~-----~~p~rpl-~VgIdG~~gSGKTTlA~~La~~L~~~G~~V~~v~~Ddf~~~~~~r~~~g   76 (227)
T PRK06696          9 QVVKEIANHILT-----LNLTRPL-RVAIDGITASGKTTFANELAEEIKKRGRPVIRASIDDFHNPKVIRYRRG   76 (227)
T ss_pred             HHHHHHHHHHHH-----CCCCCCE-EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECCCCCCCCHHHHHHHC
T ss_conf             899999999983-----5999868-9997789987879999999999974699489971544347377776516


No 391
>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]
Probab=96.86  E-value=0.048  Score=35.59  Aligned_cols=181  Identities=24%  Similarity=0.357  Sum_probs=99.8

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHHCCCC------------C------------------HHHCCCEEEEEEHHHHHCCCC
Q ss_conf             6689528874077799999998734899------------8------------------444574378873135421745
Q gi|254780877|r  201 NPVLIGDPGVGKTAIIEGLASRIINGDI------------P------------------ESLKGKRLMALDMGALIAGAK  250 (853)
Q Consensus       201 n~~lvGe~GvGKtaive~la~~i~~~~v------------p------------------~~l~~~~i~~ld~~~l~ag~~  250 (853)
                      ++++-|+.|+|||+++.+||...-...+            |                  -.-+-.+++.+-+++      
T Consensus        40 gvLI~G~kGtaKSt~~Rala~LLp~~~~V~gc~f~cdP~~P~~~c~~c~~k~~e~~~~~~~~r~v~~v~lPl~a------  113 (423)
T COG1239          40 GALIAGEKGTAKSTLARALADLLPEIEVVIGCPFNCDPDDPEEMCDECRAKGDELEWLPREKRKVPFVALPLGA------  113 (423)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHCCCCCEECCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCEECCEECCCCCC------
T ss_conf             26876688752779999999867963321688788998870555199986202324454221003122388763------


Q ss_pred             CCCHHHHHHHH------HHHH---------HHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCC---------
Q ss_conf             42024545899------9999---------86079976999636277302666554335888876531246---------
Q gi|254780877|r  251 FRGEFEERLKS------LLCE---------IRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARG---------  306 (853)
Q Consensus       251 ~rg~~e~r~~~------i~~~---------~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG---------  306 (853)
                          -|.|+-+      .+++         +..++ .=||||||+.-|=        --..|.|--.++.|         
T Consensus       114 ----teDrvvGslDi~ka~~~g~~af~PGlLa~An-RGIlYvDEvnlL~--------d~lvd~LLd~aaeG~n~vereGi  180 (423)
T COG1239         114 ----TEDRLVGSLDIEKALEEGPKAFQPGLLARAN-RGILYVDEVNLLD--------DHLVDALLDVAAEGVNDVEREGI  180 (423)
T ss_pred             ----CHHHHCCCCCHHHHHHCCCCCCCCCCHHHCC-CCEEEEECCCCCC--------HHHHHHHHHHHHHCCCEEEECCE
T ss_conf             ----0433004567999972683002775110035-8879872334351--------89999999999717740335750


Q ss_pred             ------CEEEEEEECHHHHHHHHHCCHHHHHCCC-EEECCCCC-HHHHHHHH-HHHHHHHHH----HCCCCC-CHHHHHH
Q ss_conf             ------6048997448999997300111320231-11115777-67899999-997898654----149610-1589999
Q gi|254780877|r  307 ------ELHCIGATTLDEYRKYIEKDPALARRFQ-SLLVGEPT-VTDTISIL-RGLKERYEQ----HHKVRI-SDSALVS  372 (853)
Q Consensus       307 ------~l~~IgaTT~~Eyrk~iEkD~Al~RRFq-~i~V~Eps-~~~t~~iL-~gl~~~yE~----~H~V~i-~d~al~~  372 (853)
                            .+-+||++-|+|=.    ==+-|--||- .|.+..|+ .++-+.|. |.+.  |+.    |+...- ...++.+
T Consensus       181 si~hpa~fvligTmNPEeGe----LrpqLlDRfg~~v~~~~~~~~~~rv~Ii~r~~~--f~~~Pe~f~~~~~~~~~~lR~  254 (423)
T COG1239         181 SIRHPARFLLIGTMNPEEGE----LRPQLLDRFGLEVDTHYPLDLEERVEIIRRRLA--FEAVPEAFLEKYADAQRALRA  254 (423)
T ss_pred             EECCCCCEEEEEECCCCCCC----CCHHHHHHHCCEEECCCCCCHHHHHHHHHHHHH--HHCCCHHHHHHHHHHHHHHHH
T ss_conf             31367617999644854466----324667541115623478878888999999887--500829999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHC
Q ss_conf             9863332024576747789999999998754102
Q gi|254780877|r  373 AAVLSNRYITDRFLPDKAIDLMDEASARVRMQID  406 (853)
Q Consensus       373 av~ls~rYi~~r~lPDKAIDllDeA~A~~~i~~~  406 (853)
                      -.-.+..-++...++|-+...+=++|++..+..+
T Consensus       255 ~ii~ar~~l~~V~l~~~~~~~ia~~~~~~~v~g~  288 (423)
T COG1239         255 RIIAARSLLSEVELDDDAETKIAELCARLAVDGH  288 (423)
T ss_pred             HHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCC
T ss_conf             9999984466646767799999999998565787


No 392
>pfam03969 AFG1_ATPase AFG1-like ATPase. This family of proteins contains a P-loop motif and are predicted to be ATPases.
Probab=96.85  E-value=0.0087  Score=41.62  Aligned_cols=95  Identities=22%  Similarity=0.360  Sum_probs=54.8

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEE----EEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEE
Q ss_conf             6689528874077799999998734899844457437----887313542174542024545899999986079976999
Q gi|254780877|r  201 NPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRL----MALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILF  276 (853)
Q Consensus       201 n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i----~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilf  276 (853)
                      ..-|-|+.|.|||-|..-+-..+--.      +.+|+    |..++-+-+.  +.+|+ ..-+..+.+++.+.  .-+||
T Consensus        63 GlYl~G~VGrGKTmLMDlFy~~lp~~------~K~R~HFh~FM~~vH~~l~--~~~~~-~dpl~~va~~l~~~--~~lLC  131 (361)
T pfam03969        63 GLYLWGGVGRGKTHLMDSFFESLPGE------RKRRTHFHRFMFRVHDELT--TLQGG-DDPLPIAADRFANE--ARLLC  131 (361)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHCCCC------CCCCCCHHHHHHHHHHHHH--HHHCC-CCCHHHHHHHHHHC--CCEEE
T ss_conf             68988998886999999999867753------4445667899999999999--97667-76389999999725--87799


Q ss_pred             ECCHHHH-CCCCCCCCCCCHHHHHHHHHCCCCEEEEE
Q ss_conf             6362773-02666554335888876531246604899
Q gi|254780877|r  277 IDELHVL-VGAGKTDGAMDASNLLKPSLARGELHCIG  312 (853)
Q Consensus       277 ide~h~~-~gaG~~~g~~Daan~LKP~LarG~l~~Ig  312 (853)
                      +||+|.- |+     -+|=.+.+++-...+|- .+|.
T Consensus       132 fDEFqV~DIa-----DAMIL~rLf~~Lf~~gv-vlV~  162 (361)
T pfam03969       132 FDEFEVDDIG-----DAMILGRLFEALFARGV-SLVA  162 (361)
T ss_pred             EEEEEECCHH-----HHHHHHHHHHHHHHCCC-EEEE
T ss_conf             7635616788-----89999999999997797-8998


No 393
>PRK13946 shikimate kinase; Provisional
Probab=96.84  E-value=0.034  Score=36.77  Aligned_cols=145  Identities=18%  Similarity=0.277  Sum_probs=67.7

Q ss_pred             HHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCC--CCCHHHCCCEEEEEEHHHHHCCCCCCCH--HHHHHHHHHHHH
Q ss_conf             996336777866895288740777999999987348--9984445743788731354217454202--454589999998
Q gi|254780877|r  191 IQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIING--DIPESLKGKRLMALDMGALIAGAKFRGE--FEERLKSLLCEI  266 (853)
Q Consensus       191 ~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~--~vp~~l~~~~i~~ld~~~l~ag~~~rg~--~e~r~~~i~~~~  266 (853)
                      -+|-.+-.|+|.+|||-+|+|||+|-.-||+++--.  |......  +-+...+..+.+   ..||  |-+.=..++.++
T Consensus        12 ~~~~~~l~kknIvLIG~mGsGKStvGk~LA~~L~~~fiD~D~~IE--~~~g~sI~eIF~---~~GE~~FR~~E~~~l~~l   86 (195)
T PRK13946         12 EQIRAALGKRTVVLVGLMGAGKSTVGRRLATMLGLPFLDADTEIE--RAARMTIPEIFA---TYGEPEFRDLERRVIARL   86 (195)
T ss_pred             HHHHHHHCCCCEEEECCCCCCHHHHHHHHHHHHCCCEEECHHHHH--HHHCCCHHHHHH---HHCHHHHHHHHHHHHHHH
T ss_conf             999998589958998999998899999999997979898859999--980998999999---869799999899999998


Q ss_pred             HHCCCCEEEEECCHHHHCCCCCCCCCCCHHH--HHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHH
Q ss_conf             6079976999636277302666554335888--87653124660489974489999973001113202311111577767
Q gi|254780877|r  267 RSEDGEIILFIDELHVLVGAGKTDGAMDASN--LLKPSLARGELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVT  344 (853)
Q Consensus       267 ~~~~~~~ilfide~h~~~gaG~~~g~~Daan--~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~  344 (853)
                      ...+ +.|         |..|++. -++-.|  +||   ..|-+ +-=-+.++.-.+-+..++  .|-    .+...+..
T Consensus        87 ~~~~-~~V---------IstGGG~-v~~~~n~~~L~---~~g~v-I~L~~~~e~l~~Rl~~~~--~RP----Ll~~~~~~  145 (195)
T PRK13946         87 LKGG-PLV---------LATGGGA-FMNEETRAAIR---EKGIS-VWLKADLDVLWERVSRRD--TRP----LLRTADPK  145 (195)
T ss_pred             HCCC-CEE---------EECCCCC-CCCHHHHHHHH---HCCEE-EEEECCHHHHHHHHCCCC--CCC----CCCCCCHH
T ss_conf             6489-879---------9758742-36899999999---57968-998499999999972899--999----89998879


Q ss_pred             HHH-HHHHHHHHHHHHHC
Q ss_conf             899-99999789865414
Q gi|254780877|r  345 DTI-SILRGLKERYEQHH  361 (853)
Q Consensus       345 ~t~-~iL~gl~~~yE~~H  361 (853)
                      +.+ .++..-.+.|++.|
T Consensus       146 ~~l~~l~~~R~~lY~~Ad  163 (195)
T PRK13946        146 ETLARLMEERYPVYAQAD  163 (195)
T ss_pred             HHHHHHHHHHHHHHHHCC
T ss_conf             999999999999999789


No 394
>KOG1514 consensus
Probab=96.83  E-value=0.0097  Score=41.22  Aligned_cols=216  Identities=19%  Similarity=0.290  Sum_probs=109.8

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCE-EEEEECCCCHHHHHHHHHHHHHHCCC-----CC--CCCCCCHHHHC
Q ss_conf             767459489999999999874101236566512-89872678616889999999872377-----65--30022447740
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRFRAGLQDPQRPMG-SFMFLGPTGVGKTELVKSLARLLFDD-----EN--SMIRIDMSEYM  638 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~-~flf~GptGvGKTelak~la~~lf~~-----~~--~lir~dMsey~  638 (853)
                      .+.+-+-+.--..|..-++-.   +.+  +-.| .|.-.|-+|+|||-+...+-+.|-..     ..  .++-+|--.+.
T Consensus       395 p~sLpcRe~E~~~I~~f~~~~---i~~--~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~  469 (767)
T KOG1514         395 PESLPCRENEFSEIEDFLRSF---ISD--QGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLA  469 (767)
T ss_pred             CCCCCCHHHHHHHHHHHHHHH---CCC--CCCCEEEEEECCCCCCCEEHHHHHHHHHHHHHHHCCCCCCCEEEECCEEEC
T ss_conf             421441468899999999976---277--777407998469998832129999999998775057898607987144615


Q ss_pred             CCCCCCHHH-CCCCH-HCCCCCCCCCCHH-----HHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCC
Q ss_conf             345320130-47711-2035667742113-----2215641022021441498999999998404578879997783033
Q gi|254780877|r  639 EKHSVSRLI-GSPPG-YVGYEEGGALTEA-----VRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRN  711 (853)
Q Consensus       639 e~~~vs~Li-GappG-YvG~~~gg~Lte~-----vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n  711 (853)
                      .++.+.--| -+-+| -++.+.+-.+.+.     --+++-+|||.||.+---..=+++|+.+||=-.+..++        
T Consensus       470 ~~~~~Y~~I~~~lsg~~~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sK--------  541 (767)
T KOG1514         470 SPREIYEKIWEALSGERVTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSK--------  541 (767)
T ss_pred             CHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCCCCCCCEEEEECCHHHHHCCCHHHHHHHHCCCCCCCCC--------
T ss_conf             889999999997555743077889999865416787878779996357877352098897774077678986--------


Q ss_pred             CEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCC-CEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEE
Q ss_conf             155954851268764032679999999998628857726668-1586288998999999999999999999857989999
Q gi|254780877|r  712 TLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLD-EIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDF  790 (853)
Q Consensus       712 ~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid-~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~  790 (853)
                      -+||.-+|-     +           +...+.|.+--=.|++ --+.|.|++...+..|+...|..+          ..|
T Consensus       542 Lvvi~IaNT-----m-----------dlPEr~l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL~~~----------~~f  595 (767)
T KOG1514         542 LVVIAIANT-----M-----------DLPERLLMNRVSSRLGLTRICFQPYTHEQLQEIISARLKGL----------DAF  595 (767)
T ss_pred             EEEEEECCC-----C-----------CCHHHHHCCCHHHHCCCEEEECCCCCHHHHHHHHHHHCCCH----------HHC
T ss_conf             699995165-----6-----------47798854311233065055137788999999999860315----------431


Q ss_pred             CHHHHHHHHHCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             8899999997089822062157999998733
Q gi|254780877|r  791 DDQVIDWLSCRGYDPSYGARPLKRVIQRYIQ  821 (853)
Q Consensus       791 ~~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~  821 (853)
                      +..|+++++++--...--||--..+..+-++
T Consensus       596 ~~~aielvarkVAavSGDaRraldic~RA~E  626 (767)
T KOG1514         596 ENKAIELVARKVAAVSGDARRALDICRRAAE  626 (767)
T ss_pred             CHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
T ss_conf             4248999998877504227888899899999


No 395
>TIGR01818 ntrC nitrogen regulation protein NR(I); InterPro: IPR010114   This entry represents Nitrogen regulatory protein C (NtrC), which is a bacterial enhancer-binding protein that activates the transcription of genes encoding enzymes required for nitrogen metabolism. It is phosphorylated by NtrB and interacts with sigma-54. One of the best studied examples is its activation of the gene glnA, which encodes the enzyme glutamine synthetase.. NtrC is composed of three domains , . The 124 residue N-terminal domain is homologous to receiver domains of other response regulator proteins in two-component signal transduction systems , . The 240 residue central domain of NtrC is homologous to a domain found in all activators of the sigma-54 RNA polymerase holoenzyme , . The C-terminal domain has been indicated to contain the determinants necessary for both DNA-binding and dimerization of full-length NtrC.; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0009399 nitrogen fixation, 0050906 detection of stimulus during sensory perception.
Probab=96.79  E-value=0.045  Score=35.78  Aligned_cols=203  Identities=20%  Similarity=0.373  Sum_probs=126.9

Q ss_pred             CCCCCCHHHHHHHHHHHHCCCCCC--CEEEECCCCCCHHHHHHHHHHHHHC----------CCCCHHHCCCEEEEEEHHH
Q ss_conf             533333578999999963367778--6689528874077799999998734----------8998444574378873135
Q gi|254780877|r  177 LDPVIGRDDEMRRAIQVLSRRTKN--NPVLIGDPGVGKTAIIEGLASRIIN----------GDIPESLKGKRLMALDMGA  244 (853)
Q Consensus       177 LDPVIGRe~EI~~~~~iL~r~~k~--n~~lvGe~GvGKtaive~la~~i~~----------~~vp~~l~~~~i~~ld~~~  244 (853)
                      --++||+-.=.+.+.++++|=.++  ++++-||.|.||==++..|-..=-.          .-+|..|-.-.+|.=.-|+
T Consensus       134 ~~~liG~aPAMQevfR~igRL~~~~l~VlI~GESGTGKELVA~ALH~~s~R~~~PFiAlNmAAIP~~L~ESELFGHEkGA  213 (471)
T TIGR01818       134 SAELIGEAPAMQEVFRAIGRLSRSDLSVLINGESGTGKELVARALHRHSPRARGPFIALNMAAIPKDLIESELFGHEKGA  213 (471)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHCCCCCCCCCCEEECHHHCCHHHHHHHHCCCCCCC
T ss_conf             62123688516899999997516960588855757758999998401375557773273023222466554321456530


Q ss_pred             HHC-CCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHH-------------HCCCCEEE
Q ss_conf             421-7454202454589999998607997699963627730266655433588887653-------------12466048
Q gi|254780877|r  245 LIA-GAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPS-------------LARGELHC  310 (853)
Q Consensus       245 l~a-g~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~-------------LarG~l~~  310 (853)
                      +-. .+.-.|-||+           ++|.. ||.|||==+        .+|+=-=|-=.             .-|-+.|+
T Consensus       214 FTGA~~~~~GRFEQ-----------A~GGT-LFLDEIGDM--------Pl~~QTRLLRVL~~G~f~rVGG~~p~k~DVRi  273 (471)
T TIGR01818       214 FTGANTRRQGRFEQ-----------ADGGT-LFLDEIGDM--------PLDLQTRLLRVLADGEFYRVGGRTPIKVDVRI  273 (471)
T ss_pred             CCCCCCCCCCCEEE-----------CCCCC-EECCCCCCC--------CHHHHHHHHHHHCCCCEEEECCCEEEEEEEEE
T ss_conf             00102556777253-----------48882-101021678--------77687779886407865772682024550466


Q ss_pred             EEEECHHHHHHHHHCCH---HHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHH-CCCCCC
Q ss_conf             99744899999730011---13202311111577767899999997898654149610158999998633320-245767
Q gi|254780877|r  311 IGATTLDEYRKYIEKDP---ALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRY-ITDRFL  386 (853)
Q Consensus       311 IgaTT~~Eyrk~iEkD~---Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rY-i~~r~l  386 (853)
                      |+||- ..-++.|+.=.   -|==|..+|.|.=|..-|=.+=+..+...|            |..|   ++.- ++-|.|
T Consensus       274 ~AATh-q~Le~lv~~G~FReDLfhRL~Vi~i~lPpLrER~eDi~~L~rhF------------L~~a---~~~l~~~~k~L  337 (471)
T TIGR01818       274 VAATH-QDLEALVRQGKFREDLFHRLNVIRIHLPPLRERREDIPRLARHF------------LALA---AKELDVEPKLL  337 (471)
T ss_pred             EECCC-HHHHHHHHCCCCHHHHHHHHCEEEECCCCCCCHHHHHHHHHHHH------------HHHH---HHHCCCCCCCC
T ss_conf             73366-56899965588135555512334621687212266899999999------------9998---87428651134


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Q ss_conf             47789999999998754102221457887999997445
Q gi|254780877|r  387 PDKAIDLMDEASARVRMQIDTKPEVLDELDRRIICLKI  424 (853)
Q Consensus       387 PDKAIDllDeA~A~~~i~~~~~P~~l~~l~r~i~~l~~  424 (853)
                      -..+++.         +++..+|-.+.++|+-.+.|..
T Consensus       338 ~~~~~~~---------L~~~~WPGNVR~LEN~cR~l~~  366 (471)
T TIGR01818       338 SPEALEA---------LKRYDWPGNVRELENVCRRLTV  366 (471)
T ss_pred             CHHHHHH---------HHHCCCCCCHHHHHHHHHHHHH
T ss_conf             8899999---------9725889852457789999987


No 396
>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion.  Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins.  Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=96.78  E-value=0.0053  Score=43.34  Aligned_cols=20  Identities=30%  Similarity=0.406  Sum_probs=16.4

Q ss_pred             EEEEECCCCHHHHHHHHHHH
Q ss_conf             89872678616889999999
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLA  619 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la  619 (853)
                      ...++||+|.|||.|.+.+-
T Consensus        23 ~~~iiG~nGsGKSTLl~~~~   42 (176)
T cd03238          23 LVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             EEEEECCCCCCHHHHHHHHH
T ss_conf             99999999998999999888


No 397
>PRK06921 hypothetical protein; Provisional
Probab=96.76  E-value=0.007  Score=42.39  Aligned_cols=72  Identities=25%  Similarity=0.513  Sum_probs=47.7

Q ss_pred             CCCCCEEEECCCCCCHHHHHHHHHHHHHCC-CCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEE
Q ss_conf             777866895288740777999999987348-9984445743788731354217454202454589999998607997699
Q gi|254780877|r  197 RTKNNPVLIGDPGVGKTAIIEGLASRIING-DIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIIL  275 (853)
Q Consensus       197 ~~k~n~~lvGe~GvGKtaive~la~~i~~~-~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~il  275 (853)
                      .++||.++.|+||+|||-+.-.+|..+.+. .+       .|+-.....++..-  +..|+ .....++.+++.+   +|
T Consensus       114 ~~~~~l~f~G~~G~GKThLa~aIa~~Ll~~~~~-------~Vly~~~~~~~~~l--k~~~~-~~~~~l~~~~~~d---lL  180 (265)
T PRK06921        114 CRKNSIALLGQPGSGKTHLLTAAANELMRKKGV-------PVLYFPFVEGFGDL--KDDFD-LLEAKLNRMKKVE---VL  180 (265)
T ss_pred             CCCCCEEEECCCCCCHHHHHHHHHHHHHHHCCC-------EEEEEEHHHHHHHH--HHHHH-HHHHHHHHHHCCC---EE
T ss_conf             776627997289898899999999999996297-------19998879999999--98888-8999999863299---99


Q ss_pred             EECCHH
Q ss_conf             963627
Q gi|254780877|r  276 FIDELH  281 (853)
Q Consensus       276 fide~h  281 (853)
                      +||++-
T Consensus       181 IIDDLf  186 (265)
T PRK06921        181 FIDDLF  186 (265)
T ss_pred             EEECCC
T ss_conf             982212


No 398
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=96.75  E-value=0.0028  Score=45.64  Aligned_cols=182  Identities=19%  Similarity=0.357  Sum_probs=111.1

Q ss_pred             HHHHHHHHHHHCCC--CCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCH-------
Q ss_conf             78999999963367--778668952887407779999999873489984445743788731354217454202-------
Q gi|254780877|r  184 DDEMRRAIQVLSRR--TKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGE-------  254 (853)
Q Consensus       184 e~EI~~~~~iL~r~--~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~-------  254 (853)
                      -.|++|+   |..-  .-+-++|=||||+||+++.=-+|..+.+..       .+++.+.---=+.--+.|.+       
T Consensus        68 i~ElDRV---LGGGiVpGSvvLlgGePGIGKSTLLLQia~~la~~~-------~~vLYvSGEES~~QIk~RA~RLg~~~~  137 (372)
T cd01121          68 IEELDRV---LGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG-------GKVLYVSGEESPEQIKLRADRLGISTE  137 (372)
T ss_pred             CHHHHHH---HCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCC-------CCEEEEECHHHHHHHHHHHHHHCCCCC
T ss_conf             3666540---057730671799825998868899999999998639-------938998245678999989998587887


Q ss_pred             -----HHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCC--CCCCCCC-----HHHHHHHHHCCCC-EEEEEEECHHHHHH
Q ss_conf             -----454589999998607997699963627730266--6554335-----8888765312466-04899744899999
Q gi|254780877|r  255 -----FEERLKSLLCEIRSEDGEIILFIDELHVLVGAG--KTDGAMD-----ASNLLKPSLARGE-LHCIGATTLDEYRK  321 (853)
Q Consensus       255 -----~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG--~~~g~~D-----aan~LKP~LarG~-l~~IgaTT~~Eyrk  321 (853)
                           -|-.+..|+..+...+ +-+|.||-|+|+....  ++.|++.     ++.++.=+=.+|- +=+||         
T Consensus       138 ~l~l~set~le~Il~~i~~~k-P~~lIIDSIQT~~~~~~~s~pGsvsQVReca~~L~~~AK~~~i~~~lVG---------  207 (372)
T cd01121         138 NLYLLAETNLEDILASIEELK-PDLVIIDSIQTVYSSELTSAPGSVSQVRECTAELMRFAKERNIPIFIVG---------  207 (372)
T ss_pred             CCEEEECCCHHHHHHHHHHHC-CCEEEEECHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEEE---------
T ss_conf             727884356999999999719-9889995622020377677998789999999999999986197399998---------


Q ss_pred             HHHCCHH------HHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHHHCCCCC
Q ss_conf             7300111------320231111157776789999999789865414961---015899999863332024576
Q gi|254780877|r  322 YIEKDPA------LARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVR---ISDSALVSAAVLSNRYITDRF  385 (853)
Q Consensus       322 ~iEkD~A------l~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~---i~d~al~~av~ls~rYi~~r~  385 (853)
                      |+.||+.      |+---..|.-=|-+....+.|||..|-||..-+.|-   .++.-|...-+=|.-|+.+|.
T Consensus       208 HVTK~G~iAGPkvLEHmVDtVl~fEgd~~~~~R~LR~~KNRFG~t~EiGvFeM~~~GL~~V~nPS~~Fl~~~~  280 (372)
T cd01121         208 HVTKEGSIAGPKVLEHMVDTVLYFEGDRHSEYRILRSVKNRFGSTNELGVFEMRENGLREVSNPSELFLSERE  280 (372)
T ss_pred             EECCCCCCCCCHHHEEEEEEEEEECCCCCCCEEEEEEECCCCCCCCEEEEEEECCCCCEECCCHHHHHHHCCC
T ss_conf             7626886377403100213688751577655035674115677754058887316870563685698862698


No 399
>COG2766 PrkA Putative Ser protein kinase [Signal transduction mechanisms]
Probab=96.74  E-value=0.0089  Score=41.54  Aligned_cols=67  Identities=18%  Similarity=0.231  Sum_probs=36.2

Q ss_pred             EEEEECHHHHHHHHH--CCHHHHHCCCEEECCCC-CHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             899744899999730--01113202311111577-767899999997898654149610158999998633
Q gi|254780877|r  310 CIGATTLDEYRKYIE--KDPALARRFQSLLVGEP-TVTDTISILRGLKERYEQHHKVRISDSALVSAAVLS  377 (853)
Q Consensus       310 ~IgaTT~~Eyrk~iE--kD~Al~RRFq~i~V~Ep-s~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls  377 (853)
                      +++-|-..||+.+.-  +..||.+|--+|.|.=- .+.+-..|+..+...-+ .-.+.+....|+.|...|
T Consensus       300 IvahsNesE~q~fk~n~~nEAf~dRi~~v~vPY~L~vseE~kIYEKll~~s~-ls~~h~APhTL~~aa~Fs  369 (649)
T COG2766         300 IVAHSNESEWQTFKNNKNNEAFLDRIYKVKVPYCLRVSEEAKIYEKLLQNSE-LSDAHCAPHTLEVAALFS  369 (649)
T ss_pred             EEEECCCHHHHHHHCCCCHHHHHHHEEEEECCEEEEECHHHHHHHHHHCCCC-CCCCCCCCHHHHHHHHHH
T ss_conf             7841672888875038734888741046545501232188899999825466-665665805899999888


No 400
>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain.  They export degradative enzymes by using a type I protein secretion system and  lack an N-terminal signal peptide, but contain a C-terminal secretion signal.  The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP).  For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli.  The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior.  HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels.  The spectrum of transport substra
Probab=96.72  E-value=0.0034  Score=44.95  Aligned_cols=25  Identities=36%  Similarity=0.656  Sum_probs=21.1

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCC
Q ss_conf             8987267861688999999987237
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFD  624 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~  624 (853)
                      ..-.+||+|.|||.|++.|+..+--
T Consensus        30 ~vaIvG~sGsGKSTLl~ll~gl~~p   54 (173)
T cd03246          30 SLAIIGPSGSGKSTLARLILGLLRP   54 (173)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCCCC
T ss_conf             9999999998099999999666667


