Query         gi|254780991|ref|YP_003065404.1| excinuclease ABC subunit B [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 805
No_of_seqs    313 out of 2110
Neff          6.3 
Searched_HMMs 39220
Date          Tue May 31 16:10:20 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780991.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 TIGR00631 uvrb excinuclease AB 100.0       0       0 1914.3  41.4  655  140-794     1-667 (667)
  2 PRK05298 excinuclease ABC subu 100.0       0       0 1635.4  47.9  653  138-798     3-655 (657)
  3 COG0556 UvrB Helicase subunit  100.0       0       0 1617.0  47.0  661  138-800     2-662 (663)
  4 COG1198 PriA Primosomal protei 100.0       0       0  663.9  33.3  545   14-722    59-634 (730)
  5 PRK05580 primosome assembly pr 100.0       0       0  621.5  33.3  525   12-723    58-604 (699)
  6 TIGR00595 priA primosomal prot 100.0       0       0  470.5  23.3  384  172-702     1-404 (524)
  7 PRK10689 transcription-repair  100.0   3E-40   7E-45  320.0  14.8  272  165-473    12-284 (1148)
  8 COG1197 Mfd Transcription-repa 100.0 3.6E-36 9.3E-41  289.4  17.8  270  168-475     9-279 (1139)
  9 PRK11634 ATP-dependent RNA hel 100.0 9.8E-33 2.5E-37  263.7  28.9  121  582-710   245-366 (629)
 10 PRK11776 ATP-dependent RNA hel 100.0   1E-31 2.7E-36  256.0  29.1  124  581-712   241-365 (459)
 11 PRK11192 ATP-dependent RNA hel 100.0   3E-31 7.7E-36  252.6  23.5  134  582-723   247-381 (417)
 12 PRK04537 ATP-dependent RNA hel 100.0 1.6E-30   4E-35  247.2  26.8  124  581-712   256-380 (574)
 13 PRK10590 ATP-dependent RNA hel 100.0 3.9E-31 9.8E-36  251.8  23.5  124  582-713   245-369 (457)
 14 PRK01297 ATP-dependent RNA hel 100.0 4.9E-30 1.2E-34  243.5  27.6  122  582-711   332-454 (472)
 15 PRK04837 ATP-dependent RNA hel 100.0 4.5E-30 1.2E-34  243.8  24.6  121  582-710   256-377 (423)
 16 PTZ00110 helicase; Provisional 100.0 2.2E-29 5.7E-34  238.6  24.5  115  580-699   426-541 (602)
 17 COG0513 SrmB Superfamily II DN 100.0 3.4E-28 8.7E-33  229.7  24.5  117  584-707   275-392 (513)
 18 KOG0331 consensus              100.0 2.4E-27 6.1E-32  223.4  20.3  117  569-692   330-447 (519)
 19 PRK13766 Hef nuclease; Provisi 100.0 1.1E-24 2.8E-29  203.5  30.7  422  153-697    20-482 (764)
 20 PRK10917 ATP-dependent DNA hel 100.0 7.6E-26 1.9E-30  212.1  24.0  330  139-692   248-584 (677)
 21 COG1200 RecG RecG-like helicas  99.9 3.9E-23 9.9E-28  191.8  23.7  330  141-694   255-592 (677)
 22 PRK10689 transcription-repair   99.9 8.7E-24 2.2E-28  196.7  20.1  329  117-692   577-918 (1148)
 23 TIGR00643 recG ATP-dependent D  99.9 9.4E-23 2.4E-27  189.0  24.7  329  140-690   298-645 (721)
 24 KOG0333 consensus               99.9 1.9E-23 4.8E-28  194.2  20.7  146  550-702   487-633 (673)
 25 PRK11057 ATP-dependent DNA hel  99.9 2.9E-22 7.5E-27  185.2  26.1  324  145-702    24-353 (607)
 26 KOG0338 consensus               99.9   2E-22 5.2E-27  186.5  24.8  115  582-701   426-541 (691)
 27 KOG0335 consensus               99.9 9.7E-24 2.5E-28  196.3  14.9  119  582-705   337-456 (482)
 28 KOG0330 consensus               99.9   3E-22 7.5E-27  185.2  21.6  108  583-695   301-409 (476)
 29 COG1197 Mfd Transcription-repa  99.9 5.9E-22 1.5E-26  183.0  21.7  331  116-691   570-911 (1139)
 30 KOG0328 consensus               99.9 7.7E-23   2E-27  189.6  16.4  330  148-712    49-389 (400)
 31 KOG0344 consensus               99.9 1.2E-21   3E-26  180.8  21.9  119  585-708   390-510 (593)
 32 COG1111 MPH1 ERCC4-like helica  99.9 7.4E-20 1.9E-24  167.3  30.5  435  153-702    15-490 (542)
 33 TIGR00580 mfd transcription-re  99.9 4.6E-22 1.2E-26  183.8  17.3  323  117-691   485-829 (997)
 34 COG4098 comFA Superfamily II D  99.9   3E-20 7.7E-25  170.2  25.7  324  149-706    98-429 (441)
 35 KOG0340 consensus               99.9 4.3E-20 1.1E-24  169.1  23.5  115  583-702   255-370 (442)
 36 KOG0346 consensus               99.9 2.9E-20 7.3E-25  170.4  21.4  116  574-694   260-411 (569)
 37 KOG0354 consensus               99.9   2E-19 5.1E-24  164.0  25.0  458  137-701    51-537 (746)
 38 COG1061 SSL2 DNA or RNA helica  99.9   1E-19 2.5E-24  166.3  23.3  345  145-691    33-390 (442)
 39 KOG0342 consensus               99.9 5.6E-20 1.4E-24  168.2  20.0  127  570-705   319-446 (543)
 40 KOG0336 consensus               99.9 2.6E-20 6.6E-25  170.7  17.0  130  572-706   455-585 (629)
 41 KOG0347 consensus               99.9 6.4E-20 1.6E-24  167.8  17.8  106  584-694   465-571 (731)
 42 PRK13767 ATP-dependent helicas  99.9 2.2E-18 5.7E-23  156.2  24.6  125  569-698   271-403 (878)
 43 KOG0334 consensus               99.9 4.9E-19 1.2E-23  161.1  20.3  127  560-692   591-719 (997)
 44 COG0514 RecQ Superfamily II DN  99.8 1.5E-17 3.9E-22  150.0  25.3  323  145-704    16-348 (590)
 45 KOG0345 consensus               99.8 8.2E-18 2.1E-22  152.0  22.9  114  583-701   256-372 (567)
 46 KOG0348 consensus               99.8   1E-18 2.6E-23  158.8  18.0   93  606-706   471-564 (708)
 47 KOG0341 consensus               99.8 1.1E-19 2.8E-24  166.0  11.5  105  585-694   424-529 (610)
 48 KOG0350 consensus               99.8 1.9E-18 4.8E-23  156.7  16.1  111  580-695   427-542 (620)
 49 KOG0339 consensus               99.8   4E-18   1E-22  154.3  17.7  104  584-692   470-574 (731)
 50 KOG0327 consensus               99.8 7.7E-20   2E-24  167.1   8.5  116  583-706   264-380 (397)
 51 COG1201 Lhr Lhr-like helicases  99.8 3.3E-17 8.3E-22  147.5  18.6  123  566-693   237-362 (814)
 52 KOG4284 consensus               99.8 2.7E-18   7E-23  155.5  12.7  105  583-692   273-378 (980)
 53 PRK02362 ski2-like helicase; P  99.8 1.3E-15 3.2E-20  135.6  23.2   88  606-694   303-398 (736)
 54 KOG0332 consensus               99.7 1.9E-17   5E-22  149.1  11.0  120  584-703   332-454 (477)
 55 PRK01172 ski2-like helicase; P  99.7 6.6E-15 1.7E-19  130.2  23.9   87  607-694   286-379 (674)
 56 KOG0343 consensus               99.7   4E-16   1E-20  139.3  14.1  128  563-700   296-426 (758)
 57 cd00079 HELICc Helicase superf  99.7   9E-17 2.3E-21  144.2  10.4  119  566-689    12-131 (131)
 58 COG1205 Distinct helicase fami  99.7 7.9E-15   2E-19  129.6  19.6  114  572-690   296-419 (851)
 59 COG1204 Superfamily II helicas  99.7 1.6E-13 4.1E-18  119.8  24.0   84  608-692   316-407 (766)
 60 PRK00254 ski2-like helicase; P  99.7   1E-13 2.5E-18  121.4  22.8   86  608-694   296-388 (717)
 61 COG1202 Superfamily II helicas  99.7 1.5E-14 3.9E-19  127.5  18.0  122  584-707   442-566 (830)
 62 TIGR00580 mfd transcription-re  99.7 1.8E-17 4.6E-22  149.4   2.6  431  312-778     1-476 (997)
 63 KOG0351 consensus               99.7   2E-14 5.2E-19  126.5  17.6  103  586-693   489-592 (941)
 64 PRK09751 putative ATP-dependen  99.6 6.2E-14 1.6E-18  122.9  18.6  124  572-700   234-392 (1490)
 65 PRK11448 hsdR type I restricti  99.6 6.1E-14 1.5E-18  123.0  17.8  123  152-303   420-555 (1126)
 66 COG1203 CRISPR-associated heli  99.6 3.4E-13 8.7E-18  117.4  20.5  327  153-692   200-549 (733)
 67 TIGR00614 recQ_fam ATP-depende  99.6 1.1E-12 2.9E-17  113.5  23.0  328  141-696     7-352 (497)
 68 TIGR03158 cas3_cyano CRISPR-as  99.6 6.2E-13 1.6E-17  115.4  21.4   97  569-679   257-357 (357)
 69 KOG0326 consensus               99.6   2E-15 5.1E-20  134.1   6.7  112  585-701   325-437 (459)
 70 TIGR01389 recQ ATP-dependent D  99.6 3.9E-13   1E-17  116.9  17.8  319  145-697    12-337 (607)
 71 PRK04914 ATP-dependent helicas  99.6 2.2E-10 5.6E-15   96.3  31.2  128  567-701   480-611 (955)
 72 KOG0337 consensus               99.6 6.7E-14 1.7E-18  122.7  13.1  106  582-692   261-367 (529)
 73 COG4096 HsdR Type I site-speci  99.6 6.9E-13 1.8E-17  115.1  17.8  125  148-308   165-303 (875)
 74 TIGR01054 rgy reverse gyrase;   99.5 2.7E-11 6.9E-16  103.1  20.9  324  153-658    84-442 (1843)
 75 PRK09694 hypothetical protein;  99.5   7E-11 1.8E-15  100.0  21.4  357  141-682   276-664 (878)
 76 PRK09401 reverse gyrase; Revie  99.4 3.9E-10 9.9E-15   94.5  23.8  132  140-301    70-210 (1176)
 77 COG1110 Reverse gyrase [DNA re  99.4 6.4E-10 1.6E-14   92.8  22.9  130  139-300    73-213 (1187)
 78 smart00490 HELICc helicase sup  99.4 1.1E-12 2.9E-17  113.5   7.3   80  596-680     1-80  (82)
 79 PRK11664 ATP-dependent RNA hel  99.4 2.7E-09   7E-14   88.1  23.2   87  605-691   238-338 (812)
 80 KOG0352 consensus               99.4 8.3E-10 2.1E-14   92.0  20.1  111  586-701   259-370 (641)
 81 PRK08074 bifunctional ATP-depe  99.3 3.6E-08 9.2E-13   79.7  27.3  125  566-692   739-897 (932)
 82 pfam00271 Helicase_C Helicase   99.3 3.4E-12 8.6E-17  109.9   6.6   75  601-680     2-76  (78)
 83 smart00487 DEXDc DEAD-like hel  99.3 6.8E-11 1.7E-15  100.1  12.7  153  146-343     6-172 (201)
 84 KOG0952 consensus               99.3 8.7E-10 2.2E-14   91.9  17.2  120  572-692   339-490 (1230)
 85 PRK11131 ATP-dependent RNA hel  99.3 1.7E-08 4.3E-13   82.2  23.5  144  158-347    80-234 (1295)
 86 KOG0387 consensus               99.3 8.1E-08 2.1E-12   77.1  26.8  432  152-710   209-669 (923)
 87 KOG0951 consensus               99.2 1.4E-08 3.7E-13   82.7  20.1   94  596-692   600-701 (1674)
 88 KOG0349 consensus               99.2 6.5E-11 1.6E-15  100.3   7.9  113  577-694   500-616 (725)
 89 KOG0353 consensus               99.2 1.9E-08 4.9E-13   81.8  19.0  146  565-716   297-489 (695)
 90 cd00046 DEXDc DEAD-like helica  99.2 5.2E-10 1.3E-14   93.5  10.6  133  170-341     2-144 (144)
 91 KOG0948 consensus               99.2 1.4E-08 3.5E-13   82.9  17.8  115  139-301   126-246 (1041)
 92 KOG0947 consensus               99.1 2.1E-08 5.4E-13   81.4  17.2  404  143-692   292-722 (1248)
 93 PRK11747 dinG ATP-dependent DN  99.1 8.7E-07 2.2E-11   69.4  25.2  125  566-693   518-675 (697)
 94 KOG0329 consensus               99.1 1.9E-09 4.8E-14   89.4  10.9  166  149-358    65-244 (387)
 95 COG4581 Superfamily II RNA hel  99.1 3.4E-07 8.6E-12   72.4  21.8   96  604-701   444-547 (1041)
 96 COG4889 Predicted helicase [Ge  99.1 1.2E-08   3E-13   83.4  13.9  111  565-695   473-590 (1518)
 97 COG1199 DinG Rad3-related DNA   99.0 3.9E-07 9.8E-12   72.0  21.1  123  566-692   462-617 (654)
 98 pfam00270 DEAD DEAD/DEAH box h  99.0 5.9E-09 1.5E-13   85.6  11.1  147  152-342     3-161 (167)
 99 COG1643 HrpA HrpA-like helicas  98.9 1.1E-07 2.8E-12   76.2  13.2   86  605-690   286-385 (845)
100 PRK07246 bifunctional ATP-depe  98.9 1.9E-05 4.9E-10   59.3  27.6  121  569-692   634-783 (820)
101 KOG0949 consensus               98.9 1.1E-07 2.7E-12   76.2  12.8   97  611-714   967-1066(1330)
102 KOG0920 consensus               98.9 8.5E-07 2.2E-11   69.5  17.3   88  605-692   443-544 (924)
103 PRK13103 secA preprotein trans  98.8 9.5E-07 2.4E-11   69.1  15.4  150  550-701   416-599 (913)
104 TIGR01587 cas3_core CRISPR-ass  98.8 9.8E-07 2.5E-11   69.0  15.2  112  572-691   258-391 (424)
105 pfam12344 UvrB Ultra-violet re  98.8 4.8E-09 1.2E-13   86.2   3.0   43  688-730     1-43  (44)
106 PRK13107 preprotein translocas  98.7 3.3E-07 8.3E-12   72.5  12.3  147  550-701   416-599 (908)
107 PRK09200 preprotein translocas  98.7 9.1E-07 2.3E-11   69.2  14.1  136  559-701   409-553 (799)
108 PRK12900 secA preprotein trans  98.7   1E-06 2.7E-11   68.8  14.3  148  550-701   521-675 (983)
109 PRK12326 preprotein translocas  98.7 2.5E-06 6.4E-11   65.9  16.1  147  550-701   405-566 (775)
110 PRK12901 secA preprotein trans  98.7 6.7E-07 1.7E-11   70.2  13.2  143  550-701   599-753 (1111)
111 PRK12906 secA preprotein trans  98.7 2.7E-06   7E-11   65.6  15.7  138  559-701   417-590 (823)
112 KOG0922 consensus               98.7 4.1E-06   1E-10   64.3  16.5   83  608-690   292-388 (674)
113 PRK13104 secA preprotein trans  98.7 2.4E-06   6E-11   66.1  15.0  150  550-701   411-595 (896)
114 PRK12903 secA preprotein trans  98.7 6.4E-06 1.6E-10   62.9  17.0  143  551-700   394-546 (885)
115 cd00268 DEADc DEAD-box helicas  98.7 1.1E-06 2.8E-11   68.6  12.8  151  149-344    22-187 (203)
116 PRK12899 secA preprotein trans  98.6 1.3E-06 3.3E-11   68.1  12.9  139  557-701   543-689 (969)
117 pfam04851 ResIII Type III rest  98.6 1.8E-07 4.5E-12   74.6   8.4   58  151-213     6-66  (103)
118 PRK12904 preprotein translocas  98.6   1E-06 2.6E-11   68.9  12.0  147  550-701   397-580 (833)
119 KOG0924 consensus               98.6 7.4E-06 1.9E-10   62.4  15.9   87  605-691   596-696 (1042)
120 PRK12898 secA preprotein trans  98.6 1.6E-06 4.1E-11   67.4  12.4  146  550-702   455-610 (673)
121 CHL00122 secA preprotein trans  98.6 1.2E-05 2.9E-10   61.0  16.0   97  550-648   391-490 (891)
122 PRK12902 secA preprotein trans  98.5 3.8E-06 9.8E-11   64.5  12.3   97  550-648   411-510 (946)
123 KOG0390 consensus               98.5 0.00026 6.7E-09   50.8  21.9  426  143-697   235-709 (776)
124 KOG0923 consensus               98.5 9.6E-06 2.4E-10   61.6  12.9   79  607-690   507-604 (902)
125 KOG0926 consensus               98.4 6.6E-06 1.7E-10   62.8  10.7   87  605-691   603-703 (1172)
126 TIGR03117 cas_csf4 CRISPR-asso  98.1  0.0012   3E-08   45.9  28.0  124  566-689   453-613 (636)
127 KOG0385 consensus               98.1  0.0012 3.1E-08   45.8  22.9  398  152-689   171-593 (971)
128 COG0653 SecA Preprotein transl  98.1 3.3E-05 8.5E-10   57.5   9.8  140  559-700   406-552 (822)
129 COG0610 Type I site-specific r  98.0  0.0023 5.8E-08   43.8  29.1  121  152-303   252-389 (962)
130 pfam00176 SNF2_N SNF2 family N  97.9 0.00048 1.2E-08   48.8  12.7  121  153-302     2-131 (295)
131 TIGR00643 recG ATP-dependent D  97.9 7.5E-05 1.9E-09   54.9   7.4  110  574-693   348-473 (721)
132 KOG0391 consensus               97.8   0.002 5.2E-08   44.1  14.4  133  547-679  1240-1376(1958)
133 TIGR01967 DEAH_box_HrpA ATP-de  97.8 0.00072 1.8E-08   47.5  11.6  145  158-351    75-233 (1320)
134 PRK10917 ATP-dependent DNA hel  97.8 0.00032 8.1E-09   50.2   9.6   87  572-658   296-387 (677)
135 KOG0950 consensus               97.7 0.00026 6.5E-09   50.9   7.7   94  606-701   522-619 (1008)
136 KOG4150 consensus               97.7 0.00031   8E-09   50.2   8.2  114  576-694   519-643 (1034)
137 KOG0386 consensus               97.6  0.0077   2E-07   39.8  26.0  409  153-686   399-829 (1157)
138 KOG4439 consensus               97.6  0.0093 2.4E-07   39.2  21.8  112  571-689   737-852 (901)
139 KOG0953 consensus               97.5 0.00087 2.2E-08   46.9   8.4   93  609-702   384-486 (700)
140 PRK12306 uvrC excinuclease ABC  97.5  0.0003 7.7E-09   50.3   5.9   15  107-121    75-93  (519)
141 PRK00558 uvrC excinuclease ABC  97.4 0.00041   1E-08   49.4   6.1   16  107-122    83-102 (609)
142 COG1200 RecG RecG-like helicas  97.4 0.00099 2.5E-08   46.5   7.3   85  574-658   303-392 (677)
143 smart00489 DEXDc3 DEAD-like he  97.3  0.0018 4.7E-08   44.5   8.2   74  143-217     3-85  (289)
144 smart00488 DEXDc2 DEAD-like he  97.3  0.0018 4.7E-08   44.5   8.2   74  143-217     3-85  (289)
145 COG0553 HepA Superfamily II DN  97.3   0.012   3E-07   38.4  12.0  136  566-706   692-833 (866)
146 COG3880 Modulator of heat shoc  97.2 0.00082 2.1E-08   47.1   5.9   45  758-805   132-176 (176)
147 TIGR01054 rgy reverse gyrase;   97.2 0.00068 1.7E-08   47.7   5.3   70  621-692   521-597 (1843)
148 COG1198 PriA Primosomal protei  97.2 0.00022 5.6E-09   51.4   2.7   75  418-538   405-479 (730)
149 COG0322 UvrC Nuclease subunit   97.2  0.0015 3.8E-08   45.1   6.5   35  608-647   446-481 (581)
150 cd01364 KISc_BimC_Eg5 Kinesin   97.1 0.00056 1.4E-08   48.3   3.8   94  139-232    48-148 (352)
151 pfam02151 UVR UvrB/uvrC motif.  97.1 0.00085 2.2E-08   47.0   4.7   34  762-795     2-35  (36)
152 PRK09401 reverse gyrase; Revie  97.0  0.0024 6.1E-08   43.6   6.4  100  147-279   277-384 (1176)
153 KOG0392 consensus               97.0   0.039 9.9E-07   34.6  21.2  412  171-689   993-1448(1549)
154 COG3587 Restriction endonuclea  96.9  0.0038 9.8E-08   42.1   6.9   66  617-688   463-537 (985)
155 KOG1000 consensus               96.9   0.041   1E-06   34.4  20.5  120  578-702   488-614 (689)
156 cd01368 KISc_KIF23_like Kinesi  96.9  0.0041   1E-07   41.9   6.7   83  139-234    55-142 (345)
157 PRK07883 hypothetical protein;  96.8  0.0035   9E-08   42.4   6.0   37  761-797   412-448 (575)
158 cd01372 KISc_KIF4 Kinesin moto  96.8  0.0049 1.3E-07   41.2   6.7   90  139-233    40-138 (341)
159 pfam09848 DUF2075 Uncharacteri  96.8  0.0057 1.5E-07   40.8   7.0   52  169-220     2-58  (348)
160 TIGR02928 TIGR02928 orc1/cdc6   96.8   0.014 3.6E-07   37.9   8.9   66  152-217    24-103 (383)
161 TIGR01970 DEAH_box_HrpB ATP-de  96.8  0.0028   7E-08   43.1   5.3   97  592-690   231-344 (858)
162 PRK05580 primosome assembly pr  96.8 0.00072 1.8E-08   47.5   2.3   77  417-539   373-449 (699)
163 PRK00411 cdc6 cell division co  96.8   0.023   6E-07   36.2  10.0   97  106-217     6-110 (394)
164 cd01366 KISc_C_terminal Kinesi  96.8   0.003 7.7E-08   42.9   5.3   84  139-233    45-137 (329)
165 cd01370 KISc_KIP3_like Kinesin  96.8   0.004   1E-07   42.0   5.9   84  139-233    54-146 (338)
166 TIGR01407 dinG_rel DnaQ family  96.8   0.039   1E-06   34.5  10.9  513  147-690   259-904 (944)
167 cd01369 KISc_KHC_KIF5 Kinesin   96.7  0.0018 4.5E-08   44.6   3.9   87  139-233    43-138 (325)
168 TIGR03015 pepcterm_ATPase puta  96.7   0.012 3.1E-07   38.3   8.2   73  147-219    22-97  (269)
169 COG2804 PulE Type II secretory  96.7   0.011 2.9E-07   38.6   7.8   94  150-277   240-335 (500)
170 cd01367 KISc_KIF2_like Kinesin  96.6  0.0044 1.1E-07   41.6   5.3   84  139-233    51-141 (322)
171 KOG0925 consensus               96.6    0.07 1.8E-06   32.6  13.9  147  153-346    51-206 (699)
172 PRK07952 DNA replication prote  96.5   0.044 1.1E-06   34.1   9.8   65  151-220    76-146 (242)
173 cd00106 KISc Kinesin motor dom  96.5  0.0077   2E-07   39.8   5.9   86  139-235    45-140 (328)
174 pfam00225 Kinesin Kinesin moto  96.5   0.014 3.5E-07   38.0   7.1   84  139-233    40-132 (321)
175 smart00492 HELICc3 helicase su  96.5   0.024 6.1E-07   36.1   8.2   74  616-689    31-135 (141)
176 KOG0384 consensus               96.5   0.085 2.2E-06   32.0  24.9  444  120-708   346-824 (1373)
177 PRK05703 flhF flagellar biosyn  96.4   0.062 1.6E-06   33.0  10.0   86  169-303   211-301 (412)
178 TIGR00963 secA preprotein tran  96.4  0.0077   2E-07   39.8   5.4   98  556-658   409-508 (904)
179 cd01376 KISc_KID_like Kinesin   96.4  0.0087 2.2E-07   39.4   5.5   84  139-233    47-137 (319)
180 TIGR03499 FlhF flagellar biosy  96.3   0.017 4.3E-07   37.2   6.8   23  169-191   195-217 (282)
181 smart00129 KISc Kinesin motor,  96.3  0.0066 1.7E-07   40.3   4.7   85  139-234    46-139 (335)
182 cd01374 KISc_CENP_E Kinesin mo  96.3   0.008   2E-07   39.7   5.1   84  139-233    40-131 (321)
183 PRK10436 hypothetical protein;  96.3   0.037 9.5E-07   34.7   8.5   89  153-277   200-292 (461)
184 cd01365 KISc_KIF1A_KIF1B Kines  96.2   0.014 3.5E-07   37.9   5.9   72  151-233    67-148 (356)
185 pfam07652 Flavi_DEAD Flaviviru  96.1  0.0045 1.1E-07   41.5   2.9  129  170-344     4-137 (146)
186 KOG1002 consensus               96.1    0.14 3.5E-06   30.4  25.3  137  563-704   617-758 (791)
187 COG4098 comFA Superfamily II D  96.0   0.088 2.2E-06   31.9   9.2  133  556-706   118-256 (441)
188 TIGR01420 pilT_fam twitching m  96.0   0.048 1.2E-06   33.9   7.8  167  155-396   117-298 (350)
189 KOG0242 consensus               96.0   0.015 3.9E-07   37.6   5.2   85  139-232    53-143 (675)
190 PRK08939 primosomal protein Dn  96.0   0.061 1.5E-06   33.1   8.2   63  153-220   137-207 (306)
191 COG3973 Superfamily I DNA and   96.0   0.028 7.1E-07   35.6   6.4   65  152-223   216-289 (747)
192 cd01129 PulE-GspE PulE/GspE Th  96.0    0.04   1E-06   34.4   7.2   39  152-193    67-105 (264)
193 COG1110 Reverse gyrase [DNA re  96.0    0.02 5.1E-07   36.7   5.6   61  592-657   348-412 (1187)
194 TIGR00348 hsdR type I site-spe  96.0   0.058 1.5E-06   33.2   8.0  107   99-217   258-379 (813)
195 cd01375 KISc_KIF9_like Kinesin  95.8   0.014 3.5E-07   38.0   4.2   86  140-234    49-142 (334)
196 PRK08116 hypothetical protein;  95.8   0.051 1.3E-06   33.6   7.1   68  147-219    81-157 (262)
197 TIGR03600 phage_DnaB phage rep  95.8    0.17 4.4E-06   29.7   9.8   63  155-219   182-248 (421)
198 pfam00580 UvrD-helicase UvrD/R  95.8   0.039 9.8E-07   34.6   6.4   62  152-220     4-72  (494)
199 cd00268 DEADc DEAD-box helicas  95.8    0.18 4.5E-06   29.6  10.7  112  582-702    69-193 (203)
200 pfam03796 DnaB_C DnaB-like hel  95.7   0.039 9.9E-07   34.5   6.3   62  156-219     8-73  (186)
201 cd01393 recA_like RecA is a  b  95.7   0.042 1.1E-06   34.3   6.4   55  156-211     7-71  (226)
202 KOG1803 consensus               95.7   0.021 5.5E-07   36.5   4.8   58  153-214   190-250 (649)
203 PRK10919 ATP-dependent DNA hel  95.7   0.027 6.8E-07   35.7   5.3   70  152-228     6-87  (672)
204 KOG0243 consensus               95.7  0.0071 1.8E-07   40.0   2.3   94  139-235    95-195 (1041)
205 PRK06835 DNA replication prote  95.7    0.16 4.2E-06   29.9   9.3   51  163-218   178-232 (330)
206 pfam06745 KaiC KaiC. This fami  95.6     0.2   5E-06   29.2   9.9   59  156-216     7-70  (231)
207 cd01371 KISc_KIF3 Kinesin moto  95.6  0.0097 2.5E-07   39.1   2.9   87  139-233    48-142 (333)
208 cd01394 radB RadB. The archaea  95.6    0.09 2.3E-06   31.8   7.7   53  156-209     7-63  (218)
209 pfam00437 GSPII_E Type II/IV s  95.6    0.14 3.7E-06   30.3   8.7   45  150-194   121-165 (283)
210 PRK09354 recA recombinase A; P  95.6    0.07 1.8E-06   32.6   7.1   92  162-282    55-151 (350)
211 KOG0247 consensus               95.5   0.012 3.1E-07   38.4   2.9   54  139-193    81-140 (809)
212 cd01373 KISc_KLP2_like Kinesin  95.5  0.0095 2.4E-07   39.1   2.4   91  140-233    42-145 (337)
213 PRK06995 flhF flagellar biosyn  95.3     0.1 2.5E-06   31.5   7.3   84  170-302   178-266 (404)
214 pfam00154 RecA recA bacterial   95.3   0.083 2.1E-06   32.1   6.9   51  162-213    47-100 (322)
215 PRK12726 flagellar biosynthesi  95.3   0.026 6.6E-07   35.8   4.2   34  169-202   207-243 (407)
216 cd00983 recA RecA is a  bacter  95.3    0.12 3.1E-06   30.8   7.6   51  162-213    50-103 (325)
217 COG3972 Superfamily I DNA and   95.3   0.018 4.7E-07   37.0   3.3  104  589-709   484-591 (660)
218 PRK06731 flhF flagellar biosyn  95.3    0.21 5.4E-06   29.0   8.7   93   79-202     7-112 (270)
219 KOG0388 consensus               95.2    0.27 6.8E-06   28.3  12.2  119  566-689  1028-1148(1185)
220 pfam00308 Bac_DnaA Bacterial d  95.2    0.28 7.1E-06   28.1   9.8   96  168-281    34-141 (219)
221 TIGR02533 type_II_gspE general  95.1    0.23 5.8E-06   28.8   8.6   93  151-277   228-322 (495)
222 COG2805 PilT Tfp pilus assembl  95.1    0.13 3.4E-06   30.5   7.4  138  154-357   114-263 (353)
223 PRK11784 tRNA 2-selenouridine   95.1   0.036 9.1E-07   34.8   4.4   52  158-219   129-180 (333)
224 PRK12727 flagellar biosynthesi  95.1    0.29 7.3E-06   28.0   9.9   97  583-691   380-493 (557)
225 PRK11054 helD DNA helicase IV;  95.1   0.053 1.3E-06   33.5   5.2   70  152-228   200-278 (684)
226 cd01122 GP4d_helicase GP4d_hel  95.0   0.041   1E-06   34.4   4.5   62  156-219    19-84  (271)
227 smart00491 HELICc2 helicase su  95.0     0.2 5.1E-06   29.2   8.0   74  616-689    28-136 (142)
228 COG1201 Lhr Lhr-like helicases  95.0    0.25 6.4E-06   28.5   8.5   58  153-215    27-95  (814)
229 PRK12377 putative replication   95.0    0.16 4.2E-06   29.9   7.5   63  152-219    82-150 (248)
230 KOG0245 consensus               94.9   0.024 6.1E-07   36.1   3.0   95  112-232    44-148 (1221)
231 cd01127 TrwB Bacterial conjuga  94.9   0.057 1.4E-06   33.3   4.9   39  168-206    42-83  (410)
232 smart00382 AAA ATPases associa  94.8    0.31   8E-06   27.8   8.6   45  169-213     3-50  (148)
233 TIGR02639 ClpA ATP-dependent C  94.8   0.062 1.6E-06   33.0   4.9  116   72-192   105-256 (774)
234 cd00984 DnaB_C DnaB helicase C  94.8   0.095 2.4E-06   31.6   5.8   60  157-218     3-66  (242)
235 COG1484 DnaC DNA replication p  94.8    0.17 4.3E-06   29.7   7.1   67  147-220    83-155 (254)
236 KOG1805 consensus               94.8   0.047 1.2E-06   33.9   4.2  125  150-303   671-809 (1100)
237 PRK08006 replicative DNA helic  94.7    0.35 8.9E-06   27.4  10.2   63  155-219   212-278 (471)
238 PRK13767 ATP-dependent helicas  94.7    0.32 8.2E-06   27.7   8.4  121  148-302    32-184 (878)
239 pfam01695 IstB IstB-like ATP b  94.7    0.36 9.2E-06   27.3   9.0   61  153-219    31-96  (178)
240 cd03115 SRP The signal recogni  94.6    0.39 9.8E-06   27.1   8.9   32  171-202     3-37  (173)
241 PRK06921 hypothetical protein;  94.5    0.27 6.8E-06   28.3   7.7   46  167-217   115-164 (265)
242 TIGR02759 TraD_Ftype type IV c  94.5   0.039 9.9E-07   34.5   3.4   31  169-199   209-242 (613)
243 pfam10412 TrwB_AAD_bind Type I  94.5   0.085 2.2E-06   32.0   5.1   43  166-208    13-58  (386)
244 KOG0239 consensus               94.5   0.048 1.2E-06   33.8   3.7   17  644-660   476-492 (670)
245 PRK11889 flhF flagellar biosyn  94.5    0.41   1E-05   26.9  10.9  109  153-312   216-342 (436)
246 TIGR03346 chaperone_ClpB ATP-d  94.5    0.13 3.2E-06   30.7   5.8   39  153-191   178-217 (852)
247 TIGR03167 tRNA_sel_U_synt tRNA  94.4   0.069 1.8E-06   32.7   4.5   46  166-219   125-170 (311)
248 KOG4280 consensus               94.4   0.045 1.1E-06   34.1   3.5   84  139-232    52-144 (574)
249 KOG0240 consensus               94.4    0.13 3.2E-06   30.7   5.7   86  139-232    49-143 (607)
250 cd01131 PilT Pilus retraction   94.4    0.25 6.5E-06   28.4   7.2   32  171-202     4-37  (198)
251 pfam01935 DUF87 Domain of unkn  94.3    0.06 1.5E-06   33.1   4.0   34  169-202    24-61  (218)
252 TIGR00631 uvrb excinuclease AB  94.3    0.36 9.1E-06   27.3   7.9  286    8-400   242-599 (667)
253 COG3604 FhlA Transcriptional r  94.3    0.18 4.5E-06   29.6   6.3   92  153-303   228-330 (550)
254 PRK04537 ATP-dependent RNA hel  94.3    0.44 1.1E-05   26.6  11.2  161  149-354    32-215 (574)
255 cd01363 Motor_domain Myosin an  94.3   0.026 6.6E-07   35.9   2.0   31  157-187    12-43  (186)
256 PRK06645 DNA polymerase III su  94.2   0.073 1.9E-06   32.5   4.2  111  153-303    26-141 (507)
257 COG3857 AddB ATP-dependent nuc  94.1    0.19 4.8E-06   29.4   6.1   10  671-680   944-953 (1108)
258 PRK08727 hypothetical protein;  94.1    0.48 1.2E-05   26.4  10.0  107  155-281    27-137 (233)
259 KOG0389 consensus               94.0    0.49 1.3E-05   26.3  20.0  120  565-689   760-884 (941)
260 cd01126 TraG_VirD4 The TraG/Tr  94.0    0.35 8.8E-06   27.4   7.3   53  170-225     1-55  (384)
261 KOG0921 consensus               94.0    0.13 3.2E-06   30.7   5.0   85  606-690   674-771 (1282)
262 PRK13894 conjugal transfer ATP  93.9    0.51 1.3E-05   26.1   8.2   32  160-192   142-173 (320)
263 PRK13851 type IV secretion sys  93.9     0.5 1.3E-05   26.2   8.0   87  160-278   155-245 (343)
264 TIGR00595 priA primosomal prot  93.9   0.012   3E-07   38.4  -0.3  113  381-540   156-272 (524)
265 PRK12723 flagellar biosynthesi  93.9     0.4   1E-05   27.0   7.4   24  169-192   175-198 (388)
266 TIGR03345 VI_ClpV1 type VI sec  93.8    0.18 4.6E-06   29.6   5.6   45  147-191   186-231 (852)
267 KOG0246 consensus               93.8   0.029 7.3E-07   35.5   1.5   43  141-185   260-309 (676)
268 PRK06067 flagellar accessory p  93.8    0.44 1.1E-05   26.6   7.5   58  157-216    21-82  (241)
269 CHL00095 clpC Clp protease ATP  93.7    0.18 4.7E-06   29.5   5.5   39  153-191   184-223 (823)
270 cd00009 AAA The AAA+ (ATPases   93.7    0.41   1E-05   26.9   7.2   42  152-193     2-44  (151)
271 PRK13833 conjugal transfer pro  93.6    0.57 1.5E-05   25.8   8.2   83  159-279   136-225 (323)
272 cd01123 Rad51_DMC1_radA Rad51_  93.6    0.52 1.3E-05   26.1   7.7   39  155-194     6-45  (235)
273 COG0513 SrmB Superfamily II DN  93.6    0.57 1.5E-05   25.8  11.3  160  148-352    51-226 (513)
274 PRK08769 DNA polymerase III su  93.6    0.18 4.6E-06   29.6   5.3   47  144-192     2-50  (319)
275 PRK10865 protein disaggregatio  93.6    0.19 4.9E-06   29.3   5.4   65  153-217   183-263 (857)
276 PRK09361 radB DNA repair and r  93.5    0.55 1.4E-05   25.9   7.7   47  155-202    10-60  (224)
277 KOG0701 consensus               93.5   0.027 6.9E-07   35.7   1.0   77  618-699   707-796 (1606)
278 TIGR03029 EpsG chain length de  93.5    0.17 4.3E-06   29.7   5.0   64  140-203    70-142 (274)
279 PRK06893 DNA replication initi  93.4    0.45 1.1E-05   26.6   7.1  106  151-278    21-133 (229)
280 PRK12402 replication factor C   93.4    0.22 5.7E-06   28.9   5.5   40  153-192    20-60  (337)
281 pfam02562 PhoH PhoH-like prote  93.3    0.23 5.9E-06   28.8   5.4  132  152-316     8-144 (205)
282 PRK08082 consensus              93.3     0.4   1E-05   27.0   6.6   63  155-219   191-257 (453)
283 COG1474 CDC6 Cdc6-related prot  93.3    0.58 1.5E-05   25.7   7.4   67  152-218    24-98  (366)
284 COG3267 ExeA Type II secretory  93.2    0.58 1.5E-05   25.7   7.4   61  152-212    35-97  (269)
285 COG1519 KdtA 3-deoxy-D-manno-o  93.2    0.66 1.7E-05   25.3   8.0   45  171-220    52-101 (419)
286 COG0542 clpA ATP-binding subun  93.2    0.22 5.5E-06   28.9   5.2   45  147-191   169-214 (786)
287 PRK00440 rfc replication facto  93.1     0.2 5.2E-06   29.1   4.9   40  153-192    21-61  (318)
288 PRK13700 conjugal transfer pro  93.1    0.14 3.5E-06   30.5   4.0   39  169-207   186-227 (732)
289 TIGR02640 gas_vesic_GvpN gas v  93.1    0.14 3.5E-06   30.4   4.0   61  154-215     4-69  (265)
290 TIGR02782 TrbB_P P-type conjug  93.0    0.38 9.7E-06   27.1   6.2   48  155-224   127-175 (315)
291 PRK08084 DNA replication initi  93.0    0.71 1.8E-05   25.1  11.4  111  147-280    24-141 (235)
292 PRK05748 replicative DNA helic  92.9    0.73 1.9E-05   25.0   9.4   63  155-219   191-257 (448)
293 COG0210 UvrD Superfamily I DNA  92.9    0.44 1.1E-05   26.6   6.3   50  169-218    16-72  (655)
294 COG0468 RecA RecA/RadA recombi  92.9    0.74 1.9E-05   24.9   7.7  107  155-292    47-160 (279)
295 pfam00004 AAA ATPase family as  92.8    0.47 1.2E-05   26.5   6.4   30  172-201     2-31  (131)
296 PRK05541 adenylylsulfate kinas  92.7    0.46 1.2E-05   26.5   6.2   78  169-282     8-89  (176)
297 PRK00149 dnaA chromosomal repl  92.7    0.78   2E-05   24.8   9.1  126  168-346   145-282 (447)
298 TIGR01389 recQ ATP-dependent D  92.6    0.58 1.5E-05   25.7   6.7   90  176-297   194-301 (607)
299 KOG1802 consensus               92.6    0.29 7.4E-06   28.0   5.1   63  142-215   410-476 (935)
300 pfam10236 DAP3 Mitochondrial r  92.5     0.4   1E-05   27.0   5.7   47  156-202    10-59  (274)
301 TIGR03420 DnaA_homol_Hda DnaA   92.3    0.86 2.2E-05   24.5  10.1  107  151-280    20-133 (226)
302 PRK04328 hypothetical protein;  92.3    0.42 1.1E-05   26.8   5.7   59  157-218    13-75  (250)
303 PRK06762 hypothetical protein;  92.3    0.83 2.1E-05   24.6   7.1   31  170-200     4-34  (166)
304 PRK11773 uvrD DNA-dependent he  92.3    0.16   4E-06   30.0   3.4   70  152-228    13-93  (722)
305 pfam00448 SRP54 SRP54-type pro  92.3    0.87 2.2E-05   24.4   9.2   33  170-202     3-38  (196)
306 PRK07667 uridine kinase; Provi  92.2    0.53 1.4E-05   26.0   6.1   35  173-207    19-56  (190)
307 pfam08423 Rad51 Rad51. Rad51 i  92.2    0.64 1.6E-05   25.4   6.5   36  155-191    30-66  (261)
308 TIGR02538 type_IV_pilB type IV  92.1    0.21 5.4E-06   29.0   3.9   45  147-196   310-354 (577)
309 cd01124 KaiC KaiC is a circadi  92.0    0.94 2.4E-05   24.2  10.2   45  171-216     2-49  (187)
310 PRK08840 replicative DNA helic  91.9    0.59 1.5E-05   25.7   6.0   63  155-219   205-271 (464)
311 PRK07263 consensus              91.9    0.62 1.6E-05   25.5   6.1   62  155-218   191-256 (453)
312 PHA00350 putative assembly pro  91.8    0.13 3.2E-06   30.7   2.5   53  170-227     3-62  (402)
313 TIGR02773 addB_Gpos ATP-depend  91.8    0.25 6.4E-06   28.5   4.1   47  170-217     3-55  (1192)
314 PRK08694 consensus              91.8    0.68 1.7E-05   25.2   6.2   63  155-219   206-272 (468)
315 TIGR01313 therm_gnt_kin carboh  91.7    0.13 3.2E-06   30.7   2.4   22  171-192     1-22  (175)
316 COG0593 DnaA ATPase involved i  91.7       1 2.6E-05   24.0  10.8  143  150-346    94-249 (408)
317 PRK09183 transposase/IS protei  91.6    0.68 1.7E-05   25.2   6.0   61  153-219    85-150 (258)
318 pfam01745 IPT Isopentenyl tran  91.6    0.23 5.8E-06   28.8   3.6   40  170-214     3-42  (232)
319 PRK09302 circadian clock prote  91.6       1 2.6E-05   23.9   9.5  111  157-282    13-136 (501)
320 cd01130 VirB11-like_ATPase Typ  91.5    0.57 1.5E-05   25.8   5.6   37  156-193    14-50  (186)
321 PRK08903 hypothetical protein;  91.5    0.89 2.3E-05   24.3   6.5   53  151-203    23-80  (227)
322 PRK12323 DNA polymerase III su  91.5    0.51 1.3E-05   26.2   5.3  110  153-303    21-137 (721)
323 PRK11034 clpA ATP-dependent Cl  91.4    0.23 5.9E-06   28.7   3.5   39  153-191   191-230 (758)
324 COG0714 MoxR-like ATPases [Gen  91.3    0.75 1.9E-05   24.9   6.0   60  153-213    29-89  (329)
325 PRK08691 DNA polymerase III su  91.2    0.46 1.2E-05   26.5   4.9   38  153-191    21-60  (704)
326 PRK06526 transposase; Provisio  91.2     1.1 2.9E-05   23.6   8.0   61  153-219    82-147 (254)
327 PRK08506 replicative DNA helic  91.2    0.82 2.1E-05   24.6   6.1   63  155-219   181-246 (473)
328 TIGR00064 ftsY signal recognit  91.1    0.24 6.2E-06   28.6   3.3   75  143-218    54-137 (284)
329 PTZ00301 uridine kinase; Provi  91.0     1.2 2.9E-05   23.5   6.9   75  173-272     8-85  (210)
330 PRK08533 flagellar accessory p  91.0       1 2.6E-05   23.9   6.4   59  159-220    16-77  (230)
331 TIGR02237 recomb_radB DNA repa  91.0     1.2   3E-05   23.5   7.6  114  163-356     8-124 (223)
332 PRK08760 replicative DNA helic  90.9       1 2.6E-05   23.8   6.4   63  155-219   217-283 (476)
333 PRK07764 DNA polymerase III su  90.8    0.59 1.5E-05   25.7   5.1  110  153-303    20-133 (775)
334 PRK05595 replicative DNA helic  90.8     1.2   3E-05   23.4   6.6   63  155-219   189-255 (444)
335 PRK07004 replicative DNA helic  90.7    0.99 2.5E-05   24.0   6.2   63  155-219   201-267 (460)
336 PRK08770 DNA polymerase III su  90.7     0.6 1.5E-05   25.6   5.0  106  153-303    21-132 (663)
337 PRK04195 replication factor C   90.7     1.1 2.9E-05   23.6   6.4   43  153-195    19-67  (403)
338 PRK06749 replicative DNA helic  90.6     1.1 2.7E-05   23.8   6.2   62  155-218   174-238 (428)
339 PRK00139 murE UDP-N-acetylmura  90.4    0.72 1.8E-05   25.0   5.2   47  152-198    80-131 (481)
340 PRK12724 flagellar biosynthesi  90.4       1 2.7E-05   23.8   6.0   31  169-199   224-258 (432)
341 KOG0244 consensus               90.2    0.38 9.7E-06   27.1   3.7   59  130-188    23-86  (913)
342 PRK13900 type IV secretion sys  90.2     1.4 3.5E-05   23.0   8.6   95  158-279   151-245 (332)
343 COG5008 PilU Tfp pilus assembl  90.2     1.1 2.9E-05   23.5   6.1   94  153-279   115-210 (375)
344 PRK08181 transposase; Validate  90.1     1.4 3.5E-05   23.0   7.4   66  147-219    84-155 (269)
345 PRK06696 uridine kinase; Valid  90.1     1.1 2.7E-05   23.8   5.8   59  150-208     4-69  (227)
346 COG0630 VirB11 Type IV secreto  90.0     1.4 3.6E-05   22.9   8.9   97  153-278   129-226 (312)
347 COG1419 FlhF Flagellar GTP-bin  89.9     1.4 3.6E-05   22.8  11.9  141  153-346   183-328 (407)
348 PRK06872 DNA polymerase III su  89.8    0.65 1.7E-05   25.3   4.6   38  153-191    21-60  (696)
349 PRK05642 DNA replication initi  89.7     1.5 3.8E-05   22.7  12.0  109  151-281    24-141 (234)
350 PRK13830 conjugal transfer pro  89.6    0.94 2.4E-05   24.2   5.3   38  419-456   355-394 (818)
351 PRK13891 conjugal transfer pro  89.6    0.99 2.5E-05   24.0   5.4   26  420-445   387-412 (852)
352 cd01120 RecA-like_NTPases RecA  89.6     1.5 3.8E-05   22.7   9.2   44  171-215     2-48  (165)
353 PRK10416 cell division protein  89.5     1.5 3.9E-05   22.6   8.7   23  673-695   404-426 (499)
354 PRK06321 replicative DNA helic  89.5     1.4 3.7E-05   22.8   6.2   63  154-218   213-279 (472)
355 TIGR02785 addA_Gpos recombinat  89.4    0.34 8.7E-06   27.5   2.9   37  172-216   588-625 (1295)
356 KOG2543 consensus               89.3    0.59 1.5E-05   25.7   4.0   49  154-202    12-64  (438)
357 PRK09825 idnK D-gluconate kina  89.1    0.61 1.5E-05   25.6   4.0   27  169-195     4-30  (176)
358 PRK05636 replicative DNA helic  89.1     1.6 4.1E-05   22.4   6.5   63  155-219   255-321 (507)
359 TIGR02524 dot_icm_DotB Dot/Icm  89.0    0.79   2E-05   24.7   4.6   91  158-277   124-220 (358)
360 KOG1808 consensus               89.0    0.94 2.4E-05   24.2   4.9   67  145-211   417-484 (1856)
361 cd02021 GntK Gluconate kinase   88.9    0.49 1.3E-05   26.3   3.5   23  171-193     2-24  (150)
362 COG3451 VirB4 Type IV secretor  88.9     1.7 4.3E-05   22.3   6.9   23  170-192   438-460 (796)
363 PRK11930 putative bifunctional  88.5     1.8 4.5E-05   22.1   6.3   38  140-184    86-124 (824)
364 pfam00006 ATP-synt_ab ATP synt  88.5     1.8 4.5E-05   22.1   8.3   54  165-219    13-66  (213)
365 PRK00091 miaA tRNA delta(2)-is  88.4    0.67 1.7E-05   25.3   3.9   41  168-213     4-44  (304)
366 COG0552 FtsY Signal recognitio  88.4    0.64 1.6E-05   25.4   3.8   39  169-207   140-181 (340)
367 TIGR02621 cas3_GSU0051 CRISPR-  88.3    0.17 4.4E-06   29.7   0.8   97  582-686   311-427 (975)
368 PRK06904 replicative DNA helic  88.3     1.8 4.6E-05   22.0   9.1   63  155-219   209-275 (472)
369 PRK10536 hypothetical protein;  88.3     1.8 4.7E-05   22.0  10.1  136  152-319    63-204 (262)
370 COG1221 PspF Transcriptional r  88.2     1.1 2.9E-05   23.6   4.9   70  154-225    88-159 (403)
371 KOG0736 consensus               88.2     1.5 3.7E-05   22.7   5.5  118  153-289   406-551 (953)
372 PRK09165 replicative DNA helic  87.9     1.9 4.9E-05   21.9   6.1   63  155-219   193-273 (484)
373 TIGR01074 rep ATP-dependent DN  87.9    0.36 9.1E-06   27.3   2.2   59  153-219     8-70  (677)
374 pfam06414 Zeta_toxin Zeta toxi  87.8    0.91 2.3E-05   24.3   4.2   42  169-219    13-55  (191)
375 PRK06305 DNA polymerase III su  87.8     1.1 2.9E-05   23.5   4.7  109  153-303    22-134 (462)
376 PRK07003 DNA polymerase III su  87.6     1.3 3.4E-05   23.0   5.0   38  153-191    21-60  (816)
377 pfam01580 FtsK_SpoIIIE FtsK/Sp  87.6    0.42 1.1E-05   26.8   2.4   36  169-204    39-80  (202)
378 pfam01949 DUF99 Protein of unk  87.6       2 5.1E-05   21.7   6.2   68  152-219    47-116 (185)
379 PRK08058 DNA polymerase III su  87.5     1.4 3.7E-05   22.8   5.1   44  149-192     7-52  (329)
380 PRK11545 gntK gluconate kinase  87.2    0.87 2.2E-05   24.4   3.8   26  169-194     9-34  (177)
381 COG2204 AtoC Response regulato  87.2     2.1 5.3E-05   21.6   7.4   65  153-221   146-217 (464)
382 PRK00771 signal recognition pa  87.2     2.1 5.3E-05   21.6  12.1  126   75-227    20-158 (433)
383 COG5059 KIP1 Kinesin-like prot  87.1    0.45 1.2E-05   26.5   2.4   81  141-232    58-147 (568)
384 TIGR00376 TIGR00376 DNA helica  87.1     2.1 5.4E-05   21.5   7.6  119  100-224   151-279 (709)
385 pfam10593 Z1 Z1 domain. This u  87.1     1.7 4.3E-05   22.3   5.3   92  630-729   125-221 (231)
386 PRK04301 radA DNA repair and r  87.0     2.1 5.4E-05   21.5   9.6   37  155-192    90-127 (318)
387 cd02024 NRK1 Nicotinamide ribo  87.0    0.75 1.9E-05   24.9   3.4   41  173-241     4-44  (187)
388 PRK08233 hypothetical protein;  86.9     0.6 1.5E-05   25.6   2.9   22  172-193     7-28  (182)
389 PRK05917 DNA polymerase III su  86.7     1.3 3.4E-05   23.1   4.6   40  153-192     2-43  (290)
390 PRK13889 conjugal transfer rel  86.7     2.2 5.6E-05   21.4   8.5   53  146-202   344-399 (992)
391 TIGR00382 clpX ATP-dependent C  86.7    0.76 1.9E-05   24.9   3.3   41  155-196   140-180 (452)
392 COG0464 SpoVK ATPases of the A  86.7     2.2 5.6E-05   21.4   5.8   23  169-191    19-41  (494)
393 TIGR01143 murF UDP-N-acetylmur  86.7    0.75 1.9E-05   24.9   3.3   43  152-194    63-111 (462)
394 PRK07133 DNA polymerase III su  86.6     1.7 4.3E-05   22.3   5.0  116  153-314    23-144 (718)
395 TIGR00455 apsK adenylylsulfate  86.6    0.88 2.3E-05   24.4   3.6   33  166-199    15-53  (187)
396 COG1074 RecB ATP-dependent exo  86.3       2   5E-05   21.8   5.3   26  635-660   744-769 (1139)
397 PRK10867 signal recognition pa  86.3     2.3 5.9E-05   21.2  12.7   57  171-228   103-163 (453)
398 COG0529 CysC Adenylylsulfate k  86.2     1.2 2.9E-05   23.5   4.0   31  169-200    24-58  (197)
399 PRK13826 Dtr system oriT relax  86.2     2.3 5.9E-05   21.2   7.9  131  147-288   380-517 (1102)
400 smart00242 MYSc Myosin. Large   86.2     1.4 3.6E-05   22.8   4.5   33  155-190    81-114 (677)
401 TIGR00603 rad25 DNA repair hel  86.1     1.1 2.7E-05   23.8   3.8  113  153-301   274-401 (756)
402 COG4962 CpaF Flp pilus assembl  86.1     1.5 3.9E-05   22.5   4.6   97  152-280   161-259 (355)
403 PTZ00112 origin recognition co  86.0       1 2.7E-05   23.8   3.7   16  522-537   292-307 (650)
404 PRK13873 conjugal transfer ATP  86.0     1.7 4.2E-05   22.3   4.7   36  421-456   345-382 (815)
405 PRK11331 5-methylcytosine-spec  86.0     2.1 5.3E-05   21.6   5.3   35  157-192   184-218 (459)
406 pfam01443 Viral_helicase1 Vira  85.9    0.79   2E-05   24.7   3.1   29  172-203     2-30  (226)
407 PRK03846 adenylylsulfate kinas  85.7     1.1 2.8E-05   23.7   3.7   76  169-279    25-104 (198)
408 PRK05342 clpX ATP-dependent pr  85.7       1 2.6E-05   23.9   3.6   31  169-199   110-140 (411)
409 PRK10876 recB exonuclease V su  85.7     1.3 3.4E-05   23.0   4.1   35  182-217   427-461 (1181)
410 PRK00889 adenylylsulfate kinas  85.6     1.1 2.9E-05   23.6   3.8   81  166-282     3-87  (175)
411 TIGR01846 type_I_sec_HlyB type  85.2     2.6 6.6E-05   20.9   6.4   95   94-192   409-514 (703)
412 COG3421 Uncharacterized protei  85.2    0.36 9.2E-06   27.3   1.0   32  174-205     3-38  (812)
413 pfam01583 APS_kinase Adenylyls  85.2     1.6   4E-05   22.5   4.3   79  169-282     3-85  (157)
414 COG0324 MiaA tRNA delta(2)-iso  84.9     1.3 3.4E-05   23.1   3.8   40  169-213     4-43  (308)
415 pfam00485 PRK Phosphoribulokin  84.7     2.7   7E-05   20.7   5.8   23  172-194     3-25  (196)
416 TIGR00929 VirB4_CagE type IV s  84.6    0.84 2.1E-05   24.5   2.7   53  136-194   490-542 (931)
417 PRK09270 frcK putative fructos  84.6     2.8   7E-05   20.7   8.9   48  140-192     6-58  (230)
418 cd00124 MYSc Myosin motor doma  84.6     1.9 4.9E-05   21.8   4.6   33  155-190    75-108 (679)
419 COG1444 Predicted P-loop ATPas  84.5     2.8 7.1E-05   20.6   7.7   70  148-217   211-285 (758)
420 PRK07399 DNA polymerase III su  84.4     2.4 6.2E-05   21.1   5.0   41  152-192     8-50  (314)
421 TIGR00609 recB exodeoxyribonuc  84.3     1.8 4.7E-05   22.0   4.3  153  169-333    10-193 (1324)
422 pfam01121 CoaE Dephospho-CoA k  84.2    0.93 2.4E-05   24.2   2.8   47  173-220     5-55  (179)
423 PRK05201 hslU ATP-dependent pr  84.1     1.4 3.6E-05   22.8   3.7   31  169-199    51-81  (442)
424 pfam02534 TraG TraG/TraD famil  84.1     2.9 7.4E-05   20.5   6.2   57  166-225    42-100 (468)
425 TIGR02788 VirB11 P-type DNA tr  84.0     1.6 4.2E-05   22.4   4.0   58  160-229   151-213 (328)
426 TIGR02868 CydC ABC transporter  84.0     0.7 1.8E-05   25.1   2.1   83  141-228   363-450 (566)
427 PRK08451 DNA polymerase III su  83.9     2.8 7.1E-05   20.6   5.1   40  153-192    19-60  (523)
428 pfam00063 Myosin_head Myosin h  83.9     2.3 5.8E-05   21.3   4.7   34  154-190    73-107 (679)
429 cd02027 APSK Adenosine 5'-phos  83.7     1.5 3.9E-05   22.6   3.7   77  171-282     2-82  (149)
430 PRK07994 DNA polymerase III su  83.6     2.4 6.1E-05   21.2   4.7   38  153-191    21-60  (643)
431 pfam07728 AAA_5 AAA domain (dy  83.5    0.89 2.3E-05   24.3   2.5   29  171-199     2-31  (139)
432 TIGR02142 modC_ABC molybdate A  83.5     1.1 2.9E-05   23.6   3.0  115  140-347    11-129 (361)
433 PRK05537 bifunctional sulfate   83.5       3 7.7E-05   20.4   5.2   99  576-687   359-468 (568)
434 COG1435 Tdk Thymidine kinase [  83.3     2.6 6.6E-05   20.9   4.8   51  171-234     7-60  (201)
435 cd01381 MYSc_type_VII Myosin m  83.3     2.4 6.1E-05   21.1   4.6   35  154-191    74-109 (671)
436 KOG2373 consensus               83.3    0.52 1.3E-05   26.1   1.2   39  186-225   135-173 (514)
437 COG0467 RAD55 RecA-superfamily  82.9       2 5.2E-05   21.7   4.1   61  157-220    12-76  (260)
438 cd01378 MYSc_type_I Myosin mot  82.9     2.5 6.5E-05   20.9   4.6   32  156-190    76-108 (674)
439 cd01385 MYSc_type_IX Myosin mo  82.9     2.5 6.5E-05   20.9   4.6   33  155-190    83-116 (692)
440 cd01384 MYSc_type_XI Myosin mo  82.8     2.6 6.6E-05   20.9   4.6   33  155-190    77-110 (674)
441 PRK05896 DNA polymerase III su  82.8     3.1 7.8E-05   20.3   5.0   40  153-192    21-62  (613)
442 TIGR03453 partition_RepA plasm  82.7     3.2 8.3E-05   20.1   8.1   93   98-219    44-153 (387)
443 pfam07726 AAA_3 ATPase family   82.5     1.8 4.5E-05   22.1   3.6   30  170-199     1-30  (131)
444 COG1219 ClpX ATP-dependent pro  82.4     1.8 4.7E-05   22.0   3.7   31  166-196    95-125 (408)
445 PRK05564 DNA polymerase III su  82.2     3.2 8.2E-05   20.2   4.9   39  153-191     9-49  (313)
446 PRK13898 type IV secretion sys  82.2     1.1 2.8E-05   23.7   2.5   56  629-691   587-649 (800)
447 PRK09111 DNA polymerase III su  82.1     3.3 8.3E-05   20.1   4.9  106  153-304    28-145 (600)
448 PRK11929 putative bifunctional  81.8     3.5 8.9E-05   19.9   6.1   47  152-198    91-142 (953)
449 cd01377 MYSc_type_II Myosin mo  81.8     2.9 7.3E-05   20.5   4.5   33  155-190    80-113 (693)
450 KOG3308 consensus               81.7     2.5 6.5E-05   21.0   4.2   51  173-251     9-60  (225)
451 KOG0745 consensus               81.7     1.8 4.5E-05   22.1   3.4   39  168-207   226-264 (564)
452 pfam03237 Terminase_6 Terminas  81.5     3.6 9.1E-05   19.8   6.0   47  172-218     1-53  (380)
453 PRK13869 plasmid-partitioning   81.3     3.6 9.2E-05   19.8   8.2   92   98-218    59-169 (405)
454 cd01379 MYSc_type_III Myosin m  81.3       3 7.6E-05   20.4   4.4   35  154-190    74-108 (653)
455 PRK07940 DNA polymerase III su  81.0     3.5   9E-05   19.9   4.7   40  153-192    10-63  (395)
456 cd02025 PanK Pantothenate kina  81.0     3.7 9.5E-05   19.7   6.2   18  173-191     4-21  (220)
457 cd01387 MYSc_type_XV Myosin mo  80.9     3.6 9.3E-05   19.8   4.8   35  154-190    75-109 (677)
458 COG2607 Predicted ATPase (AAA+  80.7     3.8 9.7E-05   19.6  10.3  152  152-348    67-233 (287)
459 TIGR03375 type_I_sec_LssB type  80.2     3.2 8.2E-05   20.2   4.3   24  772-795   626-649 (694)
460 PRK13342 recombination factor   80.0       4  0.0001   19.5  10.8   46  153-199    18-68  (417)
461 PRK07471 DNA polymerase III su  80.0       4  0.0001   19.5   5.0   40  153-192    22-63  (363)
462 cd01380 MYSc_type_V Myosin mot  79.8     3.8 9.7E-05   19.6   4.6   34  155-190    75-108 (691)
463 cd01382 MYSc_type_VI Myosin mo  79.8     3.9 9.9E-05   19.6   4.6   23  168-190    91-113 (717)
464 KOG0054 consensus               79.8     3.1 7.9E-05   20.3   4.1   55  138-194   519-573 (1381)
465 TIGR01271 CFTR_protein cystic   79.7     2.3 5.9E-05   21.2   3.5   35  613-649   809-844 (1534)
466 smart00851 MGS MGS-like domain  79.7     2.6 6.5E-05   20.9   3.7   61  572-640     3-63  (90)
467 cd01386 MYSc_type_XVIII Myosin  79.6       4  0.0001   19.5   4.7   33  155-190    75-108 (767)
468 cd03258 ABC_MetN_methionine_tr  79.4    0.25 6.5E-06   28.4  -1.5   51  143-195     7-57  (233)
469 pfam02367 UPF0079 Uncharacteri  79.2     2.7 6.8E-05   20.8   3.7   65  158-233     6-70  (123)
470 pfam05872 DUF853 Bacterial pro  79.2     2.3 5.9E-05   21.2   3.3   50  167-216    20-81  (504)
471 pfam02456 Adeno_IVa2 Adenoviru  79.2     1.9 4.9E-05   21.8   2.9   35  171-205    90-129 (370)
472 cd01383 MYSc_type_VIII Myosin   79.0       4  0.0001   19.4   4.5   34  154-190    80-114 (677)
473 PRK12422 chromosomal replicati  79.0     4.3 0.00011   19.3   9.1  126  168-346   141-276 (455)
474 pfam06068 TIP49 TIP49 C-termin  78.9     4.3 0.00011   19.2   5.1   65  153-217    29-107 (395)
475 PRK09087 hypothetical protein;  78.8     4.3 0.00011   19.2   4.9  119  153-301    29-152 (226)
476 TIGR02903 spore_lon_C ATP-depe  78.5     2.3   6E-05   21.2   3.2   40  153-193   160-200 (616)
477 smart00072 GuKc Guanylate kina  78.3     3.4 8.6E-05   20.0   3.9   36  169-204     3-38  (184)
478 pfam09439 SRPRB Signal recogni  78.3     2.4 6.2E-05   21.1   3.2   24  168-191     3-26  (181)
479 PRK10773 murF UDP-N-acetylmura  78.2     4.5 0.00011   19.1   4.6   32  152-184    82-114 (452)
480 pfam06309 Torsin Torsin. This   78.2     3.4 8.6E-05   20.0   3.9   37  153-190    30-74  (127)
481 PRK13634 cbiO cobalt transport  77.7     0.5 1.3E-05   26.2  -0.5   41  152-194     5-45  (276)
482 CHL00195 ycf46 Ycf46; Provisio  77.6     3.9   1E-04   19.5   4.1   28  674-705   376-404 (491)
483 cd00464 SK Shikimate kinase (S  77.6     4.7 0.00012   19.0   5.3   36  171-206     2-37  (154)
484 PRK13909 putative recombinatio  77.6       4  0.0001   19.4   4.2   19  635-653   602-620 (911)
485 PRK13721 conjugal transfer ATP  77.4     3.4 8.6E-05   20.0   3.7   17  693-709   700-716 (864)
486 KOG3354 consensus               77.4     2.8 7.1E-05   20.6   3.3   25  170-194    14-38  (191)
487 PRK13853 type IV secretion sys  77.3     1.6 4.1E-05   22.4   2.1   25  420-444   331-355 (789)
488 cd03296 ABC_CysA_sulfate_impor  77.3       2 5.1E-05   21.7   2.5   39  155-195    16-54  (239)
489 COG0606 Predicted ATPase with   77.1     3.4 8.7E-05   20.0   3.7   39  146-185   177-215 (490)
490 PRK10646 putative ATPase; Prov  77.0     4.5 0.00012   19.1   4.3   71  152-233    12-83  (153)
491 PRK05506 bifunctional sulfate   76.8     4.4 0.00011   19.2   4.2   64  588-688   453-519 (613)
492 COG5271 MDN1 AAA ATPase contai  76.7     4.9 0.00013   18.8   5.6   36  153-189   450-485 (4600)
493 PRK08853 DNA polymerase III su  76.7     4.9 0.00013   18.8   4.8   38  153-191    21-60  (717)
494 pfam01078 Mg_chelatase Magnesi  76.7     4.3 0.00011   19.2   4.1   33  153-186     8-40  (207)
495 pfam05729 NACHT NACHT domain.   76.5     2.6 6.5E-05   20.9   2.9   23  169-191     1-23  (165)
496 cd02023 UMPK Uridine monophosp  76.4     3.2 8.2E-05   20.2   3.4   22  172-193     3-24  (198)
497 PRK03992 proteasome-activating  76.3       5 0.00013   18.7   6.1   33  169-201   167-199 (390)
498 cd02022 DPCK Dephospho-coenzym  76.1     3.9 9.9E-05   19.6   3.7   48  172-220     3-54  (179)
499 PRK07270 DNA polymerase III su  76.0     5.1 0.00013   18.7   5.2   40  153-192    20-61  (557)
500 PRK07576 short chain dehydroge  76.0     5.1 0.00013   18.7   6.0   61  575-637    25-90  (260)

No 1  
>TIGR00631 uvrb excinuclease ABC, B subunit; InterPro: IPR004807 All proteins in this family for which functions are known are DNA helicases that function in the nucleotide excision repair and are endonucleases that make the 3' incision next to DNA damage. They are part of a pathway requiring UvrA, UvrB, UvrC, and UvrD homologs.; GO: 0009381 excinuclease ABC activity, 0006289 nucleotide-excision repair, 0005737 cytoplasm, 0009380 excinuclease repair complex.
Probab=100.00  E-value=0  Score=1914.31  Aligned_cols=655  Identities=60%  Similarity=0.964  Sum_probs=639.5

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             54775188888843899999999887397337998633764699999999971997899931634689999999986789
Q gi|254780991|r  140 FFQMQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       140 ~f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      +|+|+|+|.|+||||+||++|++++.+|.++|+|+|||||||||||||||+++|||||||+||||||+|||+|||+|||+
T Consensus         1 ~F~L~s~f~P~GDQP~AI~~L~~~l~~G~~~QtLLGvTGsGKTFT~AnVIa~~~rPTLV~aHNKTLAAQLY~EfKefFPe   80 (667)
T TIGR00631         1 LFKLKSPFQPAGDQPKAIAKLVEGLEAGEKEQTLLGVTGSGKTFTMANVIAQVQRPTLVLAHNKTLAAQLYNEFKEFFPE   80 (667)
T ss_pred             CCEECCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCHHHHHHHHHHHHCCCEEEECCCHHHHHHHHHHHHHHCCC
T ss_conf             96444788567881899999999985688714785321486278898999984798499857776799999999863867


Q ss_pred             CEEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHHHHCCEEEEEC
Q ss_conf             83899862134444210155543210221035889999999999998549984998277896168983477225799941
Q gi|254780991|r  220 NAVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVESYSQMIVQLKI  299 (805)
Q Consensus       220 n~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~~lglIIvdEe  299 (805)
                      ||||||||||||||||||||++|||||||||||++||++||||++||++|+|+|||||||||||||.|.+|..+.+.+++
T Consensus        81 NAVEYFvSYYDYYQPEAYvP~~DtyIEKdaSINdeIerlR~SAT~SLl~RrDVIVVASVScIYGLG~P~~Y~~~~~~l~v  160 (667)
T TIGR00631        81 NAVEYFVSYYDYYQPEAYVPSKDTYIEKDASINDEIERLRLSATKSLLERRDVIVVASVSCIYGLGSPEEYLKMVLHLEV  160 (667)
T ss_pred             CCEEEEEECCCCCCCCCCCCCCCCEEECCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEEEECCCCCCHHHHCCEEEEEE
T ss_conf             72452552032378732147988413045530046767788988864237878999875520688882556422786540


Q ss_pred             CCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCC-CCHHHHHHHHCCCCCCHHHHHCCCCCCCCHHHHCCCCC
Q ss_conf             98111787532343117656338775453318724783178-88778887310444200222101666400111000010
Q gi|254780991|r  300 GDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFP-SHLEDVAWRVSMFGNDIEEISEFYPLTGQKIRNVETIK  378 (805)
Q Consensus       300 hd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsat-ps~Es~~~Rie~f~deIe~I~~fDplT~~~~~~~~~~~  378 (805)
                      |+.++++++..+|+.++|+|||+++.||+||+||+||+||| .+.+.+++||+||||||++|+.+||+|+..+..+++.+
T Consensus       161 G~~~~~~~ll~~LV~lqY~RNd~~f~RG~FRvrGDVvEIfP~~~~~~~~~RiEfF~DEie~I~~~dpLtg~~~~~~~~~~  240 (667)
T TIGR00631       161 GKEIDRRELLRRLVELQYERNDVDFQRGTFRVRGDVVEIFPAAYEDEFAVRIEFFGDEIERISLVDPLTGEVLRELDSFT  240 (667)
T ss_pred             CCCCCHHHHHHHHHHHCEEECCEECCCCCEEEEEEEEEEECCCCCCCCEEEEEEECCEEEEHHHHCCCCCCHHHHCCCEE
T ss_conf             78558899998863403057123405771257631898634776777248998525543202120511051110056158


Q ss_pred             CHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCCCC
Q ss_conf             00000002563678875455899899899887544332110012444477775332112014510113331144655562
Q gi|254780991|r  379 IYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGEPP  458 (805)
Q Consensus       379 i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~ge~P  458 (805)
                      +||++|||++.+.+..|+..|+.||.+|+.+|..+|+++++|||.|||.|||||+++.|||+||||||+||+||.||++|
T Consensus       241 ifPA~HyV~p~e~~~~Ai~~I~~EL~eRl~~f~~~~kllEaQRL~qRT~yDLEMl~e~G~C~GIENYSRhl~GR~~GEpP  320 (667)
T TIGR00631       241 IFPASHYVTPEERLERAIKEIEKELEERLKYFEEQGKLLEAQRLKQRTEYDLEMLREMGYCSGIENYSRHLSGRKPGEPP  320 (667)
T ss_pred             EECCCEECCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHCCCCCCCCCCCCC
T ss_conf             60540002580479999999999999999999877951788889886887788875067337700000021677763159


Q ss_pred             HHHHHCC---CCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCC
Q ss_conf             0233026---5442132101234475445432456541333235766554443222111010012155545444686754
Q gi|254780991|r  459 PTLFEYI---PEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGSW  535 (805)
Q Consensus       459 ~tL~dY~---p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~satPg~~  535 (805)
                      +||+|||   |+|||+++||||+|+||+++||+||++||.+||+||||||||+|||||+|+||.+..+|++|||||||.|
T Consensus       321 ~tLlDYF~gfP~DfLlviDESHVT~PQ~~GMY~GD~SRK~~LVeYGFRLPSAlDNRPLkfeEF~~~~~Q~vyVSATPG~~  400 (667)
T TIGR00631       321 YTLLDYFIGFPEDFLLVIDESHVTLPQIGGMYNGDRSRKQTLVEYGFRLPSALDNRPLKFEEFEERINQVVYVSATPGDY  400 (667)
T ss_pred             CCHHHHCCCCCCCEEEEEEECCCCHHHHHHHHHCCHHHHHHHHHCCCCCCHHCCCCCCCHHHHHHHCCCEEEEECCCCHH
T ss_conf             64776504688650898840257502213441304676543320277530013587898799998559889996388589


Q ss_pred             CCHHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCC
Q ss_conf             20132200234320124467720000133101688999999863023212466214789999999986359668732576
Q gi|254780991|r  536 ELEQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSE  615 (805)
Q Consensus       536 e~e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~  615 (805)
                      |++++.+.++||||||||++||+|+|||..+|||||++||+.++.+++||||||+|||||||||+||.+.||++.||||+
T Consensus       401 E~e~S~~~vvEQiiRPTGLlDP~i~VRP~~gQvdDL~~EI~~R~~~~ERvLVTTLTKkMAEdLTdYl~E~Gikv~YLHSe  480 (667)
T TIGR00631       401 ELEQSGGNVVEQIIRPTGLLDPEIEVRPTDGQVDDLLSEIRQRVARNERVLVTTLTKKMAEDLTDYLKELGIKVRYLHSE  480 (667)
T ss_pred             HHHHHCCCEEEEEECCCCCCCCEEEEECCCCHHHHHHHHHHHHHHCCCCEEEEEHHHHHHHHHHHHHHCCCCEEEEECCH
T ss_conf             99732691589987377864883688358515888899999999728948998201677889999970588379871455


Q ss_pred             CCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCEEEEEECCCCH
Q ss_conf             45789999999973189869998458753578777117999628856744460137766543127998669998248988
Q gi|254780991|r  616 VKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAARNVNSKVILYADTITK  695 (805)
Q Consensus       616 ~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR~~~G~~il~ad~~t~  695 (805)
                      +++.+|.+||+++|.|+||||||+|+|++|||+|+||||+|||||||||+||++||||+|||||||.+|+||||||++|.
T Consensus       481 Idt~ER~eiirdLR~G~fDVLVGINLLREGLDlPEVSLVAILDADKEGFLRSerSLIQTIGRAARN~~G~VilYAD~iT~  560 (667)
T TIGR00631       481 IDTLERVEIIRDLRLGEFDVLVGINLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNVNGKVILYADKITD  560 (667)
T ss_pred             HHHHHHHHHHHHHCCCCCEEEEECCHHHCCCCCHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEECCCCCH
T ss_conf             78999999999844788408860002002465114889976327888998663027889888752579659997287007


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH-H-------HHHHHCCCHHHHHHHHHHH
Q ss_conf             9999999878888888876887188530234667776656665555555543-3-------3343127978899999999
Q gi|254780991|r  696 SIQLAIDETTRRREKQLEHNKKHNINPQSVKEKIMEVIDPILLEDAATTNIS-I-------DAQQLSLSKKKGKAHLKSL  767 (805)
Q Consensus       696 ~~~~ai~e~~rrr~~q~~~n~~~~i~p~~i~k~i~~~~~~~~~~~~~~~~~~-~-------~~~~~~~~~~~~~~~i~~l  767 (805)
                      ||++||+||+|||.+|++||++|||||++|+|+|.+++.............. .       ......++.+++.+.|++|
T Consensus       561 sM~~AI~ET~RRR~~Q~~YNe~HgItP~ti~K~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~I~~L  640 (667)
T TIGR00631       561 SMQKAIEETERRRKIQIAYNEEHGITPQTIRKKIKDILDIELKEKEDAAKKKKKGKVAEEPAEDASDLSEKELKKLIKQL  640 (667)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHCCHHHCCHHHHHHHHHHH
T ss_conf             89999998788899999999753897885405688877777644455555320231122210313208987999999999


Q ss_pred             HHHHHHHHHHCCHHHHHHHHHHHHHHH
Q ss_conf             999999997414899999999999999
Q gi|254780991|r  768 RKQMHLAADNLNFEEAARIRDEIKRLK  794 (805)
Q Consensus       768 ~~~m~~aa~~l~fE~Aa~lRD~i~~l~  794 (805)
                      +++|++||++|+||+||.|||+|.+||
T Consensus       641 e~~M~~aA~~l~FE~AA~~RD~I~~L~  667 (667)
T TIGR00631       641 EKEMKQAARNLEFEEAARLRDEIKELK  667 (667)
T ss_pred             HHHHHHHHHHHCHHHHHHHHHHHHHCC
T ss_conf             999999997526789999988886239


No 2  
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=100.00  E-value=0  Score=1635.42  Aligned_cols=653  Identities=64%  Similarity=1.017  Sum_probs=637.3

Q ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHC
Q ss_conf             77547751888888438999999998873973379986337646999999999719978999316346899999999867
Q gi|254780991|r  138 ITFFQMQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFF  217 (805)
Q Consensus       138 ~~~f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~F  217 (805)
                      +.+|+|+|+|+|+||||+||++|++|+++|.++|+|+||||||||||||++|++++||+|||+||+|||+|||++||+||
T Consensus         3 ~~~F~l~s~~~P~GDQP~AI~~L~~gi~~g~~~Q~LlGvTGSGKTfTmAnvI~~~~rPtLVlahNKTLAAQLy~Efk~fF   82 (657)
T PRK05298          3 MKPFKLVSPYKPAGDQPQAIAELVEGIESGEKHQTLLGVTGSGKTFTMANVIARVQRPTLVLAHNKTLAAQLYGEFKEFF   82 (657)
T ss_pred             CCCCEECCCCCCCCCCHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHHCCCEEEECCCHHHHHHHHHHHHHHC
T ss_conf             88822688899999879999999989974996369970367856689999999868975997665889999999999768


