Query         gi|254780217|ref|YP_003064630.1| DNA polymerase III subunit delta' [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 347
No_of_seqs    140 out of 4048
Neff          8.6 
Searched_HMMs 39220
Date          Mon May 23 16:48:27 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780217.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 PRK09112 DNA polymerase III su 100.0       0       0  548.4  32.6  335    2-338    13-350 (352)
  2 TIGR02397 dnaX_nterm DNA polym 100.0       0       0  537.6  25.8  252    1-272     3-267 (363)
  3 PRK07471 DNA polymerase III su 100.0       0       0  527.2  31.7  334    2-337     7-362 (363)
  4 PRK08451 DNA polymerase III su 100.0       0       0  483.3  26.5  319    1-338     3-337 (523)
  5 PRK05896 DNA polymerase III su 100.0       0       0  473.8  23.0  215    1-230     5-223 (613)
  6 PRK06674 DNA polymerase III su 100.0       0       0  466.1  27.1  215    1-230     5-223 (563)
  7 PRK06647 DNA polymerase III su 100.0       0       0  467.1  25.8  215    1-230     5-223 (560)
  8 PRK08058 DNA polymerase III su 100.0       0       0  459.6  30.3  308    9-335     2-328 (329)
  9 PRK05563 DNA polymerase III su 100.0       0       0  461.6  26.0  215    1-230     5-223 (541)
 10 PRK06305 DNA polymerase III su 100.0       0       0  455.0  27.5  215    1-230     6-225 (462)
 11 PRK07270 DNA polymerase III su 100.0       0       0  459.1  24.4  215    1-230     4-222 (557)
 12 PRK06645 DNA polymerase III su 100.0       0       0  446.1  29.2  216    1-231    10-233 (507)
 13 PRK05707 DNA polymerase III su 100.0       0       0  442.6  29.8  301   17-335     8-323 (328)
 14 PRK09111 DNA polymerase III su 100.0       0       0  446.7  26.5  215    1-230    12-235 (600)
 15 PRK08691 DNA polymerase III su 100.0       0       0  452.0  21.6  251    1-270     5-264 (704)
 16 PRK07940 DNA polymerase III su 100.0       0       0  440.4  28.7  210    9-234     2-223 (395)
 17 PRK12323 DNA polymerase III su 100.0       0       0  445.0  24.2  215    1-230     5-228 (721)
 18 PRK07994 DNA polymerase III su 100.0       0       0  447.4  22.2  215    1-230     5-223 (643)
 19 PRK07003 DNA polymerase III su 100.0       0       0  442.1  23.5  250    1-269     5-263 (816)
 20 PRK08853 DNA polymerase III su 100.0       0       0  443.4  22.2  249    1-268     5-262 (717)
 21 PRK06872 DNA polymerase III su 100.0       0       0  436.3  26.6  249    1-268     5-262 (696)
 22 PRK07133 DNA polymerase III su 100.0       0       0  440.9  23.5  211    1-230     7-222 (718)
 23 PRK07993 DNA polymerase III su 100.0       0       0  432.6  27.6  305   17-337     7-323 (334)
 24 PRK05648 DNA polymerase III su 100.0       0       0  437.1  24.6  215    1-230     5-223 (705)
 25 PRK05564 DNA polymerase III su 100.0       0       0  430.5  28.2  296    9-335     1-312 (313)
 26 COG2812 DnaX DNA polymerase II 100.0       0       0  436.7  24.2  215    1-230     5-223 (515)
 27 PRK07764 DNA polymerase III su 100.0       0       0  439.2  21.9  214    2-230     5-224 (775)
 28 PRK08770 DNA polymerase III su 100.0       0       0  432.7  25.2  215    1-230     5-223 (663)
 29 PRK06871 DNA polymerase III su 100.0       0       0  425.1  28.6  301   17-334     6-319 (324)
 30 PRK06964 DNA polymerase III su 100.0       0       0  420.2  28.7  299   17-336     6-340 (342)
 31 TIGR00678 holB DNA polymerase  100.0       0       0  443.2  13.4  198   21-224     1-216 (216)
 32 PRK08769 DNA polymerase III su 100.0       0       0  412.1  27.7  301   17-337     9-310 (319)
 33 PRK06090 DNA polymerase III su 100.0       0       0  410.2  27.3  301   17-337     8-317 (319)
 34 PRK08699 DNA polymerase III su 100.0       0       0  397.6  25.2  299   17-337     6-321 (325)
 35 PRK07399 DNA polymerase III su 100.0       0       0  394.6  25.1  207   10-229     2-223 (314)
 36 PRK07276 DNA polymerase III su 100.0 9.8E-45       0  379.9  26.8  208   17-244     7-215 (290)
 37 PRK12402 replication factor C  100.0   4E-41 1.4E-45  350.8  24.5  218    3-230     6-229 (337)
 38 PRK05917 DNA polymerase III su 100.0 7.4E-41 1.4E-45  348.6  21.1  174   17-221     2-175 (290)
 39 PRK07132 DNA polymerase III su 100.0 4.3E-39 1.1E-43  334.4  25.1  200   17-245     3-204 (303)
 40 PRK00440 rfc replication facto 100.0 2.2E-37 5.6E-42  320.6  25.0  194    2-230     6-205 (318)
 41 PRK05818 DNA polymerase III su 100.0   7E-37 1.8E-41  316.6  17.7  183   32-230     6-194 (262)
 42 COG0470 HolB ATPase involved i 100.0 3.1E-34 7.9E-39  295.3  23.5  201   12-230     1-202 (325)
 43 KOG0989 consensus              100.0 4.5E-34 1.1E-38  294.0  20.2  196    3-232    27-235 (346)
 44 PRK13342 recombination factor  100.0 1.1E-28 2.8E-33  250.6  21.3  185    2-230     3-201 (417)
 45 PRK06581 DNA polymerase III su 100.0 3.9E-29   1E-33  254.2  13.9  151   21-193     2-152 (263)
 46 PRK04195 replication factor C   99.9   7E-26 1.8E-30  228.0  19.3  186    3-229     5-205 (403)
 47 KOG0991 consensus               99.9 1.4E-25 3.5E-30  225.7  18.2  239    3-277    18-264 (333)
 48 pfam05496 RuvB_N Holliday junc  99.9 2.9E-26 7.4E-31  231.1  12.6  183    2-230    14-224 (234)
 49 COG2256 MGS1 ATPase related to  99.9 3.1E-24 7.9E-29  214.8  18.7  183    2-229    14-214 (436)
 50 PRK13341 recombination factor   99.9 1.8E-24 4.5E-29  216.8  17.3  183    2-229    18-219 (726)
 51 KOG0990 consensus               99.9 6.2E-23 1.6E-27  204.3  15.6  196    2-231    31-236 (360)
 52 KOG2035 consensus               99.9 2.5E-22 6.3E-27  199.4  17.4  217    4-230     5-231 (351)
 53 PRK04132 replication factor C   99.9   4E-21   1E-25  189.7  18.6  156  120-276   636-795 (863)
 54 TIGR02902 spore_lonB ATP-depen  99.8   2E-20 5.2E-25  184.1  11.3  210    2-229    55-306 (532)
 55 KOG2028 consensus               99.8 2.7E-19 6.8E-24  175.0  13.4  187    2-230   128-339 (554)
 56 TIGR02903 spore_lon_C ATP-depe  99.7 6.8E-18 1.7E-22  163.7   8.5  204    5-231   148-399 (616)
 57 PRK00080 ruvB Holliday junctio  99.6 1.2E-14   3E-19  137.7  12.9  181    3-229    16-224 (328)
 58 PRK08485 DNA polymerase III su  99.5 6.1E-15 1.6E-19  140.0   5.4   74  108-184    34-107 (204)
 59 COG2255 RuvB Holliday junction  99.5 5.3E-13 1.3E-17  124.3  12.8  182    2-229    16-225 (332)
 60 TIGR00635 ruvB Holliday juncti  99.5 1.3E-13 3.2E-18  129.4   8.7  175    9-229     1-203 (305)
 61 PRK00411 cdc6 cell division co  99.3 8.3E-09 2.1E-13   90.6  23.5  212    1-230    22-257 (394)
 62 KOG1969 consensus               99.3 9.8E-10 2.5E-14   98.0  16.9  187    4-229   263-512 (877)
 63 PRK03992 proteasome-activating  99.1   2E-08   5E-13   87.5  18.0  180    9-226   129-343 (390)
 64 cd00009 AAA The AAA+ (ATPases   99.0 1.7E-09 4.3E-14   96.2   9.0  138   15-186     1-149 (151)
 65 pfam03215 Rad17 Rad17 cell cyc  99.0 7.9E-09   2E-13   90.7  12.2  211    3-230    10-257 (490)
 66 CHL00176 ftsH cell division pr  99.0 8.7E-09 2.2E-13   90.4  12.2  185    9-230   174-392 (631)
 67 CHL00095 clpC Clp protease ATP  99.0 1.1E-08 2.8E-13   89.6  12.0  195   10-232   177-398 (823)
 68 pfam06068 TIP49 TIP49 C-termin  99.0 3.2E-08 8.2E-13   85.8  14.4  224    4-229    15-390 (395)
 69 CHL00181 cbbX CbbX; Provisiona  99.0 7.8E-09   2E-13   90.8  10.9  155   11-200    21-207 (287)
 70 COG1223 Predicted ATPase (AAA+  99.0 5.2E-09 1.3E-13   92.2   9.8  181    7-224   116-322 (368)
 71 PRK11034 clpA ATP-dependent Cl  98.9 2.3E-08 5.8E-13   87.0  11.6  195    9-232   183-406 (758)
 72 COG0542 clpA ATP-binding subun  98.9 5.3E-08 1.3E-12   84.1  13.3  136   12-172   491-646 (786)
 73 TIGR03346 chaperone_ClpB ATP-d  98.9 3.6E-08 9.3E-13   85.4  12.4  196   10-232   171-393 (852)
 74 TIGR03345 VI_ClpV1 type VI sec  98.9 1.6E-08 4.1E-13   88.2  10.4  194   10-232   185-407 (852)
 75 TIGR03015 pepcterm_ATPase puta  98.9 1.7E-08 4.4E-13   88.0  10.5  206    5-229    16-240 (269)
 76 PRK10865 protein disaggregatio  98.9 5.5E-08 1.4E-12   84.0  12.1  197    9-232   175-398 (857)
 77 pfam00004 AAA ATPase family as  98.9 4.3E-09 1.1E-13   92.8   6.3  115   37-188     1-130 (131)
 78 PRK10733 hflB ATP-dependent me  98.9 4.5E-08 1.2E-12   84.6  10.8  185    8-229   148-366 (644)
 79 TIGR03420 DnaA_homol_Hda DnaA   98.8 3.4E-07 8.7E-12   77.6  15.0  176    9-229    12-203 (226)
 80 PRK05574 holA DNA polymerase I  98.8 9.9E-06 2.5E-10   65.8  22.1  169   22-228     5-189 (336)
 81 TIGR00763 lon ATP-dependent pr  98.8   1E-08 2.6E-13   89.9   5.0  137   36-201   452-611 (941)
 82 PRK10865 protein disaggregatio  98.8 1.2E-05 3.1E-10   65.1  20.7  133   12-169   568-720 (857)
 83 CHL00081 chlI Mg-protoporyphyr  98.8 4.1E-07   1E-11   76.9  13.0  192    2-199     4-224 (347)
 84 PRK08487 DNA polymerase III su  98.8 8.2E-06 2.1E-10   66.5  19.5  166   21-228     3-178 (328)
 85 KOG1970 consensus               98.7 4.5E-07 1.2E-11   76.6  12.7  204    4-230    74-318 (634)
 86 TIGR03346 chaperone_ClpB ATP-d  98.7 8.7E-06 2.2E-10   66.3  18.7  134   12-170   565-718 (852)
 87 KOG0730 consensus               98.7 2.6E-06 6.7E-11   70.5  16.0  182    6-224   428-640 (693)
 88 TIGR02928 TIGR02928 orc1/cdc6   98.7 9.3E-07 2.4E-11   74.1  13.3  213    1-229     7-262 (383)
 89 KOG1051 consensus               98.7   2E-07   5E-12   79.5   9.3  137   12-179   562-720 (898)
 90 KOG0743 consensus               98.7 2.2E-06 5.6E-11   71.1  14.6  151    6-201   195-382 (457)
 91 CHL00195 ycf46 Ycf46; Provisio  98.7 7.1E-07 1.8E-11   75.0  12.0  187    1-224   217-432 (491)
 92 COG1474 CDC6 Cdc6-related prot  98.7 7.8E-07   2E-11   74.7  12.1  208    3-230    11-240 (366)
 93 COG0714 MoxR-like ATPases [Gen  98.6 5.9E-07 1.5E-11   75.7  10.7  153   12-200    24-200 (329)
 94 pfam05673 DUF815 Protein of un  98.6 3.3E-06 8.5E-11   69.6  14.1  133    4-181    20-163 (248)
 95 PRK05342 clpX ATP-dependent pr  98.6 1.5E-06 3.8E-11   72.4  11.5  114   12-157    72-215 (411)
 96 COG0464 SpoVK ATPases of the A  98.6 2.9E-06 7.5E-11   70.0  12.6  175    8-219   238-445 (494)
 97 COG1224 TIP49 DNA helicase TIP  98.6 4.3E-06 1.1E-10   68.7  13.3  216   12-229    39-406 (450)
 98 PRK13407 bchI magnesium chelat  98.5 6.2E-07 1.6E-11   75.5   8.2  178    7-189     3-202 (334)
 99 PRK05201 hslU ATP-dependent pr  98.5 2.1E-06 5.4E-11   71.2  11.0   70  131-200   249-345 (442)
100 PRK10787 DNA-binding ATP-depen  98.5 4.2E-07 1.1E-11   76.9   7.1  158   12-200   322-504 (784)
101 PRK08903 hypothetical protein;  98.5 5.5E-06 1.4E-10   67.8  12.8  172   10-229    16-201 (227)
102 TIGR03345 VI_ClpV1 type VI sec  98.5 0.00015 3.7E-09   56.4  20.0  134   12-170   566-719 (852)
103 pfam07724 AAA_2 AAA domain (Cd  98.5 2.6E-07 6.5E-12   78.6   5.9   97   35-156     4-101 (168)
104 PRK06893 DNA replication initi  98.5 4.4E-06 1.1E-10   68.6  12.2  177    8-229    12-205 (229)
105 pfam01637 Arch_ATPase Archaeal  98.5 7.5E-06 1.9E-10   66.8  13.0  201   14-225     1-221 (223)
106 TIGR02639 ClpA ATP-dependent C  98.5   4E-07   1E-11   77.0   6.4  199    5-231   201-429 (774)
107 KOG0734 consensus               98.5 7.9E-07   2E-11   74.6   7.6  183    8-230   300-516 (752)
108 PRK11034 clpA ATP-dependent Cl  98.4 1.3E-05 3.4E-10   64.7  13.5  132   12-170   458-608 (758)
109 COG0466 Lon ATP-dependent Lon   98.4 1.5E-06 3.8E-11   72.4   8.7  159   13-200   324-506 (782)
110 PRK05642 DNA replication initi  98.4 1.6E-05 4.2E-10   64.0  13.4  177    9-229    16-210 (234)
111 PRK05629 hypothetical protein;  98.4 0.00017 4.4E-09   55.8  18.6  158   33-228    15-181 (331)
112 CHL00095 clpC Clp protease ATP  98.4 8.4E-06 2.1E-10   66.4  11.9  134   12-170   509-662 (823)
113 PRK08084 DNA replication initi  98.4 1.7E-05 4.3E-10   63.9  13.4  177    8-229    18-211 (235)
114 TIGR00602 rad24 checkpoint pro  98.4 1.2E-05 2.9E-10   65.3  12.1  212    4-230    81-351 (670)
115 PRK07452 DNA polymerase III su  98.4   5E-05 1.3E-09   60.1  15.2  202   33-275     1-223 (326)
116 PTZ00112 origin recognition co  98.4 0.00061 1.6E-08   51.4  23.5  191   12-228   267-489 (650)
117 KOG0742 consensus               98.4 2.9E-06 7.4E-11   70.1   8.8  154   11-201   354-527 (630)
118 TIGR02639 ClpA ATP-dependent C  98.4 2.7E-06   7E-11   70.3   8.6  132    7-168   492-645 (774)
119 PRK08727 hypothetical protein;  98.4 3.2E-05 8.1E-10   61.7  13.9  176    9-229    16-206 (233)
120 pfam00308 Bac_DnaA Bacterial d  98.3   4E-05   1E-09   60.9  13.6  185   10-229     6-210 (219)
121 COG0593 DnaA ATPase involved i  98.3 0.00043 1.1E-08   52.6  18.6  191    3-229    81-288 (408)
122 KOG2004 consensus               98.3 1.6E-05 4.1E-10   64.1  11.2  157   12-198   411-592 (906)
123 KOG0733 consensus               98.3 2.4E-05 6.1E-10   62.7  12.1  182   10-228   188-403 (802)
124 KOG1968 consensus               98.3 6.9E-06 1.8E-10   67.0   9.3  201    3-231   311-535 (871)
125 COG1222 RPT1 ATP-dependent 26S  98.3 1.8E-05 4.6E-10   63.7  11.4  183    9-228   148-364 (406)
126 PRK13765 ATP-dependent proteas  98.3 1.4E-06 3.5E-11   72.7   5.4   49    7-58     26-74  (637)
127 TIGR02881 spore_V_K stage V sp  98.2 1.7E-05 4.3E-10   64.0  10.1  159    9-201     3-190 (261)
128 PRK00149 dnaA chromosomal repl  98.2 0.00046 1.2E-08   52.4  16.9  183   11-229   118-321 (447)
129 pfam06144 DNA_pol3_delta DNA p  98.2 2.8E-05 7.1E-10   62.2  10.0  154   37-227     1-166 (172)
130 KOG1942 consensus               98.2 0.00026 6.6E-09   54.4  14.7   97  132-229   298-412 (456)
131 pfam01078 Mg_chelatase Magnesi  98.2 3.2E-06 8.2E-11   69.7   5.0  124   11-156     2-132 (207)
132 pfam07728 AAA_5 AAA domain (dy  98.1 4.8E-06 1.2E-10   68.3   5.4   90   37-156     2-92  (139)
133 smart00382 AAA ATPases associa  98.1 1.7E-05 4.4E-10   63.9   7.2  131   34-184     2-143 (148)
134 COG2607 Predicted ATPase (AAA+  98.0 0.00033 8.5E-09   53.5  13.5  131    4-182    52-196 (287)
135 KOG0733 consensus               98.0 7.8E-05   2E-09   58.6   9.6  168    9-218   508-713 (802)
136 COG0542 clpA ATP-binding subun  98.0 0.00028 7.2E-09   54.1  11.9  194   10-232   168-390 (786)
137 TIGR01241 FtsH_fam ATP-depende  98.0 5.6E-06 1.4E-10   67.8   3.0  186    9-232    56-277 (505)
138 KOG0731 consensus               98.0 0.00038 9.7E-09   53.0  12.3  188    7-227   306-524 (774)
139 KOG0744 consensus               97.9 0.00019 4.8E-09   55.5  10.6  142   36-200   179-338 (423)
140 PRK12422 chromosomal replicati  97.9  0.0021 5.3E-08   47.1  16.0  157   35-228   142-314 (455)
141 pfam07726 AAA_3 ATPase family   97.9 1.8E-05 4.7E-10   63.6   5.2   88   36-156     1-88  (131)
142 PRK06620 hypothetical protein;  97.9 0.00016   4E-09   56.1   9.8  158   15-229    20-191 (214)
143 COG0465 HflB ATP-dependent Zn   97.9 0.00043 1.1E-08   52.6  11.7  184    9-229   147-364 (596)
144 pfam00493 MCM MCM2/3/5 family.  97.9 0.00018 4.6E-09   55.6   9.6  137   12-183    24-200 (327)
145 KOG0738 consensus               97.9 0.00023 5.9E-09   54.8  10.2  195    9-227   209-423 (491)
146 COG1221 PspF Transcriptional r  97.9 7.7E-05   2E-09   58.6   7.6  198    6-229    72-303 (403)
147 PRK04841 transcriptional regul  97.9 0.00041   1E-08   52.8  11.3  204    4-222     5-220 (903)
148 PRK06585 holA DNA polymerase I  97.9  0.0053 1.3E-07   43.8  22.8  153   35-226    21-183 (343)
149 TIGR00368 TIGR00368 Mg chelata  97.8 1.2E-05   3E-10   65.2   2.8  118   10-156   192-324 (505)
150 PRK10923 glnG nitrogen regulat  97.8  0.0009 2.3E-08   50.0  12.5  161    9-196   135-320 (469)
151 PRK09087 hypothetical protein;  97.8 0.00067 1.7E-08   51.0  11.6  164   10-229    19-197 (226)
152 pfam00931 NB-ARC NB-ARC domain  97.8 5.4E-05 1.4E-09   59.8   5.5  186   19-226     3-200 (285)
153 TIGR00382 clpX ATP-dependent C  97.8   3E-05 7.7E-10   61.9   4.2  125   34-191   153-315 (452)
154 pfam00158 Sigma54_activat Sigm  97.7 0.00024 6.1E-09   54.7   8.4  116   14-156     1-119 (168)
155 smart00350 MCM minichromosome   97.7  0.0011 2.7E-08   49.4  11.6  136   12-187   203-350 (509)
156 PRK05022 anaerobic nitric oxid  97.7  0.0013 3.3E-08   48.7  11.6  188   11-229   185-413 (510)
157 TIGR02442 Cob-chelat-sub cobal  97.7 9.8E-05 2.5E-09   57.8   5.7  179   11-200     3-217 (688)
158 KOG0740 consensus               97.7 0.00022 5.6E-09   54.9   7.3  175    4-219   145-354 (428)
159 COG1239 ChlI Mg-chelatase subu  97.7 0.00054 1.4E-08   51.8   9.3  183   10-200    15-230 (423)
160 KOG2170 consensus               97.7 0.00043 1.1E-08   52.6   8.6  135   12-175    82-230 (344)
161 COG1219 ClpX ATP-dependent pro  97.6 2.6E-05 6.5E-10   62.5   2.2   49   12-60     61-123 (408)
162 pfam05621 TniB Bacterial TniB   97.6  0.0012 3.2E-08   48.9  10.7  207   12-232    34-266 (302)
163 COG0606 Predicted ATPase with   97.6 8.4E-05 2.2E-09   58.3   4.3   46   10-59    177-222 (490)
164 TIGR01242 26Sp45 26S proteasom  97.6 0.00022 5.7E-09   54.9   6.3  184   10-230   120-337 (364)
165 KOG0737 consensus               97.6  0.0012   3E-08   49.1   9.7  191   10-225    90-300 (386)
166 pfam03266 DUF265 Protein of un  97.5 0.00026 6.7E-09   54.3   5.9  149   37-195     2-164 (168)
167 KOG0732 consensus               97.5  0.0028 7.1E-08   46.1  11.0  189    8-228   261-481 (1080)
168 TIGR01243 CDC48 AAA family ATP  97.5  0.0028 7.1E-08   46.1  10.9  182    9-227   538-752 (980)
169 PRK11608 pspF phage shock prot  97.5 0.00048 1.2E-08   52.2   7.0  132   11-169     5-150 (325)
170 PRK10820 DNA-binding transcrip  97.5 0.00085 2.2E-08   50.2   8.1  127    9-169   201-341 (513)
171 KOG0735 consensus               97.5  0.0016 4.1E-08   48.0   9.6  157   31-220   428-608 (952)
172 KOG0736 consensus               97.5  0.0056 1.4E-07   43.6  12.3  188   10-231   399-609 (953)
173 KOG0741 consensus               97.5 0.00019 4.9E-09   55.4   4.8  132   23-187   233-413 (744)
174 PRK09862 putative ATP-dependen  97.4 0.00023 5.9E-09   54.8   4.6  125   10-156   189-320 (506)
175 PRK07914 hypothetical protein;  97.4  0.0039 9.9E-08   44.9  10.6  104  125-228    59-171 (320)
176 KOG0729 consensus               97.4  0.0016 4.1E-08   48.0   8.6  169   10-226   175-388 (435)
177 COG1466 HolA DNA polymerase II  97.4   0.023 5.8E-07   38.7  18.4  168   23-228     5-183 (334)
178 KOG0735 consensus               97.4  0.0036 9.2E-08   45.2  10.1  182    9-228   664-877 (952)
179 PRK09183 transposase/IS protei  97.3 0.00063 1.6E-08   51.3   6.0   99   34-170   101-205 (258)
180 KOG0728 consensus               97.3 0.00082 2.1E-08   50.4   6.6  156    8-200   142-329 (404)
181 KOG0739 consensus               97.3  0.0027 6.9E-08   46.2   9.2  181   10-228   131-342 (439)
182 KOG2680 consensus               97.3  0.0064 1.6E-07   43.2  11.0  114  114-229   267-403 (454)
183 KOG2227 consensus               97.3  0.0041   1E-07   44.7   9.9  202   12-229   150-373 (529)
184 KOG0736 consensus               97.3  0.0033 8.5E-08   45.5   9.3   53    5-57    665-728 (953)
185 KOG0745 consensus               97.3 0.00031 7.8E-09   53.8   4.0   89   36-156   228-331 (564)
186 pfam05729 NACHT NACHT domain.   97.3  0.0024   6E-08   46.7   8.5  148   36-202     2-162 (165)
187 KOG1808 consensus               97.3 0.00085 2.2E-08   50.2   6.2  154   16-203   424-600 (1856)
188 PRK11331 5-methylcytosine-spec  97.2   0.002 5.2E-08   47.2   7.7   40   21-63    184-223 (459)
189 PRK11388 DNA-binding transcrip  97.2  0.0013 3.3E-08   48.8   6.3  127   10-169   323-466 (639)
190 pfam00448 SRP54 SRP54-type pro  97.2  0.0011 2.8E-08   49.3   5.9  135   34-186     1-142 (196)
191 PRK11361 acetoacetate metaboli  97.1  0.0032 8.1E-08   45.6   7.9  155   10-191   141-318 (457)
192 COG2909 MalT ATP-dependent tra  97.1  0.0028 7.3E-08   46.0   7.5  205    6-222    13-228 (894)
193 KOG0741 consensus               97.1  0.0032 8.2E-08   45.6   7.7  156   10-203   515-687 (744)
194 PRK13695 putative NTPase; Prov  97.1  0.0012 3.1E-08   49.0   5.5  145   33-196     2-164 (174)
195 COG1484 DnaC DNA replication p  97.1   0.003 7.7E-08   45.8   7.5  111   18-169    89-208 (254)
196 KOG0652 consensus               97.0  0.0057 1.5E-07   43.6   8.1  163   10-199   169-352 (424)
197 KOG0730 consensus               97.0   0.015 3.7E-07   40.3  10.0  159   31-225   215-390 (693)
198 PRK10365 transcriptional regul  96.9  0.0065 1.7E-07   43.1   8.0  155   10-191   137-314 (441)
199 KOG0478 consensus               96.9  0.0055 1.4E-07   43.7   7.6  140   13-187   430-609 (804)
200 PRK13531 regulatory ATPase Rav  96.9  0.0075 1.9E-07   42.6   7.9  112   13-156    21-133 (498)
201 PRK06526 transposase; Provisio  96.9  0.0026 6.6E-08   46.3   5.4  118   34-189    98-234 (254)
202 PRK10875 recD exonuclease V su  96.8  0.0016   4E-08   48.1   4.3  127   35-178   163-312 (607)
203 KOG0727 consensus               96.8  0.0033 8.5E-08   45.4   5.9  151   10-194   153-331 (408)
204 TIGR00390 hslU heat shock prot  96.8  0.0021 5.3E-08   47.1   4.4   71  133-203   271-369 (463)
205 KOG0651 consensus               96.8  0.0088 2.2E-07   42.1   7.6   55    7-61    127-193 (388)
206 COG3267 ExeA Type II secretory  96.8    0.02 5.1E-07   39.2   9.4  192    8-223    27-241 (269)
207 PRK11545 gntK gluconate kinase  96.8  0.0081 2.1E-07   42.4   7.3   33   29-61      3-35  (177)
208 KOG1514 consensus               96.7   0.076 1.9E-06   34.5  16.3  187   20-229   408-622 (767)
209 pfam01695 IstB IstB-like ATP b  96.7  0.0045 1.1E-07   44.4   6.0   98   34-169    47-149 (178)
210 TIGR02173 cyt_kin_arch cytidyl  96.7  0.0014 3.6E-08   48.4   3.3   22   37-58      3-24  (173)
211 TIGR02640 gas_vesic_GvpN gas v  96.7   0.002   5E-08   47.3   4.0  115   19-156     9-131 (265)
212 TIGR03263 guanyl_kin guanylate  96.7   0.037 9.4E-07   37.0  10.5   21   37-57      4-24  (180)
213 PRK07952 DNA replication prote  96.7  0.0034 8.6E-08   45.4   5.1   57    2-60     59-122 (242)
214 PRK08181 transposase; Validate  96.7  0.0045 1.1E-07   44.4   5.7  118   35-190   107-243 (269)
215 PRK10789 putative multidrug tr  96.7  0.0067 1.7E-07   43.0   6.5   51  131-186   470-521 (569)
216 PRK12377 putative replication   96.7  0.0039 9.9E-08   44.9   5.2  122    8-169    70-205 (248)
217 smart00763 AAA_PrkA PrkA AAA d  96.7  0.0057 1.4E-07   43.6   6.0   57    4-60     42-104 (361)
218 TIGR01447 recD exodeoxyribonuc  96.6  0.0035 8.9E-08   45.3   4.8  144   16-167   228-391 (753)
219 cd03249 ABC_MTABC3_MDL1_MDL2 M  96.6  0.0033 8.5E-08   45.5   4.6   52  130-186   157-209 (238)
220 PRK00300 gmk guanylate kinase;  96.6   0.031 7.8E-07   37.7   9.6   22   36-57      9-30  (208)
221 PRK08116 hypothetical protein;  96.6  0.0039   1E-07   44.9   4.9   59    2-60     69-134 (262)
222 TIGR02030 BchI-ChlI magnesium   96.6  0.0026 6.7E-08   46.3   4.0  194   11-212     3-231 (340)
223 KOG2543 consensus               96.5   0.055 1.4E-06   35.6  10.4  179   11-203     5-194 (438)
224 smart00487 DEXDc DEAD-like hel  96.5   0.012   3E-07   41.0   7.0  132   35-170    25-170 (201)
225 COG1618 Predicted nucleotide k  96.5  0.0041 1.1E-07   44.7   4.6  147   32-192     3-165 (179)
226 PRK10536 hypothetical protein;  96.5  0.0089 2.3E-07   42.0   6.3  149    2-168    45-211 (262)
227 TIGR01243 CDC48 AAA family ATP  96.5    0.11 2.7E-06   33.3  16.1  156    9-201   203-386 (980)
228 PRK08533 flagellar accessory p  96.5  0.0072 1.8E-07   42.7   5.6  138   34-183    24-179 (230)
229 KOG0726 consensus               96.5   0.017 4.2E-07   39.8   7.4  154    9-198   182-365 (440)
230 PRK11176 lipid transporter ATP  96.4  0.0067 1.7E-07   43.0   5.2   51  131-186   498-549 (581)
231 PRK13768 GTPase; Provisional    96.4   0.023 5.9E-07   38.6   7.7  102   33-165     1-102 (253)
232 COG1241 MCM2 Predicted ATPase   96.4   0.004   1E-07   44.8   3.8  139   11-187   285-466 (682)
233 cd03245 ABCC_bacteriocin_expor  96.4  0.0037 9.5E-08   45.1   3.7   42  130-171   158-200 (220)
234 cd03253 ABCC_ATM1_transporter   96.3  0.0044 1.1E-07   44.5   3.8   52  130-186   155-207 (236)
235 PRK06067 flagellar accessory p  96.3   0.018 4.7E-07   39.5   6.9   37   24-60     21-58  (241)
236 pfam06309 Torsin Torsin. This   96.3   0.016 4.1E-07   39.9   6.5   51   11-61     24-80  (127)
237 KOG1803 consensus               96.3  0.0078   2E-07   42.5   4.8   60  131-200   359-419 (649)
238 PRK10790 putative multidrug tr  96.3    0.01 2.7E-07   41.5   5.4   40  131-170   495-535 (593)
239 COG2204 AtoC Response regulato  96.2    0.02   5E-07   39.3   6.7  134    9-169   138-285 (464)
240 cd03248 ABCC_TAP TAP, the Tran  96.2   0.006 1.5E-07   43.4   4.1   51  130-185   168-219 (226)
241 PRK09361 radB DNA repair and r  96.2   0.015 3.8E-07   40.2   6.1   37   24-60     12-49  (224)
242 cd03251 ABCC_MsbA MsbA is an e  96.2  0.0068 1.7E-07   43.0   4.1   52  130-186   156-208 (234)
243 pfam08298 AAA_PrkA PrkA AAA do  96.2   0.012   3E-07   41.0   5.3  143    9-199    55-205 (358)
244 pfam07693 KAP_NTPase KAP famil  96.1   0.067 1.7E-06   35.0   9.0   41   19-59      3-45  (301)
245 TIGR03375 type_I_sec_LssB type  96.1  0.0093 2.4E-07   41.8   4.3   12   40-51     27-38  (694)
246 cd03254 ABCC_Glucan_exporter_l  96.0  0.0098 2.5E-07   41.7   4.3   52  130-186   157-209 (229)
247 PRK06835 DNA replication prote  96.0   0.018 4.6E-07   39.5   5.5   28   34-61    183-210 (330)
248 COG3899 Predicted ATPase [Gene  96.0   0.085 2.2E-06   34.1   8.9  211   13-228     1-261 (849)
249 COG1220 HslU ATP-dependent pro  96.0   0.012   3E-07   41.0   4.5   70  131-200   251-347 (444)
250 pfam09848 DUF2075 Uncharacteri  95.9  0.0052 1.3E-07   43.9   2.6  111   35-166     2-121 (348)
251 cd01120 RecA-like_NTPases RecA  95.9   0.015 3.9E-07   40.2   4.9   24   37-60      2-25  (165)
252 cd03252 ABCC_Hemolysin The ABC  95.9   0.012   3E-07   41.1   4.3   52  130-186   156-208 (237)
253 COG1643 HrpA HrpA-like helicas  95.9   0.046 1.2E-06   36.3   7.3  140   20-168    54-203 (845)
254 cd01121 Sms Sms (bacterial rad  95.9   0.013 3.4E-07   40.6   4.3  151   23-180    70-248 (372)
255 PRK13657 cyclic beta-1,2-gluca  95.8   0.019 4.9E-07   39.3   5.1   20   37-56    364-383 (585)
256 cd03289 ABCC_CFTR2 The CFTR su  95.8   0.015 3.8E-07   40.2   4.4   52  130-186   156-208 (275)
257 pfam02562 PhoH PhoH-like prote  95.8   0.053 1.4E-06   35.8   7.2  131   16-168     8-154 (205)
258 PRK06921 hypothetical protein;  95.8   0.026 6.5E-07   38.3   5.5   29   32-60    114-142 (265)
259 COG1066 Sms Predicted ATP-depe  95.7   0.036 9.2E-07   37.1   6.2   38   23-60     81-119 (456)
260 cd01123 Rad51_DMC1_radA Rad51_  95.7   0.049 1.2E-06   36.1   6.8   35   24-58      8-43  (235)
261 COG4088 Predicted nucleotide k  95.7  0.0094 2.4E-07   41.8   3.2  131   37-201     4-138 (261)
262 cd01394 radB RadB. The archaea  95.7    0.02 5.2E-07   39.1   4.9   25   35-59     20-44  (218)
263 PRK10416 cell division protein  95.7   0.021 5.3E-07   39.0   4.9  126   31-172   292-428 (499)
264 PRK13764 ATPase; Provisional    95.7   0.019   5E-07   39.3   4.7   46   10-61    241-286 (605)
265 PRK00771 signal recognition pa  95.7   0.037 9.5E-07   37.0   6.0  131   31-179    94-229 (433)
266 cd03369 ABCC_NFT1 Domain 2 of   95.7   0.043 1.1E-06   36.5   6.3   23   37-59     37-59  (207)
267 PRK04220 2-phosphoglycerate ki  95.6   0.035   9E-07   37.2   5.7   36   24-59     82-117 (306)
268 KOG0477 consensus               95.6   0.033 8.5E-07   37.4   5.5  150   12-198   449-645 (854)
269 COG1373 Predicted ATPase (AAA+  95.6    0.12 3.1E-06   32.8   8.4  136   19-198    24-163 (398)
270 TIGR00959 ffh signal recogniti  95.6   0.016   4E-07   40.0   3.9  105   31-147    99-207 (439)
271 PRK08939 primosomal protein Dn  95.6    0.03 7.6E-07   37.8   5.2   54    6-59    122-182 (306)
272 PRK09302 circadian clock prote  95.5   0.042 1.1E-06   36.6   5.9   24   34-57     24-47  (501)
273 pfam04851 ResIII Type III rest  95.5    0.22 5.5E-06   30.9   9.4   92   17-167     8-99  (103)
274 cd03115 SRP The signal recogni  95.5  0.0098 2.5E-07   41.7   2.5   24   37-60      3-26  (173)
275 cd03243 ABC_MutS_homologs The   95.5   0.048 1.2E-06   36.1   6.0  132   35-187    30-169 (202)
276 PRK12723 flagellar biosynthesi  95.5  0.0029 7.5E-08   45.9  -0.2  134   34-185   174-313 (388)
277 cd03228 ABCC_MRP_Like The MRP   95.5   0.007 1.8E-07   42.9   1.7  134   36-186    30-166 (171)
278 cd03244 ABCC_MRP_domain2 Domai  95.4   0.034 8.7E-07   37.3   5.1   22   37-58     33-54  (221)
279 cd00046 DEXDc DEAD-like helica  95.4   0.033 8.3E-07   37.5   4.9  127   37-168     3-142 (144)
280 COG2274 SunT ABC-type bacterio  95.4   0.024 6.1E-07   38.6   4.2   52  129-184   626-678 (709)
281 cd00984 DnaB_C DnaB helicase C  95.4   0.031 7.9E-07   37.6   4.8   29   32-60     11-39  (242)
282 PRK10078 ribose 1,5-bisphospho  95.3    0.25 6.3E-06   30.4   9.3   22   34-55      2-23  (184)
283 PRK11823 DNA repair protein Ra  95.3   0.044 1.1E-06   36.4   5.4  165    7-180    57-255 (454)
284 TIGR02880 cbbX_cfxQ CbbX prote  95.3   0.029 7.4E-07   37.9   4.4  127   35-198    60-204 (284)
285 PRK10867 signal recognition pa  95.3   0.048 1.2E-06   36.1   5.5  100   32-146    98-199 (453)
286 pfam00270 DEAD DEAD/DEAH box h  95.2    0.29 7.4E-06   29.8   9.4   37   16-59      3-39  (167)
287 PRK11629 lolD lipoprotein tran  95.2   0.093 2.4E-06   33.8   6.8   21   36-56     37-57  (233)
288 PRK06731 flhF flagellar biosyn  95.2   0.028   7E-07   38.1   4.1   28   32-59     73-100 (270)
289 PRK05703 flhF flagellar biosyn  95.2    0.01 2.6E-07   41.5   1.9  146   18-186   185-347 (412)
290 COG1132 MdlB ABC-type multidru  95.2   0.043 1.1E-06   36.5   5.1   50  131-186   484-535 (567)
291 cd03286 ABC_MSH6_euk MutS6 hom  95.2    0.06 1.5E-06   35.4   5.8  120   34-171    30-154 (218)
292 pfam00910 RNA_helicase RNA hel  95.1   0.018 4.5E-07   39.6   2.9   25   37-61      1-25  (105)
293 TIGR01448 recD_rel helicase, R  95.1    0.12 3.1E-06   32.9   7.2  168   20-231   355-540 (769)
294 KOG4658 consensus               95.1    0.24 6.1E-06   30.5   8.7  191   10-225   155-360 (889)
295 COG3829 RocR Transcriptional r  95.1   0.079   2E-06   34.4   6.2  136    6-168   239-389 (560)
296 pfam03796 DnaB_C DnaB-like hel  95.1    0.04   1E-06   36.7   4.7   27   32-58     17-43  (186)
297 cd03246 ABCC_Protease_Secretio  95.1   0.012   3E-07   41.0   1.9  130   37-186    31-167 (173)
298 pfam00625 Guanylate_kin Guanyl  95.0   0.049 1.2E-06   36.0   4.9   21   37-57      4-24  (182)
299 cd03223 ABCD_peroxisomal_ALDP   95.0   0.024   6E-07   38.6   3.2   41  129-171   108-149 (166)
300 PRK12724 flagellar biosynthesi  95.0  0.0099 2.5E-07   41.6   1.2  130   36-187   225-362 (432)
301 COG0468 RecA RecA/RadA recombi  95.0   0.099 2.5E-06   33.6   6.3   30   31-60     55-86  (279)
302 TIGR00764 lon_rel ATP-dependen  94.9   0.043 1.1E-06   36.5   4.4   52    6-60     13-64  (662)
303 pfam01057 Parvo_NS1 Parvovirus  94.9   0.088 2.2E-06   34.0   6.0   38   23-60    101-139 (271)
304 COG1855 ATPase (PilT family) [  94.9   0.026 6.5E-07   38.3   3.3   41   17-63    252-292 (604)
305 cd03227 ABC_Class2 ABC-type Cl  94.9   0.071 1.8E-06   34.8   5.4  114   36-171    23-142 (162)
306 cd03231 ABC_CcmA_heme_exporter  94.9   0.061 1.6E-06   35.3   5.1   23   35-57     27-49  (201)
307 cd01122 GP4d_helicase GP4d_hel  94.9   0.036 9.2E-07   37.1   3.9   39   22-60     18-56  (271)
308 PRK13640 cbiO cobalt transport  94.8   0.098 2.5E-06   33.6   6.0  145   37-184    37-217 (283)
309 cd01125 repA Hexameric Replica  94.8    0.17 4.3E-06   31.7   7.1   26   38-63      5-30  (239)
310 pfam03029 ATP_bind_1 Conserved  94.8    0.11 2.7E-06   33.3   6.1   21   39-59      1-21  (234)
311 cd03288 ABCC_SUR2 The SUR doma  94.8    0.04   1E-06   36.7   3.9   52  130-186   174-226 (257)
312 PRK12339 2-phosphoglycerate ki  94.8   0.044 1.1E-06   36.5   4.1   24   35-58      4-27  (197)
313 pfam01591 6PF2K 6-phosphofruct  94.7   0.088 2.2E-06   34.0   5.6  143   36-192    15-159 (223)
314 cd01393 recA_like RecA is a  b  94.7   0.032 8.2E-07   37.5   3.3   25   35-59     20-44  (226)
315 cd03247 ABCC_cytochrome_bd The  94.7   0.046 1.2E-06   36.3   4.1  129   36-173    30-160 (178)
316 PRK03839 putative kinase; Prov  94.7    0.03 7.7E-07   37.7   3.1   23   36-58      2-24  (180)
317 cd03278 ABC_SMC_barmotin Barmo  94.7   0.032 8.2E-07   37.5   3.3   39  133-171   138-177 (197)
318 TIGR00416 sms DNA repair prote  94.7   0.051 1.3E-06   35.9   4.3   25   35-59    104-128 (481)
319 PRK11131 ATP-dependent RNA hel  94.7    0.22 5.6E-06   30.8   7.5   34   21-60     79-112 (1295)
320 PRK09435 arginine/ornithine tr  94.7    0.21 5.3E-06   31.0   7.4   42   20-61     35-76  (325)
321 TIGR02788 VirB11 P-type DNA tr  94.7   0.031 7.9E-07   37.6   3.1  139   15-244   142-283 (328)
322 cd03283 ABC_MutS-like MutS-lik  94.6   0.094 2.4E-06   33.8   5.5  118   34-171    25-149 (199)
323 PRK13538 cytochrome c biogenes  94.6     0.1 2.5E-06   33.6   5.5   22   36-57     29-50  (204)
324 PRK04328 hypothetical protein;  94.6   0.038 9.6E-07   37.0   3.4   36   24-59     13-49  (250)
325 PRK05748 replicative DNA helic  94.6   0.029 7.4E-07   37.9   2.8   46   14-59    183-228 (448)
326 cd01129 PulE-GspE PulE/GspE Th  94.5    0.14 3.6E-06   32.3   6.3   55    3-59     51-105 (264)
327 KOG3347 consensus               94.5   0.033 8.3E-07   37.5   3.0   27   31-58      5-31  (176)
328 smart00072 GuKc Guanylate kina  94.5    0.28 7.1E-06   30.0   7.7   21   37-57      5-25  (184)
329 PRK07004 replicative DNA helic  94.5   0.052 1.3E-06   35.8   3.9   24   35-58    214-237 (460)
330 cd03280 ABC_MutS2 MutS2 homolo  94.5   0.099 2.5E-06   33.6   5.3  133   35-186    29-168 (200)
331 PRK06995 flhF flagellar biosyn  94.4  0.0071 1.8E-07   42.8  -0.6  132   36-187   178-314 (404)
332 PRK07263 consensus              94.4   0.052 1.3E-06   35.8   3.8   46   13-58    182-227 (453)
333 cd01130 VirB11-like_ATPase Typ  94.4   0.095 2.4E-06   33.7   5.2  150   18-198    12-162 (186)
334 PRK12338 hypothetical protein;  94.4   0.069 1.8E-06   34.9   4.4   28   32-59      2-29  (320)
335 cd03282 ABC_MSH4_euk MutS4 hom  94.4     0.1 2.6E-06   33.5   5.3  134   34-187    29-169 (204)
336 cd01124 KaiC KaiC is a circadi  94.4   0.028 7.1E-07   38.0   2.3   23   37-59      2-24  (187)
337 PRK13542 consensus              94.3   0.094 2.4E-06   33.8   4.9   23   36-58     46-68  (224)
338 PRK11664 ATP-dependent RNA hel  94.3    0.36 9.1E-06   29.1   7.9  135   19-166     8-155 (812)
339 PRK08506 replicative DNA helic  94.3   0.064 1.6E-06   35.1   4.0   44   16-59    175-218 (473)
340 pfam05707 Zot Zonular occluden  94.2    0.14 3.6E-06   32.4   5.7   58  133-190    73-137 (183)
341 cd03281 ABC_MSH5_euk MutS5 hom  94.2    0.13 3.2E-06   32.8   5.4  121   34-171    29-155 (213)
342 PRK08840 replicative DNA helic  94.2    0.06 1.5E-06   35.3   3.8   27   32-58    215-241 (464)
343 KOG1051 consensus               94.2    0.21 5.2E-06   31.0   6.5  161   11-199   185-360 (898)
344 pfam00488 MutS_V MutS domain V  94.2    0.12 3.1E-06   32.9   5.3  120   34-171    42-166 (234)
345 PRK05595 replicative DNA helic  94.2   0.068 1.7E-06   34.9   4.0   43   16-58    183-225 (444)
346 pfam00437 GSPII_E Type II/IV s  94.2    0.11 2.8E-06   33.2   5.1   48    9-59    113-164 (283)
347 PRK08082 consensus              94.2   0.059 1.5E-06   35.4   3.7   45   14-58    183-227 (453)
348 PRK13539 cytochrome c biogenes  94.1   0.064 1.6E-06   35.1   3.8   53  131-188   145-199 (206)
349 cd03284 ABC_MutS1 MutS1 homolo  94.1    0.12   3E-06   32.9   5.1  119   35-171    31-154 (216)
350 PRK08118 topology modulation p  94.1    0.05 1.3E-06   36.0   3.2   23   37-59      4-26  (167)
351 PRK06321 replicative DNA helic  94.1    0.11 2.7E-06   33.4   4.8   39   21-59    213-251 (472)
352 COG2074 2-phosphoglycerate kin  94.1   0.097 2.5E-06   33.6   4.6   41   18-58     72-113 (299)
353 TIGR02237 recomb_radB DNA repa  94.0    0.04   1E-06   36.7   2.6   82   39-157    17-100 (223)
354 PRK09302 circadian clock prote  94.0   0.046 1.2E-06   36.2   2.9   36   24-59    255-291 (501)
355 COG0563 Adk Adenylate kinase a  94.0   0.046 1.2E-06   36.2   2.9   21   37-57      3-23  (178)
356 KOG2456 consensus               94.0    0.09 2.3E-06   33.9   4.3  150    8-178   160-322 (477)
357 cd01428 ADK Adenylate kinase (  94.0   0.054 1.4E-06   35.7   3.2   23   37-59      2-24  (194)
358 PRK07261 topology modulation p  94.0   0.055 1.4E-06   35.7   3.1   23   37-59      3-25  (171)
359 cd03287 ABC_MSH3_euk MutS3 hom  94.0    0.18 4.6E-06   31.5   5.8  119   35-171    32-155 (222)
360 pfam03308 ArgK ArgK protein. T  93.9    0.19 4.7E-06   31.4   5.9   44   18-61     13-56  (267)
361 PRK13650 cbiO cobalt transport  93.9    0.11 2.7E-06   33.4   4.6   51  132-184   157-210 (276)
362 PRK10436 hypothetical protein;  93.9    0.21 5.4E-06   31.0   6.1   56    3-60    186-241 (461)
363 PRK12337 2-phosphoglycerate ki  93.9    0.17 4.3E-06   31.7   5.6   35   24-58    252-286 (492)
364 PRK09825 idnK D-gluconate kina  93.9   0.065 1.7E-06   35.0   3.5   28   34-61      3-30  (176)
365 PRK13900 type IV secretion sys  93.9    0.12 3.1E-06   32.9   4.8   41   15-58    144-184 (332)
366 KOG1805 consensus               93.8    0.21 5.3E-06   31.0   5.9  157   18-198   672-855 (1100)
367 PRK03846 adenylylsulfate kinas  93.7    0.06 1.5E-06   35.3   3.0   44   17-60      7-50  (198)
368 KOG0922 consensus               93.7    0.26 6.6E-06   30.3   6.2  151    5-168    34-204 (674)
369 TIGR03600 phage_DnaB phage rep  93.7   0.044 1.1E-06   36.5   2.2   22   36-57    196-217 (421)
370 PRK08006 replicative DNA helic  93.7   0.098 2.5E-06   33.6   4.0   27   32-58    222-248 (471)
371 COG0529 CysC Adenylylsulfate k  93.7    0.09 2.3E-06   33.9   3.8   47   15-61      4-50  (197)
372 COG1203 CRISPR-associated heli  93.7    0.32 8.2E-06   29.5   6.7  159   31-189   210-400 (733)
373 smart00534 MUTSac ATPase domai  93.6   0.053 1.3E-06   35.8   2.6  117   37-171     2-123 (185)
374 COG2874 FlaH Predicted ATPases  93.6    0.07 1.8E-06   34.8   3.2  156   15-184    12-185 (235)
375 pfam06745 KaiC KaiC. This fami  93.6   0.065 1.7E-06   35.1   3.0   24   34-57     19-42  (231)
376 PRK10584 putative ABC transpor  93.6     0.2 5.2E-06   31.1   5.6   21   37-57     39-59  (228)
377 COG2804 PulE Type II secretory  93.6    0.27 6.9E-06   30.1   6.2   52    8-61    234-285 (500)
378 TIGR02533 type_II_gspE general  93.6    0.17 4.2E-06   31.8   5.0  135   18-184   231-391 (495)
379 PRK00279 adk adenylate kinase;  93.5   0.073 1.9E-06   34.7   3.1  123   37-180     3-127 (215)
380 COG0467 RAD55 RecA-superfamily  93.5   0.077   2E-06   34.5   3.2   28   34-61     23-50  (260)
381 PRK02496 adk adenylate kinase;  93.5   0.076 1.9E-06   34.5   3.2   23   37-59      4-26  (185)
382 cd03226 ABC_cobalt_CbiO_domain  93.4    0.18 4.5E-06   31.6   5.0   23   36-58     28-50  (205)
383 TIGR00455 apsK adenylylsulfate  93.4   0.072 1.8E-06   34.7   2.9   33   29-61     14-46  (187)
384 COG2842 Uncharacterized ATPase  93.3    0.59 1.5E-05   27.4   7.5  129    8-166    68-199 (297)
385 PTZ00111 DNA replication licen  93.3    0.11 2.8E-06   33.2   3.8  137   12-186   451-640 (916)
386 COG4988 CydD ABC-type transpor  93.3    0.22 5.6E-06   30.8   5.3   63  107-173   454-518 (559)
387 PTZ00088 adenylate kinase 1; P  93.3   0.084 2.1E-06   34.2   3.2   23   37-59      3-25  (225)
388 cd00267 ABC_ATPase ABC (ATP-bi  93.3    0.13 3.2E-06   32.8   4.0   46  130-175    98-145 (157)
389 cd02021 GntK Gluconate kinase   93.2   0.083 2.1E-06   34.2   3.1   24   37-60      2-25  (150)
390 TIGR01128 holA DNA polymerase   93.2    0.82 2.1E-05   26.2   9.5  157   34-228     2-178 (331)
391 pfam00176 SNF2_N SNF2 family N  93.2    0.82 2.1E-05   26.2   8.4  143   17-168     2-156 (295)
392 PRK05541 adenylylsulfate kinas  93.1    0.11 2.9E-06   33.1   3.6   28   33-60      6-33  (176)
393 PRK05506 bifunctional sulfate   93.1    0.13 3.3E-06   32.6   3.9   49   12-60    421-469 (613)
394 PRK09165 replicative DNA helic  93.1    0.14 3.7E-06   32.3   4.2   25   34-58    205-229 (484)
395 COG0541 Ffh Signal recognition  93.1    0.15 3.7E-06   32.2   4.2   98   31-146    97-198 (451)
396 pfam01583 APS_kinase Adenylyls  93.1    0.12   3E-06   33.0   3.7   27   34-60      2-28  (157)
397 pfam08423 Rad51 Rad51. Rad51 i  93.1   0.085 2.2E-06   34.1   2.9   21   37-57     46-66  (261)
398 cd03114 ArgK-like The function  93.1    0.15 3.8E-06   32.1   4.2   53   39-95      4-65  (148)
399 TIGR01351 adk adenylate kinase  93.0   0.079   2E-06   34.4   2.7  139   37-191     2-154 (232)
400 TIGR02868 CydC ABC transporter  93.0    0.12 3.1E-06   32.9   3.6  130   37-170   390-566 (566)
401 PRK08694 consensus              92.9    0.14 3.6E-06   32.4   3.9   44   16-59    200-243 (468)
402 pfam02367 UPF0079 Uncharacteri  92.9    0.14 3.5E-06   32.5   3.8   38   21-61      5-42  (123)
403 cd03213 ABCG_EPDR ABCG transpo  92.9    0.25 6.3E-06   30.4   5.1   22   36-57     37-58  (194)
404 TIGR01842 type_I_sec_PrtD type  92.9   0.096 2.5E-06   33.7   3.0  146   19-171   344-527 (556)
405 PRK03731 aroL shikimate kinase  92.9    0.11 2.8E-06   33.3   3.3   27   34-60      2-28  (172)
406 COG1674 FtsK DNA segregation A  92.9    0.21 5.2E-06   31.0   4.7  164   30-199   527-715 (858)
407 PRK06851 hypothetical protein;  92.8    0.24 6.1E-06   30.5   5.0  161   31-200    28-237 (368)
408 cd04155 Arl3 Arl3 subfamily.    92.8    0.38 9.6E-06   28.9   6.0  136   23-199     4-141 (173)
409 cd03285 ABC_MSH2_euk MutS2 hom  92.8    0.32 8.2E-06   29.5   5.6  134   34-186    30-170 (222)
410 PRK09270 frcK putative fructos  92.8   0.096 2.4E-06   33.7   2.8   27   35-61     35-61  (230)
411 PRK00131 aroK shikimate kinase  92.8    0.11 2.8E-06   33.2   3.1   24   37-60      7-30  (175)
412 TIGR00750 lao LAO/AO transport  92.7    0.32 8.1E-06   29.5   5.4   41   19-60     23-64  (333)
413 PRK13235 nifH nitrogenase redu  92.7    0.33 8.5E-06   29.3   5.5   30  130-159   143-172 (274)
414 PRK12727 flagellar biosynthesi  92.7   0.056 1.4E-06   35.6   1.5  150   17-186   322-484 (557)
415 PRK07773 replicative DNA helic  92.7    0.16 4.2E-06   31.8   3.9  106   34-145   203-328 (868)
416 TIGR03574 selen_PSTK L-seryl-t  92.6    0.12   3E-06   32.9   3.2   23   37-59      2-24  (249)
417 COG3284 AcoR Transcriptional a  92.6    0.36 9.1E-06   29.1   5.6  114   15-156   316-433 (606)
418 COG1936 Predicted nucleotide k  92.6   0.094 2.4E-06   33.8   2.6   20   37-56      3-22  (180)
419 TIGR02982 heterocyst_DevA ABC   92.5   0.065 1.7E-06   35.1   1.7   46   10-55      6-52  (220)
420 COG1061 SSL2 DNA or RNA helica  92.5    0.21 5.3E-06   31.0   4.3  137   17-170    41-184 (442)
421 TIGR02857 CydD ABC transporter  92.5    0.19   5E-06   31.2   4.1  143   24-172   371-560 (570)
422 smart00242 MYSc Myosin. Large   92.5    0.36 9.1E-06   29.1   5.5   56    5-61     62-119 (677)
423 PRK13833 conjugal transfer pro  92.5    0.42 1.1E-05   28.5   5.8   50    7-59    116-169 (323)
424 TIGR03575 selen_PSTK_euk L-ser  92.5    0.12   3E-06   33.0   3.0   25   38-62      3-27  (340)
425 PRK12726 flagellar biosynthesi  92.5    0.32 8.1E-06   29.5   5.1   42   20-61    182-233 (407)
426 cd03292 ABC_FtsE_transporter F  92.4    0.62 1.6E-05   27.2   6.6   21   37-57     30-50  (214)
427 cd01381 MYSc_type_VII Myosin m  92.4     0.4   1E-05   28.7   5.6   56    5-61     56-113 (671)
428 COG0552 FtsY Signal recognitio  92.4    0.17 4.4E-06   31.6   3.8   31   31-61    136-166 (340)
429 PRK13946 shikimate kinase; Pro  92.4    0.22 5.7E-06   30.8   4.3   34   22-59     12-45  (195)
430 cd03239 ABC_SMC_head The struc  92.4    0.32 8.2E-06   29.5   5.1   43  131-173   117-161 (178)
431 PRK13851 type IV secretion sys  92.3    0.28 7.1E-06   30.0   4.7   38   18-58    149-186 (343)
432 COG1102 Cmk Cytidylate kinase   92.3    0.12   3E-06   33.0   2.7   22   37-58      3-24  (179)
433 PRK06696 uridine kinase; Valid  92.2     0.4   1E-05   28.7   5.4   43   18-60      8-52  (227)
434 cd01384 MYSc_type_XI Myosin mo  92.2    0.46 1.2E-05   28.2   5.7   55    5-60     58-114 (674)
435 pfam00406 ADK Adenylate kinase  92.1    0.29 7.5E-06   29.8   4.6   20   39-58      1-20  (186)
436 COG3598 RepA RecA-family ATPas  92.1    0.58 1.5E-05   27.4   6.1   26   33-58     88-113 (402)
437 PRK11889 flhF flagellar biosyn  92.1    0.17 4.2E-06   31.8   3.3  135   34-186   241-379 (436)
438 cd00124 MYSc Myosin motor doma  92.0    0.42 1.1E-05   28.5   5.4   30   31-60     83-112 (679)
439 PRK00889 adenylylsulfate kinas  92.0     0.2 5.1E-06   31.1   3.7   26   34-59      4-29  (175)
440 cd02032 Bchl_like This family   92.0    0.26 6.7E-06   30.2   4.2  117   37-157     3-166 (267)
441 pfam00063 Myosin_head Myosin h  91.9    0.45 1.1E-05   28.3   5.4   55    5-60     55-111 (679)
442 cd00464 SK Shikimate kinase (S  91.9    0.17 4.3E-06   31.7   3.2   24   37-60      2-25  (154)
443 cd00983 recA RecA is a  bacter  91.8    0.31   8E-06   29.5   4.5  130   24-173    43-195 (325)
444 COG5635 Predicted NTPase (NACH  91.8    0.26 6.7E-06   30.2   4.1  138   36-199   224-375 (824)
445 TIGR03522 GldA_ABC_ATP gliding  91.8    0.23 5.7E-06   30.7   3.7  166   11-185     8-206 (301)
446 cd03238 ABC_UvrA The excision   91.7    0.36 9.2E-06   29.1   4.7   39  133-171   110-150 (176)
447 PRK13947 shikimate kinase; Pro  91.7     0.2 5.1E-06   31.1   3.4   24   37-60      4-27  (171)
448 KOG1533 consensus               91.7    0.45 1.2E-05   28.3   5.2   25   34-58      2-26  (290)
449 TIGR01189 ccmA heme ABC export  91.7    0.15 3.8E-06   32.2   2.7   24   34-57     26-49  (204)
450 cd02027 APSK Adenosine 5'-phos  91.6    0.19 4.8E-06   31.3   3.2   23   37-59      2-24  (149)
451 COG0572 Udk Uridine kinase [Nu  91.6   0.095 2.4E-06   33.7   1.7  112   36-150    10-127 (218)
452 cd01387 MYSc_type_XV Myosin mo  91.6    0.51 1.3E-05   27.8   5.4   30   31-60     84-113 (677)
453 cd03274 ABC_SMC4_euk Eukaryoti  91.5    0.58 1.5E-05   27.4   5.6   39  133-171   152-191 (212)
454 PRK06904 replicative DNA helic  91.5    0.15 3.7E-06   32.3   2.5   27   32-58    219-245 (472)
455 COG3854 SpoIIIAA ncharacterize  91.5    0.32 8.2E-06   29.5   4.3   42   13-58    120-161 (308)
456 TIGR00954 3a01203 Peroxysomal   91.5    0.18 4.7E-06   31.4   3.0   44   12-56    529-578 (788)
457 cd01918 HprK_C HprK/P, the bif  91.4    0.22 5.7E-06   30.7   3.4   24   34-57     14-37  (149)
458 PRK05057 aroK shikimate kinase  91.4     0.2 5.1E-06   31.2   3.2   24   37-60      7-30  (172)
459 PRK10646 putative ATPase; Prov  91.4    0.35 8.8E-06   29.2   4.4   36   23-61     20-55  (153)
460 PRK05636 replicative DNA helic  91.4     0.2 5.1E-06   31.1   3.2   25   34-58    267-291 (507)
461 cd02020 CMPK Cytidine monophos  91.3    0.17 4.2E-06   31.8   2.7   23   38-60      3-25  (147)
462 PRK04132 replication factor C   91.3    0.21 5.4E-06   30.9   3.2  145    4-183    17-163 (863)
463 pfam00485 PRK Phosphoribulokin  91.3     0.2   5E-06   31.2   3.0   24   37-60      2-25  (196)
464 COG5019 CDC3 Septin family pro  91.3     1.3 3.2E-05   24.7   7.2  163   14-197     3-183 (373)
465 cd01377 MYSc_type_II Myosin mo  91.2    0.37 9.4E-06   29.0   4.4   31   30-60     87-117 (693)
466 PRK10535 macrolide transporter  91.2    0.96 2.5E-05   25.6   6.5   53  131-185   163-217 (648)
467 pfam00154 RecA recA bacterial   91.2    0.39 9.9E-06   28.8   4.5  131   24-173    40-192 (322)
468 cd03268 ABC_BcrA_bacitracin_re  91.2    0.55 1.4E-05   27.6   5.2   40   15-57     10-49  (208)
469 PRK05480 uridine kinase; Provi  91.1    0.26 6.5E-06   30.3   3.4   27   32-58      4-30  (209)
470 cd04160 Arfrp1 Arfrp1 subfamil  91.0    0.82 2.1E-05   26.2   6.0  127   36-199     1-133 (167)
471 pfam09439 SRPRB Signal recogni  91.0    0.79   2E-05   26.3   5.9  131   35-201     4-140 (181)
472 CHL00072 chlL photochlorophyll  91.0    0.71 1.8E-05   26.7   5.7   54   37-94      3-56  (271)
473 COG0703 AroK Shikimate kinase   91.0     0.2   5E-06   31.2   2.8   24   36-59      4-27  (172)
474 cd02028 UMPK_like Uridine mono  91.0     0.2   5E-06   31.2   2.8   23   37-59      2-24  (179)
475 COG3910 Predicted ATPase [Gene  90.9       1 2.5E-05   25.5   6.3  158    4-171     9-189 (233)
476 cd01385 MYSc_type_IX Myosin mo  90.9    0.42 1.1E-05   28.6   4.4   30   31-60     91-120 (692)
477 COG1419 FlhF Flagellar GTP-bin  90.9    0.15 3.7E-06   32.2   2.1   58  130-187   281-341 (407)
478 cd02023 UMPK Uridine monophosp  90.9    0.23 5.8E-06   30.7   3.0   22   37-58      2-23  (198)
479 COG0802 Predicted ATPase or ki  90.9    0.34 8.6E-06   29.3   3.9   35   23-60     17-51  (149)
480 COG1100 GTPase SAR1 and relate  90.9     0.8   2E-05   26.3   5.8   26   35-60      6-31  (219)
481 cd02038 FleN-like FleN is a me  90.9    0.49 1.3E-05   28.0   4.7  103   38-169     4-106 (139)
482 cd04158 ARD1 ARD1 subfamily.    90.8    0.37 9.4E-06   29.0   4.1  122   37-198     2-125 (169)
483 KOG0480 consensus               90.8    0.57 1.5E-05   27.5   5.0  144    9-186   342-524 (764)
484 COG0305 DnaB Replicative DNA h  90.8    0.64 1.6E-05   27.1   5.3  127   14-186   176-303 (435)
485 PRK11448 hsdR type I restricti  90.8    0.43 1.1E-05   28.4   4.4  121   17-141   421-553 (1126)
486 PRK12608 transcription termina  90.7    0.46 1.2E-05   28.2   4.4   39   37-102   135-173 (379)
487 PRK13949 shikimate kinase; Pro  90.7    0.26 6.6E-06   30.2   3.1   24   37-60      4-27  (169)
488 cd00071 GMPK Guanosine monopho  90.6    0.23 5.8E-06   30.7   2.8   21   37-57      2-22  (137)
489 PRK13948 shikimate kinase; Pro  90.6    0.31 7.9E-06   29.6   3.5   28   32-59      8-35  (182)
490 PHA00729 NTP-binding motif con  90.6     0.3 7.7E-06   29.7   3.4   37   23-60      7-43  (228)
491 cd01379 MYSc_type_III Myosin m  90.5    0.47 1.2E-05   28.2   4.4   31   30-60     82-112 (653)
492 pfam01745 IPT Isopentenyl tran  90.5    0.26 6.6E-06   30.2   3.0   25   36-60      3-27  (232)
493 PRK13894 conjugal transfer ATP  90.5    0.62 1.6E-05   27.2   5.0   47   10-59    124-174 (320)
494 cd01382 MYSc_type_VI Myosin mo  90.5    0.47 1.2E-05   28.2   4.3   32   29-60     86-117 (717)
495 PRK04296 thymidine kinase; Pro  90.4    0.52 1.3E-05   27.8   4.5   97   37-160     5-110 (197)
496 pfam05272 VirE Virulence-assoc  90.4     1.6   4E-05   23.9  11.9   40   20-59     37-77  (198)
497 cd03230 ABC_DR_subfamily_A Thi  90.3    0.42 1.1E-05   28.6   3.9  133   39-185    31-169 (173)
498 cd01378 MYSc_type_I Myosin mot  90.3     0.5 1.3E-05   28.0   4.3   33   26-58     78-110 (674)
499 PRK09354 recA recombinase A; P  90.3    0.33 8.5E-06   29.3   3.4   90   39-146    65-154 (350)
500 PRK06749 replicative DNA helic  90.3    0.33 8.4E-06   29.4   3.4  133   13-148   165-317 (428)

No 1  
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=100.00  E-value=0  Score=548.37  Aligned_cols=335  Identities=43%  Similarity=0.701  Sum_probs=315.6

Q ss_pred             CCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHH
Q ss_conf             66555587565610929999999999982889816631179898889999999999817799886431210126788679
Q gi|254780217|r    2 IDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFV   81 (347)
Q Consensus         2 ~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~   81 (347)
                      |++.++|+.|++|+||+.+++.|.+++++||+||||||+||+|+||+|+|++||++|||++.....+++.+.+|+++++|
T Consensus        13 ~~g~p~Pr~~~~liGq~~~~~~L~~a~~~gRl~HA~Lf~GP~GiGKaTlA~~~A~~Ll~~~~~~~~~~~~~~pd~~~~~~   92 (352)
T PRK09112         13 IDGVPSPSENNRLFGHEEARAFLAQAYREGRLHHALLFEGPEGIGKATLAFHLANHILSHPDPNEAPETLADPDPASPLW   92 (352)
T ss_pred             CCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHH
T ss_conf             89998964464627869999999999984996524653589980899999999999866998666865567888787789


Q ss_pred             HHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCC
Q ss_conf             99967898754530010001013421232378875544310222111121035322055424000145677766303434
Q gi|254780217|r   82 KQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKV  161 (347)
Q Consensus        82 ~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t  161 (347)
                      +++.+|+|||++++.+++|++.++.++.|+|||||++.+|++++|.+|+|||+|||+||.||.+|+|||||||||||++|
T Consensus        93 r~i~~g~hpdl~~i~r~~d~k~~~~~~~I~vd~iR~l~~~~~~~~~~~~~kv~Iid~ad~m~~~aaNALLK~LEEPp~~~  172 (352)
T PRK09112         93 RQIAQGAHPNLLHLTRPFDEKTGKFKTAITVDEIRRVTHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARA  172 (352)
T ss_pred             HHHHCCCCCCEEEEECCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCEEEEEECCHHHHHHHHHHHHHHHHHCCCCCE
T ss_conf             99974899995655343220214543357779999999984548866880699981878746999999999853489874


Q ss_pred             CEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHHHHHCCC---CCHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHH
Q ss_conf             1676504433573025203698864799989999999972788---8967899999975989789998814577999999
Q gi|254780217|r  162 LFILISHASPTILSTIRSRCLSIKFNSLSENNLYKALEQLKIM---GWDSKRDFVKIAAYGSVARAIKILHYDCDKIISS  238 (347)
Q Consensus       162 ~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L~~~~~~---~~~~~~~~~~~~s~Gs~~~A~~ll~~~~~~~~~~  238 (347)
                      +|||+|+++++|||||+||||+++|+|++.+++.+.|.+...+   ..++....++..|+||+|+|+.+++.+..++++.
T Consensus       173 ~fiLit~~~~~ll~TI~SRCq~~~f~pL~~~di~~~L~~i~~~~~~~~~~~~~~l~~~a~GS~~~Al~L~~~~gl~i~~~  252 (352)
T PRK09112        173 LFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSKQGISAGEETEALLQRSEGSVRKALLLLNYGGLEIIDT  252 (352)
T ss_pred             EEEEEECCHHHCHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHHHHCCCHHHHHHH
T ss_conf             89988699777768999743321488939899999999875126899879999999870899889998744877999999


Q ss_pred             HHHHHCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             99984032343228999999999831676999999999999999999998654100454899999999999999987622
Q gi|254780217|r  239 YIDLIHIPRQEYALQKMQQIADELLSQDQKIAFDFLIEFILKEICKSAKAAALSGQLEEADQIAQIYFSLVKRVHAFSMY  318 (347)
Q Consensus       239 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~i~~~~~~~~~~  318 (347)
                      +..++..  ...+......+++.+..++....|+.|.+++..++....+.............|++.|+++.+..++...|
T Consensus       253 ~~~ll~~--p~~d~~~~~~la~~~~~~~~~~~~~~~~~~l~~~l~~~ar~~a~~~~~~~a~~~a~~~~~~~~~~~~~~a~  330 (352)
T PRK09112        253 VDQLLAG--SGFDLPKAHALAGALSGRESEVQFDLFRDHLLDRIANEARRAAESGQLALAERWARFWSELHEEIVEAETY  330 (352)
T ss_pred             HHHHHHC--CCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9999808--99998999999999847774789999999999999999998501588378999999999999999988987


Q ss_pred             CCCHHHHHHHHHHHHHHHHH
Q ss_conf             79979999999999972786
Q gi|254780217|r  319 NLDRRQMIFHLLSKARECND  338 (347)
Q Consensus       319 NLd~~~~ll~ll~~l~~~~~  338 (347)
                      |||+++++++++.+++++..
T Consensus       331 NLD~~~~il~~~~~i~~a~r  350 (352)
T PRK09112        331 NLDRKQTVISLLERIHRAFR  350 (352)
T ss_pred             CCCHHHHHHHHHHHHHHHHH
T ss_conf             77879999999999999861


No 2  
>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=100.00  E-value=0  Score=537.61  Aligned_cols=252  Identities=27%  Similarity=0.448  Sum_probs=221.6

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH
Q ss_conf             96655558756561092999999999998288981663117989888999999999981779988643121012678867
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF   80 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~   80 (347)
                      +|+|||||++|++|+||+.++++|+|++..||+||||||+||+|+||||.|+.||++|+|. ..+..||+.|.+      
T Consensus         3 ~laRKyRP~~F~d~~GQ~~iv~tL~NAi~~~ri~HAYLF~GpRGtGKTS~ARIfAKaLNC~-~~~~~PCn~C~~------   75 (363)
T TIGR02397         3 VLARKYRPQTFEDVIGQEHIVKTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQ-GPDGEPCNECES------   75 (363)
T ss_pred             CCEECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEECCCCCCCHHHHHHHHHHHHCCC-CCCCCCCCCCCH------
T ss_conf             6122237886110235179999999999718966234502859976355899999986588-787787777502------


Q ss_pred             HHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCC
Q ss_conf             99996789875453001000101342123237887554431022211112103532205542400014567776630343
Q gi|254780217|r   81 VKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQK  160 (347)
Q Consensus        81 ~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~  160 (347)
                      |..+.+|+|+|+++|+.+.+.         +|||||+|++.+.++|..|+||||||||||+||.+|.|||||||||||++
T Consensus        76 C~~i~~g~~~DviEiDAASN~---------gVD~IR~l~e~v~y~P~~~kYKvYIIDEVHMLS~~AFNALLKTLEEPP~h  146 (363)
T TIGR02397        76 CKEINSGSSLDVIEIDAASNN---------GVDDIRELRENVKYAPSKGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEH  146 (363)
T ss_pred             HHHHHCCCCCCEEEECCCCCC---------CHHHHHHHHHHHCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHCCCCCC
T ss_conf             277652898666886486568---------78899999873036875544335887323028656899987652279876


Q ss_pred             CCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCC-----C
Q ss_conf             41676504433573025203698864799989999999----97278889678999999759897899988145-----7
Q gi|254780217|r  161 VLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKILHY-----D  231 (347)
Q Consensus       161 t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~-----~  231 (347)
                      ++|||.|++++|||+||+||||+|.|++++.+++.+.|    +++++.++++++.+++..|+||+|+|++++++     +
T Consensus       147 V~FIlATTE~~KiP~TIlSRCQrF~Fk~i~~~~i~~~L~~I~~~E~I~~e~~AL~~IA~~a~GS~RDAlsllDQ~~~~~~  226 (363)
T TIGR02397       147 VVFILATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIKIEDEALELIARAADGSMRDALSLLDQAISFGN  226 (363)
T ss_pred             EEEEEECCCHHHCCCCCEEECEEECCCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHCC
T ss_conf             28887348711205540210003126789989999999999987088317789999999628961068899999998268


Q ss_pred             H---HHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHC-CCHHHHHH
Q ss_conf             7---99999999984032343228999999999831-67699999
Q gi|254780217|r  232 C---DKIISSYIDLIHIPRQEYALQKMQQIADELLS-QDQKIAFD  272 (347)
Q Consensus       232 ~---~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~  272 (347)
                      .   .--++...+++....    .....++.+.+.. ++....+.
T Consensus       227 ~~DG~i~~~~v~~~lGl~~----~~~l~~l~~~~~~~~d~~~~l~  267 (363)
T TIGR02397       227 GSDGKITYEDVNEMLGLVD----EEKLIELLEAILNKRDTEEALK  267 (363)
T ss_pred             CCCCCCCHHHHHHHHCCCC----HHHHHHHHHHHHCCCCHHHHHH
T ss_conf             8788657899999835777----8999999999753876889999


No 3  
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=100.00  E-value=0  Score=527.21  Aligned_cols=334  Identities=34%  Similarity=0.484  Sum_probs=298.0

Q ss_pred             CCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCC----CCC
Q ss_conf             6655558756561092999999999998288981663117989888999999999981779988643121012----678
Q gi|254780217|r    2 IDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNP----DPC   77 (347)
Q Consensus         2 ~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~----~~~   77 (347)
                      +++-++|+.|++|+||+.+++.|.+++.+||+||||||+||+|+||+++|++||++++|++.....+|..|.+    ++.
T Consensus         7 ~~~~p~P~~~~~liGqe~~~~~L~~a~~~grl~HA~Lf~Gp~GiGK~tlA~~~A~~ll~~~~~~~~~~~~~~~~l~~~~~   86 (363)
T PRK07471          7 PEADPHPRETTALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDAVFPPPASLAVDPD   86 (363)
T ss_pred             CCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHCCCCC
T ss_conf             89995999827316819999999999985997645876799981889999999999857999777776787053125877


Q ss_pred             CHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHC
Q ss_conf             86799996789875453001000101342123237887554431022211112103532205542400014567776630
Q gi|254780217|r   78 SPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEP  157 (347)
Q Consensus        78 ~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEP  157 (347)
                      +++|+++.+++|||++++.+.+++|+++.+..|+|||||++++|++++|.+|+|||+|||+||+||.+|+||||||||||
T Consensus        87 ~p~~r~i~~~~hpdl~~i~r~~d~k~~~~~~~I~Vd~iR~l~~~~~~~p~~g~~kV~IId~ad~mn~~aaNALLK~LEEP  166 (363)
T PRK07471         87 HPVARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRETIGFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEP  166 (363)
T ss_pred             CCHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCEEEEEECHHHHCHHHHHHHHHHHCCC
T ss_conf             72899995269998466762001133321244539999999999724852489669998687873889999999972158


Q ss_pred             CCCCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHHHHH-CCCCCHHHHHHHHHHCCCCHHHHHHHHCCCHHHHH
Q ss_conf             34341676504433573025203698864799989999999972-78889678999999759897899988145779999
Q gi|254780217|r  158 PQKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKALEQL-KIMGWDSKRDFVKIAAYGSVARAIKILHYDCDKII  236 (347)
Q Consensus       158 p~~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L~~~-~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~~~~~~  236 (347)
                      |++|+|||+|+++++|||||+||||.++|+|++++++.++|.+. ....+++.+..++.+|+||+|+|+.+++.+..+++
T Consensus       167 P~~t~fiLit~~~~~llpTI~SRCq~~~~~~l~~~~~~~~L~~~~~~~~~~~~~~~la~~a~Gs~~~Al~l~~~~~~~l~  246 (363)
T PRK07471        167 PARSLLLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIAALAEAGGPALDDAELAALAALAEGSVGRALRLAGGDGLALY  246 (363)
T ss_pred             CCCEEEEEEECCHHHCHHHHHHHCCCCCCCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCHHHHH
T ss_conf             98838998639977777999973524258995999999999984389999899999999758999999987479859999


Q ss_pred             HHHHHHHCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCC-----------------HHHHH
Q ss_conf             9999984032343228999999999831676999999999999999999998654100-----------------45489
Q gi|254780217|r  237 SSYIDLIHIPRQEYALQKMQQIADELLSQDQKIAFDFLIEFILKEICKSAKAAALSGQ-----------------LEEAD  299 (347)
Q Consensus       237 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~-----------------~~~~~  299 (347)
                      +.+..++... ...+...+..+++.+.+.+ ...+..+++++..|+....+.......                 .....
T Consensus       247 ~~~~~ll~~~-~~~d~~~~~~lad~~a~~~-~~~~~~~l~l~~~~l~~~~r~~~~~~~~~~~~~~E~~~~~rl~~~~~~~  324 (363)
T PRK07471        247 QRTTALLDTL-PRLDRRALHALADAAAGGD-RAAFALFLDLLDRWLARLARAGARNAGLPEAVPGEAALLARLAPDARLR  324 (363)
T ss_pred             HHHHHHHHHC-CCCCHHHHHHHHHHHCCCC-HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHCCCCHHHH
T ss_conf             9999999747-6789999999999981687-7999999999999999999875227881001731799998608863089


Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999876227997999999999997278
Q gi|254780217|r  300 QIAQIYFSLVKRVHAFSMYNLDRRQMIFHLLSKARECN  337 (347)
Q Consensus       300 ~l~~~~~~i~~~~~~~~~~NLd~~~~ll~ll~~l~~~~  337 (347)
                      +|++.|+.+.+..++...+|||+++++++++..++.+.
T Consensus       325 ~~~~~~~~l~~~~~~~~~~NLD~k~~~ld~~~~l~~~a  362 (363)
T PRK07471        325 RWAEVWEKIGRRARRTEAVNLDRKALVLDVFGLLAEAA  362 (363)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHH
T ss_conf             99999999999999998618988999999999999972


No 4  
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=100.00  E-value=0  Score=483.30  Aligned_cols=319  Identities=22%  Similarity=0.329  Sum_probs=242.8

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH
Q ss_conf             96655558756561092999999999998288981663117989888999999999981779988643121012678867
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF   80 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~   80 (347)
                      +|+|||||++|++|+||+.+++.|.+++.+||+||||||+||+|+||+++|+.||++|+|.......|||.|.+      
T Consensus         3 ~LarKYRP~~F~evIGQe~iv~~L~nAi~~~Rl~HAYLFsGPrGvGKTt~ArifAkaLnC~~~~~~~PCg~C~s------   76 (523)
T PRK08451          3 ALALKYRPKHFDELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFSRALVCEQGPSSTPCGTCAQ------   76 (523)
T ss_pred             HHHHHHCCCCHHHCCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHH------
T ss_conf             14442089965440494999999999998599671587578998688999999999975999999898887888------


Q ss_pred             HHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCC
Q ss_conf             99996789875453001000101342123237887554431022211112103532205542400014567776630343
Q gi|254780217|r   81 VKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQK  160 (347)
Q Consensus        81 ~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~  160 (347)
                      |+.+.+|+|||+++++..         .+.+||+||++++.+.++|..|+|||+|||+||+||.+|+|||||||||||++
T Consensus        77 C~~i~~g~hpDViEiDaa---------sn~gID~IReLie~~~~~P~~gryKV~IIDEah~Lt~~A~NALLKTLEEPP~~  147 (523)
T PRK08451         77 CQAALEGRHIDIIEMDAA---------SNRGIDDIRNLIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSY  147 (523)
T ss_pred             HHHHHCCCCCCEEEECCC---------CCCCHHHHHHHHHHHCCCCCCCCEEEEEEECCCCCCHHHHHHHHHHCCCCCCC
T ss_conf             999864899985510553---------33689999999997235886797279998260304899999999970389878


Q ss_pred             CCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCH----
Q ss_conf             41676504433573025203698864799989999999----9727888967899999975989789998814577----
Q gi|254780217|r  161 VLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKILHYDC----  232 (347)
Q Consensus       161 t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~~----  232 (347)
                      |+|||+|+++++||+||+||||+|+|++++.+++...|    .+++.+++++++.+++..|+||+|+|+.++++..    
T Consensus       148 vvFILaTTep~KLp~TIlSRCQ~f~Fk~I~~~~I~~~L~~I~~~E~i~~e~~AL~~IA~~a~GslRDalslLdQ~i~~~~  227 (523)
T PRK08451        148 VKFILATTDPLKLPATILSRTQHFRFKQIPQNSIISHLKTILNKEGVSYEPEALEILARSGSGSLRDTLTLLDQAIIFCK  227 (523)
T ss_pred             CEEEEECCCHHHCHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHCC
T ss_conf             37999759947684888742031103379999999999999998399879999999999778948689879999998479


Q ss_pred             -HHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHH-------HHHHHHHHHHHHHHHHCCHHHHHHHHHH
Q ss_conf             -99999999984032343228999999999831676999999999-------9999999999986541004548999999
Q gi|254780217|r  233 -DKIISSYIDLIHIPRQEYALQKMQQIADELLSQDQKIAFDFLIE-------FILKEICKSAKAAALSGQLEEADQIAQI  304 (347)
Q Consensus       233 -~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~l~~~l~~~~~~~~~~~~~~~~~~l~~~  304 (347)
                       .--.....+++....    ...+.++.+.+...+....++.+.+       .+.+.+....+...+..+......++..
T Consensus       228 ~~i~~~~v~~~lG~~d----~~~~~~l~~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r  303 (523)
T PRK08451        228 NAITESKVADMLGLLD----PSKIEDFFQAILNKDKEKLFELLAELEDYEAEMVLDEMLLFLKEKLLSKDSEFSILIYER  303 (523)
T ss_pred             CCCCHHHHHHHHCCCC----HHHHHHHHHHHHHCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCHHHHHH
T ss_conf             9877999999858889----999999999999458999999999985318999999999999999715785437899999


Q ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             9999999998762279979999999999972786
Q gi|254780217|r  305 YFSLVKRVHAFSMYNLDRRQMIFHLLSKARECND  338 (347)
Q Consensus       305 ~~~i~~~~~~~~~~NLd~~~~ll~ll~~l~~~~~  338 (347)
                      +..++......-.++-|..-.+.-.+.+|-++..
T Consensus       304 ~~~il~~~~~~~~~~~~~~~~l~~~~~km~e~~~  337 (523)
T PRK08451        304 FFRILSSAKSLLKEGADDGFVLLLMLFKMKEALK  337 (523)
T ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCC
T ss_conf             9999999999863078861249999999986036


No 5  
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=100.00  E-value=0  Score=473.77  Aligned_cols=215  Identities=29%  Similarity=0.381  Sum_probs=203.1

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH
Q ss_conf             96655558756561092999999999998288981663117989888999999999981779988643121012678867
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF   80 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~   80 (347)
                      +|.|||||++|++|+||+.+++.|.+++..||+||||||+||+|+||+++|+.||++|+|.......||+.|.+      
T Consensus         5 alyrKYRPk~F~eIIGQe~iv~~L~nAI~~~RiaHAYLFsGPrGvGKTTlArifAkaLnC~~~~~~dpCg~C~s------   78 (613)
T PRK05896          5 TFYRKYRPHNFKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSV------   78 (613)
T ss_pred             CHHHHCCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHH------
T ss_conf             12450179976552382999999999998499762277558998488999999999966999999998888878------


Q ss_pred             HHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCC
Q ss_conf             99996789875453001000101342123237887554431022211112103532205542400014567776630343
Q gi|254780217|r   81 VKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQK  160 (347)
Q Consensus        81 ~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~  160 (347)
                      |+.+..|+|||+++++.+.         ..+||+||++++.++++|..|+|||+|||+||+||.+|+|||||||||||++
T Consensus        79 C~~I~~g~h~DviEIdaas---------n~gIDeIReLie~~~~~P~~gkyKV~IIDEah~Ln~~AaNALLKtLEEPP~~  149 (613)
T PRK05896         79 CESINTNQSVDIVELDAAS---------NNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKH  149 (613)
T ss_pred             HHHHHCCCCCCEEEEECCC---------CCCHHHHHHHHHHHCCCCCCCCCEEEEECCHHHCCHHHHHHHHHHCCCCCCC
T ss_conf             9998569999868840655---------5788999999997085875799459998162217999999999853489878


Q ss_pred             CCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf             41676504433573025203698864799989999999----97278889678999999759897899988145
Q gi|254780217|r  161 VLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       161 t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~  230 (347)
                      |+|||+|+++++|||||+||||+|.|++++.+++.+.|    ++++.+++++++..++..|+||+|+|++++++
T Consensus       150 viFIL~Ttep~KLLpTIlSRCQrf~Fkri~~~~I~~~L~~I~~kE~i~ie~~AL~~Ia~~adGs~RDAlslLdQ  223 (613)
T PRK05896        150 VVFIFATTEFQKIPLTIISRCQRYNFKKLNNSELQELLKSIAKKEKIKIEDNAIDKIADLADGSLRDGLSILDQ  223 (613)
T ss_pred             CEEEEEECCHHHCCHHHHHCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             37999828815493766403550017889989999999999997399878999999999768848789889999


No 6  
>PRK06674 DNA polymerase III subunits gamma and tau; Validated
Probab=100.00  E-value=0  Score=466.12  Aligned_cols=215  Identities=30%  Similarity=0.425  Sum_probs=204.0

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH
Q ss_conf             96655558756561092999999999998288981663117989888999999999981779988643121012678867
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF   80 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~   80 (347)
                      +|.|||||++|++|+||+++.+.|.+++.+||+||||||+||+|+||+++|+.||++|+|.......||+.|.+      
T Consensus         5 aLyrkyRP~~F~dvvGQ~~v~~~L~nai~~~ri~HAyLF~GprGtGKts~Ari~AkaLnC~~~~~~~pC~~C~~------   78 (563)
T PRK06674          5 ALYRVFRPQKFEDVVGQEHVTKTLQNALLQEKVSHAYLFSGPRGTGKTSIAKVFAKAVNCEHAPVAEPCNECPS------   78 (563)
T ss_pred             HHHHHHCCCCHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHH------
T ss_conf             78876389976552480999999999998499650343128998689999999999857999999887766878------


Q ss_pred             HHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCC
Q ss_conf             99996789875453001000101342123237887554431022211112103532205542400014567776630343
Q gi|254780217|r   81 VKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQK  160 (347)
Q Consensus        81 ~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~  160 (347)
                      |+.+.+|+|||+++++.+.+         .+||+||++.+++.++|..|+|||+|||+||+||.+|+|||||||||||++
T Consensus        79 C~~i~~g~~~DviEiDaasn---------~gVd~IR~i~~~v~~~P~~~~yKV~IIDeah~Lt~~A~NALLKtLEEPP~~  149 (563)
T PRK06674         79 CLGITNGSISDVLEIDAASN---------NGVDEIRDIRDKVKFAPSAVEYKVYIIDEVHMLSIGAFNALLKTLEEPPGH  149 (563)
T ss_pred             HHHHHCCCCCCEEEECCCCC---------CCHHHHHHHHHHHCCCCCCCCEEEEEEECHHHCCHHHHHHHHHHHHCCCCC
T ss_conf             99985589987798525555---------787999999998264886787379998545637999999999986388756


Q ss_pred             CCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf             41676504433573025203698864799989999999----97278889678999999759897899988145
Q gi|254780217|r  161 VLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       161 t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~  230 (347)
                      ++|||+|+++++|||||+||||+|.|++++.+++.+.|    .+++.+++++++..+++.|+|++|+|++++++
T Consensus       150 viFILaTtep~ki~~TI~SRCQrf~F~ri~~~~i~~rL~~I~~~E~i~~~~~aL~~Ia~~a~GsmRDAlsiLdQ  223 (563)
T PRK06674        150 VIFILATTEPHKIPPTIISRCQRFDFRRISVNDIVERLSTVVTNEGTQVEDEALQIIARAADGGMRDALSLLDQ  223 (563)
T ss_pred             EEEEEECCCHHHCCHHHHHHHEEEECCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             49999659947584788733103127889999999999999998499987889999999769978899999999


No 7  
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=100.00  E-value=0  Score=467.12  Aligned_cols=215  Identities=24%  Similarity=0.355  Sum_probs=204.3

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH
Q ss_conf             96655558756561092999999999998288981663117989888999999999981779988643121012678867
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF   80 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~   80 (347)
                      |++|||||+.|++|+||+++++.|.+++..||+||||||+||+|+||+++|++||++|+|.......||+.|.+      
T Consensus         5 ~la~KYRP~~F~dvvGQe~vv~~L~nai~~~rl~HAyLFsGprG~GKTt~ArilAk~LnC~~~~~~~PCg~C~s------   78 (560)
T PRK06647          5 GTATKRRPRDFNSLEGQDFVVETLKHSIEKNKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTIMPCGECFS------   78 (560)
T ss_pred             HHHHHHCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHH------
T ss_conf             77764289865440394999999999997499774366328998789999999999965999999888878878------


Q ss_pred             HHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCC
Q ss_conf             99996789875453001000101342123237887554431022211112103532205542400014567776630343
Q gi|254780217|r   81 VKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQK  160 (347)
Q Consensus        81 ~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~  160 (347)
                      |+.+.+|+|||+++++..         .+++||+||++++++.++|..|+|||+|||+||+||.+|+|||||||||||++
T Consensus        79 C~~i~~g~~~DviEidaa---------sn~~VddIR~l~e~v~~~P~~~~yKV~IIDEahmLt~~A~NALLKtLEEPP~~  149 (560)
T PRK06647         79 CKSIDNDSSLDVIEIDGA---------SNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPY  149 (560)
T ss_pred             HHHHHCCCCCCEEEECCC---------CCCCHHHHHHHHHHHCCCCCCCCEEEEEECCHHHCCHHHHHHHHHHHHCCCCC
T ss_conf             888745999875764364---------54888999999998632876687069996465655999999999986348875


Q ss_pred             CCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf             41676504433573025203698864799989999999----97278889678999999759897899988145
Q gi|254780217|r  161 VLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       161 t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~  230 (347)
                      |+|||+|+++++|||||+||||+|+|++++.+++...|    .+++..++++++.+++..|+||+|+|+.++++
T Consensus       150 ~~FILaTte~~KI~~TI~SRCQ~f~Fk~i~~~~I~~~L~~I~~~E~i~~e~~AL~lIa~~a~Gs~RDalslldq  223 (560)
T PRK06647        150 IVFIFATTEVHKLPATIKSRCQHFNFRLLSLEKIYEMLKKVCLEDDIKYEDEALKWIAYKSGGSVRDAYTLFDQ  223 (560)
T ss_pred             EEEEEECCCHHHCHHHHHHHHEEEECCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             59999779947684899965104105559999999999999986798879999999999778958889999999


No 8  
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=100.00  E-value=0  Score=459.55  Aligned_cols=308  Identities=22%  Similarity=0.252  Sum_probs=231.9

Q ss_pred             CCHHHHCC-HHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCC
Q ss_conf             75656109-29999999999982889816631179898889999999999817799886431210126788679999678
Q gi|254780217|r    9 VYNQRLFG-HEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASH   87 (347)
Q Consensus         9 ~~~~~i~G-~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~   87 (347)
                      +.|++++| |+.+++.|++++.+||+||||||+||+|+||+++|++||++|+|....+..|||.|.+      |+++.+|
T Consensus         2 ~~~~~~~~~Q~~i~~~L~~~i~~~rl~HA~Lf~Gp~G~GK~~~A~~~A~~LlC~~~~~~~~Cg~C~~------C~~~~~~   75 (329)
T PRK08058          2 MTWEQLTALQPIVVKMLQNSIAKNRLAHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTN------CKRIESG   75 (329)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHH------HHHHHCC
T ss_conf             9778888318999999999998599661565578999889999999999973999999998878889------9998769


Q ss_pred             CCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEE
Q ss_conf             98754530010001013421232378875544310222111121035322055424000145677766303434167650
Q gi|254780217|r   88 ALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILIS  167 (347)
Q Consensus        88 ~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit  167 (347)
                      +|||++++.+        .+++|+|||||++.++++++|.+|+|||+|||+||+||.+|||||||||||||++|+|||+|
T Consensus        76 ~HPD~~~i~p--------~~~~i~idqiR~L~~~~~~~p~~g~~KV~II~~Ae~m~~~AaNALLKtLEEPp~~t~fIL~t  147 (329)
T PRK08058         76 NHPDVHLVAP--------DGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGDTTAILLT  147 (329)
T ss_pred             CCCCEEEECC--------CCCCCCHHHHHHHHHHHCCCCCCCCCEEEEEECHHHHCHHHHHHHHHHHHCCCCCCEEEEEE
T ss_conf             9997677456--------61407799999999996438757886799973477629999999999864689786799872


Q ss_pred             CCCCCCCHHHHCEEEEEECCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCHH-HHHHHHHHHHCCC
Q ss_conf             443357302520369886479998999999997278889678999999759897899988145779-9999999984032
Q gi|254780217|r  168 HASPTILSTIRSRCLSIKFNSLSENNLYKALEQLKIMGWDSKRDFVKIAAYGSVARAIKILHYDCD-KIISSYIDLIHIP  246 (347)
Q Consensus       168 ~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~~~-~~~~~~~~~l~~~  246 (347)
                      +++++|||||+||||.++|+|++.+++.++|.+.+.  +++....++.++ |++++|+.+.+++.. ..+..+.+++...
T Consensus       148 ~~~~~lLpTI~SRCq~i~f~~~~~~~i~~~L~~~~i--~~~~a~l~a~~~-gs~~~A~~l~~~~~~~~~~~~~~~~~~~~  224 (329)
T PRK08058        148 ENKHQILPTILSRCQVVEFRPLPPESLIQRLQEEGI--SESLATLLAQLT-NSVEEALALSEDDWFAQARALVIKLYEAL  224 (329)
T ss_pred             CCHHHHHHHHHHCCEEEECCCCCHHHHHHHHHHCCC--CHHHHHHHHHHC-CCHHHHHHHHCCHHHHHHHHHHHHHHHHH
T ss_conf             996664368863142565889999999999998799--989999999878-99999998842615899999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHC----CH---H---------HHHHHHHHHHHHH
Q ss_conf             343228999999999831-67699999999999999999999865410----04---5---------4899999999999
Q gi|254780217|r  247 RQEYALQKMQQIADELLS-QDQKIAFDFLIEFILKEICKSAKAAALSG----QL---E---------EADQIAQIYFSLV  309 (347)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~l~~~~~~~~~~~----~~---~---------~~~~l~~~~~~i~  309 (347)
                      .. ........+.+.+.. ...+.....+++++..|+...........    ..   .         ....+...++.+.
T Consensus       225 ~~-~~~~~~~~~~~~~~~~~~~~~~~~~~L~~l~~~~rD~l~~~~~~~~~~~~~d~~~~l~~~a~~~~~~~l~~~~~~i~  303 (329)
T PRK08058        225 HK-GDLLSFVFVQTKWMPLFKEKDQQQLGLDLLLLIYRDLLYVQLGEEDRLVFREQKEELQQLALSYSQQQIVAALELIL  303 (329)
T ss_pred             HC-CCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHCHHHHHHHHHHHHCCCHHHHHHHHHHHH
T ss_conf             76-88999999999999870188999999999999999999874175200117999999999985399999999999999


Q ss_pred             HHHHHHHHCCCCHHHHHHHHHHHHHH
Q ss_conf             99998762279979999999999972
Q gi|254780217|r  310 KRVHAFSMYNLDRRQMIFHLLSKARE  335 (347)
Q Consensus       310 ~~~~~~~~~NLd~~~~ll~ll~~l~~  335 (347)
                      +..+.. ..|.|++.++..++.++++
T Consensus       304 e~~~~l-~~N~N~~L~lE~lll~L~e  328 (329)
T PRK08058        304 EAKRRL-NSNVNFQLVMEQLVLRLQE  328 (329)
T ss_pred             HHHHHH-HHCCCHHHHHHHHHHHHHC
T ss_conf             999999-8558999999999996428


No 9  
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=100.00  E-value=0  Score=461.63  Aligned_cols=215  Identities=28%  Similarity=0.438  Sum_probs=204.8

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH
Q ss_conf             96655558756561092999999999998288981663117989888999999999981779988643121012678867
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF   80 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~   80 (347)
                      +|+|||||++|++|+||+++++.|++++..||+||||||+||+|+||||+|+.||++|+|.......||+.|.+      
T Consensus         5 aLyrkyRP~~f~dvvgQ~~v~~~L~n~i~~~~i~hayLf~GprG~GKTs~Ari~akalnc~~~~~~~pC~~C~~------   78 (541)
T PRK05563          5 ALYREWRPRTFEDVVGQEHITTTLKNQIINNRIAHAYLFCGTRGTGKTSTAKIFAKAVNCLNPQDGEPCNECEI------   78 (541)
T ss_pred             HHHHHHCCCCHHHHCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHH------
T ss_conf             78876489977662484999999999998499320453038799589999999999957999888985751488------


Q ss_pred             HHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCC
Q ss_conf             99996789875453001000101342123237887554431022211112103532205542400014567776630343
Q gi|254780217|r   81 VKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQK  160 (347)
Q Consensus        81 ~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~  160 (347)
                      |+.+.+|+|+|+++++.+.+         -+||+||++++.+.++|..|+|||+|||++|+|+.+|+|||||||||||++
T Consensus        79 C~~i~~g~~~Dv~Eidaas~---------~gvd~iR~~~~~~~~~p~~~~~Kv~IiDEvhmls~~a~nallKtlEePp~~  149 (541)
T PRK05563         79 CKKINEGLLMDVIEIDAASN---------NGVDDIREIIENVKYPPQEGKYKVYIMDEVHMLSQGAVNAFLKTLEEPPSN  149 (541)
T ss_pred             HHHHHCCCCCCEEEECCCCC---------CCHHHHHHHHHHCEECCCCCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCC
T ss_conf             99985689887366244444---------788999999976104876787059999772338999999999998548777


Q ss_pred             CCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHHH----HHCCCCCHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf             416765044335730252036988647999899999999----7278889678999999759897899988145
Q gi|254780217|r  161 VLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKALE----QLKIMGWDSKRDFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       161 t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L~----~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~  230 (347)
                      ++|||+|++|++|++||+||||+|.|++++.+++.+.|.    +++.+++++++.++++.|+||+|+|++++++
T Consensus       150 ~~Filatte~~ki~~tI~SRcq~f~f~~i~~~~i~~~L~~I~~~E~i~~~~~al~lIa~~s~GsmRDAlslLdQ  223 (541)
T PRK05563        150 VIFILATTDPQKLPITILSRCQRFDFKRIKVKDIFKRLRKIVEEQGIFADDKSLNLIARMSDGAMRDALSILDQ  223 (541)
T ss_pred             CEEEEECCCCCCCCHHHHHHEEEEEEEECCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             56999769844274556742135775438999999999999998499987899999997459977889999999


No 10 
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=100.00  E-value=0  Score=455.02  Aligned_cols=215  Identities=27%  Similarity=0.398  Sum_probs=201.8

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCC-CCCCHHHCCCCCCCH
Q ss_conf             9665555875656109299999999999828898166311798988899999999998177998-864312101267886
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDF-SKAPVRMCNPDPCSP   79 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~-~~~~~~~~~~~~~~~   79 (347)
                      |++|||||++|++|+||+++++.|.+++..||+||||||+||+|+||+++|+.||++|+|.... +..|||.|.+     
T Consensus         6 vlarKYRP~~F~dvVGQ~~vv~~L~nai~~~ri~HAyLF~GprGtGKTT~ArilAkaLnC~~~~~~~~pCg~C~~-----   80 (462)
T PRK06305          6 VSSRKYRPQTFSEILGQDAVVTVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCAI-----   80 (462)
T ss_pred             HHHHHHCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHH-----
T ss_conf             788763889876604909999999999984997623430389985999999999999679999888898876688-----


Q ss_pred             HHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCC
Q ss_conf             79999678987545300100010134212323788755443102221111210353220554240001456777663034
Q gi|254780217|r   80 FVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQ  159 (347)
Q Consensus        80 ~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~  159 (347)
                       |+.|.+|+|+|+++++...+         -+||+||++++.+.++|..|+|||+|||+||+|+.+|+|||||||||||+
T Consensus        81 -C~~I~~g~~~DViEiDaAs~---------~gVddIRel~e~v~~~P~~~~yKVyIIDEvhmLs~~AfNALLKtLEEPP~  150 (462)
T PRK06305         81 -CKEISSGTSLDVIEIDGASH---------RGIEDIRQINETVLFTPSKSQYKIYIIDEVHMLTKEAFNSLLKTLEEPPQ  150 (462)
T ss_pred             -HHHHHCCCCCCEEEECCCCC---------CCHHHHHHHHHHHCCCCCCCCEEEEEEECHHHCCHHHHHHHHHHHHCCCC
T ss_conf             -89986389998686435534---------46689999997710088677505999815211799999999998618987


Q ss_pred             CCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf             341676504433573025203698864799989999999----97278889678999999759897899988145
Q gi|254780217|r  160 KVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       160 ~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~  230 (347)
                      +++|||+|+++++|++||+||||+|+|++++.+++.+.|    .+++.+++++++..++..|+||+|+|+.++++
T Consensus       151 ~v~FILaTTe~~KIp~TIlSRCQrf~F~~i~~~~I~~~L~~I~~~E~i~~e~~AL~lIA~~a~GsmRDAlslLDQ  225 (462)
T PRK06305        151 HVKFFLATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAQQDGIETSREALLPIARAAQGSLRDAESLYDY  225 (462)
T ss_pred             CEEEEEEECCHHHCCHHHHHHHHEEECCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             749999818814285478765402332579999999999999998399859999999999858958789999999


No 11 
>PRK07270 DNA polymerase III subunits gamma and tau; Validated
Probab=100.00  E-value=0  Score=459.10  Aligned_cols=215  Identities=27%  Similarity=0.382  Sum_probs=203.3

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH
Q ss_conf             96655558756561092999999999998288981663117989888999999999981779988643121012678867
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF   80 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~   80 (347)
                      +|.|||||++|++|+||+++++.|.+++.+||+||||||+||+|+||+++|+.||++|+|.......||+.|.+      
T Consensus         4 aLyrkyRP~~F~dvvGQe~i~~~L~nal~~~ri~HAyLF~GP~GtGKts~ArifAkaLnC~~~~~~~pC~~C~~------   77 (557)
T PRK07270          4 ALYRKYRSQTFDEMVGQEVVATTLKQAVESGKISHAYLFSGPRGTGKTSAAKIFAKAMNCPNQVDGEPCNNCDI------   77 (557)
T ss_pred             HHHHHHCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHH------
T ss_conf             76766089987671481999999999998599540442108998689999999999957999899998887779------


Q ss_pred             HHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCC
Q ss_conf             99996789875453001000101342123237887554431022211112103532205542400014567776630343
Q gi|254780217|r   81 VKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQK  160 (347)
Q Consensus        81 ~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~  160 (347)
                      |+.+..|+|||+++++...         +.+||+||++.+++.++|.+|+|||+|||+||+||.+|+|||||||||||++
T Consensus        78 C~~i~~g~~~DviEidaas---------~~gVd~IRei~~~~~~~P~~~~yKV~IIDEah~Ls~~A~NALLKtLEEPP~~  148 (557)
T PRK07270         78 CRDITNGSLEDVIEIDAAS---------NNGVDEIRDIRDKSTYAPSRATYKVYIIDEVHMLSTGAFNALLKTLEEPTEN  148 (557)
T ss_pred             HHHHHCCCCCCEEEECCCC---------CCCHHHHHHHHHHHCCCCCCCCEEEEEECCHHHCCHHHHHHHHHHHHCCCCC
T ss_conf             9998758999748734777---------6788999999998423877788389997144534999999899985289987


Q ss_pred             CCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf             41676504433573025203698864799989999999----97278889678999999759897899988145
Q gi|254780217|r  161 VLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       161 t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~  230 (347)
                      |+|||+|+++++|||||+||||+|+|++++.+++.+.|    .+++.+++++++..++..|+|++|+|++++++
T Consensus       149 ~vFIL~Ttep~kIl~TI~SRCQrf~F~~i~~~~i~~~L~~I~~~E~i~~~~~aL~~Ia~~a~G~mRdAlsiLdQ  222 (557)
T PRK07270        149 VVFILATTELHKIPATILSRVQRFEFKSIKTKAIREHLAWILDKEGISFEVEALNLIARRAEGGMRDALSILDQ  222 (557)
T ss_pred             EEEEEEECCHHHCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             69999849947592888743000108889999999999999998399869999999999779968789999999


No 12 
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=100.00  E-value=0  Score=446.11  Aligned_cols=216  Identities=28%  Similarity=0.379  Sum_probs=202.8

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCC----CCCCCCHHHCCCCC
Q ss_conf             96655558756561092999999999998288981663117989888999999999981779----98864312101267
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNP----DFSKAPVRMCNPDP   76 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~----~~~~~~~~~~~~~~   76 (347)
                      |+||||||++|++++||+.+++.|.+++..||+||||||+||+|+||||+|+.||+.|.|..    ++...||+.|.+  
T Consensus        10 ~la~KyRP~~f~~liGQ~~~~~~l~n~i~~~~~~~aylf~G~rG~GKTt~Ari~ak~lnc~~~~~~~~~~~~c~~c~~--   87 (507)
T PRK06645         10 PFARKYRPSNFAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEKCTN--   87 (507)
T ss_pred             EEEECCCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHH--
T ss_conf             643200799765623939999999999973996634774587997889999999999679998888998888888767--


Q ss_pred             CCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf             88679999678987545300100010134212323788755443102221111210353220554240001456777663
Q gi|254780217|r   77 CSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEE  156 (347)
Q Consensus        77 ~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEE  156 (347)
                          |+.+.+|.|+|+++++++.+.         +||+||++++.+.+.|..|+|||+|||+||+|+.+|+|||||||||
T Consensus        88 ----c~~i~~~~~~dv~EiDaas~~---------gv~~ir~l~~~~~~~p~~~~~kv~iidE~hmls~~a~nallktlEe  154 (507)
T PRK06645         88 ----CISFNNHNHPDIIEIDAASKT---------SVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEE  154 (507)
T ss_pred             ----HHHHHCCCCCCEEEEECCCCC---------CHHHHHHHHHHCCCCCCCCCEEEEEECCHHHCCHHHHHHHHHHHHC
T ss_conf             ----899865899985996378888---------8899999986355178767435899521422489999999997427


Q ss_pred             CCCCCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHHH----HHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCC
Q ss_conf             0343416765044335730252036988647999899999999----72788896789999997598978999881457
Q gi|254780217|r  157 PPQKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKALE----QLKIMGWDSKRDFVKIAAYGSVARAIKILHYD  231 (347)
Q Consensus       157 Pp~~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L~----~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~  231 (347)
                      ||++++|||+|+.+++||+||.||||+|+|++++.+++.+.|+    +++..++++++.++++.|+||+|+|+.++++.
T Consensus       155 pp~~~~Fi~atte~~kip~ti~srcq~f~~~~i~~~~i~~~l~~i~~~E~~~~~~~al~~ia~~a~Gs~RDalslldqa  233 (507)
T PRK06645        155 PPPHIIFIFATTEVQKIPATIISRCQRYDLRRLSFEEIFKLLEYITKQENLKADIEALRIIAYKSEGSARDAVSILDQA  233 (507)
T ss_pred             CCCCEEEEEECCCHHHCCHHHHHHCEEEEEECCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             8644389997485364837888543278754599799999999999976877778999999985599867899999999


No 13 
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=100.00  E-value=0  Score=442.64  Aligned_cols=301  Identities=26%  Similarity=0.332  Sum_probs=234.5

Q ss_pred             HHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEEC
Q ss_conf             29999999999982889816631179898889999999999817799886431210126788679999678987545300
Q gi|254780217|r   17 HEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLS   96 (347)
Q Consensus        17 ~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~   96 (347)
                      |++.++++.   ..||+||||||+||+|+||.++|+.||++|+|.......|||.|.+      |+++.+|+|||++++.
T Consensus         8 ~~~~w~~l~---~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~LlC~~~~~~~~Cg~C~s------C~~~~~~~HPD~~~i~   78 (328)
T PRK05707          8 QQSLWQQLA---GRGRHAHAYLLHGPAGIGKRALAERLAAFLLCEAPQGGGACGSCKG------CQLLAAGSHPDNFVLE   78 (328)
T ss_pred             CHHHHHHHH---HCCCCCEEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHH------HHHHHCCCCCCEEEEE
T ss_conf             489999999---7798220464479998679999999999984899999899988889------9998758999879984


Q ss_pred             CCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHH
Q ss_conf             10001013421232378875544310222111121035322055424000145677766303434167650443357302
Q gi|254780217|r   97 YSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILST  176 (347)
Q Consensus        97 ~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~T  176 (347)
                      +.      ..++.|+|||||+++++++++|.+|++||+||++||.||.+|||||||||||||++|+|||+|+++++||||
T Consensus        79 pe------~~~~~I~IdqIR~l~~~~~~~~~~g~~KV~iI~~Ae~m~~~AaNALLKtLEEPp~~t~fiL~t~~~~~lLpT  152 (328)
T PRK05707         79 PE------EADKPIKVDQVRELVSFVVQTAQLGGRKVVLIEPAEAMNRNAANALLKSLEEPSGQTVLLLISHQPSRLLPT  152 (328)
T ss_pred             CC------CCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEEEHHHHHCHHHHHHHHHHHHCCCCCEEEEEEECCHHHCHHH
T ss_conf             26------667769799999999998317667895799950287738999999999850789875999860993448258


Q ss_pred             HHCEEEEEECCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHCC-CCCCCCHHHH
Q ss_conf             520369886479998999999997278889678999999759897899988145779999999998403-2343228999
Q gi|254780217|r  177 IRSRCLSIKFNSLSENNLYKALEQLKIMGWDSKRDFVKIAAYGSVARAIKILHYDCDKIISSYIDLIHI-PRQEYALQKM  255 (347)
Q Consensus       177 I~SRc~~i~f~~l~~~~~~~~L~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~~~~~~~~~~~~l~~-~~~~~~~~~~  255 (347)
                      |+||||.++|++++.+++.+||.+...+...+....+..++.|+|++|+.+.+++..+.+..+++.+.. .....   ..
T Consensus       153 I~SRCq~~~~~~p~~e~~~~~L~~~~~~~~~~~a~~ll~la~G~p~~A~~l~~~~~~~~r~~~~~~l~~l~~~~~---~~  229 (328)
T PRK05707        153 IKSRCQQLACPLPSNEPSLQWLQQALPESDAEERIELLTLAAGSPLRALQLHAQGVREQRARVVDGVKKLLKQQQ---SA  229 (328)
T ss_pred             HHHCCEEEECCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCC---CH
T ss_conf             874141334899899999999997556557899999999749999999987486689999999999999983878---89


Q ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHH-HCCH---H---------HHHHHHHHHHHHHHHHHHHH-HCCCC
Q ss_conf             999999831676999999999999999999998654-1004---5---------48999999999999999876-22799
Q gi|254780217|r  256 QQIADELLSQDQKIAFDFLIEFILKEICKSAKAAAL-SGQL---E---------EADQIAQIYFSLVKRVHAFS-MYNLD  321 (347)
Q Consensus       256 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~-~~~~---~---------~~~~l~~~~~~i~~~~~~~~-~~NLd  321 (347)
                      ..+.+.+.+.+....++++..++.+.+......... ..+.   .         ....+....+.+.+..+... ..|+|
T Consensus       230 ~~~~~~~~k~~~~~~l~~l~~~~~D~l~~~~~~~~~~l~~~d~~~~i~~la~~~s~~~l~~~~~~l~~~r~~l~~~~NvN  309 (328)
T PRK05707        230 SQLAESWLKVPLPLLFDWFCDWAHLILRYQLTQDEEGLGLADMRKVLQYLAQKSPQAKVLALQQWLLEQRQKVLGKANLN  309 (328)
T ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCHHHCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             99999975057999999999999999999825971410478899999999872999999999999999999986369988


Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             79999999999972
Q gi|254780217|r  322 RRQMIFHLLSKARE  335 (347)
Q Consensus       322 ~~~~ll~ll~~l~~  335 (347)
                      ++.++..++.++..
T Consensus       310 ~~L~lE~Lll~~~~  323 (328)
T PRK05707        310 RVLLLEALLVQWAG  323 (328)
T ss_pred             HHHHHHHHHHHHHC
T ss_conf             89999999999857


No 14 
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=100.00  E-value=0  Score=446.69  Aligned_cols=215  Identities=25%  Similarity=0.354  Sum_probs=202.5

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCC-----CCCCCCHHHCCCC
Q ss_conf             96655558756561092999999999998288981663117989888999999999981779-----9886431210126
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNP-----DFSKAPVRMCNPD   75 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~-----~~~~~~~~~~~~~   75 (347)
                      ||||||||+.|++++||+.+++.|.+++..||++|||||+||+|+||||+|+.+|+.|+|..     +++..||+.|.+ 
T Consensus        12 ~l~~k~rp~~f~~~~gq~~~~~~l~~~~~~~~~~~a~l~~g~rg~gktt~ari~a~~lnc~~~~~~~~~~~~~c~~c~~-   90 (600)
T PRK09111         12 VLARKYRPQTFDDLIGQEAMVRTLRNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYKGPDGVGGPTIDPCGVGEH-   90 (600)
T ss_pred             EEEECCCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHH-
T ss_conf             4321017987766338599999999999729842047645789878999999999996698876668998898998865-


Q ss_pred             CCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHH
Q ss_conf             78867999967898754530010001013421232378875544310222111121035322055424000145677766
Q gi|254780217|r   76 PCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLE  155 (347)
Q Consensus        76 ~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LE  155 (347)
                           |+.|.+|+|+|+++++.+.+.         +||+||++++.+.+.|..|+|||+|||++|+|+.+|.||||||||
T Consensus        91 -----c~~i~~~~~~d~~e~daas~~---------~v~~~r~~~~~~~~~p~~~~~kv~iidevhmls~~afnallktle  156 (600)
T PRK09111         91 -----CQAIMEGRHVDVIEMDAASHT---------GVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLE  156 (600)
T ss_pred             -----HHHHHCCCCCCEEEEECCCCC---------CHHHHHHHHHHHCCCCCCCCEEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             -----898866899875885155457---------888999999860538877754699960011057999999998762


Q ss_pred             HCCCCCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf             3034341676504433573025203698864799989999999----97278889678999999759897899988145
Q gi|254780217|r  156 EPPQKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       156 EPp~~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~  230 (347)
                      |||+++.|||.|+.+++|++||+||||+|.|++++.+++.+.|    .+++..+.++++..+++.|+||+|+|++++++
T Consensus       157 epp~~~~fi~att~~~k~p~ti~src~~f~~~~~~~~~~~~~l~~i~~~e~~~~~~~al~~ia~~a~GS~RDaLSlLDQ  235 (600)
T PRK09111        157 EPPPHVKFIFATTEIRKVPVTVLSRCQRFDLRRIEAEVLAAHLARIAEKEGVEVEPDALALIARAAEGSVRDGLSLLDQ  235 (600)
T ss_pred             CCCCCEEEEEECCCHHHCCHHHHHHHHEECCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCCHHHHHHHH
T ss_conf             5986549999628534375899854412010579999999999999986076866779999999748984218999999


No 15 
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=100.00  E-value=0  Score=452.03  Aligned_cols=251  Identities=26%  Similarity=0.400  Sum_probs=217.9

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH
Q ss_conf             96655558756561092999999999998288981663117989888999999999981779988643121012678867
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF   80 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~   80 (347)
                      ||+|||||++|++|+||+++++.|.+++..||+||||||+||+|+||+|+|+.||+.|+|..+.+..|||.|.+      
T Consensus         5 vlark~RP~~F~e~vGQ~~v~~~L~nal~~~rl~haylf~G~rGvGKTt~Ari~Ak~lNC~~~~~~~pCg~C~~------   78 (704)
T PRK08691          5 VLARKWRPKTFADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQS------   78 (704)
T ss_pred             HHHHHHCCCCHHHHCCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHH------
T ss_conf             77765188747564186999999999998199752375027898788899999999967999999997877776------


Q ss_pred             HHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCC
Q ss_conf             99996789875453001000101342123237887554431022211112103532205542400014567776630343
Q gi|254780217|r   81 VKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQK  160 (347)
Q Consensus        81 ~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~  160 (347)
                      |+.|..|.|+|+++|+...+         -+||+||+|++.+.++|..|+|||+|||++|+|+.+|.|||||||||||++
T Consensus        79 C~~i~~g~~~D~~EiDaAs~---------~~vdd~R~l~~~~~y~P~~~~yKVyiiDEvhmLs~~afNAlLKtLEEPP~~  149 (704)
T PRK08691         79 CTQIDAGRYVDLLEIDAASN---------TGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEH  149 (704)
T ss_pred             HHHHHCCCCCCEEEEECCCC---------CCHHHHHHHHHHCCCCCCCCCEEEEEEECHHHCCHHHHHHHHHHHCCCCCC
T ss_conf             78785589987477424544---------588999999985346886785359998315443899999999861479756


Q ss_pred             CCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCH----
Q ss_conf             41676504433573025203698864799989999999----9727888967899999975989789998814577----
Q gi|254780217|r  161 VLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKILHYDC----  232 (347)
Q Consensus       161 t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~~----  232 (347)
                      ++|||.|+++++|+.||+||||.|+|++++.+++...|    .++++.++++++..+++.++||+|+|++++++..    
T Consensus       150 v~FilaTTdp~Klp~TIlSRC~~f~l~~~~~~~i~~~L~~i~~~E~i~~e~~al~~ia~~a~Gs~RDalslldQaia~~~  229 (704)
T PRK08691        150 VKFILATTDPHKVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIAYEPPALQLLGRAAAGSMRDALSLLDQAIALGS  229 (704)
T ss_pred             EEEEEECCCHHHCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHCC
T ss_conf             08998548846475899988877102689999999999999998398568999999999757857779889999999648


Q ss_pred             HH-HHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCHHHH
Q ss_conf             99-999999984032343228999999999831676999
Q gi|254780217|r  233 DK-IISSYIDLIHIPRQEYALQKMQQIADELLSQDQKIA  270 (347)
Q Consensus       233 ~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  270 (347)
                      .+ ..+....++.....    ..+..+.+.+...+....
T Consensus       230 g~~~~~~v~~mLG~~d~----~~~~~ll~al~~~d~~~~  264 (704)
T PRK08691        230 GKVAENDVRQMIGAVDK----QYLYELLTGIINQDGAAL  264 (704)
T ss_pred             CCCCHHHHHHHHCCCCH----HHHHHHHHHHHHCCHHHH
T ss_conf             96269999998588877----899999999995589999


No 16 
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=100.00  E-value=0  Score=440.44  Aligned_cols=210  Identities=25%  Similarity=0.365  Sum_probs=193.8

Q ss_pred             CCHHHHCCHHHHHHHHHHHHHCCC------------CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCC
Q ss_conf             756561092999999999998288------------98166311798988899999999998177998864312101267
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYCSGR------------MHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP   76 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~~~~------------l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~   76 (347)
                      +-|++|+||+++++.|.+++.++|            ++|||||+||+|+||+++|+.||+.|+|... +..|||.|.+  
T Consensus         2 ~~f~~ivGQe~v~~~L~~A~~~~R~~~~~~~~~~~~~~HAyLF~Gp~G~Gk~~~A~~~A~~l~C~~~-~~~~cg~C~~--   78 (395)
T PRK07940          2 GVWDRLVGQDAVVAELRAAARAARADSAHSAAAGSGMTHAWLFTGPPGSGRSNAARAFAAALQCTDP-GVPGCGECRA--   78 (395)
T ss_pred             CCCHHHCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCC-CCCCCCCCHH--
T ss_conf             9701315929999999999983634344333346876603763689987889999999999669999-9999987878--


Q ss_pred             CCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf             88679999678987545300100010134212323788755443102221111210353220554240001456777663
Q gi|254780217|r   77 CSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEE  156 (347)
Q Consensus        77 ~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEE  156 (347)
                          |+++.+|+|||++++.+        .+.+|+|||||+++++++++|.+|+|||+|||+||+||.+|+|||||||||
T Consensus        79 ----C~~i~~g~hpDv~~i~p--------~~~~i~id~iR~l~~~~~~~p~~~~~kv~ii~~a~~m~~~a~NalLKtLEE  146 (395)
T PRK07940         79 ----CRTVLAGTHPDVRVVVP--------EGLSIGVDEVREIVQIAARRPTTGRWRIVVIEDADRLTERAANALLKAVEE  146 (395)
T ss_pred             ----HHHHHCCCCCCEEEEEC--------CCCCCCHHHHHHHHHHHHHCCCCCCCEEEEEECHHHHCHHHHHHHHHHHCC
T ss_conf             ----99987689987189826--------877688999999999985273037955999807787489999999985217


Q ss_pred             CCCCCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCHHH
Q ss_conf             034341676504433573025203698864799989999999972788896789999997598978999881457799
Q gi|254780217|r  157 PPQKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKALEQLKIMGWDSKRDFVKIAAYGSVARAIKILHYDCDK  234 (347)
Q Consensus       157 Pp~~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~~~~  234 (347)
                      ||++|+|||+|+++++|||||+||||.++|++++.+++.++|.+. ...+++...+++.++.|++++|..+..++...
T Consensus       147 Pp~~~~fiL~t~~~~~llpTI~SRcq~~~f~~~~~~~i~~~L~~~-~gi~~~~A~~aA~~s~G~igrA~~la~d~~~~  223 (395)
T PRK07940        147 PPPRTVWLLCAPSVEDVLPTIRSRCRHVALRTPSVEAVADVLVRR-DGVDPETAQWAARASGGHIGRARRLATDEEAR  223 (395)
T ss_pred             CCCCEEEEEEECCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHHC-CCCCHHHHHHHHHHHCCCHHHHHHHHCCHHHH
T ss_conf             888869998739978744688744000237999999999999870-19998999999998089889999980688899


No 17 
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=100.00  E-value=0  Score=445.00  Aligned_cols=215  Identities=28%  Similarity=0.430  Sum_probs=203.0

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHC-----CCCCCCCCHHHCCCC
Q ss_conf             966555587565610929999999999982889816631179898889999999999817-----799886431210126
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQ-----NPDFSKAPVRMCNPD   75 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc-----~~~~~~~~~~~~~~~   75 (347)
                      ||+|||||++|++++||+++.+.|.+++..||+||||||+|++|+||||+|+.||+.|+|     +.+.+..|||.|.+ 
T Consensus         5 vlark~RP~~F~~~vGQ~~v~~~l~na~~~~r~~haylf~G~rGvGKTt~ari~Ak~lnc~~~~~~~g~~~~pcg~C~~-   83 (721)
T PRK12323          5 VLARKWRPRDFTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGPDGEGGITAQPCGQCRA-   83 (721)
T ss_pred             HHHHHHCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHH-
T ss_conf             6765407986655328599999999999719975447502799888989999999997689986678987887877654-


Q ss_pred             CCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHH
Q ss_conf             78867999967898754530010001013421232378875544310222111121035322055424000145677766
Q gi|254780217|r   76 PCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLE  155 (347)
Q Consensus        76 ~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LE  155 (347)
                           |+.|..|.|+|+++|+...+.         +||+||+|++.+.++|..|+|||||||++|+|+.+|.||||||||
T Consensus        84 -----C~~i~~g~~~d~~EiDaas~~---------~v~~~r~l~~~~~y~P~~~~~KvyiiDevhmls~~afnalLKtlE  149 (721)
T PRK12323         84 -----CTEIDAGRFVDYIEMDAASNR---------GVDEMAQLLDQAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLE  149 (721)
T ss_pred             -----HHHHHCCCCCCEEEEECCCCC---------CHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHHHC
T ss_conf             -----687756898764774367678---------889999999854558876644699985400058999999998401


Q ss_pred             HCCCCCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf             3034341676504433573025203698864799989999999----97278889678999999759897899988145
Q gi|254780217|r  156 EPPQKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       156 EPp~~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~  230 (347)
                      |||++++|||.|++++||+.||+||||+|+|++++.+++...|    .++++.++++.+..+++.++||+|+|++++++
T Consensus       150 ePP~hv~FilaTT~~~Kip~TilSRc~~f~~~~~~~~~i~~~l~~i~~~E~i~~~~~al~~ia~~a~Gs~RDalslldQ  228 (721)
T PRK12323        150 EPPPHVKFILATTDPQKIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGQEGIGHEGNALRLLAQAAHGSMRDALSLTDQ  228 (721)
T ss_pred             CCCCCEEEEEECCCHHHCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             7975538999438634485889877654234789999999999999998399779999999999758964768889999


No 18 
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=100.00  E-value=0  Score=447.37  Aligned_cols=215  Identities=26%  Similarity=0.440  Sum_probs=205.1

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH
Q ss_conf             96655558756561092999999999998288981663117989888999999999981779988643121012678867
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF   80 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~   80 (347)
                      ||+|||||++|++++||+++++.|.+++..||+||||||+||+|+||+|+|+.||++|+|..+.+..|||.|.+      
T Consensus         5 ~lark~Rp~~f~~~vGQ~~v~~~l~na~~~~r~~haylf~G~rG~GKtt~ari~ak~lnc~~~~~~~pcg~c~~------   78 (643)
T PRK07994          5 VLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDN------   78 (643)
T ss_pred             HHHHHHCCCCHHHHCCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHH------
T ss_conf             77765288866665387999999999998298663487458998888899999999967999999997876776------


Q ss_pred             HHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCC
Q ss_conf             99996789875453001000101342123237887554431022211112103532205542400014567776630343
Q gi|254780217|r   81 VKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQK  160 (347)
Q Consensus        81 ~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~  160 (347)
                      |+.|..|.|+|+++|+...+         .+||+||++.+.+.++|..|+|||||||++|+|+.+|.|||||||||||++
T Consensus        79 c~~i~~g~~~d~~eidaas~---------~~vd~~rel~~~~~y~p~~~r~kvyiidEvhmls~~afnalLKtlEePp~h  149 (643)
T PRK07994         79 CREIEQGRFVDLIEIDAASR---------TKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPAH  149 (643)
T ss_pred             HHHHHCCCCCCEEEEECCCC---------CCHHHHHHHHHHCCCCCCCCCEEEEEEECHHHCCHHHHHHHHHHHCCCCHH
T ss_conf             89886589887588636777---------888999999984466887785369997221015899999999862378610


Q ss_pred             CCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf             41676504433573025203698864799989999999----97278889678999999759897899988145
Q gi|254780217|r  161 VLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       161 t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~  230 (347)
                      +.|||.|+++++|++||+|||+.|.|++++.+++.+.|    .++++..++.++..+++.++||+|+|++++++
T Consensus       150 v~filaTT~~~k~p~TilSRC~~f~~~~~~~~~i~~~l~~i~~~e~i~~~~~al~~ia~~a~gs~rdalsl~dq  223 (643)
T PRK07994        150 VKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAADGSLRDALSLTDQ  223 (643)
T ss_pred             CEEEEECCCHHHCCHHHHHHHHHEECCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             08998607745484789977765001669999999999999997599878899999999747865668889999


No 19 
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=100.00  E-value=0  Score=442.13  Aligned_cols=250  Identities=26%  Similarity=0.394  Sum_probs=217.4

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH
Q ss_conf             96655558756561092999999999998288981663117989888999999999981779988643121012678867
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF   80 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~   80 (347)
                      ||+|||||++|++++||+++++.|.+++..||+||||||+|++|+||||+|+.||+.|+|..+.+..|||.|.+      
T Consensus         5 vlark~RP~~f~e~vGQ~~v~~~l~nal~~~rl~haylf~G~rGvGKTt~aRi~Ak~lnC~~~~~~~pcg~C~~------   78 (816)
T PRK07003          5 VLARKWRPKDFASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRA------   78 (816)
T ss_pred             HHHHHHCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHH------
T ss_conf             77755089857662384999999999997098631475117898888899999999867899999897877555------


Q ss_pred             HHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCC
Q ss_conf             99996789875453001000101342123237887554431022211112103532205542400014567776630343
Q gi|254780217|r   81 VKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQK  160 (347)
Q Consensus        81 ~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~  160 (347)
                      |+.|..|.+.|+++|+...+.         +||+||+|.+...+.|..|+|||+|||++|+|+..|.|||||||||||++
T Consensus        79 C~~i~~g~~~d~iEiDaAS~~---------~vd~~r~l~~~~~y~p~~~r~KvyiiDEvHmls~~afnalLKtlEepP~h  149 (816)
T PRK07003         79 CREIDEGRFVDYVEMDAASNR---------GVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPH  149 (816)
T ss_pred             HHHHHCCCCCCEEEEECCCCC---------CHHHHHHHHHHCCCCCCCCCEEEEEEECHHHCCHHHHHHHHHHHCCCCCC
T ss_conf             787755887754786355435---------76899999986224786674479998415433999999999840379866


Q ss_pred             CCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCH----
Q ss_conf             41676504433573025203698864799989999999----9727888967899999975989789998814577----
Q gi|254780217|r  161 VLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKILHYDC----  232 (347)
Q Consensus       161 t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~~----  232 (347)
                      +.|||.|+++++|+.||+|||+.|+|++++.+++.+.|    .++++.++++.+.++++.++||+|+|++++++..    
T Consensus       150 v~FilaTTd~~k~p~tilSRc~~f~l~~~~~~~i~~~l~~i~~~E~i~~e~~al~lia~~a~GsmRDalsl~dQaia~~~  229 (816)
T PRK07003        150 VKFILATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERIAFEPQALRLLARAAQGSMRDALSLTDQAIAYSA  229 (816)
T ss_pred             EEEEEECCCHHHCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHCC
T ss_conf             48999558801152889877765223679999999999999998299779999999999767737888859999998469


Q ss_pred             -HHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCHHH
Q ss_conf             -9999999998403234322899999999983167699
Q gi|254780217|r  233 -DKIISSYIDLIHIPRQEYALQKMQQIADELLSQDQKI  269 (347)
Q Consensus       233 -~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  269 (347)
                       .-.......++.....    ..+..+.+.+...+...
T Consensus       230 g~~~~~~v~~mLG~~d~----~~~~~ll~al~~~d~~~  263 (816)
T PRK07003        230 NEVTETAVSGMLGALDQ----TYMVRLLDALAAADGPE  263 (816)
T ss_pred             CCCCHHHHHHHHCCCCH----HHHHHHHHHHHHCCHHH
T ss_conf             97379999998588877----89999999999558999


No 20 
>PRK08853 DNA polymerase III subunits gamma and tau; Validated
Probab=100.00  E-value=0  Score=443.43  Aligned_cols=249  Identities=23%  Similarity=0.402  Sum_probs=216.9

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH
Q ss_conf             96655558756561092999999999998288981663117989888999999999981779988643121012678867
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF   80 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~   80 (347)
                      ||+|||||+.|++++||+++++.|.|++..||+||||||+||+|+||+|+|+.||+.|+|..+.+..|||.|.+      
T Consensus         5 vlark~RP~~f~e~vGQ~~v~~~L~nal~~~rl~haylf~G~rGvGKTt~ARi~Ak~lNC~~~~~~~pcg~C~~------   78 (717)
T PRK08853          5 ALARKWRPTQFKEVVGQSHVLTALENALAHNRLHHAYLFSGTRGVGKTTIGRLFAKGLNCETGITSTPCGQCAT------   78 (717)
T ss_pred             HHHHHHCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCC------
T ss_conf             77765179856551385999999999997099740576108898889899999999867899999997888702------


Q ss_pred             HHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCC
Q ss_conf             99996789875453001000101342123237887554431022211112103532205542400014567776630343
Q gi|254780217|r   81 VKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQK  160 (347)
Q Consensus        81 ~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~  160 (347)
                      |+.|..|.+.|+++|+...+         .+||+||+|.+.+.+.|..|+|||+|||++|+|+.+|.|||||||||||++
T Consensus        79 C~~i~~g~~~d~~EiDaAs~---------~~vdd~rel~~~~~y~p~~~~yKvyiiDEvHmls~~afnAlLKtlEEPP~h  149 (717)
T PRK08853         79 CKEIDEGRFVDLLEIDAASR---------TKVEDTRELLDNVQYKPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEY  149 (717)
T ss_pred             HHHHHCCCCCCEEEECCCCC---------CCHHHHHHHHHHCCCCCCCCCEEEEEEECHHHCCHHHHHHHHHHHCCCCCC
T ss_conf             67674478775245405656---------788999999985554887785479998305443899999998760378756


Q ss_pred             CCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCH----
Q ss_conf             41676504433573025203698864799989999999----9727888967899999975989789998814577----
Q gi|254780217|r  161 VLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKILHYDC----  232 (347)
Q Consensus       161 t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~~----  232 (347)
                      +.|||.|+++++|+.||+||||+|.|++++.+++.+.|    .++++...++++..+++.++||+|+|++++++..    
T Consensus       150 v~FilaTT~~~kip~TilSRc~~f~l~~~~~~~i~~~l~~i~~~E~i~~~~~al~~ia~~a~Gs~Rdalsl~dqaia~~~  229 (717)
T PRK08853        150 VKFLLATTDPQKLPVTILSRCLQFHLKPISVDQIHQQLDFVLDKEQVSAEARALGLIAHAADGSMRDALSLTDQAIALGN  229 (717)
T ss_pred             EEEEEECCCHHHCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHCC
T ss_conf             48998438734373889876544232689999999999999997598769999999999768837788889999999658


Q ss_pred             -HHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCHH
Q ss_conf             -999999999840323432289999999998316769
Q gi|254780217|r  233 -DKIISSYIDLIHIPRQEYALQKMQQIADELLSQDQK  268 (347)
Q Consensus       233 -~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  268 (347)
                       .-.......++.....    .....+.+.+...+..
T Consensus       230 g~~~~~~v~~mlg~~d~----~~~~~ll~al~~~d~~  262 (717)
T PRK08853        230 GQVTTDIVSHMLGTLDT----DQAIHLLEAISSKQPQ  262 (717)
T ss_pred             CCCCHHHHHHHHCCCCH----HHHHHHHHHHHHCCHH
T ss_conf             97169999998588877----8999999999955899


No 21 
>PRK06872 DNA polymerase III subunits gamma and tau; Provisional
Probab=100.00  E-value=0  Score=436.34  Aligned_cols=249  Identities=23%  Similarity=0.371  Sum_probs=216.9

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH
Q ss_conf             96655558756561092999999999998288981663117989888999999999981779988643121012678867
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF   80 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~   80 (347)
                      ||+|||||++|++++||+++.+.|.+++..||+||||||+|++|+||+|+|+.||+.|+|..+.+..|||.|.+      
T Consensus         5 vlark~rp~~f~~~vgq~~v~~~l~~a~~~~r~~haylf~g~rg~gktt~ari~ak~lnc~~~~~~~pcg~c~~------   78 (696)
T PRK06872          5 VLARKWRPKTFSEVVGQEHILTALSNGLKENRLHHAYLFSGTRGVGKTSIARLFAKGLNCVHGVTATPCGECEN------   78 (696)
T ss_pred             HHHHHHCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHH------
T ss_conf             77765188756452385999999999997198630475117898888899999999867899999997888622------


Q ss_pred             HHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCC
Q ss_conf             99996789875453001000101342123237887554431022211112103532205542400014567776630343
Q gi|254780217|r   81 VKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQK  160 (347)
Q Consensus        81 ~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~  160 (347)
                      |+.|.+|.|.|+++|+...+         .+||++|+|.+-+.+.|..|+|||+|||++|+|+.+|.|||||||||||++
T Consensus        79 c~~i~~g~~~d~~eidaas~---------~~v~~~r~l~~~~~~~p~~~~~kvy~idevhmls~~~fnallktleepp~~  149 (696)
T PRK06872         79 CKAIEEGNFIDLIEIDAASR---------TKVEDTRELLDNVQYKPVVGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEY  149 (696)
T ss_pred             HHHHHCCCCCCEEEEECCCC---------CCHHHHHHHHHHCCCCCCCCCEEEEEEEHHHHCCHHHHHHHHHHHCCCCCC
T ss_conf             57674478775467505655---------788999999984545776775479997005443899999998750279754


Q ss_pred             CCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCC-----
Q ss_conf             41676504433573025203698864799989999999----972788896789999997598978999881457-----
Q gi|254780217|r  161 VLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKILHYD-----  231 (347)
Q Consensus       161 t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~-----  231 (347)
                      +.|||.|+++++|+.||+|||+.|+|++++.+.+...|    .++++.+++..+..+++.++||+|+|++++++.     
T Consensus       150 v~f~latt~~~k~p~tilsrc~~f~~~~~~~~~i~~~l~~i~~~e~~~~~~~al~~~a~~a~gs~rdalsl~dqai~~~~  229 (696)
T PRK06872        150 VKFLLATTDPQKLPITILSRCMQFHLKALDQTQIAQHLEFILTQENIPFESPALEKLAKAAQGSIRDSLSLTDQAIAMSN  229 (696)
T ss_pred             EEEEEECCCHHHCCHHHHHHHHHEECCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHCC
T ss_conf             48998438632274889876653002689999999999999998499779999999999758956778889999999758


Q ss_pred             HHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCHH
Q ss_conf             7999999999840323432289999999998316769
Q gi|254780217|r  232 CDKIISSYIDLIHIPRQEYALQKMQQIADELLSQDQK  268 (347)
Q Consensus       232 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  268 (347)
                      +.-......+++.....    .....+.+.+...+..
T Consensus       230 g~~~~~~v~~mlg~~~~----~~~~~l~~a~~~~d~~  262 (696)
T PRK06872        230 ANITLDVVSNMLGLLDD----NQPIDILYALQQGNGE  262 (696)
T ss_pred             CCCCHHHHHHHHCCCCH----HHHHHHHHHHHHCCHH
T ss_conf             96169999998588877----7999999999955899


No 22 
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=100.00  E-value=0  Score=440.89  Aligned_cols=211  Identities=29%  Similarity=0.393  Sum_probs=194.4

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCC-CCCCCCCHHHCCCCCCCH
Q ss_conf             9665555875656109299999999999828898166311798988899999999998177-998864312101267886
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQN-PDFSKAPVRMCNPDPCSP   79 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~-~~~~~~~~~~~~~~~~~~   79 (347)
                      +|+|||||+.|++|+||+.+++.|.+++..||+||||||+||+|+||+|+|+.||++|+|. ......||+.|..     
T Consensus         7 ~L~RKYRPk~F~EVIGQe~Vv~tL~nAI~~gRIaHAYLF~GPRGvGKTT~ARIfAKaLNC~~~~d~~~pC~~C~~-----   81 (718)
T PRK07133          7 ALYRKYRPKKFDEIKGQDHIIETLKNIIKSGKISHAYLFSGPHGTGKTSVAKIFANALNCSHKTDLIEPCQNCIE-----   81 (718)
T ss_pred             HHHHHHCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHH-----
T ss_conf             899872899754422859999999999974997505862389986889999999999679999999997702143-----


Q ss_pred             HHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCC
Q ss_conf             79999678987545300100010134212323788755443102221111210353220554240001456777663034
Q gi|254780217|r   80 FVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQ  159 (347)
Q Consensus        80 ~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~  159 (347)
                       |    .+.++|+++++.+.+         -+||+||++++.+.+.|..|+|||+|||+||+|+.+|+|||||||||||+
T Consensus        82 -~----~~~s~DViEIDAASn---------~gVDdIReLie~v~y~P~~gkYKVyIIDEvHMLS~~AfNALLKtLEEPP~  147 (718)
T PRK07133         82 -N----FNNNLDIIEMDAASN---------NGVDEIRELRENVKNLPQISKYKIYIIDEVHMLSKSAFNALLKTLEEPPK  147 (718)
T ss_pred             -C----CCCCCCEEEECCCCC---------CCHHHHHHHHHHHCCCCCCCCEEEEEEECCCCCCHHHHHHHHHHHCCCCC
T ss_conf             -0----478987377545566---------88899999999825588778724999966200799999999985027987


Q ss_pred             CCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf             341676504433573025203698864799989999999----97278889678999999759897899988145
Q gi|254780217|r  160 KVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       160 ~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~  230 (347)
                      +++|||+|++|++||+||+||||+|.|++++.+++...|    .+++..++++++..++..|+||+|+|+.++++
T Consensus       148 hvvFILaTTep~KIP~TIlSRCQrFdFkrI~~~~I~~~L~~I~~kE~I~~e~eAL~lIA~~a~GSmRDAlSlLDQ  222 (718)
T PRK07133        148 HVIFILATTDVQKIPLTILSRVQRFNFRRISEDVIVHQLENILEKEKIKYEKNALKLIASLASGSLRDALSIADQ  222 (718)
T ss_pred             CCEEEEEECCHHHCCHHHHHCCEEEECCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             827999708825484877412203358889999999999999998599778999999999768848889879999


No 23 
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=100.00  E-value=0  Score=432.57  Aligned_cols=305  Identities=19%  Similarity=0.228  Sum_probs=234.8

Q ss_pred             HHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEEC
Q ss_conf             29999999999982889816631179898889999999999817799886431210126788679999678987545300
Q gi|254780217|r   17 HEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLS   96 (347)
Q Consensus        17 ~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~   96 (347)
                      |...++.|..++..||+||||||+||+|+||.++|+.||++|+|....+.++||.|.+      |+++.+|+|||++++.
T Consensus         7 l~~~~~~l~~~~~~~rl~HA~L~~G~~G~Gk~~la~~~a~~llC~~~~~~~~Cg~C~~------C~l~~~~~HPD~~~i~   80 (334)
T PRK07993          7 LRPDYEKLVGSYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRG------CQLMQAGTHPDYYTLT   80 (334)
T ss_pred             CHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHH------HHHHHCCCCCCEEEEC
T ss_conf             7899999999998598104675479999889999999999981899999999999978------9998668999847753


Q ss_pred             CCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHH
Q ss_conf             10001013421232378875544310222111121035322055424000145677766303434167650443357302
Q gi|254780217|r   97 YSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILST  176 (347)
Q Consensus        97 ~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~T  176 (347)
                      ..      +.++.|+|||||+++++++++|++|++||+||++||.||.+|||||||||||||++|+|||+|+++++||||
T Consensus        81 pe------~~~~~I~IdqIR~l~~~~~~~~~~g~~kV~iI~~Ae~mn~~AaNaLLKtLEEPp~~t~~iL~t~~~~~lLpT  154 (334)
T PRK07993         81 PE------KGKSSLGVDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPEKTWFFLACREPARLLAT  154 (334)
T ss_pred             CC------CCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCHHHHCHHHHHHHHHHHCCCCCCEEEEEECCCHHHCCCH
T ss_conf             42------234559999999999998436656994799976677759999999998612799884999866985657238


Q ss_pred             HHCEEEEEECCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHH
Q ss_conf             52036988647999899999999727888967899999975989789998814577999999999840323432289999
Q gi|254780217|r  177 IRSRCLSIKFNSLSENNLYKALEQLKIMGWDSKRDFVKIAAYGSVARAIKILHYDCDKIISSYIDLIHIPRQEYALQKMQ  256 (347)
Q Consensus       177 I~SRc~~i~f~~l~~~~~~~~L~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~~~~~~~~~~~~l~~~~~~~~~~~~~  256 (347)
                      |+||||.++|.+++.+++.+||.+... ..++....+..++.|+|+.|..+++++....+..+.+.+.......   +..
T Consensus       155 I~SRCq~~~~~~~~~~~~~~wL~~~~~-~~~~~~~~al~la~Gspl~A~~l~~~~~~~~r~~l~~~l~~~l~~~---d~~  230 (334)
T PRK07993        155 LRSRCRLHYLAPPPEQYALTWLSREVT-MSQEALLAALRLSAGAPGAALALLQPERWQQREALCQALAYSLPSG---DWY  230 (334)
T ss_pred             HHHHCCCCCCCCCCHHHHHHHHHHHCC-CCHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHCCC---CHH
T ss_conf             875230415899799999999987368-9889999999984998999999825658999999999999987036---799


Q ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHHHHHH-HCCCCHHH
Q ss_conf             9999983167699999999999999999999865410-----------04548999999999999999876-22799799
Q gi|254780217|r  257 QIADELLSQDQKIAFDFLIEFILKEICKSAKAAALSG-----------QLEEADQIAQIYFSLVKRVHAFS-MYNLDRRQ  324 (347)
Q Consensus       257 ~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~-----------~~~~~~~l~~~~~~i~~~~~~~~-~~NLd~~~  324 (347)
                      .+...+..+.....++++..++.+.+..........+           .......+...++.+.+..+... ..|+|++.
T Consensus       231 ~ll~~l~~~~~~~~L~wl~~ll~D~l~~~~~~~~l~n~D~~~~i~~la~~~s~~~L~~~~~~i~~~r~~L~~~~NlN~qL  310 (334)
T PRK07993        231 SLLPALNHEQAPARLHWLATLLMDALKRQHGAAQVTNVDQPPLVAQLANHLSPARLQAILGDVCHCREQLLSVTGVNREL  310 (334)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEECHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCHHH
T ss_conf             99999716348999999999999999986085301487799999999850999999999999999999975268999999


Q ss_pred             HHHHHHHHHHHHH
Q ss_conf             9999999997278
Q gi|254780217|r  325 MIFHLLSKARECN  337 (347)
Q Consensus       325 ~ll~ll~~l~~~~  337 (347)
                      ++.+++.++++.-
T Consensus       311 lLE~lll~~~~~l  323 (334)
T PRK07993        311 LLTDLLLRIEHYL  323 (334)
T ss_pred             HHHHHHHHHHHHC
T ss_conf             9999999999973


No 24 
>PRK05648 DNA polymerase III subunits gamma and tau; Reviewed
Probab=100.00  E-value=0  Score=437.14  Aligned_cols=215  Identities=25%  Similarity=0.396  Sum_probs=205.4

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH
Q ss_conf             96655558756561092999999999998288981663117989888999999999981779988643121012678867
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF   80 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~   80 (347)
                      ||+|||||++|++++||+++++.|.|++..||+||||||+|++|+||+|.|+.||+.|+|..+.+..|||.|.+      
T Consensus         5 ~lark~rp~~f~~~~gq~~~~~~l~~~~~~~~~~~a~l~~g~rg~gkt~~ar~~ak~lnc~~~~~~~pc~~c~~------   78 (705)
T PRK05648          5 VLARKWRPRSFREMVGQTHVLKALINALDNQRLHHAYLFTGTRGVGKTTIARIIAKCLNCETGVSSTPCGECSV------   78 (705)
T ss_pred             HHHHHHCCCCHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHH------
T ss_conf             66553178757663281999999999997098630465007898889899999999867789998897877600------


Q ss_pred             HHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCC
Q ss_conf             99996789875453001000101342123237887554431022211112103532205542400014567776630343
Q gi|254780217|r   81 VKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQK  160 (347)
Q Consensus        81 ~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~  160 (347)
                      |+.|..|.|+|+++|+...+         -+||++|+|.+.+.++|..|+|||||||++|+|+..|.|||||||||||++
T Consensus        79 c~~i~~~~~~d~~e~d~as~---------~~v~~~r~~~~~~~~~p~~~~~kv~~idevhmls~~~fnallktleepp~~  149 (705)
T PRK05648         79 CREIDEGRFVDLIEVDAASR---------TKVEDTRELLDNVQYAPTRGRYKVYLIDEVHMLSSHSFNALLKTLEEPPPH  149 (705)
T ss_pred             HHHHHCCCCCCEEEECCCCC---------CCHHHHHHHHHHCCCCCCCCCEEEEEEEHHHHCCHHHHHHHHHHCCCCCCC
T ss_conf             46662489776344515544---------788999999985551776774579998426541799999998740479754


Q ss_pred             CCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf             41676504433573025203698864799989999999----97278889678999999759897899988145
Q gi|254780217|r  161 VLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       161 t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~  230 (347)
                      +.|||.|+++++|+.||+|||+.|+|++++.+++.+.|    .++++.+.+..+..+++.++||+|+|+.++++
T Consensus       150 v~f~~att~~~k~p~t~~src~~~~~~~~~~~~~~~~l~~~~~~e~~~~~~~~~~~~~~~~~g~~rd~ls~~dq  223 (705)
T PRK05648        150 VKFLLATTDPQKLPVTILSRCLQFSLKNMSPERVVEHLSHVLGAENVPFEEDALWLLGRAADGSMRDAMSLTDQ  223 (705)
T ss_pred             EEEEEECCCHHHCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             59998428735375899976643023689999999999999997599778999999999748967779999999


No 25 
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=100.00  E-value=0  Score=430.54  Aligned_cols=296  Identities=22%  Similarity=0.300  Sum_probs=223.6

Q ss_pred             CCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCC
Q ss_conf             75656109299999999999828898166311798988899999999998177998864312101267886799996789
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHA   88 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~   88 (347)
                      ++|++|+||+.+++.|.+++.+||+||||||+||+|+||+++|+.||++++|...                      .++
T Consensus         1 M~f~~iiGq~~i~~~L~~~i~~~rl~HAyLF~Gp~G~GK~~~A~~~A~~ll~~~~----------------------~~~   58 (313)
T PRK05564          1 MSFRTIIGHENIKNRIDNSIIKGKFSHASLIVGEDGIGKSILAKEIANKILGKSE----------------------QRE   58 (313)
T ss_pred             CCHHHCCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCC----------------------CCC
T ss_conf             9832326829999999999987998750432799985099999999999828997----------------------788