No 401
>PRK10867 signal recognition particle protein; Provisional
Probab=96.71  E-value=0.068  Score=34.32  Aligned_cols=27  Identities=22%  Similarity=0.286  Sum_probs=21.7

Q ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHHC
Q ss_conf             786689528874077799999998734
Q gi|254780877|r  199 KNNPVLIGDPGVGKTAIIEGLASRIIN  225 (853)
Q Consensus       199 k~n~~lvGe~GvGKtaive~la~~i~~  225 (853)
                      .+-.++||--|+|||+-+--||..+-+
T Consensus       100 p~VIm~vGLqGsGKTTT~aKLA~~lk~  126 (453)
T PRK10867        100 PAVVLMAGLQGAGKTTSVGKLGKFLRE  126 (453)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             969999746888518589999999997


No 402
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.70  E-value=0.0011  Score=48.79  Aligned_cols=97  Identities=26%  Similarity=0.355  Sum_probs=58.9

Q ss_pred             CCEEEEEECCCCHHHHHHHHHHH-H-HH-CCC-CCCCCCCCH---HHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHC-
Q ss_conf             51289872678616889999999-8-72-377-653002244---7740345320130477112035667742113221-
Q gi|254780877|r  597 PMGSFMFLGPTGVGKTELVKSLA-R-LL-FDD-ENSMIRIDM---SEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRR-  668 (853)
Q Consensus       597 p~~~flf~GptGvGKTelak~la-~-~l-f~~-~~~lir~dM---sey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~-  668 (853)
                      -=|+|-|+||||||||.+.-.|| . .+ ||. .-+||+.|-   +-+-.-.+..+++|-| -||-++. ..|-..+.+ 
T Consensus       347 ~gGv~AlvGpTGvGKTTT~aKlAa~~~~~~g~~~valit~DtyRiga~eQL~~y~~ilgvp-v~~~~~~-~~l~~~l~~l  424 (557)
T PRK12727        347 RGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIA-VHEADSA-ESLLDLLERL  424 (557)
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCCCCHHHHHHHHHHHHHHCCE-EEEECCH-HHHHHHHHHH
T ss_conf             0764787437776731179999999999739981899972664087999999999983975-7982899-9999999983


Q ss_pred             CCCCEEEEHHHHHCCHHH-HHHHHHHHH
Q ss_conf             564102202144149899-999999840
Q gi|254780877|r  669 HPYQVVLFDEIEKAHSDV-HNILLQVLD  695 (853)
Q Consensus       669 ~P~sVil~DEiEKah~~v-~~~llqild  695 (853)
                      .-+.+||.|-.--.|.|. +.--|+.|+
T Consensus       425 ~~~~lvliDTaG~~~rd~~~~~~~~~l~  452 (557)
T PRK12727        425 RDYKLVLIDTAGMGQRDRALAAQLNWLR  452 (557)
T ss_pred             CCCCEEEEECCCCCCCCHHHHHHHHHHH
T ss_conf             6999899949998846999999999875


No 403
>PRK03846 adenylylsulfate kinase; Provisional
Probab=96.70  E-value=0.0024  Score=46.18  Aligned_cols=52  Identities=19%  Similarity=0.280  Sum_probs=41.9

Q ss_pred             CCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHH
Q ss_conf             66512898726786168899999998723776530022447740345320130477112
Q gi|254780877|r  595 QRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGY  653 (853)
Q Consensus       595 ~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGY  653 (853)
                      ++|. ++.|+|.||.|||.+|+.|.+.|+....+.+.+|.-++-+      .++...||
T Consensus        22 ~kg~-viWlTGLSGSGKTTlA~~L~~~L~~~~~~~~~LDGD~lR~------~l~~dlgf   73 (198)
T PRK03846         22 HKGV-VLWFTGLSGSGKSTVAGALEEALHELGVHTYLLDGDNVRH------GLCSDLGF   73 (198)
T ss_pred             CCCE-EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECHHHHHH------HHCCCCCC
T ss_conf             9986-9998799999889999999999997599759977799987------43667898


No 404
>KOG1969 consensus
Probab=96.69  E-value=0.045  Score=35.81  Aligned_cols=168  Identities=24%  Similarity=0.367  Sum_probs=89.9

Q ss_pred             CCCCCCCC-CEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHH-
Q ss_conf             12365665-1289872678616889999999872377653002244774034532013047711203566774211322-
Q gi|254780877|r  590 GLQDPQRP-MGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVR-  667 (853)
Q Consensus       590 gl~~~~~p-~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr-  667 (853)
                      ++.+.+|| --.+|++||+|.|||.||..+|+.-.   =+.+-+|-|+=-..+.+-.-|-+.          .-++.+- 
T Consensus       317 ~~~~s~RP~kKilLL~GppGlGKTTLAHViAkqaG---YsVvEINASDeRt~~~v~~kI~~a----------vq~~s~l~  383 (877)
T KOG1969         317 ELDPSKRPPKKILLLCGPPGLGKTTLAHVIAKQAG---YSVVEINASDERTAPMVKEKIENA----------VQNHSVLD  383 (877)
T ss_pred             CCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHCC---CEEEEECCCCCCCHHHHHHHHHHH----------HHHCCCCC
T ss_conf             46866798400687536887872479999998628---548873255543478899999998----------86411225


Q ss_pred             --CCCCCEEEEHHHHHCCHHHHHHHHHHHH-CCEEEC-CCCCEE----E-----CCCCEEEECCC-HHHHHHHCCHHHHH
Q ss_conf             --1564102202144149899999999840-457887-999778----3-----03315595485-12687640326799
Q gi|254780877|r  668 --RHPYQVVLFDEIEKAHSDVHNILLQVLD-DGRLTD-SQGRTV----D-----FRNTLIIMTSN-LGAEYLIEDGDSVH  733 (853)
Q Consensus       668 --~~P~sVil~DEiEKah~~v~~~llqild-~G~ltd-~~G~~v----~-----f~n~iii~TsN-~G~~~~~~~~~~~~  733 (853)
                        .+|.|+| .|||+-|.+-..+++|.++. ++..+- ..+...    +     ++-- |||-.| +=+           
T Consensus       384 adsrP~CLV-iDEIDGa~~~~Vdvilslv~a~~k~~~Gkq~~~~~~rkkkr~~~L~RP-IICICNdLYa-----------  450 (877)
T KOG1969         384 ADSRPVCLV-IDEIDGAPRAAVDVILSLVKATNKQATGKQAKKDKKRKKKRSKLLTRP-IICICNDLYA-----------  450 (877)
T ss_pred             CCCCCCEEE-EECCCCCCHHHHHHHHHHHHHHCCHHHCCCCCCHHHHHHHCCCCCCCC-EEEEECCCCC-----------
T ss_conf             688863599-842468728999999999974161421686632034555304654587-7898647555-----------


Q ss_pred             HHHHHHHHHHCCHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCC
Q ss_conf             999999986288577266681586288998999999999999999999857989999889999999708
Q gi|254780877|r  734 DKVMGIVRSAFKPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRG  802 (853)
Q Consensus       734 ~~~~~~l~~~f~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~  802 (853)
                          .+|+. ++|     +-.|+.|.|-+...+.       ++|+.-....  .+.++..++..|++.+
T Consensus       451 ----PaLR~-Lr~-----~A~ii~f~~p~~s~Lv-------~RL~~IC~rE--~mr~d~~aL~~L~el~  500 (877)
T KOG1969         451 ----PALRP-LRP-----FAEIIAFVPPSQSRLV-------ERLNEICHRE--NMRADSKALNALCELT  500 (877)
T ss_pred             ----HHHHH-CCC-----CEEEEEECCCCHHHHH-------HHHHHHHHHH--CCCCCHHHHHHHHHHH
T ss_conf             ----33331-021-----0489995699766899-------9999997641--5778878999999986


No 405
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=96.69  E-value=0.042  Score=36.05  Aligned_cols=99  Identities=29%  Similarity=0.448  Sum_probs=76.5

Q ss_pred             HHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHH
Q ss_conf             57899999996336777866895288740777999999987348998444574378873135421745420245458999
Q gi|254780877|r  183 RDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSL  262 (853)
Q Consensus       183 Re~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i  262 (853)
                      |+.=++.+.+-+...--||++|.|--|.||+++|..+-......       +-|+++++-.-+.+           +-.|
T Consensus        69 k~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~-------glrLVEV~k~dl~~-----------Lp~l  130 (287)
T COG2607          69 KEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADE-------GLRLVEVDKEDLAT-----------LPDL  130 (287)
T ss_pred             HHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHC-------CCEEEEECHHHHHH-----------HHHH
T ss_conf             99999989999728865236776377777479999999998741-------77079976888865-----------7999


Q ss_pred             HHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCC
Q ss_conf             99986079976999636277302666554335888876531246
Q gi|254780877|r  263 LCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARG  306 (853)
Q Consensus       263 ~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG  306 (853)
                      ++.++..+.+.|||+|++       +-+.+-++--.||++|.-|
T Consensus       131 ~~~Lr~~~~kFIlFcDDL-------SFe~gd~~yK~LKs~LeG~  167 (287)
T COG2607         131 VELLRARPEKFILFCDDL-------SFEEGDDAYKALKSALEGG  167 (287)
T ss_pred             HHHHHCCCCEEEEEECCC-------CCCCCCHHHHHHHHHHCCC
T ss_conf             999961886089995677-------7777813899999985388


No 406
>KOG2227 consensus
Probab=96.68  E-value=0.011  Score=40.87  Aligned_cols=165  Identities=24%  Similarity=0.284  Sum_probs=89.2

Q ss_pred             CCCCCCCCHHHHHHHHHHH----HCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHH-HCCC
Q ss_conf             9853333357899999996----3367778668952887407779999999873489984445743788731354-2174
Q gi|254780877|r  175 GKLDPVIGRDDEMRRAIQV----LSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGAL-IAGA  249 (853)
Q Consensus       175 GkLDPVIGRe~EI~~~~~i----L~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l-~ag~  249 (853)
                      +.=+-+.||+.|.+.+-.-    |+-.+-..--+-|.||.|||+...-+-.....     ..+.-.++.++-.+| -+++
T Consensus       147 ~~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~-----~~~~~~~v~inc~sl~~~~a  221 (529)
T KOG2227         147 APPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSK-----SSKSPVTVYINCTSLTEASA  221 (529)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHHHHH-----HCCCCEEEEEEECCCCCHHH
T ss_conf             7987765258889999999985431266764575179986548899999874034-----31665169985123542588


Q ss_pred             CC-------------CCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEE-EEC
Q ss_conf             54-------------2024545899999986079976999636277302666554335888876531246604899-744
Q gi|254780877|r  250 KF-------------RGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIG-ATT  315 (853)
Q Consensus       250 ~~-------------rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~Ig-aTT  315 (853)
                      .|             +|.+-+-+..+-.....+...++++.||+..++-  ++.+.+-..- .-|.|-...+-.|| |-+
T Consensus       222 iF~kI~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~t--r~~~vLy~lF-ewp~lp~sr~iLiGiANs  298 (529)
T KOG2227         222 IFKKIFSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLIT--RSQTVLYTLF-EWPKLPNSRIILIGIANS  298 (529)
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCEEEEEECHHHHHHH--CCCCEEEEEH-HCCCCCCCEEEEEEEHHH
T ss_conf             9999988898874289504789999999875256338987212567760--4653143210-013677660566640013


Q ss_pred             HHHHHHHHHCCHHHHHC-------CCEEECCCCCHHHHHHHHHHH
Q ss_conf             89999973001113202-------311111577767899999997
Q gi|254780877|r  316 LDEYRKYIEKDPALARR-------FQSLLVGEPTVTDTISILRGL  353 (853)
Q Consensus       316 ~~Eyrk~iEkD~Al~RR-------Fq~i~V~Eps~~~t~~iL~gl  353 (853)
                      .|=-      |..|.|-       =+.+.-.+-|.++..+||+.-
T Consensus       299 lDlT------dR~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~r  337 (529)
T KOG2227         299 LDLT------DRFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQR  337 (529)
T ss_pred             HHHH------HHHHHHHHHCCCCCCCEEEECCCCHHHHHHHHHHH
T ss_conf             5577------77766654025788746655687889999999999


No 407
>PRK11823 DNA repair protein RadA; Provisional
Probab=96.66  E-value=0.0033  Score=44.99  Aligned_cols=187  Identities=21%  Similarity=0.360  Sum_probs=114.0

Q ss_pred             HHHHHHHHHHHCCC--CCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCH-------
Q ss_conf             78999999963367--778668952887407779999999873489984445743788731354217454202-------
Q gi|254780877|r  184 DDEMRRAIQVLSRR--TKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGE-------  254 (853)
Q Consensus       184 e~EI~~~~~iL~r~--~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~-------  254 (853)
                      ..|++|+   |..-  .-+-.+|=||||+||+++.=-+|..++++        .+++.+.---=++--+.|.+       
T Consensus        76 i~ElDRV---LGGGlV~GS~iLlgGePGIGKSTLlLQ~a~~la~~--------~~vLYvSGEES~~Qik~RA~RLg~~~~  144 (454)
T PRK11823         76 IGELDRV---LGGGLVPGSVVLIGGDPGIGKSTLLLQVAAALAAG--------GKVLYVSGEESLQQIKLRAERLGLPSD  144 (454)
T ss_pred             CHHHHHC---CCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCC--------CCEEEECCCHHHHHHHHHHHHHCCCCC
T ss_conf             5566522---15872066489950799888999999999998559--------957998150157899999997588888


Q ss_pred             -----HHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCC--CCCCCCC-----HHHHHHHHHCCCC-EEEEEEECHHHHHH
Q ss_conf             -----454589999998607997699963627730266--6554335-----8888765312466-04899744899999
Q gi|254780877|r  255 -----FEERLKSLLCEIRSEDGEIILFIDELHVLVGAG--KTDGAMD-----ASNLLKPSLARGE-LHCIGATTLDEYRK  321 (853)
Q Consensus       255 -----~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG--~~~g~~D-----aan~LKP~LarG~-l~~IgaTT~~Eyrk  321 (853)
                           -|-.+..|+..+.+.+ +-++.||-|+|+.-..  ++.|++.     ++.++.=+=.+|- +=+||--|-+.   
T Consensus       145 ~l~l~~et~l~~Il~~i~~~~-P~~lIIDSIQT~~~~~~~s~pGsvsQVre~a~~L~~~AK~~~i~~~lVGHVTKdG---  220 (454)
T PRK11823        145 NLYLLAETNLEDILATIEEEK-PDLVVIDSIQTMYSPELESAPGSVSQVRECAAELTRLAKQSGIAVFLVGHVTKEG---  220 (454)
T ss_pred             CCEEEECCCHHHHHHHHHHHC-CCEEEEECHHEEEECCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEEECCCC---
T ss_conf             737885368999999998609-9889994311154156677899789999999999999974498289999772677---


Q ss_pred             HHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHHHCCCCC
Q ss_conf             7300111320231111157776789999999789865414961---015899999863332024576
Q gi|254780877|r  322 YIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVR---ISDSALVSAAVLSNRYITDRF  385 (853)
Q Consensus       322 ~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~---i~d~al~~av~ls~rYi~~r~  385 (853)
                      .|.--..|+---..|.-=|-+....+.|||..|-||..-+.|-   .+++-|...-+=|.-|+.+|.
T Consensus       221 ~iAGPkvLEHmVDtVl~fEGd~~~~~RiLR~~KNRFG~t~EiGvFeM~~~GL~~v~nPS~~Fls~~~  287 (454)
T PRK11823        221 AIAGPRVLEHMVDTVLYFEGDRHSRFRILRAVKNRFGATNEIGVFEMTEKGLREVSNPSELFLSERD  287 (454)
T ss_pred             CCCCCHHHHHHHCEEEEECCCCCCCCEEEEEECCCCCCCCEEEEEEECCCCCEECCCHHHHHHHCCC
T ss_conf             6466145222010468751576655024563124677666058998616884566887799862688


No 408
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=96.66  E-value=0.0014  Score=48.00  Aligned_cols=84  Identities=23%  Similarity=0.354  Sum_probs=40.1

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCC--CCCCCCH---HHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHH-------H
Q ss_conf             8987267861688999999987237765--3002244---77403453201304771120356677421132-------2
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDEN--SMIRIDM---SEYMEKHSVSRLIGSPPGYVGYEEGGALTEAV-------R  667 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~--~lir~dM---sey~e~~~vs~LiGappGYvG~~~gg~Lte~v-------r  667 (853)
                      +++|+||||||||.+.-.||..+-....  .+|..|-   +-.-+=-+.++.+|-| =|+.++ +..+.+.+       +
T Consensus         2 Vi~lvGptGvGKTTTiaKLA~~~~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~v~-~~~~~~-~~~~~~~~~~~~~~~~   79 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAADTYRPAAIEQLRVLGEQVGVP-VFEEGE-GKDPVSIAKRAIEHAR   79 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHHHHCCCE-EEECCC-CCCHHHHHHHHHHHHH
T ss_conf             99998999998899999999999976992899974887577999999999974985-992277-5587999999999987


Q ss_pred             CCCCCEEEEHHHHHCCHH
Q ss_conf             156410220214414989
Q gi|254780877|r  668 RHPYQVVLFDEIEKAHSD  685 (853)
Q Consensus       668 ~~P~sVil~DEiEKah~~  685 (853)
                      .+.+.+||.|--=..|.+
T Consensus        80 ~~~~D~IlIDTaGr~~~d   97 (173)
T cd03115          80 EENFDVVIVDTAGRLQID   97 (173)
T ss_pred             HCCCCEEEEECCCCCCCC
T ss_conf             568998999788878799


No 409
>PRK13695 putative NTPase; Provisional
Probab=96.66  E-value=0.0073  Score=42.21  Aligned_cols=25  Identities=32%  Similarity=0.510  Sum_probs=16.6

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHHC
Q ss_conf             6689528874077799999998734
Q gi|254780877|r  201 NPVLIGDPGVGKTAIIEGLASRIIN  225 (853)
Q Consensus       201 n~~lvGe~GvGKtaive~la~~i~~  225 (853)
                      ...+.|+||||||+++.-+...+.+
T Consensus         5 kI~iTG~PGvGKTTli~Kv~~~L~~   29 (174)
T PRK13695          5 RIGITGMPGVGKTTLVLKIAELLAR   29 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             9998789998899999999999863


No 410
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.66  E-value=0.0033  Score=44.99  Aligned_cols=100  Identities=27%  Similarity=0.439  Sum_probs=56.9

Q ss_pred             CCCCCCEEEEEECCCCHHHHHHHHHHHHHH-C-CCC----CCCCCCCH---HHHCCCCCCCHHHCCCCHHCCCCCCCCCC
Q ss_conf             656651289872678616889999999872-3-776----53002244---77403453201304771120356677421
Q gi|254780877|r  593 DPQRPMGSFMFLGPTGVGKTELVKSLARLL-F-DDE----NSMIRIDM---SEYMEKHSVSRLIGSPPGYVGYEEGGALT  663 (853)
Q Consensus       593 ~~~~p~~~flf~GptGvGKTelak~la~~l-f-~~~----~~lir~dM---sey~e~~~vs~LiGappGYvG~~~gg~Lt  663 (853)
                      +..+| .+++|+||||||||.+.--||..+ . +..    -.||..|-   .-.-.=-..+.++|-| =+|-|+. -.|.
T Consensus       170 ~~~k~-~vi~lVGPTGvGKTTTiAKLAa~~~l~~~~k~~~V~lit~DtyRigAveQLktya~il~vp-~~v~~~~-~dl~  246 (388)
T PRK12723        170 DNLKK-RIFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIP-VKAIESF-KDLK  246 (388)
T ss_pred             CCCCC-EEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCC-EEEECCH-HHHH
T ss_conf             35576-2899989988757879999999999862676773799980787588999999999997880-6985788-9999


Q ss_pred             HHHHC-CCCCEEEEHHHHHCCHHHH--HHHHHHHH
Q ss_conf             13221-5641022021441498999--99999840
Q gi|254780877|r  664 EAVRR-HPYQVVLFDEIEKAHSDVH--NILLQVLD  695 (853)
Q Consensus       664 e~vr~-~P~sVil~DEiEKah~~v~--~~llqild  695 (853)
                      +++.+ .-+-+||.|-.=..|.+-.  .=+-++++
T Consensus       247 ~~l~~~~~~D~IlIDTAGrs~~d~~~~~el~~~~~  281 (388)
T PRK12723        247 EEITQSKDFDLVLIDTIGKSPKDFMKLAEMKELLN  281 (388)
T ss_pred             HHHHHHCCCCEEEEECCCCCCCCHHHHHHHHHHHH
T ss_conf             99997249999999589988568999999999997


No 411
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.64  E-value=0.0047  Score=43.79  Aligned_cols=142  Identities=20%  Similarity=0.315  Sum_probs=70.9

Q ss_pred             CCCEEEEEECCCCHHHHHHHHHHHHHHCCCCC--CCCCCCHH---HHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCC-
Q ss_conf             65128987267861688999999987237765--30022447---7403453201304771120356677421132215-
Q gi|254780877|r  596 RPMGSFMFLGPTGVGKTELVKSLARLLFDDEN--SMIRIDMS---EYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRH-  669 (853)
Q Consensus       596 ~p~~~flf~GptGvGKTelak~la~~lf~~~~--~lir~dMs---ey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~-  669 (853)
                      +-+-+.-|+||||||||.+.--||--+.+..+  +||+.|--   -.-+=-+-++++|.|= +|-++. -.|..++.+. 
T Consensus       239 ~~~q~IALVGPTGVGKTTTIAKLAArf~~~~KkVALITtDTYRIGAVEQLKTYAeIMgVPV-~VV~dp-~eL~~AL~~lk  316 (436)
T PRK11889        239 KEVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEV-IAVRDE-AAMTRALTYFK  316 (436)
T ss_pred             HHCEEEEEECCCCCCHHHHHHHHHHHHHCCCCEEEEEECCCCHHHHHHHHHHHHHHHCCCE-EEECCH-HHHHHHHHHHH
T ss_conf             4171799989999888999999999986169808999806634769999999999849943-996888-99999999876


Q ss_pred             ---CCCEEEEHHHHHCCHHHHH--HHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHC
Q ss_conf             ---6410220214414989999--99998404578879997783033155954851268764032679999999998628
Q gi|254780877|r  670 ---PYQVVLFDEIEKAHSDVHN--ILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAF  744 (853)
Q Consensus       670 ---P~sVil~DEiEKah~~v~~--~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f  744 (853)
                         -+-+||.|-.-..+.+-..  -|...++...          -..+.++|..|...            ..+.++-..|
T Consensus       317 dka~~DLILIDTAGRS~RD~~~I~EL~~~l~~~~----------p~ev~LVLSATTK~------------~DL~eIi~rF  374 (436)
T PRK11889        317 EEARVDYILIDTAGKNYRASETVEEMIETMGQVE----------PDYICLTLSASMKS------------KDMIEIITNF  374 (436)
T ss_pred             HCCCCCEEEEECCCCCCCCHHHHHHHHHHHHHCC----------CCEEEEEEECCCCH------------HHHHHHHHHH
T ss_conf             3368888999298988468999999999985127----------77169999788998------------9999999972


Q ss_pred             CHHHHCCCCCEEECCCCCHHH
Q ss_conf             857726668158628899899
Q gi|254780877|r  745 KPEFLNRLDEIILFEKLRKED  765 (853)
Q Consensus       745 ~peflnRid~iv~F~~l~~~~  765 (853)
                      ++  ++ +| -++|--|++..
T Consensus       375 ~~--l~-id-glIfTKLDET~  391 (436)
T PRK11889        375 KD--IH-ID-GIVFTKFDETA  391 (436)
T ss_pred             CC--CC-CC-EEEEEECCCCC
T ss_conf             57--99-88-28997132568


No 412
>KOG2227 consensus
Probab=96.63  E-value=0.083  Score=33.64  Aligned_cols=23  Identities=22%  Similarity=0.448  Sum_probs=17.9

Q ss_pred             HCCCHHHHHHHHHHHHCCCHHHH
Q ss_conf             01686678999876617866775
Q gi|254780877|r  529 EVVTSDNIANIVSRWTGIPVDKM  551 (853)
Q Consensus       529 ~~V~~~dVa~vvS~~TGIPv~kl  551 (853)
                      ..|..++|+.++|...|-|....
T Consensus       401 ~~v~~~~va~viSk~~~s~~~~s  423 (529)
T KOG2227         401 KKVGVEHVAAVISKVDGSPSARS  423 (529)
T ss_pred             CCCCHHHHHHHHHHHCCCHHHHH
T ss_conf             55006789988403016805555


No 413
>pfam01057 Parvo_NS1 Parvovirus non-structural protein NS1. This family also contains the NS2 protein. Parvoviruses encode two non-structural proteins, NS1 and NS2. The mRNA for NS2 contains the coding sequence for the first 87 amino acids of NS1, then by an alternative splicing mechanism mRNA from a different reading frame, encoding the last 78 amino acids, makes up the full length of the NS2 mRNA. NS1, is the major non-structural protein. It is essential for DNA replication. It is an 83-kDa nuclear phosphoprotein. It has DNA helicase and ATPase activity.
Probab=96.63  E-value=0.014  Score=39.93  Aligned_cols=142  Identities=18%  Similarity=0.302  Sum_probs=79.2

Q ss_pred             CCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCC-CEE
Q ss_conf             6512898726786168899999998723776530022447740345320130477112035667742113221564-102
Q gi|254780877|r  596 RPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPY-QVV  674 (853)
Q Consensus       596 ~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~-sVi  674 (853)
                      .+.....|.||+.+|||.+|.+|+..+-.       +-|-.+.           ++.|.           ...-+. .++
T Consensus       111 ~krN~i~~~Gp~~TGks~la~ai~~~~~~-------~g~v~~~-----------N~~fp-----------~~d~~~~~~~  161 (271)
T pfam01057       111 GKRNTVWFYGPASTGKTNLAQAIAHAVPL-------YGCVNWT-----------NENFP-----------FNDCPNKLLI  161 (271)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHCCC-------EEEECCC-----------CCCCC-----------CCCCCCCEEE
T ss_conf             88756999889876789999999986895-------2785178-----------77887-----------6446547899


Q ss_pred             EEHHHHHCCHHHHHHHHHHHHCCE-EECCCC-CEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHH-HCCHHHHCC
Q ss_conf             202144149899999999840457-887999-77830331559548512687640326799999999986-288577266
Q gi|254780877|r  675 LFDEIEKAHSDVHNILLQVLDDGR-LTDSQG-RTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRS-AFKPEFLNR  751 (853)
Q Consensus       675 l~DEiEKah~~v~~~llqild~G~-ltd~~G-~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~-~f~peflnR  751 (853)
                      ..|| -+.+.++...+=++||-.. .-|.++ ..+.+.-+=+|+|||.--......+. ....-.+.|+. .+.-.|-.+
T Consensus       162 wwee-~~~~~~~ve~~r~il~G~~i~vD~k~k~~~~l~~~PviiTsn~di~~v~~g~~-~s~~Ha~~Lk~rm~~~~~~~~  239 (271)
T pfam01057       162 WWEE-GLMTVKVVELAKAILGGTDVRVDQKCKGSVEIEPTPVIITSNHDITLVVDGNT-TSFEHAQPLKDRMYKFNLTKR  239 (271)
T ss_pred             EECC-CCCCHHHHHHHHHHHCCCCCEEECCCCCCCCCCCCCEEEEECCCEEEEEECCC-CCHHHHHHHHHHEEEEEECCC
T ss_conf             9807-88718899999997299962563478980023799789982785799986875-357777787653689885767


Q ss_pred             CCCEEECCCCCHHHHHHHH
Q ss_conf             6815862889989999999
Q gi|254780877|r  752 LDEIILFEKLRKEDMAKIV  770 (853)
Q Consensus       752 id~iv~F~~l~~~~~~~i~  770 (853)
                      +..-  |.+++..++.+.+
T Consensus       240 l~~~--fg~it~~d~~~f~  256 (271)
T pfam01057       240 LPPA--FGLITKEDVRQFL  256 (271)
T ss_pred             CCCC--CCCCCHHHHHHHH
T ss_conf             4887--7854899999999


No 414
>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=96.60  E-value=0.087  Score=33.48  Aligned_cols=165  Identities=20%  Similarity=0.284  Sum_probs=95.2