Q ss_pred             CCCEEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHHHHCCEEEE
Q ss_conf             89838998621344442101555432102210358899999999999985499849982778961689834772257999
Q gi|254780991|r  218 PHNAVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVESYSQMIVQL  297 (805)
Q Consensus       218 p~n~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~~lglIIvd  297 (805)
                      |+|+|+||||||||||||||+|++||||||+|+||++||++||+|+++|++|+|+|||+|||||||+|+|.+|..+++.+
T Consensus        83 P~NaVEYFVSYyDYYQPEAYip~tDtYIEKdssIN~eId~lR~sAT~SLl~RrDVIVVASVSCIYGLGsPe~Y~~~~l~l  162 (657)
T PRK05298         83 PENAVEYFVSYYDYYQPEAYVPSSDTYIEKDSSINEEIERLRLSATKSLLERRDVIVVASVSCIYGLGSPEEYLKMVLHL  162 (657)
T ss_pred             CCCCEEEEECCCCCCCCCCCCCCCCCEEECCCHHHHHHHHHHHHHHHHHHCCCCEEEEEEHHHCCCCCCHHHHHHCEEEE
T ss_conf             88717998514456697111478885242363466999999999999885479869997367616899979997343777


Q ss_pred             ECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCCHHHHHCCCCCCCCHHHHCCCC
Q ss_conf             41981117875323431176563387754533187247831788877888731044420022210166640011100001
Q gi|254780991|r  298 KIGDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEEISEFYPLTGQKIRNVETI  377 (805)
Q Consensus       298 Eehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~~Rie~f~deIe~I~~fDplT~~~~~~~~~~  377 (805)
                      +.|+.++++++..+|+.++|+|+|+.+.||.|+++|+++++||++.|+.++|++||||+|++|.+|||+|+..+..++.+
T Consensus       163 ~~G~~i~r~~ll~~LV~~qY~RnD~~~~RG~FRVrGDvVdI~Pa~~ed~aiRIeffgDeIE~I~~~Dpltg~~i~~~~~~  242 (657)
T PRK05298        163 RVGQEIDRRELLRRLVELQYERNDIDFQRGTFRVRGDVIDIFPAEYEDRAIRIEFFGDEIERISEFDPLTGEVLGELDRV  242 (657)
T ss_pred             ECCCEECHHHHHHHHHHHCCCCCCCCCCCCEEEEECCEEEEECCCCCCEEEEEEEECCCEEEEEEECCCCCCCCCCCCEE
T ss_conf             58977179999999998287767651168555773664788337777616999995780628999827788352433349


Q ss_pred             CCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCCC
Q ss_conf             00000000256367887545589989989988754433211001244447777533211201451011333114465556
Q gi|254780991|r  378 KIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGEP  457 (805)
Q Consensus       378 ~i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~ge~  457 (805)
                      .+||++||+++.+.+..|+..|+.+|.+|+.+|..++++.|+|||+|||.+|+||+++.|||+||||||+||++|.||++
T Consensus       243 ~IfPAshyVt~~e~l~~Ai~~I~~EL~eRl~~f~~~gKllEAqRL~qRT~yDlEMl~E~GyCsGIENYSRhl~gR~pGe~  322 (657)
T PRK05298        243 TIYPASHYVTPRERLERAIESIKEELEERLKELEKEGKLLEAQRLEQRTRYDLEMLRELGYCSGIENYSRHLSGRAPGEP  322 (657)
T ss_pred             EEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCCCCCC
T ss_conf             98178676899799999999999999999999997677798889999988799999982877560121565069998878


Q ss_pred             CHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCC
Q ss_conf             20233026544213210123447544543245654133323576655444322211101001215554544468675420
Q gi|254780991|r  458 PPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGSWEL  537 (805)
Q Consensus       458 P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~satPg~~e~  537 (805)
                      |+||+||||+|+|+++||||+|+||+++||+||++||.+|++||||||||+|||||+|+||++..+|++|||||||+||+
T Consensus       323 P~tLlDYfp~DfLl~iDESHvtvPQi~gMy~GDrsRK~~LVe~GFRLPSAlDNRPL~feEFe~~~~q~iyVSATPg~yEl  402 (657)
T PRK05298        323 PPTLLDYFPDDFLLFIDESHVTVPQIGGMYNGDRSRKETLVEYGFRLPSALDNRPLKFEEFEAKVPQTIYVSATPGDYEL  402 (657)
T ss_pred             CCHHHHHCCCCEEEEECCCCCCCHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCEEEEECCCCHHHH
T ss_conf             94488757756599983211240878878623157788898705778723348997889999744877999569858988


Q ss_pred             HHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCC
Q ss_conf             13220023432012446772000013310168899999986302321246621478999999998635966873257645
Q gi|254780991|r  538 EQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVK  617 (805)
Q Consensus       538 e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~  617 (805)
                      +++ +.++|||+||||++||+|+|||..+|+|||+.||++++.+++|+||+|+||||||+|++||.+.||++.|+||+++
T Consensus       403 ~~s-~~vvEQiIRPTGLlDP~ievrp~~~Qiddl~~ei~~~~~~~er~LvttlTkkmaEdLt~yl~~~~ik~~YlHs~i~  481 (657)
T PRK05298        403 EKS-GQVVEQIIRPTGLLDPEIEVRPTKGQVDDLLSEIRKRVAKGERVLVTTLTKRMAEDLTDYLKELGIKVRYLHSDID  481 (657)
T ss_pred             HHC-CCEEEEEECCCCCCCCCEEEECCCCCHHHHHHHHHHHHHCCCEEEEEECHHHHHHHHHHHHHHCCCEEEEEECCCC
T ss_conf             736-6734577778878798459964878799999999999636976999954598999999999967980799626661


Q ss_pred             HHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCEEEEEECCCCHHH
Q ss_conf             78999999997318986999845875357877711799962885674446013776654312799866999824898899
Q gi|254780991|r  618 TLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAARNVNSKVILYADTITKSI  697 (805)
Q Consensus       618 ~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR~~~G~~il~ad~~t~~~  697 (805)
                      +.+|.+||++||.|++|||||+|+|++|||+|+|+||+|||||++||+||++||||+||||+||.+|+||||||.+|.||
T Consensus       482 t~eR~eIl~~LR~G~~DVlVGINLLREGLDlPEVSLVaILDADKeGFLRs~~SLiQtiGRAARN~~G~vIlYAD~iT~SM  561 (657)
T PRK05298        482 TLERVEIIRDLRLGEFDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNVNGKVILYADKITDSM  561 (657)
T ss_pred             HHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCEEEEEEEECCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEECCCCHHH
T ss_conf             88999999998588875897500220457876135798870685221035205999987886257974999815450999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999878888888876887188530234667776656665555555543333431279788999999999999999974
Q gi|254780991|r  698 QLAIDETTRRREKQLEHNKKHNINPQSVKEKIMEVIDPILLEDAATTNISIDAQQLSLSKKKGKAHLKSLRKQMHLAADN  777 (805)
Q Consensus       698 ~~ai~e~~rrr~~q~~~n~~~~i~p~~i~k~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~m~~aa~~  777 (805)
                      ++||+||+|||.+|++||++|||||++|.|++.+++.........       ......+..+..+.|+.|+++|++||++
T Consensus       562 ~~ai~ET~rRR~iQ~~yN~~h~ItP~tI~K~i~~~~~~~~~~~~~-------~~~~~~~~~~~~~~i~~l~~~M~~aA~~  634 (657)
T PRK05298        562 QKAIDETERRREIQIAYNEEHGITPKTIKKKIRDILDGVYEEEAD-------AKAEKMSKKELEKLIKKLEKQMKEAAKN  634 (657)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCCH-------HHHCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             999999998999999999956998643163325454132210000-------1101379899999999999999999984


Q ss_pred             CCHHHHHHHHHHHHHHHHHHH
Q ss_conf             148999999999999999973
Q gi|254780991|r  778 LNFEEAARIRDEIKRLKSSPY  798 (805)
Q Consensus       778 l~fE~Aa~lRD~i~~l~~~~~  798 (805)
                      |+||+||.|||+|++|++...
T Consensus       635 l~FE~Aa~lRD~i~~l~~~~~  655 (657)
T PRK05298        635 LEFEEAARLRDEIKELKEQLL  655 (657)
T ss_pred             CCHHHHHHHHHHHHHHHHHHH
T ss_conf             799999998999999999871


No 3  
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=100.00  E-value=0  Score=1617.01  Aligned_cols=661  Identities=63%  Similarity=0.986  Sum_probs=644.0

Q ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHC
Q ss_conf             77547751888888438999999998873973379986337646999999999719978999316346899999999867
Q gi|254780991|r  138 ITFFQMQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFF  217 (805)
Q Consensus       138 ~~~f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~F  217 (805)
                      +..|+|+|+|+|+||||+||++|++|+++|.++|+|+|||||||||+|||+|++++||+|||+||+|||+|||++||+||
T Consensus         2 ~~~F~l~s~f~PaGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~AnVI~~~~rPtLV~AhNKTLAaQLy~Efk~fF   81 (663)
T COG0556           2 MKPFKLHSPFKPAGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMANVIAKVQRPTLVLAHNKTLAAQLYSEFKEFF   81 (663)
T ss_pred             CCCEEECCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEEECCCCCHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHC
T ss_conf             97516606889999867999999988863860258862036883107999999868971998255547999999999768


Q ss_pred             CCCEEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHHHHCCEEEE
Q ss_conf             89838998621344442101555432102210358899999999999985499849982778961689834772257999
Q gi|254780991|r  218 PHNAVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVESYSQMIVQL  297 (805)
Q Consensus       218 p~n~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~~lglIIvd  297 (805)
                      |+|+||||||||||||||||+|++||||||+||+|++||++||+|+++|++|+|+|||+|||||||+|+|..|..|.+.+
T Consensus        82 P~NaVEYFVSYYDYYQPEAYvp~tDtyIEKdasiNdeId~mR~SAt~sLleR~DVIVVaSVScIYGlG~P~~y~~~~~~l  161 (663)
T COG0556          82 PENAVEYFVSYYDYYQPEAYVPSTDTYIEKDASINDEIDRLRHSATRSLLERRDVIVVASVSCIYGLGSPEEYLKMMLSL  161 (663)
T ss_pred             CCCCEEEEEEECCCCCCCCCCCCCCCEEECCCCHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEECCCCCHHHHHHHEEEE
T ss_conf             67645888640014685134577773575365067899999999888775047869999876510489869987537998


Q ss_pred             ECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCCHHHHHCCCCCCCCHHHHCCCC
Q ss_conf             41981117875323431176563387754533187247831788877888731044420022210166640011100001
Q gi|254780991|r  298 KIGDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEEISEFYPLTGQKIRNVETI  377 (805)
Q Consensus       298 Eehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~~Rie~f~deIe~I~~fDplT~~~~~~~~~~  377 (805)
                      ++|+.++++++..+|+.++|.|+|+++.||.|+++|++++|||++.+++++|++||||+|++|++|||+|+..+..+++.
T Consensus       162 ~vG~~i~~~~ll~~Lv~~qY~Rnd~~f~rG~FRvrGDvveIfPa~~~~~~~RieffgDEie~i~~~dpltg~~~~~~~~~  241 (663)
T COG0556         162 EVGQEIDRRELLRKLVDLQYERNDVDFQRGTFRVRGDVVEIFPAYYDDEAIRIEFFGDEIERISEFDPLTGQVIGELDRF  241 (663)
T ss_pred             ECCCCCCHHHHHHHHHHHCEEECCCCCCCCCEEEECCEEEECCCCCCCEEEEEEECCCHHHEEEEECCCCCCCCCCCCCE
T ss_conf             35773489999999997261114555466715851767997216667605999972753033534445668521345518


Q ss_pred             CCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCCC
Q ss_conf             00000000256367887545589989989988754433211001244447777533211201451011333114465556
Q gi|254780991|r  378 KIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGEP  457 (805)
Q Consensus       378 ~i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~ge~  457 (805)
                      .++|++||+++.+.+..|+..|+.+|.+|+.+|..++++.++|||.|||.+|+||+++.|||+||||||+||++|.||++
T Consensus       242 ~iypashyvt~~~~~~~Ai~~Ik~EL~eRl~~~~~~~kllEaqRL~qRT~~DlEMl~e~G~C~GIENYSRhl~gr~~Ge~  321 (663)
T COG0556         242 TIYPASHYVTPRERLEQAIESIKEELEERLKFFEKNNKLLEAQRLEQRTEYDLEMLRETGYCSGIENYSRHLTGRKPGEP  321 (663)
T ss_pred             EEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCCC
T ss_conf             98056331478889999999999999999999987795378888887777539999982877661333565058999957


Q ss_pred             CHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCC
Q ss_conf             20233026544213210123447544543245654133323576655444322211101001215554544468675420
Q gi|254780991|r  458 PPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGSWEL  537 (805)
Q Consensus       458 P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~satPg~~e~  537 (805)
                      |+||+||||+|||+++||||+|+||+++||+||++||.+|++||||||||+|||||+|+||+.+.+|++|||||||+||+
T Consensus       322 P~tL~DYfp~d~Ll~IDESHvTvPQi~gMynGDrsRK~~LVeyGFRLPSAlDNRPL~feEf~~~~~q~i~VSATPg~~E~  401 (663)
T COG0556         322 PYTLFDYFPDDFLLFIDESHVTVPQIGGMYNGDRSRKQTLVEYGFRLPSALDNRPLKFEEFEAKIPQTIYVSATPGDYEL  401 (663)
T ss_pred             CCCHHHHCCCCEEEEEECCCCCHHHHHCHHCCCHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCEEEEECCCCHHHH
T ss_conf             98478858841389982444650765320133378888898715768611137997779999745977999789974877


Q ss_pred             HHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCC
Q ss_conf             13220023432012446772000013310168899999986302321246621478999999998635966873257645
Q gi|254780991|r  538 EQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVK  617 (805)
Q Consensus       538 e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~  617 (805)
                      +++.+.++|||+||||++||+|++||..+|||||++||+.++.+++|+||+|+||||||+|++||.+.||++.||||+++
T Consensus       402 e~s~~~vveQiIRPTGLlDP~ievRp~~~QvdDL~~EI~~r~~~~eRvLVTtLTKkmAEdLT~Yl~e~gikv~YlHSdid  481 (663)
T COG0556         402 EQSGGNVVEQIIRPTGLLDPEIEVRPTKGQVDDLLSEIRKRVAKNERVLVTTLTKKMAEDLTEYLKELGIKVRYLHSDID  481 (663)
T ss_pred             HHCCCCEEEEEECCCCCCCCCEEEECCCCCHHHHHHHHHHHHHCCCEEEEEEEHHHHHHHHHHHHHHCCCEEEEEECCCH
T ss_conf             74558426887247788898526514877478999999999964972999843688899999999866964786424403


Q ss_pred             HHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCEEEEEECCCCHHH
Q ss_conf             78999999997318986999845875357877711799962885674446013776654312799866999824898899
Q gi|254780991|r  618 TLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAARNVNSKVILYADTITKSI  697 (805)
Q Consensus       618 ~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR~~~G~~il~ad~~t~~~  697 (805)
                      +.+|.+|++++|.|++|||||+|+|++|||+|+|+||+|+|||++||+||++||||+||||+||.+|+||||||.+|.||
T Consensus       482 TlER~eIirdLR~G~~DvLVGINLLREGLDiPEVsLVAIlDADKeGFLRse~SLIQtIGRAARN~~GkvIlYAD~iT~sM  561 (663)
T COG0556         482 TLERVEIIRDLRLGEFDVLVGINLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNVNGKVILYADKITDSM  561 (663)
T ss_pred             HHHHHHHHHHHHCCCCCEEEEEHHHHCCCCCCCEEEEEEEECCCCCCCCCCCHHHHHHHHHHHCCCCEEEEECCHHHHHH
T ss_conf             89999999997577874898501331347886455798860685444345325999987886357973999710114999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999878888888876887188530234667776656665555555543333431279788999999999999999974
Q gi|254780991|r  698 QLAIDETTRRREKQLEHNKKHNINPQSVKEKIMEVIDPILLEDAATTNISIDAQQLSLSKKKGKAHLKSLRKQMHLAADN  777 (805)
Q Consensus       698 ~~ai~e~~rrr~~q~~~n~~~~i~p~~i~k~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~m~~aa~~  777 (805)
                      ++||+||+|||.+|++||++|||||++|+|.|.+++..........  .........++.++..+.|++|+++|++||++
T Consensus       562 ~~Ai~ET~RRR~iQ~~yN~~hgItP~ti~K~i~d~l~~~~~~~~~~--~~~~~~~~~~~~~e~~~~I~~Le~~M~~aA~~  639 (663)
T COG0556         562 QKAIDETERRREIQMAYNEEHGITPQTIKKKIRDILDGEYEEDEYK--AKIEKKASKMSKKELEKLIKKLEKEMKEAAKN  639 (663)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHH--HHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9999988889999999999669997122011566642011012333--20122223489899999999999999999984


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             14899999999999999997332
Q gi|254780991|r  778 LNFEEAARIRDEIKRLKSSPYFQ  800 (805)
Q Consensus       778 l~fE~Aa~lRD~i~~l~~~~~~~  800 (805)
                      |+||.||.+||+|.+|++.....
T Consensus       640 l~FE~Aa~lRD~i~~L~~~~~~~  662 (663)
T COG0556         640 LEFEEAARLRDEIKELKEELLGK  662 (663)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHCC
T ss_conf             78888999999999999876035


No 4  
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=100.00  E-value=0  Score=663.89  Aligned_cols=545  Identities=19%  Similarity=0.167  Sum_probs=392.8

Q ss_pred             HHHHHHHHHCC--------CHHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHH---HHHCCCCCCC---CCCHHHHHCC
Q ss_conf             13456664233--------13688888740221000367777510102323432---1000367532---1000232012
Q gi|254780991|r   14 RIQSISTRVDD--------LDYFSFEEKQLEVDKTMVADAMRRIRSEAGKHRKN---AAKRMLIHQR---ENTASKGEFQ   79 (805)
Q Consensus        14 ~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~---~~~~~~~~~~---~~~~~~~~~~   79 (805)
                      +|+++....|.        ++...|+..++-...+.+..++.+.....+.....   +......+.+   .+... .+-+
T Consensus        59 klk~i~~v~d~~p~l~~~~~~L~~w~s~yy~~~~g~vl~~~lP~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~kq  137 (730)
T COG1198          59 KLKEIERVLDTEPVLTPELLRLIEWAADYYLSPLGDVLRLALPVLLRQGYAKPSLPVLFYRLTERGRAALPDLKR-AKKQ  137 (730)
T ss_pred             HHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCHHHCCCCCCCCCHHHHHHHHHHHHHCCCCCCC-CHHH
T ss_conf             533167650677788989999999999764576889999867634305655555403778763010110433112-3569


Q ss_pred             HHHHHHHHH----HHHHHHHHCCHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCHHH
Q ss_conf             455654226----7743211147558999999998739603205740266678887421588775477518888884389
Q gi|254780991|r   80 SQSSISMSE----KQTREISEQTMTPSVQALARLIQSDNPLLKNGKIWTPHRSWSINNHSKDITFFQMQTDYHPSGDQPA  155 (805)
Q Consensus        80 ~~~~~~~~~----~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~l~~~~~P~gdQ~~  155 (805)
                      ......+..    .......+.+++.++  ++.|+.+|+...-  .. .|..+..++       .|.......-..+|+.
T Consensus       138 ~~~l~~l~~~~~~~~~~l~~~~~~s~~~--~~~l~~~g~~~~~--~~-~~~~~~~~~-------~~~~~~~~~Ln~~Q~~  205 (730)
T COG1198         138 ARVLEALLQGGEWTRSALAHAAGVSLSV--LKGLEKKGLIEII--EL-EPPLVVAPP-------DPSLSEWLALNQEQQA  205 (730)
T ss_pred             HHHHHHHHCCCCCCHHHHHHHCCHHHHH--HHHHHHCCCEEEE--CC-CCCCCCCCC-------CCCCCCCCCCCHHHHH
T ss_conf             9999998707732214554321303898--9888765735653--03-677752234-------6565431103889999


Q ss_pred             HHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC---CCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCC
Q ss_conf             9999999887397337998633764699999999971---9978999316346899999999867898389986213444
Q gi|254780991|r  156 AIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM---QRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYY  232 (805)
Q Consensus       156 Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~---gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~y  232 (805)
                      |++.|.+.+ .|++..||+|||||||||+|+++|+++   ||+||||||||+||+|+..||+.+|| +.|..+||.++  
T Consensus       206 a~~~i~~~~-~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg-~~v~vlHS~Ls--  281 (730)
T COG1198         206 AVEAILSSL-GGFAPFLLDGVTGSGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKARFG-AKVAVLHSGLS--  281 (730)
T ss_pred             HHHHHHHHC-CCCCCEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHHHC-CCHHHHCCCCC--
T ss_conf             999999750-56665367677788589999999999997598799995653456999999999867-87453146579--


Q ss_pred             CCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHHHHCCEEEEECCCCCCHHHHHHHH
Q ss_conf             42101555432102210358899999999999985499849982778961689834772257999419811178753234
Q gi|254780991|r  233 QPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVESYSQMIVQLKIGDSVEQKELLSSL  312 (805)
Q Consensus       233 qpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~~lglIIvdEehd~~~~~~~~~~l  312 (805)
                                             +++|.+.|+++.+|+..||||||||||   +|+++||+||+|||||++     ++|.
T Consensus       282 -----------------------~~er~~~W~~~~~G~~~vVIGtRSAlF---~Pf~~LGLIIvDEEHD~s-----YKq~  330 (730)
T COG1198         282 -----------------------PGERYRVWRRARRGEARVVIGTRSALF---LPFKNLGLIIVDEEHDSS-----YKQE  330 (730)
T ss_pred             -----------------------HHHHHHHHHHHHCCCCEEEEEECHHHC---CCHHHCCEEEEECCCCCC-----CCCC
T ss_conf             -----------------------278999999985597159997122330---723125769970245643-----2477


Q ss_pred             HHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCCHHHHHCCCCCCCCHHHHCCCCCCHHHHHCCCCHHHH
Q ss_conf             31176563387754533187247831788877888731044420022210166640011100001000000002563678
Q gi|254780991|r  313 VKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEEISEFYPLTGQKIRNVETIKIYANSHYVTPRPTL  392 (805)
Q Consensus       313 ~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~~Rie~f~deIe~I~~fDplT~~~~~~~~~~~i~Pa~~~v~~~e~l  392 (805)
                      ..++||+||+|++||+...+++||||||||+|+|++...+.+..+..-.++.            ...+|..+++.++...
T Consensus       331 ~~prYhARdvA~~Ra~~~~~pvvLgSATPSLES~~~~~~g~y~~~~L~~R~~------------~a~~p~v~iiDmr~e~  398 (730)
T COG1198         331 DGPRYHARDVAVLRAKKENAPVVLGSATPSLESYANAESGKYKLLRLTNRAG------------RARLPRVEIIDMRKEP  398 (730)
T ss_pred             CCCCCCHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCCEEEEECCCCCC------------CCCCCCCEEEECCCCC
T ss_conf             7777678999999988609988982688778999866538558997035455------------5678762587356665


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCCCCHHHHHCCCCCCEEE
Q ss_conf             87545589989989988754433211001244447777533211201451011333114465556202330265442132
Q gi|254780991|r  393 NTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGEPPPTLFEYIPEDSLLF  472 (805)
Q Consensus       393 ~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~ge~P~tL~dY~p~d~ll~  472 (805)
                      ..........+.+. ...+.+.+.+.+.++++||+....+|+.|||...|+||+.+|+.|....  .+.||||       
T Consensus       399 ~~~~~~lS~~Ll~~-i~~~l~~geQ~llflnRRGys~~l~C~~Cg~v~~Cp~Cd~~lt~H~~~~--~L~CH~C-------  468 (730)
T COG1198         399 LETGRSLSPALLEA-IRKTLERGEQVLLFLNRRGYAPLLLCRDCGYIAECPNCDSPLTLHKATG--QLRCHYC-------  468 (730)
T ss_pred             CCCCCCCCHHHHHH-HHHHHHCCCEEEEEECCCCCCCEEECCCCCCCCCCCCCCCCEEEECCCC--EEEECCC-------
T ss_conf             54677579999999-9999842986899971677654004256898024899995127864798--0670779-------


Q ss_pred             ECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCC
Q ss_conf             10123447544543245654133323576655444322211101001215554544468675420132200234320124
Q gi|254780991|r  473 VDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGSWELEQCQGIIVEQIIRPT  552 (805)
Q Consensus       473 idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~satPg~~e~e~~~~~~~eqi~rpt  552 (805)
                        ..+...|.                    .||.|...                                          
T Consensus       469 --g~~~~~p~--------------------~Cp~Cgs~------------------------------------------  484 (730)
T COG1198         469 --GYQEPIPQ--------------------SCPECGSE------------------------------------------  484 (730)
T ss_pred             --CCCCCCCC--------------------CCCCCCCC------------------------------------------
T ss_conf             --99899887--------------------79899997------------------------------------------


Q ss_pred             CCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCC
Q ss_conf             46772000013310168899999986302321246621478999999998635966873257645789999999973189
Q gi|254780991|r  553 GLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGK  632 (805)
Q Consensus       553 g~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~  632 (805)
                                                    ....++.||+|.+|+|..+||++.+.++|.|++..+...+.+|.+|..|+
T Consensus       485 ------------------------------~L~~~G~GterieeeL~~~FP~~rv~r~d~Dtt~~k~~~~~~l~~~~~ge  534 (730)
T COG1198         485 ------------------------------HLRAVGPGTERIEEELKRLFPGARIIRIDSDTTRRKGALEDLLDQFANGE  534 (730)
T ss_pred             ------------------------------EEEEECCCHHHHHHHHHHHCCCCCEEEECCCCCCCHHHHHHHHHHHHCCC
T ss_conf             ------------------------------36996461999999999878999479984666664356899999975799


Q ss_pred             CCEEEEHHHHHCCCCCCCCCEEEEECCC----CCCCCCCHHH---HHHHHHHHCC-CCCCEEEEEECCCCHHHHHHHHHH
Q ss_conf             8699984587535787771179996288----5674446013---7766543127-998669998248988999999987
Q gi|254780991|r  633 FDVLVGINLLREGLDIPECGLVAILDAD----KEGFLRSKTS---LIQTIGRAAR-NVNSKVILYADTITKSIQLAIDET  704 (805)
Q Consensus       633 ~diLvgt~~~akGlD~p~v~lV~i~dAD----~~~f~~~~~~---~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai~e~  704 (805)
                      +||||||||+|||||||+||||+|+|||    .+|||++|++   |+|++||||| +.+|.|++++..++....+++..-
T Consensus       535 ~dILiGTQmiaKG~~fp~vtLVgvl~aD~~L~~~DfRAsEr~fqll~QvaGRAgR~~~~G~VvIQT~~P~hp~i~~~~~~  614 (730)
T COG1198         535 ADILIGTQMIAKGHDFPNVTLVGVLDADTGLGSPDFRASERTFQLLMQVAGRAGRAGKPGEVVIQTYNPDHPAIQALKRG  614 (730)
T ss_pred             CCEEECCHHHHCCCCCCCCEEEEEEECHHHHCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCHHHHHHHHC
T ss_conf             88663416664278866631899996314315888435789999999997553267889869999679985799999866


Q ss_pred             HHH--HHHHHHHHHHHCCCC
Q ss_conf             888--888887688718853
Q gi|254780991|r  705 TRR--REKQLEHNKKHNINP  722 (805)
Q Consensus       705 ~rr--r~~q~~~n~~~~i~p  722 (805)
                      +..  .+..++.-++.+..|
T Consensus       615 dy~~F~~~El~~Rk~~~~PP  634 (730)
T COG1198         615 DYEAFYEQELAERKELGLPP  634 (730)
T ss_pred             CHHHHHHHHHHHHHHCCCCC
T ss_conf             99999999999888618997


No 5  
>PRK05580 primosome assembly protein PriA; Validated
Probab=100.00  E-value=0  Score=621.48  Aligned_cols=525  Identities=18%  Similarity=0.146  Sum_probs=369.9

Q ss_pred             HHHHHHHHHHHCC--------CHHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHCCCCCCCCCCHHHHHCCHHHH
Q ss_conf             6413456664233--------13688888740221000367777510102323432100036753210002320124556
Q gi|254780991|r   12 DSRIQSISTRVDD--------LDYFSFEEKQLEVDKTMVADAMRRIRSEAGKHRKNAAKRMLIHQRENTASKGEFQSQSS   83 (805)
Q Consensus        12 ~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (805)
                      ..+||+|..++|+        ++++.|+..++-...+.+..++.+-....                  ..    .+....
T Consensus        58 ~~~lK~I~~vld~~p~l~~~~l~l~~wia~yY~~~~g~vl~~~lP~~~~~------------------~~----kq~~~l  115 (699)
T PRK05580         58 LGKLKPIEEVLDPEPVLTPELLRLADWVADYYLGPLGDVLRLALPPRLRR------------------AP----KQQRLL  115 (699)
T ss_pred             HHCCEEHHHHCCCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCCCC------------------CH----HHHHHH
T ss_conf             32067766524999888999999999999857877999999968986324------------------77----799999


Q ss_pred             HHHH-HHHHHHHHHCCHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHH
Q ss_conf             5422-677432111475589999999987396032057402666788874215887754775188888843899999999
Q gi|254780991|r   84 ISMS-EKQTREISEQTMTPSVQALARLIQSDNPLLKNGKIWTPHRSWSINNHSKDITFFQMQTDYHPSGDQPAAIAQLLK  162 (805)
Q Consensus        84 ~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~l~~~~~P~gdQ~~Ai~~L~~  162 (805)
                      ..+. ..........+++.++  ++.|+.+|+.........    + .+.....      .......+.+|.+|++.|.+
T Consensus       116 ~~l~~~~~~~~~~~~~~s~~~--l~~l~~~g~~~~~~~~~~----~-~~~~~~~------~~~~~~L~~eQ~~a~~~i~~  182 (699)
T PRK05580        116 AALGGAWTAALLEKAGVSASV--LKGLAKKGLIEIVERPPL----R-LRDPPDP------DTEPPTLNEEQAAALAAIRA  182 (699)
T ss_pred             HHHCCCCHHHHHHHCCCCHHH--HHHHHHCCCEEEEEECCC----C-CCCCCCC------CCCCCCCCHHHHHHHHHHHH
T ss_conf             863232426788762898899--999997897167532145----6-5433444------56787889999999999985


Q ss_pred             HHHCCCCEEEEEEECCCCHHHHHHHHHHHC---CCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCC
Q ss_conf             887397337998633764699999999971---99789993163468999999998678983899862134444210155
Q gi|254780991|r  163 GIHSREKVQLLLGVTGSGKTFTMAKVIEAM---QRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAYVP  239 (805)
Q Consensus       163 ~l~~g~~~qlL~GVTGSGKTevya~lI~~~---gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yqpEay~p  239 (805)
                      .  .+++..||||||||||||||+++|+++   ||++|||||||+||+|++.||+++||+ .|..+||..+         
T Consensus       183 ~--~~~~~~LL~GvTGSGKTevYl~li~~~l~~GkqvLiLvPEI~lt~q~~~rl~~~fg~-~v~v~HS~ls---------  250 (699)
T PRK05580        183 A--GGFSAFLLDGVTGSGKTEVYLQAIAEALAQGKQALVLVPEIALTPQLLARFRARFGA-RVAVLHSGLS---------  250 (699)
T ss_pred             C--CCCCCEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHHCC-CEEEECCCCC---------
T ss_conf             5--888717874789860799999999999973997899917678789999999987099-5799648898---------


Q ss_pred             CCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHHHHCCEEEEECCCCCCHHHHHHHHHHCCCCC
Q ss_conf             54321022103588999999999999854998499827789616898347722579994198111787532343117656
Q gi|254780991|r  240 RTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVESYSQMIVQLKIGDSVEQKELLSSLVKQQYKR  319 (805)
Q Consensus       240 ~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~~lglIIvdEehd~~~~~~~~~~l~~~~Y~R  319 (805)
                                      +++|+++|.++++|+..||||||||+|   +|+.++|+||+|||||.+     +++...++||+
T Consensus       251 ----------------~~eR~~~w~~i~~G~~~IVIGtRSAvF---aP~~nLgLIIVDEEhd~S-----YKq~~~Pry~A  306 (699)
T PRK05580        251 ----------------DGERYRAWLAALRGEARVVIGTRSALF---APFKNLGLIIVDEEHDDS-----YKQQDGPRYHA  306 (699)
T ss_pred             ----------------HHHHHHHHHHHHCCCCEEEEECCCEEE---CCCCCCCEEEEECCCCHH-----HCCCCCCCCCH
T ss_conf             ----------------579999999997699719997360110---657898489997365454-----44666876119


Q ss_pred             CHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCCHHHHHCCCCCCCCHHHHCCCCCCHHHHHCCCCHHHHHHHHHHH
Q ss_conf             33877545331872478317888778887310444200222101666400111000010000000025636788754558
Q gi|254780991|r  320 QDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEEISEFYPLTGQKIRNVETIKIYANSHYVTPRPTLNTAMKYI  399 (805)
Q Consensus       320 ~D~a~~RG~f~~rg~ILdsatps~Es~~~Rie~f~deIe~I~~fDplT~~~~~~~~~~~i~Pa~~~v~~~e~l~~a~~~i  399 (805)
                      ||+|..|++..+++.|++|||||+|+|++...+++..+..-.++...            ..|..+.+.+.+........+
T Consensus       307 RdvA~~Ra~~~~~~liLgSaTPSlEs~~~~~~g~~~~~~l~~r~~~~------------~~P~v~ivDm~~~~~~~~~~l  374 (699)
T PRK05580        307 RDVAVLRAKQEGCPVVLGSATPSLESLANAESGKYHLLRLTRRAGAA------------ALPRVEIIDMREEPLERGAGL  374 (699)
T ss_pred             HHHHHHHHHHHCCCEEECCCCCCHHHHHHHHCCCCEEECCCCCCCCC------------CCCEEEECCCCCCCCCCCCCC
T ss_conf             99999999984998896168999999999975997664465322347------------898379335421410025754


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCCCCHHHHHCCCCCCEEEECCCCCC
Q ss_conf             99899899887544332110012444477775332112014510113331144655562023302654421321012344
Q gi|254780991|r  400 KEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGEPPPTLFEYIPEDSLLFVDESHVT  479 (805)
Q Consensus       400 ~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~ge~P~tL~dY~p~d~ll~idesh~~  479 (805)
                      ...+...+ ....+.+.+...++++||+..+.+|+.||+...|.+|+..|+.|.....  +.||||+         ....
T Consensus       375 s~~l~~~i-~~~L~~g~qvll~lnRrGya~~~~C~~Cg~~~~C~~C~~~L~~h~~~~~--l~Ch~Cg---------~~~~  442 (699)
T PRK05580        375 SPPLLEAI-REALERGEQVLLFLNRRGYAPFLLCRDCGWVARCPHCDGPLTLHRAGRR--LRCHHCG---------YQEP  442 (699)
T ss_pred             CHHHHHHH-HHHHHCCCEEEEEECCCCCCCEEECHHCCCEEECCCCCCEEEECCCCCC--EECCCCC---------CCCC
T ss_conf             69999999-9999738847999547752251474531994565678986342068983--3226468---------8365


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             75445432456541333235766554443222111010012155545444686754201322002343201244677200
Q gi|254780991|r  480 IPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGSWELEQCQGIIVEQIIRPTGLVDPPV  559 (805)
Q Consensus       480 ~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~satPg~~e~e~~~~~~~eqi~rptg~idp~i  559 (805)
                      .                    .++||.|...                                                 
T Consensus       443 ~--------------------~~~Cp~Cgs~-------------------------------------------------  453 (699)
T PRK05580        443 I--------------------PRACPECGST-------------------------------------------------  453 (699)
T ss_pred             C--------------------CCCCCCCCCC-------------------------------------------------
T ss_conf             7--------------------5546567997-------------------------------------------------


Q ss_pred             EECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEH
Q ss_conf             00133101688999999863023212466214789999999986359668732576457899999999731898699984
Q gi|254780991|r  560 EIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGI  639 (805)
Q Consensus       560 eir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt  639 (805)
                                             .-..++.||+|.+|+|.+.||+..|.++|.|+..++...++++.+|..|++||||||
T Consensus       454 -----------------------~l~~~g~Gteri~eel~~~FP~~~i~r~d~d~~~~~~~~~~~~~~~~~~~~dIlvGT  510 (699)
T PRK05580        454 -----------------------DLRAVGVGTERTEEELARLFPGARVLRIDRDTTRRKGALEQLLEDFARGEADILVGT  510 (699)
T ss_pred             -----------------------CCCCCCHHHHHHHHHHHHHCCCCCEEEECCCCCCCCCCHHHHHHHHHCCCCCEEECC
T ss_conf             -----------------------524111685999999997789998899847556786316889999746898789777


Q ss_pred             HHHHCCCCCCCCCEEEEECCC----CCCCCCCHHH---HHHHHHHHCCC-CCCEEEEEECCCCHHHHHHHHHHHH--HHH
Q ss_conf             587535787771179996288----5674446013---77665431279-9866999824898899999998788--888
Q gi|254780991|r  640 NLLREGLDIPECGLVAILDAD----KEGFLRSKTS---LIQTIGRAARN-VNSKVILYADTITKSIQLAIDETTR--RRE  709 (805)
Q Consensus       640 ~~~akGlD~p~v~lV~i~dAD----~~~f~~~~~~---~~q~~GRagR~-~~G~~il~ad~~t~~~~~ai~e~~r--rr~  709 (805)
                      ||++||||||+|+||+|+|||    .+||+++|++   ++|++|||||+ ..|+||+++..+++...+++..-+.  ...
T Consensus       511 qmiakG~df~~v~lv~vldaD~~l~~pd~ra~E~~~qll~qvagragr~~~~g~viiQt~~p~~~~~~~l~~~d~~~f~~  590 (699)
T PRK05580        511 QMLAKGHDFPNVTLVGVLDADTGLFSPDFRAAERTFQLLTQVAGRAGRAEKPGEVLIQTYEPEHPLLQALLRWDYDAFAE  590 (699)
T ss_pred             CCCCCCCCCCCEEEEEEECHHHHCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCHHHHHHHHCCHHHHHH
T ss_conf             33455677776269987322653548883479999999999987655678898799993799989999999689999999


Q ss_pred             HHHHHHHHHCCCCH
Q ss_conf             88876887188530
Q gi|254780991|r  710 KQLEHNKKHNINPQ  723 (805)
Q Consensus       710 ~q~~~n~~~~i~p~  723 (805)
                      .+++..+..+..|-
T Consensus       591 ~el~~R~~~~~PPf  604 (699)
T PRK05580        591 AELAERREAGLPPF  604 (699)
T ss_pred             HHHHHHHHCCCCCH
T ss_conf             99999997099986


No 6  
>TIGR00595 priA primosomal protein N'; InterPro: IPR005259    All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.; GO: 0003677 DNA binding, 0006260 DNA replication.
Probab=100.00  E-value=0  Score=470.52  Aligned_cols=384  Identities=21%  Similarity=0.221  Sum_probs=288.8

Q ss_pred             EEEEECCCCHHHHHHHHHHHC---CCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEEC-CCCCCCCCCCCCCCCCHHH
Q ss_conf             998633764699999999971---997899931634689999999986789838998621-3444421015554321022
Q gi|254780991|r  172 LLLGVTGSGKTFTMAKVIEAM---QRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSY-YDYYQPEAYVPRTDTYIEK  247 (805)
Q Consensus       172 lL~GVTGSGKTevya~lI~~~---gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~-~~~yqpEay~p~~d~~i~k  247 (805)
                      +|+|||||||||||+++++++   |+++|+|+|||+||+|+..||+.+|+. .+.++||. ++                 
T Consensus         1 ll~G~tGsGkte~y~~~~~~~l~~g~~~~~l~Pei~l~~q~~~~~~~~fg~-~~~~~h~~~l~-----------------   62 (524)
T TIGR00595         1 LLFGVTGSGKTEVYLQAIEKVLALGKSALVLVPEIALTPQTLQRFKGRFGS-QVAVLHSGKLS-----------------   62 (524)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHHHCC-CHHHHCCCCCC-----------------
T ss_conf             954567886168889999999733771789704211016789999997187-20101001367-----------------


Q ss_pred             HCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHHHHCCEEEEECCCCCCHHHHHHHHHH-CCCCCCHHHHHH
Q ss_conf             1035889999999999998549984998277896168983477225799941981117875323431-176563387754
Q gi|254780991|r  248 ESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVESYSQMIVQLKIGDSVEQKELLSSLVK-QQYKRQDIGIIR  326 (805)
Q Consensus       248 ~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~~lglIIvdEehd~~~~~~~~~~l~~-~~Y~R~D~a~~R  326 (805)
                              +.+|..+|+.+..++..||||+|||||   .|++++|+||+|||||++     +++... +.|+++|+++.|
T Consensus        63 --------~~~~~~~w~~~~~g~~~~v~G~rsa~f---~P~~~lglii~deehd~~-----yk~~~~~p~y~ar~~~~~~  126 (524)
T TIGR00595        63 --------DSEKLDAWRKVKLGEALVVIGTRSALF---LPLKNLGLIIVDEEHDSS-----YKQEELPPRYHARDVAVYR  126 (524)
T ss_pred             --------CHHHHHHHHHHHCCCCEEEECCCHHHH---CCCCCCCEEEEECCCCCC-----CCCCCCCCCCCHHHHHHHH
T ss_conf             --------345688999985186005640303432---462114547873464521-----0013688552067889887


Q ss_pred             HHHCCCCEEEECCCCCHHHHHHHHCCCCC----CHHHHHCCCCCCCCHHHHCCCCCCHHHHHCCCCHHHHHHHH-HHHHH
Q ss_conf             53318724783178887788873104442----00222101666400111000010000000025636788754-55899
Q gi|254780991|r  327 GTFRVCGDSIEIFPSHLEDVAWRVSMFGN----DIEEISEFYPLTGQKIRNVETIKIYANSHYVTPRPTLNTAM-KYIKE  401 (805)
Q Consensus       327 G~f~~rg~ILdsatps~Es~~~Rie~f~d----eIe~I~~fDplT~~~~~~~~~~~i~Pa~~~v~~~e~l~~a~-~~i~~  401 (805)
                      ++...++.|+|++||++|+|.......+.    .+..-+++.            ....|....+.......+.. ..+..
T Consensus       127 ~~~~~~p~~lgsatP~le~~~~~~~~~~~p~~~~~~l~~r~~------------~~~~p~~~~~d~~~~~~~~~~~~~~~  194 (524)
T TIGR00595       127 AKLFNCPVVLGSATPSLESYHNAKRGKYRPQRHLLVLPRRVG------------GRKPPEVKLIDLRKEPRQGNRSFLSP  194 (524)
T ss_pred             HHHCCCCEEECCCCCCHHHHHHHHCCCCCCHHHHHHHHHHHC------------CCCCCEEEEEECCCCCCCCCCCCCCH
T ss_conf             640488578805672278999987166562032111013205------------77575156762210002132102258


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCC--CCHHHHHCCCCCCEEEECCCCCC
Q ss_conf             8998998875443321100124444777753321120145101133311446555--62023302654421321012344
Q gi|254780991|r  402 ELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGE--PPPTLFEYIPEDSLLFVDESHVT  479 (805)
Q Consensus       402 el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~ge--~P~tL~dY~p~d~ll~idesh~~  479 (805)
                      .+... .+...+...+.+.++++|++....+|+.|||...|.+|+.+++.|....  +|.+.||||         .....
T Consensus       195 ~l~~~-~~~~~~~~~q~~~f~n~rg~~~~~~c~~cg~~~~cp~c~~~~~~h~~~~~g~p~l~ch~c---------~~~~~  264 (524)
T TIGR00595       195 ELLTA-LEETLAAGEQAILFLNRRGYSPNLLCRSCGYVLECPNCDVSLTYHKKEGNGQPKLRCHYC---------GYQEP  264 (524)
T ss_pred             HHHHH-HHHHHHCCCCEEEEEECCCCCCCEEECCCCCCEECCCCCEEEEEEEECCCCCCEEEEECC---------CCCCC
T ss_conf             99999-998874167068986155665300000267501056653023553213688620122105---------76677


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             75445432456541333235766554443222111010012155545444686754201322002343201244677200
Q gi|254780991|r  480 IPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGSWELEQCQGIIVEQIIRPTGLVDPPV  559 (805)
Q Consensus       480 ~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~satPg~~e~e~~~~~~~eqi~rptg~idp~i  559 (805)
                      .|..|                    |+|.....                                               
T Consensus       265 ~p~~c--------------------p~c~~~~~-----------------------------------------------  277 (524)
T TIGR00595       265 VPKTC--------------------PACGSEDT-----------------------------------------------  277 (524)
T ss_pred             CCCCC--------------------CCCCCCCC-----------------------------------------------
T ss_conf             75436--------------------44466430-----------------------------------------------


Q ss_pred             EECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEH
Q ss_conf             00133101688999999863023212466214789999999986359668732576457899999999731898699984
Q gi|254780991|r  560 EIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGI  639 (805)
Q Consensus       560 eir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt  639 (805)
                                              ....+.||++.+++|+..||+..+.+.|.|++........++++|..|++||||||
T Consensus       278 ------------------------~~~~g~G~~~~~~~l~~~~p~~~~~~~d~d~~~~~~~~~~~~~~f~~g~~d~l~Gt  333 (524)
T TIGR00595       278 ------------------------LKYKGLGTEKVEEELAKLFPGARIARLDSDTTSRKGAHEALLNQFANGKADILIGT  333 (524)
T ss_pred             ------------------------EEECCCCHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCEEEECH
T ss_conf             ------------------------12035427899999998558873676412212351468999999750784067500


Q ss_pred             HHHHCCCCCCCCCEEEEECCC----CCCCCCCHHH---HHHHHHHHCC-CCCCEEEEEECCCCHHHHHHHH
Q ss_conf             587535787771179996288----5674446013---7766543127-9986699982489889999999
Q gi|254780991|r  640 NLLREGLDIPECGLVAILDAD----KEGFLRSKTS---LIQTIGRAAR-NVNSKVILYADTITKSIQLAID  702 (805)
Q Consensus       640 ~~~akGlD~p~v~lV~i~dAD----~~~f~~~~~~---~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai~  702 (805)
                      ||++||+|||+|+||+++++|    .+||+..|+.   |.|++||||| ..+|.||+++..+.........
T Consensus       334 q~~~kG~~fp~~~l~g~~~~d~~l~~~d~r~~e~~~~l~~q~~Gr~gr~~~~g~v~iqt~~P~~~~~~~~~  404 (524)
T TIGR00595       334 QMIAKGHDFPNVTLVGVLDADSGLHSPDFRAAERGFQLLTQVAGRAGRAEDPGEVIIQTYNPGHPAIQAAL  404 (524)
T ss_pred             HHHHCCCCCCCEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEECCCHHHHHHHH
T ss_conf             34431577442036778731200255421346778888887641002346887479973077516889876


No 7  
>PRK10689 transcription-repair coupling factor; Provisional
Probab=100.00  E-value=3e-40  Score=320.03  Aligned_cols=272  Identities=18%  Similarity=0.289  Sum_probs=230.1

Q ss_pred             HCCCCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCCC
Q ss_conf             73973379986337646999999999719978999316346899999999867898389986213444421015554321
Q gi|254780991|r  165 HSREKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAYVPRTDTY  244 (805)
Q Consensus       165 ~~g~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yqpEay~p~~d~~  244 (805)
                      ..| ..++|.|++||.+++.+|.+.++.++|+||++|+..-|.++++++.. |.+..|.+|             |.||+.
T Consensus        12 ~aG-~~~~l~gL~GSA~al~lA~l~~~~~~p~lvV~~d~~~A~~l~~dL~~-f~~~~V~~f-------------P~wEtL   76 (1148)
T PRK10689         12 KAG-DQRQLGELTGAACATLVAEIAERHAGPVVLIAPDMQNALRLHDEISQ-FTDQMVMNL-------------ADWETL   76 (1148)
T ss_pred             CCC-CEEECCCCCCHHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHH-CCCCCEEEC-------------CCHHCC
T ss_conf             999-71267788606999999999997099889991999999999999985-489725689-------------721047


Q ss_pred             HHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCH-HHHHCCEEEEECCCCCCHHHHHHHHHHCCCCCCHHH
Q ss_conf             0221035889999999999998549984998277896168983-477225799941981117875323431176563387
Q gi|254780991|r  245 IEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSV-ESYSQMIVQLKIGDSVEQKELLSSLVKQQYKRQDIG  323 (805)
Q Consensus       245 i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P-~~~lglIIvdEehd~~~~~~~~~~l~~~~Y~R~D~a  323 (805)
                      +....|.|.++..+|+++..+|.+++..|||.|++|+....+| ....+..+.++.||.++.+.+...|+..||+|++.+
T Consensus        77 PYd~~SP~~di~s~Rl~~L~~L~~~~~~IvVttv~ALlqrlpP~~~l~~~~l~L~~G~~ld~d~L~~~L~~~GY~rv~~V  156 (1148)
T PRK10689         77 PYDSFSPHQDIISSRLSTLYQLPTMQRGVLIVPVNTLMQRVCPHSFLHGHALVMKKGQRLSRDALRAQLDSAGYRHVDQV  156 (1148)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHCCCCCEEEEEHHHHHCCCCCHHHHHHCCEEEECCCCCCHHHHHHHHHHCCCCCCCCC
T ss_conf             76657998689999999999875289999997689962226998999637389958785499999999998699154505


Q ss_pred             HHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCCHHHHHCCCCCCCCHHHHCCCCCCHHHHHCCCCHHHHHHHHHHHHHHH
Q ss_conf             75453318724783178887788873104442002221016664001110000100000000256367887545589989
Q gi|254780991|r  324 IIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEEISEFYPLTGQKIRNVETIKIYANSHYVTPRPTLNTAMKYIKEEL  403 (805)
Q Consensus       324 ~~RG~f~~rg~ILdsatps~Es~~~Rie~f~deIe~I~~fDplT~~~~~~~~~~~i~Pa~~~v~~~e~l~~a~~~i~~el  403 (805)
                      ..+|+|++||+|+|+|||..+ .|+|++||||+||+|+.|||.||+++..++++.++|+++++...+.+...........
T Consensus       157 ~epGEFAvRGgIIDIFP~~~~-~PvRIEFFgDEIESIR~FDp~TQRSi~~i~~i~I~Pa~E~~l~~~~i~~fr~~~re~f  235 (1148)
T PRK10689        157 MEHGEYATRGALLDLFPMGSE-LPYRLDFFDDEIDSLRVFDVDSQRTLEEVEAINLLPAHEFPTDKAAIELFRSQWRDTF  235 (1148)
T ss_pred             CCCEEEEEECCEEEECCCCCC-CCEEEEECCCEEEEEEEECCCCCCCCCCCCEEEEECCCCCCCCHHHHHHHHHHHHHHH
T ss_conf             885269876898998889988-2669992497876367577010777467775999757256679899999999999873


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCCCCHHHHHCCCCCCEEEE
Q ss_conf             9899887544332110012444477775332112014510113331144655562023302654421321
Q gi|254780991|r  404 KMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGEPPPTLFEYIPEDSLLFV  473 (805)
Q Consensus       404 ~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~ge~P~tL~dY~p~d~ll~i  473 (805)
                      ..                 ......-.+.+.+.....|+|+|.+.+..    ++..+++||+|++.+++.
T Consensus       236 ~~-----------------~~~~~~iy~~is~g~~~~GiE~ylPLff~----e~l~tLfDYLp~~~liv~  284 (1148)
T PRK10689        236 EV-----------------KRDPEHIYQQVSKGTLPAGIEYWQPLFFS----EPLPPLFSYFPANTLLVN  284 (1148)
T ss_pred             CC-----------------CCCHHHHHHHHHCCCCCCCHHHHHHHCCC----CCCCHHHHHCCCCEEEEE
T ss_conf             15-----------------62268999998668974517786032026----542368873777739996


No 8  
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=100.00  E-value=3.6e-36  Score=289.42  Aligned_cols=270  Identities=27%  Similarity=0.442  Sum_probs=229.6

Q ss_pred             CCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCCCHHH
Q ss_conf             73379986337646999999999719978999316346899999999867898389986213444421015554321022
Q gi|254780991|r  168 EKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAYVPRTDTYIEK  247 (805)
Q Consensus       168 ~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yqpEay~p~~d~~i~k  247 (805)
                      ...++|-|++|+.|.++++.+.++.+.+.++++++-.-+..++.+++ ++|+..|.+|             |.||+....
T Consensus         9 ~~~~~l~gl~~~~~a~~~a~l~~~~~~~~~~vt~~~~~a~~l~~~L~-~~~~~~v~~~-------------P~~e~lpyd   74 (1139)
T COG1197           9 GDPLLLGGLSGGAKALLIAALAEEKPNPVLLVTADLQEADRLAEDLR-FFPDQPVLLL-------------PDWETLPYD   74 (1139)
T ss_pred             CCCEEEECCCCHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHH-HCCCCCEEEC-------------CCCCCCCCC
T ss_conf             77557506781367999999986368882899589999999999998-5788735877-------------774456564


Q ss_pred             HCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHH-HHCCEEEEECCCCCCHHHHHHHHHHCCCCCCHHHHHH
Q ss_conf             103588999999999999854998499827789616898347-7225799941981117875323431176563387754
Q gi|254780991|r  248 ESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVES-YSQMIVQLKIGDSVEQKELLSSLVKQQYKRQDIGIIR  326 (805)
Q Consensus       248 ~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~-~lglIIvdEehd~~~~~~~~~~l~~~~Y~R~D~a~~R  326 (805)
                      ..+.|.++-..|+++.++|.+++..|||.+++|+-...+|.+ +.+..+...+|+.++.+.+..+++..+|++++++..+
T Consensus        75 ~~sp~~d~~~~Rl~~L~~L~~~~~~i~v~~~~all~~lpp~~~~~~~~l~l~~G~~~d~~~l~~~L~~~GY~~v~~V~~~  154 (1139)
T COG1197          75 RFSPSQDIVSSRLEALRRLAQGKKGIVVVPVNALLQKLPPPDFLEENSLTLKVGEELDLDDLEARLVRAGYERVDMVMEP  154 (1139)
T ss_pred             CCCCCHHHHHHHHHHHHHHHCCCCCEEEEEHHHHHHHCCCHHHHHHCEEEEECCCCCCHHHHHHHHHHHCCCEEEEECCC
T ss_conf             46887047999999999987279988998879953346996676335389624872689999999998097003320245


Q ss_pred             HHHCCCCEEEECCCCCHHHHHHHHCCCCCCHHHHHCCCCCCCCHHHHCCCCCCHHHHHCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             53318724783178887788873104442002221016664001110000100000000256367887545589989989
Q gi|254780991|r  327 GTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEEISEFYPLTGQKIRNVETIKIYANSHYVTPRPTLNTAMKYIKEELKMR  406 (805)
Q Consensus       327 G~f~~rg~ILdsatps~Es~~~Rie~f~deIe~I~~fDplT~~~~~~~~~~~i~Pa~~~v~~~e~l~~a~~~i~~el~~r  406 (805)
                      |+|++||+|||+|||+.+ .|+|++||||+|++|+.|||.||+++.++....+.|++++++..+.+..........    
T Consensus       155 GEfsvRG~IlDIfp~~~e-~P~RieffgdeIesIR~Fd~~tQrS~~~v~~i~l~Pa~e~~l~~~~~~~~~~~~~~~----  229 (1139)
T COG1197         155 GEFAVRGGILDIFPPGSE-EPYRIEFFGDEIESIRSFDPETQRSLEEVEEIELLPASEFILDEEAIEAFRKQYLET----  229 (1139)
T ss_pred             CCEEECCCEEEECCCCCC-CCEEEEECCCCEEEEECCCHHHCCCCCCCCEEEECCCCCCCCCHHHHHHHHHHHHHH----
T ss_conf             624511654786048988-867999658701024525856514524554499746211466978999999988764----


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCCCCHHHHHCCCCCCEEEECC
Q ss_conf             988754433211001244447777533211201451011333114465556202330265442132101
Q gi|254780991|r  407 LIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGEPPPTLFEYIPEDSLLFVDE  475 (805)
Q Consensus       407 l~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~ge~P~tL~dY~p~d~ll~ide  475 (805)
                         +  +     ..+    -....+.+.......|++.|.+.+.     +.+.|++||+|++.++++|+
T Consensus       230 ---f--~-----~~~----~~~~~~~~~~g~~~~g~e~~lplfy-----~~~~~l~dylp~~~~i~~d~  279 (1139)
T COG1197         230 ---F--E-----PKR----DDALYEALSSGRRFAGLEYFLPLFY-----EDLATLFDYLPKNTLIVVDE  279 (1139)
T ss_pred             ---C--C-----CCC----CHHHHHHHHCCCCCCCHHHHHHHHH-----CCCHHHHHHCCCCCCEEEHH
T ss_conf             ---0--5-----664----2378999855898542898768775-----45078998556688176656


No 9  
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=100.00  E-value=9.8e-33  Score=263.72  Aligned_cols=121  Identities=19%  Similarity=0.314  Sum_probs=112.8

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCC
Q ss_conf             32124662147899999999863596687325764578999999997318986999845875357877711799962885
Q gi|254780991|r  582 GLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADK  661 (805)
Q Consensus       582 ~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~  661 (805)
                      ...++||+.|++.+++|++.|...|+.+..+|+++++.+|.++|++|++|+++|||+||++|+|||||+|++|+|||   
T Consensus       245 ~~~~IIF~~Tk~~~~~l~~~L~~~g~~~~~LHgdm~q~~R~~~l~~Fr~g~~~ILVaTDvaARGLDi~~V~~VINyD---  321 (629)
T PRK11634        245 FDAAIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDGRLDILIATDVAARGLDVERISLVVNYD---  321 (629)
T ss_pred             CCEEEEEEECHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCEEEEEC---
T ss_conf             88489998227889999999997699657656899999999999999759998898786210557725688899968---


Q ss_pred             CCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHHHHHHHHHHH
Q ss_conf             6744460137766543127-998669998248988999999987888888
Q gi|254780991|r  662 EGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAIDETTRRREK  710 (805)
Q Consensus       662 ~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai~e~~rrr~~  710 (805)
                        +|.+.++|||||||||| |+.|.+|+|   +++...+.++.++|.-..
T Consensus       322 --lP~d~e~YVHRiGRTGRaGr~G~Aitf---v~~~e~~~l~~ier~~~~  366 (629)
T PRK11634        322 --IPMDSESYVHRIGRTGRAGRAGRALLF---VENRERRLLRNIERTMKL  366 (629)
T ss_pred             --CCCCHHHCCCCCCCCCCCCCCEEEEEE---ECHHHHHHHHHHHHHHCC
T ss_conf             --989743401025833168996469998---888999999999999779


No 10 
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=100.00  E-value=1e-31  Score=256.04  Aligned_cols=124  Identities=15%  Similarity=0.230  Sum_probs=114.3

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCC
Q ss_conf             23212466214789999999986359668732576457899999999731898699984587535787771179996288
Q gi|254780991|r  581 QGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDAD  660 (805)
Q Consensus       581 ~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD  660 (805)
                      ...+++||+.|++.+++|+++|...|+.+..+||++++.+|.+++++|++|.++|||+||++|||||||+|++|+|||  
T Consensus       241 ~~~~~IIFcntk~~v~~l~~~L~~~g~~~~~lHg~m~q~~R~~~l~~F~~g~~~iLVaTDvaaRGIDi~~V~~VInyD--  318 (459)
T PRK11776        241 RPESCVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANRSCSVLVATDVAARGLDIKSLEAVINYE--  318 (459)
T ss_pred             CCCCEEEEECCHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEEC--
T ss_conf             876603761748999999999986799689987999999999999999779997998810434767713598899978--


Q ss_pred             CCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             56744460137766543127-99866999824898899999998788888888
Q gi|254780991|r  661 KEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAIDETTRRREKQL  712 (805)
Q Consensus       661 ~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai~e~~rrr~~q~  712 (805)
                         +|.+.++|+||+||||| |+.|.+|+|   +++...+.++.+++.....+
T Consensus       319 ---lP~~~e~YvHRiGRTGRaG~~G~ait~---vt~~e~~~l~~ie~~~~~~i  365 (459)
T PRK11776        319 ---LARDPEVHVHRIGRTGRAGSKGLALSL---VAPEEMQRAAAIEDYLGRKL  365 (459)
T ss_pred             ---CCCCHHHHHHCCCHHHCCCCCEEEEEE---ECHHHHHHHHHHHHHHCCCC
T ss_conf             ---989745520205251378996579999---86899999999999978998


No 11 
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=100.00  E-value=3e-31  Score=252.58  Aligned_cols=134  Identities=25%  Similarity=0.392  Sum_probs=118.1

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCC
Q ss_conf             32124662147899999999863596687325764578999999997318986999845875357877711799962885
Q gi|254780991|r  582 GLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADK  661 (805)
Q Consensus       582 ~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~  661 (805)
                      ..+++||+.|++.++.|+.+|...|+.+..+||++++.+|.+++++|++|+++|||+||++++|||||+|++|+|||   
T Consensus       247 ~~k~iIF~~t~~~~~~l~~~L~~~g~~~~~lhg~l~q~~R~~~l~~F~~g~~~vLVaTDvaaRGiDi~~V~~VInyd---  323 (417)
T PRK11192        247 VTRSIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQKKRNEAIKRLTDGRVNVLVATDVAARGIDIDDISHVINFD---  323 (417)
T ss_pred             CCCCEEEECCHHHHHHHHHHHHCCCCCEEEECCCCCHHHHHHHHHHHHCCCCCEEEECCHHHCCCCCCCCCEEEEEC---
T ss_conf             66521531124667689886531488357540017999999999999769998999812434677704698899979---


Q ss_pred             CCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCH
Q ss_conf             6744460137766543127-9986699982489889999999878888888876887188530
Q gi|254780991|r  662 EGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAIDETTRRREKQLEHNKKHNINPQ  723 (805)
Q Consensus       662 ~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai~e~~rrr~~q~~~n~~~~i~p~  723 (805)
                        +|.+.++|+||+||||| |..|.+|+|   +++.....+..+++.-...+......|+.|+
T Consensus       324 --~P~~~~~YvHRiGRTGR~G~~G~ait~---v~~~d~~~~~~ie~~~~~~~~~~~~~~~~~~  381 (417)
T PRK11192        324 --MPRSADTYLHRIGRTGRAGKKGTAISL---VEAHDHLLLGKIERYIEEPLKRRVIDELRPK  381 (417)
T ss_pred             --CCCCHHHHHHHCCHHHCCCCCEEEEEE---ECHHHHHHHHHHHHHHCCCCCCCCCCCCCCC
T ss_conf             --999888923306772348995489998---7489999999999997798873126886889


No 12 
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00  E-value=1.6e-30  Score=247.24  Aligned_cols=124  Identities=21%  Similarity=0.362  Sum_probs=114.9

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCC
Q ss_conf             23212466214789999999986359668732576457899999999731898699984587535787771179996288
Q gi|254780991|r  581 QGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDAD  660 (805)
Q Consensus       581 ~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD  660 (805)
                      ...+++||+.|++.++.|++.|...|+.+..+|+++++.+|.++|++|++|++.|||+||+++||||||+|++|+|||  
T Consensus       256 ~~~k~IIF~nT~~~ve~l~~~L~~~g~~v~~LHG~lsQ~eR~~~L~~Fk~G~~~VLVaTDVAARGIDIp~V~~VINYD--  333 (574)
T PRK04537        256 EGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKGQLEILVATDVAARGLHIDGVKYVYNYD--  333 (574)
T ss_pred             CCCCCEEECCHHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCEEEEEC--
T ss_conf             776511533418999999999997799689970999999999999999769997997735002335714699799957--


Q ss_pred             CCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             56744460137766543127-99866999824898899999998788888888
Q gi|254780991|r  661 KEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAIDETTRRREKQL  712 (805)
Q Consensus       661 ~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai~e~~rrr~~q~  712 (805)
                         ||.+.++|+|||||||| |++|.+|+|   ++......+.+||+.-+..+
T Consensus       334 ---lP~~~e~YVHRIGRTGRaGr~G~AITf---v~~~e~~~l~~IE~~i~~~i  380 (574)
T PRK04537        334 ---LPFDAEDYVHRIGRTARLGEEGDAISF---ACERYAMSLPDIEAYIEQKI  380 (574)
T ss_pred             ---CCCCHHHHHCCCCHHHCCCCCEEEEEE---ECHHHHHHHHHHHHHHCCCC
T ss_conf             ---969821411245350378993359998---77799899999999867878


No 13 
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=100.00  E-value=3.9e-31  Score=251.78  Aligned_cols=124  Identities=22%  Similarity=0.315  Sum_probs=115.0

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCC
Q ss_conf             32124662147899999999863596687325764578999999997318986999845875357877711799962885
Q gi|254780991|r  582 GLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADK  661 (805)
Q Consensus       582 ~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~  661 (805)
                      ..+++||+.|++.++.|+++|...|+.+..+|+++++.+|.++|++|++|+++|||+||++++|||||+|++|+|||   
T Consensus       245 ~~~~iIF~~tk~~a~~l~~~L~~~g~~~~~lHg~~sq~~R~~~l~~F~~g~~~vLVaTDvaaRGiDi~~V~~VInyD---  321 (457)
T PRK10590        245 WQQVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDIAARGLDIEELPHVVNYE---  321 (457)
T ss_pred             CCCEEEEECHHHHHHHHHHHHHHCCCCCEEEECCCCHHHHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCEEEEEC---
T ss_conf             66335884119999999999855699823232478999999999999869982999577011556635688799938---


Q ss_pred             CCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             6744460137766543127-998669998248988999999987888888887
Q gi|254780991|r  662 EGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAIDETTRRREKQLE  713 (805)
Q Consensus       662 ~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai~e~~rrr~~q~~  713 (805)
                        +|.+.++|+|||||||| |..|.+|+|   +++.....++++++.-.+.+.
T Consensus       322 --~P~~~e~YvHRiGRTGRaG~~G~ait~---v~~~e~~~~~~ie~~~~~~~~  369 (457)
T PRK10590        322 --LPNVPEDYVHRIGRTGRAAATGEALSL---VCVDEHKLLRDIEKLLKKEIP  369 (457)
T ss_pred             --CCCCHHHEECCCCCCCCCCCCEEEEEE---ECHHHHHHHHHHHHHHCCCCC
T ss_conf             --999744500226706058995369998---668999999999999779887


No 14 
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00  E-value=4.9e-30  Score=243.53  Aligned_cols=122  Identities=20%  Similarity=0.298  Sum_probs=110.6

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCC
Q ss_conf             32124662147899999999863596687325764578999999997318986999845875357877711799962885
Q gi|254780991|r  582 GLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADK  661 (805)
Q Consensus       582 ~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~  661 (805)
                      ..+++||+.|+..++.|+.+|...|+.+..+||++.+.+|.++|++|++|++.|||+||+++||||||+|++|+|||   
T Consensus       332 ~~k~IIF~nt~~~~~~l~~~L~~~g~~~~~lhg~l~q~~R~~~l~~F~~g~~~iLVaTDvaaRGLDi~~V~~VInyD---  408 (472)
T PRK01297        332 WERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFREGKIRVLVATDVAGRGIHIDGISHVINFT---  408 (472)
T ss_pred             CCCEEEECCCHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCEEEECCHHHCCCCCCCCCEEEEEC---
T ss_conf             87368961749999999987654496168643778999999999999769996998866133667757888899968---


Q ss_pred             CCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHHHHHHHHHHHH
Q ss_conf             6744460137766543127-9986699982489889999999878888888
Q gi|254780991|r  662 EGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAIDETTRRREKQ  711 (805)
Q Consensus       662 ~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai~e~~rrr~~q  711 (805)
                        +|.+.++|+||+||||| |..|.+|+|+   +......+.+++....++
T Consensus       409 --~P~~~~~YIHRiGRTGRaG~~G~aisfv---~~~d~~~~~~ie~~l~~~  454 (472)
T PRK01297        409 --LPEDPDDYVHRIGRTGRAGASGVSISFA---GEDDAFQLPEIEELLGRK  454 (472)
T ss_pred             --CCCCHHHHHHCCCHHHCCCCCEEEEEEE---CHHHHHHHHHHHHHHCCC
T ss_conf             --9897676010265312689963799986---388999999999998897


No 15 
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00  E-value=4.5e-30  Score=243.78  Aligned_cols=121  Identities=22%  Similarity=0.339  Sum_probs=110.5

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCC
Q ss_conf             32124662147899999999863596687325764578999999997318986999845875357877711799962885
Q gi|254780991|r  582 GLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADK  661 (805)
Q Consensus       582 ~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~  661 (805)
                      ..+++||+.|++.++.|+.+|...|+.+..+||++.+.+|.++|++|++|+++|||+||++|||||||+|++|+|||   
T Consensus       256 ~~k~iIF~nt~~~~~~l~~~L~~~g~~~~~lhg~~~q~~R~~~l~~F~~g~~~vLVaTDvaaRGLDi~~V~~VInyD---  332 (423)
T PRK04837        256 PDRAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVPQKKRLRILEQFTRGDLDILVATDVAARGLHIPDVTHVFNYD---  332 (423)
T ss_pred             CCCEEEECCHHHHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEEC---
T ss_conf             87468861628889999999976598178722545799999999999769998998700432777726798899969---


Q ss_pred             CCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHHHHHHHHHHH
Q ss_conf             6744460137766543127-998669998248988999999987888888
Q gi|254780991|r  662 EGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAIDETTRRREK  710 (805)
Q Consensus       662 ~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai~e~~rrr~~  710 (805)
                        +|.+.++|+||+||||| |..|.+|+|+   +......+..++..-..
T Consensus       333 --~P~~~~~YiHRiGRTgRaG~~G~aitf~---~~~~~~~l~~ie~~~~~  377 (423)
T PRK04837        333 --LPDDCEDYVHRIGRTGRAGASGHSISFA---CEEYALNLPAIETYIGH  377 (423)
T ss_pred             --CCCCHHHEECCCCHHHCCCCCEEEEEEE---CHHHHHHHHHHHHHHCC
T ss_conf             --9897455100465412789946899987---39999999999999689


No 16 
>PTZ00110 helicase; Provisional
Probab=99.98  E-value=2.2e-29  Score=238.57  Aligned_cols=115  Identities=22%  Similarity=0.326  Sum_probs=106.5

Q ss_pred             HCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECC
Q ss_conf             02321246621478999999998635966873257645789999999973189869998458753578777117999628
Q gi|254780991|r  580 QQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDA  659 (805)
Q Consensus       580 ~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dA  659 (805)
                      ....+++||+.||+.+++|+..|...|+.+..+||+++|.+|.++|++|+.|++.|||+||++|||||||+|++|+||| 
T Consensus       426 ~~~~kvIIFvnTK~~ad~L~~~L~~~G~~a~~LHGd~~Q~eR~~~L~~Fr~G~~~ILVATDVAARGLDI~dV~~VINYD-  504 (602)
T PTZ00110        426 MDGGKILIFSETKKGADTLTKELRLDGWPALCIHGDKKQEERTWVLNEFKTGKHPIMIATDVASRGLDVRDVKYVINFD-  504 (602)
T ss_pred             CCCCCEEEEECCHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCEEEECCHHHCCCCCCCCCEEEEEC-
T ss_conf             7899689992973899999999986799579820889999999999999769998898822233155515798799958-


Q ss_pred             CCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHH
Q ss_conf             856744460137766543127-9986699982489889999
Q gi|254780991|r  660 DKEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQL  699 (805)
Q Consensus       660 D~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~  699 (805)
                          ||.+.+.|||||||||| |..|.+++|.+.-...+-+
T Consensus       505 ----~P~~~edYVHRIGRTGRAG~kG~A~TF~Tpd~~~~a~  541 (602)
T PTZ00110        505 ----FPNQIEDYVHRIGRTGRAGAKGASYTFLTPDKYRSAR  541 (602)
T ss_pred             ----CCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCHHHHH
T ss_conf             ----9798022101356150689931699997777077899


No 17 
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.97  E-value=3.4e-28  Score=229.72  Aligned_cols=117  Identities=26%  Similarity=0.438  Sum_probs=105.7

Q ss_pred             CCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCC
Q ss_conf             12466214789999999986359668732576457899999999731898699984587535787771179996288567
Q gi|254780991|r  584 RILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEG  663 (805)
Q Consensus       584 R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~  663 (805)
                      +++||+.||+.++.|+..|...|+.+..+||++++.+|.+++++|++|+++|||+|+++|||||||+|++|+|||     
T Consensus       275 ~~IVF~~tk~~~~~l~~~l~~~g~~~~~lhG~l~q~~R~~~l~~F~~g~~~iLVaTDvaaRGiDi~~v~~VinyD-----  349 (513)
T COG0513         275 RVIVFVRTKRLVEELAESLRKRGFKVAALHGDLPQEERDRALEKFKDGELRVLVATDVAARGLDIPDVSHVINYD-----  349 (513)
T ss_pred             EEEEEECCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCEEEECC-----
T ss_conf             399995767769999999997896599973889988999999999759989899806544689966674799787-----


Q ss_pred             CCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHHHHHHHH
Q ss_conf             44460137766543127-998669998248988999999987888
Q gi|254780991|r  664 FLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAIDETTRR  707 (805)
Q Consensus       664 f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai~e~~rr  707 (805)
                      .|.+.++|||||||||| |..|.+|+|++..  .....+..+++.
T Consensus       350 ~p~~~e~yvHRiGRTgRaG~~G~ai~fv~~~--~e~~~l~~i~~~  392 (513)
T COG0513         350 LPLDPEDYVHRIGRTGRAGRKGVAISFVTEE--EEVKKLKRIEKR  392 (513)
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCEEEEEECCH--HHHHHHHHHHHH
T ss_conf             9998041317345343489987279985562--349999999998


No 18 
>KOG0331 consensus
Probab=99.96  E-value=2.4e-27  Score=223.39  Aligned_cols=117  Identities=24%  Similarity=0.423  Sum_probs=107.8

Q ss_pred             HHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCC
Q ss_conf             88999999863023212466214789999999986359668732576457899999999731898699984587535787
Q gi|254780991|r  569 EDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDI  648 (805)
Q Consensus       569 ddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~  648 (805)
                      .+++.++.  ..++.+++||+.|||.+++|+.++...++.+..+|||++|.+|+.+|++||.|++.|||+|||+|+||||
T Consensus       330 ~~lL~~~~--~~~~~KvIIFc~tkr~~~~l~~~l~~~~~~a~~iHGd~sQ~eR~~~L~~FreG~~~vLVATdVAaRGLDi  407 (519)
T KOG0331         330 GKLLEDIS--SDSEGKVIIFCETKRTCDELARNLRRKGWPAVAIHGDKSQSERDWVLKGFREGKSPVLVATDVAARGLDV  407 (519)
T ss_pred             HHHHHHHH--CCCCCCEEEEECCHHHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHHHCCCCCCCEEEECCCCCCCCCC
T ss_conf             99999973--5689868999643364999998877517661550066648899999975026885469881531256887


Q ss_pred             CCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECC
Q ss_conf             77117999628856744460137766543127-998669998248
Q gi|254780991|r  649 PECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYADT  692 (805)
Q Consensus       649 p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~  692 (805)
                      |+|.||++||     ||++.+.||||+||||| |..|.+++|...
T Consensus       408 ~dV~lVInyd-----fP~~vEdYVHRiGRTGRa~~~G~A~tfft~  447 (519)
T KOG0331         408 PDVDLVINYD-----FPNNVEDYVHRIGRTGRAGKKGTAITFFTS  447 (519)
T ss_pred             CCCCEEEECC-----CCCCHHHHHHHCCCCCCCCCCCEEEEEEEH
T ss_conf             6664799678-----999989988653765457888248999727


No 19 
>PRK13766 Hef nuclease; Provisional
Probab=99.96  E-value=1.1e-24  Score=203.45  Aligned_cols=422  Identities=19%  Similarity=0.211  Sum_probs=217.9

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC----CCCEEEEECCHHHHHHHHHHHHHHCC--CCEEEEEE
Q ss_conf             3899999999887397337998633764699999999971----99789993163468999999998678--98389986
Q gi|254780991|r  153 QPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM----QRPAIVMAPNKILAAQLYSEFKNFFP--HNAVEYFV  226 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~----gr~aLvLvPei~La~QL~~rfk~~Fp--~n~V~~f~  226 (805)
                      |.+..+.-..    +  ..++.==||||||+|-+-+|.+.    ++.+|+|+|.+.|..|-+.-|+.+++  ...|..+.
T Consensus        20 Q~el~~~Al~----~--NtiVvLPTG~GKT~IA~lvi~~~l~~~~gKilFLaPT~pLV~Qq~~~~~~~l~i~~~~i~~lt   93 (764)
T PRK13766         20 QQLLAAKALK----G--NTLVVLPTGLGKTAIALLVIAERLQKYGGKVLILAPTKPLVEQHAEFFRKFLNIDPEKIVVLT   93 (764)
T ss_pred             HHHHHHHHHH----C--CEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHCCCCCCEEEEEE
T ss_conf             9999999985----8--989995998668999999999999748988999858888999999999997099955289998


Q ss_pred             ECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHC----CCCCHHHHHCCEEEEECCCC
Q ss_conf             21344442101555432102210358899999999999985499849982778961----68983477225799941981
Q gi|254780991|r  227 SYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIY----GIGSVESYSQMIVQLKIGDS  302 (805)
Q Consensus       227 S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIf----gl~~P~~~lglIIvdEehd~  302 (805)
                      .-.                      +   ...|-..|.     +..|||+|---+.    .--.+.....++|+||.|-.
T Consensus        94 G~~----------------------~---~~~r~~~w~-----~~~Viv~TPQvl~ndL~~g~i~l~dv~lLVfDEaHha  143 (764)
T PRK13766         94 GEI----------------------S---PEKRAALWE-----KAKVIVATPQVIENDLLAGRISLEDVSLLIFDEAHRA  143 (764)
T ss_pred             CCC----------------------C---HHHHHHHHC-----CCCEEEECCHHHHHHHHHCCCCHHHCCEEEEECCCCC
T ss_conf             887----------------------8---276899860-----7999999908999999829867888228999746666