Q ss_pred             CCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEEC
Q ss_conf             87545300100010134212323788755443102221111210353220554240001456777663034341676504
Q gi|254780217|r   89 LHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISH  168 (347)
Q Consensus        89 hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~  168 (347)
                      |||++++...       .+++|+|||||+++++++++|.+|+|||+|||+||.||.+|||||||||||||++|+|||+|+
T Consensus        59 ~~D~~~~~~~-------~~~~I~vd~IR~l~~~~~~~p~~g~~KV~II~~ae~m~~~AaNALLKtLEEPP~~t~fIL~t~  131 (313)
T PRK05564         59 YVDIIEYKPI-------NKKSIGVDDIRNIIEEVNKKPYEGDKKVIIIYKSEKMTEQAQNAFLKTIEEPPKGVFIILLCE  131 (313)
T ss_pred             CCCEEEEECC-------CCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCHHHHCHHHHHHHHHCCCCCCCCEEEEEEEC
T ss_conf             9865886332-------256999899999999984086258956999807777589999998455036899858998649


Q ss_pred             CCCCCCHHHHCEEEEEECCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCHHH-HHHHHHHHHCCCC
Q ss_conf             433573025203698864799989999999972788896789999997598978999881457799-9999999840323
Q gi|254780217|r  169 ASPTILSTIRSRCLSIKFNSLSENNLYKALEQLKIMGWDSKRDFVKIAAYGSVARAIKILHYDCDK-IISSYIDLIHIPR  247 (347)
Q Consensus       169 ~~~~il~TI~SRc~~i~f~~l~~~~~~~~L~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~~~~-~~~~~~~~l~~~~  247 (347)
                      ++++|||||+||||.++|+|++.+++.+||.+.....+++....++.+++|++++|..+++++... .++...+++....
T Consensus       132 ~~~~lLpTI~SRCQ~~~f~~l~~~~i~~~L~~~~~~~~~~~~~~~~~~s~G~~~~a~~~~~~~~~~~~~~~~~~~l~~~~  211 (313)
T PRK05564        132 NLEQILDTIKSRCQIYKLNRLSKEDIEKFISYKYNDIDEENKNSAIAFSDGIPGKVEKFIEDDSLKDIRNMSLEILKDID  211 (313)
T ss_pred             CHHHCCCHHHCCCEEEECCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             83547577870653566899899999999998625899999999999829987999998405799999999999999998


Q ss_pred             CCCCHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHHHHH-HHHHHCCHH------------HHHHHHHHHHHHHHHH
Q ss_conf             432289999999998316--7699999999999999999999-865410045------------4899999999999999
Q gi|254780217|r  248 QEYALQKMQQIADELLSQ--DQKIAFDFLIEFILKEICKSAK-AAALSGQLE------------EADQIAQIYFSLVKRV  312 (347)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~l~~~l~~~~~-~~~~~~~~~------------~~~~l~~~~~~i~~~~  312 (347)
                      . ........+.+.+...  .....++.+..++.+.+..... ......+..            ....+......+.+..
T Consensus       212 ~-~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~rD~l~~k~~~~~~~~~n~d~~~~l~~~a~~~~~~~l~~~~~~l~~a~  290 (313)
T PRK05564        212 K-SNINIIIKYENFLISYKENWEEILTCILSYIRDSLLFKETGNNELIINVDKIEDIKEISEKYSYKKLNKMIEIINDAR  290 (313)
T ss_pred             C-CCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCEECHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
T ss_conf             6-799999999999998693499999999999999998515598320168889999999985499999999999999999


Q ss_pred             HHHHHCCCCHHHHHHHHHHHHHH
Q ss_conf             98762279979999999999972
Q gi|254780217|r  313 HAFSMYNLDRRQMIFHLLSKARE  335 (347)
Q Consensus       313 ~~~~~~NLd~~~~ll~ll~~l~~  335 (347)
                      ... ..|.|++..+..++.++.+
T Consensus       291 ~~l-~~n~N~~L~le~lllkl~e  312 (313)
T PRK05564        291 NNL-SSNTNSTLVFDSMLIKMQE  312 (313)
T ss_pred             HHH-HHCCCHHHHHHHHHHHHHH
T ss_conf             998-7459989999999998843


No 26 
>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]
Probab=100.00  E-value=0  Score=436.69  Aligned_cols=215  Identities=31%  Similarity=0.460  Sum_probs=205.1

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH
Q ss_conf             96655558756561092999999999998288981663117989888999999999981779988643121012678867
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF   80 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~   80 (347)
                      +|+|||||+.|++++||+++...|.+++..+|++|||||+||+|+||+|+|+.||+.|+|.+.....||+.|..      
T Consensus         5 ~L~rKyRP~~F~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~------   78 (515)
T COG2812           5 VLARKYRPKTFDDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCIS------   78 (515)
T ss_pred             HHHHHHCCCCHHHHCCCHHHHHHHHHHHHHCCCHHHHHHCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHH------
T ss_conf             89988583007776364899999999998084233365137777671049999999956889877772253166------


Q ss_pred             HHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCC
Q ss_conf             99996789875453001000101342123237887554431022211112103532205542400014567776630343
Q gi|254780217|r   81 VKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQK  160 (347)
Q Consensus        81 ~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~  160 (347)
                      |+.|..|+|+|+++++.+.+         .+||+||+|++.+.+.|..|+|||+|||++|+|+.+|.|||||||||||++
T Consensus        79 Ck~I~~g~~~DviEiDaASn---------~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~h  149 (515)
T COG2812          79 CKEINEGSLIDVIEIDAASN---------TGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSH  149 (515)
T ss_pred             HHHHHCCCCCCCHHHHHHHC---------CCHHHHHHHHHHHCCCCCCCCCEEEEEECHHHHHHHHHHHHHCCCCCCCCC
T ss_conf             68651488641011364445---------486799999987246886666418998318764378888875111368667


Q ss_pred             CCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf             41676504433573025203698864799989999999----97278889678999999759897899988145
Q gi|254780217|r  161 VLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       161 t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~  230 (347)
                      ++|||.|+++++|++||+||||+|.|++++.+++...|    .++++..+++++.++++.++||+|++++++++
T Consensus       150 V~FIlATTe~~Kip~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~~e~~aL~~ia~~a~Gs~RDalslLDq  223 (515)
T COG2812         150 VKFILATTEPQKIPNTILSRCQRFDFKRLDLEEIAKHLAAILDKEGINIEEDALSLIARAAEGSLRDALSLLDQ  223 (515)
T ss_pred             EEEEEECCCCCCCCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             48998538867684045521220222579999999999999874487547999999999828974567778999


No 27 
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=100.00  E-value=0  Score=439.18  Aligned_cols=214  Identities=26%  Similarity=0.366  Sum_probs=199.4

Q ss_pred             CCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHH
Q ss_conf             66555587565610929999999999982889816631179898889999999999817799886431210126788679
Q gi|254780217|r    2 IDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFV   81 (347)
Q Consensus         2 ~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~   81 (347)
                      |.|||||+.|++|+||+++++.|++++..||++|||||+||+|+||+|+|+.||+.|+|.......||+.|.+      |
T Consensus         5 LyrkyRP~~F~eviGQe~v~~~L~~Ai~~gri~HAYLFsGprG~GKTt~ARilAkaLNC~~~~~~~PCg~C~s------C   78 (775)
T PRK07764          5 LYRRYRPATFAEVVGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCAQGPTSTPCGVCDS------C   78 (775)
T ss_pred             HHHHHCCCCHHHHCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHH------H
T ss_conf             6655078876662285999999999998199763376237888788899999999966899999898888763------7


Q ss_pred             HHHHCCC--CCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCC
Q ss_conf             9996789--87545300100010134212323788755443102221111210353220554240001456777663034
Q gi|254780217|r   82 KQMASHA--LHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQ  159 (347)
Q Consensus        82 ~~i~~~~--hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~  159 (347)
                      +.|..|.  |.|+++++...         +-+||+||+|++.+.++|..++|||+|||++|+||.+|+|||||||||||+
T Consensus        79 ~~i~~g~~~~~DviEiDAAS---------~~gVddiReL~e~~~y~P~~~ryKVyIIDEaHmls~~afNALLKtLEEPP~  149 (775)
T PRK07764         79 VALAPGGPGSLDVVEIDAAS---------HGGVDDARELRERAFFAPAQSRYRIFIIDEAHMVTTAGFNALLKIVEEPPE  149 (775)
T ss_pred             HHHHCCCCCCCCEEEECCCC---------CCCHHHHHHHHHHCCCCCCCCCEEEEEEECHHHHCHHHHHHHHHHHCCCCC
T ss_conf             88863898888668731565---------568899999998547687678635999853544079999999886227864


Q ss_pred             CCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHHH----HHCCCCCHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf             3416765044335730252036988647999899999999----7278889678999999759897899988145
Q gi|254780217|r  160 KVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKALE----QLKIMGWDSKRDFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       160 ~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L~----~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~  230 (347)
                      +++|||+|+++++|++||+||||+|.|+.++.+++.++|.    ++++.++++.+.++++.+.||+|++++++++
T Consensus       150 hvvFIlaTTep~kip~TI~SRcq~f~Fr~i~~~~~~~~l~~i~~~E~i~~~~~al~li~r~~~Gs~RDalS~ldQ  224 (775)
T PRK07764        150 HLIFIFATTEPEKVIGTIRSRTHHYPFRLVPPGTMRPYLERICAQEGVVVDDAVLPLVIRAGGGSPRDTLSVLDQ  224 (775)
T ss_pred             CEEEEEECCCHHHCCHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             627999548735471677641023452669999999999999998399879899999999828966768999999


No 28 
>PRK08770 DNA polymerase III subunits gamma and tau; Validated
Probab=100.00  E-value=0  Score=432.66  Aligned_cols=215  Identities=29%  Similarity=0.451  Sum_probs=205.3

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH
Q ss_conf             96655558756561092999999999998288981663117989888999999999981779988643121012678867
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF   80 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~   80 (347)
                      ||+|||||++|++++||+++++.|.|++..||+||||||+|++|+||+|.|+.||+.|+|..+.+..|||.|.+      
T Consensus         5 ~~a~k~rp~~f~~~~gq~~~~~~l~~~~~~~~~~~a~lf~g~rg~gkt~~ar~~a~~lnc~~~~~~~pc~~c~~------   78 (663)
T PRK08770          5 VLARKWRPKRFAELVGQEHVVRALSNALDSGRVHHAFLFTGTRGVGKTTIARIFAKSLNCETGTSADPCGQCPA------   78 (663)
T ss_pred             HHHHHHCCCCHHHHCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHH------
T ss_conf             77755088746452285999999999997099740476227998888899999999867899999997877877------


Q ss_pred             HHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCC
Q ss_conf             99996789875453001000101342123237887554431022211112103532205542400014567776630343
Q gi|254780217|r   81 VKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQK  160 (347)
Q Consensus        81 ~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~  160 (347)
                      |+.|..|.|+|+++|+...+         -+||++|+|.+.+.+.|..|+|||||||++|+|+..|.|||||||||||++
T Consensus        79 c~~i~~~~~~d~~e~daas~---------~~v~~~r~~~~~~~~~p~~~~~kvy~idevhmls~~~fna~lktleepp~~  149 (663)
T PRK08770         79 CLDIDAGRYIDLLEIDAASN---------TGVDDVREVIENAQYMPSRGKFKVYLIDEVHMLSKAAFNALLKTLEEPPEH  149 (663)
T ss_pred             HHHHHCCCCCCEEEEECCCC---------CCHHHHHHHHHHCCCCCCCCCEEEEEEECHHHCCHHHHHHHHHHHCCCCCC
T ss_conf             89885489886588646765---------888999999984435887774369997004332899999998740278644


Q ss_pred             CCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf             41676504433573025203698864799989999999----97278889678999999759897899988145
Q gi|254780217|r  161 VLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       161 t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~  230 (347)
                      +.|||.|+++++|+.||+|||+.|+|++++.+++...|    .++++.+.+.++..+++.++||+|+|++++++
T Consensus       150 v~f~~att~~~k~p~t~~src~~f~~~~~~~~~~~~~l~~~~~~e~~~~~~~~~~~~~~~~~gs~rd~lsl~~q  223 (663)
T PRK08770        150 VKFLLATTDPQKLPVTVLSRCLQFNLKRLDEDQIQGQMTRILAAEQIESDPSAIVQLSKAADGSLRDGLSLLDQ  223 (663)
T ss_pred             EEEEEECCCHHHCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             28998548733374899988876343779999999999999998399769999999999747856778889999


No 29 
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=100.00  E-value=0  Score=425.08  Aligned_cols=301  Identities=20%  Similarity=0.233  Sum_probs=231.7

Q ss_pred             HHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEEC
Q ss_conf             29999999999982889816631179898889999999999817799886431210126788679999678987545300
Q gi|254780217|r   17 HEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLS   96 (347)
Q Consensus        17 ~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~   96 (347)
                      |...++.|.+++.+||+||||||+||+|+||+++|+.||++++|.......|||.|.+      |+++.+|+|||++++.
T Consensus         6 l~~~~~~l~~~~~~~r~~HA~L~~G~~G~Gk~~la~~~a~~llC~~~~~~~~Cg~C~s------C~l~~~g~HPD~~~i~   79 (324)
T PRK06871          6 LQPIYQQITQTFLQGRGHHALLFKADSGLGTEQLIRALAQWLMCQAPGDEQPCGQCHS------CHLFQAGNHPDFHILE   79 (324)
T ss_pred             CHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHH------HHHHHCCCCCCEEEEE
T ss_conf             5799999999998699543787689999789999999999982899999998888989------9999738999879984


Q ss_pred             CCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHH
Q ss_conf             10001013421232378875544310222111121035322055424000145677766303434167650443357302
Q gi|254780217|r   97 YSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILST  176 (347)
Q Consensus        97 ~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~T  176 (347)
                      ..       .+++|+||+||+++++++.+|.+|++||+||++||.||.+|+|||||||||||++|+|||+|+++++||||
T Consensus        80 ~~-------~~k~I~vd~IR~l~~~~~~~~~~g~~KV~iI~~ae~m~~~AaNALLKtLEEPp~~~~fiL~t~~~~~ll~T  152 (324)
T PRK06871         80 PI-------DGKDIGVDQVREINEKVSQFAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSASLLAT  152 (324)
T ss_pred             CC-------CCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCH
T ss_conf             67-------88878899999999998646220596699975888857999999999833898783899987870103240


Q ss_pred             HHCEEEEEECCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHH
Q ss_conf             52036988647999899999999727888967899999975989789998814577999999999840323432289999
Q gi|254780217|r  177 IRSRCLSIKFNSLSENNLYKALEQLKIMGWDSKRDFVKIAAYGSVARAIKILHYDCDKIISSYIDLIHIPRQEYALQKMQ  256 (347)
Q Consensus       177 I~SRc~~i~f~~l~~~~~~~~L~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~~~~~~~~~~~~l~~~~~~~~~~~~~  256 (347)
                      |+||||.++|++|+.+++.+||.+.... ...+......+++|+|+.|+.+++++....+..+...+.......+   ..
T Consensus       153 I~SRCq~~~~~~p~~~~~~~wL~~~~~~-~~~~~~~al~~~~g~pl~A~~~~~~~~~~~r~~~~~~l~~~~~~~~---~~  228 (324)
T PRK06871        153 IYSRCQTWLIHVPEEQIALDWLQAQSSG-EIQEIQTALRINYGRPLLALTFLEQGLLEQRKTFLRQFWLFYRRRS---PL  228 (324)
T ss_pred             HHHCCCCEECCCCCHHHHHHHHHHHCCC-CHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCC---HH
T ss_conf             8626612008994999999999974688-7299999999769987999998687799999999999999971689---99


Q ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCC------------HHHHHHHHHHHHHHHHHHHHHHHC-CCCHH
Q ss_conf             99999831676999999999999999999998654100------------454899999999999999987622-79979
Q gi|254780217|r  257 QIADELLSQDQKIAFDFLIEFILKEICKSAKAAALSGQ------------LEEADQIAQIYFSLVKRVHAFSMY-NLDRR  323 (347)
Q Consensus       257 ~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~------------~~~~~~l~~~~~~i~~~~~~~~~~-NLd~~  323 (347)
                      .+...+.++.....++++..++.+.+...........+            ......+...++.+.+..++.... |+|+.
T Consensus       229 ~ll~~~~k~~~~~~L~wL~~~l~D~lk~k~g~~~~~in~D~~~~i~~la~~~s~~~L~~~~~~l~~~r~~L~~~~~lN~e  308 (324)
T PRK06871        229 ELLPLFDKEKVLQQLDWLLAFLSDALKAKLDIDSGWINQDLGRGILQFSQQQSAQGLLKAIQIMQKVRSDLLQINAVNQE  308 (324)
T ss_pred             HHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCEECHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCCHH
T ss_conf             99999751458889999999999999984488756075889999999998659999999999999999998445787899


Q ss_pred             HHHHHHHHHHH
Q ss_conf             99999999997
Q gi|254780217|r  324 QMIFHLLSKAR  334 (347)
Q Consensus       324 ~~ll~ll~~l~  334 (347)
                      .++.+.|.++.
T Consensus       309 Lll~~~L~~l~  319 (324)
T PRK06871        309 LILLDGLTRLV  319 (324)
T ss_pred             HHHHHHHHHHH
T ss_conf             99999999999


No 30 
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=100.00  E-value=0  Score=420.22  Aligned_cols=299  Identities=21%  Similarity=0.250  Sum_probs=225.2

Q ss_pred             HHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCC-CCCCHHHCCCCCCCHHHHHHHCCCCCCEEEE
Q ss_conf             299999999999828898166311798988899999999998177998-8643121012678867999967898754530
Q gi|254780217|r   17 HEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDF-SKAPVRMCNPDPCSPFVKQMASHALHDFLYL   95 (347)
Q Consensus        17 ~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~-~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i   95 (347)
                      |+..|+.|..  ..+|+||||||+||.|+||.++|++||+++||+... +..|||.|.+      |+++.+|+|||+++|
T Consensus         6 ~~~~w~~l~~--~~~rl~HA~Lf~Gp~G~Gk~~lA~~~A~~llC~~~~~~~~~Cg~C~s------C~~~~~~~HPD~~~i   77 (342)
T PRK06964          6 QTDDWNRLQA--LRARWPHALLLHGQAGIGKLAFAQHLAQGLLCETPQPNGEPCGTCAA------CTWFAQGNHPDYRIV   77 (342)
T ss_pred             CHHHHHHHHH--CCCCHHEEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCHH------HHHHHCCCCCCEEEE
T ss_conf             5699999998--06871305765799986799999999999838999988897867777------888862799974553


Q ss_pred             CCCC--------------------HHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHH
Q ss_conf             0100--------------------01013421232378875544310222111121035322055424000145677766
Q gi|254780217|r   96 SYSL--------------------NPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLE  155 (347)
Q Consensus        96 ~~~~--------------------~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LE  155 (347)
                      .+..                    ..+..+.++.|+|||||+++++++++|++|++||+||++||.||.+||||||||||
T Consensus        78 ~Pe~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~idqiR~l~~~l~~~~~~g~~kVviI~~Ae~mn~~aaNalLK~LE  157 (342)
T PRK06964         78 RPEALAAEAPGAADDAKAADADEGGKKTRAPSKEIKIEQVRALLDFCGVGSHRGGARVVVLYPAEALNVAAANALLKTLE  157 (342)
T ss_pred             CCCHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCHHHHCHHHHHHHHHHHC
T ss_conf             40021022333210010111222101235655645499999999997007545884499982778738999999999723


Q ss_pred             HCCCCCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCHHHH
Q ss_conf             30343416765044335730252036988647999899999999727888967899999975989789998814577999
Q gi|254780217|r  156 EPPQKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKALEQLKIMGWDSKRDFVKIAAYGSVARAIKILHYDCDKI  235 (347)
Q Consensus       156 EPp~~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~~~~~  235 (347)
                      |||++|+|||+|+++++|||||+||||.++|++++.+++..||.+.+..  +  ...+..++.|+|+.|+.+.+.+....
T Consensus       158 EPp~~~~~iL~~~~~~~llpTI~SRcq~~~~~~~~~~~~~~~L~~~~v~--~--a~~lla~a~G~p~~Al~l~~~~~~~~  233 (342)
T PRK06964        158 EPPPGVVFLLVSARIDRLLPTILSRCRQWPMTVPAPEAAAAWLAAQGVA--D--ANALLAEAGGAPLAALALASDENRPL  233 (342)
T ss_pred             CCCCCEEEEEEECCHHHCCHHHHHCCEEECCCCCCHHHHHHHHHHCCCC--C--HHHHHHHCCCCHHHHHHHHCCCHHHH
T ss_conf             7987848999869925483688767643028995999999999873986--3--99999880999899998716735999


Q ss_pred             HHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHH---CCHH------------HHHH
Q ss_conf             999999840323432289999999998316769999999999999999999986541---0045------------4899
Q gi|254780217|r  236 ISSYIDLIHIPRQEYALQKMQQIADELLSQDQKIAFDFLIEFILKEICKSAKAAALS---GQLE------------EADQ  300 (347)
Q Consensus       236 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~---~~~~------------~~~~  300 (347)
                      ++.++..+......    .....++.+.+..-..    +++++..|+..........   ....            ....
T Consensus       234 ~~~~l~~L~~~~~~----~~~~~ae~~~k~~~~~----~l~~l~~w~~DlL~~~~~~~~~~~~~~~~~l~~lA~~~~~~~  305 (342)
T PRK06964        234 RDWTLGQLAAGAAC----DAFACGETLQKLPVPA----VLGWLQRWLYDLLAQRLAGAPRYFPAQRAALARCAAAADANA  305 (342)
T ss_pred             HHHHHHHHHCCCCC----CHHHHHHHHHCCCHHH----HHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCHHH
T ss_conf             99999998643325----7999999984478999----999999999999999825981126779999999885089999


Q ss_pred             HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH
Q ss_conf             999999999999987622799799999999999727
Q gi|254780217|r  301 IAQIYFSLVKRVHAFSMYNLDRRQMIFHLLSKAREC  336 (347)
Q Consensus       301 l~~~~~~i~~~~~~~~~~NLd~~~~ll~ll~~l~~~  336 (347)
                      +....+.+.+.. ..-..|+|++.++..++.++++.
T Consensus       306 L~~~~~~l~~~r-~~l~~nvN~~L~lE~LlL~~~e~  340 (342)
T PRK06964        306 FARFAKAVTRQR-AVENHPLAARLVFEELFLGYREL  340 (342)
T ss_pred             HHHHHHHHHHHH-HHHCCCCCHHHHHHHHHHHHHHH
T ss_conf             999999999999-98629987799999999999997


No 31 
>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=100.00  E-value=0  Score=443.24  Aligned_cols=198  Identities=36%  Similarity=0.500  Sum_probs=184.2

Q ss_pred             HHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCH
Q ss_conf             99999999828898166311798988899999999998177998864312101267886799996789875453001000
Q gi|254780217|r   21 EKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLN  100 (347)
Q Consensus        21 ~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~  100 (347)
                      ++.|.++++++|+||||||+||+|+||.++|++||++|+|.+.....|||.|.+      |++|.+|+|||+++|.+...
T Consensus         1 ~~~l~~~~~~~r~~HA~LF~G~~G~Gk~~~A~~~A~~l~C~~~~~~~~Cg~C~~------C~~~~~G~HPD~~~~~P~~~   74 (216)
T TIGR00678         1 WQQLQRALEKGRLAHAYLFTGPEGVGKELLALALAKALLCEPRGGGEPCGECHS------CRLIEAGNHPDLHRLEPEGQ   74 (216)
T ss_pred             CHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHH------HHHHHHCCCCCEEEEEEECC
T ss_conf             956788986067886125444888748999999999980778577888885888------99987079982378742347


Q ss_pred             HHC---------------CCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEE
Q ss_conf             101---------------34212323788755443102221111210353220554240001456777663034341676
Q gi|254780217|r  101 PKT---------------GKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFIL  165 (347)
Q Consensus       101 ~k~---------------~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiL  165 (347)
                      .+.               .+.++.|+|||||+++++++++|.+|+||||||++||+||.+|||||||||||||++|+|||
T Consensus        75 ~~~~~~de~~~~~~g~a~~~~~~~Ik~dq~R~l~~~~~~~~~~~~~rVviI~~Ae~mn~~AANALLKtLEEPp~~t~fiL  154 (216)
T TIGR00678        75 SKSLTADEAAEGEEGSAKRRALPQIKVDQVRELVEFLSLTPQESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFIL  154 (216)
T ss_pred             CCCCCHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCHHHCCHHHHHHHHHHEECCCCCEEEEE
T ss_conf             77777645897625642113678787278999999986064214751799767323258989865101012798707988


Q ss_pred             EECCC--CCCCHHHHCEEEEEECCCCCHHHHHHHHHHHCCCCCH-HHHHHHHHHCCCCHHHH
Q ss_conf             50443--3573025203698864799989999999972788896-78999999759897899
Q gi|254780217|r  166 ISHAS--PTILSTIRSRCLSIKFNSLSENNLYKALEQLKIMGWD-SKRDFVKIAAYGSVARA  224 (347)
Q Consensus       166 it~~~--~~il~TI~SRc~~i~f~~l~~~~~~~~L~~~~~~~~~-~~~~~~~~~s~Gs~~~A  224 (347)
                      +|+++  .+|||||+||||.++|.+|+.+++.+||.+.+..-.. +...+++.++.|+|++|
T Consensus       155 ~~~~~DP~~lLpTI~SRCq~~~f~~l~~~~~~~~L~~~g~~~~~~~~a~~~~~~~~G~p~~a  216 (216)
T TIGR00678       155 ITHSPDPERLLPTIRSRCQVLPFPPLSEEALLQWLIEQGISENVPEAAELLLALAGGSPGRA  216 (216)
T ss_pred             ECCCCCHHHHCCCCCCCEEEEEECCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCCCC
T ss_conf             50888843322111032015862599889999999970878780689999999846851239


No 32 
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=100.00  E-value=0  Score=412.13  Aligned_cols=301  Identities=23%  Similarity=0.262  Sum_probs=233.5

Q ss_pred             HHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEEC
Q ss_conf             29999999999982889816631179898889999999999817799886431210126788679999678987545300
Q gi|254780217|r   17 HEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLS   96 (347)
Q Consensus        17 ~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~   96 (347)
                      |+.+++.|.+++.+||+||||||+||+|+||+++|++||++++|....   +|+.|      .+|+.+..|+|||+.++.
T Consensus         9 q~~~~~~L~~~i~~~rl~HA~Lf~Gp~G~GK~~~A~~~A~~llc~~~~---~~~~~------~~~~~i~~g~HPD~~~i~   79 (319)
T PRK08769          9 QQRAFDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLASGPD---PALAQ------RTRQLIAAGTHPDLQLVS   79 (319)
T ss_pred             CHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCC---CCCCC------HHHHHHHCCCCCCEEEEE
T ss_conf             689999999999769942068758999878999999999998379979---76543------388999668998968775


Q ss_pred             CCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHH
Q ss_conf             10001013421232378875544310222111121035322055424000145677766303434167650443357302
Q gi|254780217|r   97 YSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILST  176 (347)
Q Consensus        97 ~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~T  176 (347)
                      ...++++++.++.|+|||||+++++++++|.+|++||+|||+||.||.+|+|||||||||||++|+|||+|+++++||||
T Consensus        80 ~~~~~~~~k~k~~I~IdqiR~l~~~~~~~p~~g~~KV~IId~Ad~mn~~AaNalLK~LEEPp~~~~~iL~~~~~~~ll~T  159 (319)
T PRK08769         80 FIPNRTGDKLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRSACNALLKTLEEPSPGRYLWLISAQPARLPAT  159 (319)
T ss_pred             CCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCHHHCCHHHHHHHHHHHCCCCCCEEEEEEECCHHHCCHH
T ss_conf             34444543112348699999999996137202795699980667528999999999822799884899986993658247


Q ss_pred             HHCEEEEEECCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHH
Q ss_conf             52036988647999899999999727888967899999975989789998814577999999999840323432289999
Q gi|254780217|r  177 IRSRCLSIKFNSLSENNLYKALEQLKIMGWDSKRDFVKIAAYGSVARAIKILHYDCDKIISSYIDLIHIPRQEYALQKMQ  256 (347)
Q Consensus       177 I~SRc~~i~f~~l~~~~~~~~L~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~~~~~~~~~~~~l~~~~~~~~~~~~~  256 (347)
                      |+||||.+.|++++.+++..||...+.  ++.....+...+.|+|+.|+.+++++....++.+...+.......  ....
T Consensus       160 I~SRCq~~~~~~p~~~~~~~~L~~~g~--~~~~a~~~l~~a~g~p~~A~~~~~~~~~~~~~~~~~~l~~i~~~~--~~~l  235 (319)
T PRK08769        160 IRSRCQRLEFKLPPAHEALAWLLSQGV--SERAAQEALDAARGHPGLAAQWLREDGLAVRRAVAQDLEQIASGR--AGAV  235 (319)
T ss_pred             HHHCCEEECCCCCCHHHHHHHHHHCCC--CHHHHHHHHHHHCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHCC--CHHH
T ss_conf             764850111899699999999997599--918999999982799689999843672778999999999885074--2599


Q ss_pred             HHHHHHHCCCHHHH-HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
Q ss_conf             99999831676999-99999999999999999865410045489999999999999998762279979999999999972
Q gi|254780217|r  257 QIADELLSQDQKIA-FDFLIEFILKEICKSAKAAALSGQLEEADQIAQIYFSLVKRVHAFSMYNLDRRQMIFHLLSKARE  335 (347)
Q Consensus       257 ~~~~~~~~~~~~~~-~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~i~~~~~~~~~~NLd~~~~ll~ll~~l~~  335 (347)
                      .+++.+..+..... +....++.     .. ..............+...++.+.+ .+.....|++++..+.++|..+++
T Consensus       236 ~~aq~w~~d~~~~~~l~~~~~l~-----~~-~~~~~~~~~~~l~~L~~~l~~~~~-~r~l~~~nvn~~L~le~Lli~~re  308 (319)
T PRK08769        236 DVAQRWTNDGQADQRLRHAADLA-----LA-QASAGLTDPSRLHKLATWFDAANR-TRDLLRTTVRADLAVTELLLAWRE  308 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-----HH-HHHHCCCCHHHHHHHHHHHHHHHH-HHHHHCCCCCHHHHHHHHHHHHHH
T ss_conf             99999876024578888644044-----42-111116882889999999999999-999853887288999999999997


Q ss_pred             HH
Q ss_conf             78
Q gi|254780217|r  336 CN  337 (347)
Q Consensus       336 ~~  337 (347)
                      ..
T Consensus       309 ~~  310 (319)
T PRK08769        309 GE  310 (319)
T ss_pred             HC
T ss_conf             44


No 33 
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=100.00  E-value=0  Score=410.16  Aligned_cols=301  Identities=20%  Similarity=0.235  Sum_probs=231.0

Q ss_pred             HHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEEC
Q ss_conf             29999999999982889816631179898889999999999817799886431210126788679999678987545300
Q gi|254780217|r   17 HEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLS   96 (347)
Q Consensus        17 ~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~   96 (347)
                      ++..++.|.+++.+||+||||||+||+|+||.++|+.||++++|.... ..|||.|.+      |+.+.+|+|||++++.
T Consensus         8 l~~~~~~l~~~~~~~rl~HA~L~~g~~G~Gk~~la~~la~~LlC~~~~-~~~Cg~C~s------C~l~~~g~HPD~~~i~   80 (319)
T PRK06090          8 LVPVWQNWKSGLDAERIPGALLLQSDEGLGVESLVELFSHALLCQNYQ-SEACGFCHS------CELMKSGNHPDLHVIK   80 (319)
T ss_pred             CHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCC-CCCCCCCHH------HHHHHCCCCCCCEEEE
T ss_conf             379999999999869963067667999857999999999998089999-998877877------9998758999823661


Q ss_pred             CCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHH
Q ss_conf             10001013421232378875544310222111121035322055424000145677766303434167650443357302
Q gi|254780217|r   97 YSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILST  176 (347)
Q Consensus        97 ~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~T  176 (347)
                      ++      +.++.|+||+||+++++++.+|..|++||+||++||.||.+|+|||||||||||++|+|||+|+++++|+||
T Consensus        81 pe------~~~k~I~vd~IR~l~~~~~~~~~~g~~KV~iI~~ae~m~~~AaNALLKtLEEPp~~t~fiL~t~~~~~ll~T  154 (319)
T PRK06090         81 PE------KEGKSITVEQIRQCNRLAQESSQLGGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPT  154 (319)
T ss_pred             CC------CCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCHHHCCHHHHHHHHHHHCCCCCCEEEEEEECCHHHCCCC
T ss_conf             23------356768799999999997545210693699981444349999999999842899883899876851208641


Q ss_pred             HHCEEEEEECCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHCC-CCCCCCHHHH
Q ss_conf             520369886479998999999997278889678999999759897899988145779999999998403-2343228999
Q gi|254780217|r  177 IRSRCLSIKFNSLSENNLYKALEQLKIMGWDSKRDFVKIAAYGSVARAIKILHYDCDKIISSYIDLIHI-PRQEYALQKM  255 (347)
Q Consensus       177 I~SRc~~i~f~~l~~~~~~~~L~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~~~~~~~~~~~~l~~-~~~~~~~~~~  255 (347)
                      |+||||++.|++|+.++..+||.+.+...+    ..+..++.|+|..|+.+++++..+.+..+...+.. .....  ...
T Consensus       155 I~SRCq~~~l~~p~~~~~~~WL~~q~~~~~----~~aL~l~~g~Pl~a~~~l~~~~~~~~~~l~~~l~~~~~~~~--~~~  228 (319)
T PRK06090        155 IVSRCQQWVVTPPSTDQAMQWLKGQGISVP----AYALKLNMGSPLKTLAMMKEGELEEYHKLERQLVDALSGPV--SDV  228 (319)
T ss_pred             HHHCCCCCCCCCCCHHHHHHHHHHHCCCCH----HHHHHHCCCCCHHHHHHHCCCHHHHHHHHHHHHHHHHHCCC--CHH
T ss_conf             876144502899599999999988487557----99998849994999998638689999999999999984788--419


Q ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHH--HHHC-----CHHHHHHHHHHHHHHHHHHHHHHHC-CCCHHHHHH
Q ss_conf             9999998316769999999999999999999986--5410-----0454899999999999999987622-799799999
Q gi|254780217|r  256 QQIADELLSQDQKIAFDFLIEFILKEICKSAKAA--ALSG-----QLEEADQIAQIYFSLVKRVHAFSMY-NLDRRQMIF  327 (347)
Q Consensus       256 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~--~~~~-----~~~~~~~l~~~~~~i~~~~~~~~~~-NLd~~~~ll  327 (347)
                      ..+...+.. +....+.++..++.+.+.......  ....     ..-....+.....++.+..+..... ++|+..++.
T Consensus       229 ~~~~~~~~~-~~~~~L~Wl~~lL~Da~K~~~gi~~~~~~~~~~~l~~l~~~~L~~~~~~l~~~r~qL~~~~~lN~ELll~  307 (319)
T PRK06090        229 LKCASLIAA-DPLTALSWLWLLLTDAQKAHFGVQNEYILPGSAALGPFTYSGLYASTAKLLELKEQLQQFSGLNTELLIM  307 (319)
T ss_pred             HHHHHHHCC-CHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHH
T ss_conf             999887360-5777899999999999999860521066667999984189999999999999999997188726999999


Q ss_pred             HHHHHHHHHH
Q ss_conf             9999997278
Q gi|254780217|r  328 HLLSKARECN  337 (347)
Q Consensus       328 ~ll~~l~~~~  337 (347)
                      +.+.+.+++.
T Consensus       308 ~~Ll~~~~~~  317 (319)
T PRK06090        308 NWLIESREAL  317 (319)
T ss_pred             HHHHHHHHHH
T ss_conf             9999987874


No 34 
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=100.00  E-value=0  Score=397.58  Aligned_cols=299  Identities=24%  Similarity=0.302  Sum_probs=217.5

Q ss_pred             HHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCC-CCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEE
Q ss_conf             29999999999982889816631179898889999999999817799-88643121012678867999967898754530
Q gi|254780217|r   17 HEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPD-FSKAPVRMCNPDPCSPFVKQMASHALHDFLYL   95 (347)
Q Consensus        17 ~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~-~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i   95 (347)
                      |+..|+.|...  ..|+||||||+||.|+||.++|+.||+.+||... .+..|||.|.+      |+++.+|+|||++++
T Consensus         6 ~~~~w~~l~~~--~~rl~HA~L~~Gp~G~Gk~~~A~~~A~~llC~~~~~~~~~Cg~C~s------C~~~~~g~HPD~~~i   77 (325)
T PRK08699          6 HQEQWRQIAEH--WERRPNAWLFVGKKGTGKTAFARFAAKALLCETPAPGCKPCGECMS------CHLFGQGSHPDFYEI   77 (325)
T ss_pred             CHHHHHHHHHH--CCCCCEEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCHH------HHHHHCCCCCCEEEE
T ss_conf             57999999983--4450117975799997899999999999828999888998988888------999865999996885


Q ss_pred             CCCCHH-HCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCC
Q ss_conf             010001-0134212323788755443102221111210353220554240001456777663034341676504433573
Q gi|254780217|r   96 SYSLNP-KTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTIL  174 (347)
Q Consensus        96 ~~~~~~-k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il  174 (347)
                      .+..++ +.++...+|+||+||+++++++++|+.|++||+||++||.||.+|+|||||||||||++|+|||+|+++++||
T Consensus        78 ~p~~~~~~~g~~~~~I~idqiR~l~~~~~~~~~~~~~kV~ii~~ae~mn~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll  157 (325)
T PRK08699         78 TPLADEPENGRKLLQIKIDAVREIIDNVYLTSVRGGLRVILIHPAESMNVQAANSLLKVLEEPPPQVVFLLVSHAADKVL  157 (325)
T ss_pred             ECCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCEEEEECCHHHHCHHHHHHHHHHHCCCCCCEEEEEEECCHHHCC
T ss_conf             13445300166556676999999999971086568946999857777589999999998417888848999879846462


Q ss_pred             HHHHCEEEEEECCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHH
Q ss_conf             02520369886479998999999997278889678999999759897899988145779999999998403234322899
Q gi|254780217|r  175 STIRSRCLSIKFNSLSENNLYKALEQLKIMGWDSKRDFVKIAAYGSVARAIKILHYDCDKIISSYIDLIHIPRQEYALQK  254 (347)
Q Consensus       175 ~TI~SRc~~i~f~~l~~~~~~~~L~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~~~~~~~~~~~~l~~~~~~~~~~~  254 (347)
                      |||+||||.+.|++++.+++..||.+.+....+    .....+.|+|--+   .+.+....+..+++.+....    ...
T Consensus       158 pTI~SRc~~~~~~~p~~~~~~~~L~~~gv~~~~----~~La~~~gapl~~---~~~~~~~~r~~ll~~L~~~~----~~~  226 (325)
T PRK08699        158 PTIKSRCRKMVLPAPSHEEALAYLRERGVAEPE----ERLAFHSGAPLFD---EEDELRALRAKLLDILAEPR----LLK  226 (325)
T ss_pred             CHHHHCCCCCCCCCCCHHHHHHHHHHCCCCCHH----HHHHHCCCCCHHH---HCCHHHHHHHHHHHHHHCCC----CCC
T ss_conf             339864542108995999999999974897678----9997659981123---17436999999999972644----055


Q ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHH---CCHHH------------HHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             99999998316769999999999999999999986541---00454------------8999999999999999876227
Q gi|254780217|r  255 MQQIADELLSQDQKIAFDFLIEFILKEICKSAKAAALS---GQLEE------------ADQIAQIYFSLVKRVHAFSMYN  319 (347)
Q Consensus       255 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~---~~~~~------------~~~l~~~~~~i~~~~~~~~~~N  319 (347)
                      ...++..+.+..  .....+++++..|+..........   +....            ...+....+.+ ...+.....|
T Consensus       227 ~l~~a~~~~k~~--~~l~~~l~wlq~wl~DL~~~~~~~~~~y~~d~~~~L~~lA~~~~~~~L~~~~~~l-~~~~r~~~~n  303 (325)
T PRK08699        227 ILDYAALFDKEK--LPLAVFVGWMQKWLVDLGLCLQHMKPVYYPAYEDRLLQTASGFRPRNVFAAEDML-KQLAPYGFHT  303 (325)
T ss_pred             HHHHHHHHHHCC--CCHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHH-HHHHHHCCCC
T ss_conf             999999987565--8489999999999999999982698543876899999998708999999999999-9999854599


Q ss_pred             CCHHHHHHHHHHHHHHHH
Q ss_conf             997999999999997278
Q gi|254780217|r  320 LDRRQMIFHLLSKARECN  337 (347)
Q Consensus       320 Ld~~~~ll~ll~~l~~~~  337 (347)
                      +|++..+.+++.++.+..
T Consensus       304 lN~~L~lE~LLl~y~~l~  321 (325)
T PRK08699        304 LNVKMQIEHLLINYLELK  321 (325)
T ss_pred             CCHHHHHHHHHHHHHHHH
T ss_conf             878999999999999887


No 35 
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=100.00  E-value=0  Score=394.56  Aligned_cols=207  Identities=28%  Similarity=0.354  Sum_probs=177.8

Q ss_pred             CHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCC
Q ss_conf             56561092999999999998288981663117989888999999999981779988643121012678867999967898
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHAL   89 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~h   89 (347)
                      -|++|+||+.+++.|.+++.++|+||||||+||+|+||+++|+.||+.|+|..     +|+.|..      | ++.+++|
T Consensus         2 ~F~~iiGq~~~~~~L~~ai~~~rl~hAyLF~Gp~G~GK~~~A~~fa~~Ll~~~-----~~~~~~~------~-ri~~~nH   69 (314)
T PRK07399          2 LFANLIGQPLAIELLTAAIEQNRIAPAYLFAGPEGVGRKLAALRFIEGLLSQG-----SPSKNIR------R-RLEEGNH   69 (314)
T ss_pred             CCCCCCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCC-----CCCCCHH------H-HHHCCCC
T ss_conf             83312594999999999998599674487789998329999999999985789-----9997665------5-8751899


Q ss_pred             CCEEEECCCCHHH--------------CCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHH
Q ss_conf             7545300100010--------------13421232378875544310222111121035322055424000145677766
Q gi|254780217|r   90 HDFLYLSYSLNPK--------------TGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLE  155 (347)
Q Consensus        90 pd~~~i~~~~~~k--------------~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LE  155 (347)
                      ||++++.+.+...              ..+....|+|||||++.+|++++|++|++||+|||+||.||.+|+||||||||
T Consensus        70 PDl~~i~P~~~~~g~~~~~~~~~~~~~~~~~~~~I~idqIR~l~~~l~~~p~~~~~kVvII~~ae~m~~~AaNaLLKtLE  149 (314)
T PRK07399         70 PDLLWVEPTYQHQGKLITASEAEEAGLKRKSPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLE  149 (314)
T ss_pred             CCEEEEECCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCCCCCCEEEEECCHHHCCHHHHHHHHHHHC
T ss_conf             97788605620034545577898765302687778799999999997318856884799988978719999999998614


Q ss_pred             HCCCCCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHHHHHCCCC-CHHHHHHHHHHCCCCHHHHHHHHC
Q ss_conf             30343416765044335730252036988647999899999999727888-967899999975989789998814
Q gi|254780217|r  156 EPPQKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKALEQLKIMG-WDSKRDFVKIAAYGSVARAIKILH  229 (347)
Q Consensus       156 EPp~~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L~~~~~~~-~~~~~~~~~~~s~Gs~~~A~~ll~  229 (347)
                      ||| +++|||+|+++++|||||+||||.++|+|++.+++.++|++.+... .......+..+|+||||.|+...+
T Consensus       150 EP~-~~~fILit~~~~~lLpTI~SRCQ~i~F~~l~~~~i~~~L~~~~~~~~~~~~~~~l~~~A~GspG~a~~~~~  223 (314)
T PRK07399        150 EPG-NGTLILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDNINEILDHPELLALAQGSPGAAIANIE  223 (314)
T ss_pred             CCC-CCEEEEEECCHHHCCHHHHCCCEEEECCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHCCCHHHHHHHHH
T ss_conf             787-85699997993649146641875633899899999999997166433102789999881799799999999


No 36 
>PRK07276 DNA polymerase III subunit delta'; Validated
Probab=100.00  E-value=9.8e-45  Score=379.86  Aligned_cols=208  Identities=23%  Similarity=0.346  Sum_probs=185.4

Q ss_pred             HHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEEC
Q ss_conf             29999999999982889816631179898889999999999817799886431210126788679999678987545300
Q gi|254780217|r   17 HEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLS   96 (347)
Q Consensus        17 ~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~   96 (347)
                      |+.+++.|.+++++||+||||||+|  |+||..+|++||+.++|....+..||+.|.+      |+++.+|+|||++++.
T Consensus         7 Qp~i~~~l~~~i~~~rl~HAyLf~G--~~Gk~~~A~~~A~~l~C~~~~~~~pCg~C~~------C~~i~~~~hpDv~~i~   78 (290)
T PRK07276          7 QPKLFQRFQTILEQDRLNHAYLFSG--DFASFEMALFLAQSLFCEQKEDVLPCGHCRS------CRLIEQGDFSDVTVIE   78 (290)
T ss_pred             HHHHHHHHHHHHHCCCCCEEEECCC--CCCHHHHHHHHHHHHHCCCCCCCCCCCCCHH------HHHHHCCCCCCCEEEC
T ss_conf             8999999999998499650542169--8687999999999981899999898988999------9998769998713771


Q ss_pred             CCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHH
Q ss_conf             10001013421232378875544310222111121035322055424000145677766303434167650443357302
Q gi|254780217|r   97 YSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILST  176 (347)
Q Consensus        97 ~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~T  176 (347)
                      .        .++.|+||+||++.++++.+|++|++||+|||+||.||.+|||||||+|||||++|+|||+|+++++||||
T Consensus        79 ~--------~~~~I~vd~IR~l~~~~~~~~~~g~~KV~II~~Ad~mt~~AaNaLLK~LEEPp~~t~~iLlt~~~~~lLpT  150 (290)
T PRK07276         79 P--------QGQVIKTDTIRELTANFSQSGYEGKRQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTNDENKVLPT  150 (290)
T ss_pred             C--------CCCCCCHHHHHHHHHHHHHCCCCCCEEEEEECCHHHCCHHHHHHHHHHHCCCCCCCEEEEEECCHHHCCHH
T ss_conf             6--------77757688999999998445613782799977656529999999999703898883799887992549378


Q ss_pred             HHCEEEEEECCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCH-HHHHHHHHHHHC
Q ss_conf             52036988647999899999999727888967899999975989789998814577-999999999840
Q gi|254780217|r  177 IRSRCLSIKFNSLSENNLYKALEQLKIMGWDSKRDFVKIAAYGSVARAIKILHYDC-DKIISSYIDLIH  244 (347)
Q Consensus       177 I~SRc~~i~f~~l~~~~~~~~L~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~~-~~~~~~~~~~l~  244 (347)
                      |+||||.++| |...+.+.+.+.+.+.  ++..++.++.+++ ++++|+.+..++. .+.......++.
T Consensus       151 I~SRCQ~i~f-p~~~~~l~~~l~~~gi--~~~~a~~la~~~~-~~~~a~~l~~~~~f~~~~~~~~~~~~  215 (290)
T PRK07276        151 IKSRTQIFHF-PKNEAYLYQLLEEKGL--LKTQAKLLAKLAQ-STSEAEKLAQNSKFLELIDQAERFVS  215 (290)
T ss_pred             HHHCCCCCCC-CCCHHHHHHHHHHCCC--CHHHHHHHHHHHC-CHHHHHHHHHCHHHHHHHHHHHHHHH
T ss_conf             8736601028-9967999999998699--8679999999965-99999998725489999999999999


No 37 
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=100.00  E-value=4e-41  Score=350.75  Aligned_cols=218  Identities=21%  Similarity=0.321  Sum_probs=176.1

Q ss_pred             CCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCC-CHHHCCCCCCCHHH
Q ss_conf             65555875656109299999999999828898166311798988899999999998177998864-31210126788679
Q gi|254780217|r    3 DRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKA-PVRMCNPDPCSPFV   81 (347)
Q Consensus         3 ~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~-~~~~~~~~~~~~~~   81 (347)
                      ..||||++|++++||+++++.|.++++++++|| +|||||||+||+|+|+++|+.++|....... .|+.|  +.+....
T Consensus         6 veKYRP~~~~dvvGq~~i~~~L~~~~~~~~~ph-lLf~GPpG~GKTt~A~~lA~~l~~~~~~~~~~~~nas--d~~~~~~   82 (337)
T PRK12402          6 TEKYRPSLFEDILGQESVVDHLSALAASGNLPH-LVVYGPSGSGKTAAVRALARELYGDPWENNFTYFNVS--DFFDQGK   82 (337)
T ss_pred             CCCCCCCCHHHHCCCHHHHHHHHHHHHCCCCCE-EEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCEECCC--CCCCCCC
T ss_conf             214188979980397999999999997799876-9888929848999999999996799756783331165--3113564


Q ss_pred             HHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHH-HHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCC
Q ss_conf             99967898754530010001013421232378875544-31022211112103532205542400014567776630343
Q gi|254780217|r   82 KQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIR-YFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQK  160 (347)
Q Consensus        82 ~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~-~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~  160 (347)
                      ..+.  .++.+..+..   ..  .......+|.+|+++ ++.+++|..++|||+|||+||.||.+|||||||+|||||++
T Consensus        83 ~~i~--~~~~~~~~~~---~~--~~~~~~~~d~i~~ii~~~a~~~p~~~~~KiiIlDEad~lt~~Aq~aLlk~lEe~~~~  155 (337)
T PRK12402         83 KYLV--EDPRFAHFYD---DP--KRKYKSVIDNFKHILKEYASMRPLSADYKLILFDNAEALREDAQQALRRIMERYSET  155 (337)
T ss_pred             CEEE--CCCCHHHHHC---CH--HHCCCCHHHHHHHHHHHHHCCCCCCCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCC
T ss_conf             0010--1664234420---15--332773789999999998614887788049997071317999999999887408876


Q ss_pred             CCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHHH----HHCCCCCHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf             416765044335730252036988647999899999999----7278889678999999759897899988145
Q gi|254780217|r  161 VLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKALE----QLKIMGWDSKRDFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       161 t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L~----~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~  230 (347)
                      ++|||+|+++++++|||+|||+.|+|++++.+++.+.|.    +++.+.+++.++.++..|+|++|+|+++++.
T Consensus       156 ~~fIl~t~~~~~ii~tI~SRC~~i~F~~~s~~~i~~~L~~I~~~E~i~~~~~~l~~ia~~s~GdlR~ain~Lq~  229 (337)
T PRK12402        156 CRFIFSTTQPSKLIPPIRSRCLPLFFRPVPDDEIRSVLESIAAAEGVEISDDGLDLIAYYAEGDLRKAILTLQL  229 (337)
T ss_pred             EEEEEECCCCCCCCHHHHHHCEEEECCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             69987238644475247762445435898999999999999998499989999999999869989999999999


No 38 
>PRK05917 DNA polymerase III subunit delta'; Validated
Probab=100.00  E-value=7.4e-41  Score=348.59  Aligned_cols=174  Identities=20%  Similarity=0.241  Sum_probs=151.8

Q ss_pred             HHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEEC
Q ss_conf             29999999999982889816631179898889999999999817799886431210126788679999678987545300
Q gi|254780217|r   17 HEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLS   96 (347)
Q Consensus        17 ~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~   96 (347)
                      +.++|+.|.+++++||+||||||+||+|+||+++|+.||+.|||...+    |          .|.++.+++|||++++.
T Consensus         2 ~~~~We~L~~~i~~~Rl~HAyLf~Gp~G~GK~~~A~~~A~~LLc~~~p----~----------~~~~i~~~~HPD~~~i~   67 (290)
T PRK05917          2 ENAAWEALLQRVRDQKVPSAILLHGQDLSNLSQYAYELASLILLESSP----E----------AQYKISQKIHPDIHEFF   67 (290)
T ss_pred             CCHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHCCCCC----C----------HHHHHHHCCCCCEEEEC
T ss_conf             854999999999839966068768999865999999999998578996----1----------68898746899859961


Q ss_pred             CCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHH
Q ss_conf             10001013421232378875544310222111121035322055424000145677766303434167650443357302
Q gi|254780217|r   97 YSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILST  176 (347)
Q Consensus        97 ~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~T  176 (347)
                      +.      ..++.++||+||++.++++++|++|+|||+|||+||.||.+|||||||||||||++|+|||+|+++++||||
T Consensus        68 pe------~k~~~~~Id~iR~l~~~i~~~p~~g~~KV~IId~Ad~Mn~~AaNALLKtLEEPP~~tvfILit~~~~~lLpT  141 (290)
T PRK05917         68 PE------GKGRLHSIETPRAIKKQIWIHPYEANYKIYIIHEADRMTLDAISAFLKVLEDPPKHSVIILTSAKPQRLPPT  141 (290)
T ss_pred             CC------CCCCCCCHHHHHHHHHHHCCCCCCCCCEEEEECCHHHHCHHHHHHHHHHHCCCCCCEEEEEEECCHHHCCHH
T ss_conf             57------778878678999999996418646882699975677638999999999734798785999986992548237


Q ss_pred             HHCEEEEEECCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCH
Q ss_conf             520369886479998999999997278889678999999759897
Q gi|254780217|r  177 IRSRCLSIKFNSLSENNLYKALEQLKIMGWDSKRDFVKIAAYGSV  221 (347)
Q Consensus       177 I~SRc~~i~f~~l~~~~~~~~L~~~~~~~~~~~~~~~~~~s~Gs~  221 (347)
                      |+||||.++|+...           .....++....+..+++|..
T Consensus       142 I~SRCQ~I~i~~~e-----------~~~i~~e~~~~l~~~a~g~~  175 (290)
T PRK05917        142 IRSRSLSIHIPGEE-----------KTLPSKEDIAYLIRYAQGKE  175 (290)
T ss_pred             HHHCCCEEECCCCC-----------CCCCCHHHHHHHHHHHCCCH
T ss_conf             76335116777620-----------13478899999999846973


No 39 
>PRK07132 DNA polymerase III subunit delta'; Validated
Probab=100.00  E-value=4.3e-39  Score=334.40  Aligned_cols=200  Identities=16%  Similarity=0.251  Sum_probs=165.2

Q ss_pred             HHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCC-CEEEE
Q ss_conf             29999999999982889816631179898889999999999817799886431210126788679999678987-54530
Q gi|254780217|r   17 HEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALH-DFLYL   95 (347)
Q Consensus        17 ~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hp-d~~~i   95 (347)
                      .+++.+.|.++++++|+||||||+||+|+||+++|+.||+.++|........|                  .|| |+.++
T Consensus         3 ~e~iv~~L~nai~~~klsHAYLF~G~~G~Gk~~~a~~~a~~l~~~~~~~~~~~------------------~~~~~~~~i   64 (303)
T PRK07132          3 DNNIIKSLDNLAKQNKISHSFLLKSNYNNDLDESILYFLNKFNNLQSLNLNLE------------------ELPYNIFLF   64 (303)
T ss_pred             CHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCC------------------CCCCCCEEE
T ss_conf             03899999999984997616886789986799999999999729987888754------------------565323041


Q ss_pred             CCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCC-CCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCC
Q ss_conf             01000101342123237887554431022211-11210353220554240001456777663034341676504433573
Q gi|254780217|r   96 SYSLNPKTGKWRTVITVDEIRRIRYFLSLTAN-TGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTIL  174 (347)
Q Consensus        96 ~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~-~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il  174 (347)
                      +.        ....|+++++|+.++.+..+|. .|++||+|||+||.||.+|+|||||||||||++|+|||+|+++++||
T Consensus        65 d~--------~~~~i~~~~i~~~i~~~~~~~~~~~~~Kv~IIdea~~lt~~A~NaLLKtLEEPp~~~~fil~t~~~~~il  136 (303)
T PRK07132         65 DI--------FDEDLSKEEFLSAIEKFSFSSFVSNQKKILIIKNIEKTSNSSLNALLKTIEEPSKNTYFLLTTKNINKVI  136 (303)
T ss_pred             CC--------CCCCHHHHHHHHHHHHHHHCCCCCCCEEEEEEECHHHCCHHHHHHHHHHCCCCCCCEEEEEEECCHHHCC
T ss_conf             33--------2220016889999999973665568706999816553399999999987038986848999728824383


Q ss_pred             HHHHCEEEEEECCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHCC
Q ss_conf             02520369886479998999999997278889678999999759897899988145779999999998403
Q gi|254780217|r  175 STIRSRCLSIKFNSLSENNLYKALEQLKIMGWDSKRDFVKIAAYGSVARAIKILHYDCDKIISSYIDLIHI  245 (347)
Q Consensus       175 ~TI~SRc~~i~f~~l~~~~~~~~L~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~~~~~~~~~~~~l~~  245 (347)
                      |||+||||+|.|+|++.+++.++|.+...  .++....++..+. +.++|+.+++.+..+....++..+..
T Consensus       137 ~TI~SRCq~~~f~~~~~~~i~~~l~e~~~--~~e~~~~~a~~~~-n~~~a~~~~~~e~~~~~~~~~~~l~~  204 (303)
T PRK07132        137 PTIVSRCQVINVKEPDQQKILAKLLSQNK--EKEFEKFYAYIFK-NFEDAIKYISKISENLVKKFIKALNK  204 (303)
T ss_pred             HHHHHCCEEEECCCCCHHHHHHHHHHCCC--CCHHHHHHHHHHC-CHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             77863665663788999999999986477--5278999999974-75889999864239999999999998


No 40 
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=100.00  E-value=2.2e-37  Score=320.64  Aligned_cols=194  Identities=25%  Similarity=0.379  Sum_probs=169.1

Q ss_pred             CCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHH
Q ss_conf             66555587565610929999999999982889816631179898889999999999817799886431210126788679
Q gi|254780217|r    2 IDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFV   81 (347)
Q Consensus         2 ~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~   81 (347)
                      -.+||||++|++++||+++.+.|.+.++++++|| +|||||||+||+|+|+.+|+.++|..                   
T Consensus         6 W~eKYRP~~l~di~g~~~~~~~L~~~i~~~~~ph-lLf~GppG~GKTt~a~~la~~l~~~~-------------------   65 (318)
T PRK00440          6 WVEKYRPRSLDEVVGQEEIVERLKSFVKEKNMPH-LLFAGPPGTGKTTAALALARELYGEY-------------------   65 (318)
T ss_pred             HHHCCCCCCHHHHCCCHHHHHHHHHHHHCCCCCE-EEEECCCCCCHHHHHHHHHHHHCCCC-------------------
T ss_conf             6460198989994196999999999998799866-98889599889999999999976986-------------------


Q ss_pred             HHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHH-HHCCCCCCC-CCCHHHHHHHHHHCCHHHHHHHHHHHHHCCC
Q ss_conf             99967898754530010001013421232378875544-310222111-1210353220554240001456777663034
Q gi|254780217|r   82 KQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIR-YFLSLTANT-GYWRVIMIDPVDGMNRNAANALLKSLEEPPQ  159 (347)
Q Consensus        82 ~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~-~~~~~~~~~-~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~  159 (347)
                            .+.++++++.+ |++        ++|.||+.+ +++..+|.. +++||+|||+||.||.+|||||+|+||+||+
T Consensus        66 ------~~~~~lelnas-d~r--------~id~vr~~i~~~~~~~~~~~~~~kiiiiDE~d~l~~~aq~aL~~~mE~~~~  130 (318)
T PRK00440         66 ------WRENFLELNAS-DER--------GIDVIRNKIKEFARTAPVGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQ  130 (318)
T ss_pred             ------CCCCEEEECCC-CCC--------CHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCCCCHHHHHHHHHHHHCCCC
T ss_conf             ------43476895164-566--------717899999999972677899738999868553225567888764310566


Q ss_pred             CCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHHH----HHCCCCCHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf             3416765044335730252036988647999899999999----7278889678999999759897899988145
Q gi|254780217|r  160 KVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKALE----QLKIMGWDSKRDFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       160 ~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L~----~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~  230 (347)
                      ++.|||+|++++++++||+|||+.++|+|++.+++.+.|.    .++...+++.+..++..|+|++|+|+++++.
T Consensus       131 ~~~fil~~n~~~kii~~i~SRc~~i~f~~~~~~~i~~~L~~I~~~E~i~~~~~~l~~i~~~s~gdlR~ain~Lq~  205 (318)
T PRK00440        131 TTRFILSCNYSSKIIDPIQSRCAVFRFSPLPKEAVIERLRYIAKNEGLEITDDALEAIYYVSEGDMRKAINALQA  205 (318)
T ss_pred             CCEEEEECCCCCCCCCCHHHHHEEEECCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             625886348833376155655101115789999999999999998599989999999998649989999999999


No 41 
>PRK05818 DNA polymerase III subunit delta'; Validated
Probab=100.00  E-value=7e-37  Score=316.59  Aligned_cols=183  Identities=20%  Similarity=0.260  Sum_probs=151.9

Q ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCC
Q ss_conf             89816631179898889999999999817799886431210126788679999678987545300100010134212323
Q gi|254780217|r   32 RMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVIT  111 (347)
Q Consensus        32 ~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~  111 (347)
                      +-|||+|+.|++|+|+..++..||++|+|..  ..+|||.|.+      |+++.+|+|||++.+..        .+..|+
T Consensus         6 n~~halLl~~~~G~~~~~~~~~~~k~LlC~~--~~~PCG~C~s------C~~i~~g~HPD~~~i~p--------e~~sIk   69 (262)
T PRK05818          6 NKTHPLLLIERKGSFLKPFLYEYLTSIVCTK--ANGFCKTCES------CLKILNGKYNDFYLIFD--------QKNPIK   69 (262)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHHHCCC--CCCCCCCCHH------HHHHHCCCCCCEEEEEC--------CCCCCC
T ss_conf             8985056644877646999999999862289--9999988862------78675589997799716--------645577


Q ss_pred             HHHHHHHHHHCCCCCCC-CCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHCEEEEEECCCCC
Q ss_conf             78875544310222111-12103532205542400014567776630343416765044335730252036988647999
Q gi|254780217|r  112 VDEIRRIRYFLSLTANT-GYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKFNSLS  190 (347)
Q Consensus       112 vd~IR~l~~~~~~~~~~-~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI~SRc~~i~f~~l~  190 (347)
                      +||||++++.+++++.+ |++||+||++||+||.+|||||||+|||||++|+|||+|+++++|||||+|||+.+.+.+..
T Consensus        70 ieqir~li~~l~~~s~e~~g~KV~II~~Ae~Mt~~AANALLKtLEEPp~nt~fIL~t~~~~~LLPTIrSRC~~~~~~~~~  149 (262)
T PRK05818         70 KEDALSIINKLNRPSVESNGKKIYIIYGIEKLNKQSANSLLKLIEEPPKNTYGIFTTRNENNILNTILSRCVQYVVLSKE  149 (262)
T ss_pred             HHHHHHHHHHHHHCCCCCCCCEEEEECCHHHHCHHHHHHHHHHHCCCCCCEEEEEEECCHHHCCCHHHHHCCCCCCCCHH
T ss_conf             98999999998211400288489998777874999999999861289878389997388143730888770144666434


Q ss_pred             HHHHHHHHHH----HCCCCCHHHH-HHHHHHCCCCHHHHHHHHCC
Q ss_conf             8999999997----2788896789-99999759897899988145
Q gi|254780217|r  191 ENNLYKALEQ----LKIMGWDSKR-DFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       191 ~~~~~~~L~~----~~~~~~~~~~-~~~~~~s~Gs~~~A~~ll~~  230 (347)
                      .....+...+    ..+....... +.+...+.||+++++.++++
T Consensus       150 ~~~~~~~~~~~~~~~~i~~~~~s~de~~~~~~~gs~~~~l~il~~  194 (262)
T PRK05818        150 KKVPFKVESNDRYFQYILLSFYSVDEQLQAYNNGSFSKLKNIIET  194 (262)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             667888874088898764101107999988616768889999999


No 42 
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=100.00  E-value=3.1e-34  Score=295.28  Aligned_cols=201  Identities=36%  Similarity=0.488  Sum_probs=174.9

Q ss_pred             HHHCCHHHHHHHHHHHHH-CCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCC
Q ss_conf             561092999999999998-2889816631179898889999999999817799886431210126788679999678987
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYYC-SGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALH   90 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~~-~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hp   90 (347)
                      ++++|++.+...+..... .+++||||||+||+|+||+++|.++|+.++|.......+|..|      ..|+.+..|+||
T Consensus         1 ~~~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~------~~~~~~~~~~~~   74 (325)
T COG0470           1 DELVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHC------RSCKLIPAGNHP   74 (325)
T ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCHH------HHHHHHCCCCCC
T ss_conf             96433235899999999865888761003799999789999999999658664334552002------244432025688


Q ss_pred             CEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCC
Q ss_conf             54530010001013421232378875544310222111121035322055424000145677766303434167650443
Q gi|254780217|r   91 DFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHAS  170 (347)
Q Consensus        91 d~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~~  170 (347)
                      |++++.++-..+     ..|.+|+||++..+.+.++..|++||+|||+||.||.+|||||||++||||.+|+|||+|+++
T Consensus        75 d~lel~~s~~~~-----~~i~~~~vr~~~~~~~~~~~~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~~  149 (325)
T COG0470          75 DFLELNPSDLRK-----IDIIVEQVRELAEFLSESPLEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITNDP  149 (325)
T ss_pred             CEEEECCCCCCC-----CCCHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEEEEECCH
T ss_conf             659977321333-----300699999999860446566772699973203269888876754332488871699974985


Q ss_pred             CCCCHHHHCEEEEEECCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf             357302520369886479998999999997278889678999999759897899988145
Q gi|254780217|r  171 PTILSTIRSRCLSIKFNSLSENNLYKALEQLKIMGWDSKRDFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       171 ~~il~TI~SRc~~i~f~~l~~~~~~~~L~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~  230 (347)
                      ++|+|||+|||+.++|+|++......+++       ++....+...+.|..+.+++.++.
T Consensus       150 ~~il~tI~SRc~~i~f~~~~~~~~i~~~e-------~~~l~~i~~~~~gd~r~~i~~lq~  202 (325)
T COG0470         150 SKILPTIRSRCQRIRFKPPSRLEAIAWLE-------DQGLEEIAAVAEGDARKAINPLQA  202 (325)
T ss_pred             HHCHHHHHHHEEEEECCCCCHHHHHHHHH-------HHHHHHHHHHHCCHHHHHCCHHHH
T ss_conf             55647877560788767741889999850-------757999998704068873489999


No 43 
>KOG0989 consensus
Probab=100.00  E-value=4.5e-34  Score=293.98  Aligned_cols=196  Identities=23%  Similarity=0.368  Sum_probs=162.2

Q ss_pred             CCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHH
Q ss_conf             65555875656109299999999999828898166311798988899999999998177998864312101267886799
Q gi|254780217|r    3 DRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVK   82 (347)
Q Consensus         3 ~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~   82 (347)
                      -.||||++|++++||+.+++.|++++..+.+|| ||||||||+|||++|++||+.|+|.+-   .||+.|..+.++..  
T Consensus        27 teKYrPkt~de~~gQe~vV~~L~~a~~~~~lp~-~LFyGPpGTGKTStalafar~L~~~~~---~~~rvl~lnaSder--  100 (346)
T KOG0989          27 TEKYRPKTFDELAGQEHVVQVLKNALLRRILPH-YLFYGPPGTGKTSTALAFARALNCEQL---FPCRVLELNASDER--  100 (346)
T ss_pred             HHHHCCCCHHHHCCHHHHHHHHHHHHHHCCCCE-EEEECCCCCCHHHHHHHHHHHHCCCCC---CCCCHHHHCCCCCC--
T ss_conf             787478737765015999999999986068860-786689998676899999998557423---55542431366001--


Q ss_pred             HHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHH-HHHHCCCC--------CCCCCCHHHHHHHHHHCCHHHHHHHHHH
Q ss_conf             99678987545300100010134212323788755-44310222--------1111210353220554240001456777
Q gi|254780217|r   83 QMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRR-IRYFLSLT--------ANTGYWRVIMIDPVDGMNRNAANALLKS  153 (347)
Q Consensus        83 ~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~-l~~~~~~~--------~~~~~~Ki~IId~ad~ln~~AaNALLK~  153 (347)
                          |                      |+  -+|+ +.+|..++        .....+||+|+|+||.|+.+||+||+|+
T Consensus       101 ----G----------------------is--vvr~Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~  152 (346)
T KOG0989         101 ----G----------------------IS--VVREKIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRT  152 (346)
T ss_pred             ----C----------------------CC--CHHHHHCCHHHHHHCCCCCCCCCCCCCEEEEEECHHHHHHHHHHHHHHH
T ss_conf             ----4----------------------31--0066523799875025565678898632899741645309999999999


Q ss_pred             HHHCCCCCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHC
Q ss_conf             663034341676504433573025203698864799989999999----9727888967899999975989789998814
Q gi|254780217|r  154 LEEPPQKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKILH  229 (347)
Q Consensus       154 LEEPp~~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~  229 (347)
                      +|.++..|+|||||++.++|+.+|.||||+|+|+++..+++.+.|    ++++.++++++.+.++..|+|+.|+|+.+++
T Consensus       153 mE~~s~~trFiLIcnylsrii~pi~SRC~KfrFk~L~d~~iv~rL~~Ia~~E~v~~d~~al~~I~~~S~GdLR~Ait~Lq  232 (346)
T KOG0989         153 MEDFSRTTRFILICNYLSRIIRPLVSRCQKFRFKKLKDEDIVDRLEKIASKEGVDIDDDALKLIAKISDGDLRRAITTLQ  232 (346)
T ss_pred             HHCCCCCEEEEEECCCHHHCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             86254665999973885647728774677712887644789999999988858997878999999973872899999999


Q ss_pred             CCH
Q ss_conf             577
Q gi|254780217|r  230 YDC  232 (347)
Q Consensus       230 ~~~  232 (347)
                      +-.
T Consensus       233 sls  235 (346)
T KOG0989         233 SLS  235 (346)
T ss_pred             HHH
T ss_conf             861


No 44 
>PRK13342 recombination factor protein RarA; Reviewed
Probab=99.97  E-value=1.1e-28  Score=250.63  Aligned_cols=185  Identities=23%  Similarity=0.322  Sum_probs=155.6

Q ss_pred             CCCCCCCCCHHHHCCHHHHHH---HHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCC
Q ss_conf             665555875656109299999---99999982889816631179898889999999999817799886431210126788
Q gi|254780217|r    2 IDRAFDPVYNQRLFGHEDIEK---FLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCS   78 (347)
Q Consensus         2 ~~~~~~p~~~~~i~G~~~~~~---~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~   78 (347)
                      ||.+|||++|++++||++++.   .|.+.++++++|| +|||||||+||||+|+.+|+.+-|                  
T Consensus         3 LAer~RP~~lde~vGQ~hllg~~~~L~~~i~~~~~~s-~Il~GPPG~GKTTlA~iiA~~~~~------------------   63 (417)
T PRK13342          3 LAERMRPKTLDEVVGQEHLLGPGKPLRRMIEAGRLSS-MILWGPPGTGKTTLARIIAGATDA------------------   63 (417)
T ss_pred             CHHHHCCCCHHHHCCCHHHHCCCHHHHHHHHCCCCCE-EEEECCCCCCHHHHHHHHHHHHCC------------------
T ss_conf             7164499988885798776089719999997699975-998896999899999999998689------------------


Q ss_pred             HHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCC
Q ss_conf             67999967898754530010001013421232378875544310222111121035322055424000145677766303
Q gi|254780217|r   79 PFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPP  158 (347)
Q Consensus        79 ~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp  158 (347)
                                  .++.++..          .-+|++||++++..... ..++..|++|||+|+||+..|++||+.+|+  
T Consensus        64 ------------~f~~lnA~----------~~gv~dir~ii~~a~~~-~~~~~tilfiDEIHRfnK~QQD~LLp~vE~--  118 (417)
T PRK13342         64 ------------EFEALSAV----------TSGVKDLREVIEEAKQS-RLGRRTILFIDEIHRFNKAQQDALLPHVED--  118 (417)
T ss_pred             ------------CEEEEECC----------CCCHHHHHHHHHHHHHH-HCCCCEEEEEECHHHCCHHHHHHHHHHHHC--
T ss_conf             ------------88996141----------03889999999998863-148965999978200588999999875112--


Q ss_pred             CCCCEEEE-ECCCC-CCCHHHHCEEEEEECCCCCHHHHHHHHHHH---------CCCCCHHHHHHHHHHCCCCHHHHHHH
Q ss_conf             43416765-04433-573025203698864799989999999972---------78889678999999759897899988
Q gi|254780217|r  159 QKVLFILI-SHASP-TILSTIRSRCLSIKFNSLSENNLYKALEQL---------KIMGWDSKRDFVKIAAYGSVARAIKI  227 (347)
Q Consensus       159 ~~t~fiLi-t~~~~-~il~TI~SRc~~i~f~~l~~~~~~~~L~~~---------~~~~~~~~~~~~~~~s~Gs~~~A~~l  227 (347)
                      ...+||.. |.||. .|.++|+|||+.|.|+||+.+++.++|...         ...++++++++++..|+|+.|.|+++
T Consensus       119 g~iiLIgATTENP~f~in~aLlSRc~vf~l~~L~~~di~~iL~ral~~e~~~~~~i~i~~~al~~i~~~s~GDaR~aLN~  198 (417)
T PRK13342        119 GTITLIGATTENPSFEVNPALLSRAQVFELKPLSEEDLEQLLKRALEDERGLGRKLELDDEALDALARLADGDARRALNL  198 (417)
T ss_pred             CCEEEEEECCCCCHHHCCHHHHHHHHHEECCCCCHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHCCCCHHHHHHH
T ss_conf             65699974157922534898985657002058999999999999998774337887769999999998149859999999


Q ss_pred             HCC
Q ss_conf             145
Q gi|254780217|r  228 LHY  230 (347)
Q Consensus       228 l~~  230 (347)
                      ++.
T Consensus       199 LE~  201 (417)
T PRK13342        199 LEL  201 (417)
T ss_pred             HHH
T ss_conf             999


No 45 
>PRK06581 DNA polymerase III subunit delta'; Validated
Probab=99.96  E-value=3.9e-29  Score=254.21  Aligned_cols=151  Identities=25%  Similarity=0.315  Sum_probs=121.4

Q ss_pred             HHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCH
Q ss_conf             99999999828898166311798988899999999998177998864312101267886799996789875453001000
Q gi|254780217|r   21 EKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLN  100 (347)
Q Consensus        21 ~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~  100 (347)
                      ++.|.+.++.+++.|||||.|..----..-|..|+..++++.+.+                    -..+||+..+.+.- 
T Consensus         2 ie~L~n~lknnKlsns~l~~~~N~~~~l~~~~~fi~~~~~~~~~~--------------------le~~pd~~~i~~~~-   60 (263)
T PRK06581          2 IERLEFNLKHNKLYNSWLIEAENIEQALKDLEKFIYIKLFKNSIP--------------------LENNPDYHFIARET-   60 (263)
T ss_pred             HHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCCC--------------------CCCCCCHHHHHHHC-
T ss_conf             578988874132446664307886799999999999998626865--------------------23583288874203-


Q ss_pred             HHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHCE
Q ss_conf             10134212323788755443102221111210353220554240001456777663034341676504433573025203
Q gi|254780217|r  101 PKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSR  180 (347)
Q Consensus       101 ~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI~SR  180 (347)
                       .++...++|+|||||++..|+++||..|++||+|||+||.||.+|||||||+|||||++|+|||+|++++.||||||||
T Consensus        61 -~~~sn~KnI~IdQIR~L~~fl~~ts~~s~~KV~IId~Ae~mn~~AaNALLK~LEEPP~nt~iiLiT~~~~~LLpTIrSR  139 (263)
T PRK06581         61 -SATSNAKNISIEQIRKLQDFLNKTSAISGYKVAIIYSADLMNLNAANSCLKILEDAPKNSYIFLITSRAASIISTIRSR  139 (263)
T ss_pred             -CCCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEEECHHHHCHHHHHHHHHHHCCCCCCCEEEEEECCHHHCCCHHHHC
T ss_conf             -4566567357999999999963475468945999947677498989989987418987828999869824461465434


Q ss_pred             EEEEECCCCCHHH
Q ss_conf             6988647999899
Q gi|254780217|r  181 CLSIKFNSLSENN  193 (347)
Q Consensus       181 c~~i~f~~l~~~~  193 (347)
                      ||.+.|+..-..+
T Consensus       140 Cq~inf~s~~~~~  152 (263)
T PRK06581        140 CFKINCRSSALHA  152 (263)
T ss_pred             CEEEECCCCHHHH
T ss_conf             5787358810444


No 46 
>PRK04195 replication factor C large subunit; Provisional
Probab=99.95  E-value=7e-26  Score=228.05  Aligned_cols=186  Identities=25%  Similarity=0.345  Sum_probs=151.6

Q ss_pred             CCCCCCCCHHHHCCHHHHHHHHHHHHH---CCCCCE-EEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCC
Q ss_conf             655558756561092999999999998---288981-6631179898889999999999817799886431210126788
Q gi|254780217|r    3 DRAFDPVYNQRLFGHEDIEKFLSQYYC---SGRMHH-ALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCS   78 (347)
Q Consensus         3 ~~~~~p~~~~~i~G~~~~~~~L~~~~~---~~~l~h-a~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~   78 (347)
                      .+||||++|++|+||+.+++.|.+.++   .|+.+| ++||+||||+||||+|..+|+.+-.                  
T Consensus         5 veKYRPk~~~divg~~~~v~~l~~Wl~~w~~g~~~~k~lLL~GPpGvGKTT~a~~lAk~~g~------------------   66 (403)
T PRK04195          5 VEKYRPKSLSDVVGNEKAKKQLREWIESWLKGKPPKKALLLYGPPGVGKTSLAHALANDYGW------------------   66 (403)
T ss_pred             CCCCCCCCHHHHHCCHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHCC------------------
T ss_conf             40218998999858899999999999998739965746998893998799999999998499------------------


Q ss_pred             HHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCC-CCCC-CCCHHHHHHHHHHCCHH----HHHHHHH
Q ss_conf             6799996789875453001000101342123237887554431022-2111-12103532205542400----0145677
Q gi|254780217|r   79 PFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSL-TANT-GYWRVIMIDPVDGMNRN----AANALLK  152 (347)
Q Consensus        79 ~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~-~~~~-~~~Ki~IId~ad~ln~~----AaNALLK  152 (347)
                                  ++++++.+ |..        +++.||+++..... .+.. .++|++|+||||.|+..    +..+|++
T Consensus        67 ------------~viElNAS-D~R--------~~~~I~~~i~~~~~~~sl~~~~~KlIIlDEvD~l~~~~d~gg~~al~~  125 (403)
T PRK04195         67 ------------EVIELNAS-DQR--------TKDVIERVAGEASTSGSLFGAKRKLILLDEVDGIHGNADRGGVRAILE  125 (403)
T ss_pred             ------------CEEEECCC-CCC--------CHHHHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCCHHHHHHHHHHHH
T ss_conf             ------------85997710-114--------789999999987606887788734999634344572444799999999


Q ss_pred             HHHHCCCCCCEEEEECCCC-CCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHH
Q ss_conf             7663034341676504433-573025203698864799989999999----97278889678999999759897899988
Q gi|254780217|r  153 SLEEPPQKVLFILISHASP-TILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKI  227 (347)
Q Consensus       153 ~LEEPp~~t~fiLit~~~~-~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~l  227 (347)
                      ++|++  ...|||+|+++. ..+.+|+|||+.++|++++.+++.+.|    .+++.++++++++.++..|+|++|.|++.
T Consensus       126 ~ik~s--~~PiIli~Nd~~~~~~~~lrs~c~~i~F~~~~~~~I~~~L~~I~~~Egi~i~~~aL~~Ia~~s~GDlR~aIN~  203 (403)
T PRK04195        126 IIKKA--KNPIILTANDPYDPSLRPLRNACLMIEFKRLSKRSIVPVLKRICRKEGIECEEEALREIAERSGGDLRSAIND  203 (403)
T ss_pred             HHHCC--CCEEEEEECCCCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCHHHHHHHH
T ss_conf             98548--8708998268455671779976612217994999999999999997699999999999999879739999999


Q ss_pred             HC
Q ss_conf             14
Q gi|254780217|r  228 LH  229 (347)
Q Consensus       228 l~  229 (347)
                      ++
T Consensus       204 LQ  205 (403)
T PRK04195        204 LQ  205 (403)
T ss_pred             HH
T ss_conf             99


No 47 
>KOG0991 consensus
Probab=99.94  E-value=1.4e-25  Score=225.67  Aligned_cols=239  Identities=23%  Similarity=0.335  Sum_probs=184.5

Q ss_pred             CCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHH
Q ss_conf             65555875656109299999999999828898166311798988899999999998177998864312101267886799
Q gi|254780217|r    3 DRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVK   82 (347)
Q Consensus         3 ~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~   82 (347)
                      -.||||+.+.+|+|.++.++.|.-..+.|++|| ++|+||||+||+|.++.+|+.||-..-..                 
T Consensus        18 VeKYrP~~l~dIVGNe~tv~rl~via~~gnmP~-liisGpPG~GKTTsi~~LAr~LLG~~~ke-----------------   79 (333)
T KOG0991          18 VEKYRPSVLQDIVGNEDTVERLSVIAKEGNMPN-LIISGPPGTGKTTSILCLARELLGDSYKE-----------------   79 (333)
T ss_pred             HHHHCCHHHHHHHCCHHHHHHHHHHHHCCCCCC-EEEECCCCCCHHHHHHHHHHHHHCHHHHH-----------------
T ss_conf             886085299882177989999999997289986-67527999861648999999983806665-----------------


Q ss_pred             HHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHH-HHHHCCCCCCC--CCCHHHHHHHHHHCCHHHHHHHHHHHHHCCC
Q ss_conf             99678987545300100010134212323788755-44310222111--1210353220554240001456777663034
Q gi|254780217|r   83 QMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRR-IRYFLSLTANT--GYWRVIMIDPVDGMNRNAANALLKSLEEPPQ  159 (347)
Q Consensus        83 ~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~-l~~~~~~~~~~--~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~  159 (347)
                              .+++++. .|+.        +||-||. +..|...+-..  |..||+|+|+||.||..||.||.+|+|=..+
T Consensus        80 --------~vLELNA-SdeR--------GIDvVRn~IK~FAQ~kv~lp~grhKIiILDEADSMT~gAQQAlRRtMEiyS~  142 (333)
T KOG0991          80 --------AVLELNA-SDER--------GIDVVRNKIKMFAQKKVTLPPGRHKIIILDEADSMTAGAQQALRRTMEIYSN  142 (333)
T ss_pred             --------HHHHCCC-CCCC--------CCHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHCC
T ss_conf             --------7632057-6554--------6089999999998720348998524899615220206899999999999706


Q ss_pred             CCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCHHHH
Q ss_conf             341676504433573025203698864799989999999----9727888967899999975989789998814577999
Q gi|254780217|r  160 KVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKILHYDCDKI  235 (347)
Q Consensus       160 ~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~~~~~  235 (347)
                      .|.|.|.|+...+|..+|.|||-.++|.+++.+++.+.|    +.++..+.++.++.+...++|++|+|++-+++.....
T Consensus       143 ttRFalaCN~s~KIiEPIQSRCAiLRysklsd~qiL~Rl~~v~k~Ekv~yt~dgLeaiifta~GDMRQalNnLQst~~g~  222 (333)
T KOG0991         143 TTRFALACNQSEKIIEPIQSRCAILRYSKLSDQQILKRLLEVAKAEKVNYTDDGLEAIIFTAQGDMRQALNNLQSTVNGF  222 (333)
T ss_pred             CCHHHHHHCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCC
T ss_conf             32000001542132226773457653222678999999999998707887711477855441661999999999874054


Q ss_pred             H-HHHHHHHCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHH
Q ss_conf             9-99999840323432289999999998316769999999999
Q gi|254780217|r  236 I-SSYIDLIHIPRQEYALQKMQQIADELLSQDQKIAFDFLIEF  277 (347)
Q Consensus       236 ~-~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  277 (347)
                      - -...+.+... ..+....+.+........+-...++.+-++
T Consensus       223 g~Vn~enVfKv~-d~PhP~~v~~ml~~~~~~~~~~A~~il~~l  264 (333)
T KOG0991         223 GLVNQENVFKVC-DEPHPLLVKKMLQACLKRNIDEALKILAEL  264 (333)
T ss_pred             CCCCHHHHHHCC-CCCCHHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_conf             524632310006-999859999999999861299999999999


No 48 
>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=99.94  E-value=2.9e-26  Score=231.10  Aligned_cols=183  Identities=19%  Similarity=0.260  Sum_probs=143.0

Q ss_pred             CCCCCCCCCHHHHCCHHHHHHHHHHHHHC-----CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCC
Q ss_conf             66555587565610929999999999982-----8898166311798988899999999998177998864312101267
Q gi|254780217|r    2 IDRAFDPVYNQRLFGHEDIEKFLSQYYCS-----GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP   76 (347)
Q Consensus         2 ~~~~~~p~~~~~i~G~~~~~~~L~~~~~~-----~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~   76 (347)
                      +|+++||++|++++||+++...|..++++     +.++| .|||||||+||||+|+.+|+.+.|.-....          
T Consensus        14 ~~~~lRP~~l~e~vGQehl~~~l~~~i~a~~~~~~~l~h-~lf~GPPG~GKTTlAriiAk~~~~~~~~~s----------   82 (234)
T pfam05496        14 VERSLRPRRLDEYIGQEKVKENLKIFIEAAKKRGEALDH-VLLYGPPGLGKTTLANIIANEMGVNIRITS----------   82 (234)
T ss_pred             HHHCCCCCCHHHCCCHHHHHHHHHHHHHHHHHCCCCCCE-EEEECCCCCCHHHHHHHHHHHHCCCEEEEC----------
T ss_conf             785549897666069499999999999988742777662-788789999888999999984087537614----------


Q ss_pred             CCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf             88679999678987545300100010134212323788755443102221111210353220554240001456777663
Q gi|254780217|r   77 CSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEE  156 (347)
Q Consensus        77 ~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEE  156 (347)
                                +  |   .+     +         .+.+++.+...      .+.+.|++||++|++|+..|++||+.+|+
T Consensus        83 ----------~--~---~i-----~---------~~~di~~~l~~------~~~~~ILFIDEIHr~nK~qqd~Llp~vE~  127 (234)
T pfam05496        83 ----------G--P---AL-----E---------KPGDLAAILTN------LEPGDVLFIDEIHRLNRAVEEILYPAMED  127 (234)
T ss_pred             ----------C--H---HH-----H---------HHHHHHHHHHH------CCCCCEEEEECHHHCCHHHHHHCCCCCCC
T ss_conf             ----------2--6---66-----4---------38999999984------58998899966543587688744553346


Q ss_pred             ----------CCCCC--------CEEEEECCCCCCCHHHHCEEE-EEECCCCCHHHHHHHHHH----HCCCCCHHHHHHH
Q ss_conf             ----------03434--------167650443357302520369-886479998999999997----2788896789999
Q gi|254780217|r  157 ----------PPQKV--------LFILISHASPTILSTIRSRCL-SIKFNSLSENNLYKALEQ----LKIMGWDSKRDFV  213 (347)
Q Consensus       157 ----------Pp~~t--------~fiLit~~~~~il~TI~SRc~-~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~  213 (347)
                                |+..+        .+|..|+.+.++.+|++|||. .++|.+++.+++.+++..    .+..++++++..+
T Consensus       128 g~i~i~ig~~~~A~~~~~e~P~FtLIgATTe~~~l~~pl~sR~~i~~~l~~l~~edl~~il~r~~~~l~i~i~~eal~~I  207 (234)
T pfam05496       128 FRLDIVIGKGPSARSIRLDLPPFTLVGATTRAGLLTSPLRDRFGIVLRLEFYSVEELEEIVKRSARILGVEIDEEGAAEI  207 (234)
T ss_pred             CEEEEEECCCCCCEEEECCCCCEEEEEECCCCCCCCHHHHHHHHHEEECCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHH
T ss_conf             16999963676632465268975998521566647777997621124424689999999999999983999599999999


Q ss_pred             HHHCCCCHHHHHHHHCC
Q ss_conf             99759897899988145
Q gi|254780217|r  214 KIAAYGSVARAIKILHY  230 (347)
Q Consensus       214 ~~~s~Gs~~~A~~ll~~  230 (347)
                      +..|.|++|.|+++++.
T Consensus       208 A~~s~Gd~R~ALnlLe~  224 (234)
T pfam05496       208 ARRSRGTPRIANRLLRR  224 (234)
T ss_pred             HHHCCCCHHHHHHHHHH
T ss_conf             99779989999899999


No 49 
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=99.93  E-value=3.1e-24  Score=214.77  Aligned_cols=183  Identities=23%  Similarity=0.324  Sum_probs=155.6

Q ss_pred             CCCCCCCCCHHHHCCHHHHHH---HHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCC
Q ss_conf             665555875656109299999---99999982889816631179898889999999999817799886431210126788
Q gi|254780217|r    2 IDRAFDPVYNQRLFGHEDIEK---FLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCS   78 (347)
Q Consensus         2 ~~~~~~p~~~~~i~G~~~~~~---~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~   78 (347)
                      ||.++||+++++++||++.+.   .|.+.+.++++|+ .+||||||+||||+|+.+|+..-+                  
T Consensus        14 LA~rmRP~~lde~vGQ~HLlg~~~~lrr~v~~~~l~S-mIl~GPPG~GKTTlA~liA~~~~~------------------   74 (436)
T COG2256          14 LAERLRPKSLDEVVGQEHLLGEGKPLRRAVEAGHLHS-MILWGPPGTGKTTLARLIAGTTNA------------------   74 (436)
T ss_pred             HHHHHCCCCHHHHCCHHHHHCCCCHHHHHHHCCCCCE-EEEECCCCCCHHHHHHHHHHHHCC------------------
T ss_conf             6777097778785571866189943899996499860-577789998888999999876177------------------


Q ss_pred             HHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCC
Q ss_conf             67999967898754530010001013421232378875544310222111121035322055424000145677766303
Q gi|254780217|r   79 PFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPP  158 (347)
Q Consensus        79 ~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp  158 (347)
                                  ++..++..          .-+|.|+|++.+........|..-|.+||++|++|+..|.+||-.+|.  
T Consensus        75 ------------~f~~~sAv----------~~gvkdlr~i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~lLp~vE~--  130 (436)
T COG2256          75 ------------AFEALSAV----------TSGVKDLREIIEEARKNRLLGRRTILFLDEIHRFNKAQQDALLPHVEN--  130 (436)
T ss_pred             ------------CEEEECCC----------CCCHHHHHHHHHHHHHHHHCCCCEEEEEEHHHHCCHHHHHHHHHHHCC--
T ss_conf             ------------66995152----------346799999999999987258834998722533374456551033248--


Q ss_pred             CCCCEEEE---ECCCC-CCCHHHHCEEEEEECCCCCHHHHHHHHHHH------C-----CCCCHHHHHHHHHHCCCCHHH
Q ss_conf             43416765---04433-573025203698864799989999999972------7-----888967899999975989789
Q gi|254780217|r  159 QKVLFILI---SHASP-TILSTIRSRCLSIKFNSLSENNLYKALEQL------K-----IMGWDSKRDFVKIAAYGSVAR  223 (347)
Q Consensus       159 ~~t~fiLi---t~~~~-~il~TI~SRc~~i~f~~l~~~~~~~~L~~~------~-----~~~~~~~~~~~~~~s~Gs~~~  223 (347)
                        ..+|||   |.||+ .|-|.|+|||+.|.|.|++.+++.+.|+..      +     ..+++++.+.++..++|+.|.
T Consensus       131 --G~iilIGATTENPsF~ln~ALlSR~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~  208 (436)
T COG2256         131 --GTIILIGATTENPSFELNPALLSRARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARR  208 (436)
T ss_pred             --CEEEEEECCCCCCCEEECHHHHHHHHEEEEECCCHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHCCCHHHH
T ss_conf             --868999626789871403888611041565169989999999999865413777655668889999999862861999


Q ss_pred             HHHHHC
Q ss_conf             998814
Q gi|254780217|r  224 AIKILH  229 (347)
Q Consensus       224 A~~ll~  229 (347)
                      |+++++
T Consensus       209 aLN~LE  214 (436)
T COG2256         209 ALNLLE  214 (436)
T ss_pred             HHHHHH
T ss_conf             988999


No 50 
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=99.93  E-value=1.8e-24  Score=216.77  Aligned_cols=183  Identities=21%  Similarity=0.275  Sum_probs=152.6

Q ss_pred             CCCCCCCCCHHHHCCHHHHHH---HHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCC
Q ss_conf             665555875656109299999---99999982889816631179898889999999999817799886431210126788
Q gi|254780217|r    2 IDRAFDPVYNQRLFGHEDIEK---FLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCS   78 (347)
Q Consensus         2 ~~~~~~p~~~~~i~G~~~~~~---~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~   78 (347)
                      ||.++||++++++|||++++.   .|.+.+.++++|. ++||||||+||||+|+.+|+..-+                  
T Consensus        18 LA~rmRP~~Lde~vGQ~hllg~g~~Lrr~i~~~~~~S-~Il~GPPGtGKTTLA~iIA~~t~~------------------   78 (726)
T PRK13341         18 LADRLRPRTLEEFVGQDHILGEGRLLRRAIKADRVGS-LILYGPPGVGKTTLARIIANHTRA------------------   78 (726)
T ss_pred             CHHHHCCCCHHHHCCCHHHCCCCCHHHHHHHCCCCCE-EEEECCCCCCHHHHHHHHHHHHCC------------------
T ss_conf             5686299987773595754289828999997699982-788897999999999999887488------------------


Q ss_pred             HHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCC-CCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHC
Q ss_conf             67999967898754530010001013421232378875544310222-11112103532205542400014567776630
Q gi|254780217|r   79 PFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLT-ANTGYWRVIMIDPVDGMNRNAANALLKSLEEP  157 (347)
Q Consensus        79 ~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~-~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEP  157 (347)
                                  .+..++.          ..-+|.|||++++..... ...|+.-|.+||++|++|+..|.+||-.+|. 
T Consensus        79 ------------~F~~lsA----------v~sgvkdlr~ii~~A~~~~~~~g~~tILFIDEIHRfNK~QQD~LLp~vE~-  135 (726)
T PRK13341         79 ------------HFSSLNA----------VLAGVKDLRAEVDAAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVEN-  135 (726)
T ss_pred             ------------CEEEEEC----------CCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECHHHCCHHHHHHHHHHHCC-
T ss_conf             ------------6799856----------20377999999999999987459965999862542588789987888606-


Q ss_pred             CCCCCEEEE---ECCCC-CCCHHHHCEEEEEECCCCCHHHHHHHHHHH-----------CCCCCHHHHHHHHHHCCCCHH
Q ss_conf             343416765---04433-573025203698864799989999999972-----------788896789999997598978
Q gi|254780217|r  158 PQKVLFILI---SHASP-TILSTIRSRCLSIKFNSLSENNLYKALEQL-----------KIMGWDSKRDFVKIAAYGSVA  222 (347)
Q Consensus       158 p~~t~fiLi---t~~~~-~il~TI~SRc~~i~f~~l~~~~~~~~L~~~-----------~~~~~~~~~~~~~~~s~Gs~~  222 (347)
                         ..++||   |.||. .|-+.++|||+.|.|+|++.+++.+++...           ...+++++.+.++..|+|+.|
T Consensus       136 ---G~i~LIGATTENP~F~vn~ALlSR~~vf~L~~L~~~dl~~il~rAl~d~~~g~~~~~i~i~~~al~~l~~~s~GDaR  212 (726)
T PRK13341        136 ---GTVTLIGATTENPYFEVNKALVSRSRLFRLKSLEDEDLHQLLKRALQDKERGYGDRNIDLEPEAEKHLVDVANGDAR  212 (726)
T ss_pred             ---CEEEEEEECCCCCCEEECHHHHHHCEEEEECCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHCCCCHH
T ss_conf             ---83899970478974364298883234667438999999999999987674325667877598999999997597399


Q ss_pred             HHHHHHC
Q ss_conf             9998814
Q gi|254780217|r  223 RAIKILH  229 (347)
Q Consensus       223 ~A~~ll~  229 (347)
                      .|++.++
T Consensus       213 ~aLN~LE  219 (726)
T PRK13341        213 SLLNALE  219 (726)
T ss_pred             HHHHHHH
T ss_conf             9999999


No 51 
>KOG0990 consensus
Probab=99.91  E-value=6.2e-23  Score=204.32  Aligned_cols=196  Identities=20%  Similarity=0.287  Sum_probs=157.9

Q ss_pred             CCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHH
Q ss_conf             66555587565610929999999999982889816631179898889999999999817799886431210126788679
Q gi|254780217|r    2 IDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFV   81 (347)
Q Consensus         2 ~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~   81 (347)
                      ...||||....+++||++++.++.+....+++|| .|||||||.||+++..+.|+.+-|-.+.+.-             .
T Consensus        31 wvekyrP~~l~dv~~~~ei~st~~~~~~~~~lPh-~L~YgPPGtGktsti~a~a~~ly~~~~~~~m-------------~   96 (360)
T KOG0990          31 WVEKYRPPFLGIVIKQEPIWSTENRYSGMPGLPH-LLFYGPPGTGKTSTILANARDFYSPHPTTSM-------------L   96 (360)
T ss_pred             CCCCCCCCHHHHHHCCCCHHHHHHHHCCCCCCCC-CCCCCCCCCCCCCCHHHHHHHHCCCCCCHHH-------------H
T ss_conf             7668898225667337721247888626888975-3434899889987366656650589982469-------------9


Q ss_pred             HHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHH-HHHHCCCC---CCC--CCCHHHHHHHHHHCCHHHHHHHHHHHH
Q ss_conf             999678987545300100010134212323788755-44310222---111--121035322055424000145677766
Q gi|254780217|r   82 KQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRR-IRYFLSLT---ANT--GYWRVIMIDPVDGMNRNAANALLKSLE  155 (347)
Q Consensus        82 ~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~-l~~~~~~~---~~~--~~~Ki~IId~ad~ln~~AaNALLK~LE  155 (347)
                      ..+.+.            ++.        ++|-+|+ +..|.+..   .+.  ..+|.+|+|+||.|+.+|||||...+|
T Consensus        97 lelnaS------------d~r--------gid~vr~qi~~fast~~~~~fst~~~fKlvILDEADaMT~~AQnALRRvie  156 (360)
T KOG0990          97 LELNAS------------DDR--------GIDPVRQQIHLFASTQQPTTYSTHAAFKLVILDEADAMTRDAQNALRRVIE  156 (360)
T ss_pred             HHHHCC------------CCC--------CCCCHHHHHHHHHHHCCCEECCCCCCEEEEEECCHHHHHHHHHHHHHHHHH
T ss_conf             986436------------766--------886147888987764164000246761588733413766989999999998


Q ss_pred             HCCCCCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHHHHHCCC
Q ss_conf             303434167650443357302520369886479998999999997----2788896789999997598978999881457
Q gi|254780217|r  156 EPPQKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAIKILHYD  231 (347)
Q Consensus       156 EPp~~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~  231 (347)
                      ....||.|+++++.+.++.|.++|||++|+|.|++..+....+++    ...+...+....+.+++.|+.+.|++.++..
T Consensus       157 k~t~n~rF~ii~n~~~ki~pa~qsRctrfrf~pl~~~~~~~r~shi~e~e~~~~~~~~~~a~~r~s~gDmr~a~n~Lqs~  236 (360)
T KOG0990         157 KYTANTRFATISNPPQKIHPAQQSRCTRFRFAPLTMAQQTERQSHIRESEQKETNPEGYSALGRLSVGDMRVALNYLQSI  236 (360)
T ss_pred             HHCCCEEEEEECCCHHHCCCHHHCCCCCCCCCCCCHHHHHHHHHHHHHCCHHHCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             71332379986167644681464104457878887544246788887153110387889999998677799999999999


No 52 
>KOG2035 consensus
Probab=99.90  E-value=2.5e-22  Score=199.44  Aligned_cols=217  Identities=21%  Similarity=0.278  Sum_probs=162.7

Q ss_pred             CCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCC-CCCCHHHCCCCCCCHHHH
Q ss_conf             5555875656109299999999999828898166311798988899999999998177998-864312101267886799
Q gi|254780217|r    4 RAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDF-SKAPVRMCNPDPCSPFVK   82 (347)
Q Consensus         4 ~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~-~~~~~~~~~~~~~~~~~~   82 (347)
                      .||||++++.+.+|++....|+.....+.+|| +|||||.|.||.|-+..+-+.+.--... -.-......    .+.-+
T Consensus         5 dkyrpksl~~l~~~~e~~~~Lksl~~~~d~PH-ll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~----tpS~k   79 (351)
T KOG2035           5 DKYRPKSLDELIYHEELANLLKSLSSTGDFPH-LLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFT----TPSKK   79 (351)
T ss_pred             HHCCCCHHHHCCCHHHHHHHHHHHCCCCCCCE-EEEECCCCCCCHHHHHHHHHHHHCCCCHHEEEEEEEEE----CCCCC
T ss_conf             65075114303318888899987414577870-78888898872111899999885787245056667886----48886


Q ss_pred             HHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCC-C----CCCCCHHHHHHHHHHCCHHHHHHHHHHHHHC
Q ss_conf             9967898754530010001013421232378875544310222-1----1112103532205542400014567776630
Q gi|254780217|r   83 QMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLT-A----NTGYWRVIMIDPVDGMNRNAANALLKSLEEP  157 (347)
Q Consensus        83 ~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~-~----~~~~~Ki~IId~ad~ln~~AaNALLK~LEEP  157 (347)
                      +++-..-..-++++..+.+-+..++.  -   |.++++.+..+ +    ..-.+||++|.+||.+|.+||-||.+|+|..
T Consensus        80 klEistvsS~yHlEitPSDaG~~DRv--V---iQellKevAQt~qie~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkY  154 (351)
T KOG2035          80 KLEISTVSSNYHLEITPSDAGNYDRV--V---IQELLKEVAQTQQIETQGQRPFKVVVINEADELTRDAQHALRRTMEKY  154 (351)
T ss_pred             EEEEEEECCCCEEEECHHHCCCCCHH--H---HHHHHHHHHHHCCHHHCCCCCEEEEEEECHHHHHHHHHHHHHHHHHHH
T ss_conf             37999942565177473433751179--9---999999987414133326665489998035765088999999999998


Q ss_pred             CCCCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH----HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf             34341676504433573025203698864799989999999----97278889678999999759897899988145
Q gi|254780217|r  158 PQKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL----EQLKIMGWDSKRDFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       158 p~~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L----~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~  230 (347)
                      ..++.+||+|+..++|+++|||||..++++.++++++..++    +.++...+++.+.-++..|+|+.|+|+-+++.
T Consensus       155 s~~~RlIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp~~~l~rIa~kS~~nLRrAllmlE~  231 (351)
T KOG2035         155 SSNCRLILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLPKELLKRIAEKSNRNLRRALLMLEA  231 (351)
T ss_pred             HCCCEEEEEECCCCCCHHHHHHHEEEEECCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCCHHHHHHHHHH
T ss_conf             60716999926743022677622058767899878999999999987334484999999999706439999999999


No 53 
>PRK04132 replication factor C small subunit; Provisional
Probab=99.89  E-value=4e-21  Score=189.74  Aligned_cols=156  Identities=16%  Similarity=0.110  Sum_probs=113.8

Q ss_pred             HHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH-
Q ss_conf             3102221111210353220554240001456777663034341676504433573025203698864799989999999-
Q gi|254780217|r  120 YFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL-  198 (347)
Q Consensus       120 ~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L-  198 (347)
                      .|+...| .|+-..-||++|+.++.+++.|+-.++|--..||.|||.||+.++|+|+|.|||..|+|+||+.+++.+.| 
T Consensus       636 ef~~~~~-~~~~s~kii~~a~~~t~d~~~~~~r~~~~~~~~~~~~~SCNYsSKIIePIQSRCavFRF~PL~~e~v~~RL~  714 (863)
T PRK04132        636 EFIEKVV-DGYVSEKIIKKEYIGYKDVYDITCHNDHSFIANGFVSHNCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLR  714 (863)
T ss_pred             HHHHHCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCHHHCCEEEEEECCCCHHHHHHHHH
T ss_conf             9997534-455304435788866577999998778764205617986676040741665562478836899999999999


Q ss_pred             ---HHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHH
Q ss_conf             ---97278889678999999759897899988145779999999998403234322899999999983167699999999
Q gi|254780217|r  199 ---EQLKIMGWDSKRDFVKIAAYGSVARAIKILHYDCDKIISSYIDLIHIPRQEYALQKMQQIADELLSQDQKIAFDFLI  275 (347)
Q Consensus       199 ---~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  275 (347)
                         +.++.++.++.++.+...|+|++|+|++.++......-....+........+...++.++.+.....+.......+.
T Consensus       715 ~Ia~~Egv~itedGleAI~~~aeGDMRkAIN~LQsaa~~~~~Vt~d~Vy~v~~~p~P~~I~~~l~~al~g~f~~A~~~L~  794 (863)
T PRK04132        715 YIAENEGLELTEEGLQAILYVAEGDMRRAINVLQAAAALDTKITDENVFKVASRARPEDIREMMLLALKGNFLKAREKLR  794 (863)
T ss_pred             HHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHH
T ss_conf             99997499767789999999756748999999999986169878889999708999899999999997299899999999


Q ss_pred             H
Q ss_conf             9
Q gi|254780217|r  276 E  276 (347)
Q Consensus       276 ~  276 (347)
                      +
T Consensus       795 ~  795 (863)
T PRK04132        795 E  795 (863)
T ss_pred             H
T ss_conf             9


No 54 
>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=99.84  E-value=2e-20  Score=184.05  Aligned_cols=210  Identities=20%  Similarity=0.262  Sum_probs=152.0

Q ss_pred             CCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHH-CCCCCCCCCHHHCCCC--CCC
Q ss_conf             6655558756561092999999999998288981663117989888999999999981-7799886431210126--788
Q gi|254780217|r    2 IDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVL-QNPDFSKAPVRMCNPD--PCS   78 (347)
Q Consensus         2 ~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~ll-c~~~~~~~~~~~~~~~--~~~   78 (347)
                      |++|=||.||++|+||++=.+.|+.+++.-+--| .++|||||||||..||..-.+=- |...+-++.-.....|  .-+
T Consensus        55 L~Ek~RP~SF~EIiGQe~GI~ALKAALCGPNPQH-VIiYGPPGVGKTAAARLVLeeAKk~~~SPFke~A~FVEiDATT~R  133 (532)
T TIGR02902        55 LSEKTRPKSFDEIIGQEEGIKALKAALCGPNPQH-VIIYGPPGVGKTAAARLVLEEAKKNPASPFKEEAAFVEIDATTAR  133 (532)
T ss_pred             CCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCE-EEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCEEEEEECCCCC
T ss_conf             7746677763325673556899998606868963-898788696178999999998650875378988668985051036


Q ss_pred             HHHHHHHC---CCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHH
Q ss_conf             67999967---898754530010001013421232378875544310222111121035322055424000145677766
Q gi|254780217|r   79 PFVKQMAS---HALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLE  155 (347)
Q Consensus        79 ~~~~~i~~---~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LE  155 (347)
                      ++.|-|+.   ||-.|=+|=..-...-+|-.+.          +.-.-.+ ..|+  |.+|||+=.|+.=.=|.|||.||
T Consensus       134 FDERGIADPLIGSVHDPIYQGAGplG~AGIPQP----------K~GAVT~-AHGG--vLFIDEIGELHP~~MNKLLKVLE  200 (532)
T TIGR02902       134 FDERGIADPLIGSVHDPIYQGAGPLGVAGIPQP----------KPGAVTK-AHGG--VLFIDEIGELHPVQMNKLLKVLE  200 (532)
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC----------CCCCCCC-CCCC--EEEECCCCCCCHHHHHHHHHHHH
T ss_conf             021466665677615853337654578855758----------7776320-2586--55121246658243531411330


Q ss_pred             HCCCCCCEE-----------------------------E---EECCCCCCCHHHHCEEEEEECCCCCHHHHHHHHH----
Q ss_conf             303434167-----------------------------6---5044335730252036988647999899999999----
Q gi|254780217|r  156 EPPQKVLFI-----------------------------L---ISHASPTILSTIRSRCLSIKFNSLSENNLYKALE----  199 (347)
Q Consensus       156 EPp~~t~fi-----------------------------L---it~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L~----  199 (347)
                      +   .-+|+                             |   ||.+|+-|+|.|||||..+-|++|..+|++++-+    
T Consensus       201 D---RKVFLdSAYY~s~~pniP~hI~dIFqnGlPADFRLiGATTR~PeEIpPAlRSRC~EIFFR~L~~EEi~~iAk~Aae  277 (532)
T TIGR02902       201 D---RKVFLDSAYYSSEDPNIPSHIRDIFQNGLPADFRLIGATTRNPEEIPPALRSRCVEIFFRPLLKEEIKEIAKNAAE  277 (532)
T ss_pred             C---CCCHHHCCCCCCCCCCCCHHHHHHHCCCCCCCEECCCCCCCCCCCCCHHHHCCCEEEEECCCCHHHHHHHHHHHHH
T ss_conf             2---2200001235877786542789972067873401213336987767834650522677168887899999876565


Q ss_pred             HHCCCCCHHHHHHHHHHCCCCHHHHHHHHC
Q ss_conf             727888967899999975989789998814
Q gi|254780217|r  200 QLKIMGWDSKRDFVKIAAYGSVARAIKILH  229 (347)
Q Consensus       200 ~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~  229 (347)
                      +.+..+...+++++...|. |-|+|+|+++
T Consensus       278 KIg~~l~~~Al~~I~~Ya~-nGREAvN~~Q  306 (532)
T TIGR02902       278 KIGLNLEKEALDLIAKYAS-NGREAVNLVQ  306 (532)
T ss_pred             HCCCCCCHHHHHHHHHHHC-CCCHHHHHHH
T ss_conf             3046547547999998740-5406778999


No 55 
>KOG2028 consensus
Probab=99.82  E-value=2.7e-19  Score=175.05  Aligned_cols=187  Identities=19%  Similarity=0.264  Sum_probs=150.7

Q ss_pred             CCCCCCCCCHHHHCCHHHHHHH---HHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCC
Q ss_conf             6655558756561092999999---9999982889816631179898889999999999817799886431210126788
Q gi|254780217|r    2 IDRAFDPVYNQRLFGHEDIEKF---LSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCS   78 (347)
Q Consensus         2 ~~~~~~p~~~~~i~G~~~~~~~---L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~   78 (347)
                      |++++||+..++.|||++++.+   |.+.+++||+|. ++||||||+||+++|+.+|..-                    
T Consensus       128 LaermRPktL~dyvGQ~hlv~q~gllrs~ieq~~ipS-mIlWGppG~GKTtlArlia~ts--------------------  186 (554)
T KOG2028         128 LAERMRPKTLDDYVGQSHLVGQDGLLRSLIEQNRIPS-MILWGPPGTGKTTLARLIASTS--------------------  186 (554)
T ss_pred             HHHHCCCCHHHHHCCHHHHCCCCHHHHHHHHCCCCCC-EEEECCCCCCHHHHHHHHHHHC--------------------
T ss_conf             4554184368775053441483268999987088870-5886699876588999998605--------------------


Q ss_pred             HHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCC-CCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHC
Q ss_conf             679999678987545300100010134212323788755443102-2211112103532205542400014567776630
Q gi|254780217|r   79 PFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLS-LTANTGYWRVIMIDPVDGMNRNAANALLKSLEEP  157 (347)
Q Consensus        79 ~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~-~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEP  157 (347)
                              . .+.+.+|+.+        .++-++.++|.+.+... +....+++-|.+||++|++|++.|..||-.+|. 
T Consensus       187 --------k-~~SyrfvelS--------At~a~t~dvR~ife~aq~~~~l~krkTilFiDEiHRFNksQQD~fLP~VE~-  248 (554)
T KOG2028         187 --------K-KHSYRFVELS--------ATNAKTNDVRDIFEQAQNEKSLTKRKTILFIDEIHRFNKSQQDTFLPHVEN-  248 (554)
T ss_pred             --------C-CCCEEEEEEE--------CCCCCHHHHHHHHHHHHHHHHHHCCEEEEEEHHHHHHHHHHHHCCCCEECC-
T ss_conf             --------7-7742799974--------145661889999999887876524406987377655323211003421306-


Q ss_pred             CCCCCEEEE---ECCCC-CCCHHHHCEEEEEECCCCCHHHHHHHHHHH-------------CC----CCCHHHHHHHHHH
Q ss_conf             343416765---04433-573025203698864799989999999972-------------78----8896789999997
Q gi|254780217|r  158 PQKVLFILI---SHASP-TILSTIRSRCLSIKFNSLSENNLYKALEQL-------------KI----MGWDSKRDFVKIA  216 (347)
Q Consensus       158 p~~t~fiLi---t~~~~-~il~TI~SRc~~i~f~~l~~~~~~~~L~~~-------------~~----~~~~~~~~~~~~~  216 (347)
                         ..++||   |.||+ .+-..+.|||..|.+.+|+.+.+..+|...             .+    ...+..+++++.+
T Consensus       249 ---G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~l  325 (554)
T KOG2028         249 ---GDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYL  325 (554)
T ss_pred             ---CCEEEEECCCCCCCCCHHHHHHHCCCEEEECCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHH
T ss_conf             ---70699853668976011277873160667336888999999999987632102568899983124568899999870


Q ss_pred             CCCCHHHHHHHHCC
Q ss_conf             59897899988145
Q gi|254780217|r  217 AYGSVARAIKILHY  230 (347)
Q Consensus       217 s~Gs~~~A~~ll~~  230 (347)
                      ++|+.+.|++.++-
T Consensus       326 sdGDaR~aLN~Lem  339 (554)
T KOG2028         326 SDGDARAALNALEM  339 (554)
T ss_pred             CCCHHHHHHHHHHH
T ss_conf             47318888778999


No 56 
>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=99.74  E-value=6.8e-18  Score=163.74  Aligned_cols=204  Identities=23%  Similarity=0.289  Sum_probs=137.2

Q ss_pred             CCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHH---HHHHCCCCCCCCCHHHCCCCCCCHHH
Q ss_conf             555875656109299999999999828898166311798988899999999---99817799886431210126788679
Q gi|254780217|r    5 AFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYA---GHVLQNPDFSKAPVRMCNPDPCSPFV   81 (347)
Q Consensus         5 ~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A---~~llc~~~~~~~~~~~~~~~~~~~~~   81 (347)
                      =.||++|++||||+.+++.|..=+.|--.-| +|+|||||+||||.|+..-   +.+-..+-..+.++-+.....-.=+=
T Consensus       148 lLRP~~f~EiVGQerAI~aLlaK~aSPfPQH-iiLYGPPGVGKTTaARl~LEe~K~~~~tPF~~DA~FvEVDGtTLRWDP  226 (616)
T TIGR02903       148 LLRPRAFSEIVGQERAIKALLAKLASPFPQH-IILYGPPGVGKTTAARLALEEAKKLKNTPFAEDAPFVEVDGTTLRWDP  226 (616)
T ss_pred             HCCCCCCCCCCCHHHHHHHHHHHHCCCCCCC-EEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCEEEECCCCCCCCC
T ss_conf             6287667643334689999997631888660-785573388478999998762136874476113785751576266774


Q ss_pred             HH------------HHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHH
Q ss_conf             99------------967898754530010001013421232378875544310222111121035322055424000145
Q gi|254780217|r   82 KQ------------MASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANA  149 (347)
Q Consensus        82 ~~------------i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNA  149 (347)
                      |.            |.+|+..|+=+..-+ .+|.|                 + -|-..||  |.+||++=.|-.==||.
T Consensus       227 REvTNPLLGSVHDPIYQGa~RDLAE~GvP-EPk~G-----------------L-VT~AHGG--vLFIDEIGELD~lLQnK  285 (616)
T TIGR02903       227 REVTNPLLGSVHDPIYQGARRDLAETGVP-EPKLG-----------------L-VTDAHGG--VLFIDEIGELDPLLQNK  285 (616)
T ss_pred             CCCCCCCCCCCCCCCCCCCCHHHCCCCCC-CCCCC-----------------C-CCCCCCC--EEEEECHHHHHHHHHHH
T ss_conf             10147767762576556764011047879-89898-----------------7-1004775--67650211222787632


Q ss_pred             HHHHHHH--------------------------CCCCCCEEEE---ECCCCCCCHHHHCEEEEEECCCCCHHHHHHHHHH
Q ss_conf             6777663--------------------------0343416765---0443357302520369886479998999999997
Q gi|254780217|r  150 LLKSLEE--------------------------PPQKVLFILI---SHASPTILSTIRSRCLSIKFNSLSENNLYKALEQ  200 (347)
Q Consensus       150 LLK~LEE--------------------------Pp~~t~fiLi---t~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L~~  200 (347)
                      |||.||+                          -..=.=||||   |.+|+.|=|.+||||-.+.|.||+++++.+++.+
T Consensus       286 LLKVLEDKrV~F~SsYYDpdD~NvPkYIK~lFe~GAPADFvLIGATTr~P~eINpALRSRCaEvfFePL~p~dI~~Iv~~  365 (616)
T TIGR02903       286 LLKVLEDKRVEFSSSYYDPDDENVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIKEIVLN  365 (616)
T ss_pred             HHHHHCCCEEEEEECCCCCCCCCCCHHHHHHHCCCCCCCEEEECCCCCCHHHCCHHHHCCCCEEECCCCCHHHHHHHHHH
T ss_conf             44432264366532124875378655888852268882568726615882440512330143132179887899999999


Q ss_pred             ----HCCCCCHHHHHHHHHHCCCCHHHHHHHHCCC
Q ss_conf             ----2788896789999997598978999881457
Q gi|254780217|r  201 ----LKIMGWDSKRDFVKIAAYGSVARAIKILHYD  231 (347)
Q Consensus       201 ----~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~  231 (347)
                          .+....+...+.++..+= .-|+|++++...
T Consensus       366 AA~klnv~L~~gV~e~Ia~YTi-eGRkAvnILAD~  399 (616)
T TIGR02903       366 AAEKLNVKLAEGVEELIARYTI-EGRKAVNILADV  399 (616)
T ss_pred             HHHHCCCCCCCCHHHHHHHCCC-CCHHHHHHHHHH
T ss_conf             8886177000364878721471-311222346546


No 57 
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=99.62  E-value=1.2e-14  Score=137.70  Aligned_cols=181  Identities=19%  Similarity=0.277  Sum_probs=128.9

Q ss_pred             CCCCCCCCHHHHCCHHHHHHHHHHHHHCCC-----CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCC
Q ss_conf             655558756561092999999999998288-----981663117989888999999999981779988643121012678
Q gi|254780217|r    3 DRAFDPVYNQRLFGHEDIEKFLSQYYCSGR-----MHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPC   77 (347)
Q Consensus         3 ~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~-----l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~   77 (347)
                      +...||++|++++||++++++|.-++++.+     +.| .|||||||.||||+|..+|+.+-.+-....+|.-.      
T Consensus        16 ~~~lRP~~l~efiGQ~~i~~~L~v~i~Aak~r~e~ldH-~Ll~GPPGlGKTTLA~iiA~E~~~~~~~tsGP~le------   88 (328)
T PRK00080         16 ERSLRPKSLDEFIGQEKVKENLKIFIEAAKKRGEALDH-VLLYGPPGLGKTTLANIIANEMGVNIRITSGPALE------   88 (328)
T ss_pred             CCCCCCCCHHHCCCHHHHHHHHHHHHHHHHHCCCCCCC-EEEECCCCCCHHHHHHHHHHHHCCCCEECCCCCCC------
T ss_conf             00559885766359599999999999999964999880-57658899889999999999868881562450016------


Q ss_pred             CHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHH-
Q ss_conf             8679999678987545300100010134212323788755443102221111210353220554240001456777663-
Q gi|254780217|r   78 SPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEE-  156 (347)
Q Consensus        78 ~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEE-  156 (347)
                                              |         .-|+-.+...      ....-|.+||++|+||....-.|.--||+ 
T Consensus        89 ------------------------k---------~~DL~~iLt~------l~~~dvLFIDEIHRl~~~vEE~LY~AMEDf  129 (328)
T PRK00080         89 ------------------------K---------AGDLAALLTN------LEEGDVLFIDEIHRLSPVVEEILYPAMEDF  129 (328)
T ss_pred             ------------------------C---------HHHHHHHHHH------CCCCCEEEEHHHHHCCHHHHHHHHHHHHHC
T ss_conf             ------------------------7---------4789999960------887876765065324888998857987752


Q ss_pred             ---------CCCC--------CCEEEEECCCCCCCHHHHCEE-EEEECCCCCHHHHHHHHHH----HCCCCCHHHHHHHH
Q ss_conf             ---------0343--------416765044335730252036-9886479998999999997----27888967899999
Q gi|254780217|r  157 ---------PPQK--------VLFILISHASPTILSTIRSRC-LSIKFNSLSENNLYKALEQ----LKIMGWDSKRDFVK  214 (347)
Q Consensus       157 ---------Pp~~--------t~fiLit~~~~~il~TI~SRc-~~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~  214 (347)
                               |...        -.+|-.|+....|..++|+|. ..++|..-+.+++.+++..    .+.+++++.+..++
T Consensus       130 ~iDi~iG~g~~Ar~~~i~L~pFTLIGATTr~g~Ls~PLrdRFGi~~~l~~Y~~eeL~~Ii~rsa~~l~i~i~~~~~~eIA  209 (328)
T PRK00080        130 RLDIMIGKGPAARSIRLDLPPFTLIGATTRAGLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARILGIEIDEEGALEIA  209 (328)
T ss_pred             EEEEEECCCCCCEEEECCCCCEEEEECCCCCCCCCHHHHHHCCCEEEECCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHH
T ss_conf             34578647865324555899834740136766577678975793366345899999999999999839887899999999


Q ss_pred             HHCCCCHHHHHHHHC
Q ss_conf             975989789998814
Q gi|254780217|r  215 IAAYGSVARAIKILH  229 (347)
Q Consensus       215 ~~s~Gs~~~A~~ll~  229 (347)
                      ..|.|.||-|.+++.
T Consensus       210 ~rSRGTPRiAnrLLr  224 (328)
T PRK00080        210 RRSRGTPRIANRLLR  224 (328)
T ss_pred             HHCCCCCHHHHHHHH
T ss_conf             863898399999999


No 58 
>PRK08485 DNA polymerase III subunit delta'; Validated
Probab=99.55  E-value=6.1e-15  Score=139.95  Aligned_cols=74  Identities=28%  Similarity=0.445  Sum_probs=65.0

Q ss_pred             CCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHCEEEEE
Q ss_conf             23237887554431022211112103532205542400014567776630343416765044335730252036988
Q gi|254780217|r  108 TVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSI  184 (347)
Q Consensus       108 ~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI~SRc~~i  184 (347)
                      ...+||+.|+++...+..  +.+.||+|+ .|+.||.+|||||||+|||||.+|+|||+|++++.+|||||||-...
T Consensus        34 ~Ef~ie~Akevi~eayIa--e~~~k~ii~-~A~~~n~~a~NaLLK~lEEPp~~~~fili~~~~~~lLpTI~SRl~i~  107 (204)
T PRK08485         34 DDFKIEDAKEVIAEAYIA--ESEEKIIVI-AAPSYGIEAQNALLKILEEPPKNIKFIIVAKSKNLLLPTIRSRLIIE  107 (204)
T ss_pred             CCCCHHHHHHHHHHHHHC--CCCCEEEEE-EHHHHCHHHHHHHHHHHCCCCCCCEEEEEECCHHHHHHHHHHHHHHH
T ss_conf             213457799999998660--368629997-15752699999999874179988079998688777478999889999


No 59 
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=99.51  E-value=5.3e-13  Score=124.35  Aligned_cols=182  Identities=20%  Similarity=0.301  Sum_probs=128.7

Q ss_pred             CCCCCCCCCHHHHCCHHHHHHHHHHHHHCC-----CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCC
Q ss_conf             665555875656109299999999999828-----898166311798988899999999998177998864312101267
Q gi|254780217|r    2 IDRAFDPVYNQRLFGHEDIEKFLSQYYCSG-----RMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP   76 (347)
Q Consensus         2 ~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~-----~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~   76 (347)
                      +++..||+.|++++||++++++|.-+++..     -+-| .||+||||.||+|+|..+|..+-.+-....+|.-.     
T Consensus        16 ~e~~lRP~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDH-vLl~GPPGlGKTTLA~IIA~Emgvn~k~tsGp~le-----   89 (332)
T COG2255          16 IERSLRPKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDH-VLLFGPPGLGKTTLAHIIANELGVNLKITSGPALE-----   89 (332)
T ss_pred             HHHCCCCCCHHHHCCHHHHHHHHHHHHHHHHHCCCCCCE-EEEECCCCCCHHHHHHHHHHHHCCCEEECCCCCCC-----
T ss_conf             430358654888518399999999999999844987674-78647998768889999999856773763662015-----


Q ss_pred             CCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf             88679999678987545300100010134212323788755443102221111210353220554240001456777663
Q gi|254780217|r   77 CSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEE  156 (347)
Q Consensus        77 ~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEE  156 (347)
                                               |         --|+-.+.     + .....-|.+||++|+|+...---|--.||.
T Consensus        90 -------------------------K---------~gDlaaiL-----t-~Le~~DVLFIDEIHrl~~~vEE~LYpaMED  129 (332)
T COG2255          90 -------------------------K---------PGDLAAIL-----T-NLEEGDVLFIDEIHRLSPAVEEVLYPAMED  129 (332)
T ss_pred             -------------------------C---------HHHHHHHH-----H-CCCCCCEEEEEHHHHCCHHHHHHHHHHHHH
T ss_conf             -------------------------7---------26599998-----6-398677677725531474289896467531


Q ss_pred             ----------CCCCC--------CEEEEECCCCCCCHHHHCEE-EEEECCCCCHHHHHHHHHH----HCCCCCHHHHHHH
Q ss_conf             ----------03434--------16765044335730252036-9886479998999999997----2788896789999
Q gi|254780217|r  157 ----------PPQKV--------LFILISHASPTILSTIRSRC-LSIKFNSLSENNLYKALEQ----LKIMGWDSKRDFV  213 (347)
Q Consensus       157 ----------Pp~~t--------~fiLit~~~~~il~TI~SRc-~~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~  213 (347)
                                |...+        .+|=.|+....|..++|.|. ...++.--+.+++.+++..    .+.++.++.+..+
T Consensus       130 f~lDI~IG~gp~Arsv~ldLppFTLIGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~i~i~~~~a~eI  209 (332)
T COG2255         130 FRLDIIIGKGPAARSIRLDLPPFTLIGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILGIEIDEEAALEI  209 (332)
T ss_pred             EEEEEEECCCCCCCEEECCCCCEEEEEECCCCCCCCCHHHHHCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCHHHHHHH
T ss_conf             05778972487553476379981375101346645633688628604540588899999999888873877685799999


Q ss_pred             HHHCCCCHHHHHHHHC
Q ss_conf             9975989789998814
Q gi|254780217|r  214 KIAAYGSVARAIKILH  229 (347)
Q Consensus       214 ~~~s~Gs~~~A~~ll~  229 (347)
                      +.-|.|.||-|.+++.
T Consensus       210 A~rSRGTPRIAnRLLr  225 (332)
T COG2255         210 ARRSRGTPRIANRLLR  225 (332)
T ss_pred             HHHCCCCCHHHHHHHH
T ss_conf             9863699389999999


No 60 
>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=99.50  E-value=1.3e-13  Score=129.36  Aligned_cols=175  Identities=20%  Similarity=0.298  Sum_probs=125.6

Q ss_pred             CCHHHHCCHHHHHHHHHHHHHCC-----CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHH
Q ss_conf             75656109299999999999828-----8981663117989888999999999981779988643121012678867999
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYCSG-----RMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQ   83 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~~~-----~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~   83 (347)
                      ++|+|++||++++++|.=+++.-     .+-| +||+||||.||||+|..+|..+-.+=....+|.              
T Consensus         1 ~~L~eFiGQ~~vk~~L~l~I~AAk~R~e~LDH-~LL~GPPGLGKTTLA~IiA~Emg~~l~iTsGP~--------------   65 (305)
T TIGR00635         1 KLLAEFIGQEKVKEQLQLFIEAAKMRQEALDH-LLLYGPPGLGKTTLAHIIANEMGVNLKITSGPA--------------   65 (305)
T ss_pred             CCCHHCCCCHHHHHHHHHHHHHHHHCCCCCCC-EEEECCCCCCHHHHHHHHHHHHCCCCEEEECCC--------------
T ss_conf             98011058288999999999999824897341-663175687467899999998389326740675--------------


Q ss_pred             HHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHH--------
Q ss_conf             967898754530010001013421232378875544310222111121035322055424000145677766--------
Q gi|254780217|r   84 MASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLE--------  155 (347)
Q Consensus        84 i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LE--------  155 (347)
                                 +     +   |.         .++..-+  |. ....=|.+|||+|+|+.++-=-|==-||        
T Consensus        66 -----------L-----~---kP---------gDlaaiL--t~-L~~gDVLFIDEIHRL~p~~EE~LYpAMEDF~lDi~I  114 (305)
T TIGR00635        66 -----------L-----E---KP---------GDLAAIL--TN-LEEGDVLFIDEIHRLSPAIEELLYPAMEDFRLDIVI  114 (305)
T ss_pred             -----------C-----C---CH---------HHHHHHH--HH-CCCCCEEECCHHHHCCHHHHHHCCCCCCCEEEEEEE
T ss_conf             -----------5-----4---75---------7899999--70-568963101256504833453105300121787787


Q ss_pred             --HCCCCCC------EEEE--ECCCCCCCHHHHCEE-EEEECCCCCHHHHHHHHHHH----CCCCCHHHHHHHHHHCCCC
Q ss_conf             --3034341------6765--044335730252036-98864799989999999972----7888967899999975989
Q gi|254780217|r  156 --EPPQKVL------FILI--SHASPTILSTIRSRC-LSIKFNSLSENNLYKALEQL----KIMGWDSKRDFVKIAAYGS  220 (347)
Q Consensus       156 --EPp~~t~------fiLi--t~~~~~il~TI~SRc-~~i~f~~l~~~~~~~~L~~~----~~~~~~~~~~~~~~~s~Gs  220 (347)
                        -|...|+      |-||  |+.+..|-.+++||- ...+|.--+++|+.++++..    +.++.++++..+++-|-|.
T Consensus       115 G~Gp~Ar~v~ldLpPFTLvGATTR~G~lt~PLrdRFG~~~rl~fY~~~EL~~Iv~R~A~~L~~ei~~~~a~~IArrSRGT  194 (305)
T TIGR00635       115 GKGPSARSVRLDLPPFTLVGATTRAGMLTSPLRDRFGIILRLEFYTPEELAEIVSRSAGLLNIEIEQEAALEIARRSRGT  194 (305)
T ss_pred             ECCCCCCEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCC
T ss_conf             12898525760686944200003477410313345447454026898789999875334414300778999998754786


Q ss_pred             HHHHHHHHC
Q ss_conf             789998814
Q gi|254780217|r  221 VARAIKILH  229 (347)
Q Consensus       221 ~~~A~~ll~  229 (347)
                      ||-|.+++-
T Consensus       195 PRIAnRLLR  203 (305)
T TIGR00635       195 PRIANRLLR  203 (305)
T ss_pred             HHHHHHHHH
T ss_conf             378887767


No 61 
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=99.31  E-value=8.3e-09  Score=90.57  Aligned_cols=212  Identities=18%  Similarity=0.196  Sum_probs=132.0

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHHC---CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCC-
Q ss_conf             966555587565610929999999999982---8898166311798988899999999998177998864312101267-
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCS---GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP-   76 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~~---~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~-   76 (347)
                      ++.--|-|   ++++|-++..+.+..++..   |..|...+++||||+|||.+++.+.+.+-.....-....-.|.... 
T Consensus        22 ~L~~~yvP---~~l~~Re~Ei~~l~~~l~~~l~g~~~~n~~I~G~pGTGKT~~vk~v~~~l~~~~~~~~~vyINc~~~~t   98 (394)
T PRK00411         22 VLEPDYVP---ENLPHREEQIEELAFALRPALRGSRPSNVLILGPPGTGKTTTVKKVFEELEEAALKVVYVYINCQIDRT   98 (394)
T ss_pred             HCCCCCCC---CCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEEECCCCCC
T ss_conf             37998889---989885999999999999997599998479988999989999999999999746896599996966898


Q ss_pred             CCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHH-HHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHH-
Q ss_conf             88679999678987545300100010134212323788755-4431022211112103532205542400014567776-
Q gi|254780217|r   77 CSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRR-IRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSL-  154 (347)
Q Consensus        77 ~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~-l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~L-  154 (347)
                      .......+...           ... .......++.+++-+ +.+.+.   ..++.=|+|+|++|.+-...++-+|-.| 
T Consensus        99 ~~~i~~~i~~~-----------L~~-~~~p~~G~s~~~~~~~l~~~l~---~~~~~~ivvLDEiD~L~~~~~~~vLY~L~  163 (394)
T PRK00411         99 RYAILSEIARS-----------LFG-HPPPSSGLSFDELFDKIAEYLD---ERDRVLIVALDDINYLVEKEGNDVLYSLL  163 (394)
T ss_pred             HHHHHHHHHHH-----------HCC-CCCCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEECCCCCCCCCCCHHHHHHH
T ss_conf             99999999999-----------569-9898778789999999999861---66975899996554020366508999998


Q ss_pred             ---HH-CCCCCCEEEEECCCC---CCCHHHHCEE--EEEECCCCCHHHHHHHHHHH------CCCCCHHHHHHHHHHCC-
Q ss_conf             ---63-034341676504433---5730252036--98864799989999999972------78889678999999759-
Q gi|254780217|r  155 ---EE-PPQKVLFILISHASP---TILSTIRSRC--LSIKFNSLSENNLYKALEQL------KIMGWDSKRDFVKIAAY-  218 (347)
Q Consensus       155 ---EE-Pp~~t~fiLit~~~~---~il~TI~SRc--~~i~f~~l~~~~~~~~L~~~------~~~~~~~~~~~~~~~s~-  218 (347)
                         |+ |.....+|.|+|..+   ++.|-++|||  ..+.|.|-+.+++.++|.+-      ..-.+++.+.+++..+. 
T Consensus       164 r~~~~~~~~~~~vI~IsN~~~~~~~Ldprv~S~l~~~~i~F~PY~~~qL~~IL~~R~~~af~~gv~~~~~i~~~A~~~a~  243 (394)
T PRK00411        164 RAHEEYPGARIGVIGISSDLTFLYILDPRVKSVFGPEEIVFPPYTADEIFDILKDRVEEGFYPGVVSDEVLELIADLTGR  243 (394)
T ss_pred             HCCCCCCCCCEEEEEEECCCCHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHH
T ss_conf             54022688738999997687177664077750278628985899989999999999984145567897899999999855


Q ss_pred             --CCHHHHHHHHCC
Q ss_conf             --897899988145
Q gi|254780217|r  219 --GSVARAIKILHY  230 (347)
Q Consensus       219 --Gs~~~A~~ll~~  230 (347)
                        |+.|+|+.++-.
T Consensus       244 ~~GDaR~Aldllr~  257 (394)
T PRK00411        244 EHGDARVAIDLLRR  257 (394)
T ss_pred             CCCCHHHHHHHHHH
T ss_conf             04758999999999


No 62 
>KOG1969 consensus
Probab=99.27  E-value=9.8e-10  Score=98.05  Aligned_cols=187  Identities=18%  Similarity=0.229  Sum_probs=136.1

Q ss_pred             CCCCCCCHHHHCCHHHHHHHHHHHHHC----------CCC----------------------C-EEEEECCCCCCCHHHH
Q ss_conf             555587565610929999999999982----------889----------------------8-1663117989888999
Q gi|254780217|r    4 RAFDPVYNQRLFGHEDIEKFLSQYYCS----------GRM----------------------H-HALLFEGEQGIGKATL   50 (347)
Q Consensus         4 ~~~~p~~~~~i~G~~~~~~~L~~~~~~----------~~l----------------------~-ha~Lf~Gp~GiGK~~~   50 (347)
                      .||||++|.+++|.+..-+.+...++.          .|+                      + --+|++||||+||+|+
T Consensus       263 dky~Pk~FtdLLsDe~tNR~~L~WLK~WD~~VFg~~vsrl~~s~~~~~ke~~~~~~~~s~RP~kKilLL~GppGlGKTTL  342 (877)
T KOG1969         263 DKYRPKKFTDLLSDEKTNRRMLGWLKQWDPCVFGQKVSRLLASKGPTEKEVLDMELDPSKRPPKKILLLCGPPGLGKTTL  342 (877)
T ss_pred             CCCCHHHHHHHHCCHHHHHHHHHHHHHHCHHHHCCHHHHHCCCCCCCHHHHHHCCCCCCCCCCCCEEEEECCCCCCHHHH
T ss_conf             11371678887452068799999998615786401475543354664345563246866798400687536887872479


Q ss_pred             HHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHH-HHHHCCCCCCC-
Q ss_conf             9999999817799886431210126788679999678987545300100010134212323788755-44310222111-
Q gi|254780217|r   51 GFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRR-IRYFLSLTANT-  128 (347)
Q Consensus        51 A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~-l~~~~~~~~~~-  128 (347)
                      |..+|+.           ||-                   .+.+|++ .|+.        +...+++ +-.-+...+.. 
T Consensus       343 AHViAkq-----------aGY-------------------sVvEINA-SDeR--------t~~~v~~kI~~avq~~s~l~  383 (877)
T KOG1969         343 AHVIAKQ-----------AGY-------------------SVVEINA-SDER--------TAPMVKEKIENAVQNHSVLD  383 (877)
T ss_pred             HHHHHHH-----------CCC-------------------EEEEECC-CCCC--------CHHHHHHHHHHHHHHCCCCC
T ss_conf             9999986-----------285-------------------4887325-5543--------47889999999886411225


Q ss_pred             --CCCHHHHHHHHHHCCHHHHHHHHHHHH--HC----CCC---------------CCEEEEECCCC-CCCHHHHCEEEEE
Q ss_conf             --121035322055424000145677766--30----343---------------41676504433-5730252036988
Q gi|254780217|r  129 --GYWRVIMIDPVDGMNRNAANALLKSLE--EP----PQK---------------VLFILISHASP-TILSTIRSRCLSI  184 (347)
Q Consensus       129 --~~~Ki~IId~ad~ln~~AaNALLK~LE--EP----p~~---------------t~fiLit~~~~-~il~TI~SRc~~i  184 (347)
                        +.-...|||++|---..|-+++|+.++  ++    +++               --+|-|||+.. -=|-.+|-=|+.+
T Consensus       384 adsrP~CLViDEIDGa~~~~Vdvilslv~a~~k~~~Gkq~~~~~~rkkkr~~~L~RPIICICNdLYaPaLR~Lr~~A~ii  463 (877)
T KOG1969         384 ADSRPVCLVIDEIDGAPRAAVDVILSLVKATNKQATGKQAKKDKKRKKKRSKLLTRPIICICNDLYAPALRPLRPFAEII  463 (877)
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCHHHCCCCCCHHHHHHHCCCCCCCCEEEEECCCCCHHHHHCCCCEEEE
T ss_conf             68886359984246872899999999997416142168663203455530465458778986475553333102104899


Q ss_pred             ECCCCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHHHHHC
Q ss_conf             6479998999999997----27888967899999975989789998814
Q gi|254780217|r  185 KFNSLSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAIKILH  229 (347)
Q Consensus       185 ~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~  229 (347)
                      .|.|++++.+.+.|..    ++...+...+..+..++++++|-.++-++
T Consensus       464 ~f~~p~~s~Lv~RL~~IC~rE~mr~d~~aL~~L~el~~~DIRsCINtLQ  512 (877)
T KOG1969         464 AFVPPSQSRLVERLNEICHRENMRADSKALNALCELTQNDIRSCINTLQ  512 (877)
T ss_pred             EECCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCHHHHHHHHHH
T ss_conf             9569976689999999976415778878999999986130988888999


No 63 
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=99.14  E-value=2e-08  Score=87.53  Aligned_cols=180  Identities=17%  Similarity=0.145  Sum_probs=114.5

Q ss_pred             CCHHHHCCHHHHHHHHHHHHHC-----------C-CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCC
Q ss_conf             7565610929999999999982-----------8-898166311798988899999999998177998864312101267
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYCS-----------G-RMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP   76 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~~-----------~-~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~   76 (347)
                      .+|++|-|.+++++.|..++.-           | +.|-++|+|||||+|||.+|+++|...-+.               
T Consensus       129 v~~~dIGGl~~~k~el~E~velPl~~pe~f~~~Gi~pPkGvLLyGPPGtGKTllAkAvA~e~~~~---------------  193 (390)
T PRK03992        129 VTYEDIGGLDEQIREVREAVELPLKNPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNAT---------------  193 (390)
T ss_pred             CCHHHHCCHHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCC---------------
T ss_conf             98466149899999999999998659899997699999727868989997899999999874888---------------


Q ss_pred             CCHHHHHHHCCCCCCEEEECCCC-HHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-----------
Q ss_conf             88679999678987545300100-010134212323788755443102221111210353220554240-----------
Q gi|254780217|r   77 CSPFVKQMASHALHDFLYLSYSL-NPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR-----------  144 (347)
Q Consensus        77 ~~~~~~~i~~~~hpd~~~i~~~~-~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-----------  144 (347)
                                     ++.+..+. -.|  ..+  =+-..||++-....    ...--|++||++|.+-.           
T Consensus       194 ---------------fi~v~~s~l~sk--~vG--esek~vr~lF~~Ar----~~aP~IiFiDEiDai~~~R~~~~~~g~~  250 (390)
T PRK03992        194 ---------------FIRVVGSELVQK--FIG--EGARLVRELFELAR----EKAPSIIFIDEIDAIAAKRTDSGTSGDR  250 (390)
T ss_pred             ---------------EEEEEHHHHHHC--CCC--HHHHHHHHHHHHHH----HHCCCEEEHHHHHHHHCCCCCCCCCCCH
T ss_conf             ---------------799667997524--541--79999999999999----7099089714325663356778886208


Q ss_pred             HHHH---HHHHHHH--HCCCCCCEEEEECCCCCCCHHHHC--EE-EEEECCCCCHHHHHHHHHHHCCC---CCHHHHHHH
Q ss_conf             0014---5677766--303434167650443357302520--36-98864799989999999972788---896789999
Q gi|254780217|r  145 NAAN---ALLKSLE--EPPQKVLFILISHASPTILSTIRS--RC-LSIKFNSLSENNLYKALEQLKIM---GWDSKRDFV  213 (347)
Q Consensus       145 ~AaN---ALLK~LE--EPp~~t~fiLit~~~~~il~TI~S--Rc-~~i~f~~l~~~~~~~~L~~~~~~---~~~~~~~~~  213 (347)
                      +.+.   .||--|.  ++..++++|-.||.|+.|-|.++-  |. +.+.|..|+.+.-.++|+-...+   ..+-....+
T Consensus       251 ev~r~l~qLL~emDG~~~~~~V~VIaATNrpd~LDpAllRpGRFDr~I~iplPd~~~R~~Ilki~~~~~~l~~dvdl~~l  330 (390)
T PRK03992        251 EVQRTLMQLLAEMDGFDPRGNVKIIAATNRPDILDPALLRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEEL  330 (390)
T ss_pred             HHHHHHHHHHHHCCCCCCCCCEEEEEECCCCHHCCHHHHCCCCCCEEEEECCCCHHHHHHHHHHHHCCCCCCCCCCHHHH
T ss_conf             89999999999744877778827996069810059777547765238870894999999999998479999988899999


Q ss_pred             HHHCCCCHHHHHH
Q ss_conf             9975989789998
Q gi|254780217|r  214 KIAAYGSVARAIK  226 (347)
Q Consensus       214 ~~~s~Gs~~~A~~  226 (347)
                      +..+.|--|.-+.
T Consensus       331 A~~T~G~SGADI~  343 (390)
T PRK03992        331 AELTEGASGADLK  343 (390)
T ss_pred             HHHCCCCCHHHHH
T ss_conf             9768799899999


No 64 
>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=99.04  E-value=1.7e-09  Score=96.17  Aligned_cols=138  Identities=28%  Similarity=0.298  Sum_probs=91.0

Q ss_pred             CCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEE
Q ss_conf             09299999999999828898166311798988899999999998177998864312101267886799996789875453
Q gi|254780217|r   15 FGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLY   94 (347)
Q Consensus        15 ~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~   94 (347)
                      .|+......+..........| +||+||||+|||++|+++|+.+-..    ..                       .++.
T Consensus         1 ~~~~~~~~~l~~~~~~~~~~~-ill~GppGtGKT~la~~ia~~~~~~----~~-----------------------~~~~   52 (151)
T cd00009           1 VGQEEAIEALREALELPPPKN-LLLYGPPGTGKTTLARAIANELFRP----GA-----------------------PFLY   52 (151)
T ss_pred             CCCHHHHHHHHHHHHCCCCCE-EEEECCCCCCHHHHHHHHHHHHCCC----CC-----------------------CEEE
T ss_conf             985799999999981879980-8998999988659999999971213----79-----------------------8278


Q ss_pred             ECCCCHHHCCCCCCCCCHHHHHH--HHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCC------CCCCEEEE
Q ss_conf             00100010134212323788755--44310222111121035322055424000145677766303------43416765
Q gi|254780217|r   95 LSYSLNPKTGKWRTVITVDEIRR--IRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPP------QKVLFILI  166 (347)
Q Consensus        95 i~~~~~~k~~~~~~~I~vd~IR~--l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp------~~t~fiLi  166 (347)
                      +.......  +    -.++..+.  ...........++..|++|||+|.|....+++++..|++..      .+..+|++
T Consensus        53 ~~~~~~~~--~----~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~l~~~~~~~~~~~~~~vI~~  126 (151)
T cd00009          53 LNASDLLE--G----LVVAELFGHFLVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGA  126 (151)
T ss_pred             EEHHHCCH--H----HHHHHHHHHHHHHHHHHHHHHCCCCEEEEECHHHCCHHHHHHHHHHHHHHCCCCCCCCCEEEEEE
T ss_conf             54777046--7----77757605778898999999769986982016655999999999999871575406788899995


Q ss_pred             ECCCC--CCCHHHHCEEE-EEEC
Q ss_conf             04433--57302520369-8864
Q gi|254780217|r  167 SHASP--TILSTIRSRCL-SIKF  186 (347)
Q Consensus       167 t~~~~--~il~TI~SRc~-~i~f  186 (347)
                      |+.+.  .+.+.+.+||. .+.+
T Consensus       127 tn~~~~~~~~~~~~~R~~~~i~~  149 (151)
T cd00009         127 TNRPLLGDLDRALYDRLDIRIVI  149 (151)
T ss_pred             ECCCCCCCHHHHHHCCCCEEEEC
T ss_conf             28998868377642559869863


No 65 
>pfam03215 Rad17 Rad17 cell cycle checkpoint protein.
Probab=99.03  E-value=7.9e-09  Score=90.74  Aligned_cols=211  Identities=18%  Similarity=0.160  Sum_probs=120.9

Q ss_pred             CCCCCCCCHHHHCCHHHHHHHHHHHHHC---CC-CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCC
Q ss_conf             6555587565610929999999999982---88-9816631179898889999999999817799886431210126788
Q gi|254780217|r    3 DRAFDPVYNQRLFGHEDIEKFLSQYYCS---GR-MHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCS   78 (347)
Q Consensus         3 ~~~~~p~~~~~i~G~~~~~~~L~~~~~~---~~-l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~   78 (347)
                      ..||.|++.+++.-|+.-++.....++.   ++ -.+-+|++||+|+||+|+...+|+.+-+.--.=..|...-..   .
T Consensus        10 ~ekyaP~~l~ELAVHKKKV~eV~~WL~~~~~~~~~~~iLlLtGPaG~GKTTTI~lLAkeLG~ei~EW~NP~~~~~~---~   86 (490)
T pfam03215        10 TEKYKPRRRDELAIHKKKIAEVDHWLKAVFLESNKQLILLLTGPSGCGKSTTVKVLSKELGIEIIEWSNPEYLHNP---D   86 (490)
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCEEEEECCCCCCCCC---C
T ss_conf             1430888789985535439999999999854777731899879899889999999999759689981486545677---5


Q ss_pred             HHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHC----CCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHH
Q ss_conf             67999967898754530010001013421232378875544310----22211112103532205542400014567776
Q gi|254780217|r   79 PFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFL----SLTANTGYWRVIMIDPVDGMNRNAANALLKSL  154 (347)
Q Consensus        79 ~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~----~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~L  154 (347)
                      ..+.      ..|+.-       ..+.. ..-..++-.+...+.    +++...++.||++|++.-.+...+.-+|...|
T Consensus        87 ~~~q------~~d~~g-------~~~~~-~~S~~~~F~eFLlr~~ky~sL~~~~~~kriILIEE~Pn~~~~d~~~fr~~L  152 (490)
T pfam03215        87 NECQ------KPDFRG-------DCIVN-SLSQMEQFREFLLRGARYGSLQGGGLKKKLILVEELPNQFYSDAEKFREVI  152 (490)
T ss_pred             CHHH------CCCCCC-------CCCCC-CCCHHHHHHHHHHHCCCCCCCCCCCCCCEEEEEECCCCCCCCCHHHHHHHH
T ss_conf             0221------012123-------45766-663777767887622335654457887359999658874423669999999


Q ss_pred             HHCC--C-CCCEEEEEC---------CCC-------CC-CHHHHCEE--EEEECCCCCHHHHHHHHHHH----C-CCC--
Q ss_conf             6303--4-341676504---------433-------57-30252036--98864799989999999972----7-888--
Q gi|254780217|r  155 EEPP--Q-KVLFILISH---------ASP-------TI-LSTIRSRC--LSIKFNSLSENNLYKALEQL----K-IMG--  205 (347)
Q Consensus       155 EEPp--~-~t~fiLit~---------~~~-------~i-l~TI~SRc--~~i~f~~l~~~~~~~~L~~~----~-~~~--  205 (347)
                      -+.=  . .+-+|+|.+         +..       +| .|.|.--|  -.+.|+|+....|.+.|+.+    + ...  
T Consensus       153 ~~~L~s~~~~PlV~IiSEt~s~~g~~~~~~~~~ta~rLlg~eIl~hp~i~~I~FNpIApT~M~KaL~~I~~kE~~~~~~~  232 (490)
T pfam03215       153 REVLQSIWHLPLIFCLTECNSLEGDNNQDRFGIDAETIMTKDILIMPRIDTITFNPIAPTFMKKALVRISVQEGKLKSPK  232 (490)
T ss_pred             HHHHHHCCCCCEEEEEEECCCCCCCCCCCCCCCHHHHHCCHHHHHCCCCCEEEECCCCHHHHHHHHHHHHHHHCCCCCCC
T ss_conf             99997089998799997046666776433232107863598887088963698688878899999999999857655675


Q ss_pred             CHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf             9678999999759897899988145
Q gi|254780217|r  206 WDSKRDFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       206 ~~~~~~~~~~~s~Gs~~~A~~ll~~  230 (347)
                      .....+.++..|.|++|-|++.++.
T Consensus       233 ~~~~le~Ia~~S~GDIRsAInsLQF  257 (490)
T pfam03215       233 SDSKLEVICQEAGGDLRSAINSLQF  257 (490)
T ss_pred             CHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             2038999998648729999999998


No 66 
>CHL00176 ftsH cell division protein; Validated
Probab=99.02  E-value=8.7e-09  Score=90.38  Aligned_cols=185  Identities=15%  Similarity=0.203  Sum_probs=121.1

Q ss_pred             CCHHHHCCHHHHHHHHHHHHH-----------CCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCC
Q ss_conf             756561092999999999998-----------288981663117989888999999999981779988643121012678
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYC-----------SGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPC   77 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~-----------~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~   77 (347)
                      ..|+||.|++++++.|.....           ..|+|.+.|++||||+|||.+|+++|..       .+.|.-.++.   
T Consensus       174 vtF~DVaG~~eaK~el~EivdfLk~P~k~~~~Gak~PkGvLL~GpPGTGKTlLAkAvAgE-------a~vpF~~~sg---  243 (631)
T CHL00176        174 ITFNDVAGVEEAKEELEEVVTFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGE-------AEVPFFSISG---  243 (631)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHCCHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHCC-------CCCCEEEEEH---
T ss_conf             775322885899999999999835958876449968965898898998788999998565-------5884699883---