Q ss_pred             CHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHH
Q ss_conf             35789999999633677786689528874077799999998734899844457437887313542174542024545899
Q gi|254780877|r  182 GRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKS  261 (853)
Q Consensus       182 GRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~  261 (853)
                      -|..=+.++++.+..+.. ..++.|+=+||||++++-+.+...+.          ++-.+...+.+.   +-++-+-++.
T Consensus        21 ~~~~~~~~l~~~~~~~~~-i~~i~GpR~~GKTtllk~l~~~~~~~----------~iy~~~~d~~~~---~~~l~d~~~~   86 (398)
T COG1373          21 ERRKLLPRLIKKLDLRPF-IILILGPRQVGKTTLLKLLIKGLLEE----------IIYINFDDLRLD---RIELLDLLRA   86 (398)
T ss_pred             HHHHHHHHHHHHHCCCCC-EEEEECCCCCCHHHHHHHHHHHCCCC----------EEEEECCCCCCC---HHHHHHHHHH
T ss_conf             367677998765035785-49998886477899999999747773----------599973620001---3567789999


Q ss_pred             HHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCE--EEEEEECHHHHHHHHHCCHHHHHCCCEEECC
Q ss_conf             99998607997699963627730266655433588887653124660--4899744899999730011132023111115
Q gi|254780877|r  262 LLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGEL--HCIGATTLDEYRKYIEKDPALARRFQSLLVG  339 (853)
Q Consensus       262 i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l--~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~  339 (853)
                      .++. ... ....+|+||||..=         +--+.||...-+|..  =+.|.+..--=++.   -..|.+|...+.+-
T Consensus        87 ~~~~-~~~-~~~yifLDEIq~v~---------~W~~~lk~l~d~~~~~v~itgsss~ll~~~~---s~~L~GR~~~~~l~  152 (398)
T COG1373          87 YIEL-KER-EKSYIFLDEIQNVP---------DWERALKYLYDRGNLDVLITGSSSSLLSKEI---SESLAGRGKDLELY  152 (398)
T ss_pred             HHHH-HCC-CCCEEEEEEECCCH---------HHHHHHHHHHCCCCCEEEEECCCHHHHCCCH---HHHCCCCEEEEEEC
T ss_conf             9985-222-57459998333761---------0899999997567750999837167541330---23249982378984


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHH
Q ss_conf             7776789999999789865414961015899999863332024576747
Q gi|254780877|r  340 EPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPD  388 (853)
Q Consensus       340 Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPD  388 (853)
                      +-|..|-+....         +.+.-.    .. -.+-.+|+.-.-+|+
T Consensus       153 PlSF~Efl~~~~---------~~~~~~----~~-~~~f~~Yl~~GGfP~  187 (398)
T COG1373         153 PLSFREFLKLKG---------EEIEPS----KL-ELLFEKYLETGGFPE  187 (398)
T ss_pred             CCCHHHHHHHCC---------CCCCHH----HH-HHHHHHHHHHCCCCH
T ss_conf             888899864135---------210025----67-999999877289856


No 415
>PRK06835 DNA replication protein DnaC; Validated
Probab=96.59  E-value=0.017  Score=39.14  Aligned_cols=118  Identities=24%  Similarity=0.327  Sum_probs=68.8

Q ss_pred             HHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCC---CCCCCHHHHHHHHHHH
Q ss_conf             9999963367778668952887407779999999873489984445743788731354217---4542024545899999
Q gi|254780877|r  188 RRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAG---AKFRGEFEERLKSLLC  264 (853)
Q Consensus       188 ~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag---~~~rg~~e~r~~~i~~  264 (853)
                      +..++...... .|.++.|++|||||-+...+|..+.+.       |+.|+-+....|+..   +++..  .+....+++
T Consensus       173 ~~fi~~F~~~~-~nLlf~G~~G~GKTfLa~~IA~ell~~-------g~sViy~ta~~L~~~l~~~~~~~--~~~~~~~~~  242 (330)
T PRK06835        173 LNFIKNFDKNN-ENLLFYGNTGTGKTFLSNCIAKELLDR-------GKTVIYRTSDELIENLREIRFNN--DNDAPELED  242 (330)
T ss_pred             HHHHHHCCCCC-CCEEEECCCCCCHHHHHHHHHHHHHHC-------CCEEEEEEHHHHHHHHHHHHCCC--CCCHHHHHH
T ss_conf             99987247888-866988999998899999999999987-------99499962999999999975457--644899999


Q ss_pred             HHHHCCCCEEEEECCHHHHCCCCCCCC-CCCHHHHHHHHHCCCCEEEEEEE--CHHHHHHH
Q ss_conf             986079976999636277302666554-33588887653124660489974--48999997
Q gi|254780877|r  265 EIRSEDGEIILFIDELHVLVGAGKTDG-AMDASNLLKPSLARGELHCIGAT--TLDEYRKY  322 (853)
Q Consensus       265 ~~~~~~~~~ilfide~h~~~gaG~~~g-~~Daan~LKP~LarG~l~~IgaT--T~~Eyrk~  322 (853)
                      .+.+.+   +|.||++-+-.   .++- .-..=+++--=+.++. .+|-+|  +++|..+.
T Consensus       243 ~l~~~D---LLIIDDLG~E~---~t~~~~~~Lf~iIN~R~~~~k-~tIITTNl~~~eL~~~  296 (330)
T PRK06835        243 LLINCD---LLIIDDLGTES---ITEFSKTELFNLINKRLLMNK-KMIISTNLSLEELLKT  296 (330)
T ss_pred             HHHHCC---EEEEECCCCCC---CCHHHHHHHHHHHHHHHHCCC-CEEEECCCCHHHHHHH
T ss_conf             996189---89972103455---886899999999999986799-9799889998999998


No 416
>KOG0727 consensus
Probab=96.55  E-value=0.0062  Score=42.78  Aligned_cols=140  Identities=20%  Similarity=0.317  Sum_probs=81.6

Q ss_pred             CCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECC
Q ss_conf             86689528874077799999998734899844457437887313542174542024545899999986079976999636
Q gi|254780877|r  200 NNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRSEDGEIILFIDE  279 (853)
Q Consensus       200 ~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~~~ilfide  279 (853)
                      ..++|-|+||.|||-++...|.--..          ..+.+.-+.++  .||-||--.-++.+..-.++ +.+.|+||||
T Consensus       190 rgvllygppg~gktml~kava~~t~a----------~firvvgsefv--qkylgegprmvrdvfrlake-napsiifide  256 (408)
T KOG0727         190 RGVLLYGPPGTGKTMLAKAVANHTTA----------AFIRVVGSEFV--QKYLGEGPRMVRDVFRLAKE-NAPSIIFIDE  256 (408)
T ss_pred             CCEEEECCCCCCHHHHHHHHHHCCCH----------HEEEECCHHHH--HHHHCCCCHHHHHHHHHHHC-CCCCEEEEEH
T ss_conf             62277579997578999998612611----------14463018999--99855483899999998761-6983798622


Q ss_pred             HHHHCCCC--CCCCC-CCHHHHHHHH-------HCCCCEEEEEEECHHHHHHHHHCCHHHHHC---CCEEECCCCCHHHH
Q ss_conf             27730266--65543-3588887653-------124660489974489999973001113202---31111157776789
Q gi|254780877|r  280 LHVLVGAG--KTDGA-MDASNLLKPS-------LARGELHCIGATTLDEYRKYIEKDPALARR---FQSLLVGEPTVTDT  346 (853)
Q Consensus       280 ~h~~~gaG--~~~g~-~Daan~LKP~-------LarG~l~~IgaTT~~Eyrk~iEkD~Al~RR---Fq~i~V~Eps~~~t  346 (853)
                      +..|--..  ++.|+ -.+--+|--.       =.....++|.||.-..     .-||||-|-   =.+|...=|+.-+-
T Consensus       257 idaiatkrfdaqtgadrevqril~ellnqmdgfdq~~nvkvimatnrad-----tldpallrpgrldrkiefplpdrrqk  331 (408)
T KOG0727         257 IDAIATKRFDAQTGADREVQRILIELLNQMDGFDQTTNVKVIMATNRAD-----TLDPALLRPGRLDRKIEFPLPDRRQK  331 (408)
T ss_pred             HHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCEEEEEECCCCC-----CCCHHHCCCCCCCCCCCCCCCCHHHH
T ss_conf             4567664124444631899999999997514767666558998327555-----66876628764344435779854665


Q ss_pred             HHHHHHHHHHH
Q ss_conf             99999978986
Q gi|254780877|r  347 ISILRGLKERY  357 (853)
Q Consensus       347 ~~iL~gl~~~y  357 (853)
                      --+...+.+++
T Consensus       332 rlvf~titskm  342 (408)
T KOG0727         332 RLVFSTITSKM  342 (408)
T ss_pred             HHHHHHHHHCC
T ss_conf             22277543102


No 417
>pfam03215 Rad17 Rad17 cell cycle checkpoint protein.
Probab=96.54  E-value=0.078  Score=33.86  Aligned_cols=55  Identities=11%  Similarity=0.077  Sum_probs=27.7

Q ss_pred             HHHHCCHHHHCCCC-CEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHH
Q ss_conf             98628857726668-15862889989999999999999999998579899998899999997
Q gi|254780877|r  740 VRSAFKPEFLNRLD-EIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSC  800 (853)
Q Consensus       740 l~~~f~peflnRid-~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~  800 (853)
                      ....|+||+++--. .+|-|||+....|.+.+.+-+..=      ........++.++.|++
T Consensus       187 a~rLlg~eIl~hp~i~~I~FNpIApT~M~KaL~~I~~kE------~~~~~~~~~~~le~Ia~  242 (490)
T pfam03215       187 AETIMTKDILIMPRIDTITFNPIAPTFMKKALVRISVQE------GKLKSPKSDSKLEVICQ  242 (490)
T ss_pred             HHHHCCHHHHHCCCCCEEEECCCCHHHHHHHHHHHHHHH------CCCCCCCCHHHHHHHHH
T ss_conf             786359888708896369868887889999999999985------76556752038999998


No 418
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=96.53  E-value=0.047  Score=35.64  Aligned_cols=40  Identities=35%  Similarity=0.507  Sum_probs=27.7

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHHC--CCCCHHHCCCEEEEEEHHHH
Q ss_conf             6689528874077799999998734--89984445743788731354
Q gi|254780877|r  201 NPVLIGDPGVGKTAIIEGLASRIIN--GDIPESLKGKRLMALDMGAL  245 (853)
Q Consensus       201 n~~lvGe~GvGKtaive~la~~i~~--~~vp~~l~~~~i~~ld~~~l  245 (853)
                      -..|||++|||||+-+=-||-+.+-  |.     +..-++++|.-..
T Consensus       196 vi~lvGPTGVGKTTTiAKLAa~~~l~~~~-----~~V~lIT~DtyRi  237 (282)
T TIGR03499       196 VIALVGPTGVGKTTTLAKLAARFVLEHGK-----KKVALITTDTYRI  237 (282)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHHCCC-----CCEEEEEECCCCH
T ss_conf             79997788875788999999999997389-----9679998077767


No 419
>PRK07004 replicative DNA helicase; Provisional
Probab=96.53  E-value=0.078  Score=33.86  Aligned_cols=81  Identities=15%  Similarity=0.222  Sum_probs=44.9

Q ss_pred             CHHHHHHHHHHHHH-HCCCCCCCCCHHHHHHHHHHHHCCCCCCC-EEEECCCCCCHHHHHHHHHHHHH-CCCCCHHHCCC
Q ss_conf             10788644356998-72985333335789999999633677786-68952887407779999999873-48998444574
Q gi|254780877|r  159 DALKKYCRDLTEEA-RNGKLDPVIGRDDEMRRAIQVLSRRTKNN-PVLIGDPGVGKTAIIEGLASRII-NGDIPESLKGK  235 (853)
Q Consensus       159 ~~L~ky~~DLTe~A-r~GkLDPVIGRe~EI~~~~~iL~r~~k~n-~~lvGe~GvGKtaive~la~~i~-~~~vp~~l~~~  235 (853)
                      +.+.++-..+.+.. +.+. ..+.|=..-+..+=.++..-.+.+ .++-|-||+||||++-.+|..++ +...|     .
T Consensus       172 ~~l~~~~e~ie~~~~~~~~-~~~~Gi~TGf~~LD~~t~Gl~~gdLiIIAARPsmGKTafAlniA~n~A~~~g~~-----V  245 (460)
T PRK07004        172 PLLTQVVERIDTLYHTANP-SDVTGTPTGFVDLDRMTSGMHGGELIIVAGRPSMGKTAFSMNIGEYVAVEYGLP-----V  245 (460)
T ss_pred             HHHHHHHHHHHHHHHHCCC-CCCCCCCCCHHHHHHHHCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHCCCC-----E
T ss_conf             9999999999999961599-998538679388986523898775799973687642699999999998725886-----6


Q ss_pred             EEEEEEHHHH
Q ss_conf             3788731354
Q gi|254780877|r  236 RLMALDMGAL  245 (853)
Q Consensus       236 ~i~~ld~~~l  245 (853)
                      -+|||.|++-
T Consensus       246 ~~FSLEMs~e  255 (460)
T PRK07004        246 AVFSMEMPGT  255 (460)
T ss_pred             EEECCCCCHH
T ss_conf             9984779999


No 420
>TIGR01420 pilT_fam twitching motility protein; InterPro: IPR006321   These represent the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction . Members of this family may be found in some species that do not have type IV pili but have related structures for DNA uptake and natural transformation. ; GO: 0005524 ATP binding, 0006810 transport.
Probab=96.53  E-value=0.0023  Score=46.36  Aligned_cols=160  Identities=22%  Similarity=0.376  Sum_probs=80.3

Q ss_pred             CCCCEEEEEECCCCHHHHHHHHHHHHHHCCC-CCCCCCC-CHHHHCCCCCCC----HHHCCCCHHCCCCCCCCCCHHHHC
Q ss_conf             6651289872678616889999999872377-6530022-447740345320----130477112035667742113221
Q gi|254780877|r  595 QRPMGSFMFLGPTGVGKTELVKSLARLLFDD-ENSMIRI-DMSEYMEKHSVS----RLIGSPPGYVGYEEGGALTEAVRR  668 (853)
Q Consensus       595 ~~p~~~flf~GptGvGKTelak~la~~lf~~-~~~lir~-dMsey~e~~~vs----~LiGappGYvG~~~gg~Lte~vr~  668 (853)
                      .+|.|=.|++||||+|||.+-=++=+++--. ...+|+| |==||..+|--|    |=+|.---  -|.  --|-.|+|+
T Consensus       124 ~~~~GLiLVTGPTGSGKSTTlAsmIDyIN~~~~~HIiTIEDPIEyvh~~~~sli~QREvG~DT~--sF~--~ALraALRe  199 (350)
T TIGR01420       124 ERPRGLILVTGPTGSGKSTTLASMIDYINKNKAGHIITIEDPIEYVHKNKRSLINQREVGLDTL--SFA--NALRAALRE  199 (350)
T ss_pred             HCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCCCEEEECCEEEEECCCEEEEECCCCCCCHH--HHH--HHHHHHHCC
T ss_conf             3669938987688986789999999787403888825631773141047702454362467545--799--997684102


Q ss_pred             CCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHH
Q ss_conf             56410220214414989999999984045788799977830331559548512687640326799999999986288577
Q gi|254780877|r  669 HPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEF  748 (853)
Q Consensus       669 ~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~pef  748 (853)
                      -| -|||.=|+=  ..+-.++=|..=+.|+|                                    |+.-|...=-++=
T Consensus       200 DP-DvILiGE~R--D~ET~~~AL~AAETGHL------------------------------------V~gTLHTnsA~~t  240 (350)
T TIGR01420       200 DP-DVILIGEMR--DLETVELALTAAETGHL------------------------------------VFGTLHTNSAAKT  240 (350)
T ss_pred             CC-CEEEEECCC--CHHHHHHHHHHHHHCCH------------------------------------HHHHHHHHHHHHH
T ss_conf             89-889982556--27899999987421315------------------------------------6766664238887


Q ss_pred             HCCCCCEEECCCCCHHH-HHH-HHHHHHHHHHHHHHHC----CCE-----EEECHHHHHHHHH
Q ss_conf             26668158628899899-999-9999999999999857----989-----9998899999997
Q gi|254780877|r  749 LNRLDEIILFEKLRKED-MAK-IVRIQLGRVLSLIKER----NIS-----MDFDDQVIDWLSC  800 (853)
Q Consensus       749 lnRid~iv~F~~l~~~~-~~~-i~~~~l~~l~~~l~~~----~i~-----l~~~~~~~~~l~~  800 (853)
                      +|||   |=|-|....+ ++. ++...+.=+.|||..+    |-.     +--||.+.++|-+
T Consensus       241 i~RI---id~FP~~~~~qiR~~La~~L~Av~sQrL~p~~~G~GRv~~~Eil~~Tpav~~lIre  300 (350)
T TIGR01420       241 IERI---IDVFPAEEQEQIRTQLAESLVAVISQRLLPKKNGGGRVLAVEILINTPAVRNLIRE  300 (350)
T ss_pred             HHHH---HCCCCHHHHHHHHHHHHHHHHHHHCCCCEEECCCCCEEEEEEEECCCHHHHHHHCC
T ss_conf             6777---42597756689999998767877000542233896258888752158789996028


No 421
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=96.52  E-value=0.046  Score=35.75  Aligned_cols=24  Identities=33%  Similarity=0.459  Sum_probs=18.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHHC
Q ss_conf             689528874077799999998734
Q gi|254780877|r  202 PVLIGDPGVGKTAIIEGLASRIIN  225 (853)
Q Consensus       202 ~~lvGe~GvGKtaive~la~~i~~  225 (853)
                      .++.|+||+|||.+.-.+|.....
T Consensus         2 ~li~g~~g~GKttl~~~~~~~~~~   25 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIAT   25 (165)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             899989999899999999999876


No 422
>TIGR00455 apsK adenylylsulfate kinase; InterPro: IPR002891 Enzyme that catalyses the phosphorylation of adenylylsulphate to 3'-phosphoadenylylsulphate. This domain contains an ATP binding P-loop motif .; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity transferring phosphorus-containing groups, 0000103 sulfate assimilation.
Probab=96.51  E-value=0.0026  Score=45.80  Aligned_cols=113  Identities=20%  Similarity=0.282  Sum_probs=63.3

Q ss_pred             CCCEEEE-EECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEE
Q ss_conf             6512898-726786168899999998723776530022447740345320130477112035667742113221564102
Q gi|254780877|r  596 RPMGSFM-FLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVV  674 (853)
Q Consensus       596 ~p~~~fl-f~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVi  674 (853)
                      +-.|+-| |+|+||.|||.+|.||.+.|+...=....+|-                             .-||.+=+.=+
T Consensus        16 ~h~g~vlWlTGLSGsGKsTiA~Al~~~L~~~G~~~~~LDG-----------------------------DnvR~gL~~dL   66 (187)
T TIGR00455        16 KHRGVVLWLTGLSGSGKSTIANALEKKLEKKGYRVYVLDG-----------------------------DNVRHGLNKDL   66 (187)
T ss_pred             CCCEEEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEECC-----------------------------CEEECCCCCCC
T ss_conf             7973898511688563579999999999966974999758-----------------------------63424778888


Q ss_pred             EEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEE------CCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHH
Q ss_conf             2021441498999999998404578879997783------0331559548512687640326799999999986288577
Q gi|254780877|r  675 LFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVD------FRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEF  748 (853)
Q Consensus       675 l~DEiEKah~~v~~~llqild~G~ltd~~G~~v~------f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~pef  748 (853)
                      =|.+=|.                   +-+-|.|.      -+|++|++||=+      .-+...++.+.+.+.++ .-+|
T Consensus        67 GFS~~DR-------------------~eNIRRigEVa~L~~~~G~i~ltsfI------SPyR~~R~~vR~~~~~~-Gl~F  120 (187)
T TIGR00455        67 GFSEEDR-------------------KENIRRIGEVAKLLVRNGVIVLTSFI------SPYRADRQMVRELIEEG-GLEF  120 (187)
T ss_pred             CCCHHHH-------------------CCCCCEEHHHHHHHHHCCEEEEEEEE------CCCHHHHHHHHHHHHCC-CEEE
T ss_conf             8885670-------------------56883532646777647938998421------77666789998875405-7368


Q ss_pred             HCCCCCEEECCCCCHHHHH
Q ss_conf             2666815862889989999
Q gi|254780877|r  749 LNRLDEIILFEKLRKEDMA  767 (853)
Q Consensus       749 lnRid~iv~F~~l~~~~~~  767 (853)
                          -||++=-||.-.+-+
T Consensus       121 ----~Evfv~~PL~vcE~R  135 (187)
T TIGR00455       121 ----IEVFVKCPLEVCEQR  135 (187)
T ss_pred             ----EEEECCCCHHHHCCC
T ss_conf             ----997217886863268


No 423
>cd03221 ABCF_EF-3 ABCF_EF-3  Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth.  EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site.  The reaction requires ATP hydrolysis.  EF-3 contains two ATP nucleotide binding sequence (NBS) motifs.  NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.
Probab=96.50  E-value=0.0074  Score=42.17  Aligned_cols=94  Identities=24%  Similarity=0.408  Sum_probs=59.3

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCC-----CCHHHHCCCCCEE
Q ss_conf             89872678616889999999872377653002244774034532013047711203566774-----2113221564102
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGA-----LTEAVRRHPYQVV  674 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~-----Lte~vr~~P~sVi  674 (853)
                      .+.++||.|.|||.+.|.|+..+.-+... ++++...             -.+|+..=.||+     +.-++-.+| .|+
T Consensus        28 ~~~l~G~NGsGKTTl~~~l~G~~~~~~G~-i~~~~~~-------------~i~y~~QLSgGqkqr~~la~al~~~p-~il   92 (144)
T cd03221          28 RIGLVGRNGAGKSTLLKLIAGELEPDEGI-VTWGSTV-------------KIGYFEQLSGGEKMRLALAKLLLENP-NLL   92 (144)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCCCEE-EEECCCC-------------EEEEEHHCCHHHHHHHHHHHHHCCCC-CEE
T ss_conf             99999899984999999984898898509-9999960-------------89987007999999999999972599-899


Q ss_pred             EEHHHHHC-CHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCH
Q ss_conf             20214414-98999999998404578879997783033155954851
Q gi|254780877|r  675 LFDEIEKA-HSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNL  720 (853)
Q Consensus       675 l~DEiEKa-h~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~  720 (853)
                      ++||--.. .++....+.+.+.+            ++.|+|+-|.++
T Consensus        93 iLDEPt~~LD~~~~~~i~~~l~~------------~~~tii~vsHd~  127 (144)
T cd03221          93 LLDEPTNHLDLESIEALEEALKE------------YPGTVILVSHDR  127 (144)
T ss_pred             EEECCCCCCCHHHHHHHHHHHHH------------CCCEEEEEECCH
T ss_conf             99577555899999999999997------------099999996798


No 424
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=96.50  E-value=0.0028  Score=45.64  Aligned_cols=85  Identities=31%  Similarity=0.511  Sum_probs=45.1

Q ss_pred             CCCEEEEEECCCCHHHHH-HHHHHHHHHCCC-CC--CCCCCCH---------HHHCCCCCCCHHHCCCCHHCCCCCCCCC
Q ss_conf             651289872678616889-999999872377-65--3002244---------7740345320130477112035667742
Q gi|254780877|r  596 RPMGSFMFLGPTGVGKTE-LVKSLARLLFDD-EN--SMIRIDM---------SEYMEKHSVSRLIGSPPGYVGYEEGGAL  662 (853)
Q Consensus       596 ~p~~~flf~GptGvGKTe-lak~la~~lf~~-~~--~lir~dM---------sey~e~~~vs~LiGappGYvG~~~gg~L  662 (853)
                      +|-+++.|+||||||||. |||.=|.+.... ..  ++|+.|-         +-|      +++.|-|=--| | ..-.|
T Consensus       201 ~~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Y------a~im~vp~~vv-~-~~~el  272 (407)
T COG1419         201 EQKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTY------ADIMGVPLEVV-Y-SPKEL  272 (407)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCEEEEEECCCHHHHHHHHHHH------HHHHCCCEEEE-C-CHHHH
T ss_conf             4685799989988758879999999997532576068997144115289999999------99869955996-3-99999


Q ss_pred             CHHHHC-CCCCEEEEHHHHHCCHHHHH
Q ss_conf             113221-56410220214414989999
Q gi|254780877|r  663 TEAVRR-HPYQVVLFDEIEKAHSDVHN  688 (853)
Q Consensus       663 te~vr~-~P~sVil~DEiEKah~~v~~  688 (853)
                      -+++.. +-+-|||.|-+-..|.|...
T Consensus       273 ~~ai~~l~~~d~ILVDTaGrs~~D~~~  299 (407)
T COG1419         273 AEAIEALRDCDVILVDTAGRSQYDKEK  299 (407)
T ss_pred             HHHHHHHHCCCEEEEECCCCCCCCHHH
T ss_conf             999998531888999689988337899


No 425
>PRK13947 shikimate kinase; Provisional
Probab=96.49  E-value=0.03  Score=37.18  Aligned_cols=138  Identities=19%  Similarity=0.279  Sum_probs=62.3

Q ss_pred             CCEEEECCCCCCHHHHHHHHHHHHHCC--CCCHHHCCCEEEEEEHHHHHCCCCCCCH--HHHHHHHHHHHHHHCCCCEEE
Q ss_conf             866895288740777999999987348--9984445743788731354217454202--454589999998607997699
Q gi|254780877|r  200 NNPVLIGDPGVGKTAIIEGLASRIING--DIPESLKGKRLMALDMGALIAGAKFRGE--FEERLKSLLCEIRSEDGEIIL  275 (853)
Q Consensus       200 ~n~~lvGe~GvGKtaive~la~~i~~~--~vp~~l~~~~i~~ld~~~l~ag~~~rg~--~e~r~~~i~~~~~~~~~~~il  275 (853)
                      .|.+|||-||+|||+|-.-||+++--.  |......  +-....+..+.+-   .||  |-+.=..++.++...+ +.| 
T Consensus         2 knI~LiG~mGsGKTtiGk~La~~L~~~fiD~D~~Ie--~~~g~sI~eIf~~---~GE~~FR~~E~~~l~~~~~~~-~~V-   74 (171)
T PRK13947          2 KNIVLIGFMGTGKTTVGKKVATTLSFGFIDTDKEIE--KMAGMTVSEIFEK---DGEVRFRSLEKAAVRKAARLK-NLV-   74 (171)
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHHCCCEEECHHHHH--HHCCCCHHHHHHH---HCHHHHHHHHHHHHHHHCCCC-CEE-
T ss_conf             858997999998899999999997969898749999--8829988999998---489999999999999740368-979-


Q ss_pred             EECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHH
Q ss_conf             96362773026665543358888765312466048997448999997300111320231111157776789999999789
Q gi|254780877|r  276 FIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKE  355 (853)
Q Consensus       276 fide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~  355 (853)
                              |..|++. -++..|+ + .|.+..+-+-=-+.++...+-+.+++  .|.   ..-.+...+.-..++..-.+
T Consensus        75 --------istGGG~-v~~~~n~-~-~l~~~g~vi~L~~~~~~l~~Rl~~~~--~RP---ll~~~~~~~~l~~l~~~R~~  138 (171)
T PRK13947         75 --------IATGGGV-VLNPENI-V-QLRKNGVLICLVARPEVILRRIKKKK--DRP---LLMVGNPEERIRELLKEREP  138 (171)
T ss_pred             --------EECCCCC-CCCHHHH-H-HHHHCCEEEEECCCHHHHHHHHHCCC--CCC---CCCCCCHHHHHHHHHHHHHH
T ss_conf             --------9789850-0699999-9-99968989997399999999972899--999---79899879999999999999


Q ss_pred             HHHHH
Q ss_conf             86541
Q gi|254780877|r  356 RYEQH  360 (853)
Q Consensus       356 ~yE~~  360 (853)
                      .|+..
T Consensus       139 ~Y~~A  143 (171)
T PRK13947        139 FYRFA  143 (171)
T ss_pred             HHHHC
T ss_conf             99976


No 426
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=96.47  E-value=0.1  Score=32.88  Aligned_cols=50  Identities=12%  Similarity=0.055  Sum_probs=35.4

Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             8654149610158999998633320245767477899999999987541022
Q gi|254780877|r  356 RYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEASARVRMQIDT  407 (853)
Q Consensus       356 ~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~A~~~i~~~~  407 (853)
                      .=+.-..|.++|+.+.+++.++.++=-+-.=  --|-++-.|+|...+....
T Consensus       187 Ar~~L~~V~i~d~~~~~l~~~a~~~gv~g~R--a~i~~~raArA~AAl~Gr~  236 (584)
T PRK13406        187 ARARLAAVRVPPEAIEALCAAAAALGIASLR--APLLALRAARAAAALAGRT  236 (584)
T ss_pred             HHHHCCCCCCCHHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHHHHCCCC
T ss_conf             9986786666999999999999983998620--9999999999999974999