Q ss_pred             CCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEEC-CCCCHHHHH---HHHCCCCCCHHHHHCCCCCCCCHHHHCCCCC
Q ss_conf             117875323431176563387754533187247831-788877888---7310444200222101666400111000010
Q gi|254780991|r  303 VEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEI-FPSHLEDVA---WRVSMFGNDIEEISEFYPLTGQKIRNVETIK  378 (805)
Q Consensus       303 ~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILds-atps~Es~~---~Rie~f~deIe~I~~fDplT~~~~~~~~~~~  378 (805)
                      .... -+......+|+          ....+-|+|. |+|..+.-.   +--+++-..++...+.|+.-.+-+....-. 
T Consensus       144 ~Gnh-~Y~~I~~~y~~----------~~~~PrILGLTASPGs~~e~I~ev~~nL~i~~ie~rte~d~dv~~yv~~~~ie-  211 (764)
T PRK13766        144 VGNY-AYVFIAERYHE----------DAKNPLVLGLTASPGSDEEKIKEVCENLGIEHVEVKTEDDPDVRPYVHKVKVE-  211 (764)
T ss_pred             CCCC-CHHHHHHHHHH----------CCCCCEEEEECCCCCCCHHHHHHHHHHCCCCEEEEECCCCHHHHHHCCCCCEE-
T ss_conf             6776-28999999985----------37785588503688764489999998659872896144443445433567327-


Q ss_pred             CHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHCCCCCCCCHHHHHH
Q ss_conf             00000002563678875455899899899887544332110---------012444477775332112014510113331
Q gi|254780991|r  379 IYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEA---------QRLEQRITYDLEMLETTGSCQSIENYSRYL  449 (805)
Q Consensus       379 i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea---------~rL~qR~~~dle~l~e~G~~~gienyS~~L  449 (805)
                          ...+...+.+......+...+..++..+...+.....         ..+..+....+......+| .....++-.+
T Consensus       212 ----~i~V~l~~~~~~i~~~l~~~l~~~l~~L~~~~~~~~~~~~~sk~~l~~~~~~~~~~i~~~~~~~~-~~~~~~a~~~  286 (764)
T PRK13766        212 ----WIRVELPEELKEIRDLLNEALKDRLKKLKELGVIVSISPDVSKKELLGLQKRIQQEIARGDPEGY-EAISIHAEAM  286 (764)
T ss_pred             ----EEEECCCHHHHHHHHHHHHHHHHHHHHHHHCCCEECCCCCCCHHHHHHHHHHHHHHHHCCCHHHH-HHHHHHHHHH
T ss_conf             ----99807978999999999999999999999669700455546899999999999998864687999-9999999999


Q ss_pred             CCCCC-----CCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCC
Q ss_conf             14465-----5562023302654421321012344754454324565413332357665544432221110100121555
Q gi|254780991|r  450 TGRNP-----GEPPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPT  524 (805)
Q Consensus       450 ~~r~~-----ge~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~  524 (805)
                      ..+..     ......++.|+..                                                      ...
T Consensus       287 kl~~a~ell~tqg~~~~~~yl~~------------------------------------------------------l~~  312 (764)
T PRK13766        287 KLRHAVELLETQGVEALRRYLER------------------------------------------------------LRE  312 (764)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH------------------------------------------------------HHH
T ss_conf             99999999998518999999999------------------------------------------------------997


Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHH---CCCCCCCCCCEECCCCCHHHHHHHHHHH--HHHCCCCCCCCCHHHHHHHHHH
Q ss_conf             4544468675420132200234320---1244677200001331016889999998--6302321246621478999999
Q gi|254780991|r  525 TIVVSATPGSWELEQCQGIIVEQII---RPTGLVDPPVEIRSARTQVEDVYDEINL--AAQQGLRILLTVLTKRMAEDLT  599 (805)
Q Consensus       525 ~~~~satPg~~e~e~~~~~~~eqi~---rptg~idp~ieir~~~~qvddl~~ei~~--~~~~~~R~l~~~~tkr~~e~l~  599 (805)
                      ............+-.  ...+.++.   ...+...|         .++.|.+-+.+  ....+.|++||+-++..+..|+
T Consensus       313 ~~~~~~~k~~k~l~~--d~~~~~~~~~~~~~~~~hP---------Kl~kL~eiL~~~~~~~~~sRvIIFv~~R~Ta~~L~  381 (764)
T PRK13766        313 EARSSGSKASKRLVE--DPRFKKAVRLLKELDIEHP---------KLEKLLEIVKEQLGKKPDSRIIVFTQYRDTAEKIV  381 (764)
T ss_pred             HCCCCCCHHHHHHHH--CHHHHHHHHHHHHCCCCCC---------HHHHHHHHHHHHHCCCCCCEEEEEECCHHHHHHHH
T ss_conf             301333267899875--8778999998764467893---------79999999999972699980899927679999999


Q ss_pred             HHHHHCCCEEEECCC--------CCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHH
Q ss_conf             998635966873257--------645789999999973189869998458753578777117999628856744460137
Q gi|254780991|r  600 EYLYERNIRVRYMHS--------EVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSL  671 (805)
Q Consensus       600 ~~~~~~~i~~~~~h~--------~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~  671 (805)
                      ++|...+|++..+-|        .+++.+..++|++||.|+++|||+|.++.+|||||.|.||+-||+     ..|+--.
T Consensus       382 ~~L~~~~ik~~~fVGq~s~~~~kGmsqkeQ~evL~~FR~Ge~NvLVATSV~EEGLDIP~cdLVI~Yd~-----v~S~IR~  456 (764)
T PRK13766        382 DLLNKNGIKAIRFVGQASRDGDKGMSQKEQIETLDRFRAGEYNVLVATSVAEEGLDIPSVDLVIFYEP-----VPSEIRS  456 (764)
T ss_pred             HHHHHCCCCCEEEEECCCCCCCCCCCHHHHHHHHHHHHCCCCCEEEECCHHHCCCCCCCCCEEEEECC-----CCCHHHH
T ss_conf             99865899722898368987888989899999999985799888987676644888877888999379-----9619999


Q ss_pred             HHHHHHHCCCCCCEEEEEECCCCHHH
Q ss_conf             76654312799866999824898899
Q gi|254780991|r  672 IQTIGRAARNVNSKVILYADTITKSI  697 (805)
Q Consensus       672 ~q~~GRagR~~~G~~il~ad~~t~~~  697 (805)
                      |||.|||||...|+|++....=|..+
T Consensus       457 IQR~GRTGR~r~G~v~vLi~~gt~de  482 (764)
T PRK13766        457 IQRKGRTGRQRGGRVVVLIAKGTRDE  482 (764)
T ss_pred             HHHCCCCCCCCCCEEEEEEECCCHHH
T ss_conf             99746656778974999995686267


No 20 
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.96  E-value=7.6e-26  Score=212.12  Aligned_cols=330  Identities=20%  Similarity=0.274  Sum_probs=219.8

Q ss_pred             CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCEE-EEEEECCCCHHHHHHHHHH---HCCCCEEEEECCHHHHHHHHHHHH
Q ss_conf             754775188888843899999999887397337-9986337646999999999---719978999316346899999999
Q gi|254780991|r  139 TFFQMQTDYHPSGDQPAAIAQLLKGIHSREKVQ-LLLGVTGSGKTFTMAKVIE---AMQRPAIVMAPNKILAAQLYSEFK  214 (805)
Q Consensus       139 ~~f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~q-lL~GVTGSGKTevya~lI~---~~gr~aLvLvPei~La~QL~~rfk  214 (805)
                      ..|.-.=||++|+||..||++|..-+.++.... ||.|=-|||||.|-+-++-   +.|.|+.+|+|.--||.|-|..|+
T Consensus       248 ~~~~~~LPF~LT~~Q~~~~~ei~~dl~~~~~m~rllqGDVGsGKT~va~~a~~~~~~~g~q~a~maPTeiLa~Qh~~~~~  327 (677)
T PRK10917        248 KKFLASLPFELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEAGYQAALMAPTEILAEQHYRNLK  327 (677)
T ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHCCCCCCCHHHHHHHHHHHHHHHCCEEEEECCCHHHHHHHHHHHH
T ss_conf             99998099988988999999999876599542777328767888999999999999819948998767999999999999


Q ss_pred             HHCCCC--EEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHHHHC
Q ss_conf             867898--389986213444421015554321022103588999999999999854998499827789616898347722
Q gi|254780991|r  215 NFFPHN--AVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVESYSQ  292 (805)
Q Consensus       215 ~~Fp~n--~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~~lg  292 (805)
                      .+|++-  .|++..+..                         ...+|-.....+.+|+..|||||-+-+. -...+.++|
T Consensus       328 ~~~~~~~i~v~lltg~~-------------------------~~~~~~~~~~~~~~g~~~i~iGTHal~~-~~v~f~~Lg  381 (677)
T PRK10917        328 KWLEPLGIRVALLTGSL-------------------------KGKERREILEALASGEADIVIGTHALIQ-DDVEFHNLG  381 (677)
T ss_pred             HHHHHCCCEEEEEECCC-------------------------HHHHHHHHHHHHHCCCCCEEEEHHHHHH-CCCCCCCCC
T ss_conf             87763498899840774-------------------------1778999999985799778973078773-556446665


Q ss_pred             CEEEEECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCCHHHHHCCCCCCCCHHH
Q ss_conf             57999419811178753234311765633877545331872478317888778887310444200222101666400111
Q gi|254780991|r  293 MIVQLKIGDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEEISEFYPLTGQKIR  372 (805)
Q Consensus       293 lIIvdEehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~~Rie~f~deIe~I~~fDplT~~~~~  372 (805)
                      ++|+||.|-=             |-+-+..-...|  ...-.++=+|||---+  ....++||.=-+          .+.
T Consensus       382 lvviDEQHrF-------------GV~QR~~l~~k~--~~~~~L~mtATPIPRt--la~~~~g~~d~s----------~i~  434 (677)
T PRK10917        382 LVIIDEQHRF-------------GVHQRLALREKG--ENPHVLVMTATPIPRT--LAMTAYGDLDVS----------VID  434 (677)
T ss_pred             EEEECHHHHH-------------HHHHHHHHHHCC--CCCEEEEEECCCCHHH--HHHHHHCCCCEE----------ECC
T ss_conf             6995305776-------------399999998439--9972999836884388--999873576666----------667


Q ss_pred             HCCCCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCC
Q ss_conf             00001000000002563678875455899899899887544332110012444477775332112014510113331144
Q gi|254780991|r  373 NVETIKIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGR  452 (805)
Q Consensus       373 ~~~~~~i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r  452 (805)
                      ...... .|..-++........+...+..                           .+...++           .|++|-
T Consensus       435 ~~P~~r-~~i~T~~~~~~~~~~~~~~i~~---------------------------~~~~g~q-----------~y~v~p  475 (677)
T PRK10917        435 ELPPGR-KPITTVVIPDSRRDEVYERIRE---------------------------EIAKGRQ-----------AYVVCP  475 (677)
T ss_pred             CCCCCC-CCCEEEEECHHHHHHHHHHHHH---------------------------HHHCCCE-----------EEEEEC
T ss_conf             799999-8726999762568999999999---------------------------9975992-----------899941


Q ss_pred             CCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCC
Q ss_conf             65556202330265442132101234475445432456541333235766554443222111010012155545444686
Q gi|254780991|r  453 NPGEPPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATP  532 (805)
Q Consensus       453 ~~ge~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~satP  532 (805)
                                         .++||.                                                       
T Consensus       476 -------------------~ieese-------------------------------------------------------  481 (677)
T PRK10917        476 -------------------LIEESE-------------------------------------------------------  481 (677)
T ss_pred             -------------------CCCCCC-------------------------------------------------------
T ss_conf             -------------------311233-------------------------------------------------------


Q ss_pred             CCCCCHHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEC
Q ss_conf             75420132200234320124467720000133101688999999863023212466214789999999986359668732
Q gi|254780991|r  533 GSWELEQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYM  612 (805)
Q Consensus       533 g~~e~e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~  612 (805)
                            +               +|                               ...-....+.|.+.|+  ++++..+
T Consensus       482 ------~---------------~~-------------------------------~~~~~~~~~~l~~~~~--~~~v~~~  507 (677)
T PRK10917        482 ------K---------------LD-------------------------------LQSAEETYEELQKALP--ELRVGLL  507 (677)
T ss_pred             ------C---------------CH-------------------------------HHHHHHHHHHHHHHCC--CCEEEEE
T ss_conf             ------2---------------01-------------------------------7779999999984489--9759983


Q ss_pred             CCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCCC-CCCEEEEEEC
Q ss_conf             576457899999999731898699984587535787771179996288567444601377665431279-9866999824
Q gi|254780991|r  613 HSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAARN-VNSKVILYAD  691 (805)
Q Consensus       613 h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR~-~~G~~il~ad  691 (805)
                      ||-++..+.+++|++|++|++||||+|.++.=|+|+||.+..+|.|||.=|.    -.|.|-=||.||| ..|-+++.++
T Consensus       508 hG~m~~~ek~~~m~~F~~g~~~iLvsTtviEvGvdvpna~~mvi~~aerfGl----sqLhQLRGRVgRg~~~~~c~l~~~  583 (677)
T PRK10917        508 HGRMKPAEKDAVMAAFKAGEIDILVATTVIEVGVDVPNATVMVIENAERFGL----AQLHQLRGRVGRGAAQSYCVLLYK  583 (677)
T ss_pred             CCCCCHHHHHHHHHHHHCCCCCEEEECCEEECCCCCCCCCEEEEECCCCCCH----HHHHHHCCCCCCCCCCEEEEEEEC
T ss_conf             0789878999999999839999999898975586788885899977010536----788774274367888458999838


Q ss_pred             C
Q ss_conf             8
Q gi|254780991|r  692 T  692 (805)
Q Consensus       692 ~  692 (805)
                      .
T Consensus       584 ~  584 (677)
T PRK10917        584 D  584 (677)
T ss_pred             C
T ss_conf             9


No 21 
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=99.93  E-value=3.9e-23  Score=191.84  Aligned_cols=330  Identities=21%  Similarity=0.263  Sum_probs=221.2

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHCCCCEE-EEEEECCCCHHHHHHHHHH---HCCCCEEEEECCHHHHHHHHHHHHHH
Q ss_conf             4775188888843899999999887397337-9986337646999999999---71997899931634689999999986
Q gi|254780991|r  141 FQMQTDYHPSGDQPAAIAQLLKGIHSREKVQ-LLLGVTGSGKTFTMAKVIE---AMQRPAIVMAPNKILAAQLYSEFKNF  216 (805)
Q Consensus       141 f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~q-lL~GVTGSGKTevya~lI~---~~gr~aLvLvPei~La~QL~~rfk~~  216 (805)
                      |.-.=||++|.+|..||++|...+.+..+.. ||.|=-|||||.|-+=++-   +.|.|+..++|.--||.|.|..|+.+
T Consensus       255 ~~~~LPF~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~G~Q~ALMAPTEILA~QH~~~~~~~  334 (677)
T COG1200         255 FLAALPFKLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAGYQAALMAPTEILAEQHYESLRKW  334 (677)
T ss_pred             HHHHCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHH
T ss_conf             99858997678999999999866448666678752676777899999999999872881688663799999999999987


Q ss_pred             CCCC--EEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHHHHCCE
Q ss_conf             7898--38998621344442101555432102210358899999999999985499849982778961689834772257
Q gi|254780991|r  217 FPHN--AVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVESYSQMI  294 (805)
Q Consensus       217 Fp~n--~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~~lglI  294 (805)
                      |+.-  .|++..+..                         .-+.|-.....|.+|+..|||||-.=|. =..-+.++|++
T Consensus       335 l~~~~i~V~lLtG~~-------------------------kgk~r~~~l~~l~~G~~~ivVGTHALiQ-d~V~F~~LgLV  388 (677)
T COG1200         335 LEPLGIRVALLTGSL-------------------------KGKARKEILEQLASGEIDIVVGTHALIQ-DKVEFHNLGLV  388 (677)
T ss_pred             HHHCCCEEEEEECCC-------------------------CHHHHHHHHHHHHCCCCCEEEECCHHHH-CCEEECCEEEE
T ss_conf             665197489864466-------------------------5067999999874799897997221220-45044202389


Q ss_pred             EEEECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCCHH-HHHCCCCCCCCHHHH
Q ss_conf             9994198111787532343117656338775453318724783178887788873104442002-221016664001110
Q gi|254780991|r  295 VQLKIGDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIE-EISEFYPLTGQKIRN  373 (805)
Q Consensus       295 IvdEehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~~Rie~f~deIe-~I~~fDplT~~~~~~  373 (805)
                      |+||-|-             +|-+-|..-...|.- .--.++=+|||---  -.++..|||.=- .|.+.=         
T Consensus       389 IiDEQHR-------------FGV~QR~~L~~KG~~-~Ph~LvMTATPIPR--TLAlt~fgDldvS~IdElP---------  443 (677)
T COG1200         389 IIDEQHR-------------FGVHQRLALREKGEQ-NPHVLVMTATPIPR--TLALTAFGDLDVSIIDELP---------  443 (677)
T ss_pred             EEECCCC-------------CCHHHHHHHHHHCCC-CCCEEEEECCCCHH--HHHHHHHCCCCCHHHCCCC---------
T ss_conf             9725210-------------229999999973789-99679995798507--8898886146301112579---------


Q ss_pred             CCCCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCC
Q ss_conf             00010000000025636788754558998998998875443321100124444777753321120145101133311446
Q gi|254780991|r  374 VETIKIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRN  453 (805)
Q Consensus       374 ~~~~~i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~  453 (805)
                        .. ..|..-+..+.+........|..++.                           .           +.-.|+.|- 
T Consensus       444 --~G-RkpI~T~~i~~~~~~~v~e~i~~ei~---------------------------~-----------GrQaY~VcP-  481 (677)
T COG1200         444 --PG-RKPITTVVIPHERRPEVYERIREEIA---------------------------K-----------GRQAYVVCP-  481 (677)
T ss_pred             --CC-CCCEEEEEECCCCHHHHHHHHHHHHH---------------------------C-----------CCEEEEEEC-
T ss_conf             --89-97408999644447999999999997---------------------------4-----------997999952-


Q ss_pred             CCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCC
Q ss_conf             55562023302654421321012344754454324565413332357665544432221110100121555454446867
Q gi|254780991|r  454 PGEPPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPG  533 (805)
Q Consensus       454 ~ge~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~satPg  533 (805)
                                        .++||.                         .+                             
T Consensus       482 ------------------LIeeSE-------------------------~l-----------------------------  489 (677)
T COG1200         482 ------------------LIEESE-------------------------KL-----------------------------  489 (677)
T ss_pred             ------------------CCCCCC-------------------------CC-----------------------------
T ss_conf             ------------------535433-------------------------11-----------------------------


Q ss_pred             CCCCHHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECC
Q ss_conf             54201322002343201244677200001331016889999998630232124662147899999999863596687325
Q gi|254780991|r  534 SWELEQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMH  613 (805)
Q Consensus       534 ~~e~e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h  613 (805)
                                                +                           -.....+.++|..+|+  ++++.-+|
T Consensus       490 --------------------------~---------------------------l~~a~~~~~~L~~~~~--~~~vgL~H  514 (677)
T COG1200         490 --------------------------E---------------------------LQAAEELYEELKSFLP--ELKVGLVH  514 (677)
T ss_pred             --------------------------H---------------------------HHHHHHHHHHHHHHCC--CCEEEEEE
T ss_conf             --------------------------3---------------------------6549999999998705--46367775


Q ss_pred             CCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCCC-CCCEEEEEECC
Q ss_conf             76457899999999731898699984587535787771179996288567444601377665431279-98669998248
Q gi|254780991|r  614 SEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAARN-VNSKVILYADT  692 (805)
Q Consensus       614 ~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR~-~~G~~il~ad~  692 (805)
                      |-++..+.++||++|++|++||||+|.++.=|.|+||-|+.+|.|||.=|+    -.|-|-=||.||| ....++|.+..
T Consensus       515 Grm~~~eKd~vM~~Fk~~e~~ILVaTTVIEVGVdVPnATvMVIe~AERFGL----aQLHQLRGRVGRG~~qSyC~Ll~~~  590 (677)
T COG1200         515 GRMKPAEKDAVMEAFKEGEIDILVATTVIEVGVDVPNATVMVIENAERFGL----AQLHQLRGRVGRGDLQSYCVLLYKP  590 (677)
T ss_pred             CCCCHHHHHHHHHHHHCCCCCEEEEEEEEEECCCCCCCEEEEEECHHHHHH----HHHHHHCCCCCCCCCCEEEEEEECC
T ss_conf             689867799999999808876899813899523578870799965433037----8888752655788754489999679


Q ss_pred             CC
Q ss_conf             98
Q gi|254780991|r  693 IT  694 (805)
Q Consensus       693 ~t  694 (805)
                      ..
T Consensus       591 ~~  592 (677)
T COG1200         591 PL  592 (677)
T ss_pred             CC
T ss_conf             87


No 22 
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.93  E-value=8.7e-24  Score=196.71  Aligned_cols=329  Identities=19%  Similarity=0.236  Sum_probs=220.1

Q ss_pred             HHCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCE-EEEEEECCCCHHHHHHHHHHH---C
Q ss_conf             205740266678887421588775477518888884389999999988739733-799863376469999999997---1
Q gi|254780991|r  117 LKNGKIWTPHRSWSINNHSKDITFFQMQTDYHPSGDQPAAIAQLLKGIHSREKV-QLLLGVTGSGKTFTMAKVIEA---M  192 (805)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~-qlL~GVTGSGKTevya~lI~~---~  192 (805)
                      .+.|..+.|   +.++-.     .|+-..+|+.|.||.+||+++.+-++++... =|+-|=-|.|||||-+++.=.   .
T Consensus       577 ~~~G~af~~---d~~~~~-----eFe~~FpyeET~DQl~AI~eV~~DMes~~PMDRLiCGDVGfGKTEVA~RAAFkav~~  648 (1148)
T PRK10689        577 AKEGFAFKH---DREQYQ-----LFCDSFPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVEN  648 (1148)
T ss_pred             CCCCCCCCC---CHHHHH-----HHHHCCCCCCCHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf             056886789---849999-----999609997876899999999877638867741567688887799999999999963


Q ss_pred             CCCEEEEECCHHHHHHHHHHHHHHCCCCE--EEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCC
Q ss_conf             99789993163468999999998678983--8998621344442101555432102210358899999999999985499
Q gi|254780991|r  193 QRPAIVMAPNKILAAQLYSEFKNFFPHNA--VEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERN  270 (805)
Q Consensus       193 gr~aLvLvPei~La~QL~~rfk~~Fp~n~--V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~  270 (805)
                      ||||-||||.--||.|-|.-|++||.+=.  |++. |.+-                        ..++.-.....|.+|+
T Consensus       649 gkQVavlvPTTiLA~QH~~tF~~Rf~~~pv~i~~L-sRf~------------------------s~ke~~~i~~~l~~G~  703 (1148)
T PRK10689        649 HKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEML-SRFR------------------------SAKEQTQILAEAAEGK  703 (1148)
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHHHHCCCCEEEEE-CCCC------------------------CHHHHHHHHHHHHCCC
T ss_conf             98089983662237999999998764157337750-3888------------------------8999999999986699


Q ss_pred             CEEEECCHHHHCCCCCHHHHHCCEEEEECCCC-CCHHHHHHHHHHCCCCCCHHHHHHHHHCCCC-EEEECCCCCHHHHHH
Q ss_conf             84998277896168983477225799941981-1178753234311765633877545331872-478317888778887
Q gi|254780991|r  271 DCIVVSSVSCIYGIGSVESYSQMIVQLKIGDS-VEQKELLSSLVKQQYKRQDIGIIRGTFRVCG-DSIEIFPSHLEDVAW  348 (805)
Q Consensus       271 ~~IVVgsrSAIfgl~~P~~~lglIIvdEehd~-~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg-~ILdsatps~Es~~~  348 (805)
                      ..|||||-.-+- ----+.+|||+|+||||-= ..+++..++                 ++.-. ++-=+|||==-+...
T Consensus       704 idIvIGTH~ll~-~dv~f~~LGLlIiDEEqrFGV~~KE~lk~-----------------l~~~vdvLtltATPIPRTL~m  765 (1148)
T PRK10689        704 IDILIGTHKLLQ-SDVKWKDLGLLIVDEEHRFGVRHKERIKA-----------------MRADVDILTLTATPIPRTLNM  765 (1148)
T ss_pred             CCEEEHHHHHHC-CCCCCCCCCEEEECCCHHCCHHHHHHHHH-----------------CCCCCCEEEEECCCCHHHHHH
T ss_conf             877620488866-98654666437860102137999999972-----------------289987897625564469999


Q ss_pred             HHCCCCCCHHHHHCCCCCCCCHHHHCCCCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             31044420022210166640011100001000000002563678875455899899899887544332110012444477
Q gi|254780991|r  349 RVSMFGNDIEEISEFYPLTGQKIRNVETIKIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITY  428 (805)
Q Consensus       349 Rie~f~deIe~I~~fDplT~~~~~~~~~~~i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~  428 (805)
                      ...    -+..++...         -.-..-.|..-+|...+... .                                 
T Consensus       766 sl~----G~rdlS~i~---------tpP~~R~~v~T~v~~~~~~~-i---------------------------------  798 (1148)
T PRK10689        766 AMS----GMRDLSIIA---------TPPARRLAVKTFVREYDSLV-V---------------------------------  798 (1148)
T ss_pred             HHC----CCCCEEEEC---------CCCCCCCCCEEEEECCCHHH-H---------------------------------
T ss_conf             880----773302213---------69998987089983587299-9---------------------------------


Q ss_pred             HHHHHHHCCCCCCCCHHHHHHCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             77533211201451011333114465556202330265442132101234475445432456541333235766554443
Q gi|254780991|r  429 DLEMLETTGSCQSIENYSRYLTGRNPGEPPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCM  508 (805)
Q Consensus       429 dle~l~e~G~~~gienyS~~L~~r~~ge~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~  508 (805)
                                                                                                      
T Consensus       799 --------------------------------------------------------------------------------  798 (1148)
T PRK10689        799 --------------------------------------------------------------------------------  798 (1148)
T ss_pred             --------------------------------------------------------------------------------
T ss_conf             --------------------------------------------------------------------------------


Q ss_pred             CCCCCCCCCHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCC-
Q ss_conf             2221110100121555454446867542013220023432012446772000013310168899999986302321246-
Q gi|254780991|r  509 DNRPLRFEEWNCLRPTTIVVSATPGSWELEQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILL-  587 (805)
Q Consensus       509 ~n~pl~f~e~~~~~~~~~~~satPg~~e~e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~-  587 (805)
                                                                                     -+.|.....+|-.+++ 
T Consensus       799 ---------------------------------------------------------------~eai~re~~rggq~~~~  815 (1148)
T PRK10689        799 ---------------------------------------------------------------REAILREILRGGQVYYL  815 (1148)
T ss_pred             ---------------------------------------------------------------HHHHHHHHHHCCEEEEE
T ss_conf             ---------------------------------------------------------------99999999818808999


Q ss_pred             ---CCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCC
Q ss_conf             ---62147899999999863596687325764578999999997318986999845875357877711799962885674
Q gi|254780991|r  588 ---TVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGF  664 (805)
Q Consensus       588 ---~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f  664 (805)
                         -....++++.|.+.+|+.+|.+  .||.++..+-+++|.+|..|++||||.|.++.-|+||||+.-.+|-+||+-|+
T Consensus       816 ~~~~~~i~~~~~~~~~~~p~~~~~~--~hg~m~~~~~e~~m~~f~~~~~~~l~~ttiie~g~dip~ant~ii~~a~~~gl  893 (1148)
T PRK10689        816 YNDVENIQKAAERLAELVPEARIAI--GHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGL  893 (1148)
T ss_pred             ECCHHHHHHHHHHHHHHCCCCCEEE--EECCCCHHHHHHHHHHHHCCCCCEEEECCEEECCCCCCCCCEEEEECHHHCCH
T ss_conf             5325419999999997487771899--98999989999999999759988999897876586677884799975321455


Q ss_pred             CCCHHHHHHHHHHHCC-CCCCEEEEEECC
Q ss_conf             4460137766543127-998669998248
Q gi|254780991|r  665 LRSKTSLIQTIGRAAR-NVNSKVILYADT  692 (805)
Q Consensus       665 ~~~~~~~~q~~GRagR-~~~G~~il~ad~  692 (805)
                          -.|.|-=||.|| +..+-++|.+..
T Consensus       894 ----~ql~qlrgrvgr~~~~ayaYll~~~  918 (1148)
T PRK10689        894 ----AQLHQLRGRVGRSHHQAYAWLLTPH  918 (1148)
T ss_pred             ----HHHHHHCCCCCCCCCEEEEEEEECC
T ss_conf             ----7777543655778870799998678


No 23 
>TIGR00643 recG ATP-dependent DNA helicase RecG; InterPro: IPR004609 The ATP-dependent DNA helicase RecG 3.6.1 from EC plays a critical role in recombination and DNA repair. It helps to process Holliday junction intermediates to mature products by catalysing branch migration. RecG has DNA unwinding activity characteristic of a DNA helicase with 3' to 5' polarity.; GO: 0004003 ATP-dependent DNA helicase activity, 0006281 DNA repair, 0006310 DNA recombination.
Probab=99.93  E-value=9.4e-23  Score=188.96  Aligned_cols=329  Identities=19%  Similarity=0.278  Sum_probs=220.1

Q ss_pred             CEEE-EECCCCCCCHHHHHHHHHHHHHCCCCEE-EEEEECCCCHHHHHHHHHH---HCCCCEEEEECCHHHHHHHHHHHH
Q ss_conf             5477-5188888843899999999887397337-9986337646999999999---719978999316346899999999
Q gi|254780991|r  140 FFQM-QTDYHPSGDQPAAIAQLLKGIHSREKVQ-LLLGVTGSGKTFTMAKVIE---AMQRPAIVMAPNKILAAQLYSEFK  214 (805)
Q Consensus       140 ~f~l-~~~~~P~gdQ~~Ai~~L~~~l~~g~~~q-lL~GVTGSGKTevya~lI~---~~gr~aLvLvPei~La~QL~~rfk  214 (805)
                      .|-. .=||+||.||..||++|..-+++-.+.- ||.|==|||||.|-+=++=   ..|.||.+|||.--||.|.|+.|+
T Consensus       298 k~~~~~LPF~LT~aQ~r~v~EI~~DL~~~~pMnRLlQGDVGSGKT~VA~la~l~~i~~GYQ~ALMAPTEiLA~QHy~~~~  377 (721)
T TIGR00643       298 KFLAKSLPFELTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIESGYQVALMAPTEILAEQHYDSLR  377 (721)
T ss_pred             HHHHHCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHH
T ss_conf             99985288877677899999999861478753222110106638999999999998469809991776899999999999


Q ss_pred             HHCCC--CEEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCH--HHH
Q ss_conf             86789--83899862134444210155543210221035889999999999998549984998277896168983--477
Q gi|254780991|r  215 NFFPH--NAVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSV--ESY  290 (805)
Q Consensus       215 ~~Fp~--n~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P--~~~  290 (805)
                      ++|+.  =.|++.-+..                         ....|-+....|.+|+..+||||=+=|+   --  +.+
T Consensus       378 ~~l~p~~~~vaLLTGs~-------------------------k~~~r~~~~e~i~~G~~~~~vGTHALiq---e~vef~~  429 (721)
T TIGR00643       378 NLLAPLGIEVALLTGSL-------------------------KGKQRKELLETIASGEIHLVVGTHALIQ---EKVEFKR  429 (721)
T ss_pred             HHHCCCCCEEEEEECCC-------------------------CHHHHHHHHHHHHCCCCEEEEHHHHHHH---HHHHHHC
T ss_conf             96235485788861566-------------------------7878999999986395205733135545---2144314


Q ss_pred             HCCEEEEECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHH----CCCCE-EEECCCCCHHHHHHHHCCCCCCHHHHHCCCC
Q ss_conf             225799941981117875323431176563387754533----18724-7831788877888731044420022210166
Q gi|254780991|r  291 SQMIVQLKIGDSVEQKELLSSLVKQQYKRQDIGIIRGTF----RVCGD-SIEIFPSHLEDVAWRVSMFGNDIEEISEFYP  365 (805)
Q Consensus       291 lglIIvdEehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f----~~rg~-ILdsatps~Es~~~Rie~f~deIe~I~~fDp  365 (805)
                      |||+|+||=|=             +|=+-|..-...|.-    ...|. ++=||||==  +-.++..|||.=-|      
T Consensus       430 L~lVIiDEQHR-------------FGV~QR~~L~~KG~~~~~~G~~PH~L~MtATPIP--RTLALt~yGDld~S------  488 (721)
T TIGR00643       430 LGLVIIDEQHR-------------FGVEQRKKLREKGQEGSMIGFAPHVLVMTATPIP--RTLALTVYGDLDVS------  488 (721)
T ss_pred             CCEEEEECCCC-------------CHHHHHHHHHHHHHCCCCCCCCCCEEEEECCCCH--HHHHHHHHHCCEEE------
T ss_conf             77489932335-------------6078999999862206886777776466378814--78997765000033------


Q ss_pred             CCCCHHHHCCCCCCHHHHHCCCCHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             64001110000100000000256367---887545589989989988754433211001244447777533211201451
Q gi|254780991|r  366 LTGQKIRNVETIKIYANSHYVTPRPT---LNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSI  442 (805)
Q Consensus       366 lT~~~~~~~~~~~i~Pa~~~v~~~e~---l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gi  442 (805)
                          .++.+.....+-....+.....   +..+...+..                           .+...++       
T Consensus       489 ----~I~elP~GR~pi~T~~~~~~~~~aW~~~v~~~~~~---------------------------E~~~GrQ-------  530 (721)
T TIGR00643       489 ----IIDELPPGRKPITTYLIKHKEKGAWIDIVYEFIEE---------------------------EIAKGRQ-------  530 (721)
T ss_pred             ----EECCCCCCCCEEEEEEEECCCCCCCHHHHHHHHHH---------------------------HHHCCCC-------
T ss_conf             ----43168545933899888427887756899999999---------------------------9832890-------


Q ss_pred             CHHHHHHCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHC
Q ss_conf             01133311446555620233026544213210123447544543245654133323576655444322211101001215
Q gi|254780991|r  443 ENYSRYLTGRNPGEPPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLR  522 (805)
Q Consensus       443 enyS~~L~~r~~ge~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~  522 (805)
                          .|+.|-                   .||||-..                         |                 
T Consensus       531 ----aYvv~P-------------------lI~ESE~l-------------------------p-----------------  545 (721)
T TIGR00643       531 ----AYVVYP-------------------LIEESEKL-------------------------P-----------------  545 (721)
T ss_pred             ----EEEEEC-------------------CCCCCCCC-------------------------C-----------------
T ss_conf             ----899964-------------------40320047-------------------------1-----------------


Q ss_pred             CCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             55454446867542013220023432012446772000013310168899999986302321246621478999999998
Q gi|254780991|r  523 PTTIVVSATPGSWELEQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYL  602 (805)
Q Consensus       523 ~~~~~~satPg~~e~e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~  602 (805)
                                                       |    +                           -.-..+.+.|++.|
T Consensus       546 ---------------------------------~----l---------------------------k~A~~~~~~l~~~f  561 (721)
T TIGR00643       546 ---------------------------------D----L---------------------------KAAEALYERLKKAF  561 (721)
T ss_pred             ---------------------------------H----H---------------------------HHHHHHHHHHHHHH
T ss_conf             ---------------------------------6----8---------------------------99999999988861


Q ss_pred             -HHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCCC
Q ss_conf             -6359668732576457899999999731898699984587535787771179996288567444601377665431279
Q gi|254780991|r  603 -YERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAARN  681 (805)
Q Consensus       603 -~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR~  681 (805)
                       ++.  .+.-+||-+...+.++||+.||+++.||||+|.++.=|.|+||-|+-+|.|||-=|+    -.|-|-=||.|||
T Consensus       562 ~~~~--~v~LlHGrm~~~eK~~vm~~F~~~~~~ILVsTTVIEVGVDVPnAtvMVIe~AeRFGL----SQLHQLRGRVGRG  635 (721)
T TIGR00643       562 LPKY--NVGLLHGRMKSDEKEAVMEEFREGEVDILVSTTVIEVGVDVPNATVMVIEDAERFGL----SQLHQLRGRVGRG  635 (721)
T ss_pred             CCCC--EEEEECCCCCHHHHHHHHHHHHHCCCEEEEEEEEEEEEEECCCCCEEEEECCCHHHH----HHHHHHCEEECCC
T ss_conf             2210--011330689847899999985215836999976899986179772788866551036----8887635001268


Q ss_pred             -CCCEEEEEE
Q ss_conf             -986699982
Q gi|254780991|r  682 -VNSKVILYA  690 (805)
Q Consensus       682 -~~G~~il~a  690 (805)
                       .++.++|-+
T Consensus       636 ~~~SyC~L~~  645 (721)
T TIGR00643       636 DHQSYCLLVY  645 (721)
T ss_pred             CCCCEEEEEC
T ss_conf             9750799812


No 24 
>KOG0333 consensus
Probab=99.93  E-value=1.9e-23  Score=194.19  Aligned_cols=146  Identities=24%  Similarity=0.361  Sum_probs=124.5

Q ss_pred             CCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHH
Q ss_conf             12446772000013310168899999986302321246621478999999998635966873257645789999999973
Q gi|254780991|r  550 RPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLR  629 (805)
Q Consensus       550 rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~  629 (805)
                      +|+-.+.-.+++-+.+.+.+.|+.-+...  -..++++|+.||+.++-|++-|...|+.+.-+|+..++.+|+.+|.+||
T Consensus       487 k~~~rveQ~v~m~~ed~k~kkL~eil~~~--~~ppiIIFvN~kk~~d~lAk~LeK~g~~~~tlHg~k~qeQRe~aL~~fr  564 (673)
T KOG0333         487 KPTPRVEQKVEMVSEDEKRKKLIEILESN--FDPPIIIFVNTKKGADALAKILEKAGYKVTTLHGGKSQEQRENALADFR  564 (673)
T ss_pred             CCCCCHHEEEEEECCHHHHHHHHHHHHHC--CCCCEEEEEECHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHHHHHH
T ss_conf             98602111788815568899999999847--9998799983132489999998644324799617852778999999987


Q ss_pred             CCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHHH
Q ss_conf             189869998458753578777117999628856744460137766543127-9986699982489889999999
Q gi|254780991|r  630 LGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAID  702 (805)
Q Consensus       630 ~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai~  702 (805)
                      .|..||||+||++++|+|||||+||+|||     |..+.+.|+|+|||||| |..|.||+|...-+..+.+-+.
T Consensus       565 ~~t~dIlVaTDvAgRGIDIpnVSlVinyd-----maksieDYtHRIGRTgRAGk~GtaiSflt~~dt~v~ydLk  633 (673)
T KOG0333         565 EGTGDILVATDVAGRGIDIPNVSLVINYD-----MAKSIEDYTHRIGRTGRAGKSGTAISFLTPADTAVFYDLK  633 (673)
T ss_pred             HCCCCEEEEECCCCCCCCCCCCCEEEECC-----HHHHHHHHHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHH
T ss_conf             15787799832212577777612146220-----5565899988742344466675368986401117789999


No 25 
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.93  E-value=2.9e-22  Score=185.25  Aligned_cols=324  Identities=13%  Similarity=0.153  Sum_probs=216.7

Q ss_pred             ECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEE
Q ss_conf             18888884389999999988739733799863376469999999997199789993163468999999998678983899
Q gi|254780991|r  145 TDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEY  224 (805)
Q Consensus       145 ~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~  224 (805)
                      +.|.|-  |.+||..+.+    | ++++..==||+||+..|-=-.--.+..+||+.|=|+|-..-+..+++. |- .+++
T Consensus        24 ~~Fr~~--Q~e~i~~~l~----g-~D~l~~mpTG~GKSlcyQlPal~~~g~tiVisPLisLm~DQv~~L~~~-gi-~a~~   94 (607)
T PRK11057         24 QQFRPG--QEEIIDTVLS----G-RDCLVVMPTGGGKSLCYQIPALVLDGLTLVVSPLISLMKDQVDQLLAN-GV-AAAC   94 (607)
T ss_pred             CCCCHH--HHHHHHHHHC----C-CCEEEECCCCCHHHHHHHHHHHHCCCCEEEECCHHHHHHHHHHHHHHC-CC-CEEE
T ss_conf             434576--9999999986----9-988998789955979999999877998899868799999999999978-99-2999


Q ss_pred             EEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHC----CCCCHHHHHCCEEEEECC
Q ss_conf             8621344442101555432102210358899999999999985499849982778961----689834772257999419
Q gi|254780991|r  225 FVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIY----GIGSVESYSQMIVQLKIG  300 (805)
Q Consensus       225 f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIf----gl~~P~~~lglIIvdEeh  300 (805)
                      +.|-.+                         ..++...+..+.+|+..++..|.--+-    .-.....+++++++||-|
T Consensus        95 l~s~~~-------------------------~~e~~~~~~~~~~g~~~llyvtPErl~~~~~~~~l~~~~i~~~viDEAH  149 (607)
T PRK11057         95 LNSTQT-------------------------REQQLEVMAGCRTGQIKLLYIAPERLMMDNFLEHLAHWNPVLLAVDEAH  149 (607)
T ss_pred             ECCCCC-------------------------HHHHHHHHHHHHCCCCCEEEECHHHHCCHHHHHHHHHCCCCEEEEEHHH
T ss_conf             569999-------------------------9999999999975998799988558569789999971886648853066


Q ss_pred             CCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCCHHHHHCCCCCCCCHHHHCCCCCCH
Q ss_conf             81117875323431176563387754533187247831788877888731044420022210166640011100001000
Q gi|254780991|r  301 DSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEEISEFYPLTGQKIRNVETIKIY  380 (805)
Q Consensus       301 d~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~~Rie~f~deIe~I~~fDplT~~~~~~~~~~~i~  380 (805)
                      =-|.+-.-++..    |.  .+...|..|-..+.+.=.||++.+.                                   
T Consensus       150 cvs~WGhdFRp~----Y~--~l~~l~~~~~~~p~~AlTATAt~~v-----------------------------------  188 (607)
T PRK11057        150 CISQWGHDFRPE----YA--ALGQLRQRFPTLPFMALTATADDTT-----------------------------------  188 (607)
T ss_pred             HHHHCCCCCHHH----HH--HHHHHHHHCCCCCEEEEEECCCHHH-----------------------------------
T ss_conf             675415500388----99--9999999769997489996368789-----------------------------------


Q ss_pred             HHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCCCCHH
Q ss_conf             00000256367887545589989989988754433211001244447777533211201451011333114465556202
Q gi|254780991|r  381 ANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGEPPPT  460 (805)
Q Consensus       381 Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~ge~P~t  460 (805)
                                         ..++...+                                 ++.+.  ...... ..+|+.
T Consensus       189 -------------------~~di~~~L---------------------------------~l~~~--~~~~~~-f~RpNl  213 (607)
T PRK11057        189 -------------------RQDIVRLL---------------------------------GLNDP--LIQISS-FDRPNI  213 (607)
T ss_pred             -------------------HHHHHHHH---------------------------------CCCCC--CEEECC-CCCCCC
T ss_conf             -------------------99999970---------------------------------89998--078257-788874


Q ss_pred             HHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCHHH
Q ss_conf             33026544213210123447544543245654133323576655444322211101001215554544468675420132
Q gi|254780991|r  461 LFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGSWELEQC  540 (805)
Q Consensus       461 L~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~satPg~~e~e~~  540 (805)
                      .+                                                                              
T Consensus       214 ~~------------------------------------------------------------------------------  215 (607)
T PRK11057        214 RY------------------------------------------------------------------------------  215 (607)
T ss_pred             EE------------------------------------------------------------------------------
T ss_conf             14------------------------------------------------------------------------------


Q ss_pred             HHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHH
Q ss_conf             20023432012446772000013310168899999986302321246621478999999998635966873257645789
Q gi|254780991|r  541 QGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLE  620 (805)
Q Consensus       541 ~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~  620 (805)
                                         .+.+....++.+...+...  .+.-.+|++.|++.+|+|++.|...|+++...|++++..+
T Consensus       216 -------------------~v~~~~~~~~~~~~~~~~~--~~~sgIIYc~trk~~e~la~~L~~~G~~~~~YHagl~~~~  274 (607)
T PRK11057        216 -------------------MLMEKFKPLDQLMRYVQEQ--RGKSGIIYCNSRAKVEDTAARLQSRGISAAAYHAGLDNDV  274 (607)
T ss_pred             -------------------EEEECCCHHHHHHHHHHHC--CCCCEEEEECCHHHHHHHHHHHHHCCCCEEECCCCCCHHH
T ss_conf             -------------------5554477399999998706--8997799969289999999999857975453058999789


Q ss_pred             HHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHH-HH
Q ss_conf             999999973189869998458753578777117999628856744460137766543127-9986699982489889-99
Q gi|254780991|r  621 RIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKS-IQ  698 (805)
Q Consensus       621 r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~-~~  698 (805)
                      |.++.++|..|+++|+|+|.-...|+|.|+|.+|++++     +|.|.++|.|-+||||| |.+..++||++.-+-. ..
T Consensus       275 R~~~q~~f~~~~~~vivAT~AFGMGIdk~dVR~ViH~~-----~P~s~e~yyQE~GRAGRDG~~a~c~l~y~~~D~~~~~  349 (607)
T PRK11057        275 RADVQEAFQRDDLQIVVATVAFGMGINKPNVRFVVHFD-----IPRNIESYYQETGRAGRDGLPAEAMLFYDPADMAWLR  349 (607)
T ss_pred             HHHHHHHHHCCCCCEEEEEHHHHCCCCCCCCCEEEECC-----CCCCHHHHHHHHHHCCCCCCCCEEEEEECHHHHHHHH
T ss_conf             99999987568875899750110576777766799778-----9999999999886352589854189985687899999


Q ss_pred             HHHH
Q ss_conf             9999
Q gi|254780991|r  699 LAID  702 (805)
Q Consensus       699 ~ai~  702 (805)
                      +.|+
T Consensus       350 ~~i~  353 (607)
T PRK11057        350 RCLE  353 (607)
T ss_pred             HHHH
T ss_conf             9985


No 26 
>KOG0338 consensus
Probab=99.92  E-value=2e-22  Score=186.47  Aligned_cols=115  Identities=20%  Similarity=0.305  Sum_probs=106.5

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCC
Q ss_conf             32124662147899999999863596687325764578999999997318986999845875357877711799962885
Q gi|254780991|r  582 GLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADK  661 (805)
Q Consensus       582 ~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~  661 (805)
                      ..|+.||+.||+-+..|.-.|.-.|+++.-+||.++|.+|.+.|++|+.+++||||+|+++++||||++|..|+||+   
T Consensus       426 ~~~~ivFv~tKk~AHRl~IllGLlgl~agElHGsLtQ~QRlesL~kFk~~eidvLiaTDvAsRGLDI~gV~tVINy~---  502 (691)
T KOG0338         426 QDRTIVFVRTKKQAHRLRILLGLLGLKAGELHGSLTQEQRLESLEKFKKEEIDVLIATDVASRGLDIEGVQTVINYA---  502 (691)
T ss_pred             CCCEEEEEEHHHHHHHHHHHHHHHHCHHHHHCCCCCHHHHHHHHHHHHHCCCCEEEEECHHHCCCCCCCEEEEEECC---
T ss_conf             43369997208778899999987301066550541088899999987745687798720444467765516888426---


Q ss_pred             CCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHH
Q ss_conf             6744460137766543127-998669998248988999999
Q gi|254780991|r  662 EGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAI  701 (805)
Q Consensus       662 ~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai  701 (805)
                        .|.+.+.|+||+|||+| |+.|++|+++.--+.++.+.|
T Consensus       503 --mP~t~e~Y~HRVGRTARAGRaGrsVtlvgE~dRkllK~i  541 (691)
T KOG0338         503 --MPKTIEHYLHRVGRTARAGRAGRSVTLVGESDRKLLKEI  541 (691)
T ss_pred             --CCHHHHHHHHHHHHHHHCCCCCCEEEEECCCCHHHHHHH
T ss_conf             --752689999874003324567643787445408899999


No 27 
>KOG0335 consensus
Probab=99.92  E-value=9.7e-24  Score=196.35  Aligned_cols=119  Identities=28%  Similarity=0.396  Sum_probs=110.1

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCC
Q ss_conf             32124662147899999999863596687325764578999999997318986999845875357877711799962885
Q gi|254780991|r  582 GLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADK  661 (805)
Q Consensus       582 ~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~  661 (805)
                      .+.+++|+-|++++..|+.+|...++....+|++.++.+|.+.|++|+.|.+.|||+|+++|+|||||+|++|+|||   
T Consensus       337 ~e~tlvFvEt~~~~d~l~~~l~~~~~~~~sIhg~~tq~er~~al~~Fr~g~~pvlVaT~VaaRGlDi~~V~hVInyD---  413 (482)
T KOG0335         337 WEKTLVFVETKRGADELAAFLSSNGYPAKSIHGDRTQIEREQALNDFRNGKAPVLVATNVAARGLDIPNVKHVINYD---  413 (482)
T ss_pred             CCEEEEEEECCHHHHHHHHHHHCCCCCCEEECCHHHHHHHHHHHHHHHCCCCCEEEEEHHHHCCCCCCCCCEEEEEE---
T ss_conf             31389996130032699999861798745603325563799998776469866798703665478876874358863---


Q ss_pred             CCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHHHHHH
Q ss_conf             6744460137766543127-9986699982489889999999878
Q gi|254780991|r  662 EGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAIDETT  705 (805)
Q Consensus       662 ~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai~e~~  705 (805)
                        .|.+...|+|||||||| |..|+++.|.+..+..+..++.++-
T Consensus       414 --mP~d~d~YvHRIGRTGR~Gn~G~atsf~n~~~~~i~~~L~~~l  456 (482)
T KOG0335         414 --MPADIDDYVHRIGRTGRVGNGGRATSFFNEKNQNIAKALVEIL  456 (482)
T ss_pred             --CCCCHHHHHHHCCCCCCCCCCCEEEEEECCCCCHHHHHHHHHH
T ss_conf             --6752466777415435577773268876474300689999999


No 28 
>KOG0330 consensus
Probab=99.91  E-value=3e-22  Score=185.24  Aligned_cols=108  Identities=20%  Similarity=0.306  Sum_probs=100.6

Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCC
Q ss_conf             21246621478999999998635966873257645789999999973189869998458753578777117999628856
Q gi|254780991|r  583 LRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKE  662 (805)
Q Consensus       583 ~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~  662 (805)
                      .-++||+.|.--+.-++-.|...|+.+..+||++.+..|...++.|+.|..+|||.||+++||||+|.|.+|+|||    
T Consensus       301 ~s~iVF~~t~~tt~~la~~L~~lg~~a~~LhGqmsq~~Rlg~l~~Fk~~~r~iLv~TDVaSRGLDip~Vd~VVNyD----  376 (476)
T KOG0330         301 NSVIVFCNTCNTTRFLALLLRNLGFQAIPLHGQMSQSKRLGALNKFKAGARSILVCTDVASRGLDIPHVDVVVNYD----  376 (476)
T ss_pred             CCEEEEEECCCHHHHHHHHHHHCCCCEECCCCHHHHHHHHHHHHHHHCCCCCEEEECCHHCCCCCCCCCEEEEECC----
T ss_conf             8479998346408999999986276432056603577887789987514776798613010468987710799537----


Q ss_pred             CCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCH
Q ss_conf             744460137766543127-998669998248988
Q gi|254780991|r  663 GFLRSKTSLIQTIGRAAR-NVNSKVILYADTITK  695 (805)
Q Consensus       663 ~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~  695 (805)
                       ||.+..+||||+||+|| |+.|++|.+....+-
T Consensus       377 -iP~~skDYIHRvGRtaRaGrsG~~ItlVtqyDv  409 (476)
T KOG0330         377 -IPTHSKDYIHRVGRTARAGRSGKAITLVTQYDV  409 (476)
T ss_pred             -CCCCHHHHHHHCCCCCCCCCCCCEEEEEEHHHH
T ss_conf             -898378888870430016777514898744556


No 29 
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=99.91  E-value=5.9e-22  Score=182.99  Aligned_cols=331  Identities=22%  Similarity=0.255  Sum_probs=221.9

Q ss_pred             HHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCE-EEEEEECCCCHHHHHHHHHHHC--
Q ss_conf             3205740266678887421588775477518888884389999999988739733-7998633764699999999971--
Q gi|254780991|r  116 LLKNGKIWTPHRSWSINNHSKDITFFQMQTDYHPSGDQPAAIAQLLKGIHSREKV-QLLLGVTGSGKTFTMAKVIEAM--  192 (805)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~-qlL~GVTGSGKTevya~lI~~~--  192 (805)
                      ..+.|..+.|+.   ++-.     .|+-..+|+.|.||..||+++.+-+.++... -|+-|=-|=|||||-++++=.+  
T Consensus       570 ~~~~G~af~~d~---~~q~-----~F~~~FPyeET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~  641 (1139)
T COG1197         570 QAKKGFAFPPDT---EWQE-----EFEASFPYEETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVM  641 (1139)
T ss_pred             HHCCCCCCCCCH---HHHH-----HHHHCCCCCCCHHHHHHHHHHHHHHCCCCCCHHEEECCCCCCHHHHHHHHHHHHHC
T ss_conf             305687879985---8999-----99854998578789999999998860698661025657687599999999999863


Q ss_pred             -CCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEE-ECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCC
Q ss_conf             -9978999316346899999999867898389986-21344442101555432102210358899999999999985499
Q gi|254780991|r  193 -QRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFV-SYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERN  270 (805)
Q Consensus       193 -gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~-S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~  270 (805)
                       ||||.||||.--||.|=|..|++||-+=.|.+-+ |.+.                        ..++.-.....|.+|+
T Consensus       642 ~GKQVAvLVPTTlLA~QHy~tFkeRF~~fPV~I~~LSRF~------------------------s~kE~~~il~~la~G~  697 (1139)
T COG1197         642 DGKQVAVLVPTTLLAQQHYETFKERFAGFPVRIEVLSRFR------------------------SAKEQKEILKGLAEGK  697 (1139)
T ss_pred             CCCEEEEECCCHHHHHHHHHHHHHHHCCCCEEEEEECCCC------------------------CHHHHHHHHHHHHCCC
T ss_conf             7974999926078689989999987338982588860557------------------------8899999999985698


Q ss_pred             CEEEECCHHHHCCCCCHHHHHCCEEEEECCC-CCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHHHH
Q ss_conf             8499827789616898347722579994198-111787532343117656338775453318724783178887788873
Q gi|254780991|r  271 DCIVVSSVSCIYGIGSVESYSQMIVQLKIGD-SVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWR  349 (805)
Q Consensus       271 ~~IVVgsrSAIfgl~~P~~~lglIIvdEehd-~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~~R  349 (805)
                      ..|||||-.-+- -.--+.+|||+|+||||- ....++..+++-                ...-++-=||||---+.   
T Consensus       698 vDIvIGTHrLL~-kdv~FkdLGLlIIDEEqRFGVk~KEkLK~Lr----------------~~VDvLTLSATPIPRTL---  757 (1139)
T COG1197         698 VDIVIGTHRLLS-KDVKFKDLGLLIIDEEQRFGVKHKEKLKELR----------------ANVDVLTLSATPIPRTL---  757 (1139)
T ss_pred             CCEEEECHHHHC-CCCEEECCCEEEEECHHHCCCCHHHHHHHHH----------------CCCCEEEEECCCCCCHH---
T ss_conf             458996317647-8967704764897443532711789998775----------------05728974178875447---


Q ss_pred             HCCCCCCHHHHHCCCCCCCCHHHHCCCCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             10444200222101666400111000010000000025636788754558998998998875443321100124444777
Q gi|254780991|r  350 VSMFGNDIEEISEFYPLTGQKIRNVETIKIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYD  429 (805)
Q Consensus       350 ie~f~deIe~I~~fDplT~~~~~~~~~~~i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~d  429 (805)
                       .+--.-|   +.+...+      ..-...+|..-||.+......                                   
T Consensus       758 -~Msm~Gi---RdlSvI~------TPP~~R~pV~T~V~~~d~~~i-----------------------------------  792 (1139)
T COG1197         758 -NMSLSGI---RDLSVIA------TPPEDRLPVKTFVSEYDDLLI-----------------------------------  792 (1139)
T ss_pred             -HHHHHCC---HHHHHCC------CCCCCCCCEEEEEECCCHHHH-----------------------------------
T ss_conf             -7777443---0331114------799877212888715882899-----------------------------------


Q ss_pred             HHHHHHCCCCCCCCHHHHHHCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             75332112014510113331144655562023302654421321012344754454324565413332357665544432
Q gi|254780991|r  430 LEMLETTGSCQSIENYSRYLTGRNPGEPPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMD  509 (805)
Q Consensus       430 le~l~e~G~~~gienyS~~L~~r~~ge~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~  509 (805)
                                                                                                      
T Consensus       793 --------------------------------------------------------------------------------  792 (1139)
T COG1197         793 --------------------------------------------------------------------------------  792 (1139)
T ss_pred             --------------------------------------------------------------------------------
T ss_conf             --------------------------------------------------------------------------------


Q ss_pred             CCCCCCCCHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCC--
Q ss_conf             221110100121555454446867542013220023432012446772000013310168899999986302321246--
Q gi|254780991|r  510 NRPLRFEEWNCLRPTTIVVSATPGSWELEQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILL--  587 (805)
Q Consensus       510 n~pl~f~e~~~~~~~~~~~satPg~~e~e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~--  587 (805)
                                                                                    -+.|.....+|-.++.  
T Consensus       793 --------------------------------------------------------------reAI~REl~RgGQvfYv~  810 (1139)
T COG1197         793 --------------------------------------------------------------REAILRELLRGGQVFYVH  810 (1139)
T ss_pred             --------------------------------------------------------------HHHHHHHHHCCCEEEEEE
T ss_conf             --------------------------------------------------------------999999871598799994


Q ss_pred             --CCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCC
Q ss_conf             --621478999999998635966873257645789999999973189869998458753578777117999628856744
Q gi|254780991|r  588 --TVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFL  665 (805)
Q Consensus       588 --~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~  665 (805)
                        -....++++.|.+..|+++|  ...||-+...+-+++|.+|-+|++||||.|.++.-|+||||+.-.+|-+||+-|. 
T Consensus       811 NrV~~Ie~~~~~L~~LVPEarI--~vaHGQM~e~eLE~vM~~F~~g~~dVLv~TTIIEtGIDIPnANTiIIe~AD~fGL-  887 (1139)
T COG1197         811 NRVESIEKKAERLRELVPEARI--AVAHGQMRERELEEVMLDFYNGEYDVLVCTTIIETGIDIPNANTIIIERADKFGL-  887 (1139)
T ss_pred             CCCCCHHHHHHHHHHHCCCEEE--EEEECCCCHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCCCCCEEEEECCCCCCH-
T ss_conf             3331299999999985984688--8852588889999999999728888898823430476777875588965433457-


Q ss_pred             CCHHHHHHHHHHHCC-CCCCEEEEEEC
Q ss_conf             460137766543127-99866999824
Q gi|254780991|r  666 RSKTSLIQTIGRAAR-NVNSKVILYAD  691 (805)
Q Consensus       666 ~~~~~~~q~~GRagR-~~~G~~il~ad  691 (805)
                         -.|.|-=||.|| +..|-+++.+.
T Consensus       888 ---sQLyQLRGRVGRS~~~AYAYfl~p  911 (1139)
T COG1197         888 ---AQLYQLRGRVGRSNKQAYAYFLYP  911 (1139)
T ss_pred             ---HHHHHHCCCCCCCCCEEEEEEEEC
T ss_conf             ---888875165477676289999626


No 30 
>KOG0328 consensus
Probab=99.91  E-value=7.7e-23  Score=189.62  Aligned_cols=330  Identities=22%  Similarity=0.275  Sum_probs=211.2

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHH----HH--HCCCCEEEEECCHHHHHHHHHHHHHHCCCCE
Q ss_conf             88884389999999988739733799863376469999999----99--7199789993163468999999998678983
Q gi|254780991|r  148 HPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKV----IE--AMQRPAIVMAPNKILAAQLYSEFKNFFPHNA  221 (805)
Q Consensus       148 ~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~l----I~--~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~  221 (805)
                      +|+.=|+.||-.|..|     +..+-..-.|+|||-+|.--    +.  ...-|||||+|.--||.|+-.-..+.=+.--
T Consensus        49 kPS~IQqrAi~~IlkG-----rdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi~~vi~alg~~mn  123 (400)
T KOG0328          49 KPSAIQQRAIPQILKG-----RDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQIQKVILALGDYMN  123 (400)
T ss_pred             CCHHHHHHHHHHHHCC-----CCEEEEECCCCCCEEEEEEEEEEECCCCCCEEEEEEECCHHHHHHHHHHHHHHHCCCCC
T ss_conf             8167776102456336-----61478704788844789866314034342003578954708999999999998324236


Q ss_pred             EEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCC---CC-HHHHHCCEEEE
Q ss_conf             899862134444210155543210221035889999999999998549984998277896168---98-34772257999
Q gi|254780991|r  222 VEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGI---GS-VESYSQMIVQL  297 (805)
Q Consensus       222 V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl---~~-P~~~lglIIvd  297 (805)
                      |-.| +...                 .-++.++|..         +..-..+|.||.--||-+   +. --....|++.|
T Consensus       124 vq~h-acig-----------------g~n~gedikk---------ld~G~hvVsGtPGrv~dmikr~~L~tr~vkmlVLD  176 (400)
T KOG0328         124 VQCH-ACIG-----------------GKNLGEDIKK---------LDYGQHVVSGTPGRVLDMIKRRSLRTRAVKMLVLD  176 (400)
T ss_pred             CEEE-EEEC-----------------CCCCCHHHHH---------HCCCCEEEECCCCHHHHHHHHCCCCCCCEEEEEEC
T ss_conf             4489-8735-----------------7751034565---------32561475079815999998623101142689854


Q ss_pred             ECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCCHHHHHCCCCCCCCHHHHCCCC
Q ss_conf             41981117875323431176563387754533187247831788877888731044420022210166640011100001
Q gi|254780991|r  298 KIGDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEEISEFYPLTGQKIRNVETI  377 (805)
Q Consensus       298 Eehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~~Rie~f~deIe~I~~fDplT~~~~~~~~~~  377 (805)
                      |..+-.++ -+..|.    |     .+.|---..+-+++=|||-.-|-.           +.+..|-+.           
T Consensus       177 EaDemL~k-gfk~Qi----y-----diyr~lp~~~Qvv~~SATlp~eil-----------emt~kfmtd-----------  224 (400)
T KOG0328         177 EADEMLNK-GFKEQI----Y-----DIYRYLPPGAQVVLVSATLPHEIL-----------EMTEKFMTD-----------  224 (400)
T ss_pred             CHHHHHHH-HHHHHH----H-----HHHHHCCCCCEEEEEECCCCHHHH-----------HHHHHHCCC-----------
T ss_conf             58999875-677889----9-----999847998669999645869999-----------999874488-----------


Q ss_pred             CCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCCC
Q ss_conf             00000000256367887545589989989988754433211001244447777533211201451011333114465556
Q gi|254780991|r  378 KIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGEP  457 (805)
Q Consensus       378 ~i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~ge~  457 (805)
                         |.+.++-+.+                                     -.+|-+.+.-.....|++           .
T Consensus       225 ---pvrilvkrde-------------------------------------ltlEgIKqf~v~ve~Eew-----------K  253 (400)
T KOG0328         225 ---PVRILVKRDE-------------------------------------LTLEGIKQFFVAVEKEEW-----------K  253 (400)
T ss_pred             ---CEEEEEECCC-------------------------------------CCHHHHHHHEEEECHHHH-----------H
T ss_conf             ---5268870577-------------------------------------766665554244132255-----------3


Q ss_pred             CHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCC
Q ss_conf             20233026544213210123447544543245654133323576655444322211101001215554544468675420
Q gi|254780991|r  458 PPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGSWEL  537 (805)
Q Consensus       458 P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~satPg~~e~  537 (805)
                      --+|||-+.                                                              +.|      
T Consensus       254 fdtLcdLYd--------------------------------------------------------------~Lt------  265 (400)
T KOG0328         254 FDTLCDLYD--------------------------------------------------------------TLT------  265 (400)
T ss_pred             HHHHHHHHH--------------------------------------------------------------HHE------
T ss_conf             768988864--------------------------------------------------------------306------


Q ss_pred             HHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCC
Q ss_conf             13220023432012446772000013310168899999986302321246621478999999998635966873257645
Q gi|254780991|r  538 EQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVK  617 (805)
Q Consensus       538 e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~  617 (805)
                             +                                     -...+|+.||+.++-|++-+.+..+.+..||+|+.
T Consensus       266 -------I-------------------------------------tQavIFcnTk~kVdwLtekm~~~nftVssmHGDm~  301 (400)
T KOG0328         266 -------I-------------------------------------TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDME  301 (400)
T ss_pred             -------H-------------------------------------HEEEEEECCCCHHHHHHHHHHHHCCEEEECCCCCC
T ss_conf             -------1-------------------------------------14799962640436889998861733663057764


Q ss_pred             HHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHH
Q ss_conf             789999999973189869998458753578777117999628856744460137766543127-9986699982489889
Q gi|254780991|r  618 TLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKS  696 (805)
Q Consensus       618 ~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~  696 (805)
                      +.+|++|+++||.|+-.|||.|++-|+|+|+|.|+||+|||     +|.+-+.|||+|||+|| |++|.+|-|   +...
T Consensus       302 qkERd~im~dFRsg~SrvLitTDVwaRGiDv~qVslviNYD-----LP~nre~YIHRIGRSGRFGRkGvainF---Vk~~  373 (400)
T KOG0328         302 QKERDKIMNDFRSGKSRVLITTDVWARGIDVQQVSLVINYD-----LPNNRELYIHRIGRSGRFGRKGVAINF---VKSD  373 (400)
T ss_pred             HHHHHHHHHHHHCCCCEEEEEECHHHCCCCCCEEEEEEECC-----CCCCHHHHHHHHCCCCCCCCCCEEEEE---ECHH
T ss_conf             56799999876547834999710444258750057899437-----885487876650135656776069987---5178


Q ss_pred             HHHHHHHHHHHHHHHH
Q ss_conf             9999998788888888
Q gi|254780991|r  697 IQLAIDETTRRREKQL  712 (805)
Q Consensus       697 ~~~ai~e~~rrr~~q~  712 (805)
                      ..+.++++++....|+
T Consensus       374 d~~~lrdieq~yst~i  389 (400)
T KOG0328         374 DLRILRDIEQYYSTQI  389 (400)
T ss_pred             HHHHHHHHHHHHHHHC
T ss_conf             8999999999976411


No 31 
>KOG0344 consensus
Probab=99.91  E-value=1.2e-21  Score=180.76  Aligned_cols=119  Identities=32%  Similarity=0.414  Sum_probs=107.1

Q ss_pred             CCCCCHHHHHHHHHHHHH-HHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCC
Q ss_conf             246621478999999998-6359668732576457899999999731898699984587535787771179996288567
Q gi|254780991|r  585 ILLTVLTKRMAEDLTEYL-YERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEG  663 (805)
Q Consensus       585 ~l~~~~tkr~~e~l~~~~-~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~  663 (805)
                      ++++.-++..+.+|...| --.+|.+..+|++.++.+|++.+..||.|+++|||.|+++++|+||-+|.+|+|+|     
T Consensus       390 ~lIfVQs~eRak~L~~~L~~~~~i~v~vIh~e~~~~qrde~~~~FR~g~IwvLicTdll~RGiDf~gvn~VInyD-----  464 (593)
T KOG0344         390 VLIFVQSKERAKQLFEELEIYDNINVDVIHGERSQKQRDETMERFRIGKIWVLICTDLLARGIDFKGVNLVINYD-----  464 (593)
T ss_pred             EEEEEECHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHHHHCCCEEEEEEHHHHHCCCCCCCCCEEEECC-----
T ss_conf             489885388899999986423576634676366666778999998506706888504665455645763689537-----


Q ss_pred             CCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHHHHHHHHH
Q ss_conf             44460137766543127-9986699982489889999999878888
Q gi|254780991|r  664 FLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAIDETTRRR  708 (805)
Q Consensus       664 f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai~e~~rrr  708 (805)
                      ||.+.-+|+|+|||+|| |..|++|+|+..-+....+.+.++-+.-
T Consensus       465 ~p~s~~syihrIGRtgRag~~g~Aitfytd~d~~~ir~iae~~~~s  510 (593)
T KOG0344         465 FPQSDLSYIHRIGRTGRAGRSGKAITFYTDQDMPRIRSIAEVMEQS  510 (593)
T ss_pred             CCCHHHHHHHHHHCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHC
T ss_conf             8722478888730257889886169986325534555689999971


No 32 
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.91  E-value=7.4e-20  Score=167.29  Aligned_cols=435  Identities=18%  Similarity=0.216  Sum_probs=254.5

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH----CCCCEEEEECCHHHHHHHHHHHHHHCCC--CEEEEEE
Q ss_conf             389999999988739733799863376469999999997----1997899931634689999999986789--8389986
Q gi|254780991|r  153 QPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA----MQRPAIVMAPNKILAAQLYSEFKNFFPH--NAVEYFV  226 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~----~gr~aLvLvPei~La~QL~~rfk~~Fp~--n~V~~f~  226 (805)
                      |+.-.+....+ +.-++.+|+-==||=|||++-+=+|+.    .++.+|+|+|.+-|..|-+.-|+.+++-  +.+.-| 
T Consensus        15 e~R~YQ~~i~a-~al~~NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~~l-   92 (542)
T COG1111          15 EPRLYQLNIAA-KALFKNTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAAL-   92 (542)
T ss_pred             CHHHHHHHHHH-HHHHCCEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHHHHHCCCHHHEEEE-
T ss_conf             58899999999-9864483899528750799999999999874588489965895179999999999858984332311-


Q ss_pred             ECCCCCCCCCCCCCCCCCHHHHCCCCHHHH-HHHHHHHHHHHCCCCEEEECCHHHHC-----CCCCHHHHHCCEEEEECC
Q ss_conf             213444421015554321022103588999-99999999985499849982778961-----689834772257999419
Q gi|254780991|r  227 SYYDYYQPEAYVPRTDTYIEKESSINEQID-RMRHSATRSLLERNDCIVVSSVSCIY-----GIGSVESYSQMIVQLKIG  300 (805)
Q Consensus       227 S~~~~yqpEay~p~~d~~i~k~~s~n~~i~-~~R~~a~~~l~~~~~~IVVgsrSAIf-----gl~~P~~~lglIIvdEeh  300 (805)
                                               +.++. .+|...|.     +..|+|+|.--|.     |...| +..-++|.||.|
T Consensus        93 -------------------------tGev~p~~R~~~w~-----~~kVfvaTPQvveNDl~~Grid~-~dv~~lifDEAH  141 (542)
T COG1111          93 -------------------------TGEVRPEEREELWA-----KKKVFVATPQVVENDLKAGRIDL-DDVSLLIFDEAH  141 (542)
T ss_pred             -------------------------CCCCCHHHHHHHHH-----HCCEEEECCHHHHHHHHCCCCCH-HHCEEEEECHHH
T ss_conf             -------------------------17778688999875-----17789956387776876176676-780589862355


Q ss_pred             CCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEEC-CCCCHHH--H-HHHHCCCCCCHHHHHCCCCCCCCHHHHCCC
Q ss_conf             81117875323431176563387754533187247831-7888778--8-873104442002221016664001110000
Q gi|254780991|r  301 DSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEI-FPSHLED--V-AWRVSMFGNDIEEISEFYPLTGQKIRNVET  376 (805)
Q Consensus       301 d~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILds-atps~Es--~-~~Rie~f~deIe~I~~fDplT~~~~~~~~~  376 (805)
                      -..           -.|.=+++|..--.+...+.|+|. |+|..+.  . -+.-+++-..|+-..+-|+.-.+=+...+-
T Consensus       142 RAv-----------GnyAYv~Va~~y~~~~k~~~ilgLTASPGs~~ekI~eV~~nLgIe~vevrTE~d~DV~~Yv~~~kv  210 (542)
T COG1111         142 RAV-----------GNYAYVFVAKEYLRSAKNPLILGLTASPGSDLEKIQEVVENLGIEKVEVRTEEDPDVRPYVKKIKV  210 (542)
T ss_pred             HCC-----------CCCHHHHHHHHHHHHCCCCEEEEEECCCCCCHHHHHHHHHHCCCCEEEEECCCCCCHHHHHCCCEE
T ss_conf             413-----------760699999999982568437987238999879999999837954289845788517775140424


Q ss_pred             CCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHH--HCC---
Q ss_conf             100000000256367887545589989989988754433211001244447777533211201451011333--114---
Q gi|254780991|r  377 IKIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRY--LTG---  451 (805)
Q Consensus       377 ~~i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~--L~~---  451 (805)
                      -++     -|..++.+..+...+...+..++..++..+.......+.++....+- ..+.....+. .-++|  +.+   
T Consensus       211 e~i-----kV~lp~e~~~ir~~l~~~l~~~Lk~L~~~g~~~~~~~~~~kdl~~~~-~~~~~~a~~~-~~~~~~~l~~~a~  283 (542)
T COG1111         211 EWI-----KVDLPEEIKEIRDLLRDALKPRLKPLKELGVIESSSPVSKKDLLELR-QIRLIMAKNE-DSDKFRLLSVLAE  283 (542)
T ss_pred             EEE-----ECCCCHHHHHHHHHHHHHHHHHHHHHHHCCCEECCCCCCHHHHHHHH-HHHHHHCCCC-CHHHHHHHHHHHH
T ss_conf             899-----63685899999999999999999999976953235731076899999-9899863576-1788899999999


Q ss_pred             ----CCCC-----CCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHC
Q ss_conf             ----4655-----5620233026544213210123447544543245654133323576655444322211101001215
Q gi|254780991|r  452 ----RNPG-----EPPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLR  522 (805)
Q Consensus       452 ----r~~g-----e~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~  522 (805)
                          ...-     +-...++.|+-+     +.+....        ++..+-|.-+.+.-                |... 
T Consensus       284 ~~kl~~a~elletqGi~~~~~Yl~~-----l~e~~~~--------~~sk~a~~l~~d~~----------------~~~a-  333 (542)
T COG1111         284 AIKLAHALELLETQGIRPFYQYLEK-----LEEEATK--------GGSKAAKSLLADPY----------------FKRA-  333 (542)
T ss_pred             HHHHHHHHHHHHHHCHHHHHHHHHH-----HHHHHCC--------CCHHHHHHHHCCHH----------------HHHH-
T ss_conf             9888899999985086999999999-----9987503--------52077898753820----------------4799-


Q ss_pred             CCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHH--HCCCCCCCCCHHHHHHHHHHH
Q ss_conf             554544468675420132200234320124467720000133101688999999863--023212466214789999999
Q gi|254780991|r  523 PTTIVVSATPGSWELEQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAA--QQGLRILLTVLTKRMAEDLTE  600 (805)
Q Consensus       523 ~~~~~~satPg~~e~e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~--~~~~R~l~~~~tkr~~e~l~~  600 (805)
                                    +    . ...+. .+.+.--|         .++.+.+.+.+..  ..+.|++|||--.-.+|.+.+
T Consensus       334 --------------l----~-~~~~~-~~~~v~HP---------Kl~~l~eilke~~~k~~~~RvIVFT~yRdTae~i~~  384 (542)
T COG1111         334 --------------L----R-LLIRA-DESGVEHP---------KLEKLREILKEQLEKNGDSRVIVFTEYRDTAEEIVN  384 (542)
T ss_pred             --------------H----H-HHHHH-CCCCCCCC---------CHHHHHHHHHHHHHCCCCCEEEEEEHHHHHHHHHHH
T ss_conf             --------------9----9-99974-00368896---------189999999999723898559999614758999999


Q ss_pred             HHHHCCCEEE---------ECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHH
Q ss_conf             9863596687---------3257645789999999973189869998458753578777117999628856744460137
Q gi|254780991|r  601 YLYERNIRVR---------YMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSL  671 (805)
Q Consensus       601 ~~~~~~i~~~---------~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~  671 (805)
                      +|...|+.+.         .-+.+++|.+..+++++|++|+++|||+|.+..+|||||+|.+|+-|+|     -.|+=-.
T Consensus       385 ~L~~~~~~~~~rFiGQa~r~~~~GMsQkeQ~eiI~~Fr~Ge~nVLVaTSVgEEGLDIp~vDlVifYEp-----vpSeIR~  459 (542)
T COG1111         385 FLKKIGIKARVRFIGQASREGDKGMSQKEQKEIIDQFRKGEYNVLVATSVGEEGLDIPEVDLVIFYEP-----VPSEIRS  459 (542)
T ss_pred             HHHHCCCCCEEEEEECCCCCCCCCCCHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCCEEEEECC-----CCHHHHH
T ss_conf             99852875206886114545566658889999999986578518998123224678876567999568-----8578899


Q ss_pred             HHHHHHHCCCCCCEEEEEECCCCHHHHHHHH
Q ss_conf             7665431279986699982489889999999
Q gi|254780991|r  672 IQTIGRAARNVNSKVILYADTITKSIQLAID  702 (805)
Q Consensus       672 ~q~~GRagR~~~G~~il~ad~~t~~~~~ai~  702 (805)
                      |||.|||||.++|+|++....-|..+.++-.
T Consensus       460 IQR~GRTGR~r~Grv~vLvt~gtrdeayy~~  490 (542)
T COG1111         460 IQRKGRTGRKRKGRVVVLVTEGTRDEAYYYS  490 (542)
T ss_pred             HHHHCCCCCCCCCEEEEEEECCCHHHHHHHH
T ss_conf             9860744557797499999658627899999


No 33 
>TIGR00580 mfd transcription-repair coupling factor; InterPro: IPR004576 All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transcribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. A lesion in the template strand blocks the RNA polymerase complex (RNAP). The RNAP-DNA-RNA complex is specifically recognised by TcrF, which releases RNAP and the truncated transcript. The TcrF may replace RNAP at the lesion site and then recruit the UvrA/B/C repair system.; GO: 0003684 damaged DNA binding, 0005524 ATP binding, 0006281 DNA repair.
Probab=99.90  E-value=4.6e-22  Score=183.76  Aligned_cols=323  Identities=21%  Similarity=0.282  Sum_probs=218.3