Q ss_pred             CHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC--------------
Q ss_conf             867999967898754530010001013421232378875544310222111121035322055424--------------
Q gi|254780217|r   78 SPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMN--------------  143 (347)
Q Consensus        78 ~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln--------------  143 (347)
                                +  ++.+.-.           -.+-.-||+|-+.....    .-.|++||++|..-              
T Consensus       244 ----------s--~F~e~~v-----------Gvga~rVR~LF~~Ar~~----aP~IiFIDEiDaig~~Rg~~~~gg~~e~  296 (631)
T CHL00176        244 ----------S--EFVEMFV-----------GVGAARVRDLFKKAKEN----SPCIVFIDEIDAVGRQRGAGVGGGNDER  296 (631)
T ss_pred             ----------H--HHHHHHC-----------CHHHHHHHHHHHHHHHC----CCEEEEEEEEEEEEECCCCCCCCCCCHH
T ss_conf             ----------7--8556421-----------55589999999999863----9969998710120114789888985089


Q ss_pred             HHHHHHHHHHHH--HCCCCCCEEEEECCCCCCCHHHHC--EE-EEEECCCCCHHHHHHHHHHHCCC---CCHHHHHHHHH
Q ss_conf             000145677766--303434167650443357302520--36-98864799989999999972788---89678999999
Q gi|254780217|r  144 RNAANALLKSLE--EPPQKVLFILISHASPTILSTIRS--RC-LSIKFNSLSENNLYKALEQLKIM---GWDSKRDFVKI  215 (347)
Q Consensus       144 ~~AaNALLK~LE--EPp~~t~fiLit~~~~~il~TI~S--Rc-~~i~f~~l~~~~~~~~L~~~~~~---~~~~~~~~~~~  215 (347)
                      .+.-|.||--|-  +..++.+.|=.||.|+.|-|.++-  |- +++.+..|+.+.-.++|+-...+   .++-.+..++.
T Consensus       297 e~tlnqLL~emDGf~~~~gViViaATNrpd~LDpALlRPGRFDR~I~V~lPD~~gR~~IL~vh~k~~~l~~dvdl~~iA~  376 (631)
T CHL00176        297 EQTLNQLLTEMDGFEGNKGVIVIAATNRIDILDAALLRPGRFDRQVTVSLPDFEGRLDILKVHARNKKLAEDVSLELIAR  376 (631)
T ss_pred             HHHHHHHHHHHCCCCCCCCEEEEEECCCCCCCCHHHCCCCCCCEEEEECCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHH
T ss_conf             99999999984288878886999825885545686626887754998269898999999999970786665300999986


Q ss_pred             HCCCCHHHHH-HHHCC
Q ss_conf             7598978999-88145
Q gi|254780217|r  216 AAYGSVARAI-KILHY  230 (347)
Q Consensus       216 ~s~Gs~~~A~-~ll~~  230 (347)
                      .+.|--|.-+ ++++.
T Consensus       377 ~T~GfSGAdLanlvNE  392 (631)
T CHL00176        377 RTPGFSGADLANLLNE  392 (631)
T ss_pred             HCCCCCHHHHHHHHHH
T ss_conf             2699867888769999


No 67 
>CHL00095 clpC Clp protease ATP binding subunit
Probab=99.00  E-value=1.1e-08  Score=89.61  Aligned_cols=195  Identities=16%  Similarity=0.112  Sum_probs=114.5

Q ss_pred             CHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCC
Q ss_conf             56561092999999999998288981663117989888999999999981779988643121012678867999967898
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHAL   89 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~h   89 (347)
                      ..+.|+|.+..++.+...+...+=.+ -++.|+||+|||..+..+|+.|.....+..-    ...               
T Consensus       177 klDpvIGRd~EI~r~i~IL~RR~KNN-piLvGepGVGKTAIvEGLA~rI~~g~VP~~L----~~~---------------  236 (823)
T CHL00095        177 NLDPVIGRDKEIERVIQILGRRTKNN-PILIGEPGVGKTAIAEGLAQRIANRDVPDIL----EDK---------------  236 (823)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHCCCC-CEEECCCCCCHHHHHHHHHHHHHCCCCCHHH----CCC---------------
T ss_conf             99987595699999999997732488-5023799987999999999976088998687----599---------------


Q ss_pred             CCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHC--------CHHHHHHHHHHHHHCCCCC
Q ss_conf             75453001000101342123237887554431022211112103532205542--------4000145677766303434
Q gi|254780217|r   90 HDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGM--------NRNAANALLKSLEEPPQKV  161 (347)
Q Consensus        90 pd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~l--------n~~AaNALLK~LEEPp~~t  161 (347)
                       .++.++...--.+-+.+..- =+-+..+++.+..    .+.=|.+||++|.+        +..|+|-|--.|--  ..-
T Consensus       237 -~i~sLDl~~L~AGtkyRGeF-EeRlk~il~ei~~----~~~iILFIDEiHtlvGaG~~~g~~DaaNlLKPaLar--Gel  308 (823)
T CHL00095        237 -LVLTLDIGLLLAGTKYRGEF-EERIKKIMDEIKK----ANNIILVIDEIHTLIGAGAAEGAIDAANILKPALAR--GKL  308 (823)
T ss_pred             -CEEEEEHHHHHHCCCCCHHH-HHHHHHHHHHHHH----CCCEEEEECCHHHHCCCCCCCCCHHHHHHHHHHHHC--CCC
T ss_conf             -36884288775334222679-9999999999985----798699973516532889766643178876578648--986


Q ss_pred             CEEEEECCCC--CC---CHHHHCEEEEEECCCCCHHHHHHHHHH--------HCCCCCHHHHHHHHHHCCC------CHH
Q ss_conf             1676504433--57---302520369886479998999999997--------2788896789999997598------978
Q gi|254780217|r  162 LFILISHASP--TI---LSTIRSRCLSIKFNSLSENNLYKALEQ--------LKIMGWDSKRDFVKIAAYG------SVA  222 (347)
Q Consensus       162 ~fiLit~~~~--~i---l~TI~SRc~~i~f~~l~~~~~~~~L~~--------~~~~~~~~~~~~~~~~s~G------s~~  222 (347)
                      .+|-.|+..+  +.   -+.+--|.|.+.+..|+.++...+|..        .+..+.++++..+..+|.-      =|.
T Consensus       309 ~~IGATT~~EYrk~iEkD~AL~RRFq~V~V~EPs~e~t~~IL~gl~~~yE~~H~V~i~d~Ai~aav~LS~RYi~dr~LPD  388 (823)
T CHL00095        309 QCIGATTLEEYRKHIEKDPALERRFQPVYVGEPSVEETIEILLGLRDRYEKHHNLSISDKALEAAAKLSDQYIKDRFLPD  388 (823)
T ss_pred             EEEEECCHHHHHHHHHCCHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCH
T ss_conf             69970788999998530588996268410289987999999999999998750885047899999998776403777821


Q ss_pred             HHHHHHCCCH
Q ss_conf             9998814577
Q gi|254780217|r  223 RAIKILHYDC  232 (347)
Q Consensus       223 ~A~~ll~~~~  232 (347)
                      +|+.+++...
T Consensus       389 KAIDllDeA~  398 (823)
T CHL00095        389 KAIDLLDEAG  398 (823)
T ss_pred             HHHHHHHHHH
T ss_conf             7888899998


No 68 
>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=99.00  E-value=3.2e-08  Score=85.84  Aligned_cols=224  Identities=19%  Similarity=0.248  Sum_probs=140.4

Q ss_pred             CCCCCCC-HHHHCCHHHHHHH---HHHHHHCCCCC-EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCC-CHHHCCCCC-
Q ss_conf             5555875-6561092999999---99999828898-166311798988899999999998177998864-312101267-
Q gi|254780217|r    4 RAFDPVY-NQRLFGHEDIEKF---LSQYYCSGRMH-HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKA-PVRMCNPDP-   76 (347)
Q Consensus         4 ~~~~p~~-~~~i~G~~~~~~~---L~~~~~~~~l~-ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~-~~~~~~~~~-   76 (347)
                      ....|+. -+-+|||.++.+.   ..+.++.+++. .|+||.||||+||+.+|.++|+.|=...+...- .....+++. 
T Consensus        15 ~~~~~~~~~~GlVGQ~~AReAagiiv~mIk~~K~aGraiLlaGppGTGKTAlA~aiakeLG~~vPF~~i~gSEvyS~E~k   94 (395)
T pfam06068        15 EDGEARYVSEGLVGQEKAREAAGVIVEMIKEGKIAGRAVLIAGPPGTGKTALAIAISKELGEDTPFCPISGSEVYSLEMK   94 (395)
T ss_pred             CCCCEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEHHEEECCCCC
T ss_conf             88888364577545499999989999999727757738998779998889999999997487997345001112125654


Q ss_pred             ----CCHHHH-------------------------------------------------------------HH--HCCCC
Q ss_conf             ----886799-------------------------------------------------------------99--67898
Q gi|254780217|r   77 ----CSPFVK-------------------------------------------------------------QM--ASHAL   89 (347)
Q Consensus        77 ----~~~~~~-------------------------------------------------------------~i--~~~~h   89 (347)
                          -...+|                                                             .+  +.=.-
T Consensus        95 KTE~L~qafRrsIGvrIkE~~eVyEGEV~ei~~~~~~~p~~~~~k~~~~~~itLkT~~~~~~l~l~~~i~e~l~kekV~~  174 (395)
T pfam06068        95 KTEALTQAFRKAIGVRIKEEKEVYEGEVVELEIEEAENPLSGYGKTIKHGKITLKTTKMEKTLKLGPKIYEQLQKEKVQA  174 (395)
T ss_pred             HHHHHHHHHHHHHCEEEEEEEEEEEEEEEEEEEEECCCCCCCCCCCCEEEEEEEEECCCCEEEECCHHHHHHHHHCCCCC
T ss_conf             88999999988755686788899999999999741468889876540379999997588178725889999999749866


Q ss_pred             CCEEEECCCCHH-------------------------HCCC-------------------------------CCCCCCHH
Q ss_conf             754530010001-------------------------0134-------------------------------21232378
Q gi|254780217|r   90 HDFLYLSYSLNP-------------------------KTGK-------------------------------WRTVITVD  113 (347)
Q Consensus        90 pd~~~i~~~~~~-------------------------k~~~-------------------------------~~~~I~vd  113 (347)
                      -|+++|+.....                         ++.-                               .++.|+ +
T Consensus       175 GDVI~Id~~sG~V~klGRs~~~a~~~D~~~~~~V~~P~Gev~K~KEvv~~vTLHDlDv~Nar~qg~~slf~~~~~EIt-~  253 (395)
T pfam06068       175 GDVIYIDKNTGKVKKLGRSFARATDFDLEATEFVPCPKGEVHKRKEVVQTVTLHDIDVANARPQGILSLFSPKKGEIT-S  253 (395)
T ss_pred             CCEEEEECCCCEEEEEECCHHHHHHCCCCCCEEEECCCCCCEEEEEEEEEEEHHHHHHHCCCCCCHHHHHCCCCCCCC-H
T ss_conf             878999858715999762320343326665479778998624688999986123412221575256764179876069-9


Q ss_pred             HHHH-HHHHCCCCCCCCC----CHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEEC------------CCCCCCHH
Q ss_conf             8755-4431022211112----10353220554240001456777663034341676504------------43357302
Q gi|254780217|r  114 EIRR-IRYFLSLTANTGY----WRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISH------------ASPTILST  176 (347)
Q Consensus       114 ~IR~-l~~~~~~~~~~~~----~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~------------~~~~il~T  176 (347)
                      ++|+ +.+.++.--.+|.    .-|.+||++|.|..++.--|=|.||.|- .-++||.||            .|+.||.-
T Consensus       254 elR~eInk~V~~~i~eG~AElvpGVLFIDEvHMLDiEcFsfLnralEs~l-aPivI~ATNRG~~~IRGTd~~sPHGiP~D  332 (395)
T pfam06068       254 ELREEINKKVNKWIEEGKAEIVPGVLFIDEVHMLDIECFSFLNRALESEL-APIVILATNRGICTIRGTDIISPHGIPLD  332 (395)
T ss_pred             HHHHHHHHHHHHHHHCCCEEEECCCEEEECCHHCCHHHHHHHHHHHCCCC-CCEEEEEECCCCEEECCCCCCCCCCCCHH
T ss_conf             99999999999998648679842746885000000589988877650567-87699984465203525677588899877


Q ss_pred             HHCEEEEEECCCCCHHHHHHHHH----HHCCCCCHHHHHHHHHHCC-CCHHHHHHHHC
Q ss_conf             52036988647999899999999----7278889678999999759-89789998814
Q gi|254780217|r  177 IRSRCLSIKFNSLSENNLYKALE----QLKIMGWDSKRDFVKIAAY-GSVARAIKILH  229 (347)
Q Consensus       177 I~SRc~~i~f~~l~~~~~~~~L~----~~~~~~~~~~~~~~~~~s~-Gs~~~A~~ll~  229 (347)
                      .+.||..++-.|.+.+++++++.    .++...++++++.+..++. .|.|=|++++.
T Consensus       333 lLDRllII~T~py~~~ei~~Ii~iRa~~E~v~l~~~al~~L~~ig~~~SLRYaiqLlt  390 (395)
T pfam06068       333 LLDRLLIITTEPYTREEIKQILEIRAQEEGVEISEEALDLLAKIGEETSLRYAIQLLT  390 (395)
T ss_pred             HHHHEEEEECCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCHHHHHHHHC
T ss_conf             7730258856889989999999987776078779899999998653202999998725


No 69 
>CHL00181 cbbX CbbX; Provisional
Probab=98.99  E-value=7.8e-09  Score=90.79  Aligned_cols=155  Identities=16%  Similarity=0.213  Sum_probs=98.3

Q ss_pred             HH-HHCCHHHHHHHHHH---HHHCCC-----------C-CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCC
Q ss_conf             65-61092999999999---998288-----------9-81663117989888999999999981779988643121012
Q gi|254780217|r   11 NQ-RLFGHEDIEKFLSQ---YYCSGR-----------M-HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNP   74 (347)
Q Consensus        11 ~~-~i~G~~~~~~~L~~---~~~~~~-----------l-~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~   74 (347)
                      ++ +++|.+.+++.+..   .+..++           . .| ++|.||||+||||.|+.+|+.+-..        |.+  
T Consensus        21 Ld~eliGL~~VK~~v~~l~~~~~~~~~R~~~Gl~~~~~s~h-~vF~GnPGTGKTTVARl~a~il~~l--------G~L--   89 (287)
T CHL00181         21 LDEELIGLVPVKTRIREIAALLLVDRLRKNLGLVSSSPGLH-MSFTGSPGTGKTTVALKMADILYRL--------GYI--   89 (287)
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCE-EEEECCCCCCHHHHHHHHHHHHHHC--------CCC--
T ss_conf             98864696999999999999999999999879998887653-8887899867999999999999986--------995--


Q ss_pred             CCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC---------HH
Q ss_conf             678867999967898754530010001013421232378875544310222111121035322055424---------00
Q gi|254780217|r   75 DPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMN---------RN  145 (347)
Q Consensus        75 ~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln---------~~  145 (347)
                                   +.+++.++.+.---......+   -...+++++.     ..|+  |.+||+|..|.         .+
T Consensus        90 -------------~~g~vve~~r~dLvg~yvG~T---a~kt~~~i~~-----a~GG--VLfIDEAY~L~~~~~~~dfg~e  146 (287)
T CHL00181         90 -------------KKGHLITVTRDDLVGQYIGHT---APKTKEVLKK-----AMGG--VLFIDEAYYLYKPDNERDYGAE  146 (287)
T ss_pred             -------------CCCEEEEECHHHHCCCCCCCC---HHHHHHHHHH-----CCCC--EEEEECHHHHCCCCCCCCCHHH
T ss_conf             -------------589589953588416353521---6999999996-----4598--7998244653578899983799


Q ss_pred             HHHHHHHHHHHCCCCCCEEEEECCCC---CCC---HHHHCEEE-EEECCCCCHHHHHHHHHH
Q ss_conf             01456777663034341676504433---573---02520369-886479998999999997
Q gi|254780217|r  146 AANALLKSLEEPPQKVLFILISHASP---TIL---STIRSRCL-SIKFNSLSENNLYKALEQ  200 (347)
Q Consensus       146 AaNALLK~LEEPp~~t~fiLit~~~~---~il---~TI~SRc~-~i~f~~l~~~~~~~~L~~  200 (347)
                      |-+.|+|.||.+..+.++|+.- ++.   .++   |-++||-- .+.|..-+.+++.+++..
T Consensus       147 aidtLl~~me~~~~~lvvI~AG-Y~~eM~~fl~~NpGL~sRf~~~i~F~dYt~~EL~~I~~~  207 (287)
T CHL00181        147 AIEILLQVMENQRDDLVVIFAG-YKDRMDKFYESNPGLSSRVANHVDFPDYTPEELLQIAKM  207 (287)
T ss_pred             HHHHHHHHHHHCCCCEEEEEEC-CHHHHHHHHHHCCCHHHHCCCEEECCCCCHHHHHHHHHH
T ss_conf             9999999987079988999846-789999999859047876887237798599999999999


No 70 
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=98.98  E-value=5.2e-09  Score=92.17  Aligned_cols=181  Identities=19%  Similarity=0.268  Sum_probs=118.7

Q ss_pred             CCCCHHHHCCHHHHHHH---HHHHHHC----C-CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCC
Q ss_conf             58756561092999999---9999982----8-89816631179898889999999999817799886431210126788
Q gi|254780217|r    7 DPVYNQRLFGHEDIEKF---LSQYYCS----G-RMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCS   78 (347)
Q Consensus         7 ~p~~~~~i~G~~~~~~~---L~~~~~~----~-~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~   78 (347)
                      +--.|++|+||+.+++.   +...++.    | =-|...|||||||+||+.+|+++|...       +.|.-...     
T Consensus       116 ~~it~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~-------kvp~l~vk-----  183 (368)
T COG1223         116 SDITLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEA-------KVPLLLVK-----  183 (368)
T ss_pred             CCCCHHHHHCHHHHHHHHHHHHHHHHCHHHHCCCCCCEEEEECCCCCCHHHHHHHHHCCC-------CCCEEEEC-----
T ss_conf             366176641639888887999999649687634575416877899964879999872545-------78548711-----


Q ss_pred             HHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC------------HHH
Q ss_conf             67999967898754530010001013421232378875544310222111121035322055424------------000
Q gi|254780217|r   79 PFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMN------------RNA  146 (347)
Q Consensus        79 ~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln------------~~A  146 (347)
                       ....|  |.|-.                  -.-.+||++-.....+    .-.|++||+.|.+-            .+.
T Consensus       184 -at~li--GehVG------------------dgar~Ihely~rA~~~----aPcivFiDE~DAiaLdRryQelRGDVsEi  238 (368)
T COG1223         184 -ATELI--GEHVG------------------DGARRIHELYERARKA----APCIVFIDELDAIALDRRYQELRGDVSEI  238 (368)
T ss_pred             -HHHHH--HHHHH------------------HHHHHHHHHHHHHHHC----CCEEEEEHHHHHHHHHHHHHHHCCCHHHH
T ss_conf             -68888--87743------------------5989999999988751----98499840024555304578864549999


Q ss_pred             HHHHHHHHHHC--CCCCCEEEEECCCCCCCHHHHCEE-EEEECCCCCHHHHHHHHHHHC---CCCCHHHHHHHHHHCCCC
Q ss_conf             14567776630--343416765044335730252036-988647999899999999727---888967899999975989
Q gi|254780217|r  147 ANALLKSLEEP--PQKVLFILISHASPTILSTIRSRC-LSIKFNSLSENNLYKALEQLK---IMGWDSKRDFVKIAAYGS  220 (347)
Q Consensus       147 aNALLK~LEEP--p~~t~fiLit~~~~~il~TI~SRc-~~i~f~~l~~~~~~~~L~~~~---~~~~~~~~~~~~~~s~Gs  220 (347)
                      .||||--|.--  ..++++|-.||+|+.+-|.||||. -.+.|.-++.++..+++....   +--.+.....++..+.|-
T Consensus       239 VNALLTelDgi~eneGVvtIaaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~~~~~~~~~~t~g~  318 (368)
T COG1223         239 VNALLTELDGIKENEGVVTIAATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVDADLRYLAAKTKGM  318 (368)
T ss_pred             HHHHHHHCCCCCCCCCEEEEEECCCHHHCCHHHHHHHHHEEEEECCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHCCC
T ss_conf             99999850174457756999505984650788886556506564888589999999989858976556899999984787


Q ss_pred             HHHH
Q ss_conf             7899
Q gi|254780217|r  221 VARA  224 (347)
Q Consensus       221 ~~~A  224 (347)
                      -|+-
T Consensus       319 SgRd  322 (368)
T COG1223         319 SGRD  322 (368)
T ss_pred             CCHH
T ss_conf             7206


No 71 
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=98.94  E-value=2.3e-08  Score=87.04  Aligned_cols=195  Identities=17%  Similarity=0.133  Sum_probs=123.2

Q ss_pred             CCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCC
Q ss_conf             75656109299999999999828898166311798988899999999998177998864312101267886799996789
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHA   88 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~   88 (347)
                      ...+.|+|.++.++.+...+...+=.+ -++.|+||+|||..+..+|+.+.....+..-    ...              
T Consensus       183 gklDPviGR~~Ei~r~i~iL~Rr~KNN-piLvGepGVGKTAIvEGLA~rI~~g~VP~~L----~~~--------------  243 (758)
T PRK11034        183 GGIDPLIGREKELERAIQVLCRRRKNN-PLLVGESGVGKTAIAEGLAWRIVQGDVPEVM----ADC--------------  243 (758)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHCCCC-CEEECCCCCCHHHHHHHHHHHHHCCCCCHHH----CCC--------------
T ss_conf             899987384899999999997632589-6021699986999999999999738997655----898--------------


Q ss_pred             CCCEEEECCCCHHHCCCCCCCCCHH-HHHHHHHHCCCCCCCCCCHHHHHHHHHHCC---------HHHHHHHHHHHHHCC
Q ss_conf             8754530010001013421232378-875544310222111121035322055424---------000145677766303
Q gi|254780217|r   89 LHDFLYLSYSLNPKTGKWRTVITVD-EIRRIRYFLSLTANTGYWRVIMIDPVDGMN---------RNAANALLKSLEEPP  158 (347)
Q Consensus        89 hpd~~~i~~~~~~k~~~~~~~I~vd-~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln---------~~AaNALLK~LEEPp  158 (347)
                        .++.++....-.+-+.+..  -+ -++.+++.+..    .+.-|.+||++|.+-         .+|+|-|--.|-.  
T Consensus       244 --~i~~Ldl~~LiAGtkyRGe--fEeRlk~vi~e~~~----~~~~ILFIDEiH~ivGaG~~~gg~~DaaNlLKP~Lar--  313 (758)
T PRK11034        244 --TIYSLDIGSLLAGTKYRGD--FEKRFKALLKQLEQ----DTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS--  313 (758)
T ss_pred             --EEEEEEHHHHHCCCCCCHH--HHHHHHHHHHHHHH----CCCEEEEEECHHHHCCCCCCCCCCCCHHHHHHHHHHC--
T ss_conf             --8998458778616864154--99999999999985----7985999804344226887677764678874578746--


Q ss_pred             CCCCEEEEECCC--CCCC---HHHHCEEEEEECCCCCHHHHHHHHHH--------HCCCCCHHHHHHHHHHCCC------
Q ss_conf             434167650443--3573---02520369886479998999999997--------2788896789999997598------
Q gi|254780217|r  159 QKVLFILISHAS--PTIL---STIRSRCLSIKFNSLSENNLYKALEQ--------LKIMGWDSKRDFVKIAAYG------  219 (347)
Q Consensus       159 ~~t~fiLit~~~--~~il---~TI~SRc~~i~f~~l~~~~~~~~L~~--------~~~~~~~~~~~~~~~~s~G------  219 (347)
                      ..-.+|-.|+..  .+..   +.+--|.|.+.+..|+.++...+|..        .+..+.++++..+..+|.-      
T Consensus       314 G~l~~IgaTT~~EYrk~iekD~AL~RRFq~V~V~EPs~e~t~~IL~gl~~~yE~~H~v~~~d~al~~av~Ls~rYi~dr~  393 (758)
T PRK11034        314 GKIRVIGSTTYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRH  393 (758)
T ss_pred             CCCEEEEECCHHHHHHCCCCCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHCCCCEECCHHHHHHHHHHHHHHCCCC
T ss_conf             97239994377998750321478884282653189998999999998999873236957743899999999976502688


Q ss_pred             CHHHHHHHHCCCH
Q ss_conf             9789998814577
Q gi|254780217|r  220 SVARAIKILHYDC  232 (347)
Q Consensus       220 s~~~A~~ll~~~~  232 (347)
                      -|.+|+.+++...
T Consensus       394 lPDKAIdllDea~  406 (758)
T PRK11034        394 LPDKAIDVIDEAG  406 (758)
T ss_pred             CCHHHHHHHHHHH
T ss_conf             9619999999998


No 72 
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=98.93  E-value=5.3e-08  Score=84.11  Aligned_cols=136  Identities=18%  Similarity=0.299  Sum_probs=63.7

Q ss_pred             HHHCCHHHHHHHHHHHHHCCCC--------CEEEEECCCCCCCHHHHHHHHHHHHHCCCCC-CCCCHHHCCCCCCCHHHH
Q ss_conf             5610929999999999982889--------8166311798988899999999998177998-864312101267886799
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYYCSGRM--------HHALLFEGEQGIGKATLGFRYAGHVLQNPDF-SKAPVRMCNPDPCSPFVK   82 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~~~~~l--------~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~-~~~~~~~~~~~~~~~~~~   82 (347)
                      ..|+||++++..+.++++..|.        --++||.||.|+|||-+|.++|..|+-.+.. ---...+..  -.|.+-+
T Consensus       491 ~rViGQd~AV~~v~~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~--EkHsVSr  568 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYM--EKHSVSR  568 (786)
T ss_pred             CCEECHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCEEECHHHHH--HHHHHHH
T ss_conf             65017399999999999998569999998735788667886569999999999965997444554568777--7877998


Q ss_pred             HHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHC-----
Q ss_conf             996789875453001000101342123237887554431022211112103532205542400014567776630-----
Q gi|254780217|r   83 QMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEP-----  157 (347)
Q Consensus        83 ~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEP-----  157 (347)
                      +|  |+-|.|.=.    ++ +|            .|-+.+..+|    |-|+++|++|+=+..-.|.||-.|++=     
T Consensus       569 LI--GaPPGYVGy----ee-GG------------~LTEaVRr~P----ySViLlDEIEKAHpdV~nilLQVlDdGrLTD~  625 (786)
T COG0542         569 LI--GAPPGYVGY----EE-GG------------QLTEAVRRKP----YSVILLDEIEKAHPDVFNLLLQVLDDGRLTDG  625 (786)
T ss_pred             HH--CCCCCCCEE----CC-CC------------CHHHHHHCCC----CEEEEECHHHHCCHHHHHHHHHHHCCCCEECC
T ss_conf             72--799987200----65-54------------0037660699----86888412644088999999998467805548


Q ss_pred             ------CCCCCEEEEECCCCC
Q ss_conf             ------343416765044335
Q gi|254780217|r  158 ------PQKVLFILISHASPT  172 (347)
Q Consensus       158 ------p~~t~fiLit~~~~~  172 (347)
                            =+||++|++||=-..
T Consensus       626 ~Gr~VdFrNtiIImTSN~Gs~  646 (786)
T COG0542         626 QGRTVDFRNTIIIMTSNAGSE  646 (786)
T ss_pred             CCCEEECCEEEEEEECCCCHH
T ss_conf             998884300289984502659


No 73 
>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=98.93  E-value=3.6e-08  Score=85.38  Aligned_cols=196  Identities=13%  Similarity=0.107  Sum_probs=125.5

Q ss_pred             CHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCC
Q ss_conf             56561092999999999998288981663117989888999999999981779988643121012678867999967898
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHAL   89 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~h   89 (347)
                      ..+.|+|.+..++.+...+...+=.+ -++.|+||+|||..+..+|+.|.....+..-    ...               
T Consensus       171 klDpviGRd~Ei~r~i~IL~Rr~KNN-piLVGepGVGKTAIvEGLA~rI~~g~VP~~L----~~~---------------  230 (852)
T TIGR03346       171 KLDPVIGRDEEIRRTIQVLSRRTKNN-PVLIGEPGVGKTAIVEGLAQRIVNGDVPESL----KNK---------------  230 (852)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHCCCC-CCEECCCCCCHHHHHHHHHHHHHCCCCCHHH----HHC---------------
T ss_conf             99977383699999999998732489-7212799987999999999998669999788----518---------------


Q ss_pred             CCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHC--------CHHHHHHHHHHHHHCCCCC
Q ss_conf             75453001000101342123237887554431022211112103532205542--------4000145677766303434
Q gi|254780217|r   90 HDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGM--------NRNAANALLKSLEEPPQKV  161 (347)
Q Consensus        90 pd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~l--------n~~AaNALLK~LEEPp~~t  161 (347)
                       .++.++...--.+-+.+..- =+-++.+++.+..++   +.=|.+||++|.+        +.+|+|-|--.|-.  ..-
T Consensus       231 -~i~~LDlg~LvAGtkyRGeF-EeRlk~ii~ev~~~~---~~iILFIDEiHtliGaG~~~G~~DAaNlLKPaLar--Gel  303 (852)
T TIGR03346       231 -RLLALDMGALIAGAKYRGEF-EERLKAVLNEVTKSE---GQIILFIDELHTLVGAGKAEGAMDAGNMLKPALAR--GEL  303 (852)
T ss_pred             -CCEEEEHHHHHCCCCCCHHH-HHHHHHHHHHHHHCC---CCEEEEEHHHHHHCCCCCCCCCCCHHHHHHHHHHC--CCC
T ss_conf             -51275288775215300789-999999999998589---98799961255532688766641067774378747--985


Q ss_pred             CEEEEECCCC--CC---CHHHHCEEEEEECCCCCHHHHHHHHHH--------HCCCCCHHHHHHHHHHCCC------CHH
Q ss_conf             1676504433--57---302520369886479998999999997--------2788896789999997598------978
Q gi|254780217|r  162 LFILISHASP--TI---LSTIRSRCLSIKFNSLSENNLYKALEQ--------LKIMGWDSKRDFVKIAAYG------SVA  222 (347)
Q Consensus       162 ~fiLit~~~~--~i---l~TI~SRc~~i~f~~l~~~~~~~~L~~--------~~~~~~~~~~~~~~~~s~G------s~~  222 (347)
                      .+|=.|+..+  +.   -+.+--|.|.+.+..|+.++...+|..        .+..+.++++..+..+|.-      =|.
T Consensus       304 r~IgATT~~EYrk~iEkD~AL~RRFq~I~V~EPs~e~t~~IL~gl~~~yE~hH~V~i~d~Ai~aav~LS~RYi~~R~LPD  383 (852)
T TIGR03346       304 HCIGATTLDEYRKYIEKDAALERRFQPVFVDEPTVEDTISILRGLKERYEVHHGVRITDPAIVAAATLSHRYITDRFLPD  383 (852)
T ss_pred             EEEEECCHHHHHHHHHCCHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEECHHHHHHHHHHHCCCCCCCCCCH
T ss_conf             59982789999988322688997377120479986899999997699997627926739999999997134667788961


Q ss_pred             HHHHHHCCCH
Q ss_conf             9998814577
Q gi|254780217|r  223 RAIKILHYDC  232 (347)
Q Consensus       223 ~A~~ll~~~~  232 (347)
                      +|+.+++...
T Consensus       384 KAIDlLDeA~  393 (852)
T TIGR03346       384 KAIDLIDEAA  393 (852)
T ss_pred             HHHHHHHHHH
T ss_conf             8999999999


No 74 
>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=98.92  E-value=1.6e-08  Score=88.21  Aligned_cols=194  Identities=14%  Similarity=0.142  Sum_probs=120.9

Q ss_pred             CHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCC-CHHHCCCCCCCHHHHHHHCCC
Q ss_conf             5656109299999999999828898166311798988899999999998177998864-312101267886799996789
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKA-PVRMCNPDPCSPFVKQMASHA   88 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~-~~~~~~~~~~~~~~~~i~~~~   88 (347)
                      .++.|+|-++.++.+...+...+=.+ -++.|+||+|||..|..+|+.|.....+..- .+..++-     +...+.+|+
T Consensus       185 klDPvIGRd~EI~r~iqIL~Rr~KNN-PiLVGepGVGKTAIvEGLA~rI~~g~VP~~L~~~~i~sL-----Dlg~LvAGt  258 (852)
T TIGR03345       185 KIDPVLGRDDEIRQMIDILLRRRQNN-PILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSL-----DLGLLQAGA  258 (852)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHCCCC-CEEECCCCCCHHHHHHHHHHHHHCCCCCHHHHCCEEEEE-----EHHHHHHCC
T ss_conf             99988694999999999998624799-746579998799999999999976999867743856786-----788886403


Q ss_pred             CCCEEEECCCCHHHCCCCCCCCCHH-HHHHHHHHCCCCCCCCCCHHHHHHHHHHCC--------HHHHHHHHHHHHHCCC
Q ss_conf             8754530010001013421232378-875544310222111121035322055424--------0001456777663034
Q gi|254780217|r   89 LHDFLYLSYSLNPKTGKWRTVITVD-EIRRIRYFLSLTANTGYWRVIMIDPVDGMN--------RNAANALLKSLEEPPQ  159 (347)
Q Consensus        89 hpd~~~i~~~~~~k~~~~~~~I~vd-~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln--------~~AaNALLK~LEEPp~  159 (347)
                                      +.+..  -+ -+..+++.+..++   +.=|.+||++|.+-        .+|+|-|--.|=.  .
T Consensus       259 ----------------kyRGe--FEeRlk~ii~ei~~~~---~~iILFIDEiHtlvGAG~~~G~~DaaNiLKPaLar--G  315 (852)
T TIGR03345       259 ----------------SVKGE--FENRLKSVIDEVKASP---QPIILFIDEAHTLIGAGGQAGQGDAANLLKPALAR--G  315 (852)
T ss_pred             ----------------CCCCH--HHHHHHHHHHHHHHCC---CCEEEEEEHHHHHCCCCCCCCCCCHHHHHHHHHHC--C
T ss_conf             ----------------57635--9999999999998489---97699963487752899888862278875178737--8


Q ss_pred             CCCEEEEECCCC--CC---CHHHHCEEEEEECCCCCHHHHHHHHHH--------HCCCCCHHHHHHHHHHCCC------C
Q ss_conf             341676504433--57---302520369886479998999999997--------2788896789999997598------9
Q gi|254780217|r  160 KVLFILISHASP--TI---LSTIRSRCLSIKFNSLSENNLYKALEQ--------LKIMGWDSKRDFVKIAAYG------S  220 (347)
Q Consensus       160 ~t~fiLit~~~~--~i---l~TI~SRc~~i~f~~l~~~~~~~~L~~--------~~~~~~~~~~~~~~~~s~G------s  220 (347)
                      .-.+|-.|+.-+  +.   -+.+--|.|.+.+..|+.++...+|..        .+..+.++++..+..+|.-      =
T Consensus       316 elr~IGATT~~EYrk~iEkD~AL~RRFq~V~V~EPs~eeti~IL~glk~~yE~hH~V~i~d~Ai~aAv~LS~RYI~dR~L  395 (852)
T TIGR03345       316 ELRTIAATTWAEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYIPGRQL  395 (852)
T ss_pred             CCEEEEECCHHHHHHHHHCCHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEHHHHHHHHHHHHHHCCCCCC
T ss_conf             73499835789998886426889962475527999879999999987999855479687089999999998721554558


Q ss_pred             HHHHHHHHCCCH
Q ss_conf             789998814577
Q gi|254780217|r  221 VARAIKILHYDC  232 (347)
Q Consensus       221 ~~~A~~ll~~~~  232 (347)
                      |.+|+.+++...
T Consensus       396 PDKAIDLlDeA~  407 (852)
T TIGR03345       396 PDKAVSLLDTAC  407 (852)
T ss_pred             CHHHHHHHHHHH
T ss_conf             427899999999


No 75 
>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=98.92  E-value=1.7e-08  Score=87.97  Aligned_cols=206  Identities=17%  Similarity=0.171  Sum_probs=136.0

Q ss_pred             CCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCC-CCHHHHH
Q ss_conf             555875656109299999999999828898166311798988899999999998177998864312101267-8867999
Q gi|254780217|r    5 AFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP-CSPFVKQ   83 (347)
Q Consensus         5 ~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~-~~~~~~~   83 (347)
                      .+.|..|..=-.|+++...|.-.+..++-.  .+++|++|+|||++.+.+++.+-....   ..+....+.. .....+.
T Consensus        16 ~pd~~~~y~s~~h~~al~~L~~~l~~~~g~--~lltGe~GtGKTtllr~l~~~l~~~~~---~~~~i~~~~l~~~~ll~~   90 (269)
T TIGR03015        16 LPDPDFFYPSKGHKRAMAYLEYGLSQREGF--ILITGEVGAGKTTLIRNLLKRLDQERV---VAAKLVNTRVDAEDLLRM   90 (269)
T ss_pred             CCCHHHCCCCHHHHHHHHHHHHHHHCCCCE--EEEECCCCCCHHHHHHHHHHHCCCCCE---EEEEECCCCCCHHHHHHH
T ss_conf             998454147866999999999999648965--999729989889999999984593454---899976999999999999


Q ss_pred             HHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHH--HHHCCCCC
Q ss_conf             9678987545300100010134212323788755443102221111210353220554240001456777--66303434
Q gi|254780217|r   84 MASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKS--LEEPPQKV  161 (347)
Q Consensus        84 i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~--LEEPp~~t  161 (347)
                      +...-       ......   .    =..+-.|.+.+++......|+.=|+|||+|+.|+.++...|.-.  +|....+-
T Consensus        91 i~~~l-------g~~~~~---~----~~~~~~~~l~~~L~~~~~~g~~~vliIDEAq~L~~~~Le~Lr~L~n~e~~~~~l  156 (269)
T TIGR03015        91 VAADF-------GLETEG---R----DKAALLRELEDFLIEQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKL  156 (269)
T ss_pred             HHHHC-------CCCCCC---C----CHHHHHHHHHHHHHHHHHCCCCEEEEEECHHHCCHHHHHHHHHHHCCCCCCCCC
T ss_conf             99985-------989889---8----999999999999999996699469997242219999999999997013588870


Q ss_pred             CEEEEECCCC---C----CCHHHHCEE-EEEECCCCCHHHHHHHHHHH----C----CCCCHHHHHHHHHHCCCCHHHHH
Q ss_conf             1676504433---5----730252036-98864799989999999972----7----88896789999997598978999
Q gi|254780217|r  162 LFILISHASP---T----ILSTIRSRC-LSIKFNSLSENNLYKALEQL----K----IMGWDSKRDFVKIAAYGSVARAI  225 (347)
Q Consensus       162 ~fiLit~~~~---~----il~TI~SRc-~~i~f~~l~~~~~~~~L~~~----~----~~~~~~~~~~~~~~s~Gs~~~A~  225 (347)
                      +-++.+-+|+   +    -++.+++|- ..+++.|++.+++..++..-    +    .-..+++...+...|.|.||..=
T Consensus       157 l~iiL~GqpeL~~~L~~~~~~~l~qRI~~~~~L~pl~~eet~~YI~~RL~~AG~~~~~~Ft~~A~~~I~~~S~G~PR~IN  236 (269)
T TIGR03015       157 LQIFLVGQPEFRETLQSPQLQQLRQRIIASCHLGPLDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLIN  236 (269)
T ss_pred             EEEEEECCHHHHHHHCCCCHHHHHHCEEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCCHHHHH
T ss_conf             48999578679998727402545550767998479998999999999998669999998599999999998699008999


Q ss_pred             HHHC
Q ss_conf             8814
Q gi|254780217|r  226 KILH  229 (347)
Q Consensus       226 ~ll~  229 (347)
                      .+.+
T Consensus       237 ~Lc~  240 (269)
T TIGR03015       237 ILCD  240 (269)
T ss_pred             HHHH
T ss_conf             9999


No 76 
>PRK10865 protein disaggregation chaperone; Provisional
Probab=98.89  E-value=5.5e-08  Score=83.98  Aligned_cols=197  Identities=13%  Similarity=0.092  Sum_probs=126.6

Q ss_pred             CCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCC
Q ss_conf             75656109299999999999828898166311798988899999999998177998864312101267886799996789
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHA   88 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~   88 (347)
                      -..+.|+|.++.++.+...+...+=.+ -++.|+||+|||..+..+|+.|.....+..    ....              
T Consensus       175 gkldpvIGRd~EI~r~i~IL~RR~KNN-piLvGepGVGKTAIvEGLA~rI~~g~VP~~----L~~~--------------  235 (857)
T PRK10865        175 GKLDPVIGRDEEIRRTIQVLQRRTKNN-PVLIGEPGVGKTAIVEGLAQRIINGEVPEG----LKGR--------------  235 (857)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHCCCCCC-CEEECCCCCCHHHHHHHHHHHHHCCCCCHH----HCCC--------------
T ss_conf             999988582999999999970257899-758789998899999999999983899978----8169--------------


Q ss_pred             CCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHC--------CHHHHHHHHHHHHHCCCC
Q ss_conf             875453001000101342123237887554431022211112103532205542--------400014567776630343
Q gi|254780217|r   89 LHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGM--------NRNAANALLKSLEEPPQK  160 (347)
Q Consensus        89 hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~l--------n~~AaNALLK~LEEPp~~  160 (347)
                        .++.++...--.+-+.+... =+-+..+++.+..+   .+.=|.+||++|.+        +.+|+|-|--.|-.  ..
T Consensus       236 --~I~~LDlg~L~AGakyRGeF-EeRLk~il~ev~~~---~~~iILFIDEiHtlvGaG~~~G~~DaaNlLKPaLaR--Ge  307 (857)
T PRK10865        236 --RVLALDMGALVAGAKYRGEF-EERLKGVLNDLAKQ---EGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR--GE  307 (857)
T ss_pred             --CEEEEEHHHHHHCCCCCHHH-HHHHHHHHHHHHHC---CCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHHC--CC
T ss_conf             --02473388786147652117-99999999999847---898699973435433688777753478886788737--98


Q ss_pred             CCEEEEECCCC--CC---CHHHHCEEEEEECCCCCHHHHHHHHHH--------HCCCCCHHHHHHHHHHCCC------CH
Q ss_conf             41676504433--57---302520369886479998999999997--------2788896789999997598------97
Q gi|254780217|r  161 VLFILISHASP--TI---LSTIRSRCLSIKFNSLSENNLYKALEQ--------LKIMGWDSKRDFVKIAAYG------SV  221 (347)
Q Consensus       161 t~fiLit~~~~--~i---l~TI~SRc~~i~f~~l~~~~~~~~L~~--------~~~~~~~~~~~~~~~~s~G------s~  221 (347)
                      -.+|-.|+.-+  +.   -+.+--|.|.+.+..|+.++...+|..        .+..+.++++..+..+|.-      =|
T Consensus       308 lr~IGATT~~EYrk~iEkD~AL~RRFq~V~V~EPs~e~ti~ILrgl~~~yE~hH~V~itdeAl~aAV~LS~RYI~dR~LP  387 (857)
T PRK10865        308 LHCVGATTLDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAILRGLKERYELHHHVQITDPAIVAAATLSHRYIADRQLP  387 (857)
T ss_pred             CEEEEECCHHHHHHHCCCCHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEECHHHHHHHHHHHHCCCCCCCCC
T ss_conf             54999458999998713458899853710068998799999999888899873791587999999999862456666781


Q ss_pred             HHHHHHHCCCH
Q ss_conf             89998814577
Q gi|254780217|r  222 ARAIKILHYDC  232 (347)
Q Consensus       222 ~~A~~ll~~~~  232 (347)
                      .+|+.+++...
T Consensus       388 DKAIDLLDeA~  398 (857)
T PRK10865        388 DKAIDLIDEAA  398 (857)
T ss_pred             HHHHHHHHHHH
T ss_conf             48988999998


No 77 
>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=98.88  E-value=4.3e-09  Score=92.84  Aligned_cols=115  Identities=23%  Similarity=0.200  Sum_probs=72.3

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHH
Q ss_conf             63117989888999999999981779988643121012678867999967898754530010001013421232378875
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIR  116 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR  116 (347)
                      +|||||||+||+++|+++|+.+-..       .-..               +-+++.  .. +.   +     -+.+.++
T Consensus         1 iLl~GppGtGKT~~a~~la~~~~~~-------~~~v---------------~~~~~~--~~-~~---g-----~~~~~i~   47 (131)
T pfam00004         1 LLLYGPPGTGKTTLAKAVAKELGAP-------FIEI---------------SGSELV--SK-YV---G-----ESEKRLR   47 (131)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHCCC-------CEEC---------------CCCCCC--CC-CC---C-----HHHHHHH
T ss_conf             9878999999999999999997898-------5332---------------420122--23-34---5-----0688899


Q ss_pred             HHHHHCCCCCCCCCCHHHHHHHHHHCCHH-----------HHHHHHHHHHH---CCCCCCEEEEECCCCCCCHHHH-CEE
Q ss_conf             54431022211112103532205542400-----------01456777663---0343416765044335730252-036
Q gi|254780217|r  117 RIRYFLSLTANTGYWRVIMIDPVDGMNRN-----------AANALLKSLEE---PPQKVLFILISHASPTILSTIR-SRC  181 (347)
Q Consensus       117 ~l~~~~~~~~~~~~~Ki~IId~ad~ln~~-----------AaNALLK~LEE---Pp~~t~fiLit~~~~~il~TI~-SRc  181 (347)
                      .+.+....    ....|++|||+|.+..+           +.++||..|+.   +..+.+||.+||++++|.|-++ |||
T Consensus        48 ~~f~~a~~----~~p~Il~iDe~d~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v~~I~tTN~~~~ld~al~r~Rf  123 (131)
T pfam00004        48 ELFEAAKK----LAPCVIFIDEIDALAGSRGSGGDSESRRVVNQLLTELDGFTSSLSKVIVIAATNRPDKLDPALLRGRF  123 (131)
T ss_pred             HHHHHHHH----CCCCEEEECHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEEECCCHHHCCHHHHCCCC
T ss_conf             99999997----49918983116777516788888751326878999985022468876999975990449977962833


Q ss_pred             EEEECCC
Q ss_conf             9886479
Q gi|254780217|r  182 LSIKFNS  188 (347)
Q Consensus       182 ~~i~f~~  188 (347)
                      ..+-.-|
T Consensus       124 d~~i~~p  130 (131)
T pfam00004       124 DRIIEFP  130 (131)
T ss_pred             EEEEEEC
T ss_conf             2899806


No 78 
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=98.86  E-value=4.5e-08  Score=84.63  Aligned_cols=185  Identities=15%  Similarity=0.193  Sum_probs=116.9

Q ss_pred             CCCHHHHCCHHHHHHHHHHHHH-----------CCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCC
Q ss_conf             8756561092999999999998-----------28898166311798988899999999998177998864312101267
Q gi|254780217|r    8 PVYNQRLFGHEDIEKFLSQYYC-----------SGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP   76 (347)
Q Consensus         8 p~~~~~i~G~~~~~~~L~~~~~-----------~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~   76 (347)
                      ...|+||.|.+++++.|.....           ..|+|-+.|++||||+|||.+|+++|..       .+.|.-.++   
T Consensus       148 ~vtF~DVaG~~eaK~el~EiVdfLk~P~k~~~~Gak~PkGvLL~GPPGtGKTlLAkAvAgE-------a~vpF~~~s---  217 (644)
T PRK10733        148 KTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGE-------AKVPFFTIS---  217 (644)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHCHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHCC-------CCCEEEEEE---
T ss_conf             8771040897899999999999812979999749979985177798998778999998645-------598089978---


Q ss_pred             CCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC-------------
Q ss_conf             8867999967898754530010001013421232378875544310222111121035322055424-------------
Q gi|254780217|r   77 CSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMN-------------  143 (347)
Q Consensus        77 ~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln-------------  143 (347)
                                  .+++...-.           -.+-.-||++=+....    ..-.|++||++|.+-             
T Consensus       218 ------------gsef~e~~v-----------Gvga~rVR~lF~~Ar~----~aP~IIFIDEiDaig~~R~~~~~gg~~e  270 (644)
T PRK10733        218 ------------GSDFVEMFV-----------GVGASRVRDMFEQAKK----AAPCIIFIDEIDAVGRQRGAGLGGGHDE  270 (644)
T ss_pred             ------------HHHHHHEEE-----------ECCHHHHHHHHHHHHH----CCCEEEEEECHHCCCCCCCCCCCCCCHH
T ss_conf             ------------477302225-----------3068999999999996----6997999953220366678988898328


Q ss_pred             -HHHHHHHHHHHH--HCCCCCCEEEEECCCCCCCHHHHC--EE-EEEECCCCCHHHHHHHHHHHCCC---CCHHHHHHHH
Q ss_conf             -000145677766--303434167650443357302520--36-98864799989999999972788---8967899999
Q gi|254780217|r  144 -RNAANALLKSLE--EPPQKVLFILISHASPTILSTIRS--RC-LSIKFNSLSENNLYKALEQLKIM---GWDSKRDFVK  214 (347)
Q Consensus       144 -~~AaNALLK~LE--EPp~~t~fiLit~~~~~il~TI~S--Rc-~~i~f~~l~~~~~~~~L~~~~~~---~~~~~~~~~~  214 (347)
                       .+.-|.||--|.  ++..+++.|-.||.|+.|-|.++-  |- +++.+..|+.+.-.++|+-...+   .++-....++
T Consensus       271 ~~~tlNqlL~EmDGf~~~~~ViviaATNrpd~LD~ALlRPGRFDr~I~V~lPd~~~R~~ILkvh~~~~~l~~dvdl~~lA  350 (644)
T PRK10733        271 REQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIA  350 (644)
T ss_pred             HHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCHHHHCCCCCCEEEEECCCCHHHHHHHHHHHHCCCCCCCCCCHHHHH
T ss_conf             88789999999548888787699962699755477771688865599977989889999999996488777311589884


Q ss_pred             HHCCCCHHHHH-HHHC
Q ss_conf             97598978999-8814
Q gi|254780217|r  215 IAAYGSVARAI-KILH  229 (347)
Q Consensus       215 ~~s~Gs~~~A~-~ll~  229 (347)
                      ..+.|--|..+ ++++
T Consensus       351 ~~T~GfSGADLaNlvN  366 (644)
T PRK10733        351 RGTPGFSGADLANLVN  366 (644)
T ss_pred             CCCCCCCHHHHCCHHH
T ss_conf             4599867033325999


No 79 
>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=3.4e-07  Score=77.58  Aligned_cols=176  Identities=16%  Similarity=0.187  Sum_probs=114.1

Q ss_pred             CCHHHHCC--HHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHC
Q ss_conf             75656109--2999999999998288981663117989888999999999981779988643121012678867999967
Q gi|254780217|r    9 VYNQRLFG--HEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMAS   86 (347)
Q Consensus         9 ~~~~~i~G--~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~   86 (347)
                      .+|+++++  ...+...+.+...... .+.+.+|||+|+|||.++.+++......                         
T Consensus        12 ~tfdnFi~~~N~~~~~~l~~~~~~~~-~~~l~i~G~~GsGKTHLl~a~~~~~~~~-------------------------   65 (226)
T TIGR03420        12 PTFDNFYAGGNAELLAALRQLAAGKG-DRFLYLWGESGSGKSHLLQAACAAAEER-------------------------   65 (226)
T ss_pred             CCHHCCCCCCHHHHHHHHHHHHHCCC-CCEEEEECCCCCCHHHHHHHHHHHHHCC-------------------------
T ss_conf             76312365867999999998764668-8869998999998899999999998626-------------------------


Q ss_pred             CCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH--HHHHHHHHHHHHCCC-CCCE
Q ss_conf             8987545300100010134212323788755443102221111210353220554240--001456777663034-3416
Q gi|254780217|r   87 HALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR--NAANALLKSLEEPPQ-KVLF  163 (347)
Q Consensus        87 ~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~--~AaNALLK~LEEPp~-~t~f  163 (347)
                        ....++++...-           .+...++.+.+      ...-+++||++|.+..  ..+.+|..++-.--. +..+
T Consensus        66 --~~~~~yl~~~~~-----------~~~~~~~l~~l------~~~d~l~iDDi~~i~~~~~~e~~lF~l~N~~~~~~~~i  126 (226)
T TIGR03420        66 --GKSAIYLPLAEL-----------AQADPEVLEGL------EQADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRL  126 (226)
T ss_pred             --CCCEEEECHHHH-----------HHHHHHHHHHC------CCCCEEEEECHHHHCCCHHHHHHHHHHHHHHHHHCCEE
T ss_conf             --995799529998-----------77539999727------44899999663334378378999999999998652828


Q ss_pred             EEEECCCCC----CCHHHHCE---EEEEECCCCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHHHHHC
Q ss_conf             765044335----73025203---69886479998999999997----27888967899999975989789998814
Q gi|254780217|r  164 ILISHASPT----ILSTIRSR---CLSIKFNSLSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAIKILH  229 (347)
Q Consensus       164 iLit~~~~~----il~TI~SR---c~~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~  229 (347)
                      +++++.+-.    .+|-++||   +..+.+.+|+.++...+|.+    .+...+++..++++.-...+++....+++
T Consensus       127 lits~~~p~~l~~~l~dL~SRl~~~~~~~I~~pdd~~~~~iL~k~~~~r~i~i~~~vi~yl~~r~~R~~~~l~~~l~  203 (226)
T TIGR03420       127 LIAGRAAPAQLPLRLPDLRTRLAWGLVFQLPPLSDEEKIAALQSRAARRGLQLPDEVADYLLRHGSRDMGSLMALLD  203 (226)
T ss_pred             EEECCCCHHHCCCCHHHHHHHHHCCCEEECCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             98678882320320177999996885685279999999999999999859988999999999863798999999999


No 80 
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=98.83  E-value=9.9e-06  Score=65.79  Aligned_cols=169  Identities=9%  Similarity=0.061  Sum_probs=117.8

Q ss_pred             HHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHH
Q ss_conf             99999998288981663117989888999999999981779988643121012678867999967898754530010001
Q gi|254780217|r   22 KFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNP  101 (347)
Q Consensus        22 ~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~  101 (347)
                      +.|++.++++ +++.|||||+.--=+......+...+.....                        ...++..++     
T Consensus         5 ~~l~~~lkk~-l~pvyli~G~e~~li~~~~~~i~~~~~~~~~------------------------~~~n~~~~d-----   54 (336)
T PRK05574          5 EQLEAHLKKG-LAPVYLLYGDEPLLLQEAKDAIRAAARAQGF------------------------DERNVFTVD-----   54 (336)
T ss_pred             HHHHHHHHCC-CCCEEEEECCHHHHHHHHHHHHHHHHHCCCC------------------------CCEEEEEEE-----
T ss_conf             9999998278-9867999858699999999999998607786------------------------530589971-----


Q ss_pred             HCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH----HHHHHHHHHHHHCCCCCCEEEEECCCC------
Q ss_conf             0134212323788755443102221111210353220554240----001456777663034341676504433------
Q gi|254780217|r  102 KTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR----NAANALLKSLEEPPQKVLFILISHASP------  171 (347)
Q Consensus       102 k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~----~AaNALLK~LEEPp~~t~fiLit~~~~------  171 (347)
                           +....+   .++...+...|+.|++|+|||.+++.+..    .....|.+.++.||+.|.+++++....      
T Consensus        55 -----~~~~~~---~~l~~~~~t~slf~~krlViv~~~~~~~~k~~~~~l~~l~~~l~~~~~~~~lvli~~~~~~d~~~k  126 (336)
T PRK05574         55 -----GSETDW---DDVLEACQSLPLFSDRKLVELRLPEGLTGKKGEEALKRLEAYLENPLPHTDLLLLAPLPKLDKRKE  126 (336)
T ss_pred             -----CCCCCH---HHHHHHHCCCCCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCHHHH
T ss_conf             -----686999---999998648997789759999888766531137999999998707999976999987786336888


Q ss_pred             --CCCHHHHCEEEEEECCCCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             --57302520369886479998999999997----2788896789999997598978999881
Q gi|254780217|r  172 --TILSTIRSRCLSIKFNSLSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAIKIL  228 (347)
Q Consensus       172 --~il~TI~SRc~~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~~ll  228 (347)
                        +...++..-+..+.|.++...++..|+.+    .+..+++++...++..+.|+.+.+.+-+
T Consensus       127 ~~k~~k~l~~~~~~i~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~dl~~l~~El  189 (336)
T PRK05574        127 KSAWFKALKKKAVVVEAQTPKEAELPQWIQQRLKQQGLRIDAAALQLLAERVEGNLLALAQEI  189 (336)
T ss_pred             HHHHHHHHHHCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCHHHHHHHH
T ss_conf             899999998480799806999899999999999984999898999999997211399999999


No 81 
>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=98.77  E-value=1e-08  Score=89.89  Aligned_cols=137  Identities=23%  Similarity=0.266  Sum_probs=89.1

Q ss_pred             EEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHH
Q ss_conf             66311798988899999999998177998864312101267886799996789875453001000101342123237887
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEI  115 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~I  115 (347)
                      =+-|+||||||||++|+.+|++|.=..-  .-..|.....+.=+--|+-.-|+-|.                        
T Consensus       452 IlClvGPPGVGKTSlg~SIA~ALnRkFv--R~SlGG~~DeAEIrGHRRTYvGAMPG------------------------  505 (941)
T TIGR00763       452 ILCLVGPPGVGKTSLGKSIAKALNRKFV--RFSLGGVRDEAEIRGHRRTYVGAMPG------------------------  505 (941)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCEEE--EEEECCCEEHHHCCCCCCCCCCCCHH------------------------
T ss_conf             7872072695422278999999688049--99526722031127864320346725------------------------


Q ss_pred             HHHHHHCCCCCCCCCCHHHHHHHHHHCC--HHH----HHHHHHHHH-------------HCC--CCCC--EEEEECCCCC
Q ss_conf             5544310222111121035322055424--000----145677766-------------303--4341--6765044335
Q gi|254780217|r  116 RRIRYFLSLTANTGYWRVIMIDPVDGMN--RNA----ANALLKSLE-------------EPP--QKVL--FILISHASPT  172 (347)
Q Consensus       116 R~l~~~~~~~~~~~~~Ki~IId~ad~ln--~~A----aNALLK~LE-------------EPp--~~t~--fiLit~~~~~  172 (347)
                       .|+.-+-.....++  |++||++|.|.  .+-    |-|||=.|=             .|=  ++++  ||.++|+.+.
T Consensus       506 -riiQ~lk~~~t~NP--l~LlDEIDK~~~~~~~~GDPaSALLEvLDPEQN~~F~DHYldvp~DLS~V~CyFi~TAN~~d~  582 (941)
T TIGR00763       506 -RIIQGLKKAKTKNP--LILLDEIDKIGLKSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVLCYFIATANSIDT  582 (941)
T ss_pred             -HHHHHHHHCCCCCC--EEEEEEEEEECCCCCCCCCHHHHHHHHCCHHHCCCCCCCCCCCCCCHHHHHHHEEECCCCCCC
T ss_conf             -78999876041588--068620220016788655637888641286436042553002340042002100024475767


Q ss_pred             CCHHHHCEEEEEECCCCCHHHHHHHHHHH
Q ss_conf             73025203698864799989999999972
Q gi|254780217|r  173 ILSTIRSRCLSIKFNSLSENNLYKALEQL  201 (347)
Q Consensus       173 il~TI~SRc~~i~f~~l~~~~~~~~L~~~  201 (347)
                      ||+++|-|-=.|.++.-..+|=.++-.++
T Consensus       583 IP~PLLDRMEvI~lsGY~~~EK~~IA~~y  611 (941)
T TIGR00763       583 IPRPLLDRMEVIELSGYTEEEKLEIAKKY  611 (941)
T ss_pred             CCCCCCCCEEEEECCCCCHHHHHHHHHHC
T ss_conf             77221374024523888767899999854


No 82 
>PRK10865 protein disaggregation chaperone; Provisional
Probab=98.76  E-value=1.2e-05  Score=65.13  Aligned_cols=133  Identities=19%  Similarity=0.294  Sum_probs=90.4

Q ss_pred             HHHCCHHHHHHHHHHHHHCCC--------CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCC-CCCCHHHCCCCCCCHHHH
Q ss_conf             561092999999999998288--------98166311798988899999999998177998-864312101267886799
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYYCSGR--------MHHALLFEGEQGIGKATLGFRYAGHVLQNPDF-SKAPVRMCNPDPCSPFVK   82 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~~~~~--------l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~-~~~~~~~~~~~~~~~~~~   82 (347)
                      ..|+||+++++.+.+++...|        .--++||.||.|+|||.+|.++|..|+..... -...+.+...  .|.+-+
T Consensus       568 ~rViGQd~AI~~v~~aI~~sraGL~dp~rPiGsFLFlGPTGVGKTElAK~LA~~LF~~e~~liriDMSEy~E--~hsVSr  645 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMSEFME--KHSVSR  645 (857)
T ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHCCHHHEEEECCHHHCC--CHHHHH
T ss_conf             785280999999999999986389999997389998689878889999999999838933425625332113--012767


Q ss_pred             HHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCC----
Q ss_conf             9967898754530010001013421232378875544310222111121035322055424000145677766303----
Q gi|254780217|r   83 QMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPP----  158 (347)
Q Consensus        83 ~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp----  158 (347)
                      .  -|+-|.|.=++    + +|     .-.+.|       ..+|    |-|+++|++|+-+.+-.|.||-+|.|--    
T Consensus       646 L--iGaPPGYVGy~----e-GG-----~LTeaV-------Rr~P----ySVvLfDEIEKAHpdV~nilLQvlD~G~LtD~  702 (857)
T PRK10865        646 L--VGAPPGYVGYE----E-GG-----YLTEAV-------RRRP----YSVILLDEVEKAHPDVFNILLQVLDDGRLTDG  702 (857)
T ss_pred             H--CCCCCCCCCCC----C-CC-----CHHHHH-------HHCC----CEEEEEHHHHHHCHHHHHHHHHHHCCCEEECC
T ss_conf             5--58998766757----7-88-----110999-------8198----77886325766385899999987036832079


Q ss_pred             -------CCCCEEEEECC
Q ss_conf             -------43416765044
Q gi|254780217|r  159 -------QKVLFILISHA  169 (347)
Q Consensus       159 -------~~t~fiLit~~  169 (347)
                             .||++||+||=
T Consensus       703 ~Gr~vdF~NtIIImTSN~  720 (857)
T PRK10865        703 QGRTVDFRNTVVIMTSNL  720 (857)
T ss_pred             CCCEEEEEEEEEEECCCH
T ss_conf             998885133489964623


No 83 
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=98.76  E-value=4.1e-07  Score=76.92  Aligned_cols=192  Identities=15%  Similarity=0.162  Sum_probs=106.4

Q ss_pred             CCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCC--CCCCCHHHCCCCCCCH
Q ss_conf             66555587565610929999999999982889816631179898889999999999817799--8864312101267886
Q gi|254780217|r    2 IDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPD--FSKAPVRMCNPDPCSP   79 (347)
Q Consensus         2 ~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~--~~~~~~~~~~~~~~~~   79 (347)
                      +++.+=|  |+.|+||++++..|.-+.-..++.| .|+.|++|+||+|+|+++|.-|---..  .....|....++..+.
T Consensus         4 ~~~~~fP--f~aIvGQe~~k~aLll~av~p~iGg-VLi~G~~GtgKStlvRala~lLP~i~~v~~~~f~~~p~~p~~~~~   80 (347)
T CHL00081          4 IARPVFP--FTAIVGQEEMKLALLLNVIDPKIGG-VMIMGDRGTGKSTTIRALVDLLPEIEVVKNDPFNSDPRDPDLMSD   80 (347)
T ss_pred             CCCCCCC--HHHHCCHHHHHHHHHHHHCCCCCCE-EEEECCCCCCHHHHHHHHHHHCCCCEEECCCCCCCCCCCCCCCCH
T ss_conf             7778898--4065384999999999825788786-998789987499999999985787422068876789898100242


Q ss_pred             HH-HHHHCCCCCCEEE-----ECCCCHHHCCCCCCCCCHHHHHHHHHH-CCCCC---CCCCCHHHHHHHHHHCCHHHHHH
Q ss_conf             79-9996789875453-----001000101342123237887554431-02221---11121035322055424000145
Q gi|254780217|r   80 FV-KQMASHALHDFLY-----LSYSLNPKTGKWRTVITVDEIRRIRYF-LSLTA---NTGYWRVIMIDPVDGMNRNAANA  149 (347)
Q Consensus        80 ~~-~~i~~~~hpd~~~-----i~~~~~~k~~~~~~~I~vd~IR~l~~~-~~~~~---~~~~~Ki~IId~ad~ln~~AaNA  149 (347)
                      .| ..+..+.......     ++.+.+-...+.-..|-++.  .+..- -...|   ....+-|..||++..+...-+|+
T Consensus        81 ~~~~~~~~~~~~~~~~~~~p~v~lPlgaTEDrv~GslDie~--al~~G~~~f~pGlLa~A~rGiLyvDEINll~d~~v~~  158 (347)
T CHL00081         81 EVRERIRNGEKIPTKKIKIPMVDLPLGATEDRVCGTIDIEK--ALTEGVKAFEPGLLAKANRGILYVDEVNLLDDHLVDI  158 (347)
T ss_pred             HHHHHHCCCCCCCCEECCCCEEECCCCCCCCEECCCHHHHH--HHHCCCCCCCCCHHHHCCCCEEEEEHHHHHHHHHHHH
T ss_conf             66654314666752114686253688885230114000998--9845871156531222038858861454323799999


Q ss_pred             HHHHHHHCCCCC------------CEEEE-ECCCC--CCCHHHHCEE-EEEECC-CCCHHHHHHHHH
Q ss_conf             677766303434------------16765-04433--5730252036-988647-999899999999
Q gi|254780217|r  150 LLKSLEEPPQKV------------LFILI-SHASP--TILSTIRSRC-LSIKFN-SLSENNLYKALE  199 (347)
Q Consensus       150 LLK~LEEPp~~t------------~fiLi-t~~~~--~il~TI~SRc-~~i~f~-~l~~~~~~~~L~  199 (347)
                      ||-.+++ ..++            .|+|+ |-||.  .+.|-+.-|- ..+.+. +.+.++-.+++.
T Consensus       159 LLda~a~-G~~~VEReG~S~~~Pa~F~liaT~NPeEgeLrp~llDRF~l~v~v~~~~~~e~R~eiv~  224 (347)
T CHL00081        159 LLDSAAS-GWNTVEREGISIRHPARFVLIGSGNPEEGELRPQLLDRFGMHAEIRTVKDPELRVKIVE  224 (347)
T ss_pred             HHHHHHC-CEEEECCCCEEECCCCCEEEEECCCCCCCCCCHHHHHHEEEEEECCCCCCHHHHHHHHH
T ss_conf             9999855-80898046423305750068855786556748888826322674588789899999999


No 84 
>PRK08487 DNA polymerase III subunit delta; Validated
Probab=98.75  E-value=8.2e-06  Score=66.47  Aligned_cols=166  Identities=14%  Similarity=0.111  Sum_probs=115.5

Q ss_pred             HHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCH
Q ss_conf             99999999828898166311798988899999999998177998864312101267886799996789875453001000
Q gi|254780217|r   21 EKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLN  100 (347)
Q Consensus        21 ~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~  100 (347)
                      .+.|.+.+++|++|.+|||||+..-=-..++..++..+-+...                 .         ..++++    
T Consensus         3 k~e~d~~ik~~~~~~~ylLyG~d~fli~~y~~~I~~~~~~~~~-----------------~---------~~~yfd----   52 (328)
T PRK08487          3 KKELDTLLKQNKLPNAFFLYGEDEFQIEYYAKEISSKFKPEEL-----------------L---------KELYFD----   52 (328)
T ss_pred             HHHHHHHHHCCCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCH-----------------H---------HHCCCC----
T ss_conf             6899999865988845999568575899999999998577521-----------------1---------200226----


Q ss_pred             HHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCC------C
Q ss_conf             1013421232378875544310222111121035322055424000145677766303434167650443357------3
Q gi|254780217|r  101 PKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTI------L  174 (347)
Q Consensus       101 ~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~i------l  174 (347)
                      +        ...++   +...+...|..|+.|+++|.....+.......|+..+|.||.+++++.......+-      .
T Consensus        53 E--------~d~~~---i~~~l~~~sLFg~~klv~IK~~~ki~~k~l~~Li~~~~~~~~n~~Ii~~~~~~~k~~~~~k~~  121 (328)
T PRK08487         53 E--------YNFSQ---AKDFLSQGSLFGGKNLLVIKTDKKIPKKELKLLIELCEKNSDNFFIIELYEASMKSSDTEKIF  121 (328)
T ss_pred             C--------CCHHH---HHHHHHCCCCCCCCEEEEEECCCCCCCCHHHHHHHHHHCCCCCEEEEEECCCHHHHHHHHHHH
T ss_conf             5--------78899---999973515347774799957774552269999998628977789999706133456788877


Q ss_pred             HHHHCEEEEEECCCCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             02520369886479998999999997----2788896789999997598978999881
Q gi|254780217|r  175 STIRSRCLSIKFNSLSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAIKIL  228 (347)
Q Consensus       175 ~TI~SRc~~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~~ll  228 (347)
                      ++.. =+..++|-+++..++..|+..    .+..++++++..+.....++...+.+=+
T Consensus       122 ~~~~-~~~~V~ff~p~~~el~~~i~~~ak~~g~~Is~~al~~L~e~~g~dL~~~~nEL  178 (328)
T PRK08487        122 TPKF-IAKFVRFFKPNAWEALKLLQERAKELGLDIDQNALNHLFEIQNENLYLAANEL  178 (328)
T ss_pred             HHHC-CEEEEEECCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCCHHHHHHHH
T ss_conf             6633-62377513998689999999999991997799999999998596399999899


No 85 
>KOG1970 consensus
Probab=98.74  E-value=4.5e-07  Score=76.58  Aligned_cols=204  Identities=15%  Similarity=0.174  Sum_probs=118.8

Q ss_pred             CCCCCCCHHHHCCHHHHHHHHHHHHH-----CCCCCE-EEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCC
Q ss_conf             55558756561092999999999998-----288981-663117989888999999999981779988643121012678
Q gi|254780217|r    4 RAFDPVYNQRLFGHEDIEKFLSQYYC-----SGRMHH-ALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPC   77 (347)
Q Consensus         4 ~~~~p~~~~~i~G~~~~~~~L~~~~~-----~~~l~h-a~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~   77 (347)
                      .||+|+..+++.-|+.-+.....++.     ...++| -+|++||.|+||+|+...+++-+--.--.-..|.. |     
T Consensus        74 eKy~P~t~eeLAVHkkKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskelg~~~~Ew~Npi~-~-----  147 (634)
T KOG1970          74 EKYKPRTLEELAVHKKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKELGYQLIEWSNPIN-L-----  147 (634)
T ss_pred             HHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCHHHHHHHHHHHCCEEEEECCCCC-C-----
T ss_conf             7608562888755177489999999999974536676079985798887131999999864802123047766-5-----


Q ss_pred             CHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHH---------CCCC--CCCCCCHHHHHHHHHHCCHH-
Q ss_conf             86799996789875453001000101342123237887554431---------0222--11112103532205542400-
Q gi|254780217|r   78 SPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYF---------LSLT--ANTGYWRVIMIDPVDGMNRN-  145 (347)
Q Consensus        78 ~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~---------~~~~--~~~~~~Ki~IId~ad~ln~~-  145 (347)
                          + .-...|-+-....       ..     -.-+++....|         +...  -..++.|+++|++.-..... 
T Consensus       148 ----~-~~~~~h~~t~~~~-------~~-----~~s~L~~fesFler~~kyg~l~~~g~~~~~~~~liLveDLPn~~~~d  210 (634)
T KOG1970         148 ----K-EPENLHNETSFLM-------FP-----YQSQLAVFESFLLRATKYGSLQMSGDDLRTDKKLILVEDLPNQFYRD  210 (634)
T ss_pred             ----C-CCCCCCCCCHHCC-------CC-----HHHHHHHHHHHHHHHHHHCHHHHCCCCCCCCCEEEEEECCCHHHHHH
T ss_conf             ----6-6555455440013-------30-----36678999989999876231653133334675079850261444003


Q ss_pred             HH----HHHHHHHHHCCCCCCEEEEEC------CCCCCCH---HHHCEEEEEECCCCCHHHHHHHHHHH----CCCCC--
Q ss_conf             01----456777663034341676504------4335730---25203698864799989999999972----78889--
Q gi|254780217|r  146 AA----NALLKSLEEPPQKVLFILISH------ASPTILS---TIRSRCLSIKFNSLSENNLYKALEQL----KIMGW--  206 (347)
Q Consensus       146 Aa----NALLK~LEEPp~~t~fiLit~------~~~~il~---TI~SRc~~i~f~~l~~~~~~~~L~~~----~~~~~--  206 (347)
                      +.    |-|....-+|---++||++-.      +..++-+   +..-|.-.+.|+|+...-|++.|+.+    .....  
T Consensus       211 ~~~~f~evL~~y~s~g~~PlIf~iTd~~~~g~nnq~rlf~~d~q~~~ri~~IsFNPIa~T~MKK~L~ric~~e~~~~s~~  290 (634)
T KOG1970         211 DSETFREVLRLYVSIGRCPLIFIITDSLSNGNNNQDRLFPKDIQEEPRISNISFNPIAPTIMKKFLKRICRIEANKKSGI  290 (634)
T ss_pred             HHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCHHHHCHHHHHHCCCCCEEEECCCCHHHHHHHHHHHHHHHCCCCCCC
T ss_conf             69999999999984577767999863535787634342426565335852476157767999999999999862666667


Q ss_pred             ----HHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf             ----678999999759897899988145
Q gi|254780217|r  207 ----DSKRDFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       207 ----~~~~~~~~~~s~Gs~~~A~~ll~~  230 (347)
                          ....+.+...+.|++|-|++.++-
T Consensus       291 k~~~~~~v~~i~~~s~GDIRsAInsLQl  318 (634)
T KOG1970         291 KVPDTAEVELICQGSGGDIRSAINSLQL  318 (634)
T ss_pred             CCCHHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             6750679999987527739999877533


No 86 
>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=98.71  E-value=8.7e-06  Score=66.26  Aligned_cols=134  Identities=19%  Similarity=0.315  Sum_probs=90.3

Q ss_pred             HHHCCHHHHHHHHHHHHHCCC--------CCEEEEECCCCCCCHHHHHHHHHHHHHCCCC-CCCCCHHHCCCCCCCHHHH
Q ss_conf             561092999999999998288--------9816631179898889999999999817799-8864312101267886799
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYYCSGR--------MHHALLFEGEQGIGKATLGFRYAGHVLQNPD-FSKAPVRMCNPDPCSPFVK   82 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~~~~~--------l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~-~~~~~~~~~~~~~~~~~~~   82 (347)
                      ..|+||+++++.+.+++...|        .--++||.||.|+|||.+|.++|..|+-.+. .-.-.+.++..  .|.+.+
T Consensus       565 ~rViGQd~AI~~I~~aI~~sraGL~dp~rP~GsFlf~GptGvGKTELAKaLAe~Lfg~~~~LIriDMSEy~E--~hsvsr  642 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSEYME--KHSVAR  642 (852)
T ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHCCCCCEEEECHHHHCC--HHHHHH
T ss_conf             897170999999999999997188889997458998678877689999999999855852069843044301--224778


Q ss_pred             HHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCC----
Q ss_conf             9967898754530010001013421232378875544310222111121035322055424000145677766303----
Q gi|254780217|r   83 QMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPP----  158 (347)
Q Consensus        83 ~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp----  158 (347)
                      .  -|+-|.|.=.+    + +|     .-.+.||       .+    +|-|+++|++|+-+.+-.|.||-+|+|=-    
T Consensus       643 L--iGaPPGYVGy~----e-gG-----~Lte~vr-------~~----PysVvL~DEIEKAh~~V~~~lLQilD~G~ltD~  699 (852)
T TIGR03346       643 L--IGAPPGYVGYE----E-GG-----QLTEAVR-------RK----PYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDG  699 (852)
T ss_pred             H--CCCCCCCCCCC----C-CC-----EECHHHH-------HC----CCEEEEECCHHHHCHHHHHHHHHHHCCCEEECC
T ss_conf             5--58999767768----7-87-----4239898-------19----887998530543076899999988236743079


Q ss_pred             -------CCCCEEEEECCC
Q ss_conf             -------434167650443
Q gi|254780217|r  159 -------QKVLFILISHAS  170 (347)
Q Consensus       159 -------~~t~fiLit~~~  170 (347)
                             .||++||+||=-
T Consensus       700 ~Gr~vdF~NtiiimTSN~G  718 (852)
T TIGR03346       700 QGRTVDFRNTVIIMTSNLG  718 (852)
T ss_pred             CCCEEEEEEEEEEEECCCC
T ss_conf             9988853556898615406


No 87 
>KOG0730 consensus
Probab=98.71  E-value=2.6e-06  Score=70.45  Aligned_cols=182  Identities=18%  Similarity=0.121  Sum_probs=105.8

Q ss_pred             CCCCCHHHHCCHHHHHHHHHHHHHC-----------C-CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCC
Q ss_conf             5587565610929999999999982-----------8-898166311798988899999999998177998864312101
Q gi|254780217|r    6 FDPVYNQRLFGHEDIEKFLSQYYCS-----------G-RMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCN   73 (347)
Q Consensus         6 ~~p~~~~~i~G~~~~~~~L~~~~~~-----------~-~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~   73 (347)
                      ....+|++|=|++++++.|..++.-           | ..|-+.|||||||+||+++|+++|..-=|+.-.-        
T Consensus       428 ~p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsv--------  499 (693)
T KOG0730         428 MPNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMNFLSV--------  499 (693)
T ss_pred             CCCCCHHHCCCHHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCEEEC--------
T ss_conf             788782204578999999999986166565999872578875477778998624789999864635872641--------


Q ss_pred             CCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHH-------
Q ss_conf             2678867999967898754530010001013421232378875544310222111121035322055424000-------
Q gi|254780217|r   74 PDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNA-------  146 (347)
Q Consensus        74 ~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~A-------  146 (347)
                                    .-|.++-   .|...+        =.-||++=......+    --|+.+|++|.+-.+=       
T Consensus       500 --------------kgpEL~s---k~vGeS--------Er~ir~iF~kAR~~a----P~IiFfDEiDsi~~~R~g~~~~v  550 (693)
T KOG0730         500 --------------KGPELFS---KYVGES--------ERAIREVFRKARQVA----PCIIFFDEIDALAGSRGGSSSGV  550 (693)
T ss_pred             --------------CCHHHHH---HHCCCH--------HHHHHHHHHHHHHCC----CEEEEHHHHHHHHHCCCCCCCCH
T ss_conf             --------------5789987---751825--------899999999986269----83774466666663047875514


Q ss_pred             ----HHHHHHHHH--HCCCCCCEEEEECCCCCCCHHHHC--EE-EEEECCCCCHHHHHHHHHHHC--CCCCH-HHHHHHH
Q ss_conf             ----145677766--303434167650443357302520--36-988647999899999999727--88896-7899999
Q gi|254780217|r  147 ----ANALLKSLE--EPPQKVLFILISHASPTILSTIRS--RC-LSIKFNSLSENNLYKALEQLK--IMGWD-SKRDFVK  214 (347)
Q Consensus       147 ----aNALLK~LE--EPp~~t~fiLit~~~~~il~TI~S--Rc-~~i~f~~l~~~~~~~~L~~~~--~~~~~-~~~~~~~  214 (347)
                          -|.||+-|-  |--+++++|=.||.|+.|-+.+.+  |- +.+++.+++.+.-.++|+...  ....+ -.++.++
T Consensus       551 ~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkmp~~~~vdl~~La  630 (693)
T KOG0730         551 TDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKMPFSEDVDLEELA  630 (693)
T ss_pred             HHHHHHHHHHHCCCCCCCCCEEEEECCCCHHHCCHHHCCCCCCCEEEEECCCCHHHHHHHHHHHHHCCCCCCCCCHHHHH
T ss_conf             89999999987004101470899950588101269775986533057515834788999999997339998655699999


Q ss_pred             HHCCCCHHHH
Q ss_conf             9759897899
Q gi|254780217|r  215 IAAYGSVARA  224 (347)
Q Consensus       215 ~~s~Gs~~~A  224 (347)
                      ..++|--|.-
T Consensus       631 ~~T~g~SGAe  640 (693)
T KOG0730         631 QATEGYSGAE  640 (693)
T ss_pred             HHHCCCCHHH
T ss_conf             9854677389


No 88 
>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=98.70  E-value=9.3e-07  Score=74.07  Aligned_cols=213  Identities=17%  Similarity=0.181  Sum_probs=132.7

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHHHHH---C-CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCC-HHH----
Q ss_conf             96655558756561092999999999998---2-88981663117989888999999999981779988643-121----
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYC---S-GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAP-VRM----   71 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~~~~---~-~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~-~~~----   71 (347)
                      ||.--|-| -=+.|+|-++.++.|.++++   . |.-|..+++|||.|+|||..+..+.+.|--.....+.. +.-    
T Consensus         7 ~L~~dY~P-den~i~hRdeqI~~l~~~L~~~l~PG~~P~Ni~iYGkTGtGKT~vt~~v~~~l~~~~~~~d~~D~~~~~~N   85 (383)
T TIGR02928         7 LLEPDYVP-DENRIVHRDEQIEELAKALRPILRPGSRPSNIFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRDVSTVYIN   85 (383)
T ss_pred             CCCCCCCC-CCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEEC
T ss_conf             37757702-74246686789999999988750674898725887888987889999999999998622699715899977


Q ss_pred             CCCCC-CCHH----HHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHH-HHHHHHCC-CCCCCCCCHHHHHHHHHHCCH
Q ss_conf             01267-8867----99996789875453001000101342123237887-55443102-221111210353220554240
Q gi|254780217|r   72 CNPDP-CSPF----VKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEI-RRIRYFLS-LTANTGYWRVIMIDPVDGMNR  144 (347)
Q Consensus        72 ~~~~~-~~~~----~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~I-R~l~~~~~-~~~~~~~~Ki~IId~ad~ln~  144 (347)
                      |.... .-.+    +++++ ..+-+.           +-+.+-++-+++ +.|.+.+. .   .++.=|||+||+|.|=.
T Consensus        86 C~~~~T~y~~~~~L~~~ln-~~~~~~-----------~vP~tG~s~~~~~~~l~~~l~~~---~~~~~~ivLDEiD~Lv~  150 (383)
T TIGR02928        86 CQILDTSYQVLVELANQLN-RRGSGE-----------EVPTTGLSTSEVFRELYKELNRE---RGDSLIIVLDEIDKLVR  150 (383)
T ss_pred             CCCCCCHHHHHHHHHHHHC-CCCCCC-----------CCCCCCCCHHHHHHHHHHHHHHH---CCCEEEEEECCCCHHHC
T ss_conf             8546846999999999851-577888-----------89887787899999999998320---18879998623102215


Q ss_pred             ----H-----HHHHHHHH--HHHCC-CCCCEEEEECCCC---CCCHHHHCEEE--EEECCCCCHHHHHHHHHHHC-C-CC
Q ss_conf             ----0-----01456777--66303-4341676504433---57302520369--88647999899999999727-8-88
Q gi|254780217|r  145 ----N-----AANALLKS--LEEPP-QKVLFILISHASP---TILSTIRSRCL--SIKFNSLSENNLYKALEQLK-I-MG  205 (347)
Q Consensus       145 ----~-----AaNALLK~--LEEPp-~~t~fiLit~~~~---~il~TI~SRc~--~i~f~~l~~~~~~~~L~~~~-~-~~  205 (347)
                          +     .-=.|+++  -++-. ...=.|-|||+..   .|=|=++|.-.  .+.|+|-+.+++.++|++-. . .+
T Consensus       151 ~~~d~PAyS~~LY~L~Ra~~~~~~~~~~vgvIgISND~~f~~~Ld~RVkSsL~~eei~FpPYdA~eL~~IL~~R~v~~AF  230 (383)
T TIGR02928       151 KDDDDPAYSKLLYQLSRARENGDLENAKVGVIGISNDLKFRENLDPRVKSSLCEEEIVFPPYDAEELRDILENRAVEKAF  230 (383)
T ss_pred             CCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEECCCHHHHHCCCCEECCCCCCCCEECCCCHHHHHHHHHHHHHHHCC
T ss_conf             88888078788534331000357788534899986571436445753013248740040798869999999720312033


Q ss_pred             -----CHHHHH---HHHHHCCCCHHHHHHHHC
Q ss_conf             -----967899---999975989789998814
Q gi|254780217|r  206 -----WDSKRD---FVKIAAYGSVARAIKILH  229 (347)
Q Consensus       206 -----~~~~~~---~~~~~s~Gs~~~A~~ll~  229 (347)
                           .++.+.   .++.-..|+.|+|+.++=
T Consensus       231 ~dGvl~d~VI~lcAA~aAq~hGDAR~AiDLLR  262 (383)
T TIGR02928       231 YDGVLDDGVIPLCAALAAQEHGDARKAIDLLR  262 (383)
T ss_pred             CCCCCCHHHHHHHHHHHHCCCCCHHHHHHHHH
T ss_conf             68854622799999986206787899999999


No 89 
>KOG1051 consensus
Probab=98.67  E-value=2e-07  Score=79.47  Aligned_cols=137  Identities=20%  Similarity=0.316  Sum_probs=93.2

Q ss_pred             HHHCCHHHHHHHHHHHHHCCC-------CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHH
Q ss_conf             561092999999999998288-------9816631179898889999999999817799886431210126788679999
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYYCSGR-------MHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQM   84 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~~~~~-------l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i   84 (347)
                      ..|+||++++..+..++..-|       -.-.+||.||.|+||+-+|.++|.+++.                        
T Consensus       562 ~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fg------------------------  617 (898)
T KOG1051         562 ERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFG------------------------  617 (898)
T ss_pred             HHCCCHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCC------------------------
T ss_conf             54466377899999999843203578888858999788841389999999999728------------------------


Q ss_pred             HCCCCCCEEEECCCC-HH--H-CCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHC---
Q ss_conf             678987545300100-01--0-1342123237887554431022211112103532205542400014567776630---
Q gi|254780217|r   85 ASHALHDFLYLSYSL-NP--K-TGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEP---  157 (347)
Q Consensus        85 ~~~~hpd~~~i~~~~-~~--k-~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEP---  157 (347)
                         ++++++.|+... .+  + .+....-..-++.-.+-+-+...|    |-|+++|++|.-...-+|.||..||+=   
T Consensus       618 ---se~~~IriDmse~~evskligsp~gyvG~e~gg~LteavrrrP----~sVvLfdeIEkAh~~v~n~llq~lD~Grlt  690 (898)
T KOG1051         618 ---SEENFIRLDMSEFQEVSKLIGSPPGYVGKEEGGQLTEAVKRRP----YSVVLFEEIEKAHPDVLNILLQLLDRGRLT  690 (898)
T ss_pred             ---CCCCEEEECHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCCC----CEEEEEECHHHCCHHHHHHHHHHHHCCCCC
T ss_conf             ---8642689614555556530489955546305778889971699----659998302222888999999998627400


Q ss_pred             --------CCCCCEEEEECCCCCCCHHHHC
Q ss_conf             --------3434167650443357302520
Q gi|254780217|r  158 --------PQKVLFILISHASPTILSTIRS  179 (347)
Q Consensus       158 --------p~~t~fiLit~~~~~il~TI~S  179 (347)
                              =+|++||++++--...+.|=.+
T Consensus       691 Ds~Gr~Vd~kN~I~IMTsn~~~~~i~~~~~  720 (898)
T KOG1051         691 DSHGREVDFKNAIFIMTSNVGSSAIANDAS  720 (898)
T ss_pred             CCCCCEEECCCEEEEEECCCCHHHHHCCCC
T ss_conf             588867504645999942631666640454


No 90 
>KOG0743 consensus
Probab=98.67  E-value=2.2e-06  Score=71.07  Aligned_cols=151  Identities=14%  Similarity=0.175  Sum_probs=89.6

Q ss_pred             CCCCCHHHHCCHHHHHHHHH----HHHHCCC----C----CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCC
Q ss_conf             55875656109299999999----9998288----9----8166311798988899999999998177998864312101
Q gi|254780217|r    6 FDPVYNQRLFGHEDIEKFLS----QYYCSGR----M----HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCN   73 (347)
Q Consensus         6 ~~p~~~~~i~G~~~~~~~L~----~~~~~~~----l----~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~   73 (347)
                      -||+.|+.++=..+.++.+.    ...+...    .    -.+||+|||||+||+++.-++|.+|-         .    
T Consensus       195 ~HpstF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L~---------y----  261 (457)
T KOG0743         195 PHPSTFETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYLN---------Y----  261 (457)
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCHHHHHCCCCCCCCCEEECCCCCCHHHHHHHHHHHCC---------C----
T ss_conf             999874420148667899999999997223578864845000412047999988899999972058---------7----


Q ss_pred             CCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHC---CH------
Q ss_conf             267886799996789875453001000101342123237887554431022211112103532205542---40------
Q gi|254780217|r   74 PDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGM---NR------  144 (347)
Q Consensus        74 ~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~l---n~------  144 (347)
                                       |++.++....         =.-+|.|.|..   .+|.   .-|++|+++|.=   +.      
T Consensus       262 -----------------dIydLeLt~v---------~~n~dLr~LL~---~t~~---kSIivIEDIDcs~~l~~~~~~~~  309 (457)
T KOG0743         262 -----------------DIYDLELTEV---------KLDSDLRHLLL---ATPN---KSILLIEDIDCSFDLRERRKKKK  309 (457)
T ss_pred             -----------------CEEEEEECCC---------CCCHHHHHHHH---HCCC---CCEEEEEECCCCCCCCCCCCCCC
T ss_conf             -----------------3677440023---------68389999997---2899---71899961243230443455566


Q ss_pred             ---------HHHHHHHHHHHHCCCCC----CEEEEECCCCCCCHHHHC--EE-EEEECCCCCHHHHHHHHHHH
Q ss_conf             ---------00145677766303434----167650443357302520--36-98864799989999999972
Q gi|254780217|r  145 ---------NAANALLKSLEEPPQKV----LFILISHASPTILSTIRS--RC-LSIKFNSLSENNLYKALEQL  201 (347)
Q Consensus       145 ---------~AaNALLK~LEEPp~~t----~fiLit~~~~~il~TI~S--Rc-~~i~f~~l~~~~~~~~L~~~  201 (347)
                               =..--||-.+--.=+.+    ++|++||++++|-|++.-  |. .++.+..=+.+.++...+..
T Consensus       310 ~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~nY  382 (457)
T KOG0743         310 ENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDMHIYMGYCTFEAFKTLASNY  382 (457)
T ss_pred             CCCCCCCCEEEHHHHHHHHCCCCCCCCCCEEEEEECCCHHHCCHHHCCCCCCEEEEECCCCCHHHHHHHHHHH
T ss_conf             4546776606647756641343004887349999468710068866288752256672669879999999983


No 91 
>CHL00195 ycf46 Ycf46; Provisional
Probab=98.67  E-value=7.1e-07  Score=74.98  Aligned_cols=187  Identities=11%  Similarity=0.080  Sum_probs=115.9

Q ss_pred             CCCCCCCCCCHHHHCCHHHHHHHHHH---HHHC-----C-CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHH
Q ss_conf             96655558756561092999999999---9982-----8-8981663117989888999999999981779988643121
Q gi|254780217|r    1 MIDRAFDPVYNQRLFGHEDIEKFLSQ---YYCS-----G-RMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRM   71 (347)
Q Consensus         1 ~~~~~~~p~~~~~i~G~~~~~~~L~~---~~~~-----~-~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~   71 (347)
                      +|+..+-..+|++|=|-++.++-|..   ++..     | +.|-++|++||||+||+.+|.++|...-.       |.-.
T Consensus       217 ~Le~~~~~~~~~~vGGl~~lK~wl~~r~~~f~~~a~~~gl~~PkGvLL~GpPG~GKtl~AKAvA~e~~~-------p~l~  289 (491)
T CHL00195        217 ILEFYSVNEKISDIGGLDNLKDWLKKRSTSFSKQAENYGLPTPRGLLLVGIQGTGKSLTAKAIANEWNL-------PLLR  289 (491)
T ss_pred             CEEEEECCCCCHHCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHCC-------CEEE
T ss_conf             658874899804146889999999998898623366459999987999799998789999999866389-------4699


Q ss_pred             CCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC--------
Q ss_conf             012678867999967898754530010001013421232378875544310222111121035322055424--------
Q gi|254780217|r   72 CNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMN--------  143 (347)
Q Consensus        72 ~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln--------  143 (347)
                      ...       ..+.++      ++.     .        +=..+|++......    ..--|+.||++|.+=        
T Consensus       290 l~~-------~~l~~~------~vG-----e--------sE~~~r~~f~~A~~----~aP~ilfiDEidk~~~~~~~~~d  339 (491)
T CHL00195        290 LDV-------GKLFGG------IVG-----E--------SESRMRQMIQLAET----ISPCILWIDEIDKAFSGLDSKGD  339 (491)
T ss_pred             EEH-------HHHHHH------HCC-----H--------HHHHHHHHHHHHHH----HCCEEEEEEHHHHHCCCCCCCCC
T ss_conf             667-------997560------067-----0--------49999999999986----19858997465454258888888


Q ss_pred             ----HHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHC--EEE-EEECCCCCHHHHHHHHHHH----CCC-CCHHHHH
Q ss_conf             ----000145677766303434167650443357302520--369-8864799989999999972----788-8967899
Q gi|254780217|r  144 ----RNAANALLKSLEEPPQKVLFILISHASPTILSTIRS--RCL-SIKFNSLSENNLYKALEQL----KIM-GWDSKRD  211 (347)
Q Consensus       144 ----~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI~S--Rc~-~i~f~~l~~~~~~~~L~~~----~~~-~~~~~~~  211 (347)
                          ..-.+.||.-|-|-.+.++++-+||+++.++|-+.-  |-- .|.+..|+.++-.++++-.    ... ..+....
T Consensus       340 ~g~s~rv~~~~Lt~m~e~~~~VfViattN~~~~L~pellR~GRFD~~~~v~lP~~~~R~~I~~ihl~~~~~~~~~~~d~~  419 (491)
T CHL00195        340 SGTSNRVLATFITWLSEKKSPVFVVATANNIDSLPLELLRKGRFDEIFFLDLPNLEERELIFKIHLKRFRPNSWQNYDIE  419 (491)
T ss_pred             CCHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCHHHCCCCCCCEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCCHH
T ss_conf             72328999999998646899769999589975589877089877704764895989999999999854478875546999


Q ss_pred             HHHHHCCCCHHHH
Q ss_conf             9999759897899
Q gi|254780217|r  212 FVKIAAYGSVARA  224 (347)
Q Consensus       212 ~~~~~s~Gs~~~A  224 (347)
                      .++..++|=-|.-
T Consensus       420 ~la~~t~gfsGAe  432 (491)
T CHL00195        420 ILSQLTNKFSGAE  432 (491)
T ss_pred             HHHHHCCCCCHHH
T ss_conf             9997685988899


No 92 
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=98.66  E-value=7.8e-07  Score=74.68  Aligned_cols=208  Identities=19%  Similarity=0.168  Sum_probs=125.2

Q ss_pred             CCCCCCCCHHHHCCHHHHHHHHHHHHHC---CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCC-C
Q ss_conf             6555587565610929999999999982---88981663117989888999999999981779988643121012678-8
Q gi|254780217|r    3 DRAFDPVYNQRLFGHEDIEKFLSQYYCS---GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPC-S   78 (347)
Q Consensus         3 ~~~~~p~~~~~i~G~~~~~~~L~~~~~~---~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~-~   78 (347)
                      ..-|-|..   +.+-+...+++...+..   |-.|+..++|||+|+|||.+++.+++.+-.........--.|..... .
T Consensus        11 ~~~~iP~~---l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~   87 (366)
T COG1474          11 LEDYIPEE---LPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPY   87 (366)
T ss_pred             CCCCCCHH---CCCHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCCCEEEEEEEECCCHH
T ss_conf             75558220---103488999999999998558998607998899987328999999999733156757999513078787


Q ss_pred             HHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHH-HHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHH--
Q ss_conf             67999967898754530010001013421232378875-544310222111121035322055424000145677766--
Q gi|254780217|r   79 PFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIR-RIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLE--  155 (347)
Q Consensus        79 ~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR-~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LE--  155 (347)
                      .+..++.+.              -++.....++..++= .+.+.+..   .++.=|+|+|++|.|-...+..|..++.  
T Consensus        88 ~i~~~i~~~--------------~~~~p~~g~~~~~~~~~l~~~~~~---~~~~~IvvLDEid~L~~~~~~~LY~L~r~~  150 (366)
T COG1474          88 QVLSKILNK--------------LGKVPLTGDSSLEILKRLYDNLSK---KGKTVIVILDEVDALVDKDGEVLYSLLRAP  150 (366)
T ss_pred             HHHHHHHHH--------------HCCCCCCCCCHHHHHHHHHHHHHH---CCCEEEEEECCHHHHHCCCCCHHHHEECCC
T ss_conf             999999998--------------268997676326899999997774---187599997647654154641455111247


Q ss_pred             -HCCCCCCEEEEECCC---CCCCHHHHCEEEE--EECCCCCHHHHHHHHHHH------CCCCCHHHHHHHH---HHCCCC
Q ss_conf             -303434167650443---3573025203698--864799989999999972------7888967899999---975989
Q gi|254780217|r  156 -EPPQKVLFILISHAS---PTILSTIRSRCLS--IKFNSLSENNLYKALEQL------KIMGWDSKRDFVK---IAAYGS  220 (347)
Q Consensus       156 -EPp~~t~fiLit~~~---~~il~TI~SRc~~--i~f~~l~~~~~~~~L~~~------~~~~~~~~~~~~~---~~s~Gs  220 (347)
                       ++-.++.+|.+++..   ..+.|-|+||-..  +.|+|-+.+++.++|.+-      ...+.+.....++   ....|+
T Consensus       151 ~~~~~~v~vi~i~n~~~~~~~ld~rv~s~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GD  230 (366)
T COG1474         151 GENKVKVSIIAVSNDDKFLDYLDPRVKSSLGPSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGD  230 (366)
T ss_pred             CCCCEEEEEEEEECCHHHHHHHHHHHHHCCCCCEEEECCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCC
T ss_conf             76753799999735488999875667650687635528989899999999999854046874803999999988761864


Q ss_pred             HHHHHHHHCC
Q ss_conf             7899988145
Q gi|254780217|r  221 VARAIKILHY  230 (347)
Q Consensus       221 ~~~A~~ll~~  230 (347)
                      .|.|+.++..
T Consensus       231 AR~aidilr~  240 (366)
T COG1474         231 ARKAIDILRR  240 (366)
T ss_pred             HHHHHHHHHH
T ss_conf             7760899999


No 93 
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=98.63  E-value=5.9e-07  Score=75.66  Aligned_cols=153  Identities=20%  Similarity=0.264  Sum_probs=96.2

Q ss_pred             HHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCC
Q ss_conf             56109299999999999828898166311798988899999999998177998864312101267886799996789875
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHD   91 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd   91 (347)
                      ..++|+++.......++..|+  | .|+.||||+||+++|..+|+.+--     ...--.|.+                |
T Consensus        24 ~~~~g~~~~~~~~l~a~~~~~--~-vll~G~PG~gKT~la~~lA~~l~~-----~~~~i~~t~----------------~   79 (329)
T COG0714          24 KVVVGDEEVIELALLALLAGG--H-VLLEGPPGVGKTLLARALARALGL-----PFVRIQCTP----------------D   79 (329)
T ss_pred             CCCCCCHHHHHHHHHHHHCCC--C-EEEECCCCCCHHHHHHHHHHHHCC-----CCEEEECCC----------------C
T ss_conf             655266999999999998599--7-787798987779999999998389-----818995689----------------9


Q ss_pred             EEEECCCCHHHCCCCCCCCCHHHHHHH---HHHCCC--CCCCCC-CHHHHHHHHHHCCHHHHHHHHHHHHH---------
Q ss_conf             453001000101342123237887554---431022--211112-10353220554240001456777663---------
Q gi|254780217|r   92 FLYLSYSLNPKTGKWRTVITVDEIRRI---RYFLSL--TANTGY-WRVIMIDPVDGMNRNAANALLKSLEE---------  156 (347)
Q Consensus        92 ~~~i~~~~~~k~~~~~~~I~vd~IR~l---~~~~~~--~~~~~~-~Ki~IId~ad~ln~~AaNALLK~LEE---------  156 (347)
                      +.-            ...++...+...   ...+..  .|.... ..|+.+|++++-+...+|+||-.|+|         
T Consensus        80 l~p------------~d~~G~~~~~~~~~~~~~~~~~~gpl~~~~~~ill~DEInra~p~~q~aLl~~l~e~~vt~~~~~  147 (329)
T COG0714          80 LLP------------SDLLGTYAYAALLLEPGEFRFVPGPLFAAVRVILLLDEINRAPPEVQNALLEALEERQVTVPGLT  147 (329)
T ss_pred             CCH------------HHHCCHHHHHHHHCCCCEEEEECCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHCEEEECCCC
T ss_conf             888------------88205688876642577189846873345133899870345898899999999972689707966


Q ss_pred             -CCCCCCEEEE-ECC------CCCCCHHHHCEE-EEEECCCCCHHHHHHHHHH
Q ss_conf             -0343416765-044------335730252036-9886479998999999997
Q gi|254780217|r  157 -PPQKVLFILI-SHA------SPTILSTIRSRC-LSIKFNSLSENNLYKALEQ  200 (347)
Q Consensus       157 -Pp~~t~fiLi-t~~------~~~il~TI~SRc-~~i~f~~l~~~~~~~~L~~  200 (347)
                       .+-..-|+.+ |.|      .+.+++..+-|| ..+.+..+..++....+..
T Consensus       148 ~~~~~~~f~viaT~Np~e~~g~~~l~eA~ldRf~~~~~v~yp~~~~e~~~i~~  200 (329)
T COG0714         148 TIRLPPPFIVIATQNPGEYEGTYPLPEALLDRFLLRIYVDYPDSEEEERIILA  200 (329)
T ss_pred             CCCCCCCCEEEEECCCCCCCCCCCCCHHHHCCCEEEEECCCCCCHHHHHHHHH
T ss_conf             53379987899826867657887899888810388776489973889999987


No 94 
>pfam05673 DUF815 Protein of unknown function (DUF815). This family consists of several bacterial proteins of unknown function.
Probab=98.61  E-value=3.3e-06  Score=69.62  Aligned_cols=133  Identities=21%  Similarity=0.252  Sum_probs=86.1

Q ss_pred             CCCCCCCHHHHCCHHHHHHHHHH---HHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH
Q ss_conf             55558756561092999999999---998288981663117989888999999999981779988643121012678867
Q gi|254780217|r    4 RAFDPVYNQRLFGHEDIEKFLSQ---YYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF   80 (347)
Q Consensus         4 ~~~~p~~~~~i~G~~~~~~~L~~---~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~   80 (347)
                      ..+.|-.+++++|-+.+++.|.+   .+..|..+|..|+||.+|+||+++.+++....-.                    
T Consensus        20 ~~~d~v~l~~L~Gie~Qk~~l~~NT~~F~~G~pAnnvLLwG~RGtGKSSlVKall~~~~~--------------------   79 (248)
T pfam05673        20 PHPDPVDLDDLVGIDRQKEALLRNTEQFLAGLPANNVLLWGARGTGKSSLVKALLNEYAD--------------------   79 (248)
T ss_pred             CCCCCCCHHHHCCHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHH--------------------
T ss_conf             788989988934939999999999999980898613676768989888999999998631--------------------


Q ss_pred             HHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHH---HHHHHHH----
Q ss_conf             999967898754530010001013421232378875544310222111121035322055424000---1456777----
Q gi|254780217|r   81 VKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNA---ANALLKS----  153 (347)
Q Consensus        81 ~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~A---aNALLK~----  153 (347)
                             ..-.+++|.+.            .+.++-.|...+...    ++|++|.  +|+++-++   .=..||+    
T Consensus        80 -------~gLrlIEv~k~------------~L~~Lp~i~~~l~~~----~~kFIiF--~DDLSFe~~d~~yk~LKs~LeG  134 (248)
T pfam05673        80 -------QGLRLIEVDKD------------DLGDLPDIVDLLRGR----PYRFILF--CDDLSFEEGESSYKALKSVLEG  134 (248)
T ss_pred             -------CCCEEEEECHH------------HHCCHHHHHHHHHCC----CCCEEEE--ECCCCCCCCCHHHHHHHHHHCC
T ss_conf             -------49569998788------------872199999999649----9757999--6355767897369999999657


Q ss_pred             -HHHCCCCCCEEEEECCCCCCCHHHHCEE
Q ss_conf             -6630343416765044335730252036
Q gi|254780217|r  154 -LEEPPQKVLFILISHASPTILSTIRSRC  181 (347)
Q Consensus       154 -LEEPp~~t~fiLit~~~~~il~TI~SRc  181 (347)
                       +|.+|+|++|--+||..+-|+.+-.-|-
T Consensus       135 ~l~~~p~NvliYaTSNRRHLi~e~~~d~~  163 (248)
T pfam05673       135 GLEARPDNVLIYATSNRRHLIPEYMSDNE  163 (248)
T ss_pred             CCCCCCCEEEEEEECCCHHCCCHHHCCCC
T ss_conf             64468873899984270003633323477


No 95 
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=98.58  E-value=1.5e-06  Score=72.45  Aligned_cols=114  Identities=24%  Similarity=0.324  Sum_probs=69.7

Q ss_pred             HHHCCHHHHHHHHHHHHHC--CC-------------CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCC
Q ss_conf             5610929999999999982--88-------------98166311798988899999999998177998864312101267
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYYCS--GR-------------MHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP   76 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~~~--~~-------------l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~   76 (347)
                      .-|+||+++++.|.-+.-+  .|             -...+|+.||-|+|||.+|+.+|+.+--       |.-.+..  
T Consensus        72 ~yVIGQ~~AKk~lsVAvyNHykRi~~~~~~~~~vei~KsNILliGPTG~GKTlla~tLAk~l~v-------PF~iaDA--  142 (411)
T PRK05342         72 QYVIGQERAKKVLSVAVYNHYKRLRQNGSKSDDVELQKSNILLIGPTGSGKTLLAQTLARILNV-------PFAIADA--  142 (411)
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEECCCCCCHHHHHHHHHHHHCC-------CEEEEEE--
T ss_conf             1402848888999999999999986021335665213453899899997788999999998699-------9899861--


Q ss_pred             CCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHH-HHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-----------
Q ss_conf             88679999678987545300100010134212323788-755443102221111210353220554240-----------
Q gi|254780217|r   77 CSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDE-IRRIRYFLSLTANTGYWRVIMIDPVDGMNR-----------  144 (347)
Q Consensus        77 ~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~-IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-----------  144 (347)
                          ...-+                 +|..+.  -||. |+.|......-.....+=|+.||++|.+..           
T Consensus       143 ----T~lTE-----------------aGYVGe--DVE~ii~~Llq~Ad~dve~Ae~GIV~IDEIDKIarks~~~s~trDV  199 (411)
T PRK05342        143 ----TTLTE-----------------AGYVGE--DVENILLKLLQAADYDVEKAQRGIVYIDEIDKIARKSENPSITRDV  199 (411)
T ss_pred             ----CEECC-----------------CCCCCC--CHHHHHHHHHHHCCCCHHHHHCCEEEEEEHHHHHHCCCCCCCCCCC
T ss_conf             ----20012-----------------674560--7999999999982888998836828885023454247888887776


Q ss_pred             ---HHHHHHHHHHHHC
Q ss_conf             ---0014567776630
Q gi|254780217|r  145 ---NAANALLKSLEEP  157 (347)
Q Consensus       145 ---~AaNALLK~LEEP  157 (347)
                         .-|.||||++|.-
T Consensus       200 SgEGVQqaLLkiiEGt  215 (411)
T PRK05342        200 SGEGVQQALLKILEGT  215 (411)
T ss_pred             CCHHHHHHHHHHHCCC
T ss_conf             5124899999987587


No 96 
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=98.56  E-value=2.9e-06  Score=70.03  Aligned_cols=175  Identities=18%  Similarity=0.116  Sum_probs=107.9

Q ss_pred             CCCHHHHCCHHHHHHHHHHHHHC------------CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCC
Q ss_conf             87565610929999999999982------------889816631179898889999999999817799886431210126
Q gi|254780217|r    8 PVYNQRLFGHEDIEKFLSQYYCS------------GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPD   75 (347)
Q Consensus         8 p~~~~~i~G~~~~~~~L~~~~~~------------~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~   75 (347)
                      .-.+.++.|.+.+.+.+..++..            -+-|..+||+||||+||+.+|.++|...-..              
T Consensus       238 ~v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~~~--------------  303 (494)
T COG0464         238 DVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSR--------------  303 (494)
T ss_pred             CCEEEEECCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHCCCC--------------
T ss_conf             851453236377999999999999970887632589888369998899975899999987544982--------------


Q ss_pred             CCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC-----------H
Q ss_conf             78867999967898754530010001013421232378875544310222111121035322055424-----------0
Q gi|254780217|r   76 PCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMN-----------R  144 (347)
Q Consensus        76 ~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln-----------~  144 (347)
                              +.+-..|++.--   |-..        +-.-||++-....    ...--|++||++|.+-           .
T Consensus       304 --------fi~v~~~~l~sk---~vGe--------sek~ir~~F~~A~----~~~p~iifiDEiDs~~~~r~~~~~~~~~  360 (494)
T COG0464         304 --------FISVKGSELLSK---WVGE--------SEKNIRELFEKAR----KLAPSIIFIDEIDSLASGRGPSEDGSGR  360 (494)
T ss_pred             --------EEEECCHHHHHH---HHHH--------HHHHHHHHHHHHH----HCCCCEEEHHHHHHHHCCCCCCCCCHHH
T ss_conf             --------488433555407---7659--------9999999999999----6699889748866674128998763799


Q ss_pred             HHHHHHHHHHH--HCCCCCCEEEEECCCCCCCHHHHC--EE-EEEECCCCCHHHHHHHHHHHCCC--C---CHHHHHHHH
Q ss_conf             00145677766--303434167650443357302520--36-98864799989999999972788--8---967899999
Q gi|254780217|r  145 NAANALLKSLE--EPPQKVLFILISHASPTILSTIRS--RC-LSIKFNSLSENNLYKALEQLKIM--G---WDSKRDFVK  214 (347)
Q Consensus       145 ~AaNALLK~LE--EPp~~t~fiLit~~~~~il~TI~S--Rc-~~i~f~~l~~~~~~~~L~~~~~~--~---~~~~~~~~~  214 (347)
                      ...|-||..+.  |+-++++.|-.||.+..+.|-++-  |- ..+.|.+++.++-.++++.....  .   .+.....++
T Consensus       361 rv~~~ll~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~~~~~~~~~~~~~~l~  440 (494)
T COG0464         361 RVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELA  440 (494)
T ss_pred             HHHHHHHHHHHCCCCCCCEEEEECCCCCCCCCHHHHCCCCCEEEEEECCCCHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
T ss_conf             99999999974754437648996479833268756243663037871798989999999998541565115564199999


Q ss_pred             HHCCC
Q ss_conf             97598
Q gi|254780217|r  215 IAAYG  219 (347)
Q Consensus       215 ~~s~G  219 (347)
                      ..++|
T Consensus       441 ~~t~~  445 (494)
T COG0464         441 EITEG  445 (494)
T ss_pred             HHHCC
T ss_conf             87527


No 97 
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=98.55  E-value=4.3e-06  Score=68.68  Aligned_cols=216  Identities=19%  Similarity=0.244  Sum_probs=131.9

Q ss_pred             HHHCCHHHHHHH---HHHHHHCCCC-CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCC---------------------
Q ss_conf             561092999999---9999982889-816631179898889999999999817799886---------------------
Q gi|254780217|r   12 QRLFGHEDIEKF---LSQYYCSGRM-HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSK---------------------   66 (347)
Q Consensus        12 ~~i~G~~~~~~~---L~~~~~~~~l-~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~---------------------   66 (347)
                      +-++||..+.+.   ....+++||+ .+++|+.||||+||+.+|..+|+.|=...+...                     
T Consensus        39 dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvPF~~isgsEiYS~E~kKTE~L~qa~  118 (450)
T COG1224          39 DGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSEIYSLEVKKTEALTQAL  118 (450)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCEEECCCEEEEECCCHHHHHHHHH
T ss_conf             86112498887625999999717666617999789997688999999998589998215013322331000889999999


Q ss_pred             ----------------------------CCHHHCC------------CCC-----CC-HHH-HHHHCC-CCCCEEEECCC
Q ss_conf             ----------------------------4312101------------267-----88-679-999678-98754530010
Q gi|254780217|r   67 ----------------------------APVRMCN------------PDP-----CS-PFV-KQMASH-ALHDFLYLSYS   98 (347)
Q Consensus        67 ----------------------------~~~~~~~------------~~~-----~~-~~~-~~i~~~-~hpd~~~i~~~   98 (347)
                                                  .|.+...            .|.     .. ... .....+ ..-|++.|+..
T Consensus       119 RraIGvrikE~reV~EGeV~~l~i~~~~~p~~~y~~~~~~~~i~LkT~d~~k~~~lg~~i~~ql~~~~V~~GDVI~Id~e  198 (450)
T COG1224         119 RRAIGVRIKETREVYEGEVVELEIRRARNPLNPYGKVPSGAIITLKTKDEEKTLRLGPEIAEQLVKEGVEEGDVIYIDAE  198 (450)
T ss_pred             HHHHCEEEEEEEEEEEEEEEEEEEEECCCCCCCCCCCCCCEEEEEEECCCCEEEECCHHHHHHHHHHCCCCCCEEEEECC
T ss_conf             98645486466688877899998762357998766554532899996366457625989999999837445878999825


Q ss_pred             CHH--------------------------HCCCC-------------------------------CCCCCHHHHHHH-HH
Q ss_conf             001--------------------------01342-------------------------------123237887554-43
Q gi|254780217|r   99 LNP--------------------------KTGKW-------------------------------RTVITVDEIRRI-RY  120 (347)
Q Consensus        99 ~~~--------------------------k~~~~-------------------------------~~~I~vd~IR~l-~~  120 (347)
                      ...                          ++.-.                               -..| -|++|+- .+
T Consensus       199 tG~V~klGrs~~~~~~~~dl~~~~~V~~P~Gev~K~KEi~~~vTLHDlDv~nar~~G~~sl~~~~~~eI-~~evR~~vn~  277 (450)
T COG1224         199 TGRVKKLGRSKARAREDFDLEDTRFVPLPEGEVQKRKEIVQTVTLHDLDVANARAQGILSLFSGGTGEI-TDEVREEVNE  277 (450)
T ss_pred             CCEEEEEECCCCCCCCCCCCCCEEEEECCCCCEEEEEEEEEEEEEHHHHHHHCCCCCHHHHHCCCCCCC-CHHHHHHHHH
T ss_conf             667999422423354223344217987798852566778999870031343204111375652776657-8899999999


Q ss_pred             HCCCCCCCCC----CHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEEC------------CCCCCCHHHHCEEEEE
Q ss_conf             1022211112----10353220554240001456777663034341676504------------4335730252036988
Q gi|254780217|r  121 FLSLTANTGY----WRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISH------------ASPTILSTIRSRCLSI  184 (347)
Q Consensus       121 ~~~~~~~~~~----~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~------------~~~~il~TI~SRc~~i  184 (347)
                      .+..--.+|+    --|.+||++|.|..++..-|=|-||++=. -++||.||            .|+.|+.-++-|...+
T Consensus       278 ~V~~~ieeGkAElVpGVLFIDEvHmLDIE~FsFlnrAlEse~a-PIii~AtNRG~~kiRGTd~~sPhGIP~DlLDRllII  356 (450)
T COG1224         278 KVKKWIEEGKAELVPGVLFIDEVHMLDIECFSFLNRALESELA-PIIILATNRGMTKIRGTDIESPHGIPLDLLDRLLII  356 (450)
T ss_pred             HHHHHHHCCCEEEECCEEEEECHHHHHHHHHHHHHHHHHCCCC-CEEEEECCCCEEEECCCCCCCCCCCCHHHHHHEEEE
T ss_conf             9999985495786134289732134557899999987631467-579997177500121667768888987666225677


Q ss_pred             ECCCCCHHHHHHHHH----HHCCCCCHHHHHHHHHHCCC-CHHHHHHHHC
Q ss_conf             647999899999999----72788896789999997598-9789998814
Q gi|254780217|r  185 KFNSLSENNLYKALE----QLKIMGWDSKRDFVKIAAYG-SVARAIKILH  229 (347)
Q Consensus       185 ~f~~l~~~~~~~~L~----~~~~~~~~~~~~~~~~~s~G-s~~~A~~ll~  229 (347)
                      .-.|-+.+++++++.    .+....++++++.+..++.- |.|-|++++.
T Consensus       357 ~t~py~~~EireIi~iRa~ee~i~l~~~Ale~L~~ig~etSLRYa~qLL~  406 (450)
T COG1224         357 STRPYSREEIREIIRIRAKEEDIELSDDALEYLTDIGEETSLRYAVQLLT  406 (450)
T ss_pred             ECCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCHHHHHHHHHHHCC
T ss_conf             44779889999999976435403048889999975150344899998616


No 98 
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=98.52  E-value=6.2e-07  Score=75.48  Aligned_cols=178  Identities=16%  Similarity=0.211  Sum_probs=95.2

Q ss_pred             CCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHC
Q ss_conf             58756561092999999999998288981663117989888999999999981779988643121012678867999967
Q gi|254780217|r    7 DPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMAS   86 (347)
Q Consensus         7 ~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~   86 (347)
                      ||--|++|+||++++..|.-+.-...++| +|+.||||+||+++|++++.-|---......+|..-.+ ..++.+.....
T Consensus         3 ~~~Pfs~IvGQe~~K~AL~laav~p~~gg-vLi~G~~GtgKStlaR~l~~iLP~~~~~e~~~~~~~~~-~~~~~~~~~~~   80 (334)
T PRK13407          3 KPFPFSAIVGQEEMKQAMVLTAIDPGIGG-VLVFGDRGTGKSTAVRALAALLPLIKAVEGCPVNSARP-EDCPEWAEVSS   80 (334)
T ss_pred             CCCCHHHHCCCHHHHHHHHHHHCCCCCCE-EEEECCCCCCHHHHHHHHHHHCCCCCHHCCCCCCCCCC-CCCHHHHHCCC
T ss_conf             99992376493999999999772789860-89978998659999999997289951103675566774-21133431145


Q ss_pred             CC--CCCEEEECCCCHHHCCCCCCCCCHHHHHHHHH-HCCCCC---CCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCC
Q ss_conf             89--87545300100010134212323788755443-102221---1112103532205542400014567776630343
Q gi|254780217|r   87 HA--LHDFLYLSYSLNPKTGKWRTVITVDEIRRIRY-FLSLTA---NTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQK  160 (347)
Q Consensus        87 ~~--hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~-~~~~~~---~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~  160 (347)
                      ..  ....-+++.+..-.....-..|.++.  .+.. .-...|   .....-|..+|++-.+...-.++||-.+|+= .+
T Consensus        81 ~~~~~~~~p~v~lPl~atedr~~G~ldie~--al~~G~~~~~PGlLa~Ah~GVLylDEinll~~~vld~Ll~~~e~G-~~  157 (334)
T PRK13407         81 TTMVERPTPVIDLPLGATEDRVVGALDIER--ALTRGEKAFEPGLLARANRGYLYIDEVNLLEDHIVDLLLDVAQSG-EN  157 (334)
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCHHH--HHHCCCCCCCCCHHHHCCCCEEEEECHHHCCHHHHHHHHHHHHCC-CE
T ss_conf             553448998767899999866447421888--862698778860543402886787205333388999999887169-57


Q ss_pred             ------------CCEEEE-ECCCC--CCCHHHHCEE-EEEECCCC
Q ss_conf             ------------416765-04433--5730252036-98864799
Q gi|254780217|r  161 ------------VLFILI-SHASP--TILSTIRSRC-LSIKFNSL  189 (347)
Q Consensus       161 ------------t~fiLi-t~~~~--~il~TI~SRc-~~i~f~~l  189 (347)
                                  +.|+|+ |-||+  .+-|-+.-|- ..+.+..+
T Consensus       158 ~IeReg~s~~~ParF~LVatmNPeEg~Lrp~lLDRf~l~v~v~~~  202 (334)
T PRK13407        158 VVEREGLSIRHPARFVLVGSGNPEEGELRPQLLDRFGLSVEVRSP  202 (334)
T ss_pred             EEEECCEEEECCCCCEEEEEECCCCCCCCHHHHHHHCEEEEECCC
T ss_conf             999776346036626589820888777598998361006871487


No 99 
>PRK05201 hslU ATP-dependent protease ATP-binding subunit; Provisional
Probab=98.52  E-value=2.1e-06  Score=71.16  Aligned_cols=70  Identities=16%  Similarity=0.407  Sum_probs=54.3

Q ss_pred             CHHHHHHHHHHCCH------------HHHHHHHHHHHHCCCC--------CCEEEEE------CCCCCCCHHHHCEE-EE
Q ss_conf             10353220554240------------0014567776630343--------4167650------44335730252036-98
Q gi|254780217|r  131 WRVIMIDPVDGMNR------------NAANALLKSLEEPPQK--------VLFILIS------HASPTILSTIRSRC-LS  183 (347)
Q Consensus       131 ~Ki~IId~ad~ln~------------~AaNALLK~LEEPp~~--------t~fiLit------~~~~~il~TI~SRc-~~  183 (347)
                      .=||+||++|....            .-|-+|||++|--.-+        ..+++||      ..|+.++|-..-|. .+
T Consensus       249 ~GIVFIDEIDKIa~~~~~~g~DVS~EGVQrdLLpivEGt~V~tK~G~V~TdhILFIasGAFh~sKPSDLIPEl~GRlPv~  328 (442)
T PRK05201        249 NGIVFIDEIDKIAKRGEGSGPDVSREGVQRDLLPLVEGSTVSTKYGMVKTDHILFIASGAFHVAKPSDLIPELQGRFPIR  328 (442)
T ss_pred             CCCEEECHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCHHHHHHCCCCEEE
T ss_conf             17045114656530357889897733078887887538855567776025503455045001478202249871755058


Q ss_pred             EECCCCCHHHHHHHHHH
Q ss_conf             86479998999999997
Q gi|254780217|r  184 IKFNSLSENNLYKALEQ  200 (347)
Q Consensus       184 i~f~~l~~~~~~~~L~~  200 (347)
                      +.+.+|+.+++.++|.+
T Consensus       329 v~L~~L~~~dl~~ILte  345 (442)
T PRK05201        329 VELDALTEEDFVRILTE  345 (442)
T ss_pred             EECCCCCHHHHHHHHCC
T ss_conf             88244999999999678


No 100
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=98.51  E-value=4.2e-07  Score=76.86  Aligned_cols=158  Identities=18%  Similarity=0.278  Sum_probs=96.0

Q ss_pred             HHHCCHHHHHHHHHHHHHCCC-----CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHC
Q ss_conf             561092999999999998288-----981663117989888999999999981779988643121012678867999967
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYYCSGR-----MHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMAS   86 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~~~~~-----l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~   86 (347)
                      .+-+|-+.+++.+...+.-.+     -..=+.|+||||+|||++|..+|+++--...  .-.+|.......=+-.|+-.-
T Consensus       322 ~dHyGL~~vKeRile~lAv~~~~~~~kg~IlclvGpPGvGKTSl~~sIA~al~r~f~--rislGGv~DeaeirGHrrTYv  399 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGRKYV--RMALGGVRDEAEIRGHRRTYI  399 (784)
T ss_pred             HHHCCHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCEE--EEECCCCCCHHHHCCCCCCCC
T ss_conf             543065779999999999998624677877996469987724699999998589869--980688788888256433434


Q ss_pred             CCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH----HHHHHHHHHHHHCC----
Q ss_conf             8987545300100010134212323788755443102221111210353220554240----00145677766303----
Q gi|254780217|r   87 HALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR----NAANALLKSLEEPP----  158 (347)
Q Consensus        87 ~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~----~AaNALLK~LEEPp----  158 (347)
                      |+.|.-+                  |..+       ......  .-|+++|++|.|+.    +-+.|||-.|- |-    
T Consensus       400 gampGri------------------i~~l-------~~a~~~--nPv~llDEiDK~~~~~~Gdp~salLEvLD-peQN~~  451 (784)
T PRK10787        400 GSMPGKL------------------IQKM-------AKVGVK--NPLFLLDEIDKMSSDMRGDPASALLEVLD-PEQNVA  451 (784)
T ss_pred             CCCCHHH------------------HHHH-------HHHCCC--CCEEEEHHHHHHCCCCCCCHHHHHHHHCC-HHHCCC
T ss_conf             4368389------------------9999-------974898--85665003555224558998899998459-765564


Q ss_pred             ------------CCCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHHHH
Q ss_conf             ------------434167650443357302520369886479998999999997
Q gi|254780217|r  159 ------------QKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKALEQ  200 (347)
Q Consensus       159 ------------~~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L~~  200 (347)
                                  ++++||.++|..+ |+++++-|.-.+.++.-+.++-.++-++
T Consensus       452 F~Dhyl~~~~DlS~v~Fi~TaN~~~-ip~pLlDRmE~i~~~gYt~~eK~~Ia~~  504 (784)
T PRK10787        452 FSDHYLEVDYDLSDVMFVATSNSMN-IPAPLLDRMEVIRLSGYTEDEKLNIAKR  504 (784)
T ss_pred             CCCCEEECCCCHHHEEEEEECCCCC-CCHHHHHHEEEEEECCCCHHHHHHHHHH
T ss_conf             0003220464522258997327677-8767763121554116767889999997


No 101
>PRK08903 hypothetical protein; Validated
Probab=98.50  E-value=5.5e-06  Score=67.82  Aligned_cols=172  Identities=15%  Similarity=0.170  Sum_probs=112.0

Q ss_pred             CHHHHCCHHH--HHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCC
Q ss_conf             5656109299--99999999982889816631179898889999999999817799886431210126788679999678
Q gi|254780217|r   10 YNQRLFGHED--IEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASH   87 (347)
Q Consensus        10 ~~~~i~G~~~--~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~   87 (347)
                      +|+.++.-.+  +...+........-...+.+|||+|+|||-+..+++......                          
T Consensus        16 tfdnFv~g~n~~~~~~l~~~~~~~~~~~~l~i~G~~G~GKTHLl~a~~~~~~~~--------------------------   69 (227)
T PRK08903         16 TFDNFIAGENAELVTRLRELAAGPVADRFFYLWGEAGSGRSHLLQALVAAASEG--------------------------   69 (227)
T ss_pred             CHHCCCCCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHC--------------------------
T ss_conf             643155777599999999887438878669998999998889999999999806--------------------------


Q ss_pred             CCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCC--CCEEE
Q ss_conf             9875453001000101342123237887554431022211112103532205542400014567776630343--41676
Q gi|254780217|r   88 ALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQK--VLFIL  165 (347)
Q Consensus        88 ~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~--t~fiL  165 (347)
                       .++..++.....            .+.   ..+      .....+++||++|.+....+.+|..++.+--.+  +.++.
T Consensus        70 -~~~~~yl~~~~~------------~~~---~~~------~~~~d~l~iDDi~~i~~~~q~~lF~l~N~~~~~~~~~ll~  127 (227)
T PRK08903         70 -GKNARYLDPASP------------LLA---FDF------DPRAELYAVDDVERLDDAQQIALFNLFNRVRAHGKTALLV  127 (227)
T ss_pred             -CCCEEEECCCCC------------HHH---HHH------HHCCCEEEEECCCCCCCHHHHHHHHHHHHHHHCCCCEEEE
T ss_conf             -997499651104------------577---742------0018989996411489569999999999999729948997


Q ss_pred             EECCCC---CCCHHHHCEE---EEEECCCCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHHHHHC
Q ss_conf             504433---5730252036---9886479998999999997----27888967899999975989789998814
Q gi|254780217|r  166 ISHASP---TILSTIRSRC---LSIKFNSLSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAIKILH  229 (347)
Q Consensus       166 it~~~~---~il~TI~SRc---~~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~  229 (347)
                      .++.+.   .+.|-++||.   ..+.+.+|+.+....+|.+    .+...+++..++++.-..++++.....++
T Consensus       128 s~~~~p~~l~~~~DL~SRl~~gl~~~i~~pdde~~~~iL~~~a~~rgl~l~~~v~~yl~~r~~R~~~~L~~~l~  201 (227)
T PRK08903        128 AGPAAPLALDVREDLRTRLGWGLVYEVKPLSDEDKIAALKAAAAERGLQLADEVPDYLLTHFRRDMPSLMALLD  201 (227)
T ss_pred             CCCCCHHHCCCCHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHHHHH
T ss_conf             18997120120089999993897389979799999999999999629999889999999983478999999999


No 102
>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=98.50  E-value=0.00015  Score=56.36  Aligned_cols=134  Identities=12%  Similarity=0.258  Sum_probs=91.7

Q ss_pred             HHHCCHHHHHHHHHHHHHCCC--------CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCC-CCCCHHHCCCCCCCHHHH
Q ss_conf             561092999999999998288--------98166311798988899999999998177998-864312101267886799
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYYCSGR--------MHHALLFEGEQGIGKATLGFRYAGHVLQNPDF-SKAPVRMCNPDPCSPFVK   82 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~~~~~--------l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~-~~~~~~~~~~~~~~~~~~   82 (347)
                      ..|+||++++..+.+++...|        .--++||.||.|+|||-+|.++|..++..... -...+.++..  .|.+.+
T Consensus       566 ~~ViGQ~~Av~~v~~ai~~sraGl~d~~rPigsFLFlGPTGVGKTElAK~LA~~LFg~e~~liR~DMSEy~E--~hsvsr  643 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITINMSEFQE--AHTVSR  643 (852)
T ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCEEEECCHHHCC--HHHHHH
T ss_conf             997284999999999999987179999998568998789987789999999999719861147842243210--436878


Q ss_pred             HHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCC----
Q ss_conf             9967898754530010001013421232378875544310222111121035322055424000145677766303----
Q gi|254780217|r   83 QMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPP----  158 (347)
Q Consensus        83 ~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp----  158 (347)
                      .  -|+-|.|.=++    + +|     .-.+.|       ..+|    |-|+++|++|.-+.+-.|-||-+|+|--    
T Consensus       644 L--iGaPPGYVGy~----e-GG-----~LTe~V-------rr~P----ysVvLfDEIEKAHpdV~nilLQvlD~G~LtD~  700 (852)
T TIGR03345       644 L--KGSPPGYVGYG----E-GG-----VLTEAV-------RRKP----YSVVLLDEVEKAHPDVLELFYQVFDKGVMEDG  700 (852)
T ss_pred             H--CCCCCCCCCCC----C-CC-----HHHHHH-------HHCC----CEEEEECHHHHCCHHHHHHHHHHHCCCEEECC
T ss_conf             6--38999766748----7-77-----210988-------8099----86888611300288999999987246777579


Q ss_pred             -------CCCCEEEEECCC
Q ss_conf             -------434167650443
Q gi|254780217|r  159 -------QKVLFILISHAS  170 (347)
Q Consensus       159 -------~~t~fiLit~~~  170 (347)
                             .||++|++||=-
T Consensus       701 ~Gr~vdF~NtIIImTSN~G  719 (852)
T TIGR03345       701 EGREIDFKNTVILLTSNAG  719 (852)
T ss_pred             CCCEEECEEEEEEECCCHH
T ss_conf             9998845212999757244


No 103
>pfam07724 AAA_2 AAA domain (Cdc48 subfamily). This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.
Probab=98.50  E-value=2.6e-07  Score=78.58  Aligned_cols=97  Identities=18%  Similarity=0.242  Sum_probs=58.5

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHCCCC-CCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHH
Q ss_conf             16631179898889999999999817799-88643121012678867999967898754530010001013421232378
Q gi|254780217|r   35 HALLFEGEQGIGKATLGFRYAGHVLQNPD-FSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVD  113 (347)
Q Consensus        35 ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~-~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd  113 (347)
                      -++||.||+|+||+.+|.++|+.+..... .....|.....    +...-..-|+.|.+.-                 .+
T Consensus         4 ~~~l~~GPsGvGKT~lAk~la~~l~~~~~~~i~~dm~e~~~----~~~v~~l~g~~~gyvg-----------------~~   62 (168)
T pfam07724         4 GSFLFLGPTGVGKTELAKALAELLFGDERALIRIDMSEYME----EHSVSRLIGAPPGYVG-----------------YE   62 (168)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHCCCCCCEEEECCCCCCC----HHHHHHHCCCCCCCCC-----------------CC
T ss_conf             79998898998999999999999679853448855756542----5699987058998726-----------------24


Q ss_pred             HHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf             8755443102221111210353220554240001456777663
Q gi|254780217|r  114 EIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEE  156 (347)
Q Consensus       114 ~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEE  156 (347)
                      +--.+.+.+...    ++.|+++|++|+.+.+.+|+||++|||
T Consensus        63 ~~G~l~~~v~~~----p~~VillDEIeKa~~~V~~~LL~ild~  101 (168)
T pfam07724        63 EGGQLTEAVRRK----PYSIVLIDEIEKAHPGVQNDLLQILEG  101 (168)
T ss_pred             CCCCHHHHHHHC----CCCEEEEHHHHHHCHHHHHHHHHHCCC
T ss_conf             265078999838----984898657766589999999987058


No 104
>PRK06893 DNA replication initiation factor; Validated
Probab=98.50  E-value=4.4e-06  Score=68.63  Aligned_cols=177  Identities=15%  Similarity=0.167  Sum_probs=112.1

Q ss_pred             CCCHHHHCCHHH--HHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHH
Q ss_conf             875656109299--999999999828898166311798988899999999998177998864312101267886799996
Q gi|254780217|r    8 PVYNQRLFGHED--IEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMA   85 (347)
Q Consensus         8 p~~~~~i~G~~~--~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~   85 (347)
                      ..+|+.+++-++  +...|...+..-.-|. +.+|||+|+||+-+..+++.......                       
T Consensus        12 ~~tfdnF~~~~n~~~~~~l~~~~~~~~~~~-l~i~G~~gsGKTHLLqa~~~~~~~~~-----------------------   67 (229)
T PRK06893         12 DETLDNFYSDNNLLLLDSLRKNFIDLKQPF-FYIWGGKSSGKSHLLKAVSNHYLLNQ-----------------------   67 (229)
T ss_pred             CCCHHCCCCCCHHHHHHHHHHHCCCCCCCE-EEEECCCCCCHHHHHHHHHHHHHHHC-----------------------
T ss_conf             665431546874999999997550246987-99989999988999999999999718-----------------------


Q ss_pred             CCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC--HHHHHHHHHHHHHCCC-CCC
Q ss_conf             7898754530010001013421232378875544310222111121035322055424--0001456777663034-341
Q gi|254780217|r   86 SHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMN--RNAANALLKSLEEPPQ-KVL  162 (347)
Q Consensus        86 ~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln--~~AaNALLK~LEEPp~-~t~  162 (347)
                         + ...+++..   +...    ... ++   .+.      ....-+++||++|.+.  .+.+.+|.-++-+--+ +..
T Consensus        68 ---~-~~~yi~~~---~~~~----~~~-~~---l~~------l~~~d~l~iDDi~~i~g~~~~e~~lF~l~N~l~~~~~~  126 (229)
T PRK06893         68 ---R-TAIYIPLS---KSQY----FSP-AV---LEN------LEQQDLVCLDDLQAVIGNEEWELAIFDLFNRIKESGKT  126 (229)
T ss_pred             ---C-CEEEEEHH---HHHH----CCH-HH---HHH------HHHCCEEEEECHHHHCCCHHHHHHHHHHHHHHHHCCCC
T ss_conf             ---9-85999737---7564----069-99---987------65479799967234248838999999999999975991


Q ss_pred             EEEEE-CC-CCC---CCHHHHCEE---EEEECCCCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHHHHHC
Q ss_conf             67650-44-335---730252036---9886479998999999997----27888967899999975989789998814
Q gi|254780217|r  163 FILIS-HA-SPT---ILSTIRSRC---LSIKFNSLSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAIKILH  229 (347)
Q Consensus       163 fiLit-~~-~~~---il~TI~SRc---~~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~  229 (347)
                      ++++| +. |..   .+|-++||.   ..+.+.+|+.++..++|..    .+...+++..+++..-...+++....+++
T Consensus       127 ~ll~ss~~~p~~l~~~l~DL~SRl~~~~~~~i~~~dd~~~~~iL~~~a~~rgl~l~~~v~~yl~~r~~R~~~~l~~~l~  205 (229)
T PRK06893        127 LLLISANQSPHALQIKLPDLASRLTWGEIYQLNDLTDEQKIEVLQRNAYQRGIELSDETANFLLKRLDRDMHTLFDALD  205 (229)
T ss_pred             EEEEECCCCHHHHCCHHHHHHHHHHCCEEEEECCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHHHHH
T ss_conf             7998579883322100267999996883699667775799999999999649999989999999983478999999999


No 105
>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=98.48  E-value=7.5e-06  Score=66.75  Aligned_cols=201  Identities=15%  Similarity=0.118  Sum_probs=112.9

Q ss_pred             HCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEE
Q ss_conf             10929999999999982889816631179898889999999999817799886431210126788679999678987545
Q gi|254780217|r   14 LFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFL   93 (347)
Q Consensus        14 i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~   93 (347)
                      ++|-++..+.|.+.+.++.-+ -+++|||+|+|||++++.+++.+-....  ....-.|..   ......+..-....  
T Consensus         1 F~~Re~EL~~L~~~~~~~~~~-~ivi~G~RR~GKTsLi~~~~~~~~~~~~--~~i~~~~~~---~~~~~~~~~~~~~~--   72 (223)
T pfam01637         1 FFDREKELKELEEWAERGTYP-IIVVYGPRRCGKTALLREFLEELRELGY--RVIYYDPLR---REFEEKLDRFEEAK--   72 (223)
T ss_pred             CCCHHHHHHHHHHHHHCCCCC-EEEEECCCCCCHHHHHHHHHHHCCCCCC--EEEEEECHH---HHHHHHHHHHHHHH--
T ss_conf             989799999999999669971-8999868878799999999986334685--289995144---43799999888889--


Q ss_pred             EECCCCHHHCCC---CCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-HH----HHHHHHHHHHCC--CCCCE
Q ss_conf             300100010134---212323788755443102221111210353220554240-00----145677766303--43416
Q gi|254780217|r   94 YLSYSLNPKTGK---WRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR-NA----ANALLKSLEEPP--QKVLF  163 (347)
Q Consensus        94 ~i~~~~~~k~~~---~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-~A----aNALLK~LEEPp--~~t~f  163 (347)
                      .+........+.   ...........++...+..   .++.-|++||++..+-. ++    -..|.++++..+  .++.+
T Consensus        73 ~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~---~~~~~iiviDEfq~l~~~~~~~~~~~~l~~~~d~~~~~~~~~~  149 (223)
T pfam01637        73 RLAEALGDALPKIGIAKSKLAFLSLTLLFELLKR---KGKKIAIIIDEVQYAIGLNGAESYVKLLLNLIDYPPKEYHLIV  149 (223)
T ss_pred             HHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHH---CCCCEEEEEECHHHHHHCCCCHHHHHHHHHHHHHHHCCCCEEE
T ss_conf             9999987651233222112078899999999985---5996599970167764024430599999999997524577589


Q ss_pred             EEEECCCCCCCHH------HHCEEEEEECCCCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHH
Q ss_conf             7650443357302------520369886479998999999997----2788896789999997598978999
Q gi|254780217|r  164 ILISHASPTILST------IRSRCLSIKFNSLSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAI  225 (347)
Q Consensus       164 iLit~~~~~il~T------I~SRc~~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~  225 (347)
                      |++.+..+-+..-      .--|-..+.+.|++.++..+++..    .+...++++...++....|.|+-..
T Consensus       150 I~~GS~~~~m~~~~~~~~plygR~~~i~l~p~~~~~~~efl~~~f~e~~~~~~~~~~~~iy~~~gG~P~yL~  221 (223)
T pfam01637       150 VLCGSSEGLTIELLDYKSPLYGRHRWALLKPFDFETAWNFLREGFEELYEPGPKEEFEEVWRLLGGNPGYLE  221 (223)
T ss_pred             EEECCHHHHHHHHHCCCCCCCCCCCEEEECCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCHHHHHH
T ss_conf             997271999999862056535750227726899899999999999984789998999999999698389984


No 106
>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=98.48  E-value=4e-07  Score=76.99  Aligned_cols=199  Identities=18%  Similarity=0.184  Sum_probs=133.4

Q ss_pred             CCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHH
Q ss_conf             55587565610929999999999982889816631179898889999999999817799886431210126788679999
Q gi|254780217|r    5 AFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQM   84 (347)
Q Consensus         5 ~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i   84 (347)
                      |+|==..|.+||-++.++.....++..+=-+ =||.|.||||||..|.-+|+.|....   ..|-..=..          
T Consensus       201 ~A~~GkiDPLIGRE~EleRtiQvLCRR~KNN-Pl~VGEPGVGKTAI~EGLA~~I~~~~---kvPe~Lkn~----------  266 (774)
T TIGR02639       201 KAKNGKIDPLIGREDELERTIQVLCRRKKNN-PLLVGEPGVGKTAIVEGLAQRIAEGQ---KVPEVLKNA----------  266 (774)
T ss_pred             HHHCCCCCCCCCCHHHHHHHHHHHCCCCCCC-CCEECCCCCCHHHHHHHHHHHHHCCC---CCCHHHCCC----------
T ss_conf             9860887873456688742333203456788-72044888644899999999864156---467002478----------


Q ss_pred             HCCCCCCEEEECCCCHHHCCCCCCCCCHH-HHHHHHHHCCCCCCCCCCH-HHHHHHHHHC---------CHHHHHHHHHH
Q ss_conf             67898754530010001013421232378-8755443102221111210-3532205542---------40001456777
Q gi|254780217|r   85 ASHALHDFLYLSYSLNPKTGKWRTVITVD-EIRRIRYFLSLTANTGYWR-VIMIDPVDGM---------NRNAANALLKS  153 (347)
Q Consensus        85 ~~~~hpd~~~i~~~~~~k~~~~~~~I~vd-~IR~l~~~~~~~~~~~~~K-i~IId~ad~l---------n~~AaNALLK~  153 (347)
                            .++-++...--.+-|.|..  =| =+.++++.+...    +.. |+.|||+|..         +.+|+|-|=-.
T Consensus       267 ------~IY~LDmG~LLAGTKYRGD--FE~RLK~V~~Ei~~~----~~anILFIDEIHTIVGAGATSGGsmDASNLLKPa  334 (774)
T TIGR02639       267 ------KIYSLDMGTLLAGTKYRGD--FEERLKAVVSEIEKE----PNANILFIDEIHTIVGAGATSGGSMDASNLLKPA  334 (774)
T ss_pred             ------CEEEECHHHHHHHCCCCCH--HHHHHHHHHHHHHCC----CCCCEEEEECCCCEEECCCCCCHHHHHHHHHHHH
T ss_conf             ------3454043456410245424--789999999998528----9995466411010331787875155244321125


Q ss_pred             HHHCCCCCCEEEEECCCC--CCC---HHHHCEEEEEECCCCCHHHHHHHHHHH--------CCCCCHHHHHHHHHHCCCC
Q ss_conf             663034341676504433--573---025203698864799989999999972--------7888967899999975989
Q gi|254780217|r  154 LEEPPQKVLFILISHASP--TIL---STIRSRCLSIKFNSLSENNLYKALEQL--------KIMGWDSKRDFVKIAAYGS  220 (347)
Q Consensus       154 LEEPp~~t~fiLit~~~~--~il---~TI~SRc~~i~f~~l~~~~~~~~L~~~--------~~~~~~~~~~~~~~~s~Gs  220 (347)
                      |..  ..-.||=.|++-+  +.-   -.+-=|-|+|.+.=||.+|..++|+..        ...+.++.++.++.+|.--
T Consensus       335 L~~--G~iRCIGsTTy~EY~~~FeKDrALsRRFQKIDv~EPs~eet~~ILkGLk~~YE~fH~V~Y~~eal~~Av~LS~ry  412 (774)
T TIGR02639       335 LAS--GKIRCIGSTTYEEYKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLKEQYEEFHHVKYSDEALEAAVELSARY  412 (774)
T ss_pred             HHC--CCEEEECCCCHHHHHCHHHCCCCCCCCCCEECCCCCCHHHHHHHHHHHHHHHHCCCCEECCHHHHHHHHHHHHHH
T ss_conf             307--877862265248641110102021654233117957888999999865542013250113869999999998886


Q ss_pred             ------HHHHHHHHCCC
Q ss_conf             ------78999881457
Q gi|254780217|r  221 ------VARAIKILHYD  231 (347)
Q Consensus       221 ------~~~A~~ll~~~  231 (347)
                            |-+||.++|.-
T Consensus       413 I~DRfLPDKAIDviDEa  429 (774)
T TIGR02639       413 INDRFLPDKAIDVIDEA  429 (774)
T ss_pred             CCCCCCCCHHHHHHHHH
T ss_conf             02578985432288999


No 107
>KOG0734 consensus
Probab=98.46  E-value=7.9e-07  Score=74.64  Aligned_cols=183  Identities=16%  Similarity=0.216  Sum_probs=107.4

Q ss_pred             CCCHHHHCCHHHHHHHHHHHHH-----------CCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCC
Q ss_conf             8756561092999999999998-----------28898166311798988899999999998177998864312101267
Q gi|254780217|r    8 PVYNQRLFGHEDIEKFLSQYYC-----------SGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP   76 (347)
Q Consensus         8 p~~~~~i~G~~~~~~~L~~~~~-----------~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~   76 (347)
                      -..|++|-|-+++++.|.....           .|+||-+.|++||||+||+.+|++.|..       .+.|.-.|    
T Consensus       300 nv~F~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGE-------A~VPFF~~----  368 (752)
T KOG0734         300 NVTFEDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGE-------AGVPFFYA----  368 (752)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHCC-------CCCCEEEC----
T ss_conf             6550021472789999999999860908764314758885387689997556999986055-------68974741----


Q ss_pred             CCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHC-----------CHH
Q ss_conf             886799996789875453001000101342123237887554431022211112103532205542-----------400
Q gi|254780217|r   77 CSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGM-----------NRN  145 (347)
Q Consensus        77 ~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~l-----------n~~  145 (347)
                               +|+.-|=+++.             .+-.-||+|-......    .-.|++||++|..           ..+
T Consensus       369 ---------sGSEFdEm~VG-------------vGArRVRdLF~aAk~~----APcIIFIDEiDavG~kR~~~~~~y~kq  422 (752)
T KOG0734         369 ---------SGSEFDEMFVG-------------VGARRVRDLFAAAKAR----APCIIFIDEIDAVGGKRNPSDQHYAKQ  422 (752)
T ss_pred             ---------CCCCHHHHHHC-------------CCHHHHHHHHHHHHHC----CCEEEEEECHHHHCCCCCCCHHHHHHH
T ss_conf             ---------66204454220-------------1489999999998734----985999720022056678627789998


Q ss_pred             HHHHHHHHHH--HCCCCCCEEEEECCCCCCCHHHHC--EE-EEEECCCCCHHHHHHHHHHHCCCCC---HHHHHHHHHHC
Q ss_conf             0145677766--303434167650443357302520--36-9886479998999999997278889---67899999975
Q gi|254780217|r  146 AANALLKSLE--EPPQKVLFILISHASPTILSTIRS--RC-LSIKFNSLSENNLYKALEQLKIMGW---DSKRDFVKIAA  217 (347)
Q Consensus       146 AaNALLK~LE--EPp~~t~fiLit~~~~~il~TI~S--Rc-~~i~f~~l~~~~~~~~L~~~~~~~~---~~~~~~~~~~s  217 (347)
                      .-|-||--|.  ++.+..++|=.||-|+.+-+.+.-  |. +++.++.|+..--.++|+....++.   +-+...+   +
T Consensus       423 TlNQLLvEmDGF~qNeGiIvigATNfpe~LD~AL~RPGRFD~~v~Vp~PDv~GR~eIL~~yl~ki~~~~~VD~~ii---A  499 (752)
T KOG0734         423 TLNQLLVEMDGFKQNEGIIVIGATNFPEALDKALTRPGRFDRHVTVPLPDVRGRTEILKLYLSKIPLDEDVDPKII---A  499 (752)
T ss_pred             HHHHHHHHHCCCCCCCCEEEEECCCCHHHHHHHHCCCCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCCCCCHHHH---C
T ss_conf             9999999842867688669995168745556873488755336746897733289999999834876567787672---2


Q ss_pred             CCCHH----HHHHHHCC
Q ss_conf             98978----99988145
Q gi|254780217|r  218 YGSVA----RAIKILHY  230 (347)
Q Consensus       218 ~Gs~~----~A~~ll~~  230 (347)
                      .|.||    +..+++|+
T Consensus       500 RGT~GFsGAdLaNlVNq  516 (752)
T KOG0734         500 RGTPGFSGADLANLVNQ  516 (752)
T ss_pred             CCCCCCCHHHHHHHHHH
T ss_conf             68898765789988889


No 108
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=98.45  E-value=1.3e-05  Score=64.74  Aligned_cols=132  Identities=15%  Similarity=0.303  Sum_probs=89.1

Q ss_pred             HHHCCHHHHHHHHHHHHHCCC--------CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHH
Q ss_conf             561092999999999998288--------981663117989888999999999981779988643121012678867999
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYYCSGR--------MHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQ   83 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~~~~~--------l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~   83 (347)
                      ..|+||++++..+.+++...|        ..-++||.||.|+|||-+|..+|..| . ...-...+.+..  -.|.+.+.
T Consensus       458 ~~viGQ~~Ai~~v~~ai~~~raGL~~~~rPigsFlf~GPTGVGKTElak~LA~~L-~-~~lir~DMSEy~--e~hsvsrL  533 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL-G-IELLRFDMSEYM--ERHTVSRL  533 (758)
T ss_pred             HHHHCCHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHH-H-HHHHCCCHHHHC--CHHHHHHH
T ss_conf             7874549999999999999863888999970589997899877799999999998-6-677214266531--20147774


Q ss_pred             HHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCC-----
Q ss_conf             967898754530010001013421232378875544310222111121035322055424000145677766303-----
Q gi|254780217|r   84 MASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPP-----  158 (347)
Q Consensus        84 i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp-----  158 (347)
                      +  |+-|.|.=.+    + +|     .-.+.|       ...|    |-|+++|++|.-+.+-.|.||-+|+|--     
T Consensus       534 i--GaPPGYVGy~----e-GG-----~Lte~V-------r~~P----ysVvL~DEIEKAhpdV~nilLQvlD~G~LtD~~  590 (758)
T PRK11034        534 I--GAPPGYVGFD----Q-GG-----LLTDAV-------IKHP----HAVLLLDEIEKAHPDVFNLLLQVMDNGTLTDNN  590 (758)
T ss_pred             C--CCCCCCCCCC----C-CC-----CCCHHH-------HHCC----CEEEEEHHHHHHCHHHHHHHHHHCCCCCCCCCC
T ss_conf             4--8998666767----7-77-----012878-------7398----779973367563989999887323778301799


Q ss_pred             ------CCCCEEEEECCC
Q ss_conf             ------434167650443
Q gi|254780217|r  159 ------QKVLFILISHAS  170 (347)
Q Consensus       159 ------~~t~fiLit~~~  170 (347)
                            .||++|++||=-
T Consensus       591 Gr~vdF~NtiIImTSN~G  608 (758)
T PRK11034        591 GRKADFRNVVLVMTTNAG  608 (758)
T ss_pred             CCEEECEEEEEEEECCCC
T ss_conf             998844001999825617


No 109
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=98.44  E-value=1.5e-06  Score=72.39  Aligned_cols=159  Identities=20%  Similarity=0.275  Sum_probs=94.8

Q ss_pred             HHCCHHHHHHHHHHHHHC----CCCC-EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCC
Q ss_conf             610929999999999982----8898-16631179898889999999999817799886431210126788679999678
Q gi|254780217|r   13 RLFGHEDIEKFLSQYYCS----GRMH-HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASH   87 (347)
Q Consensus        13 ~i~G~~~~~~~L~~~~~~----~~l~-ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~   87 (347)
                      +=+|-+.+++.+...+.-    +.+- .=+.|+||||+|||+++..+|+++--..-  .-..|.....+.=+-.|+-.-|
T Consensus       324 dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~Rkfv--R~sLGGvrDEAEIRGHRRTYIG  401 (782)
T COG0466         324 DHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRKFV--RISLGGVRDEAEIRGHRRTYIG  401 (782)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCEE--EEECCCCCCHHHHCCCCCCCCC
T ss_conf             55671168999999999998614678857999789988701189999999589779--9954765427775355312335