No 427
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=96.44  E-value=0.037  Score=36.46  Aligned_cols=141  Identities=21%  Similarity=0.269  Sum_probs=68.1

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHHCC--CCCHHHCCCEEEEEEHHHHHC--CCCCCCHHHHHHHHHHHHHHHCCCCEEEE
Q ss_conf             66895288740777999999987348--998444574378873135421--74542024545899999986079976999
Q gi|254780877|r  201 NPVLIGDPGVGKTAIIEGLASRIING--DIPESLKGKRLMALDMGALIA--GAKFRGEFEERLKSLLCEIRSEDGEIILF  276 (853)
Q Consensus       201 n~~lvGe~GvGKtaive~la~~i~~~--~vp~~l~~~~i~~ld~~~l~a--g~~~rg~~e~r~~~i~~~~~~~~~~~ilf  276 (853)
                      |.+|||-||+|||++-.-||+++-..  |....+.  +-+..++..+..  |-.|=-+.|.+   ++.++...+ ++|  
T Consensus         1 nI~LiG~~G~GKstigk~la~~l~~~fiD~D~~Ie--~~~g~si~eif~~~Ge~~FR~~E~~---~l~~~~~~~-~~V--   72 (154)
T cd00464           1 NIVLIGMMGAGKTTVGRLLAKALGLPFVDLDELIE--QRAGMSIPEIFAEEGEEGFRELERE---VLLLLLTKE-NAV--   72 (154)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCEEECCHHHH--HHHCCCHHHHHHHCCHHHHHHHHHH---HHHHHHCCC-CEE--
T ss_conf             98998899998899999999997989796859999--9949999999987493878999999---999985689-859--


Q ss_pred             ECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             63627730266655433588887653124660489974489999973001113202311111577767899999997898
Q gi|254780877|r  277 IDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKER  356 (853)
Q Consensus       277 ide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~  356 (853)
                             |..|++- -++-.|+  ..|....+-+-=-+.+++..+.+..++  .|   |+. ..++.++-..++..-++.
T Consensus        73 -------Is~GGG~-v~~~~~~--~~l~~~~~vI~L~~~~~~l~~Rl~~~~--~R---Pll-~~~~~~~l~~l~~~R~~~  136 (154)
T cd00464          73 -------IATGGGA-VLREENR--RLLLENGIVVWLDASPEELLERLARDK--TR---PLL-QDEDPERLRELLEEREPL  136 (154)
T ss_pred             -------EECCCCC-CCCHHHH--HHHHHCCEEEEEECCHHHHHHHHHCCC--CC---CCC-CCCCHHHHHHHHHHHHHH
T ss_conf             -------9738973-3689999--999957908999579999999960799--99---988-899999999999999999


Q ss_pred             HHHHCCCCC
Q ss_conf             654149610
Q gi|254780877|r  357 YEQHHKVRI  365 (853)
Q Consensus       357 yE~~H~V~i  365 (853)
                      |++.-.+.+
T Consensus       137 Y~~~Ad~~i  145 (154)
T cd00464         137 YREVADLTI  145 (154)
T ss_pred             HHHHCCEEE
T ss_conf             998799999


No 428
>pfam01583 APS_kinase Adenylylsulphate kinase. Enzyme that catalyses the phosphorylation of adenylylsulphate to 3'-phosphoadenylylsulfate. This domain contains an ATP binding P-loop motif.
Probab=96.44  E-value=0.0038  Score=44.56  Aligned_cols=40  Identities=28%  Similarity=0.418  Sum_probs=35.1

Q ss_pred             EEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHC
Q ss_conf             2898726786168899999998723776530022447740
Q gi|254780877|r  599 GSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYM  638 (853)
Q Consensus       599 ~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~  638 (853)
                      .++.|+|.||.|||.||++|.+.|+....+.+.+|+-++-
T Consensus         3 ~viW~TGLsGsGKTTlA~~l~~~L~~~~~~~~~LDGD~~R   42 (157)
T pfam01583         3 CTVWFTGLSGSGKSTIANALERKLFAQGISVYVLDGDNVR   42 (157)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECCHHHH
T ss_conf             8999889899999999999999999759977997688775


No 429
>PRK05541 adenylylsulfate kinase; Provisional
Probab=96.41  E-value=0.0043  Score=44.07  Aligned_cols=44  Identities=27%  Similarity=0.282  Sum_probs=37.9

Q ss_pred             CCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCC
Q ss_conf             665128987267861688999999987237765300224477403
Q gi|254780877|r  595 QRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYME  639 (853)
Q Consensus       595 ~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e  639 (853)
                      ++|. ++.|+|.||+|||.+|++|...|+....+.+.+|+-++-+
T Consensus         5 ~kg~-viW~TGLsGSGKTTiA~~l~~~L~~~g~~~~~LDGD~lR~   48 (176)
T PRK05541          5 PNGY-VIWITGLAGSGKTTIAKALYERLKLKYSNVIYLDGDELRE   48 (176)
T ss_pred             CCCE-EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECCHHHHH
T ss_conf             8867-9997899999899999999999997599779988689998


No 430
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=96.37  E-value=0.11  Score=32.77  Aligned_cols=113  Identities=19%  Similarity=0.325  Sum_probs=68.2

Q ss_pred             HHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHH
Q ss_conf             89999999633677786689528874077799999998734899844457437887313542174542024545899999
Q gi|254780877|r  185 DEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLC  264 (853)
Q Consensus       185 ~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~  264 (853)
                      .++...++..- +.+.|.++.|..|.|||++...|+..|-..        -||+.+.=           ..|=       
T Consensus       147 ~~~~~fL~~aV-~~r~NilI~G~TgSGKTTll~aL~~~ip~~--------eRiitIED-----------t~EL-------  199 (332)
T PRK13900        147 KKIKEFLEHAV-ISKKNIIISGGTSTGKTTFTNAALREIPAI--------ERLITVED-----------AREI-------  199 (332)
T ss_pred             HHHHHHHHHHH-HCCCCEEEECCCCCCHHHHHHHHHHCCCCC--------CCEEEECC-----------CHHH-------
T ss_conf             57999999998-648719998888988999999998358953--------53566314-----------0663-------


Q ss_pred             HHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCCHH
Q ss_conf             98607997699963627730266655433588887653124660489974489999973001113202311111577767
Q gi|254780877|r  265 EIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPTVT  344 (853)
Q Consensus       265 ~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~  344 (853)
                      .+...+..+-|+..+      .|.+.+.++..++|+-+|                          --|-..|.|.|---.
T Consensus       200 ~l~~~pn~v~l~~~~------~~~g~~~vt~~~Ll~~aL--------------------------R~rPDRIivGEvRG~  247 (332)
T PRK13900        200 VLSSHPNRVHLLASK------GGQGRAKVTTQDLIEACL--------------------------RLRPDRIIVGELRGA  247 (332)
T ss_pred             CCCCCCCEEEEEECC------CCCCCCEECHHHHHHHHH--------------------------CCCCCEEEECCCCHH
T ss_conf             566688889999716------888866086999999975--------------------------689975844555719


Q ss_pred             HHHHHHHHHHHH
Q ss_conf             899999997898
Q gi|254780877|r  345 DTISILRGLKER  356 (853)
Q Consensus       345 ~t~~iL~gl~~~  356 (853)
                      ++..+|+.+..-
T Consensus       248 EA~~~l~A~nTG  259 (332)
T PRK13900        248 EAFSFLRAINTG  259 (332)
T ss_pred             HHHHHHHHHHCC
T ss_conf             999999999769


No 431
>PRK08506 replicative DNA helicase; Provisional
Probab=96.37  E-value=0.12  Score=32.42  Aligned_cols=81  Identities=19%  Similarity=0.351  Sum_probs=47.4

Q ss_pred             CHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCCEE-EECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEE
Q ss_conf             107886443569987298533333578999999963367778668-9528874077799999998734899844457437
Q gi|254780877|r  159 DALKKYCRDLTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNNPV-LIGDPGVGKTAIIEGLASRIINGDIPESLKGKRL  237 (853)
Q Consensus       159 ~~L~ky~~DLTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n~~-lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i  237 (853)
                      +.+..+-..+-+....|.- .+.|=..-...+=.++..-.+.+-+ +-|-||+||||++-.+|..++....|     .-+
T Consensus       153 ~~~~~~~~~i~~~~~~~~~-~~~Gi~TGf~~LD~~t~Gl~~gdLiIIAARPsmGKTAfAlniA~~~a~~~~~-----V~~  226 (473)
T PRK08506        153 EVIKSTMEHIKKQKRLGNK-DIIGLDTGFKQLNKMTKGFNKGDLIIIAARPSMGKTTLVLNMVLKALNQGKG-----VAF  226 (473)
T ss_pred             HHHHHHHHHHHHHHHCCCC-CCCCCCCCHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCC-----EEE
T ss_conf             9999999999999855899-8534778808788872699856279995079986789999999999965996-----589


Q ss_pred             EEEEHHHH
Q ss_conf             88731354
Q gi|254780877|r  238 MALDMGAL  245 (853)
Q Consensus       238 ~~ld~~~l  245 (853)
                      |||.|+.-
T Consensus       227 FSLEMs~~  234 (473)
T PRK08506        227 FSLEMPAE  234 (473)
T ss_pred             EECCCCHH
T ss_conf             82247999


No 432
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=96.32  E-value=0.0095  Score=41.31  Aligned_cols=26  Identities=27%  Similarity=0.254  Sum_probs=15.9

Q ss_pred             EEEEEECCCCHHHHHHHHHHHHHHCC
Q ss_conf             28987267861688999999987237
Q gi|254780877|r  599 GSFMFLGPTGVGKTELVKSLARLLFD  624 (853)
Q Consensus       599 ~~flf~GptGvGKTelak~la~~lf~  624 (853)
                      .++++.+|||.|||..+-..+..++.
T Consensus        25 ~~~~i~~~tGsGKT~~~~~~~~~~~~   50 (201)
T smart00487       25 RDVILAAPTGSGKTLAALLPALEALK   50 (201)
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             98899899996099999999999863


No 433
>KOG3347 consensus
Probab=96.26  E-value=0.0062  Score=42.82  Aligned_cols=137  Identities=20%  Similarity=0.411  Sum_probs=74.7

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHH
Q ss_conf             89872678616889999999872377653002244774034532013047711203566774211322156410220214
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVVLFDEI  679 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVil~DEi  679 (853)
                      ..|.+|.+|+|||.+|.+||+.+     .+--|+||.|.....         =|-||||+           |---+||| 
T Consensus         9 NILvtGTPG~GKstl~~~lae~~-----~~~~i~isd~vkEn~---------l~~gyDE~-----------y~c~i~DE-   62 (176)
T KOG3347           9 NILVTGTPGTGKSTLAERLAEKT-----GLEYIEISDLVKENN---------LYEGYDEE-----------YKCHILDE-   62 (176)
T ss_pred             CEEEECCCCCCCHHHHHHHHHHH-----CCCEEEHHHHHHHHC---------CHHCCCCC-----------CCCCCCCH-
T ss_conf             87986799988025999999973-----985674556776611---------02102322-----------36754567-


Q ss_pred             HHCCHHHHHHHHH-HHHCCEEECCCCCEE---ECCCCEEEECCC---HHHHHHHCCH--H--------HHHHHHHHHHHH
Q ss_conf             4149899999999-840457887999778---303315595485---1268764032--6--------799999999986
Q gi|254780877|r  680 EKAHSDVHNILLQ-VLDDGRLTDSQGRTV---DFRNTLIIMTSN---LGAEYLIEDG--D--------SVHDKVMGIVRS  742 (853)
Q Consensus       680 EKah~~v~~~llq-ild~G~ltd~~G~~v---~f~n~iii~TsN---~G~~~~~~~~--~--------~~~~~~~~~l~~  742 (853)
                          ..|++-|-. +...|.+.|-+|--.   -.=+.++++|+-   +=.+.-...+  .        ++-..+.++.+.
T Consensus        63 ----dkv~D~Le~~m~~Gg~IVDyHgCd~FperwfdlVvVLr~~~s~LY~RL~sRgY~e~Ki~eNiecEIfgv~~eea~e  138 (176)
T KOG3347          63 ----DKVLDELEPLMIEGGNIVDYHGCDFFPERWFDLVVVLRTPNSVLYDRLKSRGYSEKKIKENIECEIFGVVLEEARE  138 (176)
T ss_pred             ----HHHHHHHHHHHHCCCCEEEECCCCCCCHHHEEEEEEEECCCHHHHHHHHHCCCCHHHHHHHCCHHHHHHHHHHHHH
T ss_conf             ----8999888898756884886005676501135579999468459999999758888887651015899999999998


Q ss_pred             HCCHHHHCCCCCEEECCCCCHHHHHHHHHH
Q ss_conf             288577266681586288998999999999
Q gi|254780877|r  743 AFKPEFLNRLDEIILFEKLRKEDMAKIVRI  772 (853)
Q Consensus       743 ~f~peflnRid~iv~F~~l~~~~~~~i~~~  772 (853)
                      .|.|.      =++-...=+.+++..-+..
T Consensus       139 Sy~~~------iV~eL~s~~~Eem~~ni~r  162 (176)
T KOG3347         139 SYSPK------IVVELQSETKEEMESNISR  162 (176)
T ss_pred             HCCCC------CEEECCCCCHHHHHHHHHH
T ss_conf             71874------2133476778999998999


No 434
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=96.26  E-value=0.0085  Score=41.68  Aligned_cols=180  Identities=19%  Similarity=0.352  Sum_probs=112.2

Q ss_pred             HHHHHCC--CCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCCH------------H
Q ss_conf             9996336--7778668952887407779999999873489984445743788731354217454202------------4
Q gi|254780877|r  190 AIQVLSR--RTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGE------------F  255 (853)
Q Consensus       190 ~~~iL~r--~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~------------~  255 (853)
                      +-++|..  =..+-.++=||||+||+++.=-+|.++++..        +++.+.---=..-.+.|.+            -
T Consensus        82 ldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~--------~vLYVsGEES~~QiklRA~RL~~~~~~l~l~a  153 (456)
T COG1066          82 LDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG--------KVLYVSGEESLQQIKLRADRLGLPTNNLYLLA  153 (456)
T ss_pred             HHHHHCCCCCCCCEEEECCCCCCCHHHHHHHHHHHHHHCC--------CEEEEECCCCHHHHHHHHHHHCCCCCCEEEEH
T ss_conf             8765367723661799736898779899999999987059--------57999677678999999998289964557741


Q ss_pred             HHHHHHHHHHHHHCCCCEEEEECCHHHHCCCC--CCCCCCC-----HHHHHHHHHCCCCE-EEEEEECHHHHHHHHHCCH
Q ss_conf             54589999998607997699963627730266--6554335-----88887653124660-4899744899999730011
Q gi|254780877|r  256 EERLKSLLCEIRSEDGEIILFIDELHVLVGAG--KTDGAMD-----ASNLLKPSLARGEL-HCIGATTLDEYRKYIEKDP  327 (853)
Q Consensus       256 e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG--~~~g~~D-----aan~LKP~LarG~l-~~IgaTT~~Eyrk~iEkD~  327 (853)
                      |-.+..|+.++.+. .+-++.||-|+|+.-..  ++.||+.     ++.+..=+=.+|-- =++|         |+.||+
T Consensus       154 Et~~e~I~~~l~~~-~p~lvVIDSIQT~~s~~~~SapGsVsQVRe~t~~L~~~AK~~~i~~fiVG---------HVTKeG  223 (456)
T COG1066         154 ETNLEDIIAELEQE-KPDLVVIDSIQTLYSEEITSAPGSVSQVREVAAELMRLAKTKNIAIFIVG---------HVTKEG  223 (456)
T ss_pred             HCCHHHHHHHHHHC-CCCEEEEECCCEECCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEEE---------EECCCC
T ss_conf             12899999999854-99789996541230263357998589999999999999987597399998---------882466


Q ss_pred             HH------HHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHHHCCCCCCH
Q ss_conf             13------20231111157776789999999789865414961---01589999986333202457674
Q gi|254780877|r  328 AL------ARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVR---ISDSALVSAAVLSNRYITDRFLP  387 (853)
Q Consensus       328 Al------~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~---i~d~al~~av~ls~rYi~~r~lP  387 (853)
                      ++      +---..|.-=|-+....+.|||+.|-||.....+-   .+++-|....+-|.-|+..|.-+
T Consensus       224 ~IAGPrvLEHmVDtVlyFEGd~~~~~RiLR~vKNRFG~t~EiGvFeM~~~GL~eV~npS~lFL~er~~~  292 (456)
T COG1066         224 AIAGPRVLEHMVDTVLYFEGDRHSRYRILRSVKNRFGATNELGVFEMTENGLREVSNPSALFLSERGEQ  292 (456)
T ss_pred             CCCCCHHEEEEEEEEEEEECCCCCCEEEEEHHCCCCCCCCCEEEEEEECCCEEEECCCHHHHHHCCCCC
T ss_conf             326840043653689998305777556500321367765532688984388468038278674226778


No 435
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN; InterPro: IPR013462    The GvpN protein is associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy , . It belongs to a larger family of ATPases .; GO: 0000166 nucleotide binding, 0005524 ATP binding, 0031412 gas vesicle organization and biogenesis, 0031411 gas vesicle.
Probab=96.26  E-value=0.014  Score=39.93  Aligned_cols=137  Identities=26%  Similarity=0.341  Sum_probs=91.9

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHH------HCCCCCHHHCCCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHHHHH------
Q ss_conf             66895288740777999999987------348998444574378873135421745420245458999999860------
Q gi|254780877|r  201 NPVLIGDPGVGKTAIIEGLASRI------INGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSLLCEIRS------  268 (853)
Q Consensus       201 n~~lvGe~GvGKtaive~la~~i------~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~~~~------  268 (853)
                      .+=|.||+|.|||+++-.+|...      +.|+       ..+-+=|+=.=.+|..++-+.-+=+.++.+.=..      
T Consensus        23 PvHl~GPaG~GKT~LA~hvA~~r~RPV~l~~Gd-------~eL~~~DLvG~~~g~~~~kv~DqfihnV~K~~d~~~~~W~   95 (265)
T TIGR02640        23 PVHLRGPAGTGKTTLAMHVARKRDRPVVLINGD-------AELTTSDLVGSYAGYTRKKVVDQFIHNVVKLEDIVRQNWV   95 (265)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHCCCCEEEEECC-------CCCCCCCCCCCCCCCEEEEEEECCEEEEECCCCCCCCCCC
T ss_conf             667447888556899999997368968998658-------2326544231546752222320121113425122002667


Q ss_pred             --------CCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCC------------------CEEEEEEECHHHHHHH
Q ss_conf             --------79976999636277302666554335888876531246------------------6048997448999997
Q gi|254780877|r  269 --------EDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARG------------------ELHCIGATTLDEYRKY  322 (853)
Q Consensus       269 --------~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG------------------~l~~IgaTT~~Eyrk~  322 (853)
                              .+| -=|.-||+-      +|-  --+-|+|-..|..|                  ++|+|=+.=|.||-=-
T Consensus        96 D~rLt~Av~eG-~TLVYdEF~------Rsk--P~~nNVLLSvlEE~vL~LPg~~~~~~Yv~VhP~FR~IfTSNp~EYAGV  166 (265)
T TIGR02640        96 DNRLTLAVREG-FTLVYDEFT------RSK--PETNNVLLSVLEEGVLELPGKRGESRYVDVHPEFRVIFTSNPVEYAGV  166 (265)
T ss_pred             CCHHHHHHHCC-CEEEECCCC------CCC--CHHHHHHHHHHHHHHHCCCCCCCCCCCEEECCCCCEEECCCCCCCCCC
T ss_conf             83578997569-727664757------886--204565675555232158887877872257887024631487010576


Q ss_pred             HHCCHHHHHCCCEEECCCCCHHHHHHHHHHH
Q ss_conf             3001113202311111577767899999997
Q gi|254780877|r  323 IEKDPALARRFQSLLVGEPTVTDTISILRGL  353 (853)
Q Consensus       323 iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl  353 (853)
                      .+.--||.-|.-.|.+.+|+.+.-++|++..
T Consensus       167 h~~QDALlDRL~ti~~D~~D~~~e~ai~~~~  197 (265)
T TIGR02640       167 HETQDALLDRLVTISMDYPDEDTETAILRAK  197 (265)
T ss_pred             CCHHHHHHHHHCCCCCCCCCHHHHHHHHHHH
T ss_conf             7716677664400457854447899999986


No 436
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=96.26  E-value=0.059  Score=34.85  Aligned_cols=27  Identities=30%  Similarity=0.367  Sum_probs=20.7

Q ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHHC
Q ss_conf             786689528874077799999998734
Q gi|254780877|r  199 KNNPVLIGDPGVGKTAIIEGLASRIIN  225 (853)
Q Consensus       199 k~n~~lvGe~GvGKtaive~la~~i~~  225 (853)
                      .+-+++||--|+|||+-+--||..+.+
T Consensus        97 P~Vim~vGlqGsGKTTT~aKLA~~~kk  123 (433)
T PRK00771         97 PQTILLVGLQGSGKTTTAAKLARYFQK  123 (433)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             858999737889789999999999997


No 437
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=96.24  E-value=0.13  Score=31.93  Aligned_cols=107  Identities=25%  Similarity=0.413  Sum_probs=67.4

Q ss_pred             CCCEEEEEECCCCHHHHHHHHHHHHHHCCCCC---CCCCCCHHHHCCCCCCCHH-HCCCCHHCC------CCCCC-----
Q ss_conf             65128987267861688999999987237765---3002244774034532013-047711203------56677-----
Q gi|254780877|r  596 RPMGSFMFLGPTGVGKTELVKSLARLLFDDEN---SMIRIDMSEYMEKHSVSRL-IGSPPGYVG------YEEGG-----  660 (853)
Q Consensus       596 ~p~~~flf~GptGvGKTelak~la~~lf~~~~---~lir~dMsey~e~~~vs~L-iGappGYvG------~~~gg-----  660 (853)
                      -| -.+||.||.|+||+.+|..+|+.|+-...   .--.-.+...      -.+ -|+-|.|.-      .++.|     
T Consensus        20 l~-HA~L~~Gp~G~Gk~~~A~~~A~~llC~~~~~~~~~Cg~C~sC------~~~~~g~HPD~~~i~p~~~~~~~g~~~~~   92 (325)
T PRK08699         20 RP-NAWLFVGKKGTGKTAFARFAAKALLCETPAPGCKPCGECMSC------HLFGQGSHPDFYEITPLADEPENGRKLLQ   92 (325)
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCHHH------HHHHCCCCCCEEEEECCCCCCCCCCCCCC
T ss_conf             01-179757999978999999999998289998889989888889------99865999996885134453001665566


Q ss_pred             CCCHHHHC-------C----CCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCH
Q ss_conf             42113221-------5----641022021441498999999998404578879997783033155954851
Q gi|254780877|r  661 ALTEAVRR-------H----PYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNL  720 (853)
Q Consensus       661 ~Lte~vr~-------~----P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~  720 (853)
                      +-++.||.       .    ++-|+++|+.|+.+..-.|.||..|+|--           .||+||++|+-
T Consensus        93 I~idqiR~l~~~~~~~~~~~~~kV~ii~~ae~mn~~aaNaLLK~LEEPp-----------~~~~fiL~t~~  152 (325)
T PRK08699         93 IKIDAVREIIDNVYLTSVRGGLRVILIHPAESMNVQAANSLLKVLEEPP-----------PQVVFLLVSHA  152 (325)
T ss_pred             CCHHHHHHHHHHHCCCCCCCCCEEEEECCHHHHCHHHHHHHHHHHCCCC-----------CCEEEEEEECC
T ss_conf             7699999999997108656894699985777758999999999841788-----------88489998798


No 438
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=96.24  E-value=0.02  Score=38.62  Aligned_cols=90  Identities=23%  Similarity=0.389  Sum_probs=50.2

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCC--CCCCCCC-CHHHHCC--CCCCCHHHCCCCHHCCCCCCCCCCHHHHCCCCCEE
Q ss_conf             89872678616889999999872377--6530022-4477403--45320130477112035667742113221564102
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDD--ENSMIRI-DMSEYME--KHSVSRLIGSPPGYVGYEEGGALTEAVRRHPYQVV  674 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~--~~~lir~-dMsey~e--~~~vs~LiGappGYvG~~~gg~Lte~vr~~P~sVi  674 (853)
                      +++..|+||+|||.+.++|..++...  +..++.+ |-.|.+=  +|.+ .|..+  +.|...  -.|..++|.+|.-||
T Consensus       146 nilVsGgTGSGKTTllnaL~~~i~~~~p~eRivtIEDt~EL~~~~~n~v-~l~~~--~~v~~~--~Ll~~aLRmrPDRIi  220 (323)
T PRK13833        146 NIVISGGTGSGKTTLANAVIAEIVASAPEDRLVILEDTAEIQCAAENAV-LLHTS--DTVDMA--RLLKSTMRLRPDRII  220 (323)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCHHEEEEECCCCCCCCCCCCEE-EEECC--CCCCHH--HHHHHHHCCCCCEEE
T ss_conf             6899917777568999999986402893233999457501146788777-87516--986999--999997446997588


Q ss_pred             EEHHHHHCCHHHHHHHHHHHHCCE
Q ss_conf             202144149899999999840457
Q gi|254780877|r  675 LFDEIEKAHSDVHNILLQVLDDGR  698 (853)
Q Consensus       675 l~DEiEKah~~v~~~llqild~G~  698 (853)
                      + -|+-  .++.| -|||.+..|+
T Consensus       221 v-GEvR--G~EA~-~~L~A~nTGH  240 (323)
T PRK13833        221 V-GEVR--DGAAL-TLLKAWNTGH  240 (323)
T ss_pred             E-ECCC--CHHHH-HHHHHHHCCC
T ss_conf             8-3006--59999-9999982799


No 439
>pfam00448 SRP54 SRP54-type protein, GTPase domain. This family includes relatives of the G-domain of the SRP54 family of proteins.
Probab=96.24  E-value=0.0048  Score=43.69  Aligned_cols=113  Identities=19%  Similarity=0.320  Sum_probs=52.5

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCC--CCCCCCH---HHHCCCCCCCHHHCCCCHHCCCCCC---CCCCHHH---HC
Q ss_conf             8987267861688999999987237765--3002244---7740345320130477112035667---7421132---21
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDEN--SMIRIDM---SEYMEKHSVSRLIGSPPGYVGYEEG---GALTEAV---RR  668 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~--~lir~dM---sey~e~~~vs~LiGappGYvG~~~g---g~Lte~v---r~  668 (853)
                      +++|+||||||||.++-.||..+-....  .+|..|-   .-.-+=-..++++|.|- |..+...   -.+-+++   +.
T Consensus         3 vi~lvGptGvGKTTTiaKLAa~~~~~~~~V~lit~Dt~R~gA~eQL~~ya~~l~v~~-~~~~~~~d~~~~~~~~l~~~~~   81 (196)
T pfam00448         3 VILLVGLQGSGKTTTIAKLAAYLKKQGKKVLLVAADTFRAAAIEQLKQLAERLGVPV-FGSGTGSDPAAVAFDAVEKAKA   81 (196)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHHHHCCCEE-EECCCCCCHHHHHHHHHHHHHH
T ss_conf             999989999988999999999999779928999758776889999999998639817-8148777878999999999884


Q ss_pred             CCCCEEEEHHHHHCCHH--HHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHH
Q ss_conf             56410220214414989--99999998404578879997783033155954851268
Q gi|254780877|r  669 HPYQVVLFDEIEKAHSD--VHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAE  723 (853)
Q Consensus       669 ~P~sVil~DEiEKah~~--v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~  723 (853)
                      +.+.+||.|--=..|.+  -..-+-++++..          .--++++++.++.|.+
T Consensus        82 ~~~D~IlIDTaGr~~~d~~~~~el~~~~~~~----------~~~~~~LVl~a~~~~~  128 (196)
T pfam00448        82 ENYDVVLVDTAGRLQNDKNLMDELKKIKRVI----------APDEVLLVLDATTGQN  128 (196)
T ss_pred             CCCCEEEEECCCCCCCCHHHHHHHHHHHHHC----------CCCCEEEEEECCCCCC
T ss_conf             6899999989998747677899999998522----------8730289985677821


No 440
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=96.24  E-value=0.016  Score=39.46  Aligned_cols=128  Identities=19%  Similarity=0.334  Sum_probs=59.4