Q ss_pred             HHCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCE-EEEEEECCCCHHHHHHHHHHHC---
Q ss_conf             205740266678887421588775477518888884389999999988739733-7998633764699999999971---
Q gi|254780991|r  117 LKNGKIWTPHRSWSINNHSKDITFFQMQTDYHPSGDQPAAIAQLLKGIHSREKV-QLLLGVTGSGKTFTMAKVIEAM---  192 (805)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~-qlL~GVTGSGKTevya~lI~~~---  192 (805)
                      ...|..+.||   .++-.     .|+=..||++|.||-+||+++.+-+.+.... =|+=|=-|=|||||-.+++=.+   
T Consensus       485 ~~~G~af~~D---~e~~~-----~Fe~~FPfeeT~DQ~~AI~eik~Dm~~~~~MDRL~CGDVGfGKTEVAmRAaFkAv~~  556 (997)
T TIGR00580       485 ASKGHAFPPD---DEWQA-----EFEDSFPFEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLD  556 (997)
T ss_pred             HCCCCCCCCC---HHHHH-----HHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCC
T ss_conf             1589889888---08999-----999838788977899999999997406898734652454885368888788876338


Q ss_pred             C----CCEEEEECCHHHHHHHHHHHHHHCCCC--EEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHH
Q ss_conf             9----978999316346899999999867898--3899862134444210155543210221035889999999999998
Q gi|254780991|r  193 Q----RPAIVMAPNKILAAQLYSEFKNFFPHN--AVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSL  266 (805)
Q Consensus       193 g----r~aLvLvPei~La~QL~~rfk~~Fp~n--~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l  266 (805)
                      |    |||.||||.--||.|=|..|++||-+=  .|+....+-+                         ..+--+....|
T Consensus       557 gneylKQVavLVPTT~LA~QHf~tf~~RF~~fPv~I~~LSRF~~-------------------------~~E~~~iL~~l  611 (997)
T TIGR00580       557 GNEYLKQVAVLVPTTILAQQHFETFKERFANFPVTIELLSRFRS-------------------------AKEKKEILKEL  611 (997)
T ss_pred             CCCEECEEEEECCHHHHHHHHHHHHHHHHCCCCEEEEECCCCCC-------------------------CHHHHHHHHHH
T ss_conf             78220116896270442777889999973789816875277567-------------------------37899999997


Q ss_pred             HCCCCEEEECCHHHHCCCCCHHHHHCCEEEEECCC-CCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEE-ECCCCCHH
Q ss_conf             54998499827789616898347722579994198-11178753234311765633877545331872478-31788877
Q gi|254780991|r  267 LERNDCIVVSSVSCIYGIGSVESYSQMIVQLKIGD-SVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSI-EIFPSHLE  344 (805)
Q Consensus       267 ~~~~~~IVVgsrSAIfgl~~P~~~lglIIvdEehd-~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~IL-dsatps~E  344 (805)
                      .+|+..|||||=-=| +-..-++||||+|+||||= .+..++..|+                 ++.-.||| =||||   
T Consensus       612 a~G~iDI~IGTH~lL-~k~v~FKdLGLlIiDEEQRFGV~~KE~lK~-----------------~~~~VDvLtlsATP---  670 (997)
T TIGR00580       612 ASGKIDILIGTHKLL-QKDVKFKDLGLLIIDEEQRFGVKQKEKLKE-----------------LKTSVDVLTLSATP---  670 (997)
T ss_pred             HCCCEEEEECCHHHH-CCCEEEECCCCEEEECCCCCCCCHHHHHCC-----------------CCCCCCEEEEECCC---
T ss_conf             559422663010412-785468638646983143488311555300-----------------15676567633789---


Q ss_pred             HHHHHHCCCCCCHHHHHCCCCCCCCHHHHCCCCCCHHHH-----HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             888731044420022210166640011100001000000-----002563678875455899899899887544332110
Q gi|254780991|r  345 DVAWRVSMFGNDIEEISEFYPLTGQKIRNVETIKIYANS-----HYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEA  419 (805)
Q Consensus       345 s~~~Rie~f~deIe~I~~fDplT~~~~~~~~~~~i~Pa~-----~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea  419 (805)
                       .|--..+-              ...+.+++.+..+|..     =||.+.+...                          
T Consensus       671 -IPRTL~MS--------------l~g~RdlS~I~TPP~~R~pv~T~v~~~~~~~--------------------------  709 (997)
T TIGR00580       671 -IPRTLHMS--------------LSGIRDLSIIATPPEDRLPVRTFVMEYDDEL--------------------------  709 (997)
T ss_pred             -CHHHHHHH--------------HHHHHHHHHCCCCCCCCCCEEEEEECCCHHH--------------------------
T ss_conf             -60558999--------------8755332210578887742488774278689--------------------------


Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             01244447777533211201451011333114465556202330265442132101234475445432456541333235
Q gi|254780991|r  420 QRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGEPPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAE  499 (805)
Q Consensus       420 ~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~ge~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~  499 (805)
                                                                                                      
T Consensus       710 --------------------------------------------------------------------------------  709 (997)
T TIGR00580       710 --------------------------------------------------------------------------------  709 (997)
T ss_pred             --------------------------------------------------------------------------------
T ss_conf             --------------------------------------------------------------------------------


Q ss_pred             CCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHH
Q ss_conf             76655444322211101001215554544468675420132200234320124467720000133101688999999863
Q gi|254780991|r  500 YGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGSWELEQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAA  579 (805)
Q Consensus       500 ~gfrlp~~~~n~pl~f~e~~~~~~~~~~~satPg~~e~e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~  579 (805)
                                                                                             +=+.|+...
T Consensus       710 -----------------------------------------------------------------------~~~AI~rEL  718 (997)
T TIGR00580       710 -----------------------------------------------------------------------VREAIRREL  718 (997)
T ss_pred             -----------------------------------------------------------------------HHHHHHHHH
T ss_conf             -----------------------------------------------------------------------999999753


Q ss_pred             HCCCCCCCC----CHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEE
Q ss_conf             023212466----2147899999999863596687325764578999999997318986999845875357877711799
Q gi|254780991|r  580 QQGLRILLT----VLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVA  655 (805)
Q Consensus       580 ~~~~R~l~~----~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~  655 (805)
                      .+|-++++-    -.-.+.++.|.+.-|+++|.  ..||-+...+-++||.+|..|++||||.|-++-=|+||||+--.+
T Consensus       719 ~RgGQvFyv~Nrie~i~~~~~~l~~LVP~arIa--iaHGqM~e~eLE~~m~~F~~~~~~vLvcTTIIE~GIDIPnANTiI  796 (997)
T TIGR00580       719 LRGGQVFYVHNRIESIEKLKTQLRELVPEARIA--IAHGQMTENELEEVMLEFYKGEFDVLVCTTIIESGIDIPNANTII  796 (997)
T ss_pred             CCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEE--EEECCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCHHHHHHHH
T ss_conf             139818998088135789999998508432678--883356845689999986268433013221465056410012686


Q ss_pred             EECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEEC
Q ss_conf             9628856744460137766543127-99866999824
Q gi|254780991|r  656 ILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYAD  691 (805)
Q Consensus       656 i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad  691 (805)
                      |-+||+=|+    -.|.|-=||.|| +..|-|+|.+.
T Consensus       797 i~~AD~FGL----aQLYQLRGRVGRs~~~AYAYlL~~  829 (997)
T TIGR00580       797 IDRADKFGL----AQLYQLRGRVGRSKKKAYAYLLYP  829 (997)
T ss_pred             HHHHCCCCH----HHHHHCCCEECCCCCEEEEEECCC
T ss_conf             875211470----347453631205871268983347


No 34 
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=99.90  E-value=3e-20  Score=170.19  Aligned_cols=324  Identities=20%  Similarity=0.275  Sum_probs=217.5

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEE
Q ss_conf             8884389999999988739733799863376469999999997---1997899931634689999999986789838998
Q gi|254780991|r  149 PSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYF  225 (805)
Q Consensus       149 P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f  225 (805)
                      -+.-|..|-..|++.+++. .+.++|.||||||||++-+.|+.   .|--+.+-+|-+...-.||.||+.-|.+..+...
T Consensus        98 Ls~~Q~~as~~l~q~i~~k-~~~lv~AV~GaGKTEMif~~i~~al~~G~~vciASPRvDVclEl~~Rlk~aF~~~~I~~L  176 (441)
T COG4098          98 LSPGQKKASNQLVQYIKQK-EDTLVWAVTGAGKTEMIFQGIEQALNQGGRVCIASPRVDVCLELYPRLKQAFSNCDIDLL  176 (441)
T ss_pred             CCHHHHHHHHHHHHHHHHC-CCEEEEEECCCCCHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHHCCCCEEEE
T ss_conf             2724789999999998715-768999742798510169999999965986998468610117778999976214986667


Q ss_pred             EECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHHHHCCEEEEECCCCCCH
Q ss_conf             62134444210155543210221035889999999999998549984998277896168983477225799941981117
Q gi|254780991|r  226 VSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVESYSQMIVQLKIGDSVEQ  305 (805)
Q Consensus       226 ~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~~lglIIvdEehd~~~~  305 (805)
                      |.-++-|                                    .+..+||+|.--++   -=.+-..++|+||+.-=-  
T Consensus       177 yg~S~~~------------------------------------fr~plvVaTtHQLl---rFk~aFD~liIDEVDAFP--  215 (441)
T COG4098         177 YGDSDSY------------------------------------FRAPLVVATTHQLL---RFKQAFDLLIIDEVDAFP--  215 (441)
T ss_pred             ECCCCHH------------------------------------CCCCEEEEEHHHHH---HHHHHCCEEEEECCCCCC--
T ss_conf             2587131------------------------------------33447997668888---888643389983024565--


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCCHHHHHCCCCCCCCHHHHCCCCCCHHHHHC
Q ss_conf             87532343117656338775453318724783178887788873104442002221016664001110000100000000
Q gi|254780991|r  306 KELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEEISEFYPLTGQKIRNVETIKIYANSHY  385 (805)
Q Consensus       306 ~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~~Rie~f~deIe~I~~fDplT~~~~~~~~~~~i~Pa~~~  385 (805)
                         +.....++|     |+..+.-.....|.=+|||.-+--  +-                                   
T Consensus       216 ---~~~d~~L~~-----Av~~ark~~g~~IylTATp~k~l~--r~-----------------------------------  250 (441)
T COG4098         216 ---FSDDQSLQY-----AVKKARKKEGATIYLTATPTKKLE--RK-----------------------------------  250 (441)
T ss_pred             ---CCCCHHHHH-----HHHHHHCCCCCEEEEECCCHHHHH--HH-----------------------------------
T ss_conf             ---667888999-----999751236736999648807888--87-----------------------------------


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCCCCHHHHHCC
Q ss_conf             25636788754558998998998875443321100124444777753321120145101133311446555620233026
Q gi|254780991|r  386 VTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGEPPPTLFEYI  465 (805)
Q Consensus       386 v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~ge~P~tL~dY~  465 (805)
                                              .. .++   .                         +...+         +.-||..
T Consensus       251 ------------------------~~-~g~---~-------------------------~~~kl---------p~RfH~~  268 (441)
T COG4098         251 ------------------------IL-KGN---L-------------------------RILKL---------PARFHGK  268 (441)
T ss_pred             ------------------------HH-HCC---E-------------------------EEEEC---------CHHHCCC
T ss_conf             ------------------------54-077---5-------------------------67634---------4654389


Q ss_pred             CCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCHHHHHHHH
Q ss_conf             54421321012344754454324565413332357665544432221110100121555454446867542013220023
Q gi|254780991|r  466 PEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGSWELEQCQGIIV  545 (805)
Q Consensus       466 p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~satPg~~e~e~~~~~~~  545 (805)
                                   .+|...-+|.++..+|..           ....|                                 
T Consensus       269 -------------pLpvPkf~w~~~~~k~l~-----------r~kl~---------------------------------  291 (441)
T COG4098         269 -------------PLPVPKFVWIGNWNKKLQ-----------RNKLP---------------------------------  291 (441)
T ss_pred             -------------CCCCCCEEEECCHHHHHH-----------HCCCC---------------------------------
T ss_conf             -------------989874288644777766-----------44477---------------------------------


Q ss_pred             HHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHH-HHCCCEE-EECCCCCCHHHHHH
Q ss_conf             432012446772000013310168899999986302321246621478999999998-6359668-73257645789999
Q gi|254780991|r  546 EQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYL-YERNIRV-RYMHSEVKTLERIE  623 (805)
Q Consensus       546 eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~-~~~~i~~-~~~h~~~~~~~r~~  623 (805)
                                             -.|..=|.+....++-+|+|..+..+.|.+++.| ....... .+.||.  ...|.+
T Consensus       292 -----------------------~kl~~~lekq~~~~~P~liF~p~I~~~eq~a~~lk~~~~~~~i~~Vhs~--d~~R~E  346 (441)
T COG4098         292 -----------------------LKLKRWLEKQRKTGRPVLIFFPEIETMEQVAAALKKKLPKETIASVHSE--DQHRKE  346 (441)
T ss_pred             -----------------------HHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCCEEEEECC--CCCHHH
T ss_conf             -----------------------8999999998743882899925058899999999861886421565336--701789


Q ss_pred             HHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCCCC---CCEEEEEECCCCHHHHHH
Q ss_conf             99997318986999845875357877711799962885674446013776654312799---866999824898899999
Q gi|254780991|r  624 IIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAARNV---NSKVILYADTITKSIQLA  700 (805)
Q Consensus       624 il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR~~---~G~~il~ad~~t~~~~~a  700 (805)
                      .++.||+|++++||.|.+|.||.-||+|. |+|++|...-|  ++.+|||.+||+||..   .|.|++|.+.++.+|.+|
T Consensus       347 kV~~fR~G~~~lLiTTTILERGVTfp~vd-V~Vlgaeh~vf--TesaLVQIaGRvGRs~~~PtGdv~FFH~G~skaM~~A  423 (441)
T COG4098         347 KVEAFRDGKITLLITTTILERGVTFPNVD-VFVLGAEHRVF--TESALVQIAGRVGRSLERPTGDVLFFHYGKSKAMKQA  423 (441)
T ss_pred             HHHHHHCCCEEEEEEEEHHHCCCCCCCCE-EEEECCCCCCC--CHHHHHHHHHHCCCCCCCCCCCEEEEECCCHHHHHHH
T ss_conf             99998758638999844033266435623-99954776420--1889999752316787689875899964633899999


Q ss_pred             HHHHHH
Q ss_conf             998788
Q gi|254780991|r  701 IDETTR  706 (805)
Q Consensus       701 i~e~~r  706 (805)
                      +.|+.+
T Consensus       424 ~keIk~  429 (441)
T COG4098         424 RKEIKE  429 (441)
T ss_pred             HHHHHH
T ss_conf             999999


No 35 
>KOG0340 consensus
Probab=99.89  E-value=4.3e-20  Score=169.07  Aligned_cols=115  Identities=27%  Similarity=0.364  Sum_probs=106.6

Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCC
Q ss_conf             21246621478999999998635966873257645789999999973189869998458753578777117999628856
Q gi|254780991|r  583 LRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKE  662 (805)
Q Consensus       583 ~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~  662 (805)
                      .-+.+|+.|.+-++-|+-.|.+.++++..+||.+.|.+|...|..||.+.+.|||+||++++|||||.|.||+|+|    
T Consensus       255 ~simIFvnttr~cQ~l~~~l~~le~r~~~lHs~m~Q~eR~~aLsrFrs~~~~iliaTDVAsRGLDIP~V~LVvN~d----  330 (442)
T KOG0340         255 GSIMIFVNTTRECQLLSMTLKNLEVRVVSLHSQMPQKERLAALSRFRSNAARILIATDVASRGLDIPTVELVVNHD----  330 (442)
T ss_pred             CEEEEEEEHHHHHHHHHHHHHHHCEEEEEHHHCCHHHHHHHHHHHHHHCCCCEEEEECHHHCCCCCCCEEEEEECC----
T ss_conf             6089996046899999999963034454311005088899899877626740899731343278988446787068----


Q ss_pred             CCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHHH
Q ss_conf             744460137766543127-9986699982489889999999
Q gi|254780991|r  663 GFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAID  702 (805)
Q Consensus       663 ~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai~  702 (805)
                       .|++.+.|||+.||++| |+.|-+|.+.+..+-...+||+
T Consensus       331 -iPr~P~~yiHRvGRtARAGR~G~aiSivt~rDv~l~~aiE  370 (442)
T KOG0340         331 -IPRDPKDYIHRVGRTARAGRKGMAISIVTQRDVELLQAIE  370 (442)
T ss_pred             -CCCCHHHHHHHHCCHHCCCCCCCEEEEECHHHHHHHHHHH
T ss_conf             -8998788887603012056776428986242279999999


No 36 
>KOG0346 consensus
Probab=99.88  E-value=2.9e-20  Score=170.35  Aligned_cols=116  Identities=22%  Similarity=0.301  Sum_probs=103.3

Q ss_pred             HHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHH-------------
Q ss_conf             9998630232124662147899999999863596687325764578999999997318986999845-------------
Q gi|254780991|r  574 EINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGIN-------------  640 (805)
Q Consensus       574 ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~-------------  640 (805)
                      .+-+..-...++++|+.|.-+.-.|.-+|...||+.--+.|.+..+.|..|+++|..|-|||+|+||             
T Consensus       260 allKL~LI~gKsliFVNtIdr~YrLkLfLeqFGiksciLNseLP~NSR~Hii~QFNkG~YdivIAtD~s~~~~~~eee~k  339 (569)
T KOG0346         260 ALLKLRLIRGKSLIFVNTIDRCYRLKLFLEQFGIKSCILNSELPANSRCHIIEQFNKGLYDIVIATDDSADGDKLEEEVK  339 (569)
T ss_pred             HHHHHHHHCCCEEEEEECHHHHHHHHHHHHHHCCHHHHHCCCCCCCCHHHHHHHHHCCCEEEEEECCCCCCHHHHHCCCC
T ss_conf             99999886275499985002468899999980737665256466432122898860761159997067641355521112


Q ss_pred             ----------------------HHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCC
Q ss_conf             ----------------------8753578777117999628856744460137766543127-99866999824898
Q gi|254780991|r  641 ----------------------LLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTIT  694 (805)
Q Consensus       641 ----------------------~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t  694 (805)
                                            =++||+||.+|+-|.|+|     ||.+.++||||+||||| |..|.++.|.-+-.
T Consensus       340 gk~~e~~~kndkkskkK~D~E~GVsRGIDF~~V~~VlNFD-----~P~t~~sYIHRvGRTaRg~n~GtalSfv~P~e  411 (569)
T KOG0346         340 GKSDEKNPKNDKKSKKKLDKESGVSRGIDFHHVSNVLNFD-----FPETVTSYIHRVGRTARGNNKGTALSFVSPKE  411 (569)
T ss_pred             CCCCCCCCCCCCCCCCCCCCHHCHHCCCCCHHEEEEEECC-----CCCCHHHHHHHCCCCCCCCCCCCEEEEECCHH
T ss_conf             5444568877421244457011212165401211456137-----89854788886122234789872599966467


No 37 
>KOG0354 consensus
Probab=99.88  E-value=2e-19  Score=164.03  Aligned_cols=458  Identities=17%  Similarity=0.165  Sum_probs=224.2

Q ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHH-HHHCCCCEEEEEEECCCCHHHHHHHHHHHC-----CCCEEEEECCHHHHHHHH
Q ss_conf             87754775188888843899999999-887397337998633764699999999971-----997899931634689999
Q gi|254780991|r  137 DITFFQMQTDYHPSGDQPAAIAQLLK-GIHSREKVQLLLGVTGSGKTFTMAKVIEAM-----QRPAIVMAPNKILAAQLY  210 (805)
Q Consensus       137 ~~~~f~l~~~~~P~gdQ~~Ai~~L~~-~l~~g~~~qlL~GVTGSGKTevya~lI~~~-----gr~aLvLvPei~La~QL~  210 (805)
                      +..+.....++.+-.=|.+    |++ ++  | +-.++.==|||||||+-|.++.+.     +-.+++|||.+-|-.|..
T Consensus        51 ~~~~~~~p~~~~lR~YQ~e----ivq~AL--g-kNtii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~  123 (746)
T KOG0354          51 AAQRWIYPTNLELRNYQEE----LVQPAL--G-KNTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQI  123 (746)
T ss_pred             HHCCCCCCCCCCCCHHHHH----HHHHHH--C-CCEEEEEECCCCCCCHHHHHHHHHHHCCCCCEEEEEECCCHHHHHHH
T ss_conf             4144104676656078999----867862--6-87699953599861047999999972377643899607711788889


Q ss_pred             HHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCH---HHHC-CCCC
Q ss_conf             99998678983899862134444210155543210221035889999999999998549984998277---8961-6898
Q gi|254780991|r  211 SEFKNFFPHNAVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSV---SCIY-GIGS  286 (805)
Q Consensus       211 ~rfk~~Fp~n~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsr---SAIf-gl~~  286 (805)
                      .+|+.++-.-.|--.++.-        +|.+.                |...|    .-++++++.+-   ..|- |...
T Consensus       124 a~~~~~~~~~~~T~~l~~~--------~~~~~----------------r~~i~----~s~~vff~TpQil~ndL~~~~~~  175 (746)
T KOG0354         124 ACFSIYLIPYSVTGQLGDT--------VPRSN----------------RGEIV----ASKRVFFRTPQILENDLKSGLHD  175 (746)
T ss_pred             HHHHHCCCCCCCEEECCCC--------CCCCC----------------HHHHH----CCCCEEEECHHHHHHHCCCCCCC
T ss_conf             8876206760104550575--------68876----------------24531----02635896727634332543345


Q ss_pred             HHHHHCCEEEEECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEE-CCCCCHHHHHHHHCCCCCCHHHHHCCCC
Q ss_conf             347722579994198111787532343117656338775453318724783-1788877888731044420022210166
Q gi|254780991|r  287 VESYSQMIVQLKIGDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIE-IFPSHLEDVAWRVSMFGNDIEEISEFYP  365 (805)
Q Consensus       287 P~~~lglIIvdEehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILd-satps~Es~~~Rie~f~deIe~I~~fDp  365 (805)
                      +++..-++|+||.|-......         |.-.-.. .........=||| +|||... ..-..+.-+...-+|....-
T Consensus       176 ~ls~fs~iv~DE~Hra~kn~~---------Y~~Vmr~-~l~~k~~~~qILgLTASpG~~-~~~v~~~I~~L~asldvr~~  244 (746)
T KOG0354         176 ELSDFSLIVFDECHRTSKNHP---------YNNIMRE-YLDLKNQGNQILGLTASPGSK-LEQVQNVIDNLCASLDVRTE  244 (746)
T ss_pred             CCCEEEEEEECCCCCCCCCCC---------HHHHHHH-HHHHHHCCCCEEEEECCCCCC-HHHHHHHHHHHHEECCCCHH
T ss_conf             455179999722244555661---------7999999-998651466179985588845-89999999852033255504


Q ss_pred             CC-CCHHHHCCCCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHCCCCCC
Q ss_conf             64-00111000010000000025636788754558998998998875443321100124444---777753321120145
Q gi|254780991|r  366 LT-GQKIRNVETIKIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRI---TYDLEMLETTGSCQS  441 (805)
Q Consensus       366 lT-~~~~~~~~~~~i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~---~~dle~l~e~G~~~g  441 (805)
                      .| .............|.       + +......+...+..-+..+..........++..+.   .+-..+.+.      
T Consensus       245 ssi~~~y~~lr~~~~i~v-------~-~~~~~~~~~~~f~~~i~p~l~~l~~~~l~~~~~~~~~~~~~~~~~~~------  310 (746)
T KOG0354         245 SSIKSNYEELREHVQIPV-------D-LSLCERDIEDPFGMIIEPLLQQLQEEGLIEISDKSTSYEQWVVQAEK------  310 (746)
T ss_pred             HHHHHHHHHHHCCCCCCC-------C-HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHH------
T ss_conf             456541898724675247-------5-88764113436999999999999863854102433344440433002------


Q ss_pred             CCHHHHHHCCCCCCCCC--HHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHH
Q ss_conf             10113331144655562--0233026544213210123447544543245654133323576655444322211101001
Q gi|254780991|r  442 IENYSRYLTGRNPGEPP--PTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWN  519 (805)
Q Consensus       442 ienyS~~L~~r~~ge~P--~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~  519 (805)
                          +.+-...+  .+.  .+.++++..+.                         ..+..+|-|+-.+++-.--.++++.
T Consensus       311 ----~~~~~~~~--~q~~~f~~~~~~~~~~-------------------------~ll~~~gir~~~~l~~~~~f~~e~~  359 (746)
T KOG0354         311 ----AAAPNGPE--NQRNCFYALHLRKYNL-------------------------ALLISDGIRFVDALDYLEDFYEEVA  359 (746)
T ss_pred             ----HHCCCCCC--CCHHHHHHHHHHHHHH-------------------------HHHHHCCHHHHHHHHHHHHHCCCCC
T ss_conf             ----22368874--3203678999998788-------------------------8876323403777765554300000


Q ss_pred             HHCCCCCCCCCCCCCCCCHHHHHHHHHHH-HCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHH
Q ss_conf             21555454446867542013220023432-01244677200001331016889999998630232124662147899999
Q gi|254780991|r  520 CLRPTTIVVSATPGSWELEQCQGIIVEQI-IRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDL  598 (805)
Q Consensus       520 ~~~~~~~~~satPg~~e~e~~~~~~~eqi-~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l  598 (805)
                      ...-...+..+-+        ...+.+.+ ....-..||+ ...|.-..+.+.+-+..+ ....-|+.+||.|+..|+.|
T Consensus       360 ~~k~~~~~~e~~~--------~~~~~~~m~~~~~l~~~~~-~~npkle~l~~~l~e~f~-~~~dsR~IIFve~R~sa~~l  429 (746)
T KOG0354         360 LKKYLKLELEARL--------IRNFTENMNELEHLSLDPP-KENPKLEKLVEILVEQFE-QNPDSRTIIFVETRESALAL  429 (746)
T ss_pred             HHHHHHHHHCCHH--------HHHHHHHHHHHHHHHCCCC-CCCHHHHHHHHHHHHHHH-CCCCCCEEEEEEHHHHHHHH
T ss_conf             4678898742210--------6778898876443202787-668469999999999860-59885079997328899999


Q ss_pred             HHHHH---HCCCEEEECCC--------CCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCC
Q ss_conf             99986---35966873257--------64578999999997318986999845875357877711799962885674446
Q gi|254780991|r  599 TEYLY---ERNIRVRYMHS--------EVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRS  667 (805)
Q Consensus       599 ~~~~~---~~~i~~~~~h~--------~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~  667 (805)
                      ..++.   ..||+...+-|        .+++.+..++|++|+.|+++|||+|-+..+|||||+|.||+-||     .-.+
T Consensus       430 ~~~l~~~~~~~ir~~~fiGq~~s~~~~gmtqk~Q~evl~~Fr~G~~NvLVATSV~EEGLDI~ec~lVIcYd-----~~sn  504 (746)
T KOG0354         430 KKWLLQLHELGIKAEIFIGQGKSTQSTGMTQKEQKEVLDKFRDGEINVLVATSVAEEGLDIGECNLVICYD-----YSSN  504 (746)
T ss_pred             HHHHHHHHHCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHCCCCCEEEEECCHHCCCCCCCCCEEEEEC-----CCCC
T ss_conf             99997540135440215603544544445789999999998579802799810100467742112899965-----7766


Q ss_pred             HHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHH
Q ss_conf             0137766543127998669998248988999999
Q gi|254780991|r  668 KTSLIQTIGRAARNVNSKVILYADTITKSIQLAI  701 (805)
Q Consensus       668 ~~~~~q~~GRagR~~~G~~il~ad~~t~~~~~ai  701 (805)
                      +-..||+.|| ||-++|++++.+.........-.
T Consensus       505 pIrmIQrrGR-gRa~ns~~vll~t~~~~~~~E~~  537 (746)
T KOG0354         505 PIRMVQRRGR-GRARNSKCVLLTTGSEVIEFERN  537 (746)
T ss_pred             HHHHHHHHCC-CCCCCCEEEEEECCHHHHHHHHH
T ss_conf             8899998631-01018769999725168899888


No 38 
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.88  E-value=1e-19  Score=166.30  Aligned_cols=345  Identities=20%  Similarity=0.226  Sum_probs=203.1

Q ss_pred             ECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCC-EEE
Q ss_conf             1888888438999999998873973379986337646999999999719978999316346899999999867898-389
Q gi|254780991|r  145 TDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHN-AVE  223 (805)
Q Consensus       145 ~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n-~V~  223 (805)
                      ..++|..-|.+|++++....++ .+.-++.--||||||.+-+.+|++.++++|||||.+-|..|.+.++..+|+.+ .+.
T Consensus        33 ~~~~lr~yQ~~al~a~~~~~~~-~~~gvivlpTGaGKT~va~~~~~~~~~~~Lvlv~~~~L~~Qw~~~~~~~~~~~~~~g  111 (442)
T COG1061          33 FEFELRPYQEEALDALVKNRRT-ERRGVIVLPTGAGKTVVAAEAIAELKRSTLVLVPTKELLDQWAEALKKFLLLNDEIG  111 (442)
T ss_pred             CCCCCHHHHHHHHHHHHHHCCC-CCCEEEEECCCCCHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHCCCCCCCC
T ss_conf             5788859999999999962225-786799967999889999999998269889997829999999999997348867660


Q ss_pred             EEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCC-CEEEECCHHHHCCC--CCHH--HHHCCEEEEE
Q ss_conf             98621344442101555432102210358899999999999985499-84998277896168--9834--7722579994
Q gi|254780991|r  224 YFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERN-DCIVVSSVSCIYGI--GSVE--SYSQMIVQLK  298 (805)
Q Consensus       224 ~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~-~~IVVgsrSAIfgl--~~P~--~~lglIIvdE  298 (805)
                      .+.+.                              .       .+-+ ..|+|+|+..++.-  ...+  ..-++||+||
T Consensus       112 ~~~~~------------------------------~-------~~~~~~~i~vat~qtl~~~~~l~~~~~~~~~liI~DE  154 (442)
T COG1061         112 IYGGG------------------------------E-------KELEPAKVTVATVQTLARRQLLDEFLGNEFGLIIFDE  154 (442)
T ss_pred             EECCC------------------------------C-------CCCCCCCEEEEEEHHHHHHHHHHHHCCCCCCEEEEEC
T ss_conf             33687------------------------------2-------3357774899983897641555540356667599975


Q ss_pred             CCCCCCHHH--HHHHHHHCCCCCCHHHHHHHHHCCCCEEEE-CCCCCHHHHHHHHCCCCCCHHHHHCCCCCCCCHHHHCC
Q ss_conf             198111787--532343117656338775453318724783-17888778887310444200222101666400111000
Q gi|254780991|r  299 IGDSVEQKE--LLSSLVKQQYKRQDIGIIRGTFRVCGDSIE-IFPSHLEDVAWRVSMFGNDIEEISEFYPLTGQKIRNVE  375 (805)
Q Consensus       299 ehd~~~~~~--~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILd-satps~Es~~~Rie~f~deIe~I~~fDplT~~~~~~~~  375 (805)
                      .|.......  +...+..++|                 +|| +|||--++ ...+....+.+..+..    .-....-..
T Consensus       155 ~Hh~~a~~~~~~~~~~~~~~~-----------------~LGLTATp~R~D-~~~~~~l~~~~g~~vy----~~~~~~li~  212 (442)
T COG1061         155 VHHLPAPSYRRILELLSAAYP-----------------RLGLTATPERED-GGRIGDLFDLIGPIVY----EVSLKELID  212 (442)
T ss_pred             CCCCCCHHHHHHHHHHHCCCE-----------------EEEEECCCCCCC-CCCHHHHHHHCCCEEE----ECCHHHHHH
T ss_conf             245784779999997510310-----------------467714872448-7752487740575567----335899833


Q ss_pred             CCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCC
Q ss_conf             01000000002563678875455899899899887544332110012444477775332112014510113331144655
Q gi|254780991|r  376 TIKIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPG  455 (805)
Q Consensus       376 ~~~i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~g  455 (805)
                      ...+-|...+....+.........          ..      ...+..       +.....+.                 
T Consensus       213 ~g~Lap~~~~~i~~~~t~~~~~~~----------~~------~~~~~~-------~~~~~~~~-----------------  252 (442)
T COG1061         213 EGYLAPYKYVEIKVTLTEDEEREY----------AK------ESARFR-------ELLRARGT-----------------  252 (442)
T ss_pred             CCCCCCEEEEEEEECCCHHHHHHC----------CH------HHHHHH-------HHHHHHCC-----------------
T ss_conf             787577499998623662877740----------31------555555-------55543100-----------------


Q ss_pred             CCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCC
Q ss_conf             56202330265442132101234475445432456541333235766554443222111010012155545444686754
Q gi|254780991|r  456 EPPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGSW  535 (805)
Q Consensus       456 e~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~satPg~~  535 (805)
                                                    +.-.                                            .+
T Consensus       253 ------------------------------~~~~--------------------------------------------~~  258 (442)
T COG1061         253 ------------------------------LRAE--------------------------------------------NE  258 (442)
T ss_pred             ------------------------------HHHH--------------------------------------------HH
T ss_conf             ------------------------------1345--------------------------------------------67


Q ss_pred             CCHHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCC
Q ss_conf             20132200234320124467720000133101688999999863023212466214789999999986359668732576
Q gi|254780991|r  536 ELEQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSE  615 (805)
Q Consensus       536 e~e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~  615 (805)
                      ....                     ..-....+..+...+.... ++.++++++-.+..+++++..|..-|+ +..+.+.
T Consensus       259 ~~~~---------------------~~~~~~~~~~~~~~~~~~~-~~~~~lif~~~~~~a~~i~~~~~~~~~-~~~it~~  315 (442)
T COG1061         259 ARRI---------------------AIASERKIAAVRGLLLKHA-RGDKTLIFASDVEHAYEIAKLFLAPGI-VEAITGE  315 (442)
T ss_pred             HHHH---------------------HHHHHHHHHHHHHHHHHHC-CCCCEEEEECCHHHHHHHHHHHCCCCC-EEEEECC
T ss_conf             7777---------------------6642899999999987532-688669997577999999998626774-2466578


Q ss_pred             CCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCCC-C-CCE--EEEEEC
Q ss_conf             457899999999731898699984587535787771179996288567444601377665431279-9-866--999824
Q gi|254780991|r  616 VKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAARN-V-NSK--VILYAD  691 (805)
Q Consensus       616 ~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR~-~-~G~--~il~ad  691 (805)
                      .++.+|.++++.|+.|.+++||.+.|+.+|+|+|+++.++++..     -.|...|+|++||.=|. . ++.  ++.|..
T Consensus       316 t~~~eR~~il~~fr~g~~~~lv~~~vl~EGvDiP~~~~~i~~~~-----t~S~~~~~Q~lGR~LR~~~~k~~~~~~~~~~  390 (442)
T COG1061         316 TPKEEREAILERFRTGGIKVLVTVKVLDEGVDIPDADVLIILRP-----TGSRRLFIQRLGRGLRPAEGKEDTLALDYSL  390 (442)
T ss_pred             CCHHHHHHHHHHHHCCCCEEEEEEEEECCCCCCCCCCEEEEECC-----CCCHHHHHHHHHHHHCCCCCCCCEEEEEEEC
T ss_conf             99889999999987089529999614126657888757999779-----9879999999616634788999659999964


No 39 
>KOG0342 consensus
Probab=99.87  E-value=5.6e-20  Score=168.19  Aligned_cols=127  Identities=20%  Similarity=0.219  Sum_probs=111.3

Q ss_pred             HHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCC
Q ss_conf             89999998630232124662147899999999863596687325764578999999997318986999845875357877
Q gi|254780991|r  570 DVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIP  649 (805)
Q Consensus       570 dl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p  649 (805)
                      .|+.-+++.... +++.||.-|-.++.-+++.|....+.+..+||..+|..|..+..+|++-+--|||.||++|||+|||
T Consensus       319 ll~~~LKk~~~~-~KiiVF~sT~~~vk~~~~lL~~~dlpv~eiHgk~~Q~kRT~~~~~F~kaesgIL~cTDVaARGlD~P  397 (543)
T KOG0342         319 LLYTFLKKNIKR-YKIIVFFSTCMSVKFHAELLNYIDLPVLEIHGKQKQNKRTSTFFEFCKAESGILVCTDVAARGLDIP  397 (543)
T ss_pred             HHHHHHHHHCCC-CEEEEEECHHHHHHHHHHHHHHCCCCHHHHHCCCCCCCCCHHHHHHHHCCCCEEEECCHHHCCCCCC
T ss_conf             999999973477-2499993302679999999850687532442578532202389988610664399603221368888


Q ss_pred             CCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHHHHHH
Q ss_conf             7117999628856744460137766543127-9986699982489889999999878
Q gi|254780991|r  650 ECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAIDETT  705 (805)
Q Consensus       650 ~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai~e~~  705 (805)
                      +|++|.-+|     .|.+.+.||||+||||| |..|+++|+   ..+....+++...
T Consensus       398 ~V~~VvQ~~-----~P~d~~~YIHRvGRTaR~gk~G~alL~---l~p~El~Flr~LK  446 (543)
T KOG0342         398 DVDWVVQYD-----PPSDPEQYIHRVGRTAREGKEGKALLL---LAPWELGFLRYLK  446 (543)
T ss_pred             CCEEEEEEC-----CCCCHHHHHHHHCCCCCCCCCCEEEEE---ECHHHHHHHHHHH
T ss_conf             840799858-----999989989873212236898638999---6766778999986


No 40 
>KOG0336 consensus
Probab=99.87  E-value=2.6e-20  Score=170.67  Aligned_cols=130  Identities=20%  Similarity=0.308  Sum_probs=118.2

Q ss_pred             HHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCC
Q ss_conf             99999863023212466214789999999986359668732576457899999999731898699984587535787771
Q gi|254780991|r  572 YDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPEC  651 (805)
Q Consensus       572 ~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v  651 (805)
                      +....+.-..++++++|+..|-||++|+.-|.-.||....+|++..|..|+..|++|+.|++.|||+|+++.+|||+|.|
T Consensus       455 ~~~f~~~ms~ndKvIiFv~~K~~AD~LSSd~~l~gi~~q~lHG~r~Q~DrE~al~~~ksG~vrILvaTDlaSRGlDv~Di  534 (629)
T KOG0336         455 VQFFVANMSSNDKVIIFVSRKVMADHLSSDFCLKGISSQSLHGNREQSDREMALEDFKSGEVRILVATDLASRGLDVPDI  534 (629)
T ss_pred             HHHHHHHCCCCCEEEEEEECHHHHHHCCCHHHHCCCCHHHCCCCHHHHHHHHHHHHHHCCCEEEEEEECHHHCCCCCHHC
T ss_conf             99999855888618999831032210231021146101102587224359999976415816999972234337882002


Q ss_pred             CEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHHHHHHH
Q ss_conf             17999628856744460137766543127-99866999824898899999998788
Q gi|254780991|r  652 GLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAIDETTR  706 (805)
Q Consensus       652 ~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai~e~~r  706 (805)
                      |+|.|||     ||++.+-|||++||+|| |+.|.+|.|....+-+|...+-++-.
T Consensus       535 THV~NyD-----FP~nIeeYVHRvGrtGRaGr~G~sis~lt~~D~~~a~eLI~ILe  585 (629)
T KOG0336         535 THVYNYD-----FPRNIEEYVHRVGRTGRAGRTGTSISFLTRNDWSMAEELIQILE  585 (629)
T ss_pred             CEEECCC-----CCCCHHHHHHHHCCCCCCCCCCCEEEEEEHHHHHHHHHHHHHHH
T ss_conf             0354057-----87559999987123565777763278886304777999999999


No 41 
>KOG0347 consensus
Probab=99.86  E-value=6.4e-20  Score=167.76  Aligned_cols=106  Identities=21%  Similarity=0.297  Sum_probs=101.5

Q ss_pred             CCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCC
Q ss_conf             12466214789999999986359668732576457899999999731898699984587535787771179996288567
Q gi|254780991|r  584 RILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEG  663 (805)
Q Consensus       584 R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~  663 (805)
                      |++||+...--+-.|+-+|...+|..+-+|+.+.|.+|-+-|++|++..--|||+|+++|||||||+|.+|+.|.     
T Consensus       465 rTlVF~NsId~vKRLt~~L~~L~i~p~~LHA~M~QKqRLknLEkF~~~~~~VLiaTDVAARGLDIp~V~HVIHYq-----  539 (731)
T KOG0347         465 RTLVFCNSIDCVKRLTVLLNNLDIPPLPLHASMIQKQRLKNLEKFKQSPSGVLIATDVAARGLDIPGVQHVIHYQ-----  539 (731)
T ss_pred             CEEEEECHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEEEEHHHHCCCCCCCCCEEEEEE-----
T ss_conf             359984118899999999741699971025778899998769987448881799623444258887863678960-----


Q ss_pred             CCCCHHHHHHHHHHHCC-CCCCEEEEEECCCC
Q ss_conf             44460137766543127-99866999824898
Q gi|254780991|r  664 FLRSKTSLIQTIGRAAR-NVNSKVILYADTIT  694 (805)
Q Consensus       664 f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t  694 (805)
                      .|++.+-||||+|||+| |.+|..+|+.++.+
T Consensus       540 VPrtseiYVHRSGRTARA~~~Gvsvml~~P~e  571 (731)
T KOG0347         540 VPRTSEIYVHRSGRTARANSEGVSVMLCGPQE  571 (731)
T ss_pred             CCCCCCEEEECCCCCCCCCCCCEEEEEECHHH
T ss_conf             68753246762665322567883799868177


No 42 
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.86  E-value=2.2e-18  Score=156.16  Aligned_cols=125  Identities=26%  Similarity=0.305  Sum_probs=105.5

Q ss_pred             HHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCC------CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHH
Q ss_conf             88999999863023212466214789999999986359------668732576457899999999731898699984587
Q gi|254780991|r  569 EDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERN------IRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLL  642 (805)
Q Consensus       569 ddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~------i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~  642 (805)
                      ..+...+...+..+..+||||.|.+++|.++..|....      ......||.+++.+|.++-+.|+.|+.+++|.|.-+
T Consensus       271 ~~~~~~l~~~i~~~~~tLvF~NtR~~aE~~~~~L~~~~~~~~~~~~i~~HHgSls~e~R~~vE~~lk~G~l~~vV~TsSL  350 (878)
T PRK13767        271 EALYETLDELIQEHRTTLIFTNTRSGAERVVYKLRKRYPEEYDEDNIGAHHSSLSREVRLEVEEKLKRGELKVVVSSTSL  350 (878)
T ss_pred             HHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCHHHHHHHHHHHHCCCCCEEEEECHH
T ss_conf             99999999999838977999155899999999999853430675432220177899999999999857998689982736


Q ss_pred             HCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC--CCCCEEEEEECCCCHHHH
Q ss_conf             53578777117999628856744460137766543127--998669998248988999
Q gi|254780991|r  643 REGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR--NVNSKVILYADTITKSIQ  698 (805)
Q Consensus       643 akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR--~~~G~~il~ad~~t~~~~  698 (805)
                      .-|+||+.|.+|+.++     .|++-.+|+||+||||.  |...+.+++.......++
T Consensus       351 ELGIDiG~Vd~Viq~g-----sP~svarllQR~GRsGH~~g~~s~g~~vp~~~~ellE  403 (878)
T PRK13767        351 ELGIDIGYIDLVVLLG-----SPKSVSRLLQRIGRAGHRLGEVSKGRIIVVDRDDLVE  403 (878)
T ss_pred             HCCCCCCCCCEEEECC-----CCHHHHHHHHHHCCCCCCCCCEEEEEEEECCCHHHHH
T ss_conf             5077777525899758-----9611899999833578999980469999798168999


No 43 
>KOG0334 consensus
Probab=99.85  E-value=4.9e-19  Score=161.15  Aligned_cols=127  Identities=18%  Similarity=0.302  Sum_probs=113.0

Q ss_pred             EECC-CCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEE
Q ss_conf             0013-310168899999986302321246621478999999998635966873257645789999999973189869998
Q gi|254780991|r  560 EIRS-ARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVG  638 (805)
Q Consensus       560 eir~-~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvg  638 (805)
                      +|++ -...+..|.+-+.++.. ...+++|+--+-.++.|.+-|...|+.+..+|+.+++..|..++.+|++|.+.+||+
T Consensus       591 ~V~~~e~eKf~kL~eLl~e~~e-~~~tiiFv~~qe~~d~l~~~L~~ag~~~~slHGgv~q~dR~sti~dfK~~~~~LLva  669 (997)
T KOG0334         591 RVCAIENEKFLKLLELLGERYE-DGKTIIFVDKQEKADALLRDLQKAGYNCDSLHGGVDQHDRSSTIEDFKNGVVNLLVA  669 (997)
T ss_pred             EEECCCHHHHHHHHHHHHHHHH-CCCEEEEECCCHHHHHHHHHHHHCCCCHHHHCCCCCHHHHHHHHHHHHCCCCEEEEE
T ss_conf             9814836779999999998862-488799984714788999999856860543057875677885899974567428985


Q ss_pred             HHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECC
Q ss_conf             458753578777117999628856744460137766543127-998669998248
Q gi|254780991|r  639 INLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYADT  692 (805)
Q Consensus       639 t~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~  692 (805)
                      |.++|+|||++++.||+|||     |+..-+.|+|+.||||| |..|.+++|.+.
T Consensus       670 TsvvarGLdv~~l~Lvvnyd-----~pnh~edyvhR~gRTgragrkg~AvtFi~p  719 (997)
T KOG0334         670 TSVVARGLDVKELILVVNYD-----FPNHYEDYVHRVGRTGRAGRKGAAVTFITP  719 (997)
T ss_pred             HHHHHCCCCCCCEEEEEECC-----CCHHHHHHHHHHCCCCCCCCCCEEEEEECH
T ss_conf             14542676665405899736-----631279999985135667776337998577


No 44 
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=99.84  E-value=1.5e-17  Score=149.96  Aligned_cols=323  Identities=18%  Similarity=0.200  Sum_probs=213.3

Q ss_pred             ECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH-CCCCEEEEECCHHHHHHHHHHHHHHCCCCEEE
Q ss_conf             18888884389999999988739733799863376469999999997-19978999316346899999999867898389
Q gi|254780991|r  145 TDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA-MQRPAIVMAPNKILAAQLYSEFKNFFPHNAVE  223 (805)
Q Consensus       145 ~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~-~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~  223 (805)
                      +.|-|  .|.++|..+.+|     +.++..==||+||...|- +-+- ..-.+||++|=|+|-.-.++.++.. | -.++
T Consensus        16 ~~FR~--gQ~evI~~~l~g-----~d~lvvmPTGgGKSlCyQ-iPAll~~G~TLVVSPLiSLM~DQV~~l~~~-G-i~A~   85 (590)
T COG0514          16 ASFRP--GQQEIIDALLSG-----KDTLVVMPTGGGKSLCYQ-IPALLLEGLTLVVSPLISLMKDQVDQLEAA-G-IRAA   85 (590)
T ss_pred             CCCCC--CHHHHHHHHHCC-----CCEEEECCCCCCCCHHHH-HHHHHCCCCEEEECCHHHHHHHHHHHHHHC-C-CEEE
T ss_conf             30388--889999999658-----867998538987106743-678865997899785688899999999975-9-6520


Q ss_pred             EEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCH-------HHHHCCEEE
Q ss_conf             9862134444210155543210221035889999999999998549984998277896168983-------477225799
Q gi|254780991|r  224 YFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSV-------ESYSQMIVQ  296 (805)
Q Consensus       224 ~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P-------~~~lglIIv  296 (805)
                      +..|-++                         ..+|...|..+..|+-.++--|---+-   .|       .-.++++++
T Consensus        86 ~lnS~l~-------------------------~~e~~~v~~~l~~g~~klLyisPErl~---~~~f~~~L~~~~i~l~vI  137 (590)
T COG0514          86 YLNSTLS-------------------------REERQQVLNQLKSGQLKLLYISPERLM---SPRFLELLKRLPISLVAI  137 (590)
T ss_pred             HHHCCCC-------------------------HHHHHHHHHHHHCCCEEEEEECCHHHC---CHHHHHHHHHCCCCEEEE
T ss_conf             4424367-------------------------877999999986496459998813631---768999997088756996


Q ss_pred             EECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCCHHHHHCCCCCCCCHHHHCCC
Q ss_conf             94198111787532343117656338775453318724783178887788873104442002221016664001110000
Q gi|254780991|r  297 LKIGDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEEISEFYPLTGQKIRNVET  376 (805)
Q Consensus       297 dEehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~~Rie~f~deIe~I~~fDplT~~~~~~~~~  376 (805)
                      ||-|=-|.+-.-++..    |.+  ....+..|...+.+-=.||++-...                              
T Consensus       138 DEAHCiSqWGhdFRP~----Y~~--lg~l~~~~~~~p~~AlTATA~~~v~------------------------------  181 (590)
T COG0514         138 DEAHCISQWGHDFRPD----YRR--LGRLRAGLPNPPVLALTATATPRVR------------------------------  181 (590)
T ss_pred             CHHHHHHHCCCCCCHH----HHH--HHHHHHHCCCCCEEEEECCCCHHHH------------------------------
T ss_conf             2177776417743776----899--9999851799977997378986789------------------------------


Q ss_pred             CCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCC
Q ss_conf             10000000025636788754558998998998875443321100124444777753321120145101133311446555
Q gi|254780991|r  377 IKIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGE  456 (805)
Q Consensus       377 ~~i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~ge  456 (805)
                                              .+...++.                                 +..+..+..   .-.
T Consensus       182 ------------------------~DI~~~L~---------------------------------l~~~~~~~~---sfd  201 (590)
T COG0514         182 ------------------------DDIREQLG---------------------------------LQDANIFRG---SFD  201 (590)
T ss_pred             ------------------------HHHHHHHC---------------------------------CCCCCEEEE---CCC
T ss_conf             ------------------------99999846---------------------------------788664871---589


Q ss_pred             CCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCC
Q ss_conf             62023302654421321012344754454324565413332357665544432221110100121555454446867542
Q gi|254780991|r  457 PPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGSWE  536 (805)
Q Consensus       457 ~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~satPg~~e  536 (805)
                      +|+..+.                                                                         
T Consensus       202 RpNi~~~-------------------------------------------------------------------------  208 (590)
T COG0514         202 RPNLALK-------------------------------------------------------------------------  208 (590)
T ss_pred             CCHHHHH-------------------------------------------------------------------------
T ss_conf             8523455-------------------------------------------------------------------------


Q ss_pred             CHHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHH-HHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCC
Q ss_conf             01322002343201244677200001331016889999998-63023212466214789999999986359668732576
Q gi|254780991|r  537 LEQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINL-AAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSE  615 (805)
Q Consensus       537 ~e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~-~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~  615 (805)
                                              +++.....+++. -|.. .-..+....+.+.|++.+|++++.|...|+.+...|++
T Consensus       209 ------------------------v~~~~~~~~q~~-fi~~~~~~~~~~GIIYc~sRk~~E~ia~~L~~~g~~a~~YHaG  263 (590)
T COG0514         209 ------------------------VVEKGEPSDQLA-FLATVLPQLSKSGIIYCLTRKKVEELAEWLRKNGISAGAYHAG  263 (590)
T ss_pred             ------------------------HHHCCCHHHHHH-HHHHHCCCCCCCEEEEEEEHHHHHHHHHHHHHCCCCEEEECCC
T ss_conf             ------------------------642564788899-9874132468972899933775999999999779725775189


Q ss_pred             CCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCC
Q ss_conf             45789999999973189869998458753578777117999628856744460137766543127-99866999824898
Q gi|254780991|r  616 VKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTIT  694 (805)
Q Consensus       616 ~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t  694 (805)
                      +...+|+.+-+.|..++++|+|+|.-...|+|-|+|-+|+.+|     .|+|.++|+|-+||||| |....+||+...-+
T Consensus       264 l~~~eR~~~q~~f~~~~~~iiVAT~AFGMGIdKpdVRfViH~~-----lP~s~EsYyQE~GRAGRDG~~a~aill~~~~D  338 (590)
T COG0514         264 LSNEERERVQQAFLNDEIKVMVATNAFGMGIDKPDVRFVIHYD-----LPGSIESYYQETGRAGRDGLPAEAILLYSPED  338 (590)
T ss_pred             CCHHHHHHHHHHHHCCCCCEEEEECCCCCCCCCCCCEEEEEEC-----CCCCHHHHHHHHHHCCCCCCCCEEEEEECCCC
T ss_conf             8899999999997169986899964624776788840799806-----99898999999713567877021788606300


Q ss_pred             HHHHHHHHHH
Q ss_conf             8999999987
Q gi|254780991|r  695 KSIQLAIDET  704 (805)
Q Consensus       695 ~~~~~ai~e~  704 (805)
                      ....+.+.+.
T Consensus       339 ~~~~~~~i~~  348 (590)
T COG0514         339 IRWQRYLIEQ  348 (590)
T ss_pred             HHHHHHHHHH
T ss_conf             7999999985


No 45 
>KOG0345 consensus
Probab=99.83  E-value=8.2e-18  Score=151.95  Aligned_cols=114  Identities=18%  Similarity=0.267  Sum_probs=91.2

Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHC--CCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCC
Q ss_conf             21246621478999999998635--9668732576457899999999731898699984587535787771179996288
Q gi|254780991|r  583 LRILLTVLTKRMAEDLTEYLYER--NIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDAD  660 (805)
Q Consensus       583 ~R~l~~~~tkr~~e~l~~~~~~~--~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD  660 (805)
                      .+.+||-.|=..++.....|+..  .+....+||.+++.+|.+++..|++-.--+|..||++|+|||||+|.+|+-+|  
T Consensus       256 kK~iVFF~TCasVeYf~~~~~~~l~~~~i~~iHGK~~q~~R~k~~~~F~~~~~~vl~~TDVaARGlDip~iD~VvQ~D--  333 (567)
T KOG0345         256 KKCIVFFPTCASVEYFGKLFSRLLKKREIFSIHGKMSQKARAKVLEAFRKLSNGVLFCTDVAARGLDIPGIDLVVQFD--  333 (567)
T ss_pred             CCEEEEECCCCHHHHHHHHHHHHHCCCCEEEECCHHCCHHHHHHHHHHHHCCCCEEEEEHHHHCCCCCCCCEEEEECC--
T ss_conf             627999347540999998888760787479862201234688999998715686188604555368988970799707--


Q ss_pred             CCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHH
Q ss_conf             56744460137766543127-998669998248988999999
Q gi|254780991|r  661 KEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAI  701 (805)
Q Consensus       661 ~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai  701 (805)
                         -|.+..+++||+||||| |+.|++|+|...........+
T Consensus       334 ---pP~~~~~FvHR~GRTaR~gr~G~Aivfl~p~E~aYveFl  372 (567)
T KOG0345         334 ---PPKDPSSFVHRCGRTARAGREGNAIVFLNPREEAYVEFL  372 (567)
T ss_pred             ---CCCCHHHHHHHCCHHHHCCCCCCEEEEECCCHHHHHHHH
T ss_conf             ---999814777741214435676634899766178889999


No 46 
>KOG0348 consensus
Probab=99.83  E-value=1e-18  Score=158.77  Aligned_cols=93  Identities=22%  Similarity=0.399  Sum_probs=80.4

Q ss_pred             CCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCC
Q ss_conf             966873257645789999999973189869998458753578777117999628856744460137766543127-9986
Q gi|254780991|r  606 NIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNS  684 (805)
Q Consensus       606 ~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G  684 (805)
                      +.+..-+||.+.|.+|..+++.|+..+--||..||++|||||+|+|++|+-|||     |.+...|+||+|||+| |.+|
T Consensus       471 ~~k~~rLHGsm~QeeRts~f~~Fs~~~~~VLLcTDVAaRGLDlP~V~~vVQYd~-----P~s~adylHRvGRTARaG~kG  545 (708)
T KOG0348         471 DLKFYRLHGSMEQEERTSVFQEFSHSRRAVLLCTDVAARGLDLPHVGLVVQYDP-----PFSTADYLHRVGRTARAGEKG  545 (708)
T ss_pred             CCEEEEECCCHHHHHHHHHHHHHCCCCCEEEEEHHHHHCCCCCCCCCEEEEECC-----CCCHHHHHHHHHHHHHCCCCC
T ss_conf             463788427434889999987530354427885034542688877676998279-----998899999840454346777


Q ss_pred             EEEEEECCCCHHHHHHHHHHHH
Q ss_conf             6999824898899999998788
Q gi|254780991|r  685 KVILYADTITKSIQLAIDETTR  706 (805)
Q Consensus       685 ~~il~ad~~t~~~~~ai~e~~r  706 (805)
                      .++||--   ++....+.....
T Consensus       546 ~alLfL~---P~Eaey~~~l~~  564 (708)
T KOG0348         546 EALLFLL---PSEAEYVNYLKK  564 (708)
T ss_pred             CEEEEEC---CCHHHHHHHHHH
T ss_conf             1578866---517999998875


No 47 
>KOG0341 consensus
Probab=99.82  E-value=1.1e-19  Score=165.99  Aligned_cols=105  Identities=25%  Similarity=0.386  Sum_probs=97.8

Q ss_pred             CCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCC
Q ss_conf             24662147899999999863596687325764578999999997318986999845875357877711799962885674
Q gi|254780991|r  585 ILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGF  664 (805)
Q Consensus       585 ~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f  664 (805)
                      +|+|+--|..++++++||--.|+.+..+|+..+|.+|...+..||.|+-||||+|++++||||||++.+|+|||     .
T Consensus       424 VLIFaEkK~DVD~IhEYLLlKGVEavaIHGGKDQedR~~ai~afr~gkKDVLVATDVASKGLDFp~iqHVINyD-----M  498 (610)
T KOG0341         424 VLIFAEKKADVDDIHEYLLLKGVEAVAIHGGKDQEDRHYAIEAFRAGKKDVLVATDVASKGLDFPDIQHVINYD-----M  498 (610)
T ss_pred             EEEEECCCCCHHHHHHHHHHCCCEEEEEECCCCHHHHHHHHHHHHCCCCCEEEEECCHHCCCCCCCCHHHCCCC-----C
T ss_conf             69984145674789999987251368741686566788899998657874588731000368974504440478-----8


Q ss_pred             CCCHHHHHHHHHHHCC-CCCCEEEEEECCCC
Q ss_conf             4460137766543127-99866999824898
Q gi|254780991|r  665 LRSKTSLIQTIGRAAR-NVNSKVILYADTIT  694 (805)
Q Consensus       665 ~~~~~~~~q~~GRagR-~~~G~~il~ad~~t  694 (805)
                      |...+.|+|+|||||| |..|-+-+|.+..+
T Consensus       499 P~eIENYVHRIGRTGRsg~~GiATTfINK~~  529 (610)
T KOG0341         499 PEEIENYVHRIGRTGRSGKTGIATTFINKNQ  529 (610)
T ss_pred             HHHHHHHHHHHCCCCCCCCCCEEEEEECCCC
T ss_conf             0889999997124677888640222114563


No 48 
>KOG0350 consensus
Probab=99.81  E-value=1.9e-18  Score=156.74  Aligned_cols=111  Identities=22%  Similarity=0.288  Sum_probs=95.6

Q ss_pred             HCCCCCCCCCHHHHHHHHHHH----HHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEE
Q ss_conf             023212466214789999999----9863596687325764578999999997318986999845875357877711799
Q gi|254780991|r  580 QQGLRILLTVLTKRMAEDLTE----YLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVA  655 (805)
Q Consensus       580 ~~~~R~l~~~~tkr~~e~l~~----~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~  655 (805)
                      .+..|++.|+...-.+..|+.    .|....+.+.+..|...+..|.+++++|+.|++.+||.+|.+|||+|+-+|+-|+
T Consensus       427 ~k~~r~lcf~~S~~sa~Rl~~~L~v~~~~~~~~~s~~t~~l~~k~r~k~l~~f~~g~i~vLIcSD~laRGiDv~~v~~VI  506 (620)
T KOG0350         427 NKLNRTLCFVNSVSSANRLAHVLKVEFCSDNFKVSEFTGQLNGKRRYKMLEKFAKGDINVLICSDALARGIDVNDVDNVI  506 (620)
T ss_pred             HHCCEEEEEECCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEHHHHHCCCCCCCCCEEE
T ss_conf             40104899952468899999999998626440255652344388999999987538952998523655477602460476


Q ss_pred             EECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCH
Q ss_conf             9628856744460137766543127-998669998248988
Q gi|254780991|r  656 ILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITK  695 (805)
Q Consensus       656 i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~  695 (805)
                      |||     .|.+.++||||+||||| |..|.++...+.-+.
T Consensus       507 NYd-----~P~~~ktyVHR~GRTARAgq~G~a~tll~~~~~  542 (620)
T KOG0350         507 NYD-----PPASDKTYVHRAGRTARAGQDGYAITLLDKHEK  542 (620)
T ss_pred             ECC-----CCCHHHHHHHHHCCCCCCCCCCEEEEEECCCCC
T ss_conf             358-----981265787760221005677447896315540


No 49 
>KOG0339 consensus
Probab=99.81  E-value=4e-18  Score=154.28  Aligned_cols=104  Identities=26%  Similarity=0.395  Sum_probs=99.1

Q ss_pred             CCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCC
Q ss_conf             12466214789999999986359668732576457899999999731898699984587535787771179996288567
Q gi|254780991|r  584 RILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEG  663 (805)
Q Consensus       584 R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~  663 (805)
                      .+|+++.-|-.+|++...|.-.++.+..+|++++|.+|.++|.+|+++...|||+|+++++|||||.+.-|+++|     
T Consensus       470 kvlifVTKk~~~e~i~a~Lklk~~~v~llhgdkdqa~rn~~ls~fKkk~~~VlvatDvaargldI~~ikTVvnyD-----  544 (731)
T KOG0339         470 KVLIFVTKKADAEEIAANLKLKGFNVSLLHGDKDQAERNEVLSKFKKKRKPVLVATDVAARGLDIPSIKTVVNYD-----  544 (731)
T ss_pred             CEEEEEECCCCHHHHHHHHCCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCEEEEEEHHHCCCCCCCCCEEECCC-----
T ss_conf             479999422789999987320563256522745667777799987624775488840765178752201023432-----


Q ss_pred             CCCCHHHHHHHHHHHCC-CCCCEEEEEECC
Q ss_conf             44460137766543127-998669998248
Q gi|254780991|r  664 FLRSKTSLIQTIGRAAR-NVNSKVILYADT  692 (805)
Q Consensus       664 f~~~~~~~~q~~GRagR-~~~G~~il~ad~  692 (805)
                      |-++.+.++|+|||+|| |.+|.++++.+.
T Consensus       545 ~ardIdththrigrtgRag~kGvayTlvTe  574 (731)
T KOG0339         545 FARDIDTHTHRIGRTGRAGEKGVAYTLVTE  574 (731)
T ss_pred             CCCHHHHHHHHHHHCCCCCCCCEEEEEECH
T ss_conf             221067788775102335556513687335


No 50 
>KOG0327 consensus
Probab=99.81  E-value=7.7e-20  Score=167.12  Aligned_cols=116  Identities=26%  Similarity=0.425  Sum_probs=104.9

Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCC
Q ss_conf             21246621478999999998635966873257645789999999973189869998458753578777117999628856
Q gi|254780991|r  583 LRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKE  662 (805)
Q Consensus       583 ~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~  662 (805)
                      ...++|..|++.+..|+..|...+..+..+|+++.+.+|.-+++.|+.|...|||.|+++|+|+|+-+|+||++||    
T Consensus       264 ~q~~if~nt~r~v~~l~~~L~~~~~~~s~i~~d~~q~~R~~~~~~f~~g~srvlIttdl~argidv~~~slvinyd----  339 (397)
T KOG0327         264 TQAVIFCNTRRKVDNLTDKLRAHGFTVSAIHGDMEQNERDTLMREFRSGSSRVLITTDLLARGIDVQQVSLVVNYD----  339 (397)
T ss_pred             HCCEEEECCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHHHHHHCCCCEEEEECCCCCCCCCHHHCCEEEEEC----
T ss_conf             3105785104567778999862773378763464300346899986458723774122124654111012256501----


Q ss_pred             CCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHHHHHHH
Q ss_conf             744460137766543127-99866999824898899999998788
Q gi|254780991|r  663 GFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAIDETTR  706 (805)
Q Consensus       663 ~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai~e~~r  706 (805)
                       .|+.-++|+|++||+|| |++|.+|.+.   +....+.+.++++
T Consensus       340 -lP~r~~~yihR~gr~gr~grkg~~in~v---~~~d~~~lk~ie~  380 (397)
T KOG0327         340 -LPARKENYIHRIGRAGRFGRKGVAINFV---TEEDVRDLKDIEK  380 (397)
T ss_pred             -CCCCHHHHHHHCCCCCCCCCCCEEEEEE---HHHHHHHHHHHHH
T ss_conf             -6520666665255456567771355520---1756888873898


No 51 
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.79  E-value=3.3e-17  Score=147.47  Aligned_cols=123  Identities=25%  Similarity=0.292  Sum_probs=106.7

Q ss_pred             CHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCC-CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHC
Q ss_conf             01688999999863023212466214789999999986359-66873257645789999999973189869998458753
Q gi|254780991|r  566 TQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERN-IRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLRE  644 (805)
Q Consensus       566 ~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~-i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~ak  644 (805)
                      .....++..|...+.+..-+||||.|..++|.|+..|...+ ......||.++..+|.++-++|++|+.+++|.|-=+..
T Consensus       237 ~~~~~~~~~i~~~v~~~~ttLIF~NTR~~aE~l~~~L~~~~~~~i~~HHgSlSre~R~~vE~~lk~G~lravV~TSSLEL  316 (814)
T COG1201         237 ELWAALYERIAELVKKHRTTLIFTNTRSGAERLAFRLKKLGPDIIEVHHGSLSRELRLEVEERLKEGELKAVVATSSLEL  316 (814)
T ss_pred             CHHHHHHHHHHHHHHHCCCEEEEEECHHHHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHHHHHCCCCEEEEECCCHHH
T ss_conf             24678999999999616858999727278999999998726875565316665778999999986688629998064220


Q ss_pred             CCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC--CCCCEEEEEECCC
Q ss_conf             578777117999628856744460137766543127--9986699982489
Q gi|254780991|r  645 GLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR--NVNSKVILYADTI  693 (805)
Q Consensus       645 GlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR--~~~G~~il~ad~~  693 (805)
                      |+|+..|.||+.+.+     |++-..++||+||+|+  +..-+.++++...
T Consensus       317 GIDiG~vdlVIq~~S-----P~sV~r~lQRiGRsgHr~~~~Skg~ii~~~r  362 (814)
T COG1201         317 GIDIGDIDLVIQLGS-----PKSVNRFLQRIGRAGHRLGEVSKGIIIAEDR  362 (814)
T ss_pred             CCCCCCCEEEEEECC-----CHHHHHHHHHCCCCCCCCCCCCCEEEEECCH
T ss_conf             502477429998179-----3888888685031466568864279981679


No 52 
>KOG4284 consensus
Probab=99.79  E-value=2.7e-18  Score=155.51  Aligned_cols=105  Identities=21%  Similarity=0.346  Sum_probs=98.8

Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCC
Q ss_conf             21246621478999999998635966873257645789999999973189869998458753578777117999628856
Q gi|254780991|r  583 LRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKE  662 (805)
Q Consensus       583 ~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~  662 (805)
                      +..|||+-..-.++-++.+|..-|+.+..+.|.+.|.+|...+.++|.-.+.|||.|++-|||+|-|+|.||+|+|+   
T Consensus       273 ~QAlVF~~~~sra~~~a~~L~ssG~d~~~ISgaM~Q~~Rl~a~~~lr~f~~rILVsTDLtaRGIDa~~vNLVVNiD~---  349 (980)
T KOG4284         273 VQALVFCDQISRAEPIATHLKSSGLDVTFISGAMSQKDRLLAVDQLRAFRVRILVSTDLTARGIDADNVNLVVNIDA---  349 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCHHHHHHHHHHHHHCEEEEEEECCHHHCCCCCCCCCEEEECCC---
T ss_conf             77776541342104788775116987177414112357889998742016899985231222678655536983587---


Q ss_pred             CCCCCHHHHHHHHHHHCC-CCCCEEEEEECC
Q ss_conf             744460137766543127-998669998248
Q gi|254780991|r  663 GFLRSKTSLIQTIGRAAR-NVNSKVILYADT  692 (805)
Q Consensus       663 ~f~~~~~~~~q~~GRagR-~~~G~~il~ad~  692 (805)
                        |.++++|.|||||||| |..|-+|+|.-.
T Consensus       350 --p~d~eTY~HRIGRAgRFG~~G~aVT~~~~  378 (980)
T KOG4284         350 --PADEETYFHRIGRAGRFGAHGAAVTLLED  378 (980)
T ss_pred             --CCCHHHHHHHHHHCCCCCCCCEEEEEECC
T ss_conf             --73067899884000014556506888606


No 53 
>PRK02362 ski2-like helicase; Provisional
Probab=99.77  E-value=1.3e-15  Score=135.57  Aligned_cols=88  Identities=23%  Similarity=0.318  Sum_probs=69.2

Q ss_pred             CCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCC----CCCCC-CCHHHHHHHHHHHCC
Q ss_conf             9668732576457899999999731898699984587535787771179996288----56744-460137766543127
Q gi|254780991|r  606 NIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDAD----KEGFL-RSKTSLIQTIGRAAR  680 (805)
Q Consensus       606 ~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD----~~~f~-~~~~~~~q~~GRagR  680 (805)
                      ...+.+.|+++...+|.-|-+.|++|.+.||++|--+|-|+.+|- ..|+|-+--    ..|+. =+...|.|.+|||||
T Consensus       303 ~~GVafHHAGL~~~~R~lVE~~Fr~g~Ikvl~aTsTLA~GVNLPA-r~VIi~~~~~~~~~~g~~~l~~~e~~QM~GRAGR  381 (736)
T PRK02362        303 RSGAAFHHAGLSREHRELVEEGFRDGLIKVISSTPTLAAGLNLPA-RRVIIRDYRRYDSGAGMQPIPVLEYHQMAGRAGR  381 (736)
T ss_pred             HCCEEEECCCCCHHHHHHHHHHHHCCCCCEEEECCHHHCCCCCCE-EEEEEECCEEECCCCCCEECCHHHHHHHHHHCCC
T ss_conf             609485159999899999999998799838972516650557852-6999804367369888336889999999852489


Q ss_pred             -CCC--CEEEEEECCCC
Q ss_conf             -998--66999824898
Q gi|254780991|r  681 -NVN--SKVILYADTIT  694 (805)
Q Consensus       681 -~~~--G~~il~ad~~t  694 (805)
                       |.+  |.+|+.+...+
T Consensus       382 pg~D~~G~aili~~~~~  398 (736)
T PRK02362        382 PRLDPYGEAVLLAKSYD  398 (736)
T ss_pred             CCCCCCCEEEEEECCHH
T ss_conf             98898862999967827


No 54 
>KOG0332 consensus
Probab=99.74  E-value=1.9e-17  Score=149.15  Aligned_cols=120  Identities=24%  Similarity=0.285  Sum_probs=104.5

Q ss_pred             CCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCC-CC
Q ss_conf             12466214789999999986359668732576457899999999731898699984587535787771179996288-56
Q gi|254780991|r  584 RILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDAD-KE  662 (805)
Q Consensus       584 R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD-~~  662 (805)
                      ...+|+-||+.|..|++.+...|..+..+||++...+|..|+.+||.|...|||.||++|||+|++.|++|+|||.- +.
T Consensus       332 qsiIFc~tk~ta~~l~~~m~~~Gh~V~~l~G~l~~~~R~~ii~~Fr~g~~kVLitTnV~ARGiDv~qVs~VvNydlP~~~  411 (477)
T KOG0332         332 QSIIFCHTKATAMWLYEEMRAEGHQVSLLHGDLTVEQRAAIIDRFREGKEKVLITTNVCARGIDVAQVSVVVNYDLPVKY  411 (477)
T ss_pred             HEEEEEEEHHHHHHHHHHHHHCCCEEEEEECCCHHHHHHHHHHHHHCCCCEEEEEECHHHCCCCCCEEEEEEECCCCCCC
T ss_conf             05899962026999999998437536785065306788999999865760699870111235653137999944776455


Q ss_pred             CCCCCHHHHHHHHHHHCC-CCCCEEEEEECC-CCHHHHHHHHH
Q ss_conf             744460137766543127-998669998248-98899999998
Q gi|254780991|r  663 GFLRSKTSLIQTIGRAAR-NVNSKVILYADT-ITKSIQLAIDE  703 (805)
Q Consensus       663 ~f~~~~~~~~q~~GRagR-~~~G~~il~ad~-~t~~~~~ai~e  703 (805)
                      +-..+.++|+|||||||| |+.|.+|-+.|. -+..+..+|.+
T Consensus       412 ~~~pD~etYlHRiGRtGRFGkkG~a~n~v~~~~s~~~mn~iq~  454 (477)
T KOG0332         412 TGEPDYETYLHRIGRTGRFGKKGLAINLVDDKDSMNIMNKIQK  454 (477)
T ss_pred             CCCCCHHHHHHHHCCCCCCCCCCEEEEEECCCCCHHHHHHHHH
T ss_conf             7898778898870234656655248986416575899999999


No 55 
>PRK01172 ski2-like helicase; Provisional
Probab=99.74  E-value=6.6e-15  Score=130.20  Aligned_cols=87  Identities=26%  Similarity=0.348  Sum_probs=69.1

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCC---CCCCC-CHHHHHHHHHHHCC-C
Q ss_conf             6687325764578999999997318986999845875357877711799962885---67444-60137766543127-9
Q gi|254780991|r  607 IRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADK---EGFLR-SKTSLIQTIGRAAR-N  681 (805)
Q Consensus       607 i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~---~~f~~-~~~~~~q~~GRagR-~  681 (805)
                      ..+.+.|+++...+|.-|-+.|++|.+.||++|.-+|-|+++|- ..|+|-+-.+   .++.. +...|.|.+||||| |
T Consensus       286 ~GVafHHaGL~~~eR~lVE~~f~~g~i~vl~aT~TLAaGVNlPA-r~VIi~~~~r~~~~~~~~l~~~e~~QM~GRAGR~g  364 (674)
T PRK01172        286 HGVAFHHAGLSNEQRRFIEEMFRNRYIKVIVATPTLAAGVNLPA-RLVIVRDITRYGNGGIRYLSNMEIKQMIGRAGRPG  364 (674)
T ss_pred             CCEEEECCCCCHHHHHHHHHHHHCCCCEEEEECCHHHHHCCCCE-EEEEEEEEEEECCCCEEECCHHHHHHHCCCCCCCC
T ss_conf             28283068999899999999998699649971446765447860-59999300781799715777898998613589999


Q ss_pred             C--CCEEEEEECCCC
Q ss_conf             9--866999824898
Q gi|254780991|r  682 V--NSKVILYADTIT  694 (805)
Q Consensus       682 ~--~G~~il~ad~~t  694 (805)
                      -  .|.+|+.+....
T Consensus       365 ~D~~G~~ii~~~~~~  379 (674)
T PRK01172        365 YDQYGIGYIYAASPA  379 (674)
T ss_pred             CCCCCCEEEEECCCH
T ss_conf             998870899972822


No 56 
>KOG0343 consensus
Probab=99.71  E-value=4e-16  Score=139.28  Aligned_cols=128  Identities=20%  Similarity=0.263  Sum_probs=106.4

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHC--CCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHH
Q ss_conf             3310168899999986302321246621478999999998635--96687325764578999999997318986999845
Q gi|254780991|r  563 SARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYER--NIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGIN  640 (805)
Q Consensus       563 ~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~--~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~  640 (805)
                      +.+..++-|..-|..-  ...+.+||.-|.+-+.-+++.|...  |+..+.+||.+.|..|.++..+|-....-||..|+
T Consensus       296 ~l~~Ki~~L~sFI~sh--lk~K~iVF~SscKqvkf~~e~F~rlrpg~~l~~L~G~~~Q~~R~ev~~~F~~~~~~vLF~TD  373 (758)
T KOG0343         296 PLEDKIDMLWSFIKSH--LKKKSIVFLSSCKQVKFLYEAFCRLRPGIPLLALHGTMSQKKRIEVYKKFVRKRAVVLFCTD  373 (758)
T ss_pred             EHHHHHHHHHHHHHHC--CCCCEEEEEEHHHHHHHHHHHHHHCCCCCCEEEECCCHHHHHHHHHHHHHHHHCCEEEEEEH
T ss_conf             6014789999999845--25436999860068999999998508998325421631377889999999875555898602


Q ss_pred             HHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHH
Q ss_conf             8753578777117999628856744460137766543127-99866999824898899999
Q gi|254780991|r  641 LLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLA  700 (805)
Q Consensus       641 ~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~a  700 (805)
                      +++||||||-|..|+-+|     -|.+..+||||+||++| +..|.++++.   +++.+.+
T Consensus       374 v~aRGLDFpaVdwViQ~D-----CPedv~tYIHRvGRtAR~~~~G~sll~L---~psEeE~  426 (758)
T KOG0343         374 VAARGLDFPAVDWVIQVD-----CPEDVDTYIHRVGRTARYKERGESLLML---TPSEEEA  426 (758)
T ss_pred             HHHCCCCCCCCCEEEEEC-----CCHHHHHHHHHHHHHHCCCCCCCEEEEE---CCHHHHH
T ss_conf             554368986433699806-----8205889998721221136778568997---6316999


No 57 
>cd00079 HELICc Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process
Probab=99.71  E-value=9e-17  Score=144.16  Aligned_cols=119  Identities=29%  Similarity=0.511  Sum_probs=113.4

Q ss_pred             CHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCC
Q ss_conf             01688999999863023212466214789999999986359668732576457899999999731898699984587535
Q gi|254780991|r  566 TQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREG  645 (805)
Q Consensus       566 ~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akG  645 (805)
                      ..++.|++-|.+....+.+++||+.++.+.+.|.++|...++.+..+|++.+..+|.+++++|++|+++|||+|++++.|
T Consensus        12 ~K~~~l~~~i~~~~~~~~kviIF~~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~R~~~~~~F~~~~~~ilv~t~~~~~G   91 (131)
T cd00079          12 EKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQEEREEVLKDFREGEIVVLVATDVIARG   91 (131)
T ss_pred             HHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHHHCEEEEEEEECCEEC
T ss_conf             99999999999999789909999788999999999995589989999899999999999999775401048875112003