Q ss_pred             CCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH----HHHHHHHHHHH--------
Q ss_conf             987545300100010134212323788755443102221111210353220554240----00145677766--------
Q gi|254780217|r   88 ALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR----NAANALLKSLE--------  155 (347)
Q Consensus        88 ~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~----~AaNALLK~LE--------  155 (347)
                      +-|.=                         ++.-+...-..  .=|+++|++|.|+.    +-|-|||-.|-        
T Consensus       402 aMPGr-------------------------IiQ~mkka~~~--NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~  454 (782)
T COG0466         402 AMPGK-------------------------IIQGMKKAGVK--NPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFS  454 (782)
T ss_pred             CCCHH-------------------------HHHHHHHHCCC--CCEEEEECHHHCCCCCCCCHHHHHHHHCCHHHCCCHH
T ss_conf             68728-------------------------99999986776--8747864033316777788688888626976567612


Q ss_pred             -----HCC--CCCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHHHH
Q ss_conf             -----303--434167650443357302520369886479998999999997
Q gi|254780217|r  156 -----EPP--QKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKALEQ  200 (347)
Q Consensus       156 -----EPp--~~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L~~  200 (347)
                           .|=  +++.||.++|+.+.|+.+++-|.-.++++.-++++-.++-+.
T Consensus       455 DhYLev~yDLS~VmFiaTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~  506 (782)
T COG0466         455 DHYLEVPYDLSKVMFIATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKR  506 (782)
T ss_pred             HCCCCCCCCHHHEEEEEECCCCCCCCHHHHCCEEEEEECCCCHHHHHHHHHH
T ss_conf             2201676644325888603751329867843030564268886999999998


No 110
>PRK05642 DNA replication initiation factor; Validated
Probab=98.42  E-value=1.6e-05  Score=64.03  Aligned_cols=177  Identities=16%  Similarity=0.210  Sum_probs=109.3

Q ss_pred             CCHHHHC-C-HHHHHHHHHHHHHCC--CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHH
Q ss_conf             7565610-9-299999999999828--89816631179898889999999999817799886431210126788679999
Q gi|254780217|r    9 VYNQRLF-G-HEDIEKFLSQYYCSG--RMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQM   84 (347)
Q Consensus         9 ~~~~~i~-G-~~~~~~~L~~~~~~~--~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i   84 (347)
                      .+|+.++ | ...+...+....+..  ..+..+.+|||+|+||+-+..+.+.....                        
T Consensus        16 ~tfdnFi~g~N~~a~~~~~~l~~~~~~~~~~~l~i~G~~G~GKTHLL~A~~~~~~~------------------------   71 (234)
T PRK05642         16 ATFANYYPGANAAALGYVERLCEADAGWTESLIYLWGKDGVGRSHLLQAACLRFEQ------------------------   71 (234)
T ss_pred             CCHHCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHH------------------------
T ss_conf             77303571875999999999876067877883899889999889999999999980------------------------


Q ss_pred             HCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH--HHHHHHHHHHHHCC-CCC
Q ss_conf             678987545300100010134212323788755443102221111210353220554240--00145677766303-434
Q gi|254780217|r   85 ASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR--NAANALLKSLEEPP-QKV  161 (347)
Q Consensus        85 ~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~--~AaNALLK~LEEPp-~~t  161 (347)
                         .....+++....-           .+.--++.+.      ....-+++||++|.+..  ..+.+|-.++..-- .+.
T Consensus        72 ---~~~~~~yl~~~~~-----------~~~~~~~~~~------l~~~d~l~IDDi~~i~g~~~~e~~lF~l~N~~~~~~~  131 (234)
T PRK05642         72 ---RGEPAVYLPLAEL-----------LDRGPELLDN------LEQYELVCIDDLDVIAGKADWEEALFHLFNRLRDSGR  131 (234)
T ss_pred             ---CCCCEEEEEHHHH-----------HHHHHHHHHH------HHHCCEEEEECHHHHCCCHHHHHHHHHHHHHHHHCCC
T ss_conf             ---7996799789998-----------7544999862------4227989893645546885999999999999998399


Q ss_pred             CEEEEECCCC----CCCHHHHCEE---EEEECCCCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHHHHHC
Q ss_conf             1676504433----5730252036---9886479998999999997----27888967899999975989789998814
Q gi|254780217|r  162 LFILISHASP----TILSTIRSRC---LSIKFNSLSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAIKILH  229 (347)
Q Consensus       162 ~fiLit~~~~----~il~TI~SRc---~~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~  229 (347)
                      .++++++.+-    -.+|-++||.   ..+.+++++.++..++|..    .+...+++..++++.-...+++....+++
T Consensus       132 ~llits~~~P~~l~~~l~DL~SRl~~~~~~~i~~l~d~~~~~iL~~~a~~rgi~l~~~v~~yl~~r~~R~~~~L~~~l~  210 (234)
T PRK05642        132 RLLLAASKSPRELPVKLPDLKSRLTLALVFQMRGLSDEDKLRALQLRASRRGLHLTDEVGHFILTRGTRSMSALFDLLE  210 (234)
T ss_pred             EEEEECCCCHHHHCCCHHHHHHHHHCCCEEEECCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             5999578795552300167999995781275148998999999999977546899989999999973588999999999


No 111
>PRK05629 hypothetical protein; Validated
Probab=98.41  E-value=0.00017  Score=55.80  Aligned_cols=158  Identities=12%  Similarity=0.094  Sum_probs=113.2

Q ss_pred             CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCC--CEEEECCCCHHHCCCCCCCC
Q ss_conf             9816631179898889999999999817799886431210126788679999678987--54530010001013421232
Q gi|254780217|r   33 MHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALH--DFLYLSYSLNPKTGKWRTVI  110 (347)
Q Consensus        33 l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hp--d~~~i~~~~~~k~~~~~~~I  110 (347)
                      -|+-|||+|+..-=....-..+...+....                        ....  ++..+.          .+.+
T Consensus        15 ~pPvYLl~G~E~yLid~a~~~l~~~i~~~~------------------------~~~~~~n~~~~~----------~~e~   60 (331)
T PRK05629         15 QPAVHLVLGEDEFLAERARINIVHDIRSSM------------------------ASPDSLQVTTLK----------ASEI   60 (331)
T ss_pred             CCCEEEEECCHHHHHHHHHHHHHHHHHHHC------------------------CCCCCCEEEEEE----------CCCC
T ss_conf             999799971719999999999999998628------------------------874462258850----------7879


Q ss_pred             CHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCC---CCCHHHHCEEEEEECC
Q ss_conf             3788755443102221111210353220554240001456777663034341676504433---5730252036988647
Q gi|254780217|r  111 TVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASP---TILSTIRSRCLSIKFN  187 (347)
Q Consensus       111 ~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~~~---~il~TI~SRc~~i~f~  187 (347)
                      +.+++-+.   .+ .|..+..|+|||.+++..+.+....++.-+++|++.|+++++....+   ++..+|+.-...+.+.
T Consensus        61 ~~~~l~~a---~~-~~~F~~~RlVvv~~~~~~~~~~~d~ll~y~~~p~p~t~LV~~~~~~dkrkkl~k~l~k~g~v~e~~  136 (331)
T PRK05629         61 TQGELLDA---LS-PSLFAEDRVVVLTNMDQAGQDAVDLALSAAVDPSPGTYLIVMHSGGGRSKSMVKKLEKVAVVHDAA  136 (331)
T ss_pred             CHHHHHHH---CC-CCCCCCCEEEEEECHHHCCHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHCCEEEEECC
T ss_conf             99999987---37-588888259999572530644799999984199996499998458751067999986074698668


Q ss_pred             CCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             9998999999997----2788896789999997598978999881
Q gi|254780217|r  188 SLSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAIKIL  228 (347)
Q Consensus       188 ~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~~ll  228 (347)
                      ++.+.++..|+.+    .+..+++++...+......+.+...+-+
T Consensus       137 ~l~~~~l~~wi~~~~~~~g~~i~~~A~~~L~~~~G~DL~~l~~El  181 (331)
T PRK05629        137 KLKDRDRPGWVKQEFKNHKVQVTPDVIHALLEGVGSDLRELASAV  181 (331)
T ss_pred             CCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHHHH
T ss_conf             899999999999999986999799999999999680499999999


No 112
>CHL00095 clpC Clp protease ATP binding subunit
Probab=98.41  E-value=8.4e-06  Score=66.36  Aligned_cols=134  Identities=16%  Similarity=0.258  Sum_probs=91.4

Q ss_pred             HHHCCHHHHHHHHHHHHHCCC--------CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCC-CCCHHHH
Q ss_conf             561092999999999998288--------9816631179898889999999999817799886431210126-7886799
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYYCSGR--------MHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPD-PCSPFVK   82 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~~~~~--------l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~-~~~~~~~   82 (347)
                      ..|+||++++..+.+++...|        .--++||.||.|+|||-+|..+|..++..+.  .--.-.++.- -.|.+.+
T Consensus       509 ~~ViGQd~AI~~vs~ai~rsraGl~~~~rPigsFlf~GPTGvGKTElAK~LA~~LFg~e~--~liR~DMSEy~E~hsvsr  586 (823)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFIFCGPTGVGKTELTKALASYFFGSEE--AMIRLDMSEYMEKHTVSK  586 (823)
T ss_pred             HHHCCCHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCC--CEEEECCCCCCCCCCHHH
T ss_conf             784076999999999999997089989997468998789988779999999999747820--258853510155420767


Q ss_pred             HHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCC----
Q ss_conf             9967898754530010001013421232378875544310222111121035322055424000145677766303----
Q gi|254780217|r   83 QMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPP----  158 (347)
Q Consensus        83 ~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp----  158 (347)
                      .+  |+-|.|.=.+    + +|     .-.+.|       ..+|    |-|+++|++|.-+.+-.|-||-+|+|--    
T Consensus       587 LI--GaPPGYVGy~----e-GG-----~LTeaV-------rr~P----ysVvLfDEIEKAHpdV~nilLQvlDdG~LtD~  643 (823)
T CHL00095        587 LI--GSPPGYVGYN----E-GG-----QLTEAV-------RKKP----YTVVLFDEIEKAHPDIFNLLLQILDDGRLTDS  643 (823)
T ss_pred             HC--CCCCCCCCCC----C-CC-----CHHHHH-------HCCC----CEEEEECHHHHCCHHHHHHHHHHCCCCCCCCC
T ss_conf             45--8998766778----7-88-----201988-------7199----86998621311388999988765168843489


Q ss_pred             -------CCCCEEEEECCC
Q ss_conf             -------434167650443
Q gi|254780217|r  159 -------QKVLFILISHAS  170 (347)
Q Consensus       159 -------~~t~fiLit~~~  170 (347)
                             .||++|++||=-
T Consensus       644 ~Gr~vdF~NtIIImTSNlG  662 (823)
T CHL00095        644 KGRTIDFKNTLIIMTSNLG  662 (823)
T ss_pred             CCCEEECEEEEEEECCCCC
T ss_conf             9998843103999716505


No 113
>PRK08084 DNA replication initiation factor; Provisional
Probab=98.41  E-value=1.7e-05  Score=63.91  Aligned_cols=177  Identities=15%  Similarity=0.136  Sum_probs=112.8

Q ss_pred             CCCHHHHC-CHHHH-HHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHH
Q ss_conf             87565610-92999-99999999828898166311798988899999999998177998864312101267886799996
Q gi|254780217|r    8 PVYNQRLF-GHEDI-EKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMA   85 (347)
Q Consensus         8 p~~~~~i~-G~~~~-~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~   85 (347)
                      +.+|+.++ |..+. ...+..... +.-...+.+|||+|+||+-+..+++.......                       
T Consensus        18 ~~tfdnFi~g~n~~~~~al~~~~~-~~~~~~l~l~G~~G~GKTHLLqA~~~~~~~~~-----------------------   73 (235)
T PRK08084         18 DETFASFYPGDNDSLLAALQNVLR-QEHSGYIYLWGREGAGRSHLLHAACAELSQRG-----------------------   73 (235)
T ss_pred             CCCHHCCCCCCCHHHHHHHHHHHH-CCCCCEEEEECCCCCCHHHHHHHHHHHHHCCC-----------------------
T ss_conf             766302344886999999999985-78987699989999888999999999997079-----------------------


Q ss_pred             CCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH--HHHHHHHHHHHHCC--CCC
Q ss_conf             78987545300100010134212323788755443102221111210353220554240--00145677766303--434
Q gi|254780217|r   86 SHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR--NAANALLKSLEEPP--QKV  161 (347)
Q Consensus        86 ~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~--~AaNALLK~LEEPp--~~t  161 (347)
                          ....++...  ...     .. ..++   .+.+      ...-+++||++|.+..  ..+.+|-.++-+--  .++
T Consensus        74 ----~~~~yl~~~--~~~-----~~-~~~~---l~~l------~~~dll~iDDi~~i~g~~~~ee~lF~l~N~~~~~g~~  132 (235)
T PRK08084         74 ----DAVGYVPLD--KRA-----WF-VPEV---LEGM------EQLSLVCIDNIECIAGDELWEMAIFDLYNRILESGKT  132 (235)
T ss_pred             ----CCEEEEEHH--HHH-----HH-HHHH---HHHH------HHCCEEEEECHHHHCCCHHHHHHHHHHHHHHHHHCCC
T ss_conf             ----857998779--866-----51-7999---9876------4189899827455469978999999999999984896


Q ss_pred             CEEEEECCCC-C---CCHHHHCEE---EEEECCCCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHHHHHC
Q ss_conf             1676504433-5---730252036---9886479998999999997----27888967899999975989789998814
Q gi|254780217|r  162 LFILISHASP-T---ILSTIRSRC---LSIKFNSLSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAIKILH  229 (347)
Q Consensus       162 ~fiLit~~~~-~---il~TI~SRc---~~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~  229 (347)
                      .++++++.+- .   .+|=++||.   ..+.+.+++.++..++|..    .+...+++..++++.-...+++.....++
T Consensus       133 ~ll~ts~~~P~~l~~~l~DL~SRl~~g~~~~i~~~dde~~~~iL~~~a~~rgl~l~~~V~~yl~~~~~R~~~~L~~~l~  211 (235)
T PRK08084        133 RLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQALQLRARLRGFELPEDVGRFLLKRLDREMRTLFMTLD  211 (235)
T ss_pred             EEEEECCCCHHHCCCCCHHHHHHHHCCCEEEECCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             6999679882430231288999995697278559998999999999999739999989999999861588999999999


No 114
>TIGR00602 rad24 checkpoint protein rad24; InterPro: IPR004582    To be effective as a mechanism that preserves genomic integrity, the DNA damage checkpoint must be extremely sensitive in its ability to detect DNA damage. In Saccharomyces cerevisiae the Ddc1/Rad17/Mec3 complex and Rad24 are DNA damage checkpoint components which may promote checkpoint activation by "sensing" DNA damage directly . Rad24 shares sequence homology with RF-c, a protein that recognises DNA template/RNA primer hybrids during DNA replication. The Ddc1 complex has structural homology to proliferating-cell nuclear antigen (PCNA), which clamps onto DNA and confers processivity to DNA polymerases delta and epsilon. Rad24 is postulated to recognise DNA lesions and then recruit the Ddc1 complex to generate checkpoint signals. ; GO: 0006281 DNA repair, 0007049 cell cycle, 0005634 nucleus.
Probab=98.39  E-value=1.2e-05  Score=65.26  Aligned_cols=212  Identities=17%  Similarity=0.188  Sum_probs=122.8

Q ss_pred             CCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCE-------EEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCC
Q ss_conf             55558756561092999999999998288981-------66311798988899999999998177998864312101267
Q gi|254780217|r    4 RAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHH-------ALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP   76 (347)
Q Consensus         4 ~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~h-------a~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~   76 (347)
                      .||.|....++.-|+.-++....++.+.-|+.       -+|++||+||||+|+...+|+-+--.-...-.|...-....
T Consensus        81 eKykP~~~~~lAvHK~Ki~~v~~wl~a~~Le~~~~rGGs~LLi~GPsGCgKsT~~k~LsKelg~~~~ew~Np~~~~~~~n  160 (670)
T TIGR00602        81 EKYKPETQEELAVHKKKIEEVEEWLKAQVLESAKKRGGSILLITGPSGCGKSTTIKILSKELGIKVQEWLNPVLLKEQKN  160 (670)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC
T ss_conf             02675424577664777999999975200204566775378841755884478999998886445655407878888851


Q ss_pred             CCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHH------HHHCCCC--CCCCCCHHHHHHHHHHCCH----
Q ss_conf             886799996789875453001000101342123237887554------4310222--1111210353220554240----
Q gi|254780217|r   77 CSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRI------RYFLSLT--ANTGYWRVIMIDPVDGMNR----  144 (347)
Q Consensus        77 ~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l------~~~~~~~--~~~~~~Ki~IId~ad~ln~----  144 (347)
                      ..+..--....-+.+    .  +..       .  ++.=.++      .+.+.+.  -..+..|+++|++.=.+|.    
T Consensus       161 ~~k~~~~~~~~f~~~----P--Y~s-------q--~e~f~efll~a~kY~~lQ~lG~~~~~~kk~Il~e~lPhln~F~~d  225 (670)
T TIGR00602       161 DEKDTLSLESKFSRF----P--YLS-------Q--IEVFSEFLLRATKYNKLQKLGDDLQTDKKLILVEDLPHLNKFYRD  225 (670)
T ss_pred             HHHHHHHCCCCEEEC----C--CCC-------H--HHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEECCCCCHHHHCCC
T ss_conf             244442125402216----7--631-------4--554678764212346664214110247545772137640221366


Q ss_pred             -H--HHHHHHH-HHHHCCCCC-CEEEEECC-CCCC--------------C--HHH-----HC--EEEEEECCCCCHHHHH
Q ss_conf             -0--0145677-766303434-16765044-3357--------------3--025-----20--3698864799989999
Q gi|254780217|r  145 -N--AANALLK-SLEEPPQKV-LFILISHA-SPTI--------------L--STI-----RS--RCLSIKFNSLSENNLY  195 (347)
Q Consensus       145 -~--AaNALLK-~LEEPp~~t-~fiLit~~-~~~i--------------l--~TI-----~S--Rc~~i~f~~l~~~~~~  195 (347)
                       .  ++.-.|+ .+-.-|.-. ++|.||.- ...|              -  .||     .-  |...+.|+|+.+.-|.
T Consensus       226 ~~rr~~~~vlr~~~~~~g~~pPlv~~~te~~~~nlegdNnq~kfGir~~F~~~~IM~~~il~~pr~~~i~FNPiapT~mk  305 (670)
T TIGR00602       226 LDRRALREVLRTKYVSEGRLPPLVIIITESELNNLEGDNNQDKFGIRLLFPAVTIMNKEILEEPRVSNIKFNPIAPTLMK  305 (670)
T ss_pred             HHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCCCCCHHCCCCCCCCHHHHHHHHHHCCCCCCCEECCCCCHHHHH
T ss_conf             12689999999986237898835899712434445775551010410135257775266540776131001787178999


Q ss_pred             HHHHHH----------CCCC-CHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf             999972----------7888-9678999999759897899988145
Q gi|254780217|r  196 KALEQL----------KIMG-WDSKRDFVKIAAYGSVARAIKILHY  230 (347)
Q Consensus       196 ~~L~~~----------~~~~-~~~~~~~~~~~s~Gs~~~A~~ll~~  230 (347)
                      ++|..+          .... .......+...+.|++|-||+-++-
T Consensus       306 K~L~~I~~~e~~~~~~K~~~~~~~~ve~~c~~~~GDiRSAInsLQf  351 (670)
T TIGR00602       306 KFLNRIVTKEAKKKGEKILVPKKTSVEDLCQGESGDIRSAINSLQF  351 (670)
T ss_pred             HHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHCCCCCHHHHHHHHHH
T ss_conf             9855562131434678544663468999971068847888888886


No 115
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=98.38  E-value=5e-05  Score=60.14  Aligned_cols=202  Identities=12%  Similarity=0.055  Sum_probs=120.3

Q ss_pred             CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCH
Q ss_conf             98166311798988899999999998177998864312101267886799996789875453001000101342123237
Q gi|254780217|r   33 MHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITV  112 (347)
Q Consensus        33 l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~v  112 (347)
                      ||= |||||+..-=.......+...++....                        ..-|+..++.       .   .  .
T Consensus         1 ~Pv-Yll~GeE~~li~~~~~~i~~~~~~~~~------------------------~~fn~~~~dg-------~---e--~   43 (326)
T PRK07452          1 MPI-YLYWGEDDFALNQAIEKLIDQVVDPEW------------------------KSFNYSRLDG-------D---D--A   43 (326)
T ss_pred             CCE-EEEEECCHHHHHHHHHHHHHHCCCCCC------------------------CCCCEEEECC-------C---C--C
T ss_conf             988-999838289999999999996089544------------------------6762378737-------5---5--4


Q ss_pred             HHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH---HHHHHHHHHHHHCCCCCCEEEEECC-CC---CCCHHHHCEEEEEE
Q ss_conf             88755443102221111210353220554240---0014567776630343416765044-33---57302520369886
Q gi|254780217|r  113 DEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR---NAANALLKSLEEPPQKVLFILISHA-SP---TILSTIRSRCLSIK  185 (347)
Q Consensus       113 d~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~---~AaNALLK~LEEPp~~t~fiLit~~-~~---~il~TI~SRc~~i~  185 (347)
                      +++.++...+..-|+.+++|+||+.+++.++.   +....|.+.++.||+.|++|+++.. ++   ++-..+..-.....
T Consensus        44 ~~~~~~l~~a~T~Pf~~~~RlVvvk~a~~~~~~~~~~~~~l~~~l~~~p~~t~lv~~~~~k~D~R~K~~K~l~k~~~~~e  123 (326)
T PRK07452         44 EQAIQALNEAMTPPFGSGGRLVWLKNSPLCQGCSEELLAELERTLPLIPENTHLLLTNTKKPDGRLKSTKLLQKLAEEKE  123 (326)
T ss_pred             CHHHHHHHHHCCCCCCCCCEEEEEECCCCCCCCCHHHHHHHHHHHHCCCCCEEEEEEECCCCCHHHHHHHHHHHHEEEEE
T ss_conf             25999999862788778855999836610024878899999998617999759999846763237787899984011345


Q ss_pred             CCCC---CHHHHHHHHH----HHCCCCCHHHHHHHHHHCCCCHHHHHHHH-------CCCHHHHHHHHHHHHCCCCCCCC
Q ss_conf             4799---9899999999----72788896789999997598978999881-------45779999999998403234322
Q gi|254780217|r  186 FNSL---SENNLYKALE----QLKIMGWDSKRDFVKIAAYGSVARAIKIL-------HYDCDKIISSYIDLIHIPRQEYA  251 (347)
Q Consensus       186 f~~l---~~~~~~~~L~----~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll-------~~~~~~~~~~~~~~l~~~~~~~~  251 (347)
                      |..+   ..+++.+|+.    ..+..++.+++..+.....++.+...+-+       .++...+-...++.+.. ..+. 
T Consensus       124 f~~~~~~~~~~l~~wi~~~~~~~g~~i~~~a~~~Lv~~~G~dl~~l~~EleKL~ly~~~~~~~It~e~V~~lv~-~~~~-  201 (326)
T PRK07452        124 FSLPPPWDGEGQKQLVERTAQELGVKLTPEAAELLAEAVGNDSRRLYNELEKLALYAENSEKPISAEDVKALVS-NTTQ-  201 (326)
T ss_pred             ECCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHC-CCCC-
T ss_conf             40688657999999999999986999899999999998684399999999999986289997068999998827-7644-


Q ss_pred             HHHHHHHHHHHHCCCHHHHHHHHH
Q ss_conf             899999999983167699999999
Q gi|254780217|r  252 LQKMQQIADELLSQDQKIAFDFLI  275 (347)
Q Consensus       252 ~~~~~~~~~~~~~~~~~~~~~~~~  275 (347)
                        .+.++.+.+...+....+..+-
T Consensus       202 --~iF~L~dAi~~~~~~~Al~~l~  223 (326)
T PRK07452        202 --NSLQLADALLQGNTGEALALID  223 (326)
T ss_pred             --CHHHHHHHHHCCCHHHHHHHHH
T ss_conf             --0999999998689999999999


No 116
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=98.38  E-value=0.00061  Score=51.39  Aligned_cols=191  Identities=15%  Similarity=0.192  Sum_probs=121.7

Q ss_pred             HHHCCHHHHHHHHHHHHHCC----CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCC
Q ss_conf             56109299999999999828----89816631179898889999999999817799886431210126788679999678
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYYCSG----RMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASH   87 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~~~~----~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~   87 (347)
                      ..+.|.++..+...+.+.++    --...+-++|.||+|||.+.+...+.|-                      ....+|
T Consensus       267 e~lpcRe~E~~~I~~Fie~~i~q~GtG~cLYISGVPGTGKTATV~eVIr~L~----------------------~~~~~~  324 (650)
T PTZ00112        267 EYILGREKEAKEIRTFLETGIKQGGTGQILYISGVPGTGKTATVYMVIKELQ----------------------NKKLKG  324 (650)
T ss_pred             CCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHH----------------------HHHHCC
T ss_conf             4477707899999999986411688665699978999980036999999999----------------------999708


Q ss_pred             CCCCEEEECCCCH--------------HHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHH
Q ss_conf             9875453001000--------------10134212323788755443102221111210353220554240001456777
Q gi|254780217|r   88 ALHDFLYLSYSLN--------------PKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKS  153 (347)
Q Consensus        88 ~hpd~~~i~~~~~--------------~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~  153 (347)
                      .-|++.+++-.-.              .=.++ +..-.......|.+.++.   .-...|+++|+.|.|=..-|+-|--.
T Consensus       325 ~lp~F~fVEINGMkLt~P~qaY~~L~e~Ltg~-k~~~~~~A~~lL~k~F~~---~r~p~VlLvDELD~LvTkkQ~VlYNL  400 (650)
T PTZ00112        325 QLPWFNLFEINGVNLVHPNAAYRVFYKKLFNK-KPPNALNSYKELDKLFNN---NRTPSILIVDEADYIVTKTQKVLFTL  400 (650)
T ss_pred             CCCCCEEEEECCEECCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHCC---CCCCEEEEECHHHHHHHCCCCEEEEC
T ss_conf             99981599973637798788999999998489-888678999999998268---99718999715777763677457773


Q ss_pred             HHHCC-CCCCEEEE--EC---CCCCCCHHHHCEE--EEEECCCCCHHHHHHHHHHHC---CCCCHHHHHHHHH---HCCC
Q ss_conf             66303-43416765--04---4335730252036--988647999899999999727---8889678999999---7598
Q gi|254780217|r  154 LEEPP-QKVLFILI--SH---ASPTILSTIRSRC--LSIKFNSLSENNLYKALEQLK---IMGWDSKRDFVKI---AAYG  219 (347)
Q Consensus       154 LEEPp-~~t~fiLi--t~---~~~~il~TI~SRc--~~i~f~~l~~~~~~~~L~~~~---~~~~~~~~~~~~~---~s~G  219 (347)
                      ++=|. +++.+|.+  +|   =|++++|-|.||-  .++.|+|-+.+++.+++..-.   ....+++.++.++   .-.|
T Consensus       401 FdWPT~~~SkLIVIaIANTMDLPERL~~RVsSRLGltRltF~PYt~~QL~eII~sRL~~~~~f~~dAIQl~ARKVAavSG  480 (650)
T PTZ00112        401 FDWPTKKNSKLILIIISNTMDLPYKMKPSCRSRLAFGRLVFSPYKYQQIEKVIKERLENCEIIDHTALQLCARRVTNYSG  480 (650)
T ss_pred             CCCCCCCCCEEEEEEEEECCCCCHHHHHHHHHHCCCCEECCCCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCC
T ss_conf             66889888707999985067860656666555228850043998999999999998626777887899999888875031


Q ss_pred             CHHHHHHHH
Q ss_conf             978999881
Q gi|254780217|r  220 SVARAIKIL  228 (347)
Q Consensus       220 s~~~A~~ll  228 (347)
                      +.|+|+.+-
T Consensus       481 DARRALdIC  489 (650)
T PTZ00112        481 DMRKALQIC  489 (650)
T ss_pred             HHHHHHHHH
T ss_conf             489999999


No 117
>KOG0742 consensus
Probab=98.38  E-value=2.9e-06  Score=70.09  Aligned_cols=154  Identities=23%  Similarity=0.337  Sum_probs=102.8

Q ss_pred             HHHHCCHHHHHHH---HHHHHHCCCCC----EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHH
Q ss_conf             6561092999999---99999828898----1663117989888999999999981779988643121012678867999
Q gi|254780217|r   11 NQRLFGHEDIEKF---LSQYYCSGRMH----HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQ   83 (347)
Q Consensus        11 ~~~i~G~~~~~~~---L~~~~~~~~l~----ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~   83 (347)
                      |..||-|......   |..+..+-+.|    ..+|||||||+||+.+|+.+|+.-    + -++              ..
T Consensus       354 l~~ViL~psLe~Rie~lA~aTaNTK~h~apfRNilfyGPPGTGKTm~ArelAr~S----G-lDY--------------A~  414 (630)
T KOG0742         354 LEGVILHPSLEKRIEDLAIATANTKKHQAPFRNILFYGPPGTGKTMFARELARHS----G-LDY--------------AI  414 (630)
T ss_pred             CCCEECCHHHHHHHHHHHHHHCCCCCCCCHHHHEEEECCCCCCHHHHHHHHHHHC----C-CCE--------------EH
T ss_conf             6784127779999999988740430024304400324799986049999998852----8-741--------------00


Q ss_pred             HHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHH---------CC---HHHHHHHH
Q ss_conf             9678987545300100010134212323788755443102221111210353220554---------24---00014567
Q gi|254780217|r   84 MASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDG---------MN---RNAANALL  151 (347)
Q Consensus        84 i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~---------ln---~~AaNALL  151 (347)
                      +..|   |+--+.        .    =.|-.|.++-.|...+ -.|  =+++||+||.         |+   .+|.||||
T Consensus       415 mTGG---DVAPlG--------~----qaVTkiH~lFDWakkS-~rG--LllFIDEADAFLceRnktymSEaqRsaLNAlL  476 (630)
T KOG0742         415 MTGG---DVAPLG--------A----QAVTKIHKLFDWAKKS-RRG--LLLFIDEADAFLCERNKTYMSEAQRSALNALL  476 (630)
T ss_pred             HCCC---CCCCCH--------H----HHHHHHHHHHHHHHHC-CCC--EEEEEHHHHHHHHHHCCCCCCHHHHHHHHHHH
T ss_conf             1378---755521--------7----8899999987887515-664--49986116789987520102588999998898


Q ss_pred             HHHHHCCCCCCEEEEECCCCCCCHHHHCEE-EEEECCCCCHHHHHHHHHHH
Q ss_conf             776630343416765044335730252036-98864799989999999972
Q gi|254780217|r  152 KSLEEPPQKVLFILISHASPTILSTIRSRC-LSIKFNSLSENNLYKALEQL  201 (347)
Q Consensus       152 K~LEEPp~~t~fiLit~~~~~il~TI~SRc-~~i~f~~l~~~~~~~~L~~~  201 (347)
                      =---+-+...++.|.||.|..+-..+--|. ..+.|.-|.+++-.+.|..+
T Consensus       477 fRTGdqSrdivLvlAtNrpgdlDsAV~DRide~veFpLPGeEERfkll~lY  527 (630)
T KOG0742         477 FRTGDQSRDIVLVLATNRPGDLDSAVNDRIDEVVEFPLPGEEERFKLLNLY  527 (630)
T ss_pred             HHCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHEECCCCCHHHHHHHHHHH
T ss_conf             762565542689960588321016787655541306899778999999999


No 118
>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=98.38  E-value=2.7e-06  Score=70.30  Aligned_cols=132  Identities=17%  Similarity=0.283  Sum_probs=92.2

Q ss_pred             CCCCHHHHCCHHHHHHHHHHHHHC--------CCCCEEEEECCCCCCCHHHHHHHHHHHHHC---CCCCCCCCHHHCCCC
Q ss_conf             587565610929999999999982--------889816631179898889999999999817---799886431210126
Q gi|254780217|r    7 DPVYNQRLFGHEDIEKFLSQYYCS--------GRMHHALLFEGEQGIGKATLGFRYAGHVLQ---NPDFSKAPVRMCNPD   75 (347)
Q Consensus         7 ~p~~~~~i~G~~~~~~~L~~~~~~--------~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc---~~~~~~~~~~~~~~~   75 (347)
                      .+.--+.|+||+.+++.|..+++.        +|.--++||+||-|||||-+|+.+|+.|==   -.+-+.+--.     
T Consensus       492 ~~~L~~kIfGQD~AI~~lv~aiK~SrAGl~~~nkP~GSFLF~GPTGVGKTElak~LA~~LGv~l~RFDMSEYmEK-----  566 (774)
T TIGR02639       492 EKELKAKIFGQDEAIEQLVSAIKRSRAGLGEPNKPVGSFLFVGPTGVGKTELAKQLAEELGVHLLRFDMSEYMEK-----  566 (774)
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCCCCHHHHHHHHHHHHCCHHCCCCCHHHHHH-----
T ss_conf             476301315158999999999999874247788816888864798962578899999970820010465044689-----


Q ss_pred             CCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHH
Q ss_conf             78867999967898754530010001013421232378875544310222111121035322055424000145677766
Q gi|254780217|r   76 PCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLE  155 (347)
Q Consensus        76 ~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LE  155 (347)
                        |-+.|+|  |+=|.|+=+    ++. |            .|-+-+.    .+++-|+++||+|+=+.+=.|-||=+|=
T Consensus       567 --HTVsRLI--GsPPGYVGf----EqG-G------------LLT~Avr----K~P~cVLLLDEIEKAHpDI~NILLQVMD  621 (774)
T TIGR02639       567 --HTVSRLI--GSPPGYVGF----EQG-G------------LLTDAVR----KHPHCVLLLDEIEKAHPDIYNILLQVMD  621 (774)
T ss_pred             --HHHHHHH--CCCCCCCCC----CCC-C------------CCHHHHC----CCCCEEEHHHHHHHHHHHHHHHHHHHHC
T ss_conf             --9998741--688885131----677-7------------2122331----2885354234666631336667876633


Q ss_pred             HCC-----------CCCCEEEEEC
Q ss_conf             303-----------4341676504
Q gi|254780217|r  156 EPP-----------QKVLFILISH  168 (347)
Q Consensus       156 EPp-----------~~t~fiLit~  168 (347)
                      --.           .|+++|++||
T Consensus       622 ~AtLTDN~GrKaDFRNVILIMTSN  645 (774)
T TIGR02639       622 YATLTDNNGRKADFRNVILIMTSN  645 (774)
T ss_pred             CCEEECCCCCEEEECCEEEEECCC
T ss_conf             543405888576311368884037


No 119
>PRK08727 hypothetical protein; Validated
Probab=98.37  E-value=3.2e-05  Score=61.71  Aligned_cols=176  Identities=15%  Similarity=0.181  Sum_probs=108.4

Q ss_pred             CCHHHHCCHH-HHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCC
Q ss_conf             7565610929-999999999982889816631179898889999999999817799886431210126788679999678
Q gi|254780217|r    9 VYNQRLFGHE-DIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASH   87 (347)
Q Consensus         9 ~~~~~i~G~~-~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~   87 (347)
                      .+|+.+++-. .....+... ..+.-++-+.+|||+|+||+-++.+++...-..                          
T Consensus        16 ~tfdnFi~~~n~~~a~l~~~-~~~~~~~~lyl~G~~GsGKTHLl~a~~~~~~~~--------------------------   68 (233)
T PRK08727         16 QRFDSYIAAPDGLLAQLQAL-AAGQSSDWLYLSGPAGTGKTHLALSLCAAAEQA--------------------------   68 (233)
T ss_pred             CCHHHCCCCCHHHHHHHHHH-HCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHC--------------------------
T ss_conf             24212067855999999987-438888989998999998899999999999827--------------------------


Q ss_pred             CCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH--HHHHHHHHHHHHCC-CCCCEE
Q ss_conf             987545300100010134212323788755443102221111210353220554240--00145677766303-434167
Q gi|254780217|r   88 ALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR--NAANALLKSLEEPP-QKVLFI  164 (347)
Q Consensus        88 ~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~--~AaNALLK~LEEPp-~~t~fi  164 (347)
                       .....++...  ..         .+..+++.+.      ....-++.||++|.+..  +.+-+|-.+...-- .++.++
T Consensus        69 -~~~~~yl~l~--~~---------~~~~~~~l~~------le~~~ll~iDDid~i~g~~~~e~aLFhL~N~~~~~~~~ll  130 (233)
T PRK08727         69 -GRSSAYLPLQ--AA---------AGRLRDALEA------LEGRSLVALDGVDSIAGQREDEVALFDFHNRARAAGITLL  130 (233)
T ss_pred             -CCCEEEEEHH--HH---------HHHHHHHHHH------HCCCCEEEEECCHHCCCCHHHHHHHHHHHHHHHHCCCEEE
T ss_conf             -9972884478--85---------3202567753------1038978985501126982799999999999986198389


Q ss_pred             EEECCC-C---CCCHHHHCEE---EEEECCCCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHHHHHC
Q ss_conf             650443-3---5730252036---9886479998999999997----27888967899999975989789998814
Q gi|254780217|r  165 LISHAS-P---TILSTIRSRC---LSIKFNSLSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAIKILH  229 (347)
Q Consensus       165 Lit~~~-~---~il~TI~SRc---~~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~  229 (347)
                      ++++.+ .   -.+|-++||.   ..+.+++++.++...+|.+    .+...+++..+++..-..-++..+..+++
T Consensus       131 ~ts~~~P~~l~~~l~DL~SRL~~~~~~~l~~~dD~~~~~iL~~~a~~rgl~l~~~V~~Yll~r~~R~~~~l~~~l~  206 (233)
T PRK08727        131 YTARQMPDGLALVLPDLRSRLSQCIRIGLPVLDDVARAAVLRDRAQRRGLALDEAAIDWLLTHGERELAGLVALLD  206 (233)
T ss_pred             EECCCCHHHHCCCHHHHHHHHHCCCEEEECCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             9779895662310021999996692288578897999999999999869999989999999856889999999999


No 120
>pfam00308 Bac_DnaA Bacterial dnaA protein.
Probab=98.32  E-value=4e-05  Score=60.91  Aligned_cols=185  Identities=17%  Similarity=0.178  Sum_probs=106.4

Q ss_pred             CHHHH-CCHHHHHH-HHHHHHHC--CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHH
Q ss_conf             56561-09299999-99999982--8898166311798988899999999998177998864312101267886799996
Q gi|254780217|r   10 YNQRL-FGHEDIEK-FLSQYYCS--GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMA   85 (347)
Q Consensus        10 ~~~~i-~G~~~~~~-~L~~~~~~--~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~   85 (347)
                      +|+.+ +|..+... .+...+..  +.--+.+.+|||+|+||+.+..+++..........                    
T Consensus         6 TFdnF~vg~~N~~a~~~~~~i~~~~~~~~npl~i~G~~G~GKTHLLqA~~~~~~~~~~~~--------------------   65 (219)
T pfam00308         6 TFENFVIGSSNRFAHAAALAVAEAPGKAYNPLFIYGGVGLGKTHLLHAIGNYALRNFPNL--------------------   65 (219)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCC--------------------
T ss_conf             710202368389999999999967587678269988999988899999999999849998--------------------


Q ss_pred             CCCCCCEEEECCCCHHHCCCCCCCCCHHHHHH--HHHHCCCCCCCCCCHHHHHHHHHHCCH--HHHHHHHHHHHHCCC-C
Q ss_conf             78987545300100010134212323788755--443102221111210353220554240--001456777663034-3
Q gi|254780217|r   86 SHALHDFLYLSYSLNPKTGKWRTVITVDEIRR--IRYFLSLTANTGYWRVIMIDPVDGMNR--NAANALLKSLEEPPQ-K  160 (347)
Q Consensus        86 ~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~--l~~~~~~~~~~~~~Ki~IId~ad~ln~--~AaNALLK~LEEPp~-~  160 (347)
                           .+.+++..  +-..     -.++-+++  +..+   .......-+++||++|.+..  ..+.+|.-++..--. +
T Consensus        66 -----~v~yl~~~--~~~~-----~~~~~l~~~~~~~f---~~~l~~~d~l~iDDi~~l~~~~~~ee~lf~l~N~~~~~~  130 (219)
T pfam00308        66 -----RVVYLTSE--EFLN-----DFVDALRDNKIEAF---KKSYRNVDLLLIDDIQFLAGKEKTQEEFFHTFNALHENN  130 (219)
T ss_pred             -----EEEEEEHH--HHHH-----HHHHHHHCCCHHHH---HHHHHHCCHHHHCCHHHHCCCHHHHHHHHHHHHHHHHCC
T ss_conf             -----28884399--9999-----88999981888899---999763233652236765686478999999999999729


Q ss_pred             CCEEEEECCC-C---CCCHHHHCEE---EEEECCCCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHHHHHC
Q ss_conf             4167650443-3---5730252036---9886479998999999997----27888967899999975989789998814
Q gi|254780217|r  161 VLFILISHAS-P---TILSTIRSRC---LSIKFNSLSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAIKILH  229 (347)
Q Consensus       161 t~fiLit~~~-~---~il~TI~SRc---~~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~  229 (347)
                      ..++++++.+ .   ..++-++||+   ..+.+.+|+.++..++|.+    .+..++++..++++.-..++++.....++
T Consensus       131 ~~lllts~~~p~~l~~~~~dL~SRL~~g~~~~i~~pdd~~~~~iL~~~a~~r~l~l~~~v~~yl~~r~~R~~r~L~~~L~  210 (219)
T pfam00308       131 KQIVLTSDRPPKELEGFEDRLRSRFEWGLIIAIEPPDLETRLAILRKKAEEENINIPNEVLNFIAQRITDNVRELEGALN  210 (219)
T ss_pred             CEEEEECCCCCCCCCCCCHHHHHHHHCCEEEECCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             86999779981002453277999986875661169999999999999999849999999999999842798999999999


No 121
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=98.31  E-value=0.00043  Score=52.60  Aligned_cols=191  Identities=15%  Similarity=0.138  Sum_probs=115.4

Q ss_pred             CCCCCCCCHHHHCCHHHHHHHHHHHHHC-CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHH
Q ss_conf             6555587565610929999999999982-889816631179898889999999999817799886431210126788679
Q gi|254780217|r    3 DRAFDPVYNQRLFGHEDIEKFLSQYYCS-GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFV   81 (347)
Q Consensus         3 ~~~~~p~~~~~i~G~~~~~~~L~~~~~~-~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~   81 (347)
                      ..+|..-+|-.=-+...+.....+..+. |+.-+-+.+|||.|.|||-++.++....+...                   
T Consensus        81 ~~~ytFdnFv~g~~N~~A~aa~~~va~~~g~~~nplfi~G~~GlGKTHLl~Aign~~~~~~-------------------  141 (408)
T COG0593          81 NPKYTFDNFVVGPSNRLAYAAAKAVAENPGGAYNPLFIYGGVGLGKTHLLQAIGNEALANG-------------------  141 (408)
T ss_pred             CCCCCHHHEEECCCHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHC-------------------
T ss_conf             9888554220477449999999998756688689579987999978999999999998629-------------------


Q ss_pred             HHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHH--HHHHCCCCCCCCCCHHHHHHHHHHCCH--HHHHHHHHHHHHC
Q ss_conf             999678987545300100010134212323788755--443102221111210353220554240--0014567776630
Q gi|254780217|r   82 KQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRR--IRYFLSLTANTGYWRVIMIDPVDGMNR--NAANALLKSLEEP  157 (347)
Q Consensus        82 ~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~--l~~~~~~~~~~~~~Ki~IId~ad~ln~--~AaNALLK~LEEP  157 (347)
                            -++-++++..+  .-...     -|..+|+  +.+|   +-.. ..-+++||+++.+..  ..+.+|--|..+-
T Consensus       142 ------~~a~v~y~~se--~f~~~-----~v~a~~~~~~~~F---k~~y-~~dlllIDDiq~l~gk~~~qeefFh~FN~l  204 (408)
T COG0593         142 ------PNARVVYLTSE--DFTND-----FVKALRDNEMEKF---KEKY-SLDLLLIDDIQFLAGKERTQEEFFHTFNAL  204 (408)
T ss_pred             ------CCCEEEECCHH--HHHHH-----HHHHHHHHHHHHH---HHHH-CCCEEEECHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             ------98648850489--98999-----9999885048888---8764-267355513867567715799999999988


Q ss_pred             CCCC-CEEEEECCC-C---CCCHHHHCEE---EEEECCCCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHH
Q ss_conf             3434-167650443-3---5730252036---9886479998999999997----2788896789999997598978999
Q gi|254780217|r  158 PQKV-LFILISHAS-P---TILSTIRSRC---LSIKFNSLSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAI  225 (347)
Q Consensus       158 p~~t-~fiLit~~~-~---~il~TI~SRc---~~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~  225 (347)
                      ..+. .+++++..+ .   .+.|-++||.   ..+.+.||+.+....+|..    .+..++++...+++..-..+++.+.
T Consensus       205 ~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka~~~~~~i~~ev~~~la~~~~~nvReLe  284 (408)
T COG0593         205 LENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAILRKKAEDRGIEIPDEVLEFLAKRLDRNVRELE  284 (408)
T ss_pred             HHCCCEEEEECCCCCHHHCCCCHHHHHHHHCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCHHHHH
T ss_conf             85088799970788322110358899898630577527988899999999999865888887999999997003099999


Q ss_pred             HHHC
Q ss_conf             8814
Q gi|254780217|r  226 KILH  229 (347)
Q Consensus       226 ~ll~  229 (347)
                      -.++
T Consensus       285 gaL~  288 (408)
T COG0593         285 GALN  288 (408)
T ss_pred             HHHH
T ss_conf             9999


No 122
>KOG2004 consensus
Probab=98.31  E-value=1.6e-05  Score=64.08  Aligned_cols=157  Identities=23%  Similarity=0.328  Sum_probs=97.0

Q ss_pred             HHHCCHHHHHHHHHHHHHCCCCC-----EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHC
Q ss_conf             56109299999999999828898-----1663117989888999999999981779988643121012678867999967
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYYCSGRMH-----HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMAS   86 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~~~~~l~-----ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~   86 (347)
                      .+=+|-+++++.....+.-++|-     --+-|+||||+||++.|+.+|++|.-..-  ....|..        +-.-+.
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFf--RfSvGG~--------tDvAeI  480 (906)
T KOG2004         411 EDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRKFF--RFSVGGM--------TDVAEI  480 (906)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCCCHHHHHHHHHCCCEE--EEECCCC--------CCHHHH
T ss_conf             653016889999999999875146678837998689987732189999998487469--9853663--------427764


Q ss_pred             CCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH----HHHHHHHHHHHHCC----
Q ss_conf             8987545300100010134212323788755443102221111210353220554240----00145677766303----
Q gi|254780217|r   87 HALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR----NAANALLKSLEEPP----  158 (347)
Q Consensus        87 ~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~----~AaNALLK~LEEPp----  158 (347)
                      .-|..-++ .  .++.              .++.-+-..-.++  -+++||++|.+-.    +-+-|||-.|- |-    
T Consensus       481 kGHRRTYV-G--AMPG--------------kiIq~LK~v~t~N--PliLiDEvDKlG~g~qGDPasALLElLD-PEQNan  540 (906)
T KOG2004         481 KGHRRTYV-G--AMPG--------------KIIQCLKKVKTEN--PLILIDEVDKLGSGHQGDPASALLELLD-PEQNAN  540 (906)
T ss_pred             CCCCEEEE-C--CCCH--------------HHHHHHHHHCCCC--CEEEEEHHHHHCCCCCCCHHHHHHHHCC-HHHCCC
T ss_conf             25421100-1--4884--------------8999998617788--6588532234178877986899987439-653553


Q ss_pred             ------------CCCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH
Q ss_conf             ------------4341676504433573025203698864799989999999
Q gi|254780217|r  159 ------------QKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL  198 (347)
Q Consensus       159 ------------~~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L  198 (347)
                                  +.++||-++|..+.|+|+++-|--.+.++.-..++-.++-
T Consensus       541 FlDHYLdVp~DLSkVLFicTAN~idtIP~pLlDRMEvIelsGYv~eEKv~IA  592 (906)
T KOG2004         541 FLDHYLDVPVDLSKVLFICTANVIDTIPPPLLDRMEVIELSGYVAEEKVKIA  592 (906)
T ss_pred             HHHHCCCCCCCHHHEEEEEECCCCCCCCHHHHHHHHEEECCCCCHHHHHHHH
T ss_conf             4542026642111068898536445698566412232203672279899999


No 123
>KOG0733 consensus
Probab=98.31  E-value=2.4e-05  Score=62.73  Aligned_cols=182  Identities=20%  Similarity=0.189  Sum_probs=112.3

Q ss_pred             CHHHHCCHHHHHHHHHHHHHC-----------CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCC
Q ss_conf             565610929999999999982-----------889816631179898889999999999817799886431210126788
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYYCS-----------GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCS   78 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~~~-----------~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~   78 (347)
                      +|++|=|-+.....|-..+-.           -+.|.++|||||||+|||.+|.++|..+=-       |          
T Consensus       188 ~f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~v-------P----------  250 (802)
T KOG0733         188 SFSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGV-------P----------  250 (802)
T ss_pred             CHHHCCCHHHHHHHHHHHHHHHCCCHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHCCC-------C----------
T ss_conf             36541673899999999998852811686628779975164489986478999997521288-------5----------


Q ss_pred             HHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHH----------
Q ss_conf             6799996789875453001000101342123237887554431022211112103532205542400014----------
Q gi|254780217|r   79 PFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAAN----------  148 (347)
Q Consensus        79 ~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaN----------  148 (347)
                                   ++-|..+.-- .|..+  =+=+.||++-....    ...-.|++||++|..+..-.+          
T Consensus       251 -------------f~~isApeiv-SGvSG--ESEkkiRelF~~A~----~~aPcivFiDeIDAI~pkRe~aqreMErRiV  310 (802)
T KOG0733         251 -------------FLSISAPEIV-SGVSG--ESEKKIRELFDQAK----SNAPCIVFIDEIDAITPKREEAQREMERRIV  310 (802)
T ss_pred             -------------EEEECCHHHH-CCCCC--CCHHHHHHHHHHHH----CCCCEEEEEECCCCCCCCHHHHHHHHHHHHH
T ss_conf             -------------4851414653-15575--22899999999873----6697599851100136440457889999999


Q ss_pred             -HHHHHHHHCCCC------CCEEEEECCCCCCCHHHHCEE---EEEECCCCCHHHHHHHHHHH--CCCC-CHHHHHHHHH
Q ss_conf             -567776630343------416765044335730252036---98864799989999999972--7888-9678999999
Q gi|254780217|r  149 -ALLKSLEEPPQK------VLFILISHASPTILSTIRSRC---LSIKFNSLSENNLYKALEQL--KIMG-WDSKRDFVKI  215 (347)
Q Consensus       149 -ALLK~LEEPp~~------t~fiLit~~~~~il~TI~SRc---~~i~f~~l~~~~~~~~L~~~--~~~~-~~~~~~~~~~  215 (347)
                       -||-.|-|+...      ++.|=.|+.|+.|-|.+|-=-   +.+-+.-+++..-.++|...  +... .+-...-++.
T Consensus       311 aQLlt~mD~l~~~~~~g~~VlVIgATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g~~d~~qlA~  390 (802)
T KOG0733         311 AQLLTSMDELSNEKTKGDPVLVIGATNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSGDFDFKQLAK  390 (802)
T ss_pred             HHHHHHHHCCCCCCCCCCCEEEEECCCCCCCCCHHHHCCCCCCCEEEECCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHH
T ss_conf             99998510025666689976998247897655877732565532353068966889999999986277787768999975


Q ss_pred             HCCCCHHHHHHHH
Q ss_conf             7598978999881
Q gi|254780217|r  216 AAYGSVARAIKIL  228 (347)
Q Consensus       216 ~s~Gs~~~A~~ll  228 (347)
                      ++.|=+|.-+.-+
T Consensus       391 lTPGfVGADL~AL  403 (802)
T KOG0733         391 LTPGFVGADLMAL  403 (802)
T ss_pred             CCCCCCCHHHHHH
T ss_conf             1887521419999


No 124
>KOG1968 consensus
Probab=98.31  E-value=6.9e-06  Score=67.05  Aligned_cols=201  Identities=18%  Similarity=0.209  Sum_probs=125.6

Q ss_pred             CCCCCCCCHHHHCCHHHHHHHHHHHHHCC--------------CCCE-EEEECCCCCCCHHHHHHHHHHHHHCC-CCCCC
Q ss_conf             65555875656109299999999999828--------------8981-66311798988899999999998177-99886
Q gi|254780217|r    3 DRAFDPVYNQRLFGHEDIEKFLSQYYCSG--------------RMHH-ALLFEGEQGIGKATLGFRYAGHVLQN-PDFSK   66 (347)
Q Consensus         3 ~~~~~p~~~~~i~G~~~~~~~L~~~~~~~--------------~l~h-a~Lf~Gp~GiGK~~~A~~~A~~llc~-~~~~~   66 (347)
                      ..||+|++-.++.|.......+.+....-              ..-+ |.|.+||||+||++.|...|+.+.-. -+.+.
T Consensus       311 ~~k~~p~~~k~~~~~~~~~~~~~~~l~~~k~~~~~sy~~~~~~ss~~~~~l~~G~pGigKT~~~h~~~k~~g~~v~E~Na  390 (871)
T KOG1968         311 TEKYQPTSSKALEGNASSSKKASKWLAKSKDKEKSSYKENEPDSSKKKALLLSGPPGIGKTTAAHKAAKELGFKVVEKNA  390 (871)
T ss_pred             CCCCCCCCHHHHHCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCCEEECCC
T ss_conf             31126530776633520366666588762213335400268615667788731788777205676630120654010475


Q ss_pred             CCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHH
Q ss_conf             43121012678867999967898754530010001013421232378875544310222111121035322055424000
Q gi|254780217|r   67 APVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNA  146 (347)
Q Consensus        67 ~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~A  146 (347)
                      ..|.   +      -+...               ++-+....+=+|..=+  ..+-+-....+..-|+|+|++|-|...+
T Consensus       391 s~~R---S------k~~l~---------------~~~~~~~~s~si~~~~--~~~~~~~~~~~~~~vil~devD~~~~~d  444 (871)
T KOG1968         391 SDVR---S------KKELL---------------NKLGNATSSHSIKGSK--KKKGNRQSLNSDHFLILMDEVDGMFGED  444 (871)
T ss_pred             CCCC---C------CCHHH---------------HHHHCCCCCCCHHHHH--CCCCCCCCCCCCEEEEEEECCCCCCCHH
T ss_conf             4334---4------22777---------------6640244664000111--1113300046660699974255442000


Q ss_pred             ---HHHHHHHHHHCCCCCCEEEEECCCCCCCH-HHHCEEEEEECCCCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCC
Q ss_conf             ---14567776630343416765044335730-2520369886479998999999997----278889678999999759
Q gi|254780217|r  147 ---ANALLKSLEEPPQKVLFILISHASPTILS-TIRSRCLSIKFNSLSENNLYKALEQ----LKIMGWDSKRDFVKIAAY  218 (347)
Q Consensus       147 ---aNALLK~LEEPp~~t~fiLit~~~~~il~-TI~SRc~~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~  218 (347)
                         --++=.+.+  -.-.-++++|+..+.... ++-+=|..++|+.++.+.+...+..    ....+.+...+.+..++.
T Consensus       445 Rg~v~~l~~l~~--ks~~Piv~~cndr~~p~sr~~~~~~~~l~f~kP~~~~i~~ri~si~~se~~ki~~~~l~~~s~~~~  522 (871)
T KOG1968         445 RGGVSKLSSLCK--KSSRPLVCTCNDRNLPKSRALSRACSDLRFSKPSSELIRSRIMSICKSEGIKISDDVLEEISKLSG  522 (871)
T ss_pred             HHHHHHHHHHHH--HCCCCEEEEECCCCCCCCCCHHHHCCEEEECCCCHHHHHHHHHHHHCCCCEECCCHHHHHHHHHCC
T ss_conf             136999999998--635776887337777665202232002340488577777666533024642417278899987506


Q ss_pred             CCHHHHHHHHCCC
Q ss_conf             8978999881457
Q gi|254780217|r  219 GSVARAIKILHYD  231 (347)
Q Consensus       219 Gs~~~A~~ll~~~  231 (347)
                      |+++..+..++..
T Consensus       523 ~DiR~~i~~lq~~  535 (871)
T KOG1968         523 GDIRQIIMQLQFW  535 (871)
T ss_pred             CCHHHHHHHHHHH
T ss_conf             4799999877644


No 125
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=98.30  E-value=1.8e-05  Score=63.69  Aligned_cols=183  Identities=16%  Similarity=0.140  Sum_probs=113.7

Q ss_pred             CCHHHHCCHHHHHHHHHHHHHCC------------CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCC
Q ss_conf             75656109299999999999828------------898166311798988899999999998177998864312101267
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYCSG------------RMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP   76 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~~~------------~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~   76 (347)
                      .++++|=|-+.+++.+..++.--            .-|-+.|+|||||+|||.+|++.|....|..-.-.+      |  
T Consensus       148 vtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFIrvvg------S--  219 (406)
T COG1222         148 VTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVG------S--  219 (406)
T ss_pred             CCHHHCCCHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHCCCCEEEEECC------H--
T ss_conf             78653358899999999984033668889997499999712766899975889999987205866999421------9--


Q ss_pred             CCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC-----------HH
Q ss_conf             8867999967898754530010001013421232378875544310222111121035322055424-----------00
Q gi|254780217|r   77 CSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMN-----------RN  145 (347)
Q Consensus        77 ~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln-----------~~  145 (347)
                         ..-+-.-|.-+                      -=||++-.-..    +..--|++||++|..-           .+
T Consensus       220 ---ElVqKYiGEGa----------------------RlVRelF~lAr----ekaPsIIFiDEIDAIg~kR~d~~t~gDrE  270 (406)
T COG1222         220 ---ELVQKYIGEGA----------------------RLVRELFELAR----EKAPSIIFIDEIDAIGAKRFDSGTSGDRE  270 (406)
T ss_pred             ---HHHHHHHCCCH----------------------HHHHHHHHHHH----HCCCEEEEEECHHHHHCCCCCCCCCCHHH
T ss_conf             ---99999834116----------------------99999999874----14984999831122311113688885099


Q ss_pred             HHHHHHHHHH-----HCCCCCCEEEEECCCCCCCHHHHC--EE-EEEECCCCCHHHHHHHHHHH--CCC-CCHHHHHHHH
Q ss_conf             0145677766-----303434167650443357302520--36-98864799989999999972--788-8967899999
Q gi|254780217|r  146 AANALLKSLE-----EPPQKVLFILISHASPTILSTIRS--RC-LSIKFNSLSENNLYKALEQL--KIM-GWDSKRDFVK  214 (347)
Q Consensus       146 AaNALLK~LE-----EPp~~t~fiLit~~~~~il~TI~S--Rc-~~i~f~~l~~~~~~~~L~~~--~~~-~~~~~~~~~~  214 (347)
                      -|-.||-.|-     +|-.|+.+|..||.++-|-|.++-  |- +++.|+.|+.+.-.++|+-.  ..+ ..+-..+.++
T Consensus       271 VQRTmleLL~qlDGFD~~~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd~e~la  350 (406)
T COG1222         271 VQRTMLELLNQLDGFDPRGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVDLELLA  350 (406)
T ss_pred             HHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCCCHHHCCCCCCCCEEECCCCCHHHHHHHHHHHHHHCCCCCCCCHHHHH
T ss_conf             99999999986058897887689985588555576650887545301168989789999999876214676676999998


Q ss_pred             HHCCCCHHHHHHHH
Q ss_conf             97598978999881
Q gi|254780217|r  215 IAAYGSVARAIKIL  228 (347)
Q Consensus       215 ~~s~Gs~~~A~~ll  228 (347)
                      ..++|.-|.-++-+
T Consensus       351 ~~~~g~sGAdlkai  364 (406)
T COG1222         351 RLTEGFSGADLKAI  364 (406)
T ss_pred             HHCCCCCHHHHHHH
T ss_conf             75389956779999


No 126
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=98.29  E-value=1.4e-06  Score=72.68  Aligned_cols=49  Identities=20%  Similarity=0.335  Sum_probs=44.3

Q ss_pred             CCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             5875656109299999999999828898166311798988899999999998
Q gi|254780217|r    7 DPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus         7 ~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      -|.-.++++||+++++..+.+.++.|  | .|+.||||+||+.+|++++..|
T Consensus        26 P~~lidqVIGQe~Av~~i~~Aa~qrr--h-vlliG~PGtGKSmlakam~elL   74 (637)
T PRK13765         26 PKLLIDQVIGQEHAVEVIKKAAKQRR--H-VMLIGSPGTGKSMLAKAMAELL   74 (637)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHC--C-EEEECCCCCCHHHHHHHHHHHC
T ss_conf             98523324571999999999998437--3-8986899987999999999757


No 127
>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=98.24  E-value=1.7e-05  Score=63.96  Aligned_cols=159  Identities=20%  Similarity=0.327  Sum_probs=108.6

Q ss_pred             CCHHHHCCHHHHHHHHHHHHHC--------------C-CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCC
Q ss_conf             7565610929999999999982--------------8-898166311798988899999999998177998864312101
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYCS--------------G-RMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCN   73 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~~--------------~-~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~   73 (347)
                      +.++.+||=+++++.....|..              + ..=| .+|.|-||+||||.|+.+|+..-              
T Consensus         3 ~EL~~~vGL~~vK~~i~EiYA~i~i~~kR~~~GLk~~~~~LH-MiFKGNPGTGKTTVAR~~gklf~--------------   67 (261)
T TIGR02881         3 RELSRLVGLDEVKELIKEIYAWIQINEKRKEEGLKTSKQVLH-MIFKGNPGTGKTTVARLLGKLFK--------------   67 (261)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEE-EEEECCCCCCHHHHHHHHHHHHH--------------
T ss_conf             235640488899999999999999988887510114884478-77427866843899999999985--------------


Q ss_pred             CCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC--------HH
Q ss_conf             2678867999967898754530010001013421232378875544310222111121035322055424--------00
Q gi|254780217|r   74 PDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMN--------RN  145 (347)
Q Consensus        74 ~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln--------~~  145 (347)
                               .|.-.+--.+++++|+- -=++..+.  +-...|+++++     ..||  |.+||+|=.|.        ++
T Consensus        68 ---------emnvL~KGH~iE~ERAD-LVGEYIGH--TAqkTRe~~kk-----A~GG--vLFiDEAYSLaRGGEKDFGKE  128 (261)
T TIGR02881        68 ---------EMNVLSKGHLIEVERAD-LVGEYIGH--TAQKTREVIKK-----ALGG--VLFIDEAYSLARGGEKDFGKE  128 (261)
T ss_pred             ---------HCCCCCCCCEEEEEECC-CCCCCCCC--HHHHHHHHHHH-----HCCC--CHHHHHHHHHHCCCCCCCCCH
T ss_conf             ---------33756788678876222-12232030--04899999998-----6388--005577777614888876620


Q ss_pred             HHHHHHHHHHHCCCCCCEEEEE--C---CCCCCCHHHHCEE-EEEECCCCCHHHHHHHHHHH
Q ss_conf             0145677766303434167650--4---4335730252036-98864799989999999972
Q gi|254780217|r  146 AANALLKSLEEPPQKVLFILIS--H---ASPTILSTIRSRC-LSIKFNSLSENNLYKALEQL  201 (347)
Q Consensus       146 AaNALLK~LEEPp~~t~fiLit--~---~~~~il~TI~SRc-~~i~f~~l~~~~~~~~L~~~  201 (347)
                      |=..|-|-+|+-..+-++||.=  .   +--.+=|=++||- ..+.|+--+.+++.++.+..
T Consensus       129 AIDtLVK~mEd~~~~lvlILAGY~~EM~yFL~~NPGL~SRFPi~i~FPdY~~eeL~~Ia~~m  190 (261)
T TIGR02881       129 AIDTLVKAMEDQRNELVLILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYTVEELMEIAERM  190 (261)
T ss_pred             HHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHCCCCCCCCCCCEEECCCCCHHHHHHHHHHH
T ss_conf             88899998761569868997087689999862077977766505418899888999999999


No 128
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=98.21  E-value=0.00046  Score=52.36  Aligned_cols=183  Identities=14%  Similarity=0.220  Sum_probs=110.9

Q ss_pred             HHH-HCCHHHHHHHHH-HHH--HCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHC
Q ss_conf             656-109299999999-999--8288981663117989888999999999981779988643121012678867999967
Q gi|254780217|r   11 NQR-LFGHEDIEKFLS-QYY--CSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMAS   86 (347)
Q Consensus        11 ~~~-i~G~~~~~~~L~-~~~--~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~   86 (347)
                      |+. |+|-.+....-. .++  ..|..-+-+.+||+.|+|||-+..+++..++......                     
T Consensus       118 FdnFVvG~sN~lA~aAA~~Va~~pg~~yNPLfIyG~~GlGKTHLl~AIgn~~~~~~p~~---------------------  176 (447)
T PRK00149        118 FDNFVVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNA---------------------  176 (447)
T ss_pred             CCCCEECCCCHHHHHHHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCC---------------------
T ss_conf             32622269859999999999837676778558977998878899999999999858997---------------------


Q ss_pred             CCCCCEEEECCCCHHHCCCCCCCC---CHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC--HHHHHHHHHHHHHCC-CC
Q ss_conf             898754530010001013421232---378875544310222111121035322055424--000145677766303-43
Q gi|254780217|r   87 HALHDFLYLSYSLNPKTGKWRTVI---TVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMN--RNAANALLKSLEEPP-QK  160 (347)
Q Consensus        87 ~~hpd~~~i~~~~~~k~~~~~~~I---~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln--~~AaNALLK~LEEPp-~~  160 (347)
                          .++++...  +-....-..|   ++++-|+   +.  .    ..-|.+|||++.+.  ...|.-|.-|+..-- .+
T Consensus       177 ----~v~Y~tae--~F~~~~v~al~~~~~~~Fr~---~y--r----~~DvLliDDiqfl~gk~~tqeeff~~fn~l~~~~  241 (447)
T PRK00149        177 ----KVVYVSSE--KFTNDFVKALRNNAMEEFKE---KY--R----SVDVLLIDDIQFLAGKEKTQEEFFHTFNALHENN  241 (447)
T ss_pred             ----EEEEEEHH--HHHHHHHHHHHCCCHHHHHH---HH--H----CCCEEEECHHHHHHCCHHHHHHHHHHHHHHHHCC
T ss_conf             ----28995499--99999999985186999999---99--7----2885432148886055779999999999999849


Q ss_pred             CCEEEEECCCC----CCCHHHHCEE---EEEECCCCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHHHHHC
Q ss_conf             41676504433----5730252036---9886479998999999997----27888967899999975989789998814
Q gi|254780217|r  161 VLFILISHASP----TILSTIRSRC---LSIKFNSLSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAIKILH  229 (347)
Q Consensus       161 t~fiLit~~~~----~il~TI~SRc---~~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~  229 (347)
                      --++++|..+-    .+-+-++||.   ..+.+.+|+.+.-.++|.+    .+..++++..++++....+++|...-.++
T Consensus       242 kqiv~tsd~~P~~l~~l~~rL~SRf~~Gl~~~i~~Pd~e~r~~Il~~k~~~~~~~l~~~v~~~iA~~~~~nvR~LeGal~  321 (447)
T PRK00149        242 KQIVITSDRPPKELEGLEDRLRSRFEWGLTVDIEPPDLETRVAILQKKAEEEGINLPNEVLEFIAKRIRSNIRELEGALN  321 (447)
T ss_pred             CEEEEECCCCHHHCCCCCHHHHHHHHCCEEEECCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             96899578896765651177886763762651059999999999999999728999989999999712688999999999


No 129
>pfam06144 DNA_pol3_delta DNA polymerase III, delta subunit. DNA polymerase III, delta subunit (EC 2.7.7.7) is required for, along with delta' subunit, the assembly of the processivity factor beta(2) onto primed DNA in the DNA polymerase III holoenzyme-catalysed reaction. The delta subunit is also known as HolA.
Probab=98.17  E-value=2.8e-05  Score=62.18  Aligned_cols=154  Identities=12%  Similarity=0.127  Sum_probs=109.4

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHH
Q ss_conf             63117989888999999999981779988643121012678867999967898754530010001013421232378875
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIR  116 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR  116 (347)
                      |+|||+.-.=.......+.+.+.....                        ..-++..++          +....+++  
T Consensus         1 Yll~G~e~~l~~~~~~~i~~~~~~~~~------------------------~~~n~~~~d----------~~~~~~~~--   44 (172)
T pfam06144         1 YLLYGEDPFLLEETKDQILKAALDQGF------------------------EDFNYIYFD----------LEEDWADD--   44 (172)
T ss_pred             CEEECCCHHHHHHHHHHHHHHHHCCCC------------------------CEEEEEEEC----------CCCCCHHH--
T ss_conf             979728599999999999999737997------------------------303689862----------77666999--


Q ss_pred             HHHHHCCCCCCCCCCHHHHHHHHHH----CCHHHHHHHHHHHHHCCCCCCEEEEECC----CCCCCHHHHCEEEEEECCC
Q ss_conf             5443102221111210353220554----2400014567776630343416765044----3357302520369886479
Q gi|254780217|r  117 RIRYFLSLTANTGYWRVIMIDPVDG----MNRNAANALLKSLEEPPQKVLFILISHA----SPTILSTIRSRCLSIKFNS  188 (347)
Q Consensus       117 ~l~~~~~~~~~~~~~Ki~IId~ad~----ln~~AaNALLK~LEEPp~~t~fiLit~~----~~~il~TI~SRc~~i~f~~  188 (347)
                       +...+...|..|++|+++|.++..    ...+....|.+.++.||+++++|+.++.    ..++...+.+-+..+.|.+
T Consensus        45 -i~~~~~t~slF~~~rlvii~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lv~~~~~~~~~~~k~~k~l~k~~~~i~~~~  123 (172)
T pfam06144        45 -VLEECETLPFFSDKRIVILNNPNLKESKLNEKLLKRLEEYLSNPPEDTLLIIEAPGKLDERKKLTKLLKKKATVVECFT  123 (172)
T ss_pred             -HHHHHCCCCCCCCCEEEEEECCCCCCCCCCHHHHHHHHHHHHCCCCCEEEEEEECCCHHHHHHHHHHHHHCCEEEEECC
T ss_conf             -9999728998889769999776424455539999999999836998728999836741367888999983766999348


Q ss_pred             CCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHHHH
Q ss_conf             998999999997----278889678999999759897899988
Q gi|254780217|r  189 LSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAIKI  227 (347)
Q Consensus       189 l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~~l  227 (347)
                      ++..++..|+.+    .+..++.++.+.++....|+...+.+-
T Consensus       124 ~~~~~l~~wi~~~~~~~g~~i~~~a~~~L~~~~g~nl~~l~~E  166 (172)
T pfam06144       124 LKEEELIQWIQKRAKELGLKIEKDALQLLAEKVENNLLAIAQE  166 (172)
T ss_pred             CCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCHHHHHHHHH
T ss_conf             9878999999999998499989999999999978489999999


No 130
>KOG1942 consensus
Probab=98.16  E-value=0.00026  Score=54.40  Aligned_cols=97  Identities=20%  Similarity=0.249  Sum_probs=75.4

Q ss_pred             HHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEEC-------------CCCCCCHHHHCEEEEEECCCCCHHHHHHHH
Q ss_conf             0353220554240001456777663034341676504-------------433573025203698864799989999999
Q gi|254780217|r  132 RVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISH-------------ASPTILSTIRSRCLSIKFNSLSENNLYKAL  198 (347)
Q Consensus       132 Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~-------------~~~~il~TI~SRc~~i~f~~l~~~~~~~~L  198 (347)
                      -|.+||++|.+..+...-|-|.||-|-.-++++ .||             .|+.|++-+.-|...++-.+-+++++++++
T Consensus       298 GVLFIDEVhMLDiEcFTyL~kalES~iaPivif-AsNrG~~~irGt~d~~sPhGip~dllDRl~Iirt~~y~~~e~r~Ii  376 (456)
T KOG1942         298 GVLFIDEVHMLDIECFTYLHKALESPIAPIVIF-ASNRGMCTIRGTEDILSPHGIPPDLLDRLLIIRTLPYDEEEIRQII  376 (456)
T ss_pred             CCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEE-ECCCCCEEECCCCCCCCCCCCCHHHHHHEEEEEECCCCHHHHHHHH
T ss_conf             626863013242699999999862778756999-6277610221776787878899778612667860369989999999


Q ss_pred             HH----HCCCCCHHHHHHHHHHCCC-CHHHHHHHHC
Q ss_conf             97----2788896789999997598-9789998814
Q gi|254780217|r  199 EQ----LKIMGWDSKRDFVKIAAYG-SVARAIKILH  229 (347)
Q Consensus       199 ~~----~~~~~~~~~~~~~~~~s~G-s~~~A~~ll~  229 (347)
                      ..    ++....+++.+.+...+.. |.+-+++++.
T Consensus       377 ~~Ra~~E~l~~~e~a~~~l~~~gt~tsLRy~vqLl~  412 (456)
T KOG1942         377 KIRAQVEGLQVEEEALDLLAEIGTSTSLRYAVQLLT  412 (456)
T ss_pred             HHHHHHHCCEECHHHHHHHHHHCCCHHHHHHHHHCC
T ss_conf             998765142322889999876054145788988537


No 131
>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=98.16  E-value=3.2e-06  Score=69.74  Aligned_cols=124  Identities=18%  Similarity=0.177  Sum_probs=69.8

Q ss_pred             HHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHH--CCC
Q ss_conf             656109299999999999828898166311798988899999999998177998864312101267886799996--789
Q gi|254780217|r   11 NQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMA--SHA   88 (347)
Q Consensus        11 ~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~--~~~   88 (347)
                      |++|+||+.+++.|.-+... .  |.+|++||||+||+++|++++. ||-  ..+.....+         ...+.  +|.
T Consensus         2 f~di~GQ~~akrAl~iAaaG-~--H~lLl~GpPG~GKTmlA~rl~~-iLP--~l~~~e~le---------~~~i~S~~g~   66 (207)
T pfam01078         2 LADVKGQEQAKRALEIAAAG-G--HNLLMIGPPGSGKTMLAKRLPG-ILP--PLTEQEALE---------VTAIHSVAGL   66 (207)
T ss_pred             HHHHCCCHHHHHHHHHHHCC-C--CCEEEECCCCCCHHHHHHHHHC-CCC--CCCHHHHHH---------HHHHHCCCCC
T ss_conf             76863859999999998547-8--7589788998029999976301-489--987899887---------7764230368


Q ss_pred             CCCEEEEC-CCCHHHCCCCCCCCCHHHHHHHHH-HCCCCCC---CCCCHHHHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf             87545300-100010134212323788755443-1022211---11210353220554240001456777663
Q gi|254780217|r   89 LHDFLYLS-YSLNPKTGKWRTVITVDEIRRIRY-FLSLTAN---TGYWRVIMIDPVDGMNRNAANALLKSLEE  156 (347)
Q Consensus        89 hpd~~~i~-~~~~~k~~~~~~~I~vd~IR~l~~-~~~~~~~---~~~~Ki~IId~ad~ln~~AaNALLK~LEE  156 (347)
                      .++--.+. +++..    ....++...   ++. -..-+|.   ....=|.++||+-.++....++|+.-||+
T Consensus        67 ~~~~~l~~~rPfr~----PHhs~s~~a---liGGg~~~~PGeIslAH~GVLFLDE~~Ef~~~vle~LrqpLE~  132 (207)
T pfam01078        67 GGDGGLIRRRPFRA----PHHSASAAA---LVGGGSIPRPGEISLAHNGVLFLDELPEFSRRVLESLRQPLED  132 (207)
T ss_pred             CCCCCCCCCCCCCC----CCCCCCHHH---CCCCCCCCCCCCEEECCCCEEEECCHHHCCHHHHHHHHHHHCC
T ss_conf             77777445798657----887643633---2268888999706663687888476465398899999876604


No 132
>pfam07728 AAA_5 AAA domain (dynein-related subfamily). This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.
Probab=98.13  E-value=4.8e-06  Score=68.31  Aligned_cols=90  Identities=28%  Similarity=0.389  Sum_probs=49.4

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCC-CEEEECCCCHHHCCCCCCCCCHHHH
Q ss_conf             631179898889999999999817799886431210126788679999678987-5453001000101342123237887
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALH-DFLYLSYSLNPKTGKWRTVITVDEI  115 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hp-d~~~i~~~~~~k~~~~~~~I~vd~I  115 (347)
                      +|++||+|+||+++|+.+|+.+ +..     ++....          ...+..+ |++- ...........     ++  
T Consensus         2 vll~Gp~G~GKT~la~~la~~l-~~~-----~~~~i~----------~~~~~~~~dl~G-~~~~~~~~~~~-----~~--   57 (139)
T pfam07728         2 VLLVGPPGTGKSELAERLAAAL-SNR-----PVFYVQ----------LTRDTTEEDLKG-RRNIANGTTSW-----VD--   57 (139)
T ss_pred             EEEECCCCCHHHHHHHHHHHHC-CCC-----CCHHHC----------CCCCCCHHHCCC-CEECCCCCEEE-----EC--
T ss_conf             8999899756999999999980-798-----311121----------465565222057-34237993578-----15--


Q ss_pred             HHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf             55443102221111210353220554240001456777663
Q gi|254780217|r  116 RRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEE  156 (347)
Q Consensus       116 R~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEE  156 (347)
                          .-+.. ... .-.|+++||+++++.+.+++|+..||+
T Consensus        58 ----g~l~~-a~~-~g~vl~lDEin~a~~~v~~~L~~~le~   92 (139)
T pfam07728        58 ----GPLVR-AAR-EGEIAVLDEINRANPDVLNSLLSLLDE   92 (139)
T ss_pred             ----CHHHC-CCC-CCCEEEECCHHHCCHHHHHHHHHHHCC
T ss_conf             ----51410-101-286899634344899999999999748


No 133
>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=98.06  E-value=1.7e-05  Score=63.86  Aligned_cols=131  Identities=18%  Similarity=0.162  Sum_probs=69.0

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHH
Q ss_conf             81663117989888999999999981779988643121012678867999967898754530010001013421232378
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVD  113 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd  113 (347)
                      ++.++++||+|+||++++..+|+.+....    ..+-....+   ...........  ....     .  ........+.
T Consensus         2 ~~~ill~G~~GsGKTtl~~~la~~~~~~~----~~v~~~~~~---~~~~~~~~~~~--~~~~-----~--~~~~~~~~~~   65 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPG----GGVIYIDGE---DILEEVLDQLL--LIIV-----G--GKKASGSGEL   65 (148)
T ss_pred             CCEEEEECCCCHHHHHHHHHHHHHHCCCC----CCEEEEEHH---HHHHHHHHHHH--HHHH-----C--CCCCCCCHHH
T ss_conf             97899999997029999999998726689----968998759---98988898765--3000-----1--1221051999


Q ss_pred             HHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHH--------HHHHCCCCCCEEEEECC---CCCCCHHHHCEEE
Q ss_conf             875544310222111121035322055424000145677--------76630343416765044---3357302520369
Q gi|254780217|r  114 EIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLK--------SLEEPPQKVLFILISHA---SPTILSTIRSRCL  182 (347)
Q Consensus       114 ~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK--------~LEEPp~~t~fiLit~~---~~~il~TI~SRc~  182 (347)
                      .++.+...+...+    ..|++||+++.+.......++.        ..+.+..+..+|++++.   +..-+...+++++
T Consensus        66 ~~~~~~~~~~~~~----~~viiiDei~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~~~n~~~~~~~~~~~~~~~~~  141 (148)
T smart00382       66 RLRLALALARKLK----PDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRRRFDRR  141 (148)
T ss_pred             HHHHHHHHHHHCC----CCEEEEECCHHHCCCCCHHHHHHHHHHHHHCCCCCCCCEEEEEEECCCCCCCHHHHCCCCCEE
T ss_conf             9999999998449----989998275021476207999999999985176578998999956995224987707447879


Q ss_pred             EE
Q ss_conf             88
Q gi|254780217|r  183 SI  184 (347)
Q Consensus       183 ~i  184 (347)
                      ..
T Consensus       142 ~~  143 (148)
T smart00382      142 IV  143 (148)
T ss_pred             EE
T ss_conf             99


No 134
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=98.04  E-value=0.00033  Score=53.48  Aligned_cols=131  Identities=19%  Similarity=0.246  Sum_probs=87.2

Q ss_pred             CCCCCCCHHHHCCHHHHHHHHHH---HHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH
Q ss_conf             55558756561092999999999---998288981663117989888999999999981779988643121012678867
Q gi|254780217|r    4 RAFDPVYNQRLFGHEDIEKFLSQ---YYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF   80 (347)
Q Consensus         4 ~~~~p~~~~~i~G~~~~~~~L~~---~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~   80 (347)
                      ..|.|-...+++|-+.+.+.|..   .+..|.-.+-.|++|-+|.||.++..++-...-                     
T Consensus        52 ~~~~~i~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~---------------------  110 (287)
T COG2607          52 PDPDPIDLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYA---------------------  110 (287)
T ss_pred             CCCCCCCHHHHHCCHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHH---------------------
T ss_conf             98997678987273189999999899997288652367763777774799999999987---------------------


Q ss_pred             HHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHH---HHHHHCCCCCCCCCCHHHHHHHHHHCCH---HHHHHHHHH-
Q ss_conf             999967898754530010001013421232378875---5443102221111210353220554240---001456777-
Q gi|254780217|r   81 VKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIR---RIRYFLSLTANTGYWRVIMIDPVDGMNR---NAANALLKS-  153 (347)
Q Consensus        81 ~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR---~l~~~~~~~~~~~~~Ki~IId~ad~ln~---~AaNALLK~-  153 (347)
                            +.-+++++|+               .+|+-   .|.+.+...    +.|++|+  ||+++-   +.+=..||. 
T Consensus       111 ------~~glrLVEV~---------------k~dl~~Lp~l~~~Lr~~----~~kFIlF--cDDLSFe~gd~~yK~LKs~  163 (287)
T COG2607         111 ------DEGLRLVEVD---------------KEDLATLPDLVELLRAR----PEKFILF--CDDLSFEEGDDAYKALKSA  163 (287)
T ss_pred             ------HCCCEEEEEC---------------HHHHHHHHHHHHHHHCC----CCEEEEE--ECCCCCCCCCHHHHHHHHH
T ss_conf             ------4177079976---------------88886579999999618----8608999--5677777781389999998


Q ss_pred             ----HHHCCCCCCEEEEECCCCCCCHHHHCEEE
Q ss_conf             ----66303434167650443357302520369
Q gi|254780217|r  154 ----LEEPPQKVLFILISHASPTILSTIRSRCL  182 (347)
Q Consensus       154 ----LEEPp~~t~fiLit~~~~~il~TI~SRc~  182 (347)
                          +|.+|.|++|-=++|..+-++.+..-|-+
T Consensus       164 LeG~ve~rP~NVl~YATSNRRHLl~e~~~dn~~  196 (287)
T COG2607         164 LEGGVEGRPANVLFYATSNRRHLLPEDMKDNEG  196 (287)
T ss_pred             HCCCCCCCCCEEEEEEECCCCCCCCHHHHHCCC
T ss_conf             538855688707999715875336276642778


No 135
>KOG0733 consensus
Probab=98.00  E-value=7.8e-05  Score=58.57  Aligned_cols=168  Identities=20%  Similarity=0.173  Sum_probs=103.2

Q ss_pred             CCHHHHCCHHHHHHHHHHHHHC------------CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCC
Q ss_conf             7565610929999999999982------------8898166311798988899999999998177998864312101267
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYCS------------GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP   76 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~~------------~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~   76 (347)
                      .+|++|=|++++..+|.-++..            -+.|.++|++||||+|||.+|.+.|..-                  
T Consensus       508 VtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVANEa------------------  569 (802)
T KOG0733         508 VTWDDIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCGPPGCGKTLLAKAVANEA------------------  569 (802)
T ss_pred             CCHHHCCCHHHHHHHHHHHHHHHCCCHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHC------------------
T ss_conf             87664124999999999998600238889998288898723875799861889999985030------------------


Q ss_pred             CCHHHHHHHCCCCCCEEEECCC-CHHHCCCCCCCCCHHH----HHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-------
Q ss_conf             8867999967898754530010-0010134212323788----755443102221111210353220554240-------
Q gi|254780217|r   77 CSPFVKQMASHALHDFLYLSYS-LNPKTGKWRTVITVDE----IRRIRYFLSLTANTGYWRVIMIDPVDGMNR-------  144 (347)
Q Consensus        77 ~~~~~~~i~~~~hpd~~~i~~~-~~~k~~~~~~~I~vd~----IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-------  144 (347)
                                  --+++.|.-+ ...|        .|-+    ||.+-    .++-.+.-.|+++|++|.|..       
T Consensus       570 ------------g~NFisVKGPELlNk--------YVGESErAVR~vF----qRAR~saPCVIFFDEiDaL~p~R~~~~s  625 (802)
T KOG0733         570 ------------GANFISVKGPELLNK--------YVGESERAVRQVF----QRARASAPCVIFFDEIDALVPRRSDEGS  625 (802)
T ss_pred             ------------CCCEEEECCHHHHHH--------HHHHHHHHHHHHH----HHHHCCCCEEEEECCHHHCCCCCCCCCC
T ss_conf             ------------475476238899987--------7423789999999----9862389838985111202765577775


Q ss_pred             ----HHHHHHHHHHH--HCCCCCCEEEEECCCCCCCHHHHC--EEE-EEECCCCCHHHHHHHHHHHC-----CCCCHHHH
Q ss_conf             ----00145677766--303434167650443357302520--369-88647999899999999727-----88896789
Q gi|254780217|r  145 ----NAANALLKSLE--EPPQKVLFILISHASPTILSTIRS--RCL-SIKFNSLSENNLYKALEQLK-----IMGWDSKR  210 (347)
Q Consensus       145 ----~AaNALLK~LE--EPp~~t~fiLit~~~~~il~TI~S--Rc~-~i~f~~l~~~~~~~~L~~~~-----~~~~~~~~  210 (347)
                          ---|-||--|-  |--.+++.|=.||.|+.|-|.|+-  |-- .+.+..++.++-..+|+..-     +-.++-.+
T Consensus       626 ~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~~eR~~ILK~~tkn~k~pl~~dVdl  705 (802)
T KOG0733         626 SVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNAEERVAILKTITKNTKPPLSSDVDL  705 (802)
T ss_pred             HHHHHHHHHHHHHHCCCCCCCCEEEEEECCCCCCCCHHHCCCCCCCCEEEECCCCHHHHHHHHHHHHCCCCCCCCCCCCH
T ss_conf             05899999999873162111425999506897655565518775574245069987889999999853579988754589


Q ss_pred             HHHHHHCC
Q ss_conf             99999759
Q gi|254780217|r  211 DFVKIAAY  218 (347)
Q Consensus       211 ~~~~~~s~  218 (347)
                      +.++....
T Consensus       706 ~eia~~~~  713 (802)
T KOG0733         706 DEIARNTK  713 (802)
T ss_pred             HHHHHCCC
T ss_conf             99851232


No 136
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=97.97  E-value=0.00028  Score=54.09  Aligned_cols=194  Identities=13%  Similarity=0.083  Sum_probs=121.0

Q ss_pred             CHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCC
Q ss_conf             56561092999999999998288981663117989888999999999981779988643121012678867999967898
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHAL   89 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~h   89 (347)
                      ..+.++|-++.++.....+...+=.+ =++.|+||+|||..+.-+|+.+.....+..-  ...                 
T Consensus       168 klDPvIGRd~EI~r~iqIL~RR~KNN-PvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L--~~~-----------------  227 (786)
T COG0542         168 KLDPVIGRDEEIRRTIQILSRRTKNN-PVLVGEPGVGKTAIVEGLAQRIVNGDVPESL--KDK-----------------  227 (786)
T ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCC-CEEECCCCCCHHHHHHHHHHHHHCCCCCHHH--CCC-----------------
T ss_conf             98877374799999999983568899-8476689888999998999997469999787--588-----------------


Q ss_pred             CCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC---------HHHHHHHHHHHHHCCCC
Q ss_conf             754530010001013421232378875544310222111121035322055424---------00014567776630343
Q gi|254780217|r   90 HDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMN---------RNAANALLKSLEEPPQK  160 (347)
Q Consensus        90 pd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln---------~~AaNALLK~LEEPp~~  160 (347)
                       .++-++...--.+-+.+.. -=+-++.+.+.+..++    .-|.+||++|.+-         ..|+|.|.-.|-   ..
T Consensus       228 -~i~sLD~g~LvAGakyRGe-FEeRlk~vl~ev~~~~----~vILFIDEiHtiVGAG~~~g~a~DAaNiLKPaLA---RG  298 (786)
T COG0542         228 -RIYSLDLGSLVAGAKYRGE-FEERLKAVLKEVEKSK----NVILFIDEIHTIVGAGATEGGAMDAANLLKPALA---RG  298 (786)
T ss_pred             -EEEEECHHHHHCCCCCCCC-HHHHHHHHHHHHHCCC----CEEEEEECHHHHCCCCCCCCCCCCHHHHHHHHHH---CC
T ss_conf             -7997148767464653573-8999999999985179----8499982355405777666665125664677874---58


Q ss_pred             CCEEEE-EC-CCCC-C---CHHHHCEEEEEECCCCCHHHHHHHHHH--------HCCCCCHHHHHHHHHHCCC------C
Q ss_conf             416765-04-4335-7---302520369886479998999999997--------2788896789999997598------9
Q gi|254780217|r  161 VLFILI-SH-ASPT-I---LSTIRSRCLSIKFNSLSENNLYKALEQ--------LKIMGWDSKRDFVKIAAYG------S  220 (347)
Q Consensus       161 t~fiLi-t~-~~~~-i---l~TI~SRc~~i~f~~l~~~~~~~~L~~--------~~~~~~~~~~~~~~~~s~G------s  220 (347)
                      .+=+.- |+ +-++ .   -+.+--|-|.+.+..|+.++...+|.-        .+..+.++++..++.+|.-      =
T Consensus       299 eL~~IGATT~~EYRk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGlk~~yE~hH~V~i~D~Al~aAv~LS~RYI~dR~L  378 (786)
T COG0542         299 ELRCIGATTLDEYRKYIEKDAALERRFQKVLVDEPSVEDTIAILRGLKERYEAHHGVRITDEALVAAVTLSDRYIPDRFL  378 (786)
T ss_pred             CEEEEEECCHHHHHHHHHHCHHHHHCCCEEECCCCCHHHHHHHHHHHHHHHHHCCCCEECHHHHHHHHHHHHHHCCCCCC
T ss_conf             73799735589998873306677846751027998989999999877888877069643379999999999864556789


Q ss_pred             HHHHHHHHCCCH
Q ss_conf             789998814577
Q gi|254780217|r  221 VARAIKILHYDC  232 (347)
Q Consensus       221 ~~~A~~ll~~~~  232 (347)
                      |.+|+.+++...
T Consensus       379 PDKAIDLiDeA~  390 (786)
T COG0542         379 PDKAIDLLDEAG  390 (786)
T ss_pred             CCHHHHHHHHHH
T ss_conf             946777889999


No 137
>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=97.95  E-value=5.6e-06  Score=67.78  Aligned_cols=186  Identities=17%  Similarity=0.195  Sum_probs=116.2

Q ss_pred             CCHHHHCCHHHHHHHHHHHHHC-----------CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCC
Q ss_conf             7565610929999999999982-----------88981663117989888999999999981779988643121012678
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYCS-----------GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPC   77 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~~-----------~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~   77 (347)
                      -.|.||-|.+++++.|.....=           +|+|-+.|++||||+|||.+|++.|-       ..+.|.-.-     
T Consensus        56 v~F~DVAG~dEAKeEl~EiVdFLK~P~kf~~LGaKIPKGVLLvGPPGTGKTLLAKAvAG-------EA~VPFF~i-----  123 (505)
T TIGR01241        56 VTFKDVAGIDEAKEELVEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAG-------EAGVPFFSI-----  123 (505)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHCCCCHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHC-------CCCCCCEEE-----
T ss_conf             32234445323334333134222696379872788987147317878424678875202-------588962474-----


Q ss_pred             CHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHC---------------
Q ss_conf             86799996789875453001000101342123237887554431022211112103532205542---------------
Q gi|254780217|r   78 SPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGM---------------  142 (347)
Q Consensus        78 ~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~l---------------  142 (347)
                              +||  |+.+.-.-           ++--=||+|=+..-    .+.=.||.|||+|..               
T Consensus       124 --------SGS--dFVEMFVG-----------VGASRVRDLFeqAK----~nAPCIIFIDEIDAVGr~RGaG~lGGGnDE  178 (505)
T TIGR01241       124 --------SGS--DFVEMFVG-----------VGASRVRDLFEQAK----KNAPCIIFIDEIDAVGRQRGAGELGGGNDE  178 (505)
T ss_pred             --------CCC--CEEECCCC-----------CCCEEHHHHHHHHH----HHCCCEEEEECHHHCCCCCCCCCCCCCCCH
T ss_conf             --------076--10111205-----------64000144579999----718970564010000333564366765413


Q ss_pred             CHHHHHHHHHHHH--HCCCCCCEEEEECCCCCCCHHHHCEE----EEEECCCCCHHHHHHHHHHH---CCCCCHHHHHHH
Q ss_conf             4000145677766--30343416765044335730252036----98864799989999999972---788896789999
Q gi|254780217|r  143 NRNAANALLKSLE--EPPQKVLFILISHASPTILSTIRSRC----LSIKFNSLSENNLYKALEQL---KIMGWDSKRDFV  213 (347)
Q Consensus       143 n~~AaNALLK~LE--EPp~~t~fiLit~~~~~il~TI~SRc----~~i~f~~l~~~~~~~~L~~~---~~~~~~~~~~~~  213 (347)
                      .+|.-|=||==|=  +...+ ++++.++|--.||..=+=|=    +++.+..|+-.-=.++|+=.   ..-.++-.+..+
T Consensus       179 REQTLNQLLVEMDGF~~~~g-vIv~AATNRPDvLD~ALLRPGRFDRQv~V~~PD~~GR~~IL~VH~~~~kLa~~vdL~~~  257 (505)
T TIGR01241       179 REQTLNQLLVEMDGFGTNTG-VIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPDVDLKAV  257 (505)
T ss_pred             HHHHHHHHHEECCCCCCCCC-EEEEEECCCCCCCCCCCCCCCCCCCEEECCCCCHHHHHHHHHHHHCCCCCCCCCCHHHH
T ss_conf             55433233133178589885-79985048841165100687874451345888746789999998548899702477999


Q ss_pred             HHHCCCCHHH-HHHHHCCCH
Q ss_conf             9975989789-998814577
Q gi|254780217|r  214 KIAAYGSVAR-AIKILHYDC  232 (347)
Q Consensus       214 ~~~s~Gs~~~-A~~ll~~~~  232 (347)
                      ++.+.|--|- .-|++|..+
T Consensus       258 Ar~TPGfSGADLaNl~NEAA  277 (505)
T TIGR01241       258 ARRTPGFSGADLANLLNEAA  277 (505)
T ss_pred             HHHCCCCCHHHHHHHHHHHH
T ss_conf             70156876788999999999


No 138
>KOG0731 consensus
Probab=97.95  E-value=0.00038  Score=53.03  Aligned_cols=188  Identities=15%  Similarity=0.136  Sum_probs=95.8

Q ss_pred             CCCCHHHHCCHHHHHHHHHHHHH----------C-CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCC
Q ss_conf             58756561092999999999998----------2-889816631179898889999999999817799886431210126
Q gi|254780217|r    7 DPVYNQRLFGHEDIEKFLSQYYC----------S-GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPD   75 (347)
Q Consensus         7 ~p~~~~~i~G~~~~~~~L~~~~~----------~-~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~   75 (347)
                      .+-.|.||.|.+++++.|.....          . -++|++.|++||||+|||.+|.+.|..       .+.|.-.|+..
T Consensus       306 t~V~FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGE-------AgVPF~svSGS  378 (774)
T KOG0731         306 TGVKFKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGE-------AGVPFFSVSGS  378 (774)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHCCHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHCC-------CCCCEEEECHH
T ss_conf             88760102670899999999999843989998747767675178789998678999988530-------58964641337


Q ss_pred             -C----------CCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH
Q ss_conf             -7----------88679999678987545300100010134212323788755443102221111210353220554240
Q gi|254780217|r   76 -P----------CSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR  144 (347)
Q Consensus        76 -~----------~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~  144 (347)
                       .          .-...-..+...-|-+                 |-||+|-.+...-.     |+  ....-+-|  ..
T Consensus       379 EFvE~~~g~~asrvr~lf~~ar~~aP~i-----------------ifideida~~~~r~-----G~--~~~~~~~e--~e  432 (774)
T KOG0731         379 EFVEMFVGVGASRVRDLFPLARKNAPSI-----------------IFIDEIDAVGRKRG-----GK--GTGGGQDE--RE  432 (774)
T ss_pred             HHHHHHCCCCHHHHHHHHHHHHCCCCEE-----------------EEECCCCCCCCCCC-----CC--CCCCCCHH--HH
T ss_conf             8888760343488899998743269807-----------------97145420031255-----66--66788807--88


Q ss_pred             HHHHHHHHHHH--HCCCCCCEEEEECCCCCCCHHHHC--EE-EEEECCCCCHHHHHHHHHHH----CCCCCHHHHHHHHH
Q ss_conf             00145677766--303434167650443357302520--36-98864799989999999972----78889678999999
Q gi|254780217|r  145 NAANALLKSLE--EPPQKVLFILISHASPTILSTIRS--RC-LSIKFNSLSENNLYKALEQL----KIMGWDSKRDFVKI  215 (347)
Q Consensus       145 ~AaNALLK~LE--EPp~~t~fiLit~~~~~il~TI~S--Rc-~~i~f~~l~~~~~~~~L~~~----~~~~~~~~~~~~~~  215 (347)
                      +.-|.||--|-  +...+++++=.|+.++-+-+.++-  |- +.+.+..++...-.+++.-.    ....++....-++.
T Consensus       433 ~tlnQll~emDgf~~~~~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~~a~  512 (774)
T KOG0731         433 QTLNQLLVEMDGFETSKGVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSKLAS  512 (774)
T ss_pred             HHHHHHHHHHCCCCCCCCEEEEECCCCCCCCCHHHCCCCCCCCCEECCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHH
T ss_conf             89998878752776778479981168866428876498755552324698514168999998621577631567999986


Q ss_pred             HCCCCHHHHHHH
Q ss_conf             759897899988
Q gi|254780217|r  216 AAYGSVARAIKI  227 (347)
Q Consensus       216 ~s~Gs~~~A~~l  227 (347)
                      ...|-.|.-+..
T Consensus       513 ~t~gf~gadl~n  524 (774)
T KOG0731         513 LTPGFSGADLAN  524 (774)
T ss_pred             CCCCCCHHHHHH
T ss_conf             089996789986


No 139
>KOG0744 consensus
Probab=97.94  E-value=0.00019  Score=55.50  Aligned_cols=142  Identities=18%  Similarity=0.221  Sum_probs=79.7

Q ss_pred             EEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHH
Q ss_conf             66311798988899999999998177998864312101267886799996789875453001000101342123237887
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEI  115 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~I  115 (347)
                      -+|+|||||+||+++-.++|+.|=-.-......            +..++-++|.=+    ..|-...||.- .+--++|
T Consensus       179 liLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~------------~~liEinshsLF----SKWFsESgKlV-~kmF~kI  241 (423)
T KOG0744         179 LILLHGPPGTGKTSLCKALAQKLSIRTNDRYYK------------GQLIEINSHSLF----SKWFSESGKLV-AKMFQKI  241 (423)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHEEEECCCCCC------------CEEEEEEHHHHH----HHHHHHHHHHH-HHHHHHH
T ss_conf             899857999882279999987514652376444------------069997046788----98871211389-9999999


Q ss_pred             HHHHHHCCCCCCCCCCHHHHHHHHHHCCH---------------HHHHHHHHHHHHCC-CCCCEEEEECCCC-CCCHHHH
Q ss_conf             55443102221111210353220554240---------------00145677766303-4341676504433-5730252
Q gi|254780217|r  116 RRIRYFLSLTANTGYWRVIMIDPVDGMNR---------------NAANALLKSLEEPP-QKVLFILISHASP-TILSTIR  178 (347)
Q Consensus       116 R~l~~~~~~~~~~~~~Ki~IId~ad~ln~---------------~AaNALLK~LEEPp-~~t~fiLit~~~~-~il~TI~  178 (347)
                      .++.+.      .|..=.++||++|.+..               -+-||+|--|.--- -..+.||+|+|.. .|-....
T Consensus       242 ~ELv~d------~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK~~~NvliL~TSNl~~siD~AfV  315 (423)
T KOG0744         242 QELVED------RGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLKRYPNVLILATSNLTDSIDVAFV  315 (423)
T ss_pred             HHHHHC------CCCEEEEEEHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEECCCHHHHHHHHHH
T ss_conf             999717------89689998078788899987541379982189999999998998604797799962626777788861


Q ss_pred             CEEE-EEECCCCCHHHHHHHHHH
Q ss_conf             0369-886479998999999997
Q gi|254780217|r  179 SRCL-SIKFNSLSENNLYKALEQ  200 (347)
Q Consensus       179 SRc~-~i~f~~l~~~~~~~~L~~  200 (347)
                      -|.- .+++-||+-..+.++++.
T Consensus       316 DRADi~~yVG~Pt~~ai~~Ilks  338 (423)
T KOG0744         316 DRADIVFYVGPPTAEAIYEILKS  338 (423)
T ss_pred             HHHHHEEECCCCCHHHHHHHHHH
T ss_conf             17542110389639999999999


No 140
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=97.94  E-value=0.0021  Score=47.10  Aligned_cols=157  Identities=20%  Similarity=0.275  Sum_probs=98.9

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHH
Q ss_conf             16631179898889999999999817799886431210126788679999678987545300100010134212323788
Q gi|254780217|r   35 HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDE  114 (347)
Q Consensus        35 ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~  114 (347)
                      +-+.+||+.|.|||-+..+++..+.. +                          +..++++....  -..     --|+-
T Consensus       142 NPLfIyG~~GlGKTHLL~AIgn~i~~-~--------------------------~~kV~Yvtae~--F~~-----~~v~a  187 (455)
T PRK12422        142 NPIYLFGPEGSGKTHLMQAAVSALRE-S--------------------------GGKILYVSSEL--FTE-----HLVSA  187 (455)
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHHHC-C--------------------------CCEEEEECHHH--HHH-----HHHHH
T ss_conf             87588789999789999999998537-9--------------------------98699974999--999-----99999


Q ss_pred             HHH--HHHHCCCCCCCCCCHHHHHHHHHHCC--HHHHHHHHHHHHHCC-CCCCEEEEECCCCC----CCHHHHCEE---E
Q ss_conf             755--44310222111121035322055424--000145677766303-43416765044335----730252036---9
Q gi|254780217|r  115 IRR--IRYFLSLTANTGYWRVIMIDPVDGMN--RNAANALLKSLEEPP-QKVLFILISHASPT----ILSTIRSRC---L  182 (347)
Q Consensus       115 IR~--l~~~~~~~~~~~~~Ki~IId~ad~ln--~~AaNALLK~LEEPp-~~t~fiLit~~~~~----il~TI~SRc---~  182 (347)
                      +|.  +..|-..  +. ..=|.+|||++.+.  ...|.-|.-|+..-- .+--++|+|..+-+    +-+-++||.   .
T Consensus       188 i~~~~~~~Fr~~--yr-~~DvLLIDDIQfl~gK~~tqeEff~tfN~L~~~~KQIVitsDr~P~el~~l~~RL~SRf~~GL  264 (455)
T PRK12422        188 IRSGEMQRFRSF--YR-NVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSSYAPGDLKAMEERLISRFEWGI  264 (455)
T ss_pred             HHCCCHHHHHHH--HH-CCCEEEEEHHHHHHCCHHHHHHHHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHHHHHHHCCE
T ss_conf             975889999999--96-388776314788728488999999999999985996999689895765126899998863761


Q ss_pred             EEECCCCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             886479998999999997----2788896789999997598978999881
Q gi|254780217|r  183 SIKFNSLSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAIKIL  228 (347)
Q Consensus       183 ~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~~ll  228 (347)
                      .+.+.||+.+...++|..    .+...+++.+++++..-.+++|...-.+
T Consensus       265 ~v~I~~Pd~etr~~Il~~k~~~~~~~l~~ev~~~iA~~i~~niReLeGal  314 (455)
T PRK12422        265 AIPIHPLTREGLRSFLMRQAEQLSIRIEETALDFLIQALSSNVKTLLHAL  314 (455)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             32168999899999999999871888844689999999755179999999


No 141
>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=97.93  E-value=1.8e-05  Score=63.62  Aligned_cols=88  Identities=20%  Similarity=0.236  Sum_probs=49.8

Q ss_pred             EEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHH
Q ss_conf             66311798988899999999998177998864312101267886799996789875453001000101342123237887
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEI  115 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~I  115 (347)
                      -+|++||||+||+++|+++|+.+-..-.     --.|+++.           .--|++-.. ..+.+.+..         
T Consensus         1 hVLL~GppG~GKT~l~~~lA~~~~~~~~-----~i~~~~~~-----------~~~Dl~G~~-~~~~~~~~~---------   54 (131)
T pfam07726         1 HVLLEGVPGLAKTLLARTLARSLGLDFR-----RIQFTPDL-----------LPSDITGTE-VYDQKTREF---------   54 (131)
T ss_pred             CEEEECCCCCHHHHHHHHHHHHHCCCCE-----EEEECCCC-----------CCCCCCCCE-EECCCCCEE---------
T ss_conf             9878989987699999999999599816-----88833776-----------700036845-423787408---------


Q ss_pred             HHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf             55443102221111210353220554240001456777663
Q gi|254780217|r  116 RRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEE  156 (347)
Q Consensus       116 R~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEE  156 (347)
                           .+...|..+  .|+++||+.+++.+.+|+||-.|+|
T Consensus        55 -----~~~~G~l~~--~vl~lDEin~a~~~v~~~Ll~~l~e   88 (131)
T pfam07726        55 -----EFRPGPIFA--NVLLADEINRAPPKTQSALLEAMQE   88 (131)
T ss_pred             -----EEECCCCCC--CCEEEEHHHCCCHHHHHHHHHHHHC
T ss_conf             -----984573103--7056401203998999999976326


No 142
>PRK06620 hypothetical protein; Validated
Probab=97.91  E-value=0.00016  Score=56.09  Aligned_cols=158  Identities=17%  Similarity=0.243  Sum_probs=93.5

Q ss_pred             CCHHH--HHHHHHHHHHC---CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCC
Q ss_conf             09299--99999999982---88981663117989888999999999981779988643121012678867999967898
Q gi|254780217|r   15 FGHED--IEKFLSQYYCS---GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHAL   89 (347)
Q Consensus        15 ~G~~~--~~~~L~~~~~~---~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~h   89 (347)
                      +|..+  +.+.+.+.-..   +.....++++||+|+||+.++..++..=-+                             
T Consensus        20 vs~~N~~A~~~i~~wp~~~~~~~~~~~l~I~Gp~gSGKTHL~~i~~~~~~a-----------------------------   70 (214)
T PRK06620         20 VSSSNDQAYNIIKNWQCMFGVNPYKFTLLIKGPSSSGKTYLTKIWQNLSNA-----------------------------   70 (214)
T ss_pred             ECCCHHHHHHHHHHCHHCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHCC-----------------------------
T ss_conf             768699999999836302566865555999879999889999999998285-----------------------------


Q ss_pred             CCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECC
Q ss_conf             75453001000101342123237887554431022211112103532205542400014567776630343416765044
Q gi|254780217|r   90 HDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHA  169 (347)
Q Consensus        90 pd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~  169 (347)
                         ..+.....           .+++            .....++|||++|..+.++.-.+.-.+-|  .+..++++++.
T Consensus        71 ---~~~~~~~~-----------~~~~------------~~~~~~~iiddid~~~e~~lfhlfN~~~~--~~~~llits~~  122 (214)
T PRK06620         71 ---YIIKDIFF-----------NEEI------------LEKYNAFIIEDIENWQEPALLHIFNIINE--KQKYLLLTSSD  122 (214)
T ss_pred             ---EEECHHHC-----------CHHH------------HHHCCCEEEECCCCCCHHHHHHHHHHHHH--CCCEEEEEECC
T ss_conf             ---88151214-----------5878------------84379379846775746799999999971--59879998279


Q ss_pred             CC-C-CCHHHHCEE---EEEECCCCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHHHHHC
Q ss_conf             33-5-730252036---9886479998999999997----27888967899999975989789998814
Q gi|254780217|r  170 SP-T-ILSTIRSRC---LSIKFNSLSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAIKILH  229 (347)
Q Consensus       170 ~~-~-il~TI~SRc---~~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~  229 (347)
                      +. . .+|=++||-   ..+.+.+|+.+.+...+.+    .+...+++..+++....+-+...+..+++
T Consensus       123 ~p~~~~L~DL~SRl~~~~~~~i~~PdD~l~~~ll~k~~~~r~i~i~~~vi~yl~~ri~Rs~~~l~~~v~  191 (214)
T PRK06620        123 KSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSISSVTISRQIIDFLLVNLPREYSKIIEILE  191 (214)
T ss_pred             CCCCCCCCCHHHHHHCCCEEECCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHHHHH
T ss_conf             852245357899985464433269898999999999999869988755999999985178999999999


No 143
>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]
Probab=97.89  E-value=0.00043  Score=52.62  Aligned_cols=184  Identities=18%  Similarity=0.201  Sum_probs=103.8

Q ss_pred             CCHHHHCCHHHHHHHHHHHHH-----------CCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCC
Q ss_conf             756561092999999999998-----------288981663117989888999999999981779988643121012678
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYC-----------SGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPC   77 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~-----------~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~   77 (347)
                      ..|.++.|.+++++.|.....           .+++|..+|+.||||+||+.+|++.|..       .+.|.-.-     
T Consensus       147 v~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgE-------A~VPFf~i-----  214 (596)
T COG0465         147 VTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGE-------AGVPFFSI-----  214 (596)
T ss_pred             CCHHHHCCCHHHHHHHHHHHHHHHCCHHHHHCCCCCCCCEEEECCCCCCCHHHHHHHHCC-------CCCCCEEC-----
T ss_conf             675664186799999999999863855667523534565268559998727899998454-------68983530-----


Q ss_pred             CHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-------------
Q ss_conf             8679999678987545300100010134212323788755443102221111210353220554240-------------
Q gi|254780217|r   78 SPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR-------------  144 (347)
Q Consensus        78 ~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-------------  144 (347)
                                |-+|+.++-..           .+..-||++-......    .-.|+.||++|....             
T Consensus       215 ----------SGS~FVemfVG-----------vGAsRVRdLF~qAkk~----aP~IIFIDEiDAvGr~Rg~g~Gggnder  269 (596)
T COG0465         215 ----------SGSDFVEMFVG-----------VGASRVRDLFEQAKKN----APCIIFIDEIDAVGRQRGAGLGGGNDER  269 (596)
T ss_pred             ----------CCHHHHHHHCC-----------CCCHHHHHHHHHHHCC----CCCEEEEEHHHHCCCCCCCCCCCCCHHH
T ss_conf             ----------34446443147-----------8838889999985515----9966987634331454577889980699


Q ss_pred             -HHHHHHHHHHHHCCCCC-CEEEEECCCCCCCHHHHCEE----EEEECCCCCHHHHHHHHHH---HCCCCCHHHHHHHHH
Q ss_conf             -00145677766303434-16765044335730252036----9886479998999999997---278889678999999
Q gi|254780217|r  145 -NAANALLKSLEEPPQKV-LFILISHASPTILSTIRSRC----LSIKFNSLSENNLYKALEQ---LKIMGWDSKRDFVKI  215 (347)
Q Consensus       145 -~AaNALLK~LEEPp~~t-~fiLit~~~~~il~TI~SRc----~~i~f~~l~~~~~~~~L~~---~~~~~~~~~~~~~~~  215 (347)
                       +..|-||=-++-=..|. ++++.++|...++.|=+.|-    +.+-+..++-..-.++|+-   ...-.++-....+++
T Consensus       270 EQTLNQlLvEmDGF~~~~gviviaaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~V~l~~iAr  349 (596)
T COG0465         270 EQTLNQLLVEMDGFGGNEGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDVDLKKIAR  349 (596)
T ss_pred             HHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCHHHHCCCCCCCEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCHHHHHH
T ss_conf             99998888520157888754885267874333176528877662554478515657888788641577776678889864


Q ss_pred             HCCCCHHH-HHHHHC
Q ss_conf             75989789-998814
Q gi|254780217|r  216 AAYGSVAR-AIKILH  229 (347)
Q Consensus       216 ~s~Gs~~~-A~~ll~  229 (347)
                      ...|-.|. ..++++
T Consensus       350 ~tpGfsGAdL~nl~N  364 (596)
T COG0465         350 GTPGFSGADLANLLN  364 (596)
T ss_pred             HCCCCCCCHHHHHHH
T ss_conf             377856306765566


No 144
>pfam00493 MCM MCM2/3/5 family.
Probab=97.88  E-value=0.00018  Score=55.61  Aligned_cols=137  Identities=19%  Similarity=0.160  Sum_probs=79.8

Q ss_pred             HHHCCHHHHHHHHHHHHHCCCC------------CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCH
Q ss_conf             5610929999999999982889------------8166311798988899999999998177998864312101267886
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYYCSGRM------------HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSP   79 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~~~~~l------------~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~   79 (347)
                      .+|+||+.++.-+.=++-.|.-            .| +|+.|.||+||+.+.+.+++ +.   ...-..+|.-.+     
T Consensus        24 P~i~G~~~vK~ai~l~l~gg~~~~~~~~~~~Rg~ih-iLLvGdPG~gKSqlLk~~~~-~~---pr~~~tsg~~ss-----   93 (327)
T pfam00493        24 PSIYGHEDVKKAILLQLFGGVKKNLPDGTRLRGDIN-VLLVGDPGTAKSQLLKYVAK-LA---PRAVYTSGKGSS-----   93 (327)
T ss_pred             CCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCE-EEEECCCCCCHHHHHHHHHH-HC---CCCEEECCCCCC-----
T ss_conf             712498799999999980898765888862036511-89846998156099999998-68---870883177665-----


Q ss_pred             HHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCC-C-CCCCCHHHHHHHHHHCCHHHHHHHHHHHHHC
Q ss_conf             7999967898754530010001013421232378875544310222-1-1112103532205542400014567776630
Q gi|254780217|r   80 FVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLT-A-NTGYWRVIMIDPVDGMNRNAANALLKSLEEP  157 (347)
Q Consensus        80 ~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~-~-~~~~~Ki~IId~ad~ln~~AaNALLK~LEEP  157 (347)
                               -.++. -....++.+               .+|.-.. + ..+..-|+.|||.|+|+...+.||+-.||+=
T Consensus        94 ---------~~GLT-a~~~~d~~~---------------~~~~leaGalvlAd~Gv~cIDEfdk~~~~d~saL~EAMEqq  148 (327)
T pfam00493        94 ---------AAGLT-AAVVRDPDT---------------GEWTLEAGALVLADGGVCCIDEFDKMNEEDRVAIHEAMEQQ  148 (327)
T ss_pred             ---------CCCCE-EEEEEECCC---------------CCEEEECCCEEECCCCEEEEECCCCCCHHHHHHHHHHHHHC
T ss_conf             ---------67761-589980688---------------83698368477558982785005558876799999999868


Q ss_pred             CCC------------CCEEEEECCCCC--------------CCHHHHCEEEE
Q ss_conf             343------------416765044335--------------73025203698
Q gi|254780217|r  158 PQK------------VLFILISHASPT--------------ILSTIRSRCLS  183 (347)
Q Consensus       158 p~~------------t~fiLit~~~~~--------------il~TI~SRc~~  183 (347)
                      .-.            -..+|.|.||-.              +++++.||--.
T Consensus       149 tVsIaKaGi~~tL~ar~sVlAaaNP~~g~yd~~~~~~~ni~Lp~~lLsRFDL  200 (327)
T pfam00493       149 TISIAKAGIVATLNARCSVLAAANPIFGRYDPKKSVAENINLPPPLLSRFDL  200 (327)
T ss_pred             EEEEECCCEEEEECCCCEEEEEECCCCCCCCCCCCHHHHCCCCHHHHCCEEE
T ss_conf             1776338538972587179985277677378888988855897677450107


No 145
>KOG0738 consensus
Probab=97.88  E-value=0.00023  Score=54.77  Aligned_cols=195  Identities=17%  Similarity=0.147  Sum_probs=110.8

Q ss_pred             CCHHHHCCHHHHHHHHHHHHH----------CCCCC-EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCC
Q ss_conf             756561092999999999998----------28898-1663117989888999999999981779988643121012678
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYC----------SGRMH-HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPC   77 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~----------~~~l~-ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~   77 (347)
                      -.+++|.|-+++++.|..+..          ..|-| -++|.+||||+||+.+|.++|..  |.....+...-...|.=.
T Consensus       209 ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvATE--c~tTFFNVSsstltSKwR  286 (491)
T KOG0738         209 IKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATE--CGTTFFNVSSSTLTSKWR  286 (491)
T ss_pred             CCHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHH--HCCEEEEECHHHHHHHHC
T ss_conf             676763164999999998875444248887424465300055679997478999999886--167278740245655532


Q ss_pred             CHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCC-CCCCCCCCHHH--HHHHHHHCCHHHHHHHHHHH
Q ss_conf             8679999678987545300100010134212323788755443102-22111121035--32205542400014567776
Q gi|254780217|r   78 SPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLS-LTANTGYWRVI--MIDPVDGMNRNAANALLKSL  154 (347)
Q Consensus        78 ~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~-~~~~~~~~Ki~--IId~ad~ln~~AaNALLK~L  154 (347)
                      ....+.+.     =+|++.      .......|=||+|-.|...=. -+-+++.+||=  ++-+.|-|.....|      
T Consensus       287 GeSEKlvR-----lLFemA------RfyAPStIFiDEIDslcs~RG~s~EHEaSRRvKsELLvQmDG~~~t~e~------  349 (491)
T KOG0738         287 GESEKLVR-----LLFEMA------RFYAPSTIFIDEIDSLCSQRGGSSEHEASRRVKSELLVQMDGVQGTLEN------  349 (491)
T ss_pred             CCHHHHHH-----HHHHHH------HHHCCCEEEHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCC------
T ss_conf             52699999-----999999------8748853533567788725798650367888888999986334444456------


Q ss_pred             HHCCCCCCEEEEECC-CCCCCHHHHCEEEE-EECCCCCHHHHHHHHHHH----CCCCCHHHHHHHHHHCCCCHHHHHHH
Q ss_conf             630343416765044-33573025203698-864799989999999972----78889678999999759897899988
Q gi|254780217|r  155 EEPPQKVLFILISHA-SPTILSTIRSRCLS-IKFNSLSENNLYKALEQL----KIMGWDSKRDFVKIAAYGSVARAIKI  227 (347)
Q Consensus       155 EEPp~~t~fiLit~~-~~~il~TI~SRc~~-i~f~~l~~~~~~~~L~~~----~~~~~~~~~~~~~~~s~Gs~~~A~~l  227 (347)
                          ...+|+|.++| |=.|-...|-|.-+ +.+ ||+..+-++.|-+.    -...++-..+.++..++|=-|.-+..
T Consensus       350 ----~k~VmVLAATN~PWdiDEAlrRRlEKRIyI-PLP~~~~R~~Li~~~l~~~~~~~~~~~~~lae~~eGySGaDI~n  423 (491)
T KOG0738         350 ----SKVVMVLAATNFPWDIDEALRRRLEKRIYI-PLPDAEARSALIKILLRSVELDDPVNLEDLAERSEGYSGADITN  423 (491)
T ss_pred             ----CEEEEEEECCCCCCCHHHHHHHHHHHHEEE-ECCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHCCCCHHHHHH
T ss_conf             ----516999843689820579999987630331-28787899999997623566888756999999856887377999


No 146
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=97.87  E-value=7.7e-05  Score=58.64  Aligned_cols=198  Identities=17%  Similarity=0.197  Sum_probs=111.4

Q ss_pred             CCCCCHHHHCCHHHHHHHHHHHHHC---CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHH
Q ss_conf             5587565610929999999999982---8898166311798988899999999998177998864312101267886799
Q gi|254780217|r    6 FDPVYNQRLFGHEDIEKFLSQYYCS---GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVK   82 (347)
Q Consensus         6 ~~p~~~~~i~G~~~~~~~L~~~~~~---~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~   82 (347)
                      .....++.++|.....+.+..-++.   ..+|  .|+.|+.|+||..+|..+. + .+... ...|.-..       .|.
T Consensus        72 ~~~~~~~~LIG~~~~~~~~~eqik~~ap~~~~--vLi~GetGtGKel~A~~iH-~-~s~r~-~~~PFI~~-------NCa  139 (403)
T COG1221          72 LKSEALDDLIGESPSLQELREQIKAYAPSGLP--VLIIGETGTGKELFARLIH-A-LSARR-AEAPFIAF-------NCA  139 (403)
T ss_pred             CCCHHHHHHHCCCHHHHHHHHHHHHHCCCCCC--EEEECCCCCCHHHHHHHHH-H-HHHCC-CCCCEEEE-------EHH
T ss_conf             02215666635688899999999861899984--7986688753889999999-8-61213-58987997-------777


Q ss_pred             HHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHH------
Q ss_conf             99678987545300100010134212323788755443102221111210353220554240001456777663------
Q gi|254780217|r   83 QMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEE------  156 (347)
Q Consensus        83 ~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEE------  156 (347)
                      .+.. +..+...+.....--+|.....-+          +-.. ..  -.+.++|++++|-.+.|-.||..|||      
T Consensus       140 ~~~e-n~~~~eLFG~~kGaftGa~~~k~G----------lfe~-A~--GGtLfLDEI~~LP~~~Q~kLl~~le~g~~~rv  205 (403)
T COG1221         140 AYSE-NLQEAELFGHEKGAFTGAQGGKAG----------LFEQ-AN--GGTLFLDEIHRLPPEGQEKLLRVLEEGEYRRV  205 (403)
T ss_pred             HHCC-CHHHHHHHCCCCCEEECCCCCCCC----------HHEE-CC--CCEEEHHHHHHCCHHHHHHHHHHHHCCCEEEC
T ss_conf             7376-777777732000000256678676----------4205-27--97776563653798589999999871865766


Q ss_pred             -----CCCCCCEEEEECCC--CCCCH--HHHCEEEE--EECCCCCHH--HHH----HHHHHH----C---CCCC-HHHHH
Q ss_conf             -----03434167650443--35730--25203698--864799989--999----999972----7---8889-67899
Q gi|254780217|r  157 -----PPQKVLFILISHAS--PTILS--TIRSRCLS--IKFNSLSEN--NLY----KALEQL----K---IMGW-DSKRD  211 (347)
Q Consensus       157 -----Pp~~t~fiLit~~~--~~il~--TI~SRc~~--i~f~~l~~~--~~~----~~L~~~----~---~~~~-~~~~~  211 (347)
                           .|.++.+|..|+..  +.++.  |+..|+..  +.++||.+-  |+.    -+++..    +   .... +....
T Consensus       206 G~~~~~~~dVRli~AT~~~l~~~~~~g~dl~~rl~~~~I~LPpLrER~~Di~~L~e~Fl~~~~~~l~~~~~~~~~~a~~~  285 (403)
T COG1221         206 GGSQPRPVDVRLICATTEDLEEAVLAGADLTRRLNILTITLPPLRERKEDILLLAEHFLKSEARRLGLPLSVDSPEALRA  285 (403)
T ss_pred             CCCCCCCCCCEEEECCCCCHHHHHHHHCCHHHHHCCCEECCCCHHHCHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHH
T ss_conf             88888677740451356687999874052556416754318972435555999999999999997399988888999999


Q ss_pred             HHHHHCCCCHHHHHHHHC
Q ss_conf             999975989789998814
Q gi|254780217|r  212 FVKIAAYGSVARAIKILH  229 (347)
Q Consensus       212 ~~~~~s~Gs~~~A~~ll~  229 (347)
                      .+..--.|++|+..+.++
T Consensus       286 L~~y~~pGNirELkN~Ve  303 (403)
T COG1221         286 LLAYDWPGNIRELKNLVE  303 (403)
T ss_pred             HHHCCCCCCHHHHHHHHH
T ss_conf             984889983999999999


No 147
>PRK04841 transcriptional regulator MalT; Provisional
Probab=97.87  E-value=0.00041  Score=52.76  Aligned_cols=204  Identities=16%  Similarity=0.171  Sum_probs=116.4

Q ss_pred             CCC-CCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHH
Q ss_conf             555-5875656109299999999999828898166311798988899999999998177998864312101267886799
Q gi|254780217|r    4 RAF-DPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVK   82 (347)
Q Consensus         4 ~~~-~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~   82 (347)
                      -|. .|+.-+.++--+...+.|... ...++   .++++|.|-||||++..+++.   ........++....++.. .+.
T Consensus         5 tK~~pP~~~~~~v~R~rL~~~L~~~-~~~~l---~lv~APaG~GKTtl~a~w~~~---~~~~~Wlsld~~d~~~~~-f~~   76 (903)
T PRK04841          5 SKLSRPVRLDHTVVRERLLAKLSGA-NNYRL---VLVRSPAGYGKTTLASQWAAG---KNNVGWYSLDESDNQPER-FAS   76 (903)
T ss_pred             CCCCCCCCCCCCCCCHHHHHHHHHH-CCCCE---EEEECCCCCCHHHHHHHHHHC---CCCEEEEECCCCCCCHHH-HHH
T ss_conf             2568999987825547799999851-58997---999779998899999999834---998599858854489999-999


Q ss_pred             HH-HC--CCCCCEEEECCCCHHHCCCCCCCCCHHHH-HHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHH-HHHC
Q ss_conf             99-67--89875453001000101342123237887-55443102221111210353220554240001456777-6630
Q gi|254780217|r   83 QM-AS--HALHDFLYLSYSLNPKTGKWRTVITVDEI-RRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKS-LEEP  157 (347)
Q Consensus        83 ~i-~~--~~hpd~~~i~~~~~~k~~~~~~~I~vd~I-R~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~-LEEP  157 (347)
                      .+ .+  ...|+..--.....+    ......++.+ ..+...+..   .+.-=++|||+.|.++......+|.. ++..
T Consensus        77 ~l~~al~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~l~~---~~~~~~lvlDD~h~i~~~~~~~~l~~Ll~~~  149 (903)
T PRK04841         77 YLIAALQQATNGHCSKSEALAE----KRQYASLTSLFAQLFIELSD---WHQPLYLVLDDYHLITNPEIHEAMRFFLRHQ  149 (903)
T ss_pred             HHHHHHHHHCCCCCCHHHHCCC----CCCCCCHHHHHHHHHHHHHC---CCCCEEEEEECCCCCCCHHHHHHHHHHHHHC
T ss_conf             9999999856543311231135----56655499999999999755---8998699986836488868999999999838


Q ss_pred             CCCCCEEEEECCCCCC-CHHHHCEEEEEECC----CCCHHHHHHHHHH-HCCCCCHHHHHHHHHHCCCCHH
Q ss_conf             3434167650443357-30252036988647----9998999999997-2788896789999997598978
Q gi|254780217|r  158 PQKVLFILISHASPTI-LSTIRSRCLSIKFN----SLSENNLYKALEQ-LKIMGWDSKRDFVKIAAYGSVA  222 (347)
Q Consensus       158 p~~t~fiLit~~~~~i-l~TI~SRc~~i~f~----~l~~~~~~~~L~~-~~~~~~~~~~~~~~~~s~Gs~~  222 (347)
                      |++..+|++|.+.-.+ +.+.+.+-+.+.+.    ..+.+|+.+++.. .+...++++...+...++|=|.
T Consensus       150 p~~l~lvl~sR~~p~l~l~~l~~~~~l~~i~~~dL~Ft~~E~~~~~~~~~g~~l~~~~~~~l~~~TeGW~a  220 (903)
T PRK04841        150 PENLTLVVLSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSPIEAAESSRLCDRVEGWPT  220 (903)
T ss_pred             CCCEEEEEEECCCCCCCHHHHHHCCEEEEECHHHCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCHHH
T ss_conf             98838998768999875245774595699868875999999999998625999999999999997087899


No 148
>PRK06585 holA DNA polymerase III subunit delta; Reviewed
Probab=97.86  E-value=0.0053  Score=43.84  Aligned_cols=153  Identities=18%  Similarity=0.186  Sum_probs=102.6

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHH
Q ss_conf             16631179898889999999999817799886431210126788679999678987545300100010134212323788
Q gi|254780217|r   35 HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDE  114 (347)
Q Consensus        35 ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~  114 (347)
                      .++|||||.---+...+..+++.+.-..+   .|.                     ++..++.  +        .+. ++
T Consensus        21 ~~~LlyG~d~glv~e~~~~l~~~~~~~~~---~~f---------------------~~~~l~~--~--------el~-~d   65 (343)
T PRK06585         21 RAVLLYGPDRGLVRERARRLAKSVVDDPD---DPF---------------------AVVRLDG--D--------ELD-AD   65 (343)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHCCCCC---CCC---------------------EEEEECH--H--------HHH-CC
T ss_conf             58999638764799999999997255667---874---------------------1577479--9--------883-39


Q ss_pred             HHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHH------HCEEEEEECCC
Q ss_conf             755443102221111210353220554240001456777663034341676504433573025------20369886479
Q gi|254780217|r  115 IRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTI------RSRCLSIKFNS  188 (347)
Q Consensus       115 IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI------~SRc~~i~f~~  188 (347)
                      .-.+.+.++..|..|++|+|+|+++.   .....++-..+++|++++++|+.+.+..+= ..+      ...|..+.+-+
T Consensus        66 ~~~l~de~~t~slF~~~rlI~i~~~~---d~~~~~l~~~l~~~~~~~~lIi~a~~L~k~-skLrk~~e~~~~~~~i~cY~  141 (343)
T PRK06585         66 PARLEDEANTISLFGGRRLIWVRAGG---KSLAAALKALLAEPPGDAFIVIEAGDLKKG-SSLRKLFETAASAAAIPCYA  141 (343)
T ss_pred             HHHHHHHHHCCCCCCCCEEEEEECCC---HHHHHHHHHHHHCCCCCEEEEEECCCCCCC-CHHHHHHHHCCCEEEEEECC
T ss_conf             99999998476876898489972687---256999999981789982899973897731-18999998647869995006


Q ss_pred             CCHHHHHHHHH----HHCCCCCHHHHHHHHHHCCCCHHHHHH
Q ss_conf             99899999999----727888967899999975989789998
Q gi|254780217|r  189 LSENNLYKALE----QLKIMGWDSKRDFVKIAAYGSVARAIK  226 (347)
Q Consensus       189 l~~~~~~~~L~----~~~~~~~~~~~~~~~~~s~Gs~~~A~~  226 (347)
                      .+..++.+|+.    ..+..++.++...+...+.|+...+.+
T Consensus       142 d~~~~l~~~i~~~l~~~g~~i~~~a~~~L~~~~g~d~~~~~~  183 (343)
T PRK06585        142 DDERDLARLIDDELAKAGLRITPDARAYLVALLGGDRLASRN  183 (343)
T ss_pred             CCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCHHHHHHH
T ss_conf             998899999999999829997799999999873427999999


No 149
>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=97.83  E-value=1.2e-05  Score=65.23  Aligned_cols=118  Identities=24%  Similarity=0.295  Sum_probs=67.6

Q ss_pred             CHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCC
Q ss_conf             56561092999999999998288981663117989888999999999981779988643121012678867999967898
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHAL   89 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~h   89 (347)
                      =|.+|+||++.++-|.=+...|   |.+||.||||+|||.+|.++-. ||  ++.++...-+...     +....  +..
T Consensus       192 DL~dv~GQ~~akRAleIAaAGG---HNlll~GPPGsGKTmla~r~~g-iL--P~L~~~EalE~~~-----v~S~~--~~l  258 (505)
T TIGR00368       192 DLKDVKGQQHAKRALEIAAAGG---HNLLLLGPPGSGKTMLASRLQG-IL--PPLTNEEALETAR-----VLSLV--GKL  258 (505)
T ss_pred             CCCCCCCHHHCCHHHHHHHHCC---CCEEEECCCCCCHHHHHHHHHC-CC--CCCCCHHHHHHHH-----HHHHH--HHH
T ss_conf             4322545101102677753135---6437678249626899987510-57--8645126666788-----88888--757


Q ss_pred             CCEEEE--CCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCC-------------CCHHHHHHHHHHCCHHHHHHHHHHH
Q ss_conf             754530--0100010134212323788755443102221111-------------2103532205542400014567776
Q gi|254780217|r   90 HDFLYL--SYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTG-------------YWRVIMIDPVDGMNRNAANALLKSL  154 (347)
Q Consensus        90 pd~~~i--~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~-------------~~Ki~IId~ad~ln~~AaNALLK~L  154 (347)
                      -+...+  -|++                |.=....+..+..|             ..=|.++||+-.+-++--.||.--|
T Consensus       259 ~~~~~~~rQRPF----------------R~PHHsAS~~~lvGGG~~P~PGEiSLAhnGvLFLDEl~EF~r~vL~~LR~Pl  322 (505)
T TIGR00368       259 IDRKQWKRQRPF----------------RSPHHSASKPALVGGGSIPKPGEISLAHNGVLFLDELPEFKRKVLDALREPL  322 (505)
T ss_pred             HHCCCHHCCCCC----------------CCCCCCCCCCCCCCCCCCCCCCCEEHHCCCCHHHHCCHHHHHHHHHHHCCCC
T ss_conf             652301106867----------------7865002566640587522285120200541043222044678998717874


Q ss_pred             HH
Q ss_conf             63
Q gi|254780217|r  155 EE  156 (347)
Q Consensus       155 EE  156 (347)
                      |.
T Consensus       323 Ed  324 (505)
T TIGR00368       323 ED  324 (505)
T ss_pred             CC
T ss_conf             26


No 150
>PRK10923 glnG nitrogen regulation protein NR(I); Provisional
Probab=97.83  E-value=0.0009  Score=50.03  Aligned_cols=161  Identities=17%  Similarity=0.238  Sum_probs=84.1

Q ss_pred             CCHHHHCCHHHHHHHHHHHHHC-CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHH--CCCCCCCHHHHHHH
Q ss_conf             7565610929999999999982-88981663117989888999999999981779988643121--01267886799996
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYCS-GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRM--CNPDPCSPFVKQMA   85 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~~-~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~--~~~~~~~~~~~~i~   85 (347)
                      ..+.+++|+-.+.+.+...+.. .+-....|++|++|+||..+|+++=    +...-...|+-.  |..-+.......+-
T Consensus       135 ~~~~~liG~S~~m~~v~~~i~~~a~~~~pVLI~GE~GTGK~~~Ar~IH----~~S~r~~~pfi~vnC~~~~~~~~e~eLF  210 (469)
T PRK10923        135 GPTTDIIGEAPAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHALH----RHSPRAKAPFIALNMAAIPKDLIESELF  210 (469)
T ss_pred             CCCCCCEECCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHH----HCCCCCCCCCEEEECCCCCHHHHHHHHH
T ss_conf             675565468999999999999985889978998989826999999999----7488779995787678899778999970


Q ss_pred             CCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHC--------
Q ss_conf             789875453001000101342123237887554431022211112103532205542400014567776630--------
Q gi|254780217|r   86 SHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEP--------  157 (347)
Q Consensus        86 ~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEP--------  157 (347)
                       |..            + +...   +..+.|  ...+..  ..|+  .+++|+++.|+.+.|..||..||+-        
T Consensus       211 -G~~------------~-gaf~---ga~~~~--~g~~e~--a~~G--TLfLdeI~~L~~~~Q~kLl~~L~~~~~~~~g~~  267 (469)
T PRK10923        211 -GHE------------K-GAFT---GANTIR--QGRFEQ--ADGG--TLFLDEIGDMPLDVQTRLLRVLADGQFYRVGGY  267 (469)
T ss_pred             -CCC------------C-CCCC---CCCCCC--CCCHHH--CCCC--CEEHHHHHHCCHHHHHHHHHHHHCCCEEECCCC
T ss_conf             -876------------6-7878---864245--873664--3899--265663664899999999999855937857998


Q ss_pred             ---CCCCCEEEEECCC-------CCCCHHHHCEEE--EEECCCCCH--HHHHH
Q ss_conf             ---3434167650443-------357302520369--886479998--99999
Q gi|254780217|r  158 ---PQKVLFILISHAS-------PTILSTIRSRCL--SIKFNSLSE--NNLYK  196 (347)
Q Consensus       158 ---p~~t~fiLit~~~-------~~il~TI~SRc~--~i~f~~l~~--~~~~~  196 (347)
                         +.++.+|..|+..       ..+.+-+.-|-.  .+.++||.+  +++..
T Consensus       268 ~~~~~d~RiIaat~~~L~~~v~~g~Fr~dLyyrL~~~~I~lPpLReR~eDI~~  320 (469)
T PRK10923        268 APVKVDVRIIAATHQNLEQRVQEGKFREDLFHRLNVIRVHLPPLRERREDIPR  320 (469)
T ss_pred             CEEEECCEEEEECCCCHHHHHHHCCHHHHHHHHHHHHCCCCCCHHHCHHHHHH
T ss_conf             51221437997078799998660817799998644240158465446534999


No 151
>PRK09087 hypothetical protein; Validated
Probab=97.81  E-value=0.00067  Score=51.05  Aligned_cols=164  Identities=13%  Similarity=0.135  Sum_probs=96.0

Q ss_pred             CHHHH-CCH--HHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHC
Q ss_conf             56561-092--999999999998288981663117989888999999999981779988643121012678867999967
Q gi|254780217|r   10 YNQRL-FGH--EDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMAS   86 (347)
Q Consensus        10 ~~~~i-~G~--~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~   86 (347)
                      +++++ +|.  +.+.+.+. .+....-| .+.+|||+|+||+-++..+++.--+                          
T Consensus        19 ~~dnF~vs~~N~~a~~~l~-~~~~w~~~-~~~L~Gp~gsGKTHL~~~~~~~~~a--------------------------   70 (226)
T PRK09087         19 GRDDLVVTESNRAAVSLVD-RWPNWPSP-VVVLAGPVGSGKTHLASIWREKADA--------------------------   70 (226)
T ss_pred             CCCCEEECCCHHHHHHHHH-HCCCCCCC-EEEEECCCCCCHHHHHHHHHHHHCC--------------------------
T ss_conf             7336477576999999998-47267777-5899899999886999999998099--------------------------


Q ss_pred             CCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCC-CCCEEE
Q ss_conf             8987545300100010134212323788755443102221111210353220554240001456777663034-341676
Q gi|254780217|r   87 HALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQ-KVLFIL  165 (347)
Q Consensus        87 ~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~-~t~fiL  165 (347)
                            ..+...          .+..+..       .    ....+.++||++|....+ ..+|.-++.+--. ++.+++
T Consensus        71 ------~~~~~~----------~~~~~~~-------~----~~~~~~~~idd~d~~~~d-Ee~LFhl~N~~~~~~~~LLl  122 (226)
T PRK09087         71 ------LLVHPN----------EIGSDAA-------N----AAAERPVLIEDIDAGGFD-ETGLFHLINSVRQAGTSLLM  122 (226)
T ss_pred             ------EEECHH----------HCCHHHH-------H----HHCCCCEEEECCCCCCCC-HHHHHHHHHHHHHCCCEEEE
T ss_conf             ------683668----------7474667-------6----532798899748777747-89999999999853987999


Q ss_pred             EECC-CCC---CCHHHHCEE---EEEECCCCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHHHHHC
Q ss_conf             5044-335---730252036---9886479998999999997----27888967899999975989789998814
Q gi|254780217|r  166 ISHA-SPT---ILSTIRSRC---LSIKFNSLSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAIKILH  229 (347)
Q Consensus       166 it~~-~~~---il~TI~SRc---~~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~  229 (347)
                      +++. |..   -+|=++||.   ..+.+.+|+.+.+...|.+    .+...+++...++..-.+-+...+..+++
T Consensus       123 ts~~~p~~l~~~L~DL~SRL~~~~~~~I~~pdD~ll~~~L~k~~~~r~l~l~~~v~~yll~r~~Rs~~~l~~~l~  197 (226)
T PRK09087        123 TSRLWPSAWNVKLPDLKSRLKAATVVEIGEPDDALLSGVIFKLFADRQLYVEPHVVYYLVSRMERSLFAAQTIVE  197 (226)
T ss_pred             ECCCCHHHCCCCCHHHHHHHHCCEEEEECCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             889895666762468999985785798359998999999999987576578888999999845889999999999


No 152
>pfam00931 NB-ARC NB-ARC domain.
Probab=97.77  E-value=5.4e-05  Score=59.84  Aligned_cols=186  Identities=12%  Similarity=0.071  Sum_probs=92.3

Q ss_pred             HHHHHHHHHHH--CCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCH--HHHHHHCCCCCCEEE
Q ss_conf             99999999998--28898166311798988899999999998177998864312101267886--799996789875453
Q gi|254780217|r   19 DIEKFLSQYYC--SGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSP--FVKQMASHALHDFLY   94 (347)
Q Consensus        19 ~~~~~L~~~~~--~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~--~~~~i~~~~hpd~~~   94 (347)
                      +.++.|.+.+.  ++.+. -+=++|+.|+||||+|+.+-+..-.... ...-++.+.+...+.  ..+.+...       
T Consensus         3 ~~~~~i~~~L~~~~~~~~-vI~I~G~gGiGKTtLA~~v~~~~~i~~~-F~~~~wv~vs~~~~~~~i~~~i~~~-------   73 (285)
T pfam00931         3 DMIEALIEKLLEMSENLG-VVGIVGMGGVGKTTLAKQIYNDDSVGGH-FDSVAWVVVSKTYTEFRLQKDILQE-------   73 (285)
T ss_pred             HHHHHHHHHHHCCCCCCE-EEEEECCCCCCHHHHHHHHHCCHHHHHC-CCEEEEEEECCCCCHHHHHHHHHHH-------
T ss_conf             899999999864898953-9998899956399999999716556505-9838999979766689999999998-------


Q ss_pred             ECCCCHHHCCCCCCCCCHHHHHH-HHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCC
Q ss_conf             00100010134212323788755-44310222111121035322055424000145677766303434167650443357
Q gi|254780217|r   95 LSYSLNPKTGKWRTVITVDEIRR-IRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTI  173 (347)
Q Consensus        95 i~~~~~~k~~~~~~~I~vd~IR~-l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~i  173 (347)
                      +...     ......-..++... +.+++     .+++=.+|+|++..  ..-.+.+...+-.=..++.+|++|+ ...+
T Consensus        74 l~~~-----~~~~~~~~~~~l~~~l~~~L-----~~kr~LiVLDDVw~--~~~~~~l~~~~~~~~~gSrIIvTTR-~~~V  140 (285)
T pfam00931        74 LGLD-----DSDWVEKNESELAVKIKEAL-----LRKRFLLVLDDVWE--KNDWDKIGVPFPDGENGSRVIVTTR-SESV  140 (285)
T ss_pred             HCCC-----CCCCCCCCHHHHHHHHHHHH-----CCCCEEEEECCCCC--HHHHHHHHCCCCCCCCCCEEEEECC-CHHH
T ss_conf             5666-----54555578999999999997-----27966999638887--8999997345757899827998557-5899


Q ss_pred             CHHHHCEEEEEECCCCCHHHHHHHHHHHCC---CCC----HHHHHHHHHHCCCCHHHHHH
Q ss_conf             302520369886479998999999997278---889----67899999975989789998
Q gi|254780217|r  174 LSTIRSRCLSIKFNSLSENNLYKALEQLKI---MGW----DSKRDFVKIAAYGSVARAIK  226 (347)
Q Consensus       174 l~TI~SRc~~i~f~~l~~~~~~~~L~~~~~---~~~----~~~~~~~~~~s~Gs~~~A~~  226 (347)
                      ..+....+..+.+.++++++..+.+.+.-.   ...    ++....++..+.|.|-.+.-
T Consensus       141 ~~~~~~~~~~~~l~~L~~~es~~Lf~~~a~~~~~~~~~~l~~~~~~Iv~~C~GlPLai~~  200 (285)
T pfam00931       141 AGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPELEEVAKEIVEKCKGLPLALKV  200 (285)
T ss_pred             HHHCCCCCCEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCHHHHHH
T ss_conf             987378883476168987999999999846898999767999999999985899499999


No 153
>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=97.77  E-value=3e-05  Score=61.88  Aligned_cols=125  Identities=22%  Similarity=0.270  Sum_probs=72.2

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHH
Q ss_conf             81663117989888999999999981779988643121012678867999967898754530010001013421232378
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVD  113 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd  113 (347)
                      .+ +|+.||=|+|||.+|.-+|+.|.--....+.             .-+-++    .             ..+..  ||
T Consensus       153 SN-ILLiGPTGSGKTLLAqTLA~~L~VPfAiADA-------------TtLTEA----G-------------YVGED--VE  199 (452)
T TIGR00382       153 SN-ILLIGPTGSGKTLLAQTLARILNVPFAIADA-------------TTLTEA----G-------------YVGED--VE  199 (452)
T ss_pred             CC-EEEECCCCCCHHHHHHHHHHHCCCCEEECCH-------------HHHHCC----C-------------CCCCC--HH
T ss_conf             66-2454688852689999999873887421111-------------102006----6-------------42422--88


Q ss_pred             HHH-HHHHHCCCCCCCCCCHHHHHHHHHHCCHH--------------HHHHHHHHHHH-----CCCC-------------
Q ss_conf             875-54431022211112103532205542400--------------01456777663-----0343-------------
Q gi|254780217|r  114 EIR-RIRYFLSLTANTGYWRVIMIDPVDGMNRN--------------AANALLKSLEE-----PPQK-------------  160 (347)
Q Consensus       114 ~IR-~l~~~~~~~~~~~~~Ki~IId~ad~ln~~--------------AaNALLK~LEE-----Pp~~-------------  160 (347)
                      -|= .|+....+--....+=||.||++|+.++-              -|.||||++|-     ||.+             
T Consensus       200 NIL~~Llq~ad~DV~kA~kGIiYIDEIDKIaRkSEN~SITRDVSGEGVQQALLKi~EGTvA~vPPqGGRKHP~~~~iqiD  279 (452)
T TIGR00382       200 NILLKLLQAADYDVEKAQKGIIYIDEIDKIARKSENPSITRDVSGEGVQQALLKIIEGTVANVPPQGGRKHPQQEFIQID  279 (452)
T ss_pred             HHHHHHHHHCCCCHHHHCCCEEEEECCCCHHHHCCCCEEEEEECCCHHHHHHHHHHHCCEEEECCCCCCCCCCCCEEEEC
T ss_conf             99999987414552452785089842231012157780112217554999999876032343175448868865768864


Q ss_pred             -CCEEEEECCCC-CCCHHHHCEEEE---EECCCCCH
Q ss_conf             -41676504433-573025203698---86479998
Q gi|254780217|r  161 -VLFILISHASP-TILSTIRSRCLS---IKFNSLSE  191 (347)
Q Consensus       161 -t~fiLit~~~~-~il~TI~SRc~~---i~f~~l~~  191 (347)
                       +-|+|||-=.- -|=.-|..|...   +-|.....
T Consensus       280 Ts~ILFICGGAF~GL~~iI~~R~~~~~~iGF~~~~~  315 (452)
T TIGR00382       280 TSNILFICGGAFVGLEKIIKKRTEKKSSIGFGAEVK  315 (452)
T ss_pred             CCCEEEEECCHHHHHHHHHHHHHCCCCCCCCCCCHH
T ss_conf             764001105434448999988745553335455210


No 154
>pfam00158 Sigma54_activat Sigma-54 interaction domain.
Probab=97.74  E-value=0.00024  Score=54.68  Aligned_cols=116  Identities=17%  Similarity=0.242  Sum_probs=60.6

Q ss_pred             HCCHHHHHHHHHHHHHC-CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHH--CCCCCCCHHHHHHHCCCCC
Q ss_conf             10929999999999982-88981663117989888999999999981779988643121--0126788679999678987
Q gi|254780217|r   14 LFGHEDIEKFLSQYYCS-GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRM--CNPDPCSPFVKQMASHALH   90 (347)
Q Consensus        14 i~G~~~~~~~L~~~~~~-~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~--~~~~~~~~~~~~i~~~~hp   90 (347)
                      +||+....+.+...+.. .+-+..+|++|++|+||..+|+++-..  .  .-...|+-.  |..-+.......+ =|..+
T Consensus         1 lIG~S~~m~~l~~~i~~~a~~~~pVLI~GE~GtGK~~lAr~IH~~--S--~r~~~pfi~vnc~~~~~~~le~~L-FG~~~   75 (168)
T pfam00158         1 LIGESPAMQEVLELAKRVAPTDATVLITGESGTGKELFARAIHQL--S--PRADGPFVAVNCAAIPEELLESEL-FGHEK   75 (168)
T ss_pred             CEECCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHH--C--CCCCCCCCCCCCCCCCHHHHHHHH-CCCCC
T ss_conf             973899999999999999588998899899988889999999985--2--435688312567899877999987-58766


Q ss_pred             CEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf             545300100010134212323788755443102221111210353220554240001456777663
Q gi|254780217|r   91 DFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEE  156 (347)
Q Consensus        91 d~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEE  156 (347)
                      +-+         .+...       .+  ...+.  ...|  -.+++|+++.|..+.|..||+.||+
T Consensus        76 g~f---------~ga~~-------~~--~G~le--~A~g--GTL~LdeI~~L~~~~Q~~Ll~~L~~  119 (168)
T pfam00158        76 GAF---------TGAVS-------DR--KGLFE--LADG--GTLFLDEIGELPLELQAKLLRVLQE  119 (168)
T ss_pred             CCC---------CCCCC-------CC--CCCEE--ECCC--CEEECCCHHHCCHHHHHHHHHHHHC
T ss_conf             766---------89875-------78--99642--2699--8788024413999999999999857


No 155
>smart00350 MCM minichromosome  maintenance proteins.
Probab=97.73  E-value=0.0011  Score=49.41  Aligned_cols=136  Identities=21%  Similarity=0.234  Sum_probs=73.2

Q ss_pred             HHHCCHHHHHHHHHHHHHCCC------------CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCH
Q ss_conf             561092999999999998288------------98166311798988899999999998177998864312101267886
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYYCSGR------------MHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSP   79 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~~~~~------------l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~   79 (347)
                      .+|+||+.++.-+.=++-.|.            =.| +|+.|.||+||+.+-+..++ +-   +.+-..+|.-++     
T Consensus       203 P~I~G~~~vK~allL~L~GG~~~~~~~g~~~Rg~ih-iLLvGDPGtgKSqlLk~~~~-ia---prsvytsG~gsS-----  272 (509)
T smart00350      203 PSIYGHEDIKKAILLLLFGGVHKNLPDGMKIRGDIN-ILLLGDPGTAKSQLLKYVEK-TA---PRAVYTTGKGSS-----  272 (509)
T ss_pred             CCCCCCHHHHHHHHHHHCCCCCCCCCCCCEECCCEE-EEEECCCCCCHHHHHHHHHH-HC---CCEEEEECCCCC-----
T ss_conf             732387889999999970887664898850415414-99846998236299999998-58---860687344455-----


Q ss_pred             HHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCC
Q ss_conf             79999678987545300100010134212323788755443102221111210353220554240001456777663034
Q gi|254780217|r   80 FVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQ  159 (347)
Q Consensus        80 ~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~  159 (347)
                               -..+- ....-++.++.           ...+--.+-  .+..-|+.||+.|.|+.+-.+||+-.||   .
T Consensus       273 ---------~aGLT-aav~rd~~~ge-----------~~leaGALV--lAD~GiccIDEfdKm~~~dr~alhEaME---Q  326 (509)
T smart00350      273 ---------AVGLT-AAVTRDPETRE-----------FTLEGGALV--LADNGVCCIDEFDKMDDSDRTAIHEAME---Q  326 (509)
T ss_pred             ---------CCCCE-EEEEECCCCCC-----------EEECCCCEE--CCCCCEEEEEEHHHCCHHHHHHHHHHHH---H
T ss_conf             ---------57706-89998178883-----------787256412--0567547852132078778999999997---4