Q ss_pred             HHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHH--------HHC---C------C
Q ss_conf             9999996336777866895288740777999999987348998444574378873135--------421---7------4
Q gi|254780877|r  187 MRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGA--------LIA---G------A  249 (853)
Q Consensus       187 I~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~--------l~a---g------~  249 (853)
                      ..++++.|..  .+.+||+|+||.|||+-|-   +.+....   .+.+ +|+.+-.-.        =||   |      -
T Consensus        10 ~~~i~~~l~~--~~~~vl~a~tGsGKtTqvP---~~ll~~~---~~~g-~I~~~qPRR~AA~s~A~RvA~e~~e~~G~~V   80 (812)
T PRK11664         10 LPELLTALKT--APQVLLKAPTGAGKSTWLP---LQLLQQG---GING-KIIMLEPRRLAARNVAQRLAEQLGEKPGETV   80 (812)
T ss_pred             HHHHHHHHHH--CCEEEEEECCCCCHHHHHH---HHHHHCC---CCCC-CEEEECCHHHHHHHHHHHHHHHHCCCCCCEE
T ss_conf             9999999997--9979999089999899999---9999646---8899-3899388399999999999997299999867


Q ss_pred             CCCCHHHHHHH-----------HHHHHHHHC---CCCEEEEECCHHHHCCCCCCCCCCCHH-HHHHHHH--CCCCEEEEE
Q ss_conf             54202454589-----------999998607---997699963627730266655433588-8876531--246604899
Q gi|254780877|r  250 KFRGEFEERLK-----------SLLCEIRSE---DGEIILFIDELHVLVGAGKTDGAMDAS-NLLKPSL--ARGELHCIG  312 (853)
Q Consensus       250 ~~rg~~e~r~~-----------~i~~~~~~~---~~~~ilfide~h~~~gaG~~~g~~Daa-n~LKP~L--arG~l~~Ig  312 (853)
                      .|+=-||.+..           -++.++...   .+--.+.|||+|-=     +- ..|.. -+++-..  -|-+|++|-
T Consensus        81 GY~vR~e~~~s~~Tri~~~T~GiLlr~l~~dp~L~~~~~vI~DE~HER-----~l-~~Dl~l~l~~~~~~~~r~dLklvv  154 (812)
T PRK11664         81 GYRMRAESKVGPNTRLEVVTEGILTRMIQRDPELSGVGLVILDEFHER-----SL-QADLALALLLDVQQGLRDDLKLLI  154 (812)
T ss_pred             EEEECCCCCCCCCCEEEEECHHHHHHHHHHCCCCCCCCEEEEECCCCC-----CH-HHHHHHHHHHHHHHHHCCCCEEEE
T ss_conf             578256778899857999755899999724977677888999575468-----75-189999999999986189828999


Q ss_pred             EE---CHHHHHHHHHCCHHH
Q ss_conf             74---489999973001113
Q gi|254780877|r  313 AT---TLDEYRKYIEKDPAL  329 (853)
Q Consensus       313 aT---T~~Eyrk~iEkD~Al  329 (853)
                      .+   ..+-|.+||..-+.+
T Consensus       155 MSATld~~~~~~~~~~~~~i  174 (812)
T PRK11664        155 MSATLDNDRLQQLLPDAPYI  174 (812)
T ss_pred             ECCCCCHHHHHHHCCCCCEE
T ss_conf             84788848899758999889


No 441
>PRK04841 transcriptional regulator MalT; Provisional
Probab=96.23  E-value=0.058  Score=34.92  Aligned_cols=39  Identities=18%  Similarity=0.194  Sum_probs=23.1

Q ss_pred             CCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHH
Q ss_conf             333357899999996336777866895288740777999999
Q gi|254780877|r  179 PVIGRDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLA  220 (853)
Q Consensus       179 PVIGRe~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la  220 (853)
                      .+|-|+.=++++-+...+|   =.++.+++|-|||+++-.++
T Consensus        15 ~~v~R~rL~~~L~~~~~~~---l~lv~APaG~GKTtl~a~w~   53 (903)
T PRK04841         15 HTVVRERLLAKLSGANNYR---LVLVRSPAGYGKTTLASQWA   53 (903)
T ss_pred             CCCCCHHHHHHHHHHCCCC---EEEEECCCCCCHHHHHHHHH
T ss_conf             8255477999998515899---79997799988999999998


No 442
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=96.23  E-value=0.085  Score=33.56  Aligned_cols=29  Identities=21%  Similarity=0.299  Sum_probs=19.0

Q ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHCC
Q ss_conf             77866895288740777999999987348
Q gi|254780877|r  198 TKNNPVLIGDPGVGKTAIIEGLASRIING  226 (853)
Q Consensus       198 ~k~n~~lvGe~GvGKtaive~la~~i~~~  226 (853)
                      ..+-.++.|+||.|||.+...+++-..++
T Consensus        23 ~gs~~li~G~~GtGKsi~~~~~~~~~l~~   51 (230)
T PRK08533         23 FGSIILIEGDESTGKSILSQRLAYGFLQN   51 (230)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf             98489998689987899999999999878


No 443
>PRK07952 DNA replication protein DnaC; Validated
Probab=96.20  E-value=0.019  Score=38.88  Aligned_cols=70  Identities=24%  Similarity=0.543  Sum_probs=49.2

Q ss_pred             CCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCC--CCCHHHHHHHHHHHHHHHCCCCEEEEE
Q ss_conf             866895288740777999999987348998444574378873135421745--420245458999999860799769996
Q gi|254780877|r  200 NNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAK--FRGEFEERLKSLLCEIRSEDGEIILFI  277 (853)
Q Consensus       200 ~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~--~rg~~e~r~~~i~~~~~~~~~~~ilfi  277 (853)
                      .+-++.|+||+|||-++-.+|..+..       +++.|+-..+..|+.--+  | ++=+..-..+++.+.+.+   .|.|
T Consensus        97 ~gLlF~G~~GTGKThLA~aIan~Li~-------~G~sVlf~t~~dLl~~lr~t~-~~~~~~e~~~l~~l~~~d---LLIi  165 (242)
T PRK07952         97 ASFIFSGKPGTGKNHLAAAICNELLL-------RGKSVLIITVADIMSAMKDTF-RNSETSEEQLLNDLSNVD---LLVI  165 (242)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHH-------CCCEEEEEEHHHHHHHHHHHH-HCCCCCHHHHHHHHHCCC---EEEE
T ss_conf             71799789999789999999999998-------799499977999999999998-068756999999863189---8987


Q ss_pred             CCH
Q ss_conf             362
Q gi|254780877|r  278 DEL  280 (853)
Q Consensus       278 de~  280 (853)
                      ||+
T Consensus       166 Ddl  168 (242)
T PRK07952        166 DEI  168 (242)
T ss_pred             ECC
T ss_conf             301


No 444
>KOG1514 consensus
Probab=96.19  E-value=0.14  Score=31.73  Aligned_cols=180  Identities=19%  Similarity=0.267  Sum_probs=104.4

Q ss_pred             CHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHH-----CCCCCCCEEEECCCCCCHHHHHHHHHHHH----HCCCCC
Q ss_conf             107886443569987298533333578999999963-----36777866895288740777999999987----348998
Q gi|254780877|r  159 DALKKYCRDLTEEARNGKLDPVIGRDDEMRRAIQVL-----SRRTKNNPVLIGDPGVGKTAIIEGLASRI----INGDIP  229 (853)
Q Consensus       159 ~~L~ky~~DLTe~Ar~GkLDPVIGRe~EI~~~~~iL-----~r~~k~n~~lvGe~GvGKtaive~la~~i----~~~~vp  229 (853)
                      ..|+++--.|.-.+....   +=|||.|-.++-.-+     .+-.-.-.-+-|-||+|||+.|.++..-+    .++++|
T Consensus       380 S~l~~ara~Lhls~vp~s---LpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p  456 (767)
T KOG1514         380 SELSKARARLHLSAVPES---LPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELP  456 (767)
T ss_pred             HHHHHHHHHHHHHHCCCC---CCCHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCEEHHHHHHHHHHHHHHHCCCC
T ss_conf             378999998677745421---44146889999999997627777740799846999883212999999999877505789


Q ss_pred             HHHCCCEEEEEEHHHHHC-------------CCCCCCHHHHHHHHHHHHHH---HCCCCEEEEECCHHHHCCCCCCCCCC
Q ss_conf             444574378873135421-------------74542024545899999986---07997699963627730266655433
Q gi|254780877|r  230 ESLKGKRLMALDMGALIA-------------GAKFRGEFEERLKSLLCEIR---SEDGEIILFIDELHVLVGAGKTDGAM  293 (853)
Q Consensus       230 ~~l~~~~i~~ld~~~l~a-------------g~~~rg~~e~r~~~i~~~~~---~~~~~~ilfide~h~~~gaG~~~g~~  293 (853)
                      ++.-    +++|...|..             |-+..+  ..-+..+-....   .....+++.|||+..|++  ..   -
T Consensus       457 ~f~y----veINgm~l~~~~~~Y~~I~~~lsg~~~~~--~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvt--r~---Q  525 (767)
T KOG1514         457 KFDY----VEINGLRLASPREIYEKIWEALSGERVTW--DAALEALNFRFTVPKPKRSTTVVLIDELDILVT--RS---Q  525 (767)
T ss_pred             CCCE----EEECCEEECCHHHHHHHHHHHCCCCCCCH--HHHHHHHHHHHCCCCCCCCCEEEEECCHHHHHC--CC---H
T ss_conf             8607----98714461588999999999755574307--788999986541678787877999635787735--20---9


Q ss_pred             C-HHHHHH-HHHCCCCEEEEEE-ECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHH
Q ss_conf             5-888876-5312466048997-448999997300111320231111157776789999999
Q gi|254780877|r  294 D-ASNLLK-PSLARGELHCIGA-TTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRG  352 (853)
Q Consensus       294 D-aan~LK-P~LarG~l~~Iga-TT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~g  352 (853)
                      | .=|+++ |++-...|-+||. -|.+==.+.+..-...-=-|+.|.-.+-+.++-.+|+..
T Consensus       526 dVlYn~fdWpt~~~sKLvvi~IaNTmdlPEr~l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~  587 (767)
T KOG1514         526 DVLYNIFDWPTLKNSKLVVIAIANTMDLPERLLMNRVSSRLGLTRICFQPYTHEQLQEIISA  587 (767)
T ss_pred             HHHHHHHCCCCCCCCCEEEEEECCCCCCHHHHHCCCHHHHCCCEEEECCCCCHHHHHHHHHH
T ss_conf             88977740776789866999951656477988543112330650551377889999999998


No 445
>PRK10490 sensor protein KdpD; Provisional
Probab=96.17  E-value=0.15  Score=31.65  Aligned_cols=89  Identities=15%  Similarity=0.146  Sum_probs=47.3

Q ss_pred             CCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             66681586288998999999999999999999857989999889999999708982206215799999873349999997
Q gi|254780877|r  750 NRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQRYIQNPLAERVL  829 (853)
Q Consensus       750 nRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~~~la~~il  829 (853)
                      .|++.=-.--.+...++..++...+..+...+..+.+.+.+.+.....        ..-+.    .|++-+.+.|.+.+-
T Consensus       725 sRle~G~l~l~~~~~~l~evv~~al~~~~~~~~~~~i~v~~~~~~~~v--------~~D~~----lleQVL~NLl~NAiK  792 (895)
T PRK10490        725 ARIQSGGFNLKKEWLTLEEVVGSALQMLEPGLSQHPINLSLPEPLTLI--------HVDGP----LFERVLINLLENAVK  792 (895)
T ss_pred             HHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEECCCCCEE--------EECHH----HHHHHHHHHHHHHHH
T ss_conf             876369976646420699999999999986612696799956987069--------87899----999999999999998


Q ss_pred             CCCCCCCCEEEEEE--ECCEEEEEE
Q ss_conf             08688978899999--899489897
Q gi|254780877|r  830 SQTISDGDSIEVFV--DDDNLNFRV  852 (853)
Q Consensus       830 ~~~~~~g~~i~i~~--~~~~~~~~~  852 (853)
                      ..  ++|..|.|..  +++.+.++|
T Consensus       793 yt--p~~~~I~v~a~~~~~~v~i~V  815 (895)
T PRK10490        793 YA--GAQAEIGIDAHVEGENLQLDV  815 (895)
T ss_pred             HC--CCCCEEEEEEEEECCEEEEEE
T ss_conf             58--999709999999799999999


No 446
>pfam00025 Arf ADP-ribosylation factor family. Pfam combines a number of different Prosite families together
Probab=96.16  E-value=0.017  Score=39.29  Aligned_cols=32  Identities=22%  Similarity=0.329  Sum_probs=22.0

Q ss_pred             HHHHHCCCCCCCEEEECCCCCCHHHHHHHHHH
Q ss_conf             99963367778668952887407779999999
Q gi|254780877|r  190 AIQVLSRRTKNNPVLIGDPGVGKTAIIEGLAS  221 (853)
Q Consensus       190 ~~~iL~r~~k~n~~lvGe~GvGKtaive~la~  221 (853)
                      +.+.+.+.++=.++++|++|||||+++..+..
T Consensus         5 ~~~~~~~~k~~Ki~llG~~~vGKTsll~~~~~   36 (174)
T pfam00025         5 LLKLLGLNKEMRILILGLDNAGKTTILYKLKL   36 (174)
T ss_pred             HHHHHCCCCEEEEEEECCCCCCHHHHHHHHHC
T ss_conf             99985789666999999999988999999954


No 447
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=96.15  E-value=0.1  Score=32.97  Aligned_cols=194  Identities=20%  Similarity=0.240  Sum_probs=88.1

Q ss_pred             EEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHH---HCCCCHH----CCCCCCCCCCHHHHCCCC
Q ss_conf             289872678616889999999872377653002244774034532013---0477112----035667742113221564
Q gi|254780877|r  599 GSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRL---IGSPPGY----VGYEEGGALTEAVRRHPY  671 (853)
Q Consensus       599 ~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~L---iGappGY----vG~~~gg~Lte~vr~~P~  671 (853)
                      |....+|+.|+|||.++|++...+-++....+.+|=.-.++.....++   ++++|-.    +..-.--.|-+.+.+.-+
T Consensus        52 g~~~vtGevGsGKTv~~Ral~~s~~~d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~al~~~g~r  131 (269)
T COG3267          52 GILAVTGEVGSGKTVLRRALLASLNEDQVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELAALVKKGKR  131 (269)
T ss_pred             CEEEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             55999744777636999999985578851799835763017889999999840583200688999999999999981788


Q ss_pred             -CEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHC
Q ss_conf             -1022021441498999999998404578879997783033155954851268764032679999999998628857726
Q gi|254780877|r  672 -QVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLN  750 (853)
Q Consensus       672 -sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~pefln  750 (853)
                       -|++.||-+--..+++..+.-.. ++. +|+.++   ++ ++.     +|...+....           +..---||--
T Consensus       132 ~v~l~vdEah~L~~~~le~Lrll~-nl~-~~~~~~---l~-ivL-----~Gqp~L~~~l-----------r~~~l~e~~~  189 (269)
T COG3267         132 PVVLMVDEAHDLNDSALEALRLLT-NLE-EDSSKL---LS-IVL-----IGQPKLRPRL-----------RLPVLRELEQ  189 (269)
T ss_pred             CEEEEEHHHHHHCHHHHHHHHHHH-HHC-CCCCCC---EE-EEE-----CCCCCCCHHH-----------CHHHHHHHHH
T ss_conf             737850167661754899999988-620-346672---11-455-----0780114354-----------4288985431


Q ss_pred             CCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             66815862889989999999999999999998579899998899999997089822062157999998733499999
Q gi|254780877|r  751 RLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFDDQVIDWLSCRGYDPSYGARPLKRVIQRYIQNPLAER  827 (853)
Q Consensus       751 Rid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~~~la~~  827 (853)
                      |++--+...|++.....--+...|+.-     ..+..+ ++++++.++..+.       |.+.|.|.......+-..
T Consensus       190 R~~ir~~l~P~~~~~t~~yl~~~Le~a-----~~~~~l-~~~~a~~~i~~~s-------qg~P~lin~~~~~Al~~a  253 (269)
T COG3267         190 RIDIRIELPPLTEAETGLYLRHRLEGA-----GLPEPL-FSDDALLLIHEAS-------QGIPRLINNLATLALDAA  253 (269)
T ss_pred             EEEEEEECCCCCHHHHHHHHHHHHHCC-----CCCCCC-CCHHHHHHHHHHH-------CCCHHHHHHHHHHHHHHH
T ss_conf             677899538867478999999998505-----899666-7705789999985-------255489999889999999


No 448
>pfam02562 PhoH PhoH-like protein. PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation.
Probab=96.15  E-value=0.013  Score=40.29  Aligned_cols=114  Identities=25%  Similarity=0.397  Sum_probs=60.4

Q ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCC--CCCCCCCHHHHCCCC-CCCHHH
Q ss_conf             59489999999999874101236566512898726786168899999998723776--530022447740345-320130
Q gi|254780877|r  571 IGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDE--NSMIRIDMSEYMEKH-SVSRLI  647 (853)
Q Consensus       571 ~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~--~~lir~dMsey~e~~-~vs~Li  647 (853)
                      ..|..+++.+.             +.++ +|++ ||+|+|||.+|-+.|-.+.-+.  +.++-      .-+. .+.+=+
T Consensus         7 ~~Q~~~~~~l~-------------~~~i-v~~~-GpAGtGKT~la~~~al~~l~~~~~~kiii------~Rp~v~~g~~i   65 (205)
T pfam02562         7 LGQKRYVEAIR-------------KNDI-VFGI-GPAGTGKTYLAVAAAVDALKDGKVKRIIL------TRPAVEAGEKL   65 (205)
T ss_pred             HHHHHHHHHHH-------------CCCE-EEEE-CCCCCCHHHHHHHHHHHHHHHCCCCEEEE------EECCCCCCCCC
T ss_conf             88999999971-------------7980-7998-99986099999999999997189437999------75771257754


Q ss_pred             CCCCHHCCCCCCCCCCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEEC---CCCCEEECCCCEEEEC
Q ss_conf             477112035667742113221564102202144149899999999840457887---9997783033155954
Q gi|254780877|r  648 GSPPGYVGYEEGGALTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTD---SQGRTVDFRNTLIIMT  717 (853)
Q Consensus       648 GappGYvG~~~gg~Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd---~~G~~v~f~n~iii~T  717 (853)
                      |.-|        |-+.|+  -.||..=++|.+++-...  +.+=.++++|.+.=   +.=|=-+|.||+||.-
T Consensus        66 GfLP--------G~~~eK--~~p~~~p~~d~l~~~~~~--~~~~~l~~~~~Ie~~pl~~iRGrTf~n~~iIvD  126 (205)
T pfam02562        66 GFLP--------GDLEEK--VDPYLRPLYDALYDMLGA--EKVEKLIERGVIEIAPLAYMRGRTLNDAFIILD  126 (205)
T ss_pred             CCCC--------CCHHHH--HHHHHHHHHHHHHHHHCH--HHHHHHHHCCCEEECCHHHHCCCCCCCCEEEEE
T ss_conf             5588--------978999--999999999999987289--999999975975661467655476256889997


No 449
>PRK12608 transcription termination factor Rho; Provisional
Probab=96.14  E-value=0.097  Score=33.10  Aligned_cols=122  Identities=23%  Similarity=0.444  Sum_probs=72.8

Q ss_pred             HHHHHHHCCCCC-CCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEE----------EH-----HHHHCCCCC
Q ss_conf             999996336777-86689528874077799999998734899844457437887----------31-----354217454
Q gi|254780877|r  188 RRAIQVLSRRTK-NNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMAL----------DM-----GALIAGAKF  251 (853)
Q Consensus       188 ~~~~~iL~r~~k-~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~l----------d~-----~~l~ag~~~  251 (853)
                      -|++..+|-=.| .-.++|.+|+.|||.+...+|+-|..+. |+    ..++-|          |+     +.++|.|.-
T Consensus       120 ~RiiDL~aPIGkGQRgLIVAPPkaGKT~LLq~IA~aI~~Nh-Pe----v~livLLIDERPEEVTdm~r~v~gEVvaSTfD  194 (379)
T PRK12608        120 MRVLDLVAPIGKGQRGLIVAPPRAGKTILLQQIAQAVAANH-PD----IHLMVLLIDERPEEVTDMKRSVKGEVYASTFD  194 (379)
T ss_pred             CCEEEEECCCCCCCCCEEECCCCCCHHHHHHHHHHHHHHCC-CC----CEEEEEECCCCCHHHHHHHHHCCEEEEEECCC
T ss_conf             11031004634574012745898657899999999998579-98----48999981689358888886237079997798


Q ss_pred             CCHHHHHHHH------HHHHHHHCCCCEEEEECCHH------HHCC--CCCC-CCCCCHHHHHHHHH---------CCCC
Q ss_conf             2024545899------99998607997699963627------7302--6665-54335888876531---------2466
Q gi|254780877|r  252 RGEFEERLKS------LLCEIRSEDGEIILFIDELH------VLVG--AGKT-DGAMDASNLLKPSL---------ARGE  307 (853)
Q Consensus       252 rg~~e~r~~~------i~~~~~~~~~~~ilfide~h------~~~g--aG~~-~g~~Daan~LKP~L---------arG~  307 (853)
                      +- -+++++.      .-+-+.+...+|++++|-|-      +.++  .|++ .|++|++-+-+|-.         .-|.
T Consensus       195 ~~-~~~h~~vAel~lerAkrlvE~G~dVvillDSiTRlaRAyn~~~~~sGr~lsgg~d~~al~~pk~~Fgaar~ie~gGS  273 (379)
T PRK12608        195 RP-YDRHIRVAELVLERAKRLVEEGKDVVILLDSLTRLARAYNSEVDSSGRTLSGGVDARALERPKRLFGAARKIEEGGS  273 (379)
T ss_pred             CC-HHHHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCC
T ss_conf             99-89999999999999999987699689996517788998753368888615778695675006898531257778866


Q ss_pred             EEEEEEEC
Q ss_conf             04899744
Q gi|254780877|r  308 LHCIGATT  315 (853)
Q Consensus       308 l~~IgaTT  315 (853)
                      |.+|++.-
T Consensus       274 lTiiaTaL  281 (379)
T PRK12608        274 LTILATAL  281 (379)
T ss_pred             CEEEEEEE
T ss_conf             32566663


No 450
>COG1485 Predicted ATPase [General function prediction only]
Probab=96.14  E-value=0.071  Score=34.18  Aligned_cols=89  Identities=27%  Similarity=0.384  Sum_probs=39.5

Q ss_pred             CCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEE----EE----EHHHHHCCCCCCCHHHHHHHHHHHHHHHCCC
Q ss_conf             866895288740777999999987348998444574378----87----3135421745420245458999999860799
Q gi|254780877|r  200 NNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLM----AL----DMGALIAGAKFRGEFEERLKSLLCEIRSEDG  271 (853)
Q Consensus       200 ~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~----~l----d~~~l~ag~~~rg~~e~r~~~i~~~~~~~~~  271 (853)
                      ...-|-|.=|+|||-+...+=..+--..      ..|+-    ..    ++-.+. |.+      .-+..+.+++.+.  
T Consensus        66 ~GlYl~GgVGrGKT~LMD~Fy~~lp~~~------k~R~HFh~FM~~vH~~l~~l~-g~~------dpl~~iA~~~~~~--  130 (367)
T COG1485          66 RGLYLWGGVGRGKTMLMDLFYESLPGER------KRRLHFHRFMARVHQRLHTLQ-GQT------DPLPPIADELAAE--  130 (367)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHCCCCC------CCCCCHHHHHHHHHHHHHHHC-CCC------CCCHHHHHHHHHC--
T ss_conf             3588889978649999999986587645------665507799999999999971-888------8657999999841--


Q ss_pred             CEEEEECCHHHH-CCCCCCCCCCCHHHHHHHHHCCCCE
Q ss_conf             769996362773-0266655433588887653124660
Q gi|254780877|r  272 EIILFIDELHVL-VGAGKTDGAMDASNLLKPSLARGEL  308 (853)
Q Consensus       272 ~~ilfide~h~~-~gaG~~~g~~Daan~LKP~LarG~l  308 (853)
                      --+|+|||+|.= ||     -+|=++-+|.-.+++|-.
T Consensus       131 ~~vLCfDEF~VtDI~-----DAMiL~rL~~~Lf~~GV~  163 (367)
T COG1485         131 TRVLCFDEFEVTDIA-----DAMILGRLLEALFARGVV  163 (367)
T ss_pred             CCEEEEEEEEECCHH-----HHHHHHHHHHHHHHCCCE
T ss_conf             788986303623757-----889999999999977968


No 451
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=96.13  E-value=0.024  Score=37.96  Aligned_cols=204  Identities=16%  Similarity=0.265  Sum_probs=116.9

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCC-------CCCCCCCHHHHCC
Q ss_conf             767459489999999999874101236566512898726786168899999998723776-------5300224477403
Q gi|254780877|r  567 SKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDE-------NSMIRIDMSEYME  639 (853)
Q Consensus       567 ~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~-------~~lir~dMsey~e  639 (853)
                      -+.+-+-++-.+.|..-+   ..|+.+.+. =+++.-.|.+|+|||.+.+.+-+.|-...       =.++-+|.=...+
T Consensus       266 pe~lpcRe~E~~~I~~Fi---e~~i~q~Gt-G~cLYISGVPGTGKTATV~eVIr~L~~~~~~~~lp~F~fVEINGMkLt~  341 (650)
T PTZ00112        266 PEYILGREKEAKEIRTFL---ETGIKQGGT-GQILYISGVPGTGKTATVYMVIKELQNKKLKGQLPWFNLFEINGVNLVH  341 (650)
T ss_pred             CCCCCCCHHHHHHHHHHH---HHHCCCCCC-CCEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEECCEECCC
T ss_conf             744777078999999999---864116886-6569997899998003699999999999970899981599973637798


Q ss_pred             CCCCC-----HHHCCCC-HHCCCCCCCCCCHH-HHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEECCCCCEEECCCC
Q ss_conf             45320-----1304771-12035667742113-22156410220214414989999999984045788799977830331
Q gi|254780877|r  640 KHSVS-----RLIGSPP-GYVGYEEGGALTEA-VRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTDSQGRTVDFRNT  712 (853)
Q Consensus       640 ~~~vs-----~LiGapp-GYvG~~~gg~Lte~-vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd~~G~~v~f~n~  712 (853)
                      +|.+-     +|.|-++ ....  .-..|... -.++..+|+|.||++----.=+++++.+||=-+...+        .-
T Consensus       342 P~qaY~~L~e~Ltg~k~~~~~~--A~~lL~k~F~~~r~p~VlLvDELD~LvTkkQ~VlYNLFdWPT~~~S--------kL  411 (650)
T PTZ00112        342 PNAAYRVFYKKLFNKKPPNALN--SYKELDKLFNNNRTPSILIVDEADYIVTKTQKVLFTLFDWPTKKNS--------KL  411 (650)
T ss_pred             HHHHHHHHHHHHHCCCCCCHHH--HHHHHHHHHCCCCCCEEEEECHHHHHHHCCCCEEEECCCCCCCCCC--------EE
T ss_conf             7889999999984898886789--9999999826899718999715777763677457773668898887--------07


Q ss_pred             EEEECCCHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHCCCC-CEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEEC
Q ss_conf             55954851268764032679999999998628857726668-15862889989999999999999999998579899998
Q gi|254780877|r  713 LIIMTSNLGAEYLIEDGDSVHDKVMGIVRSAFKPEFLNRLD-EIILFEKLRKEDMAKIVRIQLGRVLSLIKERNISMDFD  791 (853)
Q Consensus       713 iii~TsN~G~~~~~~~~~~~~~~~~~~l~~~f~peflnRid-~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~  791 (853)
                      |+|.-+|     +++-++.+..    .+        -.|+. .-+.|.|++.+.+.+|+.-.|         .++.+ ++
T Consensus       412 IVIaIAN-----TMDLPERL~~----RV--------sSRLGltRltF~PYt~~QL~eII~sRL---------~~~~~-f~  464 (650)
T PTZ00112        412 ILIIISN-----TMDLPYKMKP----SC--------RSRLAFGRLVFSPYKYQQIEKVIKERL---------ENCEI-ID  464 (650)
T ss_pred             EEEEEEE-----CCCCCHHHHH----HH--------HHHCCCCEECCCCCCHHHHHHHHHHHH---------CCCCC-CC
T ss_conf             9999850-----6786065666----65--------552288500439989999999999986---------26777-88