Q ss_pred             CCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEE
Q ss_conf             78777117999628856744460137766543127-998669998
Q gi|254780991|r  646 LDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILY  689 (805)
Q Consensus       646 lD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~  689 (805)
                      +|+|++++|+++|     .+-|...|+|++||+|| |..|.||++
T Consensus        92 ldl~~~~~vI~~~-----~~~s~~~~~Q~~GR~~R~gq~~~~~~~  131 (131)
T cd00079          92 IDLPNVSVVINYD-----LPWSPSSYLQRIGRAGRAGQKGTAILL  131 (131)
T ss_pred             CCCCCCCEEEEEC-----CCCCHHHHHHHHHCCCCCCCCEEEEEC
T ss_conf             6610287999978-----996989999897216708996379979


No 58 
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.70  E-value=7.9e-15  Score=129.62  Aligned_cols=114  Identities=23%  Similarity=0.254  Sum_probs=94.7

Q ss_pred             HHHHHHHHHCCCCCCCCCHHHHHHHHHH----HHHHHCC----CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHH
Q ss_conf             9999986302321246621478999999----9986359----6687325764578999999997318986999845875
Q gi|254780991|r  572 YDEINLAAQQGLRILLTVLTKRMAEDLT----EYLYERN----IRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLR  643 (805)
Q Consensus       572 ~~ei~~~~~~~~R~l~~~~tkr~~e~l~----~~~~~~~----i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~a  643 (805)
                      -.-+......+.++++|+.+.+++|.+.    ..+...+    ..+.-.+++....+|.+|..+|+.|++.+++.|+.+.
T Consensus       296 ~~~~~~~~~~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~~~l~~~v~~~~~~~~~~er~~ie~~~~~g~~~~~~st~Ale  375 (851)
T COG1205         296 ATLAALLVRNGIQTLVFFRSRKQVELLYLSPRRRLVREGGKLLDAVSTYRAGLHREERRRIEAEFKEGELLGVIATNALE  375 (851)
T ss_pred             HHHHHHHHHCCCEEEEEEEHHHHHHHHHHHHHHHHHHCCCCHHHHEEECCCCCCHHHHHHHHHHHHCCCCCEEEECHHHC
T ss_conf             99999998769659999835756788754157887540601033134233669999999999997468841786121012


Q ss_pred             CCCCCCCCCEEEEECCCCCCCCC-CHHHHHHHHHHHCC-CCCCEEEEEE
Q ss_conf             35787771179996288567444-60137766543127-9986699982
Q gi|254780991|r  644 EGLDIPECGLVAILDADKEGFLR-SKTSLIQTIGRAAR-NVNSKVILYA  690 (805)
Q Consensus       644 kGlD~p~v~lV~i~dAD~~~f~~-~~~~~~q~~GRagR-~~~G~~il~a  690 (805)
                      =|+||..+.-|++.-     +|. +.-++.|++||||| +..+-++.-+
T Consensus       376 lgidiG~ldavi~~g-----~P~~s~~~~~Q~~GRaGR~~~~~l~~~v~  419 (851)
T COG1205         376 LGIDIGSLDAVIAYG-----YPGVSVLSFRQRAGRAGRRGQESLVLVVL  419 (851)
T ss_pred             CCEEECCEEEEEECC-----CCCCHHHHHHHHHCCCCCCCCCCEEEEEE
T ss_conf             265670211453048-----89702888988611035887875379983


No 59 
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.68  E-value=1.6e-13  Score=119.81  Aligned_cols=84  Identities=26%  Similarity=0.397  Sum_probs=66.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCC----C-CCCHHHHHHHHHHHCC-C
Q ss_conf             68732576457899999999731898699984587535787771179996288567----4-4460137766543127-9
Q gi|254780991|r  608 RVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEG----F-LRSKTSLIQTIGRAAR-N  681 (805)
Q Consensus       608 ~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~----f-~~~~~~~~q~~GRagR-~  681 (805)
                      .+...|..+....|.-+=..||.|.+.|||.|--+|.|...|- ..|+|-|....+    + +-+.-.+.|.+||||| |
T Consensus       316 GvafHhAGL~~~~R~~vE~~Fr~g~ikVlv~TpTLA~GVNLPA-~~VIIk~~~~y~~~~g~~~i~~~dv~QM~GRAGRPg  394 (766)
T COG1204         316 GVAFHHAGLPREDRQLVEDAFRKGKIKVLVSTPTLAAGVNLPA-RTVIIKDTRRYDPKGGIVDIPVLDVLQMAGRAGRPG  394 (766)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHCCCCEEEEECHHHHHHCCCCC-EEEEEEEEEEECCCCCEEECCHHHHHHCCCCCCCCC
T ss_conf             7541126897889999999986698549995457762168863-289991038775778847776414865567679987


Q ss_pred             CC--CEEEEEECC
Q ss_conf             98--669998248
Q gi|254780991|r  682 VN--SKVILYADT  692 (805)
Q Consensus       682 ~~--G~~il~ad~  692 (805)
                      -+  |.+++.++.
T Consensus       395 ~d~~G~~~i~~~~  407 (766)
T COG1204         395 YDDYGEAIILATS  407 (766)
T ss_pred             CCCCCCEEEEECC
T ss_conf             5777827999358


No 60 
>PRK00254 ski2-like helicase; Provisional
Probab=99.68  E-value=1e-13  Score=121.36  Aligned_cols=86  Identities=26%  Similarity=0.366  Sum_probs=68.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCC---CCCC-CCHHHHHHHHHHHCC-CC
Q ss_conf             687325764578999999997318986999845875357877711799962885---6744-460137766543127-99
Q gi|254780991|r  608 RVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADK---EGFL-RSKTSLIQTIGRAAR-NV  682 (805)
Q Consensus       608 ~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~---~~f~-~~~~~~~q~~GRagR-~~  682 (805)
                      .+.+.|+++...+|.-|-..|++|.+.||++|--+|-|+++|-- .|+|-+-..   .|+. =+...|.|.+||||| |.
T Consensus       296 GVafHHAGL~~~~R~lVE~~Fr~g~Ikvl~aTsTLA~GVNLPAr-~VIi~~~~~~~~~g~~~i~~~e~~QM~GRAGR~G~  374 (717)
T PRK00254        296 GVAFHHAGLGRDERVLVEDNFRKGLIKVVVATPTLSAGINTPAF-RVIIRDTWRYSEFGMERIPVLEIQQMMGRAGRPKY  374 (717)
T ss_pred             CHHHHCCCCCHHHHHHHHHHHHCCCCEEEEECCHHHCCCCCCCE-EEEEECCEEECCCCCEECCHHHHHHHHHHCCCCCC
T ss_conf             83121589998899999999987995899816446504577605-99992656707997237875368886250699987


Q ss_pred             C--CEEEEEECCCC
Q ss_conf             8--66999824898
Q gi|254780991|r  683 N--SKVILYADTIT  694 (805)
Q Consensus       683 ~--G~~il~ad~~t  694 (805)
                      +  |.+|+.+...+
T Consensus       375 D~~G~~iii~~~~~  388 (717)
T PRK00254        375 DEVGEAIIVSTTED  388 (717)
T ss_pred             CCCCEEEEEECCCC
T ss_conf             88850899954857


No 61 
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=99.67  E-value=1.5e-14  Score=127.48  Aligned_cols=122  Identities=20%  Similarity=0.278  Sum_probs=95.7

Q ss_pred             CCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCC
Q ss_conf             12466214789999999986359668732576457899999999731898699984587535787771179996288567
Q gi|254780991|r  584 RILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEG  663 (805)
Q Consensus       584 R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~  663 (805)
                      .++|||...|.+.+|+.+|...|+++.-.|+.+...+|..+-.+|.+++++++|.|--++-|.|||--..+.---|=-- 
T Consensus       442 QtIVFT~SRrr~h~lA~~L~~kG~~a~pYHaGL~y~eRk~vE~~F~~q~l~~VVTTAAL~AGVDFPASQVIFEsLaMG~-  520 (830)
T COG1202         442 QTIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKERKSVERAFAAQELAAVVTTAALAAGVDFPASQVIFESLAMGI-  520 (830)
T ss_pred             CEEEEECCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCHHHHHHHHHHCCC-
T ss_conf             3699942166699999886107866654437986788888999976087555764245644788751899999987104-


Q ss_pred             CCCCHHHHHHHHHHHCC-CC--CCEEEEEECCCCHHHHHHHHHHHHH
Q ss_conf             44460137766543127-99--8669998248988999999987888
Q gi|254780991|r  664 FLRSKTSLIQTIGRAAR-NV--NSKVILYADTITKSIQLAIDETTRR  707 (805)
Q Consensus       664 f~~~~~~~~q~~GRagR-~~--~G~~il~ad~~t~~~~~ai~e~~rr  707 (805)
                      -+-|.+-+-|..||||| +-  .|+|++.+. +..+....+.+|+..
T Consensus       521 ~WLs~~EF~QM~GRAGRp~yHdrGkVyllve-pg~~Y~~~m~~TEde  566 (830)
T COG1202         521 EWLSVREFQQMLGRAGRPDYHDRGKVYLLVE-PGKKYHASMEETEDE  566 (830)
T ss_pred             CCCCHHHHHHHHCCCCCCCCCCCCEEEEEEC-CCHHHCCCCCCCHHH
T ss_conf             3278999999850469987233733999955-770111121351899


No 62 
>TIGR00580 mfd transcription-repair coupling factor; InterPro: IPR004576 All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transcribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. A lesion in the template strand blocks the RNA polymerase complex (RNAP). The RNAP-DNA-RNA complex is specifically recognised by TcrF, which releases RNAP and the truncated transcript. The TcrF may replace RNAP at the lesion site and then recruit the UvrA/B/C repair system.; GO: 0003684 damaged DNA binding, 0005524 ATP binding, 0006281 DNA repair.
Probab=99.67  E-value=1.8e-17  Score=149.39  Aligned_cols=431  Identities=18%  Similarity=0.200  Sum_probs=247.3

Q ss_pred             HHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHH----HHHCCCCCCHHHHHCCC-CCCCCHHHHCCCCCCHHHHH--
Q ss_conf             431176563387754533187247831788877888----73104442002221016-66400111000010000000--
Q gi|254780991|r  312 LVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVA----WRVSMFGNDIEEISEFY-PLTGQKIRNVETIKIYANSH--  384 (805)
Q Consensus       312 l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~----~Rie~f~deIe~I~~fD-plT~~~~~~~~~~~i~Pa~~--  384 (805)
                      |+.+||+|.|.+..+|+|++||+|||||||+.+. |    +|++||||+||+|+.|| +.+|++++.+....+.|+++  
T Consensus         1 L~~~GY~r~~~V~~~GEFs~RG~I~DIfp~~~~~-PntqavRi~ff~D~iesIr~FdP~~~q~~~~~l~~~~l~Pa~e~~   79 (997)
T TIGR00580         1 LVELGYERVDLVEEEGEFSVRGDILDIFPPGSEA-PNTQAVRIEFFGDEIESIREFDPVSDQRSLEELSEITLLPAKELE   79 (997)
T ss_pred             CCCCCCCCCCCCCCCCCEEEECCCEEECCCCCCC-CCCCEEEEEEECCEEEEEECCCCHHHHHHHHHHHHHCCCCHHHCC
T ss_conf             9743211255201034335515000211577888-874368997217857660024881334346423420025301000


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCCCCHHHHHC
Q ss_conf             02563678875455899899899887544332110012444477775332112014510113331144655562023302
Q gi|254780991|r  385 YVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGEPPPTLFEY  464 (805)
Q Consensus       385 ~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~ge~P~tL~dY  464 (805)
                      .+...+...........  .   .............-|.-.....++...+.--..|++.+-+.+.    .+.+++|+||
T Consensus        80 i~~~~~~~~~~~~~~~~--~---~~~~~~~~~~~~~~L~~~~~e~l~~~~~g~~~~G~e~~lPl~~----~~G~~~L~D~  150 (997)
T TIGR00580        80 ILLEEETRARAKQNAAR--V---EDAEKTETDKAKEILAVKILEELEALKEGKKKAGLEKFLPLFF----EDGLSSLVDY  150 (997)
T ss_pred             CCCCHHHHHHHHHHHHH--H---CCCCCCCCCCHHHHHHCCCCHHHHHHHHCCCCCCHHHHCCCCE----ECCCCCCCCC
T ss_conf             36566666668778875--1---0035766411354543035235788872577442455525020----0788641102


Q ss_pred             CCCCCE----EEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCC--------CC
Q ss_conf             654421----321012344754454324565413332357665544432221110100121555454446--------86
Q gi|254780991|r  465 IPEDSL----LFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSA--------TP  532 (805)
Q Consensus       465 ~p~d~l----l~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~sa--------tP  532 (805)
                      ++++..    |++++.....+....+.+.-.    .+....|.-....++-..+|--....-++.+....        ++
T Consensus       151 ~~~~t~~~P~i~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~ehfl~~~~~~~~~l~~~~~veld~~k~~  226 (997)
T TIGR00580       151 LPDNTPEAPVILLDEPERFHEAAEELQRELE----EFYEALEEAKKLINPPSEHFLARLDLSFEELVLEVLVELDRLKTE  226 (997)
T ss_pred             CCCCCCCCCEEEECCHHHHHHHHHHHHHHHH----HHHHHHHHHHHCCCCCHHHHCCCCCCCHHHHHHHHHHHHHHHHCC
T ss_conf             3354789888996175565489999999999----999877765306787213110116773555555553223123111


Q ss_pred             CCCCCHHHHHHHHHHHHCCCCCCCCCCE---------ECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             7542013220023432012446772000---------0133101688999999863023212466214789999999986
Q gi|254780991|r  533 GSWELEQCQGIIVEQIIRPTGLVDPPVE---------IRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLY  603 (805)
Q Consensus       533 g~~e~e~~~~~~~eqi~rptg~idp~ie---------ir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~  603 (805)
                      .       ...-..++-.+...+.....         -+....-+.....++-.....|..+.+...++..++.+...|.
T Consensus       227 ~-------~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~r~~~ll~  299 (997)
T TIGR00580       227 H-------KAISLSEVQLESAILSLKASEAIELAQKHSRLEFGEILAFKEELFRWLKAGFKVVLLAESESQAERLKSLLK  299 (997)
T ss_pred             H-------HCCCHHHHHCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHHHH
T ss_conf             0-------003312332033555755034466304631024555789999999998749818999637632689999996


Q ss_pred             HCCCEEEECCCCCC--HHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCC----CCHHHHHHHHH-
Q ss_conf             35966873257645--789999999973189869998458753578777117999628856744----46013776654-
Q gi|254780991|r  604 ERNIRVRYMHSEVK--TLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFL----RSKTSLIQTIG-  676 (805)
Q Consensus       604 ~~~i~~~~~h~~~~--~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~----~~~~~~~q~~G-  676 (805)
                      +..+.+.-..--.+  ...-   ..-...+...++ -|--+..|.++|.-.||+|.+-|.=+=+    +..+.+..... 
T Consensus       300 ~~d~~~~~~~~p~~yP~~~~---~~~~~~~~~~~~-~g~~~~~gf~~~~~~la~i~~~elf~~r~~~~~~~~~~~~~~~~  375 (997)
T TIGR00580       300 EYDIAAKVIVEPLEYPALDS---SQLLIPAVVYVL-EGGELSSGFILPTAGLAVITESELFGSRVKRRPKKKRKKSKLTS  375 (997)
T ss_pred             HCCCCCCCCCCHHCCCCCCH---HHHCCHHHHHHC-CCCCCCCCEEECCCCEEEECCHHHHHHHHHCCHHHHHHHHHHHH
T ss_conf             05885311002000210023---542012455310-23201355022255478982614675554201466666543333


Q ss_pred             --HHCCC-CCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHCCC------CHHHHHH-HHHHHHHHHHHHHHHHHH
Q ss_conf             --31279-9866999824898899999998788888888768871885------3023466-777665666555555554
Q gi|254780991|r  677 --RAARN-VNSKVILYADTITKSIQLAIDETTRRREKQLEHNKKHNIN------PQSVKEK-IMEVIDPILLEDAATTNI  746 (805)
Q Consensus       677 --RagR~-~~G~~il~ad~~t~~~~~ai~e~~rrr~~q~~~n~~~~i~------p~~i~k~-i~~~~~~~~~~~~~~~~~  746 (805)
                        ..=-. ..|.-+.=.          -..+.+..++... -+-.|+.      -..-.++ +.-.+++.+.-.+.....
T Consensus       376 ~i~~~~~L~~Gd~VVH~----------~hGIG~F~~l~~~-~~~~g~~~DYL~l~Ya~~~k~LyvPve~~~li~rY~G~~  444 (997)
T TIGR00580       376 KIEDLNELKPGDYVVHK----------DHGIGKFLGLEKK-LKVLGIERDYLVLEYAGEDKKLYVPVEQLDLISRYVGGE  444 (997)
T ss_pred             HHHHHHCCCCCCEEEEC----------CCCCCEEHHHHHH-HHHCCCCCCEEEEEECCCCCEEEECCCHHHHHHHHCCCC
T ss_conf             21001037998877753----------3585021422321-442476524124440277866860331244553320678


Q ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             33334312797889999999999999999741
Q gi|254780991|r  747 SIDAQQLSLSKKKGKAHLKSLRKQMHLAADNL  778 (805)
Q Consensus       747 ~~~~~~~~~~~~~~~~~i~~l~~~m~~aa~~l  778 (805)
                      ...+....+++..|.+.-++++++.++.|.+|
T Consensus       445 ~~~p~L~kLGg~~W~~~K~kv~~~v~~iA~~L  476 (997)
T TIGR00580       445 GKNPELDKLGGKSWEKTKAKVKKSVKEIAAKL  476 (997)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             89764102783889999999999999999999


No 63 
>KOG0351 consensus
Probab=99.66  E-value=2e-14  Score=126.51  Aligned_cols=103  Identities=20%  Similarity=0.304  Sum_probs=96.8

Q ss_pred             CCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCC
Q ss_conf             46621478999999998635966873257645789999999973189869998458753578777117999628856744
Q gi|254780991|r  586 LLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFL  665 (805)
Q Consensus       586 l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~  665 (805)
                      .+.+..+++.|.++..|...|+.+...|..+...+|..+-++|-.++++|+|+|=....|+|.|+|-+|+.+.     +|
T Consensus       489 IIYC~sr~~ce~vs~~L~~~~~~a~~YHAGl~~~~R~~Vq~~w~~~~~~VivATVAFGMGIdK~DVR~ViH~~-----lP  563 (941)
T KOG0351         489 IIYCLSRKECEQVSAVLRSLGKSAAFYHAGLPPKERETVQKAWMSDKIRVIVATVAFGMGIDKPDVRFVIHYS-----LP  563 (941)
T ss_pred             EEEECCCCHHHHHHHHHHHHCHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEEEEEECCCCCCCCCEEEEEECC-----CC
T ss_conf             7996882319999999987352057552678878889999998568870899985224787778635999777-----86


Q ss_pred             CCHHHHHHHHHHHCC-CCCCEEEEEECCC
Q ss_conf             460137766543127-9986699982489
Q gi|254780991|r  666 RSKTSLIQTIGRAAR-NVNSKVILYADTI  693 (805)
Q Consensus       666 ~~~~~~~q~~GRagR-~~~G~~il~ad~~  693 (805)
                      .|.++|.|-+||||| |..-.++||++.-
T Consensus       564 ks~E~YYQE~GRAGRDG~~s~C~l~y~~~  592 (941)
T KOG0351         564 KSFEGYYQEAGRAGRDGLPSSCVLLYGYA  592 (941)
T ss_pred             HHHHHHHHHCCCCCCCCCCCEEEEECCHH
T ss_conf             14788887403367678800267742613


No 64 
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.65  E-value=6.2e-14  Score=122.89  Aligned_cols=124  Identities=24%  Similarity=0.226  Sum_probs=101.6

Q ss_pred             HHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCC---------------------------------CEEEECCCCCCH
Q ss_conf             99999863023212466214789999999986359---------------------------------668732576457
Q gi|254780991|r  572 YDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERN---------------------------------IRVRYMHSEVKT  618 (805)
Q Consensus       572 ~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~---------------------------------i~~~~~h~~~~~  618 (805)
                      ...|...+..+..++||++|.+.+|.|+..|.+.-                                 +.+...||.+++
T Consensus       234 ~~~i~~~i~~hrsTLVF~NTR~~AErl~~~L~el~~erl~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~ia~aHHGSlSk  313 (1490)
T PRK09751        234 ETGILDEVLRHRSTIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSVSK  313 (1490)
T ss_pred             HHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCH
T ss_conf             99999999726876999788799999999999999987324643221100001112222112356654334455576899


Q ss_pred             HHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC--CCCCEEEEEECCCCHH
Q ss_conf             89999999973189869998458753578777117999628856744460137766543127--9986699982489889
Q gi|254780991|r  619 LERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR--NVNSKVILYADTITKS  696 (805)
Q Consensus       619 ~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR--~~~G~~il~ad~~t~~  696 (805)
                      .+|.++-+.|+.|+..++|+|.=|-=|+||..|.+|+-+.     -|.|--+++|++||||-  |...+.++|.......
T Consensus       314 e~R~~vE~~LK~G~LraVVaTSSLELGIDiG~VDlVVQvg-----sP~sVAs~lQRvGRAGH~vg~~S~g~~~p~~r~dl  388 (1490)
T PRK09751        314 EQRAITEQALKSGELRCVVATSSLELGIDMGAVDLVIQVA-----TPLSVASGLQRIGRAGHQVGGVSKGLFFPRTRRDL  388 (1490)
T ss_pred             HHHHHHHHHHHCCCCCEEEECCCHHHCCCCCCCCEEEEEC-----CCHHHHHHHHHHCCCCCCCCCCCCEEEECCCHHHH
T ss_conf             9999999998679977899778054077644655799806-----96678899997101257889844079962877899


Q ss_pred             HHHH
Q ss_conf             9999
Q gi|254780991|r  697 IQLA  700 (805)
Q Consensus       697 ~~~a  700 (805)
                      ++-+
T Consensus       389 le~a  392 (1490)
T PRK09751        389 VDSA  392 (1490)
T ss_pred             HHHH
T ss_conf             9999


No 65 
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.64  E-value=6.1e-14  Score=122.97  Aligned_cols=123  Identities=21%  Similarity=0.205  Sum_probs=88.0

Q ss_pred             CHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC-----CCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEE
Q ss_conf             43899999999887397337998633764699999999971-----9978999316346899999999867898389986
Q gi|254780991|r  152 DQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM-----QRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFV  226 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~-----gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~  226 (805)
                      =|..||+.+.+.+.+|.+..||.=.||||||.|.+.++.++     -|-+|+||--.+|..|-++.|+.+..+..- -|.
T Consensus       420 YQ~~AI~~v~~a~~~~~rraLl~MATGTGKTrtaial~~rLlk~~~~kRILFLvDR~~L~~QA~~~F~~~~~~~~~-~~~  498 (1126)
T PRK11448        420 YQEDAIQAVEKALANGQREILLAMATGTGKTRTAIALMYRLLKAKRFKRILFLVDRRALGEQALDAFKDTKIEGNQ-TFA  498 (1126)
T ss_pred             HHHHHHHHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHCCCCCCC-CCC
T ss_conf             8999999999999809854688724888589899999999996587672579856589999999987543454566-640


Q ss_pred             ECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCC--------CCHHHHHCCEEEEE
Q ss_conf             2134444210155543210221035889999999999998549984998277896168--------98347722579994
Q gi|254780991|r  227 SYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGI--------GSVESYSQMIVQLK  298 (805)
Q Consensus       227 S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl--------~~P~~~lglIIvdE  298 (805)
                      +-|+.               +.+.             ..-...+..|+|+|.-.+++.        ..|..+-.+||+||
T Consensus       499 ~~~~v---------------~~l~-------------~~~~~~~~rv~isT~q~m~~~i~~~~~~~~~~~~~FDlIIiDE  550 (1126)
T PRK11448        499 SIYDI---------------KGLT-------------DKFPEDETKVHVATVQSMVKRILQSDDSEPPPVGQYDCIVVDE  550 (1126)
T ss_pred             HHHHH---------------HHCC-------------CCCCCCCCEEEEECHHHHHHHHHCCCCCCCCCCCCCCEEEEEC
T ss_conf             02200---------------1025-------------6787877719997307899875235767799998513798977


Q ss_pred             CCCCC
Q ss_conf             19811
Q gi|254780991|r  299 IGDSV  303 (805)
Q Consensus       299 ehd~~  303 (805)
                      .|-++
T Consensus       551 aHRgy  555 (1126)
T PRK11448        551 AHRGY  555 (1126)
T ss_pred             CCCCC
T ss_conf             87887


No 66 
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=99.62  E-value=3.4e-13  Score=117.37  Aligned_cols=327  Identities=21%  Similarity=0.179  Sum_probs=195.5

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHH----H---CCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEE
Q ss_conf             38999999998873973379986337646999999999----7---1997899931634689999999986789838998
Q gi|254780991|r  153 QPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIE----A---MQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYF  225 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~----~---~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f  225 (805)
                      |+.|...+......+. .++|...||+|||++-+...-    +   .....+.+.|=.++..+++.|++.+|+...|...
T Consensus       200 ~~~~~~~~~~~~~~~~-~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~~~~~~~~~~  278 (733)
T COG1203         200 QEKALELILRLEKRSL-LVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEIFGLFSVIGK  278 (733)
T ss_pred             HHHHHHHHHHCCCCCC-EEEEEECCCCCHHHHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf             6799999873225575-189991688871999999999975311354562899655899999999999875123554331


Q ss_pred             --EECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHH-------HHCCEEE
Q ss_conf             --6213444421015554321022103588999999999999854998499827789616898347-------7225799
Q gi|254780991|r  226 --VSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVES-------YSQMIVQ  296 (805)
Q Consensus       226 --~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~-------~lglIIv  296 (805)
                        ||....+-          +.+.+-   ......+..-+.. ...-+.+++.+-.-+.....+..       ...++|.
T Consensus       279 ~~h~~~~~~~----------~~~~~~---~~~~~~~~~ds~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~S~vIl  344 (733)
T COG1203         279 SLHSSSKEPL----------LLEPDQ---DILLTLTTNDSYK-KLLLALIVVTPIQILIFSVKGFKFEFLALLLTSLVIL  344 (733)
T ss_pred             CCCCCCHHHH----------HHCCCC---CCCEEEEECCCCC-CCCCCCEEECHHHHHHHHHCCCCCHHHHHHHHCCEEE
T ss_conf             0013102556----------517010---0225888124223-6204522206999855740466725778876467787


Q ss_pred             EECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCCHHHHHCCCCCCCCHHHHCCC
Q ss_conf             94198111787532343117656338775453318724783178887788873104442002221016664001110000
Q gi|254780991|r  297 LKIGDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEEISEFYPLTGQKIRNVET  376 (805)
Q Consensus       297 dEehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~~Rie~f~deIe~I~~fDplT~~~~~~~~~  376 (805)
                      ||.|.=       ....  .-.....++..-...+...|+-|||.+.--                               
T Consensus       345 DE~h~~-------~~~~--~~~~l~~~i~~l~~~g~~ill~SATlP~~~-------------------------------  384 (733)
T COG1203         345 DEVHLY-------ADET--MLAALLALLEALAEAGVPVLLMSATLPPFL-------------------------------  384 (733)
T ss_pred             ECHHHC-------CCCC--HHHHHHHHHHHHHHCCCCEEEEECCCCHHH-------------------------------
T ss_conf             427541-------6543--089999999999968997899927899799-------------------------------


Q ss_pred             CCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCC
Q ss_conf             10000000025636788754558998998998875443321100124444777753321120145101133311446555
Q gi|254780991|r  377 IKIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGE  456 (805)
Q Consensus       377 ~~i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~ge  456 (805)
                                             ...+..+                          +...+...  ++.++   |..   
T Consensus       385 -----------------------~~~l~~~--------------------------~~~~~~~~--~~~~~---~~~---  407 (733)
T COG1203         385 -----------------------KEKLKKA--------------------------LGKGREVV--ENAKF---CPK---  407 (733)
T ss_pred             -----------------------HHHHHHH--------------------------HCCCCEEC--CCCCC---CCC---
T ss_conf             -----------------------9999998--------------------------50376121--34432---334---


Q ss_pred             CCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCC
Q ss_conf             62023302654421321012344754454324565413332357665544432221110100121555454446867542
Q gi|254780991|r  457 PPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGSWE  536 (805)
Q Consensus       457 ~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~satPg~~e  536 (805)
                                      +++     +..        .|                               ..++        
T Consensus       408 ----------------~~e-----~~~--------~~-------------------------------~~~~--------  419 (733)
T COG1203         408 ----------------EDE-----PGL--------KR-------------------------------KERV--------  419 (733)
T ss_pred             ----------------CCC-----CCC--------CE-------------------------------ECCH--------
T ss_conf             ----------------554-----330--------00-------------------------------0011--------


Q ss_pred             CHHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCC
Q ss_conf             01322002343201244677200001331016889999998630232124662147899999999863596687325764
Q gi|254780991|r  537 LEQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEV  616 (805)
Q Consensus       537 ~e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~  616 (805)
                                      ...+.+         ..++...+......+.++++-+.|...|.++.+.+.+.+..+.-+||-.
T Consensus       420 ----------------~~~~~~---------~~~~~~~~~~~~~~~~kvlvI~NTV~~Aie~Y~~Lk~~~~~v~LlHSRf  474 (733)
T COG1203         420 ----------------DVEDGP---------QEELIELISEEVKEGKKVLVIVNTVDRAIELYEKLKEKGPKVLLLHSRF  474 (733)
T ss_pred             ----------------HHHCCC---------HHHHHHHHHHHHCCCCCEEEEEECHHHHHHHHHHHHCCCCCEEEEECCC
T ss_conf             ----------------132030---------3776655677642588289999278999999999855589579988635


Q ss_pred             CHHHHHHHHHHHH----CCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-C--CCCEEEEE
Q ss_conf             5789999999973----189869998458753578777117999628856744460137766543127-9--98669998
Q gi|254780991|r  617 KTLERIEIIRDLR----LGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-N--VNSKVILY  689 (805)
Q Consensus       617 ~~~~r~~il~~~~----~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~--~~G~~il~  689 (805)
                      ....|.++++.++    .++..|+||||++.-|+|+. +..+ |-+      ++...|||||+||-+| |  .+|.++.+
T Consensus       475 ~~~dR~~ke~~l~~~~~~~~~~IvVaTQVIEagvDid-fd~m-ITe------~aPidSLIQR~GRv~R~g~~~~~~~~v~  546 (733)
T COG1203         475 TLKDREEKERELKKLFKQNEGFIVVATQVIEAGVDID-FDVL-ITE------LAPIDSLIQRAGRVNRHGKKENGKIYVY  546 (733)
T ss_pred             CHHHHHHHHHHHHHHHHCCCCEEEEECCEEEEEECCC-CCEE-EEC------CCCHHHHHHHHHHHHHCCCCCCCCEEEE
T ss_conf             5766999999998887537862999834599886266-6846-634------7875679998777741566668716998


Q ss_pred             ECC
Q ss_conf             248
Q gi|254780991|r  690 ADT  692 (805)
Q Consensus       690 ad~  692 (805)
                      .+.
T Consensus       547 ~~~  549 (733)
T COG1203         547 NDE  549 (733)
T ss_pred             ECC
T ss_conf             346


No 67 
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family; InterPro: IPR004589   The ATP-dependent DNA helicase RecQ (3.6.1 from EC) is involved in genome maintenance . All homologues tested to date unwind paired DNA, translocating in a 3' to 5' direction and several have a preference for forked or 4-way DNA structures (e.g. Holliday junctions) or for G-quartet DNA. The yeast protein, Sgs1, is present in numerous foci that coincide with sites of de novo synthesis DNA, such as the replication fork, and protein levels peak during S-phase.    A model has been proposed for Sgs1p action in the S-phase checkpoint response, both as a 'sensor' for damage during replication and a 'resolvase' for structures that arise at paused forks, such as the four-way 'chickenfoot' structure. The action of Sgs1p may serve to maintain the proper amount and integrity of ss DNA that is necessary for the binding of RPA (replication protein A, the eukaryotic ss DNA-binding protein)DNA pol complexes. Sgs1p would thus function by detecting (or resolving) aberrant DNA structures, and would thus contribute to the full activation of the DNA-dependent protein kinase, Mec1p and the effector kinase, Rad53p. Its ability to bind both the large subunit of RPA and the RecA-like protein Rad51p, place it in a unique position to resolve inappropriate fork structures that can occur when either the leading or lagging strand synthesis is stalled. Thus, RecQ helicases integrate checkpoint activation and checkpoint response. ; GO: 0008026 ATP-dependent helicase activity, 0006310 DNA recombination.
Probab=99.62  E-value=1.1e-12  Score=113.46  Aligned_cols=328  Identities=16%  Similarity=0.181  Sum_probs=218.5

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCC
Q ss_conf             47751888888438999999998873973379986337646999999999719978999316346899999999867898
Q gi|254780991|r  141 FQMQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHN  220 (805)
Q Consensus       141 f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n  220 (805)
                      |.+ +.|.|.  |-++|+....    |.++.++.=-||-||..=|==-.==.++=+||+.|=|+|-.--+..|+. ++=.
T Consensus         7 FG~-~~Frp~--Q~e~I~~~L~----g~RD~~vvMpTG~GKSLCYQ~Pa~~~~G~t~VIsPLiSLm~DQV~~L~~-~~i~   78 (497)
T TIGR00614         7 FGL-SSFRPV--QLEVINAVLE----GRRDCLVVMPTGGGKSLCYQLPALYSDGLTLVISPLISLMEDQVLQLKA-SGIP   78 (497)
T ss_pred             CCC-CCCCHH--HHHHHHHHHC----CCCCEEEEECCCCCHHHHHHHHHHHCCCCEEEECCHHHHHHHHHHHHHH-CCCC
T ss_conf             574-445514--8999998754----8975699815898603676405675089649973636568999999874-4863


Q ss_pred             EEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHH--HCCCCEEEECCHHHHC---CCCCHH------H
Q ss_conf             3899862134444210155543210221035889999999999998--5499849982778961---689834------7
Q gi|254780991|r  221 AVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSL--LERNDCIVVSSVSCIY---GIGSVE------S  289 (805)
Q Consensus       221 ~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l--~~~~~~IVVgsrSAIf---gl~~P~------~  289 (805)
                      +- +.-                         +.+++.+-......+  ..|+-.++=-|.--|-   .++.-+      .
T Consensus        79 A~-~L~-------------------------s~~s~~~~~~v~~~~~~k~g~~kllYvtPE~~~~~~~ll~~Le~~Y~~~  132 (497)
T TIGR00614        79 AT-FLN-------------------------SSQSKEQQKEVLTDLSKKDGKLKLLYVTPEKISKSKSLLQTLEKLYERK  132 (497)
T ss_pred             EE-CCC-------------------------CCCCHHHHHHHHHHHHHHCCCEEEEEECHHHHHCCHHHHHHHHHHHHHC
T ss_conf             01-044-------------------------3257789999999987307975899716346534647899999988644


Q ss_pred             HHCCEEEEECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCCHHHHHCCCCCCCC
Q ss_conf             72257999419811178753234311765633877545331872478317888778887310444200222101666400
Q gi|254780991|r  290 YSQMIVQLKIGDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEEISEFYPLTGQ  369 (805)
Q Consensus       290 ~lglIIvdEehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~~Rie~f~deIe~I~~fDplT~~  369 (805)
                      .+-+|.|||.|=-|.+-.=+++.    |.+  +..-|..|=..+.+-=.||++...                        
T Consensus       133 ~~~~iAvDEAHCiSqWGHDFR~~----Y~~--LG~Lk~~fP~vP~~ALTATA~~~~------------------------  182 (497)
T TIGR00614       133 GITLIAVDEAHCISQWGHDFRPD----YKA--LGSLKQKFPNVPIMALTATASPSV------------------------  182 (497)
T ss_pred             CCEEEEEECEEEECCCCCCCCHH----HHH--HHHHHHHCCCCCEEEEECCCCHHH------------------------
T ss_conf             96699983215435888874079----999--657888548874364340578678------------------------


Q ss_pred             HHHHCCCCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHH
Q ss_conf             11100001000000002563678875455899899899887544332110012444477775332112014510113331
Q gi|254780991|r  370 KIRNVETIKIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYL  449 (805)
Q Consensus       370 ~~~~~~~~~i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L  449 (805)
                                                    +++....|   +                     ++.      ..-++..|
T Consensus       183 ------------------------------~~Di~~~L---~---------------------l~~------p~~~~~SF  202 (497)
T TIGR00614       183 ------------------------------REDILRIL---N---------------------LKN------PQVFITSF  202 (497)
T ss_pred             ------------------------------HHHHHHHH---C---------------------CCC------CCEEEECC
T ss_conf             ------------------------------99999872---2---------------------136------62464046


Q ss_pred             CCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCC
Q ss_conf             14465556202330265442132101234475445432456541333235766554443222111010012155545444
Q gi|254780991|r  450 TGRNPGEPPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVS  529 (805)
Q Consensus       450 ~~r~~ge~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~s  529 (805)
                            ++|++-|.=.++                           .                                  
T Consensus       203 ------dRPNl~y~v~~K---------------------------~----------------------------------  215 (497)
T TIGR00614       203 ------DRPNLYYEVRRK---------------------------T----------------------------------  215 (497)
T ss_pred             ------CCCCCEEEEECC---------------------------C----------------------------------
T ss_conf             ------687630340057---------------------------8----------------------------------


Q ss_pred             CCCCCCCCHHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHH----HHHCCCCC-CCCCHHHHHHHHHHHHHHH
Q ss_conf             686754201322002343201244677200001331016889999998----63023212-4662147899999999863
Q gi|254780991|r  530 ATPGSWELEQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINL----AAQQGLRI-LLTVLTKRMAEDLTEYLYE  604 (805)
Q Consensus       530 atPg~~e~e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~----~~~~~~R~-l~~~~tkr~~e~l~~~~~~  604 (805)
                                                      --+..-++||..-|.+    ...-.+.+ .+.+.+++..|.+|..|..
T Consensus       216 --------------------------------~n~~~~~~dl~~f~~~~~~s~~~~~G~sGIIYC~SR~~~e~~a~~L~~  263 (497)
T TIGR00614       216 --------------------------------SNTKKILEDLLRFIVKKASSAWEFKGKSGIIYCPSRKKSEQVAAELQK  263 (497)
T ss_pred             --------------------------------CCHHHHHHHHHHHHHHHCCCCCCCCCCCEEEECCCCHHHHHHHHHHHH
T ss_conf             --------------------------------970258999999987520356524588302752872348999999975


Q ss_pred             CCCEEEECCCCCCHHHHHHHHHHHH-CCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CC
Q ss_conf             5966873257645789999999973-189869998458753578777117999628856744460137766543127-99
Q gi|254780991|r  605 RNIRVRYMHSEVKTLERIEIIRDLR-LGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NV  682 (805)
Q Consensus       605 ~~i~~~~~h~~~~~~~r~~il~~~~-~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~  682 (805)
                      .||.+...|..+....|.++-++|- +.++.|+|+|=--.-|+|-|+|-.|+.++     .|++-|+|.|-+||||| |.
T Consensus       264 ~G~~a~aYHAGl~~~~R~~V~~~f~nrD~~QvVvATvAFGMGInKpdvRfViH~~-----~Pk~~EsYYQE~GRAGRDgl  338 (497)
T TIGR00614       264 LGIAAGAYHAGLEISARKEVQHKFQNRDEIQVVVATVAFGMGINKPDVRFVIHYS-----LPKSMESYYQESGRAGRDGL  338 (497)
T ss_pred             CCCEEEHHHCCCCHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCEEEEEC-----CCCCCCCCCCCCCCCCCCCC
T ss_conf             5861002402688647789999875038857999872126888763536788507-----88562110135555678973


Q ss_pred             CCEEEEEECCCCHH
Q ss_conf             86699982489889
Q gi|254780991|r  683 NSKVILYADTITKS  696 (805)
Q Consensus       683 ~G~~il~ad~~t~~  696 (805)
                      ...+++|++.-+-.
T Consensus       339 ~s~c~lfy~~aD~~  352 (497)
T TIGR00614       339 PSECVLFYAPADIA  352 (497)
T ss_pred             CCCEEEEECHHHHH
T ss_conf             20102330435699


No 68 
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=99.62  E-value=6.2e-13  Score=115.39  Aligned_cols=97  Identities=18%  Similarity=0.267  Sum_probs=70.0

Q ss_pred             HHHHHHHHHHH--HCCCCCCCCCHHHHHHHHHHHHHHHCC--CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHC
Q ss_conf             88999999863--023212466214789999999986359--66873257645789999999973189869998458753
Q gi|254780991|r  569 EDVYDEINLAA--QQGLRILLTVLTKRMAEDLTEYLYERN--IRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLRE  644 (805)
Q Consensus       569 ddl~~ei~~~~--~~~~R~l~~~~tkr~~e~l~~~~~~~~--i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~ak  644 (805)
                      .++..++.+..  ..+.|+++...+.+.++.+.++|.+.+  .....+|+.....+|+      +.++.+++|+|+.+.=
T Consensus       257 ~~~~~~~~~~~~~~~~~r~~v~~~s~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~re------k~~~~~~vVaTsaLEl  330 (357)
T TIGR03158       257 SELAEEVIERFRQLPGERGAIILDSLDEVNRLSDLLQQQGLGDDIGRITGFAPKKDRE------RAMQFDILLGTSTVDV  330 (357)
T ss_pred             HHHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHH------CCCCCCEEEECCCCEE
T ss_conf             9999999999998526717999558999999999998633641145542556188985------0489999998770103


Q ss_pred             CCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHC
Q ss_conf             57877711799962885674446013776654312
Q gi|254780991|r  645 GLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAA  679 (805)
Q Consensus       645 GlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRag  679 (805)
                      |+|| ++.+|+. +      +.+-.+++||+||+|
T Consensus       331 GIDi-~~d~~i~-~------~~~v~sl~QR~GRaG  357 (357)
T TIGR03158       331 GVDF-KRDWLIF-S------ARDAAAFWQRLGRLG  357 (357)
T ss_pred             EEEC-CCCEEEE-C------CCCHHHHHHCCCCCC
T ss_conf             5611-7898995-8------987888997266799


No 69 
>KOG0326 consensus
Probab=99.60  E-value=2e-15  Score=134.05  Aligned_cols=112  Identities=22%  Similarity=0.312  Sum_probs=98.1

Q ss_pred             CCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCC
Q ss_conf             24662147899999999863596687325764578999999997318986999845875357877711799962885674
Q gi|254780991|r  585 ILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGF  664 (805)
Q Consensus       585 ~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f  664 (805)
                      ..+|+..-..+|-|+.-..+.|+.+.|+|+.+.+..|.++..+||+|.+..||.|++++||+|++.|..|+|+|     |
T Consensus       325 sIIFCNS~~rVELLAkKITelGyscyyiHakM~Q~hRNrVFHdFr~G~crnLVctDL~TRGIDiqavNvVINFD-----f  399 (459)
T KOG0326         325 SIIFCNSTNRVELLAKKITELGYSCYYIHAKMAQEHRNRVFHDFRNGKCRNLVCTDLFTRGIDIQAVNVVINFD-----F  399 (459)
T ss_pred             EEEEECCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCEEEEEEECC-----C
T ss_conf             59996363176798988886164366778888776542455654325320124202330465541025999637-----8


Q ss_pred             CCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHH
Q ss_conf             4460137766543127-998669998248988999999
Q gi|254780991|r  665 LRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAI  701 (805)
Q Consensus       665 ~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai  701 (805)
                      |++.++|.|+|||+|| |.-|-+|.+.+-.+..+.+-|
T Consensus       400 pk~aEtYLHRIGRsGRFGhlGlAInLityedrf~L~~I  437 (459)
T KOG0326         400 PKNAETYLHRIGRSGRFGHLGLAINLITYEDRFNLYRI  437 (459)
T ss_pred             CCCHHHHHHHCCCCCCCCCCCEEEEEEEHHHHHHHHHH
T ss_conf             87778999871677657876247998750324438899


No 70 
>TIGR01389 recQ ATP-dependent DNA helicase RecQ; InterPro: IPR006293   The ATP-dependent DNA helicase RecQ (3.6.1 from EC) is involved in genome maintenance . All homologues tested to date unwind paired DNA, translocating in a 3' to 5' direction and several have a preference for forked or 4-way DNA structures (e.g. Holliday junctions) or for G-quartet DNA. The yeast protein, Sgs1, is present in numerous foci that coincide with sites of de novo synthesis DNA, such as the replication fork, and protein levels peak during S-phase.    A model has been proposed for Sgs1p action in the S-phase checkpoint response, both as a 'sensor' for damage during replication and a 'resolvase' for structures that arise at paused forks, such as the four-way 'chickenfoot' structure. The action of Sgs1p may serve to maintain the proper amount and integrity of ss DNA that is necessary for the binding of RPA (replication protein A, the eukaryotic ss DNA-binding protein)DNA pol complexes. Sgs1p would thus function by detecting (or resolving) aberrant DNA structures, and would thus contribute to the full activation of the DNA-dependent protein kinase, Mec1p and the effector kinase, Rad53p. Its ability to bind both the large subunit of RPA and the RecA-like protein Rad51p, place it in a unique position to resolve inappropriate fork structures that can occur when either the leading or lagging strand synthesis is stalled. Thus, RecQ helicases integrate checkpoint activation and checkpoint response. ; GO: 0004003 ATP-dependent DNA helicase activity, 0006310 DNA recombination, 0009432 SOS response.
Probab=99.59  E-value=3.9e-13  Score=116.89  Aligned_cols=319  Identities=17%  Similarity=0.224  Sum_probs=214.7

Q ss_pred             ECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH-CCCCEEEEECCHHHHHHHHHHHHHHCCCCEEE
Q ss_conf             18888884389999999988739733799863376469999999997-19978999316346899999999867898389
Q gi|254780991|r  145 TDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA-MQRPAIVMAPNKILAAQLYSEFKNFFPHNAVE  223 (805)
Q Consensus       145 ~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~-~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~  223 (805)
                      ++|-|-  |.+-|++|..    | +..|-.==||=||.-=| |+=+= .+-=+||++|=|+|=.--++-|+. -|=+| +
T Consensus        12 ~~FR~g--Qe~II~~vL~----g-~~~l~vmPTGGGKSlCY-Q~PALll~Glt~VISPLIsLMkDQVd~L~~-~Gv~A-a   81 (607)
T TIGR01389        12 DDFRGG--QEEIIEHVLD----G-RDVLVVMPTGGGKSLCY-QVPALLLKGLTVVISPLISLMKDQVDQLRA-AGVAA-A   81 (607)
T ss_pred             CCCCCH--HHHHHHHHHC----C-CCEEEECCCCCCHHHHH-HHHHHHHCCCEEEECCHHHHHHHHHHHHHH-CCCEE-E
T ss_conf             767731--5899999847----7-98589738998512777-217887289879984236314779999986-07014-5


Q ss_pred             EEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEE-ECC---HHHHCCCCCHHHHHCCEEEEEC
Q ss_conf             986213444421015554321022103588999999999999854998499-827---7896168983477225799941
Q gi|254780991|r  224 YFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIV-VSS---VSCIYGIGSVESYSQMIVQLKI  299 (805)
Q Consensus       224 ~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IV-Vgs---rSAIfgl~~P~~~lglIIvdEe  299 (805)
                      |.                      +|+++   ..|+.+.|.++.+|+..+. ||+   .+.=|.-..--..+.|+=+||-
T Consensus        82 ~l----------------------NSt~s---~~E~~~i~~~~~~G~~~LLYvAPERL~~~~Fl~~L~~~~i~L~AvDEA  136 (607)
T TIGR01389        82 YL----------------------NSTLS---AKEQQEIEKALVNGELKLLYVAPERLEQDYFLNMLKRLTIALLAVDEA  136 (607)
T ss_pred             EE----------------------CCCCC---HHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHCCCCEEEEEECC
T ss_conf             20----------------------37788---889999999984198157751671321189998873199308998325


Q ss_pred             CCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEE-ECCCCCHHHHHHHHCCCCCCHHHHHCCCCCCCCHHHHCCCCC
Q ss_conf             9811178753234311765633877545331872478-317888778887310444200222101666400111000010
Q gi|254780991|r  300 GDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSI-EIFPSHLEDVAWRVSMFGNDIEEISEFYPLTGQKIRNVETIK  378 (805)
Q Consensus       300 hd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~IL-dsatps~Es~~~Rie~f~deIe~I~~fDplT~~~~~~~~~~~  378 (805)
                      |=-|-|-.=++..    |.+  +....-.|-..|.++ =.||+.-++..                        +-.....
T Consensus       137 HCvSQWGHDFRPe----Y~~--L~~l~~~fp~~P~~iALTATAd~~t~~------------------------DI~~~L~  186 (607)
T TIGR01389       137 HCVSQWGHDFRPE----YRR--LGELAERFPQVPTRIALTATADAETRQ------------------------DIVELLR  186 (607)
T ss_pred             CCCCCCCCCCCHH----HHH--HHHHHHHCCCCCEEEEEECCCCHHHHH------------------------HHHHHCC
T ss_conf             0216688887565----899--999998678986699872489987899------------------------9999708


Q ss_pred             CHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCCCC
Q ss_conf             00000002563678875455899899899887544332110012444477775332112014510113331144655562
Q gi|254780991|r  379 IYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGEPP  458 (805)
Q Consensus       379 i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~ge~P  458 (805)
                      +.-+.+++++..+-+-.-.-+                                                           
T Consensus       187 L~~~~~f~~SFdRpNl~~~v~-----------------------------------------------------------  207 (607)
T TIGR01389       187 LKDANEFISSFDRPNLRFSVV-----------------------------------------------------------  207 (607)
T ss_pred             CCCCCCCCCCCCCHHHHHHHH-----------------------------------------------------------
T ss_conf             898654125677511433431-----------------------------------------------------------


Q ss_pred             HHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCH
Q ss_conf             02330265442132101234475445432456541333235766554443222111010012155545444686754201
Q gi|254780991|r  459 PTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGSWELE  538 (805)
Q Consensus       459 ~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~satPg~~e~e  538 (805)
                                                                                                      
T Consensus       208 --------------------------------------------------------------------------------  207 (607)
T TIGR01389       208 --------------------------------------------------------------------------------  207 (607)
T ss_pred             --------------------------------------------------------------------------------
T ss_conf             --------------------------------------------------------------------------------


Q ss_pred             HHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCH
Q ss_conf             32200234320124467720000133101688999999863023212466214789999999986359668732576457
Q gi|254780991|r  539 QCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKT  618 (805)
Q Consensus       539 ~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~  618 (805)
                                              ...+.-++|++.|.+... |.==.|.+.|.+.+|+|+++|...||.+...|..++.
T Consensus       208 ------------------------~k~n~~~~l~~yl~~~~~-G~SGIIYa~sR~~VE~~~~~L~s~G~~A~~YHAGL~~  262 (607)
T TIGR01389       208 ------------------------KKNNKKKFLLEYLKKHRE-GQSGIIYASSRKKVEELAERLESQGISALAYHAGLSN  262 (607)
T ss_pred             ------------------------HHCCCCHHHHHHHHCCCC-CCCEEEECCCHHHHHHHHHHHHHCCCCEEECCCCCCH
T ss_conf             ------------------------203781368999750799-9534787677045899999997479620403679877


Q ss_pred             HHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHH
Q ss_conf             89999999973189869998458753578777117999628856744460137766543127-99866999824898899
Q gi|254780991|r  619 LERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSI  697 (805)
Q Consensus       619 ~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~  697 (805)
                      ..|.+..++|-.-+..|+|+|+--..|+|-|||-+|+++|     .|+|-|||.|-+||||| |.+..+||+++.-+-..
T Consensus       263 ~~R~e~Q~~Fl~d~~~vmVAT~AFGMGIdKpnVRFViH~d-----~P~~~EsYYQE~GRAGRDGlpae~~lly~~~D~~l  337 (607)
T TIGR01389       263 KVRAENQEDFLYDDVKVMVATNAFGMGIDKPNVRFVIHAD-----MPKNIESYYQEAGRAGRDGLPAEAILLYSLADIAL  337 (607)
T ss_pred             HHHHHHHHHHHHHCCEEEEEEECCCCCCCCCCCCEEEEEC-----CCCCHHHHHCCCCCCCCCCCHHHHHHHCCHHHHHH
T ss_conf             6899997544462554888871235874787654888636-----87421113103554688752677867247778999


No 71 
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=99.58  E-value=2.2e-10  Score=96.29  Aligned_cols=128  Identities=20%  Similarity=0.215  Sum_probs=107.4

Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHH-CCCEEEECCCCCCHHHHHHHHHHHHCCC--CCEEEEHHHHH
Q ss_conf             16889999998630232124662147899999999863-5966873257645789999999973189--86999845875
Q gi|254780991|r  567 QVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYE-RNIRVRYMHSEVKTLERIEIIRDLRLGK--FDVLVGINLLR  643 (805)
Q Consensus       567 qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~-~~i~~~~~h~~~~~~~r~~il~~~~~g~--~diLvgt~~~a  643 (805)
                      .++-|++-++..  ..++++|+|..+..++.|.++|.. .|+.+..+|++++..+|++....|+..+  +.|||+|+..+
T Consensus       480 rv~~Li~~Lk~~--~~eKvLVFte~~~Ta~~L~~~Lr~~~Gi~~avfh~gms~~ERdraaa~Fa~~e~gaqVLI~TEags  557 (955)
T PRK04914        480 RVEWLIDFLKSH--RSEKVLVICAKAETALQLEQALREREGIRAAVFHEGMSIIERDRAAAYFADEEDGAQVLLCSEIGS  557 (955)
T ss_pred             HHHHHHHHHHHC--CCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCCEEEEEECCCC
T ss_conf             999999999857--798589996838999999999987559956997099998999999998617677851999725212


Q ss_pred             CCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHH
Q ss_conf             3578777117999628856744460137766543127-998669998248988999999
Q gi|254780991|r  644 EGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAI  701 (805)
Q Consensus       644 kGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai  701 (805)
                      +|++|--+.++++||     +|-++.-+-|||||--| |..-.|-+|+--..++.+..+
T Consensus       558 EG~NLQF~~~LVnyD-----LPWNP~rLEQRIGRlDRiGQ~~dV~Ihvpy~~~s~q~~l  611 (955)
T PRK04914        558 EGRNFQFASHLVLFD-----LPFNPDLLEQRIGRLDRIGQKHDIQIHVPYLEGTAQERL  611 (955)
T ss_pred             CCCCHHHHHHHEECC-----CCCCHHHHHHHHHHHHHCCCCCCEEEEEEECCCCHHHHH
T ss_conf             450377743523525-----898765889985206542786750798620289889999


No 72 
>KOG0337 consensus
Probab=99.58  E-value=6.7e-14  Score=122.67  Aligned_cols=106  Identities=24%  Similarity=0.233  Sum_probs=101.2

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCC
Q ss_conf             32124662147899999999863596687325764578999999997318986999845875357877711799962885
Q gi|254780991|r  582 GLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADK  661 (805)
Q Consensus       582 ~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~  661 (805)
                      ..++++++.|+..+|.+...|...|+...++-|++++..|..-+++|+.++..+||-|+++|+|+|||-..-|+|||   
T Consensus       261 ~~~t~vf~~tk~hve~~~~ll~~~g~~~s~iysslD~~aRk~~~~~F~~~k~~~lvvTdvaaRG~diplldnvinyd---  337 (529)
T KOG0337         261 DKQTIVFVATKHHVEYVRGLLRDFGGEGSDIYSSLDQEARKINGRDFRGRKTSILVVTDVAARGLDIPLLDNVINYD---  337 (529)
T ss_pred             CCCEEEEECCCCHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHCCCCCCCCCCCEEEEEHHHHCCCCCCCCCCCCCCC---
T ss_conf             66506983153047898878986398744111445867665042034677552599842333358876544656456---


Q ss_pred             CCCCCCHHHHHHHHHHHCC-CCCCEEEEEECC
Q ss_conf             6744460137766543127-998669998248
Q gi|254780991|r  662 EGFLRSKTSLIQTIGRAAR-NVNSKVILYADT  692 (805)
Q Consensus       662 ~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~  692 (805)
                        ||.+...++|+.||++| |..|.++.++..
T Consensus       338 --~p~~~klFvhRVgr~aragrtg~aYs~V~~  367 (529)
T KOG0337         338 --FPPDDKLFVHRVGRVARAGRTGRAYSLVAS  367 (529)
T ss_pred             --CCCCCCEEEEEECCHHHCCCCCEEEEEEEC
T ss_conf             --799875588871222214566237999722


No 73 
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.57  E-value=6.9e-13  Score=115.07  Aligned_cols=125  Identities=20%  Similarity=0.231  Sum_probs=96.9

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC-----CCCEEEEECCHHHHHHHHHHHHHHCCCCEE
Q ss_conf             888843899999999887397337998633764699999999971-----997899931634689999999986789838
Q gi|254780991|r  148 HPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM-----QRPAIVMAPNKILAAQLYSEFKNFFPHNAV  222 (805)
Q Consensus       148 ~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~-----gr~aLvLvPei~La~QL~~rfk~~Fp~n~V  222 (805)
                      .|--=|..||..+.+.+.+|.+..||-=.||+|||.|-+++|-++     -|-+|+|+--.+|--|.++.|..|+|+..+
T Consensus       165 ~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~~P~~~~  244 (875)
T COG4096         165 GPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDFLPFGTK  244 (875)
T ss_pred             CCHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCEEHHHHHHHHHHCCHHHEEEEEECHHHHHHHHHHHHHHHCCCCCC
T ss_conf             62278899999999998668744899970588852319999999996141430567612678999999999963988640


Q ss_pred             EEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCC-------CHH--HHHCC
Q ss_conf             998621344442101555432102210358899999999999985499849982778961689-------834--77225
Q gi|254780991|r  223 EYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIG-------SVE--SYSQM  293 (805)
Q Consensus       223 ~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~-------~P~--~~lgl  293 (805)
                      +-+++-....                                    +...|.|++.-+++|..       .|+  .+-.+
T Consensus       245 ~n~i~~~~~~------------------------------------~s~~i~lsTyqt~~~~~~~~~~~~~~f~~g~FDl  288 (875)
T COG4096         245 MNKIEDKKGD------------------------------------TSSEIYLSTYQTMTGRIEQKEDEYRRFGPGFFDL  288 (875)
T ss_pred             EEEECCCCCC------------------------------------CCEEEEEEEHHHHHHHHHCCCCCCCCCCCCCEEE
T ss_conf             1232014678------------------------------------6305887603778756406545655678883128


Q ss_pred             EEEEECCCCCCHHHH
Q ss_conf             799941981117875
Q gi|254780991|r  294 IVQLKIGDSVEQKEL  308 (805)
Q Consensus       294 IIvdEehd~~~~~~~  308 (805)
                      ||+||.|-+|+..+.
T Consensus       289 IvIDEaHRgi~~~~~  303 (875)
T COG4096         289 IVIDEAHRGIYSEWS  303 (875)
T ss_pred             EEECHHHHHHHHHHH
T ss_conf             996066666787667


No 74 
>TIGR01054 rgy reverse gyrase; InterPro: IPR005736   DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis , . DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA .   Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA.    Reverse gyrase is a type IA topoisomerase that is unique among these enzymes in its requirement for ATP. Reverse gyrase is a hyperthermophile-specific enzyme that acts as a renaturase by positively supercoiling DNA, and by annealing complementary single-strand circles . Hyperthermophilic organisms must protect themselves against heat-induced degradation, and reverse gyrase acts to reduce the rate of double-strand DNA breakage, a function that does not require ATP hydrolysis and which is independent of its positive supercoiling abilities. Reverse gyrase achieves this by recognising nicked DNA and recruiting a protein coat to the site of damage .   More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0006268 DNA unwinding during replication, 0005694 chromosome.
Probab=99.50  E-value=2.7e-11  Score=103.15  Aligned_cols=324  Identities=19%  Similarity=0.293  Sum_probs=191.9

Q ss_pred             HHHHHHHH-HHHHHCCCCEEEEEEECCCCHHHH---HHHHHHHC-CCCEEEEECCHHHHHHHHHHHHHHCCCCE--E---
Q ss_conf             38999999-998873973379986337646999---99999971-99789993163468999999998678983--8---
Q gi|254780991|r  153 QPAAIAQL-LKGIHSREKVQLLLGVTGSGKTFT---MAKVIEAM-QRPAIVMAPNKILAAQLYSEFKNFFPHNA--V---  222 (805)
Q Consensus       153 Q~~Ai~~L-~~~l~~g~~~qlL~GVTGSGKTev---ya~lI~~~-gr~aLvLvPei~La~QL~~rfk~~Fp~n~--V---  222 (805)
                      .|-+|++. ...+-.| +.+=..-=||-|||..   |+--.+.. |+-++|++|.-.|+.|.+++++++-.++-  +   
T Consensus        84 ~pws~Qk~WAKRv~~~-~SFai~APTGVGKttFG~~mslflA~kKGkR~y~ilPT~lLv~Qv~~kl~~~~~k~g~~~~~l  162 (1843)
T TIGR01054        84 EPWSIQKSWAKRVLKG-DSFAIVAPTGVGKTTFGLVMSLFLAKKKGKRSYIILPTTLLVKQVAEKLSSLAEKEGVGIVRL  162 (1843)
T ss_pred             CCHHHHHHHHHHHHCC-CCEEEECCCCCCHHHHHHHHHHHHHHHCCCEEEEEECHHHHHHHHHHHHHHHCCCCCCCCEEE
T ss_conf             8435679999996417-964898058876779999999998654298789994707889999999875200257500002


Q ss_pred             -EEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHH---CCCCCHHHHHCCEEEEE
Q ss_conf             -99862134444210155543210221035889999999999998549984998277896---16898347722579994
Q gi|254780991|r  223 -EYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCI---YGIGSVESYSQMIVQLK  298 (805)
Q Consensus       223 -~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAI---fgl~~P~~~lglIIvdE  298 (805)
                       .+|||.+.                         .++|-+...++.+|+-.|+|+|-.=+   |-.+.|--.-.+||||-
T Consensus       163 ~~~yhS~L~-------------------------~~~kke~~Eri~~GDfdilitT~~FL~K~~~~L~~~y~F~liFVDD  217 (1843)
T TIGR01054       163 LGAYHSKLS-------------------------TKEKKEVKERIENGDFDILITTSMFLSKNFDKLKNQYKFDLIFVDD  217 (1843)
T ss_pred             EEEEECCCC-------------------------HHHHHHHHHHHHCCCEEEEHHHHHHHHHHHHHCCCCCEEEEEEEEC
T ss_conf             221011265-------------------------4567889998731891786122468887665178985144899715


Q ss_pred             CCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCCHHHHHCCCCCCCCHHHHCCCCC
Q ss_conf             19811178753234311765633877545331872478317888778887310444200222101666400111000010
Q gi|254780991|r  299 IGDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEEISEFYPLTGQKIRNVETIK  378 (805)
Q Consensus       299 ehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~~Rie~f~deIe~I~~fDplT~~~~~~~~~~~  378 (805)
                      +.=      +      ++-.+|                      .| .-..+-+|..|+-                    
T Consensus       218 VDa------~------Lk~skN----------------------VD-~~L~LlGF~eE~i--------------------  242 (1843)
T TIGR01054       218 VDA------L------LKASKN----------------------VD-KILKLLGFSEELI--------------------  242 (1843)
T ss_pred             HHH------H------HHCCCC----------------------HH-HHHHHHCCCHHHH--------------------
T ss_conf             367------6------316555----------------------66-7775517889999--------------------


Q ss_pred             CHHHHHCCCCHHHHHHHHHHHHH---------HHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHH
Q ss_conf             00000002563678875455899---------899899--8875443321100124444777753321120145101133
Q gi|254780991|r  379 IYANSHYVTPRPTLNTAMKYIKE---------ELKMRL--IELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSR  447 (805)
Q Consensus       379 i~Pa~~~v~~~e~l~~a~~~i~~---------el~~rl--~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~  447 (805)
                                    +.|-..|..         .+..+.  .......+++|..++.++.+.....-+         +...
T Consensus       243 --------------~~a~~~i~L~~k~~k~~~~~~~~~~~~R~E~~~~~LE~~~r~~~~~a~~~~kr---------Gr~g  299 (1843)
T TIGR01054       243 --------------EKAYELIKLKLKENKLEEDLAREKIVVRLEARKKLLEAKRRLEKLEAEIKKKR---------GRKG  299 (1843)
T ss_pred             --------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC---------CCCE
T ss_conf             --------------99999999988764357788888886467888999999999898776474324---------8864


Q ss_pred             HHCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCC
Q ss_conf             31144655562023302654421321012344754454324565413332357665544432221110100121555454
Q gi|254780991|r  448 YLTGRNPGEPPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIV  527 (805)
Q Consensus       448 ~L~~r~~ge~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~  527 (805)
                      +|                      ++-       .-.+-.+|++.+              +=.-.|.|+           
T Consensus       300 ~L----------------------ivs-------SATG~prG~r~~--------------LFR~LL~Fe-----------  325 (1843)
T TIGR01054       300 VL----------------------IVS-------SATGKPRGKRVK--------------LFRELLGFE-----------  325 (1843)
T ss_pred             EE----------------------EEE-------ECCCCCCCCHHH--------------HHHHHCCCC-----------
T ss_conf             69----------------------998-------514888761336--------------536552710-----------


Q ss_pred             CCCCCCCCCCHHHHHHHHHHHHCCCCC-CCCCCEECCCCCH--HHHHHH--HHHHHHHCCCCCCCCCH-HHHHHHHHHHH
Q ss_conf             446867542013220023432012446-7720000133101--688999--99986302321246621-47899999999
Q gi|254780991|r  528 VSATPGSWELEQCQGIIVEQIIRPTGL-VDPPVEIRSARTQ--VEDVYD--EINLAAQQGLRILLTVL-TKRMAEDLTEY  601 (805)
Q Consensus       528 ~satPg~~e~e~~~~~~~eqi~rptg~-idp~ieir~~~~q--vddl~~--ei~~~~~~~~R~l~~~~-tkr~~e~l~~~  601 (805)
                                          |..+.-. +=..|.+-.....  .+.|.+  |+-+.-.+|-.|+|-+. -+-.|+++.++
T Consensus       326 --------------------vG~~~~~GLRnvvD~y~~~~d~v~E~~~~sve~v~~LG~GGlVyvs~~yG~e~a~ei~~~  385 (1843)
T TIGR01054       326 --------------------VGKGSDTGLRNVVDVYEEDEDGVKEKLLESVELVKKLGKGGLVYVSIDYGKEKAEEIKEF  385 (1843)
T ss_pred             --------------------CCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHHHH
T ss_conf             --------------------057642233213885114888446889999999998479439997122255899999999


Q ss_pred             HHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEH----HHHHCCCCCCCCCEEEEEC
Q ss_conf             86359668732576457899999999731898699984----5875357877711799962
Q gi|254780991|r  602 LYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGI----NLLREGLDIPECGLVAILD  658 (805)
Q Consensus       602 ~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt----~~~akGlD~p~v~lV~i~d  658 (805)
                      |.+.||++..+|+....    +-++.|..|++|||||+    +.|.||||+|++.==+|+-
T Consensus       386 L~~~Gv~A~~~~~~k~~----~~~~~F~~GE~dVliG~a~yyg~LVRGLDLP~rvRYAvF~  442 (1843)
T TIGR01054       386 LREHGVKAVAYHAKKPK----EDLEKFAEGEIDVLIGVASYYGVLVRGLDLPERVRYAVFL  442 (1843)
T ss_pred             HHHCCCEEEEEEECCCC----CCHHHHHCCCEEEEEEEECCCCCEEECCCCCCHHEEEEEC
T ss_conf             98579479998403773----2034663485136877101547635326661010002343


No 75 
>PRK09694 hypothetical protein; Provisional
Probab=99.47  E-value=7e-11  Score=100.03  Aligned_cols=357  Identities=13%  Similarity=0.103  Sum_probs=193.6

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC-----CCCEEEEECCHHHHHHHHHHHHH
Q ss_conf             4775188888843899999999887397337998633764699999999971-----99789993163468999999998
Q gi|254780991|r  141 FQMQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM-----QRPAIVMAPNKILAAQLYSEFKN  215 (805)
Q Consensus       141 f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~-----gr~aLvLvPei~La~QL~~rfk~  215 (805)
                      |.-.+.+-|.|.+|..+++++..+..+-.-.+|--.|||||||--+-+..++     .....+..|..+-+.+||.|+..
T Consensus       276 ~~~~~~~l~~~~~PrplQ~~~~~l~~~PgL~IiEAptG~GKTEAAL~~A~~L~~~~~~~Gl~faLPT~ATaNaMf~Rv~~  355 (878)
T PRK09694        276 YGGVHALLDNGYQPRQLQTLVDALPLAPGLTVIEAPTGSGKTETALAYAWKLIDQQLADSVIFALPTQATANAMLSRMEA  355 (878)
T ss_pred             CCCCHHHCCCCCCCCHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHH
T ss_conf             65413331789999679999984567998799975899975899999999999734898369977479889999999999


Q ss_pred             ----HCCCCEEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCC---CCEEEECCHHHHCCCCCHH
Q ss_conf             ----678983899862134444210155543210221035889999999999998549---9849982778961689834
Q gi|254780991|r  216 ----FFPHNAVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLER---NDCIVVSSVSCIYGIGSVE  288 (805)
Q Consensus       216 ----~Fp~n~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~---~~~IVVgsrSAIfgl~~P~  288 (805)
                          .|++..|.+.||...++.....++..+..-.     .++-.......|-+-.+.   -..|+|||+-=+.-...|.
T Consensus       356 ~~~~~~~~~~v~LaHg~a~l~~~~~~l~~~~~~~~-----~~~~~~~~~~~W~~~~~Kr~LLap~~VGTiDQaLla~L~~  430 (878)
T PRK09694        356 AASKLFPSPNLILAHGNSRFNHLFQSIKSRAITEQ-----GQEEAWVQCCQWLSQSNKRVFLGQIGVCTIDQVLISVLPV  430 (878)
T ss_pred             HHHHHCCCCCEEEECCHHHHHHHHHHHCCCCCCCC-----CCCCHHHHHHHHHCCCHHHHHCCCCEECCHHHHHHHHHCC
T ss_conf             99973689976974473655056665101367654-----4543015777664111022313771546799999987461


Q ss_pred             H--HH-------CCEEEEECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCCHHH
Q ss_conf             7--72-------25799941981117875323431176563387754533187247831788877888731044420022
Q gi|254780991|r  289 S--YS-------QMIVQLKIGDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEE  359 (805)
Q Consensus       289 ~--~l-------glIIvdEehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~~Rie~f~deIe~  359 (805)
                      .  ++       +.+|+||+|--   +.+..     .|-. .+-.+.+.+. ..+||=|||....-   |          
T Consensus       431 kH~~LR~~gLa~kvvIiDEVHAY---D~Ym~-----~lL~-~lL~wl~~~g-~~viLLSATLP~~~---R----------  487 (878)
T PRK09694        431 KHRFIRGLGIGRSVLIVDEVHAY---DAYMN-----GLLE-AVLKAQAQVG-GSVILLSATLPMTQ---K----------  487 (878)
T ss_pred             CHHHHHHHHHCCCEEEEECCCCC---CHHHH-----HHHH-HHHHHHHHCC-CCEEEEECCCCHHH---H----------
T ss_conf             48999999862874897253334---58899-----9999-9999999839-98899927898999---9----------


Q ss_pred             HHCCCCCCCCHHHHCCCCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             21016664001110000100000000256367887545589989989988754433211001244447777533211201
Q gi|254780991|r  360 ISEFYPLTGQKIRNVETIKIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSC  439 (805)
Q Consensus       360 I~~fDplT~~~~~~~~~~~i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~  439 (805)
                                                    +.+..+-                 +                      |..
T Consensus       488 ------------------------------~~L~~ay-----------------~----------------------~~~  498 (878)
T PRK09694        488 ------------------------------QKLLDTY-----------------G----------------------LHT  498 (878)
T ss_pred             ------------------------------HHHHHHH-----------------C----------------------CCC
T ss_conf             ------------------------------9999975-----------------5----------------------688


Q ss_pred             CCCCHHHHHHCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHH
Q ss_conf             45101133311446555620233026544213210123447544543245654133323576655444322211101001
Q gi|254780991|r  440 QSIENYSRYLTGRNPGEPPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWN  519 (805)
Q Consensus       440 ~gienyS~~L~~r~~ge~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~  519 (805)
                      .             + ..+..   -+|  .+.+.+.  ...+.+                     +.+..          
T Consensus       499 ~-------------~-~~~~~---~YP--~it~~~~--~~~~~~---------------------~~~~~----------  526 (878)
T PRK09694        499 D-------------P-VENNS---AYP--LINWRGV--NGAQRF---------------------DLLAH----------  526 (878)
T ss_pred             C-------------C-CCCCC---CCC--EEEECCC--CCCCCC---------------------CCCCC----------
T ss_conf             7-------------6-66677---886--1363155--666753---------------------44655----------


Q ss_pred             HHCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHH
Q ss_conf             21555454446867542013220023432012446772000013310168899999986302321246621478999999
Q gi|254780991|r  520 CLRPTTIVVSATPGSWELEQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLT  599 (805)
Q Consensus       520 ~~~~~~~~~satPg~~e~e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~  599 (805)
                                ..+...           ++......++..       ..-..+++++...+..|.+++|...|-..|.++.
T Consensus       527 ----------~~~~~~-----------~v~~~~~~~~~~-------~~~~~~~~~l~~~~~~G~~v~vI~NTV~rAq~~y  578 (878)
T PRK09694        527 ----------QLPPRF-----------SIQPEPICLADM-------LPDLTMLERMIAAANAGAQVCVICNLVDDAQVCY  578 (878)
T ss_pred             ----------CCCCCC-----------EEEEEEEECCCC-------CCCHHHHHHHHHHHHCCCEEEEEECCHHHHHHHH
T ss_conf             ----------567772-----------378887631444-------7648999999999978995999938899999999


Q ss_pred             HHHHHC---CCEEEECCCCCCHHHHHH----HHHHHHCC----CCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCH
Q ss_conf             998635---966873257645789999----99997318----9869998458753578777117999628856744460
Q gi|254780991|r  600 EYLYER---NIRVRYMHSEVKTLERIE----IIRDLRLG----KFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSK  668 (805)
Q Consensus       600 ~~~~~~---~i~~~~~h~~~~~~~r~~----il~~~~~g----~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~  668 (805)
                      +.|.+.   ...+.-+||--...+|.+    +++.|.++    .-.||||||++.--|||.-=.+|-        -+...
T Consensus       579 ~~L~~~~~~~~~v~L~HsRF~~~DR~~~E~~vl~~~Gk~~~r~~g~IlVaTQVvEQSLDiDfD~liT--------DLAPi  650 (878)
T PRK09694        579 QRLKELNNTQVDIDLFHARFTFNDRREKENRVISNFGKNGKRNVGRILVATQVVEQSLDLDFDWLIT--------QHCPA  650 (878)
T ss_pred             HHHHHHCCCCCCEEEEECCCCHHHHHHHHHHHHHHHCCCCCCCCCEEEEECCEEEEEECCCCCHHHC--------CCCCH
T ss_conf             9999852899877998688877669999999999868898899986999773332430335330110--------46869


Q ss_pred             HHHHHHHHHHCCCC
Q ss_conf             13776654312799
Q gi|254780991|r  669 TSLIQTIGRAARNV  682 (805)
Q Consensus       669 ~~~~q~~GRagR~~  682 (805)
                      ..|+||+||-=|+.
T Consensus       651 DlLlQR~GRLhRH~  664 (878)
T PRK09694        651 DLLFQRMGRLHRHH  664 (878)
T ss_pred             HHHHHHHHHHHCCC
T ss_conf             99998742320589


No 76 
>PRK09401 reverse gyrase; Reviewed
Probab=99.45  E-value=3.9e-10  Score=94.48  Aligned_cols=132  Identities=17%  Similarity=0.192  Sum_probs=93.4

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHH---HHHHHHHCCCCEEEEECCHHHHHHHHHHHHHH
Q ss_conf             547751888888438999999998873973379986337646999---99999971997899931634689999999986
Q gi|254780991|r  140 FFQMQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFT---MAKVIEAMQRPAIVMAPNKILAAQLYSEFKNF  216 (805)
Q Consensus       140 ~f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTev---ya~lI~~~gr~aLvLvPei~La~QL~~rfk~~  216 (805)
                      .|+=..-|.|-|=|..=.+.+..    | +.+.+.-=||.|||-.   |+--.+.-||.+++++|..+|..|.+.+++.+
T Consensus        70 fF~~~~G~~~w~~Qr~WakR~~~----g-~SFaiiAPTG~GKTtfgl~~sly~a~kgkks~~i~PT~~Lv~Q~~~kl~~~  144 (1176)
T PRK09401         70 FFKKKVGSEPWSLQRTWAKRLLL----G-ESFAIIAPTGVGKTTFGLVMALYLAKKGKKSYIIFPTRLLVEQVVEKLRKL  144 (1176)
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHC----C-CCEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHH
T ss_conf             99998689984889999999866----8-974898889988889999999999865983999968889999999999999


Q ss_pred             C---CC-CEEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCC--CHHHH
Q ss_conf             7---89-838998621344442101555432102210358899999999999985499849982778961689--83477
Q gi|254780991|r  217 F---PH-NAVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIG--SVESY  290 (805)
Q Consensus       217 F---p~-n~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~--~P~~~  290 (805)
                      -   +- -.+.+|||...                         ..++-++..++.+|+-.|.|.|-.=++.--  .|-..
T Consensus       145 ~~~~~~~~~~~~y~~~~~-------------------------~~~kee~~~~~~~gdfdIlitT~~fl~kn~~~l~~~~  199 (1176)
T PRK09401        145 AEKVGVKVRLLYYHSSLK-------------------------KKEKEEFLERLEEGDFDILVTTSQFLSKNFDELPKDR  199 (1176)
T ss_pred             HHHHCCCCEEEEEECCCC-------------------------HHHHHHHHHHHHCCCCCEEEEEHHHHHHHHHHCCCCC
T ss_conf             997099840899856776-------------------------6678999988655998689985676765487603568


Q ss_pred             HCCEEEEECCC
Q ss_conf             22579994198
Q gi|254780991|r  291 SQMIVQLKIGD  301 (805)
Q Consensus       291 lglIIvdEehd  301 (805)
                      ..+|++|.+.-
T Consensus       200 f~fifvDDVDs  210 (1176)
T PRK09401        200 FDFVFVDDVDA  210 (1176)
T ss_pred             CCEEEEECHHH
T ss_conf             88899934187


No 77 
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=99.41  E-value=6.4e-10  Score=92.84  Aligned_cols=130  Identities=19%  Similarity=0.257  Sum_probs=89.6