Q ss_pred             CCCEEEEECCCCCCCHHHHCEEEEEECC
Q ss_conf             3416765044335730252036988647
Q gi|254780217|r  160 KVLFILISHASPTILSTIRSRCLSIKFN  187 (347)
Q Consensus       160 ~t~fiLit~~~~~il~TI~SRc~~i~f~  187 (347)
                      .|+-|    ....|..|+.+||-.+.-.
T Consensus       327 Qtisi----aKaGi~~tL~aR~sVlAAa  350 (509)
T smart00350      327 QTISI----AKAGITTTLNARCSVLAAA  350 (509)
T ss_pred             CEEEE----ECCCEEEEEECCCEEEEEE
T ss_conf             87787----4375179985573599865


No 156
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=97.70  E-value=0.0013  Score=48.73  Aligned_cols=188  Identities=16%  Similarity=0.213  Sum_probs=97.9

Q ss_pred             HHHHCCHHHHHHHHHHHHHC---CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHH--HCCCCCCCHHHHHHH
Q ss_conf             65610929999999999982---8898166311798988899999999998177998864312--101267886799996
Q gi|254780217|r   11 NQRLFGHEDIEKFLSQYYCS---GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVR--MCNPDPCSPFVKQMA   85 (347)
Q Consensus        11 ~~~i~G~~~~~~~L~~~~~~---~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~--~~~~~~~~~~~~~i~   85 (347)
                      ..++||+-.+.+.|.+.+..   ..+|  .|++|+.|+||..+|+++=+    ...-...|+-  .|..-+.+    .++
T Consensus       185 ~~elIG~S~~m~~l~~~i~~vA~sd~p--VLI~GEtGTGKelvAr~IH~----~S~R~~~Pfv~vNCaalpe~----l~E  254 (510)
T PRK05022        185 QGEMIGQSPAMQQLKKEIEVVAASDLN--VLITGETGVGKELVARAIHQ----ASPRAVKPLVYLNCAALPES----LAE  254 (510)
T ss_pred             CCCEEECCHHHHHHHHHHHHHHCCCCC--EEEECCCCCCHHHHHHHHHH----CCCCCCCCCEEEECCCCCHH----HHH
T ss_conf             897520899999999999999689998--89889898139999999996----68878998578889999856----789


Q ss_pred             CCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHC--------
Q ss_conf             789875453001000101342123237887554431022211112103532205542400014567776630--------
Q gi|254780217|r   86 SHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEP--------  157 (347)
Q Consensus        86 ~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEP--------  157 (347)
                      +    .+|  ..   .| |..-..     ++.-...+..  ..|+  ..++|+++.|..+.|-.||+.||+-        
T Consensus       255 s----eLF--Gh---~k-GaFtGA-----~~~r~G~fe~--A~gG--TLfLDEI~~Lpl~~Q~KLLrvLq~g~iqrvG~~  315 (510)
T PRK05022        255 S----ELF--GH---VK-GAFTGA-----ISNRSGKFEL--ADGG--TLFLDEIGELPLALQAKLLRVLQYGEIQRVGSD  315 (510)
T ss_pred             H----HHC--CC---CC-CCCCCC-----CCCCCCCEEE--CCCC--EEEEECHHHCCHHHHHHHHHHHHCCEEEECCCC
T ss_conf             9----865--97---77-886886-----5567881017--7898--798757454999999999999847958855899


Q ss_pred             ---CCCCCEEEEECCCCCCCHHHHC-----------EEEEEECCCCCH--HHHHH----HHHHH-------CCCCCHHHH
Q ss_conf             ---3434167650443357302520-----------369886479998--99999----99972-------788896789
Q gi|254780217|r  158 ---PQKVLFILISHASPTILSTIRS-----------RCLSIKFNSLSE--NNLYK----ALEQL-------KIMGWDSKR  210 (347)
Q Consensus       158 ---p~~t~fiLit~~~~~il~TI~S-----------Rc~~i~f~~l~~--~~~~~----~L~~~-------~~~~~~~~~  210 (347)
                         +-++.+|-.|+.  .+..-+..           -+..+.++||.+  +++..    ++.+.       ...+++++.
T Consensus       316 ~~~~vdvRIIAATnr--dL~~~V~~G~FR~DLYyRLsv~~I~vPPLRER~eDI~lLa~~FLe~~~~~~g~~~~~ls~eAl  393 (510)
T PRK05022        316 RSLRVDVRVIAATNR--DLREEVLAGRFRADLYHRLSVFPLPVPPLRERGDDVLLLAGYFLEQNRLRLGLSSLRLSPDAQ  393 (510)
T ss_pred             CEEEEEEEEEEECCC--CHHHHHHCCCHHHHHHHHHHCCCCCCCCHHHCHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHH
T ss_conf             466666899960783--599998839638999987620403480865555409999999999999982989898889999


Q ss_pred             HHHHHHC-CCCHHHHHHHHC
Q ss_conf             9999975-989789998814
Q gi|254780217|r  211 DFVKIAA-YGSVARAIKILH  229 (347)
Q Consensus       211 ~~~~~~s-~Gs~~~A~~ll~  229 (347)
                      ..+.... .|++++..+.+.
T Consensus       394 ~~L~~Y~WPGNVRELenvIe  413 (510)
T PRK05022        394 AALLQYDWPGNVRELEHVIS  413 (510)
T ss_pred             HHHHCCCCCCHHHHHHHHHH
T ss_conf             99970999978999999999


No 157
>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=97.69  E-value=9.8e-05  Score=57.78  Aligned_cols=179  Identities=15%  Similarity=0.250  Sum_probs=111.5

Q ss_pred             HHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHH-----------HCCCCCCCCCHHHCCCCCCCH
Q ss_conf             656109299999999999828898166311798988899999999998-----------177998864312101267886
Q gi|254780217|r   11 NQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHV-----------LQNPDFSKAPVRMCNPDPCSP   79 (347)
Q Consensus        11 ~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~l-----------lc~~~~~~~~~~~~~~~~~~~   79 (347)
                      |+=||||+..+.-|.=...+-++.- .|+.|++|+||+|+|+.++.-|           -|.++....-|..|       
T Consensus         3 F~AiVGQe~LK~ALLL~Av~P~iGG-VLirG~KGTAKSTaaR~L~~LLP~i~~v~gC~f~cdP~~P~~~C~~C-------   74 (688)
T TIGR02442         3 FTAIVGQEDLKLALLLNAVNPRIGG-VLIRGEKGTAKSTAARGLAALLPDIDVVAGCPFSCDPDDPEEWCEEC-------   74 (688)
T ss_pred             CCCCCCHHHHHHHHHHEEECCCCCE-EEEECCCCCHHHHHHHHHHHHCCHHHHHCCCCCCCCCCCCCCCCHHH-------
T ss_conf             7422142798653210025266370-78877888627898884876160236640478887778870400676-------


Q ss_pred             HHHHHH-CC----CCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHH-HCCCCC---CCCCCHHHHHHHHHHCCHHHHHHH
Q ss_conf             799996-78----987545300100010134212323788755443-102221---111210353220554240001456
Q gi|254780217|r   80 FVKQMA-SH----ALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRY-FLSLTA---NTGYWRVIMIDPVDGMNRNAANAL  150 (347)
Q Consensus        80 ~~~~i~-~~----~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~-~~~~~~---~~~~~Ki~IId~ad~ln~~AaNAL  150 (347)
                       -+++. .|    ....+.+|+.+..--..+.=..+-|+  |.|.. .-...|   ....+.|.-|||+-.|...=.|.|
T Consensus        75 -~~~~~~~G~~~~~~~~~~~V~LPlgATEDRVvG~LDi~--~al~~G~~~FqPGLLA~AhrGiLYiDEVNLLdDhlVD~l  151 (688)
T TIGR02442        75 -RRKLEEQGTLPSEQRPVPFVNLPLGATEDRVVGSLDIE--RALKEGEKAFQPGLLAEAHRGILYIDEVNLLDDHLVDVL  151 (688)
T ss_pred             -HHHHHCCCCCCCCCCCCEEEECCCCCCHHHHCCHHHHH--HHHHHCHHHHCCCCHHHHCCCEEEEEEECCCCCHHHHHH
T ss_conf             -75552047753135873588658775233221305489--998718566078861754687167852001441477899


Q ss_pred             HHHHHHCC-----------CCCCEEEE-ECCCC--CCCHHHHCEE-EEEECCCC-CHHHHHHHHHH
Q ss_conf             77766303-----------43416765-04433--5730252036-98864799-98999999997
Q gi|254780217|r  151 LKSLEEPP-----------QKVLFILI-SHASP--TILSTIRSRC-LSIKFNSL-SENNLYKALEQ  200 (347)
Q Consensus       151 LK~LEEPp-----------~~t~fiLi-t~~~~--~il~TI~SRc-~~i~f~~l-~~~~~~~~L~~  200 (347)
                      |-....=-           -=+.|+|+ |=||+  .|=|=|+=|- ..+.+... +.++-.+++..
T Consensus       152 LDaaA~G~n~VEREG~S~~Hparf~L~GTMNPEEG~LRPQLLDRFGL~V~v~~~~d~~~R~Ev~~R  217 (688)
T TIGR02442       152 LDAAAMGVNRVEREGLSVSHPARFVLIGTMNPEEGDLRPQLLDRFGLCVDVAASRDPEERVEVIRR  217 (688)
T ss_pred             HHHHHCCCEEEEECCCCHHCHHHHHHHCCCCCCHHHHCHHHHHHHHCEEEECCCCCHHHHHHHHHH
T ss_conf             998764800676357430011455322037852211022324244011550243586689999999


No 158
>KOG0740 consensus
Probab=97.67  E-value=0.00022  Score=54.94  Aligned_cols=175  Identities=18%  Similarity=0.150  Sum_probs=99.7

Q ss_pred             CCCCCCCHHHHCCHHHHHHHHHHHHHC-----------CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCC-CCCCC-CHH
Q ss_conf             555587565610929999999999982-----------88981663117989888999999999981779-98864-312
Q gi|254780217|r    4 RAFDPVYNQRLFGHEDIEKFLSQYYCS-----------GRMHHALLFEGEQGIGKATLGFRYAGHVLQNP-DFSKA-PVR   70 (347)
Q Consensus         4 ~~~~p~~~~~i~G~~~~~~~L~~~~~~-----------~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~-~~~~~-~~~   70 (347)
                      ..-++-.++++-|.+.+++.+..+..-           ...+-++|+-||||.||+.+++++|....... +.+.. -.+
T Consensus       145 ~~~~~v~~~di~gl~~~k~~l~e~vi~p~lr~d~F~glr~p~rglLLfGPpgtGKtmL~~aiAsE~~atff~iSassLts  224 (428)
T KOG0740         145 DTLRNVGWDDIAGLEDAKQSLKEAVILPLLRPDLFLGLREPVRGLLLFGPPGTGKTMLAKAIATESGATFFNISASSLTS  224 (428)
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCHHHHHCCCCCCCHHHEECCCCCCHHHHHHHHHHHHCCEEEECCHHHHHH
T ss_conf             02775413577405668998654232204553765235445311120058988447999999862066576306888653


Q ss_pred             HCCCCC--CCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHC------
Q ss_conf             101267--886799996789875453001000101342123237887554431022211112103532205542------
Q gi|254780217|r   71 MCNPDP--CSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGM------  142 (347)
Q Consensus        71 ~~~~~~--~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~l------  142 (347)
                      ....+.  .-...-+++..-.|.                                         |++||++|.+      
T Consensus       225 K~~Ge~eK~vralf~vAr~~qPs-----------------------------------------vifidEidslls~Rs~  263 (428)
T KOG0740         225 KYVGESEKLVRALFKVARSLQPS-----------------------------------------VIFIDEIDSLLSKRSD  263 (428)
T ss_pred             HCCCHHHHHHHHHHHHHHHCCCE-----------------------------------------EEEECHHHHHHHHCCC
T ss_conf             24670778999999998713970-----------------------------------------8984025678863687


Q ss_pred             -----CHHHHHHHHHH----HHHCCCCCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHH-----HHHHHCCCCCHH
Q ss_conf             -----40001456777----6630343416765044335730252036988647999899999-----999727888967
Q gi|254780217|r  143 -----NRNAANALLKS----LEEPPQKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYK-----ALEQLKIMGWDS  208 (347)
Q Consensus       143 -----n~~AaNALLK~----LEEPp~~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~-----~L~~~~~~~~~~  208 (347)
                           +.-...-+|=+    .=-|.++.++|=+||.|..+-.-++-|-+++-+-|++..+.+.     .|++......+.
T Consensus       264 ~e~e~srr~ktefLiq~~~~~s~~~drvlvigaTN~P~e~Dea~~Rrf~kr~yiplPd~etr~~~~~~ll~~~~~~l~~~  343 (428)
T KOG0740         264 NEHESSRRLKTEFLLQFDGKNSAPDDRVLVIGATNRPWELDEAARRRFVKRLYIPLPDYETRSLLWKQLLKEQPNGLSDL  343 (428)
T ss_pred             CCCCCCHHHHHHHHHHHCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHCCEEEECCCCHHHHHHHHHHHHHHCCCCCCHH
T ss_conf             54544555655777654044578887079981588836778888887103155359887899999999997687874177


Q ss_pred             HHHHHHHHCCC
Q ss_conf             89999997598
Q gi|254780217|r  209 KRDFVKIAAYG  219 (347)
Q Consensus       209 ~~~~~~~~s~G  219 (347)
                      +...++..++|
T Consensus       344 d~~~l~~~Teg  354 (428)
T KOG0740         344 DISLLAKVTEG  354 (428)
T ss_pred             HHHHHHHHHCC
T ss_conf             89999988617


No 159
>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]
Probab=97.66  E-value=0.00054  Score=51.78  Aligned_cols=183  Identities=16%  Similarity=0.221  Sum_probs=103.1

Q ss_pred             CHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCC-C--CCHHHHHHHC
Q ss_conf             565610929999999999982889816631179898889999999999817799886431210126-7--8867999967
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPD-P--CSPFVKQMAS   86 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~-~--~~~~~~~i~~   86 (347)
                      -|.-++||+.....|.-....-++.. .|+.|++|+||+|+|+++|. ||-.-..-.+---.|.++ +  -+..|+.-..
T Consensus        15 pf~aivGqd~lk~aL~l~av~P~igg-vLI~G~kGtaKSt~~Rala~-LLp~~~~V~gc~f~cdP~~P~~~c~~c~~k~~   92 (423)
T COG1239          15 PFTAIVGQDPLKLALGLNAVDPQIGG-ALIAGEKGTAKSTLARALAD-LLPEIEVVIGCPFNCDPDDPEEMCDECRAKGD   92 (423)
T ss_pred             CHHHHCCCHHHHHHHHHHHCCCCCCE-EEEECCCCCCHHHHHHHHHH-HCCCCCEECCCCCCCCCCCHHHHHHHHHHHCC
T ss_conf             65654375377788765302631042-68766887527799999998-67963321688788998870555199986202


Q ss_pred             CCCCCEEEECCCCHHHC--------CCCCCCCCHHHHHHHHH-HCCCCC---CCCCCHHHHHHHHHHCCHHHHHHHHHHH
Q ss_conf             89875453001000101--------34212323788755443-102221---1112103532205542400014567776
Q gi|254780217|r   87 HALHDFLYLSYSLNPKT--------GKWRTVITVDEIRRIRY-FLSLTA---NTGYWRVIMIDPVDGMNRNAANALLKSL  154 (347)
Q Consensus        87 ~~hpd~~~i~~~~~~k~--------~~~~~~I~vd~IR~l~~-~~~~~~---~~~~~Ki~IId~ad~ln~~AaNALLK~L  154 (347)
                       .-.++ .....+.+.-        .+.=.+|.++  +.+.. --..+|   ..+.+=|+-||++-.+...-+|+||-.+
T Consensus        93 -e~~~~-~~~~r~v~~v~lPl~ateDrvvGslDi~--ka~~~g~~af~PGlLa~AnRGIlYvDEvnlL~d~lvd~LLd~a  168 (423)
T COG1239          93 -ELEWL-PREKRKVPFVALPLGATEDRLVGSLDIE--KALEEGPKAFQPGLLARANRGILYVDEVNLLDDHLVDALLDVA  168 (423)
T ss_pred             -CCCCC-CCCCEECCEECCCCCCCHHHHCCCCCHH--HHHHCCCCCCCCCCHHHCCCCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             -32445-4221003122388763043300456799--9972683002775110035887987233435189999999999


Q ss_pred             HH-------------CCCCCCEEEE-ECCCC--CCCHHHHCE-EEEEECCCCCHHH-HHHHHHH
Q ss_conf             63-------------0343416765-04433--573025203-6988647999899-9999997
Q gi|254780217|r  155 EE-------------PPQKVLFILI-SHASP--TILSTIRSR-CLSIKFNSLSENN-LYKALEQ  200 (347)
Q Consensus       155 EE-------------Pp~~t~fiLi-t~~~~--~il~TI~SR-c~~i~f~~l~~~~-~~~~L~~  200 (347)
                      +|             -|.  -|+|| |-||+  .|-|.++-| -..+...++..-+ -.+++.+
T Consensus       169 aeG~n~vereGisi~hpa--~fvligTmNPEeGeLrpqLlDRfg~~v~~~~~~~~~~rv~Ii~r  230 (423)
T COG1239         169 AEGVNDVEREGISIRHPA--RFLLIGTMNPEEGELRPQLLDRFGLEVDTHYPLDLEERVEIIRR  230 (423)
T ss_pred             HHCCCEEEECCEEECCCC--CEEEEEECCCCCCCCCHHHHHHHCCEEECCCCCCHHHHHHHHHH
T ss_conf             717740335750313676--17999644854466324667541115623478878888999999


No 160
>KOG2170 consensus
Probab=97.65  E-value=0.00043  Score=52.57  Aligned_cols=135  Identities=19%  Similarity=0.232  Sum_probs=90.3

Q ss_pred             HHHCCHHHHHHHHHHHHHC------CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHH
Q ss_conf             5610929999999999982------8898166311798988899999999998177998864312101267886799996
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYYCS------GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMA   85 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~~~------~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~   85 (347)
                      ..++||.-+++...+++++      -+=|=.+=|||++|+||.-.|..+|..+.-..-.+.            .+-.-+.
T Consensus        82 ~~lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~------------~V~~fva  149 (344)
T KOG2170          82 RALFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRSP------------FVHHFVA  149 (344)
T ss_pred             HHHHCHHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCCH------------HHHHHHH
T ss_conf             9863208799999999999862899998758983089987564899999999875112562------------6887655


Q ss_pred             CCCCCCEEEECCCCHHHCCCCCCCCCHHHHHH-HHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCC------
Q ss_conf             78987545300100010134212323788755-44310222111121035322055424000145677766303------
Q gi|254780217|r   86 SHALHDFLYLSYSLNPKTGKWRTVITVDEIRR-IRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPP------  158 (347)
Q Consensus        86 ~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~-l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp------  158 (347)
                      ....|+--                 .|++-|+ |.+++.-+-..-++-++|.||+|.|...--.+|--.|+-.|      
T Consensus       150 t~hFP~~~-----------------~ie~Yk~eL~~~v~~~v~~C~rslFIFDE~DKmp~gLld~lkpfLdyyp~v~gv~  212 (344)
T KOG2170         150 TLHFPHAS-----------------KIEDYKEELKNRVRGTVQACQRSLFIFDEVDKLPPGLLDVLKPFLDYYPQVSGVD  212 (344)
T ss_pred             HCCCCCHH-----------------HHHHHHHHHHHHHHHHHHHCCCCEEEECHHHHCCHHHHHHHHHHHCCCCCCCCCC
T ss_conf             41599767-----------------8999999999999999985577548731054358769998766630463213554


Q ss_pred             -CCCCEEEEECCCCCCCH
Q ss_conf             -43416765044335730
Q gi|254780217|r  159 -QKVLFILISHASPTILS  175 (347)
Q Consensus       159 -~~t~fiLit~~~~~il~  175 (347)
                       .+++||++++--...++
T Consensus       213 frkaIFIfLSN~gg~eI~  230 (344)
T KOG2170         213 FRKAIFIFLSNAGGSEIA  230 (344)
T ss_pred             CCCEEEEEECCCCCHHHH
T ss_conf             551489997178614779


No 161
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=97.64  E-value=2.6e-05  Score=62.46  Aligned_cols=49  Identities=24%  Similarity=0.297  Sum_probs=35.0

Q ss_pred             HHHCCHHHHHHHHHHHH----H----CCC-----C-CEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             56109299999999999----8----288-----9-816631179898889999999999817
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYY----C----SGR-----M-HHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~----~----~~~-----l-~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      +-|+||+.+++.|.-+.    +    .+.     + -..+|+.||-|+||+.+|..+|+.|.-
T Consensus        61 ~YVIGQe~AKKvLsVAVYNHYKRl~~~~~~~dvEL~KSNILLiGPTGsGKTlLAqTLAk~LnV  123 (408)
T COG1219          61 EYVIGQEQAKKVLSVAVYNHYKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLAQTLAKILNV  123 (408)
T ss_pred             HHEECCHHHHCEEEEEEEHHHHHHHCCCCCCCEEEEECCEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             243262543103466410688998604887763532031799888997577999999998489


No 162
>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=97.63  E-value=0.0012  Score=48.91  Aligned_cols=207  Identities=14%  Similarity=0.138  Sum_probs=104.5

Q ss_pred             HHHCCHHHHHHHHH---HHH---HCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHH
Q ss_conf             56109299999999---999---828898166311798988899999999998177998864312101267886799996
Q gi|254780217|r   12 QRLFGHEDIEKFLS---QYY---CSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMA   85 (347)
Q Consensus        12 ~~i~G~~~~~~~L~---~~~---~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~   85 (347)
                      +.-+|+..+.+.|.   ..+   ...|+|. +|++|+.|.||++.+..|++.-.   ...+.....|      |+. .+.
T Consensus        34 ~rWIgY~~A~~~L~~Le~Ll~~P~~~Rmp~-lLlvGdsnnGKT~Iv~rF~~~hp---~~~d~~~~~~------PVl-~vq  102 (302)
T pfam05621        34 DRWIGYPRAVEALNRLEALYAWPNKQRMPN-LLLVGPTNNGKSMIVEKFRRAHP---AGSDADQEHI------PVL-VVQ  102 (302)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHCCCCCCCCC-EEEEECCCCCHHHHHHHHHHHCC---CCCCCCCCCC------EEE-EEE
T ss_conf             853277899999999999984686468875-58870798878999999999679---9878666702------189-997


Q ss_pred             CCCCCCEEEECCCC-HHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH---HHHHHHHHHHHHCCCCC
Q ss_conf             78987545300100-010134212323788755443102221111210353220554240---00145677766303434
Q gi|254780217|r   86 SHALHDFLYLSYSL-NPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR---NAANALLKSLEEPPQKV  161 (347)
Q Consensus        86 ~~~hpd~~~i~~~~-~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~---~AaNALLK~LEEPp~~t  161 (347)
                      .-..||.-.+-... ..-+-..+..-++.+-+...-.+-.   .-+-|++|||++|.+=.   ..|.++|-.|---....
T Consensus       103 ~P~~p~~~~lY~~IL~~l~aP~~~~~~~~~~~~~~~~ll~---~~~vrmLIIDEiHnlL~Gs~~~qr~~ln~LK~L~Nel  179 (302)
T pfam05621       103 MPSEPSVIRFYVALLAAMGAPLRPRPRLPEMEQLALALLR---KVGVRMLVIDELHNVLAGNSVNRREFLNLLRFLGNEL  179 (302)
T ss_pred             CCCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHH---HCCCCEEEEECHHHHCCCCHHHHHHHHHHHHHHHHCC
T ss_conf             6999886899999999837877888778999999999999---7498789985436560486889999999999986365


Q ss_pred             CE--EEE-ECCCCCC---CHHHHCEEEEEECCCCCHHH-HHHHHHHH---------CCCCCHHHHHHHHHHCCCCHHHHH
Q ss_conf             16--765-0443357---30252036988647999899-99999972---------788896789999997598978999
Q gi|254780217|r  162 LF--ILI-SHASPTI---LSTIRSRCLSIKFNSLSENN-LYKALEQL---------KIMGWDSKRDFVKIAAYGSVARAI  225 (347)
Q Consensus       162 ~f--iLi-t~~~~~i---l~TI~SRc~~i~f~~l~~~~-~~~~L~~~---------~~~~~~~~~~~~~~~s~Gs~~~A~  225 (347)
                      .+  +++ |...-..   -|-+.||...+.+++-..++ ....|...         ..-...+....+...|.|.+|...
T Consensus       180 ~IpiV~vGt~eA~~ai~tD~QlasRF~~~~Lp~W~~d~ef~~LL~sfe~~LPL~~~S~L~~~~~a~~I~~~SeG~iGei~  259 (302)
T pfam05621       180 RIPLVGVGTRDAYLAIRSDDQLENRFEPMLLPPWEANDDCCSLLASFAASLPLRRPSPIATLDMARYLLTRSEGTIGELA  259 (302)
T ss_pred             CCCEEEECCHHHHHHHHCCHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHCCCCHHHHH
T ss_conf             87869953199999970688888505861168888980899999999986888777688889999999998599287999


Q ss_pred             HHHCCCH
Q ss_conf             8814577
Q gi|254780217|r  226 KILHYDC  232 (347)
Q Consensus       226 ~ll~~~~  232 (347)
                      .+++...
T Consensus       260 ~Ll~~aA  266 (302)
T pfam05621       260 HLLMAAA  266 (302)
T ss_pred             HHHHHHH
T ss_conf             9999999


No 163
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=97.59  E-value=8.4e-05  Score=58.30  Aligned_cols=46  Identities=33%  Similarity=0.486  Sum_probs=40.0

Q ss_pred             CHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             56561092999999999998288981663117989888999999999981
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      -|.||+||+.+++.|--+...|   |.+||+||||+||+.+|.++.. ||
T Consensus       177 D~~DV~GQ~~AKrAleiAAAGg---HnLl~~GpPGtGKTmla~Rl~~-lL  222 (490)
T COG0606         177 DFKDVKGQEQAKRALEIAAAGG---HNLLLVGPPGTGKTMLASRLPG-LL  222 (490)
T ss_pred             CHHHHCCCHHHHHHHHHHHHCC---CCEEEECCCCCCHHHHHHHHHC-CC
T ss_conf             6666438499999999998438---8678756998865676423102-59


No 164
>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=97.58  E-value=0.00022  Score=54.90  Aligned_cols=184  Identities=17%  Similarity=0.151  Sum_probs=112.6

Q ss_pred             CHHHHCCHHHHHHHHHHHHHCC------------CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCC
Q ss_conf             5656109299999999999828------------8981663117989888999999999981779988643121012678
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYYCSG------------RMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPC   77 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~~~~------------~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~   77 (347)
                      +|.+|=|-+.+.+.+..++.--            .-|-+.|+|||||+|||.+|.++|.......       -.      
T Consensus       120 ~y~diGGL~~Q~~E~~E~v~LPlk~PeLF~~vGI~PPKGvLLyGPPGtGKTLlAKAvA~et~ATF-------Ir------  186 (364)
T TIGR01242       120 SYEDIGGLEKQIREIREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATF-------IR------  186 (364)
T ss_pred             EEECCCCHHHHHHHHHHHHHCCCCCCHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHCCCCCEE-------EE------
T ss_conf             34026787899999988873468883167762889898657007579768899998631455126-------88------


Q ss_pred             CHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC-----------HHH
Q ss_conf             867999967898754530010001013421232378875544310222111121035322055424-----------000
Q gi|254780217|r   78 SPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMN-----------RNA  146 (347)
Q Consensus        78 ~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln-----------~~A  146 (347)
                                      ++..+.-.|      -|+ |-.|-+.+-|.+.- +-.--|++||++|...           .+-
T Consensus       187 ----------------vVgSElV~K------yIG-EGArLV~~~F~LAk-EKaPsIiFIDEiDAiaakR~~~~TsGdREV  242 (364)
T TIGR01242       187 ----------------VVGSELVRK------YIG-EGARLVREVFELAK-EKAPSIIFIDEIDAIAAKRVDSSTSGDREV  242 (364)
T ss_pred             ----------------EEHHHHHHH------HHC-CHHHHHHHHHHHHH-CCCCCEEEEECHHHHHHHHCCCCCCCCHHH
T ss_conf             ----------------604444444------413-31689999999853-069816861013335432114677873157


Q ss_pred             HHHHHHHHH-----HCCCCCCEEEEECCCCCCCHHHHC--EE-EEEECCCCCHHHHHHHHHHH---CCCCCHHHHHHHHH
Q ss_conf             145677766-----303434167650443357302520--36-98864799989999999972---78889678999999
Q gi|254780217|r  147 ANALLKSLE-----EPPQKVLFILISHASPTILSTIRS--RC-LSIKFNSLSENNLYKALEQL---KIMGWDSKRDFVKI  215 (347)
Q Consensus       147 aNALLK~LE-----EPp~~t~fiLit~~~~~il~TI~S--Rc-~~i~f~~l~~~~~~~~L~~~---~~~~~~~~~~~~~~  215 (347)
                      |-.|+-.|=     +|-.|+.+|=.||.++-|-|.|+-  |. +.+-++-|+.+=-.++|+-.   -.-..+-.+..++.
T Consensus       243 ~RTlmQLLAElDGFd~rg~VkviaATNR~DilDPA~LRPGRFDR~IEVPlP~~~GR~eIlkiHTr~~~la~dVdl~~~A~  322 (364)
T TIGR01242       243 QRTLMQLLAELDGFDPRGNVKVIAATNRPDILDPAILRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVDLEAIAK  322 (364)
T ss_pred             HHHHHHHHHHHCCCCCCCCEEEEEECCCCHHCCCCCCCCCCCCCEEECCCCCCCCHHHHHHHHHCCCCCCCCCCHHHHHH
T ss_conf             88999999752488876761688720762020432148886132573169783220566555210000123568799998


Q ss_pred             HCCCCHHHHHHHHCC
Q ss_conf             759897899988145
Q gi|254780217|r  216 AAYGSVARAIKILHY  230 (347)
Q Consensus       216 ~s~Gs~~~A~~ll~~  230 (347)
                      +++|..|.-++-+-.
T Consensus       323 ~TeG~sGAdlKAi~t  337 (364)
T TIGR01242       323 LTEGASGADLKAICT  337 (364)
T ss_pred             HHCCCCCCHHHHHHH
T ss_conf             747886630423434


No 165
>KOG0737 consensus
Probab=97.55  E-value=0.0012  Score=49.09  Aligned_cols=191  Identities=15%  Similarity=0.080  Sum_probs=101.0

Q ss_pred             CHHHHCCHHHHHHHHHHHHH----------CCC---CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCC--CHHHCCC
Q ss_conf             56561092999999999998----------288---98166311798988899999999998177998864--3121012
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYYC----------SGR---MHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKA--PVRMCNP   74 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~~----------~~~---l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~--~~~~~~~   74 (347)
                      +|++|=|-+.+++.|....-          .++   -|-++|++||||+||+.+|.+.|+.--+....-..  ..+..-.
T Consensus        90 ~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga~fInv~~s~lt~KWfg  169 (386)
T KOG0737          90 SFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGANFINVSVSNLTSKWFG  169 (386)
T ss_pred             EHHHCCCHHHHHHHHHHHHHHCCCCHHHHCCCCCCCCCCCCEECCCCCCHHHHHHHHHHHHCCCCCCEEECCCCCHHHHH
T ss_conf             02413352899999998775201246664145314686430511899821889999999872797100013655326677


Q ss_pred             CCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHH
Q ss_conf             67886799996789875453001000101342123237887554431022211112103532205542400014567776
Q gi|254780217|r   75 DPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSL  154 (347)
Q Consensus        75 ~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~L  154 (347)
                          ..-+...+     ++.+.      .+-....|-||+|-....+=..+-++    ..=+.-++-|..  ..   +..
T Consensus       170 ----E~eKlv~A-----vFslA------sKl~P~iIFIDEvds~L~~R~s~dHE----a~a~mK~eFM~~--WD---Gl~  225 (386)
T KOG0737         170 ----EAQKLVKA-----VFSLA------SKLQPSIIFIDEVDSFLGQRRSTDHE----ATAMMKNEFMAL--WD---GLS  225 (386)
T ss_pred             ----HHHHHHHH-----HHHHH------HHCCCCEEEHHHHHHHHHHCCCCHHH----HHHHHHHHHHHH--HC---CCC
T ss_conf             ----78889999-----98206------53486156566588898640464279----999999999998--61---646


Q ss_pred             HHCCCCCCEEEEECCCCCCCHHHHCE-EEEEECCCCCHHHHHHHHHHH----CCCCCHHHHHHHHHHCCCCHHHHH
Q ss_conf             63034341676504433573025203-698864799989999999972----788896789999997598978999
Q gi|254780217|r  155 EEPPQKVLFILISHASPTILSTIRSR-CLSIKFNSLSENNLYKALEQL----KIMGWDSKRDFVKIAAYGSVARAI  225 (347)
Q Consensus       155 EEPp~~t~fiLit~~~~~il~TI~SR-c~~i~f~~l~~~~~~~~L~~~----~~~~~~~~~~~~~~~s~Gs~~~A~  225 (347)
                      -.+....+.+=.||.|..+-..|.+| |++|.+.-|+..+-.++|+-.    ..+ ++-+...++..++|=-|.-+
T Consensus       226 s~~~~rVlVlgATNRP~DlDeAiiRR~p~rf~V~lP~~~qR~kILkviLk~e~~e-~~vD~~~iA~~t~GySGSDL  300 (386)
T KOG0737         226 SKDSERVLVLGATNRPFDLDEAIIRRLPRRFHVGLPDAEQRRKILKVILKKEKLE-DDVDLDEIAQMTEGYSGSDL  300 (386)
T ss_pred             CCCCCEEEEEECCCCCCCHHHHHHHHCCCEEEECCCCHHHHHHHHHHHHCCCCCC-CCCCHHHHHHHCCCCCHHHH
T ss_conf             7887159997079998437899998476436537984444999999994243468-77698888876089867789


No 166
>pfam03266 DUF265 Protein of unknown function, DUF265.
Probab=97.51  E-value=0.00026  Score=54.35  Aligned_cols=149  Identities=18%  Similarity=0.250  Sum_probs=75.0

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCC---HH---HHHHHCCCCCCEEEECCCCHHHCCCCCCCC
Q ss_conf             631179898889999999999817799886431210126788---67---999967898754530010001013421232
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCS---PF---VKQMASHALHDFLYLSYSLNPKTGKWRTVI  110 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~---~~---~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I  110 (347)
                      ++++|+||+||+|+...++..+-...   ...||........   +.   +.-+.+|..--+-.++.....+-++.  .+
T Consensus         2 i~ITG~pGvGKTTli~kv~~~l~~~~---~~v~GF~T~evre~g~R~GF~iv~l~~g~~~~la~~~~~~~~~vGky--~v   76 (168)
T pfam03266         2 IFITGPPGVGKTTLVKKVIELLKSEG---VKVGGFYTPEVREGGRRIGFDIVDLASGERGPLARVGGVSGPRVGKY--VV   76 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCC---CEEEEEEECCEECCCCEEEEEEEECCCCCEEEEEEECCCCCCCCCCC--EE
T ss_conf             89978999889999999999998679---70748993021258937899999904782677444068877545771--66


Q ss_pred             CHHHHHHH-HHHCCCCCCCCCCHHHHHHHHHHCCHHH---HHHHHHHHHHCCCCCCEEEEECC--CCCCCHHHHCE--EE
Q ss_conf             37887554-4310222111121035322055424000---14567776630343416765044--33573025203--69
Q gi|254780217|r  111 TVDEIRRI-RYFLSLTANTGYWRVIMIDPVDGMNRNA---ANALLKSLEEPPQKVLFILISHA--SPTILSTIRSR--CL  182 (347)
Q Consensus       111 ~vd~IR~l-~~~~~~~~~~~~~Ki~IId~ad~ln~~A---aNALLK~LEEPp~~t~fiLit~~--~~~il~TI~SR--c~  182 (347)
                      .++..-.+ ..-+...  .....++|||++-.|-..|   ..++.+.|+-   ++..+.+-+.  ...++..|+.|  +.
T Consensus        77 ~~~~fe~~~~~~L~~a--~~~~dlivIDEIG~mEl~s~~F~~~v~~~l~~---~~~vl~ti~~~~~~~~v~~i~~~~d~~  151 (168)
T pfam03266        77 NLEEFEEIALPALRRA--LEEADLIIIDEIGPMELKSPKFREAIEEVLSS---NKPVLAVVHRRSDSPLVERIRRRPDVK  151 (168)
T ss_pred             CHHHHHHHHHHHHHHC--CCCCCEEEEECCCHHHHHHHHHHHHHHHHHCC---CCCEEEEEEECCCCHHHHHHHCCCCCE
T ss_conf             6899999999999840--66898999976314533149999999999669---997999997258983899974179938


Q ss_pred             EEECCCCCHHHHH
Q ss_conf             8864799989999
Q gi|254780217|r  183 SIKFNSLSENNLY  195 (347)
Q Consensus       183 ~i~f~~l~~~~~~  195 (347)
                      .+.+.+-+.+.+.
T Consensus       152 i~~vt~~NRd~l~  164 (168)
T pfam03266       152 IFVVTEENRDALP  164 (168)
T ss_pred             EEEECHHHHHHHH
T ss_conf             9997868866446


No 167
>KOG0732 consensus
Probab=97.50  E-value=0.0028  Score=46.09  Aligned_cols=189  Identities=16%  Similarity=0.100  Sum_probs=107.6

Q ss_pred             CCCHHHHCCHHHHHHHHHHHHHCC------------CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCC
Q ss_conf             875656109299999999999828------------89816631179898889999999999817799886431210126
Q gi|254780217|r    8 PVYNQRLFGHEDIEKFLSQYYCSG------------RMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPD   75 (347)
Q Consensus         8 p~~~~~i~G~~~~~~~L~~~~~~~------------~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~   75 (347)
                      =..|++|-|-++.++.|++..-.-            .-|.+.|||||||.||+..|+++|...-...  .....      
T Consensus       261 ~v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araLa~~~s~~~--~kisf------  332 (1080)
T KOG0732         261 SVGFDSVGGLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARALAAACSRGN--RKISF------  332 (1080)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEECCCCCCCHHHHHHHHHHHHCCCC--CCCCH------
T ss_conf             3686333457888999999887676405676412668986323028998725688886665405411--02024------


Q ss_pred             CCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC-----------H
Q ss_conf             78867999967898754530010001013421232378875544310222111121035322055424-----------0
Q gi|254780217|r   76 PCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMN-----------R  144 (347)
Q Consensus        76 ~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln-----------~  144 (347)
                             .+  -.+.|.+-.   |....        =.|.|.+=..+..+    ..-|+..|++|-+-           .
T Consensus       333 -------fm--rkgaD~lsk---wvgEa--------ERqlrllFeeA~k~----qPSIIffdeIdGlapvrSskqEqih~  388 (1080)
T KOG0732         333 -------FM--RKGADCLSK---WVGEA--------ERQLRLLFEEAQKT----QPSIIFFDEIDGLAPVRSSKQEQIHA  388 (1080)
T ss_pred             -------HH--HCCCHHHCC---CCCCH--------HHHHHHHHHHHHCC----CCEEEECCCCCCCCCCCCCHHHHHHH
T ss_conf             -------43--148443325---44757--------78899889887444----85177305556646565366777445


Q ss_pred             HHHHHHHHHHHHCCCCCCEE--EEECCCCCCCHHHHCEE---EEEECCCCCHHHHHHHHHHH----CCCCCHHHHHHHHH
Q ss_conf             00145677766303434167--65044335730252036---98864799989999999972----78889678999999
Q gi|254780217|r  145 NAANALLKSLEEPPQKVLFI--LISHASPTILSTIRSRC---LSIKFNSLSENNLYKALEQL----KIMGWDSKRDFVKI  215 (347)
Q Consensus       145 ~AaNALLK~LEEPp~~t~fi--Lit~~~~~il~TI~SRc---~~i~f~~l~~~~~~~~L~~~----~~~~~~~~~~~~~~  215 (347)
                      +---.||-.|---+...-.+  =.|+.++.+-|..|-+-   +.|+|+-++.+.-.+++.-.    ..........+++.
T Consensus       389 SIvSTLLaLmdGldsRgqVvvigATnRpda~dpaLRRPgrfdref~f~lp~~~ar~~Il~Ihtrkw~~~i~~~l~~~la~  468 (1080)
T KOG0732         389 SIVSTLLALMDGLDSRGQVVVIGATNRPDAIDPALRRPGRFDREFYFPLPDVDARAKILDIHTRKWEPPISRELLLWLAE  468 (1080)
T ss_pred             HHHHHHHHHCCCCCCCCCEEEECCCCCCCCCCHHHCCCCCCCEEEEEECCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHH
T ss_conf             67777887604777778658971567833246544288666525750378667888999875157778877789999988


Q ss_pred             HCCCCHHHHHHHH
Q ss_conf             7598978999881
Q gi|254780217|r  216 AAYGSVARAIKIL  228 (347)
Q Consensus       216 ~s~Gs~~~A~~ll  228 (347)
                      .+.|=.|.-++.+
T Consensus       469 ~t~gy~gaDlkaL  481 (1080)
T KOG0732         469 ETSGYGGADLKAL  481 (1080)
T ss_pred             HCCCCCHHHHHHH
T ss_conf             6234005789988


No 168
>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=97.48  E-value=0.0028  Score=46.06  Aligned_cols=182  Identities=18%  Similarity=0.124  Sum_probs=110.4

Q ss_pred             CCHHHHCCHHHHHHHHHHHHHC------------CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCC
Q ss_conf             7565610929999999999982------------8898166311798988899999999998177998864312101267
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYCS------------GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP   76 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~~------------~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~   76 (347)
                      ..|+++=|-+++++.|..+..-            -+.|.+.|++||||+||+.+|.+.|..--.+.-             
T Consensus       538 v~W~diGGlee~kq~lreaveWPlk~~~~f~k~G~~PP~Gvll~GPPGtGktllakava~es~anfi-------------  604 (980)
T TIGR01243       538 VKWEDIGGLEEVKQELREAVEWPLKAPEVFEKLGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFI-------------  604 (980)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHCCCCCEE-------------
T ss_conf             1100146678999999877523444058998607889973487468986168888877401456467-------------


Q ss_pred             CCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC-------------
Q ss_conf             8867999967898754530010001013421232378875544310222111121035322055424-------------
Q gi|254780217|r   77 CSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMN-------------  143 (347)
Q Consensus        77 ~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln-------------  143 (347)
                               +-.-|.++   ..|-..        +-..||++-+...    .+.--|+++|++|.+.             
T Consensus       605 ---------~v~GPe~l---skWvGe--------se~~ir~if~~ar----q~aP~~~f~deidaiaP~rG~~~~~~~vt  660 (980)
T TIGR01243       605 ---------AVRGPEIL---SKWVGE--------SEKAIREIFRKAR----QAAPAIIFFDEIDAIAPARGASLDEKGVT  660 (980)
T ss_pred             ---------EECCCHHH---HHHHCH--------HHHHHHHHHHHHH----HCCCEEEEEECHHHHCCCCCCCCCCCCHH
T ss_conf             ---------74073122---344032--------4799999999864----12873787302111054124421001026


Q ss_pred             HHHHHHHHHHHH--HCCCCCCEEEEECCCCCCCHHHHC--EEEE-EECCCCCHHHHHHHHHH---HCCCCCHHHHHHHHH
Q ss_conf             000145677766--303434167650443357302520--3698-86479998999999997---278889678999999
Q gi|254780217|r  144 RNAANALLKSLE--EPPQKVLFILISHASPTILSTIRS--RCLS-IKFNSLSENNLYKALEQ---LKIMGWDSKRDFVKI  215 (347)
Q Consensus       144 ~~AaNALLK~LE--EPp~~t~fiLit~~~~~il~TI~S--Rc~~-i~f~~l~~~~~~~~L~~---~~~~~~~~~~~~~~~  215 (347)
                      ..--|-||--|.  +++++++.|-.|+.|+-+-|.+.-  |.-+ +.+++|+++.-.++++-   .-....+-.+..++.
T Consensus       661 d~~~nqll~e~dG~~~~~~vvvi~atnrPdi~dPallrPGr~dr~i~vP~Pd~~ar~~ifk~ht~~~~l~~dv~l~~la~  740 (980)
T TIGR01243       661 DRIVNQLLTELDGLEELSDVVVIAATNRPDILDPALLRPGRLDRLILVPAPDEEARLEIFKIHTRSMPLAEDVDLEELAK  740 (980)
T ss_pred             HHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHH
T ss_conf             89999999864044343665898615887423610048874121686059855676767655311135301343899986


Q ss_pred             HCCCCHHHHHHH
Q ss_conf             759897899988
Q gi|254780217|r  216 AAYGSVARAIKI  227 (347)
Q Consensus       216 ~s~Gs~~~A~~l  227 (347)
                      .+.|--|.-+..
T Consensus       741 ~teGytGadi~a  752 (980)
T TIGR01243       741 KTEGYTGADIEA  752 (980)
T ss_pred             HHCCCCCHHHHH
T ss_conf             516876322999


No 169
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=97.48  E-value=0.00048  Score=52.22  Aligned_cols=132  Identities=16%  Similarity=0.187  Sum_probs=69.2

Q ss_pred             HHHHCCHHHHHHHHHHHHHC-CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHH--HCCCCCCCHHHHHHHCC
Q ss_conf             65610929999999999982-8898166311798988899999999998177998864312--10126788679999678
Q gi|254780217|r   11 NQRLFGHEDIEKFLSQYYCS-GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVR--MCNPDPCSPFVKQMASH   87 (347)
Q Consensus        11 ~~~i~G~~~~~~~L~~~~~~-~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~--~~~~~~~~~~~~~i~~~   87 (347)
                      -+++||+-.+.+.+...+.. .+-...+|++|.+|+||..+|+++-.    ...-...|.-  .|..-+.    ..+++ 
T Consensus         5 ~~~liG~S~~m~~v~~~~~~~A~~~~pVLI~GE~GtGK~~~Ar~IH~----~S~r~~~pfi~v~C~~l~~----~~~e~-   75 (325)
T PRK11608          5 KDNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHY----LSSRWQGPFISLNCAALNE----NLLDS-   75 (325)
T ss_pred             CCCCEECCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHH----CCCCCCCCCEEEECCCCCH----HHHHH-
T ss_conf             89985899999999999999968899989889898379999999996----5886799977887798997----78899-


Q ss_pred             CCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHC----------
Q ss_conf             9875453001000101342123237887554431022211112103532205542400014567776630----------
Q gi|254780217|r   88 ALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEP----------  157 (347)
Q Consensus        88 ~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEP----------  157 (347)
                           ..+..   ++ +..   .+..  ..-...+..  ..|+  .+++++++.|....|..||+.||+-          
T Consensus        76 -----~LFG~---~~-g~~---~~~~--~~~~g~le~--a~gG--TL~L~eI~~l~~~~Q~~Ll~~l~~~~~~r~g~~~~  137 (325)
T PRK11608         76 -----ELFGH---EA-GAF---TGAQ--KRHPGRFER--ADGG--TLFLDELATAPMLVQEKLLRVIEYGELERVGGSQP  137 (325)
T ss_pred             -----HHCCC---CC-CCC---CCCC--CCCCCHHHC--CCCC--EEEEECHHHCCHHHHHHHHHHHHCCCEEECCCCCC
T ss_conf             -----87277---55-676---7753--246873435--6898--69973745479999999999986490885799876


Q ss_pred             -CCCCCEEEEECC
Q ss_conf             -343416765044
Q gi|254780217|r  158 -PQKVLFILISHA  169 (347)
Q Consensus       158 -p~~t~fiLit~~  169 (347)
                       +-++.+|-+|+.
T Consensus       138 ~~~~~RiIa~t~~  150 (325)
T PRK11608        138 LQVNVRLVCATNA  150 (325)
T ss_pred             CCCCEEEEECCCH
T ss_conf             6564688713322


No 170
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=97.47  E-value=0.00085  Score=50.22  Aligned_cols=127  Identities=17%  Similarity=0.240  Sum_probs=73.7

Q ss_pred             CCHHHHCCHHHHHHHHHHHHHC-CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHH--CCCCCCCHHHHHHH
Q ss_conf             7565610929999999999982-88981663117989888999999999981779988643121--01267886799996
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYCS-GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRM--CNPDPCSPFVKQMA   85 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~~-~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~--~~~~~~~~~~~~i~   85 (347)
                      .+|++|+|+-.+.+.+....+. .......|++|..|+||..+|+++=.    ...-...|.-.  |..-+..    .++
T Consensus       201 ~~F~~iig~S~~m~~v~~~a~r~A~~d~pVLI~GEsGTGKellAraIH~----~S~R~~~pFv~vnC~alp~~----l~e  272 (513)
T PRK10820        201 SAFSQIVAVSPKMKHVVEQARKLAMLSAPLLITGDTGTGKDLFAYACHL----ASPRAKKPYLALNCASIPED----AVE  272 (513)
T ss_pred             CCHHHHEECCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHH----CCCCCCCCCEEEECCCCCHH----HHH
T ss_conf             6877751089999999999999859899889989898249999999996----68878998268889989967----899


Q ss_pred             CCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHC--------
Q ss_conf             789875453001000101342123237887554431022211112103532205542400014567776630--------
Q gi|254780217|r   86 SHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEP--------  157 (347)
Q Consensus        86 ~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEP--------  157 (347)
                      +.      .+......+.                ..+.  ...|+  .+++|+++.|..+.|-.||+.|||-        
T Consensus       273 se------LFG~a~~~~~----------------G~fe--~A~gG--TLfLdEI~~l~~~~Q~kLLr~Lq~~~~~rvG~~  326 (513)
T PRK10820        273 SE------LFGHAPEGKK----------------GFFE--QANGG--SVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGED  326 (513)
T ss_pred             HH------HCCCCCCCCC----------------CCEE--ECCCC--EEEEECHHHCCHHHHHHHHHHHHCCEEEECCCC
T ss_conf             98------6387666889----------------7557--85898--899978365999999999999868979965998


Q ss_pred             ---CCCCCEEEEECC
Q ss_conf             ---343416765044
Q gi|254780217|r  158 ---PQKVLFILISHA  169 (347)
Q Consensus       158 ---p~~t~fiLit~~  169 (347)
                         |-++.+|-.|+.
T Consensus       327 ~~~~~dvRiIaaT~~  341 (513)
T PRK10820        327 HEVHVDVRVICATQK  341 (513)
T ss_pred             CEEEEEEEEEECCCH
T ss_conf             535677899962653


No 171
>KOG0735 consensus
Probab=97.47  E-value=0.0016  Score=47.97  Aligned_cols=157  Identities=17%  Similarity=0.116  Sum_probs=83.9

Q ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCC
Q ss_conf             88981663117989888999999999981779988643121012678867999967898754530010001013421232
Q gi|254780217|r   31 GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVI  110 (347)
Q Consensus        31 ~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I  110 (347)
                      .-.|.++|++||+|+||+.+|.+++.+.-- ..   . |                     -+.+++-+.-    . +  =
T Consensus       428 v~~~~~Ill~G~~GsGKT~L~kal~~~~~k-~~---~-~---------------------hv~~v~Cs~l----~-~--~  474 (952)
T KOG0735         428 VFRHGNILLNGPKGSGKTNLVKALFDYYSK-DL---I-A---------------------HVEIVSCSTL----D-G--S  474 (952)
T ss_pred             CCCCCCEEEECCCCCCHHHHHHHHHHHHCC-CC---C-E---------------------EEEEEECHHC----C-C--H
T ss_conf             334661898679987776999999987515-65---0-6---------------------9999752210----4-2--0


Q ss_pred             CHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-----HH-----H---HHHH----HHHHHCCCCCCEEEEECCCCCC
Q ss_conf             3788755443102221111210353220554240-----00-----1---4567----7766303434167650443357
Q gi|254780217|r  111 TVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR-----NA-----A---NALL----KSLEEPPQKVLFILISHASPTI  173 (347)
Q Consensus       111 ~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-----~A-----a---NALL----K~LEEPp~~t~fiLit~~~~~i  173 (347)
                      +.+.|....+-.-.....-.--|+++|+.|.+-.     ++     .   +++|    |.-=+-.....||........+
T Consensus       475 ~~e~iQk~l~~vfse~~~~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl  554 (952)
T KOG0735         475 SLEKIQKFLNNVFSEALWYAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTL  554 (952)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCEEEECCHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEEEEECHHHHHC
T ss_conf             48999999999999988637808997050354056844477302899999999999999987068579999851434203


Q ss_pred             CHHHHCEE---EEEECCCCCHHHHHHHHHHH----CCCCCHHHHHHHHHHCCCC
Q ss_conf             30252036---98864799989999999972----7888967899999975989
Q gi|254780217|r  174 LSTIRSRC---LSIKFNSLSENNLYKALEQL----KIMGWDSKRDFVKIAAYGS  220 (347)
Q Consensus       174 l~TI~SRc---~~i~f~~l~~~~~~~~L~~~----~~~~~~~~~~~~~~~s~Gs  220 (347)
                      .|++-|--   ..+++++|...+-.++|...    ........+++++..++|=
T Consensus       555 ~~~L~s~~~Fq~~~~L~ap~~~~R~~IL~~~~s~~~~~~~~~dLd~ls~~TEGy  608 (952)
T KOG0735         555 NPLLVSPLLFQIVIALPAPAVTRRKEILTTIFSKNLSDITMDDLDFLSVKTEGY  608 (952)
T ss_pred             CHHHCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             853347631478881589235679999999997553454567899888760784


No 172
>KOG0736 consensus
Probab=97.47  E-value=0.0056  Score=43.62  Aligned_cols=188  Identities=16%  Similarity=0.136  Sum_probs=97.7

Q ss_pred             CHHHHCCHHHHHHHHHHHHHCCC--------CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH-
Q ss_conf             56561092999999999998288--------981663117989888999999999981779988643121012678867-
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYYCSGR--------MHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF-   80 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~~~~~--------l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~-   80 (347)
                      +|-...+++..+..+.+.+....        +.-+.|++|++|+||+++.+.+|+.+=-+  .-..+|.+..+...+.. 
T Consensus       399 n~~~~~~~~~~~~~l~~vl~p~~~~s~~~~~~~~~vLLhG~~g~GK~t~V~~vas~lg~h--~~evdc~el~~~s~~~~e  476 (953)
T KOG0736         399 NSLSPPGLEAKVLELVAVLSPQKQPSGALLTLNPSVLLHGPPGSGKTTVVRAVASELGLH--LLEVDCYELVAESASHTE  476 (953)
T ss_pred             CCCCCCCCHHHHHHHHHHHCCCCCCCHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCC--EEECCHHHHHHCCCCHHH
T ss_conf             158876602799999998486558530013355379986799987579999999983872--570138988643633137


Q ss_pred             HHH-----HHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-HHHHHHHHHH
Q ss_conf             999-----9678987545300100010134212323788755443102221111210353220554240-0014567776
Q gi|254780217|r   81 VKQ-----MASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR-NAANALLKSL  154 (347)
Q Consensus        81 ~~~-----i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-~AaNALLK~L  154 (347)
                      .++     ...-..|-++++.. .        ..++||+             +|         .+.... ++-+-+|- +
T Consensus       477 tkl~~~f~~a~~~~pavifl~~-~--------dvl~id~-------------dg---------ged~rl~~~i~~~ls-~  524 (953)
T KOG0736         477 TKLQAIFSRARRCSPAVLFLRN-L--------DVLGIDQ-------------DG---------GEDARLLKVIRHLLS-N  524 (953)
T ss_pred             HHHHHHHHHHHHCCCEEEEEEC-C--------CEEEECC-------------CC---------CHHHHHHHHHHHHHH-C
T ss_conf             8999999987526862898722-4--------2455337-------------77---------442779999999972-0


Q ss_pred             HHCC---CCCCEEEEECCCCCCCHHHHCEE-EEEECCCCCHHHHHHHHHHHC----CCCCHHHHHHHHHHCCCCHHHHHH
Q ss_conf             6303---43416765044335730252036-988647999899999999727----888967899999975989789998
Q gi|254780217|r  155 EEPP---QKVLFILISHASPTILSTIRSRC-LSIKFNSLSENNLYKALEQLK----IMGWDSKRDFVKIAAYGSVARAIK  226 (347)
Q Consensus       155 EEPp---~~t~fiLit~~~~~il~TI~SRc-~~i~f~~l~~~~~~~~L~~~~----~~~~~~~~~~~~~~s~Gs~~~A~~  226 (347)
                      |.++   ..++|+-.|++.+.++++|+|-. ..+.+..+++++-.+||+-..    .+........+...+.-+++....
T Consensus       525 e~~~~~~~~~ivv~t~~s~~~lp~~i~~~f~~ei~~~~lse~qRl~iLq~y~~~~~~n~~v~~k~~a~~t~gfs~~~L~~  604 (953)
T KOG0736         525 EDFKFSCPPVIVVATTSSIEDLPADIQSLFLHEIEVPALSEEQRLEILQWYLNHLPLNQDVNLKQLARKTSGFSFGDLEA  604 (953)
T ss_pred             CCCCCCCCCEEEEEECCCCCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCHHHHHH
T ss_conf             23567799659999625302398789875265213778887889999999983065235778789998658987777997


Q ss_pred             HHCCC
Q ss_conf             81457
Q gi|254780217|r  227 ILHYD  231 (347)
Q Consensus       227 ll~~~  231 (347)
                      +....
T Consensus       605 l~~~~  609 (953)
T KOG0736         605 LVAHS  609 (953)
T ss_pred             HHCCC
T ss_conf             71475


No 173
>KOG0741 consensus
Probab=97.47  E-value=0.00019  Score=55.39  Aligned_cols=132  Identities=17%  Similarity=0.301  Sum_probs=73.9

Q ss_pred             HHHHHHHCCCCC------------EEEEECCCCCCCHHHHHHHHHHHHHCC-CCCCCCCHHHCCCCCCCHHHHHHHCCCC
Q ss_conf             999999828898------------166311798988899999999998177-9988643121012678867999967898
Q gi|254780217|r   23 FLSQYYCSGRMH------------HALLFEGEQGIGKATLGFRYAGHVLQN-PDFSKAPVRMCNPDPCSPFVKQMASHAL   89 (347)
Q Consensus        23 ~L~~~~~~~~l~------------ha~Lf~Gp~GiGK~~~A~~~A~~llc~-~~~~~~~~~~~~~~~~~~~~~~i~~~~h   89 (347)
                      .+.+++.+.-+|            -++|+|||||+||+.+|+.+.+.|+.. +..-++|.-..          +.-..+ 
T Consensus       233 IFRRAFAsRvFpp~vie~lGi~HVKGiLLyGPPGTGKTLiARqIGkMLNArePKIVNGPeIL~----------KYVGeS-  301 (744)
T KOG0741         233 IFRRAFASRVFPPEVIEQLGIKHVKGILLYGPPGTGKTLIARQIGKMLNAREPKIVNGPEILN----------KYVGES-  301 (744)
T ss_pred             HHHHHHHHHCCCHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHH----------HHHCCC-
T ss_conf             999987763299889987195112357887799987018999987874579986347578898----------760630-


Q ss_pred             CCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCC----CCCCCCCCHHHHHHHHHHCC-------------HHHHHHHHH
Q ss_conf             7545300100010134212323788755443102----22111121035322055424-------------000145677
Q gi|254780217|r   90 HDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLS----LTANTGYWRVIMIDPVDGMN-------------RNAANALLK  152 (347)
Q Consensus        90 pd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~----~~~~~~~~Ki~IId~ad~ln-------------~~AaNALLK  152 (347)
                                            =+.||.|-....    ....+++--|+|.|++|..-             .+--|-||-
T Consensus       302 ----------------------E~NvR~LFaDAEeE~r~~g~~SgLHIIIFDEiDAICKqRGS~~g~TGVhD~VVNQLLs  359 (744)
T KOG0741         302 ----------------------EENVRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRGSMAGSTGVHDTVVNQLLS  359 (744)
T ss_pred             ----------------------HHHHHHHHHHHHHHHHHHCCCCCCEEEEEHHHHHHHHHCCCCCCCCCCCHHHHHHHHH
T ss_conf             ----------------------7889999875799998437667725999634679997448878988631899999998


Q ss_pred             HHH--HCCCCCCEEEEECCCCCC-----------------CHHHHCEEEEEECC
Q ss_conf             766--303434167650443357-----------------30252036988647
Q gi|254780217|r  153 SLE--EPPQKVLFILISHASPTI-----------------LSTIRSRCLSIKFN  187 (347)
Q Consensus       153 ~LE--EPp~~t~fiLit~~~~~i-----------------l~TI~SRc~~i~f~  187 (347)
                      -+.  |-=.|.+.|=-|+..+-|                 ||-=.+|.|.++++
T Consensus       360 KmDGVeqLNNILVIGMTNR~DlIDEALLRPGRlEVqmEIsLPDE~gRlQIl~IH  413 (744)
T KOG0741         360 KMDGVEQLNNILVIGMTNRKDLIDEALLRPGRLEVQMEISLPDEKGRLQILKIH  413 (744)
T ss_pred             HCCCHHHHHCEEEEECCCCHHHHHHHHCCCCCEEEEEEEECCCCCCCEEEEEHH
T ss_conf             532287661678994047366678875588716999998468876727888714


No 174
>PRK09862 putative ATP-dependent protease; Provisional
Probab=97.41  E-value=0.00023  Score=54.78  Aligned_cols=125  Identities=18%  Similarity=0.148  Sum_probs=70.0

Q ss_pred             CHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHH--CC
Q ss_conf             5656109299999999999828898166311798988899999999998177998864312101267886799996--78
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMA--SH   87 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~--~~   87 (347)
                      -|++|.||+.+++-|.-+...  . |.+|+.||||+||+.+|.++.. ||-.  .+....-+         ...|.  +|
T Consensus       189 D~~dv~Gq~~akraleIAAAG--g-HnlLl~GpPG~GKTMlA~rlp~-ILPp--Lt~~e~lE---------v~~I~Svag  253 (506)
T PRK09862        189 DLSDVVGQEQGKRGLEITAAG--G-HNLLLIGPPGTGKTMLASRING-LLPD--LSNEEALE---------SAAILSLVN  253 (506)
T ss_pred             CHHHHCCCHHHHHHHHHHHCC--C-CCEEEECCCCCCHHHHHHHHHH-CCCC--CCHHHHHH---------HHHHHHHHC
T ss_conf             756536979999999997446--8-8659876999459899977512-3899--89899999---------999998718


Q ss_pred             CCCCEEEE-CCCCHHHCCCCCCCCCHHHHHHHHHH-CCCCCC---CCCCHHHHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf             98754530-01000101342123237887554431-022211---11210353220554240001456777663
Q gi|254780217|r   88 ALHDFLYL-SYSLNPKTGKWRTVITVDEIRRIRYF-LSLTAN---TGYWRVIMIDPVDGMNRNAANALLKSLEE  156 (347)
Q Consensus        88 ~hpd~~~i-~~~~~~k~~~~~~~I~vd~IR~l~~~-~~~~~~---~~~~Ki~IId~ad~ln~~AaNALLK~LEE  156 (347)
                      ..+.--.+ .+++-.    ...+++.-   .++.- ..-+|.   ....=|.++||.-.++.+...+|.--||+
T Consensus       254 ~~~~~~~~~~rPfR~----PHHs~S~~---aliGGG~~~~PGEISLAH~GVLFLDElpEF~r~vLe~LRqPLE~  320 (506)
T PRK09862        254 AESVQKQWRQRPFRS----PHHSASLT---AMVGGGAIPGPGEISLAHNGVLFLDELPEFERRTLDALREPIES  320 (506)
T ss_pred             CCCCCCCCCCCCEEC----CCCCCCHH---HHHCCCCCCCCCCEEECCCCEEEECCHHCCCHHHHHHHHHHHCC
T ss_conf             987777546685037----88765476---66379999999722213575788455000688899987762247


No 175
>PRK07914 hypothetical protein; Reviewed
Probab=97.39  E-value=0.0039  Score=44.92  Aligned_cols=104  Identities=8%  Similarity=0.101  Sum_probs=82.6

Q ss_pred             CCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECC---CCCCCHHHHCE-EEEEECCCC-CHHHHHHHHH
Q ss_conf             211112103532205542400014567776630343416765044---33573025203-698864799-9899999999
Q gi|254780217|r  125 TANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHA---SPTILSTIRSR-CLSIKFNSL-SENNLYKALE  199 (347)
Q Consensus       125 ~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~---~~~il~TI~SR-c~~i~f~~l-~~~~~~~~L~  199 (347)
                      .|..+..|+|+|.+++.++.+....|+.-+.+||+.|..+++.+.   -.+++..++.- ...+.+.++ ...+...|+.
T Consensus        59 pSLFae~RlVvv~~~~~~~~~~~~~l~~yl~~p~~~t~LV~~h~gg~k~Kkl~~~lkk~ga~v~~~~~l~k~~e~~~~v~  138 (320)
T PRK07914         59 PSLFAEERVVVLEAAAEAGKDAVALIESAAADLPAGTVLVVVHSGGGRAKALANQLRKLGAQVHPCARITKASERADFVR  138 (320)
T ss_pred             CCCCCCCEEEEEECCCCCCHHHHHHHHHHHCCCCCCEEEEEEECCCCHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHH
T ss_conf             67668844999836110268899999998529999808999705874046799999976998986556588689999999


Q ss_pred             H----HCCCCCHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             7----2788896789999997598978999881
Q gi|254780217|r  200 Q----LKIMGWDSKRDFVKIAAYGSVARAIKIL  228 (347)
Q Consensus       200 ~----~~~~~~~~~~~~~~~~s~Gs~~~A~~ll  228 (347)
                      +    .+..+++++...+.....++.+....-+
T Consensus       139 ~e~~~~g~~i~~~A~~~Lv~~vG~dl~eLaae~  171 (320)
T PRK07914        139 KEFRSLRVKVDDETVTALLDAVGSDIRELASAC  171 (320)
T ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             999985999999999999999862399999999


No 176
>KOG0729 consensus
Probab=97.38  E-value=0.0016  Score=47.98  Aligned_cols=169  Identities=15%  Similarity=0.167  Sum_probs=97.9

Q ss_pred             CHHHHCCHHHHHHHHHHHHHCC------------CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCC
Q ss_conf             5656109299999999999828------------8981663117989888999999999981779988643121012678
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYYCSG------------RMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPC   77 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~~~~------------~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~   77 (347)
                      ..+++=|-++.++.|......-            ..|.+.|+|||||.||+..|++.|..           .+.|..   
T Consensus       175 TY~DvGGCKeqIEklREVVE~PlL~PErfv~LGIdPPKGvllyGPPGtGKTL~ARAVANR-----------TdAcFI---  240 (435)
T KOG0729         175 TYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANR-----------TDACFI---  240 (435)
T ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHCC-----------CCCEEE---
T ss_conf             303453669999999998843255888887527899873378689998610899987456-----------674587---


Q ss_pred             CHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC-----------HHH
Q ss_conf             867999967898754530010001013421232378875544310222111121035322055424-----------000
Q gi|254780217|r   78 SPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMN-----------RNA  146 (347)
Q Consensus        78 ~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln-----------~~A  146 (347)
                                     -+|..+.-.|--..    +---+|++-+...    ..+-.|+++|++|..-           .+-
T Consensus       241 ---------------RViGSELVQKYvGE----GARMVRElFeMAr----~KKACiiFFDEiDAiGGaRFDDg~ggDNEV  297 (435)
T KOG0729         241 ---------------RVIGSELVQKYVGE----GARMVRELFEMAR----TKKACIIFFDEIDAIGGARFDDGAGGDNEV  297 (435)
T ss_pred             ---------------EEHHHHHHHHHHHH----HHHHHHHHHHHHC----CCCEEEEEEECCCCCCCCCCCCCCCCCHHH
T ss_conf             ---------------63118999998624----6899999999852----365279984101022672035788872799


Q ss_pred             HHHHHHHHH-----HCCCCCCEEEEECCCCCCCHH-----------------HHCEEEEEECCCCCHHHHHHHHHHHCCC
Q ss_conf             145677766-----303434167650443357302-----------------5203698864799989999999972788
Q gi|254780217|r  147 ANALLKSLE-----EPPQKVLFILISHASPTILST-----------------IRSRCLSIKFNSLSENNLYKALEQLKIM  204 (347)
Q Consensus       147 aNALLK~LE-----EPp~~t~fiLit~~~~~il~T-----------------I~SRc~~i~f~~l~~~~~~~~L~~~~~~  204 (347)
                      |-.+|.++-     +|..|...++.|+.|+.+-|.                 +-+|.+.|+++.-+.+          .+
T Consensus       298 QRTMLEli~QLDGFDpRGNIKVlmATNRPdtLDpALlRPGRlDRKVEF~LPDlegR~~I~kIHaksMs----------ve  367 (435)
T KOG0729         298 QRTMLELINQLDGFDPRGNIKVLMATNRPDTLDPALLRPGRLDRKVEFGLPDLEGRTHIFKIHAKSMS----------VE  367 (435)
T ss_pred             HHHHHHHHHHCCCCCCCCCEEEEEECCCCCCCCHHHCCCCCCCCCEECCCCCCCCCCEEEEEECCCCC----------CC
T ss_conf             99999999860377888875898634898876876628764231121058762355125777411144----------23


Q ss_pred             CCHHHHHHHHHHCCCCHHHHHH
Q ss_conf             8967899999975989789998
Q gi|254780217|r  205 GWDSKRDFVKIAAYGSVARAIK  226 (347)
Q Consensus       205 ~~~~~~~~~~~~s~Gs~~~A~~  226 (347)
                       -+-..+.+++++..|-|.-++
T Consensus       368 -rdIR~eLlarLCpnsTGAeiR  388 (435)
T KOG0729         368 -RDIRFELLARLCPNSTGAEIR  388 (435)
T ss_pred             -CCHHHHHHHHHCCCCCCHHHH
T ss_conf             -221699998658897425788


No 177
>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]
Probab=97.36  E-value=0.023  Score=38.71  Aligned_cols=168  Identities=13%  Similarity=0.082  Sum_probs=108.6

Q ss_pred             HHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHH
Q ss_conf             99999982889816631179898889999999999817799886431210126788679999678987545300100010
Q gi|254780217|r   23 FLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPK  102 (347)
Q Consensus        23 ~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k  102 (347)
                      .+...+.+++++..|++||+.=.=....+..+.+...                           ..-.|..++... +. 
T Consensus         5 ~~~~~l~~~~~~~v~ll~G~d~~l~~e~~~~i~~~~~---------------------------~~~~~~~~~~~~-~~-   55 (334)
T COG1466           5 ELAKHLKKKNLMPVYLLYGEDEGLLEEAADAILKRAL---------------------------ADGFDENYSFFD-DS-   55 (334)
T ss_pred             HHHHHHHCCCCCEEEEEECCCHHHHHHHHHHHHHHHH---------------------------HCCCCEEEEECC-CC-
T ss_conf             8999861478751899966864689999999999734---------------------------315661345436-55-


Q ss_pred             CCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC-HHHHHHHHHHHHHCC-CCCCEEEEECCCC---CCCHHH
Q ss_conf             13421232378875544310222111121035322055424-000145677766303-4341676504433---573025
Q gi|254780217|r  103 TGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMN-RNAANALLKSLEEPP-QKVLFILISHASP---TILSTI  177 (347)
Q Consensus       103 ~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln-~~AaNALLK~LEEPp-~~t~fiLit~~~~---~il~TI  177 (347)
                               =.++-.+...+...|..|+.|++.|..++... .+..=++.....+|| ..+++++.++..+   +.-.++
T Consensus        56 ---------~~~~~~~~~~~~s~~lF~~~~~v~l~~~~~~~~~~~~~~l~~~~~~~p~~~~~l~~~~~kl~~~~~~~k~~  126 (334)
T COG1466          56 ---------ELDWADLLSELESPSLFGEKRLVVLKNAEKKPNKDKNLALLELAALLPSTDLLLLVESNKLDKAKKLTKWL  126 (334)
T ss_pred             ---------CCCHHHHHHHHHCCCCCCCCEEEEEECCCCCCCCCHHHHHHHHHCCCCCCCEEEEEECCCCCHHHHHHHHH
T ss_conf             ---------56899999886276877888579987765456642789999985368978689999618875277878988


Q ss_pred             HCE--EEEEECCCCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             203--69886479998999999997----2788896789999997598978999881
Q gi|254780217|r  178 RSR--CLSIKFNSLSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAIKIL  228 (347)
Q Consensus       178 ~SR--c~~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~~ll  228 (347)
                      .+=  +..+.+.++...++.+|+.+    .+..+++++++.+.....|+...+.+-+
T Consensus       127 ~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~l~i~~~a~~~L~~~~~~nl~~i~~Ei  183 (334)
T COG1466         127 KKLAKAVVVECKPLDEAELPQWIKKRAKELGLKIDQEAIQLLLEALGGNLLAIAQEI  183 (334)
T ss_pred             HHHCCCCEEEECCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHH
T ss_conf             874447346625887788999999999991898899999999998588299999999


No 178
>KOG0735 consensus
Probab=97.35  E-value=0.0036  Score=45.17  Aligned_cols=182  Identities=16%  Similarity=0.172  Sum_probs=111.0

Q ss_pred             CCHHHHCCHHHHHHHHHHHHHC------------CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCC
Q ss_conf             7565610929999999999982------------8898166311798988899999999998177998864312101267
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYCS------------GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP   76 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~~------------~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~   76 (347)
                      -.+.+|-|-.++++.|...+.-            =|++-++|+|||||+||+.+|-+.|..  |         +.     
T Consensus       664 i~w~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~--~---------~~-----  727 (952)
T KOG0735         664 IRWEDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASN--S---------NL-----  727 (952)
T ss_pred             CCCEECCCHHHHHHHHHHHHHCCCCCHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHH--C---------CE-----
T ss_conf             7710033589999999999855410367886088666554588779998578888888853--7---------80-----


Q ss_pred             CCHHHHHHHCCCCCCEEEEC-CCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHC-----------CH
Q ss_conf             88679999678987545300-1000101342123237887554431022211112103532205542-----------40
Q gi|254780217|r   77 CSPFVKQMASHALHDFLYLS-YSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGM-----------NR  144 (347)
Q Consensus        77 ~~~~~~~i~~~~hpd~~~i~-~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~l-----------n~  144 (347)
                                    .++-+. ++.-.|  ..+.  +=+.||++-++..    ..+-.|.++|+.|.+           |.
T Consensus       728 --------------~fisvKGPElL~K--yIGa--SEq~vR~lF~rA~----~a~PCiLFFDEfdSiAPkRGhDsTGVTD  785 (952)
T KOG0735         728 --------------RFISVKGPELLSK--YIGA--SEQNVRDLFERAQ----SAKPCILFFDEFDSIAPKRGHDSTGVTD  785 (952)
T ss_pred             --------------EEEEECCHHHHHH--HHCC--CHHHHHHHHHHHH----CCCCEEEEECCCCCCCCCCCCCCCCCHH
T ss_conf             --------------5998258899998--7450--0788999999865----1497489712102437666877777429


Q ss_pred             HHHHHHHHHHH--HCCCCCCEEEEECCCCCCCHHHHC--EE-EEEECCCCCHHHHHHHHH---HHCCCCCHHHHHHHHHH
Q ss_conf             00145677766--303434167650443357302520--36-988647999899999999---72788896789999997
Q gi|254780217|r  145 NAANALLKSLE--EPPQKVLFILISHASPTILSTIRS--RC-LSIKFNSLSENNLYKALE---QLKIMGWDSKRDFVKIA  216 (347)
Q Consensus       145 ~AaNALLK~LE--EPp~~t~fiLit~~~~~il~TI~S--Rc-~~i~f~~l~~~~~~~~L~---~~~~~~~~~~~~~~~~~  216 (347)
                      ---|-||--|.  |--.+++++=.|+.|+-|-|.++-  |- ..+....|++.+-.++++   .......+..++.++..
T Consensus       786 RVVNQlLTelDG~Egl~GV~i~aaTsRpdliDpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~s~~~~~~vdl~~~a~~  865 (952)
T KOG0735         786 RVVNQLLTELDGAEGLDGVYILAATSRPDLIDPALLRPGRLDKLVYCPLPDEPERLEILQVLSNSLLKDTDVDLECLAQK  865 (952)
T ss_pred             HHHHHHHHHHCCCCCCCEEEEEEECCCCCCCCHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHH
T ss_conf             99999987603633445389997337834367766288765401567998928999999998534577521016887652


Q ss_pred             CCCCHHHHHHHH
Q ss_conf             598978999881
Q gi|254780217|r  217 AYGSVARAIKIL  228 (347)
Q Consensus       217 s~Gs~~~A~~ll  228 (347)
                      .+|=-|.-++.+
T Consensus       866 T~g~tgADlq~l  877 (952)
T KOG0735         866 TDGFTGADLQSL  877 (952)
T ss_pred             CCCCCHHHHHHH
T ss_conf             178736659989


No 179
>PRK09183 transposase/IS protein; Provisional
Probab=97.33  E-value=0.00063  Score=51.28  Aligned_cols=99  Identities=14%  Similarity=0.209  Sum_probs=60.2

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHH
Q ss_conf             81663117989888999999999981779988643121012678867999967898754530010001013421232378
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVD  113 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd  113 (347)
                      ++.++|.||+|+||+.+|.+++.... ..                        |-  .+.++..+.           -++
T Consensus       101 ~~Nvil~G~~GtGKThLA~Alg~~A~-~~------------------------G~--~v~f~~~~~-----------L~~  142 (258)
T PRK09183        101 NENIVLLGPSGVGKTHLAIALGYEAV-RA------------------------GI--KVRFTTAAD-----------LLL  142 (258)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHH-HC------------------------CC--EEEEEEHHH-----------HHH
T ss_conf             88679989999868999999999999-87------------------------99--399978999-----------999


Q ss_pred             HHHHHHHHCCCC----CCCCCCHHHHHHHHH--HCCHHHHHHHHHHHHHCCCCCCEEEEECCC
Q ss_conf             875544310222----111121035322055--424000145677766303434167650443
Q gi|254780217|r  114 EIRRIRYFLSLT----ANTGYWRVIMIDPVD--GMNRNAANALLKSLEEPPQKVLFILISHAS  170 (347)
Q Consensus       114 ~IR~l~~~~~~~----~~~~~~Ki~IId~ad--~ln~~AaNALLK~LEEPp~~t~fiLit~~~  170 (347)
                      +++.-...-.+.    -...+..+.||||.-  .++.+.++-|..++++=-+..-.|++|+.+
T Consensus       143 ~L~~a~~~~~~~~~l~r~l~~~dLLIiDdlG~~~~~~~~~~~lfeli~~Rye~~S~IiTSn~~  205 (258)
T PRK09183        143 QLSTAQRQGRYKTTLQRGVMAPRLLIIDEIGYLPFSQEEANLFFQVIAKRYEKGAMILTSNLP  205 (258)
T ss_pred             HHHHHHHCCCHHHHHHHHHCCCCEEEEHHHHCCCCCHHHHHHHHHHHHHHHCCCCEEEECCCC
T ss_conf             999998768599999987434651443133154688889999999999985767789988999


No 180
>KOG0728 consensus
Probab=97.32  E-value=0.00082  Score=50.35  Aligned_cols=156  Identities=16%  Similarity=0.178  Sum_probs=85.4

Q ss_pred             CCCHHHHCC-HHHHHHHHHHHHHCC------------CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCC
Q ss_conf             875656109-299999999999828------------8981663117989888999999999981779988643121012
Q gi|254780217|r    8 PVYNQRLFG-HEDIEKFLSQYYCSG------------RMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNP   74 (347)
Q Consensus         8 p~~~~~i~G-~~~~~~~L~~~~~~~------------~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~   74 (347)
                      |-+..+.+| -+..+..++..+.--            --|.+.|+|||||.||+.+|++.|.+--|...--.+      +
T Consensus       142 PDStYeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~c~firvsg------s  215 (404)
T KOG0728         142 PDSTYEMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTDCTFIRVSG------S  215 (404)
T ss_pred             CCCHHHHHCCHHHHHHHHHHHHHCCCCCHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHCCEEEEEECH------H
T ss_conf             8308887503888999999998265668789985187887604884699975629999987541407999644------9


Q ss_pred             CCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC-----------
Q ss_conf             678867999967898754530010001013421232378875544310222111121035322055424-----------
Q gi|254780217|r   75 DPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMN-----------  143 (347)
Q Consensus        75 ~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln-----------  143 (347)
                      .   -+-+.|-.|                        -.-+|++-    .-+-+..--|++.|++|..-           
T Consensus       216 e---lvqk~igeg------------------------srmvrelf----vmarehapsiifmdeidsigs~r~e~~~ggd  264 (404)
T KOG0728         216 E---LVQKYIGEG------------------------SRMVRELF----VMAREHAPSIIFMDEIDSIGSSRVESGSGGD  264 (404)
T ss_pred             H---HHHHHHHHH------------------------HHHHHHHH----HHHHHCCCCEEEEHHCCCCCCCCCCCCCCCC
T ss_conf             9---999985013------------------------89999999----9987508826750000121234345789863


Q ss_pred             HHHHHHHHHHHH-----HCCCCCCEEEEECCCCCCCHHHHCEE---EEEECCCCCHHHHHHHHHH
Q ss_conf             000145677766-----30343416765044335730252036---9886479998999999997
Q gi|254780217|r  144 RNAANALLKSLE-----EPPQKVLFILISHASPTILSTIRSRC---LSIKFNSLSENNLYKALEQ  200 (347)
Q Consensus       144 ~~AaNALLK~LE-----EPp~~t~fiLit~~~~~il~TI~SRc---~~i~f~~l~~~~~~~~L~~  200 (347)
                      .+-|-.+|-.|-     |..+|...|+.|+..+-+-|.+.---   +++.|+|++++.-.++|+-
T Consensus       265 sevqrtmlellnqldgfeatknikvimatnridild~allrpgridrkiefp~p~e~ar~~ilki  329 (404)
T KOG0728         265 SEVQRTMLELLNQLDGFEATKNIKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKI  329 (404)
T ss_pred             HHHHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCCCHHHCCCCCCCCCCCCCCCCHHHHHHHHHH
T ss_conf             89999999999740240003662699841642224686638775455564899877888789988


No 181
>KOG0739 consensus
Probab=97.32  E-value=0.0027  Score=46.18  Aligned_cols=181  Identities=18%  Similarity=0.145  Sum_probs=97.9

Q ss_pred             CHHHHCCHHHHHHHHHHHH----------HCCCCC-EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCC
Q ss_conf             5656109299999999999----------828898-16631179898889999999999817799886431210126788
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYY----------CSGRMH-HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCS   78 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~----------~~~~l~-ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~   78 (347)
                      .+++|.|-+.+++.|+.+.          ..+|-| .++|+|||||+||.-+|.+.|..-..       ..-..+  .++
T Consensus       131 kWsDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAnS-------TFFSvS--SSD  201 (439)
T KOG0739         131 KWSDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANS-------TFFSVS--SSD  201 (439)
T ss_pred             CHHHHCCCHHHHHHHHHHEEECCCCHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHHCCC-------CEEEEE--HHH
T ss_conf             62330140568999875435000253541588775425788679997577999998741477-------068730--178


Q ss_pred             HHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH----HHHHH-----
Q ss_conf             679999678987545300100010134212323788755443102221111210353220554240----00145-----
Q gi|254780217|r   79 PFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR----NAANA-----  149 (347)
Q Consensus        79 ~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~----~AaNA-----  149 (347)
                      -+.++                ....+            .|++-+..-+-+++--|++||++|.|..    +-.-|     
T Consensus       202 LvSKW----------------mGESE------------kLVknLFemARe~kPSIIFiDEiDslcg~r~enEseasRRIK  253 (439)
T KOG0739         202 LVSKW----------------MGESE------------KLVKNLFEMARENKPSIIFIDEIDSLCGSRSENESEASRRIK  253 (439)
T ss_pred             HHHHH----------------HCCHH------------HHHHHHHHHHHHCCCCEEEEEHHHHHCCCCCCCCHHHHHHHH
T ss_conf             89987----------------32179------------999999999873499479863444432688777117777777


Q ss_pred             --HHHHHHHCC--CCCCEEEE-ECCCCCCCHHHHCEEEE-EECCCCCHHHHHHHHHHH-----CCCCCHHHHHHHHHHCC
Q ss_conf             --677766303--43416765-04433573025203698-864799989999999972-----78889678999999759
Q gi|254780217|r  150 --LLKSLEEPP--QKVLFILI-SHASPTILSTIRSRCLS-IKFNSLSENNLYKALEQL-----KIMGWDSKRDFVKIAAY  218 (347)
Q Consensus       150 --LLK~LEEPp--~~t~fiLi-t~~~~~il~TI~SRc~~-i~f~~l~~~~~~~~L~~~-----~~~~~~~~~~~~~~~s~  218 (347)
                        ||--+---.  ...+++|- |+-|-.+-..||-|.-+ +++ ||++...+..+-+.     -....+.....+..-.+
T Consensus       254 TEfLVQMqGVG~d~~gvLVLgATNiPw~LDsAIRRRFekRIYI-PLPe~~AR~~MF~lhlG~tp~~LT~~d~~eL~~kTe  332 (439)
T KOG0739         254 TEFLVQMQGVGNDNDGVLVLGATNIPWVLDSAIRRRFEKRIYI-PLPEAHARARMFKLHLGDTPHVLTEQDFKELARKTE  332 (439)
T ss_pred             HHHHHHHHCCCCCCCCEEEEECCCCCHHHHHHHHHHHHCCEEC-CCCCHHHHHHHHEECCCCCCCCCCHHHHHHHHHHCC
T ss_conf             7888764066658886489723788436779999876502301-087378765550320478864133566999976437


Q ss_pred             CCHHHHHHHH
Q ss_conf             8978999881
Q gi|254780217|r  219 GSVARAIKIL  228 (347)
Q Consensus       219 Gs~~~A~~ll  228 (347)
                      |=-|.-+..+
T Consensus       333 GySGsDisiv  342 (439)
T KOG0739         333 GYSGSDISIV  342 (439)
T ss_pred             CCCCCCEEEE
T ss_conf             8776754778


No 182
>KOG2680 consensus
Probab=97.31  E-value=0.0064  Score=43.18  Aligned_cols=114  Identities=20%  Similarity=0.232  Sum_probs=79.7

Q ss_pred             HHHH-HHHHCCCCCCCCCC----HHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEEC-------------CCCCCCH
Q ss_conf             8755-44310222111121----0353220554240001456777663034341676504-------------4335730
Q gi|254780217|r  114 EIRR-IRYFLSLTANTGYW----RVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISH-------------ASPTILS  175 (347)
Q Consensus       114 ~IR~-l~~~~~~~~~~~~~----Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~-------------~~~~il~  175 (347)
                      ++|+ +..++..=-.+|+-    -|.+||++|.+..+...-|=+-||+  +-+-+++.++             .|+.||-
T Consensus       267 EvRdqin~KV~eWreEGKAeivpGVLFIDEvHMLDIEcFsFlNrAlE~--d~~PiiimaTNrgit~iRGTn~~SphGiP~  344 (454)
T KOG2680         267 EVRDQINTKVAEWREEGKAEIVPGVLFIDEVHMLDIECFSFLNRALEN--DMAPIIIMATNRGITRIRGTNYRSPHGIPI  344 (454)
T ss_pred             HHHHHHHHHHHHHHHCCCEEECCCEEEEEEEHHHHHHHHHHHHHHHHH--CCCCEEEEECCCCEEEEECCCCCCCCCCCH
T ss_conf             889888788898886177242255178740021115799988887650--468579997277557760577789888867


Q ss_pred             HHHCEEEEEECCCCCHHHHHHHHH----HHCCCCCHHHHHHHHHHCCC-CHHHHHHHHC
Q ss_conf             252036988647999899999999----72788896789999997598-9789998814
Q gi|254780217|r  176 TIRSRCLSIKFNSLSENNLYKALE----QLKIMGWDSKRDFVKIAAYG-SVARAIKILH  229 (347)
Q Consensus       176 TI~SRc~~i~f~~l~~~~~~~~L~----~~~~~~~~~~~~~~~~~s~G-s~~~A~~ll~  229 (347)
                      -..-|...+.-.|-++++++++|.    ++.....+++.+.+...+.- |.+-|++++.
T Consensus       345 D~lDR~lII~t~py~~~d~~~IL~iRc~EEdv~m~~~A~d~Lt~i~~~tsLRYai~Lit  403 (454)
T KOG2680         345 DLLDRMLIISTQPYTEEDIKKILRIRCQEEDVEMNPDALDLLTKIGEATSLRYAIHLIT  403 (454)
T ss_pred             HHHHHHHEEECCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             77644125525657688999998755005213358789999998613123789999988


No 183
>KOG2227 consensus
Probab=97.30  E-value=0.0041  Score=44.73  Aligned_cols=202  Identities=14%  Similarity=0.203  Sum_probs=109.2

Q ss_pred             HHHCCHHHHHHHHHHHHHC---CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCC-CCCHHHHHHHCC
Q ss_conf             5610929999999999982---889816631179898889999999999817799886431210126-788679999678
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYYCS---GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPD-PCSPFVKQMASH   87 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~~~---~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~-~~~~~~~~i~~~   87 (347)
                      +.++|-+.....+...+..   .+-+.++-.+|.||.||+..-..+-..+-|......-..-.|.+- .....+..|.. 
T Consensus       150 ~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI~~-  228 (529)
T KOG2227         150 GTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKIFS-  228 (529)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCHHHHHHHHHH-
T ss_conf             7765258889999999985431266764575179986548899999874034316651699851235425889999988-


Q ss_pred             CCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCC-CCCCEEEE
Q ss_conf             98754530010001013421232378875544310222111121035322055424000145677766303-43416765
Q gi|254780217|r   88 ALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPP-QKVLFILI  166 (347)
Q Consensus        88 ~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp-~~t~fiLi  166 (347)
                         .+..     +..++..  .  .+--+.+-.-+..+.   ..=|++.|+.|.+-...+-+|.-+.|=|- .+..+|||
T Consensus       229 ---~~~q-----~~~s~~~--~--~~~~~~~~~h~~q~k---~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLi  293 (529)
T KOG2227         229 ---SLLQ-----DLVSPGT--G--MQHLEKFEKHTKQSK---FMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILI  293 (529)
T ss_pred             ---HHHH-----HHCCCCH--H--HHHHHHHHHHHHCCC---CEEEEEECHHHHHHHCCCCEEEEEHHCCCCCCCEEEEE
T ss_conf             ---8988-----7428950--4--789999999875256---33898721256776046531432100136776605666


Q ss_pred             --ECCC---CCCCHHHHCEE----EEEECCCCCHHHHHHHHHHHCCC-----CCHHHHHHHHHH---CCCCHHHHHHHHC
Q ss_conf             --0443---35730252036----98864799989999999972788-----896789999997---5989789998814
Q gi|254780217|r  167 --SHAS---PTILSTIRSRC----LSIKFNSLSENNLYKALEQLKIM-----GWDSKRDFVKIA---AYGSVARAIKILH  229 (347)
Q Consensus       167 --t~~~---~~il~TI~SRc----~~i~f~~l~~~~~~~~L~~~~~~-----~~~~~~~~~~~~---s~Gs~~~A~~ll~  229 (347)
                        ++..   ++.||++.+||    +.+.|+|-+.++|.++|++.-.+     .-..++++.++-   .-|++|+|+....
T Consensus       294 GiANslDlTdR~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~R  373 (529)
T KOG2227         294 GIANSLDLTDRFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSGDLRKALDVCR  373 (529)
T ss_pred             EEHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             40013557777766654025788746655687889999999999740544333038999999986257612899999998


No 184
>KOG0736 consensus
Probab=97.29  E-value=0.0033  Score=45.45  Aligned_cols=53  Identities=21%  Similarity=0.203  Sum_probs=41.7

Q ss_pred             CCCCCCHHHHCCHHHHHHHHHHHHHC----------CCC-CEEEEECCCCCCCHHHHHHHHHHH
Q ss_conf             55587565610929999999999982----------889-816631179898889999999999
Q gi|254780217|r    5 AFDPVYNQRLFGHEDIEKFLSQYYCS----------GRM-HHALLFEGEQGIGKATLGFRYAGH   57 (347)
Q Consensus         5 ~~~p~~~~~i~G~~~~~~~L~~~~~~----------~~l-~ha~Lf~Gp~GiGK~~~A~~~A~~   57 (347)
                      |.--.+|+||=|-++++..+...+.-          |=. --++|||||||+|||.+|.+.|..
T Consensus       665 KIPnV~WdDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATE  728 (953)
T KOG0736         665 KIPNVSWDDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATE  728 (953)
T ss_pred             CCCCCCHHCCCCHHHHHHHHHHHHCCCCCCHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             8896460015578999999998754754375665125431350588779998557999998754


No 185
>KOG0745 consensus
Probab=97.29  E-value=0.00031  Score=53.80  Aligned_cols=89  Identities=21%  Similarity=0.345  Sum_probs=54.8

Q ss_pred             EEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHH
Q ss_conf             66311798988899999999998177998864312101267886799996789875453001000101342123237887
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEI  115 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~I  115 (347)
                      .+|+.||.|+||+-+|..+|+.|.       .|.-.|..      ..+-.+    .|             .+.  -||.|
T Consensus       228 NvLllGPtGsGKTllaqTLAr~ld-------VPfaIcDc------TtLTQA----GY-------------VGe--DVEsv  275 (564)
T KOG0745         228 NVLLLGPTGSGKTLLAQTLARVLD-------VPFAICDC------TTLTQA----GY-------------VGE--DVESV  275 (564)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHC-------CCEEEECC------CCHHHC----CC-------------CCC--CHHHH
T ss_conf             479977888764389999999708-------87687325------522005----53-------------454--29999


Q ss_pred             H-HHHHHCCCCCCCCCCHHHHHHHHHHCCHH--------------HHHHHHHHHHH
Q ss_conf             5-54431022211112103532205542400--------------01456777663
Q gi|254780217|r  116 R-RIRYFLSLTANTGYWRVIMIDPVDGMNRN--------------AANALLKSLEE  156 (347)
Q Consensus       116 R-~l~~~~~~~~~~~~~Ki~IId~ad~ln~~--------------AaNALLK~LEE  156 (347)
                      - .|.....+--.....-||.+|++|.++..              -|.||||+||-
T Consensus       276 i~KLl~~A~~nVekAQqGIVflDEvDKi~~~~~~i~~~RDVsGEGVQQaLLKllEG  331 (564)
T KOG0745         276 IQKLLQEAEYNVEKAQQGIVFLDEVDKITKKAESIHTSRDVSGEGVQQALLKLLEG  331 (564)
T ss_pred             HHHHHHHCCCCHHHHHCCEEEEEHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHCC
T ss_conf             99999972578998826738876012441367654544456626699999998526


No 186
>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=97.28  E-value=0.0024  Score=46.66  Aligned_cols=148  Identities=14%  Similarity=0.098  Sum_probs=70.4

Q ss_pred             EEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEE-ECCCCHHHCCCCCCCCCHHH
Q ss_conf             66311798988899999999998177998864312101267886799996789875453-00100010134212323788
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLY-LSYSLNPKTGKWRTVITVDE  114 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~-i~~~~~~k~~~~~~~I~vd~  114 (347)
                      .+++.|++|+||+|+++.+|..............-.      .-.|+.+.......+.. +...+.      .....+++
T Consensus         2 ~i~i~G~aG~GKTtll~kl~~~wa~g~~~~~~~~vf------~~~~r~~~~~~~~sl~~ll~~~~~------~~~~~~~~   69 (165)
T pfam05729         2 TVILQGEAGSGKTTLLQKLALLWAQGKLPQDFDFVF------FLPCRELSRSGEASLADLLFSQWP------EPAAPVSE   69 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCEEE------EEEHHHHCCCCCCCHHHHHHHHCC------CCCCCHHH
T ss_conf             899982798989999999999998698436972899------999567077766899999998767------74576378


Q ss_pred             HHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHH---------HHHHHHHHHHC-CCCCCEEEEECCCCCC--CHHHHCEEE
Q ss_conf             75544310222111121035322055424000---------14567776630-3434167650443357--302520369
Q gi|254780217|r  115 IRRIRYFLSLTANTGYWRVIMIDPVDGMNRNA---------ANALLKSLEEP-PQKVLFILISHASPTI--LSTIRSRCL  182 (347)
Q Consensus       115 IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~A---------aNALLK~LEEP-p~~t~fiLit~~~~~i--l~TI~SRc~  182 (347)
                      +...+   .   ...+.=.+|+|..|.+....         ...|...|... -+++. +++|+.|...  ++-....-+
T Consensus        70 ~~~~~---~---~~~~k~L~ilDGlDE~~~~~~~~~~~~~~~~~l~~ll~~~~lp~~~-vliTsRp~~~~~l~~~~~~~~  142 (165)
T pfam05729        70 VWAVI---L---ELPERVLLILDGLDELASDLGQLDGPLPVLTLLSSLLRKKLLPGAS-LLLTSRPDALRDLRRGLEEPR  142 (165)
T ss_pred             HHHHH---H---HCCCCEEEEECCHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCCCE-EEEEECCCHHHHHHHHCCCCC
T ss_conf             99999---8---3977289996484551444356444577999999998415278864-999968037988577648871


Q ss_pred             EEECCCCCHHHHHHHHHHHC
Q ss_conf             88647999899999999727
Q gi|254780217|r  183 SIKFNSLSENNLYKALEQLK  202 (347)
Q Consensus       183 ~i~f~~l~~~~~~~~L~~~~  202 (347)
                      .+.+...+++++.+++.+..
T Consensus       143 ~~ei~GFs~~~~~~yi~~~F  162 (165)
T pfam05729       143 YLEVLGFSEEDRKQYVRKYF  162 (165)
T ss_pred             EEEECCCCHHHHHHHHHHHC
T ss_conf             89988999999999999867


No 187
>KOG1808 consensus
Probab=97.28  E-value=0.00085  Score=50.22  Aligned_cols=154  Identities=19%  Similarity=0.311  Sum_probs=97.7

Q ss_pred             CHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEE-E
Q ss_conf             929999999999982889816631179898889999999999817799886431210126788679999678987545-3
Q gi|254780217|r   16 GHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFL-Y   94 (347)
Q Consensus        16 G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~-~   94 (347)
                      -++.....+..+..+|++|  +||.||.|+||++++..+|+...-                   .+.+|.+..|-|+. +
T Consensus       424 ~vq~~la~~~~a~~~~~~p--illqG~tssGKtsii~~la~~~g~-------------------~~vrinnhehtd~qey  482 (1856)
T KOG1808         424 RVQKNLADLARAISSGKFP--ILLQGPTSSGKTSIIKELARATGK-------------------NIVRINNHEHTDLQEY  482 (1856)
T ss_pred             HHHHHHHHHHHHHHCCCCC--EEEECCCCCCCHHHHHHHHHHHCC-------------------CCEEHHCCCCCHHHHH
T ss_conf             9998899999999658998--677547676811599999998546-------------------7342002463339999


Q ss_pred             ECCCCHHHCCCC--CCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHH-----CCCCCC-----
Q ss_conf             001000101342--12323788755443102221111210353220554240001456777663-----034341-----
Q gi|254780217|r   95 LSYSLNPKTGKW--RTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEE-----PPQKVL-----  162 (347)
Q Consensus        95 i~~~~~~k~~~~--~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEE-----Pp~~t~-----  162 (347)
                      |.......++..  +..+-|..           ...|  ..++.|+.+.-+.+--+||.++|+.     -|++..     
T Consensus       483 ig~y~~~~~g~l~freg~LV~A-----------lr~G--~~~vlD~lnla~~dvL~aLnrllddnRel~ipe~~rlv~~h  549 (1856)
T KOG1808         483 IGTYVADDNGDLVFREGVLVQA-----------LRNG--DWIVLDELNLAPHDVLEALNRLLDDNRELFIPETQRLVKAH  549 (1856)
T ss_pred             HHHHEECCCCCEEEEHHHHHHH-----------HHHC--CEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEECCC
T ss_conf             8665007889725534689999-----------8708--77984020124067899998404540412563443232247


Q ss_pred             ---EEEEECCCCCC-------CHHHHCEEEEEECCCCCHHHHHHHHHHHCC
Q ss_conf             ---67650443357-------302520369886479998999999997278
Q gi|254780217|r  163 ---FILISHASPTI-------LSTIRSRCLSIKFNSLSENNLYKALEQLKI  203 (347)
Q Consensus       163 ---fiLit~~~~~i-------l~TI~SRc~~i~f~~l~~~~~~~~L~~~~~  203 (347)
                         .++.|.++...       .-.+++|.+.++|.-++++++..++.....
T Consensus       550 ~~f~lfatqn~~~~y~grk~lsRa~~~rf~e~~f~~~~e~e~~~i~~~~~~  600 (1856)
T KOG1808         550 PEFMLFATQNPPGTYGGRKILSRALRNRFIELHFDDIGEEELEEILEHRCG  600 (1856)
T ss_pred             CCHHHHHHCCCCCCCCHHHHHHHCCCCCCHHHHHHHCCCHHHHHHHCCCCC
T ss_conf             012345430776665315665531444002353552571455556402356


No 188
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=97.22  E-value=0.002  Score=47.18  Aligned_cols=40  Identities=15%  Similarity=0.235  Sum_probs=28.9

Q ss_pred             HHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCC
Q ss_conf             9999999982889816631179898889999999999817799
Q gi|254780217|r   21 EKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPD   63 (347)
Q Consensus        21 ~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~   63 (347)
                      ++.+..+++..  |+ ++++||||+|||-+|.+||.+|....+
T Consensus       184 i~~~~~sLktK--kn-vIL~G~pGtGKT~lAk~lA~~l~g~~~  223 (459)
T PRK11331        184 IETILKRLTIK--KN-IILQGPPGVGKTFVARRLAYLLTGEKA  223 (459)
T ss_pred             HHHHHHHHCCC--CC-EEEECCCCCCHHHHHHHHHHHHHCCCC
T ss_conf             99999985458--82-796589998878999999999707887


No 189
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=97.18  E-value=0.0013  Score=48.79  Aligned_cols=127  Identities=21%  Similarity=0.318  Sum_probs=70.0

Q ss_pred             CHHHHCCHHHHHHHHHHHHH---CCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHH--HCCCCCCCHHHHHH
Q ss_conf             56561092999999999998---28898166311798988899999999998177998864312--10126788679999
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYYC---SGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVR--MCNPDPCSPFVKQM   84 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~~---~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~--~~~~~~~~~~~~~i   84 (347)
                      .|++++|+...++......+   ....|  +|++|+.|+||+++|+++-.    ...-..+|+-  .|..-+..    .+
T Consensus       323 ~f~~l~g~s~~~~~~~~~a~~~a~~~~p--VLI~GE~GtGKe~lAraIH~----~S~r~~~pfv~vnC~ai~~~----~~  392 (639)
T PRK11388        323 TFDHMPQDSPQMRRLIHFGRQAAKSSFP--ILLCGEEGVGKALLAQAIHN----ESERAAGPYIAVNCQLLPDE----AL  392 (639)
T ss_pred             CHHHCCCCCHHHHHHHHHHHHHHCCCCC--EEEECCCCCCHHHHHHHHHH----CCCCCCCCEEEEECCCCCHH----HH
T ss_conf             8554467999999999999999688996--89889898109999999995----57778998189878989846----78


Q ss_pred             HCCCCCCEEEECCCC-HHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHC------
Q ss_conf             678987545300100-0101342123237887554431022211112103532205542400014567776630------
Q gi|254780217|r   85 ASHALHDFLYLSYSL-NPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEP------  157 (347)
Q Consensus        85 ~~~~hpd~~~i~~~~-~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEP------  157 (347)
                      ++    .+  +.+.. ..+.+.             ...+..  ..|  -.+++|+++.|..+.|.+||..|||-      
T Consensus       393 e~----el--fG~~~~~~~~g~-------------~g~~e~--A~g--GTL~LdeI~~lp~~~Q~~LlrvL~~~~~~r~g  449 (639)
T PRK11388        393 AE----EF--LGSDRTDSENGR-------------LSKFEL--AHG--GTLFLEKVEYLSVELQSALLQVLKTGVITRLD  449 (639)
T ss_pred             HH----HH--CCCCCCCCCCCC-------------CCHHHC--CCC--CEEEECCHHHCCHHHHHHHHHHHHCCCEEECC
T ss_conf             99----87--387767643466-------------862440--369--82884672649999999999998659378569


Q ss_pred             -----CCCCCEEEEECC
Q ss_conf             -----343416765044
Q gi|254780217|r  158 -----PQKVLFILISHA  169 (347)
Q Consensus       158 -----p~~t~fiLit~~  169 (347)
                           |-++.+|-.|+.
T Consensus       450 ~~~~~~vdvRiiaat~~  466 (639)
T PRK11388        450 SRRLIPVDVRVIATTTA  466 (639)
T ss_pred             CCCEEEEEEEEEEECCH
T ss_conf             99466642799973645


No 190
>pfam00448 SRP54 SRP54-type protein, GTPase domain. This family includes relatives of the G-domain of the SRP54 family of proteins.
Probab=97.17  E-value=0.0011  Score=49.31  Aligned_cols=135  Identities=16%  Similarity=0.147  Sum_probs=70.5

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHH-HH---HCCCCCCEEEECCCCHHHCCCCCCC
Q ss_conf             8166311798988899999999998177998864312101267886799-99---6789875453001000101342123
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVK-QM---ASHALHDFLYLSYSLNPKTGKWRTV  109 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~-~i---~~~~hpd~~~i~~~~~~k~~~~~~~  109 (347)
                      |+-++|.||.|+||||++-.+|.++.-. +   ......+.|..+.... ++   ....--.++......          
T Consensus         1 P~vi~lvGptGvGKTTTiaKLAa~~~~~-~---~~V~lit~Dt~R~gA~eQL~~ya~~l~v~~~~~~~~~----------   66 (196)
T pfam00448         1 PNVILLVGLQGSGKTTTIAKLAAYLKKQ-G---KKVLLVAADTFRAAAIEQLKQLAERLGVPVFGSGTGS----------   66 (196)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHC-C---CEEEEEECCCCCHHHHHHHHHHHHHCCCEEEECCCCC----------
T ss_conf             9699998999998899999999999977-9---9289997587768899999999986398178148777----------


Q ss_pred             CCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHH--HHHHHHHHH-CCCCCCEEEEECCCCCCCHHHHCEEEEEEC
Q ss_conf             23788755443102221111210353220554240001--456777663-034341676504433573025203698864
Q gi|254780217|r  110 ITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAA--NALLKSLEE-PPQKVLFILISHASPTILSTIRSRCLSIKF  186 (347)
Q Consensus       110 I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~Aa--NALLK~LEE-Pp~~t~fiLit~~~~~il~TI~SRc~~i~f  186 (347)
                      -.++-.++..+.+.    ..++-+++||-+-+...+..  .-|-++.+. +|..++++|-++....-+..+..+...+.+
T Consensus        67 d~~~~~~~~l~~~~----~~~~D~IlIDTaGr~~~d~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~f~~~~~~  142 (196)
T pfam00448        67 DPAAVAFDAVEKAK----AENYDVVLVDTAGRLQNDKNLMDELKKIKRVIAPDEVLLVLDATTGQNALNQAKAFNEAVGI  142 (196)
T ss_pred             CHHHHHHHHHHHHH----HCCCCEEEEECCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHCCC
T ss_conf             87899999999988----46899999989998747677899999998522873028998567782137899987600477


No 191
>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional
Probab=97.13  E-value=0.0032  Score=45.62  Aligned_cols=155  Identities=15%  Similarity=0.208  Sum_probs=79.9

Q ss_pred             CHHHHCCHHHHHHHHHHHHHC-CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHH--HCCCCCCCHHHHHHHC
Q ss_conf             565610929999999999982-8898166311798988899999999998177998864312--1012678867999967
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYYCS-GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVR--MCNPDPCSPFVKQMAS   86 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~~~-~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~--~~~~~~~~~~~~~i~~   86 (347)
                      .+..++|+-...+.+...+.. ..-+...|++|+.|+||..+|+++=..    ..-...|+-  .|..-+.+    .+++
T Consensus       141 ~~~~lig~S~~m~~v~~~i~~~A~s~~~VLI~GEsGTGKe~~Ar~IH~~----S~r~~~pFv~vnc~ai~~~----l~es  212 (457)
T PRK11361        141 QWGHILTNSPAMMDICKDTAKIALSQASVLISGESGTGKELIARAIHYN----SRRAKGPFIKVNCAALPES----LLES  212 (457)
T ss_pred             CCCCCEECCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHH----CCCCCCCEEEEECCCCCHH----HHHH
T ss_conf             5677454699999999999998488995899889985789999999983----7988998387647879857----7899


Q ss_pred             CCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHC---------
Q ss_conf             89875453001000101342123237887554431022211112103532205542400014567776630---------
Q gi|254780217|r   87 HALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEP---------  157 (347)
Q Consensus        87 ~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEP---------  157 (347)
                          .++  ..   +++ ..   -+.+.-|  ...+..  ..|+  ..++|+++.|..+.|..||+.|||-         
T Consensus       213 ----eLF--G~---~kg-af---tga~~~~--~G~~e~--A~gG--TLfLdeI~~l~~~~Q~kLLr~L~~~~~~~~g~~~  273 (457)
T PRK11361        213 ----ELF--GH---EKG-AF---TGAQTLR--QGLFER--ANEG--TLLLDEIGEMPLVLQAKLLRILQEREFERIGGHQ  273 (457)
T ss_pred             ----HHH--CC---CCC-CC---CCCCCCC--CCCHHH--CCCC--CEECCCHHHHHHHHHHHHHHHHHCCCEEECCCCC
T ss_conf             ----971--87---667-87---8853146--986133--5998--2631466452399999999998649278569971


Q ss_pred             --CCCCCEEEEECCC-------CCCCHHHHCEE--EEEECCCCCH
Q ss_conf             --3434167650443-------35730252036--9886479998
Q gi|254780217|r  158 --PQKVLFILISHAS-------PTILSTIRSRC--LSIKFNSLSE  191 (347)
Q Consensus       158 --p~~t~fiLit~~~-------~~il~TI~SRc--~~i~f~~l~~  191 (347)
                        +-++.+|-.|+..       ...-+-+..|-  ..+.++||.+
T Consensus       274 ~~~~dvRiIaaT~~~L~~~v~~g~Fr~DLyyrL~~~~i~lPpLRe  318 (457)
T PRK11361        274 TIKVDIRIIAATNRDLQAMVKEGTFREDLFYRLNVIHLILPPLRD  318 (457)
T ss_pred             EEEECCEEEECCCCCHHHHHHCCCCHHHHHHHHCEEEEECCCHHH
T ss_conf             366534899657878599987583238899530221251738545


No 192
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=97.11  E-value=0.0028  Score=46.00  Aligned_cols=205  Identities=15%  Similarity=0.111  Sum_probs=125.4

Q ss_pred             CCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHH
Q ss_conf             55875656109299999999999828898166311798988899999999998177998864312101267886799996
Q gi|254780217|r    6 FDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMA   85 (347)
Q Consensus         6 ~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~   85 (347)
                      .+|..-...+--+...+.|    ..+.=--.+||+-|-|.||+|++-.+++..-....-....|++-..++.++.-+.+.
T Consensus        13 ~~P~~~~~~v~R~rL~~~L----~~~~~~RL~li~APAGfGKttl~aq~~~~~~~~~~v~Wlslde~dndp~rF~~yLi~   88 (894)
T COG2909          13 VRPVRPDNYVVRPRLLDRL----RRANDYRLILISAPAGFGKTTLLAQWRELAADGAAVAWLSLDESDNDPARFLSYLIA   88 (894)
T ss_pred             CCCCCCCCCCCCHHHHHHH----HHCCCCEEEEEECCCCCCHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHHHHHHH
T ss_conf             7999950026538999998----607784389986788775889999999864765543576457766788999999999


Q ss_pred             CCC--CCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCC--CCCCCCCCHHHHHHHHHHCCHHHHHH-HHHHHHHCCCC
Q ss_conf             789--87545300100010134212323788755443102--22111121035322055424000145-67776630343
Q gi|254780217|r   86 SHA--LHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLS--LTANTGYWRVIMIDPVDGMNRNAANA-LLKSLEEPPQK  160 (347)
Q Consensus        86 ~~~--hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~--~~~~~~~~Ki~IId~ad~ln~~AaNA-LLK~LEEPp~~  160 (347)
                      +-.  +|+.-.-.-..-.+.+       -+.++.+..++-  +.+..+. -.+++||-|..+..+-++ |-..|+--|+|
T Consensus        89 al~~~~p~~~~~a~~l~q~~~-------~~~l~~l~~~L~~Ela~~~~p-l~LVlDDyHli~~~~l~~~l~fLl~~~P~~  160 (894)
T COG2909          89 ALQQATPTLGDEAQTLLQKHQ-------YVSLESLLSSLLNELASYEGP-LYLVLDDYHLISDPALHEALRFLLKHAPEN  160 (894)
T ss_pred             HHHHHCCCCCHHHHHHHHHCC-------CCCHHHHHHHHHHHHHHHCCC-EEEEECCCCCCCCCCHHHHHHHHHHHCCCC
T ss_conf             998747232478999987335-------565999999999998751496-499953532257602899999999719987


Q ss_pred             CCEEEEECCCCC-CCHHHHCEEEEEECC----CCCHHHHHHHHHHHC-CCCCHHHHHHHHHHCCCCHH
Q ss_conf             416765044335-730252036988647----999899999999727-88896789999997598978
Q gi|254780217|r  161 VLFILISHASPT-ILSTIRSRCLSIKFN----SLSENNLYKALEQLK-IMGWDSKRDFVKIAAYGSVA  222 (347)
Q Consensus       161 t~fiLit~~~~~-il~TI~SRc~~i~f~----~l~~~~~~~~L~~~~-~~~~~~~~~~~~~~s~Gs~~  222 (347)
                      ...+++|.+.-. -+.+.|=|=+.+-+.    +.+.++..+++...+ ...+....+.+...++|=+.
T Consensus       161 l~lvv~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l~Ld~~~~~~L~~~teGW~~  228 (894)
T COG2909         161 LTLVVTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGSLPLDAADLKALYDRTEGWAA  228 (894)
T ss_pred             EEEEEEECCCCCCCCCCEEEHHHHHHCCHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCHHH
T ss_conf             49999765688876442011216775185864578599999999718997785889878850243999


No 193
>KOG0741 consensus
Probab=97.10  E-value=0.0032  Score=45.59  Aligned_cols=156  Identities=22%  Similarity=0.273  Sum_probs=77.6

Q ss_pred             CHHHHCCHHH-HHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCC
Q ss_conf             5656109299-999999999828898166311798988899999999998177998864312101267886799996789
Q gi|254780217|r   10 YNQRLFGHED-IEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHA   88 (347)
Q Consensus        10 ~~~~i~G~~~-~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~   88 (347)
                      .+.+++-+.. .+++.+++-.+ ++ -+.|++||+|+||+++|-.+|..       +..|.                   
T Consensus       515 ~v~~il~~G~llv~qvk~s~~s-~l-vSvLl~Gp~~sGKTaLAA~iA~~-------S~FPF-------------------  566 (744)
T KOG0741         515 PVTRILDDGKLLVQQVKNSERS-PL-VSVLLEGPPGSGKTALAAKIALS-------SDFPF-------------------  566 (744)
T ss_pred             CHHHHHHHHHHHHHHHHCCCCC-CC-EEEEEECCCCCCHHHHHHHHHHH-------CCCCE-------------------
T ss_conf             0778876688999986334667-63-58998669988768899999752-------79984-------------------


Q ss_pred             CCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC----------HHHHHHHHHHHHHCC
Q ss_conf             8754530010001013421232378875544310222111121035322055424----------000145677766303
Q gi|254780217|r   89 LHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMN----------RNAANALLKSLEEPP  158 (347)
Q Consensus        89 hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln----------~~AaNALLK~LEEPp  158 (347)
                         +.++++.   +--....+=++-.|+.+-...+.+|..    |+|+|++|++=          ..-..||+-.|-++|
T Consensus       567 ---vKiiSpe---~miG~sEsaKc~~i~k~F~DAYkS~ls----iivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~p  636 (744)
T KOG0741         567 ---VKIISPE---DMIGLSESAKCAHIKKIFEDAYKSPLS----IIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQP  636 (744)
T ss_pred             ---EEEECHH---HHCCCCHHHHHHHHHHHHHHHHCCCCE----EEEECCHHHHHCCCCCCCCHHHHHHHHHHHHHCCCC
T ss_conf             ---7973778---703746678899999988876338650----899815565620024684035799999999952489


Q ss_pred             CC--CCEEEEECCCCCCCHH-HHCEE--EEEECCCCCH-HHHHHHHHHHCC
Q ss_conf             43--4167650443357302-52036--9886479998-999999997278
Q gi|254780217|r  159 QK--VLFILISHASPTILST-IRSRC--LSIKFNSLSE-NNLYKALEQLKI  203 (347)
Q Consensus       159 ~~--t~fiLit~~~~~il~T-I~SRc--~~i~f~~l~~-~~~~~~L~~~~~  203 (347)
                      +.  -+||+.|+..-.+|.- =.+-|  -.+.++.++. +++.++|.+.+.
T Consensus       637 pkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~~~~~~~~vl~~~n~  687 (744)
T KOG0741         637 PKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLTTGEQLLEVLEELNI  687 (744)
T ss_pred             CCCCEEEEEECCCHHHHHHHCCHHHHHHHEEECCCCCCHHHHHHHHHHCCC
T ss_conf             888459999624079999972778751110546756864789999997166


No 194
>PRK13695 putative NTPase; Provisional
Probab=97.10  E-value=0.0012  Score=49.02  Aligned_cols=145  Identities=19%  Similarity=0.226  Sum_probs=75.3

Q ss_pred             CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCC-------------C
Q ss_conf             981663117989888999999999981779988643121012678867999967898754530010-------------0
Q gi|254780217|r   33 MHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYS-------------L   99 (347)
Q Consensus        33 l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~-------------~   99 (347)
                      .+.-++++|+||+||+|+...++..|-+..-   ..+|....+.       ...|.--.+..++..             .
T Consensus         2 ~~~kI~iTG~PGvGKTTli~Kv~~~L~~~g~---~v~GF~T~Ev-------re~G~R~GF~vv~l~~g~~~~lA~~~~~~   71 (174)
T PRK13695          2 AALRIGITGMPGVGKTTLVLKIAELLAREGY---KVGGFITEEV-------REGGKRIGFKIIDLDTGEEGILARVGAVS   71 (174)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHCCC---EEEEEEEEEE-------ECCCEEEEEEEEECCCCCEEEEEECCCCC
T ss_conf             8429998789998899999999999863696---1746995256-------03882850599990588568767537889


Q ss_pred             HHHCCCCCCCCCHHHHHHH-HHHCCCCCCCCCCHHHHHHHHHHCCHH---HHHHHHHHHHHCCCCCCEEEEECCCCCCCH
Q ss_conf             0101342123237887554-431022211112103532205542400---014567776630343416765044335730
Q gi|254780217|r  100 NPKTGKWRTVITVDEIRRI-RYFLSLTANTGYWRVIMIDPVDGMNRN---AANALLKSLEEPPQKVLFILISHASPTILS  175 (347)
Q Consensus       100 ~~k~~~~~~~I~vd~IR~l-~~~~~~~~~~~~~Ki~IId~ad~ln~~---AaNALLK~LEEPp~~t~fiLit~~~~~il~  175 (347)
                      ..+.++.  .+.+++.-.+ ..-+....  ....++|||++-.|-..   -.+++.+.|+-   +...+.+-+.  .++.
T Consensus        72 ~~~VgkY--~V~~~~~e~~~~~~l~~a~--~~~dlivIDEIG~MEl~s~~F~~~V~~~L~s---~kpvl~tih~--p~v~  142 (174)
T PRK13695         72 RPRVGKY--VVNLEDLERIAIPAISRAL--READLIIIDEIGPMELKSKKFVSAVEEVLKS---EKPVIATVHR--PVVQ  142 (174)
T ss_pred             CCCCCCE--EEEHHHHHHHHHHHHHHCC--CCCCEEEEECCCHHHHHHHHHHHHHHHHHCC---CCCEEEEECH--HHHH
T ss_conf             8554566--8716897899899998353--5787999963103311049999999999738---9989999775--8889


Q ss_pred             HHHCE-EEEEECCCCCHHHHHH
Q ss_conf             25203-6988647999899999
Q gi|254780217|r  176 TIRSR-CLSIKFNSLSENNLYK  196 (347)
Q Consensus       176 TI~SR-c~~i~f~~l~~~~~~~  196 (347)
                      .||+| +..+.+.+-+.+.+.+
T Consensus       143 ~ik~~~~~v~~vT~~NRd~l~~  164 (174)
T PRK13695        143 RIRSLGGEVFWLTPENRNILPE  164 (174)
T ss_pred             HHHCCCCEEEEECHHHHHHHHH
T ss_conf             8633798999989346775599


No 195
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=97.10  E-value=0.003  Score=45.80  Aligned_cols=111  Identities=14%  Similarity=0.196  Sum_probs=57.5

Q ss_pred             HHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECC
Q ss_conf             99999999999828898166311798988899999999998177998864312101267886799996789875453001
Q gi|254780217|r   18 EDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSY   97 (347)
Q Consensus        18 ~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~   97 (347)
                      ..+...+......=.-+-.++|+||+|+||+.+|-+++..+. ..                        |  ..+.++..
T Consensus        89 ~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKthLa~Ai~~~l~-~~------------------------g--~sv~f~~~  141 (254)
T COG1484          89 KKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELL-KA------------------------G--ISVLFITA  141 (254)
T ss_pred             HHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHH-HC------------------------C--CEEEEEEH
T ss_conf             999999999998732588289989999879999999999999-83------------------------9--84999885


Q ss_pred             CCHHHCCCCCCCCCHHHHHHHHHHCCCCC-------CCCCCHHHHHHHHHHCC--HHHHHHHHHHHHHCCCCCCEEEEEC
Q ss_conf             00010134212323788755443102221-------11121035322055424--0001456777663034341676504
Q gi|254780217|r   98 SLNPKTGKWRTVITVDEIRRIRYFLSLTA-------NTGYWRVIMIDPVDGMN--RNAANALLKSLEEPPQKVLFILISH  168 (347)
Q Consensus        98 ~~~~k~~~~~~~I~vd~IR~l~~~~~~~~-------~~~~~Ki~IId~ad~ln--~~AaNALLK~LEEPp~~t~fiLit~  168 (347)
                                    .|=+++|........       ......+.||||.-..+  ...++-++-++..--.....|++|+
T Consensus       142 --------------~el~~~Lk~~~~~~~~~~~l~~~l~~~dlLIiDDlG~~~~~~~~~~~~~q~I~~r~~~~~~~~tsN  207 (254)
T COG1484         142 --------------PDLLSKLKAAFDEGRLEEKLLRELKKVDLLIIDDIGYEPFSQEEADLLFQLISRRYESRSLIITSN  207 (254)
T ss_pred             --------------HHHHHHHHHHHHCCCHHHHHHHHHHHCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEC
T ss_conf             --------------999999999874552689999887528989982367766881558799999999997305420205


Q ss_pred             C
Q ss_conf             4
Q gi|254780217|r  169 A  169 (347)
Q Consensus       169 ~  169 (347)
                      .
T Consensus       208 ~  208 (254)
T COG1484         208 L  208 (254)
T ss_pred             C
T ss_conf             8


No 196
>KOG0652 consensus
Probab=96.99  E-value=0.0057  Score=43.56  Aligned_cols=163  Identities=19%  Similarity=0.149  Sum_probs=81.8

Q ss_pred             CHHHHCCHHHHHHHHHHHHHC------------CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCC
Q ss_conf             565610929999999999982------------88981663117989888999999999981779988643121012678
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYYCS------------GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPC   77 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~~~------------~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~   77 (347)
                      ..++|=|-+..++.|..++.-            -+.|.+.|.|||||.||+.+|++.|..-....-.-.+|         
T Consensus       169 ~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTFLKLAgP---------  239 (424)
T KOG0652         169 QYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATFLKLAGP---------  239 (424)
T ss_pred             CCCCCCCHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHCCCHHHHHCCH---------
T ss_conf             20003257899999998861456568788746888997227657999757799999987401068873264---------


Q ss_pred             CHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHH-
Q ss_conf             8679999678987545300100010134212323788755443102221111210353220554240001456777663-
Q gi|254780217|r   78 SPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEE-  156 (347)
Q Consensus        78 ~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEE-  156 (347)
                        -.-++-.|.-.-+  +.-++.-..++....|-||++-.+..+-.-+--.|.             .+-|-.+|-.|-. 
T Consensus       240 --QLVQMfIGdGAkL--VRDAFaLAKEkaP~IIFIDElDAIGtKRfDSek~GD-------------REVQRTMLELLNQL  302 (424)
T KOG0652         240 --QLVQMFIGDGAKL--VRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKAGD-------------REVQRTMLELLNQL  302 (424)
T ss_pred             --HHHHHHHCCHHHH--HHHHHHHHHCCCCEEEEEECHHHHCCCCCCCCCCCC-------------HHHHHHHHHHHHHC
T ss_conf             --7776653341889--999998753349838997300232334365312343-------------89999999999860


Q ss_pred             ----CCCCCCEEEEECCCCCCCHHHHCEE----EEEECCCCCHHHHHHHHH
Q ss_conf             ----0343416765044335730252036----988647999899999999
Q gi|254780217|r  157 ----PPQKVLFILISHASPTILSTIRSRC----LSIKFNSLSENNLYKALE  199 (347)
Q Consensus       157 ----Pp~~t~fiLit~~~~~il~TI~SRc----~~i~f~~l~~~~~~~~L~  199 (347)
                          |......|-.|+..+ ||.+-+=|.    +++.|+-++++.-..+++
T Consensus       303 DGFss~~~vKviAATNRvD-iLDPALlRSGRLDRKIEfP~Pne~aRarIlQ  352 (424)
T KOG0652         303 DGFSSDDRVKVIAATNRVD-ILDPALLRSGRLDRKIEFPHPNEEARARILQ  352 (424)
T ss_pred             CCCCCCCCEEEEEECCCCC-CCCHHHHHCCCCCCCCCCCCCCHHHHHHHHH
T ss_conf             4899756267885216434-3488886446644443488997789889998


No 197
>KOG0730 consensus
Probab=96.96  E-value=0.015  Score=40.26  Aligned_cols=159  Identities=16%  Similarity=0.167  Sum_probs=88.8

Q ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCC
Q ss_conf             88981663117989888999999999981779988643121012678867999967898754530010001013421232
Q gi|254780217|r   31 GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVI  110 (347)
Q Consensus        31 ~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I  110 (347)
                      -+.|...|.|||||+||+.+++++|+.--|.--.-.+|          ...++....+                      
T Consensus       215 ~~~prg~Ll~gppg~Gkt~l~~aVa~e~~a~~~~i~~p----------eli~k~~gEt----------------------  262 (693)
T KOG0730         215 IKPPRGLLLYGPPGTGKTFLVRAVANEYGAFLFLINGP----------ELISKFPGET----------------------  262 (693)
T ss_pred             CCCCCCCCCCCCCCCCHHHHHHHHHHHHCCEEEECCCH----------HHHHHCCCCH----------------------
T ss_conf             99998744438999981899999999737225740628----------9998524631----------------------


Q ss_pred             CHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH----------HHHHHHHHHHHHCC--CCCCEEEEECCCCCCCHHHH
Q ss_conf             3788755443102221111210353220554240----------00145677766303--43416765044335730252
Q gi|254780217|r  111 TVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR----------NAANALLKSLEEPP--QKVLFILISHASPTILSTIR  178 (347)
Q Consensus       111 ~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~----------~AaNALLK~LEEPp--~~t~fiLit~~~~~il~TI~  178 (347)
                       -...|..-+.......   --++.||+.|.+-.          ...-.||+.+.--+  .+++-+-.|++|+.|-|.+|
T Consensus       263 -e~~LR~~f~~a~k~~~---psii~IdEld~l~p~r~~~~~~e~Rv~sqlltL~dg~~~~~~vivl~atnrp~sld~alR  338 (693)
T KOG0730         263 -ESNLRKAFAEALKFQV---PSIIFIDELDALCPKREGADDVESRVVSQLLTLLDGLKPDAKVIVLAATNRPDSLDPALR  338 (693)
T ss_pred             -HHHHHHHHHHHHCCCC---CEEEEHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCHHHH
T ss_conf             -7789999999866599---807758767623776433324888999999999852767674699971588555685652


Q ss_pred             C-EE-EEEECCCCCHHHHHHHH---HHHCCCCCHHHHHHHHHHCCCCHHHHH
Q ss_conf             0-36-98864799989999999---972788896789999997598978999
Q gi|254780217|r  179 S-RC-LSIKFNSLSENNLYKAL---EQLKIMGWDSKRDFVKIAAYGSVARAI  225 (347)
Q Consensus       179 S-Rc-~~i~f~~l~~~~~~~~L---~~~~~~~~~~~~~~~~~~s~Gs~~~A~  225 (347)
                      - |- +.+-+.-|+.+.-.+++   .+.-...++.+...++..+.|-.|.-+
T Consensus       339 RgRfd~ev~IgiP~~~~RldIl~~l~k~~~~~~~~~l~~iA~~thGyvGaDL  390 (693)
T KOG0730         339 RGRFDREVEIGIPGSDGRLDILRVLTKKMNLLSDVDLEDIAVSTHGYVGADL  390 (693)
T ss_pred             CCCCCCEEEECCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCHHHHHH
T ss_conf             4788531574489833588999999861688725568999987346147879


No 198
>PRK10365 transcriptional regulatory protein ZraR; Provisional
Probab=96.93  E-value=0.0065  Score=43.11  Aligned_cols=155  Identities=17%  Similarity=0.245  Sum_probs=78.8

Q ss_pred             CHHHHCCHHHHHHHHHHHHHC-CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHH--CCCCCCCHHHHHHHC
Q ss_conf             565610929999999999982-88981663117989888999999999981779988643121--012678867999967
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYYCS-GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRM--CNPDPCSPFVKQMAS   86 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~~~-~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~--~~~~~~~~~~~~i~~   86 (347)
                      ....++|+-.+.+.+...+.. .+-.-..|++|++|+||..+|+++=.    ...-...|.-.  |..-+.    ..+++
T Consensus       137 ~~~~liG~S~am~~v~~~i~~~A~s~~pVLI~GE~GTGK~~~Ar~IH~----~S~r~~~pfv~vnC~~l~~----~l~es  208 (441)
T PRK10365        137 SQFGMVGKSPAMQHLLSEIALVAPSEATVLIHGDSGTGKELVARAIHA----SSARSEKPLVTLNCAALNE----SLLES  208 (441)
T ss_pred             CCCCCEECCHHHHHHHHHHHHHHCCCCCEEEECCCCHHHHHHHHHHHH----CCCCCCCCCEEEECCCCCH----HHHHH
T ss_conf             257866689999999999999848899489989998109999999996----5787789807987898984----55589


Q ss_pred             CCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHC---------
Q ss_conf             89875453001000101342123237887554431022211112103532205542400014567776630---------
Q gi|254780217|r   87 HALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEP---------  157 (347)
Q Consensus        87 ~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEP---------  157 (347)
                          .++  .   .+++ ..   -+.+.-+  ...+..  ..|+  ..++|+++.|+...|-.||+.||+-         
T Consensus       209 ----eLF--G---~~~g-af---tga~~~~--~g~~~~--A~gG--TLfLdeI~~l~~~~Q~kLl~~l~~~~~~~~g~~~  269 (441)
T PRK10365        209 ----ELF--G---HEKG-AF---TGADKRR--EGRFVE--ADGG--TLFLDEIGDISPMMQVRLLRAIQEREVQRVGSNQ  269 (441)
T ss_pred             ----HHC--C---CCCC-CC---CCCCCCC--CCCEEE--CCCC--EECCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCC
T ss_conf             ----861--7---7556-87---8965346--898778--8998--2550231529999999999877752100058873


Q ss_pred             --CCCCCEEEEECCCC-------CCCHHHHCE--EEEEECCCCCH
Q ss_conf             --34341676504433-------573025203--69886479998
Q gi|254780217|r  158 --PQKVLFILISHASP-------TILSTIRSR--CLSIKFNSLSE  191 (347)
Q Consensus       158 --p~~t~fiLit~~~~-------~il~TI~SR--c~~i~f~~l~~  191 (347)
                        +-++.+|-.|+..-       ...+-+.-|  +..+.++||.+
T Consensus       270 ~~~~d~RiIaat~~~l~~~v~~g~Fr~dLy~rL~~~~i~lPpLRe  314 (441)
T PRK10365        270 TISVDVRLIAATHRDLAAEVNAGRFRQDLYYRLNVVAIEVPSLRQ  314 (441)
T ss_pred             EEECCCEEEECCCCCHHHHHHCCCCHHHHHHHHCCHHCCCCCCCC
T ss_conf             441363799837889999988198258999886011137826000


No 199
>KOG0478 consensus
Probab=96.93  E-value=0.0055  Score=43.68  Aligned_cols=140  Identities=19%  Similarity=0.207  Sum_probs=80.3

Q ss_pred             HHCCHHHHHHHHHHHHHCCC---CCE--------EEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHH
Q ss_conf             61092999999999998288---981--------6631179898889999999999817799886431210126788679
Q gi|254780217|r   13 RLFGHEDIEKFLSQYYCSGR---MHH--------ALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFV   81 (347)
Q Consensus        13 ~i~G~~~~~~~L~~~~~~~~---l~h--------a~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~   81 (347)
                      .|+||++++.-|.=.+-.|+   +.+        .+|+.|.||+||+.+-...++ |+-.   +-+.-|.-++       
T Consensus       430 sIye~edvKkglLLqLfGGt~k~~~~~~~~R~~INILL~GDPGtsKSqlLqyv~~-l~pR---g~yTSGkGsS-------  498 (804)
T KOG0478         430 SIYELEDVKKGLLLQLFGGTRKEDEKSGRFRGDINILLVGDPGTSKSQLLQYCHR-LLPR---GVYTSGKGSS-------  498 (804)
T ss_pred             HHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCEEEEECCCCCCHHHHHHHHHH-HCCC---CEEECCCCCC-------
T ss_conf             6534422666677887568763223344424552289946998678999999997-4775---4040587630-------


Q ss_pred             HHHHCCCCCCEE-EECCCCHHHCCCCCCCCCHHHHHHHH-HHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHC--
Q ss_conf             999678987545-30010001013421232378875544-31022211112103532205542400014567776630--
Q gi|254780217|r   82 KQMASHALHDFL-YLSYSLNPKTGKWRTVITVDEIRRIR-YFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEP--  157 (347)
Q Consensus        82 ~~i~~~~hpd~~-~i~~~~~~k~~~~~~~I~vd~IR~l~-~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEP--  157 (347)
                             -..+- ++.+  |+            +-|+++ +.-.+-  .++.-||=||+.|+|+.++.+-|+-.||--  
T Consensus       499 -------avGLTayVtr--d~------------dtkqlVLesGALV--LSD~GiCCIDEFDKM~dStrSvLhEvMEQQTv  555 (804)
T KOG0478         499 -------AVGLTAYVTK--DP------------DTRQLVLESGALV--LSDNGICCIDEFDKMSDSTRSVLHEVMEQQTL  555 (804)
T ss_pred             -------HHCCEEEEEE--CC------------CCCEEEEECCCEE--ECCCCEEECHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             -------2200356776--57------------6554665048489--72896577112333327788999999987631


Q ss_pred             -----------CCCCCEEEEECCCC--------------CCCHHHHCEEEEEECC
Q ss_conf             -----------34341676504433--------------5730252036988647
Q gi|254780217|r  158 -----------PQKVLFILISHASP--------------TILSTIRSRCLSIKFN  187 (347)
Q Consensus       158 -----------p~~t~fiLit~~~~--------------~il~TI~SRc~~i~f~  187 (347)
                                 +..|= ||.|-||.              .|+||++||.-.+.+-
T Consensus       556 SIAKAGII~sLNAR~S-VLAaANP~~skynp~k~i~eNI~LpptLLSRFDLIyll  609 (804)
T KOG0478         556 SIAKAGIIASLNARCS-VLAAANPIRSKYNPNKSIIENINLPPTLLSRFDLIFLL  609 (804)
T ss_pred             HHHHCCEEEECCCCCE-EEEEECCCCCCCCCCCCHHHCCCCCHHHHHHHCEEEEE
T ss_conf             1743022342166530-34453543245799976232167880564323378998


No 200
>PRK13531 regulatory ATPase RavA; Provisional
Probab=96.86  E-value=0.0075  Score=42.63  Aligned_cols=112  Identities=15%  Similarity=0.210  Sum_probs=68.6

Q ss_pred             HHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCE
Q ss_conf             61092999999999998288981663117989888999999999981779988643121012678867999967898754
Q gi|254780217|r   13 RLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDF   92 (347)
Q Consensus        13 ~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~   92 (347)
                      -++.-+++++...-+.-+|.  | .++.||||+||+.+|++++..+- ..               +-....+..-+.|+=
T Consensus        21 gl~ERe~~i~l~lLaalage--h-vlllGPPGtAKS~larrl~~~~~-~a---------------~~FeyLltRFstPeE   81 (498)
T PRK13531         21 GLYERSHAIRLCLLAALSGE--S-VFLLGPPGIAKSLIARRLKFAFQ-HA---------------RAFEYLMTRFSTPEE   81 (498)
T ss_pred             HHHHHHHHHHHHHHHHHCCC--C-EEEECCCCHHHHHHHHHHHHHHC-CC---------------HHHHHHHHCCCCHHH
T ss_conf             11446999999999997289--4-69888995138899999999855-74---------------089999874698888


Q ss_pred             EEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCC-CCCCCHHHHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf             5300100010134212323788755443102221-111210353220554240001456777663
Q gi|254780217|r   93 LYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTA-NTGYWRVIMIDPVDGMNRNAANALLKSLEE  156 (347)
Q Consensus        93 ~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~-~~~~~Ki~IId~ad~ln~~AaNALLK~LEE  156 (347)
                      ++=             .++|...|+=......+. ....--|+++|++=+-|.+..|+||-+|-|
T Consensus        82 lFG-------------P~si~~Lk~~g~y~R~t~G~LP~A~iaFLDEIfKansAILNtLLtilNE  133 (498)
T PRK13531         82 VFG-------------PLSIQALKDEGRYERLTSGYLPEAEIVFLDEIWKAGPAILNTLLTAINE  133 (498)
T ss_pred             HCC-------------CCCHHHHHHCCEEEEECCCCCCCCEEEHHHHHHHCCHHHHHHHHHHHHH
T ss_conf             538-------------3329987117848972267588661315787861488999999998646


No 201
>PRK06526 transposase; Provisional
Probab=96.85  E-value=0.0026  Score=46.32  Aligned_cols=118  Identities=15%  Similarity=0.214  Sum_probs=68.0

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHH
Q ss_conf             81663117989888999999999981779988643121012678867999967898754530010001013421232378
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVD  113 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd  113 (347)
                      ++.++|.||+|+||+.+|.+++... |..+                        -  .+.++....           -++
T Consensus        98 ~~Nvil~G~~GtGKThLA~Alg~~A-~~~G------------------------~--~v~f~~~~~-----------L~~  139 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRA-CQAG------------------------H--RVLFATAAQ-----------WVA  139 (254)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHH-HHCC------------------------C--CEEEEEHHH-----------HHH
T ss_conf             8878998999986899999999999-9869------------------------9--679987799-----------999


Q ss_pred             HHHHHHHHCCC---CCCCCCCHHHHHHHHHH--CCHHHHHHHHHHHHHCCCCCCEEEEECCCC--------------CCC
Q ss_conf             87554431022---21111210353220554--240001456777663034341676504433--------------573
Q gi|254780217|r  114 EIRRIRYFLSL---TANTGYWRVIMIDPVDG--MNRNAANALLKSLEEPPQKVLFILISHASP--------------TIL  174 (347)
Q Consensus       114 ~IR~l~~~~~~---~~~~~~~Ki~IId~ad~--ln~~AaNALLK~LEEPp~~t~fiLit~~~~--------------~il  174 (347)
                      +.......-.+   -....+..+.|||+.-.  ++...++.|..++++=-+..=.|++|+.+-              .|+
T Consensus       140 ~L~~a~~~g~~~~~~~~l~~~dLLIiDe~g~~~~~~~~a~~lf~li~~Rye~~S~IiTSn~~~~~W~~~f~D~~la~Ail  219 (254)
T PRK06526        140 RLAAAHHAGRLQDELVKLGRIPLLIVDEVGYIPFEAEAANLFFQLVSSRYERASLIVTSNKPFGRWGEVFGDDVVAAAMI  219 (254)
T ss_pred             HHHHHHHCCCHHHHHHHHHCCCEEEEECCCCCCCCHHHHHHHHHHHHHHHCCCCEEEECCCCHHHHHHHCCCHHHHHHHH
T ss_conf             99998855809999998513687765021364478899999999999997458867665898668888648689999999


Q ss_pred             HHHHCEEEEEECCCC
Q ss_conf             025203698864799
Q gi|254780217|r  175 STIRSRCLSIKFNSL  189 (347)
Q Consensus       175 ~TI~SRc~~i~f~~l  189 (347)
                      .=|.-+|..+.+...
T Consensus       220 DRL~H~a~~i~~~G~  234 (254)
T PRK06526        220 DRLVHHAEVISLKGD  234 (254)
T ss_pred             HHHCCCEEEEEECCC
T ss_conf             986256289984388


No 202
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=96.85  E-value=0.0016  Score=48.06  Aligned_cols=127  Identities=16%  Similarity=0.243  Sum_probs=67.8

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHCCCCCC------CCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCC
Q ss_conf             1663117989888999999999981779988------6431210126788679999678987545300100010134212
Q gi|254780217|r   35 HALLFEGEQGIGKATLGFRYAGHVLQNPDFS------KAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRT  108 (347)
Q Consensus        35 ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~------~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~  108 (347)
                      .--+++|-||+||||++..+...++......      ..|.|.        ...++....+-.+-.+..  .+   ..+.
T Consensus       163 ~~~vIsGGPGTGKTttV~~lLa~l~~~~~~~~l~I~LaAPTGK--------AAaRL~Esi~~~~~~l~~--~~---~~~~  229 (607)
T PRK10875        163 RISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGK--------AAARLTESLGKALRQLPL--TD---EQKK  229 (607)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCEEEEECCHHH--------HHHHHHHHHHHHHHHCCC--CH---HHHH
T ss_conf             7789967999877889999999999964589970899882289--------999999999878753476--65---6663


Q ss_pred             CCCHHHHHHHHHHCCCCCCCCCC----------HHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEE-------CCCC
Q ss_conf             32378875544310222111121----------035322055424000145677766303434167650-------4433
Q gi|254780217|r  109 VITVDEIRRIRYFLSLTANTGYW----------RVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILIS-------HASP  171 (347)
Q Consensus       109 ~I~vd~IR~l~~~~~~~~~~~~~----------Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit-------~~~~  171 (347)
                      .|. ++..-|.+.+...|...++          -|+|||||-++...-..+||+-|   |+++.+||+=       =.+.
T Consensus       230 ~~p-~~a~TiHRLLg~~p~~~~f~~~~~nPL~~DvlIVDEASMVDl~Lm~~LL~Al---p~~aRLILvGD~dQLpSVgaG  305 (607)
T PRK10875        230 RIP-EDASTLHRLLGAQPGSQRLRYHAGNPLHLDVLVVDEASMIDLPMMSRLIDAL---PDHARVIFLGDRDQLASVEAG  305 (607)
T ss_pred             CCC-CCCEEHHHHCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHHHHHHHHC---CCCCEEEEECCHHHCCCCCCC
T ss_conf             376-5566589752967898765657799998898999073366599999999828---999889996562324788888


Q ss_pred             CCCHHHH
Q ss_conf             5730252
Q gi|254780217|r  172 TILSTIR  178 (347)
Q Consensus       172 ~il~TI~  178 (347)
                      .++.-|.
T Consensus       306 aVL~DL~  312 (607)
T PRK10875        306 AVLGDIC  312 (607)
T ss_pred             CCHHHHH
T ss_conf             2179999


No 203
>KOG0727 consensus
Probab=96.84  E-value=0.0033  Score=45.45  Aligned_cols=151  Identities=17%  Similarity=0.136  Sum_probs=75.8

Q ss_pred             CHHHHCCHHHHHHHHHHHHHC------------CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCC------CHHH
Q ss_conf             565610929999999999982------------8898166311798988899999999998177998864------3121
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYYCS------------GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKA------PVRM   71 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~~~------------~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~------~~~~   71 (347)
                      +..+|=|-+-.++....+..-            =..|.+.|+|||||+||+.+|.+.|..--....--.+      ..|+
T Consensus       153 sy~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~firvvgsefvqkylge  232 (408)
T KOG0727         153 SYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAFIRVVGSEFVQKYLGE  232 (408)
T ss_pred             CCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHCCCHHEEEECCHHHHHHHHCC
T ss_conf             41345662112899998883653078899970889986227757999757899999861261114463018999998554


Q ss_pred             CCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHH--HHCCCCCCCCCCHHHHHHHHHHCCHHHHHH
Q ss_conf             012678867999967898754530010001013421232378875544--310222111121035322055424000145
Q gi|254780217|r   72 CNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIR--YFLSLTANTGYWRVIMIDPVDGMNRNAANA  149 (347)
Q Consensus        72 ~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~--~~~~~~~~~~~~Ki~IId~ad~ln~~AaNA  149 (347)
                      - +-.. +..-+++..+.|.+++                 ||+|-.+-  .|=..+...-               +-|-.
T Consensus       233 g-prmv-rdvfrlakenapsiif-----------------ideidaiatkrfdaqtgadr---------------evqri  278 (408)
T KOG0727         233 G-PRMV-RDVFRLAKENAPSIIF-----------------IDEIDAIATKRFDAQTGADR---------------EVQRI  278 (408)
T ss_pred             C-CHHH-HHHHHHHHCCCCCEEE-----------------EEHHHHHHHHHCCCCCCCCH---------------HHHHH
T ss_conf             8-3899-9999987616983798-----------------62245676641244446318---------------99999


Q ss_pred             HHHHHH-----HCCCCCCEEEEECCCCCCCHHHHCEE---EEEECCCCCHHHH
Q ss_conf             677766-----30343416765044335730252036---9886479998999
Q gi|254780217|r  150 LLKSLE-----EPPQKVLFILISHASPTILSTIRSRC---LSIKFNSLSENNL  194 (347)
Q Consensus       150 LLK~LE-----EPp~~t~fiLit~~~~~il~TI~SRc---~~i~f~~l~~~~~  194 (347)
                      |+..|-     ++..|+..|+.|+..+.+-|.+.---   +++.|+-++..+-
T Consensus       279 l~ellnqmdgfdq~~nvkvimatnradtldpallrpgrldrkiefplpdrrqk  331 (408)
T KOG0727         279 LIELLNQMDGFDQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQK  331 (408)
T ss_pred             HHHHHHHCCCCCCCCCEEEEEECCCCCCCCHHHCCCCCCCCCCCCCCCCHHHH
T ss_conf             99999751476766655899832755566876628764344435779854665


No 204
>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=96.78  E-value=0.0021  Score=47.13  Aligned_cols=71  Identities=17%  Similarity=0.357  Sum_probs=53.8

Q ss_pred             HHHHHHHHHCCHHH-------------HHHHHHHHHHCCCCCCEEE--------E------ECCCCCCCHHHHCEE-EEE
Q ss_conf             35322055424000-------------1456777663034341676--------5------044335730252036-988
Q gi|254780217|r  133 VIMIDPVDGMNRNA-------------ANALLKSLEEPPQKVLFIL--------I------SHASPTILSTIRSRC-LSI  184 (347)
Q Consensus       133 i~IId~ad~ln~~A-------------aNALLK~LEEPp~~t~fiL--------i------t~~~~~il~TI~SRc-~~i  184 (347)
                      |++||++|..-..+             |-=||-++|--.=+|..=.        |      -..|+.|+|=+.=|- .++
T Consensus       271 iiFIDEIDKIa~~~~e~S~~DvSrEGVQRDlLPiVEGS~V~TKyG~VkTdHiLFIAaGAF~lAKPSDLIPELQGRfPirV  350 (463)
T TIGR00390       271 IIFIDEIDKIAKKGKESSGADVSREGVQRDLLPIVEGSTVNTKYGSVKTDHILFIAAGAFHLAKPSDLIPELQGRFPIRV  350 (463)
T ss_pred             CEEEECCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCEEECCHHHHHHHHHHCCCCCCCCCCHHHCCCCHHH
T ss_conf             28985303542168886788876556510114202266643100104221578767523202777666631106673778


Q ss_pred             ECCCCCHHHHHHHHHHHCC
Q ss_conf             6479998999999997278
Q gi|254780217|r  185 KFNSLSENNLYKALEQLKI  203 (347)
Q Consensus       185 ~f~~l~~~~~~~~L~~~~~  203 (347)
                      -+..|+.+++..+|.+-..
T Consensus       351 EL~~Lt~~d~~rIL~~p~~  369 (463)
T TIGR00390       351 ELEALTVDDFERILTEPKN  369 (463)
T ss_pred             HHHHHHHHHHHHHHCCCCH
T ss_conf             7676329999996208343


No 205
>KOG0651 consensus
Probab=96.77  E-value=0.0088  Score=42.05  Aligned_cols=55  Identities=20%  Similarity=0.076  Sum_probs=43.6

Q ss_pred             CCCCHHHHCCHHHHHHHHHHHHHC------------CCCCEEEEECCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             587565610929999999999982------------8898166311798988899999999998177
Q gi|254780217|r    7 DPVYNQRLFGHEDIEKFLSQYYCS------------GRMHHALLFEGEQGIGKATLGFRYAGHVLQN   61 (347)
Q Consensus         7 ~p~~~~~i~G~~~~~~~L~~~~~~------------~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~   61 (347)
                      |--+|+.+-|--.+...|...+.-            =+.|-..++|||||.||+-+|++.|..+=|+
T Consensus       127 ~~~s~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~n  193 (388)
T KOG0651         127 RNISFENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGVN  193 (388)
T ss_pred             CCCCHHHHCCHHHHHHHHHHHEEEECCCCHHCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHCCCC
T ss_conf             5467877178388889988655740248100234577788256876799986459999999865985


No 206
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=96.76  E-value=0.02  Score=39.16  Aligned_cols=192  Identities=18%  Similarity=0.177  Sum_probs=108.9

Q ss_pred             CCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCC---CHHHHHH
Q ss_conf             8756561092999999999998288981663117989888999999999981779988643121012678---8679999
Q gi|254780217|r    8 PVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPC---SPFVKQM   84 (347)
Q Consensus         8 p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~---~~~~~~i   84 (347)
                      |..+..---|.+++..+...+..++.=  ...+|+-|.||+.+.++++..+.-     +..|...-+++.   .-.|..+
T Consensus        27 ~~~~~~~a~h~e~l~~l~~~i~d~qg~--~~vtGevGsGKTv~~Ral~~s~~~-----d~~~~v~i~~~~~s~~~~~~ai   99 (269)
T COG3267          27 PGLDYWAADHNEALLMLHAAIADGQGI--LAVTGEVGSGKTVLRRALLASLNE-----DQVAVVVIDKPTLSDATLLEAI   99 (269)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCE--EEEEECCCCCHHHHHHHHHHHCCC-----CCEEEEEECCCCHHHHHHHHHH
T ss_conf             666643200159999977777517855--999744777636999999985578-----8517998357630178899999


Q ss_pred             -HCCCCCCEEEECCCCHHHCCCCCCCCCHH-HHHHHHHHCCCCCCCCCC-HHHHHHHHHHCCHHHHHHHHHHHHHCCCCC
Q ss_conf             -67898754530010001013421232378-875544310222111121-035322055424000145677766303434
Q gi|254780217|r   85 -ASHALHDFLYLSYSLNPKTGKWRTVITVD-EIRRIRYFLSLTANTGYW-RVIMIDPVDGMNRNAANALLKSLEEPPQKV  161 (347)
Q Consensus        85 -~~~~hpd~~~i~~~~~~k~~~~~~~I~vd-~IR~l~~~~~~~~~~~~~-Ki~IId~ad~ln~~AaNALLK~LEEPp~~t  161 (347)
                       ...+          .++     +.+  +. .++.+-+++..---.|++ -+.++|+||.++.++--+|.-..|=--+.+
T Consensus       100 ~~~l~----------~~p-----~~~--~~~~~e~~~~~L~al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~  162 (269)
T COG3267         100 VADLE----------SQP-----KVN--VNAVLEQIDRELAALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSS  162 (269)
T ss_pred             HHHHC----------CCC-----CCH--HHHHHHHHHHHHHHHHHHCCCCEEEEEHHHHHHCHHHHHHHHHHHHHCCCCC
T ss_conf             99840----------583-----200--6889999999999999817887378501676617548999999886203466