Q ss_pred             HHHHHHHHHCCCCCCCCCHH
Q ss_conf             89999999708982206215
Q gi|254780877|r  792 DQVIDWLSCRGYDPSYGARP  811 (853)
Q Consensus       792 ~~~~~~l~~~~~~~~~GaR~  811 (853)
                      +.|+++.+++--.-.--||.
T Consensus       465 ~dAIQl~ARKVAavSGDARR  484 (650)
T PTZ00112        465 HTALQLCARRVTNYSGDMRK  484 (650)
T ss_pred             HHHHHHHHHHHHHHCCHHHH
T ss_conf             78999998888750314899


No 452
>PRK08939 primosomal protein DnaI; Reviewed
Probab=96.12  E-value=0.05  Score=35.42  Aligned_cols=123  Identities=21%  Similarity=0.324  Sum_probs=67.5

Q ss_pred             CHHHHHHHHHHHHC----CCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCC---CCCH
Q ss_conf             35789999999633----6777866895288740777999999987348998444574378873135421745---4202
Q gi|254780877|r  182 GRDDEMRRAIQVLS----RRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAK---FRGE  254 (853)
Q Consensus       182 GRe~EI~~~~~iL~----r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~---~rg~  254 (853)
                      +|-+-+..+.+.+.    ........|-|++|||||-+.-++|..++...       ..+.-+.+..++...+   ..+.
T Consensus       136 ~R~~a~~~a~~F~~~y~~~~~~kGlyl~G~~G~GKTyL~~aian~La~~g-------~~v~~v~~p~~~~~lK~s~~d~s  208 (306)
T PRK08939        136 DRLDALMAALDFLEAYKPGEKVKGLYLYGDFGVGKTYLLAAIANELAKKG-------VSSTLVHFPEFIRELKNAISDGS  208 (306)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCC-------CEEEEEEHHHHHHHHHHHHCCCC
T ss_conf             89999999999999737698887788989999989999999999999869-------92999875999999999864898


Q ss_pred             HHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHC---CCCEEEEEEE--CHHHHHHHH
Q ss_conf             45458999999860799769996362773026665543358888765312---4660489974--489999973
Q gi|254780877|r  255 FEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLA---RGELHCIGAT--TLDEYRKYI  323 (853)
Q Consensus       255 ~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~La---rG~l~~IgaT--T~~Eyrk~i  323 (853)
                      ++    ..++.++..+   +|++|+|    ||... .+.--..+|-|.|-   .-.+-++=+|  +++|...|+
T Consensus       209 ~~----~~i~~~k~~~---vLiLDDi----GaE~~-t~W~rd~vl~~IL~~Rm~~~lPTffTSN~~~~eLe~~l  270 (306)
T PRK08939        209 VK----EKIDAVKEAP---VLMLDDI----GAEQM-SSWVRDEVLGVILQYRMQEELPTFFTSNFDFDELEHHL  270 (306)
T ss_pred             HH----HHHHHHHCCC---EEEEECC----CCCCC-CHHHHHHHHHHHHHHHHHCCCCEEEECCCCHHHHHHHH
T ss_conf             89----9999984499---8998444----65426-77789989999999999749997997799999999998


No 453
>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis.  The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes.  CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space.  In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.
Probab=96.12  E-value=0.031  Score=37.17  Aligned_cols=46  Identities=28%  Similarity=0.455  Sum_probs=29.6

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCC---CHHHHCCCCCCCHHHC
Q ss_conf             898726786168899999998723776530022---4477403453201304
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDENSMIRI---DMSEYMEKHSVSRLIG  648 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~~lir~---dMsey~e~~~vs~LiG  648 (853)
                      .+.++||+|.|||.|.|.++..+--++.. |.+   |++++.  .+..+.+|
T Consensus        30 ~~aivG~sGsGKSTLl~~l~G~~~p~~G~-i~i~g~~i~~~~--~~~~~~i~   78 (178)
T cd03247          30 KIALLGRSGSGKSTLLQLLTGDLKPQQGE-ITLDGVPVSDLE--KALSSLIS   78 (178)
T ss_pred             EEEEECCCCCHHHHHHHHHHHCCCCCCCE-EEECCEEHHHHH--HHHHHHEE
T ss_conf             99999999875999999998617667886-999999889978--99997208


No 454
>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.
Probab=96.09  E-value=0.0057  Score=43.08  Aligned_cols=40  Identities=20%  Similarity=0.374  Sum_probs=32.4

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCC
Q ss_conf             8987267861688999999987237765300224477403
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYME  639 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e  639 (853)
                      ++-|+|.||+|||.+|+.|.+.|+....+.+.+|.-++-+
T Consensus         1 ViW~tGLsgsGKTTlA~~l~~~L~~~~~~~~~lDGD~iR~   40 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKLFQRGRPVYVLDGDNVRH   40 (149)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECCHHHHH
T ss_conf             9898799999999999999999998699759977488997


No 455
>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]
Probab=96.07  E-value=0.012  Score=40.51  Aligned_cols=116  Identities=28%  Similarity=0.512  Sum_probs=68.2

Q ss_pred             CCCCCCCHHHHHHHHHHHHCC--CCCCCEEEECCCCCCHHHHHHHHHHHHHCC----------CCCHHHCCCEEEEEEHH
Q ss_conf             853333357899999996336--777866895288740777999999987348----------99844457437887313
Q gi|254780877|r  176 KLDPVIGRDDEMRRAIQVLSR--RTKNNPVLIGDPGVGKTAIIEGLASRIING----------DIPESLKGKRLMALDMG  243 (853)
Q Consensus       176 kLDPVIGRe~EI~~~~~iL~r--~~k~n~~lvGe~GvGKtaive~la~~i~~~----------~vp~~l~~~~i~~ld~~  243 (853)
                      +.+-+||+...+.++++....  ++..+++|-||.||||--++..+-+.=-..          ..|+.|....+|.-.=|
T Consensus       221 ~~~~iIG~S~am~~ll~~i~~VA~Sd~tVLi~GETGtGKElvAraIH~~S~R~~kPfV~~NCAAlPesLlESELFGHeKG  300 (550)
T COG3604         221 EVGGIIGRSPAMRQLLKEIEVVAKSDSTVLIRGETGTGKELVARAIHQLSPRRDKPFVKLNCAALPESLLESELFGHEKG  300 (550)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHCCCCCCCCEEEECCCCCHHHHHHHHHCCCCC
T ss_conf             44562306999999999999872689807984588853899999998737555798666312225378888887453322


Q ss_pred             HHHC-CCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCH-HHHHHHHHCCCCEEEEE
Q ss_conf             5421-745420245458999999860799769996362773026665543358-88876531246604899
Q gi|254780877|r  244 ALIA-GAKFRGEFEERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDA-SNLLKPSLARGELHCIG  312 (853)
Q Consensus       244 ~l~a-g~~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Da-an~LKP~LarG~l~~Ig  312 (853)
                      ++-. =..-+|-||           -++|. -||.|||--|        ++.. |-+| -.|..|+|+=+|
T Consensus       301 AFTGA~~~r~GrFE-----------lAdGG-TLFLDEIGel--------PL~lQaKLL-RvLQegEieRvG  350 (550)
T COG3604         301 AFTGAINTRRGRFE-----------LADGG-TLFLDEIGEL--------PLALQAKLL-RVLQEGEIERVG  350 (550)
T ss_pred             CCCCCHHCCCCCEE-----------ECCCC-EEECHHHCCC--------CHHHHHHHH-HHHHHCCEEECC
T ss_conf             33351014676356-----------55797-5760220367--------877889999-998636525347


No 456
>TIGR02533 type_II_gspE general secretory pathway protein E; InterPro: IPR013369    GspE, the E protein of the type II secretion system, is also referred to as the main terminal branch of the general secretion pathway. ; GO: 0005524 ATP binding, 0008565 protein transporter activity, 0015628 protein secretion by the type II secretion system, 0015627 type II protein secretion system complex.
Probab=96.02  E-value=0.0051  Score=43.49  Aligned_cols=88  Identities=30%  Similarity=0.505  Sum_probs=51.7

Q ss_pred             CCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCC-CHHHHCC----CCCCCHHHCCCCHHCCCCCCCCCCHHHHCC
Q ss_conf             66512898726786168899999998723776530022-4477403----453201304771120356677421132215
Q gi|254780877|r  595 QRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRI-DMSEYME----KHSVSRLIGSPPGYVGYEEGGALTEAVRRH  669 (853)
Q Consensus       595 ~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~-dMsey~e----~~~vs~LiGappGYvG~~~gg~Lte~vr~~  669 (853)
                      .+|-|.+|-+||||+|||.+==+-=..|-..+.|.+++ |==||+=    --.|+-=||=     =|-.  -|=--+||-
T Consensus       242 ~rpHGIiLVTGPTGSGKtTTLYaaL~~LN~~~~NIlTvEDPVEY~i~GIgQ~Qvn~kIgl-----TFA~--GLRaILRQD  314 (495)
T TIGR02533       242 KRPHGIILVTGPTGSGKTTTLYAALSRLNTPERNILTVEDPVEYQIEGIGQIQVNPKIGL-----TFAA--GLRAILRQD  314 (495)
T ss_pred             HCCCCEEEECCCCCCCHHHHHHHHHHHHCCCCCCEEEEECCEEEEECCCCEEEECCCCCH-----HHHH--HHHHHHCCC
T ss_conf             188961884177898525889999986358997156865782476248763651465430-----3888--878864279


Q ss_pred             CCCEEEEHHH---HHCCHHHHHHH
Q ss_conf             6410220214---41498999999
Q gi|254780877|r  670 PYQVVLFDEI---EKAHSDVHNIL  690 (853)
Q Consensus       670 P~sVil~DEi---EKah~~v~~~l  690 (853)
                      | -||..=||   |=|-=-|+--|
T Consensus       315 P-DiiMvGEIRD~ETA~IAiQASL  337 (495)
T TIGR02533       315 P-DIIMVGEIRDLETAQIAIQASL  337 (495)
T ss_pred             C-CEEEEECCCCHHHHHHHHHHHH
T ss_conf             9-8899823160689999998764


No 457
>PRK05480 uridine kinase; Provisional
Probab=95.99  E-value=0.0086  Score=41.66  Aligned_cols=41  Identities=27%  Similarity=0.412  Sum_probs=31.3

Q ss_pred             CCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHH
Q ss_conf             56651289872678616889999999872377653002244774
Q gi|254780877|r  594 PQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEY  637 (853)
Q Consensus       594 ~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey  637 (853)
                      .+||+ ....+||||+|||.+|+.|++.|-+  .....+.|-.|
T Consensus         3 ~k~P~-iIgIaG~SgSGKTT~a~~L~~~l~~--~~v~vi~~D~Y   43 (209)
T PRK05480          3 MKQPI-IIGIAGGSGSGKTTVASTIYEELGD--ESIAVISQDSY   43 (209)
T ss_pred             CCCCE-EEEEECCCCCCHHHHHHHHHHHCCC--CCEEEEECCCC
T ss_conf             88988-9999899977899999999998086--87599955441


No 458
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=95.99  E-value=0.17  Score=31.03  Aligned_cols=71  Identities=28%  Similarity=0.371  Sum_probs=40.4

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHHC--CCCCHHHCCCEEEEEEHHHHHC-----------CCCCC-CHHHHHHHHHHHHH
Q ss_conf             6689528874077799999998734--8998444574378873135421-----------74542-02454589999998
Q gi|254780877|r  201 NPVLIGDPGVGKTAIIEGLASRIIN--GDIPESLKGKRLMALDMGALIA-----------GAKFR-GEFEERLKSLLCEI  266 (853)
Q Consensus       201 n~~lvGe~GvGKtaive~la~~i~~--~~vp~~l~~~~i~~ld~~~l~a-----------g~~~r-g~~e~r~~~i~~~~  266 (853)
                      -+.|||++|||||+-+=-||-+.+-  |..     ..-++++|.-..=|           |..++ -.-.+-|...++++
T Consensus       212 vvalVGPTGVGKTTTiAKLAA~~~l~~~~~-----kV~lIT~DtyRigA~eQLk~Ya~ilgvp~~v~~~~~~l~~al~~~  286 (412)
T PRK05703        212 VVALVGPTGVGKTTTLAKLAARYALEEGKD-----KVALITLDTYRIGAVEQLKTYAKIMGIPVKVAYDPKELAKALEQL  286 (412)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHHCCCC-----EEEEEEECCCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHH
T ss_conf             699988888756769999999999972998-----179998376777799999999997197379847999999999871


Q ss_pred             HHCCCCEEEEECC
Q ss_conf             6079976999636
Q gi|254780877|r  267 RSEDGEIILFIDE  279 (853)
Q Consensus       267 ~~~~~~~ilfide  279 (853)
                      ...  . ++|||-
T Consensus       287 ~~~--d-lILIDT  296 (412)
T PRK05703        287 ANC--D-LILIDT  296 (412)
T ss_pred             CCC--C-EEEEEC
T ss_conf             589--9-799968


No 459
>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]
Probab=95.98  E-value=0.17  Score=31.03  Aligned_cols=44  Identities=27%  Similarity=0.548  Sum_probs=31.5

Q ss_pred             CCCCHHHHHHHHHHHH--CC-----------CCCCCEEEECCCCCCHHHHHHHHHHHH
Q ss_conf             3333578999999963--36-----------777866895288740777999999987
Q gi|254780877|r  179 PVIGRDDEMRRAIQVL--SR-----------RTKNNPVLIGDPGVGKTAIIEGLASRI  223 (853)
Q Consensus       179 PVIGRe~EI~~~~~iL--~r-----------~~k~n~~lvGe~GvGKtaive~la~~i  223 (853)
                      ++.|-+. |.+.+-.+  +.           |..-|++|||+||+||+.+..-++...
T Consensus       287 sIyG~e~-VKkAilLqLfgGv~k~~~~g~~iRGDInILLvGDPgtaKSqlLk~v~~~a  343 (682)
T COG1241         287 SIYGHED-VKKAILLQLFGGVKKNLPDGTRIRGDIHILLVGDPGTAKSQLLKYVAKLA  343 (682)
T ss_pred             CCCCCHH-HHHHHHHHHCCCCCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHC
T ss_conf             1038199-99999999608976647998620242269981798251999999988648


No 460
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=95.98  E-value=0.18  Score=31.00  Aligned_cols=90  Identities=28%  Similarity=0.450  Sum_probs=56.4

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCC-CHHHHC--CCCCCCHHHCCCCHHCCCCCC-----CCCCHHHHCCCC
Q ss_conf             898726786168899999998723776530022-447740--345320130477112035667-----742113221564
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDENSMIRI-DMSEYM--EKHSVSRLIGSPPGYVGYEEG-----GALTEAVRRHPY  671 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~~lir~-dMsey~--e~~~vs~LiGappGYvG~~~g-----g~Lte~vr~~P~  671 (853)
                      +++++|+||+|||.+.++|..++=. +.+++.| |-.|..  .++.|..+. ++.   |.+.|     -.|..++|-+|.
T Consensus       164 NIlIsGgTGSGKTTllnALl~~IP~-~eRIvtIEDt~EL~l~~~n~V~l~~-~~~---~~g~~~vt~~~Ll~~aLRmrPD  238 (343)
T PRK13851        164 TMLLCGPTGSGKTTMSKTLISAIPP-QERLITIEDTLELVIPHENHVRLLY-SKN---GAGLGAVTAEHLLQASLRMRPD  238 (343)
T ss_pred             CEEEECCCCCCHHHHHHHHHHCCCC-CCCEEEECCCCCCCCCCCCEEEEEE-CCC---CCCCCCCCHHHHHHHHHCCCCC
T ss_conf             8999888986199999999962896-5527996115002589999689996-589---8885839799999998607998


Q ss_pred             CEEEEHHHHHCCHHHHHHHHHHHHCCE
Q ss_conf             102202144149899999999840457
Q gi|254780877|r  672 QVVLFDEIEKAHSDVHNILLQVLDDGR  698 (853)
Q Consensus       672 sVil~DEiEKah~~v~~~llqild~G~  698 (853)
                      = |++-|+-  ..+.|+ |||.+..|+
T Consensus       239 R-IivGEvR--G~EA~d-~L~A~nTGH  261 (343)
T PRK13851        239 R-ILLGEMR--DDAAWA-YLSEVVSGH  261 (343)
T ss_pred             E-EEEEEEC--CHHHHH-HHHHHHCCC
T ss_conf             2-8998526--699999-999984699


No 461
>PRK00889 adenylylsulfate kinase; Provisional
Probab=95.97  E-value=0.0086  Score=41.65  Aligned_cols=43  Identities=26%  Similarity=0.297  Sum_probs=35.3

Q ss_pred             CCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCC
Q ss_conf             65128987267861688999999987237765300224477403
Q gi|254780877|r  596 RPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYME  639 (853)
Q Consensus       596 ~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e  639 (853)
                      ||. ++.|+|.||.|||.+|+.|.+.|.....+.+.+|.-++-.
T Consensus         3 kg~-viWltGlsgSGKTTia~~l~~~L~~~~~~~~~LDGD~lR~   45 (175)
T PRK00889          3 RGV-TVWFTGLSGAGKTTISHALAEKLRARGYPVEVLDGDIVRT   45 (175)
T ss_pred             CCE-EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECCHHHHH
T ss_conf             888-9998898999999999999999998699679977688887


No 462
>pfam05272 VirE Virulence-associated protein E. This family contains several bacterial virulence-associated protein E like proteins.
Probab=95.95  E-value=0.039  Score=36.28  Aligned_cols=25  Identities=28%  Similarity=0.557  Sum_probs=14.3

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCC
Q ss_conf             8987267861688999999987237
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFD  624 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~  624 (853)
                      +++|.|+-|.|||...+.|+...|.
T Consensus        54 vlvL~G~QG~gKStf~~~L~~~~~~   78 (198)
T pfam05272        54 VLILQGAQGSGKSTFLKKLGGEWFT   78 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             7899889867899999997377515


No 463
>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export.  They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins.  The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities.  The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD).  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=95.90  E-value=0.031  Score=37.15  Aligned_cols=33  Identities=39%  Similarity=0.577  Sum_probs=24.4

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf             8987267861688999999987237765300224
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDENSMIRID  633 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~~lir~d  633 (853)
                      ...++||+|.|||.|.+.++..+-.++. -|++|
T Consensus        30 ~i~ivG~sGsGKSTLl~ll~gl~~p~~G-~I~i~   62 (171)
T cd03228          30 KVAIVGPSGSGKSTLLKLLLRLYDPTSG-EILID   62 (171)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCCCCCCC-EEEEC
T ss_conf             9999999998399999999767758974-89999


No 464
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=95.88  E-value=0.013  Score=40.07  Aligned_cols=111  Identities=25%  Similarity=0.374  Sum_probs=72.5

Q ss_pred             HHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEE-HHHHHCCCCCCCHHHHHHHHH
Q ss_conf             7899999996336777866895288740777999999987348998444574378873-135421745420245458999
Q gi|254780877|r  184 DDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALD-MGALIAGAKFRGEFEERLKSL  262 (853)
Q Consensus       184 e~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld-~~~l~ag~~~rg~~e~r~~~i  262 (853)
                      ..++...++..-+ .+.|.++.|..|.|||++...|...|     |+   +-||+.+. ..-|                 
T Consensus       148 ~~~~~~fL~~aV~-~r~NIlIsGgTGSGKTTllnALl~~I-----P~---~eRIvtIEDt~EL-----------------  201 (343)
T PRK13851        148 NGDLEAFLHACVV-GRLTMLLCGPTGSGKTTMSKTLISAI-----PP---QERLITIEDTLEL-----------------  201 (343)
T ss_pred             CHHHHHHHHHHHH-CCCCEEEECCCCCCHHHHHHHHHHCC-----CC---CCCEEEECCCCCC-----------------
T ss_conf             3779999999997-69889998889861999999999628-----96---5527996115002-----------------


Q ss_pred             HHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCCC
Q ss_conf             99986079976999636277302666554335888876531246604899744899999730011132023111115777
Q gi|254780877|r  263 LCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARGELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEPT  342 (853)
Q Consensus       263 ~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Eps  342 (853)
                        .+ ..++.+-||...      .|.+.|.+++..+|+-+|                          --|-..|.|.|--
T Consensus       202 --~l-~~~n~V~l~~~~------~~~g~~~vt~~~Ll~~aL--------------------------RmrPDRIivGEvR  246 (343)
T PRK13851        202 --VI-PHENHVRLLYSK------NGAGLGAVTAEHLLQASL--------------------------RMRPDRILLGEMR  246 (343)
T ss_pred             --CC-CCCCEEEEEECC------CCCCCCCCCHHHHHHHHH--------------------------CCCCCEEEEEEEC
T ss_conf             --58-999968999658------988858397999999986--------------------------0799828998526


Q ss_pred             HHHHHHHHHHHHH
Q ss_conf             6789999999789
Q gi|254780877|r  343 VTDTISILRGLKE  355 (853)
Q Consensus       343 ~~~t~~iL~gl~~  355 (853)
                      -+|+..+|+.+-+
T Consensus       247 G~EA~d~L~A~nT  259 (343)
T PRK13851        247 DDAAWAYLSEVVS  259 (343)
T ss_pred             CHHHHHHHHHHHC
T ss_conf             6999999999846


No 465
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=95.84  E-value=0.045  Score=35.82  Aligned_cols=42  Identities=12%  Similarity=0.267  Sum_probs=29.5

Q ss_pred             HHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCC
Q ss_conf             57899999996336777866895288740777999999987348
Q gi|254780877|r  183 RDDEMRRAIQVLSRRTKNNPVLIGDPGVGKTAIIEGLASRIING  226 (853)
Q Consensus       183 Re~EI~~~~~iL~r~~k~n~~lvGe~GvGKtaive~la~~i~~~  226 (853)
                      .++.++.+..-+.+  .+.-++|-++|-|||-+.-..+..+...
T Consensus        41 Q~~al~a~~~~~~~--~~~gvivlpTGaGKT~va~~~~~~~~~~   82 (442)
T COG1061          41 QEEALDALVKNRRT--ERRGVIVLPTGAGKTVVAAEAIAELKRS   82 (442)
T ss_pred             HHHHHHHHHHHCCC--CCCEEEEECCCCCHHHHHHHHHHHHCCC
T ss_conf             99999999962225--7867999679998899999999982698


No 466
>cd04176 Rap2 Rap2 subgroup.  The Rap2 subgroup is part of the Rap subfamily of the Ras family.  It consists of Rap2a, Rap2b, and Rap2c.  Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton.  In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments.  In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway.  The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis.  Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation.  A number of additional effector proteins for Rap2 have been identified, incl
Probab=95.83  E-value=0.031  Score=37.10  Aligned_cols=22  Identities=36%  Similarity=0.567  Sum_probs=17.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHH
Q ss_conf             6895288740777999999987
Q gi|254780877|r  202 PVLIGDPGVGKTAIIEGLASRI  223 (853)
Q Consensus       202 ~~lvGe~GvGKtaive~la~~i  223 (853)
                      ++++|++|||||+|+..+...-
T Consensus         4 ivllGd~~VGKTsli~r~~~~~   25 (163)
T cd04176           4 VVVLGSGGVGKSALTVQFVSGT   25 (163)
T ss_pred             EEEECCCCCCHHHHHHHHHHCC
T ss_conf             9998999978999999997098


No 467
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=95.83  E-value=0.0089  Score=41.52  Aligned_cols=40  Identities=28%  Similarity=0.384  Sum_probs=29.5

Q ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHC
Q ss_conf             77866895288740777999999987348998444574378873135421
Q gi|254780877|r  198 TKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIA  247 (853)
Q Consensus       198 ~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~a  247 (853)
                      .|.=.+++|+.|+|||+++-.||+++          +..|++.|-..+--
T Consensus         3 ~~~ii~i~GpTasGKs~la~~la~~~----------~~eIIsaDS~QvYk   42 (304)
T PRK00091          3 KPKLIVLVGPTASGKTALAIELAKRL----------NGEIISVDSMQVYR   42 (304)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHC----------CCEEEEECHHHHHC
T ss_conf             99779998988658999999999987----------99899412688749


No 468
>PRK10536 hypothetical protein; Provisional
Probab=95.82  E-value=0.024  Score=38.10  Aligned_cols=138  Identities=20%  Similarity=0.302  Sum_probs=69.4

Q ss_pred             HHHCCCHHHHHHCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHH
Q ss_conf             66178667751000000012355477674594899999999998741012365665128987267861688999999987
Q gi|254780877|r  542 RWTGIPVDKMLESDREKFLRIETEISKSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARL  621 (853)
Q Consensus       542 ~~TGIPv~kl~~~E~ekLl~l~~~l~~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~  621 (853)
                      .+.+.|.--+..+.++.     .-+.-+--+|...++++.+             +.+  -+-.||.|+|||.+|.+.|-.
T Consensus        38 ~~~~~~~~~~~~~~~~~-----~pi~pkt~~Q~~yi~~i~~-------------~~i--vf~~GpAGTGKT~lA~a~Al~   97 (262)
T PRK10536         38 QMGGVEAIGMARDSRDT-----SPILARNEAQLHYLKAIES-------------KQL--IFATGEAGCGKTWISAAKAAE   97 (262)
T ss_pred             HHCCCCHHHHHCCCCCC-----CCCCCCCHHHHHHHHHHHH-------------CCE--EEEECCCCCCHHHHHHHHHHH
T ss_conf             84483314330267889-----9867898649999999861-------------983--999899987589999999999


Q ss_pred             HCCCCCCCCCCCHHHHCCCCCCCHHHCCCCH-HCCCCCC---CCCCHHHHCCCCCEEEEHHHHHCCHH-HHHHHHHHHHC
Q ss_conf             2377653002244774034532013047711-2035667---74211322156410220214414989-99999998404
Q gi|254780877|r  622 LFDDENSMIRIDMSEYMEKHSVSRLIGSPPG-YVGYEEG---GALTEAVRRHPYQVVLFDEIEKAHSD-VHNILLQVLDD  696 (853)
Q Consensus       622 lf~~~~~lir~dMsey~e~~~vs~LiGappG-YvG~~~g---g~Lte~vr~~P~sVil~DEiEKah~~-v~~~llqild~  696 (853)
                      ++.+.+               +.++|=+-|- =+|-+-|   |-|.|++  .||--=++|.+++-... ..+-++.- +.
T Consensus        98 ~l~~~~---------------~~kIIltRP~V~~ge~lGfLPGdl~EK~--~Pyl~Pi~D~L~~~lg~~~~~~~~~~-e~  159 (262)
T PRK10536         98 ALIHKD---------------VDRIIVTRPVLQADEDLGFLPGDIAEKF--APYFRPVYDVLVRRLGASFMQYCLRP-EI  159 (262)
T ss_pred             HHHHCC---------------CCEEEEECCCCCCCCCCCCCCCCHHHHH--HHHHHHHHHHHHHHHCHHHHHHHHHH-HC
T ss_conf             998588---------------8689996678756766676989879988--78887899999999685999999873-05


Q ss_pred             CEEE---CCCCCEEECCCCEEEEC
Q ss_conf             5788---79997783033155954
Q gi|254780877|r  697 GRLT---DSQGRTVDFRNTLIIMT  717 (853)
Q Consensus       697 G~lt---d~~G~~v~f~n~iii~T  717 (853)
                      |.+.   -+.-|=-+|.||+||+-
T Consensus       160 G~Iei~PlafmRGrTf~na~IIvD  183 (262)
T PRK10536        160 GKVEIAPFAYMRGRTFENAVVILD  183 (262)
T ss_pred             CCEEEEEHHHHCCCCCCCEEEEEE
T ss_conf             948998758744775144289984


No 469
>TIGR01842 type_I_sec_PrtD type I secretion system ATPase; InterPro: IPR010128   Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N terminus, but rather carry signals located toward the extreme C terminus to direct type I secretion.; GO: 0005524 ATP binding, 0015031 protein transport, 0016021 integral to membrane.
Probab=95.81  E-value=0.0066  Score=42.58  Aligned_cols=39  Identities=26%  Similarity=0.543  Sum_probs=30.2

Q ss_pred             EEEE-EECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHC
Q ss_conf             2898-726786168899999998723776530022447740
Q gi|254780877|r  599 GSFM-FLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYM  638 (853)
Q Consensus       599 ~~fl-f~GptGvGKTelak~la~~lf~~~~~lir~dMsey~  638 (853)
                      |.+| -+||||+|||.|||.+--.-- ...--+|+|-.|..
T Consensus       356 Ge~laIIGPSgSGKStLaR~~vG~W~-~~~G~VRLDGadl~  395 (556)
T TIGR01842       356 GEALAIIGPSGSGKSTLARILVGIWP-PASGSVRLDGADLK  395 (556)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHCCC-CCCCCEEEEHHHHH
T ss_conf             74588874786525889878872101-35653364033440