Q ss_pred             CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHH---HHHHHHHCCCCEEEEECCHHHHHHHHHHHHH
Q ss_conf             7547751888888438999999998873973379986337646999---9999997199789993163468999999998
Q gi|254780991|r  139 TFFQMQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFT---MAKVIEAMQRPAIVMAPNKILAAQLYSEFKN  215 (805)
Q Consensus       139 ~~f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTev---ya~lI~~~gr~aLvLvPei~La~QL~~rfk~  215 (805)
                      ..|+=..-|.|-|-|.-=.+.++.    | +.+...-=||.|||-.   |+-..+..||.+++++|..+|+.|.+.+++.
T Consensus        73 ~fF~k~~G~~~ws~QR~WakR~~r----g-~SFaiiAPTGvGKTTfg~~~sl~~a~kgkr~yii~PT~~Lv~Q~~~kl~~  147 (1187)
T COG1110          73 EFFKKATGFRPWSAQRVWAKRLVR----G-KSFAIIAPTGVGKTTFGLLMSLYLAKKGKRVYIIVPTTTLVRQVYERLKK  147 (1187)
T ss_pred             HHHHHHHCCCCHHHHHHHHHHHHC----C-CCEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHH
T ss_conf             999986389860788999999873----7-84489827887654799999999875587499996678999999999999


Q ss_pred             HCCCCE-----EEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHC---CCCCH
Q ss_conf             678983-----8998621344442101555432102210358899999999999985499849982778961---68983
Q gi|254780991|r  216 FFPHNA-----VEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIY---GIGSV  287 (805)
Q Consensus       216 ~Fp~n~-----V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIf---gl~~P  287 (805)
                      +-.+..     +. |||.+.                         .+++-++..++.+|+-.|+|+|-.=+.   -.+.+
T Consensus       148 ~~e~~~~~~~~~~-yh~~l~-------------------------~~ekee~le~i~~gdfdIlitTs~FL~k~~e~L~~  201 (1187)
T COG1110         148 FAEDAGSLDVLVV-YHSALP-------------------------TKEKEEALERIESGDFDILITTSQFLSKRFEELSK  201 (1187)
T ss_pred             HHHHCCCCCEEEE-ECCCCC-------------------------HHHHHHHHHHHHCCCCCEEEEEHHHHHHHHHHHCC
T ss_conf             8865378524665-312366-------------------------57799999998659963999747878866998404


Q ss_pred             HHHHCCEEEEECC
Q ss_conf             4772257999419
Q gi|254780991|r  288 ESYSQMIVQLKIG  300 (805)
Q Consensus       288 ~~~lglIIvdEeh  300 (805)
                       -...+|++|.+.
T Consensus       202 -~kFdfifVDDVD  213 (1187)
T COG1110         202 -LKFDFIFVDDVD  213 (1187)
T ss_pred             -CCCCEEEECCHH
T ss_conf             -577789980478


No 78 
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=99.39  E-value=1.1e-12  Score=113.47  Aligned_cols=80  Identities=43%  Similarity=0.615  Sum_probs=76.5

Q ss_pred             HHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHH
Q ss_conf             99999986359668732576457899999999731898699984587535787771179996288567444601377665
Q gi|254780991|r  596 EDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTI  675 (805)
Q Consensus       596 e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~  675 (805)
                      +.|+++|.+.|+.+..+||++++.+|.++++.|+.|+++|||+|+++++|+|+|++++|++++     .+.+...|+|++
T Consensus         1 ~~l~~~l~~~g~~~~~i~g~~~~~~R~~~~~~f~~~~~~ilv~t~~~~~Gidl~~~~~vI~~~-----~~~~~~~~~Q~~   75 (82)
T smart00490        1 EELAELLKELGIKVARLHGGLSQEEREEILEKFNNGKIKVLVATDVAERGLDLPGVDLVIIYD-----LPWSPASYIQRI   75 (82)
T ss_pred             CHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCEEEEEEEEEEEECCCCCCCEEEEEC-----CCCCHHHHHHHH
T ss_conf             978999988899199998969999999999999879971999950242114898899999978-----996989999997


Q ss_pred             HHHCC
Q ss_conf             43127
Q gi|254780991|r  676 GRAAR  680 (805)
Q Consensus       676 GRagR  680 (805)
                      ||++|
T Consensus        76 GR~~R   80 (82)
T smart00490       76 GRAGR   80 (82)
T ss_pred             CCCCC
T ss_conf             25878


No 79 
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=99.36  E-value=2.7e-09  Score=88.11  Aligned_cols=87  Identities=23%  Similarity=0.254  Sum_probs=69.4

Q ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCC-------CC------CCCCHHHH
Q ss_conf             596687325764578999999997318986999845875357877711799962885-------67------44460137
Q gi|254780991|r  605 RNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADK-------EG------FLRSKTSL  671 (805)
Q Consensus       605 ~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~-------~~------f~~~~~~~  671 (805)
                      .++...-+||.++..+..+++..-..|.-.|+++||++.-.+.||+|.+|+--.--+       .|      -+-|--|-
T Consensus       238 ~~~~i~pL~g~l~~~~Q~~~~~~~~~g~rKvIlaTnIAEtSlTI~gV~~VIDsG~~r~~~~d~~~g~~~L~~~~iSkasa  317 (812)
T PRK11664        238 SDVLLCPLYGALSLAEQQKAILPAPAGMRKVVLATNIAETSLTIEGIRLVVDSGLERVARFDPKTGLTRLETQRISQASM  317 (812)
T ss_pred             CCEEEEECCCCCCHHHHHHHHCCCCCCCEEEEEECCCHHCEEEECCEEEEEECHHHHHHEECCCCCCCEEEEEECCHHHH
T ss_conf             78089964478998898776067999953799950200020201781489740223443234357975676770454435


Q ss_pred             HHHHHHHCCCCCCEEE-EEEC
Q ss_conf             7665431279986699-9824
Q gi|254780991|r  672 IQTIGRAARNVNSKVI-LYAD  691 (805)
Q Consensus       672 ~q~~GRagR~~~G~~i-l~ad  691 (805)
                      .||+|||||-.+|.++ ||..
T Consensus       318 ~QRaGRAGR~~pG~cyRL~s~  338 (812)
T PRK11664        318 TQRAGRAGRLEPGICLHLYAK  338 (812)
T ss_pred             HCCCCCCCCCCCCEEEEEECH
T ss_conf             313676788899707873359


No 80 
>KOG0352 consensus
Probab=99.35  E-value=8.3e-10  Score=92.01  Aligned_cols=111  Identities=21%  Similarity=0.203  Sum_probs=100.0

Q ss_pred             CCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCC
Q ss_conf             46621478999999998635966873257645789999999973189869998458753578777117999628856744
Q gi|254780991|r  586 LLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFL  665 (805)
Q Consensus       586 l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~  665 (805)
                      +|.+.|..-.|.++-.+..+||.++..|..+++.+|.++-++..++++-|+++|.-...|.|-|+|.+|+..|     .+
T Consensus       259 IVYCRTR~~cEq~AI~l~~~Gi~A~AYHAGLK~~ERTeVQe~WM~~~~PvI~AT~SFGMGVDKp~VRFViHW~-----~~  333 (641)
T KOG0352         259 IVYCRTRNECEQVAIMLEIAGIPAMAYHAGLKKKERTEVQEKWMNNEIPVIAATVSFGMGVDKPDVRFVIHWS-----PS  333 (641)
T ss_pred             EEEECCHHHHHHHHHHHHHCCCCHHHHHHHCCCCHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCEEEEEECC-----HH
T ss_conf             7996028899989887532476267765001411268899998627887799960244466877615999517-----05


Q ss_pred             CCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHH
Q ss_conf             460137766543127-998669998248988999999
Q gi|254780991|r  666 RSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAI  701 (805)
Q Consensus       666 ~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai  701 (805)
                      ++--.|.|-.||||| |...-+-||+.+.+..-.+.+
T Consensus       334 qn~AgYYQESGRAGRDGk~SyCRLYYsR~D~~~i~FL  370 (641)
T KOG0352         334 QNLAGYYQESGRAGRDGKRSYCRLYYSRQDKNALNFL  370 (641)
T ss_pred             HHHHHHHHHCCCCCCCCCCCCEEEEECCCCHHHHHHH
T ss_conf             6578998861535667772520133321405777799


No 81 
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.32  E-value=3.6e-08  Score=79.74  Aligned_cols=125  Identities=18%  Similarity=0.167  Sum_probs=79.9

Q ss_pred             CHHHHHHHHHHHHHH-CCCCCCCCCHHHHHHHHHHHHHH----HCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHH
Q ss_conf             016889999998630-23212466214789999999986----3596687325764578999999997318986999845
Q gi|254780991|r  566 TQVEDVYDEINLAAQ-QGLRILLTVLTKRMAEDLTEYLY----ERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGIN  640 (805)
Q Consensus       566 ~qvddl~~ei~~~~~-~~~R~l~~~~tkr~~e~l~~~~~----~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~  640 (805)
                      ...+.+.+.|...+. .+.++||.-...++-+.+.+.+.    ..++....-  +++...|.++++.|+.++--||+||+
T Consensus       739 ~~~~~la~~i~~l~~~~~G~~LVLFtS~~~L~~v~~~l~~~~~~~~~~ll~Q--g~~~~sr~~ll~~F~~~~~svLlGt~  816 (932)
T PRK08074        739 EYIEEVAAYIAKIAKATKGRMLVLFTSYEMLKKTYYNLKNEEELEGYVLLAQ--GVTGGSRARLMKKFQQFDKAILLGTS  816 (932)
T ss_pred             HHHHHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHHHCCCCCCEEEEE--CCCCCCHHHHHHHHHHCCCEEEEECC
T ss_conf             9999999999999987299999992659999999999864333579559987--89875099999999847984999656


Q ss_pred             HHHCCCCCCCCC--EEEEECCC--CCCCCC--------------CH---------HHHHHHHHHHCCCC--CCEEEEEEC
Q ss_conf             875357877711--79996288--567444--------------60---------13776654312799--866999824
Q gi|254780991|r  641 LLREGLDIPECG--LVAILDAD--KEGFLR--------------SK---------TSLIQTIGRAARNV--NSKVILYAD  691 (805)
Q Consensus       641 ~~akGlD~p~v~--lV~i~dAD--~~~f~~--------------~~---------~~~~q~~GRagR~~--~G~~il~ad  691 (805)
                      -..+|+|+|+-.  +|+|.---  .|+-|-              .+         --+.|-+||-=|..  .|.+++.=.
T Consensus       817 SFwEGVDlpGd~L~~ViI~kLPF~~P~dP~~~ar~e~l~~~G~n~F~~~~LP~AvlrlkQg~GRLIRs~~DrGvvvilD~  896 (932)
T PRK08074        817 SFWEGIDIPGDELSCLVIVRLPFAPPDQPVMEAKSEWAKKQGENPFQKLSLPQAVLRFKQGFGRLIRTETDRGTVFVLDR  896 (932)
T ss_pred             CCCCCCCCCCCCEEEEEEEECCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEECC
T ss_conf             64356227998868999980899988989999999999982899535625999999999961026478987699999877


Q ss_pred             C
Q ss_conf             8
Q gi|254780991|r  692 T  692 (805)
Q Consensus       692 ~  692 (805)
                      +
T Consensus       897 R  897 (932)
T PRK08074        897 R  897 (932)
T ss_pred             C
T ss_conf             6


No 82 
>pfam00271 Helicase_C Helicase conserved C-terminal domain. The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.
Probab=99.32  E-value=3.4e-12  Score=109.90  Aligned_cols=75  Identities=37%  Similarity=0.569  Sum_probs=71.9

Q ss_pred             HHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC
Q ss_conf             98635966873257645789999999973189869998458753578777117999628856744460137766543127
Q gi|254780991|r  601 YLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR  680 (805)
Q Consensus       601 ~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR  680 (805)
                      +|...|+++..+||+++..+|.+++++|++|+++|||+|+++++|+|+|++++|+++|     .+.+...|+|++||++|
T Consensus         2 ~l~~~g~~~~~i~g~~~~~~R~~~~~~f~~~~~~ilv~t~~~~~Gid~~~~~~vi~~~-----~~~s~~~~~Q~~GR~~R   76 (78)
T pfam00271         2 LLRKPGIKVARLHGGLSQEEREEILEDFRNGKSKVLVATDVAGRGIDLPDVNVVINYD-----LPWNPASYIQRIGRAGR   76 (78)
T ss_pred             CHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCCEEEEEC-----CCCCHHHHHHHHCCCCC
T ss_conf             4556898599986979999999999999879973999925652567787899999978-----99698999999726877


No 83 
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.31  E-value=6.8e-11  Score=100.11  Aligned_cols=153  Identities=18%  Similarity=0.093  Sum_probs=106.6

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC-----CCCEEEEECCHHHHHHHHHHHHHHCCCC
Q ss_conf             88888843899999999887397337998633764699999999971-----9978999316346899999999867898
Q gi|254780991|r  146 DYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM-----QRPAIVMAPNKILAAQLYSEFKNFFPHN  220 (805)
Q Consensus       146 ~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~-----gr~aLvLvPei~La~QL~~rfk~~Fp~n  220 (805)
                      .+.|...|.+|+..+.++.    +..++.+-||||||++++..+.+.     +.++||++|.++|+.|.+.+|..+|++.
T Consensus         6 ~~~~~~~Q~~~~~~~~~~~----~~~~i~~~tGsGKT~~~~~~~~~~~~~~~~~~~li~~P~~~l~~q~~~~~~~~~~~~   81 (201)
T smart00487        6 FEPLRPYQKEAIEALLSGL----RDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLGPSL   81 (201)
T ss_pred             CCCCCHHHHHHHHHHHCCC----CCEEEECCCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCHHHHHHHHHHHHHCCCCC
T ss_conf             9999988999999998389----988998999960999999999998633899759999085999999998860102102


Q ss_pred             E---EEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCC----CHHHHHCC
Q ss_conf             3---8998621344442101555432102210358899999999999985499849982778961689----83477225
Q gi|254780991|r  221 A---VEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIG----SVESYSQM  293 (805)
Q Consensus       221 ~---V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~----~P~~~lgl  293 (805)
                      .   +.++.+.                             .+...|..+.++...|+|+|...+....    .-....++
T Consensus        82 ~~~~~~~~~~~-----------------------------~~~~~~~~~~~~~~~i~i~t~~~l~~~~~~~~~~~~~~~~  132 (201)
T smart00487       82 GLKVVGLYGGD-----------------------------SKREQLRKLESGKTDILVTTPGRLLDLLENDLLELSNVDL  132 (201)
T ss_pred             EEEEEEEECCC-----------------------------CHHHHHHHHHCCCCCEEEECHHHHHHHHHHCCCCCCCCEE
T ss_conf             04455652477-----------------------------3799999997599989995589999999727545254319


Q ss_pred             EEEEECCCCCCHHHHHHHHHHCCCCCCHHHHHHHH--HCCCCEEEECCCCCH
Q ss_conf             79994198111787532343117656338775453--318724783178887
Q gi|254780991|r  294 IVQLKIGDSVEQKELLSSLVKQQYKRQDIGIIRGT--FRVCGDSIEIFPSHL  343 (805)
Q Consensus       294 IIvdEehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~--f~~rg~ILdsatps~  343 (805)
                      +|+||.|.-.+.            .+......-..  ....-.+.=+|||..
T Consensus       133 vIiDE~H~~~~~------------~~~~~~~~~~~~~~~~~~~i~lSAT~~~  172 (201)
T smart00487      133 VILDEAHRLLDG------------GFGDQLEKLLKLLPKNVQLLLLSATPPE  172 (201)
T ss_pred             EEEECHHHHHCC------------CCHHHHHHHHHHCCCCCCEEEECCCCCH
T ss_conf             999896775125------------7099999999967999978999248986


No 84 
>KOG0952 consensus
Probab=99.29  E-value=8.7e-10  Score=91.85  Aligned_cols=120  Identities=23%  Similarity=0.343  Sum_probs=80.7

Q ss_pred             HHHHHHHHHCCCCCCCCCHHHH----HHHHHHHHHHHCCCEEEECCCC-------------------CCHHHHHHHHHHH
Q ss_conf             9999986302321246621478----9999999986359668732576-------------------4578999999997
Q gi|254780991|r  572 YDEINLAAQQGLRILLTVLTKR----MAEDLTEYLYERNIRVRYMHSE-------------------VKTLERIEIIRDL  628 (805)
Q Consensus       572 ~~ei~~~~~~~~R~l~~~~tkr----~~e~l~~~~~~~~i~~~~~h~~-------------------~~~~~r~~il~~~  628 (805)
                      .+++.+....|..++||+-+..    .|..|.+.....|....-.++.                   +-...|.-.-+.|
T Consensus       339 ~~kv~e~~~~g~qVlvFvhsR~~Ti~tA~~l~~~a~~~g~~~~f~~~~~~k~l~elf~~g~~iHhAGm~r~DR~l~E~~F  418 (1230)
T KOG0952         339 YDKVVEFLQEGHQVLVFVHSRNETIRTAKKLRERAETNGEKDLFLPSPRNKQLKELFQQGMGIHHAGMLRSDRQLVEKEF  418 (1230)
T ss_pred             HHHHHHHHHCCCEEEEEEECCHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
T ss_conf             99999999749859999965748999999999998862865656788366789999874010202564314689999998


Q ss_pred             HCCCCCEEEEHHHHHCCCCCCCCCEEEEECCC-----CCCCCCC-HHHHHHHHHHHCC-C--CCCEEEEEECC
Q ss_conf             31898699984587535787771179996288-----5674446-0137766543127-9--98669998248
Q gi|254780991|r  629 RLGKFDVLVGINLLREGLDIPECGLVAILDAD-----KEGFLRS-KTSLIQTIGRAAR-N--VNSKVILYADT  692 (805)
Q Consensus       629 ~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD-----~~~f~~~-~~~~~q~~GRagR-~--~~G~~il~ad~  692 (805)
                      ..|.+.||+.|--+|=|..+|-- +|+|-.-+     +.+|--- --.-+|..||||| .  ..|.+|+-++.
T Consensus       419 ~~G~i~vL~cTaTLAwGVNLPA~-aViIKGT~~ydsskg~f~dlgilDVlQifGRAGRPqFd~~G~giIiTt~  490 (1230)
T KOG0952         419 KEGHIKVLCCTATLAWGVNLPAY-AVIIKGTQVYDSSKGSFVDLGILDVLQIFGRAGRPQFDSSGEGIIITTR  490 (1230)
T ss_pred             HCCCCEEEEECCEEEECCCCCCE-EEEECCCCCCCCCCCCEEEEHHHHHHHHHHCCCCCCCCCCCEEEEEECC
T ss_conf             55982289961213312577641-8986487411356684354028888998720689987777628999665


No 85 
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=99.28  E-value=1.7e-08  Score=82.19  Aligned_cols=144  Identities=16%  Similarity=0.166  Sum_probs=90.7

Q ss_pred             HHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC--CCCEEEEECC------HHHHHHHHHHHHHHCCCCEEEEEEECC
Q ss_conf             99999887397337998633764699999999971--9978999316------346899999999867898389986213
Q gi|254780991|r  158 AQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM--QRPAIVMAPN------KILAAQLYSEFKNFFPHNAVEYFVSYY  229 (805)
Q Consensus       158 ~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~--gr~aLvLvPe------i~La~QL~~rfk~~Fp~n~V~~f~S~~  229 (805)
                      ++|.+.|+++ +..++-|=||||||-=.-+.+-+.  |....|.+-.      +++|.....++..-.|+ .|.|-|-+-
T Consensus        80 ~~i~~~i~~n-qVvii~GeTGsGKTTQiPq~~le~g~g~~~~I~~TQPRRiAA~svA~RVA~E~~~~lG~-~VGY~VRf~  157 (1295)
T PRK11131         80 QDILEAIRDH-QVVIVAGETGSGKTTQLPKICLELGRGIKGLIGHTQPRRLAARTVANRIAEELETELGG-CVGYKVRFN  157 (1295)
T ss_pred             HHHHHHHHHC-CEEEEECCCCCCHHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHHHHHHHHHCCCCCC-EEEEEECCC
T ss_conf             9999999979-96999768999878899999996279999989977965999999999999981999899-888894569


Q ss_pred             CCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCC--CCCH-HHHHCCEEEEECCCCCCHH
Q ss_conf             444421015554321022103588999999999999854998499827789616--8983-4772257999419811178
Q gi|254780991|r  230 DYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYG--IGSV-ESYSQMIVQLKIGDSVEQK  306 (805)
Q Consensus       230 ~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfg--l~~P-~~~lglIIvdEehd~~~~~  306 (805)
                      |...+                                   +..|..-|--.+..  ...| +.....||+||.||.+-..
T Consensus       158 ~~~s~-----------------------------------~t~i~~~TdGiLL~e~~~d~~L~~y~~iIiDEaHERsl~~  202 (1295)
T PRK11131        158 DQVSD-----------------------------------NTMVKLMTDGILLAEIQQDRLLMQYDTIIIDEAHERSLNI  202 (1295)
T ss_pred             CCCCC-----------------------------------CCEEEEECCHHHHHHHHHCCCCCCCCEEEEECCCCCCCHH
T ss_conf             88799-----------------------------------9779997656999986209987887779986855688019


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHH
Q ss_conf             75323431176563387754533187247831788877888
Q gi|254780991|r  307 ELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVA  347 (805)
Q Consensus       307 ~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~  347 (805)
                      ++     -++|-+. +...|   ..--+|+-|||...|.+.
T Consensus       203 D~-----LLg~Lk~-ll~~R---~dLKvIimSATid~e~fs  234 (1295)
T PRK11131        203 DF-----ILGYLKE-LLPRR---PDLKVIITSATIDPERFS  234 (1295)
T ss_pred             HH-----HHHHHHH-HHHHC---CCCEEEEECCCCCHHHHH
T ss_conf             99-----9999999-98339---998899955868979999


No 86 
>KOG0387 consensus
Probab=99.27  E-value=8.1e-08  Score=77.10  Aligned_cols=432  Identities=17%  Similarity=0.140  Sum_probs=243.8

Q ss_pred             CHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHH------HCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEE
Q ss_conf             438999999998873973379986337646999999999------71997899931634689999999986789838998
Q gi|254780991|r  152 DQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIE------AMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYF  225 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~------~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f  225 (805)
                      -|++-++=|.+--.++ .-=.|--=-|=|||--.+.-++      .+-+||||+.| .++-+|-..+|..++|.-+|.++
T Consensus       209 yQreGV~WL~~L~~q~-~GGILgDeMGLGKTIQiisFLaaL~~S~k~~~paLIVCP-~Tii~qW~~E~~~w~p~~rv~il  286 (923)
T KOG0387         209 YQREGVQWLWELYCQR-AGGILGDEMGLGKTIQIISFLAALHHSGKLTKPALIVCP-ATIIHQWMKEFQTWWPPFRVFIL  286 (923)
T ss_pred             HHHHHHHHHHHHHHCC-CCCEECCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECC-HHHHHHHHHHHHHHCCCEEEEEE
T ss_conf             8898899999997325-787620123576401589999987502432586599824-88999999999874765379997


Q ss_pred             EECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCC----CEEEECCHHHHCCCCCHHHH--HCCEEEEEC
Q ss_conf             621344442101555432102210358899999999999985499----84998277896168983477--225799941
Q gi|254780991|r  226 VSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERN----DCIVVSSVSCIYGIGSVESY--SQMIVQLKI  299 (805)
Q Consensus       226 ~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~----~~IVVgsrSAIfgl~~P~~~--lglIIvdEe  299 (805)
                      |+.-++...++|.          +++          -|-.++.+.    .-|.|.|-+-++-.+.++..  -+..|.||-
T Consensus       287 h~t~s~~r~~~~~----------~~~----------~~~~~L~r~~~~~~~ilitty~~~r~~~d~l~~~~W~y~ILDEG  346 (923)
T KOG0387         287 HGTGSGARYDASH----------SSH----------KKDKLLIRKVATDGGILITTYDGFRIQGDDLLGILWDYVILDEG  346 (923)
T ss_pred             ECCCCCCCCCCCH----------HHH----------HHHHHHEEEECCCCCEEEEEHHHHCCCCCCCCCCCCCEEEECCC
T ss_conf             1477654444310----------134----------43122203530468479974224200475234650347982376


Q ss_pred             CCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCCHHHHHCCCCCCCCHHHHCCCCCC
Q ss_conf             98111787532343117656338775453318724783178887788873104442002221016664001110000100
Q gi|254780991|r  300 GDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEEISEFYPLTGQKIRNVETIKI  379 (805)
Q Consensus       300 hd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~~Rie~f~deIe~I~~fDplT~~~~~~~~~~~i  379 (805)
                      |--             +-.-..+...--++.-..-|+=+-||-.    +++.=+....+-+.   |-...++..+..-+.
T Consensus       347 H~I-------------rNpns~islackki~T~~RiILSGTPiQ----NnL~ELwsLfDFv~---PG~Lgt~~~F~~~f~  406 (923)
T KOG0387         347 HRI-------------RNPNSKISLACKKIRTVHRIILSGTPIQ----NNLTELWSLFDFVF---PGKLGTLPVFQQNFE  406 (923)
T ss_pred             CCC-------------CCCCCHHHHHHHHCCCCCEEEEECCCCC----CHHHHHHHHHHHCC---CCCCCCHHHHHHHHH
T ss_conf             504-------------6985089999986156664886186210----10899987766406---774455177876301


Q ss_pred             HH---HHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHCCCCCC----CCHHH
Q ss_conf             00---000025636788754558998998998875443321100124444777753------321120145----10113
Q gi|254780991|r  380 YA---NSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEM------LETTGSCQS----IENYS  446 (805)
Q Consensus       380 ~P---a~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~------l~e~G~~~g----ienyS  446 (805)
                      .|   ......+......|-.-..            ..+....-.+.+|+..+.-+      -+.+.||.-    ++-|-
T Consensus       407 ~pI~~GgyaNAs~~qv~~aykca~------------~Lr~lI~PylLRR~K~dv~~~~Lp~K~E~VlfC~LT~~QR~~Y~  474 (923)
T KOG0387         407 HPINRGGYANASPRQVQTAYKCAV------------ALRDLISPYLLRRMKSDVKGLKLPKKEEIVLFCRLTKLQRRLYQ  474 (923)
T ss_pred             HHEECCCCCCCCHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEECCHHHHHHHH
T ss_conf             110035657898799999999999------------99987679999999988644217886525899856699999999


Q ss_pred             HHHCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCC
Q ss_conf             33114465556202330265442132101234475445432456541333235766554443222111010012155545
Q gi|254780991|r  447 RYLTGRNPGEPPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTI  526 (805)
Q Consensus       447 ~~L~~r~~ge~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~  526 (805)
                      .++...    ...++++--+                 .             +-+|...-...||+|..+..-.+..++  
T Consensus       475 ~fl~s~----~v~~i~ng~~-----------------~-------------~l~Gi~iLrkICnHPdll~~~~~~~~~--  518 (923)
T KOG0387         475 RFLNSS----EVNKILNGKR-----------------N-------------CLSGIDILRKICNHPDLLDRRDEDEKQ--  518 (923)
T ss_pred             HHHHHH----HHHHHHCCCC-----------------C-------------CEECHHHHHHHCCCCCCCCCCCCCCCC--
T ss_conf             986059----8999974984-----------------4-------------121518888645894102676421235--


Q ss_pred             CCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHH-HC
Q ss_conf             44468675420132200234320124467720000133101688999999863023212466214789999999986-35
Q gi|254780991|r  527 VVSATPGSWELEQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLY-ER  605 (805)
Q Consensus       527 ~~satPg~~e~e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~-~~  605 (805)
                          .|-.                   -.+|     .-.+.+.-+..-+..+...|.|++.|+-|.+|-+-|-.+|. ..
T Consensus       519 ----~~D~-------------------~g~~-----k~sGKm~vl~~ll~~W~kqg~rvllFsqs~~mLdilE~fL~~~~  570 (923)
T KOG0387         519 ----GPDY-------------------EGDP-----KRSGKMKVLAKLLKDWKKQGDRVLLFSQSRQMLDILESFLRRAK  570 (923)
T ss_pred             ----CCCC-------------------CCCH-----HHCCHHHHHHHHHHHHHHCCCEEEEEHHHHHHHHHHHHHHHHCC
T ss_conf             ----8876-------------------7895-----65216999999999986179779984137799999999987347


Q ss_pred             CCEEEECCCCCCHHHHHHHHHHHHCCCC-C-EEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CC
Q ss_conf             9668732576457899999999731898-6-9998458753578777117999628856744460137766543127-99
Q gi|254780991|r  606 NIRVRYMHSEVKTLERIEIIRDLRLGKF-D-VLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NV  682 (805)
Q Consensus       606 ~i~~~~~h~~~~~~~r~~il~~~~~g~~-d-iLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~  682 (805)
                      |+...-|||......|..++.+|..++. + .|+.|.+=.=|+.+-.-.-|+|+|.|=     ++.+=.|.--||=| |.
T Consensus       571 ~ysylRmDGtT~~~~R~~lVd~Fne~~s~~VFLLTTrvGGLGlNLTgAnRVIIfDPdW-----NPStD~QAreRawRiGQ  645 (923)
T KOG0387         571 GYSYLRMDGTTPAALRQKLVDRFNEDESIFVFLLTTRVGGLGLNLTGANRVIIFDPDW-----NPSTDNQARERAWRIGQ  645 (923)
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCCCEEEEECCCC-----CCCCCHHHHHHHHHHCC
T ss_conf             8538971588862010578986367874579999730355411245675589979999-----97642578888886357


Q ss_pred             CCEEEEEECCCCHHHHHHHHHHHHHHHH
Q ss_conf             8669998248988999999987888888
Q gi|254780991|r  683 NSKVILYADTITKSIQLAIDETTRRREK  710 (805)
Q Consensus       683 ~G~~il~ad~~t~~~~~ai~e~~rrr~~  710 (805)
                      .-.|+.| ..+|..   .|+|--+.|.+
T Consensus       646 kkdV~VY-RL~t~g---TIEEkiY~rQI  669 (923)
T KOG0387         646 KKDVVVY-RLMTAG---TIEEKIYHRQI  669 (923)
T ss_pred             CCCEEEE-EEECCC---CHHHHHHHHHH
T ss_conf             4655999-973277---18999999999


No 87 
>KOG0951 consensus
Probab=99.21  E-value=1.4e-08  Score=82.72  Aligned_cols=94  Identities=23%  Similarity=0.358  Sum_probs=70.7

Q ss_pred             HHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEE----EECCCCCCC-CCCHHH
Q ss_conf             999999863596687325764578999999997318986999845875357877711799----962885674-446013
Q gi|254780991|r  596 EDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVA----ILDADKEGF-LRSKTS  670 (805)
Q Consensus       596 e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~----i~dAD~~~f-~~~~~~  670 (805)
                      .+|.+.||   +...-.|.+++..+|.-.-+-|+.|+++|||-|--+|.|...|.-|..+    ++|+++.-. ..+...
T Consensus       600 ~dLkdLLp---ygfaIHhAGl~R~dR~~~EdLf~~g~iqvlvstatlawgvnlpahtViikgtqvy~pekg~w~elsp~d  676 (1674)
T KOG0951         600 PDLKDLLP---YGFAIHHAGLNRKDRELVEDLFADGHIQVLVSTATLAWGVNLPAHTVIIKGTQVYDPEKGRWTELSPLD  676 (1674)
T ss_pred             HHHHHHHH---CCCEEECCCCCCCHHHHHHHHHHCCCEEEEEEEHHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCHHH
T ss_conf             30787731---351331167786237789998744862688750245642477762689607621583457666278799


Q ss_pred             HHHHHHHHCC-CCC--CEEEEEECC
Q ss_conf             7766543127-998--669998248
Q gi|254780991|r  671 LIQTIGRAAR-NVN--SKVILYADT  692 (805)
Q Consensus       671 ~~q~~GRagR-~~~--G~~il~ad~  692 (805)
                      .+|..||||| .-+  |..|+-++.
T Consensus       677 v~qmlgragrp~~D~~gegiiit~~  701 (1674)
T KOG0951         677 VMQMLGRAGRPQYDTCGEGIIITDH  701 (1674)
T ss_pred             HHHHHHHCCCCCCCCCCCEEECCCC
T ss_conf             9999754489764767864550470


No 88 
>KOG0349 consensus
Probab=99.20  E-value=6.5e-11  Score=100.30  Aligned_cols=113  Identities=18%  Similarity=0.260  Sum_probs=100.2

Q ss_pred             HHHHCCCCCCCCCHHHHHHHHHHHHHHHCC---CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCE
Q ss_conf             863023212466214789999999986359---66873257645789999999973189869998458753578777117
Q gi|254780991|r  577 LAAQQGLRILLTVLTKRMAEDLTEYLYERN---IRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGL  653 (805)
Q Consensus       577 ~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~---i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~l  653 (805)
                      .+..+..+..+++.||...++|-++|...|   +.+.-+|+|++..+|.+-|+.|+++.+..||-|+++|+||||.++.+
T Consensus       500 i~~h~mdkaiifcrtk~dcDnLer~~~qkgg~~~scvclhgDrkP~Erk~nle~Fkk~dvkflictdvaargldi~g~p~  579 (725)
T KOG0349         500 IRRHAMDKAIIFCRTKQDCDNLERMMNQKGGKHYSCVCLHGDRKPDERKANLESFKKFDVKFLICTDVAARGLDITGLPF  579 (725)
T ss_pred             HHHHCCCCEEEEEECCCCCHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHHHCCEEEEEEEHHHHCCCCCCCCCE
T ss_conf             55534674599970356616799999872786403688824788267788787665257279997104435665427725


Q ss_pred             EEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCC
Q ss_conf             999628856744460137766543127-99866999824898
Q gi|254780991|r  654 VAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTIT  694 (805)
Q Consensus       654 V~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t  694 (805)
                      ++|+-     +|-+.+.|+|+|||.|| .+-|-+|..+..+-
T Consensus       580 ~invt-----lpd~k~nyvhrigrvgraermglaislvat~~  616 (725)
T KOG0349         580 MINVT-----LPDDKTNYVHRIGRVGRAERMGLAISLVATVP  616 (725)
T ss_pred             EEEEE-----CCCCCCHHHHHHHCCCHHHHCCEEEEEEECCC
T ss_conf             99985-----58654115456402014544050477764165


No 89 
>KOG0353 consensus
Probab=99.16  E-value=1.9e-08  Score=81.76  Aligned_cols=146  Identities=16%  Similarity=0.215  Sum_probs=114.1

Q ss_pred             CCHHHHHHHHHHHHHHC---CCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHH
Q ss_conf             10168899999986302---321246621478999999998635966873257645789999999973189869998458
Q gi|254780991|r  565 RTQVEDVYDEINLAAQQ---GLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINL  641 (805)
Q Consensus       565 ~~qvddl~~ei~~~~~~---~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~  641 (805)
                      -+..||.+++|.+.+..   |+--++.+..++..|.++..|.+.||.+-..|..+....+.-.-+..-.|++.|+|+|--
T Consensus       297 p~n~dd~~edi~k~i~~~f~gqsgiiyc~sq~d~ekva~alkn~gi~a~~yha~lep~dks~~hq~w~a~eiqvivatva  376 (695)
T KOG0353         297 PGNEDDCIEDIAKLIKGDFAGQSGIIYCFSQKDCEKVAKALKNHGIHAGAYHANLEPEDKSGAHQGWIAGEIQVIVATVA  376 (695)
T ss_pred             CCCHHHHHHHHHHHHCCCCCCCCCEEEEECCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEE
T ss_conf             99757789999998544437876569995346589999999855835221405568534454000330460689999864


Q ss_pred             HHCCCCCCCCCEEEEECCCCCCCCCCHHHHHH-------------------------------------------HHHHH
Q ss_conf             75357877711799962885674446013776-------------------------------------------65431
Q gi|254780991|r  642 LREGLDIPECGLVAILDADKEGFLRSKTSLIQ-------------------------------------------TIGRA  678 (805)
Q Consensus       642 ~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q-------------------------------------------~~GRa  678 (805)
                      ...|+|-|+|.+|+.-.     ++.|.+.|.|                                           -.|||
T Consensus       377 fgmgidkpdvrfvihhs-----l~ksienyyqasarillrmtkqknksdtggstqinilevctnfkiffavfsekesgra  451 (695)
T KOG0353         377 FGMGIDKPDVRFVIHHS-----LPKSIENYYQASARILLRMTKQKNKSDTGGSTQINILEVCTNFKIFFAVFSEKESGRA  451 (695)
T ss_pred             ECCCCCCCCEEEEEECC-----CCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEHHHHHCCCEEEEEEECCHHCCCC
T ss_conf             02567888716999536-----6166899998878999987652255567875300043340131012222031102555


Q ss_pred             CC-CCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             27-998669998248988999999987888888887688
Q gi|254780991|r  679 AR-NVNSKVILYADTITKSIQLAIDETTRRREKQLEHNK  716 (805)
Q Consensus       679 gR-~~~G~~il~ad~~t~~~~~ai~e~~rrr~~q~~~n~  716 (805)
                      || +.+..+|||+..-+-.-+..|-..+ +..+|..|+.
T Consensus       452 grd~~~a~cilyy~~~difk~ssmv~~e-~~g~q~ly~m  489 (695)
T KOG0353         452 GRDDMKADCILYYGFADIFKISSMVQME-NTGIQKLYEM  489 (695)
T ss_pred             CCCCCCCCEEEEECHHHHHHHHHHHHHH-HHHHHHHHHH
T ss_conf             6688866479984247787677788788-6658999999


No 90 
>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=99.15  E-value=5.2e-10  Score=93.49  Aligned_cols=133  Identities=20%  Similarity=0.151  Sum_probs=91.9

Q ss_pred             EEEEEEECCCCHHHHHHHHHHH-----CCCCEEEEECCHHHHHHHHHHHHHHCCC-CEEEEEEECCCCCCCCCCCCCCCC
Q ss_conf             3799863376469999999997-----1997899931634689999999986789-838998621344442101555432
Q gi|254780991|r  170 VQLLLGVTGSGKTFTMAKVIEA-----MQRPAIVMAPNKILAAQLYSEFKNFFPH-NAVEYFVSYYDYYQPEAYVPRTDT  243 (805)
Q Consensus       170 ~qlL~GVTGSGKTevya~lI~~-----~gr~aLvLvPei~La~QL~~rfk~~Fp~-n~V~~f~S~~~~yqpEay~p~~d~  243 (805)
                      ..++.+-||||||++|+-.+-+     .++.+||++|...|+.|++++|+.+++. ..|.++++..+..           
T Consensus         2 ~~lv~~ptGsGKT~~~~~~~~~~~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~-----------   70 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGEGIKVGYLIGGTSIK-----------   70 (144)
T ss_pred             CEEEECCCCCHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHHCCCCCEEEEEECCCCHH-----------
T ss_conf             999988997179999999999999756897699974679999999999999748871799996136367-----------


Q ss_pred             CHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCC----CHHHHHCCEEEEECCCCCCHHHHHHHHHHCCCCC
Q ss_conf             102210358899999999999985499849982778961689----8347722579994198111787532343117656
Q gi|254780991|r  244 YIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIG----SVESYSQMIVQLKIGDSVEQKELLSSLVKQQYKR  319 (805)
Q Consensus       244 ~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~----~P~~~lglIIvdEehd~~~~~~~~~~l~~~~Y~R  319 (805)
                                        .+.....+...|+|+|...+....    ....+.+++|+||.|.-.+..          |..
T Consensus        71 ------------------~~~~~~~~~~~ilv~T~~~l~~~~~~~~~~~~~~~~vViDEaH~~~~~~----------~~~  122 (144)
T cd00046          71 ------------------QQEKLLSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQG----------FGL  122 (144)
T ss_pred             ------------------HHHHHHCCCCCEEECCHHHHHHHHHCCCCCCCCCCEEEEECHHHHHCCC----------CHH
T ss_conf             ------------------7898745898499828899999997387655510099998888764379----------699


Q ss_pred             CHHHHHHHHHCCCCEEEECCCC
Q ss_conf             3387754533187247831788
Q gi|254780991|r  320 QDIGIIRGTFRVCGDSIEIFPS  341 (805)
Q Consensus       320 ~D~a~~RG~f~~rg~ILdsatp  341 (805)
                      .-..........+..++=||||
T Consensus       123 ~~~~~~~~~~~~~~~l~lSATp  144 (144)
T cd00046         123 LGLKILLKLPKDRQVLLLSATP  144 (144)
T ss_pred             HHHHHHHHCCCCCCEEEECCCC
T ss_conf             9999999679999489982899


No 91 
>KOG0948 consensus
Probab=99.15  E-value=1.4e-08  Score=82.86  Aligned_cols=115  Identities=23%  Similarity=0.288  Sum_probs=79.5

Q ss_pred             CCEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC---CCCEEEEECCHHHHHHHHHHHHH
Q ss_conf             754775188888843899999999887397337998633764699999999971---99789993163468999999998
Q gi|254780991|r  139 TFFQMQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM---QRPAIVMAPNKILAAQLYSEFKN  215 (805)
Q Consensus       139 ~~f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~---gr~aLvLvPei~La~QL~~rfk~  215 (805)
                      -||.|..=      |..||.-|    +++ ...|.-.-|.+|||.|--=+|+..   ..-+++-.|=++|..|-|.+|.+
T Consensus       126 YPF~LDpF------Q~~aI~Ci----dr~-eSVLVSAHTSAGKTVVAeYAIA~sLr~kQRVIYTSPIKALSNQKYREl~~  194 (1041)
T KOG0948         126 YPFTLDPF------QSTAIKCI----DRG-ESVLVSAHTSAGKTVVAEYAIAMSLREKQRVIYTSPIKALSNQKYRELLE  194 (1041)
T ss_pred             CCCCCCCH------HHHHHHHH----CCC-CEEEEEEECCCCCCHHHHHHHHHHHHHCCEEEEECHHHHHCCHHHHHHHH
T ss_conf             88434806------76545311----279-63899840578852379999999987648589607315541154899998


Q ss_pred             HCCCCEEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECC---HHHHCCCCCHHHHHC
Q ss_conf             67898389986213444421015554321022103588999999999999854998499827---789616898347722
Q gi|254780991|r  216 FFPHNAVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSS---VSCIYGIGSVESYSQ  292 (805)
Q Consensus       216 ~Fp~n~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgs---rSAIfgl~~P~~~lg  292 (805)
                      -|+|  |.+.-.                    |..||+               .-.+.|..|   ||-+|.-.-...-.+
T Consensus       195 EF~D--VGLMTG--------------------DVTInP---------------~ASCLVMTTEILRsMLYRGSEvmrEVa  237 (1041)
T KOG0948         195 EFKD--VGLMTG--------------------DVTINP---------------DASCLVMTTEILRSMLYRGSEVMREVA  237 (1041)
T ss_pred             HHCC--CCEEEC--------------------CEEECC---------------CCCEEEEHHHHHHHHHHCCCHHHHEEE
T ss_conf             8463--652305--------------------446689---------------875453379999998743316755231


Q ss_pred             CEEEEECCC
Q ss_conf             579994198
Q gi|254780991|r  293 MIVQLKIGD  301 (805)
Q Consensus       293 lIIvdEehd  301 (805)
                      ++|.||.|=
T Consensus       238 WVIFDEIHY  246 (1041)
T KOG0948         238 WVIFDEIHY  246 (1041)
T ss_pred             EEEEEEEHH
T ss_conf             488620010


No 92 
>KOG0947 consensus
Probab=99.11  E-value=2.1e-08  Score=81.43  Aligned_cols=404  Identities=18%  Similarity=0.199  Sum_probs=186.7

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHH---HCCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             751888888438999999998873973379986337646999999999---71997899931634689999999986789
Q gi|254780991|r  143 MQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIE---AMQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       143 l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~---~~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      +.-+|+|--=|.+||-.|..    |. ....---|.||||.|-=-+|+   ..+..+++-+|=++|..|=+.+||+-|+|
T Consensus       292 ~~~pFelD~FQk~Ai~~ler----g~-SVFVAAHTSAGKTvVAEYAialaq~h~TR~iYTSPIKALSNQKfRDFk~tF~D  366 (1248)
T KOG0947         292 LIYPFELDTFQKEAIYHLER----GD-SVFVAAHTSAGKTVVAEYAIALAQKHMTRTIYTSPIKALSNQKFRDFKETFGD  366 (1248)
T ss_pred             HHCCCCCCHHHHHHHHHHHC----CC-EEEEEECCCCCCCHHHHHHHHHHHHHCCCEEECCHHHHHCCCHHHHHHHHCCC
T ss_conf             61887766789999999972----78-17997137788436999999998863551575263465400157888774266


Q ss_pred             CEEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECC----HHHHCCCCCHHHHHCCEE
Q ss_conf             8389986213444421015554321022103588999999999999854998499827----789616898347722579
Q gi|254780991|r  220 NAVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSS----VSCIYGIGSVESYSQMIV  295 (805)
Q Consensus       220 n~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgs----rSAIfgl~~P~~~lglII  295 (805)
                      --  +                    +--|.++|.                ++.++|=|    ||-+|.-..-...+..+|
T Consensus       367 vg--L--------------------lTGDvqinP----------------eAsCLIMTTEILRsMLYrgadliRDvE~VI  408 (1248)
T KOG0947         367 VG--L--------------------LTGDVQINP----------------EASCLIMTTEILRSMLYRGADLIRDVEFVI  408 (1248)
T ss_pred             CC--E--------------------EECCEEECC----------------CCCEEEEHHHHHHHHHHCCCCHHHCCCEEE
T ss_conf             65--4--------------------514433277----------------754676569999998751554321133698


Q ss_pred             EEECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCC-C-HH--HHHHHHCCCCCCHHHHHCCCCCCCCHH
Q ss_conf             9941981117875323431176563387754533187247831788-8-77--888731044420022210166640011
Q gi|254780991|r  296 QLKIGDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPS-H-LE--DVAWRVSMFGNDIEEISEFYPLTGQKI  371 (805)
Q Consensus       296 vdEehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatp-s-~E--s~~~Rie~f~deIe~I~~fDplT~~~~  371 (805)
                      .||+|=-.+.        ..|.-=.++.++--  +..-.|+=|||- . .|  +|--|+.  +..|--|     .|.+  
T Consensus       409 FDEVHYiND~--------eRGvVWEEViIMlP--~HV~~IlLSATVPN~~EFA~WIGRtK--~K~IyVi-----ST~k--  469 (1248)
T KOG0947         409 FDEVHYINDV--------ERGVVWEEVIIMLP--RHVNFILLSATVPNTLEFADWIGRTK--QKTIYVI-----STSK--  469 (1248)
T ss_pred             EEEEEECCCC--------CCCCCCEEEEEECC--CCCEEEEEECCCCCHHHHHHHHHHCC--CCEEEEE-----ECCC--
T ss_conf             7403541441--------35622101225325--54159998465798188888750404--8538997-----1478--


Q ss_pred             HHCCCCCCHHHHHCCCCHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHH-H--HHHHHHHHHHHCCCCCCCCH
Q ss_conf             100001000000002563678875455----8998998998875443321100124-4--44777753321120145101
Q gi|254780991|r  372 RNVETIKIYANSHYVTPRPTLNTAMKY----IKEELKMRLIELEKEGRLLEAQRLE-Q--RITYDLEMLETTGSCQSIEN  444 (805)
Q Consensus       372 ~~~~~~~i~Pa~~~v~~~e~l~~a~~~----i~~el~~rl~~~~~~~~~~ea~rL~-q--R~~~dle~l~e~G~~~gien  444 (805)
                            ...|-.||......+-..+.+    +......--..+.+..+......-. +  |+.+.  ......+-.|   
T Consensus       470 ------RPVPLEh~l~t~~~l~kiidq~g~fl~~~~~~a~~~~~~~ak~~~~~~~~~~~~rgs~~--~ggk~~~~~g---  538 (1248)
T KOG0947         470 ------RPVPLEHYLYTKKSLFKIIDQNGIFLLKGIKDAKDSLKKEAKFVDVEKSDARGGRGSQK--RGGKTNYHNG---  538 (1248)
T ss_pred             ------CCCCEEEEEEECCCEEHHHCCCCHHHHHCCHHHHHHHCCCCCCCCCCCCCCCCCCCCCC--CCCCCCCCCC---
T ss_conf             ------86430789986663100015441435530101111222444433132544546665546--6776788888---


Q ss_pred             HHHH-HCCCCCCCC--CHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHH
Q ss_conf             1333-114465556--2023302654421321012344754454324565413332357665544432221110100121
Q gi|254780991|r  445 YSRY-LTGRNPGEP--PPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCL  521 (805)
Q Consensus       445 yS~~-L~~r~~ge~--P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~  521 (805)
                      +|++ -.+..-+.+  -..++.|+.+.         ..+|-+.-|+    +||                           
T Consensus       539 ~~r~~~~~~nrr~~~~~l~lin~L~k~---------~lLP~VvFvF----Skk---------------------------  578 (1248)
T KOG0947         539 GSRGSGIGKNRRKQPTWLDLINHLRKK---------NLLPVVVFVF----SKK---------------------------  578 (1248)
T ss_pred             CCCCCCCCCCCCCCCHHHHHHHHHHHC---------CCCCEEEEEE----CCC---------------------------
T ss_conf             766666543234444099999998522---------4676699997----356---------------------------


Q ss_pred             CCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             55545444686754201322002343201244677200001331016889999998630232124662147899999999
Q gi|254780991|r  522 RPTTIVVSATPGSWELEQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEY  601 (805)
Q Consensus       522 ~~~~~~~satPg~~e~e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~  601 (805)
                                    .|+.     .-|..+.+.+.+.     .-..+|.-.++....+-....|-|--+++.  .+     
T Consensus       579 --------------rCde-----~a~~L~~~nL~~~-----~EKseV~lfl~k~~~rLk~~DR~LPQvl~m--~~-----  627 (1248)
T KOG0947         579 --------------RCDE-----YADYLTNLNLTDS-----KEKSEVHLFLSKAVARLKGEDRNLPQVLSM--RS-----  627 (1248)
T ss_pred             --------------CHHH-----HHHHHHCCCCCCC-----HHHHHHHHHHHHHHHHCCHHHCCCHHHHHH--HH-----
T ss_conf             --------------5789-----9999755576652-----127899999999998668543143377889--99-----


Q ss_pred             HHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEEC--CCCCCCCC-CHHHHHHHHHHH
Q ss_conf             863596687325764578999999997318986999845875357877711799962--88567444-601377665431
Q gi|254780991|r  602 LYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILD--ADKEGFLR-SKTSLIQTIGRA  678 (805)
Q Consensus       602 ~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~d--AD~~~f~~-~~~~~~q~~GRa  678 (805)
                      +-.+||.+  .|+.+=..-.+-|---|..|-+.||.+|--.|.|+..|-=|.|.---  -|-..|+. ..--|+|.+|||
T Consensus       628 ll~RGiaV--HH~GlLPivKE~VE~LFqrGlVKVLFATETFAMGVNMPARtvVF~Sl~KhDG~efR~L~PGEytQMAGRA  705 (1248)
T KOG0947         628 LLLRGIAV--HHGGLLPIVKEVVELLFQRGLVKVLFATETFAMGVNMPARTVVFSSLRKHDGNEFRELLPGEYTQMAGRA  705 (1248)
T ss_pred             HHHHCCHH--HCCCCHHHHHHHHHHHHHCCCEEEEEEHHHHHHHCCCCCEEEEEEEHHHCCCCCEEECCCHHHHHHHCCC
T ss_conf             98614033--0366307899999999755854788641056511688740677330001368642543870577641102


Q ss_pred             CC-CCC--CEEEEEECC
Q ss_conf             27-998--669998248
Q gi|254780991|r  679 AR-NVN--SKVILYADT  692 (805)
Q Consensus       679 gR-~~~--G~~il~ad~  692 (805)
                      || |-+  |.||+....
T Consensus       706 GRRGlD~tGTVii~~~~  722 (1248)
T KOG0947         706 GRRGLDETGTVIIMCKD  722 (1248)
T ss_pred             CCCCCCCCCEEEEEECC
T ss_conf             44566867608999668


No 93 
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=99.10  E-value=8.7e-07  Score=69.38  Aligned_cols=125  Identities=19%  Similarity=0.239  Sum_probs=79.0

Q ss_pred             CHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHH----CCCCCEEEEHHH
Q ss_conf             0168899999986302321246621478999999998635966873257645789999999973----189869998458
Q gi|254780991|r  566 TQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLR----LGKFDVLVGINL  641 (805)
Q Consensus       566 ~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~----~g~~diLvgt~~  641 (805)
                      ...+.+...|.+.+....-+||.-...++-+.+.+.+....-......++   ..|.++|+.|+    .|+-.||+||+=
T Consensus       518 ~~~~~~~~~i~~~~~~~~g~LVLFtS~~~l~~v~~~l~~~~~~~ll~Qg~---~~r~~ll~~f~~~~~~~~~svLlGt~S  594 (697)
T PRK11747        518 AHTAEMAAYLPELLEGHKGSLVLFSSRRQMQKVADLLPGDLRLLLLVQGE---QPRQELLEKHKKRVDEGEGSVLFGLQS  594 (697)
T ss_pred             HHHHHHHHHHHHHHHHCCCEEEEECHHHHHHHHHHHHHHHCCCCEEEECC---CCHHHHHHHHHHHHHCCCCEEEEECCC
T ss_conf             99999999999999856984999501999999999876634883899568---659999999999861689829996753


Q ss_pred             HHCCCCCCCC--CEEEEECCC--CCCCCC--------------CHH---------HHHHHHHHHCCCC--CCEEEEEECC
Q ss_conf             7535787771--179996288--567444--------------601---------3776654312799--8669998248
Q gi|254780991|r  642 LREGLDIPEC--GLVAILDAD--KEGFLR--------------SKT---------SLIQTIGRAARNV--NSKVILYADT  692 (805)
Q Consensus       642 ~akGlD~p~v--~lV~i~dAD--~~~f~~--------------~~~---------~~~q~~GRagR~~--~G~~il~ad~  692 (805)
                      .-+|+|||+=  ++|+|.-.-  .|+-|-              .+.         -+-|-+||-=|..  .|.+++.=.+
T Consensus       595 FwEGVD~pG~~L~~VII~kLPF~~P~dP~~~ar~~~~~~~g~n~F~~~~lP~A~lklkQg~GRLIRs~~DrGvvvilD~R  674 (697)
T PRK11747        595 FAEGLDLPGDYLTQVIITKIPFAVPDSPVEATLAEWLESRGGNPFMEISVPDASFKLIQAVGRLIRSEQDRGRVTILDRR  674 (697)
T ss_pred             CCCCEECCCCCEEEEEEECCCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEEECCC
T ss_conf             12661369878789999748999998599999999999837995165129999999999701461678862899997688


Q ss_pred             C
Q ss_conf             9
Q gi|254780991|r  693 I  693 (805)
Q Consensus       693 ~  693 (805)
                      +
T Consensus       675 l  675 (697)
T PRK11747        675 L  675 (697)
T ss_pred             C
T ss_conf             6


No 94 
>KOG0329 consensus
Probab=99.09  E-value=1.9e-09  Score=89.36  Aligned_cols=166  Identities=23%  Similarity=0.204  Sum_probs=102.0

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHH----HHHHHC--CCCEEEEECCHHHHHHH---HHHHHHHCCC
Q ss_conf             88843899999999887397337998633764699999----999971--99789993163468999---9999986789
Q gi|254780991|r  149 PSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMA----KVIEAM--QRPAIVMAPNKILAAQL---YSEFKNFFPH  219 (805)
Q Consensus       149 P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya----~lI~~~--gr~aLvLvPei~La~QL---~~rfk~~Fp~  219 (805)
                      |+.-|.+.|-+-.-    |. ..+-..-.|-|||.|+.    +-|+-+  .-++||+.|.--||-|+   |.||..+.|+
T Consensus        65 psevqhecipqail----gm-dvlcqaksgmgktavfvl~tlqqiepv~g~vsvlvmchtrelafqi~~ey~rfskymP~  139 (387)
T KOG0329          65 PSEVQHECIPQAIL----GM-DVLCQAKSGMGKTAVFVLATLQQIEPVDGQVSVLVMCHTRELAFQISKEYERFSKYMPS  139 (387)
T ss_pred             CHHHHHHHHHHHHH----CC-HHHEECCCCCCCEEEEEHHHHHHCCCCCCEEEEEEEECCHHHHHHHHHHHHHHHHHCCC
T ss_conf             16764420047763----41-12010025788436552223552378898079999962189999988999999754888


Q ss_pred             CEEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCC----CCHHHHHCCEE
Q ss_conf             83899862134444210155543210221035889999999999998549984998277896168----98347722579
Q gi|254780991|r  220 NAVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGI----GSVESYSQMIV  295 (805)
Q Consensus       220 n~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl----~~P~~~lglII  295 (805)
                      -.|.+|-.......                      |.+.       +..-+.|||||.--|..+    -.-+++....+
T Consensus       140 vkvaVFfGG~~Ikk----------------------dee~-------lk~~PhivVgTPGrilALvr~k~l~lk~vkhFv  190 (387)
T KOG0329         140 VKVSVFFGGLFIKK----------------------DEEL-------LKNCPHIVVGTPGRILALVRNRSLNLKNVKHFV  190 (387)
T ss_pred             CEEEEEECCEECCC----------------------CHHH-------HHCCCEEEECCCHHHHHHHHHCCCCHHHCCEEE
T ss_conf             45899975531034----------------------6998-------827990897682889999872457532032112


Q ss_pred             EEECCCCCCHHHHHHHHHHCCCCCCHH-HHHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCCHH
Q ss_conf             994198111787532343117656338-775453318724783178887788873104442002
Q gi|254780991|r  296 QLKIGDSVEQKELLSSLVKQQYKRQDI-GIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIE  358 (805)
Q Consensus       296 vdEehd~~~~~~~~~~l~~~~Y~R~D~-a~~RG~f~~rg~ILdsatps~Es~~~Rie~f~deIe  358 (805)
                      .||..-      ...++.    -|+|+ .+.|.+=...-+..-|+|.|-|-.|....|--|.+|
T Consensus       191 lDEcdk------mle~lD----MrRDvQEifr~tp~~KQvmmfsatlskeiRpvC~kFmQdPmE  244 (387)
T KOG0329         191 LDECDK------MLEQLD----MRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCHKFMQDPME  244 (387)
T ss_pred             HHHHHH------HHHHHH----HHHHHHHHHHCCCCCCEEEEEEEECCHHHHHHHHHHHCCCHH
T ss_conf             333778------999878----888799986328653203454201315667887755218166


No 95 
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=99.07  E-value=3.4e-07  Score=72.44  Aligned_cols=96  Identities=20%  Similarity=0.218  Sum_probs=71.6

Q ss_pred             HCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEE--ECCCCCCCCC-CHHHHHHHHHHHCC
Q ss_conf             35966873257645789999999973189869998458753578777117999--6288567444-60137766543127
Q gi|254780991|r  604 ERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAI--LDADKEGFLR-SKTSLIQTIGRAAR  680 (805)
Q Consensus       604 ~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i--~dAD~~~f~~-~~~~~~q~~GRagR  680 (805)
                      .+||.  ..|+.+=..-+..+=.-|..|.+.|+.+|-.++-|+..|-=|.|.-  --=|-.+|+. +..-|+|.+|||||
T Consensus       444 ~RGia--vHH~GlLP~~K~~vE~Lfq~GLvkvvFaTeT~s~GiNmPartvv~~~l~K~dG~~~r~L~~gEy~QmsGRAGR  521 (1041)
T COG4581         444 LRGIA--VHHAGLLPAIKELVEELFQEGLVKVVFATETFAIGINMPARTVVFTSLSKFDGNGHRWLSPGEYTQMSGRAGR  521 (1041)
T ss_pred             HHHHH--HHCCCCCHHHHHHHHHHHHCCCEEEEEEHHHHHHHCCCCCCCEEEEEEEEECCCCEEECCHHHHHHHHHHHCC
T ss_conf             60345--4024503689999999986043057753334640157840013546557754885356581577775444301


Q ss_pred             -CCC--CEEEEEEC-CCC-HHHHHHH
Q ss_conf             -998--66999824-898-8999999
Q gi|254780991|r  681 -NVN--SKVILYAD-TIT-KSIQLAI  701 (805)
Q Consensus       681 -~~~--G~~il~ad-~~t-~~~~~ai  701 (805)
                       |.+  |.||+... ... ++....+
T Consensus       522 RGlD~~G~vI~~~~~~~~~~~e~~~l  547 (1041)
T COG4581         522 RGLDVLGTVIVIEPPFESEPSEAAGL  547 (1041)
T ss_pred             CCCCCCCEEEEECCCCCCCHHHHHHH
T ss_conf             55654654999557887872777776


No 96 
>COG4889 Predicted helicase [General function prediction only]
Probab=99.05  E-value=1.2e-08  Score=83.38  Aligned_cols=111  Identities=21%  Similarity=0.372  Sum_probs=84.3

Q ss_pred             CCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHH---HHHCCCCCEEEEHHH
Q ss_conf             10168899999986302321246621478999999998635966873257645789999999---973189869998458
Q gi|254780991|r  565 RTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIR---DLRLGKFDVLVGINL  641 (805)
Q Consensus       565 ~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~---~~~~g~~diLvgt~~  641 (805)
                      ..|+.+.++.|.++-               -+||.+-+++..+.+.-.||+++..+|.+.+.   .|...++.||--.-.
T Consensus       473 SK~i~~sFe~Vve~Y---------------~~Elk~d~~nL~iSi~HvDGtmNal~R~~l~~l~~~~~~neckIlSNaRc  537 (1518)
T COG4889         473 SKQIAESFETVVEAY---------------DEELKKDFKNLKISIDHVDGTMNALERLDLLELKNTFEPNECKILSNARC  537 (1518)
T ss_pred             HHHHHHHHHHHHHHH---------------HHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHCCCCCCCCHHEEECCCHH
T ss_conf             887888889999999---------------99997326683688751467300888877886158899421011013315


Q ss_pred             HHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCCCCC----CEEEEEECCCCH
Q ss_conf             753578777117999628856744460137766543127998----669998248988
Q gi|254780991|r  642 LREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAARNVN----SKVILYADTITK  695 (805)
Q Consensus       642 ~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR~~~----G~~il~ad~~t~  695 (805)
                      |.+|.|+|-+.-|+-+|     -+.|--..||-+||..|..+    |-.||=.-.+++
T Consensus       538 LSEGVDVPaLDsViFf~-----pr~smVDIVQaVGRVMRKa~gK~yGYIILPIalpeg  590 (1518)
T COG4889         538 LSEGVDVPALDSVIFFD-----PRSSMVDIVQAVGRVMRKAKGKKYGYIILPIALPEG  590 (1518)
T ss_pred             HHCCCCCCCCCEEEEEC-----CCHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCC
T ss_conf             42378853412379866-----851288999999999872768766569987315877


No 97 
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=99.04  E-value=3.9e-07  Score=72.01  Aligned_cols=123  Identities=17%  Similarity=0.209  Sum_probs=82.6

Q ss_pred             CHHHHHHHHHHHHHHCCC-CCCCCCHHHHHHHHHHHHHHHCCCE-EEECCCCCCHHHHHHHHHHHHCCCC-CEEEEHHHH
Q ss_conf             016889999998630232-1246621478999999998635966-8732576457899999999731898-699984587
Q gi|254780991|r  566 TQVEDVYDEINLAAQQGL-RILLTVLTKRMAEDLTEYLYERNIR-VRYMHSEVKTLERIEIIRDLRLGKF-DVLVGINLL  642 (805)
Q Consensus       566 ~qvddl~~ei~~~~~~~~-R~l~~~~tkr~~e~l~~~~~~~~i~-~~~~h~~~~~~~r~~il~~~~~g~~-diLvgt~~~  642 (805)
                      .-..++...|........ +++|+....++.+.+.++|...... ....++   ...+.++++.|+.+.- -+||||.-+
T Consensus       462 ~~~~~~~~~i~~~~~~~~~~~lvlF~Sy~~l~~~~~~~~~~~~~~~v~~q~---~~~~~~~l~~f~~~~~~~~lv~~gsf  538 (654)
T COG1199         462 ELLAKLAAYLREILKASPGGVLVLFPSYEYLKRVAERLKDERSTLPVLTQG---EDEREELLEKFKASGEGLILVGGGSF  538 (654)
T ss_pred             HHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHCCCCCEEECCC---CCCHHHHHHHHHHCCCCEEEEEECCE
T ss_conf             799999999999997479988999178999999999865116453344568---78469999999714786499972331


Q ss_pred             HCCCCCCCCCEEEEECCCCCCCCC----------------------------CHHHHHHHHHHHCCCC--CCEEEEEECC
Q ss_conf             535787771179996288567444----------------------------6013776654312799--8669998248
Q gi|254780991|r  643 REGLDIPECGLVAILDADKEGFLR----------------------------SKTSLIQTIGRAARNV--NSKVILYADT  692 (805)
Q Consensus       643 akGlD~p~v~lV~i~dAD~~~f~~----------------------------~~~~~~q~~GRagR~~--~G~~il~ad~  692 (805)
                      ++|+|||+=.+.+++=+-.| ||.                            .-..+.|-+||.=|+.  .|.+++.=++
T Consensus       539 ~EGVD~~g~~l~~vvI~~lP-fp~p~dp~~~~r~~~~~~~g~~~f~~~~l~~A~~~l~QavGRlIR~~~D~G~ivllD~R  617 (654)
T COG1199         539 WEGVDFPGDALRLVVIVGLP-FPNPDDPLLKARLEFLKRLGGDPFEEFYLPPAVIKLRQAVGRLIRSEDDRGVIVLLDKR  617 (654)
T ss_pred             ECCEECCCCCEEEEEEEECC-CCCCCCHHHHHHHHHHHHHCCCCCCEEEHHHHHHHHHHHHCCCCCCCCCCEEEEEECCC
T ss_conf             03151688765799998268-99899899999999998726997103458999999998743010478871699997153


No 98 
>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=99.01  E-value=5.9e-09  Score=85.59  Aligned_cols=147  Identities=22%  Similarity=0.190  Sum_probs=93.5

Q ss_pred             CHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHH-H---H--CCCCEEEEECCHHHHHHHHHHHHHHCCCCE--EE
Q ss_conf             43899999999887397337998633764699999999-9---7--199789993163468999999998678983--89
Q gi|254780991|r  152 DQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVI-E---A--MQRPAIVMAPNKILAAQLYSEFKNFFPHNA--VE  223 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI-~---~--~gr~aLvLvPei~La~QL~~rfk~~Fp~n~--V~  223 (805)
                      -|.+||..+.+    | +..++.+-||||||++|+-.+ .   +  .+..+++++|.++|+.|.+.+|+.+|....  +.
T Consensus         3 ~Q~~~i~~~~~----g-~~~iv~~pTGsGKT~~~~~~~l~~~~~~~~~~~~v~l~Pt~aL~~q~~~~~~~~~~~~~~~~~   77 (167)
T pfam00270         3 IQAEAIPAILE----G-KDVLVQAPTGSGKTLAFLLPALQALLKNPDGPQALVLAPTRELAEQIYEELKKLGKYLGLKVA   77 (167)
T ss_pred             HHHHHHHHHHC----C-CCEEEECCCCCCHHHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHHHHCCCCCEE
T ss_conf             59999999976----9-978998899975899999999999874778987999906088888999886432102676404


Q ss_pred             EEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCC----CCHHHHHCCEEEEEC
Q ss_conf             9862134444210155543210221035889999999999998549984998277896168----983477225799941
Q gi|254780991|r  224 YFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGI----GSVESYSQMIVQLKI  299 (805)
Q Consensus       224 ~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl----~~P~~~lglIIvdEe  299 (805)
                      .+++..+                         ...+.   .. ......|+|+|...+...    ..-+.+++++|+||.
T Consensus        78 ~~~g~~~-------------------------~~~~~---~~-~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~lIvDE~  128 (167)
T pfam00270        78 LLYGGDS-------------------------PKEQL---RK-LKKGPDILVGTPGRLLDLLERGGLLLKNLKLLVLDEA  128 (167)
T ss_pred             EECCCCC-------------------------HHHHH---HH-HCCCCCEEEECHHHHHHHHHHCCCCCCCEEEEEEECH
T ss_conf             6417861-------------------------78898---76-4057707994789999999803312110038998808


Q ss_pred             CCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCC
Q ss_conf             9811178753234311765633877545331872478317888
Q gi|254780991|r  300 GDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSH  342 (805)
Q Consensus       300 hd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps  342 (805)
                      |.-.+.        ..++.-.  .+.+.-...+..++=|||+.
T Consensus       129 H~~~~~--------~~g~~~~--~il~~l~~~~q~v~~SAT~~  161 (167)
T pfam00270       129 HRLLDQ--------GFGDDLE--EILRRLPPKRQILLLSATLP  161 (167)
T ss_pred             HHHHCC--------CHHHHHH--HHHHHCCCCCCEEEEECCCC
T ss_conf             867335--------8299999--99985799997899972699


No 99 
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=98.87  E-value=1.1e-07  Score=76.16  Aligned_cols=86  Identities=24%  Similarity=0.274  Sum_probs=65.7

Q ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEE--------ECCCC-----CCCCCCHHHH
Q ss_conf             5966873257645789999999973189869998458753578777117999--------62885-----6744460137
Q gi|254780991|r  605 RNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAI--------LDADK-----EGFLRSKTSL  671 (805)
Q Consensus       605 ~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i--------~dAD~-----~~f~~~~~~~  671 (805)
                      ..+.+.-+|+.+...+..++++--..|.=.|+++||++.-+|-||+|..|+=        ||.-.     +-=+-|--|-
T Consensus       286 ~~~~i~PLy~~L~~~eQ~rvF~p~~~~~RKVVlATNIAETSLTI~gIr~VIDsG~ak~~~y~~~~g~~~L~~~~ISqAsA  365 (845)
T COG1643         286 DDLEILPLYGALSAEEQVRVFEPAPGGKRKVVLATNIAETSLTIPGIRYVIDSGLAKEKRYDPRTGLTRLETEPISKASA  365 (845)
T ss_pred             CCCEEEECCCCCCHHHHHHHCCCCCCCCCEEEEECCEEECCEEECCEEEEEECCCCCCCCCCCCCCCEEEEEEEECHHHH
T ss_conf             88389404035998999866287888860499975140013115785899848825210035134852666787505323


Q ss_pred             HHHHHHHCCCCCCEEE-EEE
Q ss_conf             7665431279986699-982
Q gi|254780991|r  672 IQTIGRAARNVNSKVI-LYA  690 (805)
Q Consensus       672 ~q~~GRagR~~~G~~i-l~a  690 (805)
                      .||+|||||-.+|.++ ||.
T Consensus       366 ~QRaGRAGR~~pGicyRLys  385 (845)
T COG1643         366 DQRAGRAGRTGPGICYRLYS  385 (845)
T ss_pred             HHHCCCCCCCCCCEEEEECC
T ss_conf             34345545777852899447


No 100
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.87  E-value=1.9e-05  Score=59.32  Aligned_cols=121  Identities=21%  Similarity=0.254  Sum_probs=83.1

Q ss_pred             HHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCC
Q ss_conf             88999999863023212466214789999999986359668732576457899999999731898699984587535787
Q gi|254780991|r  569 EDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDI  648 (805)
Q Consensus       569 ddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~  648 (805)
                      +.+...|......+.|+||.-...++-+.+.++|...++....-.   ....+.++++.|+.++-.||+||+-..+|+|+
T Consensus       634 ~~la~~i~~l~~~~g~~LVLFTS~~~l~~v~~~L~~~~~~~L~Qg---~~gs~~~l~~rF~~~~~siLlGt~SFWEGVDl  710 (820)
T PRK07246        634 EAIAKRLESLKQEGQPILVLFNSKKHLLAVSDYLDQWQVSHLAQE---KNGTAYNIKKRFDRGEQTILLGLGSFWEGVDF  710 (820)
T ss_pred             HHHHHHHHHHHHCCCCEEEEECHHHHHHHHHHHHHHCCCCEEEEC---CCCCHHHHHHHHHHCCCEEEEECCCCCCCCCC
T ss_conf             999999999997499999995309999999999853799778867---97679999999984899699976676466448


Q ss_pred             CC--CCEEEEECCC--CCCCC----C----------CHH---------HHHHHHHHHCCCC--CCEEEEEECC
Q ss_conf             77--1179996288--56744----4----------601---------3776654312799--8669998248
Q gi|254780991|r  649 PE--CGLVAILDAD--KEGFL----R----------SKT---------SLIQTIGRAARNV--NSKVILYADT  692 (805)
Q Consensus       649 p~--v~lV~i~dAD--~~~f~----~----------~~~---------~~~q~~GRagR~~--~G~~il~ad~  692 (805)
                      |+  .++|+|.-.-  .|+-|    +          .+.         .+.|-+||-=|..  .|.++++=.+
T Consensus       711 pG~~L~~vVI~kLPF~~P~dPl~~a~~~~l~~~G~npF~~~~LP~AvlrlkQg~GRLIRs~~DrGvvvIlD~R  783 (820)
T PRK07246        711 IQADRMIEVITRLPFDNPEDPFVKKMSQYLLEEGKNPFYDYFLPMTILRLKQAIGRTMRREDQKSAVIILDRR  783 (820)
T ss_pred             CCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEEECCC
T ss_conf             9987799998869999998099999999999828995256229999999999570367679986899998886


No 101
>KOG0949 consensus
Probab=98.86  E-value=1.1e-07  Score=76.23  Aligned_cols=97  Identities=21%  Similarity=0.226  Sum_probs=72.9

Q ss_pred             ECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCC--CEEE
Q ss_conf             3257645789999999973189869998458753578777117999628856744460137766543127-998--6699
Q gi|254780991|r  611 YMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVN--SKVI  687 (805)
Q Consensus       611 ~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~--G~~i  687 (805)
                      +.|+.++...|.-+---||.|...||++|.-++=|+..|--|.|.--|-    +--+.=.|-|.+||||| |-+  |.|+
T Consensus       967 ~HHaglNr~yR~~VEvLFR~g~L~VlfaT~TLsLGiNMPCrTVvF~gDs----LQL~plny~QmaGRAGRRGFD~lGnV~ 1042 (1330)
T KOG0949         967 VHHAGLNRKYRSLVEVLFRQGHLQVLFATETLSLGINMPCRTVVFAGDS----LQLDPLNYKQMAGRAGRRGFDTLGNVV 1042 (1330)
T ss_pred             CCCCCCCHHHHHHHHHHHHCCCEEEEEEEEEHHCCCCCCCEEEEEECCC----CCCCCHHHHHHHCCCCCCCCCCCCCEE
T ss_conf             1124401688879999864485689998211011268874168970352----213714577662403344555556558


Q ss_pred             EEECCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             982489889999999878888888876
Q gi|254780991|r  688 LYADTITKSIQLAIDETTRRREKQLEH  714 (805)
Q Consensus       688 l~ad~~t~~~~~ai~e~~rrr~~q~~~  714 (805)
                      +.. -++..+++.+  |.....+|-+|
T Consensus      1043 Fmg-iP~~kv~rLl--ts~L~diqG~~ 1066 (1330)
T KOG0949        1043 FMG-IPRQKVQRLL--TSLLPDIQGAY 1066 (1330)
T ss_pred             EEE-CCHHHHHHHH--HHHHHCCCCCC
T ss_conf             872-7599999999--87511015898


No 102
>KOG0920 consensus
Probab=98.86  E-value=8.5e-07  Score=69.45  Aligned_cols=88  Identities=19%  Similarity=0.217  Sum_probs=70.8

Q ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCC---CCCHH----------HH
Q ss_conf             596687325764578999999997318986999845875357877711799962885674---44601----------37
Q gi|254780991|r  605 RNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGF---LRSKT----------SL  671 (805)
Q Consensus       605 ~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f---~~~~~----------~~  671 (805)
                      .++...-+||.+...+...+.+.--.|.-.|+++||++.-.+-||.|..|+..-.=++-+   .++..          .-
T Consensus       443 ~~~~ilplHs~~~~~eQ~~VF~~pp~g~RKIIlaTNIAETSITIdDVvyVIDsG~~Ke~~yD~~~~~s~l~~~wvSkAna  522 (924)
T KOG0920         443 LKFAILPLHSSIPSEEQQAVFKRPPKGTRKIILATNIAETSITIDDVVYVIDSGLVKEKSYDPERKVSCLLLSWVSKANA  522 (924)
T ss_pred             CCEEEEECCCCCCHHHHHHHCCCCCCCCCHHHHHHHHHHHCCCCCCEEEEEECCEEEEEEECCCCCCCCCEEEECCCCCH
T ss_conf             62588705100886889986178999951232220137534523674799864715444405667854000242010036


Q ss_pred             HHHHHHHCCCCCCEEE-EEECC
Q ss_conf             7665431279986699-98248
Q gi|254780991|r  672 IQTIGRAARNVNSKVI-LYADT  692 (805)
Q Consensus       672 ~q~~GRagR~~~G~~i-l~ad~  692 (805)
                      -||.|||||-.+|.++ +|...
T Consensus       523 ~QR~GRAGRv~~G~cy~Ly~~~  544 (924)
T KOG0920         523 KQRRGRAGRVRPGICYHLYTRS  544 (924)
T ss_pred             HHHCCCCCCCCCCEEEEECCCH
T ss_conf             7754555564576268840534


No 103
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=98.78  E-value=9.5e-07  Score=69.07  Aligned_cols=150  Identities=19%  Similarity=0.227  Sum_probs=108.4

Q ss_pred             CCCCCCC-CCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHH
Q ss_conf             1244677-200001331016889999998630232124662147899999999863596687325764578999999997
Q gi|254780991|r  550 RPTGLVD-PPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDL  628 (805)
Q Consensus       550 rptg~id-p~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~  628 (805)
                      +|..-.| |...-+......+-++++|.++-.+|.=+||+|.+-...|.|+..|...||...-+..--...+-+-|-+.=
T Consensus       416 ~p~~R~d~~d~iy~t~~~K~~Av~~ei~~~~~~gqPVLvGT~Sve~SE~ls~~L~~~gi~h~VLNAk~~~~EA~Iia~AG  495 (913)
T PRK13103        416 KPLARKDFNDLVYLTAEEKYAAIITDIKECMALGRPVLVGTATIETSEHMSNLLKKEGIEHKVLNAKYHEKEAEIIAQAG  495 (913)
T ss_pred             CCCCEECCCCEEECCHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHCCCCCEEECCCCHHHHHHHHHHCC
T ss_conf             98610119986983899999999999999997499889962746889999999997699751204887379999998337