Q ss_pred             CE--EEEECCCCCC-------CHHHHCEEEE-EECCCCCHHHHHHHHHHH-------CCCCCHHHHHHHHHHCCCCHHH
Q ss_conf             16--7650443357-------3025203698-864799989999999972-------7888967899999975989789
Q gi|254780217|r  162 LF--ILISHASPTI-------LSTIRSRCLS-IKFNSLSENNLYKALEQL-------KIMGWDSKRDFVKIAAYGSVAR  223 (347)
Q Consensus       162 ~f--iLit~~~~~i-------l~TI~SRc~~-i~f~~l~~~~~~~~L~~~-------~~~~~~~~~~~~~~~s~Gs~~~  223 (347)
                      --  |+..-+|.--       +.-+.=||.. +.++|++.++...+|...       ..-..++...++...+.|-|+.
T Consensus       163 ~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P~~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~l  241 (269)
T COG3267         163 KLLSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPPLTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRL  241 (269)
T ss_pred             CCEEEEECCCCCCCHHHCHHHHHHHHHEEEEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHCCCHHH
T ss_conf             7211455078011435442889854316778995388674789999999985058996667705789999985255489


No 207
>PRK11545 gntK gluconate kinase 1; Provisional
Probab=96.75  E-value=0.0081  Score=42.35  Aligned_cols=33  Identities=21%  Similarity=0.331  Sum_probs=29.4

Q ss_pred             HCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             828898166311798988899999999998177
Q gi|254780217|r   29 CSGRMHHALLFEGEQGIGKATLGFRYAGHVLQN   61 (347)
Q Consensus        29 ~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~   61 (347)
                      .++.-||-+++.|+.|+||+|.|..+|+.+-|.
T Consensus         3 ~~~~~~~iiVVMGVsGsGKSTig~~LA~~l~~~   35 (177)
T PRK11545          3 TTNHDHHIYVLMGVSGSGKSAVASAVAHQLHAA   35 (177)
T ss_pred             CCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCC
T ss_conf             567887599998479899999999999981998


No 208
>KOG1514 consensus
Probab=96.75  E-value=0.076  Score=34.53  Aligned_cols=187  Identities=18%  Similarity=0.261  Sum_probs=103.8

Q ss_pred             HHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCC
Q ss_conf             99999999982889816631179898889999999999817799886431210126788679999678987545300100
Q gi|254780217|r   20 IEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSL   99 (347)
Q Consensus        20 ~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~   99 (347)
                      +...+..++...-..-.+-++|-||+||+.+.+...+.|...                      ...+.-|.+.+++...
T Consensus       408 I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~----------------------s~~~e~p~f~yveINg  465 (767)
T KOG1514         408 IEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTS----------------------SAQKELPKFDYVEING  465 (767)
T ss_pred             HHHHHHHHCCCCCCCEEEEEECCCCCCCEEHHHHHHHHHHHH----------------------HHHCCCCCCCEEEECC
T ss_conf             999999762777774079984699988321299999999987----------------------7505789860798714


Q ss_pred             HHHC------CCCCCCCCH-----HHHHH-HHHHCCCCCCC-CCCHHHHHHHHHHCCHHHHHHHHHHHHHCC-CCCCEEE
Q ss_conf             0101------342123237-----88755-44310222111-121035322055424000145677766303-4341676
Q gi|254780217|r  100 NPKT------GKWRTVITV-----DEIRR-IRYFLSLTANT-GYWRVIMIDPVDGMNRNAANALLKSLEEPP-QKVLFIL  165 (347)
Q Consensus       100 ~~k~------~~~~~~I~v-----d~IR~-l~~~~~~~~~~-~~~Ki~IId~ad~ln~~AaNALLK~LEEPp-~~t~fiL  165 (347)
                      ..-.      +..-..++.     +.--+ +...+. .|-. -.--|++||+.|.|-.-.|--|--+++=|. +++..++
T Consensus       466 m~l~~~~~~Y~~I~~~lsg~~~~~~~al~~L~~~f~-~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvv  544 (767)
T KOG1514         466 LRLASPREIYEKIWEALSGERVTWDAALEALNFRFT-VPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVV  544 (767)
T ss_pred             EEECCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHC-CCCCCCCCEEEEECCHHHHHCCCHHHHHHHHCCCCCCCCCEEE
T ss_conf             461588999999999755574307788999986541-6787878779996357877352098897774077678986699


Q ss_pred             E--ECC---CCCCCH-HHHCEE--EEEECCCCCHHHHHHHHHHHCCCC---CHHHHHHHH---HHCCCCHHHHHHHHC
Q ss_conf             5--044---335730-252036--988647999899999999727888---967899999---975989789998814
Q gi|254780217|r  166 I--SHA---SPTILS-TIRSRC--LSIKFNSLSENNLYKALEQLKIMG---WDSKRDFVK---IAAYGSVARAIKILH  229 (347)
Q Consensus       166 i--t~~---~~~il~-TI~SRc--~~i~f~~l~~~~~~~~L~~~~~~~---~~~~~~~~~---~~s~Gs~~~A~~ll~  229 (347)
                      +  ++.   |++++. -+-||-  +++.|.|-+..++.+++..-....   ...+.++++   ..--|+.++|+.+..
T Consensus       545 i~IaNTmdlPEr~l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL~~~~~f~~~aielvarkVAavSGDaRraldic~  622 (767)
T KOG1514         545 IAIANTMDLPERLLMNRVSSRLGLTRICFQPYTHEQLQEIISARLKGLDAFENKAIELVARKVAAVSGDARRALDICR  622 (767)
T ss_pred             EEECCCCCCHHHHHCCCHHHHCCCEEEECCCCCHHHHHHHHHHHCCCHHHCCHHHHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             995165647798854311233065055137788999999999860315431424899999887750422788889989


No 209
>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=96.75  E-value=0.0045  Score=44.39  Aligned_cols=98  Identities=19%  Similarity=0.290  Sum_probs=53.7

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHH
Q ss_conf             81663117989888999999999981779988643121012678867999967898754530010001013421232378
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVD  113 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd  113 (347)
                      ++.++|+||+|+||+-+|.+++..+. ..+.                          .+.++..+.           -++
T Consensus        47 ~~Nlll~G~~GtGKThLA~Ai~~~~~-~~g~--------------------------~v~f~~~~~-----------L~~   88 (178)
T pfam01695        47 AENLLLLGPPGVGKTHLACALGHQAC-RAGY--------------------------SVLFTRTPD-----------LVE   88 (178)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHH-HCCC--------------------------EEEEEECHH-----------HHH
T ss_conf             87689989999878999999999999-8698--------------------------599996167-----------999


Q ss_pred             HHHHHHHHCCC---CCCCCCCHHHHHHHHHH--CCHHHHHHHHHHHHHCCCCCCEEEEECC
Q ss_conf             87554431022---21111210353220554--2400014567776630343416765044
Q gi|254780217|r  114 EIRRIRYFLSL---TANTGYWRVIMIDPVDG--MNRNAANALLKSLEEPPQKVLFILISHA  169 (347)
Q Consensus       114 ~IR~l~~~~~~---~~~~~~~Ki~IId~ad~--ln~~AaNALLK~LEEPp~~t~fiLit~~  169 (347)
                      ++|.-...-..   -....+.-+.|||+.-.  ++..++.-|..++++=-++.-.|++||.
T Consensus        89 ~l~~~~~~~~~~~~l~~~~~~dlLIiDDlG~~~~s~~~~~~lf~li~~Rye~~stIiTSN~  149 (178)
T pfam01695        89 QLKRARGDGRLARTLQRLAKADLLILDDIGYLPLSQEAAHLLFELISDRYERRSTILTSNL  149 (178)
T ss_pred             HHHHHHHCCCHHHHHHHHHCCCEEEEEHHCCCCCCHHHHHHHHHHHHHHHCCCCEEEECCC
T ss_conf             9998752674999999962589788720016568989999999999999756886877689


No 210
>TIGR02173 cyt_kin_arch cytidylate kinase, putative; InterPro: IPR011892    Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by IPR003136 from INTERPRO.; GO: 0004127 cytidylate kinase activity, 0005524 ATP binding, 0006139 nucleobase nucleoside nucleotide and nucleic acid metabolic process.
Probab=96.73  E-value=0.0014  Score=48.44  Aligned_cols=22  Identities=27%  Similarity=0.409  Sum_probs=20.3

Q ss_pred             EEECCCCCCCHHHHHHHHHHHH
Q ss_conf             6311798988899999999998
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      +.++||||+||||.|..+|+.|
T Consensus         3 I~ISGpPGSGktTvA~~lA~~L   24 (173)
T TIGR02173         3 ITISGPPGSGKTTVAKILAEKL   24 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHC
T ss_conf             8873589686478999999863


No 211
>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=96.72  E-value=0.002  Score=47.27  Aligned_cols=115  Identities=23%  Similarity=0.326  Sum_probs=62.5

Q ss_pred             HHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHH-----HCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEE
Q ss_conf             9999999999828898166311798988899999999998-----17799886431210126788679999678987545
Q gi|254780217|r   19 DIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHV-----LQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFL   93 (347)
Q Consensus        19 ~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~l-----lc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~   93 (347)
                      ++...-.+.+++|+-=|   |.||-|+|||++|+++|+.+     +-..+..-..-+.-              |+...+.
T Consensus         9 ~v~~R~l~yL~~G~PvH---l~GPaG~GKT~LA~hvA~~r~RPV~l~~Gd~eL~~~DLv--------------G~~~g~~   71 (265)
T TIGR02640         9 RVTSRALRYLKSGYPVH---LRGPAGTGKTTLAMHVARKRDRPVVLINGDAELTTSDLV--------------GSYAGYT   71 (265)
T ss_pred             HHHHHHHHHHCCCCCEE---EECCCCCCHHHHHHHHHHHCCCCEEEEECCCCCCCCCCC--------------CCCCCCE
T ss_conf             99998766322788667---447888556899999997368968998658232654423--------------1546752


Q ss_pred             EECCCCHHHCCCCCCCCCHH-HHH--HHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf             30010001013421232378-875--5443102221111210353220554240001456777663
Q gi|254780217|r   94 YLSYSLNPKTGKWRTVITVD-EIR--RIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEE  156 (347)
Q Consensus        94 ~i~~~~~~k~~~~~~~I~vd-~IR--~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEE  156 (347)
                      ... ..|   +-...+.+-| +++  +.=+.+.+.--+|-  -.|-||--+=-..+-|-||=.+||
T Consensus        72 ~~k-v~D---qfihnV~K~~d~~~~~W~D~rLt~Av~eG~--TLVYdEF~RskP~~nNVLLSvlEE  131 (265)
T TIGR02640        72 RKK-VVD---QFIHNVVKLEDIVRQNWVDNRLTLAVREGF--TLVYDEFTRSKPETNNVLLSVLEE  131 (265)
T ss_pred             EEE-EEE---CCEEEEECCCCCCCCCCCCCHHHHHHHCCC--EEEECCCCCCCCHHHHHHHHHHHH
T ss_conf             222-320---121113425122002667835789975697--276647578862045656755552


No 212
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=96.71  E-value=0.037  Score=37.04  Aligned_cols=21  Identities=29%  Similarity=0.483  Sum_probs=17.9

Q ss_pred             EEECCCCCCCHHHHHHHHHHH
Q ss_conf             631179898889999999999
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGH   57 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~   57 (347)
                      ++++||+|+||+|++..+.+.
T Consensus         4 ivl~GpsG~GK~tl~~~l~~~   24 (180)
T TIGR03263         4 IVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
T ss_conf             999899988999999999976


No 213
>PRK07952 DNA replication protein DnaC; Validated
Probab=96.71  E-value=0.0034  Score=45.41  Aligned_cols=57  Identities=16%  Similarity=0.210  Sum_probs=37.1

Q ss_pred             CCCCCCCCCHHHH----CCHHHHHHH---HHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             6655558756561----092999999---9999982889816631179898889999999999817
Q gi|254780217|r    2 IDRAFDPVYNQRL----FGHEDIEKF---LSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus         2 ~~~~~~p~~~~~i----~G~~~~~~~---L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      |..+|+-.+|+..    -||..+...   ....+..+. . ++||+||+|+||+.+|-++|..|+.
T Consensus        59 I~~~~~~~~Feny~~~~~~q~~al~~a~~y~enf~~~~-~-gLlF~G~~GTGKThLA~aIan~Li~  122 (242)
T PRK07952         59 IRPLHQNCSFENYRVECEGQMNALSKARQYVEEFDGNI-A-SFIFSGKPGTGKNHLAAAICNELLL  122 (242)
T ss_pred             CCHHHHCCEEECEECCCHHHHHHHHHHHHHHHHHCCCC-C-EEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             98577288421201587778999999999998654388-7-1799789999789999999999998


No 214
>PRK08181 transposase; Validated
Probab=96.70  E-value=0.0045  Score=44.40  Aligned_cols=118  Identities=14%  Similarity=0.194  Sum_probs=69.3

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHH
Q ss_conf             16631179898889999999999817799886431210126788679999678987545300100010134212323788
Q gi|254780217|r   35 HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDE  114 (347)
Q Consensus        35 ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~  114 (347)
                      ..++|.||+|+||+.+|.+++.... .                        .|-  .+.++...-           -+++
T Consensus       107 ~Nvil~Gp~GtGKThLA~Alg~~A~-~------------------------~G~--~V~f~~~~~-----------L~~~  148 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLALI-E------------------------NGW--RVLFTRTTD-----------LVQK  148 (269)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHH-H------------------------CCC--EEEEEEHHH-----------HHHH
T ss_conf             7089989999878899999999999-8------------------------799--399978999-----------9999


Q ss_pred             HHHHHHHCC---CCCCCCCCHHHHHHHHHHC--CHHHHHHHHHHHHHCCCCCCEEEEECCCC--------------CCCH
Q ss_conf             755443102---2211112103532205542--40001456777663034341676504433--------------5730
Q gi|254780217|r  115 IRRIRYFLS---LTANTGYWRVIMIDPVDGM--NRNAANALLKSLEEPPQKVLFILISHASP--------------TILS  175 (347)
Q Consensus       115 IR~l~~~~~---~~~~~~~~Ki~IId~ad~l--n~~AaNALLK~LEEPp~~t~fiLit~~~~--------------~il~  175 (347)
                      .+.....-.   .-....++.+.||||.-.+  +.+.++.|..++++=-+..=.|++|+.+-              .++.
T Consensus       149 L~~a~~~~~~~~~~~~l~~~dLLIiDe~G~~~~~~~~~~~lf~lI~~Rye~~S~IITSn~~~~~W~~~f~D~~la~AiLD  228 (269)
T PRK08181        149 LQVARRELQLESAIAKLDKFDLLILDDLAYVTKDQAETSVLFELISARYERRSILITANQPFGEWNRVFPDPAMTLAAVD  228 (269)
T ss_pred             HHHHHHCCCHHHHHHHHHCCCEEEEHHCCCCCCCHHHHHHHHHHHHHHHCCCCEEEECCCCHHHHHHHCCCHHHHHHHHH
T ss_conf             99977558399999997444601220105667998999999999999857888899889997788775386889999999


Q ss_pred             HHHCEEEEEECCCCC
Q ss_conf             252036988647999
Q gi|254780217|r  176 TIRSRCLSIKFNSLS  190 (347)
Q Consensus       176 TI~SRc~~i~f~~l~  190 (347)
                      =|.-+|..+.+..-|
T Consensus       229 RLvH~a~~i~l~GeS  243 (269)
T PRK08181        229 RLVHHATIFEMNVES  243 (269)
T ss_pred             HHHCCEEEEEECCCC
T ss_conf             870152899755876


No 215
>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional
Probab=96.69  E-value=0.0067  Score=42.99  Aligned_cols=51  Identities=12%  Similarity=0.244  Sum_probs=34.9

Q ss_pred             CHHHHHHHH-HHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHCEEEEEEC
Q ss_conf             103532205-54240001456777663034341676504433573025203698864
Q gi|254780217|r  131 WRVIMIDPV-DGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKF  186 (347)
Q Consensus       131 ~Ki~IId~a-d~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI~SRc~~i~f  186 (347)
                      -+|+|+||| -.+.......+.+.|++--++...|.|||..+    ||+ .|-++-+
T Consensus       470 p~iliLDEaTSaLD~~tE~~i~~~l~~~~~~~T~i~IaHRls----ti~-~aD~I~v  521 (569)
T PRK10789        470 AEILILDDALSAVDGRTEHQILHNLRQWGEGRTVIISAHRLS----ALT-EASEIIV  521 (569)
T ss_pred             CCEEEECCCCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCHH----HHH-HCCEEEE
T ss_conf             998998087666899999999999999749998999715888----898-5998999


No 216
>PRK12377 putative replication protein; Provisional
Probab=96.68  E-value=0.0039  Score=44.92  Aligned_cols=122  Identities=10%  Similarity=0.106  Sum_probs=62.7

Q ss_pred             CCCHHHHC----CHHHHHHH---HHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH
Q ss_conf             87565610----92999999---999998288981663117989888999999999981779988643121012678867
Q gi|254780217|r    8 PVYNQRLF----GHEDIEKF---LSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF   80 (347)
Q Consensus         8 p~~~~~i~----G~~~~~~~---L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~   80 (347)
                      -.+|+..-    ||..+...   +...+.+  -+|.++|+||||+||+.+|.+++..+... +.                
T Consensus        70 ~~~f~ny~~~~~~~~~a~~~a~~~~~~F~~--~~~NlIf~G~pGtGKTHLA~AIg~~a~~~-G~----------------  130 (248)
T PRK12377         70 KCSFANYQVQNDGQRYALSQAKSIADELMT--GCTNFVFSGKPGTGKNHLAAAIGNRLLAK-GR----------------  130 (248)
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHHHC--CCCEEEEECCCCCCHHHHHHHHHHHHHHC-CC----------------
T ss_conf             386345645787899999999999998731--88608998999987889999999999987-99----------------


Q ss_pred             HHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHC-C---CCCCCCCCHHHHHHHHH--HCCHHHHHHHHHHH
Q ss_conf             999967898754530010001013421232378875544310-2---22111121035322055--42400014567776
Q gi|254780217|r   81 VKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFL-S---LTANTGYWRVIMIDPVD--GMNRNAANALLKSL  154 (347)
Q Consensus        81 ~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~-~---~~~~~~~~Ki~IId~ad--~ln~~AaNALLK~L  154 (347)
                                .+.++..+.           -++++++-...- .   +--...+..+.||||.-  .++..+++-|-.++
T Consensus       131 ----------sVlF~t~~d-----------Lv~~L~~a~~~g~~~~k~l~~l~~~dLLIIDElG~~~~s~~~~~llfqlI  189 (248)
T PRK12377        131 ----------SVIVVTVPD-----------VMSRLHESYDNGQSGEKFLQELCKVDLLVLDEIGIQRETKNEQVVLNQII  189 (248)
T ss_pred             ----------EEEEEEHHH-----------HHHHHHHHHHCCCCHHHHHHHHHCCCEEEEHHCCCCCCCHHHHHHHHHHH
T ss_conf             ----------699988999-----------99999999984850999999973389898600057889867999999999


Q ss_pred             HHC-CCCCCEEEEECC
Q ss_conf             630-343416765044
Q gi|254780217|r  155 EEP-PQKVLFILISHA  169 (347)
Q Consensus       155 EEP-p~~t~fiLit~~  169 (347)
                      .+= -...-.|++||-
T Consensus       190 ~~Ry~~~ks~IiTTNL  205 (248)
T PRK12377        190 DRRTASMRSVGMLTNL  205 (248)
T ss_pred             HHHHHCCCCEEEECCC
T ss_conf             9998557986897589


No 217
>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=96.65  E-value=0.0057  Score=43.60  Aligned_cols=57  Identities=19%  Similarity=0.185  Sum_probs=41.5

Q ss_pred             CCCCCCCHH-HHCCHHHHHHHHHHHHHC----CC-CCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             555587565-610929999999999982----88-9816631179898889999999999817
Q gi|254780217|r    4 RAFDPVYNQ-RLFGHEDIEKFLSQYYCS----GR-MHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus         4 ~~~~p~~~~-~i~G~~~~~~~L~~~~~~----~~-l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      ..+|-+.|+ +++|.++.++.+.+.+++    +. =-..++|+||+|.||++++..+-+.+=.
T Consensus        42 ~i~ry~~F~d~~fG~e~~i~~~V~~~k~AA~g~~~~k~IllL~GPvGsGKStl~~~Lk~~lE~  104 (361)
T smart00763       42 GIKRYRFFDHDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEE  104 (361)
T ss_pred             EEEECCCHHHHHCCCHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             078550110131164899999999999998446712569999889988779999999999998


No 218
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit; InterPro: IPR006344   This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. C-terminal part of the protein matches a domain found in viral RNA helicase, superfamily 1, IPR000606 from INTERPRO. ; GO: 0008854 exodeoxyribonuclease V activity, 0009338 exodeoxyribonuclease V complex.
Probab=96.65  E-value=0.0035  Score=45.28  Aligned_cols=144  Identities=15%  Similarity=0.136  Sum_probs=72.0

Q ss_pred             CHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCC-HHHCCCCCCCHHHHHHH---CCCCCC
Q ss_conf             92999999999998288981663117989888999999999981779988643-12101267886799996---789875
Q gi|254780217|r   16 GHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAP-VRMCNPDPCSPFVKQMA---SHALHD   91 (347)
Q Consensus        16 G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~-~~~~~~~~~~~~~~~i~---~~~hpd   91 (347)
                      |+|.+.-....++++ .+   .|++|-||+|||||+.++-..|.......+.| ...--..|-.+...++.   ...-.+
T Consensus       228 ~~D~Q~~a~~~aL~~-~f---~li~GGPGTGKTTTv~~LL~al~~~~~~~G~~~~~I~l~APTGKAa~RL~esl~~~~~~  303 (753)
T TIGR01447       228 VTDWQKVAVALALKS-NF---SLITGGPGTGKTTTVARLLLALIKQSPKQGKPRLRIALAAPTGKAAARLAESLRKAVKK  303 (753)
T ss_pred             HHHHHHHHHHHHHHC-CE---EEEECCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCHHHHHHHHHHHHHHHHH
T ss_conf             137999999998608-76---89987988977899999999999989864997404788668447999999999988632


Q ss_pred             EEEECCCCHHHCCCCCCCCCHHHHHHHHH-HC-CCCCCCC------CCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCC-
Q ss_conf             45300100010134212323788755443-10-2221111------210353220554240001456777663034341-
Q gi|254780217|r   92 FLYLSYSLNPKTGKWRTVITVDEIRRIRY-FL-SLTANTG------YWRVIMIDPVDGMNRNAANALLKSLEEPPQKVL-  162 (347)
Q Consensus        92 ~~~i~~~~~~k~~~~~~~I~vd~IR~l~~-~~-~~~~~~~------~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~-  162 (347)
                      +..-....+++. ...-.+.+..|-.+.. .. ....+..      ..=|+|||||-+++..=   |.|.++==|++|. 
T Consensus       304 L~~~~~aid~~~-~~~~~~~~~TiHrLLG~~~I~~~~fr~h~~N~L~~DVLvvDEaSMVdl~l---m~kL~~A~~~~~k~  379 (753)
T TIGR01447       304 LAAENMAIDEDL-IAALPSEATTIHRLLGIKPIDTKRFRHHERNPLPLDVLVVDEASMVDLPL---MAKLLKALPPNTKD  379 (753)
T ss_pred             HHHHCCCCCHHH-HCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCEEEECCCHHCCHHH---HHHHHHHCCCCCCC
T ss_conf             234236658798-54872045688886166147876776777788985527870600226799---99999722630013


Q ss_pred             -------EEEEE
Q ss_conf             -------67650
Q gi|254780217|r  163 -------FILIS  167 (347)
Q Consensus       163 -------fiLit  167 (347)
                             .||+=
T Consensus       380 ~KLy~~~LIllG  391 (753)
T TIGR01447       380 KKLYADRLILLG  391 (753)
T ss_pred             CCHHHCCCCEEC
T ss_conf             201010200122


No 219
>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1.  In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD.  MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.
Probab=96.63  E-value=0.0033  Score=45.46  Aligned_cols=52  Identities=17%  Similarity=0.291  Sum_probs=37.7

Q ss_pred             CCHHHHHHHHH-HCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHCEEEEEEC
Q ss_conf             21035322055-4240001456777663034341676504433573025203698864
Q gi|254780217|r  130 YWRVIMIDPVD-GMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKF  186 (347)
Q Consensus       130 ~~Ki~IId~ad-~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI~SRc~~i~f  186 (347)
                      ..+|+|+||+- .|...+...+.+.|.+-.++...|+|||+.+    |++ .|-++-+
T Consensus       157 ~~~ililDE~tsaLD~~te~~i~~~l~~~~~~~TvI~ItHrl~----~l~-~~D~Iiv  209 (238)
T cd03249         157 NPKILLLDEATSALDAESEKLVQEALDRAMKGRTTIVIAHRLS----TIR-NADLIAV  209 (238)
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHHHHCCCEEEEECCCHH----HHH-HCCEEEE
T ss_conf             9999999787667899999999999999809998999848888----998-5999999


No 220
>PRK00300 gmk guanylate kinase; Provisional
Probab=96.63  E-value=0.031  Score=37.69  Aligned_cols=22  Identities=23%  Similarity=0.312  Sum_probs=18.3

Q ss_pred             EEEECCCCCCCHHHHHHHHHHH
Q ss_conf             6631179898889999999999
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAGH   57 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~~   57 (347)
                      -++++||+|+||+|++..+.+.
T Consensus         9 livisGPSG~GK~tl~~~L~~~   30 (208)
T PRK00300          9 LIVLSAPSGAGKSTLVRALLER   30 (208)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
T ss_conf             8999999988999999999972


No 221
>PRK08116 hypothetical protein; Validated
Probab=96.62  E-value=0.0039  Score=44.89  Aligned_cols=59  Identities=22%  Similarity=0.271  Sum_probs=37.4

Q ss_pred             CCCCCCCCCHHHH---CCHHHHHHH---HHHHHH-CCCCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             6655558756561---092999999---999998-2889816631179898889999999999817
Q gi|254780217|r    2 IDRAFDPVYNQRL---FGHEDIEKF---LSQYYC-SGRMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus         2 ~~~~~~p~~~~~i---~G~~~~~~~---L~~~~~-~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      +..+++-.+|+..   -|++.+.+.   ..+.|. .+.-+.+++|+|++|+||+-+|.++|..++.
T Consensus        69 i~~~f~~~tFeN~~~~~~~~~a~~~a~~Y~~~f~~~~~~~~GLll~G~~GtGKThLa~aIa~~l~~  134 (262)
T PRK08116         69 LDEKFRNSTFENWLFRKGSEKAYKVAVKYVKKFEEMKKESVGLLLWGSPGNGKTYLAAAIANELIE  134 (262)
T ss_pred             CCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             998898192225568952599999999999989873646861899898999899999999999998


No 222
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I; InterPro: IPR011775    This entry represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll . This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. It is also found in certain archaea not known to make chlorins.; GO: 0005524 ATP binding, 0016851 magnesium chelatase activity, 0006779 porphyrin biosynthetic process.
Probab=96.61  E-value=0.0026  Score=46.27  Aligned_cols=194  Identities=14%  Similarity=0.156  Sum_probs=106.4

Q ss_pred             HHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCC---CCCHHHHHHHCC
Q ss_conf             65610929999999999982889816631179898889999999999817799886431210126---788679999678
Q gi|254780217|r   11 NQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPD---PCSPFVKQMASH   87 (347)
Q Consensus        11 ~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~---~~~~~~~~i~~~   87 (347)
                      |+-|+||++.+..|.=..-.-++.- .|+.|.+|+||+|+.+++|..|=-=..-.+.|.+ |+++   ..++.|+...+.
T Consensus         3 F~AIVGQ~emKlAllL~vidP~IGG-VmvmGdRGTgKSTavRALAalLP~IkaVagcP~n-~~Ps~~~~~c~e~r~~~~~   80 (340)
T TIGR02030         3 FSAIVGQEEMKLALLLTVIDPKIGG-VMVMGDRGTGKSTAVRALAALLPEIKAVAGCPFN-SAPSDREELCEEVRILEDS   80 (340)
T ss_pred             CEEEECHHHHHHHHHHEEECCCCCE-EEEECCCCCCHHHHHHHHHHHCCCEEEECCCCCC-CCCCCCCCCCHHHHHHHHC
T ss_conf             3156416888777752000688562-8886778983568999999749940786176878-8888861357677775312


Q ss_pred             ----CCCCEEEECCCCHH--HCCCCCCCCCHHHH-HHHHHHCCCCCCC------CCCHHHHHHHHHHCCH-------HHH
Q ss_conf             ----98754530010001--01342123237887-5544310222111------1210353220554240-------001
Q gi|254780217|r   88 ----ALHDFLYLSYSLNP--KTGKWRTVITVDEI-RRIRYFLSLTANT------GYWRVIMIDPVDGMNR-------NAA  147 (347)
Q Consensus        88 ----~hpd~~~i~~~~~~--k~~~~~~~I~vd~I-R~l~~~~~~~~~~------~~~Ki~IId~ad~ln~-------~Aa  147 (347)
                          ..|-++....+.-+  =+-..=.+.+-=|| |.|.+-.  ++|+      ..+=+.-|||+-.|..       ++|
T Consensus        81 ~Gkt~~~~~i~~pvpvVDLPLGaTEDRVcGtlDIerALt~Gv--kAFePGLLArANRG~LYiDEVNLLeDHlVDvLLDvA  158 (340)
T TIGR02030        81 SGKTKKLAVIEKPVPVVDLPLGATEDRVCGTLDIERALTEGV--KAFEPGLLARANRGYLYIDEVNLLEDHLVDVLLDVA  158 (340)
T ss_pred             CCCCCCCEEEECCCCEEECCCCCCCCCEECHHHHHHHHHCCC--CCCCCCCHHHHCCCCEEEEEEHHHHHHHHHHHHHHC
T ss_conf             686567515515765364798862131344024767750472--103663046661784255210001245665665220


Q ss_pred             HHHHHHHH-------HCCCCCCEEEE-ECCCC--CCCHHHHCEE-EEEECCCCCHHHH-HHHHHHHCCCCCHHHHHH
Q ss_conf             45677766-------30343416765-04433--5730252036-9886479998999-999997278889678999
Q gi|254780217|r  148 NALLKSLE-------EPPQKVLFILI-SHASP--TILSTIRSRC-LSIKFNSLSENNL-YKALEQLKIMGWDSKRDF  212 (347)
Q Consensus       148 NALLK~LE-------EPp~~t~fiLi-t~~~~--~il~TI~SRc-~~i~f~~l~~~~~-~~~L~~~~~~~~~~~~~~  212 (347)
                      .+=--+.|       =|   ..|+|+ |-||+  .|=|=++-|- .+..++.+.+-+. .+++++ ..+++.+...+
T Consensus       159 asG~NvVEREG~SiRHP---ARFVLVGSGNPEEGeLRPQLLDRFGlhaeirt~rdve~RVeiv~r-R~eyDadp~aF  231 (340)
T TIGR02030       159 ASGVNVVEREGVSIRHP---ARFVLVGSGNPEEGELRPQLLDRFGLHAEIRTVRDVEERVEIVKR-RDEYDADPFAF  231 (340)
T ss_pred             CCCCEEEEECCEEEECC---CCEEEECCCCCCCCCCCCHHHHHCCCEEEEECCCCHHHHHHHEEE-HHHHCCCCCHH
T ss_conf             47830586356023037---635871578887666674015244652787226772220122010-03317788534


No 223
>KOG2543 consensus
Probab=96.54  E-value=0.055  Score=35.62  Aligned_cols=179  Identities=13%  Similarity=0.103  Sum_probs=101.5

Q ss_pred             HHHHCCHHHHHHHHHHHHHCC--CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCC
Q ss_conf             656109299999999999828--898166311798988899999999998177998864312101267886799996789
Q gi|254780217|r   11 NQRLFGHEDIEKFLSQYYCSG--RMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHA   88 (347)
Q Consensus        11 ~~~i~G~~~~~~~L~~~~~~~--~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~   88 (347)
                      -..+.+-+.++..|...+-.+  ++|-.+.++|-.|+||+.+.+.+-+..  +.....-.|-.|-.-  ......|.+.+
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~--n~~~vw~n~~ecft~--~~lle~IL~~~   80 (438)
T KOG2543           5 EPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKL--NLENVWLNCVECFTY--AILLEKILNKS   80 (438)
T ss_pred             CCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHC--CCCCEEEEHHHHCCH--HHHHHHHHHHH
T ss_conf             56765468999999998478986665157996147874559999998603--786305415775167--99999999873


Q ss_pred             CCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCC-C-CCCH-HHHHHHHHHCCHHHHHH---HHHHHHHCC-CCC
Q ss_conf             875453001000101342123237887554431022211-1-1210-35322055424000145---677766303-434
Q gi|254780217|r   89 LHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTAN-T-GYWR-VIMIDPVDGMNRNAANA---LLKSLEEPP-QKV  161 (347)
Q Consensus        89 hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~-~-~~~K-i~IId~ad~ln~~AaNA---LLK~LEEPp-~~t  161 (347)
                      .    .    .+..  ..+..+.-+-+-..+..+...+. . .+.+ ++|+|+||.+..-.+|-   |++.=|=-+ ..+
T Consensus        81 ~----~----~d~d--g~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~~i  150 (438)
T KOG2543          81 Q----L----ADKD--GDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLNEPTI  150 (438)
T ss_pred             C----C----CCCC--HHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHCCCHHHHHHHHHHHHHHCCCCE
T ss_conf             5----6----7874--0555427999999999998447764467449999747776630650788999989987377736


Q ss_pred             CEEEEECCCCCCCH--HHHCEEEEEECCCCCHHHHHHHHHHHCC
Q ss_conf             16765044335730--2520369886479998999999997278
Q gi|254780217|r  162 LFILISHASPTILS--TIRSRCLSIKFNSLSENNLYKALEQLKI  203 (347)
Q Consensus       162 ~fiLit~~~~~il~--TI~SRc~~i~f~~l~~~~~~~~L~~~~~  203 (347)
                      .|+|+..-..+.-.  |=.+--..+.|+..+.+++.+++....+
T Consensus       151 ~iils~~~~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~~p  194 (438)
T KOG2543         151 VIILSAPSCEKQYLINTGTLEIVVLHFPQYSVEETQVILSRDNP  194 (438)
T ss_pred             EEEEECCCCHHHHHCCCCCCCCEEEECCCCCHHHHHHHHHCCCC
T ss_conf             99983266677752146777864785387788999999841783


No 224
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=96.53  E-value=0.012  Score=40.99  Aligned_cols=132  Identities=15%  Similarity=0.142  Sum_probs=57.4

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCC----CCHHHHHHHC-CCCC---CEEEECCCCH----HH
Q ss_conf             166311798988899999999998177998864312101267----8867999967-8987---5453001000----10
Q gi|254780217|r   35 HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP----CSPFVKQMAS-HALH---DFLYLSYSLN----PK  102 (347)
Q Consensus        35 ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~----~~~~~~~i~~-~~hp---d~~~i~~~~~----~k  102 (347)
                      ...++.||.|.|||..+..++....-......  .  .-..+    ....+..+.. +.+.   ....+....-    ++
T Consensus        25 ~~~~i~~~tGsGKT~~~~~~~~~~~~~~~~~~--~--li~~P~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (201)
T smart00487       25 RDVILAAPTGSGKTLAALLPALEALKRGKGKR--V--LVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGGDSKREQLRK  100 (201)
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHHHHCCCCCE--E--EEEECCHHHHHHHHHHHHHCCCCCEEEEEEEECCCCHHHHHHH
T ss_conf             98899899996099999999999863389975--9--9990859999999988601021020445565247737999999


Q ss_pred             CCCCCCCCCHHHHHHHHHHCCCC-CCCCCCHHHHHHHHHHCCHHHHHHHHHHHHH-CCCCCCEEEEECCC
Q ss_conf             13421232378875544310222-1111210353220554240001456777663-03434167650443
Q gi|254780217|r  103 TGKWRTVITVDEIRRIRYFLSLT-ANTGYWRVIMIDPVDGMNRNAANALLKSLEE-PPQKVLFILISHAS  170 (347)
Q Consensus       103 ~~~~~~~I~vd~IR~l~~~~~~~-~~~~~~Ki~IId~ad~ln~~AaNALLK~LEE-Pp~~t~fiLit~~~  170 (347)
                      .......|.|-.+..+...+... .....+.++||||||.+..+.....+..+-+ -+++..+++.|..+
T Consensus       101 ~~~~~~~i~i~t~~~l~~~~~~~~~~~~~~~~vIiDE~H~~~~~~~~~~~~~~~~~~~~~~~~i~lSAT~  170 (201)
T smart00487      101 LESGKTDILVTTPGRLLDLLENDLLELSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATP  170 (201)
T ss_pred             HHCCCCCEEEECHHHHHHHHHHCCCCCCCCEEEEEECHHHHHCCCCHHHHHHHHHHCCCCCCEEEECCCC
T ss_conf             9759998999558999999972754525431999989677512570999999999679999789992489


No 225
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=96.53  E-value=0.0041  Score=44.69  Aligned_cols=147  Identities=16%  Similarity=0.193  Sum_probs=76.8

Q ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCC-CCCCEEEECCCCHHHC-------
Q ss_conf             89816631179898889999999999817799886431210126788679999678-9875453001000101-------
Q gi|254780217|r   32 RMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASH-ALHDFLYLSYSLNPKT-------  103 (347)
Q Consensus        32 ~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~-~hpd~~~i~~~~~~k~-------  103 (347)
                      ++++-+.++|+||+||+|++..+|..|-..+   ...+|...+        .+..| .--.+-.++....+++       
T Consensus         3 ~~~mki~ITG~PGvGKtTl~~ki~e~L~~~g---~kvgGf~t~--------EVR~gGkR~GF~Ivdl~tg~~~~la~~~~   71 (179)
T COG1618           3 KMAMKIFITGRPGVGKTTLVLKIAEKLREKG---YKVGGFITP--------EVREGGKRIGFKIVDLATGEEGILARVGF   71 (179)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC---CEEEEEEEE--------EEECCCEEEEEEEEECCCCCEEEEEECCC
T ss_conf             7545999867998458999999999998559---665139831--------14208827515999814795579888478


Q ss_pred             CCC---CCCCCHHHHHH-HHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCC-EEEEEC--CCCCCCHH
Q ss_conf             342---12323788755-443102221111210353220554240001456777663034341-676504--43357302
Q gi|254780217|r  104 GKW---RTVITVDEIRR-IRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVL-FILISH--ASPTILST  176 (347)
Q Consensus       104 ~~~---~~~I~vd~IR~-l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~-fiLit~--~~~~il~T  176 (347)
                      ++.   +=..-+|..-+ .+..+.. +... ..|+|||++-.| .-..+.+.+.+||--+... .|-+-|  ..+-++.-
T Consensus        72 ~~~rvGkY~V~v~~le~i~~~al~r-A~~~-aDvIIIDEIGpM-Elks~~f~~~ve~vl~~~kpliatlHrrsr~P~v~~  148 (179)
T COG1618          72 SRPRVGKYGVNVEGLEEIAIPALRR-ALEE-ADVIIIDEIGPM-ELKSKKFREAVEEVLKSGKPLIATLHRRSRHPLVQR  148 (179)
T ss_pred             CCCCCCEEEEEHHHHHHHHHHHHHH-HHHC-CCEEEEECCCCH-HHCCHHHHHHHHHHHCCCCCEEEEEECCCCCHHHHH
T ss_conf             8762104786278889986899998-8634-998999433633-020088999999996589937999962567758998


Q ss_pred             HHCEEEEEE-CCCCCHH
Q ss_conf             520369886-4799989
Q gi|254780217|r  177 IRSRCLSIK-FNSLSEN  192 (347)
Q Consensus       177 I~SRc~~i~-f~~l~~~  192 (347)
                      |+++--.+- +.|-+.+
T Consensus       149 ik~~~~v~v~lt~~NR~  165 (179)
T COG1618         149 IKKLGGVYVFLTPENRN  165 (179)
T ss_pred             HHHCCCEEEEECCCHHH
T ss_conf             64248779997512156


No 226
>PRK10536 hypothetical protein; Provisional
Probab=96.53  E-value=0.0089  Score=42.02  Aligned_cols=149  Identities=15%  Similarity=0.196  Sum_probs=77.5

Q ss_pred             CCCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHH
Q ss_conf             66555587565610929999999999982889816631179898889999999999817799886431210126788679
Q gi|254780217|r    2 IDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFV   81 (347)
Q Consensus         2 ~~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~   81 (347)
                      |.+.-+++.-..|.......+.+.+++..+.+   .+-.||.|+|||-+|.+.|-..|-......--   ...    |  
T Consensus        45 ~~~~~~~~~~~pi~pkt~~Q~~yi~~i~~~~i---vf~~GpAGTGKT~lA~a~Al~~l~~~~~~kII---ltR----P--  112 (262)
T PRK10536         45 IGMARDSRDTSPILARNEAQLHYLKAIESKQL---IFATGEAGCGKTWISAAKAAEALIHKDVDRII---VTR----P--  112 (262)
T ss_pred             HHHHCCCCCCCCCCCCCHHHHHHHHHHHHCCE---EEEECCCCCCHHHHHHHHHHHHHHHCCCCEEE---EEC----C--
T ss_conf             43302678899867898649999999861983---99989998758999999999999858886899---966----7--


Q ss_pred             HHHHCCCCCCEEEECCCCHHHCCC--------CCCCCCHHHHHHH-------HHHCCCCCCCC---CCHHHHHHHHHHCC
Q ss_conf             999678987545300100010134--------2123237887554-------43102221111---21035322055424
Q gi|254780217|r   82 KQMASHALHDFLYLSYSLNPKTGK--------WRTVITVDEIRRI-------RYFLSLTANTG---YWRVIMIDPVDGMN  143 (347)
Q Consensus        82 ~~i~~~~hpd~~~i~~~~~~k~~~--------~~~~I~vd~IR~l-------~~~~~~~~~~~---~~Ki~IId~ad~ln  143 (347)
                       .+..|.  |+=++.-..++|-..        ....++.+.+..+       ++...+.-..|   ...++|+|||.+||
T Consensus       113 -~V~~ge--~lGfLPGdl~EK~~Pyl~Pi~D~L~~~lg~~~~~~~~~~e~G~Iei~PlafmRGrTf~na~IIvDEaQN~T  189 (262)
T PRK10536        113 -VLQADE--DLGFLPGDIAEKFAPYFRPVYDVLVRRLGASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVT  189 (262)
T ss_pred             -CCCCCC--CCCCCCCCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHCCCEEEEEHHHHCCCCCCCEEEEEEHHHCCC
T ss_conf             -875676--66769898799887888789999999968599999987305948998758744775144289984121289


Q ss_pred             HHHHHHHHHHHHHCCCCCCEEEEEC
Q ss_conf             0001456777663034341676504
Q gi|254780217|r  144 RNAANALLKSLEEPPQKVLFILISH  168 (347)
Q Consensus       144 ~~AaNALLK~LEEPp~~t~fiLit~  168 (347)
                      ....-.+|-=+-   .++.+|++-.
T Consensus       190 ~~qmk~iLTRiG---~~SKiVi~GD  211 (262)
T PRK10536        190 AAQMKMFLTRLG---ENVTVIVNGD  211 (262)
T ss_pred             HHHHHHHHHHCC---CCCEEEEECC
T ss_conf             999988985425---9968999688


No 227
>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=96.49  E-value=0.11  Score=33.30  Aligned_cols=156  Identities=17%  Similarity=0.147  Sum_probs=88.2

Q ss_pred             CCHHHHCCHHHHHHHHHHHHHCC------------CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCC
Q ss_conf             75656109299999999999828------------898166311798988899999999998177998864312101267
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYCSG------------RMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP   76 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~~~------------~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~   76 (347)
                      ..+.++=|-++..+.+...+.--            ..|.+.|++||||+||+.+|.++|...-...-.-++|.-.     
T Consensus       203 vtyediG~l~e~~~~~re~~elP~~hPe~f~~lGiePPkG~ll~GPPGtGktllaka~ane~~a~f~~inGPeim-----  277 (980)
T TIGR01243       203 VTYEDIGGLKEAVKKIREMVELPLKHPELFEKLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFIAINGPEIM-----  277 (980)
T ss_pred             CCHHHCCCHHHHHHHHHHHHHCCCCCHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHCCCEEEEECCCHHH-----
T ss_conf             203320335899999999884357564789861889987358755898617899999875305517885060344-----


Q ss_pred             CCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-----------H
Q ss_conf             88679999678987545300100010134212323788755443102221111210353220554240-----------0
Q gi|254780217|r   77 CSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR-----------N  145 (347)
Q Consensus        77 ~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-----------~  145 (347)
                           .+....                       +-+..|++-+..    .++.--|++||++|.+..           .
T Consensus       278 -----sky~Ge-----------------------~e~~lr~if~ea----eenaP~iifideidaiaPkr~e~~Geve~r  325 (980)
T TIGR01243       278 -----SKYYGE-----------------------SEERLREIFKEA----EENAPSIIFIDEIDAIAPKREEVTGEVEKR  325 (980)
T ss_pred             -----HHHCCC-----------------------CHHHHHHHHHHH----HHCCCCEEEEECHHHCCCCCCCHHHHHHHH
T ss_conf             -----331363-----------------------078999999865----305870787412110076410000168899


Q ss_pred             HHHHHHHHHHHCCC--CCCEEEEECCCCCCCHHHHCEE---EEEECCCCCHHHHHHHHHHH
Q ss_conf             01456777663034--3416765044335730252036---98864799989999999972
Q gi|254780217|r  146 AANALLKSLEEPPQ--KVLFILISHASPTILSTIRSRC---LSIKFNSLSENNLYKALEQL  201 (347)
Q Consensus       146 AaNALLK~LEEPp~--~t~fiLit~~~~~il~TI~SRc---~~i~f~~l~~~~~~~~L~~~  201 (347)
                      -..-||-.+.---.  .++.|=.|+.|+.+-|.+|--.   +.+.+..|+...-.++|+-.
T Consensus       326 ~v~qlltlmdGlk~rG~v~viGatnrP~a~dPalrrPGrfdrei~~~~Pd~~~r~eil~~h  386 (980)
T TIGR01243       326 VVAQLLTLMDGLKGRGKVIVIGATNRPDALDPALRRPGRFDREIEIGVPDKEGRKEILQIH  386 (980)
T ss_pred             HHHHHHHHHHHHCCCCEEEEEECCCCCCCCCHHHCCCCCCCCEEEECCCCHHHHHHHHHHH
T ss_conf             9999999974002487289981468850026224278864433574188545678888764


No 228
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=96.48  E-value=0.0072  Score=42.73  Aligned_cols=138  Identities=22%  Similarity=0.225  Sum_probs=71.4

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCC-CCCHHHHHHHCC--------CCCCEEEECCCCHHHCC
Q ss_conf             816631179898889999999999817799886431210126-788679999678--------98754530010001013
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPD-PCSPFVKQMASH--------ALHDFLYLSYSLNPKTG  104 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~-~~~~~~~~i~~~--------~hpd~~~i~~~~~~k~~  104 (347)
                      +..+|+.|.+|+||+.++.+|+...+.+...    |--.+.. ......+++++-        .+-.+.+++...-    
T Consensus        24 gs~~li~G~~GtGKsi~~~~~~~~~l~~g~~----~~yis~e~t~~~~i~qm~s~g~di~~~~~~G~l~~i~~~~~----   95 (230)
T PRK08533         24 GSIILIEGDESTGKSILSQRLAYGFLQNGYS----VSYVSSQLTTTEFIKQMMSLGYDINKKLISGKLLYIPVYPL----   95 (230)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHCCCE----EEEEEECCCHHHHHHHHHHCCCCCHHHHHCCCEEEEECCCC----
T ss_conf             8489998689987899999999999878986----99999438999999999986998179975796799961343----


Q ss_pred             CCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHC-----CHHHHHHHHHHHHHCCCCCCEEEEECCCCCC----CH
Q ss_conf             42123237887554431022211112103532205542-----4000145677766303434167650443357----30
Q gi|254780217|r  105 KWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGM-----NRNAANALLKSLEEPPQKVLFILISHASPTI----LS  175 (347)
Q Consensus       105 ~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~l-----n~~AaNALLK~LEEPp~~t~fiLit~~~~~i----l~  175 (347)
                          .....+-++....+-..+......|+|||....+     +.++...++..+..--+....|++|-+|..+    +.
T Consensus        96 ----~~~~~~~~~~L~~ll~~~~~~~~dvIIIDSlS~l~~~~~~~~~~~~~~~~lk~l~s~gktIilTv~p~~~~e~~l~  171 (230)
T PRK08533         96 ----LSGNSEKRDFLDKLMNTRRFYEKDVVIIDSLSSLVSRDASEVQIRDLMAFFKRISSLNKVIILTANPKELPESVLL  171 (230)
T ss_pred             ----CCCHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHCCCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCHHHHH
T ss_conf             ----3540457899999973266437989999053188516777899999999999998589889999563313624544


Q ss_pred             HHHCEEEE
Q ss_conf             25203698
Q gi|254780217|r  176 TIRSRCLS  183 (347)
Q Consensus       176 TI~SRc~~  183 (347)
                      .+||=|-.
T Consensus       172 ~lrs~aDv  179 (230)
T PRK08533        172 ILRTASTI  179 (230)
T ss_pred             HHHEEEEE
T ss_conf             20410489


No 229
>KOG0726 consensus
Probab=96.47  E-value=0.017  Score=39.84  Aligned_cols=154  Identities=19%  Similarity=0.199  Sum_probs=83.6

Q ss_pred             CCHHHHCCHHHHHHHHHHHHHC------------CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCC
Q ss_conf             7565610929999999999982------------8898166311798988899999999998177998864312101267
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYCS------------GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP   76 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~~------------~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~   76 (347)
                      -+++++=|-+..++.++.+..-            -+.|.+.++||+||.||+.+|.+.|..--.      .-.....++.
T Consensus       182 Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSA------TFlRvvGseL  255 (440)
T KOG0726         182 ETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSA------TFLRVVGSEL  255 (440)
T ss_pred             HHHCCCCCHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHCCCCH------HHHHHHHHHH
T ss_conf             1113442578999999986338889878999728899970588679997536888877245521------2455650899


Q ss_pred             -------CCHHHH---HHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHH
Q ss_conf             -------886799---9967898754530010001013421232378875544310222111121035322055424000
Q gi|254780217|r   77 -------CSPFVK---QMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNA  146 (347)
Q Consensus        77 -------~~~~~~---~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~A  146 (347)
                             --+.+|   +++....|.+++|                 |+|-.+...-+-+ ..|+.            .+-
T Consensus       256 iQkylGdGpklvRqlF~vA~e~apSIvFi-----------------DEIdAiGtKRyds-~Sgge------------rEi  305 (440)
T KOG0726         256 IQKYLGDGPKLVRELFRVAEEHAPSIVFI-----------------DEIDAIGTKRYDS-NSGGE------------REI  305 (440)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHCCCCEEEE-----------------EHHHHHCCCCCCC-CCCHH------------HHH
T ss_conf             99873655199999998887529826986-----------------4001104521347-88507------------899


Q ss_pred             HHHHHHHHH-----HCCCCCCEEEEECCCCCCCHHH-HCEE--EEEECCCCCHHHHHHHH
Q ss_conf             145677766-----3034341676504433573025-2036--98864799989999999
Q gi|254780217|r  147 ANALLKSLE-----EPPQKVLFILISHASPTILSTI-RSRC--LSIKFNSLSENNLYKAL  198 (347)
Q Consensus       147 aNALLK~LE-----EPp~~t~fiLit~~~~~il~TI-~SRc--~~i~f~~l~~~~~~~~L  198 (347)
                      |-.+|-.|-     +-...+..|+.|+..+.+-|.+ |--+  +++-|.-++...-++++
T Consensus       306 QrtmLELLNQldGFdsrgDvKvimATnrie~LDPaLiRPGrIDrKIef~~pDe~TkkkIf  365 (440)
T KOG0726         306 QRTMLELLNQLDGFDSRGDVKVIMATNRIETLDPALIRPGRIDRKIEFPLPDEKTKKKIF  365 (440)
T ss_pred             HHHHHHHHHHCCCCCCCCCEEEEEECCCCCCCCHHHCCCCCCCCCCCCCCCCHHHHCEEE
T ss_conf             999999987426866567758997416534467755278754311125797556323156


No 230
>PRK11176 lipid transporter ATP-binding/permease protein; Provisional
Probab=96.44  E-value=0.0067  Score=43.00  Aligned_cols=51  Identities=18%  Similarity=0.304  Sum_probs=33.8

Q ss_pred             CHHHHHHHHH-HCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHCEEEEEEC
Q ss_conf             1035322055-4240001456777663034341676504433573025203698864
Q gi|254780217|r  131 WRVIMIDPVD-GMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKF  186 (347)
Q Consensus       131 ~Ki~IId~ad-~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI~SRc~~i~f  186 (347)
                      -+|+|+||+= .+..++...+.+.|++-.++...|+|||+.+    ||+. |-++-+
T Consensus       498 ~~iliLDE~TSalD~~te~~i~~~l~~~~~~~Tvi~IaHrl~----~i~~-~D~I~v  549 (581)
T PRK11176        498 SPILILDEATSALDTESERAIQAALDELQKNRTSLVIAHRLS----TIEK-ADEILV  549 (581)
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCHH----HHHH-CCEEEE
T ss_conf             998998586335899999999999999739999999718898----9984-998999


No 231
>PRK13768 GTPase; Provisional
Probab=96.39  E-value=0.023  Score=38.64  Aligned_cols=102  Identities=25%  Similarity=0.314  Sum_probs=52.9

Q ss_pred             CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCH
Q ss_conf             98166311798988899999999998177998864312101267886799996789875453001000101342123237
Q gi|254780217|r   33 MHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITV  112 (347)
Q Consensus        33 l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~v  112 (347)
                      ++.+.++.||+|+||+|+..++.+++-...    .++..-.-||   ..           ..+.++.+   --.+.-|++
T Consensus         1 M~~~~~ViGpaGSGKsT~~~~l~~~l~~~~----r~~~vvNLDP---A~-----------e~~pY~~~---iDIRd~i~~   59 (253)
T PRK13768          1 MMYIVFFLGTAGSGKTTLVGALSDWLEEQG----YDVAIVNLDP---AV-----------EYLPYKPD---IDVREYVSA   59 (253)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCC----CCEEEEECCC---CC-----------CCCCCCCC---CCHHHHCCH
T ss_conf             971899989999988999999999999769----9759997898---66-----------58999988---637861789


Q ss_pred             HHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEE
Q ss_conf             88755443102221111210353220554240001456777663034341676
Q gi|254780217|r  113 DEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFIL  165 (347)
Q Consensus       113 d~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiL  165 (347)
                      ++|   -+...+.|.-|     +|..+|.+-.+ .+-+..-+|+-+.. ++|+
T Consensus        60 ~dV---M~~~~LGPNGa-----li~~~e~l~~~-~d~l~~~i~~~~~d-Y~i~  102 (253)
T PRK13768         60 REI---MRKYGLGPNGA-----LIASVDLLLTK-AEEIKEEIERLDAD-YVLV  102 (253)
T ss_pred             HHH---HHHHCCCCCHH-----HHHHHHHHHHH-HHHHHHHHHHCCCC-EEEE
T ss_conf             999---98819896468-----99999999998-99999998515887-5998


No 232
>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]
Probab=96.39  E-value=0.004  Score=44.82  Aligned_cols=139  Identities=20%  Similarity=0.202  Sum_probs=78.7

Q ss_pred             HHHHCCHHHHHHHHHHHHHCCC---CC---------EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCC
Q ss_conf             6561092999999999998288---98---------16631179898889999999999817799886431210126788
Q gi|254780217|r   11 NQRLFGHEDIEKFLSQYYCSGR---MH---------HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCS   78 (347)
Q Consensus        11 ~~~i~G~~~~~~~L~~~~~~~~---l~---------ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~   78 (347)
                      ...|+||++++..+.=.+-+|-   ++         | +|+.|.||+||+.+-+.+++..    .-.-+.+|..++    
T Consensus       285 aPsIyG~e~VKkAilLqLfgGv~k~~~~g~~iRGDIn-ILLvGDPgtaKSqlLk~v~~~a----Pr~vytsgkgss----  355 (682)
T COG1241         285 APSIYGHEDVKKAILLQLFGGVKKNLPDGTRIRGDIH-ILLVGDPGTAKSQLLKYVAKLA----PRGVYTSGKGSS----  355 (682)
T ss_pred             CCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCEE-EEECCCCCHHHHHHHHHHHHHC----CCEEEECCCCCC----
T ss_conf             1510381999999999960897664799862024226-9981798251999999988648----840797264125----


Q ss_pred             HHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHH--HHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf             6799996789875453001000101342123237887--55443102221111210353220554240001456777663
Q gi|254780217|r   79 PFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEI--RRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEE  156 (347)
Q Consensus        79 ~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~I--R~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEE  156 (347)
                                ..++--.              ..-|.+  +...+--.+-  .+..=|+-||+.|.|+....+|+.-.+|-
T Consensus       356 ----------~~GLTAa--------------v~rd~~tge~~LeaGALV--lAD~Gv~cIDEfdKm~~~dr~aihEaMEQ  409 (682)
T COG1241         356 ----------AAGLTAA--------------VVRDKVTGEWVLEAGALV--LADGGVCCIDEFDKMNEEDRVAIHEAMEQ  409 (682)
T ss_pred             ----------CCCCEEE--------------EEECCCCCEEEEECCEEE--EECCCEEEEEECCCCCHHHHHHHHHHHHH
T ss_conf             ----------4573069--------------997067760788677799--92497799970567776789999999875


Q ss_pred             CCCCCCEE---------------EEECCC--------------CCCCHHHHCEEEEEECC
Q ss_conf             03434167---------------650443--------------35730252036988647
Q gi|254780217|r  157 PPQKVLFI---------------LISHAS--------------PTILSTIRSRCLSIKFN  187 (347)
Q Consensus       157 Pp~~t~fi---------------Lit~~~--------------~~il~TI~SRc~~i~f~  187 (347)
                         +|+=|               |.+-||              -.+++|+.||--.+.+-
T Consensus       410 ---QtIsIaKAGI~atLnARcsvLAAaNP~~Gryd~~~~~~enI~l~~~lLSRFDLifvl  466 (682)
T COG1241         410 ---QTISIAKAGITATLNARCSVLAAANPKFGRYDPKKTVAENINLPAPLLSRFDLIFVL  466 (682)
T ss_pred             ---CEEEECCCCEEEECCHHHHHHHHHCCCCCCCCCCCCHHHHCCCCHHHHHHCCEEEEE
T ss_conf             ---275120554254111444456651887776799999788558983577517754770


No 233
>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2.  A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.
Probab=96.39  E-value=0.0037  Score=45.07  Aligned_cols=42  Identities=19%  Similarity=0.296  Sum_probs=34.0

Q ss_pred             CCHHHHHHHHH-HCCHHHHHHHHHHHHHCCCCCCEEEEECCCC
Q ss_conf             21035322055-4240001456777663034341676504433
Q gi|254780217|r  130 YWRVIMIDPVD-GMNRNAANALLKSLEEPPQKVLFILISHASP  171 (347)
Q Consensus       130 ~~Ki~IId~ad-~ln~~AaNALLK~LEEPp~~t~fiLit~~~~  171 (347)
                      +-+|+|+||+- .+...+...+++.|.+.-++..+|++||+++
T Consensus       158 ~~~ililDEpts~LD~~~~~~i~~~l~~~~~~~Tvi~itH~~~  200 (220)
T cd03245         158 DPPILLLDEPTSAMDMNSEERLKERLRQLLGDKTLIIITHRPS  200 (220)
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCHH
T ss_conf             9999999687568898999999999998769998999935988


No 234
>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria.  Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins.  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=96.35  E-value=0.0044  Score=44.48  Aligned_cols=52  Identities=15%  Similarity=0.239  Sum_probs=40.1

Q ss_pred             CCHHHHHHHHH-HCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHCEEEEEEC
Q ss_conf             21035322055-4240001456777663034341676504433573025203698864
Q gi|254780217|r  130 YWRVIMIDPVD-GMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKF  186 (347)
Q Consensus       130 ~~Ki~IId~ad-~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI~SRc~~i~f  186 (347)
                      .-+|+|+||+- .|...+...++..|.+-.++...|+|||+.+    +++. |.++-+
T Consensus       155 ~~~ililDEpts~LD~~te~~i~~~l~~~~~~~Tvi~itHr~~----~~~~-~D~Iiv  207 (236)
T cd03253         155 NPPILLLDEATSALDTHTEREIQAALRDVSKGRTTIVIAHRLS----TIVN-ADKIIV  207 (236)
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHHHHCCCEEEEECCCHH----HHHH-CCEEEE
T ss_conf             9999999687567998999999999999809998999826878----8985-999999


No 235
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=96.34  E-value=0.018  Score=39.49  Aligned_cols=37  Identities=24%  Similarity=0.417  Sum_probs=26.5

Q ss_pred             HHHHHHCC-CCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             99999828-89816631179898889999999999817
Q gi|254780217|r   24 LSQYYCSG-RMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        24 L~~~~~~~-~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      |...+..| --++.+|+.|++|+||+++|..|+..-+.
T Consensus        21 lD~~l~GG~p~g~~~li~G~~G~GKt~~~~~f~~~~~~   58 (241)
T PRK06067         21 IDRKLGGGIPFGSLILIEGENDTGKSVLSQQFVWGALN   58 (241)
T ss_pred             HHHHCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             78650699779908999807998879999999999986


No 236
>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=96.30  E-value=0.016  Score=39.91  Aligned_cols=51  Identities=24%  Similarity=0.354  Sum_probs=41.8

Q ss_pred             HHHHCCHHHHHHHHHHHHHC------CCCCEEEEECCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             65610929999999999982------8898166311798988899999999998177
Q gi|254780217|r   11 NQRLFGHEDIEKFLSQYYCS------GRMHHALLFEGEQGIGKATLGFRYAGHVLQN   61 (347)
Q Consensus        11 ~~~i~G~~~~~~~L~~~~~~------~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~   61 (347)
                      -..++||+-+.+.+.++++.      .+=|=.+-|+|++|+||.-.|+.+|+.|.-.
T Consensus        24 ~~~lfGQhla~~~v~~al~~~l~~~~p~KpLVlSfHG~tGtGKn~vs~liA~~Ly~~   80 (127)
T pfam06309        24 ARRLFGQHLVKQLVVRSVKGHWENPKPRKPLVLSFHGWTGTGKNFVAEIIADNLYRD   80 (127)
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHC
T ss_conf             875347798999999999999748999997488701899987989999999998754


No 237
>KOG1803 consensus
Probab=96.28  E-value=0.0078  Score=42.47  Aligned_cols=60  Identities=22%  Similarity=0.251  Sum_probs=38.9

Q ss_pred             CHHHHHHHHH-HCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHHHH
Q ss_conf             1035322055-424000145677766303434167650443357302520369886479998999999997
Q gi|254780217|r  131 WRVIMIDPVD-GMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKALEQ  200 (347)
Q Consensus       131 ~Ki~IId~ad-~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L~~  200 (347)
                      +-++|||+|- .|-.+..=++||.=       .||| +-+|..++|||.|+=-.  -..+...-+..+.+.
T Consensus       359 fD~vIIDEaaQamE~~cWipvlk~k-------k~IL-aGDp~QLpP~v~S~~a~--~~gl~~Sl~erlae~  419 (649)
T KOG1803         359 FDLVIIDEAAQAMEPQCWIPVLKGK-------KFIL-AGDPKQLPPTVLSDKAK--RGGLQVSLLERLAEK  419 (649)
T ss_pred             CCEEEEEHHHHHCCCHHHHHHHCCC-------CEEE-ECCCCCCCCCCCCCHHH--HCCCHHHHHHHHHHH
T ss_conf             8889981254323501306776277-------3699-28800178600242334--245123499999987


No 238
>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional
Probab=96.28  E-value=0.01  Score=41.45  Aligned_cols=40  Identities=13%  Similarity=0.348  Sum_probs=20.8

Q ss_pred             CHHHHHHHHH-HCCHHHHHHHHHHHHHCCCCCCEEEEECCC
Q ss_conf             1035322055-424000145677766303434167650443
Q gi|254780217|r  131 WRVIMIDPVD-GMNRNAANALLKSLEEPPQKVLFILISHAS  170 (347)
Q Consensus       131 ~Ki~IId~ad-~ln~~AaNALLK~LEEPp~~t~fiLit~~~  170 (347)
                      -+|+|+|||= .+..++...+.+.|++-.++...|.|||..
T Consensus       495 p~iliLDEaTSaLD~~tE~~i~~~l~~~~~~~T~i~IaHRl  535 (593)
T PRK10790        495 PQILILDEATASIDSGTEQAIQQALAAIREHTTLVVIAHRL  535 (593)
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCH
T ss_conf             89999838777889999999999999972899899970789


No 239
>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]
Probab=96.25  E-value=0.02  Score=39.26  Aligned_cols=134  Identities=19%  Similarity=0.226  Sum_probs=74.3

Q ss_pred             CCHHHHCCHHHHHHHHHHHHHC-CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHH--CCCCCCCHHHHHHH
Q ss_conf             7565610929999999999982-88981663117989888999999999981779988643121--01267886799996
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYCS-GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRM--CNPDPCSPFVKQMA   85 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~~-~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~--~~~~~~~~~~~~i~   85 (347)
                      ..+.+++|+-.+.+.+.+.+.+ ..-.-..|++|+.|+||...|+++=++    ..-.+.|.-.  |..-+.    ..++
T Consensus       138 ~~~~~liG~S~am~~l~~~i~kvA~s~a~VLI~GESGtGKElvAr~IH~~----S~R~~~PFVavNcaAip~----~l~E  209 (464)
T COG2204         138 SLGGELVGESPAMQQLRRLIAKVAPSDASVLITGESGTGKELVARAIHQA----SPRAKGPFIAVNCAAIPE----NLLE  209 (464)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHH----CCCCCCCCEEEECCCCCH----HHHH
T ss_conf             55677520699999999999998477997899778987589999999860----744589925633464898----8877


Q ss_pred             CCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHC--------
Q ss_conf             789875453001000101342123237887554431022211112103532205542400014567776630--------
Q gi|254780217|r   86 SHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEP--------  157 (347)
Q Consensus        86 ~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEP--------  157 (347)
                      +    -  .+.++..--+|...+.         ..++..  ..|+  ..++|++..|..+.|..||+.|+|=        
T Consensus       210 S----E--LFGhekGAFTGA~~~r---------~G~fE~--A~GG--TLfLDEI~~mpl~~Q~kLLRvLqe~~~~rvG~~  270 (464)
T COG2204         210 S----E--LFGHEKGAFTGAITRR---------IGRFEQ--ANGG--TLFLDEIGEMPLELQVKLLRVLQEREFERVGGN  270 (464)
T ss_pred             H----H--HHCCCCCCCCCCCCCC---------CCCEEE--CCCC--EEEEECCCCCCHHHHHHHHHHHHCCEEEECCCC
T ss_conf             7----7--6145656767764345---------761577--3796--587323110999999999999870706735888


Q ss_pred             ---CCCCCEEEEECC
Q ss_conf             ---343416765044
Q gi|254780217|r  158 ---PQKVLFILISHA  169 (347)
Q Consensus       158 ---p~~t~fiLit~~  169 (347)
                         +-++.+|-.|+.
T Consensus       271 ~~i~vdvRiIaaT~~  285 (464)
T COG2204         271 KPIKVDVRIIAATNR  285 (464)
T ss_pred             CEECEEEEEEEECCC
T ss_conf             600001699960577


No 240
>cd03248 ABCC_TAP TAP, the Transporter Associated with Antigen Processing; TAP is essential for peptide delivery from the cytosol into the lumen of the endoplasmic reticulum (ER), where these peptides are loaded on major histocompatibility complex (MHC) I molecules.  Loaded MHC I leave the ER and display their antigenic cargo on the cell surface to cytotoxic T cells.  Subsequently, virus-infected or malignantly transformed cells can be eliminated.  TAP belongs to the large family of ATP-binding cassette (ABC) transporters, which translocate a vast variety of solutes across membranes.
Probab=96.24  E-value=0.006  Score=43.37  Aligned_cols=51  Identities=18%  Similarity=0.339  Sum_probs=36.1

Q ss_pred             CCHHHHHHHHH-HCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHCEEEEEE
Q ss_conf             21035322055-424000145677766303434167650443357302520369886
Q gi|254780217|r  130 YWRVIMIDPVD-GMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIK  185 (347)
Q Consensus       130 ~~Ki~IId~ad-~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI~SRc~~i~  185 (347)
                      .-+|+|+||+- .|...+...++..|.+-.++...|+|||+.+    ++. +|-++-
T Consensus       168 ~p~ililDEptSaLD~~te~~i~~~l~~~~~~~Tvi~ItH~l~----~~~-~~DrIi  219 (226)
T cd03248         168 NPQVLILDEATSALDAESEQQVQQALYDWPERRTVLVIAHRLS----TVE-RADQIL  219 (226)
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCHH----HHH-HCCEEE
T ss_conf             9999999797668899999999999998669999999937999----998-499999


No 241
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=96.24  E-value=0.015  Score=40.22  Aligned_cols=37  Identities=19%  Similarity=0.225  Sum_probs=25.4

Q ss_pred             HHHHHHCCC-CCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             999998288-9816631179898889999999999817
Q gi|254780217|r   24 LSQYYCSGR-MHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        24 L~~~~~~~~-l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      |.+.+..|= -....+++||||+||+++|+.+|.....
T Consensus        12 lD~~LgGGi~~G~itei~G~pG~GKTtl~lq~a~~~~~   49 (224)
T PRK09361         12 LDELLGGGIERGTITQIYGPPGSGKTNICIQLAVEAAR   49 (224)
T ss_pred             HHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             99862699888879999899998599999999999997


No 242
>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins.  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=96.20  E-value=0.0068  Score=42.97  Aligned_cols=52  Identities=15%  Similarity=0.204  Sum_probs=36.5

Q ss_pred             CCHHHHHHHHH-HCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHCEEEEEEC
Q ss_conf             21035322055-4240001456777663034341676504433573025203698864
Q gi|254780217|r  130 YWRVIMIDPVD-GMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKF  186 (347)
Q Consensus       130 ~~Ki~IId~ad-~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI~SRc~~i~f  186 (347)
                      +.+|+|+||+- .+...+...++..|.+-.++...|+|||+.+.    + .+|-++-+
T Consensus       156 ~~~iliLDEpts~LD~~~e~~i~~~l~~~~~~~TvI~itH~l~~----l-~~~D~Iiv  208 (234)
T cd03251         156 DPPILILDEATSALDTESERLVQAALERLMKNRTTFVIAHRLST----I-ENADRIVV  208 (234)
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHHHHCCCEEEEEECCHHH----H-HHCCEEEE
T ss_conf             99989996876689989999999999998199989999278889----9-85999999


No 243
>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=96.17  E-value=0.012  Score=41.03  Aligned_cols=143  Identities=15%  Similarity=0.117  Sum_probs=77.1

Q ss_pred             CCHHHHCCHHHHHHHHHHHHHCCC-----CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHH
Q ss_conf             756561092999999999998288-----981663117989888999999999981779988643121012678867999
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYCSGR-----MHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQ   83 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~~~~-----l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~   83 (347)
                      ..|++++|-++.+..+.+.+++.-     --..++++||.|.||+++|..+-+.+=..   .-+....|.          
T Consensus        55 ~~F~dffGme~~i~~iV~~~ksAA~g~e~~kqIllL~GPVGsGKSsl~e~LK~glE~y---~~Y~i~gsP----------  121 (358)
T pfam08298        55 PAFADFFGMEETIERIVNYFRHAAQGLEERKQILYLLGPVGGGKSSLAERLKKLLELV---PIYALKGSP----------  121 (358)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHCCC---CEEEECCCC----------
T ss_conf             5423200159999999999999972367210589997789877589999999872058---648844897----------


Q ss_pred             HHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHH-HHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCC
Q ss_conf             967898754530010001013421232378875544-3102221111210353220554240001456777663034341
Q gi|254780217|r   84 MASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIR-YFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVL  162 (347)
Q Consensus        84 i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~-~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~  162 (347)
                        -..||=. .+               ..++.|... +.+...+    ++   |+  ..|..-+    .+-|||-..+.-
T Consensus       122 --m~e~PL~-L~---------------~p~~~r~~le~~~gi~~----~~---i~--g~l~P~~----~~rL~e~~Gd~~  170 (358)
T pfam08298       122 --VFESPLH-LF---------------NPHHLRDILEDEYGIPR----RR---LE--GDLSPWC----TKRLEEFGGDIE  170 (358)
T ss_pred             --CCCCCCC-CC---------------CHHHHHHHHHHHHCCCH----HH---CC--CCCCHHH----HHHHHHHCCCHH
T ss_conf             --7789854-77---------------86775999998749952----12---08--9889899----999999389855


Q ss_pred             EEEEECCCCCCCHHHHCEEEEEECCCC--CHHHHHHHHH
Q ss_conf             676504433573025203698864799--9899999999
Q gi|254780217|r  163 FILISHASPTILSTIRSRCLSIKFNSL--SENNLYKALE  199 (347)
Q Consensus       163 fiLit~~~~~il~TI~SRc~~i~f~~l--~~~~~~~~L~  199 (347)
                      -    =...++.+..+.|.-.-.|.|-  ..+++.....
T Consensus       171 ~----~~V~r~~~S~~~r~gi~t~~P~D~~nqD~s~L~G  205 (358)
T pfam08298       171 K----FKVVKIFPSILRQIGIAKTEPGDENNQDISALVG  205 (358)
T ss_pred             H----EEEEEECCCCCCCEEEEEECCCCCCCCCHHHHHH
T ss_conf             2----7899955560045689996899987633778743


No 244
>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=96.13  E-value=0.067  Score=34.95  Aligned_cols=41  Identities=12%  Similarity=0.083  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHHCCC--CCEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             99999999998288--981663117989888999999999981
Q gi|254780217|r   19 DIEKFLSQYYCSGR--MHHALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        19 ~~~~~L~~~~~~~~--l~ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      ...+.|.+.+..-.  -|-.+=++|+=|+||+++...+...+-
T Consensus         3 ~~a~~la~~i~~~~~~~~~vIgl~G~WGsGKTs~l~~~~~~L~   45 (301)
T pfam07693         3 KYAENLAKLLVEPSLAPGFVIGLYGAWGSGKTSFLNLLEDELK   45 (301)
T ss_pred             HHHHHHHHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf             7899999999577789997999989899999999999999986


No 245
>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family. 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. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.
Probab=96.06  E-value=0.0093  Score=41.84  Aligned_cols=12  Identities=8%  Similarity=-0.017  Sum_probs=4.8

Q ss_pred             CCCCCCCHHHHH
Q ss_conf             179898889999
Q gi|254780217|r   40 EGEQGIGKATLG   51 (347)
Q Consensus        40 ~Gp~GiGK~~~A   51 (347)
                      .+..|.--..+.
T Consensus        27 ~~~~G~sl~~l~   38 (694)
T TIGR03375        27 LEDGRLTPELLP   38 (694)
T ss_pred             CCCCCCCHHHHH
T ss_conf             999999999999


No 246
>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein.  In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor.  This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export.  The MRP-like family, similar 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=96.04  E-value=0.0098  Score=41.67  Aligned_cols=52  Identities=15%  Similarity=0.213  Sum_probs=35.8

Q ss_pred             CCHHHHHHHHH-HCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHCEEEEEEC
Q ss_conf             21035322055-4240001456777663034341676504433573025203698864
Q gi|254780217|r  130 YWRVIMIDPVD-GMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKF  186 (347)
Q Consensus       130 ~~Ki~IId~ad-~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI~SRc~~i~f  186 (347)
                      +-+|+|+||+- .|...+...++..|.+-.++...|++||+.+.     .+.|-++-+
T Consensus       157 ~~~illlDEpts~LD~~t~~~i~~~l~~~~~~~TvI~itH~~~~-----~~~~D~iiv  209 (229)
T cd03254         157 DPKILILDEATSNIDTETEKLIQEALEKLMKGRTSIIIAHRLST-----IKNADKILV  209 (229)
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCHHH-----HHHCCEEEE
T ss_conf             89989998977789989999999999998099889999269889-----985999999


No 247
>PRK06835 DNA replication protein DnaC; Validated
Probab=96.00  E-value=0.018  Score=39.53  Aligned_cols=28  Identities=36%  Similarity=0.506  Sum_probs=24.7

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             8166311798988899999999998177
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQN   61 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc~   61 (347)
                      ...++|+|++|+|||-+|.++|+.++-.
T Consensus       183 ~~nLlf~G~~G~GKTfLa~~IA~ell~~  210 (330)
T PRK06835        183 NENLLFYGNTGTGKTFLSNCIAKELLDR  210 (330)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf             8866988999998899999999999987


No 248
>COG3899 Predicted ATPase [General function prediction only]
Probab=95.98  E-value=0.085  Score=34.11  Aligned_cols=211  Identities=16%  Similarity=0.137  Sum_probs=113.0

Q ss_pred             HHCCHHHHHHHHHHHHHCCC--CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCC---C-CCCHHHHHH--
Q ss_conf             61092999999999998288--981663117989888999999999981779988643121012---6-788679999--
Q gi|254780217|r   13 RLFGHEDIEKFLSQYYCSGR--MHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNP---D-PCSPFVKQM--   84 (347)
Q Consensus        13 ~i~G~~~~~~~L~~~~~~~~--l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~---~-~~~~~~~~i--   84 (347)
                      +++|-+...+.|..++...+  -.-..++.|..||||+.+...+.+-+-..  ....-++.|..   + +.++....+  
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~--~~~~i~~~f~q~~~~ipl~~lvq~~r~   78 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQ--RGYFIKGKFDQFERNIPLSPLVQAFRD   78 (849)
T ss_pred             CCCCHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCHHHHHHHHHHHHHCC--CCEEEHHHCCCCCCCCCHHHHHHHHHH
T ss_conf             978707689999999999837771699987558774899999999987424--006417104765689855899999999


Q ss_pred             -HC--CCCCCEEEECCCCHHHC---CCCCCCCCHHH-----------------------HH---HHHHHCCCCCCCCCCH
Q ss_conf             -67--89875453001000101---34212323788-----------------------75---5443102221111210
Q gi|254780217|r   85 -AS--HALHDFLYLSYSLNPKT---GKWRTVITVDE-----------------------IR---RIRYFLSLTANTGYWR  132 (347)
Q Consensus        85 -~~--~~hpd~~~i~~~~~~k~---~~~~~~I~vd~-----------------------IR---~l~~~~~~~~~~~~~K  132 (347)
                       ..  .+..|...  ..|..+-   -.....+.+|-                       .|   .+..++..-....+-=
T Consensus        79 l~~~ll~~~~~~~--~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~pl  156 (849)
T COG3899          79 LMGQLLSESDTRI--LSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPL  156 (849)
T ss_pred             HHHHHHHCCCCHH--HHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCCCHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCE
T ss_conf             9987752566057--99999999862644303786269897304888511005822467899999999999997355984


Q ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHCC-----CCCCEEEEECCCCCCCHHHHCEE--EEEECCCCCHHHHHHHHHHHCC--
Q ss_conf             35322055424000145677766303-----43416765044335730252036--9886479998999999997278--
Q gi|254780217|r  133 VIMIDPVDGMNRNAANALLKSLEEPP-----QKVLFILISHASPTILSTIRSRC--LSIKFNSLSENNLYKALEQLKI--  203 (347)
Q Consensus       133 i~IId~ad~ln~~AaNALLK~LEEPp-----~~t~fiLit~~~~~il~TI~SRc--~~i~f~~l~~~~~~~~L~~~~~--  203 (347)
                      |+++|+.+-.-..|-+-|=..+..-+     .|-+ ..+.+....+.+..+|+-  ..+.+.|++..+....+.....  
T Consensus       157 Vi~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v-~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~  235 (849)
T COG3899         157 VIVLEDLHWADSASLKLLQLLMDRIAIGAYRDNEV-LLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCT  235 (849)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHCCHHHHHCCCC-CCCCCCCCCHHHHHHCCCCCCEEECCCCCHHHHHHHHHHHHCCC
T ss_conf             99971455357668999999999631003323641-03677763026776347864357516677366999999982776


Q ss_pred             -CCCHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             -8896789999997598978999881
Q gi|254780217|r  204 -MGWDSKRDFVKIAAYGSVARAIKIL  228 (347)
Q Consensus       204 -~~~~~~~~~~~~~s~Gs~~~A~~ll  228 (347)
                       .........+...+.|+|.-+.+++
T Consensus       236 ~~~~~p~~~~i~~kt~GnPfFi~e~l  261 (849)
T COG3899         236 KLLPAPLLELIFEKTKGNPFFIEEFL  261 (849)
T ss_pred             CCCCCHHHHHHHHHHCCCCCCHHHHH
T ss_conf             54565579999998358976599999


No 249
>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=95.98  E-value=0.012  Score=40.98  Aligned_cols=70  Identities=14%  Similarity=0.380  Sum_probs=53.7

Q ss_pred             CHHHHHHHHHHCCHHH------------HHHHHHHHHHCCCC--------CCEEEE------ECCCCCCCHHHHCEE-EE
Q ss_conf             1035322055424000------------14567776630343--------416765------044335730252036-98
Q gi|254780217|r  131 WRVIMIDPVDGMNRNA------------ANALLKSLEEPPQK--------VLFILI------SHASPTILSTIRSRC-LS  183 (347)
Q Consensus       131 ~Ki~IId~ad~ln~~A------------aNALLK~LEEPp~~--------t~fiLi------t~~~~~il~TI~SRc-~~  183 (347)
                      .-|++||++|..-..+            |--||-++|--.-+        -.+++|      ...|+.++|-+.-|. .+
T Consensus       251 ~GIvFIDEIDKIa~~~~~g~~dvSREGVQRDlLPlvEGstV~TKyG~VkTdHILFIasGAFh~sKPSDLiPELQGRfPIR  330 (444)
T COG1220         251 NGIVFIDEIDKIAKRGGSGGPDVSREGVQRDLLPLVEGSTVSTKYGPVKTDHILFIASGAFHVAKPSDLIPELQGRFPIR  330 (444)
T ss_pred             CCEEEEEHHHHHHHCCCCCCCCCCHHHHCCCCCCCCCCCEEECCCCCCCCCEEEEEECCCEECCCHHHCCHHHCCCCCEE
T ss_conf             69089734667874378899886643201021031057544315444014437887148200378132176662777348


Q ss_pred             EECCCCCHHHHHHHHHH
Q ss_conf             86479998999999997
Q gi|254780217|r  184 IKFNSLSENNLYKALEQ  200 (347)
Q Consensus       184 i~f~~l~~~~~~~~L~~  200 (347)
                      +-+.+|+.+++..+|.+
T Consensus       331 VEL~~Lt~~Df~rILte  347 (444)
T COG1220         331 VELDALTKEDFERILTE  347 (444)
T ss_pred             EECCCCCHHHHHHHHCC
T ss_conf             87044899899999637


No 250
>pfam09848 DUF2075 Uncharacterized conserved protein (DUF2075). This domain, found in various prokaryotic proteins (including putative ATP/GTP binding proteins), has no known function.
Probab=95.95  E-value=0.0052  Score=43.91  Aligned_cols=111  Identities=17%  Similarity=0.229  Sum_probs=55.3

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHH
Q ss_conf             16631179898889999999999817799886431210126788679999678987545300100010134212323788
Q gi|254780217|r   35 HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDE  114 (347)
Q Consensus        35 ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~  114 (347)
                      +-++++|-||+||+-+|..+...+. .......              .....++||=+..+......+.+...    ...
T Consensus         2 ~v~~V~G~pGtGKTvv~l~l~~~l~-~~~~~~~--------------~~~l~~N~~~~~~l~~~l~~~~~~~~----~~~   62 (348)
T pfam09848         2 AVFLVTGGPGTGKTVVALNLFAELS-DSDLGRT--------------AVFLSGNHPLVLVLYEALAGDLKVRK----KKL   62 (348)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH-HCCCCCC--------------EEEEECCHHHHHHHHHHHHHHCCHHH----CCC
T ss_conf             7999977799389999999999986-4402682--------------08995786699999999860412001----020


Q ss_pred             HHHHHHHCCC-CCCCCCCHHHHHHHHHHCCHH--------HHHHHHHHHHHCCCCCCEEEE
Q ss_conf             7554431022-211112103532205542400--------014567776630343416765
Q gi|254780217|r  115 IRRIRYFLSL-TANTGYWRVIMIDPVDGMNRN--------AANALLKSLEEPPQKVLFILI  166 (347)
Q Consensus       115 IR~l~~~~~~-~~~~~~~Ki~IId~ad~ln~~--------AaNALLK~LEEPp~~t~fiLi  166 (347)
                      .+....|.+. ........|+|+||||+|...        ..|-|..++.-  ..+.++|+
T Consensus        63 ~~~~~~fi~~~~~~~~~~dvvivDEAhRl~~k~~~~~~~~~~~ql~~i~~~--a~v~V~~~  121 (348)
T pfam09848        63 FRKPTSFINNLHKAPPHEDVVIVDEAHRLWTKSDLYFNFSGPNQLDEIMKR--AKVVVFFI  121 (348)
T ss_pred             CCCCHHHHCCCCCCCCCCCEEEEEHHHHHHHCCCCCCCCCCHHHHHHHHHH--CCEEEEEE
T ss_conf             007252316523579867789983178665433655677857999999975--28599998


No 251
>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=95.94  E-value=0.015  Score=40.16  Aligned_cols=24  Identities=33%  Similarity=0.499  Sum_probs=20.9

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             631179898889999999999817
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      .|++||+|+||++++..+|.....
T Consensus         2 ~li~g~~g~GKttl~~~~~~~~~~   25 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIAT   25 (165)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             899989999899999999999876


No 252
>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E. coli.  The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane.  HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB.  This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport.  Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.
Probab=95.93  E-value=0.012  Score=41.06  Aligned_cols=52  Identities=15%  Similarity=0.314  Sum_probs=39.0

Q ss_pred             CCHHHHHHHHH-HCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHCEEEEEEC
Q ss_conf             21035322055-4240001456777663034341676504433573025203698864
Q gi|254780217|r  130 YWRVIMIDPVD-GMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKF  186 (347)
Q Consensus       130 ~~Ki~IId~ad-~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI~SRc~~i~f  186 (347)
                      .-+|+|+||+= .|...+...+++.|++.-++..+|+|||+.+    +++ .|.++-+
T Consensus       156 ~~~illlDEpts~LD~~te~~i~~~l~~~~~~~Tvi~itHrl~----~l~-~aD~Iiv  208 (237)
T cd03252         156 NPRILIFDEATSALDYESEHAIMRNMHDICAGRTVIIIAHRLS----TVK-NADRIIV  208 (237)
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHHHHCCCEEEEEECCHH----HHH-HCCEEEE
T ss_conf             9999999486456898999999999999829999999807888----998-4999999


No 253
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=95.93  E-value=0.046  Score=36.29  Aligned_cols=140  Identities=19%  Similarity=0.168  Sum_probs=69.5

Q ss_pred             HHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCC----HHHHHHHC--CCCCC-E
Q ss_conf             99999999982889816631179898889999999999817799886431210126788----67999967--89875-4
Q gi|254780217|r   20 IEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCS----PFVKQMAS--HALHD-F   92 (347)
Q Consensus        20 ~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~----~~~~~i~~--~~hpd-~   92 (347)
                      ....|..++..+   +..++.||.|+||+|-   +-++++...-...+ .-.|.- +..    .+..+++.  |..+. .
T Consensus        54 ~~~~i~~ai~~~---~vvii~getGsGKTTq---lP~~lle~g~~~~g-~I~~tQ-PRRlAArsvA~RvAeel~~~~G~~  125 (845)
T COG1643          54 VRDEILKAIEQN---QVVIIVGETGSGKTTQ---LPQFLLEEGLGIAG-KIGCTQ-PRRLAARSVAERVAEELGEKLGET  125 (845)
T ss_pred             HHHHHHHHHHHC---CEEEEECCCCCCHHHH---HHHHHHHHHCCCCC-EEEECC-CHHHHHHHHHHHHHHHHCCCCCCE
T ss_conf             899999999869---7899867998875878---89999960016687-599658-438999999999999838986765


Q ss_pred             EEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHH--HHHHHHH-HHHCCCCCCEEEEEC
Q ss_conf             530010001013421232378875544310222111121035322055424000--1456777-663034341676504
Q gi|254780217|r   93 LYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNA--ANALLKS-LEEPPQKVLFILISH  168 (347)
Q Consensus        93 ~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~A--aNALLK~-LEEPp~~t~fiLit~  168 (347)
                      .=+...++++. ..++.|++-.=--+...+..-|..+++.++||||+|.=+.++  .=+|||- +..-++.-.+|+.|-
T Consensus       126 VGY~iRfe~~~-s~~Trik~mTdGiLlrei~~D~~Ls~ys~vIiDEaHERSl~tDilLgllk~~~~~rr~DLKiIimSA  203 (845)
T COG1643         126 VGYSIRFESKV-SPRTRIKVMTDGILLREIQNDPLLSGYSVVIIDEAHERSLNTDILLGLLKDLLARRRDDLKLIIMSA  203 (845)
T ss_pred             EEEEEEEECCC-CCCCEEEEECCHHHHHHHHHCCCCCCCCEEEEECHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEC
T ss_conf             43799962267-8771468951479999984380204587799701335568889999999999864688705999725


No 254
>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=95.85  E-value=0.013  Score=40.57  Aligned_cols=151  Identities=17%  Similarity=0.191  Sum_probs=68.3

Q ss_pred             HHHHHHHCCCCC-EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCC----------------------CCCH
Q ss_conf             999999828898-16631179898889999999999817799886431210126----------------------7886
Q gi|254780217|r   23 FLSQYYCSGRMH-HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPD----------------------PCSP   79 (347)
Q Consensus        23 ~L~~~~~~~~l~-ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~----------------------~~~~   79 (347)
                      .|.+.+-.|=+| -..|+.|.|||||.|+.+.+|..+-.....--+.+|+=+..                      ....
T Consensus        70 ElDRVLGGGiVpGSvvLlgGePGIGKSTLLLQia~~la~~~~~vLYvSGEES~~QIk~RA~RLg~~~~~l~l~set~le~  149 (372)
T cd01121          70 ELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEESPEQIKLRADRLGISTENLYLLAETNLED  149 (372)
T ss_pred             HHHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECHHHHHHHHHHHHHHCCCCCCCEEEECCCHHH
T ss_conf             66540057730671799825998868899999999998639938998245678999989998587887727884356999


Q ss_pred             HHHHHHCCCCCCEEEECCCC---HHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf             79999678987545300100---010134212323788755443102221111210353220554240001456777663
Q gi|254780217|r   80 FVKQMASHALHDFLYLSYSL---NPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEE  156 (347)
Q Consensus        80 ~~~~i~~~~hpd~~~i~~~~---~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEE  156 (347)
                      ....+ ....|++++|+-.-   .+.  -....=+|-|||+.-..+..-+=..+.-+++|   -..|++.+=|=-|+||-
T Consensus       150 Il~~i-~~~kP~~lIIDSIQT~~~~~--~~s~pGsvsQVReca~~L~~~AK~~~i~~~lV---GHVTK~G~iAGPkvLEH  223 (372)
T cd01121         150 ILASI-EELKPDLVIIDSIQTVYSSE--LTSAPGSVSQVRECTAELMRFAKERNIPIFIV---GHVTKEGSIAGPKVLEH  223 (372)
T ss_pred             HHHHH-HHHCCCEEEEECHHHCCCCC--CCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEE---EEECCCCCCCCCHHHEE
T ss_conf             99999-97199889995622020377--67799878999999999999998619739999---87626886377403100


Q ss_pred             CCCCCCEEEE--ECCCCCCCHHHHCE
Q ss_conf             0343416765--04433573025203
Q gi|254780217|r  157 PPQKVLFILI--SHASPTILSTIRSR  180 (347)
Q Consensus       157 Pp~~t~fiLi--t~~~~~il~TI~SR  180 (347)
                      -- .|++-|=  .++..++|-+++-|
T Consensus       224 mV-DtVl~fEgd~~~~~R~LR~~KNR  248 (372)
T cd01121         224 MV-DTVLYFEGDRHSEYRILRSVKNR  248 (372)
T ss_pred             EE-EEEEEECCCCCCCEEEEEEECCC
T ss_conf             21-36887515776550356741156


No 255
>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional
Probab=95.84  E-value=0.019  Score=39.34  Aligned_cols=20  Identities=30%  Similarity=0.292  Sum_probs=8.1

Q ss_pred             EEECCCCCCCHHHHHHHHHH
Q ss_conf             63117989888999999999
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAG   56 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~   56 (347)
                      +-+.||.|+||+|++..+.+
T Consensus       364 vaiVG~SGsGKSTL~~LL~g  383 (585)
T PRK13657        364 VAIVGPTGAGKSTLINLLHR  383 (585)
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99988989869999999860


No 256
>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2.  The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia.  Use of the term assembly of a functional ion channel implies the coming together of subunits or at least smaller not-yet functional components of the active whole.  In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells.  CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.
Probab=95.80  E-value=0.015  Score=40.19  Aligned_cols=52  Identities=13%  Similarity=0.243  Sum_probs=40.1

Q ss_pred             CCHHHHHHHHH-HCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHCEEEEEEC
Q ss_conf             21035322055-4240001456777663034341676504433573025203698864
Q gi|254780217|r  130 YWRVIMIDPVD-GMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKF  186 (347)
Q Consensus       130 ~~Ki~IId~ad-~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI~SRc~~i~f  186 (347)
                      +-+|+|+|++- .|...+...+.++|++--+++.+|++||+.+    ++.. |.++-+
T Consensus       156 ~p~IllLDEpTs~LD~~te~~i~~~l~~~~~~~TvI~itHrl~----~~~~-~DrIlv  208 (275)
T cd03289         156 KAKILLLDEPSAHLDPITYQVIRKTLKQAFADCTVILSEHRIE----AMLE-CQRFLV  208 (275)
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCHH----HHHH-CCEEEE
T ss_conf             9998999797668999999999999999729998999943888----8986-999999


No 257
>pfam02562 PhoH PhoH-like protein. PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation.
Probab=95.79  E-value=0.053  Score=35.75  Aligned_cols=131  Identities=13%  Similarity=0.209  Sum_probs=61.8

Q ss_pred             CHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEE
Q ss_conf             92999999999998288981663117989888999999999981779988643121012678867999967898754530
Q gi|254780217|r   16 GHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYL   95 (347)
Q Consensus        16 G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i   95 (347)
                      .|+...+    ++..+.+   .+..||.|+||+-+|.+.|-.++-......--  ...+     .   +..|.  ++=++
T Consensus         8 ~Q~~~~~----~l~~~~i---v~~~GpAGtGKT~la~~~al~~l~~~~~~kii--i~Rp-----~---v~~g~--~iGfL   68 (205)
T pfam02562         8 GQKRYVE----AIRKNDI---VFGIGPAGTGKTYLAVAAAVDALKDGKVKRII--LTRP-----A---VEAGE--KLGFL   68 (205)
T ss_pred             HHHHHHH----HHHCCCE---EEEECCCCCCHHHHHHHHHHHHHHHCCCCEEE--EEEC-----C---CCCCC--CCCCC
T ss_conf             8999999----9717980---79989998609999999999999718943799--9757-----7---12577--54558


Q ss_pred             CCCCHHHCC--------CCCCCCCHHHHHHHH-----HHCCCCCCCC---CCHHHHHHHHHHCCHHHHHHHHHHHHHCCC
Q ss_conf             010001013--------421232378875544-----3102221111---210353220554240001456777663034
Q gi|254780217|r   96 SYSLNPKTG--------KWRTVITVDEIRRIR-----YFLSLTANTG---YWRVIMIDPVDGMNRNAANALLKSLEEPPQ  159 (347)
Q Consensus        96 ~~~~~~k~~--------~~~~~I~vd~IR~l~-----~~~~~~~~~~---~~Ki~IId~ad~ln~~AaNALLK~LEEPp~  159 (347)
                      .-..++|-.        .....++.++++.+.     ++....-..|   ...++|+|||.+||.+..-.+|==+-   +
T Consensus        69 PG~~~eK~~p~~~p~~d~l~~~~~~~~~~~l~~~~~Ie~~pl~~iRGrTf~n~~iIvDEaQN~t~~~lk~ilTRiG---~  145 (205)
T pfam02562        69 PGDLEEKVDPYLRPLYDALYDMLGAEKVEKLIERGVIEIAPLAYMRGRTLNDAFIILDEAQNTTPEQMKMFLTRIG---F  145 (205)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHCCCEEECCHHHHCCCCCCCCEEEEECHHCCCHHHHHHHHHHCC---C
T ss_conf             8978999999999999999987289999999975975661467655476256889997221399999999984217---9


Q ss_pred             CCCEEEEEC
Q ss_conf             341676504
Q gi|254780217|r  160 KVLFILISH  168 (347)
Q Consensus       160 ~t~fiLit~  168 (347)
                      ++.+|++-.
T Consensus       146 ~SK~vi~GD  154 (205)
T pfam02562       146 NSKMVVTGD  154 (205)
T ss_pred             CCEEEEECC
T ss_conf             968999478


No 258
>PRK06921 hypothetical protein; Provisional
Probab=95.76  E-value=0.026  Score=38.32  Aligned_cols=29  Identities=21%  Similarity=0.308  Sum_probs=25.1

Q ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             89816631179898889999999999817
Q gi|254780217|r   32 RMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        32 ~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      .-.+.++|+|++|+|||-+|.++|+.|+-
T Consensus       114 ~~~~~l~f~G~~G~GKThLa~aIa~~Ll~  142 (265)
T PRK06921        114 CRKNSIALLGQPGSGKTHLLTAAANELMR  142 (265)
T ss_pred             CCCCCEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             77662799728989889999999999999


No 259
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=95.74  E-value=0.036  Score=37.12  Aligned_cols=38  Identities=29%  Similarity=0.456  Sum_probs=27.1

Q ss_pred             HHHHHHHCCCCC-EEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             999999828898-16631179898889999999999817
Q gi|254780217|r   23 FLSQYYCSGRMH-HALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        23 ~L~~~~~~~~l~-ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      .|.+.+-.|=+| .++|+-|.|||||+|+-+..|..+-.
T Consensus        81 EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~  119 (456)
T COG1066          81 ELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAK  119 (456)
T ss_pred             HHHHHHCCCCCCCCEEEECCCCCCCHHHHHHHHHHHHHH
T ss_conf             887653677236617997368987798999999999870


No 260
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=95.74  E-value=0.049  Score=36.06  Aligned_cols=35  Identities=29%  Similarity=0.287  Sum_probs=23.5

Q ss_pred             HHHHHHCC-CCCEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             99999828-898166311798988899999999998
Q gi|254780217|r   24 LSQYYCSG-RMHHALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        24 L~~~~~~~-~l~ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      |.+.+..| ....-+.++||||+||+++++.+|-..
T Consensus         8 lD~~L~GGi~~G~itEi~G~~GsGKTql~lqla~~~   43 (235)
T cd01123           8 LDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTV   43 (235)
T ss_pred             HHHHCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             996507996478799999999984999999999998


No 261
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=95.73  E-value=0.0094  Score=41.83  Aligned_cols=131  Identities=17%  Similarity=0.140  Sum_probs=60.8

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHH
Q ss_conf             63117989888999999999981779988643121012678867999967898754530010001013421232378875
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIR  116 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR  116 (347)
                      ++|+|+||+||+|+|..+|+.|=......                  +..+  -|+... .-||+--     .|..+.-|
T Consensus         4 iIlTGyPgsGKTtfakeLak~L~~~i~~v------------------i~l~--kdy~~~-i~~DEsl-----pi~ke~yr   57 (261)
T COG4088           4 IILTGYPGSGKTTFAKELAKELRQEIWRV------------------IHLE--KDYLRG-ILWDESL-----PILKEVYR   57 (261)
T ss_pred             EEEECCCCCCCHHHHHHHHHHHHHHHHHC------------------CCCC--HHHHHH-EECCCCC-----CHHHHHHH
T ss_conf             99826999880178999999999720011------------------2132--014541-2331324-----03799999


Q ss_pred             HHHHHCCCCCCCCC--CHHHHHHHHHHCCHHHHHHHHHHH--HHCCCCCCEEEEECCCCCCCHHHHCEEEEEECCCCCHH
Q ss_conf             54431022211112--103532205542400014567776--63034341676504433573025203698864799989
Q gi|254780217|r  117 RIRYFLSLTANTGY--WRVIMIDPVDGMNRNAANALLKSL--EEPPQKVLFILISHASPTILSTIRSRCLSIKFNSLSEN  192 (347)
Q Consensus       117 ~l~~~~~~~~~~~~--~Ki~IId~ad~ln~~AaNALLK~L--EEPp~~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~  192 (347)
                      +....-.++-..+.  .++||+|+-.+.+     ++..-|  |--.-+|.+..|--.  .=+.|++-|- .=+=.|.+++
T Consensus        58 es~~ks~~rlldSalkn~~VIvDdtNYyk-----smRrqL~ceak~~~tt~ciIyl~--~plDtc~rrN-~ergepip~E  129 (261)
T COG4088          58 ESFLKSVERLLDSALKNYLVIVDDTNYYK-----SMRRQLACEAKERKTTWCIIYLR--TPLDTCLRRN-RERGEPIPEE  129 (261)
T ss_pred             HHHHHHHHHHHHHHHCCEEEEEECCCHHH-----HHHHHHHHHHHHCCCCEEEEEEC--CCHHHHHHHH-CCCCCCCCHH
T ss_conf             99988899999998636499970632888-----99999999998637865999972--6889998860-2479999899


Q ss_pred             HHHHHHHHH
Q ss_conf             999999972
Q gi|254780217|r  193 NLYKALEQL  201 (347)
Q Consensus       193 ~~~~~L~~~  201 (347)
                      .+.+.....
T Consensus       130 vl~qly~Rf  138 (261)
T COG4088         130 VLRQLYDRF  138 (261)
T ss_pred             HHHHHHHHH
T ss_conf             999999961


No 262
>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=95.73  E-value=0.02  Score=39.13  Aligned_cols=25  Identities=20%  Similarity=0.284  Sum_probs=21.6

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             1663117989888999999999981
Q gi|254780217|r   35 HALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        35 ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      ...+++|+||+||+++++.+|....
T Consensus        20 ~it~i~G~pG~GKStl~lq~a~~~~   44 (218)
T cd01394          20 TVTQVYGPPGTGKTNIAIQLAVETA   44 (218)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf             7999989999849999999999986


No 263
>PRK10416 cell division protein FtsY; Provisional
Probab=95.73  E-value=0.021  Score=39.03  Aligned_cols=126  Identities=18%  Similarity=0.236  Sum_probs=64.0

Q ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH-HHHHHC-CCCCCEEEECCCCHHHCCCCCC
Q ss_conf             88981663117989888999999999981779988643121012678867-999967-8987545300100010134212
Q gi|254780217|r   31 GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF-VKQMAS-HALHDFLYLSYSLNPKTGKWRT  108 (347)
Q Consensus        31 ~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~-~~~i~~-~~hpd~~~i~~~~~~k~~~~~~  108 (347)
                      ++-|+-+|+.|-.|+||||++-.+|.++......--  .  ...|..+.. .-++.- +..-++-++...    .+.+..
T Consensus       292 ~~~P~VIl~vGvNG~GKTTTigKLA~~~~~~gkkVl--l--aA~DTfRaAAieQL~~w~~r~~v~vi~~~----~g~Dpa  363 (499)
T PRK10416        292 GKTPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVM--L--AAGDTFRAAAVEQLQVWGQRNNIPVIAQH----TGADSA  363 (499)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEE--E--EEECCCCHHHHHHHHHHHCCCCCEEEECC----CCCCHH
T ss_conf             999879999747878789899999999997799537--8--84066756899999998424573698368----999979


Q ss_pred             CCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHH---------HHHHHHHHHCCCCCCEEEEECCCCC
Q ss_conf             323788755443102221111210353220554240001---------4567776630343416765044335
Q gi|254780217|r  109 VITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAA---------NALLKSLEEPPQKVLFILISHASPT  172 (347)
Q Consensus       109 ~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~Aa---------NALLK~LEEPp~~t~fiLit~~~~~  172 (347)
                      .|--|-+    .    .....++-|+|||-|-+|.....         +.+-|..++.|..++++|=++--+.
T Consensus       364 ~V~~dai----~----~a~~~~~DvviiDTAGRl~~~~~LM~EL~ki~rvi~k~~~~aP~e~lLVlDa~tGQn  428 (499)
T PRK10416        364 SVIFDAI----Q----AAKARNVDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQN  428 (499)
T ss_pred             HHHHHHH----H----HHHHCCCCEEEEECCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCCHH
T ss_conf             9999999----9----999729998998577643260999999999999997237899974899977876778


No 264
>PRK13764 ATPase; Provisional
Probab=95.72  E-value=0.019  Score=39.28  Aligned_cols=46  Identities=20%  Similarity=0.218  Sum_probs=32.7

Q ss_pred             CHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             5656109299999999999828898166311798988899999999998177
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQN   61 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~   61 (347)
                      ++++.--.+..++.|..      -+.++|+.|+||.||+|||.++|.++...
T Consensus       241 sledY~l~~~l~~Rl~~------~a~GilIaG~PGaGKsTfaqalA~~~~~~  286 (605)
T PRK13764        241 SLEDYNLSEKLKERLEE------RAEGILIAGAPGAGKSTFAQALAEFYADM  286 (605)
T ss_pred             CHHHCCCCHHHHHHHHH------CCCEEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf             47771678999998873------36649997799997789999999999847


No 265
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=95.67  E-value=0.037  Score=37.00  Aligned_cols=131  Identities=16%  Similarity=0.139  Sum_probs=63.5

Q ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHH-HHHC-CCCCCEEEECCCCHHHCCCCCC
Q ss_conf             8898166311798988899999999998177998864312101267886799-9967-8987545300100010134212
Q gi|254780217|r   31 GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVK-QMAS-HALHDFLYLSYSLNPKTGKWRT  108 (347)
Q Consensus        31 ~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~-~i~~-~~hpd~~~i~~~~~~k~~~~~~  108 (347)
                      ..-|.-++|.|..|+||||++-.+|.++-...   .. +.....|...+... ++.. +..-++-++...    .+..  
T Consensus        94 ~~kP~Vim~vGlqGsGKTTT~aKLA~~~kk~g---~k-v~lvaaDt~RpaA~eQL~~la~~~~v~~~~~~----~~~d--  163 (433)
T PRK00771         94 LLKPQTILLVGLQGSGKTTTAAKLARYFQKKG---LK-VGVICADTWRPGAYEQLKQLCEKINVPFYGDP----KEKD--  163 (433)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHCC---CC-EEEEECCCCCHHHHHHHHHHHHHCCCCCCCCC----CCCC--
T ss_conf             68985899973788978999999999999779---94-67850678836899999999986388731788----9999--


Q ss_pred             CCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHH--HHHHHHHHH-CCCCCCEEEEECCCCCCCHHHHC
Q ss_conf             323788755443102221111210353220554240001--456777663-03434167650443357302520
Q gi|254780217|r  109 VITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAA--NALLKSLEE-PPQKVLFILISHASPTILSTIRS  179 (347)
Q Consensus       109 ~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~Aa--NALLK~LEE-Pp~~t~fiLit~~~~~il~TI~S  179 (347)
                        .++-+++-...+.      ++-|+|||-|-++..+..  +-|-++-+- -|..++|++=+.--+.-....++
T Consensus       164 --p~~i~~~a~~~~k------~~DvviiDTAGRl~~d~~Lm~El~~i~~~~~P~e~llV~Da~~GQ~a~~~a~~  229 (433)
T PRK00771        164 --AVKIVKEGLEKLK------KVDVIIVDTAGRHKLEKDLIEEMKQIKEITKPDEVILVIDATIGQQASEQAKA  229 (433)
T ss_pred             --HHHHHHHHHHHHC------CCCEEEEECCCCCCCCHHHHHHHHHHHHHHCCCEEEEEEECCCCHHHHHHHHH
T ss_conf             --9999999999845------69889997765210409999999999877579768998654422678999999


No 266
>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1).  NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters.  Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear.  The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed.  MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.
Probab=95.65  E-value=0.043  Score=36.47  Aligned_cols=23  Identities=26%  Similarity=0.294  Sum_probs=20.1

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             63117989888999999999981
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      +-+.||.|+||+|++..+++.+-
T Consensus        37 v~ivG~sGsGKSTLl~ll~g~~~   59 (207)
T cd03369          37 IGIVGRTGAGKSTLILALFRFLE   59 (207)
T ss_pred             EEEECCCCCCHHHHHHHHHHHCC
T ss_conf             99999999879999999998728


No 267
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=95.60  E-value=0.035  Score=37.19  Aligned_cols=36  Identities=22%  Similarity=0.371  Sum_probs=31.2

Q ss_pred             HHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             999998288981663117989888999999999981
Q gi|254780217|r   24 LSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        24 L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      +-+.+...+.|--+|+.|.+|+||+|+|..+|..|.
T Consensus        82 ~~r~~r~~~~pliILigGtsGvGKSTlA~~LA~rLg  117 (306)
T PRK04220         82 LWRRIRKSKEPIIILIGGASGVGTSTIAFELASRLG  117 (306)
T ss_pred             HHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHC
T ss_conf             999985369987999858998878999999999709


No 268
>KOG0477 consensus
Probab=95.59  E-value=0.033  Score=37.41  Aligned_cols=150  Identities=17%  Similarity=0.246  Sum_probs=79.5

Q ss_pred             HHHCCHHHHHHHHHHHHHCCC--C----------CEEEEECCCCCCCHHHHHHHHHHH----HHCCCCCCCCCHHHCCCC
Q ss_conf             561092999999999998288--9----------816631179898889999999999----817799886431210126
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYYCSGR--M----------HHALLFEGEQGIGKATLGFRYAGH----VLQNPDFSKAPVRMCNPD   75 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~~~~~--l----------~ha~Lf~Gp~GiGK~~~A~~~A~~----llc~~~~~~~~~~~~~~~   75 (347)
                      ..|+||..++..+.-++-.|-  -          -| .|+.|.||+||..|-...++-    ++.... +....|..   
T Consensus       449 PsIyGh~~VK~AvAlaLfGGv~kn~~~khkvRGDin-vLL~GDPGTaKSQFLKY~eK~s~RAV~tTGq-GASavGLT---  523 (854)
T KOG0477         449 PSIYGHEDVKRAVALALFGGVPKNPGGKHKVRGDIN-VLLLGDPGTAKSQFLKYAEKTSPRAVFTTGQ-GASAVGLT---  523 (854)
T ss_pred             CHHHCHHHHHHHHHHHHHCCCCCCCCCCCEECCCEE-EEEECCCCCCHHHHHHHHHHCCCCEEEECCC-CCCCCCEE---
T ss_conf             243145899999999985687568898744514402-8984699822899999998627531685067-75433326---


Q ss_pred             CCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHH
Q ss_conf             78867999967898754530010001013421232378875544310222111121035322055424000145677766
Q gi|254780217|r   76 PCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLE  155 (347)
Q Consensus        76 ~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LE  155 (347)
                                +..+-|  -+.++|.-.+|..                    .....-||.||+.|.||.+---++=--+|
T Consensus       524 ----------a~v~Kd--PvtrEWTLEaGAL--------------------VLADkGvClIDEFDKMndqDRtSIHEAME  571 (854)
T KOG0477         524 ----------AYVRKD--PVTREWTLEAGAL--------------------VLADKGVCLIDEFDKMNDQDRTSIHEAME  571 (854)
T ss_pred             ----------EEEEEC--CCCCEEEECCCEE--------------------EECCCCEEEEEHHHHHCCCCCCHHHHHHH
T ss_conf             ----------887517--8653036516728--------------------97268537741211204011015999987


Q ss_pred             H-------------CCCCCCEEEEECCC-----------C--CCCHHHHCEEEEEEC-----CCCCHHHHHHHH
Q ss_conf             3-------------03434167650443-----------3--573025203698864-----799989999999
Q gi|254780217|r  156 E-------------PPQKVLFILISHAS-----------P--TILSTIRSRCLSIKF-----NSLSENNLYKAL  198 (347)
Q Consensus       156 E-------------Pp~~t~fiLit~~~-----------~--~il~TI~SRc~~i~f-----~~l~~~~~~~~L  198 (347)
                      .             -...+..|..++-.           +  .+-.+|.||.-.+-+     .|...+.+.+++
T Consensus       572 QQSISISKAGIVtsLqArctvIAAanPigGRY~~s~tFaqNV~ltePIlSRFDiLcVvkD~vd~~~De~lA~fV  645 (854)
T KOG0477         572 QQSISISKAGIVTSLQARCTVIAAANPIGGRYNPSLTFAQNVDLTEPILSRFDILCVVKDTVDPVQDEKLAKFV  645 (854)
T ss_pred             HCCHHHHHHHHHHHHHHHHHHHEECCCCCCCCCCCCCHHHCCCCCCCHHHHCCEEEEEECCCCCHHHHHHHHHH
T ss_conf             51201446668998875544300027777756875114330554444121113245640355813678899999


No 269
>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=95.59  E-value=0.12  Score=32.83  Aligned_cols=136  Identities=15%  Similarity=0.147  Sum_probs=76.6

Q ss_pred             HHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCC
Q ss_conf             99999999998288981663117989888999999999981779988643121012678867999967898754530010
Q gi|254780217|r   19 DIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYS   98 (347)
Q Consensus        19 ~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~   98 (347)
                      .....+........  ++.+++||+++||||+...+++.++..                              .+++...
T Consensus        24 ~~~~~l~~~~~~~~--~i~~i~GpR~~GKTtllk~l~~~~~~~------------------------------~iy~~~~   71 (398)
T COG1373          24 KLLPRLIKKLDLRP--FIILILGPRQVGKTTLLKLLIKGLLEE------------------------------IIYINFD   71 (398)
T ss_pred             HHHHHHHHHHCCCC--CEEEEECCCCCCHHHHHHHHHHHCCCC------------------------------EEEEECC
T ss_conf             67799876503578--549998886477899999999747773------------------------------5999736


Q ss_pred             CHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCC----CCC
Q ss_conf             0010134212323788755443102221111210353220554240001456777663034341676504433----573
Q gi|254780217|r   99 LNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASP----TIL  174 (347)
Q Consensus        99 ~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~~~----~il  174 (347)
                      ... ....   -..|..+....-...     +...+++|+++.. .+=.+++-.....++.  -+++++++..    .+.
T Consensus        72 d~~-~~~~---~l~d~~~~~~~~~~~-----~~~yifLDEIq~v-~~W~~~lk~l~d~~~~--~v~itgsss~ll~~~~s  139 (398)
T COG1373          72 DLR-LDRI---ELLDLLRAYIELKER-----EKSYIFLDEIQNV-PDWERALKYLYDRGNL--DVLITGSSSSLLSKEIS  139 (398)
T ss_pred             CCC-CCHH---HHHHHHHHHHHHHCC-----CCCEEEEEEECCC-HHHHHHHHHHHCCCCC--EEEEECCCHHHHCCCHH
T ss_conf             200-0135---677899999985222-----5745999833376-1089999999756775--09998371675413302


Q ss_pred             HHHHCEEEEEECCCCCHHHHHHHH
Q ss_conf             025203698864799989999999
Q gi|254780217|r  175 STIRSRCLSIKFNSLSENNLYKAL  198 (347)
Q Consensus       175 ~TI~SRc~~i~f~~l~~~~~~~~L  198 (347)
                      ++..=|-..+.+.|+|..+.....
T Consensus       140 ~~L~GR~~~~~l~PlSF~Efl~~~  163 (398)
T COG1373         140 ESLAGRGKDLELYPLSFREFLKLK  163 (398)
T ss_pred             HHCCCCEEEEEECCCCHHHHHHHC
T ss_conf             324998237898488889986413


No 270
>TIGR00959 ffh signal recognition particle protein; InterPro: IPR004780    The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes , . SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor . In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane.    This entry represents various SRP subunits.; GO: 0008312 7S RNA binding, 0006614 SRP-dependent cotranslational protein targeting to membrane, 0048500 signal recognition particle.
Probab=95.59  E-value=0.016  Score=40.00  Aligned_cols=105  Identities=15%  Similarity=0.109  Sum_probs=66.0

Q ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHHHH-CCCCCCCCCHHHCCCCCCCHHHH--HHHCCCCCCEEEEC-CCCHHHCCCC
Q ss_conf             88981663117989888999999999981-77998864312101267886799--99678987545300-1000101342
Q gi|254780217|r   31 GRMHHALLFEGEQGIGKATLGFRYAGHVL-QNPDFSKAPVRMCNPDPCSPFVK--QMASHALHDFLYLS-YSLNPKTGKW  106 (347)
Q Consensus        31 ~~l~ha~Lf~Gp~GiGK~~~A~~~A~~ll-c~~~~~~~~~~~~~~~~~~~~~~--~i~~~~hpd~~~i~-~~~~~k~~~~  106 (347)
                      ++-|+-||+.|=.|.||||++=.+|.+|| -..+...   --|..|.+.|...  +-.=|.+-++-++. ..    .+..
T Consensus        99 ~~~P~vilmvGLQGsGKTTt~gKLA~~ll~kk~~~kv---LLva~D~yRPAA~~QL~~Lg~Q~gVpvf~h~~----~~~~  171 (439)
T TIGR00959        99 EKRPTVILMVGLQGSGKTTTAGKLALYLLKKKEGKKV---LLVACDLYRPAAIEQLKVLGEQVGVPVFAHLG----KGQS  171 (439)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCE---EEEEHHCCCHHHHHHHHHHHHHCCCCCCCCCC----CCCC
T ss_conf             7868389973137885788999999999998638970---34032103478999999976752887110047----8889


Q ss_pred             CCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHH
Q ss_conf             12323788755443102221111210353220554240001
Q gi|254780217|r  107 RTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAA  147 (347)
Q Consensus       107 ~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~Aa  147 (347)
                      . .-.||=+|+....+....    +=|+|||-|=+|..+..
T Consensus       172 p-~~Pv~ia~~Al~~Ak~~~----~D~vI~DTAGRL~ID~~  207 (439)
T TIGR00959       172 P-DDPVEIARQALEEAKENG----FDVVIVDTAGRLQIDEE  207 (439)
T ss_pred             C-CCHHHHHHHHHHHHHHCC----CCEEEEECCCCHHHHHH
T ss_conf             8-877899999999999748----97899726751255599


No 271
>PRK08939 primosomal protein DnaI; Reviewed
Probab=95.58  E-value=0.03  Score=37.80  Aligned_cols=54  Identities=19%  Similarity=0.135  Sum_probs=37.4

Q ss_pred             CCCCCHHHHCCHH----HHH---HHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             5587565610929----999---99999998288981663117989888999999999981
Q gi|254780217|r    6 FDPVYNQRLFGHE----DIE---KFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus         6 ~~p~~~~~i~G~~----~~~---~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      ++-.+|+++.-.+    .+.   ..+...+..+.-+.++.+|||.|+||+-+|-++|..|.
T Consensus       122 i~~as~~d~~~~d~~R~~a~~~a~~F~~~y~~~~~~kGlyl~G~~G~GKTyL~~aian~La  182 (306)
T PRK08939        122 LLQATLADIDLDDLDRLDALMAALDFLEAYKPGEKVKGLYLYGDFGVGKTYLLAAIANELA  182 (306)
T ss_pred             HHCCCHHHCCCCCHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf             9809898648897789999999999999737698887788989999989999999999999


No 272
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=95.54  E-value=0.042  Score=36.60  Aligned_cols=24  Identities=21%  Similarity=0.468  Sum_probs=21.0

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHH
Q ss_conf             816631179898889999999999
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGH   57 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~   57 (347)
                      .+.||+.|+||+|||++|..|.-.
T Consensus        24 g~~~LV~G~pGsGKTtla~QfL~~   47 (501)
T PRK09302         24 GRPTLVSGTAGTGKTLFALQFLHN   47 (501)
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHH
T ss_conf             977999838999999999999999


No 273
>pfam04851 ResIII Type III restriction enzyme, res subunit.
Probab=95.51  E-value=0.22  Score=30.88  Aligned_cols=92  Identities=20%  Similarity=0.167  Sum_probs=51.3

Q ss_pred             HHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEEC
Q ss_conf             29999999999982889816631179898889999999999817799886431210126788679999678987545300
Q gi|254780217|r   17 HEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLS   96 (347)
Q Consensus        17 ~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~   96 (347)
                      |.++++.+   .+.++    .++..|.|.||+.++..++..+...                         +.  .++++-
T Consensus         8 Q~~a~~~~---~~~~~----~~i~~pTGsGKT~~~~~~i~~~~~~-------------------------~~--~~lvlv   53 (103)
T pfam04851         8 QIEAIRNL---LEKKR----GLIVMATGSGKTLTAAKLIARLLKG-------------------------KK--KVLFLV   53 (103)
T ss_pred             HHHHHHHH---HHCCC----EEEEECCCCCHHHHHHHHHHHHHHC-------------------------CC--CEEEEE
T ss_conf             99999999---96398----6999589998799999999999846-------------------------99--299990


Q ss_pred             CCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEE
Q ss_conf             10001013421232378875544310222111121035322055424000145677766303434167650
Q gi|254780217|r   97 YSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILIS  167 (347)
Q Consensus        97 ~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit  167 (347)
                      .          +.--++|-++   .+          ++|+||||....+.  ..-++++..|+..++=|++
T Consensus        54 p----------~~~L~~Q~~~---~~----------lii~DE~H~~~a~~--~~~~l~~~~~~~~~lGlTA   99 (103)
T pfam04851        54 P----------RKDLLEQALE---EF----------VIIIDEAHHSSAKT--KYRKILEYFKPAFLLGLTA   99 (103)
T ss_pred             C----------CHHHHHHHHH---HH----------HHHHHHHHHCCCHH--HHHHHHHHCCCCEEEEEEE
T ss_conf             8----------2999999999---65----------64601635235378--9999999577260899800


No 274
>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=95.50  E-value=0.0098  Score=41.69  Aligned_cols=24  Identities=33%  Similarity=0.454  Sum_probs=21.4

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             631179898889999999999817
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      ++|.||+|+||||++-.+|.++..
T Consensus         3 i~lvGptGvGKTTTiaKLA~~~~~   26 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKK   26 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             999899999889999999999997


No 275
>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch.  Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily.  MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined.  Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes.  The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis.  All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action.  MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru
Probab=95.49  E-value=0.048  Score=36.15  Aligned_cols=132  Identities=17%  Similarity=0.146  Sum_probs=68.4

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHH--HCCCCCCCCCH
Q ss_conf             1663117989888999999999981779988643121012678867999967898754530010001--01342123237
Q gi|254780217|r   35 HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNP--KTGKWRTVITV  112 (347)
Q Consensus        35 ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~--k~~~~~~~I~v  112 (347)
                      ..++++||...||+++-+.++..++-.......||.....             ...|-++......+  ..+...-.--+
T Consensus        30 ~~~iiTGpN~sGKSt~lkti~l~~~laq~G~~vpa~~~~~-------------~~~~~i~~~~~~~d~~~~~~S~F~~e~   96 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIGLAVLLAQIGCFVPAESASI-------------PLVDRIFTRIGAEDSISDGRSTFMAEL   96 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHHHHCCEEEECCCEE-------------ECCCEEEEEECCCHHHHCCCCHHHHHH
T ss_conf             2899989988753999999999999998387372044689-------------446669998466024443535499999


Q ss_pred             HHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-----HHHHHHHHHHHHCCCCCCEEEEECCCC-CCCHHHHCEEEEEEC
Q ss_conf             88755443102221111210353220554240-----001456777663034341676504433-573025203698864
Q gi|254780217|r  113 DEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR-----NAANALLKSLEEPPQKVLFILISHASP-TILSTIRSRCLSIKF  186 (347)
Q Consensus       113 d~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-----~AaNALLK~LEEPp~~t~fiLit~~~~-~il~TI~SRc~~i~f  186 (347)
                      .+++.+.+...      ++-.+++||.-.=|.     ..+-|+|+.|-+  .++..|++||..+ .-++.-..+.+...|
T Consensus        97 ~~~~~i~~~~~------~~slvliDE~~~gT~~~eg~~la~a~l~~l~~--~~~~~i~tTH~~~L~~~~~~~~~~~~~~~  168 (202)
T cd03243          97 LELKEILSLAT------PRSLVLIDELGRGTSTAEGLAIAYAVLEHLLE--KGCRTLFATHFHELADLPEQVPGVKNLHM  168 (202)
T ss_pred             HHHHHHHHHCC------CCCEEEECCCCCCCCHHHHHHHHHHHHHHHHH--CCCEEEEEECCHHHHHHHHCCCCEEEEEE
T ss_conf             99999998677------77724205234799867879999999999985--36849998253888875313897499999


Q ss_pred             C
Q ss_conf             7
Q gi|254780217|r  187 N  187 (347)
Q Consensus       187 ~  187 (347)
                      .
T Consensus       169 ~  169 (202)
T cd03243         169 E  169 (202)
T ss_pred             E
T ss_conf             9


No 276
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.47  E-value=0.0029  Score=45.89  Aligned_cols=134  Identities=12%  Similarity=0.180  Sum_probs=63.0

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHH-HCCCCCCCCCHHHCCCCCCCHHH-HHHHCCCCCCEEEECCCCHHHCCCCCCCCC
Q ss_conf             8166311798988899999999998-17799886431210126788679-999678987545300100010134212323
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHV-LQNPDFSKAPVRMCNPDPCSPFV-KQMASHALHDFLYLSYSLNPKTGKWRTVIT  111 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~l-lc~~~~~~~~~~~~~~~~~~~~~-~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~  111 (347)
                      +.-+.|.||.|+||||+.-.+|... +..... ....+....|..+... -++...  -+++-++         ....-+
T Consensus       174 ~~vi~lVGPTGvGKTTTiAKLAa~~~l~~~~k-~~~V~lit~DtyRigAveQLkty--a~il~vp---------~~v~~~  241 (388)
T PRK12723        174 KRIFILVGPTGVGKTTTIAKLAAIYGINSDDK-SLNIKIITIDNYRIGAKKQIQTY--GDIMGIP---------VKAIES  241 (388)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHHCCCC-CCCEEEEEECCCCHHHHHHHHHH--HHHHCCC---------EEEECC
T ss_conf             62899989988757879999999999862676-77379998078758899999999--9997880---------698578


Q ss_pred             HHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHH--HHHHHHHHHC-C-CCCCEEEEECCCCCCCHHHHCEEEEEE
Q ss_conf             788755443102221111210353220554240001--4567776630-3-434167650443357302520369886
Q gi|254780217|r  112 VDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAA--NALLKSLEEP-P-QKVLFILISHASPTILSTIRSRCLSIK  185 (347)
Q Consensus       112 vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~Aa--NALLK~LEEP-p-~~t~fiLit~~~~~il~TI~SRc~~i~  185 (347)
                      .++.+.....      ..++.+++||-|-+-..+..  .-|-+.++.- | ..+++.+.++...+-+..|..|-..+.
T Consensus       242 ~~dl~~~l~~------~~~~D~IlIDTAGrs~~d~~~~~el~~~~~~~~~~~~~~Lvlsat~~~~d~~~i~~~f~~~~  313 (388)
T PRK12723        242 FKDLKEEITQ------SKDFDLVLIDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKTSDIKEIFHQFSPFS  313 (388)
T ss_pred             HHHHHHHHHH------HCCCCEEEEECCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEECCCCCHHHHHHHHHHHCCCC
T ss_conf             8999999997------24999999958998856899999999999741898459999879899999999999842799


No 277
>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=95.46  E-value=0.007  Score=42.87  Aligned_cols=134  Identities=15%  Similarity=0.103  Sum_probs=67.2

Q ss_pred             EEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCC-CCHHH
Q ss_conf             66311798988899999999998177998864312101267886799996789875453001000101342123-23788
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTV-ITVDE  114 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~-I~vd~  114 (347)
                      -+.+.||.|+||+|++..++..+-...+ .-.-.|..-........+....-...+...+....       +.+ .|--|
T Consensus        30 ~i~ivG~sGsGKSTLl~ll~gl~~p~~G-~I~i~g~~i~~~~~~~~~~~i~~v~Q~~~lf~~tv-------~eNiLSgGq  101 (171)
T cd03228          30 KVAIVGPSGSGKSTLLKLLLRLYDPTSG-EILIDGVDLRDLDLESLRKNIAYVPQDPFLFSGTI-------RENILSGGQ  101 (171)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCCCCCCC-EEEECCEECCCCCHHHHHHHEEEECCCCCCCCCCH-------HHHCCCHHH
T ss_conf             9999999998399999999767758974-89999999885998998631899966684375779-------997744889


Q ss_pred             HHHHHHHCCC-CCCCCCCHHHHHHHHH-HCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHCEEEEEEC
Q ss_conf             7554431022-2111121035322055-4240001456777663034341676504433573025203698864
Q gi|254780217|r  115 IRRIRYFLSL-TANTGYWRVIMIDPVD-GMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKF  186 (347)
Q Consensus       115 IR~l~~~~~~-~~~~~~~Ki~IId~ad-~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI~SRc~~i~f  186 (347)
                      -+    ++.. ++.....+|+|+||+- .|...+...+.+.|++-.++..+|++||+++.+     ..|-++-+
T Consensus       102 ~Q----ri~lARal~~~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~Tvi~vtH~~~~~-----~~~D~v~~  166 (171)
T cd03228         102 RQ----RIAIARALLRDPPILILDEATSALDPETEALILEALRALAKGKTVIVIAHRLSTI-----RDADRIIV  166 (171)
T ss_pred             HH----HHHHHHHHHHCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCHHHH-----HHCCEEEE
T ss_conf             99----9999999974899899957766799899999999999980999899995799999-----70999999


No 278
>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.  This family is also known as MRP (mulrtidrug resisitance-associated protein).  Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear.  The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed.  MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.
Probab=95.41  E-value=0.034  Score=37.30  Aligned_cols=22  Identities=27%  Similarity=0.303  Sum_probs=19.1

Q ss_pred             EEECCCCCCCHHHHHHHHHHHH
Q ss_conf             6311798988899999999998
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      +-+.||.|+||+|++..++..+
T Consensus        33 v~ivG~sGsGKSTLl~ll~gl~   54 (221)
T cd03244          33 VGIVGRTGSGKSSLLLALFRLV   54 (221)
T ss_pred             EEEECCCCCCHHHHHHHHHCCC
T ss_conf             9999999998999999996797


No 279
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=95.40  E-value=0.033  Score=37.48  Aligned_cols=127  Identities=18%  Similarity=0.116  Sum_probs=54.7

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCH-------HHHHHHCCCCCCEEEECCCCHH----HCCC
Q ss_conf             6311798988899999999998177998864312101267886-------7999967898754530010001----0134
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSP-------FVKQMASHALHDFLYLSYSLNP----KTGK  105 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~-------~~~~i~~~~hpd~~~i~~~~~~----k~~~  105 (347)
                      .++.+|.|.|||..+...+...+.......  +--+  .+...       .++.... .+.+...+......    +...
T Consensus         3 ~lv~~ptGsGKT~~~~~~~~~~~~~~~~~~--~lil--~Pt~~L~~q~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~   77 (144)
T cd00046           3 VLLAAPTGSGKTLAALLPILELLDSLKGGQ--VLVL--APTRELANQVAERLKELFG-EGIKVGYLIGGTSIKQQEKLLS   77 (144)
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHHCCCCE--EEEE--CCHHHHHHHHHHHHHHHCC-CCCEEEEEECCCCHHHHHHHHC
T ss_conf             999889971799999999999997568976--9997--4679999999999999748-8717999961363677898745


Q ss_pred             CCCCCCHHHHHHHHHHCCCC-CCCCCCHHHHHHHHHHCCHHHHHH-HHHHHHHCCCCCCEEEEEC
Q ss_conf             21232378875544310222-111121035322055424000145-6777663034341676504
Q gi|254780217|r  106 WRTVITVDEIRRIRYFLSLT-ANTGYWRVIMIDPVDGMNRNAANA-LLKSLEEPPQKVLFILISH  168 (347)
Q Consensus       106 ~~~~I~vd~IR~l~~~~~~~-~~~~~~Ki~IId~ad~ln~~AaNA-LLK~LEEPp~~t~fiLit~  168 (347)
                      ....|-|-....+...+... -....++++|+||||.|..+..-. .+..+..-+++..+++.|-
T Consensus        78 ~~~~ilv~T~~~l~~~~~~~~~~~~~~~~vViDEaH~~~~~~~~~~~~~~~~~~~~~~~~l~lSA  142 (144)
T cd00046          78 GKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQGFGLLGLKILLKLPKDRQVLLLSA  142 (144)
T ss_pred             CCCCEEECCHHHHHHHHHCCCCCCCCCCEEEEECHHHHHCCCCHHHHHHHHHHCCCCCCEEEECC
T ss_conf             89849982889999999738765551009999888876437969999999996799994899828


No 280
>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]
Probab=95.37  E-value=0.024  Score=38.57  Aligned_cols=52  Identities=25%  Similarity=0.318  Sum_probs=26.9

Q ss_pred             CCCHHHHHHHHH-HCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHCEEEEE
Q ss_conf             121035322055-42400014567776630343416765044335730252036988
Q gi|254780217|r  129 GYWRVIMIDPVD-GMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSI  184 (347)
Q Consensus       129 ~~~Ki~IId~ad-~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI~SRc~~i  184 (347)
                      .+-||.|+|||= .+..++.....-.|-++..+..+|+|||++    +||++==+.+
T Consensus       626 ~~P~ILlLDEaTSaLD~~sE~~I~~~L~~~~~~~T~I~IaHRl----~ti~~adrIi  678 (709)
T COG2274         626 SKPKILLLDEATSALDPETEAIILQNLLQILQGRTVIIIAHRL----STIRSADRII  678 (709)
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHHHHHHCCCEEEEEECCC----HHHHHCCEEE
T ss_conf             6999899707422369867999999999984588699997661----6864025799


No 281
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the  chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=95.37  E-value=0.031  Score=37.65  Aligned_cols=29  Identities=10%  Similarity=0.328  Sum_probs=23.3

Q ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             89816631179898889999999999817
Q gi|254780217|r   32 RMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        32 ~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      +-.+-+++.|+||+||++++..+|..+..
T Consensus        11 ~~G~L~vi~a~~g~GKS~~~~~la~~~a~   39 (242)
T cd00984          11 QPGDLIIIAARPSMGKTAFALNIAENIAK   39 (242)
T ss_pred             CCCCEEEEEECCCCCHHHHHHHHHHHHHH
T ss_conf             99818999968999999999999999999


No 282
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=95.34  E-value=0.25  Score=30.40  Aligned_cols=22  Identities=23%  Similarity=0.279  Sum_probs=17.3

Q ss_pred             CEEEEECCCCCCCHHHHHHHHH
Q ss_conf             8166311798988899999999
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYA   55 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A   55 (347)
                      ..-++++||+|+||+|+..++.
T Consensus         2 G~LivvsgPSGaGK~Tli~~l~   23 (184)
T PRK10078          2 GKLIWLMGPSGSGKDSLLAALR   23 (184)
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
T ss_conf             7099998998699999999998


No 283
>PRK11823 DNA repair protein RadA; Provisional
Probab=95.32  E-value=0.044  Score=36.40  Aligned_cols=165  Identities=17%  Similarity=0.174  Sum_probs=80.7

Q ss_pred             CCCCHHHHCCHHHHH------HHHHHHHHCCCCC-EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCC------
Q ss_conf             587565610929999------9999999828898-166311798988899999999998177998864312101------
Q gi|254780217|r    7 DPVYNQRLFGHEDIE------KFLSQYYCSGRMH-HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCN------   73 (347)
Q Consensus         7 ~p~~~~~i~G~~~~~------~~L~~~~~~~~l~-ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~------   73 (347)
                      +|..++++-.+ +..      ..|.+.+-.|=+| -..|+.|.|||||.|+.+..|..+= .....-+.+|+=+      
T Consensus        57 ~~~~l~~v~~~-~~~R~~Tgi~ElDRVLGGGlV~GS~iLlgGePGIGKSTLlLQ~a~~la-~~~~vLYvSGEES~~Qik~  134 (454)
T PRK11823         57 KPVKLSDVEAE-EEPRISTGIGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAAALA-AGGKVLYVSGEESLQQIKL  134 (454)
T ss_pred             CCEEHHHCCCC-CCCCCCCCCHHHHHCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHH-CCCCEEEECCCHHHHHHHH
T ss_conf             75652442566-655323785566522158720664899507998889999999999985-5995799815015789999


Q ss_pred             ----------------CCCCCHHHHHHHCCCCCCEEEECCC---CHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHH
Q ss_conf             ----------------2678867999967898754530010---001013421232378875544310222111121035
Q gi|254780217|r   74 ----------------PDPCSPFVKQMASHALHDFLYLSYS---LNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVI  134 (347)
Q Consensus        74 ----------------~~~~~~~~~~i~~~~hpd~~~i~~~---~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~  134 (347)
                                      ..........+ ....|++++|+..   +.+..  ....=+|-|||+.-..+...+=..+.-++
T Consensus       135 RA~RLg~~~~~l~l~~et~l~~Il~~i-~~~~P~~lIIDSIQT~~~~~~--~s~pGsvsQVre~a~~L~~~AK~~~i~~~  211 (454)
T PRK11823        135 RAERLGLPSDNLYLLAETNLEDILATI-EEEKPDLVVIDSIQTMYSPEL--ESAPGSVSQVRECAAELTRLAKQSGIAVF  211 (454)
T ss_pred             HHHHHCCCCCCCEEEECCCHHHHHHHH-HHHCCCEEEEECHHEEEECCC--CCCCCCHHHHHHHHHHHHHHHHHCCCCEE
T ss_conf             999758888873788536899999999-860998899943111541566--77899789999999999999974498289


Q ss_pred             HHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEE--ECCCCCCCHHHHCE
Q ss_conf             32205542400014567776630343416765--04433573025203
Q gi|254780217|r  135 MIDPVDGMNRNAANALLKSLEEPPQKVLFILI--SHASPTILSTIRSR  180 (347)
Q Consensus       135 IId~ad~ln~~AaNALLK~LEEPp~~t~fiLi--t~~~~~il~TI~SR  180 (347)
                      +|   -..|++.+=|=-|+||--- .|++-|=  .++..++|-+++-|
T Consensus       212 lV---GHVTKdG~iAGPkvLEHmV-DtVl~fEGd~~~~~RiLR~~KNR  255 (454)
T PRK11823        212 LV---GHVTKEGAIAGPRVLEHMV-DTVLYFEGDRHSRFRILRAVKNR  255 (454)
T ss_pred             EE---EEECCCCCCCCCHHHHHHH-CEEEEECCCCCCCCEEEEEECCC
T ss_conf             99---9772677646614522201-04687515766550245631246


No 284
>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=95.31  E-value=0.029  Score=37.89  Aligned_cols=127  Identities=24%  Similarity=0.359  Sum_probs=74.9

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEE--EECCCCHHHCCCCCCCCCH
Q ss_conf             16631179898889999999999817799886431210126788679999678987545--3001000101342123237
Q gi|254780217|r   35 HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFL--YLSYSLNPKTGKWRTVITV  112 (347)
Q Consensus        35 ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~--~i~~~~~~k~~~~~~~I~v  112 (347)
                      | .-|+|.||+||+|.|..+|.-|..-.-.-.+   ...+            -+.-|+.  +|... .+|          
T Consensus        60 h-m~ftG~PGtGkttva~~m~~~l~~lGy~r~G---~~~~------------~trddlvGqy~Ght-aPk----------  112 (284)
T TIGR02880        60 H-MSFTGNPGTGKTTVALRMAQILHRLGYVRKG---HLVS------------VTRDDLVGQYIGHT-APK----------  112 (284)
T ss_pred             E-EEECCCCCCCHHHHHHHHHHHHHHCCCCCCC---CEEE------------EEHHHHHHHHHCCC-CCH----------
T ss_conf             6-7751689872489999999999871540036---2678------------53001311221257-722----------


Q ss_pred             HHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC---------HHHHHHHHHHHHHCCCCCCEEEEECCCCCC------CHHH
Q ss_conf             8875544310222111121035322055424---------000145677766303434167650443357------3025
Q gi|254780217|r  113 DEIRRIRYFLSLTANTGYWRVIMIDPVDGMN---------RNAANALLKSLEEPPQKVLFILISHASPTI------LSTI  177 (347)
Q Consensus       113 d~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln---------~~AaNALLK~LEEPp~~t~fiLit~~~~~i------l~TI  177 (347)
                        .+++.     +-..|+  |.+||+|-++-         .+|-..||..+|.--...++||.- +.+++      -|-+
T Consensus       113 --tke~l-----k~a~GG--vlfideayyly~P~nerdyG~eaieillq~men~r~~lvvi~aG-y~~rm~~f~~snPG~  182 (284)
T TIGR02880       113 --TKEVL-----KRAMGG--VLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAG-YKDRMDSFFESNPGL  182 (284)
T ss_pred             --HHHHH-----HHHCCC--EEEEECHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCCEEEEEEC-CHHHHHHHHHCCCCH
T ss_conf             --68999-----874287--36642203321776410223799999999872365537888717-078888875117862


Q ss_pred             HCEE-EEEECCCCCHHHHHHHH
Q ss_conf             2036-98864799989999999
Q gi|254780217|r  178 RSRC-LSIKFNSLSENNLYKAL  198 (347)
Q Consensus       178 ~SRc-~~i~f~~l~~~~~~~~L  198 (347)
                      .||. .++.|+--..+++..+-
T Consensus       183 ~sr~a~h~~fPdy~~~~l~~ia  204 (284)
T TIGR02880       183 SSRVAHHVDFPDYSEEELLAIA  204 (284)
T ss_pred             HHHHHHHCCCCCCCHHHHHHHH
T ss_conf             4677643158887767899999


No 285
>PRK10867 signal recognition particle protein; Provisional
Probab=95.28  E-value=0.048  Score=36.11  Aligned_cols=100  Identities=16%  Similarity=0.223  Sum_probs=50.3

Q ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHH-HHHC-CCCCCEEEECCCCHHHCCCCCCC
Q ss_conf             898166311798988899999999998177998864312101267886799-9967-89875453001000101342123
Q gi|254780217|r   32 RMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVK-QMAS-HALHDFLYLSYSLNPKTGKWRTV  109 (347)
Q Consensus        32 ~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~-~i~~-~~hpd~~~i~~~~~~k~~~~~~~  109 (347)
                      +-|..++|.|-.|+||||++-.+|.++-....   .++..+..|...+... ++.. +..-++-++...    .+..   
T Consensus        98 ~~p~VIm~vGLqGsGKTTT~aKLA~~lk~k~~---k~vllvaaDt~RpaA~eQL~~la~~~~v~~~~~~----~~~d---  167 (453)
T PRK10867         98 QPPAVVLMAGLQGAGKTTSVGKLGKFLREKHK---KKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSD----VGQK---  167 (453)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCC---CEEEEECCCCCHHHHHHHHHHHHHHCCCCEECCC----CCCC---
T ss_conf             99969999746888518589999999997389---8379855887705899999999985198043678----8998---


Q ss_pred             CCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHH
Q ss_conf             2378875544310222111121035322055424000
Q gi|254780217|r  110 ITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNA  146 (347)
Q Consensus       110 I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~A  146 (347)
                       .++=+++-++.+    -..++-|+|||-|-++..+.
T Consensus       168 -p~~ia~~a~~~a----k~~~~DvvivDTAGRl~~d~  199 (453)
T PRK10867        168 -PVDIVNAALKEA----KLKFYDVLLVDTAGRLHVDE  199 (453)
T ss_pred             -HHHHHHHHHHHH----HHCCCCEEEEECCCCHHCCH
T ss_conf             -899999999999----97799999997876012108


No 286
>pfam00270 DEAD DEAD/DEAH box helicase. Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.
Probab=95.24  E-value=0.29  Score=29.81  Aligned_cols=37  Identities=19%  Similarity=0.159  Sum_probs=23.7

Q ss_pred             CHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             92999999999998288981663117989888999999999981
Q gi|254780217|r   16 GHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        16 G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      .|..++..+.+    |   +..+..+|.|.||+..+..-+-..+
T Consensus         3 ~Q~~~i~~~~~----g---~~~iv~~pTGsGKT~~~~~~~l~~~   39 (167)
T pfam00270         3 IQAEAIPAILE----G---KDVLVQAPTGSGKTLAFLLPALQAL   39 (167)
T ss_pred             HHHHHHHHHHC----C---CCEEEECCCCCCHHHHHHHHHHHHH
T ss_conf             59999999976----9---9789988999758999999999998


No 287
>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional
Probab=95.23  E-value=0.093  Score=33.82  Aligned_cols=21  Identities=33%  Similarity=0.471  Sum_probs=18.1

Q ss_pred             EEEECCCCCCCHHHHHHHHHH
Q ss_conf             663117989888999999999
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAG   56 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~   56 (347)
                      -+-+.||.|+||+|+.+.++.
T Consensus        37 ~v~iiG~sGsGKSTLl~~i~G   57 (233)
T PRK11629         37 MMAIVGSSGSGKSTLLHLLGG   57 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHC
T ss_conf             999999999409999999966


No 288
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=95.23  E-value=0.028  Score=38.05  Aligned_cols=28  Identities=21%  Similarity=0.268  Sum_probs=24.2

Q ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             8981663117989888999999999981
Q gi|254780217|r   32 RMHHALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        32 ~l~ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      .-|+.++|.||.|+||||++=.+|.++.
T Consensus        73 ~~~~vI~lvG~~G~GKTTT~AKLA~~~~  100 (270)
T PRK06731         73 KEVQTIALIGPTGVGKTTTLAKMAWQFH  100 (270)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf             9981899988898988999999999998


No 289
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=95.22  E-value=0.01  Score=41.55  Aligned_cols=146  Identities=17%  Similarity=0.144  Sum_probs=68.4

Q ss_pred             HHHHHHHHHHHHCC---------CCCEEEEECCCCCCCHHHHHHHHHH-HHHCCCCCCCCCHHHCCCCCCCHH-HHHHHC
Q ss_conf             99999999999828---------8981663117989888999999999-981779988643121012678867-999967
Q gi|254780217|r   18 EDIEKFLSQYYCSG---------RMHHALLFEGEQGIGKATLGFRYAG-HVLQNPDFSKAPVRMCNPDPCSPF-VKQMAS   86 (347)
Q Consensus        18 ~~~~~~L~~~~~~~---------~l~ha~Lf~Gp~GiGK~~~A~~~A~-~llc~~~~~~~~~~~~~~~~~~~~-~~~i~~   86 (347)
                      ++++..|.+.+...         +-+.-+.|.||.|+||||++-.+|. +.+-....   ..+.-+.|.+.-. .-++..
T Consensus       185 ~~~~~~l~~~L~~~l~~~~~~~~~~~~vvalVGPTGVGKTTTiAKLAA~~~l~~~~~---kV~lIT~DtyRigA~eQLk~  261 (412)
T PRK05703        185 REAWRYLLELLANMLPTRVEDILEQGGVVALVGPTGVGKTTTLAKLAARYALEEGKD---KVALITLDTYRIGAVEQLKT  261 (412)
T ss_pred             HHHHHHHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHCCCC---EEEEEEECCCCHHHHHHHHH
T ss_conf             999999999999757888766545673699988888756769999999999972998---17999837677779999999


Q ss_pred             ---CCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-HHHHHHHH-HHH-HCCCC
Q ss_conf             ---8987545300100010134212323788755443102221111210353220554240-00145677-766-30343
Q gi|254780217|r   87 ---HALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR-NAANALLK-SLE-EPPQK  160 (347)
Q Consensus        87 ---~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-~AaNALLK-~LE-EPp~~  160 (347)
                         -..-.+.++.              +-++.+++...      ..++.+|+||-|-+=.. .....-|| .++ .||..
T Consensus       262 Ya~ilgvp~~v~~--------------~~~~l~~al~~------~~~~dlILIDTaG~s~~d~~~~~eL~~~~~~~~~~~  321 (412)
T PRK05703        262 YAKIMGIPVKVAY--------------DPKELAKALEQ------LANCDLILIDTAGRSQRDPRLISELKALIENSKPID  321 (412)
T ss_pred             HHHHCCCEEEEEC--------------CHHHHHHHHHH------HCCCCEEEEECCCCCCCCHHHHHHHHHHHHHCCCCC
T ss_conf             9997197379847--------------99999999987------158997999689889789999999999986248871


Q ss_pred             CCEEEEECCCCCCCHHHHCEEEEEEC
Q ss_conf             41676504433573025203698864
Q gi|254780217|r  161 VLFILISHASPTILSTIRSRCLSIKF  186 (347)
Q Consensus       161 t~fiLit~~~~~il~TI~SRc~~i~f  186 (347)
                      ++++|-++....-+..|.+|...+.+
T Consensus       322 ~~LVlsat~~~~dl~~i~~~f~~~~~  347 (412)
T PRK05703        322 VYLVLSATTKYRDLKDIVKHFSRLPL  347 (412)
T ss_pred             EEEEECCCCCHHHHHHHHHHHCCCCC
T ss_conf             89997598998999999998467999


No 290
>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]
Probab=95.20  E-value=0.043  Score=36.49  Aligned_cols=50  Identities=18%  Similarity=0.292  Sum_probs=32.0

Q ss_pred             CHHHHHHHHH-HCCHHHHHHHHHHHHHCCCC-CCEEEEECCCCCCCHHHHCEEEEEEC
Q ss_conf             1035322055-42400014567776630343-41676504433573025203698864
Q gi|254780217|r  131 WRVIMIDPVD-GMNRNAANALLKSLEEPPQK-VLFILISHASPTILSTIRSRCLSIKF  186 (347)
Q Consensus       131 ~Ki~IId~ad-~ln~~AaNALLK~LEEPp~~-t~fiLit~~~~~il~TI~SRc~~i~f  186 (347)
                      -+|.|+|||- .+..++...+.+.+.+-.++ |.++ |+|++    .||+. |-++-+
T Consensus       484 ~~iLILDEaTS~lD~~tE~~I~~~l~~l~~~rT~ii-IaHRl----sti~~-aD~IiV  535 (567)
T COG1132         484 PPILILDEATSALDTETEALIQDALKKLLKGRTTLI-IAHRL----STIKN-ADRIIV  535 (567)
T ss_pred             CCEEEECCHHHCCCHHHHHHHHHHHHHHHCCCEEEE-EECCC----CHHHH-CCEEEE
T ss_conf             986887231102677569999999999826987999-86672----25874-888999


No 291
>cd03286 ABC_MSH6_euk MutS6 homolog in eukaryotes.  The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch.  Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily.  MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined.  Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes.  The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis.  All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action.  MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c
Probab=95.19  E-value=0.06  Score=35.35  Aligned_cols=120  Identities=16%  Similarity=0.098  Sum_probs=61.7

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHH
Q ss_conf             81663117989888999999999981779988643121012678867999967898754530010001013421232378
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVD  113 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd  113 (347)
                      ++.++++||.+.||+++-+.+|-.++-.......||......+.             |-++......+. -....+--.-
T Consensus        30 ~~~~iiTGpN~sGKSt~lk~i~l~~ilaq~G~~vpA~~~~~~~~-------------d~i~~~i~~~d~-~~~~~StF~~   95 (218)
T cd03286          30 PRILVLTGPNMGGKSTLLRTVCLAVIMAQMGMDVPAKSMRLSLV-------------DRIFTRIGARDD-IMKGESTFMV   95 (218)
T ss_pred             CEEEEEECCCCCCCHHHHHHHHHHHHHHHCCCCEECCCCEEECC-------------CEEEEEECCCCC-HHHHHHHHHH
T ss_conf             40899989998873899999999999998288430146477346-------------648997458661-4311506999