No 470
>pfam04851 ResIII Type III restriction enzyme, res subunit.
Probab=95.80  E-value=0.019  Score=38.90  Aligned_cols=26  Identities=27%  Similarity=0.456  Sum_probs=15.2

Q ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHH
Q ss_conf             78668952887407779999999873
Q gi|254780877|r  199 KNNPVLIGDPGVGKTAIIEGLASRII  224 (853)
Q Consensus       199 k~n~~lvGe~GvGKtaive~la~~i~  224 (853)
                      +++.+++.++|.|||.+.-.++.+..
T Consensus        18 ~~~~~i~~pTGsGKT~~~~~~i~~~~   43 (103)
T pfam04851        18 KKRGLIVMATGSGKTLTAAKLIARLL   43 (103)
T ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHH
T ss_conf             39869995899987999999999998


No 471
>PRK03918 chromosome segregation protein; Provisional
Probab=95.80  E-value=0.012  Score=40.45  Aligned_cols=16  Identities=31%  Similarity=0.225  Sum_probs=11.2

Q ss_pred             ECCCCCHHHHHHHHHH
Q ss_conf             6288998999999999
Q gi|254780877|r  757 LFEKLRKEDMAKIVRI  772 (853)
Q Consensus       757 ~F~~l~~~~~~~i~~~  772 (853)
                      +|.+|+.+.+.++++.
T Consensus       824 gfg~LD~~~~~~~~~~  839 (882)
T PRK03918        824 PTPFLDEERRRKLVDI  839 (882)
T ss_pred             CCCCCCHHHHHHHHHH
T ss_conf             9788798999999999


No 472
>PRK08760 replicative DNA helicase; Provisional
Probab=95.79  E-value=0.21  Score=30.42  Aligned_cols=80  Identities=19%  Similarity=0.244  Sum_probs=46.3

Q ss_pred             CHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCCC-EEEECCCCCCHHHHHHHHHHHHH-CCCCCHHHCCCE
Q ss_conf             1078864435699872985333335789999999633677786-68952887407779999999873-489984445743
Q gi|254780877|r  159 DALKKYCRDLTEEARNGKLDPVIGRDDEMRRAIQVLSRRTKNN-PVLIGDPGVGKTAIIEGLASRII-NGDIPESLKGKR  236 (853)
Q Consensus       159 ~~L~ky~~DLTe~Ar~GkLDPVIGRe~EI~~~~~iL~r~~k~n-~~lvGe~GvGKtaive~la~~i~-~~~vp~~l~~~~  236 (853)
                      +.+.++...+.+....+.  .+.|=..-+..+=.++..-.+.+ .++-|-||+||||+.-.+|..++ ++..|     .-
T Consensus       190 ~~l~~~~~~i~~~~~~~~--~~~Gi~TG~~~LD~~t~Gl~~G~LiViaaRPsmGKTalalnia~~~A~~~~~~-----V~  262 (476)
T PRK08760        190 GALKDAFEELRNRFENGG--NITGLPTGYNDFDAMTAGLQPTDLIILAARPAMGKTTFALNIAEYAAIKSKKG-----VA  262 (476)
T ss_pred             HHHHHHHHHHHHHHHCCC--CCEECCCCCHHHHHHHCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHCCCC-----EE
T ss_conf             999999999999985799--95336779688997446998777799987788747899999999999837997-----89


Q ss_pred             EEEEEHHHH
Q ss_conf             788731354
Q gi|254780877|r  237 LMALDMGAL  245 (853)
Q Consensus       237 i~~ld~~~l  245 (853)
                      +|||.|+.-
T Consensus       263 ~fSLEMs~~  271 (476)
T PRK08760        263 VFSMEMSAS  271 (476)
T ss_pred             EEECCCCHH
T ss_conf             970369999


No 473
>pfam10923 DUF2791 Protein of unknown function (DUF2791). This is a family of proteins found in archaea and bacteria. Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.
Probab=95.79  E-value=0.21  Score=30.41  Aligned_cols=142  Identities=16%  Similarity=0.178  Sum_probs=95.1

Q ss_pred             EEEEHHHHHC----CHH----HHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHH---HHHHHHHHHHH
Q ss_conf             0220214414----989----999999984045788799977830331559548512687640326---79999999998
Q gi|254780877|r  673 VVLFDEIEKA----HSD----VHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGD---SVHDKVMGIVR  741 (853)
Q Consensus       673 Vil~DEiEKa----h~~----v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~---~~~~~~~~~l~  741 (853)
                      +|+|||.|.-    |.+    -++-++|++|+=.       .-.|.++.|+||   |+....++..   ...+.+.+.+.
T Consensus        92 li~lDE~~nL~ki~~~~~R~knye~il~i~nd~~-------qG~~~~L~~~~~---GTP~F~~d~rrGv~sy~aL~~RL~  161 (267)
T pfam10923        92 LVVLDEAVNLYKLRNSQARDKNYEALLQILNDIL-------QGRAPGLGFVIG---GTPEFLEDPRRGLYSYEALQSRLA  161 (267)
T ss_pred             EEEHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH-------CCCCCCEEEEEC---CCHHHHCCCCCCCCCCHHHHHHHH
T ss_conf             8741657898714324778878999999998986-------698887058863---784876087667225589999871


Q ss_pred             H-HC-CHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHH-CCCEEEECHHHHHHHHHCCCCCCCCCHH---HHHH
Q ss_conf             6-28-857726668158628899899999999999999999985-7989999889999999708982206215---7999
Q gi|254780877|r  742 S-AF-KPEFLNRLDEIILFEKLRKEDMAKIVRIQLGRVLSLIKE-RNISMDFDDQVIDWLSCRGYDPSYGARP---LKRV  815 (853)
Q Consensus       742 ~-~f-~peflnRid~iv~F~~l~~~~~~~i~~~~l~~l~~~l~~-~~i~l~~~~~~~~~l~~~~~~~~~GaR~---l~r~  815 (853)
                      . +| .+.|.|--.-+|-..||+.+++..+..+    +....+. .+....++++.+..+++.++.. .|+.-   -|.+
T Consensus       162 ~~~~~~~~~~d~~~pvIrL~~l~~e~l~~L~~k----vr~i~a~~~~~~~~v~d~~i~~f~~~~~~r-~G~~~~~tPR~~  236 (267)
T pfam10923       162 ENFFADAGFDDPRAPVIRLQPLTPEELLVLLEK----VRDVYAEGYGDEALVSDEELAAFAQHVSGR-LGGAVFVTPREF  236 (267)
T ss_pred             CCCCCCCCCCCCCCCEEECCCCCHHHHHHHHHH----HHHHHHCCCCCCCCCCHHHHHHHHHHHHHC-CCCCCCCCHHHH
T ss_conf             165655676787786465299998999999999----999986507750368999999999999714-586107076999


Q ss_pred             HHHHHHHHHHHHHHC
Q ss_conf             998733499999970
Q gi|254780877|r  816 IQRYIQNPLAERVLS  830 (853)
Q Consensus       816 i~~~i~~~la~~il~  830 (853)
                      |...| +.|...--+
T Consensus       237 ir~fv-~~Ldi~~qn  250 (267)
T pfam10923       237 IKDFV-DLLDILEQN  250 (267)
T ss_pred             HHHHH-HHHHHHHHC
T ss_conf             99999-999999878


No 474
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=95.74  E-value=0.068  Score=34.32  Aligned_cols=29  Identities=38%  Similarity=0.658  Sum_probs=12.5

Q ss_pred             HHHHHHHHHHHHHHCCCCEEEEECCHHHH
Q ss_conf             45458999999860799769996362773
Q gi|254780877|r  255 FEERLKSLLCEIRSEDGEIILFIDELHVL  283 (853)
Q Consensus       255 ~e~r~~~i~~~~~~~~~~~ilfide~h~~  283 (853)
                      ++.-+..+++|+....++++||+|+.|-|
T Consensus       113 l~~l~~~L~~Ela~~~~pl~LVlDDyHli  141 (894)
T COG2909         113 LESLLSSLLNELASYEGPLYLVLDDYHLI  141 (894)
T ss_pred             HHHHHHHHHHHHHHHCCCEEEEECCCCCC
T ss_conf             99999999999875149649995353225


No 475
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=95.72  E-value=0.031  Score=37.17  Aligned_cols=41  Identities=27%  Similarity=0.424  Sum_probs=30.7

Q ss_pred             CCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCH
Q ss_conf             23656651289872678616889999999872377653002244
Q gi|254780877|r  591 LQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDM  634 (853)
Q Consensus       591 l~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dM  634 (853)
                      +..+++|+ ..|.+|.|||||+.+|-.||..|.  =.+++.-||
T Consensus        86 ~r~~~~pl-iILigGtsGvGKSTlA~~LA~rLg--I~~visTD~  126 (306)
T PRK04220         86 IRKSKEPI-IILIGGASGVGTSTIAFELASRLG--IRSVIGTDS  126 (306)
T ss_pred             HHCCCCCE-EEEEECCCCCCHHHHHHHHHHHHC--CCEEECCHH
T ss_conf             85369987-999858998878999999999709--883422216


No 476
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=95.72  E-value=0.0079  Score=41.96  Aligned_cols=25  Identities=40%  Similarity=0.571  Sum_probs=21.5

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCC
Q ss_conf             8987267861688999999987237
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFD  624 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~  624 (853)
                      .+...||+|||||++++.+|+.|-.
T Consensus         7 ki~ITG~PGvGKtTl~~ki~e~L~~   31 (179)
T COG1618           7 KIFITGRPGVGKTTLVLKIAEKLRE   31 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             9998679984589999999999985


No 477
>PRK10246 exonuclease subunit SbcC; Provisional
Probab=95.69  E-value=0.012  Score=40.49  Aligned_cols=28  Identities=25%  Similarity=0.475  Sum_probs=19.7

Q ss_pred             CCCCEEE---CCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             6681586---2889989999999999999999
Q gi|254780877|r  751 RLDEIIL---FEKLRKEDMAKIVRIQLGRVLS  779 (853)
Q Consensus       751 Rid~iv~---F~~l~~~~~~~i~~~~l~~l~~  779 (853)
                      +||-+|+   |..||.+.+...+.- |..|..
T Consensus       975 ~ldtlFIDEGFGSLD~e~Ld~a~~a-L~~L~~ 1005 (1047)
T PRK10246        975 RIDSLFLDEGFGTLDSETLDTALDA-LDALNA 1005 (1047)
T ss_pred             CCCCEEECCCCCCCCHHHHHHHHHH-HHHHHH
T ss_conf             8884656799777698899999999-999996


No 478
>cd01882 BMS1 Bms1.  Bms1 is an essential, evolutionarily conserved, nucleolar protein.  Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits.  Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit.  The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly.  It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.
Probab=95.69  E-value=0.11  Score=32.58  Aligned_cols=97  Identities=26%  Similarity=0.420  Sum_probs=53.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCC---HHHHHHHHHHHHHHHCCCCEEEEEC
Q ss_conf             6895288740777999999987348998444574378873135421745420---2454589999998607997699963
Q gi|254780877|r  202 PVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRG---EFEERLKSLLCEIRSEDGEIILFID  278 (853)
Q Consensus       202 ~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~rg---~~e~r~~~i~~~~~~~~~~~ilfid  278 (853)
                      +..+|+||||||+++.+|..+-....+. ..+|-.       .+++|-+-|=   |.-.-+.+.+|-.+-++ -++|.||
T Consensus        42 VavvGPpgvGKtTLiksLvk~ytk~~l~-~i~GPi-------Tvvs~K~rRiTfiEc~nDi~smiD~AKvAD-lVLl~iD  112 (225)
T cd01882          42 VAVVGPPGVGKTTLIKSLVKNYTKQNIS-DIKGPI-------TVVTGKKRRLTFIECPNDINAMIDIAKVAD-LVLLLID  112 (225)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCC-CCCCCE-------EEEECCCEEEEEEECCCHHHHHHHHHHHHH-EEEEEEC
T ss_conf             9998989977889999999998544375-578887-------999468426899974860999987887643-3688861


Q ss_pred             CHHHHCCCCCCC-CCCCHHHHHHHHHCCCCEEEEEEECH
Q ss_conf             627730266655-43358888765312466048997448
Q gi|254780877|r  279 ELHVLVGAGKTD-GAMDASNLLKPSLARGELHCIGATTL  316 (853)
Q Consensus       279 e~h~~~gaG~~~-g~~Daan~LKP~LarG~l~~IgaTT~  316 (853)
                      --      -+-| -++..-|+|   -+-|--+++|..|.
T Consensus       113 ~s------~GfEmEtfEfLnil---q~hG~PkV~GVltH  142 (225)
T cd01882         113 AS------FGFEMETFEFLNIL---QVHGFPRVMGVLTH  142 (225)
T ss_pred             CC------CCEEEEHHHHHHHH---HHCCCCCEEEEEEC
T ss_conf             66------55352089999999---97599943788544


No 479
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR; InterPro: IPR012704   At least five distinct pathways exist for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR which is, in most cases, divergently transcribed from the operon that encodes the genes involved in the methylcitric acid cycle of propionate catabolism. This protein is required for the expression of the proteins involved in this pathway . 2-methylcitric acid, an intermediate in this pathway, has been proposed to be a co-activator of PrpR .; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0019629 propionate catabolic process 2-methylcitrate cycle, 0005737 cytoplasm.
Probab=95.64  E-value=0.041  Score=36.17  Aligned_cols=225  Identities=22%  Similarity=0.388  Sum_probs=138.2

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCC--------CCCCCCCCCHHHHCC
Q ss_conf             674594899999999998741012365665128987267861688999999987237--------765300224477403
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFD--------DENSMIRIDMSEYME  639 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~--------~~~~lir~dMsey~e  639 (853)
                      .-++|++.++++|-..|+++-       |--++.|-.|=||+||=-.|+++-..+|-        -...|+-+||.-+.|
T Consensus       319 ~dl~G~s~~Me~VR~~v~lYA-------rs~atVLi~GE~GTGKElvAq~~H~EY~~R~~~~~~r~~~pFVAiNCGAi~E  391 (658)
T TIGR02329       319 DDLLGESAAMEQVRALVRLYA-------RSAATVLIEGESGTGKELVAQAIHREYALRYDQLSGRRDRPFVAINCGAIAE  391 (658)
T ss_pred             HHHCCCCCCHHHHHHHHHHHC-------CCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEECCHHHH
T ss_conf             765389821389999998526-------8865067514777228999999759998746665013378846874746568


Q ss_pred             CCCCCHHHCCCCH-HCCCCCCCC--CCHHHHCCCCCEEEEHHHHHCCHHHHHHHHHHHHCCEEEC-CCC--CEEECCCCE
Q ss_conf             4532013047711-203566774--2113221564102202144149899999999840457887-999--778303315
Q gi|254780877|r  640 KHSVSRLIGSPPG-YVGYEEGGA--LTEAVRRHPYQVVLFDEIEKAHSDVHNILLQVLDDGRLTD-SQG--RTVDFRNTL  713 (853)
Q Consensus       640 ~~~vs~LiGappG-YvG~~~gg~--Lte~vr~~P~sVil~DEiEKah~~v~~~llqild~G~ltd-~~G--~~v~f~n~i  713 (853)
                      +-==+-|+|=--| +-|...||.  |.|.-.+   .-++||||=-..=-.+.=||.||+|=..+= |--  -.||-|   
T Consensus       392 sLLEaELFGYeeGAFTGaRrGG~~GL~E~Ah~---GTLFLDEIGEmPLPLQtRLLRVLeEreV~RvG~~~P~~VDvR---  465 (658)
T TIGR02329       392 SLLEAELFGYEEGAFTGARRGGRTGLIEAAHR---GTLFLDEIGEMPLPLQTRLLRVLEEREVVRVGGTEPVPVDVR---  465 (658)
T ss_pred             HHHHHHHCCCCCCCCCCCCCCCCCCHHHHHCC---CCEEEHHHCCCCCHHHHHHHHHHHCCCEEECCCCCCCEEEEE---
T ss_conf             88877642676665016776776122220057---951001003578614677777651221476178754024443---


Q ss_pred             EEECCCHHHHHHHCCHHHHHHHHHHHH-HHHCCHHHHCCCCC-EEECCCCCH--HHHHHHHHHHHHHHHHHHHHCCCEEE
Q ss_conf             595485126876403267999999999-86288577266681-586288998--99999999999999999985798999
Q gi|254780877|r  714 IIMTSNLGAEYLIEDGDSVHDKVMGIV-RSAFKPEFLNRLDE-IILFEKLRK--EDMAKIVRIQLGRVLSLIKERNISMD  789 (853)
Q Consensus       714 ii~TsN~G~~~~~~~~~~~~~~~~~~l-~~~f~peflnRid~-iv~F~~l~~--~~~~~i~~~~l~~l~~~l~~~~i~l~  789 (853)
                      ||+-|.              ..+.+.+ ...|+-+++=|+.- -|-.-||-.  .|+.-++..++..-..+--.-...+=
T Consensus       466 vvaAth--------------~~L~~~v~~GrFR~DLfYRL~~Lri~lPpLR~R~~Di~~La~~~l~~~~rrePr~~l~~P  531 (658)
T TIGR02329       466 VVAATH--------------CALETAVQQGRFRRDLFYRLSILRIDLPPLRERPDDILPLAAEYLKQALRREPRAALALP  531 (658)
T ss_pred             EEECCC--------------HHHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHCCCCHHHHCCC
T ss_conf             433122--------------225879857882422899999985147876686445999999999875322515765188


Q ss_pred             ECHHHHHHHHH-----CCCCCCCCCHHHHHHHHHH
Q ss_conf             98899999997-----0898220621579999987
Q gi|254780877|r  790 FDDQVIDWLSC-----RGYDPSYGARPLKRVIQRY  819 (853)
Q Consensus       790 ~~~~~~~~l~~-----~~~~~~~GaR~l~r~i~~~  819 (853)
                      +++.+...|.-     +.|+=--..|.|+..+|+.
T Consensus       532 ~s~~~~q~L~~~~~~L~~y~WpGNvRELrnl~ERl  566 (658)
T TIGR02329       532 LSEAALQELAAVEDALQRYAWPGNVRELRNLVERL  566 (658)
T ss_pred             CCHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH
T ss_conf             63899988743788986168998437887799999


No 480
>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI. Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.
Probab=95.63  E-value=0.15  Score=31.50  Aligned_cols=148  Identities=20%  Similarity=0.306  Sum_probs=69.6

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEE---------------------EHHHHHCCCCCCCHHHHHH
Q ss_conf             6689528874077799999998734899844457437887---------------------3135421745420245458
Q gi|254780877|r  201 NPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMAL---------------------DMGALIAGAKFRGEFEERL  259 (853)
Q Consensus       201 n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~l---------------------d~~~l~ag~~~rg~~e~r~  259 (853)
                      -..+.|.+|||||++..-+++...        .+..||.+                     +=.-++++|+-.--. .|+
T Consensus       142 RigIfgg~GvGKt~Ll~~i~~~~~--------adv~V~aliGeRgrEv~efi~~~~~~~~l~~tvvv~atsd~p~~-~R~  212 (418)
T TIGR03498       142 RLGIFAGSGVGKSTLLSMLARNTD--------ADVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPL-MRR  212 (418)
T ss_pred             EEECCCCCCCCHHHHHHHHHHHCC--------CCEEEEEEEEEEHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHH-HHH
T ss_conf             641137899988899999987507--------98689988302689999999986531564426999944889878-888


Q ss_pred             H------HHHHHHHHCCCCEEEEECCHHHHCCCCC-----------CCC-CCCH----HHHHHHH---H-CCCCEEEEEE
Q ss_conf             9------9999986079976999636277302666-----------554-3358----8887653---1-2466048997
Q gi|254780877|r  260 K------SLLCEIRSEDGEIILFIDELHVLVGAGK-----------TDG-AMDA----SNLLKPS---L-ARGELHCIGA  313 (853)
Q Consensus       260 ~------~i~~~~~~~~~~~ilfide~h~~~gaG~-----------~~g-~~Da----an~LKP~---L-arG~l~~Iga  313 (853)
                      +      .+-++......+|+|++|.+-....|++           ..| .-|.    +.++--+   . ..|.|..|-+
T Consensus       213 ~a~~~a~aiAEyFrd~G~~VLl~~Dsltr~A~A~REisl~~ge~P~~~gyp~~~f~~l~~l~ERag~~~~~~GSIT~~~~  292 (418)
T TIGR03498       213 QAAYTATAIAEYFRDQGKDVLLLMDSVTRFAMAQREIGLAAGEPPVARGYTPSVFSELPRLLERAGPGAEGKGSITGIFT  292 (418)
T ss_pred             HHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEEEEE
T ss_conf             88878778999998679838999557258899999999865899986778841777726878651368999856999999


Q ss_pred             ECHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHH
Q ss_conf             44899999730011132023111115777678999999978986541496101589999986333202457674778999
Q gi|254780877|r  314 TTLDEYRKYIEKDPALARRFQSLLVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDL  393 (853)
Q Consensus       314 TT~~Eyrk~iEkD~Al~RRFq~i~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDl  393 (853)
                      .+.+       .|          .+.+|-.+.+..||-|.-                    -||...-.-..+|  |||+
T Consensus       293 v~~~-------~d----------D~~dpi~d~~~~i~Dg~i--------------------vLsr~la~~g~yP--AIdv  333 (418)
T TIGR03498       293 VLVD-------GD----------DHNEPVADAVRGILDGHI--------------------VLDRAIAERGRYP--AINV  333 (418)
T ss_pred             EECC-------CC----------CCCCCCHHHHHHHCCEEE--------------------EECHHHHHCCCCC--CCCC
T ss_conf             9633-------88----------867761777767626389--------------------9848898679999--7088


Q ss_pred             HHH
Q ss_conf             999
Q gi|254780877|r  394 MDE  396 (853)
Q Consensus       394 lDe  396 (853)
                      +.-
T Consensus       334 l~S  336 (418)
T TIGR03498       334 LAS  336 (418)
T ss_pred             CCC
T ss_conf             526


No 481
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=95.62  E-value=0.13  Score=31.99  Aligned_cols=24  Identities=29%  Similarity=0.426  Sum_probs=14.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHHC
Q ss_conf             689528874077799999998734
Q gi|254780877|r  202 PVLIGDPGVGKTAIIEGLASRIIN  225 (853)
Q Consensus       202 ~~lvGe~GvGKtaive~la~~i~~  225 (853)
                      .++.|+||+|||.+.-.++..-+.
T Consensus         2 tLi~G~pGsGKT~~a~qfl~~~a~   25 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLA   25 (187)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHH
T ss_conf             158768999999999999999987


No 482
>pfam02702 KdpD Osmosensitive K+ channel His kinase sensor domain. This is a family of KdpD sensor kinase proteins that regulate the kdpFABC operon responsible for potassium transport. The aligned region corresponds to the N-terminal cytoplasmic part of the protein which may be the sensor domain responsible for sensing turgor pressure.
Probab=95.61  E-value=0.053  Score=35.25  Aligned_cols=142  Identities=32%  Similarity=0.461  Sum_probs=80.6

Q ss_pred             EEEC-CCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCC---CCHHH-C---CCCHHCCCCCCCCCC-----HHHHC
Q ss_conf             8726-7861688999999987237765300224477403453---20130-4---771120356677421-----13221
Q gi|254780877|r  602 MFLG-PTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHS---VSRLI-G---SPPGYVGYEEGGALT-----EAVRR  668 (853)
Q Consensus       602 lf~G-ptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~---vs~Li-G---appGYvG~~~gg~Lt-----e~vr~  668 (853)
                      .|+| .+|||||+-.-.=|..+....... .+   -|-|.|.   ...|+ |   -||-++-|. |-.|.     ..+++
T Consensus         8 IylG~apGVGKTy~ML~eA~~l~~~G~DV-Vi---G~vEthgR~eT~~l~~gLe~iP~~~~~y~-g~~~~E~Dldail~R   82 (211)
T pfam02702         8 IFLGAAPGVGKTYAMLSEAHELLERGVDV-VI---GYVETHGRAETAALLEGLEVIPRKEIEYR-GVTLEEMDLDAILAR   82 (211)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCE-EE---EEECCCCCHHHHHHHCCCCCCCCEEEEEC-CEECCCCCHHHHHHC
T ss_conf             98535998778999999999999789956-99---99537997899999768766887125368-855350799999853


Q ss_pred             CCCCEEEEHHHHHC------CHHHHHHHHHHHHCCEEECCCCCEEECCCCEEEECCCHHHHHHHCCHHHHHHHHHHHHHH
Q ss_conf             56410220214414------989999999984045788799977830331559548512687640326799999999986
Q gi|254780877|r  669 HPYQVVLFDEIEKA------HSDVHNILLQVLDDGRLTDSQGRTVDFRNTLIIMTSNLGAEYLIEDGDSVHDKVMGIVRS  742 (853)
Q Consensus       669 ~P~sVil~DEiEKa------h~~v~~~llqild~G~ltd~~G~~v~f~n~iii~TsN~G~~~~~~~~~~~~~~~~~~l~~  742 (853)
                      +| .|+|.||.-..      |+.=|+=...+|+.|.=              ++-|-|+  +.+..-++......--.++.
T Consensus        83 ~P-~vvLVDELAHtN~pgsr~~KR~qDVeeLL~aGId--------------V~TTlNv--QHlESlnd~V~~iTgv~vrE  145 (211)
T pfam02702        83 KP-QLVLVDELAHTNAPGSRHEKRWQDVEELLDAGID--------------VYTTVNV--QHLESLNDVVERITGVRVRE  145 (211)
T ss_pred             CC-CEEEEECCCCCCCCCCCCCCCHHHHHHHHHCCCE--------------EEEECHH--HHHHHHHHHHHHHCCCCCCC
T ss_conf             99-9899844556799988887547749999987990--------------8860147--76652678999722985477


Q ss_pred             HCCHHHHCCCCCEEECCCCCHHHH
Q ss_conf             288577266681586288998999
Q gi|254780877|r  743 AFKPEFLNRLDEIILFEKLRKEDM  766 (853)
Q Consensus       743 ~f~peflnRid~iv~F~~l~~~~~  766 (853)
                      ..|..|+..-|+|+.- .++++++
T Consensus       146 tVPD~vl~~Adei~lV-D~~Pe~L  168 (211)
T pfam02702       146 TVPDSVLDEADEVVLV-DLTPEEL  168 (211)
T ss_pred             CCCHHHHHHCCEEEEC-CCCHHHH
T ss_conf             1888999535827981-6997999


No 483
>PRK09376 rho transcription termination factor Rho; Provisional
Probab=95.57  E-value=0.1  Score=32.99  Aligned_cols=111  Identities=23%  Similarity=0.441  Sum_probs=66.3

Q ss_pred             HHHHHHHHCCCCCC-CEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEE----------EHHH-----HHCCCC
Q ss_conf             99999963367778-6689528874077799999998734899844457437887----------3135-----421745
Q gi|254780877|r  187 MRRAIQVLSRRTKN-NPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMAL----------DMGA-----LIAGAK  250 (853)
Q Consensus       187 I~~~~~iL~r~~k~-n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~l----------d~~~-----l~ag~~  250 (853)
                      --|++.++|-=.|- -.++|.+|..|||.+...+|+-|..+. |+    .+++-|          |+..     ++|.|-
T Consensus       156 s~RiiDL~aPIGkGQRgLIVAPPkaGKT~lLq~IA~aI~~N~-Pe----~~liVLLIDERPEEVTdm~r~v~~eV~aStf  230 (416)
T PRK09376        156 STRVIDLVAPIGKGQRGLIVAPPKAGKTVLLQNIANSITTNH-PE----VHLIVLLIDERPEEVTDMQRSVKGEVVASTF  230 (416)
T ss_pred             CCCCEEEECCCCCCCCCEEECCCCCCHHHHHHHHHHHHHHCC-CC----EEEEEEEECCCCHHHHHHHHHCCEEEEEECC
T ss_conf             400211005413585003756998754799999999998569-97----1999999048934777877504618999779