Q ss_pred             HCCCCCEEEEHHHHHCCCCCC-----CCCEEEEECCCC--------------------CCC-----CC--CHHHHHHHHH
Q ss_conf             318986999845875357877-----711799962885--------------------674-----44--6013776654
Q gi|254780991|r  629 RLGKFDVLVGINLLREGLDIP-----ECGLVAILDADK--------------------EGF-----LR--SKTSLIQTIG  676 (805)
Q Consensus       629 ~~g~~diLvgt~~~akGlD~p-----~v~lV~i~dAD~--------------------~~f-----~~--~~~~~~q~~G  676 (805)
                      +.|.  |-|+|||+.||-||-     ++.....-+++.                    .|+     -|  |-|-=-|--|
T Consensus       496 ~~ga--VTIATNMAGRGTDI~LGgn~e~~~~~~~~~~~e~~~~~~~~~~~~~~~V~~~GGL~VIgterheSrRiDnQLrG  573 (913)
T PRK13103        496 APGA--LTIATNMAGRGTDILLGGNWEVEVAALENPTPEQIAQIKADWQKRHQQVIEAGGLHVIASERHESRRIDNQLRG  573 (913)
T ss_pred             CCCC--EEEECCCCCCCCCEECCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHCC
T ss_conf             8997--89716456898695268860344431036767789999999998877898629849996165521257878607


Q ss_pred             HHCC-CCCCEEEEEECCCCHHHHHHH
Q ss_conf             3127-998669998248988999999
Q gi|254780991|r  677 RAAR-NVNSKVILYADTITKSIQLAI  701 (805)
Q Consensus       677 RagR-~~~G~~il~ad~~t~~~~~ai  701 (805)
                      |+|| |.+|...+|....++-|..+-
T Consensus       574 RsGRQGDPG~s~F~lSleDdLmr~Fg  599 (913)
T PRK13103        574 RAGRQGDPGSSRFYLSLEDSLMRIFA  599 (913)
T ss_pred             CCCCCCCCCCCEEEEEECHHHHHHHC
T ss_conf             43568999865489970468998857


No 104
>TIGR01587 cas3_core CRISPR-associated helicase Cas3; InterPro: IPR006474    This entry represents a highly conserved core region of the Cas3 sequences. The proteins are found in association with CRISPR repeat elements in a broad range of bacteria and Archaea . Cas3 appears to be a helicase, containing a DEAD/DEAH box region and conserved C-terminal domain. Some but not all members have an N-terminal HD domain region (IPR006674 from INTERPRO), these sequences are not included within this group..
Probab=98.77  E-value=9.8e-07  Score=68.97  Aligned_cols=112  Identities=23%  Similarity=0.337  Sum_probs=86.9

Q ss_pred             HHHH-HHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCE---EEECCCCCCHH---HH---HHHHHHHHC-----CCCCEE
Q ss_conf             9999-986302321246621478999999998635966---87325764578---99---999999731-----898699
Q gi|254780991|r  572 YDEI-NLAAQQGLRILLTVLTKRMAEDLTEYLYERNIR---VRYMHSEVKTL---ER---IEIIRDLRL-----GKFDVL  636 (805)
Q Consensus       572 ~~ei-~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~---~~~~h~~~~~~---~r---~~il~~~~~-----g~~diL  636 (805)
                      ++++ -+.+..+.++++.+.|-+.|-++...+.+.+-.   ++-+||--...   +.   .+.|..|++     ++--|+
T Consensus       258 ~~~~~~~~~~~~~~~~ii~NtV~~A~~~Y~~~kE~~p~~~~~~L~HsRF~~~DR~~KEde~~~l~e~~~S~~~~~~~~v~  337 (424)
T TIGR01587       258 LERLLLEELKKGGKVLIIVNTVDRAQEFYQKLKEKAPELEEVILLHSRFTEKDRAKKEDEAELLKELKKSAWKDNEKFVI  337 (424)
T ss_pred             HHHHHHHHCCCCCCEEEEEECHHHHHHHHHHHHHCCCCCCCEEEEECCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCEEE
T ss_conf             66677874157786699985438999999998512652002124404477003667767999999851013544577069


Q ss_pred             EEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CC-CC-----EEEEEEC
Q ss_conf             98458753578777117999628856744460137766543127-99-86-----6999824
Q gi|254780991|r  637 VGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NV-NS-----KVILYAD  691 (805)
Q Consensus       637 vgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~-~G-----~~il~ad  691 (805)
                      |+||++.-|+||.-=.++-  +      +....+|+||.||-.| ++ .|     .++....
T Consensus       338 V~TQv~E~SlD~s~D~~iT--e------~aP~d~LiQR~GR~~R~~~~~~d~~~~~~y~~~~  391 (424)
T TIGR01587       338 VATQVIEVSLDISVDVMIT--E------LAPIDSLIQRLGRLNRYGRKIGDIENREVYILTI  391 (424)
T ss_pred             EEEEEEEEEEECCCCHHHH--H------CCCHHHHHHHHHHHCCCCCCCCCCCCCCEEEEEE
T ss_conf             9878788864204441343--1------1501233554211101135657889872037852


No 105
>pfam12344 UvrB Ultra-violet resistance protein B. This domain family is found in bacteria, archaea and eukaryotes, and is approximately 40 amino acids in length. The family is found in association with pfam00271, pfam02151, pfam04851. There are two conserved sequence motifs: YAD and RRR. This family is the C terminal region of the UvrB protein which conveys mutational resistance against UV light to various different species.
Probab=98.75  E-value=4.8e-09  Score=86.25  Aligned_cols=43  Identities=58%  Similarity=0.837  Sum_probs=41.1

Q ss_pred             EEECCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             9824898899999998788888888768871885302346677
Q gi|254780991|r  688 LYADTITKSIQLAIDETTRRREKQLEHNKKHNINPQSVKEKIM  730 (805)
Q Consensus       688 l~ad~~t~~~~~ai~e~~rrr~~q~~~n~~~~i~p~~i~k~i~  730 (805)
                      ||||.+|+||+++|+||+|||.+|++||++|||+|++|.|++.
T Consensus         1 lYAD~~T~SM~~ai~eT~rRR~~Q~~yN~~h~I~P~ti~k~i~   43 (44)
T pfam12344         1 LYADKITDSMQKAIDETERRREIQIAYNEEHGITPKTIKKKIR   43 (44)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC
T ss_conf             9875251999999999999999999999983998625556286


No 106
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=98.75  E-value=3.3e-07  Score=72.55  Aligned_cols=147  Identities=19%  Similarity=0.236  Sum_probs=107.1

Q ss_pred             CCCCCCC-CCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHH
Q ss_conf             1244677-200001331016889999998630232124662147899999999863596687325764578999999997
Q gi|254780991|r  550 RPTGLVD-PPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDL  628 (805)
Q Consensus       550 rptg~id-p~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~  628 (805)
                      +|..-.| |...-+......+-++++|.++-.+|.=+||+|.+-...|.|+..|...||...-+..--...+-+-|-+.=
T Consensus       416 ~p~~R~d~~d~vy~t~~~K~~Av~~ei~~~~~~gqPVLvGT~sve~SE~ls~~L~~~gi~h~VLNAk~h~~EA~Iia~AG  495 (908)
T PRK13107        416 RPMVRKDMADLVYLTADEKYQAIIKDIKDCRERGQPVLVGTVSIEQSELLARLMVKEKIPHEVLNAKFHEREAEIVAQAG  495 (908)
T ss_pred             CCCEEEECCCEEECCHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHCCCCCCEECCCCHHHHHHHHHHCC
T ss_conf             98502508986975899999999999999997599889950528999999999974678530104887688999999549


Q ss_pred             HCCCCCEEEEHHHHHCCCCCCCCCEEEEECCC----------------------------CCCC--C---C--CHHHHHH
Q ss_conf             31898699984587535787771179996288----------------------------5674--4---4--6013776
Q gi|254780991|r  629 RLGKFDVLVGINLLREGLDIPECGLVAILDAD----------------------------KEGF--L---R--SKTSLIQ  673 (805)
Q Consensus       629 ~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD----------------------------~~~f--~---~--~~~~~~q  673 (805)
                      +.|.  |-|+|||+.||-||--   =|++++-                            ..|+  .   |  |-|-=-|
T Consensus       496 ~~ga--VTIATNMAGRGTDI~L---GGn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VigterhesrRiDnQ  570 (908)
T PRK13107        496 RTGA--VTIATNMAGRGTDIVL---GGNWNMEIEALENPTAEQKAKIKADWQIRHDEVVAAGGLHILGTERHESRRIDNQ  570 (908)
T ss_pred             CCCC--EEEECCCCCCCCCEEC---CCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCHHHHHHHH
T ss_conf             9998--7983336789868425---8862021332028648789999999988666898659808985143312467777


Q ss_pred             HHHHHCC-CCCCEEEEEECCCCHHHHHHH
Q ss_conf             6543127-998669998248988999999
Q gi|254780991|r  674 TIGRAAR-NVNSKVILYADTITKSIQLAI  701 (805)
Q Consensus       674 ~~GRagR-~~~G~~il~ad~~t~~~~~ai  701 (805)
                      --||+|| |.+|...+|....++-|..+-
T Consensus       571 LrGRsgRQGDpG~srFflSLEDdLmr~Fg  599 (908)
T PRK13107        571 LRGRAGRQGDAGSSRFYLSMEDSLMRIFA  599 (908)
T ss_pred             HHCCCCCCCCCCCCEEEEECCHHHHHHHC
T ss_conf             61222357899853365313289999755


No 107
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=98.73  E-value=9.1e-07  Score=69.23  Aligned_cols=136  Identities=17%  Similarity=0.176  Sum_probs=103.3

Q ss_pred             CEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEE
Q ss_conf             00013310168899999986302321246621478999999998635966873257645789999999973189869998
Q gi|254780991|r  559 VEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVG  638 (805)
Q Consensus       559 ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvg  638 (805)
                      ..-+.......-+.++|.++-.+|.=+||+|.+-...|.|+..|...||....+...-...+-+-|-+.=+.|.  |-|+
T Consensus       409 ~v~~t~~~k~~av~~~v~~~~~~g~pvLvgt~sv~~Se~~s~~L~~~~i~h~vLnAk~~~~Ea~Iia~AG~~g~--vTia  486 (799)
T PRK09200        409 KVFATVDEKYKAVIEEVKERHETGRPVLIGTGSIEQSEYFSKLLFEAGIPHNLLNAKNAAQEAQIIAEAGQKGA--VTVA  486 (799)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHCCCCHHHCCCCCHHHHHHHHHHCCCCCE--EEEE
T ss_conf             01089999999999999999857998899838579999999999865764332053217789999982789994--8984


Q ss_pred             HHHHHCCCCCCC---C-----CEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHH
Q ss_conf             458753578777---1-----17999628856744460137766543127-998669998248988999999
Q gi|254780991|r  639 INLLREGLDIPE---C-----GLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAI  701 (805)
Q Consensus       639 t~~~akGlD~p~---v-----~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai  701 (805)
                      |||+.||-||--   |     =+|+...     ...|.|-=-|-.||||| |.+|...+|....++-|...-
T Consensus       487 TnMAGRGtDI~l~~~v~~~GGL~Vigte-----rhes~Rid~QlrGR~gRQGdpG~s~f~~sled~l~r~f~  553 (799)
T PRK09200        487 TNMAGRGTDIKLGEGVHELGGLAVIGTE-----RMESRRVDLQLRGRSGRQGDPGSSQFFISLEDDLVKRFA  553 (799)
T ss_pred             CCCCCCCCCCCCCCCHHHCCCEEEEECC-----CCCHHHHHHHHCCCCCCCCCCCCEEEEEECCHHHHHHHC
T ss_conf             5455898695338453543881774034-----451466776751653457999854899851478998746


No 108
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=98.73  E-value=1e-06  Score=68.78  Aligned_cols=148  Identities=19%  Similarity=0.209  Sum_probs=108.3

Q ss_pred             CCCCCCC-CCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHH
Q ss_conf             1244677-200001331016889999998630232124662147899999999863596687325764578999999997
Q gi|254780991|r  550 RPTGLVD-PPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDL  628 (805)
Q Consensus       550 rptg~id-p~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~  628 (805)
                      +|..-.| |...-+......+-++++|.++-.+|.=+||+|.+-...|.|++.|...||....+...-...+-+-|-+.=
T Consensus       521 ~P~~R~D~~D~vy~t~~~K~~Aii~ei~~~~~~gqPVLVGT~SVe~SE~lS~~L~~~gI~h~VLNAk~h~~EA~IIa~AG  600 (983)
T PRK12900        521 RPIVRKDMDDLVYKTRREKYNAIVLKVEELQKKGQPVLVGTASVEVSETLSRMLRAKRIEHNVLNAKQNEREAEIVAEAG  600 (983)
T ss_pred             CCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHCCCCHHHHCCCCHHHHHHHHHHCC
T ss_conf             98400126550418999999999999999974799889983878999999999998599556516784788999999369


Q ss_pred             HCCCCCEEEEHHHHHCCCCCC---CCCEEEEECCCCCCCCC--CHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHH
Q ss_conf             318986999845875357877---71179996288567444--60137766543127-998669998248988999999
Q gi|254780991|r  629 RLGKFDVLVGINLLREGLDIP---ECGLVAILDADKEGFLR--SKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAI  701 (805)
Q Consensus       629 ~~g~~diLvgt~~~akGlD~p---~v~lV~i~dAD~~~f~~--~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai  701 (805)
                      +.|.  |-|+|||+.||-||-   +|.=.|=|..  =|--|  |-|-=-|-.||+|| |.+|...+|....++-|..+-
T Consensus       601 ~~Ga--VTIATNMAGRGTDIkLg~~V~elGGL~V--IgTErheSrRIDnQLrGRaGRQGDPG~S~F~lSLeDdLmr~Fg  675 (983)
T PRK12900        601 QKGA--VTIATNMAGRGTDIKLGEGVRELGGLFI--LGSERHESRRIDRQLRGRAGRQGDPGESVFYVSLEDELMRLFG  675 (983)
T ss_pred             CCCC--EEEECCCCCCCCCCCCCCCHHHCCCEEE--EECCCCHHHHHHHHHHCCCCCCCCCCCEEEEEECCHHHHHHHC
T ss_conf             9997--7982436789858254834465388077--5114230256787860432457999853999964179999754


No 109
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=98.72  E-value=2.5e-06  Score=65.94  Aligned_cols=147  Identities=20%  Similarity=0.219  Sum_probs=109.6

Q ss_pred             CCCCCCC-CCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHH
Q ss_conf             1244677-200001331016889999998630232124662147899999999863596687325764578999999997
Q gi|254780991|r  550 RPTGLVD-PPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDL  628 (805)
Q Consensus       550 rptg~id-p~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~  628 (805)
                      +|..-.| |...-+....+.+-+.++|.++-.+|.=+||+|.+-...|.|++.|...||...-+...-...+-+-|-+.=
T Consensus       405 ~P~~R~D~~D~vy~t~~~K~~Avv~ei~~~h~~GqPVLVGT~SVe~SE~ls~~L~~~gi~h~VLNAk~~~~EA~IIA~AG  484 (775)
T PRK12326        405 KPNIREDEADRVYATAAEKNDAIVEHIAEVHETGQPVLVGTRDVAESEELAERLVRRGVPAVVLNAKNDAEEAAVIAEAG  484 (775)
T ss_pred             CCCEEEECCCEEECCHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHCCCCCEECCCCCHHHHHHHHHHCC
T ss_conf             98410458881646999999999999999997599889970718989999999987699830236897276999999459


Q ss_pred             HCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCC------CCC-------CCCHHHHHHHHHHHCC-CCCCEEEEEECCCC
Q ss_conf             318986999845875357877711799962885------674-------4460137766543127-99866999824898
Q gi|254780991|r  629 RLGKFDVLVGINLLREGLDIPECGLVAILDADK------EGF-------LRSKTSLIQTIGRAAR-NVNSKVILYADTIT  694 (805)
Q Consensus       629 ~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~------~~f-------~~~~~~~~q~~GRagR-~~~G~~il~ad~~t  694 (805)
                      +.|.  |-|+|||+.||-||--   =|+-.+|.      .|+       -.|.|-=-|-.||+|| |.+|...+|....+
T Consensus       485 ~~Ga--VTIATNMAGRGTDIkL---Gg~~e~~~~~V~elGGL~VIgterheSrRIDnQLrGRaGRQGDPGsS~FflSLED  559 (775)
T PRK12326        485 KYGA--VTVSTQMAGRGTDIRL---GGSDEADHDRVVELGGLHVVGTGRHRSQRLDNQLRGRAGRQGDPGSSVFFVSWED  559 (775)
T ss_pred             CCCC--EEEECCCCCCCCCEEC---CCCCHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHCCCCCCCCCCCCEEEEEECH
T ss_conf             9998--7982336789868414---8972232478986599078521433346778676223123799986158997033


Q ss_pred             HHHHHHH
Q ss_conf             8999999
Q gi|254780991|r  695 KSIQLAI  701 (805)
Q Consensus       695 ~~~~~ai  701 (805)
                      +-|....
T Consensus       560 dL~~~~g  566 (775)
T PRK12326        560 DVVVANL  566 (775)
T ss_pred             HHHHHHC
T ss_conf             8998536


No 110
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=98.72  E-value=6.7e-07  Score=70.23  Aligned_cols=143  Identities=20%  Similarity=0.238  Sum_probs=106.3

Q ss_pred             CCCCCCCCC-CEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHH
Q ss_conf             124467720-0001331016889999998630232124662147899999999863596687325764578999999997
Q gi|254780991|r  550 RPTGLVDPP-VEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDL  628 (805)
Q Consensus       550 rptg~idp~-ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~  628 (805)
                      +|..-.|-+ ..-+......+-++.+|.++-.+|.=+||+|.+-...|.|+..|...||...-+..--...+-+-|-+.=
T Consensus       599 ~P~~R~D~~D~iy~t~~~K~~Aii~ei~~~~~~GqPVLVGT~SVe~SE~lS~~L~~~gi~h~VLNAk~h~~EAeIIA~AG  678 (1111)
T PRK12901        599 RPIARKDKNDRVYKTKREKYNAVIEEIVELVEAGRPVLVGTTSVEISELLSRMLKMRKIPHNVLNAKLHQKEAEIVAEAG  678 (1111)
T ss_pred             CCCEEEECCCEEECCHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHCCCHHHHHCCCCHHHHHHHHHHCC
T ss_conf             98656628883866999999999999999996499789971718889999999987787387737787799999998468


Q ss_pred             HCCCCCEEEEHHHHHCCCCCCCCCEEEEECCC---CCCC--CCCHH-----HHHHHHHHHCC-CCCCEEEEEECCCCHHH
Q ss_conf             31898699984587535787771179996288---5674--44601-----37766543127-99866999824898899
Q gi|254780991|r  629 RLGKFDVLVGINLLREGLDIPECGLVAILDAD---KEGF--LRSKT-----SLIQTIGRAAR-NVNSKVILYADTITKSI  697 (805)
Q Consensus       629 ~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD---~~~f--~~~~~-----~~~q~~GRagR-~~~G~~il~ad~~t~~~  697 (805)
                      +.|.  |-|+|||+.||-||--       ...   ..|+  ...|+     -=-|--||+|| |.+|...+|....++-|
T Consensus       679 ~~Ga--VTIATNMAGRGTDIkL-------~~~v~~~GGL~VigTERheSrRIDnQLrGRsGRQGDPG~S~F~lSlEDdLm  749 (1111)
T PRK12901        679 QKGT--VTIATNMAGRGTDIKL-------SPEVKAAGGLAIIGTERHESRRVDRQLRGRAGRQGDPGSSQFFVSLEDDLM  749 (1111)
T ss_pred             CCCC--EEEECCCCCCCCCCCC-------CHHHHHCCCCEEEECCCCHHHHHHHHHCCCCCCCCCCCCCEEEEECCHHHH
T ss_conf             9996--7972434578858253-------655786278277520323125677786043244689875426653117899


Q ss_pred             HHHH
Q ss_conf             9999
Q gi|254780991|r  698 QLAI  701 (805)
Q Consensus       698 ~~ai  701 (805)
                      ..+-
T Consensus       750 R~Fg  753 (1111)
T PRK12901        750 RLFG  753 (1111)
T ss_pred             HHHC
T ss_conf             9864


No 111
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=98.70  E-value=2.7e-06  Score=65.64  Aligned_cols=138  Identities=18%  Similarity=0.162  Sum_probs=102.3

Q ss_pred             CEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEE
Q ss_conf             00013310168899999986302321246621478999999998635966873257645789999999973189869998
Q gi|254780991|r  559 VEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVG  638 (805)
Q Consensus       559 ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvg  638 (805)
                      ..-+....+-+-++.+|.++-.+|.=+||+|.+-...|.|++.|...||....+..--...+-+-|-+.=+.|.  |-|+
T Consensus       417 ~iy~t~~~K~~Ai~~ei~~~~~~gqPvLvGT~SVe~SE~ls~~L~~~gi~h~vLNAk~~~~EA~IIa~AG~~Ga--VTIA  494 (823)
T PRK12906        417 LLYPTLDSKFNAVVDDIKERHAKGQPVLVGTVSIESSERLSQLLDKAGIPHAVLNAKNHAKEAEIIAQAGQRGA--VTIA  494 (823)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHCCCCHHHHCCCCHHHHHHHHHHCCCCCE--EEEE
T ss_conf             46479999999999999999867998899717589999999999976870353068775789999983489993--8970


Q ss_pred             HHHHHCCCCCCCCCEEEEECCC----------------------------CCCC-----C--CCHHHHHHHHHHHCC-CC
Q ss_conf             4587535787771179996288----------------------------5674-----4--460137766543127-99
Q gi|254780991|r  639 INLLREGLDIPECGLVAILDAD----------------------------KEGF-----L--RSKTSLIQTIGRAAR-NV  682 (805)
Q Consensus       639 t~~~akGlD~p~v~lV~i~dAD----------------------------~~~f-----~--~~~~~~~q~~GRagR-~~  682 (805)
                      |||+.||-||--   =++...+                            ..|+     -  -|.|-=-|-.||||| |.
T Consensus       495 TNMAGRGTDI~L---Gg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTErheSrRIDnQLrGRaGRQGD  571 (823)
T PRK12906        495 TNMAGRGTDIKL---GGNPFEDIEAYQEAWIRELPKMKQRCEERRDKVRELGGLAVIGTERHESRRIDNQLRGRSGRQGD  571 (823)
T ss_pred             CCCCCCCCCEEE---CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHCCCCCCCC
T ss_conf             655689879630---89730213433222466788888877655689997389379850444025678787232134799


Q ss_pred             CCEEEEEECCCCHHHHHHH
Q ss_conf             8669998248988999999
Q gi|254780991|r  683 NSKVILYADTITKSIQLAI  701 (805)
Q Consensus       683 ~G~~il~ad~~t~~~~~ai  701 (805)
                      +|...+|....++-|..+-
T Consensus       572 PGss~F~lSLEDdLmr~Fg  590 (823)
T PRK12906        572 PGSTRFYLSLEDDLMRRFG  590 (823)
T ss_pred             CCCCEEEEECCHHHHHHHC
T ss_conf             9852376533469998747


No 112
>KOG0922 consensus
Probab=98.69  E-value=4.1e-06  Score=64.33  Aligned_cols=83  Identities=23%  Similarity=0.218  Sum_probs=65.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEE--------EECCCC-----CCCCCCHHHHHHH
Q ss_conf             687325764578999999997318986999845875357877711799--------962885-----6744460137766
Q gi|254780991|r  608 RVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVA--------ILDADK-----EGFLRSKTSLIQT  674 (805)
Q Consensus       608 ~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~--------i~dAD~-----~~f~~~~~~~~q~  674 (805)
                      ...-+||.+...+..++...--.|.=.|+++||++.--+-||+|..|+        +||+..     .-++-|-.+-.||
T Consensus       292 ~~lply~aL~~e~Q~rvF~p~p~g~RKvIlsTNIAETSlTI~GI~YVVDsG~vK~~~y~p~~g~~~L~v~~ISkasA~QR  371 (674)
T KOG0922         292 LILPLYGALPSEEQSRVFDPAPPGKRKVILSTNIAETSLTIDGIRYVVDSGFVKQKKYNPRTGLDSLIVVPISKASANQR  371 (674)
T ss_pred             EEEEEECCCCHHHHHHHCCCCCCCCCEEEEECCEEEEEEEECCEEEEECCCCEEEEEECCCCCCCCEEEEECHHHHHHHH
T ss_conf             22221045887876200267999862489972312101773562899738736777635646744126772129877533


Q ss_pred             HHHHCCCCCCEEE-EEE
Q ss_conf             5431279986699-982
Q gi|254780991|r  675 IGRAARNVNSKVI-LYA  690 (805)
Q Consensus       675 ~GRagR~~~G~~i-l~a  690 (805)
                      +|||||-.+|+++ ||+
T Consensus       372 aGRAGRt~pGkcyRLYt  388 (674)
T KOG0922         372 AGRAGRTGPGKCYRLYT  388 (674)
T ss_pred             CCCCCCCCCCEEEEEEE
T ss_conf             24578988944888500


No 113
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=98.68  E-value=2.4e-06  Score=66.11  Aligned_cols=150  Identities=20%  Similarity=0.228  Sum_probs=105.9

Q ss_pred             CCCCCCCC-CCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHH
Q ss_conf             12446772-00001331016889999998630232124662147899999999863596687325764578999999997
Q gi|254780991|r  550 RPTGLVDP-PVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDL  628 (805)
Q Consensus       550 rptg~idp-~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~  628 (805)
                      +|..-.|- ...-+......+-++++|.++-.+|.=+||+|.+-...|.|+..|...||...-+..--...+-+-|-+.=
T Consensus       411 ~p~~R~d~~d~vy~t~~~K~~Av~~ei~~~~~~gqPVLvGT~sve~SE~ls~~L~~~gi~h~VLNAk~~~~EA~Iia~AG  490 (896)
T PRK13104        411 RSMIRKDEADLVYLTQADKFQAIIEDVRECGVRRQPVLVGTVSIEASEFLSQLLKKENIKHQVLNAKFHEKEAQIIAEAG  490 (896)
T ss_pred             CCCEEECCCCEEECCHHHHHHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHHCCCCHHHHCCCCHHHHHHHHHHCC
T ss_conf             99612379986972899999999999999997599789934857989999999998699246526787478999998338


Q ss_pred             HCCCCCEEEEHHHHHCCCCC---CCCCE-EEEECCCC----------------------CCC-----CC--CHHHHHHHH
Q ss_conf             31898699984587535787---77117-99962885----------------------674-----44--601377665
Q gi|254780991|r  629 RLGKFDVLVGINLLREGLDI---PECGL-VAILDADK----------------------EGF-----LR--SKTSLIQTI  675 (805)
Q Consensus       629 ~~g~~diLvgt~~~akGlD~---p~v~l-V~i~dAD~----------------------~~f-----~~--~~~~~~q~~  675 (805)
                      +.|.  |-|+|||+.||-||   +++.. +..+.+|.                      .|+     -|  |-|-=-|--
T Consensus       491 ~~ga--VTIATNMAGRGTDI~LGg~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~v~~~GGL~VigterhesrRiD~QLr  568 (896)
T PRK13104        491 RPGA--VTIATNMAGRGTDIVLGGSLAADLANLPADASEQEKEAVKKEWQKRHDEVIAAGGLRIIGSERHESRRIDNQLR  568 (896)
T ss_pred             CCCC--EEECCCCCCCCCCCCCCCCCHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCHHHHHHHHHH
T ss_conf             9996--89716556888582178751244430565511667999999999853344205872898604331246777860


Q ss_pred             HHHCC-CCCCEEEEEECCCCHHHHHHH
Q ss_conf             43127-998669998248988999999
Q gi|254780991|r  676 GRAAR-NVNSKVILYADTITKSIQLAI  701 (805)
Q Consensus       676 GRagR-~~~G~~il~ad~~t~~~~~ai  701 (805)
                      ||+|| |.+|...+|....++-|..+-
T Consensus       569 GRaGRQGDPG~s~F~lSleDdLmr~Fg  595 (896)
T PRK13104        569 GRAGRQGDPGSSRFYLSLEDNLMRIFA  595 (896)
T ss_pred             CCCCCCCCCCCCEEEEECCHHHHHHHC
T ss_conf             532456899863266533379998746


No 114
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=98.67  E-value=6.4e-06  Score=62.86  Aligned_cols=143  Identities=20%  Similarity=0.178  Sum_probs=106.3

Q ss_pred             CCCCCCC-CCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHH
Q ss_conf             2446772-000013310168899999986302321246621478999999998635966873257645789999999973
Q gi|254780991|r  551 PTGLVDP-PVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLR  629 (805)
Q Consensus       551 ptg~idp-~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~  629 (805)
                      |....|- ...-+......+-++++|..+-.+|.=+||+|.+-...|.|+..|...||....+...-...+-+-|-+.=+
T Consensus       394 p~~R~d~~d~vy~t~~~k~~av~~ei~~~~~~gqPvLvgt~sve~Se~ls~~L~~~~i~h~vLNAk~~~~EA~Iia~AG~  473 (885)
T PRK12903        394 PVIRKDEPDSIFGTKHAKWKAVVKEVKRVHEKGQPILIGTAQVEDSEQLHEYLLEANIPHTVLNAKQHAREAEIIAKAGQ  473 (885)
T ss_pred             CCEEECCCCHHHCCHHHHHHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHHCCCCCEEEECCCHHHHHHHHHHCCC
T ss_conf             85214283231078999999999999999857998899568479999999999856877035546865889999995489


Q ss_pred             CCCCCEEEEHHHHHCCCCCCC---CC-----EEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHH
Q ss_conf             189869998458753578777---11-----7999628856744460137766543127-99866999824898899999
Q gi|254780991|r  630 LGKFDVLVGINLLREGLDIPE---CG-----LVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLA  700 (805)
Q Consensus       630 ~g~~diLvgt~~~akGlD~p~---v~-----lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~a  700 (805)
                      .|.  |-|+|||+.||-||--   |.     +|+-..     ---|-|-=-|--||||| |.+|...+|....+.-|..+
T Consensus       474 ~g~--VTiATNMAGRGTDI~Lg~~v~~~GGL~Vigte-----rhesrRiD~QLrGR~gRQGDpG~s~f~~SleD~lmr~F  546 (885)
T PRK12903        474 KGA--ITIATNMAGRGTDIKLSKGVLELGGLYVLGTE-----KAESRRIDNQLRGRSGRQGDVGESRFFISLDDQLFRRF  546 (885)
T ss_pred             CCC--EEEECCCCCCCCCCCCCHHHHHCCCEEEEECC-----CCCCHHHHHHHCCCCCCCCCCCCEEEEEECCHHHHHHH
T ss_conf             991--89837667899685741658972985898426-----56204588886074346899973599997264899974


No 115
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker  B motif (motif II). This domain contains the ATP- binding region.
Probab=98.66  E-value=1.1e-06  Score=68.62  Aligned_cols=151  Identities=23%  Similarity=0.198  Sum_probs=94.5

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHH-HHHHC-------CCCEEEEECCHHHHHHHHHHHHHHCCC-
Q ss_conf             888438999999998873973379986337646999999-99971-------997899931634689999999986789-
Q gi|254780991|r  149 PSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAK-VIEAM-------QRPAIVMAPNKILAAQLYSEFKNFFPH-  219 (805)
Q Consensus       149 P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~-lI~~~-------gr~aLvLvPei~La~QL~~rfk~~Fp~-  219 (805)
                      |+.=|.+||..+.+    | +..+...-||||||..|+= ++++.       +-++|||+|..-||.|.++.|+.+-.. 
T Consensus        22 pt~IQ~~~ip~il~----g-~dvi~~a~TGSGKTlay~lpil~~l~~~~~~~~~~alil~PTrELa~Qi~~~~~~l~~~~   96 (203)
T cd00268          22 PTPIQARAIPPLLS----G-RDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKLGKHT   96 (203)
T ss_pred             CCHHHHHHHHHHHC----C-CCEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCEEEEEECCHHHHHHHHHHHHHHCCCC
T ss_conf             99999999999977----9-988997579972228888699999861667689669999687999999999999850579


Q ss_pred             -CEEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCC----CCCHHHHHCCE
Q ss_conf             -8389986213444421015554321022103588999999999999854998499827789616----89834772257
Q gi|254780991|r  220 -NAVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYG----IGSVESYSQMI  294 (805)
Q Consensus       220 -n~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfg----l~~P~~~lglI  294 (805)
                       -.+..+++..+                    .+++        ...+ .....|||||...++-    -...+.++.++
T Consensus        97 ~i~~~~~~gg~~--------------------~~~~--------~~~l-~~~~~IlI~TPgrl~~~l~~~~~~l~~l~~l  147 (203)
T cd00268          97 NLKVVVIYGGTS--------------------IDKQ--------IRKL-KRGPHIVVATPGRLLDLLERGKLDLSKVKYL  147 (203)
T ss_pred             CEEEEEEECCCC--------------------HHHH--------HHHH-HCCCEEEEECCHHHHHHHHCCCCCCCCCCEE
T ss_conf             838999838988--------------------7999--------9998-5387599968189999998488651322489


Q ss_pred             EEEECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHH-CCCCEEEECCCCCHH
Q ss_conf             99941981117875323431176563387754533-187247831788877
Q gi|254780991|r  295 VQLKIGDSVEQKELLSSLVKQQYKRQDIGIIRGTF-RVCGDSIEIFPSHLE  344 (805)
Q Consensus       295 IvdEehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f-~~rg~ILdsatps~E  344 (805)
                      |+||.+.-.+          .+|.. ++...-..+ ..+-.++=|||-+-+
T Consensus       148 VlDEAD~ll~----------~gf~~-~i~~I~~~l~~~~Q~~lfSAT~~~~  187 (203)
T cd00268         148 VLDEADRMLD----------MGFED-QIREILKLLPKDRQTLLFSATMPKE  187 (203)
T ss_pred             EEECHHHHHH----------CCCHH-HHHHHHHHCCCCCEEEEEEECCCHH
T ss_conf             9985888874----------77699-9999998589677799998049988


No 116
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=98.65  E-value=1.3e-06  Score=68.07  Aligned_cols=139  Identities=19%  Similarity=0.195  Sum_probs=104.1

Q ss_pred             CCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEE
Q ss_conf             20000133101688999999863023212466214789999999986359668732576457899999999731898699
Q gi|254780991|r  557 PPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVL  636 (805)
Q Consensus       557 p~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diL  636 (805)
                      |...-+......+-++++|.++-.+|.=+||+|.+-...|.|+..|...||...-+...-...+-+-|-+.=+.|.  |-
T Consensus       543 ~D~vy~T~~~K~~Avi~eI~~~h~~GqPVLVGT~SVe~SE~lS~~L~~~gI~H~VLNAK~h~~EAeIIA~AG~~Ga--VT  620 (969)
T PRK12899        543 NDEFYMTEREKYHAIVNEIASIHRSGNPILIGTESVEVSEKLSRILRQNRIEHTVLNAKNHAQEAEIIAGAGKLGA--VT  620 (969)
T ss_pred             CCEEECCHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHCCCCHHHCCCHHHHHHHHHHHHCCCCCC--EE
T ss_conf             8838528999999999999999957998899838579999999999986996454151117899999995599997--79


Q ss_pred             EEHHHHHCCCCCCCCCEEEEECCCCCCC--CCCH-----HHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHH
Q ss_conf             9845875357877711799962885674--4460-----137766543127-998669998248988999999
Q gi|254780991|r  637 VGINLLREGLDIPECGLVAILDADKEGF--LRSK-----TSLIQTIGRAAR-NVNSKVILYADTITKSIQLAI  701 (805)
Q Consensus       637 vgt~~~akGlD~p~v~lV~i~dAD~~~f--~~~~-----~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai  701 (805)
                      |+|||+.||-||---.=  +.+  ..|+  ...|     |-=-|-.||+|| |.+|...+|....++-|..+-
T Consensus       621 IATNMAGRGTDIkL~~~--V~~--lGGLhVIGTERHESRRIDnQLRGRaGRQGDPGsS~F~lSLEDdLmR~Fg  689 (969)
T PRK12899        621 VATNMAGRGTDIKLDEE--AVA--VGGLHVIGTSRHQSRRIDRQLRGRCARLGDPGAAKFFLSFEDRLMRLFA  689 (969)
T ss_pred             EECCCCCCCCCCCCCCC--HHH--CCCEEEEECCCCHHHHHHHHHHCCCCCCCCCCCCEEEEEHHHHHHHHHC
T ss_conf             71326789858313813--343--3872785214340145776760331347899853267651268998743


No 117
>pfam04851 ResIII Type III restriction enzyme, res subunit.
Probab=98.65  E-value=1.8e-07  Score=74.58  Aligned_cols=58  Identities=40%  Similarity=0.517  Sum_probs=50.3

Q ss_pred             CCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC---CCCEEEEECCHHHHHHHHHHH
Q ss_conf             843899999999887397337998633764699999999971---997899931634689999999
Q gi|254780991|r  151 GDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM---QRPAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       151 gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~---gr~aLvLvPei~La~QL~~rf  213 (805)
                      ..|.+|++++..   .  +..++...||||||.+++.+|++.   ++.+||+||.+.|..|+.++|
T Consensus         6 ~yQ~~a~~~~~~---~--~~~~i~~pTGsGKT~~~~~~i~~~~~~~~~~lvlvp~~~L~~Q~~~~~   66 (103)
T pfam04851         6 PYQIEAIRNLLE---K--KRGLIVMATGSGKTLTAAKLIARLLKGKKKVLFLVPRKDLLEQALEEF   66 (103)
T ss_pred             HHHHHHHHHHHH---C--CCEEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHH
T ss_conf             999999999996---3--986999589998799999999999846992999908299999999965


No 118
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=98.63  E-value=1e-06  Score=68.86  Aligned_cols=147  Identities=20%  Similarity=0.242  Sum_probs=104.8

Q ss_pred             CCCCCCCCC-CEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHH
Q ss_conf             124467720-0001331016889999998630232124662147899999999863596687325764578999999997
Q gi|254780991|r  550 RPTGLVDPP-VEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDL  628 (805)
Q Consensus       550 rptg~idp~-ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~  628 (805)
                      +|..-.|-+ ..-+....+.+-++++|.++-.+|.=+||+|.+-...|.|+..|...||...-+...-...+-+-|-+.=
T Consensus       397 ~p~~R~d~~d~iy~t~~~K~~ai~~ei~~~~~~gqPvLvGT~sve~SE~ls~~L~~~~i~h~vLNAk~~~~EA~Iia~AG  476 (833)
T PRK12904        397 RPMIRIDHPDLIYKTEKEKFDAVVEDIKERHKKGQPVLVGTTSIEKSELLSKLLKKAGIPHNVLNAKNHEREAEIIAQAG  476 (833)
T ss_pred             CCCEEEECCCCEECCHHHHHHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHHCCCCHHHCCCCHHHHHHHHHHHCC
T ss_conf             98543608870207999999999999999997699789942747989999999987378277617736666889999559


Q ss_pred             HCCCCCEEEEHHHHHCCCCCCCCCEEEEEC----------------------CC------CCCC-----CC--CHHHHHH
Q ss_conf             318986999845875357877711799962----------------------88------5674-----44--6013776
Q gi|254780991|r  629 RLGKFDVLVGINLLREGLDIPECGLVAILD----------------------AD------KEGF-----LR--SKTSLIQ  673 (805)
Q Consensus       629 ~~g~~diLvgt~~~akGlD~p~v~lV~i~d----------------------AD------~~~f-----~~--~~~~~~q  673 (805)
                      +.|.  |-|+|||+.||-||---   |+.+                      ++      ..|+     -|  |-|-=-|
T Consensus       477 ~~ga--VTiATNMAGRGTDI~LG---Gn~e~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~GGL~VigterhesrRiD~Q  551 (833)
T PRK12904        477 RPGA--VTIATNMAGRGTDIKLG---GNPEMLAAGLEDETEEQIAKIKAEWQKEHEEVLEAGGLHVIGTERHESRRIDNQ  551 (833)
T ss_pred             CCCC--EEEEECCCCCCCCEECC---CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHH
T ss_conf             9997--68740256788682168---863344443200146678888888765337788638927985143334667878


Q ss_pred             HHHHHCC-CCCCEEEEEECCCCHHHHHHH
Q ss_conf             6543127-998669998248988999999
Q gi|254780991|r  674 TIGRAAR-NVNSKVILYADTITKSIQLAI  701 (805)
Q Consensus       674 ~~GRagR-~~~G~~il~ad~~t~~~~~ai  701 (805)
                      --||+|| |.+|...+|....++-|..+-
T Consensus       552 LrGR~GRQGDpG~s~f~lSleDdLmr~Fg  580 (833)
T PRK12904        552 LRGRSGRQGDPGSSRFYLSLEDDLMRIFG  580 (833)
T ss_pred             HHCCCCCCCCCCCCEEEEECCHHHHHHHH
T ss_conf             61221456899853265412089999865


No 119
>KOG0924 consensus
Probab=98.61  E-value=7.4e-06  Score=62.39  Aligned_cols=87  Identities=21%  Similarity=0.216  Sum_probs=68.4

Q ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEE--------ECCCC-----CCCCCCHHHH
Q ss_conf             5966873257645789999999973189869998458753578777117999--------62885-----6744460137
Q gi|254780991|r  605 RNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAI--------LDADK-----EGFLRSKTSL  671 (805)
Q Consensus       605 ~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i--------~dAD~-----~~f~~~~~~~  671 (805)
                      .++.+.-+-|.+.+.-..+|.+.-..|.-.|+|+||++.--|-+|++..|+-        |+.+.     .-+|-|-..-
T Consensus       596 ~~L~vlpiYSQLp~dlQ~kiFq~a~~~vRK~IvATNIAETSLTi~gI~yVID~Gy~K~kvyn~~~G~D~L~~~pIS~AnA  675 (1042)
T KOG0924         596 TDLAVLPIYSQLPADLQAKIFQKAEGGVRKCIVATNIAETSLTIPGIRYVIDTGYCKLKVYNPRIGMDALQIVPISQANA  675 (1042)
T ss_pred             CCEEEEEEHHHCCHHHHHHHCCCCCCCCEEEEEECCCHHHCEEECCEEEEEECCCEEEEECCCCCCCCEEEEEECHHCCC
T ss_conf             86278840552866666433056888812699862211211332664899725724564105665642257875122131


Q ss_pred             HHHHHHHCCCCCCEEE-EEEC
Q ss_conf             7665431279986699-9824
Q gi|254780991|r  672 IQTIGRAARNVNSKVI-LYAD  691 (805)
Q Consensus       672 ~q~~GRagR~~~G~~i-l~ad  691 (805)
                      -|++|||||-.+|.++ +|+.
T Consensus       676 ~QRaGRAGRt~pG~cYRlYTe  696 (1042)
T KOG0924         676 DQRAGRAGRTGPGTCYRLYTE  696 (1042)
T ss_pred             HHHCCCCCCCCCCCEEEEHHH
T ss_conf             011244578899626530236


No 120
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=98.61  E-value=1.6e-06  Score=67.36  Aligned_cols=146  Identities=17%  Similarity=0.163  Sum_probs=108.2

Q ss_pred             CCCCCCC-CCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHH
Q ss_conf             1244677-200001331016889999998630232124662147899999999863596687325764578999999997
Q gi|254780991|r  550 RPTGLVD-PPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDL  628 (805)
Q Consensus       550 rptg~id-p~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~  628 (805)
                      +|..-.| |...-+....+.+-++++|.++..+|.=+||+|.+-...|.|+..|...||....+...-...+-+-|-+.=
T Consensus       455 rP~~R~D~~D~vy~t~~~K~~Aii~ei~~~~~~GqPVLVGT~SVe~SE~lS~~L~~~gi~h~VLNAk~~~~EA~IIA~AG  534 (673)
T PRK12898        455 RPSQRIVLPTEVFLTLAAKWAAVAARVRELHASGRPVLVGTRSVAASERLSALLREAGLPHQVLNAKQDAEEAAIVARAG  534 (673)
T ss_pred             CCCCCEECCCEEECCHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHCCCCHHHCCCCCHHHHHHHHHHCC
T ss_conf             97301237985856999999999999999986799889983758999999999998699756647866687999999439


Q ss_pred             HCCCCCEEEEHHHHHCCCCCCC---CC-----EEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHH
Q ss_conf             3189869998458753578777---11-----7999628856744460137766543127-9986699982489889999
Q gi|254780991|r  629 RLGKFDVLVGINLLREGLDIPE---CG-----LVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQL  699 (805)
Q Consensus       629 ~~g~~diLvgt~~~akGlD~p~---v~-----lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~  699 (805)
                      +.|.  |-|+|||+.||-||--   |.     +|+...     ---|-+-=-|-.||+|| |.+|...+|....++-|..
T Consensus       535 ~~Ga--VTIATNMAGRGTDI~Lg~~V~~~GGLhVIgTe-----rheSrRIDnQLrGRsGRQGDPGss~f~lSleDdL~r~  607 (673)
T PRK12898        535 QRGR--ITVATNMAGRGTDIKLEPEVAARGGLHVILTE-----RHESARIDRQLAGRCGRQGDPGSSEAILSLEDDLLQQ  607 (673)
T ss_pred             CCCC--EEEECCCCCCCCCCCCCHHHHHCCCCEEEECC-----CCCHHHHHHHHHCCCCCCCCCCCEEEEEEECHHHHHH
T ss_conf             9998--79702367898684767678862898898437-----5511245656423544689998514899814678987


Q ss_pred             HHH
Q ss_conf             999
Q gi|254780991|r  700 AID  702 (805)
Q Consensus       700 ai~  702 (805)
                      +..
T Consensus       608 f~~  610 (673)
T PRK12898        608 FLP  610 (673)
T ss_pred             HCC
T ss_conf             570


No 121
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=98.58  E-value=1.2e-05  Score=60.96  Aligned_cols=97  Identities=22%  Similarity=0.263  Sum_probs=76.0

Q ss_pred             CCCCCCC-CCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCC--HHHHHHHHH
Q ss_conf             1244677-2000013310168899999986302321246621478999999998635966873257645--789999999
Q gi|254780991|r  550 RPTGLVD-PPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVK--TLERIEIIR  626 (805)
Q Consensus       550 rptg~id-p~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~--~~~r~~il~  626 (805)
                      +|..-.| |...-+......+-++.+|.++-.+|.=+||+|.+-...|.|+..|...||...-+..--.  ..+-+-|-+
T Consensus       391 ~p~~R~D~~d~vy~t~~~K~~Av~~ei~~~h~~GqPVLvGT~SVe~SE~ls~~L~~~gi~h~vLNAk~~n~~~EA~IiA~  470 (891)
T CHL00122        391 RPMQRKDLPDLVYKTEYSKWKAIADECFDMHKIGRPILVGTTSVEKSELLSQLLEEYQLPHNLLNAKPENVKRESEIIAQ  470 (891)
T ss_pred             CCCEEEECCCEEECCHHHHHHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHHCCCCCHHHCCCCCCHHHHHHHHHH
T ss_conf             98500308895778899999999999999996799989834655889999999997478622023884307899999995


Q ss_pred             HHHCCCCCEEEEHHHHHCCCCC
Q ss_conf             9731898699984587535787
Q gi|254780991|r  627 DLRLGKFDVLVGINLLREGLDI  648 (805)
Q Consensus       627 ~~~~g~~diLvgt~~~akGlD~  648 (805)
                      .=+.|.  |-|+|||+.||-||
T Consensus       471 AG~~ga--VTIATNMAGRGTDI  490 (891)
T CHL00122        471 AGRKGA--ITIATNMAGRGTDI  490 (891)
T ss_pred             CCCCCC--EEEECCCCCCCCCE
T ss_conf             699993--89715556898784


No 122
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=98.52  E-value=3.8e-06  Score=64.55  Aligned_cols=97  Identities=23%  Similarity=0.272  Sum_probs=75.6

Q ss_pred             CCCCCCC-CCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCC--HHHHHHHHH
Q ss_conf             1244677-2000013310168899999986302321246621478999999998635966873257645--789999999
Q gi|254780991|r  550 RPTGLVD-PPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVK--TLERIEIIR  626 (805)
Q Consensus       550 rptg~id-p~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~--~~~r~~il~  626 (805)
                      +|..-.| |...-+.....-+-++.+|.++-..|.=+||+|.+-...|.|+..|...||...-+..--.  ..+-+-|-+
T Consensus       411 ~p~~R~D~~d~vy~t~~~K~~Av~~ei~~~~~~gqPVLVGT~SVe~SE~ls~lL~~~gi~h~VLNAk~~n~~~EAeIIA~  490 (946)
T PRK12902        411 RPRRRQDWPDQVYKTEIAKWRAVANETAEMHKQGRPVLVGTTSVEKSELLSALLAEQGIPHNLLNAKPENVEREAEIVAQ  490 (946)
T ss_pred             CCCEEEECCCHHHCCHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHCCCCCCEEECCCCCCHHHHHHHHH
T ss_conf             98424627002017999999999999999975899889972757989999999985588620325786442789999994


Q ss_pred             HHHCCCCCEEEEHHHHHCCCCC
Q ss_conf             9731898699984587535787
Q gi|254780991|r  627 DLRLGKFDVLVGINLLREGLDI  648 (805)
Q Consensus       627 ~~~~g~~diLvgt~~~akGlD~  648 (805)
                      .=+.|.  |-|+|||+.||-||
T Consensus       491 AG~~ga--VTIATNMAGRGTDI  510 (946)
T PRK12902        491 AGRKGA--VTIATNMAGRGTDI  510 (946)
T ss_pred             CCCCCC--EEEECCCCCCCCCE
T ss_conf             699996--89745446898695


No 123
>KOG0390 consensus
Probab=98.46  E-value=0.00026  Score=50.80  Aligned_cols=426  Identities=17%  Similarity=0.180  Sum_probs=201.8

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHC-----CCCEEEEEEECCCCHHHHHHHHHHHC-----C-----CCEEEEECCHHHHH
Q ss_conf             751888888438999999998873-----97337998633764699999999971-----9-----97899931634689
Q gi|254780991|r  143 MQTDYHPSGDQPAAIAQLLKGIHS-----REKVQLLLGVTGSGKTFTMAKVIEAM-----Q-----RPAIVMAPNKILAA  207 (805)
Q Consensus       143 l~~~~~P~gdQ~~Ai~~L~~~l~~-----g~~~qlL~GVTGSGKTevya~lI~~~-----g-----r~aLvLvPei~La~  207 (805)
                      |..-..|  +|.++++-|...+..     +..-+.+----|+|||+..+.+|.-.     +     ..+||++| .+|-.
T Consensus       235 l~~~LrP--HQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~lVV~P-~sLv~  311 (776)
T KOG0390         235 LKKILRP--HQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPLVVAP-SSLVN  311 (776)
T ss_pred             HHHHCCC--HHHHHHHHHHHHHHCCCCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCEEECC-HHHHH
T ss_conf             7641281--57877899786411311158887547207887640788899999999868675544466079845-88887


Q ss_pred             HHHHHHHHHCCC-CEEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCC---CCEEEECCHHHH-C
Q ss_conf             999999986789-83899862134444210155543210221035889999999999998549---984998277896-1
Q gi|254780991|r  208 QLYSEFKNFFPH-NAVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLER---NDCIVVSSVSCI-Y  282 (805)
Q Consensus       208 QL~~rfk~~Fp~-n~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~---~~~IVVgsrSAI-f  282 (805)
                      -=+.+|..+.+. +...+     +.|.            -+.+    .+  +....|..+.-.   ..+.+++.-.+- +
T Consensus       312 nWkkEF~KWl~~~~i~~l-----~~~~------------~~~~----~w--~~~~sil~~~~~~~~~~vli~sye~~~~~  368 (776)
T KOG0390         312 NWKKEFGKWLGNHRINPL-----DFYS------------TKKS----SW--IKLKSILFLGYKQFTTPVLIISYETASDY  368 (776)
T ss_pred             HHHHHHHHHCCCCCCCEE-----EEEC------------CCCH----HH--HHHHHHHHHHHHHEEEEEEECCHHHHHHH
T ss_conf             899999874253555404-----5423------------4525----66--66678988622112578786369999999


Q ss_pred             CCCCHHHHHCCEEEEECCCCCCHHH-HHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHH---HH-----HHCCC
Q ss_conf             6898347722579994198111787-532343117656338775453318724783178887788---87-----31044
Q gi|254780991|r  283 GIGSVESYSQMIVQLKIGDSVEQKE-LLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDV---AW-----RVSMF  353 (805)
Q Consensus       283 gl~~P~~~lglIIvdEehd~~~~~~-~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~---~~-----Rie~f  353 (805)
                      .--.=....|+.|.||=|..=+... +.+-|....-              .-=||=+-||...++   ..     |..+.
T Consensus       369 ~~~il~~~~glLVcDEGHrlkN~~s~~~kaL~~l~t--------------~rRVLLSGTp~QNdl~EyFnlL~fvrP~~L  434 (776)
T KOG0390         369 CRKILLIRPGLLVCDEGHRLKNSDSLTLKALSSLKT--------------PRRVLLTGTPIQNDLKEYFNLLDFVRPGFL  434 (776)
T ss_pred             HHHHHCCCCCEEEECCCCCCCCHHHHHHHHHHHCCC--------------CCEEEEECCCCCCCHHHHHHHHHHCCHHHC
T ss_conf             999854789869977988856224589999974687--------------736996077533469999788851570112


Q ss_pred             CCCHHHHHCCCCCCCCHHHHCCCCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             42002221016664001110000100000000256367887545589989989988754433211001244447777533
Q gi|254780991|r  354 GNDIEEISEFYPLTGQKIRNVETIKIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEML  433 (805)
Q Consensus       354 ~deIe~I~~fDplT~~~~~~~~~~~i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l  433 (805)
                      +...+-..            ..+..+........+.+....                            .+|+..-.+|.
T Consensus       435 gs~~sf~k------------~~~~~i~~~~~~~~s~e~~~~----------------------------~~rl~eL~~~t  474 (776)
T KOG0390         435 GSISSFKK------------KFEIPILRGRDADASEEDRER----------------------------EERLQELRELT  474 (776)
T ss_pred             CCHHHHHH------------HHHCCCCCCCCCCCCHHHHHH----------------------------HHHHHHHHHHH
T ss_conf             55378887------------751344235677855354525----------------------------79999999999


Q ss_pred             HHCCCCCCCCHHHHHHCCCCCCCCCHHHHHCCCC--CCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC---CCCC
Q ss_conf             2112014510113331144655562023302654--4213210123447544543245654133323576655---4443
Q gi|254780991|r  434 ETTGSCQSIENYSRYLTGRNPGEPPPTLFEYIPE--DSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRL---PSCM  508 (805)
Q Consensus       434 ~e~G~~~gienyS~~L~~r~~ge~P~tL~dY~p~--d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrl---p~~~  508 (805)
                      +.+.+...-.                -+..|+|.  +..++|--++........-..+. .+ ..+..+.+.+   -+..
T Consensus       475 ~~fi~rrt~~----------------il~k~LP~k~e~vv~~n~t~~Q~~~~~~l~~~~-~~-~~~~~~~l~~~~~L~k~  536 (776)
T KOG0390         475 NKFILRRTGD----------------ILLKYLPGKYEYVVFCNPTPIQKELYKKLLDSM-KM-RTLKGYALELITKLKKL  536 (776)
T ss_pred             HHHEEECCCC----------------HHHHHCCCCEEEEEEECCCHHHHHHHHHHHHHH-HH-HHHHCCHHHHHHHHHHH
T ss_conf             7652211120----------------345538885469999578089999999998777-76-54313225588998987


Q ss_pred             CCCCCCCC--CHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCC-CEECCCCCH-HHHHHHHHHHHHHCCCC
Q ss_conf             22211101--001215554544468675420132200234320124467720-000133101-68899999986302321
Q gi|254780991|r  509 DNRPLRFE--EWNCLRPTTIVVSATPGSWELEQCQGIIVEQIIRPTGLVDPP-VEIRSARTQ-VEDVYDEINLAAQQGLR  584 (805)
Q Consensus       509 ~n~pl~f~--e~~~~~~~~~~~satPg~~e~e~~~~~~~eqi~rptg~idp~-ieir~~~~q-vddl~~ei~~~~~~~~R  584 (805)
                      ||+|.-..  +.++                  +....+     -|..+++|. ....+.++. .-.++.-+.-.....++
T Consensus       537 cnhP~L~~~~~~~~------------------~e~~~~-----~~~~~~~~~~~~~~~~~~~ks~kl~~L~~ll~~~~ek  593 (776)
T KOG0390         537 CNHPSLLLLCEKTE------------------KEKAFK-----NPALLLDPGKLKLDAGDGSKSGKLLVLVFLLEVIREK  593 (776)
T ss_pred             HCCHHHHCCCCCCC------------------CCCCCC-----CHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             36877631332234------------------441226-----8576503212466655511566899999999998652


Q ss_pred             CCC-------CCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCC---EEEEHHHHHCCCCCCCCCEE
Q ss_conf             246-------62147899999999863596687325764578999999997318986---99984587535787771179
Q gi|254780991|r  585 ILL-------TVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFD---VLVGINLLREGLDIPECGLV  654 (805)
Q Consensus       585 ~l~-------~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~d---iLvgt~~~akGlD~p~v~lV  654 (805)
                      +++       .+.|..+-+.+.++   +|.....|||++...+|+.++..|....-.   .|.-+--=+.||.+=+-+-|
T Consensus       594 ~~~~~v~Isny~~tldl~e~~~~~---~g~~~~rLdG~~~~~qRq~~vd~FN~p~~~~~vfLlSsKAgg~GinLiGAsRl  670 (776)
T KOG0390         594 LLVKSVLISNYTQTLDLFEQLCRW---RGYEVLRLDGKTSIKQRQKLVDTFNDPESPSFVFLLSSKAGGEGLNLIGASRL  670 (776)
T ss_pred             CCEEEEEECCHHHHHHHHHHHHHH---CCCEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEEEECCCCCCCEEECCCCEE
T ss_conf             231799962289999999999765---38448997387766888899873359988741899854455576320134038


Q ss_pred             EEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHH
Q ss_conf             99628856744460137766543127-99866999824898899
Q gi|254780991|r  655 AILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSI  697 (805)
Q Consensus       655 ~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~  697 (805)
                      +++|.|-     ++-.=-|.+.||=| |.+-.|..|-=-.++..
T Consensus       671 il~D~dW-----NPa~d~QAmaR~~RdGQKk~v~iYrLlatGti  709 (776)
T KOG0390         671 ILFDPDW-----NPAVDQQAMARAWRDGQKKPVYIYRLLATGTI  709 (776)
T ss_pred             EEECCCC-----CCHHHHHHHHHHCCCCCCCEEEEEEEECCCCC
T ss_conf             9957999-----82367899997645787426899996327981


No 124
>KOG0923 consensus
Probab=98.45  E-value=9.6e-06  Score=61.57  Aligned_cols=79  Identities=28%  Similarity=0.355  Sum_probs=64.3

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCC------------------CH
Q ss_conf             668732576457899999999731898699984587535787771179996288567444------------------60
Q gi|254780991|r  607 IRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLR------------------SK  668 (805)
Q Consensus       607 i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~------------------~~  668 (805)
                      +.+.-+++.+.+....+|.+---.|.=.|+++||++.--|-|++|.+|+  |   |||-.                  |-
T Consensus       507 liv~PiYaNLPselQakIFePtP~gaRKVVLATNIAETSlTIdgI~yVi--D---pGf~K~nsynprtGmesL~v~piSK  581 (902)
T KOG0923         507 LIVLPIYANLPSELQAKIFEPTPPGARKVVLATNIAETSLTIDGIKYVI--D---PGFVKQNSYNPRTGMESLLVTPISK  581 (902)
T ss_pred             EEEEECCCCCCHHHHHHHCCCCCCCCEEEEEEECCHHHCEEECCEEEEE--C---CCCCCCCCCCCCCCCEEEEEEEECH
T ss_conf             7984000469868887635889988504898611012105446758996--6---7621124768776850677763110


Q ss_pred             HHHHHHHHHHCCCCCCEEE-EEE
Q ss_conf             1377665431279986699-982
Q gi|254780991|r  669 TSLIQTIGRAARNVNSKVI-LYA  690 (805)
Q Consensus       669 ~~~~q~~GRagR~~~G~~i-l~a  690 (805)
                      -|-.||+|||||-.+|++. ||+
T Consensus       582 AsA~QRaGRAGRtgPGKCfRLYt  604 (902)
T KOG0923         582 ASANQRAGRAGRTGPGKCFRLYT  604 (902)
T ss_pred             HHHHHHCCCCCCCCCCCEEEEEC
T ss_conf             00444423457889972578500


No 125
>KOG0926 consensus
Probab=98.38  E-value=6.6e-06  Score=62.78  Aligned_cols=87  Identities=28%  Similarity=0.304  Sum_probs=66.7

Q ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCC-------C---C---CCCHHHH
Q ss_conf             5966873257645789999999973189869998458753578777117999628856-------7---4---4460137
Q gi|254780991|r  605 RNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKE-------G---F---LRSKTSL  671 (805)
Q Consensus       605 ~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~-------~---f---~~~~~~~  671 (805)
                      ..+.+.-+-|-+++.+..++...--.|.-=|+|+||++.--|-||+|..|+--.--++       |   |   +-|--|-
T Consensus       603 ~pLyvLPLYSLLs~~~Q~RVF~~~p~g~RLcVVaTNVAETSLTIPgIkYVVD~Gr~K~R~Yd~~TGV~~FeV~wiSkASa  682 (1172)
T KOG0926         603 GPLYVLPLYSLLSTEKQMRVFDEVPKGERLCVVATNVAETSLTIPGIKYVVDCGRVKERLYDSKTGVSSFEVDWISKASA  682 (1172)
T ss_pred             CCEEEEEHHHHCCHHHHHHHCCCCCCCCEEEEEECCCHHCCCCCCCEEEEEECCCHHHHCCCCCCCCEEEEEEEEECCCC
T ss_conf             86288645653487876321157988736899961300103005872699746504433034446712689876402562


Q ss_pred             HHHHHHHCCCCCCEEE-EEEC
Q ss_conf             7665431279986699-9824
Q gi|254780991|r  672 IQTIGRAARNVNSKVI-LYAD  691 (805)
Q Consensus       672 ~q~~GRagR~~~G~~i-l~ad  691 (805)
                      -||+|||||-..|+++ ||..
T Consensus       683 dQRAGRAGRtgpGHcYRLYSS  703 (1172)
T KOG0926         683 DQRAGRAGRTGPGHCYRLYSS  703 (1172)
T ss_pred             CHHCCCCCCCCCCCEEEHHHH
T ss_conf             111344578888711101346


No 126
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=98.15  E-value=0.0012  Score=45.93  Aligned_cols=124  Identities=14%  Similarity=0.057  Sum_probs=83.0

Q ss_pred             CHHHHHHHHHHHHHHCCC-CCCCCCHHHHHHHHHHHHHHHC-CCEEEECCCCCC-HHHHHHHHHHHHCCCCCEEEEHHHH
Q ss_conf             016889999998630232-1246621478999999998635-966873257645-7899999999731898699984587
Q gi|254780991|r  566 TQVEDVYDEINLAAQQGL-RILLTVLTKRMAEDLTEYLYER-NIRVRYMHSEVK-TLERIEIIRDLRLGKFDVLVGINLL  642 (805)
Q Consensus       566 ~qvddl~~ei~~~~~~~~-R~l~~~~tkr~~e~l~~~~~~~-~i~~~~~h~~~~-~~~r~~il~~~~~g~~diLvgt~~~  642 (805)
                      ..++++.++|...+.... |+||.-...++.+.+++.+... ......-+.+.. ..-+.+.++.|+.++--||.||+=+
T Consensus       453 ~~~~~l~~~l~~li~~~~Gr~LvLFTS~r~~~~~ae~l~~~l~~~~l~Qge~~~~~~l~~~~~~~f~~~~~svLfGT~Sf  532 (636)
T TIGR03117       453 TWLENVSLSTAAILRKAQGGTLVLTTAFSHISAIGQLVELGIPAEIVIQSEKNRLASAEQQFLALYANGIQPVLIAAGGA  532 (636)
T ss_pred             HHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHCCCCCEEEECCCCCHHHHHHHHHHHHHCCCCCEEEECCCC
T ss_conf             68999999999999870798899704099999999999722788658745764035689999998727899689867764


Q ss_pred             HCCCCCC----------CCCEEEEECCCC---------------CCCCCCH--H---HHHHHHHHHCCC----CCCEEEE
Q ss_conf             5357877----------711799962885---------------6744460--1---377665431279----9866999
Q gi|254780991|r  643 REGLDIP----------ECGLVAILDADK---------------EGFLRSK--T---SLIQTIGRAARN----VNSKVIL  688 (805)
Q Consensus       643 akGlD~p----------~v~lV~i~dAD~---------------~~f~~~~--~---~~~q~~GRagR~----~~G~~il  688 (805)
                      -+|+|+|          -+++|+|--..-               .||+-..  +   .|-|=+||-=|.    .+|.|.+
T Consensus       533 WEGVDvpG~~~~~~~Gd~Ls~VII~rLPF~~p~~p~~~~r~~~~~g~~~~~vp~A~i~lkQG~GRLIRs~d~~D~G~vai  612 (636)
T TIGR03117       533 WTGIDLTHKPVSPDKDNLLTDLIITCAPFGLNRSLSMLKRIRKTSVRPWEIINESLMMLRQGLGRLVRHPDMPQNRRIHM  612 (636)
T ss_pred             CCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCEECCCCCCCCEEEEE
T ss_conf             06625788666788777420665756998999878999999714998777799999999774573031477889658999


Q ss_pred             E
Q ss_conf             8
Q gi|254780991|r  689 Y  689 (805)
Q Consensus       689 ~  689 (805)
                      .
T Consensus       613 L  613 (636)
T TIGR03117       613 L  613 (636)
T ss_pred             E
T ss_conf             6


No 127
>KOG0385 consensus
Probab=98.14  E-value=0.0012  Score=45.85  Aligned_cols=398  Identities=19%  Similarity=0.217  Sum_probs=216.0

Q ss_pred             CHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHH------HCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEE
Q ss_conf             438999999998873973379986337646999999999------71997899931634689999999986789838998
Q gi|254780991|r  152 DQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIE------AMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYF  225 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~------~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f  225 (805)
                      -|-+-++=|..-.++|-. ..|--=-|=|||.--+.++.      ....|-||++|--+|. .-..+|+.|-|+-.|..|
T Consensus       171 YQveGlnWLi~l~engin-gILaDEMGLGKTlQtIs~l~yl~~~~~~~GPfLVi~P~StL~-NW~~Ef~rf~P~l~~~~~  248 (971)
T KOG0385         171 YQLEGLNWLISLYENGIN-GILADEMGLGKTLQTISLLGYLKGRKGIPGPFLVIAPKSTLD-NWMNEFKRFTPSLNVVVY  248 (971)
T ss_pred             HHHCCHHHHHHHHHCCCC-CEEEHHCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEEHHHHH-HHHHHHHHHCCCCCEEEE
T ss_conf             320337999999865766-584231045338999999999998517999849981276678-999999976898634988


Q ss_pred             EECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHH-CCCCEEEECCHHHHCCCCCHH--HHHCCEEEEECCCC
Q ss_conf             621344442101555432102210358899999999999985-499849982778961689834--77225799941981
Q gi|254780991|r  226 VSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLL-ERNDCIVVSSVSCIYGIGSVE--SYSQMIVQLKIGDS  302 (805)
Q Consensus       226 ~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~-~~~~~IVVgsrSAIfgl~~P~--~~lglIIvdEehd~  302 (805)
                      |+-                           ..+|..-.+.+. .++-.|+|.|---+..--..+  -+-..+|+||-|--
T Consensus       249 ~Gd---------------------------k~eR~~~~r~~~~~~~fdV~iTsYEi~i~dk~~lk~~~W~ylvIDEaHRi  301 (971)
T KOG0385         249 HGD---------------------------KEERAALRRDIMLPGRFDVCITSYEIAIKDKSFLKKFNWRYLVIDEAHRI  301 (971)
T ss_pred             ECC---------------------------HHHHHHHHHHHHCCCCCCEEEEHHHHHHHHHHHHHCCCCEEEEECHHHHH
T ss_conf             479---------------------------99999999985315787668640788986688986199349995236541


Q ss_pred             CCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHH--HH------HCCCCCCHHHHHCCCCCCCCHHHHC
Q ss_conf             117875323431176563387754533187247831788877888--73------1044420022210166640011100
Q gi|254780991|r  303 VEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVA--WR------VSMFGNDIEEISEFYPLTGQKIRNV  374 (805)
Q Consensus       303 ~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~--~R------ie~f~deIe~I~~fDplT~~~~~~~  374 (805)
                      -+......             ..--+|...--+|=..||-.....  |.      ...|++.-+--..||-.        
T Consensus       302 KN~~s~L~-------------~~lr~f~~~nrLLlTGTPLQNNL~ELWaLLnFllPdiF~~~e~F~swF~~~--------  360 (971)
T KOG0385         302 KNEKSKLS-------------KILREFKTDNRLLLTGTPLQNNLHELWALLNFLLPDIFNSAEDFDSWFDFT--------  360 (971)
T ss_pred             CCHHHHHH-------------HHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHCHHHCCCHHHHHHHHCCC--------
T ss_conf             46244899-------------999985665526752785436499999999762214205788999997113--------


Q ss_pred             CCCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHCCCCCCCCHHHHHHC
Q ss_conf             00100000000256367887545589989989988754433211001244447777533----21120145101133311
Q gi|254780991|r  375 ETIKIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEML----ETTGSCQSIENYSRYLT  450 (805)
Q Consensus       375 ~~~~i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l----~e~G~~~gienyS~~L~  450 (805)
                                   ..+.        ..++..+   +.    ..---++.+|+..++++.    .+.....|...--.-+ 
T Consensus       361 -------------~~~~--------~~e~v~~---Lh----~vL~pFlLRR~K~dVe~sLppKkE~~iyvgms~mQkk~-  411 (971)
T KOG0385         361 -------------NCEG--------DQELVSR---LH----KVLRPFLLRRIKSDVEKSLPPKKELIIYVGMSSMQKKW-  411 (971)
T ss_pred             -------------CCCC--------CHHHHHH---HH----HHHHHHHHHHHHHHHHHCCCCCCEEEEEECCHHHHHHH-
T ss_conf             -------------4335--------5899999---99----86638999998887874189753267860650889999-


Q ss_pred             CCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCC
Q ss_conf             44655562023302654421321012344754454324565413332357665544432221110100121555454446
Q gi|254780991|r  451 GRNPGEPPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSA  530 (805)
Q Consensus       451 ~r~~ge~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~sa  530 (805)
                                    .  ..++.     ..++.+.+-..++..|   |.+----| .-+||+|.-|+.            +
T Consensus       412 --------------Y--~~iL~-----kdl~~~n~~~~~~k~k---L~NI~mQL-RKccnHPYLF~g------------~  454 (971)
T KOG0385         412 --------------Y--KAILM-----KDLDALNGEGKGEKTK---LQNIMMQL-RKCCNHPYLFDG------------A  454 (971)
T ss_pred             --------------H--HHHHH-----HCCHHHCCCCCCCHHH---HHHHHHHH-HHHCCCCCCCCC------------C
T ss_conf             --------------9--99996-----1137542666320378---99999999-974699641488------------8


Q ss_pred             CCCCCCCHHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEE
Q ss_conf             86754201322002343201244677200001331016889999998630232124662147899999999863596687
Q gi|254780991|r  531 TPGSWELEQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVR  610 (805)
Q Consensus       531 tPg~~e~e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~  610 (805)
                      -||+.-                 ..|..  +-...|.+--|-.-+.+....|.|||+|.---+|-+-|-.|+.-+++.--
T Consensus       455 ePg~py-----------------ttdeh--Lv~nSGKm~vLDkLL~~Lk~~GhRVLIFSQmt~mLDILeDyc~~R~y~yc  515 (971)
T KOG0385         455 EPGPPY-----------------TTDEH--LVTNSGKMLVLDKLLPKLKEQGHRVLIFSQMTRMLDILEDYCMLRGYEYC  515 (971)
T ss_pred             CCCCCC-----------------CCCCH--HHHCCCCEEHHHHHHHHHHHCCCEEEEEHHHHHHHHHHHHHHHHCCCEEE
T ss_conf             889998-----------------86217--87547611169988899984897699826988899999999875175268


Q ss_pred             ECCCCCCHHHHHHHHHHHHCCC---CCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEE
Q ss_conf             3257645789999999973189---869998458753578777117999628856744460137766543127-998669
Q gi|254780991|r  611 YMHSEVKTLERIEIIRDLRLGK---FDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKV  686 (805)
Q Consensus       611 ~~h~~~~~~~r~~il~~~~~g~---~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~  686 (805)
                      -+||...-.+|...++.|..-.   +=.|+.|---.=|+.+-....|++||-|-     +++.=.|..-||-| |..-.|
T Consensus       516 RiDGSt~~eeR~~aI~~fn~~~s~~FiFlLSTRAGGLGINL~aADtVIlyDSDW-----NPQ~DLQAmDRaHRIGQ~K~V  590 (971)
T KOG0385         516 RLDGSTSHEEREDAIEAFNAPPSEKFIFLLSTRAGGLGINLTAADTVILYDSDW-----NPQVDLQAMDRAHRIGQKKPV  590 (971)
T ss_pred             EECCCCCCHHHHHHHHHCCCCCCCEEEEEEECCCCCCCCCCCCCCEEEEECCCC-----CCHHHHHHHHHHHHCCCCCCE
T ss_conf             723888707899999863899762589998504666630222364799966899-----821437889988860787715


Q ss_pred             EEE
Q ss_conf             998
Q gi|254780991|r  687 ILY  689 (805)
Q Consensus       687 il~  689 (805)
                      ..|
T Consensus       591 ~V~  593 (971)
T KOG0385         591 VVY  593 (971)
T ss_pred             EEE
T ss_conf             999


No 128
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=98.13  E-value=3.3e-05  Score=57.50  Aligned_cols=140  Identities=17%  Similarity=0.212  Sum_probs=100.1

Q ss_pred             CEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEE
Q ss_conf             00013310168899999986302321246621478999999998635966873257645789999999973189869998
Q gi|254780991|r  559 VEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVG  638 (805)
Q Consensus       559 ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvg  638 (805)
                      ..-+.......-++.+|+.+-.+|.-+||+|..-...|.|++.|...||.-..+...-...+-+.|-..=+.|.  |-|+
T Consensus       406 ~vy~t~~~K~~Aiv~~I~~~~~~gqPvLvgT~sie~SE~ls~~L~~~~i~h~VLNAk~h~~EA~Iia~AG~~ga--VTiA  483 (822)
T COG0653         406 LVYKTEEEKFKAIVEDIKERHEKGQPVLVGTVSIEKSELLSKLLRKAGIPHNVLNAKNHAREAEIIAQAGQPGA--VTIA  483 (822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCEEECCCCEECCHHHHHHHHHCCCCCEEECCCCHHHHHHHHHHCCCCCC--CCCC
T ss_conf             00352798899999999999965998897673142252677899864997404404367999998761278886--6316


Q ss_pred             HHHHHCCCCCCCCCEEE-EECCC---CCCCCCCHHHH--HHHHHHHCC-CCCCEEEEEECCCCHHHHHH
Q ss_conf             45875357877711799-96288---56744460137--766543127-99866999824898899999
Q gi|254780991|r  639 INLLREGLDIPECGLVA-ILDAD---KEGFLRSKTSL--IQTIGRAAR-NVNSKVILYADTITKSIQLA  700 (805)
Q Consensus       639 t~~~akGlD~p~v~lV~-i~dAD---~~~f~~~~~~~--~q~~GRagR-~~~G~~il~ad~~t~~~~~a  700 (805)
                      |||+.+|-||---.-+. |.++-   .-|--+.|.-.  -|.=||+|| |.+|..-+|....+.-|.+.
T Consensus       484 TNMAGRGTDIkLg~~~~~V~~lGGL~VIgTERhESRRIDnQLRGRsGRQGDpG~S~F~lSleD~L~r~F  552 (822)
T COG0653         484 TNMAGRGTDIKLGGNPEFVMELGGLHVIGTERHESRRIDNQLRGRAGRQGDPGSSRFYLSLEDDLMRRF  552 (822)
T ss_pred             CCCCCCCCCCCCCCCHHHHHHHCCCEEEECCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHH
T ss_conf             532467752036897789997078568732542156777775045556899643310232389999873


No 129
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.99  E-value=0.0023  Score=43.75  Aligned_cols=121  Identities=21%  Similarity=0.194  Sum_probs=75.2

Q ss_pred             CHHHHHHHHHHHHHCCC-----CEEEEEEECCCCHHHHHHHHHHHC-----CCCEEEEECCHHHHHHHHHHHHHHCCCCE
Q ss_conf             43899999999887397-----337998633764699999999971-----99789993163468999999998678983
Q gi|254780991|r  152 DQPAAIAQLLKGIHSRE-----KVQLLLGVTGSGKTFTMAKVIEAM-----QRPAIVMAPNKILAAQLYSEFKNFFPHNA  221 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~-----~~qlL~GVTGSGKTevya~lI~~~-----gr~aLvLvPei~La~QL~~rfk~~Fp~n~  221 (805)
                      -|..|++..+..+....     +--+.|--||||||.+|+.+....     .-.++++|-=.-|-.|+.+.|.++-....
T Consensus       252 ~q~~a~~~~i~~~~~~~~~~~~~~G~IWHtqGSGKTltm~~~A~~l~~~~~~~~v~fvvDR~dLd~Q~~~~f~~~~~~~~  331 (962)
T COG0610         252 AQYRAVQKAIKRILKASNPGDGKGGYIWHTQGSGKTLTMFKLARLLLELPKNPKVLFVVDRKDLDDQTSDEFQSFGKVAF  331 (962)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEEECHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999999712678777238984069837899999999998365999699996728899999999999887632


Q ss_pred             EEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHC-CCCEEEECCHHH----HCCC-CCHHH-HHCCE
Q ss_conf             89986213444421015554321022103588999999999999854-998499827789----6168-98347-72257
Q gi|254780991|r  222 VEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLE-RNDCIVVSSVSC----IYGI-GSVES-YSQMI  294 (805)
Q Consensus       222 V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~-~~~~IVVgsrSA----Ifgl-~~P~~-~lglI  294 (805)
                      ..- .                         +     +-.+..+.+++ +...|||.|.-=    +-.. ..... .-=.+
T Consensus       332 ~~~-~-------------------------~-----~s~~~Lk~~l~~~~~~ii~TTIQKf~~~~~~~~~~~~~~~~ivv  380 (962)
T COG0610         332 NDP-K-------------------------A-----ESTSELKELLEDGKGKIIVTTIQKFNKAVKEDELELLKRKNVVV  380 (962)
T ss_pred             CCC-C-------------------------C-----CCHHHHHHHHHCCCCCEEEEEECCCCHHHHCCCCCCCCCCCEEE
T ss_conf             044-4-------------------------4-----57999999986589848999710264333333200047876799