Q ss_pred             HHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-----HHHHHHHHHHHHCCCCCCEEEEECCCC
Q ss_conf             8755443102221111210353220554240-----001456777663034341676504433
Q gi|254780217|r  114 EIRRIRYFLSLTANTGYWRVIMIDPVDGMNR-----NAANALLKSLEEPPQKVLFILISHASP  171 (347)
Q Consensus       114 ~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-----~AaNALLK~LEEPp~~t~fiLit~~~~  171 (347)
                      |++++..-+...   +..-.+++||.-+=|.     +.+-|+|+.|-+- .++.++++||..+
T Consensus        96 e~~~~~~il~~~---~~~sLvllDE~~~GT~~~eg~ala~aile~L~~~-~~~~~i~tTH~~e  154 (218)
T cd03286          96 ELSETANILRHA---TPDSLVILDELGRGTSTHDGYAIAHAVLEYLVKK-VKCLTLFSTHYHS  154 (218)
T ss_pred             HHHHHHHHHHHC---CCCCCEECCCCCCCCCCHHHHHHHHHHHHHHHHC-CCCEEEEECCCHH
T ss_conf             999999999867---9985010255468998116799999999999863-7976999767289


No 292
>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=95.14  E-value=0.018  Score=39.62  Aligned_cols=25  Identities=32%  Similarity=0.456  Sum_probs=22.0

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             6311798988899999999998177
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQN   61 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc~   61 (347)
                      +.|+||+|+||+++|..+|+.++..
T Consensus         1 i~l~G~~G~GKS~~a~~la~~~~~~   25 (105)
T pfam00910         1 IWLYGPPGCGKSTLAKYLARALLDH   25 (105)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHH
T ss_conf             9897999898899999999999998


No 293
>TIGR01448 recD_rel helicase, RecD/TraA family; InterPro: IPR006345   These sequences represent a family similar to RecD, the exodeoxyribonuclease V alpha chain of IPR006344 from INTERPRO. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD. .
Probab=95.14  E-value=0.12  Score=32.91  Aligned_cols=168  Identities=20%  Similarity=0.206  Sum_probs=90.1

Q ss_pred             HHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCC---------CCCCHHHCCCCCCCHHHHHHHCCCCC
Q ss_conf             999999999828898166311798988899999999998177998---------86431210126788679999678987
Q gi|254780217|r   20 IEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDF---------SKAPVRMCNPDPCSPFVKQMASHALH   90 (347)
Q Consensus        20 ~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~---------~~~~~~~~~~~~~~~~~~~i~~~~hp   90 (347)
                      +++.|..+ .+.|+   .+++|=||+||+|..++++.---.....         .+.+-..|.  |-.+..|++..    
T Consensus       355 Qk~AL~~~-~~~Kv---~iLTGGPGTGKtT~t~~i~~~~~~~~gl~l~~~~~vndd~~v~LaA--PTGrAAkRl~E----  424 (769)
T TIGR01448       355 QKEALKTA-IQDKV---VILTGGPGTGKTTITKAIIELYEELKGLDLDKDDYVNDDLPVVLAA--PTGRAAKRLAE----  424 (769)
T ss_pred             HHHHHHHH-HCCCE---EEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEC--CCHHHHHHCCC----
T ss_conf             99999998-60948---9985778886168999999999871687755312456776488737--74378885110----


Q ss_pred             CEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCC-CCCC------CCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCE
Q ss_conf             5453001000101342123237887554431022-2111------12103532205542400014567776630343416
Q gi|254780217|r   91 DFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSL-TANT------GYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLF  163 (347)
Q Consensus        91 d~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~-~~~~------~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~f  163 (347)
                                 -+|+..     -.|-.+..+-.. .+..      -.+..+||||.-+|-.-=++.||-.+   |+++.+
T Consensus       425 -----------~TG~~a-----~TIHRLlG~~~~~~~~~k~~~~~~~~DL~IvDE~SM~Dt~L~~~lL~a~---P~~a~l  485 (769)
T TIGR01448       425 -----------VTGLEA-----LTIHRLLGYGSDTKSENKNLEDPIDADLLIVDESSMVDTWLASSLLAAV---PDHARL  485 (769)
T ss_pred             -----------CCCCHH-----HHHHHHHCCCCCCCCCCHHHCCCCCCCEEEEECCCHHHHHHHHHHHHHC---CCCCEE
T ss_conf             -----------026212-----3477863689888732110113478776998146218899999998617---977779


Q ss_pred             EEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCH--HHHHHHHCCC
Q ss_conf             7650443357302520369886479998999999997278889678999999759897--8999881457
Q gi|254780217|r  164 ILISHASPTILSTIRSRCLSIKFNSLSENNLYKALEQLKIMGWDSKRDFVKIAAYGSV--ARAIKILHYD  231 (347)
Q Consensus       164 iLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L~~~~~~~~~~~~~~~~~~s~Gs~--~~A~~ll~~~  231 (347)
                      ||+= +.+.||             +++.-..-+=|-+ ...++.-.+..+++-+.||+  ..|-.+.++.
T Consensus       486 llVG-D~DQLP-------------SV~pG~VL~DLi~-s~~iP~~~LT~vyRQ~~~S~Ii~~Ah~~~~G~  540 (769)
T TIGR01448       486 LLVG-DADQLP-------------SVGPGQVLKDLIQ-SKVIPVTRLTKVYRQAEGSSIITLAHKILQGE  540 (769)
T ss_pred             EEEC-CCCCCC-------------CCCCCHHHHHHHH-CCCCCEEECCCEEEECCCCHHHHHHHHHHCCC
T ss_conf             8883-768889-------------8864408999984-68866121211124113664678889873178


No 294
>KOG4658 consensus
Probab=95.13  E-value=0.24  Score=30.49  Aligned_cols=191  Identities=12%  Similarity=0.085  Sum_probs=90.6

Q ss_pred             CHHHH-CCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCC--HHHHHHHC
Q ss_conf             56561-0929999999999982889816631179898889999999999817799886431210126788--67999967
Q gi|254780217|r   10 YNQRL-FGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCS--PFVKQMAS   86 (347)
Q Consensus        10 ~~~~i-~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~--~~~~~i~~   86 (347)
                      -++.. +|+++.++.+.+.+......+ .=+||..|+||||+|+.+-....--....+..-+-|.|-...  ..-..|..
T Consensus       155 ~~~~~~VG~e~~~ekl~~~L~~d~~~i-vgi~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~  233 (889)
T KOG4658         155 IQSESDVGLETMLEKLWNRLMEDDVGI-VGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILE  233 (889)
T ss_pred             CCCCCCCCHHHHHHHHHHHHCCCCCCE-EEEECCCCCCHHHHHHHHHHCCHHHCCCCCEEEEEEECCCCCHHHHHHHHHH
T ss_conf             773125468899999999840479968-9998897034999999984133122357874999997763108889999999


Q ss_pred             CCCCCEEEECCCCHHHCCCCCCCCCHHHHHH-HHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCC----C
Q ss_conf             8987545300100010134212323788755-4431022211112103532205542400014567776630343----4
Q gi|254780217|r   87 HALHDFLYLSYSLNPKTGKWRTVITVDEIRR-IRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQK----V  161 (347)
Q Consensus        87 ~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~-l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~----t  161 (347)
                          .+...+..|.++      .  +++... +.+.+.     +++=++++|++=.  ..+    ++-+.-|.+.    +
T Consensus       234 ----~l~~~~~~~~~~------~--~~~~~~~i~~~L~-----~krfllvLDDIW~--~~d----w~~I~~~~p~~~~g~  290 (889)
T KOG4658         234 ----RLGLLDEEWEDK------E--EDELASKLLNLLE-----GKRFLLVLDDIWE--EVD----WDKIGVPFPSRENGS  290 (889)
T ss_pred             ----HHCCCCCCCCCC------C--HHHHHHHHHHHHC-----CCCEEEEEECCCC--CCC----HHHHCCCCCCCCCCE
T ss_conf             ----844687100010------2--8899999999855-----6855999825675--012----877189998756872


Q ss_pred             CEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHHHHHC-CC------CCHHHHHHHHHHCCCCHHHHH
Q ss_conf             16765044335730252036988647999899999999727-88------896789999997598978999
Q gi|254780217|r  162 LFILISHASPTILSTIRSRCLSIKFNSLSENNLYKALEQLK-IM------GWDSKRDFVKIAAYGSVARAI  225 (347)
Q Consensus       162 ~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L~~~~-~~------~~~~~~~~~~~~s~Gs~~~A~  225 (347)
                      ..+|+|.+. .+-.-.-.++-.++..-++.++.=..+...- ..      ..+..+..++.-+.|-|-...
T Consensus       291 KvvlTTRs~-~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~  360 (889)
T KOG4658         291 KVVLTTRSE-EVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALN  360 (889)
T ss_pred             EEEEEECCH-HHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCCCHHHHH
T ss_conf             899996458-7763324778730054168300299999873664444452079998999877289379999


No 295
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=95.11  E-value=0.079  Score=34.36  Aligned_cols=136  Identities=18%  Similarity=0.182  Sum_probs=75.2

Q ss_pred             CCCCCHHHHCCHHHHHHHHHHHHHC-CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHH
Q ss_conf             5587565610929999999999982-889816631179898889999999999817799886431210126788679999
Q gi|254780217|r    6 FDPVYNQRLFGHEDIEKFLSQYYCS-GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQM   84 (347)
Q Consensus         6 ~~p~~~~~i~G~~~~~~~L~~~~~~-~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i   84 (347)
                      ..+-+|++|+|............+. -+-+-..|+.|..|+||..+|+++-    ...+-.++|.-.-++.+--  ...+
T Consensus       239 ~a~y~f~~Iig~S~~m~~~~~~akr~A~tdstVLi~GESGTGKElfA~~IH----~~S~R~~~PFIaiNCaAiP--e~Ll  312 (560)
T COG3829         239 KAKYTFDDIIGESPAMLRVLELAKRIAKTDSTVLILGESGTGKELFARAIH----NLSPRANGPFIAINCAAIP--ETLL  312 (560)
T ss_pred             CCCCCHHHHCCCCHHHHHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHH----HCCCCCCCCEEEEECCCCC--HHHH
T ss_conf             453661002058999999999998633899828995378866899999987----4484347980787643388--8888


Q ss_pred             HC---CCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHC----
Q ss_conf             67---89875453001000101342123237887554431022211112103532205542400014567776630----
Q gi|254780217|r   85 AS---HALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEP----  157 (347)
Q Consensus        85 ~~---~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEP----  157 (347)
                      ++   |..+.-|. .   ..++|+.+             .+..  ..||  -+++|++-.|...-|-.||..|+|=    
T Consensus       313 ESELFGye~GAFT-G---A~~~GK~G-------------lfE~--A~gG--TLFLDEIgempl~LQaKLLRVLQEkei~r  371 (560)
T COG3829         313 ESELFGYEKGAFT-G---ASKGGKPG-------------LFEL--ANGG--TLFLDEIGEMPLPLQAKLLRVLQEKEIER  371 (560)
T ss_pred             HHHHHCCCCCCCC-C---CCCCCCCC-------------CEEE--CCCC--EEEEHHHCCCCHHHHHHHHHHHHHCEEEE
T ss_conf             8887276776424-6---44579976-------------0544--1698--37712320399899999999875353785


Q ss_pred             -------CCCCCEEEEEC
Q ss_conf             -------34341676504
Q gi|254780217|r  158 -------PQKVLFILISH  168 (347)
Q Consensus       158 -------p~~t~fiLit~  168 (347)
                             |-+..+|=.||
T Consensus       372 vG~t~~~~vDVRIIAATN  389 (560)
T COG3829         372 VGGTKPIPVDVRIIAATN  389 (560)
T ss_pred             CCCCCCEEEEEEEEECCC
T ss_conf             378875356789994257


No 296
>pfam03796 DnaB_C DnaB-like helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=95.10  E-value=0.04  Score=36.72  Aligned_cols=27  Identities=11%  Similarity=0.321  Sum_probs=22.4

Q ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             898166311798988899999999998
Q gi|254780217|r   32 RMHHALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        32 ~l~ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      +-..-+++.|+||.||++++..+|...
T Consensus        17 ~~G~l~vi~g~pg~GKS~~~~~~a~~~   43 (186)
T pfam03796        17 QKGDLIIIAARPSMGKTAFALNIARNA   43 (186)
T ss_pred             CCCCEEEEEECCCCCHHHHHHHHHHHH
T ss_conf             888179999679998799999999999


No 297
>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=95.08  E-value=0.012  Score=41.04  Aligned_cols=130  Identities=20%  Similarity=0.151  Sum_probs=64.1

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCC---CHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCC-CH
Q ss_conf             63117989888999999999981779988643121012678---867999967898754530010001013421232-37
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPC---SPFVKQMASHALHDFLYLSYSLNPKTGKWRTVI-TV  112 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~---~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I-~v  112 (347)
                      +-+.||.|+||+|++..++..+-..    .+..-....+..   ....+....---.|...+..       ....+| |-
T Consensus        31 vaIvG~sGsGKSTLl~ll~gl~~p~----~G~i~i~g~~~~~~~~~~~~~~i~~v~Q~~~lf~~-------ti~eNiLSG   99 (173)
T cd03246          31 LAIIGPSGSGKSTLARLILGLLRPT----SGRVRLDGADISQWDPNELGDHVGYLPQDDELFSG-------SIAENILSG   99 (173)
T ss_pred             EEEECCCCCHHHHHHHHHHCCCCCC----CCEEEECCEECCCCCHHHHHCCEEEEECCCEECCC-------CHHHHCCCH
T ss_conf             9999999980999999996666679----99899999993328998984208999088836777-------589976769


Q ss_pred             HHH-HHHHHHCCCCCCCCCCHHHHHHHHH-HCCHHHHHHHHHHHHHC-CCCCCEEEEECCCCCCCHHHHCEEEEEEC
Q ss_conf             887-5544310222111121035322055-42400014567776630-34341676504433573025203698864
Q gi|254780217|r  113 DEI-RRIRYFLSLTANTGYWRVIMIDPVD-GMNRNAANALLKSLEEP-PQKVLFILISHASPTILSTIRSRCLSIKF  186 (347)
Q Consensus       113 d~I-R~l~~~~~~~~~~~~~Ki~IId~ad-~ln~~AaNALLK~LEEP-p~~t~fiLit~~~~~il~TI~SRc~~i~f  186 (347)
                      -|- |-.+.    +....+-+|+|+||+- .+...+...+...|++- -++...|++||+++    +++ +|-++-+
T Consensus       100 GQkQRvalA----Ral~~~p~ililDEpts~LD~~~e~~i~~~l~~l~~~~~Tvi~vtH~~~----~~~-~aD~Iiv  167 (173)
T cd03246         100 GQRQRLGLA----RALYGNPRILVLDEPNSHLDVEGERALNQAIAALKAAGATRIVIAHRPE----TLA-SADRILV  167 (173)
T ss_pred             HHHHHHHHH----HHHHCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHH----HHH-HCCEEEE
T ss_conf             999999999----9982799999996876689989999999999978648989999847999----998-4999999


No 298
>pfam00625 Guanylate_kin Guanylate kinase.
Probab=95.02  E-value=0.049  Score=36.05  Aligned_cols=21  Identities=19%  Similarity=0.485  Sum_probs=18.3

Q ss_pred             EEECCCCCCCHHHHHHHHHHH
Q ss_conf             631179898889999999999
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGH   57 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~   57 (347)
                      ++|+||.|+||++++.++.+.
T Consensus         4 ivl~GPSG~GK~tl~~~L~~~   24 (182)
T pfam00625         4 IVLSGPSGVGKSHIKKALLDE   24 (182)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
T ss_conf             999898999999999999984


No 299
>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome.  The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation.  To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes.  X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family.  The disease is characterized by a striking and unpredictable variation in phenotypic expression.  Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt
Probab=95.00  E-value=0.024  Score=38.61  Aligned_cols=41  Identities=15%  Similarity=0.310  Sum_probs=31.9

Q ss_pred             CCCHHHHHHHHH-HCCHHHHHHHHHHHHHCCCCCCEEEEECCCC
Q ss_conf             121035322055-4240001456777663034341676504433
Q gi|254780217|r  129 GYWRVIMIDPVD-GMNRNAANALLKSLEEPPQKVLFILISHASP  171 (347)
Q Consensus       129 ~~~Ki~IId~ad-~ln~~AaNALLK~LEEPp~~t~fiLit~~~~  171 (347)
                      .+-+|+|+||+- .|..++...+++.|.+-  .+..|++||++.
T Consensus       108 ~~p~iliLDEpTs~LD~~~~~~l~~~l~~~--~~Tvi~VtH~~~  149 (166)
T cd03223         108 HKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPS  149 (166)
T ss_pred             CCCCEEEECCCCCCCCHHHHHHHHHHHHHC--CCEEEEEECCHH
T ss_conf             499999975853328999999999999977--998999943469


No 300
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=94.97  E-value=0.0099  Score=41.65  Aligned_cols=130  Identities=21%  Similarity=0.257  Sum_probs=70.2

Q ss_pred             EEEECCCCCCCHHHHHHHHH-HHHHCCCCCCCCCHHHCCCCCCCHHH-HHHHCCCCCCEEEECCCCHHHCCCCCCCCCHH
Q ss_conf             66311798988899999999-99817799886431210126788679-99967898754530010001013421232378
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYA-GHVLQNPDFSKAPVRMCNPDPCSPFV-KQMASHALHDFLYLSYSLNPKTGKWRTVITVD  113 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A-~~llc~~~~~~~~~~~~~~~~~~~~~-~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd  113 (347)
                      -+.|.||-|+||||+.=.+| ++.+-...    ..+.-+.|.++-.. -++..  .-+++-++            .-.|.
T Consensus       225 vi~lVGPTGVGKTTTiAKLAA~~~l~~~k----kVaLIT~DTYRIgAvEQLkt--Ya~Il~iP------------v~vv~  286 (432)
T PRK12724        225 VVFFVGPTGSGKTTSIAKLAAKYFLHMGK----SVSLYTTDNYRIAAIEQLKR--YADTMGMP------------FYPVK  286 (432)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHHCCC----EEEEEECCCCCHHHHHHHHH--HHHHHCCC------------EEEEE
T ss_conf             99998999988899999999999997499----27999526653779999999--99985994------------59951


Q ss_pred             HHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHH-----HHHHHHHHH-HHCCCCCCEEEEECCCCCCCHHHHCEEEEEECC
Q ss_conf             87554431022211112103532205542400-----014567776-630343416765044335730252036988647
Q gi|254780217|r  114 EIRRIRYFLSLTANTGYWRVIMIDPVDGMNRN-----AANALLKSL-EEPPQKVLFILISHASPTILSTIRSRCLSIKFN  187 (347)
Q Consensus       114 ~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~-----AaNALLK~L-EEPp~~t~fiLit~~~~~il~TI~SRc~~i~f~  187 (347)
                      +..++..-+..    .++.+|+||-|-+-..+     -..+|+... |.++-.+++.|.++...+-+..|..|-..+.+.
T Consensus       287 ~~~el~~al~~----~~~DlILIDTAGrS~rd~~~~~eL~~ll~~~~~~~~ie~~LVLSaTtk~~dl~~ii~~f~~l~~~  362 (432)
T PRK12724        287 DIKKFKETLAR----DGSELILIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSYHHTLTVLKAYESLNYR  362 (432)
T ss_pred             CHHHHHHHHHH----CCCCEEEEECCCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCHHHHHHHHHHHCCCCCC
T ss_conf             89999999985----69999999299989789999999999998636678851799997889989999999984269998


No 301
>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]
Probab=94.96  E-value=0.099  Score=33.57  Aligned_cols=30  Identities=20%  Similarity=0.406  Sum_probs=22.0

Q ss_pred             CCCCEEEE--ECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             88981663--1179898889999999999817
Q gi|254780217|r   31 GRMHHALL--FEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        31 ~~l~ha~L--f~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      |=+|-..+  ++||+|.||+++|..++.....
T Consensus        55 GGl~~g~ItEiyG~~gsGKT~lal~~~~~aq~   86 (279)
T COG0468          55 GGLPRGRITEIYGPESSGKTTLALQLVANAQK   86 (279)
T ss_pred             CCCCCCEEEEEECCCCCCHHHHHHHHHHHHHC
T ss_conf             88655358998468876546689999888653


No 302
>TIGR00764 lon_rel ATP-dependent protease, putative; InterPro: IPR004663   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 archaeal lon protease homologs, which are ATP-dependent serine peptidases belonging to the MEROPS peptidase family S16 (lon protease family, clan SF). Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein conserved region.; GO: 0004176 ATP-dependent peptidase activity, 0005524 ATP binding, 0030163 protein catabolic process.
Probab=94.94  E-value=0.043  Score=36.51  Aligned_cols=52  Identities=23%  Similarity=0.363  Sum_probs=45.6

Q ss_pred             CCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             5587565610929999999999982889816631179898889999999999817
Q gi|254780217|r    6 FDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus         6 ~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      ..|+-.++++||+++.+.+..+....|  | .++.|.||+||..++.+.+..+-.
T Consensus        13 p~p~l~d~~~g~~~~~~~~~~~~~~~~--~-~~l~g~pg~g~~~~~~~~~~~l~~   64 (662)
T TIGR00764        13 PEPRLIDQVIGQEEAVEVIKKAAKQKR--N-VLLLGEPGVGKSMLAKAVAELLPD   64 (662)
T ss_pred             CCHHHHHHHHCCHHHHHHHHHHHHHCC--C-EEEECCCCCCHHHHHHHHHHHCCC
T ss_conf             641456666140468899998754103--3-578617775457888888874133


No 303
>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=94.94  E-value=0.088  Score=33.99  Aligned_cols=38  Identities=21%  Similarity=0.242  Sum_probs=27.3

Q ss_pred             HHHHHHHCC-CCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             999999828-89816631179898889999999999817
Q gi|254780217|r   23 FLSQYYCSG-RMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        23 ~L~~~~~~~-~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      .|......+ ---+.+.||||+.+||+.+|.+++..+-+
T Consensus       101 ~l~~w~~k~~~krN~i~~~Gp~~TGks~la~ai~~~~~~  139 (271)
T pfam01057       101 VLLAWLSKQGGKRNTVWFYGPASTGKTNLAQAIAHAVPL  139 (271)
T ss_pred             HHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHCCC
T ss_conf             999998447888756999889876789999999986895


No 304
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=94.93  E-value=0.026  Score=38.31  Aligned_cols=41  Identities=20%  Similarity=0.334  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCC
Q ss_conf             29999999999982889816631179898889999999999817799
Q gi|254780217|r   17 HEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPD   63 (347)
Q Consensus        17 ~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~   63 (347)
                      .+..++.|...      ..++|+.||||.||+|||.++|.++.....
T Consensus       252 ~dkl~eRL~er------aeGILIAG~PGaGKsTFaqAlAefy~~~Gk  292 (604)
T COG1855         252 SDKLKERLEER------AEGILIAGAPGAGKSTFAQALAEFYASQGK  292 (604)
T ss_pred             CHHHHHHHHHH------HCCEEEECCCCCCHHHHHHHHHHHHHHCCC
T ss_conf             98999998864------164699569999746899999999986696


No 305
>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport.  These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2).  No known transmembrane proteins or domains are associated with these proteins.
Probab=94.89  E-value=0.071  Score=34.76  Aligned_cols=114  Identities=17%  Similarity=0.170  Sum_probs=55.1

Q ss_pred             EEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEE-EECCCCHHHCCCCCCCCCHHH
Q ss_conf             6631179898889999999999817799886431210126788679999678987545-300100010134212323788
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFL-YLSYSLNPKTGKWRTVITVDE  114 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~-~i~~~~~~k~~~~~~~I~vd~  114 (347)
                      -.+++||.|.||+|+-+.++-.+.........++.....            ..-|... ......+.-.+.      --+
T Consensus        23 ~~iItGpN~sGKSt~Lr~i~l~~~~a~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~lSgg------~~~   84 (162)
T cd03227          23 LTIITGPNGSGKSTILDAIGLALGGAQSATRRRSGVKAG------------CIVAAVSAELIFTRLQLSGG------EKE   84 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHCC------------CCCHHHEEEEEECCCCCCCC------HHH
T ss_conf             899989987757999999999999863267752555427------------76402305766412000542------999


Q ss_pred             HHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-----HHHHHHHHHHHHCCCCCCEEEEECCCC
Q ss_conf             755443102221111210353220554240-----001456777663034341676504433
Q gi|254780217|r  115 IRRIRYFLSLTANTGYWRVIMIDPVDGMNR-----NAANALLKSLEEPPQKVLFILISHASP  171 (347)
Q Consensus       115 IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-----~AaNALLK~LEEPp~~t~fiLit~~~~  171 (347)
                      ...+..-+... ..+...++++||.-.=+.     ..+.++++.+.+   ++.+|++||.++
T Consensus        85 ~~~l~~~l~~~-~~~~~~lillDE~~~Gtd~~~~~~l~~~i~~~~~~---~~~~i~tTH~~e  142 (162)
T cd03227          85 LSALALILALA-SLKPRPLYILDEIDRGLDPRDGQALAEAILEHLVK---GAQVIVITHLPE  142 (162)
T ss_pred             HHHHHHHHHHC-CCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHC---CCEEEEECCHHH
T ss_conf             99999999854-24898489963655799988999999999999976---998999797399


No 306
>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter.  The CCM family is involved in bacterial cytochrome c biogenesis.  Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH).  CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH.  The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.
Probab=94.86  E-value=0.061  Score=35.26  Aligned_cols=23  Identities=43%  Similarity=0.447  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHH
Q ss_conf             16631179898889999999999
Q gi|254780217|r   35 HALLFEGEQGIGKATLGFRYAGH   57 (347)
Q Consensus        35 ha~Lf~Gp~GiGK~~~A~~~A~~   57 (347)
                      ..+-+.||.|+||+|+.+.++..
T Consensus        27 e~~~l~G~NGsGKSTLlk~i~Gl   49 (201)
T cd03231          27 EALQVTGPNGSGKTTLLRILAGL   49 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC
T ss_conf             59999999999999999999667


No 307
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=94.86  E-value=0.036  Score=37.12  Aligned_cols=39  Identities=21%  Similarity=0.290  Sum_probs=28.1

Q ss_pred             HHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             999999982889816631179898889999999999817
Q gi|254780217|r   22 KFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        22 ~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      ..|.+....=+-.+-+++.|+||+||++++..+|..+..
T Consensus        18 ~~LD~~~~Gl~~GeL~viaarpg~GKT~f~~~~a~~~~~   56 (271)
T cd01122          18 PVLNKLTKGLRKGELIILTAGTGVGKTTFLREYALDLIT   56 (271)
T ss_pred             HHHHHHHCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH
T ss_conf             668887379999808999968998699999999999999


No 308
>PRK13640 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=94.81  E-value=0.098  Score=33.64  Aligned_cols=145  Identities=15%  Similarity=0.186  Sum_probs=67.8

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHC--C---CCCCEEEECCCCHHH--CCCCCCC
Q ss_conf             63117989888999999999981779988643121012678867999967--8---987545300100010--1342123
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMAS--H---ALHDFLYLSYSLNPK--TGKWRTV  109 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~--~---~hpd~~~i~~~~~~k--~~~~~~~  109 (347)
                      +-+.||.|+||+|+++.++..+.-. ....+.......+......+.+..  |   .+||..++.....+.  -+-....
T Consensus        37 vaiiG~nGsGKSTL~~~l~Gll~P~-~~~~G~i~~~g~~i~~~~~~~lr~~vg~VfQ~P~~q~~~~tV~e~iafgl~n~~  115 (283)
T PRK13640         37 TALIGHNGSGKSTISKLINGLLLPD-DNPKSKITVDGITLTAKTVWDIREKVGIVFQNPDNQFVGATVGDDVAFGLENRG  115 (283)
T ss_pred             EEEECCCCCHHHHHHHHHHCCCCCC-CCCEEEEEECCEECCCCCHHHHHHCEEEEEECCCCCCCCCCHHHHHHHHHHHCC
T ss_conf             9999999987999999996403788-886179999999999679889962618998688761887829999984575379


Q ss_pred             CCHHHHHH----HHHHCCC------CCC--CCC--------------CHHHHHHHHH-HCCHHHHHHHHHHHHHCC--CC
Q ss_conf             23788755----4431022------211--112--------------1035322055-424000145677766303--43
Q gi|254780217|r  110 ITVDEIRR----IRYFLSL------TAN--TGY--------------WRVIMIDPVD-GMNRNAANALLKSLEEPP--QK  160 (347)
Q Consensus       110 I~vd~IR~----l~~~~~~------~~~--~~~--------------~Ki~IId~ad-~ln~~AaNALLK~LEEPp--~~  160 (347)
                      ++.+++++    +.+.+.+      .|+  .||              -+|+|+||.= .+...+...++..|++-.  .+
T Consensus       116 ~~~~e~~~~v~~~l~~vgl~~~~~~~p~~LSGGqkQRvaiA~aLa~~P~iLllDEPTs~LD~~~~~~i~~~l~~l~~e~g  195 (283)
T PRK13640        116 VPRPEMIKIVADVLSDVGMLDYIDSEPANLSGGQKQRVAIAGILAVEPQIIILDESTSMLDPAGKEQILKLIRKLMKDNN  195 (283)
T ss_pred             CCHHHHHHHHHHHHHHCCCHHHHHCCHHHCCHHHHHHHHHHHHHHCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHCCC
T ss_conf             99999999999999877997776479222999999999999999719999997687454898999999999999997069


Q ss_pred             CCEEEEECCCCCCCHHHHCEEEEE
Q ss_conf             416765044335730252036988
Q gi|254780217|r  161 VLFILISHASPTILSTIRSRCLSI  184 (347)
Q Consensus       161 t~fiLit~~~~~il~TI~SRc~~i  184 (347)
                      +.+|++||+.+..  ..-.|...+
T Consensus       196 ~TvI~itHd~~~a--~~aDrv~vm  217 (283)
T PRK13640        196 LTIISITHDIDEA--AGADQVLVL  217 (283)
T ss_pred             CEEEEEEECHHHH--HHCCEEEEE
T ss_conf             8999997887899--709989999


No 309
>cd01125 repA Hexameric Replicative Helicase RepA.  RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=94.78  E-value=0.17  Score=31.69  Aligned_cols=26  Identities=19%  Similarity=0.180  Sum_probs=22.5

Q ss_pred             EECCCCCCCHHHHHHHHHHHHHCCCC
Q ss_conf             31179898889999999999817799
Q gi|254780217|r   38 LFEGEQGIGKATLGFRYAGHVLQNPD   63 (347)
Q Consensus        38 Lf~Gp~GiGK~~~A~~~A~~llc~~~   63 (347)
                      +++||+|+||+.+|+.+|..+=+..+
T Consensus         5 ~l~g~gG~GKS~lal~lAl~vA~G~~   30 (239)
T cd01125           5 ALVAPGGTGKSSLLLVLALAMALGKN   30 (239)
T ss_pred             EEEECCCCCHHHHHHHHHHHHHCCCC
T ss_conf             99808998889999999999975996


No 310
>pfam03029 ATP_bind_1 Conserved hypothetical ATP binding protein. Members of this family are found in a range of archaea and eukaryotes and have hypothesized ATP binding activity.
Probab=94.76  E-value=0.11  Score=33.30  Aligned_cols=21  Identities=24%  Similarity=0.192  Sum_probs=18.3

Q ss_pred             ECCCCCCCHHHHHHHHHHHHH
Q ss_conf             117989888999999999981
Q gi|254780217|r   39 FEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        39 f~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      ..||+|+||+|+...+.+++-
T Consensus         1 ViGpaGSGKTT~~~~l~~~l~   21 (234)
T pfam03029         1 VVGGAGSGKTTFVGALSEILP   21 (234)
T ss_pred             CCCCCCCCHHHHHHHHHHHHH
T ss_conf             989898988999999999999


No 311
>cd03288 ABCC_SUR2 The SUR domain 2.  The sulfonylurea receptor SUR is an ATP binding cassette (ABC) protein of the ABCC/MRP family.  Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel.  Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism.  It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.
Probab=94.76  E-value=0.04  Score=36.72  Aligned_cols=52  Identities=15%  Similarity=0.170  Sum_probs=35.6

Q ss_pred             CCHHHHHHHHH-HCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHCEEEEEEC
Q ss_conf             21035322055-4240001456777663034341676504433573025203698864
Q gi|254780217|r  130 YWRVIMIDPVD-GMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKF  186 (347)
Q Consensus       130 ~~Ki~IId~ad-~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI~SRc~~i~f  186 (347)
                      +.+|+|+||+- .|...+.+.+.+++..--++..+|+|||+.+    +++. |.++-+
T Consensus       174 ~~~iliLDEpts~LD~~te~~i~~~l~~~~~~~TvI~ItHrl~----~~~~-~D~Iiv  226 (257)
T cd03288         174 KSSILIMDEATASIDMATENILQKVVMTAFADRTVVTIAHRVS----TILD-ADLVLV  226 (257)
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCHH----HHHH-CCEEEE
T ss_conf             9999999587667899999999999999749999999923898----9985-999999


No 312
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=94.75  E-value=0.044  Score=36.46  Aligned_cols=24  Identities=25%  Similarity=0.354  Sum_probs=21.1

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             166311798988899999999998
Q gi|254780217|r   35 HALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        35 ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      --+|+.|.+|+||+|+|..+|..+
T Consensus         4 ~iiligG~sGvGKStla~~lA~rl   27 (197)
T PRK12339          4 TIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHC
T ss_conf             799985799887899999999974


No 313
>pfam01591 6PF2K 6-phosphofructo-2-kinase. This enzyme occurs as a bifunctional enzyme with fructose-2,6-bisphosphatase. The bifunctional enzyme catalyses both the synthesis and degradation of fructose-2,6-bisphosphate, a potent regulator of glycolysis. This enzyme contains a P-loop motif.
Probab=94.74  E-value=0.088  Score=34.00  Aligned_cols=143  Identities=15%  Similarity=0.195  Sum_probs=86.0

Q ss_pred             EEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHH
Q ss_conf             66311798988899999999998177998864312101267886799996789875453001000101342123237887
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEI  115 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~I  115 (347)
                      .+...|-|+-||+.+|..+.++|.-.    +..|.....    ...|+-..+...|..+++ +.++++.+.+..+..+-+
T Consensus        15 vIvmVGLPARGKS~ia~kl~RYL~W~----g~~~kvFn~----G~yRR~~~~~~~~~~ffd-p~n~~~~~~R~~~a~~~l   85 (223)
T pfam01591        15 MIVMVGLPARGKTYISKKLTRYLNWL----GVPTKVFNV----GEYRRSAVKAYSNYEFFR-PDNTEAMKIREQCALAAL   85 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC----CCCEEEEEC----HHHHHHHCCCCCCCCCCC-CCCHHHHHHHHHHHHHHH
T ss_conf             99998999998899999999998656----998058426----378876318999941138-999899999999999999


Q ss_pred             HHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEE-ECCCCCCCHHHHCEEEEE-ECCCCCHH
Q ss_conf             554431022211112103532205542400014567776630343416765-044335730252036988-64799989
Q gi|254780217|r  116 RRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILI-SHASPTILSTIRSRCLSI-KFNSLSEN  192 (347)
Q Consensus       116 R~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLi-t~~~~~il~TI~SRc~~i-~f~~l~~~  192 (347)
                      .++..|+...    +-.|.|. +|-.-|.+--..++....+.+-.++||=+ |+++.-|-.-|+..++.- .+...+.+
T Consensus        86 ~dl~~~l~~~----~G~VaI~-DATN~T~~RR~~i~~~~~~~~~~vlFiEsic~D~~ii~~NI~~~~~~spDY~~~~~e  159 (223)
T pfam01591        86 KDVLAYLNEE----SGQVAIF-DATNTTRERRKNILDFAEENGLKVFFLESICDDPEIIARNIKLVKFSSPDYKGKPPE  159 (223)
T ss_pred             HHHHHHHHHC----CCEEEEE-ECCCCCHHHHHHHHHHHHHCCCEEEEEEEECCCHHHHHHHHHHHHHCCCCCCCCCHH
T ss_conf             9999999858----9829999-688768999999999998669749999997388899999999998459974688999


No 314
>cd01393 recA_like RecA is a  bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response.  RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57.  Archaea have the RecA-like homologs radA and radB.
Probab=94.71  E-value=0.032  Score=37.52  Aligned_cols=25  Identities=28%  Similarity=0.256  Sum_probs=20.8

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             1663117989888999999999981
Q gi|254780217|r   35 HALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        35 ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      .-..++||+|+||+++|+.+|....
T Consensus        20 ~ItEi~G~~gsGKT~l~lqla~~~q   44 (226)
T cd01393          20 RITEIFGEFGSGKTQLCLQLAVEAQ   44 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf             3999999999989999999999985


No 315
>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=94.71  E-value=0.046  Score=36.30  Aligned_cols=129  Identities=17%  Similarity=0.169  Sum_probs=63.5

Q ss_pred             EEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHH
Q ss_conf             66311798988899999999998177998864312101267886799996789875453001000101342123237887
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEI  115 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~I  115 (347)
                      -+-+.||.|+||+|+...++..+-...+  .-..+...........+....-.-++...++....+.   .....|--|-
T Consensus        30 ~~aivG~sGsGKSTLl~~l~G~~~p~~G--~i~i~g~~i~~~~~~~~~~i~~v~Q~~~lf~~ti~~n---lg~~LSgGqk  104 (178)
T cd03247          30 KIALLGRSGSGKSTLLQLLTGDLKPQQG--EITLDGVPVSDLEKALSSLISVLNQRPYLFDTTLRNN---LGRRFSGGER  104 (178)
T ss_pred             EEEEECCCCCHHHHHHHHHHHCCCCCCC--EEEECCEEHHHHHHHHHHHEEEECCCCCCCCCHHHHH---CCCCCCHHHH
T ss_conf             9999999987599999999861766788--6999999889978999972089835563645419986---2888899999


Q ss_pred             HHHHHHCCC-CCCCCCCHHHHHHHHH-HCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCC
Q ss_conf             554431022-2111121035322055-424000145677766303434167650443357
Q gi|254780217|r  116 RRIRYFLSL-TANTGYWRVIMIDPVD-GMNRNAANALLKSLEEPPQKVLFILISHASPTI  173 (347)
Q Consensus       116 R~l~~~~~~-~~~~~~~Ki~IId~ad-~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~i  173 (347)
                      +.    +.. +.....-+|+|+||+- .+...+...+++.|.+--++...|++||+.+.+
T Consensus       105 qR----v~iAral~~~p~ililDEpts~LD~~t~~~i~~~l~~~~~~~Tvi~itH~~~~l  160 (178)
T cd03247         105 QR----LALARILLQDAPIVLLDEPTVGLDPITERQLLSLIFEVLKDKTLIWITHHLTGI  160 (178)
T ss_pred             HH----HHHHHHHHHCCCEEEECCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCHHHH
T ss_conf             99----999999964979767228655699899999999999983999999980589899


No 316
>PRK03839 putative kinase; Provisional
Probab=94.70  E-value=0.03  Score=37.74  Aligned_cols=23  Identities=26%  Similarity=0.469  Sum_probs=20.5

Q ss_pred             EEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             66311798988899999999998
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      -++++|.||+||+|+|..+|..+
T Consensus         2 ~I~ITGTPGtGKTTva~~La~~l   24 (180)
T PRK03839          2 IIAITGTPGVGKTTISKLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
T ss_conf             89997899999899999999976


No 317
>cd03278 ABC_SMC_barmotin Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function.  Barmotin belongs to the SMC protein family.  SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains.  Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins.  The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases.  The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, w
Probab=94.70  E-value=0.032  Score=37.51  Aligned_cols=39  Identities=23%  Similarity=0.435  Sum_probs=24.9

Q ss_pred             HHHHHHHH-HCCHHHHHHHHHHHHHCCCCCCEEEEECCCC
Q ss_conf             35322055-4240001456777663034341676504433
Q gi|254780217|r  133 VIMIDPVD-GMNRNAANALLKSLEEPPQKVLFILISHASP  171 (347)
Q Consensus       133 i~IId~ad-~ln~~AaNALLK~LEEPp~~t~fiLit~~~~  171 (347)
                      ++|+||+- .+.......+.+.|.+--+++.+|+|||+..
T Consensus       138 iliLDEPTs~LD~~~~~~i~~~l~~l~~~~t~IiITH~~~  177 (197)
T cd03278         138 FCVLDEVDAALDDANVERFARLLKEFSKETQFIVITHRKG  177 (197)
T ss_pred             EEEECCCCCCCCHHHHHHHHHHHHHHHCCCEEEEEECCHH
T ss_conf             8997178553898999999999999856998999984999


No 318
>TIGR00416 sms DNA repair protein RadA; InterPro: IPR004504   RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ).   RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC .; GO: 0003684 damaged DNA binding, 0005524 ATP binding, 0006281 DNA repair.
Probab=94.68  E-value=0.051  Score=35.89  Aligned_cols=25  Identities=36%  Similarity=0.573  Sum_probs=21.3

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             1663117989888999999999981
Q gi|254780217|r   35 HALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        35 ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      -++|+=|.||+||.|+-+..+..|=
T Consensus       104 sliLiGG~PG~GKSTLLLqV~~~LA  128 (481)
T TIGR00416       104 SLILIGGDPGIGKSTLLLQVACQLA  128 (481)
T ss_pred             CEEEECCCCCCCHHHHHHHHHHHHH
T ss_conf             1698468899635678999999984


No 319
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=94.68  E-value=0.22  Score=30.80  Aligned_cols=34  Identities=21%  Similarity=0.309  Sum_probs=23.6

Q ss_pred             HHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             9999999982889816631179898889999999999817
Q gi|254780217|r   21 EKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        21 ~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      .+.+..++..+.+   .++.|.-|+||+|-   +-++++.
T Consensus        79 r~~i~~~i~~nqV---vii~GeTGsGKTTQ---iPq~~le  112 (1295)
T PRK11131         79 KQDILEAIRDHQV---VIVAGETGSGKTTQ---LPKICLE  112 (1295)
T ss_pred             HHHHHHHHHHCCE---EEEECCCCCCHHHH---HHHHHHH
T ss_conf             9999999997996---99976899987889---9999996


No 320
>PRK09435 arginine/ornithine transport system ATPase; Provisional
Probab=94.67  E-value=0.21  Score=30.99  Aligned_cols=42  Identities=17%  Similarity=0.219  Sum_probs=29.5

Q ss_pred             HHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             999999999828898166311798988899999999998177
Q gi|254780217|r   20 IEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQN   61 (347)
Q Consensus        20 ~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~   61 (347)
                      +...|...+....-.|-+=++||||+||.|+.-+|++.+...
T Consensus        35 ~~~ll~~l~~~~g~a~~iGiTG~pG~GKStli~~l~~~~~~~   76 (325)
T PRK09435         35 AQELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMHLIEQ   76 (325)
T ss_pred             HHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf             999999863017982599742799986889999999999967


No 321
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11; InterPro: IPR014155   This entry contains VirB11, a protein that is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer . VirB11 is believed to be an ATPase  and is a homologue of the P-like conjugation system TrbB protein and the Flp pilus system protein TadA ..
Probab=94.66  E-value=0.031  Score=37.65  Aligned_cols=139  Identities=19%  Similarity=0.297  Sum_probs=74.0

Q ss_pred             CCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEE
Q ss_conf             09299999999999828898166311798988899999999998177998864312101267886799996789875453
Q gi|254780217|r   15 FGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLY   94 (347)
Q Consensus        15 ~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~   94 (347)
                      .--.+..+.|..|+..++   .+++.|-.|+||||+..++...+-                                   
T Consensus       142 ~~~g~~~~Fl~~Ai~~~k---nIii~GGTgSGKTTf~kal~~~IP-----------------------------------  183 (328)
T TIGR02788       142 LDAGDIKEFLRLAIASRK---NIIISGGTGSGKTTFLKALVKEIP-----------------------------------  183 (328)
T ss_pred             HHCCCHHHHHHHHHHCCC---EEEEEECCCCHHHHHHHHHHHCCC-----------------------------------
T ss_conf             862888799999987389---199990689718999999973276-----------------------------------


Q ss_pred             ECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHH---HCCHHHHHHHHHHHHHCCCCCCEEEEECCCC
Q ss_conf             0010001013421232378875544310222111121035322055---4240001456777663034341676504433
Q gi|254780217|r   95 LSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVD---GMNRNAANALLKSLEEPPQKVLFILISHASP  171 (347)
Q Consensus        95 i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad---~ln~~AaNALLK~LEEPp~~t~fiLit~~~~  171 (347)
                                +..+.|+|||++|+.  +..+    +.+|=++..=+   -...=..-.||+.                  
T Consensus       184 ----------~~ER~iTIED~~E~~--~~hh----pN~V~L~ysk~v~~g~~~vt~~~Ll~s------------------  229 (328)
T TIGR02788       184 ----------KDERLITIEDTRELF--LPHH----PNKVHLFYSKGVGQGSAKVTPKDLLES------------------  229 (328)
T ss_pred             ----------CCCCEEEEEEEECCC--CCCC----CCEEEEEECCCCCCCCCCCCHHHHHHH------------------
T ss_conf             ----------225278885201147--8889----864565534642344356898999999------------------


Q ss_pred             CCCHHHHCEEEEEECCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHC
Q ss_conf             5730252036988647999899999999727888967899999975989789998814577999999999840
Q gi|254780217|r  172 TILSTIRSRCLSIKFNSLSENNLYKALEQLKIMGWDSKRDFVKIAAYGSVARAIKILHYDCDKIISSYIDLIH  244 (347)
Q Consensus       172 ~il~TI~SRc~~i~f~~l~~~~~~~~L~~~~~~~~~~~~~~~~~~s~Gs~~~A~~ll~~~~~~~~~~~~~~l~  244 (347)
                                 ++|++|   |-+  +|.+..   ..++..++-..+-|+||-.-..-.++....++++..+..
T Consensus       230 -----------cLRMrP---DRI--~LgELR---G~Eaf~F~~~~nsGHpGsiTT~HA~s~~~Af~qla~l~k  283 (328)
T TIGR02788       230 -----------CLRMRP---DRI--LLGELR---GDEAFDFIRAVNSGHPGSITTVHAGSPEEAFEQLALLVK  283 (328)
T ss_pred             -----------HHCCCC---CHH--HHHHHC---CHHHHHHHHHHCCCCCCCEEEEEECCHHHHHHHHHHHHH
T ss_conf             -----------711774---057--674303---325788887520598860567871898999999999872


No 322
>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes.  The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch.  Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily.  MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined.  Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes.  The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis.  All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action.  MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid
Probab=94.61  E-value=0.094  Score=33.77  Aligned_cols=118  Identities=15%  Similarity=0.105  Sum_probs=61.1

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCC-EE-EECCCCHHHCCCCCCCCC
Q ss_conf             8166311798988899999999998177998864312101267886799996789875-45-300100010134212323
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHD-FL-YLSYSLNPKTGKWRTVIT  111 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd-~~-~i~~~~~~k~~~~~~~I~  111 (347)
                      +..++++||.+.||+++-+.++-.++-..-....||.....              .++ ++ .+....+-..+...-..-
T Consensus        25 ~~~~iiTGpN~~GKSt~Lk~i~l~~ilaq~G~~vpa~~~~~--------------~~~~i~t~i~~~d~~~~~~S~F~~E   90 (199)
T cd03283          25 KNGILITGSNMSGKSTFLRTIGVNVILAQAGAPVCASSFEL--------------PPVKIFTSIRVSDDLRDGISYFYAE   90 (199)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHHHHCCEEEHHHEEE--------------CCCEEEEEEECCCHHHCCCCHHHHH
T ss_conf             85899989999865999999999999999689386244782--------------3308999983475122453579999


Q ss_pred             HHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-----HHHHHHHHHHHHCCCCCCEEEEECCCC
Q ss_conf             788755443102221111210353220554240-----001456777663034341676504433
Q gi|254780217|r  112 VDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR-----NAANALLKSLEEPPQKVLFILISHASP  171 (347)
Q Consensus       112 vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-----~AaNALLK~LEEPp~~t~fiLit~~~~  171 (347)
                      +.+++.+.+.+.    .+..-.+++||.-+=|.     +.+-|+|+.|-+  .++.++++||...
T Consensus        91 ~~~~~~il~~~~----~~~~sLvliDEl~~GT~~~eg~a~a~a~le~l~~--~~~~~iitTH~~~  149 (199)
T cd03283          91 LRRLKEIVEKAK----KGEPVLFLLDEIFKGTNSRERQAASAAVLKFLKN--KNTIGIISTHDLE  149 (199)
T ss_pred             HHHHHHHHHHHC----CCCCEEEEECCCCCCCCHHHHHHHHHHHHHHHHH--CCCEEEEECCCHH
T ss_conf             999999999724----8985799614324799867899999999999986--7987999887289


No 323
>PRK13538 cytochrome c biogenesis protein CcmA; Provisional
Probab=94.57  E-value=0.1  Score=33.56  Aligned_cols=22  Identities=36%  Similarity=0.443  Sum_probs=18.6

Q ss_pred             EEEECCCCCCCHHHHHHHHHHH
Q ss_conf             6631179898889999999999
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAGH   57 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~~   57 (347)
                      -+-+.||.|+||+|+.+.++..
T Consensus        29 ~~~l~G~NGaGKSTLl~~l~Gl   50 (204)
T PRK13538         29 LVQIEGPNGAGKTSLLRILAGL   50 (204)
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999999998599999999768


No 324
>PRK04328 hypothetical protein; Provisional
Probab=94.57  E-value=0.038  Score=36.96  Aligned_cols=36  Identities=19%  Similarity=0.384  Sum_probs=25.8

Q ss_pred             HHHHHHCCC-CCEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             999998288-981663117989888999999999981
Q gi|254780217|r   24 LSQYYCSGR-MHHALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        24 L~~~~~~~~-l~ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      |...+..|= -.+.+|+.||||+||+++|..|+..=+
T Consensus        13 LD~lL~GGlp~gs~~Lv~G~pGtGKT~la~qFl~~g~   49 (250)
T PRK04328         13 MDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNGL   49 (250)
T ss_pred             HHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHH
T ss_conf             7875159987996999982899998999999999998


No 325
>PRK05748 replicative DNA helicase; Provisional
Probab=94.55  E-value=0.029  Score=37.89  Aligned_cols=46  Identities=13%  Similarity=0.173  Sum_probs=28.0

Q ss_pred             HCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             1092999999999998288981663117989888999999999981
Q gi|254780217|r   14 LFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        14 i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      +.|-..-+..|...+..=+-..-+++-|.||.||+++|+.+|..+.
T Consensus       183 ~~Gi~TG~~~LD~~~~G~~~g~LiviaaRP~mGKTa~alnia~~~a  228 (448)
T PRK05748        183 ITGIPTGFRDLDKMTSGLQPNDLIIVAARPSVGKTAFALNIAQNVA  228 (448)
T ss_pred             CCEEECCHHHHHHHHCCCCCCCEEEEEECCCCCHHHHHHHHHHHHH
T ss_conf             7610578278999827988673799984799876899999999999


No 326
>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=94.54  E-value=0.14  Score=32.30  Aligned_cols=55  Identities=15%  Similarity=0.121  Sum_probs=41.2

Q ss_pred             CCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             655558756561092999999999998288981663117989888999999999981
Q gi|254780217|r    3 DRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus         3 ~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      .....+..++++--.+...+.|.+......  --+||+||.|.||+|+..++.+.+.
T Consensus        51 ~~~~~~~~L~~LG~~~~~~~~l~~~~~~~~--GlilitGptGSGKtTtl~a~l~~~~  105 (264)
T cd01129          51 DKKNQILDLEKLGLKPENLEIFRKLLEKPH--GIILVTGPTGSGKTTTLYSALSELN  105 (264)
T ss_pred             CCCCCCCCHHHHCCCHHHHHHHHHHHHCCC--CEEEEECCCCCCHHHHHHHHHHHHC
T ss_conf             776665798795799999999999970899--8899978999977999999998643


No 327
>KOG3347 consensus
Probab=94.52  E-value=0.033  Score=37.47  Aligned_cols=27  Identities=33%  Similarity=0.468  Sum_probs=23.0

Q ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             8898166311798988899999999998
Q gi|254780217|r   31 GRMHHALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        31 ~~l~ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      ...|+ +|++|.||+||+|+|.++|...
T Consensus         5 r~~PN-ILvtGTPG~GKstl~~~lae~~   31 (176)
T KOG3347           5 RERPN-ILVTGTPGTGKSTLAERLAEKT   31 (176)
T ss_pred             HCCCC-EEEECCCCCCCHHHHHHHHHHH
T ss_conf             13788-7986799988025999999973


No 328
>smart00072 GuKc Guanylate kinase homologues. Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.
Probab=94.50  E-value=0.28  Score=29.98  Aligned_cols=21  Identities=29%  Similarity=0.507  Sum_probs=18.1

Q ss_pred             EEECCCCCCCHHHHHHHHHHH
Q ss_conf             631179898889999999999
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGH   57 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~   57 (347)
                      +++.||+|+||.++...+.+.
T Consensus         5 iil~Gpsg~GK~tl~~~l~~~   25 (184)
T smart00072        5 IVLSGPSGVGKGTLLAELIQE   25 (184)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
T ss_conf             999999999999999999863


No 329
>PRK07004 replicative DNA helicase; Provisional
Probab=94.47  E-value=0.052  Score=35.84  Aligned_cols=24  Identities=17%  Similarity=0.419  Sum_probs=16.6

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             166311798988899999999998
Q gi|254780217|r   35 HALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        35 ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      +-+++-|.||.|||+||+.+|..+
T Consensus       214 dLiIIAARPsmGKTafAlniA~n~  237 (460)
T PRK07004        214 ELIIVAGRPSMGKTAFSMNIGEYV  237 (460)
T ss_pred             CEEEEEECCCCCHHHHHHHHHHHH
T ss_conf             579997368764269999999999


No 330
>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes.  The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch.  Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily.  MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes.  The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis.  All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action.  MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, a
Probab=94.45  E-value=0.099  Score=33.58  Aligned_cols=133  Identities=14%  Similarity=0.108  Sum_probs=64.8

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHH-CCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHH
Q ss_conf             1663117989888999999999981779988643121-012678867999967898754530010001013421232378
Q gi|254780217|r   35 HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRM-CNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVD  113 (347)
Q Consensus        35 ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~-~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd  113 (347)
                      ..++++||...||+|+.+.++...+-.......||.. +....    +         |-++.... ++..-....+--..
T Consensus        29 ~~~iiTGpN~sGKSt~lk~i~l~~iLAq~G~~vpa~~~~~~~~----~---------d~i~~~i~-~~d~~~~~~S~F~~   94 (200)
T cd03280          29 RVLVITGPNAGGKTVTLKTLGLLTLMAQSGLPIPAAEGSSLPV----F---------ENIFADIG-DEQSIEQSLSTFSS   94 (200)
T ss_pred             EEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCEEECCCEECCC----C---------CEEEEEEC-CCCCHHHHHHHHHH
T ss_conf             3999988987750999999999999999777800110047266----5---------67888846-73366677879999


Q ss_pred             HHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-----HHHHHHHHHHHHCCCCCCEEEEECCCC-CCCHHHHCEEEEEEC
Q ss_conf             8755443102221111210353220554240-----001456777663034341676504433-573025203698864
Q gi|254780217|r  114 EIRRIRYFLSLTANTGYWRVIMIDPVDGMNR-----NAANALLKSLEEPPQKVLFILISHASP-TILSTIRSRCLSIKF  186 (347)
Q Consensus       114 ~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-----~AaNALLK~LEEPp~~t~fiLit~~~~-~il~TI~SRc~~i~f  186 (347)
                      |++++..-+...   .....++|||.-+=|.     ..+-|+++.|-+  .++.+|++||..+ ..+..-..+.+...+
T Consensus        95 E~~~~~~il~~~---~~~sLvliDE~~~gTn~~eg~~~a~a~l~~l~~--~~~~~i~tTH~~eL~~l~~~~~~v~~~~~  168 (200)
T cd03280          95 HMKNIARILQHA---DPDSLVLLDELGSGTDPVEGAALAIAILEELLE--RGALVIATTHYGELKAYAYKREGVENASM  168 (200)
T ss_pred             HHHHHHHHHHHC---CCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHH--CCCEEEEECCCHHHHHHHHHCCCEEEEEE
T ss_conf             999999999858---888879755666898878999999999999985--79979998971789987751356278899


No 331
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=94.43  E-value=0.0071  Score=42.78  Aligned_cols=132  Identities=17%  Similarity=0.191  Sum_probs=66.2

Q ss_pred             EEEECCCCCCCHHHHHHHHHH-HHHCCCCCCCCCHHHCCCCCCCHH-HHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHH
Q ss_conf             663117989888999999999-981779988643121012678867-999967898754530010001013421232378
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAG-HVLQNPDFSKAPVRMCNPDPCSPF-VKQMASHALHDFLYLSYSLNPKTGKWRTVITVD  113 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~-~llc~~~~~~~~~~~~~~~~~~~~-~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd  113 (347)
                      -+.|.||.|+||||+.-.+|. +.+-+...   ..+.-+.|.+.-. .-++..  .-+++-+.         ..-.-+-+
T Consensus       178 V~alVGPTGVGKTTTiAKLAAr~~l~~g~~---kVaLIT~DTYRIgAvEQLkt--Ya~IlgvP---------v~vv~~~~  243 (404)
T PRK06995        178 VFALVGPTGVGKTTTTAKLAARCVMRHGAS---KVALLTTDSYRIGGHEQLRI--YGKILGVP---------VHAVKDAA  243 (404)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHHHCCC---CEEEEECCCCCHHHHHHHHH--HHHHCCCE---------EEEECCHH
T ss_conf             589866888763758999999999983898---37999768754789999999--99875955---------99959999


Q ss_pred             HHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHH-HHHHHHHHHHH--CCCCCCEEEEECCCCCCCHHHHCEEEEEECC
Q ss_conf             87554431022211112103532205542400-01456777663--0343416765044335730252036988647
Q gi|254780217|r  114 EIRRIRYFLSLTANTGYWRVIMIDPVDGMNRN-AANALLKSLEE--PPQKVLFILISHASPTILSTIRSRCLSIKFN  187 (347)
Q Consensus       114 ~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~-AaNALLK~LEE--Pp~~t~fiLit~~~~~il~TI~SRc~~i~f~  187 (347)
                      +.+.....      ..++.+|+||-|-+=-.+ ...-.++.|.+  +|-.++..|.++....-+.-|..|...+.+.
T Consensus       244 eL~~aL~~------l~~~dlILIDTaGrs~rD~~~~e~l~~l~~~~~~~~~~LVLsat~~~~dl~~i~~~f~~~~~~  314 (404)
T PRK06995        244 DLRLALAE------LRNKHIVLIDTVGMSQRDRMVSEQIAMLHGAGAPVQRLLLLNATSHGDTLNEVVQAYRGPGLA  314 (404)
T ss_pred             HHHHHHHH------HCCCCEEEEECCCCCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCHHHHHHHHHHHCCCCCC
T ss_conf             99999997------089999998099989768889999999973578852899977989999999999984469998


No 332
>PRK07263 consensus
Probab=94.43  E-value=0.052  Score=35.83  Aligned_cols=46  Identities=13%  Similarity=0.147  Sum_probs=28.6

Q ss_pred             HHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             6109299999999999828898166311798988899999999998
Q gi|254780217|r   13 RLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        13 ~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      ++.|-..-+..|.+....=+-..-+++-|.||.||+++|+.+|..+
T Consensus       182 ~~~Gi~TGf~~LD~~t~Gl~~GdLiviaaRPsmGKTa~alnia~~i  227 (453)
T PRK07263        182 DVTGLPTGFRDLDKITTGLHPDQLIILAARPAVGKTAFVLNIAQNV  227 (453)
T ss_pred             CCCCCCCCHHHHHHHHCCCCCCCEEEEEECCCCCHHHHHHHHHHHH
T ss_conf             9776758858799773289978689997278884789999999999


No 333
>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=94.43  E-value=0.095  Score=33.75  Aligned_cols=150  Identities=15%  Similarity=0.135  Sum_probs=69.2

Q ss_pred             HHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECC
Q ss_conf             99999999999828898166311798988899999999998177998864312101267886799996789875453001
Q gi|254780217|r   18 EDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSY   97 (347)
Q Consensus        18 ~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~   97 (347)
                      +...+.|..+.+.++   .+|++||.|.||+|+..+++.++--.   ..-    ...  .++  ..+ ...||+...+..
T Consensus        12 ~~~~~~L~~~v~~~~---nIlIsG~tGSGKTTll~al~~~i~~~---~ri----vti--Ed~--~El-~l~~~~~v~l~~   76 (186)
T cd01130          12 PLQAAYLWLAVEARK---NILISGGTGSGKTTLLNALLAFIPPD---ERI----ITI--EDT--AEL-QLPHPNWVRLVT   76 (186)
T ss_pred             HHHHHHHHHHHHCCC---CEEEECCCCCCHHHHHHHHHHHCCCC---CCE----EEE--CCC--HHH-CCCCCCEEEEEE
T ss_conf             999999999998599---89998999998999999999613345---645----984--153--540-477775688886


Q ss_pred             CCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHH
Q ss_conf             00010134212323788755443102221111210353220554240001456777663034341676504433573025
Q gi|254780217|r   98 SLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTI  177 (347)
Q Consensus        98 ~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI  177 (347)
                      ....  ......++..+.  +...+.+.|     ..+++-|+-.  .+|. ++++.+.-=.   .-.++|-+.+....++
T Consensus        77 ~~~~--~~~~~~~~~~~l--i~~aLR~~p-----d~iivGEiR~--~Ea~-~~l~a~~tGh---~g~ltTiHa~s~~~ai  141 (186)
T cd01130          77 RPGN--VEGSGEVTMADL--LRSALRMRP-----DRIIVGEVRG--GEAL-DLLQAMNTGH---PGGMTTIHANSAEEAL  141 (186)
T ss_pred             ECCC--CCCCCEECHHHH--HHHHCCCCC-----CEEECCCCCC--HHHH-HHHHHHHCCC---CCCCCCCCCCCHHHHH
T ss_conf             0464--578650349999--887366899-----7373175683--9999-9999997489---8603031589999999


Q ss_pred             HCEE-EEEECCCCCHHHHHHHH
Q ss_conf             2036-98864799989999999
Q gi|254780217|r  178 RSRC-LSIKFNSLSENNLYKAL  198 (347)
Q Consensus       178 ~SRc-~~i~f~~l~~~~~~~~L  198 (347)
                      . |. +.....+.+.+.+.+.+
T Consensus       142 ~-Rl~~l~~~~~~~~~~~~~~i  162 (186)
T cd01130         142 T-RLELLPSNVPLGRPLLREQI  162 (186)
T ss_pred             H-HHHHHHHCCCCCHHHHHHHH
T ss_conf             9-99988754799999999999


No 334
>PRK12338 hypothetical protein; Provisional
Probab=94.41  E-value=0.069  Score=34.85  Aligned_cols=28  Identities=29%  Similarity=0.386  Sum_probs=24.0

Q ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             8981663117989888999999999981
Q gi|254780217|r   32 RMHHALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        32 ~l~ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      |-|-.+|+.|..|+||+|+|..+|..|-
T Consensus         2 r~PliILiGGtSGvGKSTlAseLAsRLg   29 (320)
T PRK12338          2 RKPYVILIGSASGIGKSTIASEVARRLN   29 (320)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHCC
T ss_conf             9767999706888768889999998519


No 335
>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes.  The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch.  Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily.  MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined.  Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes.  The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis.  All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action.  MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c
Probab=94.41  E-value=0.1  Score=33.46  Aligned_cols=134  Identities=14%  Similarity=0.117  Sum_probs=66.5

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHH
Q ss_conf             81663117989888999999999981779988643121012678867999967898754530010001013421232378
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVD  113 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd  113 (347)
                      +.-++++||...||+++-+.++-..+-.......|+..+..             .-.|-++......+... .+.+--..
T Consensus        29 ~~~~iITGpN~gGKSt~Lktigl~~ilAq~G~~vpA~~a~~-------------~~~d~I~t~i~~~d~i~-~~~StF~~   94 (204)
T cd03282          29 SRFHIITGPNMSGKSTYLKQIALLAIMAQIGCFVPAEYATL-------------PIFNRLLSRLSNDDSME-RNLSTFAS   94 (204)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCEEEHHHCCC-------------CCCCEEEEEECCCCCCC-CCCCHHHH
T ss_conf             25999989998871999999999999999689167132103-------------36677899987666100-66458999


Q ss_pred             HHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-----HHHHHHHHHHHHCCCCCCEEEEECCCCCCCH--HHHCEEEEEEC
Q ss_conf             8755443102221111210353220554240-----0014567776630343416765044335730--25203698864
Q gi|254780217|r  114 EIRRIRYFLSLTANTGYWRVIMIDPVDGMNR-----NAANALLKSLEEPPQKVLFILISHASPTILS--TIRSRCLSIKF  186 (347)
Q Consensus       114 ~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-----~AaNALLK~LEEPp~~t~fiLit~~~~~il~--TI~SRc~~i~f  186 (347)
                      |++++..-+...   ++.-.+++||.-+=|.     ..+-|+|+.|-+-  ++..+++||.. .+-.  .-...+...+|
T Consensus        95 E~~~~~~il~~~---~~~sLvliDEl~~GT~~~eg~a~a~aile~l~~~--~~~~i~tTH~~-~L~~l~~~~~~v~n~~m  168 (204)
T cd03282          95 EMSETAYILDYA---DGDSLVLIDELGRGTSSADGFAISLAILECLIKK--ESTVFFATHFR-DIAAILGNKSCVVHLHM  168 (204)
T ss_pred             HHHHHHHHHHHC---CCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHC--CCEEEEECCHH-HHHHHHHHCCCEEEEEE
T ss_conf             999999999858---8898798543348998678999999999999967--98799989768-99998863888499999


Q ss_pred             C
Q ss_conf             7
Q gi|254780217|r  187 N  187 (347)
Q Consensus       187 ~  187 (347)
                      .
T Consensus       169 ~  169 (204)
T cd03282         169 K  169 (204)
T ss_pred             E
T ss_conf             9


No 336
>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=94.36  E-value=0.028  Score=38.05  Aligned_cols=23  Identities=30%  Similarity=0.511  Sum_probs=19.8

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             63117989888999999999981
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      -|++||||+||+++|..|+..-.
T Consensus         2 tLi~G~pGsGKT~~a~qfl~~~a   24 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGL   24 (187)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHH
T ss_conf             15876899999999999999998


No 337
>PRK13542 consensus
Probab=94.31  E-value=0.094  Score=33.78  Aligned_cols=23  Identities=30%  Similarity=0.358  Sum_probs=18.9

Q ss_pred             EEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             66311798988899999999998
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      -+-+.||.|.||+|+.+.++..+
T Consensus        46 i~~liGpNGaGKTTLlk~l~Gll   68 (224)
T PRK13542         46 LLQVMGPNGSGKTSLLRVLSGLM   68 (224)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
T ss_conf             99999999999999999995797


No 338
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=94.30  E-value=0.36  Score=29.10  Aligned_cols=135  Identities=16%  Similarity=0.168  Sum_probs=64.8

Q ss_pred             HHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCH----HHHHHHC--CCCCCE
Q ss_conf             9999999999828898166311798988899999999998177998864312101267886----7999967--898754
Q gi|254780217|r   19 DIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSP----FVKQMAS--HALHDF   92 (347)
Q Consensus        19 ~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~----~~~~i~~--~~hpd~   92 (347)
                      .+...|..++..+.   ..++.||+|+||+|..   -.+++......+.  -.|. .+..-    ...+++.  |....-
T Consensus         8 ~~~~~i~~~l~~~~---~~vl~a~tGsGKtTqv---P~~ll~~~~~~g~--I~~~-qPRR~AA~s~A~RvA~e~~e~~G~   78 (812)
T PRK11664          8 AVLPELLTALKTAP---QVLLKAPTGAGKSTWL---PLQLLQQGGINGK--IIML-EPRRLAARNVAQRLAEQLGEKPGE   78 (812)
T ss_pred             HHHHHHHHHHHHCC---EEEEEECCCCCHHHHH---HHHHHHCCCCCCC--EEEE-CCHHHHHHHHHHHHHHHHCCCCCC
T ss_conf             89999999999799---7999908999989999---9999964688993--8993-883999999999999972999998


Q ss_pred             EEECCC--CHHHCCCCCCCCCH--HHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHH--HHHHHHH-HHHCCCCCCEEE
Q ss_conf             530010--00101342123237--8875544310222111121035322055424000--1456777-663034341676
Q gi|254780217|r   93 LYLSYS--LNPKTGKWRTVITV--DEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNA--ANALLKS-LEEPPQKVLFIL  165 (347)
Q Consensus        93 ~~i~~~--~~~k~~~~~~~I~v--d~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~A--aNALLK~-LEEPp~~t~fiL  165 (347)
                       .|.+.  .+.+. ...+.|.+  |-|  +...+..-|...++-+|||||+|.=+.++  .=+||+- ...-.++-.+|+
T Consensus        79 -~VGY~vR~e~~~-s~~Tri~~~T~Gi--Llr~l~~dp~L~~~~~vI~DE~HER~l~~Dl~l~l~~~~~~~~r~dLklvv  154 (812)
T PRK11664         79 -TVGYRMRAESKV-GPNTRLEVVTEGI--LTRMIQRDPELSGVGLVILDEFHERSLQADLALALLLDVQQGLRDDLKLLI  154 (812)
T ss_pred             -EEEEEECCCCCC-CCCCEEEEECHHH--HHHHHHHCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCEEEE
T ss_conf             -675782567788-9985799975589--999972497767788899957546875189999999999986189828999


Q ss_pred             E
Q ss_conf             5
Q gi|254780217|r  166 I  166 (347)
Q Consensus       166 i  166 (347)
                      .
T Consensus       155 M  155 (812)
T PRK11664        155 M  155 (812)
T ss_pred             E
T ss_conf             8


No 339
>PRK08506 replicative DNA helicase; Provisional
Probab=94.30  E-value=0.064  Score=35.12  Aligned_cols=44  Identities=18%  Similarity=0.148  Sum_probs=27.1

Q ss_pred             CHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             92999999999998288981663117989888999999999981
Q gi|254780217|r   16 GHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        16 G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      |=..-+..|.+....=+-..=+++-|.||.|||+||+.+|....
T Consensus       175 Gi~TGf~~LD~~t~Gl~~gdLiIIAARPsmGKTAfAlniA~~~a  218 (473)
T PRK08506        175 GLDTGFKQLNKMTKGFNKGDLIIIAARPSMGKTTLVLNMVLKAL  218 (473)
T ss_pred             CCCCCHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf             47788087888726998562799950799867899999999999


No 340
>pfam05707 Zot Zonular occludens toxin (Zot). This family consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot). Zot is elaborated by bacteriophages present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers
Probab=94.25  E-value=0.14  Score=32.39  Aligned_cols=58  Identities=17%  Similarity=0.229  Sum_probs=41.3

Q ss_pred             HHHHHHHHHCC-HHHHH----HHHHHHHHCC-CCCCEEEEECCCCCCCHHHHCEE-EEEECCCCC
Q ss_conf             35322055424-00014----5677766303-43416765044335730252036-988647999
Q gi|254780217|r  133 VIMIDPVDGMN-RNAAN----ALLKSLEEPP-QKVLFILISHASPTILSTIRSRC-LSIKFNSLS  190 (347)
Q Consensus       133 i~IId~ad~ln-~~AaN----ALLK~LEEPp-~~t~fiLit~~~~~il~TI~SRc-~~i~f~~l~  190 (347)
                      ++|||||+..= ..+.+    ..+.-|++-- .+-=|+|+|.++..|-..||.+| ..+++.++.
T Consensus        73 liViDE~~~~~~~r~~~~~~~~~i~~l~~HRH~G~DiiliTQ~~~~id~~ir~lve~~~~~~r~~  137 (183)
T pfam05707        73 LLVIDEAQTWFPSRRGGDKVPPVLDAFSTHRHLGWDIILITQNPSKIDKQIRALVEHHVHCRRLT  137 (183)
T ss_pred             EEEEECCHHHCCCCCCCCCCCHHHHHHHHCCCCCCEEEEEECCHHHHHHHHHHHHCEEEEEEECC
T ss_conf             99998976554887778888389999998077882089991897997299998614899999533


No 341
>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes.  The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch.  Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily.  MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined.  Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes.  The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis.  All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action.  MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c
Probab=94.24  E-value=0.13  Score=32.76  Aligned_cols=121  Identities=13%  Similarity=0.070  Sum_probs=60.5

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHH
Q ss_conf             81663117989888999999999981779988643121012678867999967898754530010001013421232378
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVD  113 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd  113 (347)
                      +..++++||...||+++.+.++-.++-.......||..+...+.+...           ..+... |.-.+  ..+--..
T Consensus        29 ~~~~iiTGpN~gGKSt~lkti~l~~ilaq~G~~vpa~~~~~~~~~~i~-----------~~i~~~-d~~~~--~~StF~~   94 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVALIVFLAHIGSFVPADSATIGLVDKIF-----------TRMSSR-ESVSS--GQSAFMI   94 (213)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCEEECCEEEECCCCEE-----------EEECCH-HHHHC--CCCHHHH
T ss_conf             259999899987659999999999999985885767403997212237-----------676764-34441--3258999


Q ss_pred             HHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-----HHHHHHHHHHHHCCCCC-CEEEEECCCC
Q ss_conf             8755443102221111210353220554240-----00145677766303434-1676504433
Q gi|254780217|r  114 EIRRIRYFLSLTANTGYWRVIMIDPVDGMNR-----NAANALLKSLEEPPQKV-LFILISHASP  171 (347)
Q Consensus       114 ~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-----~AaNALLK~LEEPp~~t-~fiLit~~~~  171 (347)
                      |++++..-+...   ++.-.+++||.=+=|.     +.+-|+++.|-+-...+ +++++||..+
T Consensus        95 E~~~~~~il~~~---~~~sLvliDEl~~GT~~~eg~ala~a~le~l~~~~~~~~~~~~tTH~~~  155 (213)
T cd03281          95 DLYQVSKALRLA---TRRSLVLIDEFGKGTDTEDGAGLLIATIEHLLKRGPECPRVIVSTHFHE  155 (213)
T ss_pred             HHHHHHHHHHHC---CCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEECCHHH
T ss_conf             999999999858---8886587731347888356799999999999965887664999897278


No 342
>PRK08840 replicative DNA helicase; Provisional
Probab=94.21  E-value=0.06  Score=35.34  Aligned_cols=27  Identities=11%  Similarity=0.305  Sum_probs=20.8

Q ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             898166311798988899999999998
Q gi|254780217|r   32 RMHHALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        32 ~l~ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      +-.+-+++-|.||.||+++|+.+|...
T Consensus       215 ~~G~LiviaaRPsmGKTalalnia~n~  241 (464)
T PRK08840        215 QGSDLIIVAARPSMGKTTFAMNLCENA  241 (464)
T ss_pred             CCCCEEEEEECCCCCHHHHHHHHHHHH
T ss_conf             757679998379873689999999999


No 343
>KOG1051 consensus
Probab=94.20  E-value=0.21  Score=31.03  Aligned_cols=161  Identities=15%  Similarity=0.151  Sum_probs=87.3

Q ss_pred             HHHHCCH--HHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCC
Q ss_conf             6561092--99999999999828898166311798988899999999998177998864312101267886799996789
Q gi|254780217|r   11 NQRLFGH--EDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHA   88 (347)
Q Consensus        11 ~~~i~G~--~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~   88 (347)
                      .+.++|.  +++.+.........+  +..++.|.+|+||+..+.-+|+.+--..-+......                  
T Consensus       185 ~dPvigr~deeirRvi~iL~Rr~k--~NPvLVG~~gvgktaiv~gla~ri~~G~vp~~l~~~------------------  244 (898)
T KOG1051         185 LDPVIGRHDEEIRRVIEILSRKTK--NNPVLVGEPGVGKTAIVEGLAQRIATGDVPETLKDK------------------  244 (898)
T ss_pred             CCCCCCCCHHHHHHHHHHHHCCCC--CCCEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCC------------------
T ss_conf             788658852889999999814678--996698368777216899999876617888533455------------------


Q ss_pred             CCCEEEECCCCHHHCCCCCCCCCHH-HHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHH-------HHHHHHHHCCCC
Q ss_conf             8754530010001013421232378-87554431022211112103532205542400014-------567776630343
Q gi|254780217|r   89 LHDFLYLSYSLNPKTGKWRTVITVD-EIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAAN-------ALLKSLEEPPQK  160 (347)
Q Consensus        89 hpd~~~i~~~~~~k~~~~~~~I~vd-~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaN-------ALLK~LEEPp~~  160 (347)
                        .++.++....-.+-+.+..  +| .++.+.+.+..   .|+.=|..|++.|-+..+..|       .+||.+.--.. 
T Consensus       245 --~l~~l~~g~l~aGa~~rge--~E~rlk~l~k~v~~---~~~gvILfigelh~lvg~g~~~~~~d~~nlLkp~L~rg~-  316 (898)
T KOG1051         245 --KLIALDFGSLVAGAKRRGE--FEERLKELLKEVES---GGGGVILFLGELHWLVGSGSNYGAIDAANLLKPLLARGG-  316 (898)
T ss_pred             --CEEEEEHHHCCCCCCCCHH--HHHHHHHHHHHHHC---CCCCEEEEECCEEEEECCCCCCHHHHHHHHHHHHHHCCC-
T ss_conf             --2489870000358642127--88999999999854---798689983214322048874118999986588885597-


Q ss_pred             CCEEEEECCCC-----CCCHHHHCEEEEEECCCCCHHHHHHHHH
Q ss_conf             41676504433-----5730252036988647999899999999
Q gi|254780217|r  161 VLFILISHASP-----TILSTIRSRCLSIKFNSLSENNLYKALE  199 (347)
Q Consensus       161 t~fiLit~~~~-----~il~TI~SRc~~i~f~~l~~~~~~~~L~  199 (347)
                      .-||=.|++-.     .--|++-.|-|.+.++-++.++...+|.
T Consensus       317 l~~IGatT~e~Y~k~iekdPalErrw~l~~v~~pS~~~~~~iL~  360 (898)
T KOG1051         317 LWCIGATTLETYRKCIEKDPALERRWQLVLVPIPSVENLSLILP  360 (898)
T ss_pred             EEEEECCCHHHHHHHHHHCCCHHHCCCEEEECCCCCCCHHHHHH
T ss_conf             48972250999999876382054185516713576553145655


No 344
>pfam00488 MutS_V MutS domain V. This domain is found in proteins of the MutS family (DNA mismatch repair proteins) and is found associated with pfam01624, pfam05188, pfam05192 and pfam05190. The mutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair; other members of the family included the eukaryotic MSH 1,2,3, 4,5 and 6 proteins. These have various roles in DNA repair and recombination. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein. The aligned region corresponds with domain V of Thermus aquaticus MutS, which contains a Walker A motif, and is structurally similar to the ATPase domain of ABC transporters.
Probab=94.20  E-value=0.12  Score=32.89  Aligned_cols=120  Identities=16%  Similarity=0.062  Sum_probs=57.7

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHH
Q ss_conf             81663117989888999999999981779988643121012678867999967898754530010001013421232378
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVD  113 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd  113 (347)
                      ++.++++||...||+++.+.++-.++-..-....||..+...+.             |-++......+. -....+-=.-
T Consensus        42 ~~~~iiTGpN~sGKSt~Lk~igl~~~lAq~G~~VPA~~a~~~~~-------------d~I~~~i~~~ds-l~~~~StF~~  107 (234)
T pfam00488        42 SRILLITGPNMGGKSTYLRQVALIVIMAQIGSFVPAESARIGIV-------------DRIFTRIGASDD-LASGRSTFMV  107 (234)
T ss_pred             EEEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCEEECCEEEECC-------------CEEEEEECCCCH-HHCCCCHHHH
T ss_conf             16999978877761999999999999998368742220599636-------------559998567533-4466117999


Q ss_pred             HHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-----HHHHHHHHHHHHCCCCCCEEEEECCCC
Q ss_conf             8755443102221111210353220554240-----001456777663034341676504433
Q gi|254780217|r  114 EIRRIRYFLSLTANTGYWRVIMIDPVDGMNR-----NAANALLKSLEEPPQKVLFILISHASP  171 (347)
Q Consensus       114 ~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-----~AaNALLK~LEEPp~~t~fiLit~~~~  171 (347)
                      |++++..-+...   ++.-.++|||.-+=|.     +.+-|+|.-|-+- .++..+++||..+
T Consensus       108 e~~~~~~il~~~---~~~sLvliDEl~~GT~~~eg~al~~aile~L~~~-~~~~~i~tTH~~~  166 (234)
T pfam00488       108 EMLETANILHNA---TDKSLVILDELGRGTSTYDGLAIAWAVAEHLAEK-IRARTLFATHYHE  166 (234)
T ss_pred             HHHHHHHHHHHC---CCCCEECCCCCCCCCCHHHHHHHHHHHHHHHHHH-CCCEEEEEECHHH
T ss_conf             999999999738---8773220142458998346799999999999973-5977999713577


No 345
>PRK05595 replicative DNA helicase; Provisional
Probab=94.17  E-value=0.068  Score=34.92  Aligned_cols=43  Identities=16%  Similarity=0.137  Sum_probs=25.8

Q ss_pred             CHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             9299999999999828898166311798988899999999998
Q gi|254780217|r   16 GHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        16 G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      |-..-+..|.+....=+-..-+++-|.||.||+++|+.+|...
T Consensus       183 Gi~TGf~~LD~~t~Gl~~GdLiiiaaRP~mGKTa~alnia~~~  225 (444)
T PRK05595        183 GVASGFRELDAKTSGFQKGDMILIAARPSMGKTTFALNIAEYA  225 (444)
T ss_pred             CCCCCHHHHHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             7658847699874599857779998579898079999999999


No 346
>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=94.17  E-value=0.11  Score=33.20  Aligned_cols=48  Identities=25%  Similarity=0.263  Sum_probs=30.7

Q ss_pred             CCHHHHCCHHH----HHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             75656109299----9999999998288981663117989888999999999981
Q gi|254780217|r    9 VYNQRLFGHED----IEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus         9 ~~~~~i~G~~~----~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      -+.++++-...    ....|..+...+.   .+|++||.|+||+|+..++..++.
T Consensus       113 ~tl~~L~~~g~~~~~~~~~L~~~v~~~~---~ilIsG~TGSGKTT~l~all~~i~  164 (283)
T pfam00437       113 LTLDDLGMTGAFDADIAEFLRQAVQARG---NILVSGGTGSGKTTLLYALLNEIN  164 (283)
T ss_pred             CCHHHHCCCCCCHHHHHHHHHHHHHCCC---EEEEECCCCCCHHHHHHHHHHHCC
T ss_conf             9999973897785999999999998197---599988999988999999998408


No 347
>PRK08082 consensus
Probab=94.16  E-value=0.059  Score=35.39  Aligned_cols=45  Identities=13%  Similarity=0.173  Sum_probs=28.2

Q ss_pred             HCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             109299999999999828898166311798988899999999998
Q gi|254780217|r   14 LFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        14 i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      +.|-..-+..|.+....=+-..-+++-|.||.||+++|+.+|..+
T Consensus       183 ~~Gi~TGf~~LD~lt~G~~~g~LiviaaRPsmGKTa~alnia~~~  227 (453)
T PRK08082        183 ITGIPTGFTELDRMTAGFQRNDLIIVAARPSVGKTAFALNIAQNV  227 (453)
T ss_pred             CCCCCCCHHHHHHHHCCCCCCCEEEEEECCCCCHHHHHHHHHHHH
T ss_conf             775548848888641477758579998678875789999999999


No 348
>PRK13539 cytochrome c biogenesis protein CcmA; Provisional
Probab=94.12  E-value=0.064  Score=35.12  Aligned_cols=53  Identities=8%  Similarity=0.158  Sum_probs=29.9

Q ss_pred             CHHHHHHHHH-HCCHHHHHHHHHHHHH-CCCCCCEEEEECCCCCCCHHHHCEEEEEECCC
Q ss_conf             1035322055-4240001456777663-03434167650443357302520369886479
Q gi|254780217|r  131 WRVIMIDPVD-GMNRNAANALLKSLEE-PPQKVLFILISHASPTILSTIRSRCLSIKFNS  188 (347)
Q Consensus       131 ~Ki~IId~ad-~ln~~AaNALLK~LEE-Pp~~t~fiLit~~~~~il~TI~SRc~~i~f~~  188 (347)
                      -+|+|+||.- .|...+.-.+..++.+ -.+++.+|++||+|..+.-.     ..+++-|
T Consensus       145 p~vllLDEPtsgLD~~~~~~v~~~i~~~~~~g~tiIi~tH~p~~~~~~-----~~~~~~~  199 (206)
T PRK13539        145 RPIWLLDEPTAALDSASQALFAELIRAHLAQGGIVIAATHIPLGLPGA-----RELDLGP  199 (206)
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCC-----CEECCCC
T ss_conf             898999799777899999999999999995899999993898878889-----8980566


No 349
>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes.  The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch.  Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily.  MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined.  Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes.  The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis.  All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action.  MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clam
Probab=94.11  E-value=0.12  Score=32.95  Aligned_cols=119  Identities=16%  Similarity=0.091  Sum_probs=60.8

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHH
Q ss_conf             16631179898889999999999817799886431210126788679999678987545300100010134212323788
Q gi|254780217|r   35 HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDE  114 (347)
Q Consensus        35 ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~  114 (347)
                      ..++++||...||+++-+.++-.++-.......||..+...+.             |-++......+.- ....+-=..|
T Consensus        31 ~~~iiTGpN~sGKSt~Lk~igl~~ilaq~G~~vpA~~a~i~~~-------------d~I~t~i~~~d~i-~~~~StF~~e   96 (216)
T cd03284          31 QILLITGPNMAGKSTYLRQVALIALLAQIGSFVPASKAEIGVV-------------DRIFTRIGASDDL-AGGRSTFMVE   96 (216)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHHHHCCEEEECCEEEEEC-------------CEEEEEECCCCHH-HCCCCHHHHH
T ss_conf             5999989987745999999999999998687587661599704-------------4699950686213-3372658999


Q ss_pred             HHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-----HHHHHHHHHHHHCCCCCCEEEEECCCC
Q ss_conf             755443102221111210353220554240-----001456777663034341676504433
Q gi|254780217|r  115 IRRIRYFLSLTANTGYWRVIMIDPVDGMNR-----NAANALLKSLEEPPQKVLFILISHASP  171 (347)
Q Consensus       115 IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-----~AaNALLK~LEEPp~~t~fiLit~~~~  171 (347)
                      ++++..-+...   ...-.+++||.-+=|.     ..+.|+|+-|-+- .++.++++||..+
T Consensus        97 ~~~~~~il~~a---~~~sLvliDEl~~gT~~~eg~ala~aile~L~~~-~~~~~i~tTH~~~  154 (216)
T cd03284          97 MVETANILNNA---TERSLVLLDEIGRGTSTYDGLSIAWAIVEYLHEK-IGAKTLFATHYHE  154 (216)
T ss_pred             HHHHHHHHHHC---CCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHC-CCCEEEEEECHHH
T ss_conf             99999999848---7761563344568998578899999999999970-7972897505088


No 350
>PRK08118 topology modulation protein; Reviewed
Probab=94.10  E-value=0.05  Score=35.98  Aligned_cols=23  Identities=26%  Similarity=0.447  Sum_probs=20.9

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             63117989888999999999981
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      +++.|++|+||+|+|+.+++.+-
T Consensus         4 I~IiG~~GsGKSTlAr~L~~~~~   26 (167)
T PRK08118          4 IILIGSGGSGKSTLARQLGEKLN   26 (167)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
T ss_conf             99988999879999999999889


No 351
>PRK06321 replicative DNA helicase; Provisional
Probab=94.09  E-value=0.11  Score=33.38  Aligned_cols=39  Identities=13%  Similarity=0.130  Sum_probs=25.9

Q ss_pred             HHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             999999998288981663117989888999999999981
Q gi|254780217|r   21 EKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        21 ~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      ...|.+....=+-.+-+++-|.||.|||++|+.+|..+-
T Consensus       213 f~~LD~lt~Gl~~GdliviaaRPsmGKTalalnia~~~a  251 (472)
T PRK06321        213 FIDLDKMINGFSPSNLMILAARPAMGKTALALNIAENFC  251 (472)
T ss_pred             HHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf             488999855988675799853899977999999999999


No 352
>COG2074 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]
Probab=94.08  E-value=0.097  Score=33.64  Aligned_cols=41  Identities=22%  Similarity=0.322  Sum_probs=30.7

Q ss_pred             HHHHHH-HHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             999999-99999828898166311798988899999999998
Q gi|254780217|r   18 EDIEKF-LSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        18 ~~~~~~-L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      +.+.+. |-+-+.+-+-|--+|+-|++|+||+|.|..+|+.|
T Consensus        72 e~a~rY~lwR~ir~~~~p~IILIGGasGVGkStIA~ElA~rL  113 (299)
T COG2074          72 EVAKRYLLWRRIRKMKRPLIILIGGASGVGKSTIAGELARRL  113 (299)
T ss_pred             HHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHC
T ss_conf             999999999998615787599961788777257999999972


No 353
>TIGR02237 recomb_radB DNA repair and recombination protein RadB; InterPro: IPR011939    This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA, eukaryotic RAD51 (IPR011941 from INTERPRO) and DMC1 (IPR011940 from INTERPRO), and archaeal RadA (IPR011938 from INTERPRO) ,, .; GO: 0003684 damaged DNA binding, 0005524 ATP binding, 0008094 DNA-dependent ATPase activity, 0006281 DNA repair, 0006310 DNA recombination.
Probab=94.03  E-value=0.04  Score=36.72  Aligned_cols=82  Identities=13%  Similarity=0.214  Sum_probs=48.8

Q ss_pred             ECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHH
Q ss_conf             11798988899999999998177998864312101267886799996789875453001000101342123237887554
Q gi|254780217|r   39 FEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRI  118 (347)
Q Consensus        39 f~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l  118 (347)
                      ||||||+|||++++..|..=.                         ..|-  .+.+|+    ..+|     .|+|=+|++
T Consensus        17 iYGp~G~GKTn~c~~~a~~a~-------------------------~~Gk--~v~YiD----TEGG-----LS~ER~~q~   60 (223)
T TIGR02237        17 IYGPPGSGKTNICLILAVNAA-------------------------RQGK--KVVYID----TEGG-----LSPERFKQI   60 (223)
T ss_pred             EECCCCCCHHHHHHHHHHHHH-------------------------HCCC--CEEEEE----CCCC-----CHHHHHHHH
T ss_conf             875899867899999999998-------------------------6189--589996----2898-----328999998


Q ss_pred             HHHCCCCCCCCCCHHHHHHHHHHCCHHH--HHHHHHHHHHC
Q ss_conf             4310222111121035322055424000--14567776630
Q gi|254780217|r  119 RYFLSLTANTGYWRVIMIDPVDGMNRNA--ANALLKSLEEP  157 (347)
Q Consensus       119 ~~~~~~~~~~~~~Ki~IId~ad~ln~~A--aNALLK~LEEP  157 (347)
                      .+.-.+-|..---+ +||.++.+++.|.  -....|.++.-
T Consensus        61 ~~~~~~D~e~~~~~-~iv~~~~~f~eQ~~ai~~~~~~~~~~  100 (223)
T TIGR02237        61 AEDRALDPERVLSN-VIVFEVFDFDEQEVAIQKTSKLIDRD  100 (223)
T ss_pred             HHCCCCCHHHHHCC-EEEECCCCHHHHHHHHHHHHHHHHCC
T ss_conf             63058898888415-35523535678999999999998606


No 354
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=94.02  E-value=0.046  Score=36.24  Aligned_cols=36  Identities=25%  Similarity=0.345  Sum_probs=25.9

Q ss_pred             HHHHHHCC-CCCEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             99999828-8981663117989888999999999981
Q gi|254780217|r   24 LSQYYCSG-RMHHALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        24 L~~~~~~~-~l~ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      |...+..| .-..+.|+.||+|+||+++|..|+..=.
T Consensus       255 LD~llgGGl~~GsstLi~Gp~GtGKTtla~qFl~~~a  291 (501)
T PRK09302        255 LDEMCGGGFFRGSIILVSGATGTGKTLLVSKFAEAAC  291 (501)
T ss_pred             HHHHHCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf             7887259975894699988999888999999999998


No 355
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=94.00  E-value=0.046  Score=36.24  Aligned_cols=21  Identities=38%  Similarity=0.570  Sum_probs=19.9

Q ss_pred             EEECCCCCCCHHHHHHHHHHH
Q ss_conf             631179898889999999999
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGH   57 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~   57 (347)
                      +++-||||.||+|+|..+|+.
T Consensus         3 iiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           3 ILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
T ss_conf             999899999889999999997


No 356
>KOG2456 consensus
Probab=94.00  E-value=0.09  Score=33.91  Aligned_cols=150  Identities=20%  Similarity=0.186  Sum_probs=86.4

Q ss_pred             CCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHH-C-CCCCCCCCHHHCCCCCCCHHHHHHH
Q ss_conf             8756561092999999999998288981663117989888999999999981-7-7998864312101267886799996
Q gi|254780217|r    8 PVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVL-Q-NPDFSKAPVRMCNPDPCSPFVKQMA   85 (347)
Q Consensus         8 p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~ll-c-~~~~~~~~~~~~~~~~~~~~~~~i~   85 (347)
                      +..+.=|-|--+....|.+    .|+-| ++|+|-+.+||--+| +.|+.|. | .+-.+..||-.-..+.-.-+|++|.
T Consensus       160 ~~~~~VV~Ggv~ETt~LL~----~rfD~-IfyTGsp~VgkIim~-aAaKhLTPvtLELGGKsP~~vd~~~d~~ia~~RI~  233 (477)
T KOG2456         160 QDLIRVVNGGVPETTELLK----QRFDH-IFYTGSPRVGKIIMA-AAAKHLTPVTLELGGKSPCYVDKNCDLKIAARRIA  233 (477)
T ss_pred             CCEEEEECCCCCHHHHHHH----HHCCE-EEECCCCHHHHHHHH-HHHHCCCCEEEECCCCCCEEECCCCCHHHHHHHHH
T ss_conf             6618876089725899997----33057-886389527799999-98726775898717878724447767789999999


Q ss_pred             CC---------CCCCEEEECCCCHHHCCCCCCCCCHHHHHH-HHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHH
Q ss_conf             78---------987545300100010134212323788755-44310222111121035322055424000145677766
Q gi|254780217|r   86 SH---------ALHDFLYLSYSLNPKTGKWRTVITVDEIRR-IRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLE  155 (347)
Q Consensus        86 ~~---------~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~-l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LE  155 (347)
                      -|         .-||++.++.+.-+|-        |+.++. +.+|....+-+++-=-=||      |.....-+...|+
T Consensus       234 ~gk~~N~GQtCvapDYiL~~k~~~~kl--------i~alk~~l~eFYG~n~~eS~d~sRiI------n~~hf~Rl~~ll~  299 (477)
T KOG2456         234 WGKWMNSGQTCVAPDYILCSKSIQPKL--------IDALKSTLKEFYGENPKESKDLSRII------NQRHFQRLSALLD  299 (477)
T ss_pred             HHHHCCCCCEECCCCEEEECHHHHHHH--------HHHHHHHHHHHHCCCCCCCCCHHHHH------HHHHHHHHHHHHC
T ss_conf             875325787320587698657666999--------99999999998088931163488774------5788999999856


Q ss_pred             HCCCCCCEEEEE-CCCCCCCHHHH
Q ss_conf             303434167650-44335730252
Q gi|254780217|r  156 EPPQKVLFILIS-HASPTILSTIR  178 (347)
Q Consensus       156 EPp~~t~fiLit-~~~~~il~TI~  178 (347)
                      |+ ....+==.+ ..--.|.|||+
T Consensus       300 ~~-~kv~~Gg~~d~~d~~I~PTIL  322 (477)
T KOG2456         300 ET-GKVAIGGESDESDRYIAPTIL  322 (477)
T ss_pred             CC-CCEECCCCCCHHHCCCCCEEE
T ss_conf             89-816107866634324587288


No 357
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=93.97  E-value=0.054  Score=35.69  Aligned_cols=23  Identities=35%  Similarity=0.372  Sum_probs=20.7

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             63117989888999999999981
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      ++|.||||+||.|.|..+|+..-
T Consensus         2 i~l~G~PGsGKgTqa~~La~~~~   24 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKYG   24 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
T ss_conf             89989999987999999999979


No 358
>PRK07261 topology modulation protein; Provisional
Probab=93.95  E-value=0.055  Score=35.67  Aligned_cols=23  Identities=30%  Similarity=0.316  Sum_probs=20.7

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             63117989888999999999981
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      +++.|++|.||+|+|+.++..+-
T Consensus         3 I~IiG~sGsGKSTlAr~L~~~~~   25 (171)
T PRK07261          3 IAIIGYSGSGKSTLARFLGQHYN   25 (171)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
T ss_conf             99988999868999999999879


No 359
>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes.  The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch.  Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily.  MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined.  Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes.  The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis.  All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action.  MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c
Probab=93.95  E-value=0.18  Score=31.52  Aligned_cols=119  Identities=16%  Similarity=0.093  Sum_probs=58.8

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHH
Q ss_conf             16631179898889999999999817799886431210126788679999678987545300100010134212323788
Q gi|254780217|r   35 HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDE  114 (347)
Q Consensus        35 ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~  114 (347)
                      ..++++||...||+++-+.++-.++-.......||..+...+.             |-++......+.... ..+--..|
T Consensus        32 ~~~iiTGpN~~GKSt~lk~i~l~~ilaq~G~~vpa~~~~~~~~-------------d~i~~~i~~~d~~~~-~~StF~~e   97 (222)
T cd03287          32 YCQIITGPNMGGKSSYIRQVALITIMAQIGSFVPASSATLSIF-------------DSVLTRMGASDSIQH-GMSTFMVE   97 (222)
T ss_pred             EEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHCEEECC-------------CEEEEECCCCCHHHC-CCCHHHHH
T ss_conf             4899978998872899999999999997267721456399635-------------759995067862344-52279999


Q ss_pred             HHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-----HHHHHHHHHHHHCCCCCCEEEEECCCC
Q ss_conf             755443102221111210353220554240-----001456777663034341676504433
Q gi|254780217|r  115 IRRIRYFLSLTANTGYWRVIMIDPVDGMNR-----NAANALLKSLEEPPQKVLFILISHASP  171 (347)
Q Consensus       115 IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-----~AaNALLK~LEEPp~~t~fiLit~~~~  171 (347)
                      ++++..-+...   ...-.+++||.-+=|.     +.+-|+|+-|-+- +++.++++||...
T Consensus        98 ~~~~~~il~~~---~~~sLvliDEl~~GT~~~eg~ala~aile~l~~~-~~~~~i~tTH~~~  155 (222)
T cd03287          98 LSETSHILSNC---TSRSLVILDELGRGTSTHDGIAIAYATLHYLLEE-KKCLVLFVTHYPS  155 (222)
T ss_pred             HHHHHHHHHHC---CCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHC-CCCEEEEECCCHH
T ss_conf             99999999867---8875442322468998357799999999999860-5889999476278


No 360
>pfam03308 ArgK ArgK protein. The ArgK protein acts as an ATPase enzyme and as a kinase, and phosphorylates periplasmic binding proteins involved in the LAO (lysine, arginine, ornithine)/AO transport systems.
Probab=93.94  E-value=0.19  Score=31.38  Aligned_cols=44  Identities=18%  Similarity=0.165  Sum_probs=32.4

Q ss_pred             HHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             99999999999828898166311798988899999999998177
Q gi|254780217|r   18 EDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQN   61 (347)
Q Consensus        18 ~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~   61 (347)
                      +...+.|...+....=.|-+=++||||+||.|+.-.+++.+...
T Consensus        13 ~~~~~ll~~~~~~~g~a~~iGiTG~PGaGKStli~~l~~~~~~~   56 (267)
T pfam03308        13 PEARELLRRLMPLTGRAHRVGITGVPGAGKSTLIEALGMELRRR   56 (267)
T ss_pred             HHHHHHHHHHHHHCCCCEEEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf             77999999987435995599876899887999999999999968


No 361
>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=93.94  E-value=0.11  Score=33.36  Aligned_cols=51  Identities=18%  Similarity=0.386  Sum_probs=32.1

Q ss_pred             HHHHHHHHH-HCCHHHHHHHHHHHHHCC--CCCCEEEEECCCCCCCHHHHCEEEEE
Q ss_conf             035322055-424000145677766303--43416765044335730252036988
Q gi|254780217|r  132 RVIMIDPVD-GMNRNAANALLKSLEEPP--QKVLFILISHASPTILSTIRSRCLSI  184 (347)
Q Consensus       132 Ki~IId~ad-~ln~~AaNALLK~LEEPp--~~t~fiLit~~~~~il~TI~SRc~~i  184 (347)
                      +|.|.||+= .|...+...+++.|.+-.  .+..+|++||+.+.+ . +-.|...+
T Consensus       157 ~lLilDEPTs~LD~~~~~~i~~~l~~l~~~~g~Tvi~iTHdl~~v-~-~aDrvivm  210 (276)
T PRK13650        157 KIIILDEATSMLDPEGRLELIKTIKNIRDDYQLTVISITHDLDEV-A-LSDRVLVM  210 (276)
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEECHHHH-H-CCCEEEEE
T ss_conf             999983886658999999999999999984298999995778999-6-09999999


No 362
>PRK10436 hypothetical protein; Provisional
Probab=93.92  E-value=0.21  Score=30.96  Aligned_cols=56  Identities=13%  Similarity=0.019  Sum_probs=42.2

Q ss_pred             CCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             6555587565610929999999999982889816631179898889999999999817
Q gi|254780217|r    3 DRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus         3 ~~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      ...-.|..++++--.+...+.|.+.+....  --+|++||.|+||+|+-.++.+.+..
T Consensus       186 ~~~~~~~~L~~LG~~~~~~~~~~~~~~~p~--GliLvtGPTGSGKTTTLya~L~~l~~  241 (461)
T PRK10436        186 QQVQQTLDLETLGMTPAQLAQFRQALQQPQ--GLVLVTGPTGSGKTVTLYSALQTLNT  241 (461)
T ss_pred             CCCCCCCCHHHHCCCHHHHHHHHHHHHCCC--CEEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             466566888784889999999999983899--77999789999569999999974346


No 363
>PRK12337 2-phosphoglycerate kinase; Provisional
Probab=93.90  E-value=0.17  Score=31.70  Aligned_cols=35  Identities=23%  Similarity=0.234  Sum_probs=27.7

Q ss_pred             HHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             99999828898166311798988899999999998
Q gi|254780217|r   24 LSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        24 L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      |-+.+....-|--+|+-|.+|+||+|+|-.+|..|
T Consensus       252 lwR~ir~~~~PiiILIGGaSGvGKSTlAseLA~RL  286 (492)
T PRK12337        252 LLRVLRKPPRPLHVLLGGVSGTGKSVLAAELAYRL  286 (492)
T ss_pred             HHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             99997356887699960788866888999999960


No 364
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=93.90  E-value=0.065  Score=35.04  Aligned_cols=28  Identities=21%  Similarity=0.363  Sum_probs=25.3

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             8166311798988899999999998177
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQN   61 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc~   61 (347)
                      +.||+..|+.|+||+|.+.++|+.+-|.
T Consensus         3 ~~a~VVmGVsGsGKSTvg~~LA~~L~~~   30 (176)
T PRK09825          3 GESYILMGVSGSGKSLIGSKIAALFSAK   30 (176)
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHHHCCC
T ss_conf             8579998289899899999999995987


No 365
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=93.89  E-value=0.12  Score=32.90  Aligned_cols=41  Identities=20%  Similarity=0.360  Sum_probs=29.5

Q ss_pred             CCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             09299999999999828898166311798988899999999998
Q gi|254780217|r   15 FGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        15 ~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      +-+.+....|..+++.++   .+++.|+-|.||||++.+++.++
T Consensus       144 ~~~~~~~~fL~~aV~~r~---NilI~G~TgSGKTTll~aL~~~i  184 (332)
T PRK13900        144 LAEKKIKEFLEHAVISKK---NIIISGGTSTGKTTFTNAALREI  184 (332)
T ss_pred             HHHHHHHHHHHHHHHCCC---CEEEECCCCCCHHHHHHHHHHCC
T ss_conf             410579999999986487---19998888988999999998358


No 366
>KOG1805 consensus
Probab=93.80  E-value=0.21  Score=30.98  Aligned_cols=157  Identities=15%  Similarity=0.092  Sum_probs=80.2

Q ss_pred             HHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHH------------HH
Q ss_conf             999999999998288981663117989888999999999981779988643121012678867999------------96
Q gi|254780217|r   18 EDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQ------------MA   85 (347)
Q Consensus        18 ~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~------------i~   85 (347)
                      +++.+.+..+.....  + -|+.|-||+||+|+.-.+.+.|+.....---.  ..++.+.+....+            ..
T Consensus       672 ~dQr~A~~k~L~aed--y-~LI~GMPGTGKTTtI~~LIkiL~~~gkkVLLt--syThsAVDNILiKL~~~~i~~lRLG~~  746 (1100)
T KOG1805         672 NDQRQALLKALAAED--Y-ALILGMPGTGKTTTISLLIKILVALGKKVLLT--SYTHSAVDNILIKLKGFGIYILRLGSE  746 (1100)
T ss_pred             HHHHHHHHHHHHCCC--H-HEEECCCCCCCHHHHHHHHHHHHHCCCEEEEE--EHHHHHHHHHHHHHHCCCCCEEECCCC
T ss_conf             899999999873033--2-20326998981225999999999738818998--505678899999875067110344872


Q ss_pred             CCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCC--------------CCHHHHHHHHHHCCHHHHHHHH
Q ss_conf             78987545300100010134212323788755443102221111--------------2103532205542400014567
Q gi|254780217|r   86 SHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTG--------------YWRVIMIDPVDGMNRNAANALL  151 (347)
Q Consensus        86 ~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~--------------~~Ki~IId~ad~ln~~AaNALL  151 (347)
                      ...||++..+.. .++        -+++..-.+.+++..++..+              .+-+||||+|-.+..       
T Consensus       747 ~kih~~v~e~~~-~~~--------~s~ks~~~l~~~~~~~~IVa~TClgi~~plf~~R~FD~cIiDEASQI~l-------  810 (1100)
T KOG1805         747 EKIHPDVEEFTL-TNE--------TSEKSYADLKKFLDQTSIVACTCLGINHPLFVNRQFDYCIIDEASQILL-------  810 (1100)
T ss_pred             CCCCHHHHHHHC-CCC--------CCHHHHHHHHHHHCCCCEEEEECCCCCCHHHHCCCCCEEEECCCCCCCC-------
T ss_conf             224468998712-344--------5453399999972897679997157886555214267899865111143-------


Q ss_pred             HHHHHCC-CCCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHHHHHH
Q ss_conf             7766303-4341676504433573025203698864799989999999
Q gi|254780217|r  152 KSLEEPP-QKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKAL  198 (347)
Q Consensus       152 K~LEEPp-~~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~~~~L  198 (347)
                      -+.=-|= =...|+|+- +...++|-.+||--  +-..++.+.++...
T Consensus       811 P~~LgPL~~s~kFVLVG-Dh~QLpPLV~s~ea--r~~Gl~~SLFkrL~  855 (1100)
T KOG1805         811 PLCLGPLSFSNKFVLVG-DHYQLPPLVRSSEA--RQEGLSESLFKRLS  855 (1100)
T ss_pred             CHHHHHHHHCCEEEEEC-CCCCCCCCCCCHHH--HHCCCCHHHHHHHH
T ss_conf             42121021123589964-63337863036455--55673459999986


No 367
>PRK03846 adenylylsulfate kinase; Provisional
Probab=93.73  E-value=0.06  Score=35.31  Aligned_cols=44  Identities=20%  Similarity=0.200  Sum_probs=32.6

Q ss_pred             HHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             29999999999982889816631179898889999999999817
Q gi|254780217|r   17 HEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        17 ~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      |+..+..-.+.-..|.-|..+-|+|.+|.||+|+|.++.+.|..
T Consensus         7 ~~~~v~~~~r~~~~~~kg~viWlTGLSGSGKTTlA~~L~~~L~~   50 (198)
T PRK03846          7 HQHPVTKAQREQLHGHKGVVLWFTGLSGSGKSTVAGALEEALHE   50 (198)
T ss_pred             ECCCCCHHHHHHHHCCCCEEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             47887999999986899869998799999889999999999997


No 368
>KOG0922 consensus
Probab=93.69  E-value=0.26  Score=30.25  Aligned_cols=151  Identities=18%  Similarity=0.213  Sum_probs=75.5

Q ss_pred             CCCCCCHHHHCCHH------HHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCC--
Q ss_conf             55587565610929------9999999999828898166311798988899999999998177998864312101267--
Q gi|254780217|r    5 AFDPVYNQRLFGHE------DIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP--   76 (347)
Q Consensus         5 ~~~p~~~~~i~G~~------~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~--   76 (347)
                      .+.+.....+..|.      ...+.+...++.+.+   .++.|+-|+||+|-   +-++|....-...+ .-.|+-+.  
T Consensus        34 ~~~~~~~~~i~~qR~~LPI~~~r~~il~~ve~nqv---lIviGeTGsGKSTQ---ipQyL~eaG~~~~g-~I~~TQPRRV  106 (674)
T KOG0922          34 SYGKSTNLSIQEQRESLPIYKYRDQILYAVEDNQV---LIVIGETGSGKSTQ---IPQYLAEAGFASSG-KIACTQPRRV  106 (674)
T ss_pred             CCCCCCCCCHHHHHCCCCHHHHHHHHHHHHHHCCE---EEEECCCCCCCCCC---HHHHHHHCCCCCCC-CEEEECCCHH
T ss_conf             24654435788763159989999999999987877---99984898985332---76999862656688-2775067167


Q ss_pred             -CCHHHHHHHC------CCCCCEEEECCCCHHHCCCCCCCCCH--HHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC--HH
Q ss_conf             -8867999967------89875453001000101342123237--8875544310222111121035322055424--00
Q gi|254780217|r   77 -CSPFVKQMAS------HALHDFLYLSYSLNPKTGKWRTVITV--DEIRRIRYFLSLTANTGYWRVIMIDPVDGMN--RN  145 (347)
Q Consensus        77 -~~~~~~~i~~------~~hpd~~~i~~~~~~k~~~~~~~I~v--d~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln--~~  145 (347)
                       .-...++++.      |..-.+ .|+  +++-+.. ++.|+-  |-+  |.+.+-.-|...+|-|+|||+||.=+  .+
T Consensus       107 AavslA~RVAeE~~~~lG~~VGY-~IR--Fed~ts~-~TrikymTDG~--LLRE~l~Dp~LskYsvIIlDEAHERsl~TD  180 (674)
T KOG0922         107 AAVSLAKRVAEEMGCQLGEEVGY-TIR--FEDSTSK-DTRIKYMTDGM--LLREILKDPLLSKYSVIILDEAHERSLHTD  180 (674)
T ss_pred             HHHHHHHHHHHHHCCCCCCEEEE-EEE--ECCCCCC-CEEEEEECCHH--HHHHHHCCCCCCCCCEEEEECHHHHHHHHH
T ss_conf             78889999999858976762226-998--4566787-33699961359--999885087645444899832231015788


Q ss_pred             HHHHHHHH-HHHCCCCCCEEEEEC
Q ss_conf             01456777-663034341676504
Q gi|254780217|r  146 AANALLKS-LEEPPQKVLFILISH  168 (347)
Q Consensus       146 AaNALLK~-LEEPp~~t~fiLit~  168 (347)
                      -.=.|||- +...|+--++|..++
T Consensus       181 iLlGlLKki~~~R~~LklIimSAT  204 (674)
T KOG0922         181 ILLGLLKKILKKRPDLKLIIMSAT  204 (674)
T ss_pred             HHHHHHHHHHHCCCCCEEEEEEEE
T ss_conf             999999998732778369999235


No 369
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=93.68  E-value=0.044  Score=36.46  Aligned_cols=22  Identities=23%  Similarity=0.440  Sum_probs=13.5

Q ss_pred             EEEECCCCCCCHHHHHHHHHHH
Q ss_conf             6631179898889999999999
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAGH   57 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~~   57 (347)
                      -+++-|.||+|||+||..+|..
T Consensus       196 LiIiaARPsmGKTafalnia~n  217 (421)
T TIGR03600       196 LIVIGARPSMGKTTLALNIAEN  217 (421)
T ss_pred             EEEEEEECCCCHHHHHHHHHHH
T ss_conf             8999854678745999999999


No 370
>PRK08006 replicative DNA helicase; Provisional
Probab=93.68  E-value=0.098  Score=33.62  Aligned_cols=27  Identities=11%  Similarity=0.319  Sum_probs=21.8

Q ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             898166311798988899999999998
Q gi|254780217|r   32 RMHHALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        32 ~l~ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      +-.+-+++-|.||.||+++|+.+|...
T Consensus       222 ~~G~LiviaaRPsmGKTalalnia~~~  248 (471)
T PRK08006        222 QPSDLIIVAARPSMGKTTFAMNLCENA  248 (471)
T ss_pred             CCCCEEEEEECCCCCHHHHHHHHHHHH
T ss_conf             217389999469987699999999999


No 371
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=93.68  E-value=0.09  Score=33.91  Aligned_cols=47  Identities=17%  Similarity=0.204  Sum_probs=34.5

Q ss_pred             CCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             09299999999999828898166311798988899999999998177
Q gi|254780217|r   15 FGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQN   61 (347)
Q Consensus        15 ~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~   61 (347)
                      +-|...+....+....+.-|-.+-|+|.+|.||+|+|.++.+.|...
T Consensus         4 ~w~~~~v~~~~r~~~~~~~~~viW~TGLSGsGKSTiA~ale~~L~~~   50 (197)
T COG0529           4 VWHPHSVTKQEREALKGQKGAVIWFTGLSGSGKSTIANALEEKLFAK   50 (197)
T ss_pred             CCCCCCCCHHHHHHHHCCCCEEEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf             23632158888988727998599964688887879999999999975


No 372
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=93.67  E-value=0.32  Score=29.46  Aligned_cols=159  Identities=13%  Similarity=0.061  Sum_probs=81.4

Q ss_pred             CCCCE-EEEECCCCCCCHHHHHHHHHHHHHCCC-C-CCC----CCHHHCCCCCCCHHHHHHHC-----C-CCCCEE----
Q ss_conf             88981-663117989888999999999981779-9-886----43121012678867999967-----8-987545----
Q gi|254780217|r   31 GRMHH-ALLFEGEQGIGKATLGFRYAGHVLQNP-D-FSK----APVRMCNPDPCSPFVKQMAS-----H-ALHDFL----   93 (347)
Q Consensus        31 ~~l~h-a~Lf~Gp~GiGK~~~A~~~A~~llc~~-~-~~~----~~~~~~~~~~~~~~~~~i~~-----~-~hpd~~----   93 (347)
                      ..=++ -+.+..|-|.|||.++..+|.+.+... . .+.    -|...+.-+.....+....-     . .|-...    
T Consensus       210 ~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~~~~~~~~~~~~h~~~~~~~~  289 (733)
T COG1203         210 LEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEIFGLFSVIGKSLHSSSKEPLL  289 (733)
T ss_pred             CCCCCCEEEEEECCCCCHHHHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHH
T ss_conf             22557518999168887199999999997531135456289965589999999999987512355433100131025565


Q ss_pred             --------EECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCC----CCCHHHHHHHHHHCCHH-HHHHHHHHHHHCC--
Q ss_conf             --------30010001013421232378875544310222111----12103532205542400-0145677766303--
Q gi|254780217|r   94 --------YLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANT----GYWRVIMIDPVDGMNRN-AANALLKSLEEPP--  158 (347)
Q Consensus        94 --------~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~----~~~Ki~IId~ad~ln~~-AaNALLK~LEEPp--  158 (347)
                              ......+.-....-..+.+.-+..+........+.    =..-++|+|++|.|..+ ...++++++|=-.  
T Consensus       290 ~~~~~~~~~~~~~~ds~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~S~vIlDE~h~~~~~~~~~~l~~~i~~l~~~  369 (733)
T COG1203         290 LEPDQDILLTLTTNDSYKKLLLALIVVTPIQILIFSVKGFKFEFLALLLTSLVILDEVHLYADETMLAALLALLEALAEA  369 (733)
T ss_pred             HCCCCCCCEEEEECCCCCCCCCCCEEECHHHHHHHHHCCCCCHHHHHHHHCCEEEECHHHCCCCCHHHHHHHHHHHHHHC
T ss_conf             17010022588812422362045222069998557404667257788764677874275416543089999999999968


Q ss_pred             CCCCEEEEECCCCCCCHHHHCEEEEEECCCC
Q ss_conf             4341676504433573025203698864799
Q gi|254780217|r  159 QKVLFILISHASPTILSTIRSRCLSIKFNSL  189 (347)
Q Consensus       159 ~~t~fiLit~~~~~il~TI~SRc~~i~f~~l  189 (347)
                      ...+++++++-|..+-.=+.+++....-...
T Consensus       370 g~~ill~SATlP~~~~~~l~~~~~~~~~~~~  400 (733)
T COG1203         370 GVPVLLMSATLPPFLKEKLKKALGKGREVVE  400 (733)
T ss_pred             CCCEEEEECCCCHHHHHHHHHHHCCCCEECC
T ss_conf             9978999278997999999998503761213


No 373
>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family.
Probab=93.64  E-value=0.053  Score=35.78  Aligned_cols=117  Identities=15%  Similarity=0.077  Sum_probs=58.5

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHH
Q ss_conf             63117989888999999999981779988643121012678867999967898754530010001013421232378875
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIR  116 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR  116 (347)
                      ++++||...||+++-+.++-.++-.......||..+...+.+...-           .+.. .+.-...  .+--..|++
T Consensus         2 ~iiTGpN~sGKSt~lk~i~l~~~laq~G~~vpa~~~~~~~~d~i~~-----------~i~~-~d~~~~~--~S~F~~e~~   67 (185)
T smart00534        2 VIITGPNMGGKSTYLRQVGLIVIMAQIGSFVPAESAELPVFDRIFT-----------RIGA-SDSLAQG--LSTFMVEMK   67 (185)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHHHCCCEEECCCEEECCCEEEE-----------EECC-CCCCCCC--CCHHHHHHH
T ss_conf             8997999884899999999999999978886157719950310023-----------3564-1002156--418999999


Q ss_pred             HHHHHCCCCCCCCCCHHHHHHHHHHCCH-----HHHHHHHHHHHHCCCCCCEEEEECCCC
Q ss_conf             5443102221111210353220554240-----001456777663034341676504433
Q gi|254780217|r  117 RIRYFLSLTANTGYWRVIMIDPVDGMNR-----NAANALLKSLEEPPQKVLFILISHASP  171 (347)
Q Consensus       117 ~l~~~~~~~~~~~~~Ki~IId~ad~ln~-----~AaNALLK~LEEPp~~t~fiLit~~~~  171 (347)
                      ++...+...   ++.-.+++||.-.=|.     ..+-|+++.|-+ ..++.++++||..+
T Consensus        68 ~~~~il~~~---~~~sLvliDEl~~GT~~~eg~ala~aile~l~~-~~~~~~iitTH~~e  123 (185)
T smart00534       68 ETANILKNA---TENSLVLLDELGRGTSTYDGVAIAAAVLEYLLE-KIGALTLFATHYHE  123 (185)
T ss_pred             HHHHHHHHC---CCCEEEEECCCCCCCCHHHHHHHHHHHHHHHHH-CCCCEEEEEECHHH
T ss_conf             999999838---987376304113688814789999999999996-36975998604378


No 374
>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=93.62  E-value=0.07  Score=34.80  Aligned_cols=156  Identities=22%  Similarity=0.276  Sum_probs=83.9

Q ss_pred             CCHHHHHHHHHHHHHCCCCC--EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCC-
Q ss_conf             09299999999999828898--166311798988899999999998177998864312101267886799996789875-
Q gi|254780217|r   15 FGHEDIEKFLSQYYCSGRMH--HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHD-   91 (347)
Q Consensus        15 ~G~~~~~~~L~~~~~~~~l~--ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd-   91 (347)
                      .|+++.=+.|-     |-+|  .-.|+.|+.|.||+.+-++|+--.|.+.....+..-+.   +.....+++++.+++= 
T Consensus        12 ~gndelDkrLG-----GGiP~GsL~lIEGd~~tGKSvLsqr~~YG~L~~g~~v~yvsTe~---T~refi~qm~sl~ydv~   83 (235)
T COG2874          12 SGNDELDKRLG-----GGIPVGSLILIEGDNGTGKSVLSQRFAYGFLMNGYRVTYVSTEL---TVREFIKQMESLSYDVS   83 (235)
T ss_pred             CCCHHHHHHCC-----CCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEECH---HHHHHHHHHHHCCCCCH
T ss_conf             78477786516-----99746769999888985488999999998870895489998403---59999998886388716


Q ss_pred             -------EEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHH----HHHHHHHHHHHCCCC
Q ss_conf             -------453001000101342123237887554431022211112103532205542400----014567776630343
Q gi|254780217|r   92 -------FLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRN----AANALLKSLEEPPQK  160 (347)
Q Consensus        92 -------~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~----AaNALLK~LEEPp~~  160 (347)
                             +.+++...+      +-.....+-|.+.+.+....-....-|+|||........    +.+-++..+-.-.++
T Consensus        84 ~~~l~G~l~~~~~~~~------~~~~~~~~~~~~L~~l~~~~k~~~~dViIIDSls~~~~~~~~~~vl~fm~~~r~l~d~  157 (235)
T COG2874          84 DFLLSGRLLFFPVNLE------PVNWGRRSARKLLDLLLEFIKRWEKDVIIIDSLSAFATYDSEDAVLNFMTFLRKLSDL  157 (235)
T ss_pred             HHHHCCEEEEEEECCC------CCCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHCCCHHHHHHHHHHHHHHHHC
T ss_conf             8775062689993245------4225737789999999755775237789995343776526499999999999998728


Q ss_pred             CCEEEEECCCCCCCH----HHHCEEEEE
Q ss_conf             416765044335730----252036988
Q gi|254780217|r  161 VLFILISHASPTILS----TIRSRCLSI  184 (347)
Q Consensus       161 t~fiLit~~~~~il~----TI~SRc~~i  184 (347)
                      ...|++|-+|+.+..    -|||=|-.+
T Consensus       158 gKvIilTvhp~~l~e~~~~rirs~~d~~  185 (235)
T COG2874         158 GKVIILTVHPSALDEDVLTRIRSACDVY  185 (235)
T ss_pred             CCEEEEEECHHHCCHHHHHHHHHHHHEE
T ss_conf             9789999473433789999998752025


No 375
>pfam06745 KaiC KaiC. This family represents a conserved region within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein. This family includes KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria.
Probab=93.61  E-value=0.065  Score=35.06  Aligned_cols=24  Identities=25%  Similarity=0.565  Sum_probs=20.7

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHH
Q ss_conf             816631179898889999999999
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGH   57 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~   57 (347)
                      ...+|++||||+||+++|..|+..
T Consensus        19 gs~~LI~G~pGsGKT~la~qfl~~   42 (231)
T pfam06745        19 GRVVLITGGPGTGKTIFGLQFLYN   42 (231)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             969999858972599999999999


No 376
>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional
Probab=93.61  E-value=0.2  Score=31.07  Aligned_cols=21  Identities=43%  Similarity=0.501  Sum_probs=17.7

Q ss_pred             EEECCCCCCCHHHHHHHHHHH
Q ss_conf             631179898889999999999
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGH   57 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~   57 (347)
                      +-+.||.|+||+|+...++..
T Consensus        39 v~ivG~sGsGKSTLl~~i~Gl   59 (228)
T PRK10584         39 IALIGESGSGKSTLLAILAGL   59 (228)
T ss_pred             EEEECCCCCHHHHHHHHHHCC
T ss_conf             999999985899999999669


No 377
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=93.59  E-value=0.27  Score=30.09  Aligned_cols=52  Identities=15%  Similarity=0.022  Sum_probs=40.1

Q ss_pred             CCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             875656109299999999999828898166311798988899999999998177
Q gi|254780217|r    8 PVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQN   61 (347)
Q Consensus         8 p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~   61 (347)
                      +-.|+++-......+.+.+.+....  -=+|++||-|+||+|+-..+.+.++..
T Consensus       234 ~l~l~~Lg~~~~~~~~~~~~~~~p~--GliLvTGPTGSGKTTTLY~~L~~ln~~  285 (500)
T COG2804         234 ILDLEKLGMSPFQLARLLRLLNRPQ--GLILVTGPTGSGKTTTLYAALSELNTP  285 (500)
T ss_pred             CCCHHHHCCCHHHHHHHHHHHHCCC--EEEEEECCCCCCHHHHHHHHHHHHCCC
T ss_conf             6888783899889999999972897--089996899998899999999986278


No 378
>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=93.55  E-value=0.17  Score=31.78  Aligned_cols=135  Identities=19%  Similarity=0.267  Sum_probs=66.0

Q ss_pred             HHHHHHHHHHHHCCCCCEEEEE-CCCCCCCHHHHHHHHHHHHHCCCCCCCCCHH---------HCCCCCCCHHHHHHHCC
Q ss_conf             9999999999982889816631-1798988899999999998177998864312---------10126788679999678
Q gi|254780217|r   18 EDIEKFLSQYYCSGRMHHALLF-EGEQGIGKATLGFRYAGHVLQNPDFSKAPVR---------MCNPDPCSPFVKQMASH   87 (347)
Q Consensus        18 ~~~~~~L~~~~~~~~l~ha~Lf-~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~---------~~~~~~~~~~~~~i~~~   87 (347)
                      ++..+.|.+.++   -||++++ +||=|+||+|+=++--..|+.. +.+--.|.         .-+.--+.+.---++.|
T Consensus       231 ~~~l~~~~~li~---rpHGIiLVTGPTGSGKtTTLYaaL~~LN~~-~~NIlTvEDPVEY~i~GIgQ~Qvn~kIglTFA~G  306 (495)
T TIGR02533       231 PELLSSLERLIK---RPHGIILVTGPTGSGKTTTLYAALSRLNTP-ERNILTVEDPVEYQIEGIGQIQVNPKIGLTFAAG  306 (495)
T ss_pred             HHHHHHHHHHHH---CCCCEEEECCCCCCCHHHHHHHHHHHHCCC-CCCEEEEECCEEEEECCCCEEEECCCCCHHHHHH
T ss_conf             889999999971---889618841778985258899999863589-9715686578247624876365146543038888


Q ss_pred             ------CCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHH-H-CCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHH---H
Q ss_conf             ------987545300100010134212323788755443-1-0222111121035322055424000145677766---3
Q gi|254780217|r   88 ------ALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRY-F-LSLTANTGYWRVIMIDPVDGMNRNAANALLKSLE---E  156 (347)
Q Consensus        88 ------~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~-~-~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LE---E  156 (347)
                            .-||                 .|=|-|||++-. . +-..|..|.   .++--.|  |.+||-|+=..+=   |
T Consensus       307 LRaILRQDPD-----------------iiMvGEIRD~ETA~IAiQASLTGH---LVLSTLH--TNDAAgAvtRL~DMGvE  364 (495)
T TIGR02533       307 LRAILRQDPD-----------------IIMVGEIRDLETAQIAIQASLTGH---LVLSTLH--TNDAAGAVTRLIDMGVE  364 (495)
T ss_pred             HHHHHCCCCC-----------------EEEEECCCCHHHHHHHHHHHHHHH---HHHHHHH--HHHHHHHHHHHHHCCCC
T ss_conf             7886427998-----------------899823160689999998764325---7655655--40154466555325864


Q ss_pred             CCCCCCEEEEECCCCCCCH-----HHHCEEEEE
Q ss_conf             0343416765044335730-----252036988
Q gi|254780217|r  157 PPQKVLFILISHASPTILS-----TIRSRCLSI  184 (347)
Q Consensus       157 Pp~~t~fiLit~~~~~il~-----TI~SRc~~i  184 (347)
                      |      +|+|+....+|.     +|-+-|..=
T Consensus       365 P------FL~aSsl~GVLAQRLVRrlCp~Cke~  391 (495)
T TIGR02533       365 P------FLLASSLLGVLAQRLVRRLCPHCKEP  391 (495)
T ss_pred             H------HHHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf             0------48999999999863343315146888


No 379
>PRK00279 adk adenylate kinase; Reviewed
Probab=93.52  E-value=0.073  Score=34.67  Aligned_cols=123  Identities=14%  Similarity=0.011  Sum_probs=54.5

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHH
Q ss_conf             63117989888999999999981779988643121012678867999967898754530010001013421232378875
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIR  116 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR  116 (347)
                      ++|.||||+||.|.|..+|+..-..    .-.+|.+-       ...+.+++. --..+. ...++++-....|.++=+ 
T Consensus         3 iillG~PGsGKgTqa~~la~~~~~~----~is~Gdll-------R~~i~~~s~-~g~~i~-~~~~~G~lVpd~i~~~lv-   68 (215)
T PRK00279          3 LILLGPPGAGKGTQAKFIAEKYGIP----HISTGDML-------RAAIKAGTE-LGKEAK-SYMDAGELVPDEIVIGLV-   68 (215)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCE----EECHHHHH-------HHHHHCCCH-HHHHHH-HHHHCCCCCCHHHHHHHH-
T ss_conf             9998999998799999999986991----78688999-------999873998-899999-999779877889999999-


Q ss_pred             HHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCC--CCCEEEEECCCCCCCHHHHCE
Q ss_conf             5443102221111210353220554240001456777663034--341676504433573025203
Q gi|254780217|r  117 RIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQ--KVLFILISHASPTILSTIRSR  180 (347)
Q Consensus       117 ~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~--~t~fiLit~~~~~il~TI~SR  180 (347)
                        .+.+.....   .+-+|+|..=+- .+.|.+|-+.++++..  ..++.|-++. +-+..-+..|
T Consensus        69 --~~~l~~~~~---~~G~IlDGfPRt-~~Qa~~l~~~l~~~~~~i~~Vi~l~v~~-~~~~~Rl~~R  127 (215)
T PRK00279         69 --KERLAQPDC---ANGFLLDGFPRT-IPQAEALDEMLKEAGIKLDAVIEIDVPD-EELVERLSGR  127 (215)
T ss_pred             --HHHHHCCCC---CCEEEEECCCCC-HHHHHHHHHHHHHCCCCCCEEEEEECCH-HHHHHHHHCC
T ss_conf             --999836565---570798689998-7999999999986499868899996889-9999998611


No 380
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=93.47  E-value=0.077  Score=34.48  Aligned_cols=28  Identities=18%  Similarity=0.372  Sum_probs=23.5

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             8166311798988899999999998177
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQN   61 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc~   61 (347)
                      ...+|++|+||+||++||..|+...+..
T Consensus        23 g~~~lI~G~pGsGKT~f~~qfl~~~~~~   50 (260)
T COG0467          23 GSVVLITGPPGTGKTIFALQFLYEGARE   50 (260)
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHHHHHC
T ss_conf             9789999389986899999999977626


No 381
>PRK02496 adk adenylate kinase; Provisional
Probab=93.47  E-value=0.076  Score=34.51  Aligned_cols=23  Identities=39%  Similarity=0.585  Sum_probs=20.6

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             63117989888999999999981
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      ++|.||||+||.|.|..+|+..-
T Consensus         4 iillG~PGSGKgTqa~~L~~~~~   26 (185)
T PRK02496          4 LIFLGPPGAGKGTQAVVLAEHLQ   26 (185)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
T ss_conf             99979999998999999999969


No 382
>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota.  The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed.  The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways.  Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO.  Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.
Probab=93.42  E-value=0.18  Score=31.56  Aligned_cols=23  Identities=35%  Similarity=0.564  Sum_probs=18.9

Q ss_pred             EEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             66311798988899999999998
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      -+-+.||.|+||+|+.+.++..+
T Consensus        28 i~~iiG~nGaGKSTLl~~i~Gl~   50 (205)
T cd03226          28 IIALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
T ss_conf             99998899998999999995685


No 383
>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=93.35  E-value=0.072  Score=34.68  Aligned_cols=33  Identities=18%  Similarity=0.221  Sum_probs=26.7

Q ss_pred             HCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             828898166311798988899999999998177
Q gi|254780217|r   29 CSGRMHHALLFEGEQGIGKATLGFRYAGHVLQN   61 (347)
Q Consensus        29 ~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~   61 (347)
                      ..+...-.+=|||++|.||+|+|-|+.+.|...
T Consensus        14 ~~~h~g~vlWlTGLSGsGKsTiA~Al~~~L~~~   46 (187)
T TIGR00455        14 LNKHRGVVLWLTGLSGSGKSTIANALEKKLEKK   46 (187)
T ss_pred             HCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHC
T ss_conf             627973898511688563579999999999966


No 384
>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]
Probab=93.32  E-value=0.59  Score=27.36  Aligned_cols=129  Identities=15%  Similarity=0.144  Sum_probs=67.6

Q ss_pred             CCCHHHHCCHHHH---HHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHH
Q ss_conf             8756561092999---9999999982889816631179898889999999999817799886431210126788679999
Q gi|254780217|r    8 PVYNQRLFGHEDI---EKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQM   84 (347)
Q Consensus         8 p~~~~~i~G~~~~---~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i   84 (347)
                      +..-++++|-+..   ...+.-+-..|+   .-..||-.|+||++.+..++..--..--....||..-.     -.|..+
T Consensus        68 ~~~~~~~l~tkt~r~~~~~~~~A~k~g~---l~~vyg~~g~gKt~a~~~y~~s~p~~~l~~~~p~~~a~-----~~i~~i  139 (297)
T COG2842          68 EKLAPDFLETKTVRRIFFRTRPASKTGS---LVVVYGYAGLGKTQAAKNYAPSNPNALLIEADPSYTAL-----VLILII  139 (297)
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHCCC---EEEEECCCCCHHHHHHHHHCCCCCCCEEECCCHHHHHH-----HHHHHH
T ss_conf             5466432035024767542055551685---47886332200689998653358641361588136788-----999999


Q ss_pred             HCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEE
Q ss_conf             67898754530010001013421232378875544310222111121035322055424000145677766303434167
Q gi|254780217|r   85 ASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFI  164 (347)
Q Consensus        85 ~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fi  164 (347)
                      .              ....+     +.-..++....+..-. ..+.-+.+|+|+||.|-..|.--+.|..++-+  .-+.
T Consensus       140 ~--------------~~~~~-----~~~~~~~d~~~~~~~~-l~~~~~~iivDEA~~L~~~ale~lr~i~d~~G--i~~v  197 (297)
T COG2842         140 C--------------AAAFG-----ATDGTINDLTERLMIR-LRDTVRLIIVDEADRLPYRALEELRRIHDKTG--IGVV  197 (297)
T ss_pred             H--------------HHHHC-----CCCHHHHHHHHHHHHH-HCCCCCEEEEEHHHCCCHHHHHHHHHHHHHHC--CEEE
T ss_conf             9--------------98740-----1421688889999999-71576526650321258689999999887508--1599


Q ss_pred             EE
Q ss_conf             65
Q gi|254780217|r  165 LI  166 (347)
Q Consensus       165 Li  166 (347)
                      |+
T Consensus       198 Lv  199 (297)
T COG2842         198 LV  199 (297)
T ss_pred             EE
T ss_conf             83


No 385
>PTZ00111 DNA replication licensing factor MCM4; Provisional
Probab=93.31  E-value=0.11  Score=33.22  Aligned_cols=137  Identities=17%  Similarity=0.092  Sum_probs=75.7

Q ss_pred             HHHCCHHHHHHHHHHHHHC--------CCC-------------CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHH
Q ss_conf             5610929999999999982--------889-------------8166311798988899999999998177998864312
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYYCS--------GRM-------------HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVR   70 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~~~--------~~l-------------~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~   70 (347)
                      ..|.|++++++-+.-.+=.        ++.             -| +|+.|.||++|..+-....+ +-   +-+-+.+|
T Consensus       451 PSI~~~~dvKkgillqLFGg~~k~~~~~~~~~~~~~~~~~RgdIn-iLl~GDPgtaKSQlL~yv~~-ia---PRgvytsG  525 (916)
T PTZ00111        451 PSIKARNNVKIGLLCQLFSCNANSSDNNKSPDACYKVDNFRGIIN-VLLCGDPGTAKSQLLHYTHL-LS---PRSIYTSG  525 (916)
T ss_pred             CHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCEE-EEEECCCCCCHHHHHHHHHH-HC---CCEEEECC
T ss_conf             621152269999999984887545677877654444444345405-99957996018999999997-28---74267459


Q ss_pred             HCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHH--HHH-HHHHCCCCCCCCCCHHHHHHHHHHCCHHHH
Q ss_conf             10126788679999678987545300100010134212323788--755-443102221111210353220554240001
Q gi|254780217|r   71 MCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDE--IRR-IRYFLSLTANTGYWRVIMIDPVDGMNRNAA  147 (347)
Q Consensus        71 ~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~--IR~-l~~~~~~~~~~~~~Ki~IId~ad~ln~~Aa  147 (347)
                      .-++              -..+--              .+.+++  -++ ..+.-.+  ..+..-|+-||+.|+|+.+..
T Consensus       526 kgsS--------------avGLTA--------------~v~~~d~~tg~~~LEaGAL--VLaD~GvccIDEFDKM~~~~r  575 (916)
T PTZ00111        526 KSSS--------------SVGLTA--------------SIKFNESDNGRAMIQPGAV--VLANGGVCCIDELDKCHNESR  575 (916)
T ss_pred             CCCC--------------CCCCEE--------------EEEECCCCCCCEEEECCCE--EECCCCEEEEEHHHCCCHHHH
T ss_conf             8654--------------226468--------------9983268878689854808--972798799622203685678


Q ss_pred             HHHHHHHHHCCCCCCEE---------------EEECC--------------CCCCCHHHHCEEEEEEC
Q ss_conf             45677766303434167---------------65044--------------33573025203698864
Q gi|254780217|r  148 NALLKSLEEPPQKVLFI---------------LISHA--------------SPTILSTIRSRCLSIKF  186 (347)
Q Consensus       148 NALLK~LEEPp~~t~fi---------------Lit~~--------------~~~il~TI~SRc~~i~f  186 (347)
                      .+|.-.||.   .|+=|               |.+.|              --.++|||.||.-.+.+
T Consensus       576 s~lhEaMEQ---QtvSIAKAGI~~tLnARtSvLAaANP~~gry~~~~~v~enI~lpp~LLSRFDLIfl  640 (916)
T PTZ00111        576 LSLYEVMEQ---QTVTIAKAGIVATLKAETAILASCNPINSRYNKNKAVIENINISPSLFTRFDLIYL  640 (916)
T ss_pred             HHHHHHHHH---HHHHHHHCCEEEEECHHHHHHHHCCCCCCCCCCCCCHHHHCCCCCHHHHHHHEEEE
T ss_conf             899998866---31235323504541203456553286556578786767645799403312204677


No 386
>COG4988 CydD ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]
Probab=93.29  E-value=0.22  Score=30.80  Aligned_cols=63  Identities=13%  Similarity=0.199  Sum_probs=44.3

Q ss_pred             CCCCCHHHHHH-HHHHCCCCCCCCCCHHHHHHHHH-HCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCC
Q ss_conf             12323788755-44310222111121035322055-424000145677766303434167650443357
Q gi|254780217|r  107 RTVITVDEIRR-IRYFLSLTANTGYWRVIMIDPVD-GMNRNAANALLKSLEEPPQKVLFILISHASPTI  173 (347)
Q Consensus       107 ~~~I~vd~IR~-l~~~~~~~~~~~~~Ki~IId~ad-~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~i  173 (347)
                      +..+|.-|.+. ...+.-++    +..+++.||+- .+..++...++..|.+--++...|++||..+.+
T Consensus       454 G~~LSgGQ~QRlaLARAll~----~~~l~llDEpTA~LD~etE~~i~~~l~~l~~~ktvl~itHrl~~~  518 (559)
T COG4988         454 GAGLSGGQAQRLALARALLS----PASLLLLDEPTAHLDAETEQIILQALQELAKQKTVLVITHRLEDA  518 (559)
T ss_pred             CCCCCHHHHHHHHHHHHHCC----CCCEEEECCCCCCCCHHHHHHHHHHHHHHHHCCEEEEEECCHHHH
T ss_conf             88778999999999998558----888898548756798767999999999997278699997673778


No 387
>PTZ00088 adenylate kinase 1; Provisional
Probab=93.28  E-value=0.084  Score=34.16  Aligned_cols=23  Identities=22%  Similarity=0.355  Sum_probs=20.6

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             63117989888999999999981
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      ++|-||||+||.|.|..+|+..-
T Consensus         3 iillGpPGsGKgT~a~~l~~~~~   25 (225)
T PTZ00088          3 IVLFGAPGVGKGTFAEILSKKEK   25 (225)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
T ss_conf             99989999987999999999879


No 388
>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; 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=93.26  E-value=0.13  Score=32.75  Aligned_cols=46  Identities=17%  Similarity=0.274  Sum_probs=30.9

Q ss_pred             CCHHHHHHHHH-HCCHHHHHHHHHHHHHCC-CCCCEEEEECCCCCCCH
Q ss_conf             21035322055-424000145677766303-43416765044335730
Q gi|254780217|r  130 YWRVIMIDPVD-GMNRNAANALLKSLEEPP-QKVLFILISHASPTILS  175 (347)
Q Consensus       130 ~~Ki~IId~ad-~ln~~AaNALLK~LEEPp-~~t~fiLit~~~~~il~  175 (347)
                      .-+++|+||.- .|...+...+.+.+.+-. ++..+|++||+.+-+..
T Consensus        98 ~p~ililDEPtsgLD~~~~~~l~~~i~~l~~~g~tii~vtH~~~~~~~  145 (157)
T cd00267          98 NPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAEL  145 (157)
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEECCHHHHHH
T ss_conf             999999969876689999999999999999689999999089999999


No 389
>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.
Probab=93.25  E-value=0.083  Score=34.19  Aligned_cols=24  Identities=29%  Similarity=0.414  Sum_probs=21.7

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             631179898889999999999817
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      ++..|+.|+||+|+|.++|..+-+
T Consensus         2 iiv~GvsGsGKSTia~~La~~lg~   25 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERLGA   25 (150)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             899918999999999999997199


No 390
>TIGR01128 holA DNA polymerase III, delta subunit; InterPro: IPR005790    DNA polymerase III delta (holA, ) and delta prime (holB) subunits are distinct proteins encoded by separate genes. The delta prime subunit (holB) exhibits sequence homology to the tau and gamma subunits (dnaX), but the delta subunit (holA) does not demonstrate this same homology with dnaX. The delta, delta prime, gamma, chi and psi subunits form the gamma complex sub-assembly of DNA polymerase III holoenzyme, which couples ATP to assemble the ring-shaped beta subunit around DNA forming a DNA sliding clamp. Both delta and delta prime are monomeric in their native state, and they bind each other tightly to form a 1:1 complex. Neither delta nor delta prime alone binds tightly to the gamma subunit . ; GO: 0003677 DNA binding, 0003891 delta DNA polymerase activity, 0006260 DNA replication, 0043625 delta DNA polymerase complex.
Probab=93.21  E-value=0.82  Score=26.22  Aligned_cols=157  Identities=11%  Similarity=0.076  Sum_probs=110.6

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHH
Q ss_conf             81663117989888999999999981779988643121012678867999967898754530010001013421232378
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVD  113 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd  113 (347)
                      +..|+++|+.-.-....+..+..... ......                        ++..++..             --
T Consensus         2 ~~~y~~~G~~~~l~~~~~~~~~~~~~-~~~~~~------------------------~~~~~~~~-------------~~   43 (331)
T TIGR01128         2 APVYLLYGDEPLLLEEAADAIRAAAL-PGFDEF------------------------NLFTIDGE-------------EF   43 (331)
T ss_pred             CCCEEECCCCHHHHHHHHHHHHHHHC-CCCHHH------------------------HHHHCCCC-------------CC
T ss_conf             64035406405578999999998740-242012------------------------23210332-------------00


Q ss_pred             HHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-HH-----HHHHHHHHHHCCCCCCEEEEEC--CCCCC------CH-HHH
Q ss_conf             8755443102221111210353220554240-00-----1456777663034341676504--43357------30-252
Q gi|254780217|r  114 EIRRIRYFLSLTANTGYWRVIMIDPVDGMNR-NA-----ANALLKSLEEPPQKVLFILISH--ASPTI------LS-TIR  178 (347)
Q Consensus       114 ~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-~A-----aNALLK~LEEPp~~t~fiLit~--~~~~i------l~-TI~  178 (347)
                      +.-.+.......|..+.+|++++..+..... ..     ..++.+.++.||+.|..++...  ..++-      +. +..
T Consensus        44 ~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~  123 (331)
T TIGR01128        44 DWGQLLESAQTLPLFSERRLVELRLPSGLPGAKGKLEHLLKALLEYLANPPPDTLLLIEAPYEKLDKRKKLTKWLKKALD  123 (331)
T ss_pred             HHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHH
T ss_conf             37788877641355444405665333343441002566799999873146765378874163013456777767666543


Q ss_pred             C-EEEEEECCCCCHHHHHHHHHH----HCCCCCHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             0-369886479998999999997----2788896789999997598978999881
Q gi|254780217|r  179 S-RCLSIKFNSLSENNLYKALEQ----LKIMGWDSKRDFVKIAAYGSVARAIKIL  228 (347)
Q Consensus       179 S-Rc~~i~f~~l~~~~~~~~L~~----~~~~~~~~~~~~~~~~s~Gs~~~A~~ll  228 (347)
                      . ....+.+.++...++..|+..    .+.....+....+.....|+...+..-+
T Consensus       124 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~~  178 (331)
T TIGR01128       124 NKNAEIVECKTPDEQELPRWIQARLKELGLRIDPDAVQLLAELVEGNLLALAQEL  178 (331)
T ss_pred             HHCCCEEECCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHHHH
T ss_conf             2101231023443556689999999970786545899999987253078888777


No 391
>pfam00176 SNF2_N SNF2 family N-terminal domain. This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1).
Probab=93.20  E-value=0.82  Score=26.21  Aligned_cols=143  Identities=14%  Similarity=0.215  Sum_probs=66.5

Q ss_pred             HHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCC--EEE
Q ss_conf             299999999999828898166311798988899999999998177998864312101267886799996789875--453
Q gi|254780217|r   17 HEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHD--FLY   94 (347)
Q Consensus        17 ~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd--~~~   94 (347)
                      |.+.++-|...+++++  . =|+-=.-|.|||..+.++...+...........-.|.......=.+.+..- .|+  +..
T Consensus         2 Q~~gv~wl~~~~~~~~--g-giLaDeMGLGKTiq~ia~l~~~~~~~~~~~~~LIV~P~sl~~~W~~Ei~~~-~~~~~~~~   77 (295)
T pfam00176         2 QLEGVNWLISLYNNGL--G-GILADEMGLGKTLQTISLLAYLKELKPLAGPHLVVCPLSTLDNWLNEFEKW-APDLNIVV   77 (295)
T ss_pred             HHHHHHHHHHHHHCCC--C-EEEECCCCCCHHHHHHHHHHHHHHHCCCCCCEEEEECHHHHHHHHHHHHHH-CCCCCEEE
T ss_conf             7889999999872799--9-897227875799999999999998388999889997578887678899986-79970799


Q ss_pred             ECCCCHHHCCC-------CC---CCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEE
Q ss_conf             00100010134-------21---232378875544310222111121035322055424000145677766303434167
Q gi|254780217|r   95 LSYSLNPKTGK-------WR---TVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFI  164 (347)
Q Consensus        95 i~~~~~~k~~~-------~~---~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fi  164 (347)
                      +........+.       ..   -..+-+.++.....+.    .-.|..+|+||||.+-. .....-|.+-.-.....++
T Consensus        78 ~~~~~~~r~~~~~~~~~~~~~~ivitsY~~~~~~~~~l~----~~~w~~vI~DEaH~iKN-~~s~~~~a~~~l~~~~r~~  152 (295)
T pfam00176        78 YYGDGDSRSELLRNVLRTGKFDVLITSYEYIRRDKDELH----KANWRYVILDEGHRIKN-AKSKLSLALKSLKTNNRLL  152 (295)
T ss_pred             EEECHHHHHHHHHHHHHCCCCCEEEECHHHHHHHHHHHH----CCCCCEEEEECCCCCCC-HHHHHHHHHHHCCCCCEEE
T ss_conf             984707689998867741688599930999997599984----08765899876201258-7889999999523581899


Q ss_pred             EEEC
Q ss_conf             6504
Q gi|254780217|r  165 LISH  168 (347)
Q Consensus       165 Lit~  168 (347)
                      |+-+
T Consensus       153 LTGT  156 (295)
T pfam00176       153 LTGT  156 (295)
T ss_pred             EECC
T ss_conf             8687


No 392
>PRK05541 adenylylsulfate kinase; Provisional
Probab=93.14  E-value=0.11  Score=33.12  Aligned_cols=28  Identities=18%  Similarity=0.165  Sum_probs=23.6

Q ss_pred             CCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             9816631179898889999999999817
Q gi|254780217|r   33 MHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        33 l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      =+-.+-|+|.+|+||+|+|.++.+.|..
T Consensus         6 kg~viW~TGLsGSGKTTiA~~l~~~L~~   33 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERLKL   33 (176)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             8679997899999899999999999997


No 393
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=93.13  E-value=0.13  Score=32.64  Aligned_cols=49  Identities=14%  Similarity=0.081  Sum_probs=36.5

Q ss_pred             HHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             5610929999999999982889816631179898889999999999817
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      ..+.-|+..+..=.++-..|.-|..+.|+|.+|.||+|+|.++.+.|..
T Consensus       421 ~ni~w~~~~V~~~~R~~~~g~~~~~iw~tGlsgsGKstiA~~le~~L~~  469 (613)
T PRK05506        421 TNVHWQALDVTREARAARKGQKPATVWFTGLSGSGKSTIANLVERRLHA  469 (613)
T ss_pred             CCCCCCCCCCCHHHHHHHHCCCCEEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             7864230337999999974899769999778989747999999999997


No 394
>PRK09165 replicative DNA helicase; Provisional
Probab=93.12  E-value=0.14  Score=32.26  Aligned_cols=25  Identities=20%  Similarity=0.371  Sum_probs=19.9

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             8166311798988899999999998
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      ..-+++-|.||.|||+||+.+|..+
T Consensus       205 GdLiIIAARPsmGKTafaLniA~n~  229 (484)
T PRK09165        205 SDLIILAGRPSMGKTALATNIAFNA  229 (484)
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHHH
T ss_conf             7379996079997789999999999


No 395
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=93.11  E-value=0.15  Score=32.22  Aligned_cols=98  Identities=19%  Similarity=0.195  Sum_probs=51.2

Q ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHH----HHHHCCCCCCEEEECCCCHHHCCCC
Q ss_conf             889816631179898889999999999817799886431210126788679----9996789875453001000101342
Q gi|254780217|r   31 GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFV----KQMASHALHDFLYLSYSLNPKTGKW  106 (347)
Q Consensus        31 ~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~----~~i~~~~hpd~~~i~~~~~~k~~~~  106 (347)
                      .+-|.-+|+.|-.|.||||++=.+|+++--.    +.....+..|...|..    +.+..-..-+++-...      +. 
T Consensus        97 ~~~P~vImmvGLQGsGKTTt~~KLA~~lkk~----~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~~~------~~-  165 (451)
T COG0541          97 KKPPTVILMVGLQGSGKTTTAGKLAKYLKKK----GKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSGT------EK-  165 (451)
T ss_pred             CCCCEEEEEEECCCCCHHHHHHHHHHHHHHC----CCCEEEEECCCCCHHHHHHHHHHHHHCCCCEECCCC------CC-
T ss_conf             8998589998156797486899999999974----994589850567868999999999860985316778------89-


Q ss_pred             CCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHH
Q ss_conf             1232378875544310222111121035322055424000
Q gi|254780217|r  107 RTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNA  146 (347)
Q Consensus       107 ~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~A  146 (347)
                         -.|+=+++-++.+.    ..++-|+|||.|-++..+.
T Consensus       166 ---~Pv~Iak~al~~ak----~~~~DvvIvDTAGRl~ide  198 (451)
T COG0541         166 ---DPVEIAKAALEKAK----EEGYDVVIVDTAGRLHIDE  198 (451)
T ss_pred             ---CHHHHHHHHHHHHH----HCCCCEEEEECCCCCCCHH
T ss_conf             ---97999999999999----7499889996887330309


No 396
>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=93.10  E-value=0.12  Score=33.00  Aligned_cols=27  Identities=22%  Similarity=0.383  Sum_probs=23.1