Q ss_pred             CCCHHHHHHHH---HHH---HHHHCCCCEEEEECCH------HHHCC--CCCC-CCCCCHHHHHHHHH
Q ss_conf             42024545899---999---9860799769996362------77302--6665-54335888876531
Q gi|254780877|r  251 FRGEFEERLKS---LLC---EIRSEDGEIILFIDEL------HVLVG--AGKT-DGAMDASNLLKPSL  303 (853)
Q Consensus       251 ~rg~~e~r~~~---i~~---~~~~~~~~~ilfide~------h~~~g--aG~~-~g~~Daan~LKP~L  303 (853)
                      -+. -++.++-   +++   -+.+...+|++++|-|      |+++.  .|+. +|++|++-+-+|-=
T Consensus       231 D~~-~~~H~~vae~~lerAkRlvE~G~DVvillDSiTRLaRAyN~~~~~sGr~lsGG~D~~Al~~PKr  297 (416)
T PRK09376        231 DEP-AERHVQVAEMVIEKAKRLVEHGKDVVILLDSITRLARAYNTVVPSSGKVLSGGVDANALHRPKR  297 (416)
T ss_pred             CCC-HHHHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHCCCCCCCCCCCCCCCHHHHCCCHH
T ss_conf             998-7899999999999999998769978999731578888862346998775447657777605567


No 484
>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases.  Arf proteins are activators of phospholipase D isoforms.  Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated.  Arfs are N-terminally myristoylated.  Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner.  They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site.  Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins.  Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus.  Most other Arf family proteins are so far relatively poorly characterized.  Thu
Probab=95.56  E-value=0.029  Score=37.39  Aligned_cols=20  Identities=35%  Similarity=0.514  Sum_probs=12.1

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             68952887407779999999
Q gi|254780877|r  202 PVLIGDPGVGKTAIIEGLAS  221 (853)
Q Consensus       202 ~~lvGe~GvGKtaive~la~  221 (853)
                      ++++|++|||||+|+..+..
T Consensus         2 i~ilG~~~vGKTsll~~l~~   21 (158)
T cd00878           2 ILILGLDGAGKTTILYKLKL   21 (158)
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99999999988999999953


No 485
>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment.  ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.  The nucleotide binding domain shows the highest similarity between all members of the family.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=95.56  E-value=0.038  Score=36.43  Aligned_cols=36  Identities=36%  Similarity=0.550  Sum_probs=25.0

Q ss_pred             EEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHH
Q ss_conf             8987267861688999999987237765300224477
Q gi|254780877|r  600 SFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSE  636 (853)
Q Consensus       600 ~flf~GptGvGKTelak~la~~lf~~~~~lir~dMse  636 (853)
                      .+.++||||.|||.|.|.++-.+--++ .-|.+|--+
T Consensus        28 ~~~ivGpSG~GKSTllr~i~Gl~~p~~-G~I~~~g~~   63 (178)
T cd03229          28 IVALLGPSGSGKSTLLRCIAGLEEPDS-GSILIDGED   63 (178)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCCCCCC-EEEEECCEE
T ss_conf             999999999839999999985999996-399999999


No 486
>PRK06321 replicative DNA helicase; Provisional
Probab=95.54  E-value=0.2  Score=30.48  Aligned_cols=62  Identities=19%  Similarity=0.317  Sum_probs=38.6

Q ss_pred             CCCCHHHHHHHHHHHHCCCCCCC-EEEECCCCCCHHHHHHHHHHHHH-CCCCCHHHCCCEEEEEEHHHH
Q ss_conf             33335789999999633677786-68952887407779999999873-489984445743788731354
Q gi|254780877|r  179 PVIGRDDEMRRAIQVLSRRTKNN-PVLIGDPGVGKTAIIEGLASRII-NGDIPESLKGKRLMALDMGAL  245 (853)
Q Consensus       179 PVIGRe~EI~~~~~iL~r~~k~n-~~lvGe~GvGKtaive~la~~i~-~~~vp~~l~~~~i~~ld~~~l  245 (853)
                      ++.|=..-...+=.++..-.+.+ .++-|-||+||||++-.+|..++ .+..|     .-+|||.|+.-
T Consensus       205 ~itGipTGf~~LD~lt~Gl~~GdliviaaRPsmGKTalalnia~~~a~~~~~~-----v~~fSLEMs~~  268 (472)
T PRK06321        205 MISGIPTHFIDLDKMINGFSPSNLMILAARPAMGKTALALNIAENFCFQNRLP-----VGIFSLEMTVD  268 (472)
T ss_pred             CCCCCCCCHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHCCCC-----EEEECCCCCHH
T ss_conf             76422568488999855988675799853899977999999999999856994-----69975779999


No 487
>cd04154 Arl2 Arl2 subfamily.  Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity.  Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix.  The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI.  Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different.  In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport.  In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis.
Probab=95.54  E-value=0.031  Score=37.16  Aligned_cols=26  Identities=23%  Similarity=0.385  Sum_probs=18.6

Q ss_pred             CCCCCCCEEEECCCCCCHHHHHHHHH
Q ss_conf             36777866895288740777999999
Q gi|254780877|r  195 SRRTKNNPVLIGDPGVGKTAIIEGLA  220 (853)
Q Consensus       195 ~r~~k~n~~lvGe~GvGKtaive~la  220 (853)
                      .++++=.++++|.+|||||+|+..+.
T Consensus        10 ~~~~~~KililG~~~sGKTsll~~l~   35 (173)
T cd04154          10 LKEREMRILILGLDNAGKTTILKKLL   35 (173)
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHC
T ss_conf             44573189999899978899999983


No 488
>PRK08694 consensus
Probab=95.52  E-value=0.25  Score=29.68  Aligned_cols=62  Identities=23%  Similarity=0.391  Sum_probs=38.8

Q ss_pred             CCCCHHHHHHHHHHHHCCCCCCC-EEEECCCCCCHHHHHHHHHHHHH-CCCCCHHHCCCEEEEEEHHHH
Q ss_conf             33335789999999633677786-68952887407779999999873-489984445743788731354
Q gi|254780877|r  179 PVIGRDDEMRRAIQVLSRRTKNN-PVLIGDPGVGKTAIIEGLASRII-NGDIPESLKGKRLMALDMGAL  245 (853)
Q Consensus       179 PVIGRe~EI~~~~~iL~r~~k~n-~~lvGe~GvGKtaive~la~~i~-~~~vp~~l~~~~i~~ld~~~l  245 (853)
                      .+.|=..-+..+=.....-.+.+ .++-|-||+||||+.-.+|..++ ++..|     .-+|||.|+.-
T Consensus       197 ~~~Gi~TG~~~LD~~t~Gl~~G~LiVIaaRPsmGKTalalnia~~~a~~~~~~-----V~~fSLEMs~~  260 (468)
T PRK08694        197 EVTGVPTGFIDLDKKTSGLQPGDLIIVAGRPSMGKTAFSINIAEHVAVEGKLP-----VAVFSMEMGGA  260 (468)
T ss_pred             CCCCCCCCHHHHHHHHCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHCCCC-----EEEECCCCCHH
T ss_conf             87515579688987644888784799961786537899999999999847984-----79977889999


No 489
>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]
Probab=95.52  E-value=0.26  Score=29.68  Aligned_cols=70  Identities=27%  Similarity=0.395  Sum_probs=41.9

Q ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHHCC--CCCHHHCCCEEEEEEHHHHHCCCCCCCH--HHHHHHHHHHHHHHCCCCEE
Q ss_conf             7866895288740777999999987348--9984445743788731354217454202--45458999999860799769
Q gi|254780877|r  199 KNNPVLIGDPGVGKTAIIEGLASRIING--DIPESLKGKRLMALDMGALIAGAKFRGE--FEERLKSLLCEIRSEDGEII  274 (853)
Q Consensus       199 k~n~~lvGe~GvGKtaive~la~~i~~~--~vp~~l~~~~i~~ld~~~l~ag~~~rg~--~e~r~~~i~~~~~~~~~~~i  274 (853)
                      +.|.+|||.+|+|||+|-..||+..--.  |....+.  +-+..+++.+.+-   .||  |-.+=..+++++...+ +.|
T Consensus         2 ~~~IvLiG~mGaGKSTIGr~LAk~L~~~F~D~D~~Ie--~~~g~sI~eIF~~---~GE~~FR~~E~~vl~~l~~~~-~~V   75 (172)
T COG0703           2 NMNIVLIGFMGAGKSTIGRALAKALNLPFIDTDQEIE--KRTGMSIAEIFEE---EGEEGFRRLETEVLKELLEED-NAV   75 (172)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHCCCCCCCCHHHHH--HHHCCCHHHHHHH---HHHHHHHHHHHHHHHHHHHCC-CEE
T ss_conf             9618997179997768999999981998022469999--9979699999999---828999999999999986269-959


No 490
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB; InterPro: IPR013374    This model describes a protein involved in type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly, and is closely related to GspE (IPR013369 from INTERPRO) of type II secretion systems (also referred to as the main terminal branch of the general secretion pathway). Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.; GO: 0005524 ATP binding, 0008565 protein transporter activity, 0009297 pilus biogenesis.
Probab=95.51  E-value=0.012  Score=40.44  Aligned_cols=39  Identities=18%  Similarity=0.198  Sum_probs=26.2

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHC
Q ss_conf             77546761078864435699872985333335789999999633
Q gi|254780877|r  152 VNAEQGFDALKKYCRDLTEEARNGKLDPVIGRDDEMRRAIQVLS  195 (853)
Q Consensus       152 ~~~e~~~~~L~ky~~DLTe~Ar~GkLDPVIGRe~EI~~~~~iL~  195 (853)
                      ...+++..+++.+.-     .-.-..+|||.=++.|.++|+-+-
T Consensus       100 ~~DPtn~~a~~~i~F-----~tg~~ve~v~v~ed~l~~~i~~~y  138 (577)
T TIGR02538       100 VSDPTNISALDDIKF-----ATGLNVEVVVVEEDKLSALIEKYY  138 (577)
T ss_pred             EECCCCHHHHHHHHH-----HCCCEEEEEECCHHHHHHHHHHHH
T ss_conf             757545688999874-----149679999727289999999985


No 491
>KOG2543 consensus
Probab=95.51  E-value=0.19  Score=30.69  Aligned_cols=162  Identities=21%  Similarity=0.286  Sum_probs=89.9

Q ss_pred             CCC-CCCHHHHHHHHHHHHCCC---CCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEE---EH-HHH---
Q ss_conf             533-333578999999963367---7786689528874077799999998734899844457437887---31-354---
Q gi|254780877|r  177 LDP-VIGRDDEMRRAIQVLSRR---TKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMAL---DM-GAL---  245 (853)
Q Consensus       177 LDP-VIGRe~EI~~~~~iL~r~---~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~l---d~-~~l---  245 (853)
                      +.| |-||+.+|+++...+.-+   .-++++|-|.+|.|||.++..+-.......|--...++--|..   -+ ..+   
T Consensus         4 l~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~~vw~n~~ecft~~~lle~IL~~~~~~   83 (438)
T KOG2543           4 LEPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNLENVWLNCVECFTYAILLEKILNKSQLA   83 (438)
T ss_pred             CCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEHHHHCCHHHHHHHHHHHHCCC
T ss_conf             45676546899999999847898666515799614787455999999860378630541577516799999999873567


Q ss_pred             -HCCCCCCCHHHHHHHHHHHHHH------HCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHH-------HCCCCEEEE
Q ss_conf             -2174542024545899999986------07997699963627730266655433588887653-------124660489
Q gi|254780877|r  246 -IAGAKFRGEFEERLKSLLCEIR------SEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPS-------LARGELHCI  311 (853)
Q Consensus       246 -~ag~~~rg~~e~r~~~i~~~~~------~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~-------LarG~l~~I  311 (853)
                       --|.+.+|.+|. +...+.-++      +.+..+.|+.|.+..|-.       || +++| |.       +-+-.+.+|
T Consensus        84 d~dg~~~~~~~en-~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD-------~~-a~ll-~~l~~L~el~~~~~i~ii  153 (438)
T KOG2543          84 DKDGDKVEGDAEN-FSDFIYLLVQWPAATNRDQKVFLILDNADALRD-------MD-AILL-QCLFRLYELLNEPTIVII  153 (438)
T ss_pred             CCCHHHHHHHHHH-HHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHC-------CC-HHHH-HHHHHHHHHHCCCCEEEE
T ss_conf             8740555427999-999999998447764467449999747776630-------65-0788-999989987377736999


Q ss_pred             EEEC--HHHHHHHHHCCHHHHHCCC--EEECCCCCHHHHHHHHHHHHH
Q ss_conf             9744--8999997300111320231--111157776789999999789
Q gi|254780877|r  312 GATT--LDEYRKYIEKDPALARRFQ--SLLVGEPTVTDTISILRGLKE  355 (853)
Q Consensus       312 gaTT--~~Eyrk~iEkD~Al~RRFq--~i~V~Eps~~~t~~iL~gl~~  355 (853)
                      -.-+  +.-|.+.       ...+.  ++...++|++++..||..-.+
T Consensus       154 ls~~~~e~~y~~n-------~g~~~i~~l~fP~Ys~~e~~~Il~~~~p  194 (438)
T KOG2543         154 LSAPSCEKQYLIN-------TGTLEIVVLHFPQYSVEETQVILSRDNP  194 (438)
T ss_pred             EECCCCHHHHHCC-------CCCCCCEEEECCCCCHHHHHHHHHCCCC
T ss_conf             8326667775214-------6777864785387788999999841783


No 492
>PRK13948 shikimate kinase; Provisional
Probab=95.51  E-value=0.17  Score=31.12  Aligned_cols=31  Identities=26%  Similarity=0.171  Sum_probs=23.6

Q ss_pred             CCCCCCEEEECCCCCCHHHHHHHHHHHHHCC
Q ss_conf             6777866895288740777999999987348
Q gi|254780877|r  196 RRTKNNPVLIGDPGVGKTAIIEGLASRIING  226 (853)
Q Consensus       196 r~~k~n~~lvGe~GvGKtaive~la~~i~~~  226 (853)
                      -|.+.|.+|||-+|+|||+|-.-||+++-..
T Consensus         7 p~~~~~IvLIG~mGsGKStiGk~LA~~l~~~   37 (182)
T PRK13948          7 PRPATFVALAGFMGTGKSRIGWELSRALALH   37 (182)
T ss_pred             CCCCCCEEEECCCCCCHHHHHHHHHHHHCCC
T ss_conf             9999818988999998899999999996959


No 493
>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily.  Rab32 and Rab38 are members of the Rab family of small GTPases.  Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific.  GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state.  Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.  Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=95.51  E-value=0.018  Score=39.07  Aligned_cols=21  Identities=48%  Similarity=0.719  Sum_probs=16.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             689528874077799999998
Q gi|254780877|r  202 PVLIGDPGVGKTAIIEGLASR  222 (853)
Q Consensus       202 ~~lvGe~GvGKtaive~la~~  222 (853)
                      ++|+|++|||||+|+..+...
T Consensus         3 vvllGd~gVGKTsLi~rf~~~   23 (201)
T cd04107           3 VLVIGDLGVGKTSIIKRYVHG   23 (201)
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999999997899999999829


No 494
>cd04102 RabL3 RabL3 (Rab-like3) subfamily.  RabL3s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like.  As in other Rab-like proteins, RabL3 lacks a prenylation site at the C-terminus.  The specific function of RabL3 remains unknown.
Probab=95.50  E-value=0.047  Score=35.62  Aligned_cols=20  Identities=30%  Similarity=0.738  Sum_probs=15.6

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             68952887407779999999
Q gi|254780877|r  202 PVLIGDPGVGKTAIIEGLAS  221 (853)
Q Consensus       202 ~~lvGe~GvGKtaive~la~  221 (853)
                      ++++|++|||||+|+.-++.
T Consensus         3 IlllGDsgVGKTSL~~~~~~   22 (202)
T cd04102           3 VLVVGDSGVGKSSLVHLICK   22 (202)
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99999999899999999983


No 495
>pfam06414 Zeta_toxin Zeta toxin. This family consists of several bacterial zeta toxin proteins. Zeta toxin is thought to be part of a postregulational killing system in bacteria. It relies on antitoxin/toxin systems that secure stable inheritance of low and medium copy number plasmids during cell division and kill cells that have lost the plasmid.
Probab=95.50  E-value=0.016  Score=39.43  Aligned_cols=47  Identities=34%  Similarity=0.531  Sum_probs=35.9

Q ss_pred             CCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCC
Q ss_conf             36566512898726786168899999998723776530022447740345
Q gi|254780877|r  592 QDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKH  641 (853)
Q Consensus       592 ~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~  641 (853)
                      ....+|. .++++|++|.|||.+++.+.+.+.  ..+++++|--+|.+.|
T Consensus         7 ~~~~~Pk-ai~laG~pGAGKS~~~~~~~~~~~--~~~~v~In~D~~r~~~   53 (191)
T pfam06414         7 PPQERPV-AVLLGGQPGAGKTELARALLEELG--GGNVVRIDPDELRTYH   53 (191)
T ss_pred             CCCCCCE-EEEEECCCCCCHHHHHHHHHHHCC--CCCCEEECCHHHHHHH
T ss_conf             9876987-999957998888999999987537--8993897135878877


No 496
>PRK07667 uridine kinase; Provisional
Probab=95.50  E-value=0.031  Score=37.11  Aligned_cols=44  Identities=16%  Similarity=0.234  Sum_probs=32.5

Q ss_pred             CCEEEE--EECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCC
Q ss_conf             512898--72678616889999999872377653002244774034
Q gi|254780877|r  597 PMGSFM--FLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEK  640 (853)
Q Consensus       597 p~~~fl--f~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~  640 (853)
                      |-+.|+  -.|+||+|||.+|+.|++.|-....+++.+.|-.|--+
T Consensus        11 ~~~r~iIgIaG~sgSGKTTla~~L~~~l~~~~~~v~v~~~Dd~~~~   56 (190)
T PRK07667         11 KENRFILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDDHIVE   56 (190)
T ss_pred             CCCEEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCCC
T ss_conf             5986999977989788999999999998665983799966624265


No 497
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=95.49  E-value=0.26  Score=29.62  Aligned_cols=203  Identities=21%  Similarity=0.257  Sum_probs=122.0

Q ss_pred             HHHCCCCCCCEEEECCCCCCHHHHHH--HHHHHHHCCCCCHHH-CCCE-----EEEEEHHHHHCCCCCCCHHHHHHHHHH
Q ss_conf             96336777866895288740777999--999987348998444-5743-----788731354217454202454589999
Q gi|254780877|r  192 QVLSRRTKNNPVLIGDPGVGKTAIIE--GLASRIINGDIPESL-KGKR-----LMALDMGALIAGAKFRGEFEERLKSLL  263 (853)
Q Consensus       192 ~iL~r~~k~n~~lvGe~GvGKtaive--~la~~i~~~~vp~~l-~~~~-----i~~ld~~~l~ag~~~rg~~e~r~~~i~  263 (853)
                      .+-....++-.++.||.-=|||....  ||+..++.--.|-.- .+.+     =+-.|+|-=.+=...-.-|-.+|+++.
T Consensus       318 di~l~~~~~~liITGPNtGGKTv~LKtvgL~~lMaq~Gl~vPa~e~s~~~~f~~i~adIGD~QSie~~LSTFS~hm~~i~  397 (780)
T PRK00409        318 DIELGFDKTVLVITGPNTGGKTVTLKTLGLAALMAKSGLPIPAAEPSEIPVFKEVFADIGDEQSIEQSLSTFSGHMTNIV  397 (780)
T ss_pred             EEEECCCCEEEEEECCCCCCCEEHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCHHHHHCHHHHHHHHHHHH
T ss_conf             47866984189996898888563799999999999829997516898042346389982771213326524999999999


Q ss_pred             HHHHHCCCCEEEEECCHHHHCCCCC--CCCCCCHHHHHHHHHCCCCEEEEEEECHHHHHHHHHCCHHHHHCCCEEECCCC
Q ss_conf             9986079976999636277302666--55433588887653124660489974489999973001113202311111577
Q gi|254780877|r  264 CEIRSEDGEIILFIDELHVLVGAGK--TDGAMDASNLLKPSLARGELHCIGATTLDEYRKYIEKDPALARRFQSLLVGEP  341 (853)
Q Consensus       264 ~~~~~~~~~~ilfide~h~~~gaG~--~~g~~Daan~LKP~LarG~l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i~V~Ep  341 (853)
                      .-+..++.+.++.+||    +|+|.  .+|+-=|--+|.-.+.+| ..+|.+|-..|-+.|-..++.++.    --|+ -
T Consensus       398 ~il~~a~~~sLVLlDE----lG~GTDP~EGaALa~aile~l~~~~-~~~i~TTH~~~lK~~a~~~~~~~n----as~~-F  467 (780)
T PRK00409        398 RILEKADENSLVLFDE----LGAGTDPDEGAALAISILDYLRKRG-AKIIATTHYKELKALKYNREGVEN----ASVE-F  467 (780)
T ss_pred             HHHHHCCCCEEEEECC----CCCCCCHHHHHHHHHHHHHHHHHCC-CEEEEECCHHHHHHHHHCCCCCEE----EEEE-E
T ss_conf             9997389980881232----3589984565999999999999779-979994776999999727998189----8888-7


Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             76789999999789865414961015899999863332024576747789999999998754102221457887999997
Q gi|254780877|r  342 TVTDTISILRGLKERYEQHHKVRISDSALVSAAVLSNRYITDRFLPDKAIDLMDEASARVRMQIDTKPEVLDELDRRIIC  421 (853)
Q Consensus       342 s~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDllDeA~A~~~i~~~~~P~~l~~l~r~i~~  421 (853)
                      +.       ..++|.|--..|+-=.-.|++-|-+|-        ||.   +++++|-+.+.-..       .++++.|..
T Consensus       468 D~-------~tl~PtYrl~~G~pG~S~A~~IA~rlG--------lp~---~ii~~A~~~l~~~~-------~~~~~li~~  522 (780)
T PRK00409        468 DE-------ETLRPTYRLLIGIPGRSNAFEIAKRLG--------LPP---NIIEEAKKVYGEDK-------EKLNELIAS  522 (780)
T ss_pred             CC-------CCCCCCEEEECCCCCCCHHHHHHHHHC--------CCH---HHHHHHHHHHCCCH-------HHHHHHHHH
T ss_conf             40-------237860687059997636999999929--------799---99999998856316-------589999999


Q ss_pred             HHHHHHHH
Q ss_conf             44569998
Q gi|254780877|r  422 LKIEKEAL  429 (853)
Q Consensus       422 l~~e~~~L  429 (853)
                      ++.+...+
T Consensus       523 l~~~~~~~  530 (780)
T PRK00409        523 LEELEREL  530 (780)
T ss_pred             HHHHHHHH
T ss_conf             99999999


No 498
>PRK09270 frcK putative fructose transport system kinase; Reviewed
Probab=95.49  E-value=0.037  Score=36.48  Aligned_cols=59  Identities=27%  Similarity=0.427  Sum_probs=36.7

Q ss_pred             HHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCC--CCCCCCCHHHH
Q ss_conf             89999999999874101236566512898726786168899999998723776--53002244774
Q gi|254780877|r  574 SAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDE--NSMIRIDMSEY  637 (853)
Q Consensus       574 ~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~--~~lir~dMsey  637 (853)
                      ++.++.+..-+..    ..+++|+. ..-.+||+|+|||.+|+.|++.|-...  ...+.+-|--|
T Consensus        15 ~~~~~~~~~~~~~----~~~~~rR~-lIgIaG~pGSGKSTlA~~l~~~L~~~~~~~~~~~vpmDGF   75 (230)
T PRK09270         15 DELIEEVHKPLML----AAEPQRRT-VVGIAGPPGAGKSTLAETLWEALSQQGPELPAIQVPMDGF   75 (230)
T ss_pred             HHHHHHHHHHHHH----HCCCCCEE-EEEEECCCCCCHHHHHHHHHHHHHHCCCCCCEEEECCCCC
T ss_conf             5668999999987----15999718-9999899988999999999999862379985799736533


No 499
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.49  E-value=0.027  Score=37.65  Aligned_cols=29  Identities=31%  Similarity=0.478  Sum_probs=23.7

Q ss_pred             EEEEEECCCCHHHHHHHHHHHHHHCCCCC
Q ss_conf             28987267861688999999987237765
Q gi|254780877|r  599 GSFMFLGPTGVGKTELVKSLARLLFDDEN  627 (853)
Q Consensus       599 ~~flf~GptGvGKTelak~la~~lf~~~~  627 (853)
                      |+++++||+|||||.++--||..|-....
T Consensus       207 ~VIaLVGvnGvGKTTTiAKLA~~l~~~gk  235 (407)
T PRK12726        207 RIISLIGQTGVGKTTTLVKLGWQLLKQNR  235 (407)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHCCC
T ss_conf             08999899989789999999999997799


No 500
>KOG0478 consensus
Probab=95.46  E-value=0.27  Score=29.53  Aligned_cols=171  Identities=21%  Similarity=0.304  Sum_probs=87.2

Q ss_pred             CCEEEECCCCCCHHHHHHHHHHHHHCCCCC-------HHHC-------CCEEEEEEHHHHHCCCCCCCHHHHHHHHHHHH
Q ss_conf             866895288740777999999987348998-------4445-------74378873135421745420245458999999
Q gi|254780877|r  200 NNPVLIGDPGVGKTAIIEGLASRIINGDIP-------ESLK-------GKRLMALDMGALIAGAKFRGEFEERLKSLLCE  265 (853)
Q Consensus       200 ~n~~lvGe~GvGKtaive~la~~i~~~~vp-------~~l~-------~~~i~~ld~~~l~ag~~~rg~~e~r~~~i~~~  265 (853)
                      -|.+|+|+||.||+-|.+..++..-.|.-.       -.|.       +.+=|-|.-|+||.                  
T Consensus       463 INILL~GDPGtsKSqlLqyv~~l~pRg~yTSGkGsSavGLTayVtrd~dtkqlVLesGALVL------------------  524 (804)
T KOG0478         463 INILLVGDPGTSKSQLLQYCHRLLPRGVYTSGKGSSAVGLTAYVTKDPDTRQLVLESGALVL------------------  524 (804)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHCCCCEEECCCCCCHHCCEEEEEECCCCCEEEEECCCEEE------------------
T ss_conf             22899469986789999999974775404058763022003567765765546650484897------------------


Q ss_pred             HHHCCCCEEEEECCHHHHCCCCCC---------CCCCCHHHHHHHHHCCCCEEEEEEECHHH----HHHHH----HCCHH
Q ss_conf             860799769996362773026665---------54335888876531246604899744899----99973----00111
Q gi|254780877|r  266 IRSEDGEIILFIDELHVLVGAGKT---------DGAMDASNLLKPSLARGELHCIGATTLDE----YRKYI----EKDPA  328 (853)
Q Consensus       266 ~~~~~~~~ilfide~h~~~gaG~~---------~g~~Daan~LKP~LarG~l~~IgaTT~~E----yrk~i----EkD~A  328 (853)
                         ++ +=|-.|||+.-+-.+-++         .=++--|-++-..=||  -.+|++.-|.+    .+|+|    .=-+-
T Consensus       525 ---SD-~GiCCIDEFDKM~dStrSvLhEvMEQQTvSIAKAGII~sLNAR--~SVLAaANP~~skynp~k~i~eNI~Lppt  598 (804)
T KOG0478         525 ---SD-NGICCIDEFDKMSDSTRSVLHEVMEQQTLSIAKAGIIASLNAR--CSVLAAANPIRSKYNPNKSIIENINLPPT  598 (804)
T ss_pred             ---CC-CCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEECCCC--CEEEEEECCCCCCCCCCCCHHHCCCCCHH
T ss_conf             ---28-9657711233332778899999998763117430223421665--30344535432457999762321678805


Q ss_pred             HHHCCCEEE--CCCCCHHHHHHHHHHHHHHH-HHH---CCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q ss_conf             320231111--15777678999999978986-541---4961015899999863332024576747789999
Q gi|254780877|r  329 LARRFQSLL--VGEPTVTDTISILRGLKERY-EQH---HKVRISDSALVSAAVLSNRYITDRFLPDKAIDLM  394 (853)
Q Consensus       329 l~RRFq~i~--V~Eps~~~t~~iL~gl~~~y-E~~---H~V~i~d~al~~av~ls~rYi~~r~lPDKAIDll  394 (853)
                      |-+||.-|.  ++.|++..-..+-..+...| |.-   -.+.+....+...+..+.+-|+-+-.|+..--|+
T Consensus       599 LLSRFDLIylllD~~DE~~Dr~La~HivsLy~e~~~~~~~~~~d~~~lr~yi~yArk~i~p~l~~ea~~~l~  670 (804)
T KOG0478         599 LLSRFDLIFLLLDKPDERSDRRLADHIVALYPETGEKQGSEAIDMNLLRDYIRYARKNIHPALSPEASQALI  670 (804)
T ss_pred             HHHHHCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHH
T ss_conf             643233789984275326778999999984145552102577868999999999742578655689999999


Done!