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             816631179898889999999999817
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      +..+-|+|.+|.||+|+|.++.+.|..
T Consensus         2 G~viW~TGLsGsGKTTlA~~l~~~L~~   28 (157)
T pfam01583         2 GCTVWFTGLSGSGKSTIANALERKLFA   28 (157)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             889998898999999999999999997


No 397
>pfam08423 Rad51 Rad51. Rad51 is a DNA repair and recombination protein and is a homologue of the bacterial ATPase RecA protein.
Probab=93.09  E-value=0.085  Score=34.14  Aligned_cols=21  Identities=24%  Similarity=0.115  Sum_probs=17.6

Q ss_pred             EEECCCCCCCHHHHHHHHHHH
Q ss_conf             631179898889999999999
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGH   57 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~   57 (347)
                      .=++||+|+||+.++..+|-.
T Consensus        46 TEi~G~~gsGKTQlc~qlav~   66 (261)
T pfam08423        46 TEVFGEFRTGKTQLCHTLCVT   66 (261)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
T ss_conf             999899888789999999999


No 398
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=93.05  E-value=0.15  Score=32.12  Aligned_cols=53  Identities=23%  Similarity=0.237  Sum_probs=31.4

Q ss_pred             ECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH---------HHHHHCCCCCCEEEE
Q ss_conf             117989888999999999981779988643121012678867---------999967898754530
Q gi|254780217|r   39 FEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF---------VKQMASHALHDFLYL   95 (347)
Q Consensus        39 f~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~---------~~~i~~~~hpd~~~i   95 (347)
                      ++||||.||+|+.-.+++.+......    .+-...|+.++.         .|.-....+|+++.-
T Consensus         4 itG~pGaGKStLi~~l~~~~~~~g~~----VaVlavDPsS~~sgGalLGDRiRm~~~~~~~~vfiR   65 (148)
T cd03114           4 ITGVPGAGKSTLIDALITALRARGKR----VAVLAIDPSSPFSGGAILGDRIRMERHASDPGVFIR   65 (148)
T ss_pred             ECCCCCCCHHHHHHHHHHHHHHCCCE----EEEEEECCCCCCCCCCCHHHHHHHHHHCCCCCEEEE
T ss_conf             25899787899999999999978983----799996888786686203235453441579983686


No 399
>TIGR01351 adk adenylate kinases; InterPro: IPR006259    Most members of this family are known or believed to be adenylate kinase.   Adenylate kinase (ADK) 2.7.4.3 from EC converts ATP + AMP to ADP + ADP, that is, it uses ATP as a phosphate donor for AMP. Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). However, some members accept other nucleotide triphosphates as donors, and may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (2.7.4.10 from EC) is Q9UIJ7 from SWISSPROT, a GTP:AMP phosphotransferase that has been identified in bovine heart and human cells  and derived from mitrochondrail GTP AMP that is specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate .This family is designated subfamily rather than equivalog for this reason.   ADK has also been identified in different bacterial species and in yeast . Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.  ; GO: 0005524 ATP binding, 0016776 phosphotransferase activity phosphate group as acceptor, 0019201 nucleotide kinase activity, 0006139 nucleobase nucleoside nucleotide and nucleic acid metabolic process.
Probab=93.04  E-value=0.079  Score=34.39  Aligned_cols=139  Identities=18%  Similarity=0.077  Sum_probs=76.6

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCC-CHHHCCCCCCCCCHHHH
Q ss_conf             63117989888999999999981779988643121012678867999967898754530010-00101342123237887
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYS-LNPKTGKWRTVITVDEI  115 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~-~~~k~~~~~~~I~vd~I  115 (347)
                      ++|-||||+||=|-|..++..+=..+-.+++            ..|......-|==..+... ..++++=....|.++= 
T Consensus         2 ~~~lGpPGsGKGTQa~~i~~~~gl~HISTGD------------llR~~~~~~T~LG~~~k~y~y~~~G~LVPD~~v~~l-   68 (232)
T TIGR01351         2 LILLGPPGSGKGTQAKRIAEKLGLPHISTGD------------LLRAAVKAGTPLGKKAKEYNYMDKGELVPDEIVNQL-   68 (232)
T ss_pred             EEEECCCCCCHHHHHHHHHHHCCCCCCCCHH------------HHHHHHHHCCHHHHHHHCCCCCCCCCCCCHHHHHHH-
T ss_conf             4675598987667999999860885020258------------999998707977898732672003775778999999-


Q ss_pred             HHHHHHCCCCCCCC---CCHHHHHHHHHHCCHHHHHHHHHHHHHC--CCCCCEEEEECCCCCCCHHHHCE--------EE
Q ss_conf             55443102221111---2103532205542400014567776630--34341676504433573025203--------69
Q gi|254780217|r  116 RRIRYFLSLTANTG---YWRVIMIDPVDGMNRNAANALLKSLEEP--PQKVLFILISHASPTILSTIRSR--------CL  182 (347)
Q Consensus       116 R~l~~~~~~~~~~~---~~Ki~IId~ad~ln~~AaNALLK~LEEP--p~~t~fiLit~~~~~il~TI~SR--------c~  182 (347)
                        +.+++...+..+   ..+=+|+|.-=+- .+.|-||=++|+|.  |-..+|-|--++++-|..=|.+|        .-
T Consensus        69 --v~~rl~~~~~~~~~~~~~GfILDGfPRT-~~QAeaL~~~l~~~g~~~d~V~~L~vp~~e~l~~R~~gR~~cp~cG~~Y  145 (232)
T TIGR01351        69 --VKERLQQNPDCVSLKSENGFILDGFPRT-LSQAEALDAMLKELGLPIDAVIELDVPDLEELVERITGRRICPSCGRVY  145 (232)
T ss_pred             --HHHHHHCCCCCEEEEECCCEEECCCCCC-HHHHHHHHHHHHHCCCCCCEEEEEECCCHHHHHHHHHCCCCCCCCCCEE
T ss_conf             --9999745600011010686266388887-8999999999986189841788853587999999773273306778556


Q ss_pred             EEECCCCCH
Q ss_conf             886479998
Q gi|254780217|r  183 SIKFNSLSE  191 (347)
Q Consensus       183 ~i~f~~l~~  191 (347)
                      ++.|.||-.
T Consensus       146 h~~f~pPk~  154 (232)
T TIGR01351       146 HIKFNPPKV  154 (232)
T ss_pred             EECCCCCCC
T ss_conf             102278867


No 400
>TIGR02868 CydC ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease/ATP-binding protein CydC; InterPro: IPR014223   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs.   ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain .    The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyze ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarize the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site , , .   The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).    This entry represents CydC, a member of a heterodimeric ATP-binding cassette-type transporter (ABC transporter). It is involved in the export of glutathione from the cytoplasm to the periplasm and is required for the assembly of both cytochrome c and cytochrome bd , , .; GO: 0042626 ATPase activity coupled to transmembrane movement of substances, 0006810 transport, 0016021 integral to membrane.
Probab=93.03  E-value=0.12  Score=32.90  Aligned_cols=130  Identities=18%  Similarity=0.187  Sum_probs=68.5

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCC-CCHHHHHHHCCCCCCEEEECCCCHH--HCCCCCCCC---
Q ss_conf             6311798988899999999998177998864312101267-8867999967898754530010001--013421232---
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP-CSPFVKQMASHALHDFLYLSYSLNP--KTGKWRTVI---  110 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~-~~~~~~~i~~~~hpd~~~i~~~~~~--k~~~~~~~I---  110 (347)
                      +-+.||.|+||+|++..+++.+=-  ..+....+....+. .....++.-...-.|-++++...-+  .-+  +..=   
T Consensus       390 ~Ai~G~SG~GKsTLL~~L~G~l~P--~~G~vtl~G~~~~~~~~~evrr~v~~~aQ~aHlF~ttvr~NLrla--rpdaaaG  465 (566)
T TIGR02868       390 VAILGPSGSGKSTLLATLAGLLDP--LQGEVTLDGVPVSSLSEDEVRRRVSVFAQDAHLFDTTVRENLRLA--RPDAAAG  465 (566)
T ss_pred             EEEECCCCCCHHHHHHHHHHHCCC--CCCCEEECCCCHHHCCCCHHEHHEEECCCCCCCCCCCHHHHHHHC--CCCCCCC
T ss_conf             898668876578999999840289--999178777324325731100000312788621105478788731--8888998


Q ss_pred             -CHHHHH-------------HHHHHCCC------CCCCC--------------CCHHHHHHH-HHHCCHHHHHHHHHHHH
Q ss_conf             -378875-------------54431022------21111--------------210353220-55424000145677766
Q gi|254780217|r  111 -TVDEIR-------------RIRYFLSL------TANTG--------------YWRVIMIDP-VDGMNRNAANALLKSLE  155 (347)
Q Consensus       111 -~vd~IR-------------~l~~~~~~------~~~~~--------------~~Ki~IId~-ad~ln~~AaNALLK~LE  155 (347)
                       +=||+.             +|-+-+..      +...|              +..|+|+|| .+.+-..+...||..|=
T Consensus       466 DtdeE~~~aL~~vgL~~~~~~LP~Gl~T~~ge~G~~lSGGeRqRLALARaLl~~ap~llLDEPTehLDa~t~~~ll~dL~  545 (566)
T TIGR02868       466 DTDEELLAALERVGLADWLRALPDGLDTVLGEGGARLSGGERQRLALARALLADAPILLLDEPTEHLDAETADELLEDLL  545 (566)
T ss_pred             CCHHHHHHHHHHHCCCCHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCEEEECCCCCCCCHHHHHHHHHHHH
T ss_conf             88899999999715802386385767853035643010489999999999737998898608866678767999999985


Q ss_pred             -HCCCCCC-----EEEEECCC
Q ss_conf             -3034341-----67650443
Q gi|254780217|r  156 -EPPQKVL-----FILISHAS  170 (347)
Q Consensus       156 -EPp~~t~-----fiLit~~~  170 (347)
                       .+-+...     -++|||++
T Consensus       546 t~a~~g~t~~~R~vvliTH~L  566 (566)
T TIGR02868       546 TAALSGRTESARAVVLITHHL  566 (566)
T ss_pred             CCCCCCCCCCCCEEEEEEECC
T ss_conf             055446558987489875069


No 401
>PRK08694 consensus
Probab=92.94  E-value=0.14  Score=32.37  Aligned_cols=44  Identities=18%  Similarity=0.178  Sum_probs=26.2

Q ss_pred             CHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             92999999999998288981663117989888999999999981
Q gi|254780217|r   16 GHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        16 G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      |-..-+..|.+....=+-.+-+++-|.||.||+++|+.+|..+-
T Consensus       200 Gi~TG~~~LD~~t~Gl~~G~LiVIaaRPsmGKTalalnia~~~a  243 (468)
T PRK08694        200 GVPTGFIDLDKKTSGLQPGDLIIVAGRPSMGKTAFSINIAEHVA  243 (468)
T ss_pred             CCCCCHHHHHHHHCCCCCCCEEEEEECCCCCHHHHHHHHHHHHH
T ss_conf             15579688987644888784799961786537899999999999


No 402
>pfam02367 UPF0079 Uncharacterized P-loop hydrolase UPF0079. This uncharacterized family contains a P-loop.
Probab=92.94  E-value=0.14  Score=32.48  Aligned_cols=38  Identities=29%  Similarity=0.322  Sum_probs=29.0

Q ss_pred             HHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             99999999828898166311798988899999999998177
Q gi|254780217|r   21 EKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQN   61 (347)
Q Consensus        21 ~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~   61 (347)
                      -+.|...+..|.   -+++.|+=|.|||+|++.+++.+-..
T Consensus         5 g~~ia~~l~~G~---vi~L~G~LGaGKTtfvr~i~~~lg~~   42 (123)
T pfam02367         5 GKRLAQLLKAGD---VVLLSGDLGAGKTTFVRGLAKGLGIT   42 (123)
T ss_pred             HHHHHHHCCCCC---EEEEECCCCCCHHHHHHHHHHHCCCC
T ss_conf             999997689997---99998887788999999999985998


No 403
>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR).  DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes.  Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.
Probab=92.94  E-value=0.25  Score=30.39  Aligned_cols=22  Identities=36%  Similarity=0.400  Sum_probs=18.6

Q ss_pred             EEEECCCCCCCHHHHHHHHHHH
Q ss_conf             6631179898889999999999
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAGH   57 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~~   57 (347)
                      -+.+.||+|.||+|+...++..
T Consensus        37 i~~ilGpnGaGKSTLl~~l~Gl   58 (194)
T cd03213          37 LTAIMGPSGAGKSTLLNALAGR   58 (194)
T ss_pred             EEEEECCCCCHHHHHHHHHHCC
T ss_conf             9999989995199999998577


No 404
>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=92.92  E-value=0.096  Score=33.69  Aligned_cols=146  Identities=17%  Similarity=0.215  Sum_probs=78.6

Q ss_pred             HHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCC---CCHHHCCCC--------------------
Q ss_conf             999999999982889816631179898889999999999817799886---431210126--------------------
Q gi|254780217|r   19 DIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSK---APVRMCNPD--------------------   75 (347)
Q Consensus        19 ~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~---~~~~~~~~~--------------------   75 (347)
                      ...+.+.=++..|   .++=+-||+|+||+|+|+.+...-.|..+.-.   ........+                    
T Consensus       344 ~~l~gi~F~~~aG---e~laIIGPSgSGKStLaR~~vG~W~~~~G~VRLDGadl~qWD~e~lG~~iGYLPQdvELF~GTv  420 (556)
T TIGR01842       344 PTLRGISFAIQAG---EALAIIGPSGSGKSTLARILVGIWPPASGSVRLDGADLKQWDRETLGKHIGYLPQDVELFSGTV  420 (556)
T ss_pred             HHHCCCCEEECCC---CEEEEECCCCCCHHHHHHHHHHCCCCCCCCEEEEHHHHHCCCHHHCCCCCCCCCCCCCCCCCCH
T ss_conf             4227862156377---4588874786525889878872101356533640334402375365880154798505076767


Q ss_pred             ------------CCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCC-CCCCCCCHHHHHHHHH-H
Q ss_conf             ------------7886799996789875453001000101342123237887554431022-2111121035322055-4
Q gi|254780217|r   76 ------------PCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSL-TANTGYWRVIMIDPVD-G  141 (347)
Q Consensus        76 ------------~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~-~~~~~~~Ki~IId~ad-~  141 (347)
                                  +..=..-.-.+|.|.=+.-++.-+|...|..+...|=-|    ..++.+ +++.|.=+++|+||.+ +
T Consensus       421 a~NIARF~en~d~~~iieAAklAGvHElIl~lP~GYDT~iG~~G~~LSGGQ----RQRIaLARAlyG~P~lvvLDEPNsN  496 (556)
T TIGR01842       421 AENIARFGENADPEKIIEAAKLAGVHELILRLPDGYDTDIGEGGATLSGGQ----RQRIALARALYGDPKLVVLDEPNSN  496 (556)
T ss_pred             HHHCCCCCCCCCHHHHHHHHHHHCHHHHHHCCCCCCCCCCCCCCCCCCCHH----HHHHHHHHHHHCCCEEEEECCCCCC
T ss_conf             640244688788789999997603035751696885443137777786146----8999999987179837873288987


Q ss_pred             CCHHHHHHHHHHHHHCC-CCCCEEEEECCCC
Q ss_conf             24000145677766303-4341676504433
Q gi|254780217|r  142 MNRNAANALLKSLEEPP-QKVLFILISHASP  171 (347)
Q Consensus       142 ln~~AaNALLK~LEEPp-~~t~fiLit~~~~  171 (347)
                      |-.+.--||.+=|-+-- .+..-++|||.|.
T Consensus       497 LD~~GE~AL~~Ai~~lK~rg~tvv~itHRp~  527 (556)
T TIGR01842       497 LDEEGEQALANAIKALKARGITVVVITHRPS  527 (556)
T ss_pred             CCHHHHHHHHHHHHHHHHCCCEEEEEECHHH
T ss_conf             6617899999999999867972899841068


No 405
>PRK03731 aroL shikimate kinase II; Reviewed
Probab=92.89  E-value=0.11  Score=33.26  Aligned_cols=27  Identities=30%  Similarity=0.482  Sum_probs=23.2

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             816631179898889999999999817
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      ...+.+.|.+|+||+|.++.+|+.+-.
T Consensus         2 ~~~I~LiG~mGsGKstiGk~LA~~L~~   28 (172)
T PRK03731          2 TQPLFLVGPRGCGKTTVGMALAQALGY   28 (172)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             998899889999889999999998599


No 406
>COG1674 FtsK DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]
Probab=92.89  E-value=0.21  Score=31.04  Aligned_cols=164  Identities=17%  Similarity=0.161  Sum_probs=84.5

Q ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHH--CCC--
Q ss_conf             2889816631179898889999999999817799886431210126788679999678987545300100010--134--
Q gi|254780217|r   30 SGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPK--TGK--  105 (347)
Q Consensus        30 ~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k--~~~--  105 (347)
                      ..+.|| +|..|-+|.||++....+..+++-...+..  |...-.|+..-.......-.|---.++.   +++  ..+  
T Consensus       527 lak~~h-lli~G~tgsGKSv~lnt~i~Sll~~~~P~e--v~~~~iD~k~~~L~~~~~iPHl~~~v~t---d~~~k~~~al  600 (858)
T COG1674         527 LAKAGH-LLIAGATGSGKSVALNTMILSLLYTHSPEE--VRFYIIDPKMLELAAYDGLPHLGDPVVT---DEKEKAEKAL  600 (858)
T ss_pred             CCCCCC-EEEECCCCCCHHHHHHHHHHHHHHCCCCHH--EEEEEECCCCCCCHHHCCCCCCCCCCCC---CCHHHHHHHH
T ss_conf             356888-788248886515589999999875189068--4999974787543333069855772324---7477899999


Q ss_pred             --------CC-CCCCHHHHHHHHHHCCCC----C-CCCCCHHHHHHHHHHCCHHHHH----HHHHHH-HHCCCCCCEEEE
Q ss_conf             --------21-232378875544310222----1-1112103532205542400014----567776-630343416765
Q gi|254780217|r  106 --------WR-TVITVDEIRRIRYFLSLT----A-NTGYWRVIMIDPVDGMNRNAAN----ALLKSL-EEPPQKVLFILI  166 (347)
Q Consensus       106 --------~~-~~I~vd~IR~l~~~~~~~----~-~~~~~Ki~IId~ad~ln~~AaN----ALLK~L-EEPp~~t~fiLi  166 (347)
                              .+ +.-+-..||.+..+=.+.    + ..=++-|+|||+...|-..+..    ++-++. +-.-.....||.
T Consensus       601 ~~~~~eme~R~~l~~~~~vr~i~~yn~k~~~~~~~~~lP~iviiiDe~adlm~~~~k~ve~~i~rLa~~ara~GIHlila  680 (858)
T COG1674         601 AELVAEMERRYKLFSEKGVRNIEGYNEKIAGAIPDEELPYIVIIIDEYADLMMVAGKELEELIARLAQKGRAAGIHLILA  680 (858)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCCCCCEEEEECCHHHHHCCCCHHHHHHHHHHHHHHHHCCCEEEEE
T ss_conf             99999999999988885666277776542024555679808999444788861231769999999999787658269997


Q ss_pred             ECCCCC-CCHHHHCEE-EEEECCCCCHHHHHHHHH
Q ss_conf             044335-730252036-988647999899999999
Q gi|254780217|r  167 SHASPT-ILSTIRSRC-LSIKFNSLSENNLYKALE  199 (347)
Q Consensus       167 t~~~~~-il~TI~SRc-~~i~f~~l~~~~~~~~L~  199 (347)
                      |..|+. +.+.|+..- .++.|.--+..+.+-++.
T Consensus       681 tqRps~dVit~ikan~psrIaf~v~s~~dsr~il~  715 (858)
T COG1674         681 TQRPSVDVITGIKANIPTRIALRLSSKIDSRLILG  715 (858)
T ss_pred             CCCCCCCHHHHHHHCCCCCEEEEECCCCCEEEEEC
T ss_conf             48999504088885387525665168765256624


No 407
>PRK06851 hypothetical protein; Provisional
Probab=92.84  E-value=0.24  Score=30.49  Aligned_cols=161  Identities=17%  Similarity=0.203  Sum_probs=86.7

Q ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHH-------HHHCCCCCCEE----------
Q ss_conf             8898166311798988899999999998177998864312101267886799-------99678987545----------
Q gi|254780217|r   31 GRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVK-------QMASHALHDFL----------   93 (347)
Q Consensus        31 ~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~-------~i~~~~hpd~~----------   93 (347)
                      +.+-.-+++-|.||+||+++-..++...+...  -...+..|++|+.+-+--       .+..|+-|.++          
T Consensus        28 ~~~~ri~ilKGGpGtGKStlmK~ig~~~~~~G--ydVE~~hcssD~~SlDGvvip~lk~aivDGTaPHvvdP~~PGavee  105 (368)
T PRK06851         28 GDANRIFILKGGPGTGKSTLMKKIGEEFLEKG--YDVEFLHCSSDNDSLDGVIIPELKIAILDGTAPHVVDPKAPGAVEE  105 (368)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHCC--CCEEEEECCCCCCCCCEEEECCCCEEEECCCCCCCCCCCCCCCEEE
T ss_conf             65127999968999778999999999999689--8379997589988643599757877997488876658999984347


Q ss_pred             --EECCCCHHHCCCCCCCCCHHHHHHHHHHCCC------------CCCCCCCHHHHHHHHHHCCHHHHH--------HHH
Q ss_conf             --3001000101342123237887554431022------------211112103532205542400014--------567
Q gi|254780217|r   94 --YLSYSLNPKTGKWRTVITVDEIRRIRYFLSL------------TANTGYWRVIMIDPVDGMNRNAAN--------ALL  151 (347)
Q Consensus        94 --~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~------------~~~~~~~Ki~IId~ad~ln~~AaN--------ALL  151 (347)
                        -+.-.||+..-+.    ..++|-.+.+....            .+....|.-+.+   +.|+.+.+|        .|+
T Consensus       106 iInLg~~~d~~~L~~----~k~eI~~~~~~i~~~~~rAY~~l~~A~~i~ddwe~~~~---~~md~~k~n~~~~~l~~~lf  178 (368)
T PRK06851        106 IINLGDYWDEDKLRK----HKEEIIKINEEISRCFQRAYAYLNEALAIHDEWEKIYI---EAMDFEKANELTDELIQELF  178 (368)
T ss_pred             EEEHHHHHCHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHCCHHHHHHHHHHHHHHHH
T ss_conf             977789718676788----79999999999999999999999999999999999999---84799999999999999985


Q ss_pred             HH---HHHCCCCCCEEEEECCCCCC---CHHHHCEEEEEEC----CCCCHHHHHHHHHH
Q ss_conf             77---66303434167650443357---3025203698864----79998999999997
Q gi|254780217|r  152 KS---LEEPPQKVLFILISHASPTI---LSTIRSRCLSIKF----NSLSENNLYKALEQ  200 (347)
Q Consensus       152 K~---LEEPp~~t~fiLit~~~~~i---l~TI~SRc~~i~f----~~l~~~~~~~~L~~  200 (347)
                      +-   -|+|+.-...++.+-.|..+   .+||..=|.++.|    ..-..+.+.+.+-+
T Consensus       179 ~~~~~~~~~g~~rhlF~~A~TP~G~v~~i~~l~~~~~~~y~ikG~pGtGKstlL~~i~~  237 (368)
T PRK06851        179 KGAPSKDSKGKVRHLFLGAITPKGAVDHVPSLTEGVKNRYFLKGRPGTGKSTMLKKVAK  237 (368)
T ss_pred             CCCCCCCCCCCEEEEECCCCCCCCHHHHHHHHHHCCCEEEEECCCCCCCHHHHHHHHHH
T ss_conf             45633477741011322357999645147878606786999818999877999999999


No 408
>cd04155 Arl3 Arl3 subfamily.  Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension.  In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form.  The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector.  Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2).  It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery.  In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.
Probab=92.84  E-value=0.38  Score=28.92  Aligned_cols=136  Identities=18%  Similarity=0.185  Sum_probs=65.6

Q ss_pred             HHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHH
Q ss_conf             99999982889816631179898889999999999817799886431210126788679999678987545300100010
Q gi|254780217|r   23 FLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPK  102 (347)
Q Consensus        23 ~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k  102 (347)
                      -|.+.-.+.+-+- +++.|++|+||+++..++...-.    ....|.-...          +..-...++- +. -||-.
T Consensus         4 ~~~~~k~~~~~~K-i~ilG~~~sGKTsll~~l~~~~~----~~~~pT~g~~----------~~~v~~~~~~-~~-lwD~~   66 (173)
T cd04155           4 LLRKLRKSSEEPR-ILILGLDNAGKTTILKQLASEDI----SHITPTQGFN----------IKTVQSDGFK-LN-VWDIG   66 (173)
T ss_pred             HHHHHHCCCCCCE-EEEECCCCCCHHHHHHHHHCCCC----CCCCCCCCEE----------EEEEEECCEE-EE-EEECC
T ss_conf             8877655687758-99997999988999999856998----6606811323----------7999989999-99-98558


Q ss_pred             CCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-HHHHHHHHHHHHCC-CCCCEEEEECCCCCCCHHHHCE
Q ss_conf             134212323788755443102221111210353220554240-00145677766303-4341676504433573025203
Q gi|254780217|r  103 TGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR-NAANALLKSLEEPP-QKVLFILISHASPTILSTIRSR  180 (347)
Q Consensus       103 ~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-~AaNALLK~LEEPp-~~t~fiLit~~~~~il~TI~SR  180 (347)
                      +        -+..|.+....... .  .-=|+++|..|.-+. ++..-+-+.|.++. ++..++++.|..+ ++      
T Consensus        67 G--------~~~~~~~~~~y~~~-a--~~iI~VvD~td~~~~~~~~~~l~~~l~~~~~~~~PiLiv~NK~D-l~------  128 (173)
T cd04155          67 G--------QRAIRPYWRNYFEN-T--DCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQD-LA------  128 (173)
T ss_pred             C--------CHHHHHHHHHHCCC-C--CEEEEEEECCCHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECCC-CC------
T ss_conf             7--------51012689976555-6--37999996675688999999999997413006983899997666-77------


Q ss_pred             EEEEECCCCCHHHHHHHHH
Q ss_conf             6988647999899999999
Q gi|254780217|r  181 CLSIKFNSLSENNLYKALE  199 (347)
Q Consensus       181 c~~i~f~~l~~~~~~~~L~  199 (347)
                            ...+.+++.+.+.
T Consensus       129 ------~a~~~~eI~~~l~  141 (173)
T cd04155         129 ------TAAPAEEIAEALN  141 (173)
T ss_pred             ------CCCCHHHHHHHHC
T ss_conf             ------7899999999858


No 409
>cd03285 ABC_MSH2_euk MutS2 homolog in eukaryotes.  The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch.  Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily.  MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined.  Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes.  The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis.  All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action.  MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c
Probab=92.84  E-value=0.32  Score=29.49  Aligned_cols=134  Identities=14%  Similarity=0.064  Sum_probs=63.5

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHH
Q ss_conf             81663117989888999999999981779988643121012678867999967898754530010001013421232378
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVD  113 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd  113 (347)
                      ++.++++||...||+++-+.++-.++-..-....||..+....             .|-++......+ .-....+--.-
T Consensus        30 ~~i~iiTGpN~sGKSt~lk~i~l~~~laq~G~~vpa~~~~~~~-------------~d~i~t~i~~~d-~~~~~~StF~~   95 (222)
T cd03285          30 SRFLIITGPNMGGKSTYIRQIGVIVLMAQIGCFVPCDSADIPI-------------VDCILARVGASD-SQLKGVSTFMA   95 (222)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEEEEC-------------CCEEEEEECCCC-CCCCCHHHHHH
T ss_conf             2599998999887189999999999999868754632389952-------------764999988997-10033528999


Q ss_pred             HHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-----HHHHHHHHHH-HHCCCCCCEEEEECCCCC-CCHHHHCEEEEEEC
Q ss_conf             8755443102221111210353220554240-----0014567776-630343416765044335-73025203698864
Q gi|254780217|r  114 EIRRIRYFLSLTANTGYWRVIMIDPVDGMNR-----NAANALLKSL-EEPPQKVLFILISHASPT-ILSTIRSRCLSIKF  186 (347)
Q Consensus       114 ~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-----~AaNALLK~L-EEPp~~t~fiLit~~~~~-il~TI~SRc~~i~f  186 (347)
                      +++++..-+...   .++-.++|||.-+=|.     +.+-|+|..| +.  .++..+++||..+- -+..-..+++.++|
T Consensus        96 e~~~~~~il~~~---~~~sLvliDElg~GT~~~eg~aia~aile~L~~~--~~~~~i~tTH~~~L~~l~~~~~~v~~~~~  170 (222)
T cd03285          96 EMLETAAILKSA---TENSLIIIDELGRGTSTYDGFGLAWAIAEYIATQ--IKCFCLFATHFHELTALADEVPNVKNLHV  170 (222)
T ss_pred             HHHHHHHHHHHC---CCCCEECCCCCCCCCCHHHHHHHHHHHHHHHHHC--CCCEEEEEEECHHHHHHHHCCCCCEEEEE
T ss_conf             999999999847---6773200023468988226799999999999850--68509998200779998640855135789


No 410
>PRK09270 frcK putative fructose transport system kinase; Reviewed
Probab=92.77  E-value=0.096  Score=33.71  Aligned_cols=27  Identities=26%  Similarity=0.268  Sum_probs=22.4

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             166311798988899999999998177
Q gi|254780217|r   35 HALLFEGEQGIGKATLGFRYAGHVLQN   61 (347)
Q Consensus        35 ha~Lf~Gp~GiGK~~~A~~~A~~llc~   61 (347)
                      .-+=+.||||+||+|+|..+++.|...
T Consensus        35 ~lIgIaG~pGSGKSTlA~~l~~~L~~~   61 (230)
T PRK09270         35 TVVGIAGPPGAGKSTLAETLWEALSQQ   61 (230)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf             899998999889999999999998623


No 411
>PRK00131 aroK shikimate kinase; Reviewed
Probab=92.75  E-value=0.11  Score=33.19  Aligned_cols=24  Identities=29%  Similarity=0.394  Sum_probs=21.7

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             631179898889999999999817
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      +.|.|++|+||+|.++.+|+.+-.
T Consensus         7 I~liG~~GsGKTtvgk~LA~~L~~   30 (175)
T PRK00131          7 IVLIGMMGAGKSTIGRLLAKRLGY   30 (175)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             898889999989999999999596


No 412
>TIGR00750 lao LAO/AO transport system ATPase; InterPro: IPR005129   Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components. In Escherichia coli K-12, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK  resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase..
Probab=92.67  E-value=0.32  Score=29.52  Aligned_cols=41  Identities=22%  Similarity=0.266  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHHC-CCCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             999999999982-889816631179898889999999999817
Q gi|254780217|r   19 DIEKFLSQYYCS-GRMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        19 ~~~~~L~~~~~~-~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      .+.+.|.+.+.. || .|-+=|+|+||+||+|+.-+|...+--
T Consensus        23 ~a~~ll~~i~p~~Gn-A~~vG~TG~PGaGKSTl~~~l~~~lrR   64 (333)
T TIGR00750        23 LAKELLERILPKTGN-AHVVGITGVPGAGKSTLVEKLIMELRR   64 (333)
T ss_pred             HHHHHHHHHHHHCCC-CEEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             999999986243279-078766468888577799999899976


No 413
>PRK13235 nifH nitrogenase reductase; Reviewed
Probab=92.67  E-value=0.33  Score=29.34  Aligned_cols=30  Identities=17%  Similarity=0.096  Sum_probs=24.6

Q ss_pred             CCHHHHHHHHHHCCHHHHHHHHHHHHHCCC
Q ss_conf             210353220554240001456777663034
Q gi|254780217|r  130 YWRVIMIDPVDGMNRNAANALLKSLEEPPQ  159 (347)
Q Consensus       130 ~~Ki~IId~ad~ln~~AaNALLK~LEEPp~  159 (347)
                      ..+|+|+-+.|.|...|+|-++|.+.+-.+
T Consensus       143 A~eV~IVts~E~~AL~aannI~k~i~~~~~  172 (274)
T PRK13235        143 AEEIYIVCSGEMMAMYAANNICKGILKYAD  172 (274)
T ss_pred             CCEEEEEECCCHHHHHHHHHHHHHHHHHHH
T ss_conf             878999916836899999999999999974


No 414
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=92.66  E-value=0.056  Score=35.56  Aligned_cols=150  Identities=16%  Similarity=0.134  Sum_probs=69.0

Q ss_pred             HHHHHHHHHHHHHCCCCC----------EEEEECCCCCCCHHHHHHHHH-HHHHCCCCCCCCCHHHCCCCCCCHHHHHHH
Q ss_conf             299999999999828898----------166311798988899999999-998177998864312101267886799996
Q gi|254780217|r   17 HEDIEKFLSQYYCSGRMH----------HALLFEGEQGIGKATLGFRYA-GHVLQNPDFSKAPVRMCNPDPCSPFVKQMA   85 (347)
Q Consensus        17 ~~~~~~~L~~~~~~~~l~----------ha~Lf~Gp~GiGK~~~A~~~A-~~llc~~~~~~~~~~~~~~~~~~~~~~~i~   85 (347)
                      -+..|..+...+.. ++|          -.+-|.||-|+||||+.-.+| ++.+.+...   ..+..+-|.+     +| 
T Consensus       322 ~~~a~~~ll~~La~-~Lpv~~~d~~~~gGv~AlvGpTGvGKTTT~aKlAa~~~~~~g~~---~valit~Dty-----Ri-  391 (557)
T PRK12727        322 LHRGRGLMLGLLSK-RLPVAPVDPLERGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPR---DVALVTTDTQ-----RV-  391 (557)
T ss_pred             HHHHHHHHHHHHHH-HCCCCCCCHHHCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCC---EEEEEECCCC-----CH-
T ss_conf             88999999999996-28777775154076478743777673117999999999973998---1899972664-----08-


Q ss_pred             CCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHH-HHHHHHHHHHH-CCCCCCE
Q ss_conf             789875453001000101342123237887554431022211112103532205542400-01456777663-0343416
Q gi|254780217|r   86 SHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRN-AANALLKSLEE-PPQKVLF  163 (347)
Q Consensus        86 ~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~-AaNALLK~LEE-Pp~~t~f  163 (347)
                       |.|--+..+.+..+   -...-.-.-++.+.+...      ...+++|+||-+-.=..+ ....-|+.|.. +.-.+++
T Consensus       392 -ga~eQL~~y~~ilg---vpv~~~~~~~~l~~~l~~------l~~~~lvliDTaG~~~rd~~~~~~~~~l~~~~~~~~~L  461 (557)
T PRK12727        392 -GGREQLHSYGRQLG---IAVHEADSAESLLDLLER------LRDYKLVLIDTAGMGQRDRALAAQLNWLRAARQVTSLL  461 (557)
T ss_pred             -HHHHHHHHHHHHHC---CEEEEECCHHHHHHHHHH------HCCCCEEEEECCCCCCCCHHHHHHHHHHHCCCCCCEEE
T ss_conf             -79999999999839---757982899999999998------36999899949998846999999999875147763599


Q ss_pred             EEEECCCCCCCHHHHCEEEEEEC
Q ss_conf             76504433573025203698864
Q gi|254780217|r  164 ILISHASPTILSTIRSRCLSIKF  186 (347)
Q Consensus       164 iLit~~~~~il~TI~SRc~~i~f  186 (347)
                      +|.++.....+..|..+-..+.+
T Consensus       462 vl~a~~~~~~l~~~~~~~~~~~~  484 (557)
T PRK12727        462 VLPANAHFSDLDEVVRRFAHAKP  484 (557)
T ss_pred             EEECCCCHHHHHHHHHHHCCCCC
T ss_conf             99688998999999998537998


No 415
>PRK07773 replicative DNA helicase; Validated
Probab=92.66  E-value=0.16  Score=31.81  Aligned_cols=106  Identities=15%  Similarity=0.193  Sum_probs=56.5

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCC--CHHHHHHHCCCCCCEEEECCC------CHH---H
Q ss_conf             81663117989888999999999981779988643121012678--867999967898754530010------001---0
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPC--SPFVKQMASHALHDFLYLSYS------LNP---K  102 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~--~~~~~~i~~~~hpd~~~i~~~------~~~---k  102 (347)
                      .+-+++-|.||.||+++|+.+|+.+-...+   .|...++-+..  .-..|.+.+.+.-|..-+...      |..   .
T Consensus       203 ~~l~i~a~rp~~GKt~~~~~~a~~~a~~~~---~~v~~FSLEMs~~ql~~Rlls~~~~i~~~~lr~G~l~~~~~~~~~~a  279 (868)
T PRK07773        203 GQMIIVAARPGVGKSTLGLDFARSCSIRHR---LASVIFSLEMSKEEIVMRLLSAEAKIKLSDMRSGRMSDDDWTRLARR  279 (868)
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHHHHHHCC---CCEEEEEECCCHHHHHHHHHHHHCCCCHHHHHCCCCCHHHHHHHHHH
T ss_conf             767999828977777899999999998659---96589730567889999999876078776641688898999999999


Q ss_pred             C---------CCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHH
Q ss_conf             1---------342123237887554431022211112103532205542400
Q gi|254780217|r  103 T---------GKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRN  145 (347)
Q Consensus       103 ~---------~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~  145 (347)
                      .         --+...|+|.+||.-.+++.   ..++-.++|||....|+..
T Consensus       280 ~~~l~~~pl~IdDtp~isi~eirakaRrlk---~~~~l~lIvvDYLQLm~~~  328 (868)
T PRK07773        280 MSEISEAPLFIDDSPNLTMMEIRSKARRLQ---QKANLKLIVVDYLQLMTSG  328 (868)
T ss_pred             HHHHHHCCEEEECCCCCCHHHHHHHHHHHH---HCCCCCEEEEECHHHCCCC
T ss_conf             999861988884799999999999999986---5269988999615524789


No 416
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=92.63  E-value=0.12  Score=32.93  Aligned_cols=23  Identities=22%  Similarity=0.494  Sum_probs=20.7

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             63117989888999999999981
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      ++++|-||+||+|+|..+++.+-
T Consensus         2 ivl~GlP~SGKSt~a~~L~~~l~   24 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELSKKLS   24 (249)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
T ss_conf             78967899989999999999999


No 417
>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]
Probab=92.60  E-value=0.36  Score=29.12  Aligned_cols=114  Identities=18%  Similarity=0.242  Sum_probs=58.3

Q ss_pred             CCHHHHHHHHHHHH---HCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHH-CCCCC
Q ss_conf             09299999999999---828898166311798988899999999998177998864312101267886799996-78987
Q gi|254780217|r   15 FGHEDIEKFLSQYY---CSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMA-SHALH   90 (347)
Q Consensus        15 ~G~~~~~~~L~~~~---~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~-~~~hp   90 (347)
                      .|.+...+.+.+-.   ...++|  .++.|.+|+||..+|++|-+    ... ..+|....+       |-.|- ....-
T Consensus       316 ~~~d~s~a~l~rk~~rv~~~~~p--vll~GEtGtGKe~laraiH~----~s~-~~gpfvAvN-------CaAip~~lies  381 (606)
T COG3284         316 PLLDPSRATLLRKAERVAATDLP--VLLQGETGTGKEVLARAIHQ----NSE-AAGPFVAVN-------CAAIPEALIES  381 (606)
T ss_pred             CCCCHHHHHHHHHHHHHHHCCCC--EEECCCCCHHHHHHHHHHHH----CCC-CCCCEEEEE-------ECCCHHHHHHH
T ss_conf             45578899999999887624787--68538765568999999985----365-569837998-------50344776467


Q ss_pred             CEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf             545300100010134212323788755443102221111210353220554240001456777663
Q gi|254780217|r   91 DFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEE  156 (347)
Q Consensus        91 d~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEE  156 (347)
                      -++  .+.....++..++        ..+.    ......-...++|++.+|-.+.|-+||..|+|
T Consensus       382 ELF--Gy~~GafTga~~k--------G~~g----~~~~A~gGtlFldeIgd~p~~~Qs~LLrVl~e  433 (606)
T COG3284         382 ELF--GYVAGAFTGARRK--------GYKG----KLEQADGGTLFLDEIGDMPLALQSRLLRVLQE  433 (606)
T ss_pred             HHH--CCCCCCCCCCHHC--------CCCC----CCEECCCCCCHHHHHHHCHHHHHHHHHHHHHH
T ss_conf             774--4576564330010--------6655----41015787608987611418999999999861


No 418
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=92.59  E-value=0.094  Score=33.77  Aligned_cols=20  Identities=25%  Similarity=0.406  Sum_probs=18.2

Q ss_pred             EEECCCCCCCHHHHHHHHHH
Q ss_conf             63117989888999999999
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAG   56 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~   56 (347)
                      ++++|.||+||+|++..++.
T Consensus         3 I~ITGTPGvGKTT~~~~L~~   22 (180)
T COG1936           3 IAITGTPGVGKTTVCKLLRE   22 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             79937999866879999998


No 419
>TIGR02982 heterocyst_DevA ABC exporter ATP-binding subunit, DevA family; InterPro: IPR014324   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs.   ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain .    The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyze ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarize the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site , , .   The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).    This entry represents the ATP-binding subunit DevA, found mostly in the Cyanobacteria, but also in the Planctomycetes. Cyanobacterial examples are involved in heterocyst formation, by which some fraction of members of the colony undergo a developmental change and become capable of nitrogen fixation. The ABC transporter encoded by the devBCA operon is induced by nitrogen deficiency and is necessary for the formation of the laminated layer which envelops heterocysts , . It is thought to be involved in the export of either the heterocyst-specific glycolipids found in the laminated layer, or an enzyme essential for their formation..
Probab=92.54  E-value=0.065  Score=35.07  Aligned_cols=46  Identities=17%  Similarity=0.169  Sum_probs=26.3

Q ss_pred             CHHHHCCHHHHHHHHHHHHHCC-CCCEEEEECCCCCCCHHHHHHHHH
Q ss_conf             5656109299999999999828-898166311798988899999999
Q gi|254780217|r   10 YNQRLFGHEDIEKFLSQYYCSG-RMHHALLFEGEQGIGKATLGFRYA   55 (347)
Q Consensus        10 ~~~~i~G~~~~~~~L~~~~~~~-~l~ha~Lf~Gp~GiGK~~~A~~~A   55 (347)
                      +.+..+|+....++...-++-. .-.=-.|++||+|+||||+=--+.
T Consensus         6 ~LnHyyG~G~~rkQvL~di~L~i~~GEiViltGPSGSGKTTLLtLiG   52 (220)
T TIGR02982         6 NLNHYYGEGSLRKQVLFDINLEINPGEIVILTGPSGSGKTTLLTLIG   52 (220)
T ss_pred             CCCCEECCCCCCCEEECCCCEEECCCEEEEEECCCCCCHHHHHHHHH
T ss_conf             34411146874210012763177176479843788984688999887


No 420
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=92.53  E-value=0.21  Score=31.02  Aligned_cols=137  Identities=15%  Similarity=0.100  Sum_probs=71.9

Q ss_pred             HHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHH-----CCCCC-
Q ss_conf             299999999999828898166311798988899999999998177998864312101267886799996-----78987-
Q gi|254780217|r   17 HEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMA-----SHALH-   90 (347)
Q Consensus        17 ~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~-----~~~hp-   90 (347)
                      |+++.+.+.+.+.+   +..-++.-|.|.|||.+|...++.+.-.       +  ....+....+.+..     ....+ 
T Consensus        41 Q~~al~a~~~~~~~---~~~gvivlpTGaGKT~va~~~~~~~~~~-------~--Lvlv~~~~L~~Qw~~~~~~~~~~~~  108 (442)
T COG1061          41 QEEALDALVKNRRT---ERRGVIVLPTGAGKTVVAAEAIAELKRS-------T--LVLVPTKELLDQWAEALKKFLLLND  108 (442)
T ss_pred             HHHHHHHHHHHCCC---CCCEEEEECCCCCHHHHHHHHHHHHCCC-------E--EEEECCHHHHHHHHHHHHHHCCCCC
T ss_conf             99999999962225---7867999679998899999999982698-------8--9997829999999999997348867


Q ss_pred             CEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCC-CCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECC
Q ss_conf             545300100010134212323788755443102221111-2103532205542400014567776630343416765044
Q gi|254780217|r   91 DFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTG-YWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHA  169 (347)
Q Consensus        91 d~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~-~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~  169 (347)
                      +.-.+..  +.+.-.. ..|.|-.+--+...-.+..+.+ .+-.+|+|+||.+.......++..+..|-.  ++=|+++-
T Consensus       109 ~~g~~~~--~~~~~~~-~~i~vat~qtl~~~~~l~~~~~~~~~liI~DE~Hh~~a~~~~~~~~~~~~~~~--~LGLTATp  183 (442)
T COG1061         109 EIGIYGG--GEKELEP-AKVTVATVQTLARRQLLDEFLGNEFGLIIFDEVHHLPAPSYRRILELLSAAYP--RLGLTATP  183 (442)
T ss_pred             CCCEECC--CCCCCCC-CCEEEEEEHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCE--EEEEECCC
T ss_conf             6603368--7233577-74899983897641555540356667599975245784779999997510310--46771487


Q ss_pred             C
Q ss_conf             3
Q gi|254780217|r  170 S  170 (347)
Q Consensus       170 ~  170 (347)
                      +
T Consensus       184 ~  184 (442)
T COG1061         184 E  184 (442)
T ss_pred             C
T ss_conf             2


No 421
>TIGR02857 CydD ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease/ATP-binding protein CydD; InterPro: IPR014216   The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain and a C-terminal ATP-binding domain. In Escherichia coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in the export of redox-active thiol compounds such as cysteine and glutathione , . The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components.    The genes used as the seed members for this entry are all either found in the gammaproteobacterial context, or the CydABCD context. All members of this entry scoring above the trusted cut off at the time of its creation were from genomes which encode a cytochrome bd complex. Unfortunately, the gene symbol nomenclature, based on this operon in Bacillus subtilis, assigns cydC to the third gene in the operon, where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologues in this family in accordance with the precedence of publication of the E. coli name, CydD..
Probab=92.50  E-value=0.19  Score=31.23  Aligned_cols=143  Identities=16%  Similarity=0.168  Sum_probs=87.5

Q ss_pred             HHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCC---C------CCCCHHHCCCC-CCCHHHHHHHCCCCCCEE
Q ss_conf             9999982889816631179898889999999999817799---8------86431210126-788679999678987545
Q gi|254780217|r   24 LSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPD---F------SKAPVRMCNPD-PCSPFVKQMASHALHDFL   93 (347)
Q Consensus        24 L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~---~------~~~~~~~~~~~-~~~~~~~~i~~~~hpd~~   93 (347)
                      +.=.++.|+.   .-+.||+|.||+|+-..++..+--..+   -      ++.|......+ .-.+.+-  .-+.||-++
T Consensus       371 ~sf~~~pG~~---vAl~G~SGaGKSTLL~lLLGf~~P~~G~i~v~~~Gg~~G~~L~~~~~~W~W~~~ia--Wv~Q~P~l~  445 (570)
T TIGR02857       371 VSFTVEPGER---VALVGPSGAGKSTLLNLLLGFVEPTEGAIVVERDGGINGVPLAEADADWSWRDQIA--WVPQHPFLF  445 (570)
T ss_pred             CCEEECCCCE---EEEEECCCCCHHHHHHHHHCCCCCCCCEEEEECCCCCCCCCCCCCCHHHHHHHCEE--EECCCCCCC
T ss_conf             5416638704---88862799978899999971576446468874488853976421131022554134--305666013


Q ss_pred             EECC----------------------------------CCHHHCCCCCCCCCHHHHHHH-HHHCCCCCCCCCCHHHHHHH
Q ss_conf             3001----------------------------------000101342123237887554-43102221111210353220
Q gi|254780217|r   94 YLSY----------------------------------SLNPKTGKWRTVITVDEIRRI-RYFLSLTANTGYWRVIMIDP  138 (347)
Q Consensus        94 ~i~~----------------------------------~~~~k~~~~~~~I~vd~IR~l-~~~~~~~~~~~~~Ki~IId~  138 (347)
                      .=+-                                  -++.+-|..+.-.|.-|-+.+ .-+.-+++... ..|+++||
T Consensus       446 ~gtiaeNi~La~~~A~~~~~~~A~~~agl~~~~~~LP~Gl~t~~Ge~G~GLSGGq~QRlALARafl~~~~a-~~llLLDE  524 (570)
T TIGR02857       446 AGTIAENIRLARPDASDAEIREALERAGLDEFVAALPQGLDTPIGEGGAGLSGGQAQRLALARAFLRDATA-APLLLLDE  524 (570)
T ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCHHHC-CCCEEEEC
T ss_conf             64799999734899998999999999728999997111313435888884779999999999996061111-76035407


Q ss_pred             HH-HCCHHHHHHHHHHHHHCC-CCCCEEEEECCCCC
Q ss_conf             55-424000145677766303-43416765044335
Q gi|254780217|r  139 VD-GMNRNAANALLKSLEEPP-QKVLFILISHASPT  172 (347)
Q Consensus       139 ad-~ln~~AaNALLK~LEEPp-~~t~fiLit~~~~~  172 (347)
                      .= .+-.++.+.+.+.+++-- ++-.-+++||++.-
T Consensus       525 PTAhLD~~tEa~v~~~~~~l~A~grtvl~v~Hr~~~  560 (570)
T TIGR02857       525 PTAHLDAETEAEVLEALRALAAQGRTVLLVTHRLAL  560 (570)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHCCCEEEEEECCHHH
T ss_conf             764321899999999999997379889999766899


No 422
>smart00242 MYSc Myosin. Large ATPases. ATPase; molecular motor. Muscle contraction consists of a cyclical interaction between myosin and actin. The core of the myosin structure is similar in fold to that of kinesin.
Probab=92.50  E-value=0.36  Score=29.12  Aligned_cols=56  Identities=13%  Similarity=0.084  Sum_probs=36.1

Q ss_pred             CCCCCCHHHHCCHHHHHHH--HHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             5558756561092999999--99999828898166311798988899999999998177
Q gi|254780217|r    5 AFDPVYNQRLFGHEDIEKF--LSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQN   61 (347)
Q Consensus         5 ~~~p~~~~~i~G~~~~~~~--L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~   61 (347)
                      +|+-+.-.+.--|--++..  ...... .+-+++++++|..|.|||..+..+.++|...
T Consensus        62 ~y~~~~~~~~~PHiyaiA~~Ay~~m~~-~~~~QsIiisGESGaGKTes~K~il~yL~~~  119 (677)
T smart00242       62 KYRGKSRGELPPHVFAIADNAYRNMLN-DKENQSIIISGESGAGKTENTKKIMQYLAAV  119 (677)
T ss_pred             HHCCCCCCCCCCCHHHHHHHHHHHHHH-CCCCCEEEEECCCCCCHHHHHHHHHHHHHHH
T ss_conf             866898678998399999999999986-3999279996889888779999999999997


No 423
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=92.49  E-value=0.42  Score=28.55  Aligned_cols=50  Identities=16%  Similarity=0.244  Sum_probs=34.4

Q ss_pred             CCCCHHHHCCH----HHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             58756561092----999999999998288981663117989888999999999981
Q gi|254780217|r    7 DPVYNQRLFGH----EDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus         7 ~p~~~~~i~G~----~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      ++-+.++++..    +...+.|..++. .+..  +++.|+-|.||||+..++...+.
T Consensus       116 ~~~tl~dlv~~g~~t~~~~~~L~~aV~-~r~n--ilVsGgTGSGKTTllnaL~~~i~  169 (323)
T PRK13833        116 RLIPLDDYVRSKVMTEAQASTIRSAIS-SRLN--IVISGGTGSGKTTLANAVIAEIV  169 (323)
T ss_pred             CCCCHHHHHHCCCCCHHHHHHHHHHHH-CCCC--EEEECCCCCCHHHHHHHHHHHHC
T ss_conf             999999998769999999999999998-1896--89991777756899999998640


No 424
>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.
Probab=92.47  E-value=0.12  Score=33.01  Aligned_cols=25  Identities=20%  Similarity=0.282  Sum_probs=22.5

Q ss_pred             EECCCCCCCHHHHHHHHHHHHHCCC
Q ss_conf             3117989888999999999981779
Q gi|254780217|r   38 LFEGEQGIGKATLGFRYAGHVLQNP   62 (347)
Q Consensus        38 Lf~Gp~GiGK~~~A~~~A~~llc~~   62 (347)
                      ++.|.||.||+|+|+++..++.+..
T Consensus         3 VLcGLPaAGKTTLar~L~~~l~~~~   27 (340)
T TIGR03575         3 VLCGLPAAGKSTLARSLSATLRRER   27 (340)
T ss_pred             EECCCCCCCHHHHHHHHHHHHHHCC
T ss_conf             4326987873689999999986444


No 425
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=92.46  E-value=0.32  Score=29.53  Aligned_cols=42  Identities=21%  Similarity=0.253  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHCCCCCE----------EEEECCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             9999999998288981----------66311798988899999999998177
Q gi|254780217|r   20 IEKFLSQYYCSGRMHH----------ALLFEGEQGIGKATLGFRYAGHVLQN   61 (347)
Q Consensus        20 ~~~~L~~~~~~~~l~h----------a~Lf~Gp~GiGK~~~A~~~A~~llc~   61 (347)
                      ........+-.++++-          -+++.||.|+||||++=.+|.++...
T Consensus       182 ~~~~~~~~~~~~~~~~~~~~~l~~g~VIaLVGvnGvGKTTTiAKLA~~l~~~  233 (407)
T PRK12726        182 DITDWFVPYLSGKLAVEDSFDLSNHRIISLIGQTGVGKTTTLVKLGWQLLKQ  233 (407)
T ss_pred             HHHHHHHHHHCCCCCCCCEEEECCCCEEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf             4068999975389770320230369089998999897899999999999977


No 426
>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane.  The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.
Probab=92.44  E-value=0.62  Score=27.19  Aligned_cols=21  Identities=29%  Similarity=0.317  Sum_probs=17.9

Q ss_pred             EEECCCCCCCHHHHHHHHHHH
Q ss_conf             631179898889999999999
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGH   57 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~   57 (347)
                      .-+.||.|+||+|+.+.++..
T Consensus        30 v~i~GpSGsGKSTLl~~i~gl   50 (214)
T cd03292          30 VFLVGPSGAGKSTLLKLIYKE   50 (214)
T ss_pred             EEEECCCCCHHHHHHHHHHCC
T ss_conf             999979995399999999629


No 427
>cd01381 MYSc_type_VII Myosin motor domain, type VII myosins. Myosins in this group have been associated with functions in sensory systems such as vision and hearing. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydr
Probab=92.42  E-value=0.4  Score=28.74  Aligned_cols=56  Identities=13%  Similarity=0.030  Sum_probs=36.1

Q ss_pred             CCCCCCHHHHCCHHHHHHH--HHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             5558756561092999999--99999828898166311798988899999999998177
Q gi|254780217|r    5 AFDPVYNQRLFGHEDIEKF--LSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQN   61 (347)
Q Consensus         5 ~~~p~~~~~i~G~~~~~~~--L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~   61 (347)
                      +|+.+.-.++--|--++..  ..+... .+-+++++++|..|.|||..+..+.++|..-
T Consensus        56 ~Y~~~~~~~~pPHifaiA~~Ay~~m~~-~~~~QsIiiSGESGaGKTe~~K~il~yL~~~  113 (671)
T cd01381          56 LYKNKSIGELPPHIFAISDNAYTNMQR-EKKNQCIIISGESGAGKTESTKLILQYLAAI  113 (671)
T ss_pred             HHCCCCCCCCCCCHHHHHHHHHHHHHH-CCCCCEEEEECCCCCCHHHHHHHHHHHHHHH
T ss_conf             871898678998199999999999997-2999679995799888799999999999987


No 428
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=92.41  E-value=0.17  Score=31.62  Aligned_cols=31  Identities=29%  Similarity=0.389  Sum_probs=27.1

Q ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             8898166311798988899999999998177
Q gi|254780217|r   31 GRMHHALLFEGEQGIGKATLGFRYAGHVLQN   61 (347)
Q Consensus        31 ~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~   61 (347)
                      ..-|+.+||.|-.|+||||+.=.+|.++..+
T Consensus       136 ~~~p~Vil~vGVNG~GKTTTIaKLA~~l~~~  166 (340)
T COG0552         136 EKKPFVILFVGVNGVGKTTTIAKLAKYLKQQ  166 (340)
T ss_pred             CCCCEEEEEEECCCCCHHHHHHHHHHHHHHC
T ss_conf             8986799999348886371799999999978


No 429
>PRK13946 shikimate kinase; Provisional
Probab=92.38  E-value=0.22  Score=30.75  Aligned_cols=34  Identities=24%  Similarity=0.283  Sum_probs=26.8

Q ss_pred             HHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             99999998288981663117989888999999999981
Q gi|254780217|r   22 KFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        22 ~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      +.+...+...+    +.|.|.+|+||+|.++.+|+.|-
T Consensus        12 ~~~~~~l~kkn----IvLIG~mGsGKStvGk~LA~~L~   45 (195)
T PRK13946         12 EQIRAALGKRT----VVLVGLMGAGKSTVGRRLATMLG   45 (195)
T ss_pred             HHHHHHHCCCC----EEEECCCCCCHHHHHHHHHHHHC
T ss_conf             99999858995----89989999988999999999979


No 430
>cd03239 ABC_SMC_head The structural maintenance of chromosomes (SMC) proteins are essential for successful chromosome transmission during replication and segregation of the genome in all organisms.  SMCs are generally present as single proteins in bacteria, and as at least six distinct proteins in eukaryotes.  The proteins range in size from approximately 110 to 170 kDa, and each has five distinct domains: amino- and carboxy-terminal globular domains, which contain sequences characteristic of ATPases, two coiled-coil regions separating the terminal domains , and a central flexible hinge.  SMC proteins function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair, and epigenetic silencing of gene expression.
Probab=92.37  E-value=0.32  Score=29.46  Aligned_cols=43  Identities=14%  Similarity=0.271  Sum_probs=29.1

Q ss_pred             CHHHHHHHHHH-CCHHHHHHHHHHHHHCCC-CCCEEEEECCCCCC
Q ss_conf             10353220554-240001456777663034-34167650443357
Q gi|254780217|r  131 WRVIMIDPVDG-MNRNAANALLKSLEEPPQ-KVLFILISHASPTI  173 (347)
Q Consensus       131 ~Ki~IId~ad~-ln~~AaNALLK~LEEPp~-~t~fiLit~~~~~i  173 (347)
                      --++|+||+|. |...-...+...|.|-.+ .+-||++|++...+
T Consensus       117 ~p~~iLDEvdAaLD~~N~~r~~~~i~el~~~~sQfIiITH~~~~m  161 (178)
T cd03239         117 SPFYVLDEIDAALDPTNRRRVSDMIKEMAKHTSQFIVITLKKEMF  161 (178)
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEECCHHHH
T ss_conf             966998276554798899999999999973899899998689999


No 431
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=92.29  E-value=0.28  Score=29.97  Aligned_cols=38  Identities=26%  Similarity=0.421  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             99999999999828898166311798988899999999998
Q gi|254780217|r   18 EDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        18 ~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      .+....|..+...++   .+++.|.-|+||||++.++...+
T Consensus       149 ~~~~~fL~~aV~~r~---NIlIsGgTGSGKTTllnALl~~I  186 (343)
T PRK13851        149 GDLEAFLHACVVGRL---TMLLCGPTGSGKTTMSKTLISAI  186 (343)
T ss_pred             HHHHHHHHHHHHCCC---CEEEECCCCCCHHHHHHHHHHCC
T ss_conf             779999999997698---89998889861999999999628


No 432
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=92.26  E-value=0.12  Score=33.02  Aligned_cols=22  Identities=32%  Similarity=0.499  Sum_probs=19.8

Q ss_pred             EEECCCCCCCHHHHHHHHHHHH
Q ss_conf             6311798988899999999998
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      +-+.||||+||+|.|..+|..+
T Consensus         3 ItIsG~pGsG~TTva~~lAe~~   24 (179)
T COG1102           3 ITISGLPGSGKTTVARELAEHL   24 (179)
T ss_pred             EEECCCCCCCCHHHHHHHHHHH
T ss_conf             9961799997027999999982


No 433
>PRK06696 uridine kinase; Validated
Probab=92.22  E-value=0.4  Score=28.68  Aligned_cols=43  Identities=14%  Similarity=0.210  Sum_probs=29.9

Q ss_pred             HHHHHHHHHHHHCCCCCE--EEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             999999999998288981--6631179898889999999999817
Q gi|254780217|r   18 EDIEKFLSQYYCSGRMHH--ALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        18 ~~~~~~L~~~~~~~~l~h--a~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      .+.+..|...+..-+..+  -+=+-|++|+||+|+|..++..|-.
T Consensus         8 ~~~~~~~~~~i~~~~p~rpl~VgIdG~~gSGKTTlA~~La~~L~~   52 (227)
T PRK06696          8 KQVVKEIANHILTLNLTRPLRVAIDGITASGKTTFANELAEEIKK   52 (227)
T ss_pred             HHHHHHHHHHHHHCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             789999999998359998689997789987879999999999974


No 434
>cd01384 MYSc_type_XI Myosin motor domain, plant-specific type XI myosin, involved in organelle transport. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis causes the head to pivot and associate with a new act
Probab=92.16  E-value=0.46  Score=28.24  Aligned_cols=55  Identities=15%  Similarity=0.038  Sum_probs=34.5

Q ss_pred             CCCCCCHHHHCCHHHHHHH--HHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             5558756561092999999--9999982889816631179898889999999999817
Q gi|254780217|r    5 AFDPVYNQRLFGHEDIEKF--LSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus         5 ~~~p~~~~~i~G~~~~~~~--L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      .|+-+...++--|--++..  ...... .+-+++++++|..|.|||..+..+.++|..
T Consensus        58 ~y~~~~~~~~pPHiyaiA~~Ay~~m~~-~~~nQsIiiSGESGAGKTes~K~il~yL~~  114 (674)
T cd01384          58 QYKGAALGELSPHVFAIADAAYRAMIN-EGKSQSILVSGESGAGKTETTKMLMRYLAY  114 (674)
T ss_pred             HHCCCCCCCCCCCHHHHHHHHHHHHHH-CCCCCEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             866898578999699999999999997-389966999558988889999999999999


No 435
>pfam00406 ADK Adenylate kinase.
Probab=92.08  E-value=0.29  Score=29.79  Aligned_cols=20  Identities=30%  Similarity=0.356  Sum_probs=18.0

Q ss_pred             ECCCCCCCHHHHHHHHHHHH
Q ss_conf             11798988899999999998
Q gi|254780217|r   39 FEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        39 f~Gp~GiGK~~~A~~~A~~l   58 (347)
                      |-||||+||.|.|..+|+..
T Consensus         1 i~G~PGsGKgTqa~~La~~~   20 (186)
T pfam00406         1 LLGPPGAGKGTQAERIVQKY   20 (186)
T ss_pred             CCCCCCCCHHHHHHHHHHHH
T ss_conf             91889898599999999985


No 436
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=92.07  E-value=0.58  Score=27.41  Aligned_cols=26  Identities=23%  Similarity=0.309  Sum_probs=20.6

Q ss_pred             CCEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             98166311798988899999999998
Q gi|254780217|r   33 MHHALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        33 l~ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      -.|..+++|+.|+||+++++.+.=.+
T Consensus        88 ~g~~~~~~gdsg~GKttllL~l~Ial  113 (402)
T COG3598          88 KGYVSILYGDSGVGKTTLLLYLCIAL  113 (402)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             17058984488623768999999999


No 437
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=92.06  E-value=0.17  Score=31.78  Aligned_cols=135  Identities=16%  Similarity=0.192  Sum_probs=62.6

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHH-HHHHHCCCCCCEEEECCCCHHHCCCCCCCCCH
Q ss_conf             81663117989888999999999981779988643121012678867-99996789875453001000101342123237
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPF-VKQMASHALHDFLYLSYSLNPKTGKWRTVITV  112 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~-~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~v  112 (347)
                      -+.+-|.||-|+||+|+.=.+|..+.-.    ....+.-+.|..+-. .-++..  -.+++-++.         .-.-.-
T Consensus       241 ~q~IALVGPTGVGKTTTIAKLAArf~~~----~KkVALITtDTYRIGAVEQLKT--YAeIMgVPV---------~VV~dp  305 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTLAKMAWQFHGK----KKTVGFITTDHSRIGTVQQLQD--YVKTIGFEV---------IAVRDE  305 (436)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHCC----CCEEEEEECCCCHHHHHHHHHH--HHHHHCCCE---------EEECCH
T ss_conf             7179998999988899999999998616----9808999806634769999999--999849943---------996888


Q ss_pred             HHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH--HHHHHHHHHHHHC-CCCCCEEEEECCCCCCCHHHHCEEEEEEC
Q ss_conf             88755443102221111210353220554240--0014567776630-34341676504433573025203698864
Q gi|254780217|r  113 DEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR--NAANALLKSLEEP-PQKVLFILISHASPTILSTIRSRCLSIKF  186 (347)
Q Consensus       113 d~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~--~AaNALLK~LEEP-p~~t~fiLit~~~~~il~TI~SRc~~i~f  186 (347)
                      ++.+.....+.   ..+++.+++||-|-+=-.  ....-|...++.- |..+++.|.++...+-+.-|..|-..+.+
T Consensus       306 ~eL~~AL~~lk---dka~~DLILIDTAGRS~RD~~~I~EL~~~l~~~~p~ev~LVLSATTK~~DL~eIi~rF~~l~i  379 (436)
T PRK11889        306 AAMTRALTYFK---EEARVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNFKDIHI  379 (436)
T ss_pred             HHHHHHHHHHH---HCCCCCEEEEECCCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCCC
T ss_conf             99999999876---336888899929898846899999999998512777169999788998999999997257998


No 438
>cd00124 MYSc Myosin motor domain. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis causes the head to pivot and associate with a new actin subunit. The release of Pi causes the head to pivot and move the fila
Probab=92.02  E-value=0.42  Score=28.51  Aligned_cols=30  Identities=20%  Similarity=0.295  Sum_probs=26.7

Q ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             889816631179898889999999999817
Q gi|254780217|r   31 GRMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        31 ~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      .+-+++++++|..|.|||..+..+.++|..
T Consensus        83 ~~~~QsIiisGESGaGKTes~K~il~yL~~  112 (679)
T cd00124          83 DRRNQSIIISGESGAGKTENTKLIMKYLAS  112 (679)
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             399967999678988888999999999998


No 439
>PRK00889 adenylylsulfate kinase; Provisional
Probab=92.00  E-value=0.2  Score=31.15  Aligned_cols=26  Identities=27%  Similarity=0.414  Sum_probs=22.2

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             81663117989888999999999981
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      +..+-|+|.+|.||+|+|..+.+.|-
T Consensus         4 g~viWltGlsgSGKTTia~~l~~~L~   29 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTISHALAEKLR   29 (175)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf             88999889899999999999999999


No 440
>cd02032 Bchl_like This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.
Probab=91.97  E-value=0.26  Score=30.18  Aligned_cols=117  Identities=15%  Similarity=0.109  Sum_probs=58.5

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCH--HH------------
Q ss_conf             6311798988899999999998177998864312101267886799996789875453001000--10------------
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLN--PK------------  102 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~--~k------------  102 (347)
                      +-+||.-||||+|++-.++.+|=....  ..---.|  |+.+.+...+.....|+++.+-+..+  .+            
T Consensus         3 iaiyGKGGIGKSTttaNl~aaLA~~G~--kVl~Igc--Dpk~Dst~~L~g~~~~tvld~l~~~~~~~~~~~~~d~v~~g~   78 (267)
T cd02032           3 LAVYGKGGIGKSTTSSNLSVALAKRGK--KVLQIGC--DPKHDSTFTLTGFLIPTVIDILEEVDFHYEELWPEDVIYEGY   78 (267)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCC--EEEEECC--CCCHHHHHHHCCCCCCCHHHHHHHHCCCHHHCCHHHHHHCCC
T ss_conf             999779965787789999999998799--5999778--995155675269886839999986088666414778753076


Q ss_pred             -------CCCCCCCC-----CH-HHHHHHHH-----HC---------------CCCCCCCCCHHHHHHHHHHCCHHHHHH
Q ss_conf             -------13421232-----37-88755443-----10---------------222111121035322055424000145
Q gi|254780217|r  103 -------TGKWRTVI-----TV-DEIRRIRY-----FL---------------SLTANTGYWRVIMIDPVDGMNRNAANA  149 (347)
Q Consensus       103 -------~~~~~~~I-----~v-d~IR~l~~-----~~---------------~~~~~~~~~Ki~IId~ad~ln~~AaNA  149 (347)
                             .+.....+     .| ..+.-+.+     .+               ...|....-+++|+-..|.|+.-|||-
T Consensus        79 ~gv~cvEaGgP~pg~Gcagrgi~~~~~lL~~l~~~~~~D~Vl~DvlgdVvcgGFa~pi~~Ad~~~iVTs~e~~sl~aAn~  158 (267)
T cd02032          79 GGVDCVEAGGPPAGAGCGGYVVGETVKLLKELNLFEEYDVILFDVLGDVVCGGFAAPLNYADYALIVTDNDFDSIFAANR  158 (267)
T ss_pred             CCCEEEECCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCEEEEEECCCHHHHHHHHH
T ss_conf             78457665899999887764048999999871664347789995366544566567610068899995671878999999


Q ss_pred             HHHHHHHC
Q ss_conf             67776630
Q gi|254780217|r  150 LLKSLEEP  157 (347)
Q Consensus       150 LLK~LEEP  157 (347)
                      +.+.+++-
T Consensus       159 I~~~i~~~  166 (267)
T cd02032         159 IAAAVREK  166 (267)
T ss_pred             HHHHHHHH
T ss_conf             99999997


No 441
>pfam00063 Myosin_head Myosin head (motor domain).
Probab=91.89  E-value=0.45  Score=28.29  Aligned_cols=55  Identities=13%  Similarity=0.097  Sum_probs=34.8

Q ss_pred             CCCCCCHHHHCCHHHHHHH--HHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             5558756561092999999--9999982889816631179898889999999999817
Q gi|254780217|r    5 AFDPVYNQRLFGHEDIEKF--LSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus         5 ~~~p~~~~~i~G~~~~~~~--L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      +|+.+.-.++--|--++..  ..+. ...+-+++++++|..|.|||..+..+.++|..
T Consensus        55 ~Y~~~~~~~lpPHiyaiA~~Ay~~m-~~~~~~QsIiiSGESGAGKTes~K~il~yL~~  111 (679)
T pfam00063        55 EYRGKRRGELPPHIFALADRAYRHM-LRDKENQCIVISGESGAGKTENTKKLMQYLAS  111 (679)
T ss_pred             HHCCCCCCCCCCCHHHHHHHHHHHH-HHHCCCCEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             8658985789984899999999999-97089827999678868889999999999998


No 442
>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=91.86  E-value=0.17  Score=31.72  Aligned_cols=24  Identities=29%  Similarity=0.355  Sum_probs=21.3

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             631179898889999999999817
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      +.+.|.+|+||+++++.+|+.+-.
T Consensus         2 I~LiG~~G~GKstigk~la~~l~~   25 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKALGL   25 (154)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             899889999889999999999798


No 443
>cd00983 recA RecA is a  bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response.  RecA couples ATP hydrolysis to DNA strand exchange.
Probab=91.80  E-value=0.31  Score=29.54  Aligned_cols=130  Identities=19%  Similarity=0.161  Sum_probs=62.6

Q ss_pred             HHHHHHCCCCCEE--EEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCC-CCCHHHHHHHCCCCCCE-EEECCCC
Q ss_conf             9999982889816--631179898889999999999817799886431210126-78867999967898754-5300100
Q gi|254780217|r   24 LSQYYCSGRMHHA--LLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPD-PCSPFVKQMASHALHDF-LYLSYSL   99 (347)
Q Consensus        24 L~~~~~~~~l~ha--~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~-~~~~~~~~i~~~~hpd~-~~i~~~~   99 (347)
                      |..++--|=+|-.  .-|+||+++||+++|+++++.-.. .   ++.|--...+ ..++..- -.-|.-+|= +++.+  
T Consensus        43 lD~alg~GGiP~GRivei~G~essGKTtlal~~ia~aQk-~---gg~~~~iDaE~a~d~~~a-~~lGVD~~~l~~~qp--  115 (325)
T cd00983          43 LDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQK-L---GGTVAFIDAEHALDPVYA-KKLGVDLDNLLISQP--  115 (325)
T ss_pred             HHHHHCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHH-C---CCEEEEEEHHHCCCHHHH-HHCCCCHHHEEEECC--
T ss_conf             999975899668808999889877799999999999873-5---983999962542598999-980998467589666--


Q ss_pred             HHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHH------------------HHHHHHHHH-CCCC
Q ss_conf             010134212323788755443102221111210353220554240001------------------456777663-0343
Q gi|254780217|r  100 NPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAA------------------NALLKSLEE-PPQK  160 (347)
Q Consensus       100 ~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~Aa------------------NALLK~LEE-Pp~~  160 (347)
                                -++||.-++...+-.+   +..-++|+|++-.|...+.                  -||.|+--- ...+
T Consensus       116 ----------~~~Eq~l~i~~~li~s---~~~dliViDSvaal~p~~E~e~~~~d~~vg~~ArlmskalRklt~~l~k~~  182 (325)
T cd00983         116 ----------DTGEQALEIADSLVRS---GAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGSINKSN  182 (325)
T ss_pred             ----------CHHHHHHHHHHHHHCC---CCCCEEEECCCCCCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             ----------3899999999997515---887679981511236578876011321143899999999999998753378


Q ss_pred             CCEEEEECCCCCC
Q ss_conf             4167650443357
Q gi|254780217|r  161 VLFILISHASPTI  173 (347)
Q Consensus       161 t~fiLit~~~~~i  173 (347)
                      |.+|+|.+-..++
T Consensus       183 ~~lIfiNQ~R~ki  195 (325)
T cd00983         183 TTVIFINQLREKI  195 (325)
T ss_pred             CEEEEEEEEHHHC
T ss_conf             0799955432215


No 444
>COG5635 Predicted NTPase (NACHT family) [Signal transduction mechanisms]
Probab=91.79  E-value=0.26  Score=30.19  Aligned_cols=138  Identities=15%  Similarity=0.143  Sum_probs=71.3

Q ss_pred             EEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHH-H
Q ss_conf             663117989888999999999981779988643121012678867999967898754530010001013421232378-8
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVD-E  114 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd-~  114 (347)
                      .+++.|+||.||+|+..++|.+......                     .+..+|=.+.+.. .....+..+. .++- -
T Consensus       224 ~~~Ilg~pGsGKTtfl~~lA~~~~~~~~---------------------~~~~vpi~~~l~~-~~~~~~~~~q-~~~~~~  280 (824)
T COG5635         224 KLLILGAPGSGKTTFLQRLALWLAQRTL---------------------EPEDVPIFLLLNA-FALARKFEKQ-LSLIDY  280 (824)
T ss_pred             HEEEECCCCCCHHHHHHHHHHHHHHCCC---------------------CCCCCCEEEEECC-HHHHHHHHHC-CCHHHH
T ss_conf             3334468887626799999999741525---------------------6656773444231-5654444521-649999


Q ss_pred             HHHHHHHCC---------CCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHH----HCCCCCCEEEEECCCCCCCHHHHCEE
Q ss_conf             755443102---------22111121035322055424000145677766----30343416765044335730252036
Q gi|254780217|r  115 IRRIRYFLS---------LTANTGYWRVIMIDPVDGMNRNAANALLKSLE----EPPQKVLFILISHASPTILSTIRSRC  181 (347)
Q Consensus       115 IR~l~~~~~---------~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LE----EPp~~t~fiLit~~~~~il~TI~SRc  181 (347)
                      +++....-.         ..=...+.-.++.|..|.|-....++..+.++    |-| .+.++++| .+.- =...+..-
T Consensus       281 l~~~~~~~~~~~~~~~~~~e~l~~g~~llLlDGlDe~~~~~~~~~~~~i~~f~~~~~-~~~~iltc-R~~~-~~~~~~~f  357 (824)
T COG5635         281 LAEELFSQGIAKQLIEAHQELLKTGKLLLLLDGLDELEPKNQRALIREINKFLQEYP-DAQVLLTC-RPDT-YKEEFKGF  357 (824)
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHCCCEEEECCCCCHHCCCCHHHHHHHHHHHHHCCC-CCCEEEEE-CCCC-CHHHHHHH
T ss_conf             999985146765004689999842775764033330122333789999987753057-77279982-6631-02156543


Q ss_pred             EEEECCCCCHHHHHHHHH
Q ss_conf             988647999899999999
Q gi|254780217|r  182 LSIKFNSLSENNLYKALE  199 (347)
Q Consensus       182 ~~i~f~~l~~~~~~~~L~  199 (347)
                      ..+-..+...+.+..++.
T Consensus       358 ~~~ei~~~~~~~i~~~~~  375 (824)
T COG5635         358 AVFEIYKFLDLQINQFIL  375 (824)
T ss_pred             HHHHHHHCCHHHHHHHHH
T ss_conf             231024244788998999


No 445
>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.
Probab=91.78  E-value=0.23  Score=30.72  Aligned_cols=166  Identities=17%  Similarity=0.213  Sum_probs=77.4

Q ss_pred             HHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCC--HHHHHHHCCC
Q ss_conf             65610929999999999982889816631179898889999999999817799886431210126788--6799996789
Q gi|254780217|r   11 NQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCS--PFVKQMASHA   88 (347)
Q Consensus        11 ~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~--~~~~~i~~~~   88 (347)
                      .++-+|...+++.+.=.+..|.+   +=|-||.|.||+|+...++..+-    ++.+....+..+...  ...++. -|-
T Consensus         8 L~K~yg~~~al~~vsf~v~~Gei---~gllGpNGAGKTTl~~~l~Gl~~----p~~G~i~i~G~~~~~~~~~~~~~-ig~   79 (301)
T TIGR03522         8 LTKLYGTQNALDEVSFEAQKGRI---VGFLGPNGAGKSTTMKIITGYLP----PDSGSVQVCGEDVLQNPKEVQRN-IGY   79 (301)
T ss_pred             EEEEECCEEEECCEEEEECCCCE---EEEECCCCCCHHHHHHHHHCCCC----CCCCEEEECCEECCCCHHHHHHH-CEE
T ss_conf             99999999997360678859819---99999999819999999967956----89777999275134487999853-767


Q ss_pred             CCCEEEE--CCCCHH------HCCCCCCCCCHHHHHHHHHHCCCCCC----------------------CCCCHHHHHHH
Q ss_conf             8754530--010001------01342123237887554431022211----------------------11210353220
Q gi|254780217|r   89 LHDFLYL--SYSLNP------KTGKWRTVITVDEIRRIRYFLSLTAN----------------------TGYWRVIMIDP  138 (347)
Q Consensus        89 hpd~~~i--~~~~~~------k~~~~~~~I~vd~IR~l~~~~~~~~~----------------------~~~~Ki~IId~  138 (347)
                      -|+...+  .....+      .--........+.+.++.+.+.+.+.                      .++-+|+|+||
T Consensus        80 ~pq~~~l~~~ltv~e~l~~~~~~~g~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LS~G~kqrl~la~aL~~~P~lliLDE  159 (301)
T TIGR03522        80 LPEHNPLYLDMYVREYLQFIAGIYGMKGQLLKQRVEEMIELVGLRPEQHKKIGQLSKGYRQRVGLAQALIHDPKVLILDE  159 (301)
T ss_pred             ECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCHHHHCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEEC
T ss_conf             45556567888999999999997399989999999999988188566548276779988445998898707998999948


Q ss_pred             HH-HCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHCEEEEEE
Q ss_conf             55-424000145677766303434167650443357302520369886
Q gi|254780217|r  139 VD-GMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIK  185 (347)
Q Consensus       139 ad-~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI~SRc~~i~  185 (347)
                      .= -|...+...+..+|.+-.++..+|++||+.+- ...+-.|+..++
T Consensus       160 Pt~GLDp~~~~~~~~~l~~l~~~~TillssH~l~e-~e~lcdri~ii~  206 (301)
T TIGR03522       160 PTTGLDPNQLVEIRNVIKNIGKDKTIILSTHIMQE-VEAICDRVIIIN  206 (301)
T ss_pred             CCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCHHH-HHHHCCEEEEEE
T ss_conf             86678989999999999987599999998785899-998699999998


No 446
>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=91.72  E-value=0.36  Score=29.08  Aligned_cols=39  Identities=23%  Similarity=0.359  Sum_probs=23.0

Q ss_pred             HHHHHHHH-HCCHHHHHHHHHHHHHCC-CCCCEEEEECCCC
Q ss_conf             35322055-424000145677766303-4341676504433
Q gi|254780217|r  133 VIMIDPVD-GMNRNAANALLKSLEEPP-QKVLFILISHASP  171 (347)
Q Consensus       133 i~IId~ad-~ln~~AaNALLK~LEEPp-~~t~fiLit~~~~  171 (347)
                      |+|+||.- .|...+...+++.|.+-- .+..+|++||+++
T Consensus       110 ililDEPtsgLD~~~~~~l~~~l~~l~~~g~TvI~vtHd~~  150 (176)
T cd03238         110 LFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLD  150 (176)
T ss_pred             EEEECCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEECCHH
T ss_conf             89971774458987999999999999987998999947879


No 447
>PRK13947 shikimate kinase; Provisional
Probab=91.71  E-value=0.2  Score=31.13  Aligned_cols=24  Identities=29%  Similarity=0.408  Sum_probs=21.6

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             631179898889999999999817
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      +.+.|.+|+||+|.++.+|+.+-.
T Consensus         4 I~LiG~mGsGKTtiGk~La~~L~~   27 (171)
T PRK13947          4 IVLIGFMGTGKTTVGKKVATTLSF   27 (171)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             899799999889999999999796


No 448
>KOG1533 consensus
Probab=91.69  E-value=0.45  Score=28.28  Aligned_cols=25  Identities=20%  Similarity=0.222  Sum_probs=18.8

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             8166311798988899999999998
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      +-+.+..||||.||+|.-....+.+
T Consensus         2 ~fgqvVIGPPgSGKsTYc~g~~~fl   26 (290)
T KOG1533           2 PFGQVVIGPPGSGKSTYCNGMSQFL   26 (290)
T ss_pred             CCCEEEECCCCCCCCCHHHHHHHHH
T ss_conf             7506887699998531132099999


No 449
>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA; InterPro: IPR005895   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs.   ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain .    The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyze ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarize the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site , , .   The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).     This family contains the cytochrome c biogenesis protein encoded by ccmA in bacteria and one arabidopsis protein, possibly encoded by an organelle. Bacterial c-type cytochromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The post-translational pathway includes the transport of a heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which functions as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.; GO: 0005215 transporter activity, 0017004 cytochrome complex assembly, 0030288 outer membrane-bounded periplasmic space.
Probab=91.66  E-value=0.15  Score=32.17  Aligned_cols=24  Identities=50%  Similarity=0.541  Sum_probs=21.6

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHH
Q ss_conf             816631179898889999999999
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGH   57 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~   57 (347)
                      .+++.+.||.|+||||+=+.+|--
T Consensus        26 Ge~l~v~GpNG~GKTtLLR~LAGL   49 (204)
T TIGR01189        26 GEALQVEGPNGIGKTTLLRILAGL   49 (204)
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHC
T ss_conf             827898606987357899999850


No 450
>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=91.63  E-value=0.19  Score=31.33  Aligned_cols=23  Identities=22%  Similarity=0.426  Sum_probs=20.4

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             63117989888999999999981
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      +-|+|.+|.||+|+|..+.+.|.
T Consensus         2 iW~tGLsgsGKTTlA~~l~~~L~   24 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKLF   24 (149)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
T ss_conf             89879999999999999999999


No 451
>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]
Probab=91.61  E-value=0.095  Score=33.73  Aligned_cols=112  Identities=13%  Similarity=0.071  Sum_probs=49.7

Q ss_pred             EEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHH--HHHHCCCCCCEEEECCCC----HHHCCCCCCC
Q ss_conf             6631179898889999999999817799886431210126788679--999678987545300100----0101342123
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFV--KQMASHALHDFLYLSYSL----NPKTGKWRTV  109 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~--~~i~~~~hpd~~~i~~~~----~~k~~~~~~~  109 (347)
                      -+-+.|++|+||+|+|+.++..+-+. ...--+.+..-.+..+..+  +...+..||+-+-.+.-.    +-+.++. -.
T Consensus        10 iIgIaG~SgSGKTTv~~~l~~~~~~~-~~~~I~~D~YYk~~~~~~~~~~~~~n~d~p~A~D~dLl~~~L~~L~~g~~-v~   87 (218)
T COG0572          10 IIGIAGGSGSGKTTVAKELSEQLGVE-KVVVISLDDYYKDQSHLPFEERNKINYDHPEAFDLDLLIEHLKDLKQGKP-VD   87 (218)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCC-CCEEEECCCCCCCHHHCCHHHCCCCCCCCHHHHCHHHHHHHHHHHHCCCC-CC
T ss_conf             99986798778899999999982867-52476522320253016675537857448234368999999999976992-24


Q ss_pred             CCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHH
Q ss_conf             23788755443102221111210353220554240001456
Q gi|254780217|r  110 ITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANAL  150 (347)
Q Consensus       110 I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNAL  150 (347)
                      +.+=+=. -..+...+-...+.+|+||+.+..++.+..+-+
T Consensus        88 ~P~yd~~-~~~r~~~~i~~~p~~VIIvEGi~~l~d~~lr~~  127 (218)
T COG0572          88 LPVYDYK-THTREPETIKVEPNDVVIVEGILLLYDERLRDL  127 (218)
T ss_pred             CCCCCHH-CCCCCCCCCCCCCCCEEEEECCCCCCCHHHHHH
T ss_conf             5642031-363257733138972899942300150767766


No 452
>cd01387 MYSc_type_XV Myosin motor domain, type XV myosins. In vertebrates, myosin XV appears to be expressed in sensory tissue and play a role in hearing. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis caus
Probab=91.61  E-value=0.51  Score=27.84  Aligned_cols=30  Identities=17%  Similarity=0.267  Sum_probs=26.6

Q ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             889816631179898889999999999817
Q gi|254780217|r   31 GRMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        31 ~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      .+-+++++++|+.|.|||..+..+.++|..
T Consensus        84 ~~~~QsIiisGESGAGKTes~K~il~yL~~  113 (677)
T cd01387          84 AKQNQCVIISGESGSGKTEATKLILRYLAA  113 (677)
T ss_pred             CCCCCEEEEEECCCCCHHHHHHHHHHHHHH
T ss_conf             099925999827978898899999999876


No 453
>cd03274 ABC_SMC4_euk Eukaryotic SMC4 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains.  Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains.  The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins.  The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases.  The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences.  In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (fo
Probab=91.52  E-value=0.58  Score=27.38  Aligned_cols=39  Identities=18%  Similarity=0.341  Sum_probs=25.1

Q ss_pred             HHHHHHHHHC-CHHHHHHHHHHHHHCCCCCCEEEEECCCC
Q ss_conf             3532205542-40001456777663034341676504433
Q gi|254780217|r  133 VIMIDPVDGM-NRNAANALLKSLEEPPQKVLFILISHASP  171 (347)
Q Consensus       133 i~IId~ad~l-n~~AaNALLK~LEEPp~~t~fiLit~~~~  171 (347)
                      +||+||+|.- ...-...+-+.++|-.+++-||.||++..
T Consensus       152 FyvLDEVDAALD~~Nv~r~a~~ike~s~~aQFIVIThr~~  191 (212)
T cd03274         152 LYVMDEIDAALDFRNVSIVANYIKERTKNAQFIVISLRNN  191 (212)
T ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCHH
T ss_conf             5897356424678889999999998477976999985889


No 454
>PRK06904 replicative DNA helicase; Validated
Probab=91.51  E-value=0.15  Score=32.25  Aligned_cols=27  Identities=11%  Similarity=0.319  Sum_probs=21.5

Q ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             898166311798988899999999998
Q gi|254780217|r   32 RMHHALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        32 ~l~ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      +-.+-+++-|.||.||+++|+.+|...
T Consensus       219 ~~g~LiViAaRPsmGKTa~alnia~n~  245 (472)
T PRK06904        219 QPSDLIIVAARPSMGKTTFAMNLCENA  245 (472)
T ss_pred             CCCCEEEEEECCCCCHHHHHHHHHHHH
T ss_conf             757579997379875689999999999


No 455
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=91.50  E-value=0.32  Score=29.49  Aligned_cols=42  Identities=26%  Similarity=0.445  Sum_probs=29.3

Q ss_pred             HHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             6109299999999999828898166311798988899999999998
Q gi|254780217|r   13 RLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        13 ~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      +++|--+-  -+...|..+.+.  .|+-||||+||+|+-+-+|+-+
T Consensus       120 ~v~Gt~~~--li~~ly~~g~ln--tLiigpP~~GKTTlLRdiaR~~  161 (308)
T COG3854         120 QVFGTANP--LIKDLYQNGWLN--TLIIGPPQVGKTTLLRDIARLL  161 (308)
T ss_pred             HHHCCCHH--HHHHHHHCCCEE--EEEECCCCCCHHHHHHHHHHHH
T ss_conf             56556218--899998437224--6996599887077999999986


No 456
>TIGR00954 3a01203 Peroxysomal long chain fatty acyl transporter; InterPro: IPR005283   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs.   ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain .    The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyze ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarize the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site , , .   The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).     The members of this family are integral membrane proteins and they are involved in the import of activated long-chain fatty acids from the cytosol to the peroxisomal matrix. ; GO: 0005524 ATP binding, 0006810 transport, 0016021 integral to membrane.
Probab=91.49  E-value=0.18  Score=31.42  Aligned_cols=44  Identities=25%  Similarity=0.239  Sum_probs=28.8

Q ss_pred             HHHCCHHHHHHHHHHHHH------CCCCCEEEEECCCCCCCHHHHHHHHHH
Q ss_conf             561092999999999998------288981663117989888999999999
Q gi|254780217|r   12 QRLFGHEDIEKFLSQYYC------SGRMHHALLFEGEQGIGKATLGFRYAG   56 (347)
Q Consensus        12 ~~i~G~~~~~~~L~~~~~------~~~l~ha~Lf~Gp~GiGK~~~A~~~A~   56 (347)
                      +.|....+.++.|..+-.      +|.-.| +|+.||.|+||.++=|.++.
T Consensus       529 dPitsksnsiqdlskandiklPflqGsG~~-lLi~GPNGCGKSSLFRiLGe  578 (788)
T TIGR00954       529 DPITSKSNSIQDLSKANDIKLPFLQGSGNH-LLICGPNGCGKSSLFRILGE  578 (788)
T ss_pred             CCCCCCHHHHHHHHHHCCCCCCCCCCCCCE-EEEECCCCCCHHHHHHHHHH
T ss_conf             342322235665554302435512158876-68768899864789999864


No 457
>cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions.  The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.
Probab=91.45  E-value=0.22  Score=30.73  Aligned_cols=24  Identities=29%  Similarity=0.513  Sum_probs=21.1

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHH
Q ss_conf             816631179898889999999999
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGH   57 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~   57 (347)
                      .++.|+.||+|+||+++|+.+.+.
T Consensus        14 g~GvLi~G~SG~GKS~lal~Li~r   37 (149)
T cd01918          14 GIGVLITGPSGIGKSELALELIKR   37 (149)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHC
T ss_conf             989999878999989999999981


No 458
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=91.43  E-value=0.2  Score=31.16  Aligned_cols=24  Identities=29%  Similarity=0.519  Sum_probs=21.7

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             631179898889999999999817
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      +.+.|++|+||+|.++.+|+.+-.
T Consensus         7 I~LiG~mGsGKstvgk~LA~~l~~   30 (172)
T PRK05057          7 IFLVGPMGAGKSTIGRQLAQQLNM   30 (172)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             898899999889999999999699


No 459
>PRK10646 putative ATPase; Provisional
Probab=91.42  E-value=0.35  Score=29.21  Aligned_cols=36  Identities=14%  Similarity=0.225  Sum_probs=26.8

Q ss_pred             HHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             999999828898166311798988899999999998177
Q gi|254780217|r   23 FLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQN   61 (347)
Q Consensus        23 ~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~   61 (347)
                      .|...+..|   -.++++|+=|.|||+|++.+++.+=+.
T Consensus        20 ~la~~l~~g---~vi~L~G~LGaGKTtf~r~i~~~lg~~   55 (153)
T PRK10646         20 RVAKACDGA---TVIYLYGDLGAGKTTFSRGFLQALGHQ   55 (153)
T ss_pred             HHHHHCCCC---CEEEEECCCCCCHHHHHHHHHHHCCCC
T ss_conf             999768999---799998888789999999999984997


No 460
>PRK05636 replicative DNA helicase; Provisional
Probab=91.40  E-value=0.2  Score=31.11  Aligned_cols=25  Identities=16%  Similarity=0.493  Sum_probs=18.6

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             8166311798988899999999998
Q gi|254780217|r   34 HHALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        34 ~ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      ..-+++-|.||.||+++|+.+|..+
T Consensus       267 G~LiIiAARPsmGKTalAlnia~n~  291 (507)
T PRK05636        267 GQMIIVAARPGVGKSTIALDFMRSA  291 (507)
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHHH
T ss_conf             5679997378786689999999999


No 461
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=91.33  E-value=0.17  Score=31.78  Aligned_cols=23  Identities=26%  Similarity=0.307  Sum_probs=20.2

Q ss_pred             EECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             31179898889999999999817
Q gi|254780217|r   38 LFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        38 Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      -+-||+|+||+|+|..+|+.+-.
T Consensus         3 aIdGpagsGKsT~ak~lA~~l~~   25 (147)
T cd02020           3 AIDGPAGSGKSTVAKLLAKKLGL   25 (147)
T ss_pred             EEECCCCCCHHHHHHHHHHHHCC
T ss_conf             88689978989999999999099


No 462
>PRK04132 replication factor C small subunit; Provisional
Probab=91.31  E-value=0.21  Score=30.91  Aligned_cols=145  Identities=26%  Similarity=0.421  Sum_probs=112.1

Q ss_pred             CCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHH
Q ss_conf             55558756561092999999999998288981663117989888999999999981779988643121012678867999
Q gi|254780217|r    4 RAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQ   83 (347)
Q Consensus         4 ~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~   83 (347)
                      +||||+..++||||++++..|++..+.+.||| +||.||||+||+|.|+.+|+-|+-.+                  .+ 
T Consensus        17 EKYRPk~LddIVgQehIVkRLK~YVk~~smPH-LLFaGPPGvGKt~~al~lar~l~ge~------------------wr-   76 (863)
T PRK04132         17 EKYRPQRLDEIVGQDHIVKRLKHYVKTGSMPH-LLFAGPPGVGKTTAALALARELFGEN------------------WR-   76 (863)
T ss_pred             HHCCCCCHHHHCCHHHHHHHHHHHHCCCCCCC-EEECCCCCCCCHHHHHHHHHHHHCCH------------------HH-
T ss_conf             53187616552274999999998862388854-43048998771447888888761431------------------45-


Q ss_pred             HHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCC-CCC-CCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCC
Q ss_conf             96789875453001000101342123237887554431022-211-1121035322055424000145677766303434
Q gi|254780217|r   84 MASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSL-TAN-TGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKV  161 (347)
Q Consensus        84 i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~-~~~-~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t  161 (347)
                            .++++++. .+++        .++.+|+.++.++. +|. .++.|++.+|+.|.++..+||++..+.|+...++
T Consensus        77 ------~nflelna-s~~~--------~~~~~~~~v~~~~~~~p~~~~~~k~~~~de~~~l~~d~~~~~r~~~e~~~~~~  141 (863)
T PRK04132         77 ------HNFLELNA-SDER--------GINVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNV  141 (863)
T ss_pred             ------HHHHHHCC-CCCC--------CCHHHHHHHHHCCCCCCCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHH
T ss_conf             ------55664144-2123--------63488887775068664578654246443656401011577876677742124


Q ss_pred             CEEEEECCCCCCCHHHHCEEEE
Q ss_conf             1676504433573025203698
Q gi|254780217|r  162 LFILISHASPTILSTIRSRCLS  183 (347)
Q Consensus       162 ~fiLit~~~~~il~TI~SRc~~  183 (347)
                      .||+-+..-..=.-|=..|-.+
T Consensus       142 ~~~~~~~t~~~ki~t~~~relk  163 (863)
T PRK04132        142 RFILSCLTGDAKIYTPDERELK  163 (863)
T ss_pred             HHHHHHCCCCCEEECCCCCEEE
T ss_conf             4433313465126603564566


No 463
>pfam00485 PRK Phosphoribulokinase / Uridine kinase family. In Arabidopsis the region carries two binding domains, a phosphoribosylpyrophosphate-binding domain and, at the very C-terminus, a uracil-binding domain.
Probab=91.30  E-value=0.2  Score=31.17  Aligned_cols=24  Identities=21%  Similarity=0.331  Sum_probs=20.4

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             631179898889999999999817
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      +-+.||.|+||+|+|..++..|-.
T Consensus         2 IgIaG~SgSGKTT~a~~L~~~l~~   25 (196)
T pfam00485         2 IGVAGSSGAGKTTVARTFVSIFGR   25 (196)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             899899857199999999999660


No 464
>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]
Probab=91.27  E-value=1.3  Score=24.66  Aligned_cols=163  Identities=13%  Similarity=0.189  Sum_probs=76.5

Q ss_pred             HCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEE
Q ss_conf             10929999999999982889816631179898889999999999817799886431210126788679999678987545
Q gi|254780217|r   14 LFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFL   93 (347)
Q Consensus        14 i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~   93 (347)
                      .+|....-.+..+.....-++-.++..||.|+||+|+.-.+-...+.......+    ..           ..+..|.+.
T Consensus         3 ~vgi~~l~~~r~~~~~k~Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~----~~-----------~~~~~~~~~   67 (373)
T COG5019           3 YVGISNLPNQRHRKLSKKGIDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDD----IR-----------AEGTSPTLE   67 (373)
T ss_pred             CCCCCCCHHHHHHHHHHCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCC----CC-----------CCCCCCCEE
T ss_conf             677475427888999855996389996278875557887656765257777557----66-----------666776258


Q ss_pred             EECC--CCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHH----HHHHHH-HHHHCCCCCCEEEE
Q ss_conf             3001--0001013421232378875544310222111121035322055424000----145677-76630343416765
Q gi|254780217|r   94 YLSY--SLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNA----ANALLK-SLEEPPQKVLFILI  166 (347)
Q Consensus        94 ~i~~--~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~A----aNALLK-~LEEPp~~t~fiLi  166 (347)
                      ....  ..+++  ..+-++.|=++-....++.-   .+-|.. |++.++.+..+.    ++.-.- .....--++.+.|+
T Consensus        68 i~~~~~~l~e~--~~~~~l~vIDtpGfGD~idN---s~~we~-I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI  141 (373)
T COG5019          68 IKITKAELEED--GFHLNLTVIDTPGFGDFIDN---SKCWEP-IVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFI  141 (373)
T ss_pred             EEEEEEEEECC--CEEEEEEEECCCCCCCCCCC---CCCHHH-HHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEEEE
T ss_conf             88643166048--74898888615886565464---101799-9999999999999986434556654468248999984


Q ss_pred             ECCCCCCCH-------HHHCEEEEEEC----CCCCHHHHHHH
Q ss_conf             044335730-------25203698864----79998999999
Q gi|254780217|r  167 SHASPTILS-------TIRSRCLSIKF----NSLSENNLYKA  197 (347)
Q Consensus       167 t~~~~~il~-------TI~SRc~~i~f----~~l~~~~~~~~  197 (347)
                      ....+.|.|       .|-.||-.+++    -.++.+++..+
T Consensus       142 ~Ptgh~l~~~DIe~Mk~ls~~vNlIPVI~KaD~lT~~El~~~  183 (373)
T COG5019         142 RPTGHGLKPLDIEAMKRLSKRVNLIPVIAKADTLTDDELAEF  183 (373)
T ss_pred             CCCCCCCCHHHHHHHHHHHCCCCEEEEEECCCCCCHHHHHHH
T ss_conf             689887878889999998533675656624665899999999


No 465
>cd01377 MYSc_type_II Myosin motor domain, type II myosins. Myosin II mediates cortical contraction in cell motility, and is the motor in smooth and skeletal muscle. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydro
Probab=91.24  E-value=0.37  Score=28.99  Aligned_cols=31  Identities=23%  Similarity=0.342  Sum_probs=27.1

Q ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             2889816631179898889999999999817
Q gi|254780217|r   30 SGRMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        30 ~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      ..+-+++++++|..|.|||..+..+.++|..
T Consensus        87 ~~~~~QsIiiSGESGAGKTes~K~il~yL~~  117 (693)
T cd01377          87 QDRENQSILITGESGAGKTENTKKVIQYLAS  117 (693)
T ss_pred             HCCCCCEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             7499806999688988889999999999999


No 466
>PRK10535 macrolide transporter ATP-binding /permease protein; Provisional
Probab=91.23  E-value=0.96  Score=25.64  Aligned_cols=53  Identities=15%  Similarity=0.348  Sum_probs=33.5

Q ss_pred             CHHHHHHHHH-HCCHHHHHHHHHHHHHCC-CCCCEEEEECCCCCCCHHHHCEEEEEE
Q ss_conf             1035322055-424000145677766303-434167650443357302520369886
Q gi|254780217|r  131 WRVIMIDPVD-GMNRNAANALLKSLEEPP-QKVLFILISHASPTILSTIRSRCLSIK  185 (347)
Q Consensus       131 ~Ki~IId~ad-~ln~~AaNALLK~LEEPp-~~t~fiLit~~~~~il~TI~SRc~~i~  185 (347)
                      -+|++.||.= .|...++..++++|++-. +...+|++||+++ +-.. -.|+..++
T Consensus       163 p~vlllDEPT~~LD~~~~~~v~~ll~~l~~~G~tii~vtHd~~-~a~~-a~Rii~~~  217 (648)
T PRK10535        163 GQVILADEPTGALDSHSGEEVMAILHQLRDRGHTVIIVTHDPQ-VAAQ-AERVIEIR  217 (648)
T ss_pred             CCEEEECCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHH-HHHH-CCEEEEEE
T ss_conf             9899956885557999999999999999977999999764869-9964-99799995


No 467
>pfam00154 RecA recA bacterial DNA recombination protein. RecA is a DNA-dependent ATPase and functions in DNA repair systems. RecA protein catalyses an ATP-dependent DNA strand-exchange reaction that is the central step in the repair of dsDNA breaks by homologous recombination.
Probab=91.18  E-value=0.39  Score=28.80  Aligned_cols=131  Identities=19%  Similarity=0.188  Sum_probs=62.1

Q ss_pred             HHHHHHCCCCC--EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCC-CCCHHHHHHHCCCCCCEEEECCCCH
Q ss_conf             99999828898--16631179898889999999999817799886431210126-7886799996789875453001000
Q gi|254780217|r   24 LSQYYCSGRMH--HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPD-PCSPFVKQMASHALHDFLYLSYSLN  100 (347)
Q Consensus        24 L~~~~~~~~l~--ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~-~~~~~~~~i~~~~hpd~~~i~~~~~  100 (347)
                      |..++-.|=+|  .-.-|+||+++||+++|+++++.-- ..   ++.|--...+ ..++.. .-.-|.-+|=+++..+  
T Consensus        40 lD~aLg~GGlP~GRi~ei~G~essGKTtlal~~ia~aQ-k~---gg~~~~iD~E~a~d~~~-a~~lGVD~~~l~~~qp--  112 (322)
T pfam00154        40 LDIALGIGGLPKGRIIEIYGPESSGKTTLALHAIAEAQ-KA---GGTAAFIDAEHALDPVY-AKKLGVDIDNLLVSQP--  112 (322)
T ss_pred             HHHHHCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHH-HC---CCEEEEEEHHHHCCHHH-HHHCCCCHHHEEEECC--
T ss_conf             99987589977870899988987778999999999997-34---99389985366059889-9980988025389778--


Q ss_pred             HHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHH------------------HHHHHHHHH-HCCCCC
Q ss_conf             1013421232378875544310222111121035322055424000------------------145677766-303434
Q gi|254780217|r  101 PKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNA------------------ANALLKSLE-EPPQKV  161 (347)
Q Consensus       101 ~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~A------------------aNALLK~LE-EPp~~t  161 (347)
                               -++||.-++...+-.+   +...++|+|++-.|...+                  ..||.|+-- =.-.+|
T Consensus       113 ---------d~~Eqal~i~~~li~~---~~~~liViDSvaal~p~~E~e~~~~d~~~g~~Ar~ms~alRklt~~l~k~~~  180 (322)
T pfam00154       113 ---------DTGEQALEIADMLVRS---GAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGNISKSNT  180 (322)
T ss_pred             ---------CHHHHHHHHHHHHHCC---CCCCEEEEECCCCCCCHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             ---------8399999999998537---9976599825345676888752432232135799999999999999730585


Q ss_pred             CEEEEECCCCCC
Q ss_conf             167650443357
Q gi|254780217|r  162 LFILISHASPTI  173 (347)
Q Consensus       162 ~fiLit~~~~~i  173 (347)
                      .+|+|.+-.+++
T Consensus       181 ~~IfiNQ~R~ki  192 (322)
T pfam00154       181 TVIFINQIRMKI  192 (322)
T ss_pred             EEEEEEEEHHHC
T ss_conf             499976551114


No 468
>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance.  Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis.  The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC.  Bacitracin has potent antibiotic activity against gram-positive bacteria.  The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin.  The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC.  B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.
Probab=91.18  E-value=0.55  Score=27.60  Aligned_cols=40  Identities=25%  Similarity=0.285  Sum_probs=25.2

Q ss_pred             CCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHH
Q ss_conf             0929999999999982889816631179898889999999999
Q gi|254780217|r   15 FGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGH   57 (347)
Q Consensus        15 ~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~   57 (347)
                      +|...+.+.+.=.+..|.+   +-+.||.|.||+|+.+.++..
T Consensus        10 yg~~~al~~vs~~v~~Gei---~gllG~NGaGKSTLl~~i~Gl   49 (208)
T cd03268          10 YGKKRVLDDISLHVKKGEI---YGFLGPNGAGKTTTMKIILGL   49 (208)
T ss_pred             ECCEEEECCEEEEECCCCE---EEEECCCCCCHHHHHHHHHCC
T ss_conf             9999987151668869819---999999999999999999578


No 469
>PRK05480 uridine kinase; Provisional
Probab=91.08  E-value=0.26  Score=30.28  Aligned_cols=27  Identities=19%  Similarity=0.230  Sum_probs=23.3

Q ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             898166311798988899999999998
Q gi|254780217|r   32 RMHHALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        32 ~l~ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      +-|.-+-+.|++|+||+|+|..++..+
T Consensus         4 k~P~iIgIaG~SgSGKTT~a~~L~~~l   30 (209)
T PRK05480          4 KQPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHC
T ss_conf             898899998999778999999999980


No 470
>cd04160 Arfrp1 Arfrp1 subfamily.  Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif.  Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes.  It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network.  Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D.  Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.
Probab=91.04  E-value=0.82  Score=26.22  Aligned_cols=127  Identities=14%  Similarity=0.154  Sum_probs=59.8

Q ss_pred             EEEECCCCCCCHHHHHHHHHHHHHCCCCC----CCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCC
Q ss_conf             66311798988899999999998177998----86431210126788679999678987545300100010134212323
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAGHVLQNPDF----SKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVIT  111 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~~llc~~~~----~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~  111 (347)
                      ++++.|++|+||+++..++.. .......    .-.|+-.+.          +..-...++.+.  -||-.        +
T Consensus         1 ~ivilG~~~~GKTsll~~l~~-~~~~~~~~~~~~~~~Tvg~~----------~~~i~~~~~~l~--iwD~~--------G   59 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKT-LFSKYKGLPPSKITPTVGLN----------IGTIEVGNARLK--FWDLG--------G   59 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHHH-CCCCCCCCCCCCCCCCCCEE----------EEEEEECCEEEE--EEECC--------C
T ss_conf             999999999888899998875-03676777655403531326----------899998999999--99689--------8


Q ss_pred             HHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC-HHHHHHHHHHHHH-CCCCCCEEEEECCCCCCCHHHHCEEEEEECCCC
Q ss_conf             78875544310222111121035322055424-0001456777663-034341676504433573025203698864799
Q gi|254780217|r  112 VDEIRRIRYFLSLTANTGYWRVIMIDPVDGMN-RNAANALLKSLEE-PPQKVLFILISHASPTILSTIRSRCLSIKFNSL  189 (347)
Q Consensus       112 vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln-~~AaNALLK~LEE-Pp~~t~fiLit~~~~~il~TI~SRc~~i~f~~l  189 (347)
                      -+..|.+.......+ .  -=|+++|..+.-+ .++.+.|.+.+.+ .+++..++++.|..+ +..            ..
T Consensus        60 qe~~~~l~~~y~~~a-~--~ii~VvD~sd~~~~~~~~~~l~~~~~~~~~~~~pili~~NK~D-l~~------------~~  123 (167)
T cd04160          60 QESLRSLWDKYYAEC-H--AIIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQD-LPD------------AL  123 (167)
T ss_pred             CHHHHHHHHHHCCCC-C--EEEEEEECCCHHHHHHHHHHHHHHHHCCCCCCCCEEEEEECCC-CCC------------CC
T ss_conf             788878998742898-7--8999986686788999999999975110248962999970667-665------------77


Q ss_pred             CHHHHHHHHH
Q ss_conf             9899999999
Q gi|254780217|r  190 SENNLYKALE  199 (347)
Q Consensus       190 ~~~~~~~~L~  199 (347)
                      +.+++.+.+.
T Consensus       124 ~~~ei~~~~~  133 (167)
T cd04160         124 SVEEIKEVFQ  133 (167)
T ss_pred             CHHHHHHHHH
T ss_conf             8999999999


No 471
>pfam09439 SRPRB Signal recognition particle receptor beta subunit. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase which anchors the alpha subunit to the endoplasmic reticulum membrane.
Probab=91.04  E-value=0.79  Score=26.33  Aligned_cols=131  Identities=15%  Similarity=0.147  Sum_probs=57.4

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHH
Q ss_conf             16631179898889999999999817799886431210126788679999678987545300100010134212323788
Q gi|254780217|r   35 HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDE  114 (347)
Q Consensus        35 ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~  114 (347)
                      .++|+.||.|.|||++-..+...=....-++-.|..          ...........+.+++.+            +=+.
T Consensus         4 ptvLllGl~~sGKT~Lf~~L~~~~~~~T~tS~~~n~----------~~~~~~~~~~~~~lvD~P------------Gh~k   61 (181)
T pfam09439         4 PAVIIAGLCDSGKTSLFTLLTTGSVRKTVTSQEPSA----------AYKYMNNKGNSLTLIDFP------------GHVK   61 (181)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCCEECCCCCCC----------EEEEECCCCCEEEEEECC------------CCHH
T ss_conf             869998689998999999997599487588867864----------068751689668999889------------9689


Q ss_pred             HHH-HHHHCCCCCCCCCCHHHHHHHH-HHCC-HHHHHHHHHHHHHC---CCCCCEEEEECCCCCCCHHHHCEEEEEECCC
Q ss_conf             755-4431022211112103532205-5424-00014567776630---3434167650443357302520369886479
Q gi|254780217|r  115 IRR-IRYFLSLTANTGYWRVIMIDPV-DGMN-RNAANALLKSLEEP---PQKVLFILISHASPTILSTIRSRCLSIKFNS  188 (347)
Q Consensus       115 IR~-l~~~~~~~~~~~~~Ki~IId~a-d~ln-~~AaNALLK~LEEP---p~~t~fiLit~~~~~il~TI~SRc~~i~f~~  188 (347)
                      +|. +.+.+..++ ...-=|++||.+ +.=+ .++|.-|--+|-.+   +...-+++.||..+ +            +..
T Consensus        62 lR~~~~~~~~~~~-~~~gIVfVVDS~~~~~~l~~~Ae~Ly~iL~~~~~~~~~vPvLI~cNKqD-l------------~~A  127 (181)
T pfam09439        62 LRYKLLETLKDSS-SLRGLVFVVDSTAFPKEVTDTAEFLYDILSITELLKNGIDILIACNKQE-I------------FTA  127 (181)
T ss_pred             HHHHHHHHHHHHC-CCEEEEEEEECCCCHHHHHHHHHHHHHHHHCHHHCCCCCCEEEEEECCC-C------------CCC
T ss_conf             9999998643002-6449999997866566799999999999844543368997899973746-3------------357


Q ss_pred             CCHHHHHHHHHHH
Q ss_conf             9989999999972
Q gi|254780217|r  189 LSENNLYKALEQL  201 (347)
Q Consensus       189 l~~~~~~~~L~~~  201 (347)
                      .+...+++.|+.+
T Consensus       128 ~~~~~Ik~~LEkE  140 (181)
T pfam09439       128 RPPKKIKQALEKE  140 (181)
T ss_pred             CCHHHHHHHHHHH
T ss_conf             7999999999999


No 472
>CHL00072 chlL photochlorophyllide reductase subunit L
Probab=91.01  E-value=0.71  Score=26.69  Aligned_cols=54  Identities=19%  Similarity=0.234  Sum_probs=32.3

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEE
Q ss_conf             6311798988899999999998177998864312101267886799996789875453
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLY   94 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~   94 (347)
                      +-+||.-||||+|++..++.+|=....  ..-.-.|  |+.+.+.+.+.....|+++.
T Consensus         3 iaiyGKGGIGKSTtsaNlsaaLA~~Gk--kVl~IGc--Dpk~DsT~~L~g~~~~tvld   56 (271)
T CHL00072          3 IAVYGKGGIGKSTTSCNISIALARRGK--KVLQIGC--DPKHDSTFTLTGFLIPTIID   56 (271)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCC--EEEEECC--CCHHHHHHHHCCCCCCCHHH
T ss_conf             999789854485889999999998799--7999789--97377774006998885999


No 473
>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]
Probab=91.00  E-value=0.2  Score=31.21  Aligned_cols=24  Identities=29%  Similarity=0.409  Sum_probs=21.7

Q ss_pred             EEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             663117989888999999999981
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      .+.+.|++|+||+|.++++|+.|.
T Consensus         4 ~IvLiG~mGaGKSTIGr~LAk~L~   27 (172)
T COG0703           4 NIVLIGFMGAGKSTIGRALAKALN   27 (172)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHCC
T ss_conf             189971799977689999999819


No 474
>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).
Probab=90.99  E-value=0.2  Score=31.18  Aligned_cols=23  Identities=22%  Similarity=0.387  Sum_probs=19.7

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             63117989888999999999981
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      +-+.||+|+||+|+|..++..+-
T Consensus         2 IgIaG~SgSGKTT~a~~L~~~l~   24 (179)
T cd02028           2 VGIAGPSGSGKTTFAKKLSNQLR   24 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
T ss_conf             89989897789999999999984


No 475
>COG3910 Predicted ATPase [General function prediction only]
Probab=90.93  E-value=1  Score=25.52  Aligned_cols=158  Identities=15%  Similarity=0.032  Sum_probs=83.2

Q ss_pred             CCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCH-HHCCCCCC----C
Q ss_conf             555587565610929999999999982889816631179898889999999999817799886431-21012678----8
Q gi|254780217|r    4 RAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPV-RMCNPDPC----S   78 (347)
Q Consensus         4 ~~~~p~~~~~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~-~~~~~~~~----~   78 (347)
                      .+=+|-+|.+.--.=.+.+.|...+.- |-|- -.|+|..|+||.|+-.++|.  .|.-+..++.- ..-..+..    .
T Consensus         9 l~ekve~~~eYp~slPa~r~l~~~LeF-~apI-T~i~GENGsGKSTLLEaiA~--~~~~n~aGg~~n~~~~~~~s~s~l~   84 (233)
T COG3910           9 LLEKVESFEEYPFSLPAFRHLEERLEF-RAPI-TFITGENGSGKSTLLEAIAA--GMGFNAAGGGKNFKGELDASHSALV   84 (233)
T ss_pred             HHHCCCCHHHCCCCCHHHHHHHHHCCC-CCCE-EEEECCCCCCHHHHHHHHHH--HCCCCCCCCCCCCCCCCCCCCCHHH
T ss_conf             431556354386435677755442234-6864-89976898657889999996--5651455787675751143314687


Q ss_pred             HHHHHHHCCCCCCEEEECCCCHHHCCCCCCCC-CHHHHHHHHH----HCC-CCCCC----------CCCHHHHHHHHH-H
Q ss_conf             67999967898754530010001013421232-3788755443----102-22111----------121035322055-4
Q gi|254780217|r   79 PFVKQMASHALHDFLYLSYSLNPKTGKWRTVI-TVDEIRRIRY----FLS-LTANT----------GYWRVIMIDPVD-G  141 (347)
Q Consensus        79 ~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I-~vd~IR~l~~----~~~-~~~~~----------~~~Ki~IId~ad-~  141 (347)
                      ...+......-|+-++++.+..      -..+ .+||.+.-.+    .+. .+-.+          .+.-++|+|+.| -
T Consensus        85 ~~~k~~~~~k~~~g~FlRAEs~------yn~as~~De~~~e~~~~~~sLh~~SHGEsf~~i~~~rf~~~GiYiLDEPEa~  158 (233)
T COG3910          85 DYAKLHKRKKPPIGFFLRAESF------YNVASYLDEADGEANYGGRSLHHMSHGESFLAIFHNRFNGQGIYILDEPEAA  158 (233)
T ss_pred             HHHHHHHCCCCCCCEEEEHHHH------HHHHHHHHHHHHHCCCCCCCHHHHCCCHHHHHHHHHHHCCCCEEEECCCCCC
T ss_conf             7688750678875068744677------7799888762201025774235541431899999998315841885686444


Q ss_pred             CCHHHHHHHHHHHHHCC-CCCCEEEEECCCC
Q ss_conf             24000145677766303-4341676504433
Q gi|254780217|r  142 MNRNAANALLKSLEEPP-QKVLFILISHASP  171 (347)
Q Consensus       142 ln~~AaNALLK~LEEPp-~~t~fiLit~~~~  171 (347)
                      ++.+-|=+||+.|-.-- +..-||+.|+.|-
T Consensus       159 LSp~RQlella~l~~la~sGaQ~IiATHSPi  189 (233)
T COG3910         159 LSPSRQLELLAILRDLADSGAQIIIATHSPI  189 (233)
T ss_pred             CCHHHHHHHHHHHHHHHHCCCEEEEEECCHH
T ss_conf             7888899999999998736783999836814


No 476
>cd01385 MYSc_type_IX Myosin motor domain, type IX myosins. Myosin IX is a processive single-headed motor, which might play a role in signalling. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis causes the hea
Probab=90.93  E-value=0.42  Score=28.57  Aligned_cols=30  Identities=20%  Similarity=0.357  Sum_probs=26.7

Q ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             889816631179898889999999999817
Q gi|254780217|r   31 GRMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        31 ~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      .+-+++++++|..|.|||..+..+.++|..
T Consensus        91 ~~~~QsIiiSGESGaGKTe~~K~il~yL~~  120 (692)
T cd01385          91 KKVNQCIVISGESGSGKTESTNFLIHHLTA  120 (692)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             399828999648989878999999999999


No 477
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=90.92  E-value=0.15  Score=32.22  Aligned_cols=58  Identities=17%  Similarity=0.169  Sum_probs=35.8

Q ss_pred             CCHHHHHHHHHHCCHHHHH-HHHHHHH--HCCCCCCEEEEECCCCCCCHHHHCEEEEEECC
Q ss_conf             2103532205542400014-5677766--30343416765044335730252036988647
Q gi|254780217|r  130 YWRVIMIDPVDGMNRNAAN-ALLKSLE--EPPQKVLFILISHASPTILSTIRSRCLSIKFN  187 (347)
Q Consensus       130 ~~Ki~IId~ad~ln~~AaN-ALLK~LE--EPp~~t~fiLit~~~~~il~TI~SRc~~i~f~  187 (347)
                      .+.+|+||-|-+=-.+.+. +=||.+=  .++-.+++.|.++...+.+..|..+-..+.+.
T Consensus       281 ~~d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~~~f~~~~i~  341 (407)
T COG1419         281 DCDVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTKYEDLKEIIKQFSLFPID  341 (407)
T ss_pred             CCCEEEEECCCCCCCCHHHHHHHHHHHHCCCCCEEEEEEECCCCHHHHHHHHHHHCCCCCC
T ss_conf             1888999689988337899999999970356621799984576468899999972458866


No 478
>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.
Probab=90.90  E-value=0.23  Score=30.70  Aligned_cols=22  Identities=23%  Similarity=0.344  Sum_probs=19.6

Q ss_pred             EEECCCCCCCHHHHHHHHHHHH
Q ss_conf             6311798988899999999998
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      +-+.|++|+||+|+|..+++.+
T Consensus         2 IgI~G~sgsGKTT~a~~L~~~l   23 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
T ss_conf             8988999885999999999980


No 479
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=90.87  E-value=0.34  Score=29.29  Aligned_cols=35  Identities=29%  Similarity=0.314  Sum_probs=26.7

Q ss_pred             HHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             99999982889816631179898889999999999817
Q gi|254780217|r   23 FLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        23 ~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      .|......|   -.+++.|+=|.|||||++.+|+.+--
T Consensus        17 ~l~~~l~~g---~Vv~L~GdLGAGKTtf~rgi~~~Lg~   51 (149)
T COG0802          17 RLAEALKAG---DVVLLSGDLGAGKTTLVRGIAKGLGV   51 (149)
T ss_pred             HHHHHCCCC---CEEEEECCCCCCHHHHHHHHHHHCCC
T ss_conf             999657899---88999778768859999999997499


No 480
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=90.85  E-value=0.8  Score=26.28  Aligned_cols=26  Identities=31%  Similarity=0.520  Sum_probs=21.9

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             16631179898889999999999817
Q gi|254780217|r   35 HALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        35 ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      -.+++.|+.|+||+|+..+|.+...-
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~~~   31 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDEFP   31 (219)
T ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf             79999999999889999999647676


No 481
>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.
Probab=90.85  E-value=0.49  Score=27.99  Aligned_cols=103  Identities=17%  Similarity=0.211  Sum_probs=55.1

Q ss_pred             EECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHH
Q ss_conf             31179898889999999999817799886431210126788679999678987545300100010134212323788755
Q gi|254780217|r   38 LFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRR  117 (347)
Q Consensus        38 Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~  117 (347)
                      +-+|.-|+||++++..+|..+=.. +..-.   ....|.       =.++.|-|++.++.+..    .     . +.+  
T Consensus         4 v~sgKgGvGkt~~~~nLa~~la~~-G~~vl---l~D~D~-------g~an~~~D~viiD~~aG----~-----~-~~~--   60 (139)
T cd02038           4 VTSGKGGVGKTNISANLALALAKL-GKRVL---LLDADL-------GLANLDYDYIIIDTGAG----I-----S-DNV--   60 (139)
T ss_pred             EECCCCCCCHHHHHHHHHHHHHHC-CCCEE---EEECCC-------CCCCCCCCEEEEECCCC----C-----C-HHH--
T ss_conf             964999983999999999999978-99699---998989-------99657999999948999----8-----7-789--


Q ss_pred             HHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECC
Q ss_conf             4431022211112103532205542400014567776630343416765044
Q gi|254780217|r  118 IRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHA  169 (347)
Q Consensus       118 l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~  169 (347)
                       ..++.     ..-.++++-..|--+..-+=+|+|.+-+-....-|-++.|.
T Consensus        61 -~~~~~-----~ad~~lvV~tpeptSi~DAYalIK~l~~~~~~~~~~lvvN~  106 (139)
T cd02038          61 -LDFFL-----AADEVIVVTTPEPTSITDAYALIKKLAKQLRVLNFRVVVNR  106 (139)
T ss_pred             -HHHHH-----HCCCEEEEECCCHHHHHHHHHHHHHHHHHCCCCCEEEEEEC
T ss_conf             -99999-----58957999589706799999999999996399975999956


No 482
>cd04158 ARD1 ARD1 subfamily.  ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family.  In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif.  This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family.  Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity.  However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain.  The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs.  The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain.  ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membra
Probab=90.84  E-value=0.37  Score=29.01  Aligned_cols=122  Identities=17%  Similarity=0.244  Sum_probs=59.1

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHH
Q ss_conf             63117989888999999999981779988643121012678867999967898754530010001013421232378875
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIR  116 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR  116 (347)
                      +++-|..|+||+|+..++...-...    ..|+-.....       .+   ...++-+  ..||-.+.        +..|
T Consensus         2 IlilGl~~sGKTtil~~l~~~~~~~----~~pT~G~~~~-------~i---~~~~~~l--~iwD~gG~--------~~~r   57 (169)
T cd04158           2 VVTLGLDGAGKTTILFKLKQDEFMQ----PIPTIGFNVE-------TV---EYKNLKF--TIWDVGGK--------HKLR   57 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHCCCCCC----CCCCCCCCEE-------EE---EECCEEE--EEEECCCC--------CCCC
T ss_conf             9999989998899999995799689----7786881669-------99---9898899--99989997--------2446


Q ss_pred             HHHHHCCCCCCCCCCHHHHHHHHHHCCH-HHHHHHHHHHHHCC-CCCCEEEEECCCCCCCHHHHCEEEEEECCCCCHHHH
Q ss_conf             5443102221111210353220554240-00145677766303-434167650443357302520369886479998999
Q gi|254780217|r  117 RIRYFLSLTANTGYWRVIMIDPVDGMNR-NAANALLKSLEEPP-QKVLFILISHASPTILSTIRSRCLSIKFNSLSENNL  194 (347)
Q Consensus       117 ~l~~~~~~~~~~~~~Ki~IId~ad~ln~-~AaNALLK~LEEPp-~~t~fiLit~~~~~il~TI~SRc~~i~f~~l~~~~~  194 (347)
                      .+-+.....   ..-=|+++|..|.-+. +|...|-+.+.+++ .+..+++++|..+ +.            ..++.+++
T Consensus        58 ~~w~~Yy~~---~~~iIfVvDssd~~~~~ea~~~l~~ll~~~~~~~~piLIlaNK~D-l~------------~~~~~~ei  121 (169)
T cd04158          58 PLWKHYYLN---TQAVVFVVDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQD-VA------------GALSVEEM  121 (169)
T ss_pred             HHHHHHCCC---CCEEEEEEECCHHHHHHHHHHHHHHHHHHHHHCCCEEEEEEECCC-CC------------CCCCHHHH
T ss_conf             367875557---627999998630677999999999997127537984999973556-77------------79899999


Q ss_pred             HHHH
Q ss_conf             9999
Q gi|254780217|r  195 YKAL  198 (347)
Q Consensus       195 ~~~L  198 (347)
                      .+.+
T Consensus       122 ~~~l  125 (169)
T cd04158         122 TELL  125 (169)
T ss_pred             HHHH
T ss_conf             9985


No 483
>KOG0480 consensus
Probab=90.80  E-value=0.57  Score=27.47  Aligned_cols=144  Identities=15%  Similarity=0.117  Sum_probs=82.2

Q ss_pred             CCHHHHCCHHHHHHHHHHHHHCCC------------CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCC
Q ss_conf             756561092999999999998288------------98166311798988899999999998177998864312101267
Q gi|254780217|r    9 VYNQRLFGHEDIEKFLSQYYCSGR------------MHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP   76 (347)
Q Consensus         9 ~~~~~i~G~~~~~~~L~~~~~~~~------------l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~   76 (347)
                      +-|..|+||+.++.-+.=++-.|-            =.| .++.|.||.||..+-.+.+..    .+-.-+.||.-++..
T Consensus       342 Sl~PsIyGhe~VK~GilL~LfGGv~K~a~eg~~lRGDin-v~iVGDPgt~KSQfLk~v~~f----sPR~vYtsGkaSSaA  416 (764)
T KOG0480         342 SLFPSIYGHELVKAGILLSLFGGVHKSAGEGTSLRGDIN-VCIVGDPGTGKSQFLKAVCAF----SPRSVYTSGKASSAA  416 (764)
T ss_pred             HHCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCE-EEEECCCCCCHHHHHHHHHCC----CCCCEEECCCCCCCC
T ss_conf             637620153899866899984785435789865467731-899579971388999998654----873158507634434


Q ss_pred             CCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf             88679999678987545300100010134212323788755443102221111210353220554240001456777663
Q gi|254780217|r   77 CSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEE  156 (347)
Q Consensus        77 ~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEE  156 (347)
                                |-..-  ++   -|+.++..    .       ++--.+  ..++.-||=||+.|+|+..-+-|++--||.
T Consensus       417 ----------GLTaa--Vv---kD~esgdf----~-------iEAGAL--mLADnGICCIDEFDKMd~~dqvAihEAMEQ  468 (764)
T KOG0480         417 ----------GLTAA--VV---KDEESGDF----T-------IEAGAL--MLADNGICCIDEFDKMDVKDQVAIHEAMEQ  468 (764)
T ss_pred             ----------CCEEE--EE---ECCCCCCE----E-------EECCCE--EECCCCEEEECHHCCCCHHHHHHHHHHHHH
T ss_conf             ----------64689--97---63777733----5-------534737--881696688310003570768999999875


Q ss_pred             -------------CCCCCCEEEEECCC--------------CCCCHHHHCEEEEEEC
Q ss_conf             -------------03434167650443--------------3573025203698864
Q gi|254780217|r  157 -------------PPQKVLFILISHAS--------------PTILSTIRSRCLSIKF  186 (347)
Q Consensus       157 -------------Pp~~t~fiLit~~~--------------~~il~TI~SRc~~i~f  186 (347)
                                   -|..|-+ |.+.||              -++-++|.||--.|-+
T Consensus       469 QtISIaKAGv~aTLnARtSI-lAAANPv~GhYdR~ktl~eNi~msApimSRFDL~Fi  524 (764)
T KOG0480         469 QTISIAKAGVVATLNARTSI-LAAANPVGGHYDRKKTLRENINMSAPIMSRFDLFFI  524 (764)
T ss_pred             HEEHHEECCEEEEECCHHHH-HHHCCCCCCCCCCCCCHHHHCCCCCHHHHHHCEEEE
T ss_conf             10003302068862223555-553277677455330066522778045422227999


No 484
>COG0305 DnaB Replicative DNA helicase [DNA replication, recombination, and repair]
Probab=90.79  E-value=0.64  Score=27.06  Aligned_cols=127  Identities=16%  Similarity=0.188  Sum_probs=65.0

Q ss_pred             HCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEE
Q ss_conf             10929999999999982889816631179898889999999999817799886431210126788679999678987545
Q gi|254780217|r   14 LFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFL   93 (347)
Q Consensus        14 i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~   93 (347)
                      +.|=..-...|......=+-.--+++-|.||.|||++|..+|..+--.                         ..-| +-
T Consensus       176 ~~Gi~tgf~~LD~~t~G~~~~dLiilAaRP~mGKTafalnia~n~a~~-------------------------~~~~-v~  229 (435)
T COG0305         176 LIGVPTGFTDLDEITSGFRPGDLIIVAARPGMGKTALALNIALNAAAD-------------------------GRKP-VA  229 (435)
T ss_pred             CCCCCCCCHHHHHHHCCCCCCCEEEECCCCCCCHHHHHHHHHHHHHHH-------------------------CCCC-EE
T ss_conf             851446834567773377467779971689997589999999999985-------------------------5897-59


Q ss_pred             EECCCCHHHCCCCCCCCCHHHHHH-HHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCC
Q ss_conf             300100010134212323788755-4431022211112103532205542400014567776630343416765044335
Q gi|254780217|r   94 YLSYSLNPKTGKWRTVITVDEIRR-IRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPT  172 (347)
Q Consensus        94 ~i~~~~~~k~~~~~~~I~vd~IR~-l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~  172 (347)
                      ++..           .-+.+|+.. +.   +..+.....|+--    -.++.+-.+.+-+..++..+..  |.+-..|.-
T Consensus       230 iFSL-----------EM~~eql~~R~L---s~~s~v~~~kirt----g~l~~~d~~~l~~a~~~l~~~~--i~IdD~~~~  289 (435)
T COG0305         230 IFSL-----------EMSEEQLVMRLL---SSESGIESSKLRT----GRLSDDEWERLIKAASELSEAP--IFIDDTPGL  289 (435)
T ss_pred             EEEC-----------CCCHHHHHHHHH---CCCCCCCHHCCCC----CCCCHHHHHHHHHHHHHHHHCC--EEECCCCCC
T ss_conf             9982-----------679999999753---4011545100212----5426899999999999876178--543378888


Q ss_pred             CCHHHHCEEEEEEC
Q ss_conf             73025203698864
Q gi|254780217|r  173 ILSTIRSRCLSIKF  186 (347)
Q Consensus       173 il~TI~SRc~~i~f  186 (347)
                      -+..|||||++++-
T Consensus       290 si~eir~~aRrlk~  303 (435)
T COG0305         290 TITEIRSKARRLKL  303 (435)
T ss_pred             CHHHHHHHHHHHHH
T ss_conf             78889999998887


No 485
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=90.75  E-value=0.43  Score=28.41  Aligned_cols=121  Identities=12%  Similarity=0.183  Sum_probs=61.0

Q ss_pred             HHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCC-CCHHHHHHHC------CCC
Q ss_conf             299999999999828898166311798988899999999998177998864312101267-8867999967------898
Q gi|254780217|r   17 HEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP-CSPFVKQMAS------HAL   89 (347)
Q Consensus        17 ~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~-~~~~~~~i~~------~~h   89 (347)
                      |..+++.+..++..|+ .. .|+.=.-|+|||.+|.+++..|+-..-... .+-.+.... .......+..      .+-
T Consensus       421 Q~~AI~~v~~a~~~~~-rr-aLl~MATGTGKTrtaial~~rLlk~~~~kR-ILFLvDR~~L~~QA~~~F~~~~~~~~~~~  497 (1126)
T PRK11448        421 QEDAIQAVEKALANGQ-RE-ILLAMATGTGKTRTAIALMYRLLKAKRFKR-ILFLVDRRALGEQALDAFKDTKIEGNQTF  497 (1126)
T ss_pred             HHHHHHHHHHHHHCCC-CC-EEEEECCCCCHHHHHHHHHHHHHHCCCCCE-EEEECCHHHHHHHHHHHHHHCCCCCCCCC
T ss_conf             9999999999998098-54-688724888589899999999996587672-57985658999999998754345456664


Q ss_pred             CCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCC-----CCCCCCCHHHHHHHHHH
Q ss_conf             75453001000101342123237887554431022-----21111210353220554
Q gi|254780217|r   90 HDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSL-----TANTGYWRVIMIDPVDG  141 (347)
Q Consensus        90 pd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~-----~~~~~~~Ki~IId~ad~  141 (347)
                      ++++-+..-.+.+ ....+.|.|-.+-.|.+.+..     .+..|.+=.||||+||+
T Consensus       498 ~~~~~v~~l~~~~-~~~~~rv~isT~q~m~~~i~~~~~~~~~~~~~FDlIIiDEaHR  553 (1126)
T PRK11448        498 ASIYDIKGLTDKF-PEDETKVHVATVQSMVKRILQSDDSEPPPVGQYDCIVVDEAHR  553 (1126)
T ss_pred             CHHHHHHHCCCCC-CCCCCEEEEECHHHHHHHHHCCCCCCCCCCCCCCEEEEECCCC
T ss_conf             0022001025678-7877719997307899875235767799998513798977878


No 486
>PRK12608 transcription termination factor Rho; Provisional
Probab=90.71  E-value=0.46  Score=28.24  Aligned_cols=39  Identities=18%  Similarity=0.119  Sum_probs=29.9

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHH
Q ss_conf             631179898889999999999817799886431210126788679999678987545300100010
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPK  102 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k  102 (347)
                      =|+..||+.||+++-..+|+.+.                           .+|||++.+-.-.|+.
T Consensus       135 gLIVAPPkaGKT~LLq~IA~aI~---------------------------~NhPev~livLLIDER  173 (379)
T PRK12608        135 GLIVAPPRAGKTILLQQIAQAVA---------------------------ANHPDIHLMVLLIDER  173 (379)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHH---------------------------HCCCCCEEEEEECCCC
T ss_conf             12745898657899999999998---------------------------5799848999981689


No 487
>PRK13949 shikimate kinase; Provisional
Probab=90.66  E-value=0.26  Score=30.22  Aligned_cols=24  Identities=33%  Similarity=0.429  Sum_probs=21.6

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             631179898889999999999817
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      +.+.|.+|+||+|.++.+|+.+-.
T Consensus         4 I~LiG~mGsGKstiGk~La~~l~~   27 (169)
T PRK13949          4 IFLVGYMGAGKTTLGKALARELGL   27 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             899799999889999999999599


No 488
>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.
Probab=90.62  E-value=0.23  Score=30.71  Aligned_cols=21  Identities=33%  Similarity=0.566  Sum_probs=17.7

Q ss_pred             EEECCCCCCCHHHHHHHHHHH
Q ss_conf             631179898889999999999
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGH   57 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~   57 (347)
                      +++.||+|+||++++..+.+.
T Consensus         2 ivi~GPSG~GK~tl~~~L~~~   22 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999999988999999999851


No 489
>PRK13948 shikimate kinase; Provisional
Probab=90.62  E-value=0.31  Score=29.59  Aligned_cols=28  Identities=21%  Similarity=0.396  Sum_probs=23.3

Q ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             8981663117989888999999999981
Q gi|254780217|r   32 RMHHALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        32 ~l~ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      |..--+.|.|.+|+||+|.++.+|+.+-
T Consensus         8 ~~~~~IvLIG~mGsGKStiGk~LA~~l~   35 (182)
T PRK13948          8 RPATFVALAGFMGTGKSRIGWELSRALA   35 (182)
T ss_pred             CCCCCEEEECCCCCCHHHHHHHHHHHHC
T ss_conf             9998189889999988999999999969


No 490
>PHA00729 NTP-binding motif containing protein
Probab=90.60  E-value=0.3  Score=29.68  Aligned_cols=37  Identities=24%  Similarity=0.362  Sum_probs=29.9

Q ss_pred             HHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             99999982889816631179898889999999999817
Q gi|254780217|r   23 FLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        23 ~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      .+.++++.+-+- +.++.|+.|+||+|.|...|+-++-
T Consensus         7 kIi~a~~~~GF~-S~iifGkQG~GKTTYAlKV~~~v~~   43 (228)
T PHA00729          7 KIISAYNTNGFV-SAIIFGKQGTGKTTYALKVARDVFW   43 (228)
T ss_pred             HHHHHHHCCCCE-EEEEECCCCCCCEEEHHHHHHHHHH
T ss_conf             999998647946-9999836778842021999999999


No 491
>cd01379 MYSc_type_III Myosin motor domain, type III myosins. Myosin III has been shown to play a role in  the vision process in insects and in hearing in mammals. Myosin III, an unconventional myosin, does not form dimers. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the
Probab=90.53  E-value=0.47  Score=28.15  Aligned_cols=31  Identities=16%  Similarity=0.277  Sum_probs=26.9

Q ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             2889816631179898889999999999817
Q gi|254780217|r   30 SGRMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        30 ~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      ..+-+++++++|..|.|||..+..+.++|-.
T Consensus        82 ~~~~nQsIiiSGESGaGKTestK~il~yL~~  112 (653)
T cd01379          82 TYNQDQCIVISGESGSGKTESAHLLVQQLTV  112 (653)
T ss_pred             HCCCCEEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             7489828999578989876889999999998


No 492
>pfam01745 IPT Isopentenyl transferase. Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid.
Probab=90.50  E-value=0.26  Score=30.21  Aligned_cols=25  Identities=20%  Similarity=0.098  Sum_probs=22.4

Q ss_pred             EEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             6631179898889999999999817
Q gi|254780217|r   36 ALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        36 a~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      -++++||-|+||+.+|..+|+.+-+
T Consensus         3 l~~I~GpT~~GKT~~ai~lA~~~g~   27 (232)
T pfam01745         3 LYLIWGATCTGKTAEAIALAKETGW   27 (232)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             6899788777716999999999599


No 493
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=90.48  E-value=0.62  Score=27.16  Aligned_cols=47  Identities=17%  Similarity=0.174  Sum_probs=31.1

Q ss_pred             CHHHHCCH----HHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             56561092----999999999998288981663117989888999999999981
Q gi|254780217|r   10 YNQRLFGH----EDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        10 ~~~~i~G~----~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      +.++++..    +...+.|..+...++   .+++.|+.|.||+|+..++...+.
T Consensus       124 tL~dlv~~G~~~~~~a~~L~~~V~~r~---nilI~G~TgsGKTTll~all~~i~  174 (320)
T PRK13894        124 TLDQYVERGIMTAEQREAIIAAVRAHR---NILVIGGTGSGKTTLVNAIINEMV  174 (320)
T ss_pred             CHHHHHHCCCCCHHHHHHHHHHHHCCC---CEEEECCCCCCHHHHHHHHHHHHC
T ss_conf             999998769999999999999997287---589985888656899999986320


No 494
>cd01382 MYSc_type_VI Myosin motor domain, type VI myosins. Myosin VI is a monomeric myosin, which moves towards the minus-end of actin filaments, in contrast to most other myosins. It has been implicated in endocytosis, secretion, and cell migration. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the minus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of
Probab=90.47  E-value=0.47  Score=28.17  Aligned_cols=32  Identities=19%  Similarity=0.204  Sum_probs=27.7

Q ss_pred             HCCCCCEEEEECCCCCCCHHHHHHHHHHHHHC
Q ss_conf             82889816631179898889999999999817
Q gi|254780217|r   29 CSGRMHHALLFEGEQGIGKATLGFRYAGHVLQ   60 (347)
Q Consensus        29 ~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc   60 (347)
                      ...+.+++++++|..|.|||..+..+.++|..
T Consensus        86 ~~~~~~QsIiiSGESGAGKTestK~il~yL~~  117 (717)
T cd01382          86 KVLKMSQSIIVSGESGAGKTENTKFVLRYLTE  117 (717)
T ss_pred             HHCCCCCEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             97199947999668999978999999999863


No 495
>PRK04296 thymidine kinase; Provisional
Probab=90.42  E-value=0.52  Score=27.78  Aligned_cols=97  Identities=14%  Similarity=0.168  Sum_probs=53.7

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHH---------CCCCC
Q ss_conf             631179898889999999999817799886431210126788679999678987545300100010---------13421
Q gi|254780217|r   37 LLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPK---------TGKWR  107 (347)
Q Consensus        37 ~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k---------~~~~~  107 (347)
                      .+++||=..||++--.+.+...--.                         |  -.++.+.+..|..         .+...
T Consensus         5 ~~i~GpMfSGKTteLi~~~~~~~~~-------------------------g--kkvl~~kp~~D~Ry~~~~I~Sh~g~~~   57 (197)
T PRK04296          5 YFIYGAMNSGKSTELLQRAYNYEER-------------------------G--MKVLVFTPAIDDRYGEGKVVSRIGLSR   57 (197)
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHC-------------------------C--CEEEEEEECCCCCCCCCCEECCCCCEE
T ss_conf             9999342788899999999999987-------------------------9--959999853446577785786789834


Q ss_pred             CCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCC
Q ss_conf             23237887554431022211112103532205542400014567776630343
Q gi|254780217|r  108 TVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQK  160 (347)
Q Consensus       108 ~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LEEPp~~  160 (347)
                      ..|.+....++...+........+.|+.||||.-++....-.+.+.+++-...
T Consensus        58 ~~~~v~~~~~i~~~~~~~~~~~~~dvI~IDEaQFf~~~~i~~~~~~~~~~~~~  110 (197)
T PRK04296         58 EAILISSDTDIFELIEEEHEGGKIDCVLIDEAQFLDKEQVVQLAEVVDDLGIP  110 (197)
T ss_pred             EEEEECCHHHHHHHHHHHHCCCCCCEEEECCHHCCCHHHHHHHHHHHHHCCCE
T ss_conf             68994878999999987630478568997202127989999999999831858


No 496
>pfam05272 VirE Virulence-associated protein E. This family contains several bacterial virulence-associated protein E like proteins.
Probab=90.41  E-value=1.6  Score=23.93  Aligned_cols=40  Identities=28%  Similarity=0.538  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHCC-CCCEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf             999999999828-8981663117989888999999999981
Q gi|254780217|r   20 IEKFLSQYYCSG-RMHHALLFEGEQGIGKATLGFRYAGHVL   59 (347)
Q Consensus        20 ~~~~L~~~~~~~-~l~ha~Lf~Gp~GiGK~~~A~~~A~~ll   59 (347)
                      .+....+++..| +..+..+|.|+.|+||+++.+.++..-+
T Consensus        37 ligaVaR~~~pG~k~d~vlvL~G~QG~gKStf~~~L~~~~~   77 (198)
T pfam05272        37 LIGAVARVYEPGCKFDHVLILQGAQGSGKSTFLKKLGGEWF   77 (198)
T ss_pred             HHHHHHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHC
T ss_conf             99999999778976776789988986789999999737751


No 497
>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity.  In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins.  Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family.  The ATP-binding domain shows the highest similarity between all members of the ABC transporter 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=90.28  E-value=0.42  Score=28.55  Aligned_cols=133  Identities=19%  Similarity=0.123  Sum_probs=0.0

Q ss_pred             ECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHH
Q ss_conf             11798988899999999998177998864312101267886799996789875453001000101342123237887554
Q gi|254780217|r   39 FEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRI  118 (347)
Q Consensus        39 f~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l  118 (347)
                      +.||.|.||+|+.+.++.  +-.+....-..............+.-..-...+.....            ..++.|.-++
T Consensus        31 l~G~NGaGKSTLl~~i~G--l~~p~~G~i~i~g~~~~~~~~~~~~~ig~v~q~~~l~~------------~ltv~e~l~L   96 (173)
T cd03230          31 LLGPNGAGKTTLIKIILG--LLKPDSGEIKVLGKDIKKEPEEVKRRIGYLPEEPSLYE------------NLTVRENLKL   96 (173)
T ss_pred             EECCCCCCHHHHHHHHHC--CCCCCCCEEEECCEECCCCHHHHHCCEEEEECCCCCCC------------CCCHHHHHHC
T ss_conf             987899799999999976--85778788999999988684888657899956876671------------2677898633


Q ss_pred             HHHCCC-----CCCCCCCHHHHHHHHH-HCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHCEEEEEE
Q ss_conf             431022-----2111121035322055-424000145677766303434167650443357302520369886
Q gi|254780217|r  119 RYFLSL-----TANTGYWRVIMIDPVD-GMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIK  185 (347)
Q Consensus       119 ~~~~~~-----~~~~~~~Ki~IId~ad-~ln~~AaNALLK~LEEPp~~t~fiLit~~~~~il~TI~SRc~~i~  185 (347)
                      ..-...     .+....-+++++||.- -|...+...+.+.|.+-.+.-.-|+++++.-.-...+-.|+..++
T Consensus        97 SgG~kqrv~ia~al~~~p~lllLDEPt~gLD~~~~~~i~~~i~~l~~~g~tvi~~tH~l~~~~~~~dri~vl~  169 (173)
T cd03230          97 SGGMKQRLALAQALLHDPELLILDEPTSGLDPESRREFWELLRELKKEGKTILLSSHILEEAERLCDRVAILN  169 (173)
T ss_pred             CHHHHHHHHHHHHHHCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHCCEEEEEE
T ss_conf             9899999999999964999999908865799999999999999999689999999283899998699999993


No 498
>cd01378 MYSc_type_I Myosin motor domain, type I myosins. Myosin I generates movement at the leading edge in cell motility, and class I myosins have been implicated in phagocytosis and vesicle transport. Myosin I, an unconventional myosin, does not form dimers. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 picon
Probab=90.28  E-value=0.5  Score=27.96  Aligned_cols=33  Identities=18%  Similarity=0.291  Sum_probs=0.0

Q ss_pred             HHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf             999828898166311798988899999999998
Q gi|254780217|r   26 QYYCSGRMHHALLFEGEQGIGKATLGFRYAGHV   58 (347)
Q Consensus        26 ~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~l   58 (347)
                      +.....+-+++++++|..|.|||..+..+.++|
T Consensus        78 ~~m~~~~~nQsIiisGESGaGKTe~~K~il~yL  110 (674)
T cd01378          78 RSMKSENENQCVIISGESGAGKTEAAKKIMQYI  110 (674)
T ss_pred             HHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             999971999379996788788889999999999


No 499
>PRK09354 recA recombinase A; Provisional
Probab=90.27  E-value=0.33  Score=29.33  Aligned_cols=90  Identities=18%  Similarity=0.148  Sum_probs=0.0

Q ss_pred             ECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHH
Q ss_conf             11798988899999999998177998864312101267886799996789875453001000101342123237887554
Q gi|254780217|r   39 FEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRI  118 (347)
Q Consensus        39 f~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l  118 (347)
                      ++||+++||+|+|++++..  ++........-...+.....-...+  |...|=+++..+-.           .||.-++
T Consensus        65 i~G~esSGKTtlal~~iae--aQk~Gg~~a~iDaE~ald~~~a~~l--GVd~d~llv~qpd~-----------~Eqal~i  129 (350)
T PRK09354         65 IYGPESSGKTTLALHAIAE--AQKAGGTAAFIDAEHALDPVYAKKL--GVDIDNLLVSQPDT-----------GEQALEI  129 (350)
T ss_pred             EECCCCCCHHHHHHHHHHH--HHHCCCCEEEEEECCCCCHHHHHHC--CCCHHHEEEECCCH-----------HHHHHHH
T ss_conf             9889877799999999999--9975994799960002798899984--97715717856867-----------9999999


Q ss_pred             HHHCCCCCCCCCCHHHHHHHHHHCCHHH
Q ss_conf             4310222111121035322055424000
Q gi|254780217|r  119 RYFLSLTANTGYWRVIMIDPVDGMNRNA  146 (347)
Q Consensus       119 ~~~~~~~~~~~~~Ki~IId~ad~ln~~A  146 (347)
                      ...+-.+....   ++|||++-.|...+
T Consensus       130 ~e~Lvrsg~vd---~IVvDSVaAL~pk~  154 (350)
T PRK09354        130 ADALVRSGAVD---LIVVDSVAALVPKA  154 (350)
T ss_pred             HHHHHHCCCCC---EEEEECCCCCCCHH
T ss_conf             99998548841---89982533457688


No 500
>PRK06749 replicative DNA helicase; Provisional
Probab=90.25  E-value=0.33  Score=29.39  Aligned_cols=133  Identities=11%  Similarity=0.022  Sum_probs=0.0

Q ss_pred             HHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCE
Q ss_conf             61092999999999998288981663117989888999999999981779988643121012678867999967898754
Q gi|254780217|r   13 RLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDF   92 (347)
Q Consensus        13 ~i~G~~~~~~~L~~~~~~~~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~   92 (347)
                      ++.|=..-+..|.+....=+-..-+++-|.||.||+++|+.+|....  ........-.+.-....-..|.+...+.-+.
T Consensus       165 ~~~Gi~TGf~~LD~lt~Gl~~g~LiviaaRPsmGKTa~alnia~~~a--~~g~~v~~fSlEMs~~~l~~R~ls~~s~v~~  242 (428)
T PRK06749        165 EITGIETGYTSLNKMTCGLQEGDFVVLGARPSMGKTAFALNVGLHAA--KSGAAVGLFSLEMSSKQLLKRMASCVGEVSG  242 (428)
T ss_pred             CCCCCCCCHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHH--HCCCCEEEEECCCCHHHHHHHHHHHHCCCCH
T ss_conf             98768778388987524999886899962798976899999999999--6499279983789999999999997549988


Q ss_pred             EEECCCCHHHCCCC--------------------CCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHH
Q ss_conf             53001000101342--------------------123237887554431022211112103532205542400014
Q gi|254780217|r   93 LYLSYSLNPKTGKW--------------------RTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAAN  148 (347)
Q Consensus        93 ~~i~~~~~~k~~~~--------------------~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaN  148 (347)
                      ..+..+...-+...                    ...+++++||.-.+.+...-..... ++|||....|.....+
T Consensus       243 ~~i~~~~~~~~~~~~~~~~~a~~~l~~~~l~i~d~~~~ti~~i~~~~r~~~~~~g~~~~-livIDYlqLi~~~~~~  317 (428)
T PRK06749        243 GRLKNPKHRFAMEDWEKVSKAFAEIGELPLEIYDNAGVTVQDIWMQTRKLKRKHGDKKV-LIIVDYLQLITGDPKH  317 (428)
T ss_pred             HHHHCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHHHCCCCCE-EEEEEHHHHCCCCCCC
T ss_conf             88627767799999999999999985596599758997679999999999997499876-9997677650578777


Done!