Q ss_pred             EEEECCCCC
Q ss_conf             999419811
Q gi|254780991|r  295 VQLKIGDSV  303 (805)
Q Consensus       295 IvdEehd~~  303 (805)
                      |+||.|=+-
T Consensus       381 I~DEaHRSQ  389 (962)
T COG0610         381 IIDEAHRSQ  389 (962)
T ss_pred             EEECCCCCC
T ss_conf             986401035


No 130
>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=97.94  E-value=0.00048  Score=48.84  Aligned_cols=121  Identities=15%  Similarity=0.139  Sum_probs=84.7

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH------CCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEE
Q ss_conf             389999999988739733799863376469999999997------19978999316346899999999867898389986
Q gi|254780991|r  153 QPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA------MQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFV  226 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~------~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~  226 (805)
                      |-.+++=+....+.| +-.+|-=-.|-|||...+.+|..      ..+++||++|. +|..|=..+++.++|+..+..++
T Consensus         2 Q~~gv~wl~~~~~~~-~ggiLaDeMGLGKTiq~ia~l~~~~~~~~~~~~~LIV~P~-sl~~~W~~Ei~~~~~~~~~~~~~   79 (295)
T pfam00176         2 QLEGVNWLISLYNNG-LGGILADEMGLGKTLQTISLLAYLKELKPLAGPHLVVCPL-STLDNWLNEFEKWAPDLNIVVYY   79 (295)
T ss_pred             HHHHHHHHHHHHHCC-CCEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCEEEEECH-HHHHHHHHHHHHHCCCCCEEEEE
T ss_conf             788999999987279-9989722787579999999999999838899988999757-88876788999867997079998


Q ss_pred             ECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHH-HCCCCEEEECCHHHHCCCCCHHH--HHCCEEEEECCCC
Q ss_conf             2134444210155543210221035889999999999998-54998499827789616898347--7225799941981
Q gi|254780991|r  227 SYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSL-LERNDCIVVSSVSCIYGIGSVES--YSQMIVQLKIGDS  302 (805)
Q Consensus       227 S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l-~~~~~~IVVgsrSAIfgl~~P~~--~lglIIvdEehd~  302 (805)
                      .+.+                           .|...++.. ......|||.+...+-....++.  .-..+|+||.|--
T Consensus        80 ~~~~---------------------------~r~~~~~~~~~~~~~~ivitsY~~~~~~~~~l~~~~w~~vI~DEaH~i  131 (295)
T pfam00176        80 GDGD---------------------------SRSELLRNVLRTGKFDVLITSYEYIRRDKDELHKANWRYVILDEGHRI  131 (295)
T ss_pred             ECHH---------------------------HHHHHHHHHHHCCCCCEEEECHHHHHHHHHHHHCCCCCEEEEECCCCC
T ss_conf             4707---------------------------689998867741688599930999997599984087658998762012


No 131
>TIGR00643 recG ATP-dependent DNA helicase RecG; InterPro: IPR004609 The ATP-dependent DNA helicase RecG 3.6.1 from EC plays a critical role in recombination and DNA repair. It helps to process Holliday junction intermediates to mature products by catalysing branch migration. RecG has DNA unwinding activity characteristic of a DNA helicase with 3' to 5' polarity.; GO: 0004003 ATP-dependent DNA helicase activity, 0006281 DNA repair, 0006310 DNA recombination.
Probab=97.85  E-value=7.5e-05  Score=54.85  Aligned_cols=110  Identities=22%  Similarity=0.383  Sum_probs=90.0

Q ss_pred             HHHHHHHCCCCCCCCCHH----HHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHH-HHHCCCCC
Q ss_conf             999863023212466214----7899999999863596687325764578999999997318986999845-87535787
Q gi|254780991|r  574 EINLAAQQGLRILLTVLT----KRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGIN-LLREGLDI  648 (805)
Q Consensus       574 ei~~~~~~~~R~l~~~~t----kr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~-~~akGlD~  648 (805)
                      .+...+..||.+..-+-|    +.+++.+.+.|+..+|.+..|-|..++.+|.++++.+..|+++++|||. ++.+..||
T Consensus       348 a~l~~i~~GYQ~ALMAPTEiLA~QHy~~~~~~l~p~~~~vaLLTGs~k~~~r~~~~e~i~~G~~~~~vGTHALiqe~vef  427 (721)
T TIGR00643       348 AMLAAIESGYQVALMAPTEILAEQHYDSLRNLLAPLGIEVALLTGSLKGKQRKELLETIASGEIHLVVGTHALIQEKVEF  427 (721)
T ss_pred             HHHHHHHCCCEEEEECCHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHHHHCCCCEEEEHHHHHHHHHHHH
T ss_conf             99999846980999177689999999999996235485788861566787899999998639520573313554521443


Q ss_pred             CCCCEEEEECCCCCCCCCCHHH--------HHHHHHHHC--CCCCCEEE-EEECCC
Q ss_conf             7711799962885674446013--------776654312--79986699-982489
Q gi|254780991|r  649 PECGLVAILDADKEGFLRSKTS--------LIQTIGRAA--RNVNSKVI-LYADTI  693 (805)
Q Consensus       649 p~v~lV~i~dAD~~~f~~~~~~--------~~q~~GRag--R~~~G~~i-l~ad~~  693 (805)
                      .+..||+|          ||+-        -.--=|..+  -|..=+++ |-|++|
T Consensus       428 ~~L~lVIi----------DEQHRFGV~QR~~L~~KG~~~~~~G~~PH~L~MtATPI  473 (721)
T TIGR00643       428 KRLGLVII----------DEQHRFGVEQRKKLREKGQEGSMIGFAPHVLVMTATPI  473 (721)
T ss_pred             HCCCEEEE----------ECCCCCHHHHHHHHHHHHHCCCCCCCCCCEEEEECCCC
T ss_conf             14774899----------32335607899999986220688677777646637881


No 132
>KOG0391 consensus
Probab=97.83  E-value=0.002  Score=44.13  Aligned_cols=133  Identities=14%  Similarity=0.207  Sum_probs=107.0

Q ss_pred             HHHCCCCCCCCCCEECCCC-CHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHH
Q ss_conf             3201244677200001331-016889999998630232124662147899999999863596687325764578999999
Q gi|254780991|r  547 QIIRPTGLVDPPVEIRSAR-TQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEII  625 (805)
Q Consensus       547 qi~rptg~idp~ieir~~~-~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il  625 (805)
                      |+.-+.-+-||+...--++ |....|---.++....|.|+|+||--.+|-+-|-.+|.-.|+.-+-+|+..+-.+|..++
T Consensus      1240 q~~~~r~lqFPelrLiQyDcGKLQtLAiLLqQLk~eghRvLIfTQMtkmLDVLEqFLnyHgylY~RLDg~t~vEqRQaLm 1319 (1958)
T KOG0391        1240 QTTAPRLLQFPELRLIQYDCGKLQTLAILLQQLKSEGHRVLIFTQMTKMLDVLEQFLNYHGYLYVRLDGNTSVEQRQALM 1319 (1958)
T ss_pred             HCCCHHHHCCCCHHEEECCCCHHHHHHHHHHHHHHCCCEEEEHHHHHHHHHHHHHHHHHCCEEEEEECCCCCHHHHHHHH
T ss_conf             00222653385101000042059999999999985585488516889999999999854256899844875388999999


Q ss_pred             HHHHCCC--CCEEEEHHHHHCCCCCCCCCEEEEECCC-CCCCCCCHHHHHHHHHHHC
Q ss_conf             9973189--8699984587535787771179996288-5674446013776654312
Q gi|254780991|r  626 RDLRLGK--FDVLVGINLLREGLDIPECGLVAILDAD-KEGFLRSKTSLIQTIGRAA  679 (805)
Q Consensus       626 ~~~~~g~--~diLvgt~~~akGlD~p~v~lV~i~dAD-~~~f~~~~~~~~q~~GRag  679 (805)
                      +.|....  +-.+..|--=.-|+.+-+-.-|+-||-| +|-.-+--..-.||||++-
T Consensus      1320 erFNaD~RIfcfILSTrSggvGiNLtgADTVvFYDsDwNPtMDaQaQDrChRIGqtR 1376 (1958)
T KOG0391        1320 ERFNADRRIFCFILSTRSGGVGINLTGADTVVFYDSDWNPTMDAQAQDRCHRIGQTR 1376 (1958)
T ss_pred             HHHCCCCCEEEEEEECCCCCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCC
T ss_conf             973678716999985267864201346745898458888013268898888745734


No 133
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA; InterPro: IPR010222   This entry represents HrpA, one of two related but uncharacterised DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterised, is about 800 amino acids long. Related characterised eukaryotic proteins are RNA helicases associated with pre-mRNA processing.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity.
Probab=97.80  E-value=0.00072  Score=47.51  Aligned_cols=145  Identities=21%  Similarity=0.234  Sum_probs=93.2

Q ss_pred             HHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCC--CEEEEECC-------HHHHHHHHHHHHHHCCCCEEEEEEEC
Q ss_conf             9999988739733799863376469999999997199--78999316-------34689999999986789838998621
Q gi|254780991|r  158 AQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQR--PAIVMAPN-------KILAAQLYSEFKNFFPHNAVEYFVSY  228 (805)
Q Consensus       158 ~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr--~aLvLvPe-------i~La~QL~~rfk~~Fp~n~V~~f~S~  228 (805)
                      +.|.++|.++ +..++-|=||||||==.=++==|+|+  .=|| .|.       -|.|.-++++++.=.|+ .|.|-|=-
T Consensus        75 edI~~AI~~n-QVviiAGETGSGKTTQLPKICLELGrG~~GlI-GHTQPRRlAAR~VA~R~AeELgtplGe-~VGYkVRF  151 (1320)
T TIGR01967        75 EDIAKAIAEN-QVVIIAGETGSGKTTQLPKICLELGRGSRGLI-GHTQPRRLAARSVAERVAEELGTPLGE-LVGYKVRF  151 (1320)
T ss_pred             HHHHHHHHHC-CEEEEECCCCCCCCCCCHHHHHHHCCCCCCCC-CCCCHHHHHHHHHHHHHHHHHCCCCCC-CCCCEEEE
T ss_conf             9999999848-98999724487620232167775427876541-247146889999999999983889886-13203663


Q ss_pred             CCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHH--HHHCCCCEEEECCHHHHCCCCCHHHHHCCEEEEECCCCCCHH
Q ss_conf             344442101555432102210358899999999999--985499849982778961689834772257999419811178
Q gi|254780991|r  229 YDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATR--SLLERNDCIVVSSVSCIYGIGSVESYSQMIVQLKIGDSVEQK  306 (805)
Q Consensus       229 ~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~--~l~~~~~~IVVgsrSAIfgl~~P~~~lglIIvdEehd~~~~~  306 (805)
                      .|-..++++|             -=+||++=++.+.  +.+++                     -.-||+||-||.|   
T Consensus       152 ~D~v~~~t~V-------------KLmTDGiLLAE~Q~DRfL~~---------------------YDTIIIDEAHERS---  194 (1320)
T TIGR01967       152 EDQVSSNTLV-------------KLMTDGILLAETQQDRFLER---------------------YDTIIIDEAHERS---  194 (1320)
T ss_pred             CCCCCCCCEE-------------EEHHHHHHHHHHHHHHHHHH---------------------CCCEEECCHHHHH---
T ss_conf             1426885436-------------30322358998520022210---------------------6733651123112---


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHCCCC---EEEECCCCCHHHHHHHHC
Q ss_conf             753234311765633877545331872---478317888778887310
Q gi|254780991|r  307 ELLSSLVKQQYKRQDIGIIRGTFRVCG---DSIEIFPSHLEDVAWRVS  351 (805)
Q Consensus       307 ~~~~~l~~~~Y~R~D~a~~RG~f~~rg---~ILdsatps~Es~~~Rie  351 (805)
                        ..-.==+||=+.       =...||   +|+-|||-..|-|.-..+
T Consensus       195 --LNIDFLLGYLK~-------lL~rRPDLKiIITSATID~ERFs~HFn  233 (1320)
T TIGR01967       195 --LNIDFLLGYLKQ-------LLPRRPDLKIIITSATIDPERFSRHFN  233 (1320)
T ss_pred             --HHHHHHHHHHHH-------HCCCCCCCCEEEECCCCCHHHHHHHHC
T ss_conf             --338899988876-------326688652574002357446878622


No 134
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=97.78  E-value=0.00032  Score=50.16  Aligned_cols=87  Identities=26%  Similarity=0.393  Sum_probs=74.2

Q ss_pred             HHHHHHHHHCCCCCCCCCHH----HHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHH-HHHCCC
Q ss_conf             99999863023212466214----7899999999863596687325764578999999997318986999845-875357
Q gi|254780991|r  572 YDEINLAAQQGLRILLTVLT----KRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGIN-LLREGL  646 (805)
Q Consensus       572 ~~ei~~~~~~~~R~l~~~~t----kr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~-~~akGl  646 (805)
                      +-.+-..+..|+.+.+-+-|    +...+.+.++|+..++++.-+.|..++.+|.+++.++..|++||+|||. ++.+++
T Consensus       296 ~~a~~~~~~~g~q~a~maPTeiLa~Qh~~~~~~~~~~~~i~v~lltg~~~~~~~~~~~~~~~~g~~~i~iGTHal~~~~v  375 (677)
T PRK10917        296 ALAALAAIEAGYQAALMAPTEILAEQHYRNLKKWLEPLGIRVALLTGSLKGKERREILEALASGEADIVIGTHALIQDDV  375 (677)
T ss_pred             HHHHHHHHHHCCEEEEECCCHHHHHHHHHHHHHHHHHCCCEEEEEECCCHHHHHHHHHHHHHCCCCCEEEEHHHHHHCCC
T ss_conf             99999999819948998767999999999999877634988998407741778999999985799778973078773556


Q ss_pred             CCCCCCEEEEEC
Q ss_conf             877711799962
Q gi|254780991|r  647 DIPECGLVAILD  658 (805)
Q Consensus       647 D~p~v~lV~i~d  658 (805)
                      .|.+..||+|=.
T Consensus       376 ~f~~LglvviDE  387 (677)
T PRK10917        376 EFHNLGLVIIDE  387 (677)
T ss_pred             CCCCCCEEEECH
T ss_conf             446665699530


No 135
>KOG0950 consensus
Probab=97.67  E-value=0.00026  Score=50.87  Aligned_cols=94  Identities=26%  Similarity=0.324  Sum_probs=71.2

Q ss_pred             CCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHH-HHHHHHHHHCC-CCC
Q ss_conf             9668732576457899999999731898699984587535787771179996288567444601-37766543127-998
Q gi|254780991|r  606 NIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKT-SLIQTIGRAAR-NVN  683 (805)
Q Consensus       606 ~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~-~~~q~~GRagR-~~~  683 (805)
                      -..+.|.|+..+..+|+.|=..||.|.+.|+++|..++-|...|-....  +-|-.-|-..-.+ .|-|++||||| |.+
T Consensus       522 ~~GvAyHhaGLT~eER~~iE~afr~g~i~vl~aTSTlaaGVNLPArRVI--iraP~~g~~~l~~~~YkQM~GRAGR~gid  599 (1008)
T KOG0950         522 PYGVAYHHAGLTSEEREIIEAAFREGNIFVLVATSTLAAGVNLPARRVI--IRAPYVGREFLTRLEYKQMVGRAGRTGID  599 (1008)
T ss_pred             CCCCEECCCCCCCCHHHHHHHHHHHCCEEEEEECCHHHCCCCCCCCEEE--EECCCCCCCHHHHHHHHHHHHHHHHCCCC
T ss_conf             0353303444650068889999974676999943446406868751158--74775462300024677653020003346


Q ss_pred             --CEEEEEECCCCHHHHHHH
Q ss_conf             --669998248988999999
Q gi|254780991|r  684 --SKVILYADTITKSIQLAI  701 (805)
Q Consensus       684 --G~~il~ad~~t~~~~~ai  701 (805)
                        |..|+-...-...+.+.+
T Consensus       600 T~GdsiLI~k~~e~~~~~~l  619 (1008)
T KOG0950         600 TLGDSILIIKSSEKKRVREL  619 (1008)
T ss_pred             CCCCEEEEEECCCHHHHHHH
T ss_conf             57655898503335677888


No 136
>KOG4150 consensus
Probab=97.67  E-value=0.00031  Score=50.20  Aligned_cols=114  Identities=26%  Similarity=0.283  Sum_probs=83.1

Q ss_pred             HHHHHCCCCCCCCCHHHHHHHHHHHH----HHHCC----CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCC
Q ss_conf             98630232124662147899999999----86359----66873257645789999999973189869998458753578
Q gi|254780991|r  576 NLAAQQGLRILLTVLTKRMAEDLTEY----LYERN----IRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLD  647 (805)
Q Consensus       576 ~~~~~~~~R~l~~~~tkr~~e~l~~~----~~~~~----i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD  647 (805)
                      .+.+..+.|+..|+-..|..|-|-..    |.+.|    -.++...|.-.+..|.+|-.++-.|+.--+|+||-+.-|+|
T Consensus       519 ~~~i~~~~R~IAFC~~R~~CEL~~~~~R~I~~ET~~~LV~~i~SYRGGY~A~DRRKIE~~~F~G~L~giIaTNALELGID  598 (1034)
T KOG4150         519 AEMVQHGLRCIAFCPSRKLCELVLCLTREILAETAPHLVEAITSYRGGYIAEDRRKIESDLFGGKLCGIIATNALELGID  598 (1034)
T ss_pred             HHHHHCCCCEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCEEEEEEECCHHHHCCC
T ss_conf             99997187389963289899999999999998744789999986147753556777788851782689985360744424


Q ss_pred             CCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCC--EEEEEECCCC
Q ss_conf             777117999628856744460137766543127-9986--6999824898
Q gi|254780991|r  648 IPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNS--KVILYADTIT  694 (805)
Q Consensus       648 ~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G--~~il~ad~~t  694 (805)
                      |....-|..+.     ||-|..-|-|-+||||| |.+.  .+|.+..+++
T Consensus       599 IG~LDAVl~~G-----FP~S~aNl~QQ~GRAGRRNk~SLavyva~~~PVD  643 (1034)
T KOG4150         599 IGHLDAVLHLG-----FPGSIANLWQQAGRAGRRNKPSLAVYVAFLGPVD  643 (1034)
T ss_pred             CCCCCEEEECC-----CCCHHHHHHHHHHHCCCCCCCCEEEEEEECCCCH
T ss_conf             35643689826-----8506778998721101568984489997427612


No 137
>KOG0386 consensus
Probab=97.64  E-value=0.0077  Score=39.81  Aligned_cols=409  Identities=17%  Similarity=0.190  Sum_probs=221.2

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHH------HCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEE
Q ss_conf             38999999998873973379986337646999999999------719978999316346899999999867898389986
Q gi|254780991|r  153 QPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIE------AMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFV  226 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~------~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~  226 (805)
                      |-.-++=.+ ++-++.--..|--=+|=|||---+.+|.      +...|-||+||.-+|..=. .+|--+-|.  |.- +
T Consensus       399 Ql~GLqWmV-SLyNNnLNGILADEMGLGKTIQtIsLitYLmE~K~~~GP~LvivPlstL~NW~-~Ef~kWaPS--v~~-i  473 (1157)
T KOG0386         399 QLHGLQWMV-SLYNNNLNGILADEMGLGKTIQTISLITYLMEHKQMQGPFLIIVPLSTLVNWS-SEFPKWAPS--VQK-I  473 (1157)
T ss_pred             HHHHHHHHH-HCCCCCCCCCCCHHCCCCHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCCCCH-HHCCCCCCC--EEE-E
T ss_conf             453157776-31589824332001044148899999999999705679838954354567712-202434665--135-6


Q ss_pred             ECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHHHH-----CCEEEEECCC
Q ss_conf             21344442101555432102210358899999999999985499849982778961689834772-----2579994198
Q gi|254780991|r  227 SYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVESYS-----QMIVQLKIGD  301 (805)
Q Consensus       227 S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~~l-----glIIvdEehd  301 (805)
                      +|-   +                     .-.+|..-...++.|+.-|++.++--|-   -+-..|     ..+|+||-|.
T Consensus       474 ~Yk---G---------------------tp~~R~~l~~qir~gKFnVLlTtyEyii---kdk~lLsKI~W~yMIIDEGHR  526 (1157)
T KOG0386         474 QYK---G---------------------TPQQRSGLTKQQRHGKFNVLLTTYEYII---KDKALLSKISWKYMIIDEGHR  526 (1157)
T ss_pred             EEE---C---------------------CHHHHHHHHHHHHCCCCEEEEEEHHHHC---CCHHHHHCCCCCCEEECCCCC
T ss_conf             541---7---------------------8888866789886001103420087753---799998446986356322222


Q ss_pred             CCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHH--HHHCCCCCCHHHHHCCCCCCCCHHHHCCCC--
Q ss_conf             1117875323431176563387754533187247831788877888--731044420022210166640011100001--
Q gi|254780991|r  302 SVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVA--WRVSMFGNDIEEISEFYPLTGQKIRNVETI--  377 (805)
Q Consensus       302 ~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~--~Rie~f~deIe~I~~fDplT~~~~~~~~~~--  377 (805)
                      -.+......+-..-+|+..-.-+.-            .||.-...+  |.+-  .=++.+|       ..+...+..-  
T Consensus       527 mKNa~~KLt~~L~t~y~~q~RLLLT------------GTPLQN~LpELWaLL--NFlLP~I-------FnS~~~FeqWFN  585 (1157)
T KOG0386         527 MKNAICKLTDTLNTHYRAQRRLLLT------------GTPLQNNLPELWALL--NFLLPNI-------FNSCKAFEQWFN  585 (1157)
T ss_pred             CCCHHHHHHHHHHCCCCCHHHHHHC------------CCHHHHCCHHHHHHH--HHHCCCH-------HHHHHHHHHHHH
T ss_conf             4512557887750255212156532------------883222117789999--8763521-------104757989861


Q ss_pred             CCHHHHH--CCCCHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCC
Q ss_conf             0000000--02563678875455899899899-88754433211001244447777533211201451011333114465
Q gi|254780991|r  378 KIYANSH--YVTPRPTLNTAMKYIKEELKMRL-IELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNP  454 (805)
Q Consensus       378 ~i~Pa~~--~v~~~e~l~~a~~~i~~el~~rl-~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~  454 (805)
                      ..|....  .-+..+...    .|...+..-+ -++....+...-+.|-.+++..+ .|..-       .++.       
T Consensus       586 ~PFantGek~eLteEEtl----LIIrRLHkVLRPFlLRRlKkeVE~~LPdKve~vi-KC~mS-------alQq-------  646 (1157)
T KOG0386         586 QPFANTGEKVELTEEETL----LIIRRLHKVLRPFLLRRLKKEVEQELPDKVEDVI-KCDMS-------ALQQ-------  646 (1157)
T ss_pred             HHHHHCCCCCCCCCHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHH-HEEHH-------HHHH-------
T ss_conf             266643873125522789----9999988766478887656777664734554763-02020-------5667-------


Q ss_pred             CCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCC
Q ss_conf             55620233026544213210123447544543245654133323576655444322211101001215554544468675
Q gi|254780991|r  455 GEPPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGS  534 (805)
Q Consensus       455 ge~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~satPg~  534 (805)
                           .++...-+...+++|..+-...     |       .+|.+.-+-| ..+||+|.-|.+....+.           
T Consensus       647 -----~lY~~m~~~g~l~~d~~~g~~g-----~-------k~L~N~imqL-RKiCNHP~lf~~ve~~~~-----------  697 (1157)
T KOG0386         647 -----SLYKQMQNKGQLLKDTAKGKKG-----Y-------KPLFNTIMQL-RKLCNHPYLFANVENSYT-----------  697 (1157)
T ss_pred             -----HHHHHHHHCCCCCCCCHHCCCC-----C-------HHHHHHHHHH-HHHCCCCHHHHHHCCCCC-----------
T ss_conf             -----6318888479887672100346-----4-------1154576999-985477215444303422-----------


Q ss_pred             CCCHHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCC
Q ss_conf             42013220023432012446772000013310168899999986302321246621478999999998635966873257
Q gi|254780991|r  535 WELEQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHS  614 (805)
Q Consensus       535 ~e~e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~  614 (805)
                                      ++...+   .+-...|..+.|-.-.-+..+.|.|+|.|.--.++-..+-.||.-.+++-.-+|+
T Consensus       698 ----------------~~~~~~---dL~R~sGKfELLDRiLPKLkatgHRVLlF~qMTrlmdimEdyL~~~~~kYlRLDG  758 (1157)
T KOG0386         698 ----------------LHYDIK---DLVRVSGKFELLDRILPKLKATGHRVLLFSQMTRLMDILEDYLQIREYKYLRLDG  758 (1157)
T ss_pred             ----------------CCCCHH---HHHHHCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHEEEECC
T ss_conf             ----------------002705---7877314799997660887732760115777888899999998662421244158


Q ss_pred             CCCHHHHHHHHHHHHCCCCCE---EEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEE
Q ss_conf             645789999999973189869---998458753578777117999628856744460137766543127-998669
Q gi|254780991|r  615 EVKTLERIEIIRDLRLGKFDV---LVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKV  686 (805)
Q Consensus       615 ~~~~~~r~~il~~~~~g~~di---Lvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~  686 (805)
                      ..+..+|...|+.|..-.-++   |.-|---.-||..--..-|+|+|-|-     +..--.|.--||-| |..-.|
T Consensus       759 ~TK~~eRg~ll~~FN~Pds~yf~FllstragglglNlQtadtviifdsdw-----np~~d~qaqdrahrigq~~ev  829 (1157)
T KOG0386         759 QTKVEERGDLLEIFNAPDSPYFIFLLSTRAGGLGLNLQTADTVIIFDSDW-----NPHQDLQAQDRAHRIGQKKEV  829 (1157)
T ss_pred             CCCHHHHHHHHHHHCCCCCCEEEEEEEECCCCCCCCHHHCCEEEEECCCC-----CCHHHHHHHHHHHHHHCHHHE
T ss_conf             76614689999971599986256433210255540321135278865888-----831679999999975021230


No 138
>KOG4439 consensus
Probab=97.58  E-value=0.0093  Score=39.18  Aligned_cols=112  Identities=13%  Similarity=0.167  Sum_probs=78.1

Q ss_pred             HHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHC--CCCCEE-EEHHHHHCCCC
Q ss_conf             999999863023212466214789999999986359668732576457899999999731--898699-98458753578
Q gi|254780991|r  571 VYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRL--GKFDVL-VGINLLREGLD  647 (805)
Q Consensus       571 l~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~--g~~diL-vgt~~~akGlD  647 (805)
                      .+++|  ...+++.+.+..-=-.+-.-+...+...|..-..+|+.+...+|++++++|..  |...|+ +----=+=||.
T Consensus       737 ~le~i--~~~skeK~viVSQwtsvLniv~~hi~~~g~~y~si~Gqv~vK~Rq~iv~~FN~~k~~~rVmLlSLtAGGVGLN  814 (901)
T KOG4439         737 ILETI--LTSSKEKVVIVSQWTSVLNIVRKHIQKGGHIYTSITGQVLVKDRQEIVDEFNQEKGGARVMLLSLTAGGVGLN  814 (901)
T ss_pred             HHHHH--HHCCCCEEEEHHHHHHHHHHHHHHHHHCCEEEEEECCCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCEEE
T ss_conf             99988--6136650564267788887888887507713662057404067899999988604880599999706741352


Q ss_pred             CCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEE
Q ss_conf             777117999628856744460137766543127-998669998
Q gi|254780991|r  648 IPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILY  689 (805)
Q Consensus       648 ~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~  689 (805)
                      +-+-.+++.+|.     -=+...=-|..-|-=| |..-.|++|
T Consensus       815 L~GaNHlilvDl-----HWNPaLEqQAcDRIYR~GQkK~V~Ih  852 (901)
T KOG4439         815 LIGANHLILVDL-----HWNPALEQQACDRIYRMGQKKDVFIH  852 (901)
T ss_pred             ECCCCEEEEEEC-----CCCHHHHHHHHHHHHHHCCCCCEEEE
T ss_conf             035633899854-----66878889998999984266725899


No 139
>KOG0953 consensus
Probab=97.50  E-value=0.00087  Score=46.91  Aligned_cols=93  Identities=16%  Similarity=0.165  Sum_probs=64.2

Q ss_pred             EEECCCCCCHHHHHHHHHHHHC--CCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCH----HHHHHHHHHHCC-C
Q ss_conf             8732576457899999999731--89869998458753578777117999628856744460----137766543127-9
Q gi|254780991|r  609 VRYMHSEVKTLERIEIIRDLRL--GKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSK----TSLIQTIGRAAR-N  681 (805)
Q Consensus       609 ~~~~h~~~~~~~r~~il~~~~~--g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~----~~~~q~~GRagR-~  681 (805)
                      +..+-|.+...-|.+--..|.+  +++||||+||-+..||.+ ++.-|+-++.-|+.=+.-+    -..-|++||||| +
T Consensus       384 ~aVIYGsLPPeTr~aQA~~FNd~~~e~dvlVAsDAIGMGLNL-~IrRiiF~sl~Kysg~e~~~it~sqikQIAGRAGRf~  462 (700)
T KOG0953         384 CAVIYGSLPPETRLAQAALFNDPSNECDVLVASDAIGMGLNL-NIRRIIFYSLIKYSGRETEDITVSQIKQIAGRAGRFG  462 (700)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCCCCEEEEECCCCCCCCC-CEEEEEEEECCCCCCCCCEECCHHHHHHHHHCCCCCC
T ss_conf             489955899730688898737988762568862321455444-3117987503567766210256899998851015445


Q ss_pred             C---CCEEEEEECCCCHHHHHHHH
Q ss_conf             9---86699982489889999999
Q gi|254780991|r  682 V---NSKVILYADTITKSIQLAID  702 (805)
Q Consensus       682 ~---~G~~il~ad~~t~~~~~ai~  702 (805)
                      .   +|.|-.+....-..+.+++.
T Consensus       463 s~~~~G~vTtl~~eDL~~L~~~l~  486 (700)
T KOG0953         463 SKYPQGEVTTLHSEDLKLLKRILK  486 (700)
T ss_pred             CCCCCCEEEEEEHHHHHHHHHHHH
T ss_conf             677674577741866999999984


No 140
>PRK12306 uvrC excinuclease ABC subunit C; Reviewed
Probab=97.48  E-value=0.0003  Score=50.33  Aligned_cols=15  Identities=40%  Similarity=0.596  Sum_probs=7.1

Q ss_pred             HHHHHCCCH----HHHCCC
Q ss_conf             999873960----320574
Q gi|254780991|r  107 ARLIQSDNP----LLKNGK  121 (805)
Q Consensus       107 ~~~~~~~~~----~~~~~~  121 (805)
                      ++||.+-+|    ++|++.
T Consensus        75 ~nLIK~~kP~yNilLkDdK   93 (519)
T PRK12306         75 NTLIKKHQPKYNIDLKDSK   93 (519)
T ss_pred             HHHHHHHCCCCCEECCCCC
T ss_conf             9998674898624336799


No 141
>PRK00558 uvrC excinuclease ABC subunit C; Validated
Probab=97.44  E-value=0.00041  Score=49.38  Aligned_cols=16  Identities=38%  Similarity=0.617  Sum_probs=9.7

Q ss_pred             HHHHHCCCH----HHHCCCC
Q ss_conf             999873960----3205740
Q gi|254780991|r  107 ARLIQSDNP----LLKNGKI  122 (805)
Q Consensus       107 ~~~~~~~~~----~~~~~~~  122 (805)
                      +.||.+-+|    ++|++..
T Consensus        83 ~~LIK~~kP~YNilLkDDK~  102 (609)
T PRK00558         83 NNLIKKYKPRYNILLRDDKS  102 (609)
T ss_pred             HHHHHHHCCCCCCCCCCCCC
T ss_conf             99986758985101247899


No 142
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=97.35  E-value=0.00099  Score=46.47  Aligned_cols=85  Identities=28%  Similarity=0.445  Sum_probs=72.2

Q ss_pred             HHHHHHHCCCCCCCCCHH----HHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHH-HHHCCCCC
Q ss_conf             999863023212466214----7899999999863596687325764578999999997318986999845-87535787
Q gi|254780991|r  574 EINLAAQQGLRILLTVLT----KRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGIN-LLREGLDI  648 (805)
Q Consensus       574 ei~~~~~~~~R~l~~~~t----kr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~-~~akGlD~  648 (805)
                      .+...+.+|+.+..-+-|    +...+.+.+.|+..||.+..+-|.++..+|.+++.++.+|++||+|||. ++-...+|
T Consensus       303 aml~ai~~G~Q~ALMAPTEILA~QH~~~~~~~l~~~~i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGTHALiQd~V~F  382 (677)
T COG1200         303 AMLAAIEAGYQAALMAPTEILAEQHYESLRKWLEPLGIRVALLTGSLKGKARKEILEQLASGEIDIVVGTHALIQDKVEF  382 (677)
T ss_pred             HHHHHHHCCCEEEEECCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHHHHHHCCCCCEEEECCHHHHCCEEE
T ss_conf             99999872881688663799999999999987665197489864466506799999987479989799722122045044


Q ss_pred             CCCCEEEEEC
Q ss_conf             7711799962
Q gi|254780991|r  649 PECGLVAILD  658 (805)
Q Consensus       649 p~v~lV~i~d  658 (805)
                      .+..||+|=.
T Consensus       383 ~~LgLVIiDE  392 (677)
T COG1200         383 HNLGLVIIDE  392 (677)
T ss_pred             CCEEEEEEEC
T ss_conf             2023899725


No 143
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=97.31  E-value=0.0018  Score=44.46  Aligned_cols=74  Identities=18%  Similarity=0.242  Sum_probs=60.2

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHH-H---H-----CCCCEEEEECCHHHHHHHHHHH
Q ss_conf             75188888843899999999887397337998633764699999999-9---7-----1997899931634689999999
Q gi|254780991|r  143 MQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVI-E---A-----MQRPAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       143 l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI-~---~-----~gr~aLvLvPei~La~QL~~rf  213 (805)
                      ...||+|-..|.+.++.+.+++++| +..+|-.=||+|||..|+-.. +   .     .++.+++++..++...|.++++
T Consensus         3 ~~FPy~py~~Q~e~m~~v~~~l~~~-~~~llEaPTGtGKTlalL~~al~~~~~~~~~~~~~ki~~~t~t~~~~~~~~~el   81 (289)
T smart00489        3 FYFPYEPYPIQYEFMEELKRVLDRG-KIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEEL   81 (289)
T ss_pred             ECCCCCCCHHHHHHHHHHHHHHHCC-CEEEEECCCCHHHHHHHHHHHHHHHHHCHHCCCCCEEEEEECCHHHHHHHHHHH
T ss_conf             2789999989999999999999749-979998999651899999999999996701024561687615378899999999


Q ss_pred             HHHC
Q ss_conf             9867
Q gi|254780991|r  214 KNFF  217 (805)
Q Consensus       214 k~~F  217 (805)
                      +...
T Consensus        82 r~~~   85 (289)
T smart00489       82 RKLM   85 (289)
T ss_pred             HHHC
T ss_conf             8632


No 144
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=97.31  E-value=0.0018  Score=44.46  Aligned_cols=74  Identities=18%  Similarity=0.242  Sum_probs=60.2

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHH-H---H-----CCCCEEEEECCHHHHHHHHHHH
Q ss_conf             75188888843899999999887397337998633764699999999-9---7-----1997899931634689999999
Q gi|254780991|r  143 MQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVI-E---A-----MQRPAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       143 l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI-~---~-----~gr~aLvLvPei~La~QL~~rf  213 (805)
                      ...||+|-..|.+.++.+.+++++| +..+|-.=||+|||..|+-.. +   .     .++.+++++..++...|.++++
T Consensus         3 ~~FPy~py~~Q~e~m~~v~~~l~~~-~~~llEaPTGtGKTlalL~~al~~~~~~~~~~~~~ki~~~t~t~~~~~~~~~el   81 (289)
T smart00488        3 FYFPYEPYPIQYEFMEELKRVLDRG-KIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEEL   81 (289)
T ss_pred             ECCCCCCCHHHHHHHHHHHHHHHCC-CEEEEECCCCHHHHHHHHHHHHHHHHHCHHCCCCCEEEEEECCHHHHHHHHHHH
T ss_conf             2789999989999999999999749-979998999651899999999999996701024561687615378899999999


Q ss_pred             HHHC
Q ss_conf             9867
Q gi|254780991|r  214 KNFF  217 (805)
Q Consensus       214 k~~F  217 (805)
                      +...
T Consensus        82 r~~~   85 (289)
T smart00488       82 RKLM   85 (289)
T ss_pred             HHHC
T ss_conf             8632


No 145
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=97.27  E-value=0.012  Score=38.38  Aligned_cols=136  Identities=18%  Similarity=0.225  Sum_probs=105.5

Q ss_pred             CHHHHHHHHH-HHHHHCCC--CCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCC-CCC-EEEEHH
Q ss_conf             0168899999-98630232--124662147899999999863596687325764578999999997318-986-999845
Q gi|254780991|r  566 TQVEDVYDEI-NLAAQQGL--RILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLG-KFD-VLVGIN  640 (805)
Q Consensus       566 ~qvddl~~ei-~~~~~~~~--R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g-~~d-iLvgt~  640 (805)
                      +.+..+.+-+ ......+.  |+++++....+.+-+..++...++....+||......|..++.+|..+ ... .|+-+.
T Consensus       692 ~k~~~l~~ll~~~~~~~~~~~kvlifsq~t~~l~il~~~l~~~~~~~~~ldG~~~~~~r~~~i~~f~~~~~~~vflls~k  771 (866)
T COG0553         692 GKLQALDELLLDKLLEEGHYHKVLIFSQFTPVLDLLEDYLKALGIKYVRLDGSTPAKRRQELIDRFNADEEEKVFLLSLK  771 (866)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCEEEEECCCHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHCCCCCCEEEEEHH
T ss_conf             05689999988899862777234888666059999999998558757987378752128899999864667757997530


Q ss_pred             HHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCCHHHHHHHHHHHH
Q ss_conf             8753578777117999628856744460137766543127-99866999824898899999998788
Q gi|254780991|r  641 LLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTITKSIQLAIDETTR  706 (805)
Q Consensus       641 ~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t~~~~~ai~e~~r  706 (805)
                      -..-|+..-.-..|+++|.|-     +.....|.+.||-| |....|-.|.-...+..+..|-+...
T Consensus       772 agg~glnLt~a~~vi~~d~~w-----Np~~e~Qa~dRa~RigQ~~~v~v~r~i~~~tiEe~i~~~~~  833 (866)
T COG0553         772 AGGLGLNLTGADTVILFDPWW-----NPAVELQAIDRAHRIGQKRPVKVYRLITRGTIEEKILELQE  833 (866)
T ss_pred             CCCCCCCCCCCCEEEECCCCC-----CHHHHHHHHHHHHHCCCEEEEEEEEECCCCCHHHHHHHHHH
T ss_conf             057661214565246607763-----66799999987876078015999984113739999999998


No 146
>COG3880 Modulator of heat shock repressor CtsR, McsA [Signal transduction    mechanisms]
Probab=97.25  E-value=0.00082  Score=47.09  Aligned_cols=45  Identities=38%  Similarity=0.519  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             889999999999999999741489999999999999999733222359
Q gi|254780991|r  758 KKGKAHLKSLRKQMHLAADNLNFEEAARIRDEIKRLKSSPYFQGLDDS  805 (805)
Q Consensus       758 ~~~~~~i~~l~~~m~~aa~~l~fE~Aa~lRD~i~~l~~~~~~~~~~~~  805 (805)
                      .+.+..|..|.+...+....-+||+||.+||+|+.||++   .+.||+
T Consensus       132 i~~~~~I~~L~e~Lq~~i~~EefEeAA~iRDqIr~Lk~k---~~~dd~  176 (176)
T COG3880         132 INPKRKIIALKEALQDLIEREEFEEAAVIRDQIRALKAK---NGGDDS  176 (176)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---CCCCCC
T ss_conf             238899999999999999888889999999999998854---378999


No 147
>TIGR01054 rgy reverse gyrase; InterPro: IPR005736   DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis , . DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA .   Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA.    Reverse gyrase is a type IA topoisomerase that is unique among these enzymes in its requirement for ATP. Reverse gyrase is a hyperthermophile-specific enzyme that acts as a renaturase by positively supercoiling DNA, and by annealing complementary single-strand circles . Hyperthermophilic organisms must protect themselves against heat-induced degradation, and reverse gyrase acts to reduce the rate of double-strand DNA breakage, a function that does not require ATP hydrolysis and which is independent of its positive supercoiling abilities. Reverse gyrase achieves this by recognising nicked DNA and recruiting a protein coat to the site of damage .   More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0006268 DNA unwinding during replication, 0005694 chromosome.
Probab=97.23  E-value=0.00068  Score=47.70  Aligned_cols=70  Identities=21%  Similarity=0.231  Sum_probs=44.2

Q ss_pred             HHHHHHHHHCCCCCEEEEHHHHHCCCCC-CCCCEEEEECCCC-CCCCCCHHHHHHHHHHHCC---CC--CCEEEEEECC
Q ss_conf             9999999731898699984587535787-7711799962885-6744460137766543127---99--8669998248
Q gi|254780991|r  621 RIEIIRDLRLGKFDVLVGINLLREGLDI-PECGLVAILDADK-EGFLRSKTSLIQTIGRAAR---NV--NSKVILYADT  692 (805)
Q Consensus       621 r~~il~~~~~g~~diLvgt~~~akGlD~-p~v~lV~i~dAD~-~~f~~~~~~~~q~~GRagR---~~--~G~~il~ad~  692 (805)
                      .++++.....-.-+.|..-+++.+|++= .+|++|.  .-.. .-.-.|..+|+|-+|||-|   |.  .|-.|.+.|.
T Consensus       521 ydr~i~e~~~~~~~~L~~e~~~~~G~~~~~~~~~~~--~e~~~ylvvpD~~tYiQASGRTSRl~aGGlTkGlS~Vl~dd  597 (1843)
T TIGR01054       521 YDRIIEEVLKFLREALKREDVLEKGIKESEDLSLVA--KEGKLYLVVPDVKTYIQASGRTSRLYAGGLTKGLSVVLVDD  597 (1843)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEC--CCCEEEEEECCCCCCCCCCCHHHHHHHHHHHHCCEEEEECC
T ss_conf             568999888778887752025532654103447861--79725999668774424674156655423230534899654


No 148
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=97.21  E-value=0.00022  Score=51.36  Aligned_cols=75  Identities=16%  Similarity=0.037  Sum_probs=53.7

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             10012444477775332112014510113331144655562023302654421321012344754454324565413332
Q gi|254780991|r  418 EAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGEPPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATL  497 (805)
Q Consensus       418 ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~ge~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l  497 (805)
                      .+..|.+.+...++..++...+.++++||+.+.|+.|                                           
T Consensus       405 lS~~Ll~~i~~~l~~geQ~llflnRRGys~~l~C~~C-------------------------------------------  441 (730)
T COG1198         405 LSPALLEAIRKTLERGEQVLLFLNRRGYAPLLLCRDC-------------------------------------------  441 (730)
T ss_pred             CCHHHHHHHHHHHHCCCEEEEEECCCCCCCEEECCCC-------------------------------------------
T ss_conf             7999999999998429868999716776540042568-------------------------------------------


Q ss_pred             CCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCH
Q ss_conf             35766554443222111010012155545444686754201
Q gi|254780991|r  498 AEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGSWELE  538 (805)
Q Consensus       498 ~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~satPg~~e~e  538 (805)
                         |+...|..|+.+|+||.......||.|.+..|-+..|.
T Consensus       442 ---g~v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~Cp  479 (730)
T COG1198         442 ---GYIAECPNCDSPLTLHKATGQLRCHYCGYQEPIPQSCP  479 (730)
T ss_pred             ---CCCCCCCCCCCCEEEECCCCEEEECCCCCCCCCCCCCC
T ss_conf             ---98024899995127864798067077999899887798


No 149
>COG0322 UvrC Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]
Probab=97.17  E-value=0.0015  Score=45.14  Aligned_cols=35  Identities=20%  Similarity=0.411  Sum_probs=15.9

Q ss_pred             EEEECCCCCCHHHHH-HHHHHHHCCCCCEEEEHHHHHCCCC
Q ss_conf             687325764578999-9999973189869998458753578
Q gi|254780991|r  608 RVRYMHSEVKTLERI-EIIRDLRLGKFDVLVGINLLREGLD  647 (805)
Q Consensus       608 ~~~~~h~~~~~~~r~-~il~~~~~g~~diLvgt~~~akGlD  647 (805)
                      ...-+||+..|.... ++|+.+.-.-  .+||   +|||-+
T Consensus       446 dli~iDGGkgQl~~a~~vl~~l~~~~--~vig---laK~~~  481 (581)
T COG0322         446 DLILIDGGKGQLNAAKEVLKELGLDI--PVIG---LAKGEE  481 (581)
T ss_pred             CEEEEECCHHHHHHHHHHHHHCCCCC--CEEE---EEECCC
T ss_conf             77999697889999999999759986--1799---971686


No 150
>cd01364 KISc_BimC_Eg5 Kinesin motor domain, BimC/Eg5 spindle pole proteins, participate in spindle assembly and chromosome segregation during cell division. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type), N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil d
Probab=97.10  E-value=0.00056  Score=48.35  Aligned_cols=94  Identities=19%  Similarity=0.295  Sum_probs=62.5

Q ss_pred             CCEEEEECCCCCCCHHHHHHH----HHHHHHCCCCEE-EEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHH
Q ss_conf             754775188888843899999----999887397337-998633764699999999971997899931634689999999
Q gi|254780991|r  139 TFFQMQTDYHPSGDQPAAIAQ----LLKGIHSREKVQ-LLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       139 ~~f~l~~~~~P~gdQ~~Ai~~----L~~~l~~g~~~q-lL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rf  213 (805)
                      +.|....-|.|..+|....+.    |++.+-+|+..+ +-||.||||||++|.--....+......-++.++.|....++
T Consensus        48 k~F~FD~vf~~~~~Q~~vy~~~~~plv~~~l~G~n~ti~aYGqTGSGKTyTm~G~~~~~~~~~~~~~~~~Giipr~~~~l  127 (352)
T cd01364          48 KTYTFDKVFGPEADQIEVYSQVVSPILDEVLMGYNCTIFAYGQTGTGKTYTMEGDRTDNKGSTWELSPHAGIIPRALYQL  127 (352)
T ss_pred             EEEECCEEECCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHH
T ss_conf             03547868399999899999998999999977885599987788999349975676654444556777688499999999


Q ss_pred             HHHCCCC--EEEEEEECCCCC
Q ss_conf             9867898--389986213444
Q gi|254780991|r  214 KNFFPHN--AVEYFVSYYDYY  232 (805)
Q Consensus       214 k~~Fp~n--~V~~f~S~~~~y  232 (805)
                      -......  ...+.+||+-.|
T Consensus       128 f~~~~~~~~~~~v~vS~~EIY  148 (352)
T cd01364         128 FEKLESQNTEYSVKVSYLELY  148 (352)
T ss_pred             HHHHHHCCCCEEEEEEEEEEE
T ss_conf             999984598279999999986


No 151
>pfam02151 UVR UvrB/uvrC motif.
Probab=97.09  E-value=0.00085  Score=46.98  Aligned_cols=34  Identities=41%  Similarity=0.647  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHH
Q ss_conf             9999999999999974148999999999999999
Q gi|254780991|r  762 AHLKSLRKQMHLAADNLNFEEAARIRDEIKRLKS  795 (805)
Q Consensus       762 ~~i~~l~~~m~~aa~~l~fE~Aa~lRD~i~~l~~  795 (805)
                      ..|..++.+|.+|+++++||.||.+||+|..|++
T Consensus         2 ~~i~~l~~~m~~A~~~~dfE~Aa~lRD~i~~l~~   35 (36)
T pfam02151         2 KLIKELEEEMEEAAEEEDFEKAAKLRDQIKALEK   35 (36)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             6889999999999997538999998999999752


No 152
>PRK09401 reverse gyrase; Reviewed
Probab=97.02  E-value=0.0024  Score=43.61  Aligned_cols=100  Identities=14%  Similarity=0.168  Sum_probs=54.0

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCC-----HHHHHHHHHHHCCCCEEEEECC---HHHHHHHHHHHHHHCC
Q ss_conf             8888843899999999887397337998633764-----6999999999719978999316---3468999999998678
Q gi|254780991|r  147 YHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSG-----KTFTMAKVIEAMQRPAIVMAPN---KILAAQLYSEFKNFFP  218 (805)
Q Consensus       147 ~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSG-----KTevya~lI~~~gr~aLvLvPe---i~La~QL~~rfk~~Fp  218 (805)
                      -.|.|.-+....+|. |++-|.....|--|+-+=     .-+..+.+++++|.-.||.||.   +-.+-.++..+++. |
T Consensus       277 ~~prg~r~~lfreLl-gFevg~~~~~lRni~D~y~~~~~~~~~~~e~v~~lG~GgLifv~~~~g~e~~~~~~~~l~~~-g  354 (1176)
T PRK09401        277 GRPRGIRIKLFRELL-GFEVGRPRFYLRNIVDVYIEPEDLVEKLVELVKRLGDGGLVFVPTDYGKEYAEELKEYLESH-G  354 (1176)
T ss_pred             CCCCCCHHHHHHHHH-CCCCCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHHHHHHHC-C
T ss_conf             788885389999982-98678864230212577605766889999999984895499976765889999999999976-9


Q ss_pred             CCEEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHH
Q ss_conf             9838998621344442101555432102210358899999999999985499849982778
Q gi|254780991|r  219 HNAVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVS  279 (805)
Q Consensus       219 ~n~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrS  279 (805)
                      - .++.+++.                              +-.......+|+..+.||.-|
T Consensus       355 ~-~a~~~~~~------------------------------~~~~le~f~~Ge~dvLvG~as  384 (1176)
T PRK09401        355 I-KAEAYSGR------------------------------KKEFLEKFEEGEIDVLIGVAS  384 (1176)
T ss_pred             C-EEEEEECC------------------------------CHHHHHHHHCCCCCEEEEECC
T ss_conf             6-69996058------------------------------866888975788648999701


No 153
>KOG0392 consensus
Probab=96.98  E-value=0.039  Score=34.55  Aligned_cols=412  Identities=19%  Similarity=0.189  Sum_probs=196.4

Q ss_pred             EEEEEE----CCCCHHHHHHHHHH-----H-------CCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCC
Q ss_conf             799863----37646999999999-----7-------1997899931634689999999986789838998621344442
Q gi|254780991|r  171 QLLLGV----TGSGKTFTMAKVIE-----A-------MQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQP  234 (805)
Q Consensus       171 qlL~GV----TGSGKTevya~lI~-----~-------~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yqp  234 (805)
                      .=|||+    -|=|||.--+-+++     +       ...|.||+.|- +||..-..++..|||--.|..||.      |
T Consensus       993 y~LHGILcDDMGLGKTLQticilAsd~y~r~s~~~e~~~~PSLIVCPs-TLtGHW~~E~~kf~pfL~v~~yvg------~ 1065 (1549)
T KOG0392         993 YKLHGILCDDMGLGKTLQTICILASDHYKRRSESSEFNRLPSLIVCPS-TLTGHWKSEVKKFFPFLKVLQYVG------P 1065 (1549)
T ss_pred             HCCCCEEECCCCCCHHHHHHHHHHHHHHHHCCCCHHHCCCCEEEECCC-HHHHHHHHHHHHHCCHHHHHHHCC------C
T ss_conf             333545421346327899999997888750246601135875898870-011489999987563012343137------7


Q ss_pred             CCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCC--CHHHHHCCEEEEECCCCCCHHHHHHHH
Q ss_conf             101555432102210358899999999999985499849982778961689--834772257999419811178753234
Q gi|254780991|r  235 EAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIG--SVESYSQMIVQLKIGDSVEQKELLSSL  312 (805)
Q Consensus       235 Eay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~--~P~~~lglIIvdEehd~~~~~~~~~~l  312 (805)
                      ++                     .|...-.  .-.+.-|+|.|.--+-.=.  .-...-..+|.||=|---+.+.   .+
T Consensus      1066 p~---------------------~r~~lR~--q~~~~~iiVtSYDv~RnD~d~l~~~~wNYcVLDEGHVikN~kt---kl 1119 (1549)
T KOG0392        1066 PA---------------------ERRELRD--QYKNANIIVTSYDVVRNDVDYLIKIDWNYCVLDEGHVIKNSKT---KL 1119 (1549)
T ss_pred             HH---------------------HHHHHHH--HCCCCCEEEEEHHHHHHHHHHHHHCCCCEEEECCCCEECCHHH---HH
T ss_conf             58---------------------7777775--4366656996589988789999855222699407604211388---99


Q ss_pred             HHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCCHHHHHCCCCCCC------CHHHHCCCCCCHHHHHCC
Q ss_conf             31176563387754533187247831788877888731044420022210166640------011100001000000002
Q gi|254780991|r  313 VKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEEISEFYPLTG------QKIRNVETIKIYANSHYV  386 (805)
Q Consensus       313 ~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~~Rie~f~deIe~I~~fDplT~------~~~~~~~~~~i~Pa~~~v  386 (805)
                          |.+  +-.-|+..+    ++=|.||--.          +..|....||-+-.      +.-...-.-.|.+.+.--
T Consensus      1120 ----~ka--vkqL~a~hR----LILSGTPIQN----------nvleLWSLFdFLMPGfLGtEKqFqsrf~kpI~asRd~K 1179 (1549)
T KOG0392        1120 ----TKA--VKQLRANHR----LILSGTPIQN----------NVLELWSLFDFLMPGFLGTEKQFQSRFGKPILASRDPK 1179 (1549)
T ss_pred             ----HHH--HHHHHHCCE----EEEECCCCCC----------CHHHHHHHHHHHCCCCCCCHHHHHHHHCCHHHHHCCCC
T ss_conf             ----999--999764023----7740887666----------79999999998466656718889887555045423865


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCCCCHHHHHCCC
Q ss_conf             56367887545589989989988754433211001244447777533211201451011333114465556202330265
Q gi|254780991|r  387 TPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGEPPPTLFEYIP  466 (805)
Q Consensus       387 ~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~ge~P~tL~dY~p  466 (805)
                      .+....+.+...++..-.+-+-+.....|.....-|-.++.+|.       |        |-|..-.     --||..|-
T Consensus      1180 ~Sske~EaG~lAleaLHKqVLPF~LRRlKedVL~DLPpKIIQDy-------y--------CeLs~lQ-----~kLY~df~ 1239 (1549)
T KOG0392        1180 SSSKEQEAGVLALEALHKQVLPFLLRRLKEDVLKDLPPKIIQDY-------Y--------CELSPLQ-----KKLYRDFV 1239 (1549)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHE-------E--------ECCCHHH-----HHHHHHHH
T ss_conf             56667876488999999988899999988888764885653310-------3--------4067899-----99999998


Q ss_pred             CCC----EEEECCCCCCCCCCCCCCCCCCCCCCC---CCCCCCCCCCCCCCCCCCCCC-----HHHH-CCCCCCCCCCCC
Q ss_conf             442----132101234475445432456541333---235766554443222111010-----0121-555454446867
Q gi|254780991|r  467 EDS----LLFVDESHVTIPQISGMYRGDFHRKAT---LAEYGFRLPSCMDNRPLRFEE-----WNCL-RPTTIVVSATPG  533 (805)
Q Consensus       467 ~d~----ll~idesh~~~pqi~~~~~~d~~RK~~---l~~~gfrlp~~~~n~pl~f~e-----~~~~-~~~~~~~satPg  533 (805)
                      +..    -..+|++..+...       +   |.+   ..+|.    .-+||+|.--..     +-.. -++....++.  
T Consensus      1240 ~~~k~~~~~~~d~~~~S~gt-------~---~~HvFqaLqYl----rKLcnHpaLvlt~~hp~la~i~~~l~~~~~~L-- 1303 (1549)
T KOG0392        1240 KKAKQCVSSQIDGGEESLGT-------D---KTHVFQALQYL----RKLCNHPALVLTPVHPDLAAIVSHLAHFNSSL-- 1303 (1549)
T ss_pred             HHHCCCCCCCCCCCHHCCCC-------C---HHHHHHHHHHH----HHHCCCCCEEECCCCCHHHHHHHHHHHHHHHH--
T ss_conf             87503520034643210575-------1---48899999999----98548964442777502999987887740147--


Q ss_pred             CCCCHHHHH-HHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHC---CCEE
Q ss_conf             542013220-023432012446772000013310168899999986302321246621478999999998635---9668
Q gi|254780991|r  534 SWELEQCQG-IIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYER---NIRV  609 (805)
Q Consensus       534 ~~e~e~~~~-~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~---~i~~  609 (805)
                       ..+.+++. ..-+|+...-|.-...+.-.   ++-+         ...+.|+|+|+--|-|.+-+-+-|-..   .+.-
T Consensus      1304 -Hdi~hspKl~AL~qLL~eCGig~~~~~~~---g~~s---------~vsqHRiLIFcQlK~mlDlVekDL~k~~mpsVty 1370 (1549)
T KOG0392        1304 -HDIQHSPKLSALKQLLSECGIGNNSDSEV---GTPS---------DVSQHRILIFCQLKSMLDLVEKDLFKKYMPSVTY 1370 (1549)
T ss_pred             -HHHHHCHHHHHHHHHHHHHCCCCCCCCCC---CCCC---------HHCCCEEEEEEEHHHHHHHHHHHHHHHHCCCEEE
T ss_conf             -77653526789999999817898875333---6710---------2115516876407779999999986511475169


Q ss_pred             EECCCCCCHHHHHHHHHHHHCC-CCCEEE-EHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEE
Q ss_conf             7325764578999999997318-986999-8458753578777117999628856744460137766543127-998669
Q gi|254780991|r  610 RYMHSEVKTLERIEIIRDLRLG-KFDVLV-GINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKV  686 (805)
Q Consensus       610 ~~~h~~~~~~~r~~il~~~~~g-~~diLv-gt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~  686 (805)
                      +-+||.+...+|.+|.++|..+ .||||+ .|++=.=||.+-+-.-|+-++-|=--++ +    .|.+-||-| |.+-.|
T Consensus      1371 mRLDGSVpp~~R~kiV~~FN~DptIDvLlLTThVGGLGLNLTGADTVVFvEHDWNPMr-D----LQAMDRAHRIGQKrvV 1445 (1549)
T KOG0392        1371 MRLDGSVPPGDRQKIVERFNEDPTIDVLLLTTHVGGLGLNLTGADTVVFVEHDWNPMR-D----LQAMDRAHRIGQKRVV 1445 (1549)
T ss_pred             EEECCCCCCHHHHHHHHHHCCCCCEEEEEEEEECCCCCCCCCCCCEEEEEECCCCCHH-H----HHHHHHHHHHCCCEEE
T ss_conf             9734888907779999971689851389996200453224678755899726888324-5----7887788862673156


Q ss_pred             EEE
Q ss_conf             998
Q gi|254780991|r  687 ILY  689 (805)
Q Consensus       687 il~  689 (805)
                      =.|
T Consensus      1446 NVy 1448 (1549)
T KOG0392        1446 NVY 1448 (1549)
T ss_pred             EEE
T ss_conf             666


No 154
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=96.95  E-value=0.0038  Score=42.07  Aligned_cols=66  Identities=27%  Similarity=0.271  Sum_probs=45.9

Q ss_pred             CHHHHHHHHHH------HHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC---CCCCEEE
Q ss_conf             57899999999------73189869998458753578777117999628856744460137766543127---9986699
Q gi|254780991|r  617 KTLERIEIIRD------LRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR---NVNSKVI  687 (805)
Q Consensus       617 ~~~~r~~il~~------~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR---~~~G~~i  687 (805)
                      ...+-..||++      |... -.-+-.---|++|-|=|||=-.+-|.     =-.|+.|=.|-+||-=|   |.+|.-+
T Consensus       463 ~~~~i~~ILkdKEKLLSFd~p-lRFIFS~waLrEGWDNPNVFtIckL~-----~S~SeiSK~QeVGRGLRLaVNe~G~RV  536 (985)
T COG3587         463 IEDEIDLILKDKEKLLSFDEP-LRFIFSKWALREGWDNPNVFTICKLR-----SSGSEISKLQEVGRGLRLAVNENGERV  536 (985)
T ss_pred             HHHHHHHHHHHHHHHCCCCCC-CEEEEEHHHHHHCCCCCCEEEEEEEC-----CCCCCHHHHHHHCCCEEEEECCCCCEE
T ss_conf             788999998557874356885-00122265776137899836899864-----887604788886345153234566600


Q ss_pred             E
Q ss_conf             9
Q gi|254780991|r  688 L  688 (805)
Q Consensus       688 l  688 (805)
                      .
T Consensus       537 ~  537 (985)
T COG3587         537 T  537 (985)
T ss_pred             C
T ss_conf             1


No 155
>KOG1000 consensus
Probab=96.95  E-value=0.041  Score=34.38  Aligned_cols=120  Identities=14%  Similarity=0.197  Sum_probs=94.8

Q ss_pred             HHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCC-CC-EEEEHHHHHCCCCCCCCCEEE
Q ss_conf             6302321246621478999999998635966873257645789999999973189-86-999845875357877711799
Q gi|254780991|r  578 AAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGK-FD-VLVGINLLREGLDIPECGLVA  655 (805)
Q Consensus       578 ~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~-~d-iLvgt~~~akGlD~p~v~lV~  655 (805)
                      ....+.+.+||+--+.+-+-++.++.+.++.-.-+||......|.-..+.|...+ +. -++++.-..-||+|.--++|.
T Consensus       488 ~d~~~~KflVFaHH~~vLd~Iq~~~~~r~vg~IRIDGst~s~~R~ll~qsFQ~seev~VAvlsItA~gvGLt~tAa~~VV  567 (689)
T KOG1000         488 PDAPPRKFLVFAHHQIVLDTIQVEVNKRKVGSIRIDGSTPSHRRTLLCQSFQTSEEVRVAVLSITAAGVGLTLTAASVVV  567 (689)
T ss_pred             CCCCCCEEEEEEHHHHHHHHHHHHHHHCCCCEEEECCCCCCHHHHHHHHHHCCCCCEEEEEEEEEECCCCEEEECCCEEE
T ss_conf             56887359999414879999999998747975885698984347899987314631479999986314441465132589


Q ss_pred             EECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEE---EEE-CCCCHHHHHHHH
Q ss_conf             9628856744460137766543127-9986699---982-489889999999
Q gi|254780991|r  656 ILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVI---LYA-DTITKSIQLAID  702 (805)
Q Consensus       656 i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~i---l~a-d~~t~~~~~ai~  702 (805)
                      -..     ++-+.-.|+|.--|+-| |...-|-   +-| +.++.+|...+.
T Consensus       568 FaE-----L~wnPgvLlQAEDRaHRiGQkssV~v~ylvAKgT~Ddy~Wp~l~  614 (689)
T KOG1000         568 FAE-----LHWNPGVLLQAEDRAHRIGQKSSVFVQYLVAKGTADDYMWPMLQ  614 (689)
T ss_pred             EEE-----ECCCCCEEEECHHHHHHCCCCCEEEEEEEEECCCHHHHHHHHHH
T ss_conf             998-----23787547751465664056651138999954845777789999


No 156
>cd01368 KISc_KIF23_like Kinesin motor domain, KIF23-like subgroup. Members of this group may play a role in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, a
Probab=96.90  E-value=0.0041  Score=41.89  Aligned_cols=83  Identities=23%  Similarity=0.300  Sum_probs=59.1

Q ss_pred             CCEEEEECCCCCCCHHHHHHHH----HHHHHCCCCEE-EEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHH
Q ss_conf             7547751888888438999999----99887397337-998633764699999999971997899931634689999999
Q gi|254780991|r  139 TFFQMQTDYHPSGDQPAAIAQL----LKGIHSREKVQ-LLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       139 ~~f~l~~~~~P~gdQ~~Ai~~L----~~~l~~g~~~q-lL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rf  213 (805)
                      +.|....-|.|..+|.+-.+.+    ++.+-+|+..+ +-||-||||||++|.--           ..+.+|.|....++
T Consensus        55 ~~f~FD~vf~~~~tQ~~vy~~~~~plv~~~l~G~n~ti~aYGqTGSGKTyTm~G~-----------~~~~Giipr~~~~l  123 (345)
T cd01368          55 TKFSFSKVFGPNTTQKEFFEGTALPLVQDLLKGKNSLLFTYGVTNSGKTYTMQGS-----------PGDGGILPRSLDVI  123 (345)
T ss_pred             EEEECCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCCC-----------CCCCCHHHHHHHHH
T ss_conf             0657785639999989999998788999984887247999547889875242678-----------33332479999999


Q ss_pred             HHHCCCCEEEEEEECCCCCCC
Q ss_conf             986789838998621344442
Q gi|254780991|r  214 KNFFPHNAVEYFVSYYDYYQP  234 (805)
Q Consensus       214 k~~Fp~n~V~~f~S~~~~yqp  234 (805)
                      -...++  ..+++||+-.|.-
T Consensus       124 f~~~~~--~~v~vS~~EIYne  142 (345)
T cd01368         124 FNSIGG--YSVFVSYVEIYNN  142 (345)
T ss_pred             HHHHCC--EEEEEEEEEEECC
T ss_conf             875127--2899999985478


No 157
>PRK07883 hypothetical protein; Validated
Probab=96.83  E-value=0.0035  Score=42.35  Aligned_cols=37  Identities=35%  Similarity=0.471  Sum_probs=32.8

Q ss_pred             HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999999999997414899999999999999997
Q gi|254780991|r  761 KAHLKSLRKQMHLAADNLNFEEAARIRDEIKRLKSSP  797 (805)
Q Consensus       761 ~~~i~~l~~~m~~aa~~l~fE~Aa~lRD~i~~l~~~~  797 (805)
                      ...+..++.+|..+|.+++||+||++||+|..+....
T Consensus       412 ~~vl~~L~~rM~~aA~~~rFE~AA~lRDrl~Al~~~~  448 (575)
T PRK07883        412 GAVLAALRRRIARLAAARRYEEAARLRDRLAALVRAL  448 (575)
T ss_pred             HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHH
T ss_conf             8999999999999987465999999999999999999


No 158
>cd01372 KISc_KIF4 Kinesin motor domain, KIF4-like subfamily. Members of this group seem to perform a variety of functions, and have been implicated in neuronal organelle transport and chromosome segregation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain,
Probab=96.82  E-value=0.0049  Score=41.24  Aligned_cols=90  Identities=22%  Similarity=0.311  Sum_probs=59.7

Q ss_pred             CCEEEEECCCCCCCHHHHHHH----HHHHHHCCCCEE-EEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHH
Q ss_conf             754775188888843899999----999887397337-998633764699999999971997899931634689999999
Q gi|254780991|r  139 TFFQMQTDYHPSGDQPAAIAQ----LLKGIHSREKVQ-LLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       139 ~~f~l~~~~~P~gdQ~~Ai~~----L~~~l~~g~~~q-lL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rf  213 (805)
                      +.|....=|.|...|.+..+.    |++.+-+|+..+ +-||.||||||++|.--..     ...-.++.+|.|....++
T Consensus        40 ~~f~FD~Vf~~~~sQ~~Vy~~~~~plv~~~l~G~n~ti~aYGqTGSGKTyTm~G~~~-----~~~~~~~~Giipr~~~~l  114 (341)
T cd01372          40 KSFTFDYVFDPSTSQEEVYNTCVAPLVDGLFEGYNATVLAYGQTGSGKTYTMGTAFT-----ASEDEEEVGIIPRAIQHI  114 (341)
T ss_pred             CEEECCEECCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCCCCC-----CCCCCCCCCHHHHHHHHH
T ss_conf             268769775999998999999989999998677751699971478898644136778-----887755478789999999


Q ss_pred             HHHCC---C-CEEEEEEECCCCCC
Q ss_conf             98678---9-83899862134444
Q gi|254780991|r  214 KNFFP---H-NAVEYFVSYYDYYQ  233 (805)
Q Consensus       214 k~~Fp---~-n~V~~f~S~~~~yq  233 (805)
                      -....   + ....+.+||+-.|.
T Consensus       115 f~~i~~~~~~~~~~v~~S~~EIYn  138 (341)
T cd01372         115 FKKIDEKKDEPDFQLKVSFLELYN  138 (341)
T ss_pred             HHHHHHCCCCCEEEEEEEEEEEEC
T ss_conf             999972667835999999999989


No 159
>pfam09848 DUF2075 Uncharacterized conserved protein (DUF2075). This domain, found in various prokaryotic proteins (including putative ATP/GTP binding proteins), has no known function.
Probab=96.82  E-value=0.0057  Score=40.76  Aligned_cols=52  Identities=25%  Similarity=0.369  Sum_probs=44.2

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHH-----CCCCEEEEECCHHHHHHHHHHHHHHCCCC
Q ss_conf             33799863376469999999997-----19978999316346899999999867898
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEA-----MQRPAIVMAPNKILAAQLYSEFKNFFPHN  220 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~-----~gr~aLvLvPei~La~QL~~rfk~~Fp~n  220 (805)
                      +..++.|+-|||||.+-+++..+     .+.++.+|++|-.|..-++..+....+..
T Consensus         2 ~v~~V~G~pGtGKTvv~l~l~~~l~~~~~~~~~~~l~~N~~~~~~l~~~l~~~~~~~   58 (348)
T pfam09848         2 AVFLVTGGPGTGKTVVALNLFAELSDSDLGRTAVFLSGNHPLVLVLYEALAGDLKVR   58 (348)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCEEEEECCHHHHHHHHHHHHHHCCHH
T ss_conf             799997779938999999999998644026820899578669999999986041200


No 160
>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=96.81  E-value=0.014  Score=37.86  Aligned_cols=66  Identities=24%  Similarity=0.285  Sum_probs=46.2

Q ss_pred             CHHHHHHHHHHHHHC-CCCE--EEEEEECCCCHHHHHHHHHHHC-----CCCEE-EEECC-----HHHHHHHHHHHHHHC
Q ss_conf             438999999998873-9733--7998633764699999999971-----99789-99316-----346899999999867
Q gi|254780991|r  152 DQPAAIAQLLKGIHS-REKV--QLLLGVTGSGKTFTMAKVIEAM-----QRPAI-VMAPN-----KILAAQLYSEFKNFF  217 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~-g~~~--qlL~GVTGSGKTevya~lI~~~-----gr~aL-vLvPe-----i~La~QL~~rfk~~F  217 (805)
                      ||=+.+......+-. |..+  .+|+|=||+|||-|--.+.+++     .+-.- |-+..     ..=--|++.++-.-|
T Consensus        24 eqI~~l~~~L~~~l~PG~~P~Ni~iYGkTGtGKT~vt~~v~~~l~~~~~~~d~~D~~~~~~NC~~~~T~y~~~~~L~~~l  103 (383)
T TIGR02928        24 EQIEELAKALRPILRPGSRPSNIFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRDVSTVYINCQILDTSYQVLVELANQL  103 (383)
T ss_pred             HHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCHHHHHHHHHHHH
T ss_conf             89999999988750674898725887888987889999999999998622699715899977854684699999999985


No 161
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB; InterPro: IPR010225   This entry represents HrpB, one of two related predicted DEAH-box ATP-dependent helicases of unknown function found in many proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti, designated HelO, has been studied but is not essential for growth and mutants have no obvious phenotype . HrpB is typically about 800 residues in length, while its paralog HrpA (IPR010222 from INTERPRO), also uncharacterised, is about 1300 amino acids long. Related characterised eukaryotic proteins are RNA helicases associated with pre-mRNA processing ..
Probab=96.81  E-value=0.0028  Score=43.15  Aligned_cols=97  Identities=25%  Similarity=0.333  Sum_probs=76.2

Q ss_pred             HHHHHHHHHHHHH-CCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCC---------C
Q ss_conf             7899999999863-59668732576457899999999731898699984587535787771179996288---------5
Q gi|254780991|r  592 KRMAEDLTEYLYE-RNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDAD---------K  661 (805)
Q Consensus       592 kr~~e~l~~~~~~-~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD---------~  661 (805)
                      .|+.+.|++.|.. -.|.--=+||.++..+..+.|.-=-+|.=.|+.+||++.==|-|++|-+|+  |+=         +
T Consensus       231 ~Rv~~~L~e~L~~rs~v~lcPLYG~L~~~aQ~~AI~P~a~GrRKVVLATNiAEtSLTIeGvRvVi--DsGl~R~arFDP~  308 (858)
T TIGR01970       231 RRVQEQLAERLDARSEVLLCPLYGELELAAQDRAIKPAAAGRRKVVLATNIAETSLTIEGVRVVI--DSGLARVARFDPK  308 (858)
T ss_pred             HHHHHHHHHHHCCCCCCHHCCCCCCCCHHHHHHHCCCCCCCCCEEEEEHHHHHHHEEECCEEEEE--ECCCCCCCCCCCC
T ss_conf             99999999975178710005767888978999870877466734342000122210017635887--1565567634788


Q ss_pred             CCCCCCH------HHHHHHHHHHCCCCCCEEE-EEE
Q ss_conf             6744460------1377665431279986699-982
Q gi|254780991|r  662 EGFLRSK------TSLIQTIGRAARNVNSKVI-LYA  690 (805)
Q Consensus       662 ~~f~~~~------~~~~q~~GRagR~~~G~~i-l~a  690 (805)
                      .||-|=+      -|-.||+|||||=..|.+| ||.
T Consensus       309 sG~TRL~~~RisqASA~QRAGRAGRlepGvc~RLw~  344 (858)
T TIGR01970       309 SGITRLETQRISQASATQRAGRAGRLEPGVCYRLWS  344 (858)
T ss_pred             CCCCHHHHHHHHHHHHHHHCCCCCCCCCCHHEECCC
T ss_conf             874024457889733765126332211141112278


No 162
>PRK05580 primosome assembly protein PriA; Validated
Probab=96.80  E-value=0.00072  Score=47.50  Aligned_cols=77  Identities=16%  Similarity=0.026  Sum_probs=57.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             11001244447777533211201451011333114465556202330265442132101234475445432456541333
Q gi|254780991|r  417 LEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGEPPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKAT  496 (805)
Q Consensus       417 ~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~ge~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~  496 (805)
                      .....|.+.+...++..++...+.++++|++++.|+.|                                          
T Consensus       373 ~ls~~l~~~i~~~L~~g~qvll~lnRrGya~~~~C~~C------------------------------------------  410 (699)
T PRK05580        373 GLSPPLLEAIREALERGEQVLLFLNRRGYAPFLLCRDC------------------------------------------  410 (699)
T ss_pred             CCCHHHHHHHHHHHHCCCEEEEEECCCCCCCEEECHHC------------------------------------------
T ss_conf             54699999999999738847999547752251474531------------------------------------------


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCHH
Q ss_conf             2357665544432221110100121555454446867542013
Q gi|254780991|r  497 LAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGSWELEQ  539 (805)
Q Consensus       497 l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~satPg~~e~e~  539 (805)
                          |+...|..|+.+|+||.......|+.|++..+.++.|..
T Consensus       411 ----g~~~~C~~C~~~L~~h~~~~~l~Ch~Cg~~~~~~~~Cp~  449 (699)
T PRK05580        411 ----GWVARCPHCDGPLTLHRAGRRLRCHHCGYQEPIPRACPE  449 (699)
T ss_pred             ----CCEEECCCCCCEEEECCCCCCEECCCCCCCCCCCCCCCC
T ss_conf             ----994565678986342068983322646883657554656


No 163
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=96.80  E-value=0.023  Score=36.19  Aligned_cols=97  Identities=22%  Similarity=0.268  Sum_probs=59.7

Q ss_pred             HHHHHHCCCHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCC--CEEEEEEECCCCHHH
Q ss_conf             999987396032057402666788874215887754775188888843899999999887397--337998633764699
Q gi|254780991|r  106 LARLIQSDNPLLKNGKIWTPHRSWSINNHSKDITFFQMQTDYHPSGDQPAAIAQLLKGIHSRE--KVQLLLGVTGSGKTF  183 (805)
Q Consensus       106 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~--~~qlL~GVTGSGKTe  183 (805)
                      +.++.....++|+|.++..|.--|.   .-.+..            +|-++|.......-.|.  ...+++|.||+|||.
T Consensus         6 ~~~~~~~~~~if~~~~~L~~~yvP~---~l~~Re------------~Ei~~l~~~l~~~l~g~~~~n~~I~G~pGTGKT~   70 (394)
T PRK00411          6 FEDLLMWDETIFKNEEVLEPDYVPE---NLPHRE------------EQIEELAFALRPALRGSRPSNVLILGPPGTGKTT   70 (394)
T ss_pred             HHHHHCCCCCEECCHHHCCCCCCCC---CCCCHH------------HHHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHH
T ss_conf             9998647886156763379988899---898859------------9999999999999759999847998899998999


Q ss_pred             HHHHHHHHCCCC------EEEEECCHHHHHHHHHHHHHHC
Q ss_conf             999999971997------8999316346899999999867
Q gi|254780991|r  184 TMAKVIEAMQRP------AIVMAPNKILAAQLYSEFKNFF  217 (805)
Q Consensus       184 vya~lI~~~gr~------aLvLvPei~La~QL~~rfk~~F  217 (805)
                      +.-.+.+++...      +-|=.-+..-..|++.++-.-+
T Consensus        71 ~vk~v~~~l~~~~~~~~~vyINc~~~~t~~~i~~~i~~~L  110 (394)
T PRK00411         71 TVKKVFEELEEAALKVVYVYINCQIDRTRYAILSEIARSL  110 (394)
T ss_pred             HHHHHHHHHHHHCCCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             9999999999746896599996966898999999999995


No 164
>cd01366 KISc_C_terminal Kinesin motor domain, KIFC2/KIFC3/ncd-like carboxy-terminal kinesins. Ncd is a spindle motor protein necessary for chromosome segregation in meiosis. KIFC2/KIFC3-like kinesins have been implicated in motility of the Golgi apparatus as well as dentritic and axonal transport in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found at the C-terminus (C-type). C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for mi
Probab=96.79  E-value=0.003  Score=42.86  Aligned_cols=84  Identities=21%  Similarity=0.298  Sum_probs=55.9

Q ss_pred             CCEEEEECCCCCCCHHHHHH---HHHHHHHCCCCEE-EEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHH
Q ss_conf             75477518888884389999---9999887397337-9986337646999999999719978999316346899999999
Q gi|254780991|r  139 TFFQMQTDYHPSGDQPAAIA---QLLKGIHSREKVQ-LLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFK  214 (805)
Q Consensus       139 ~~f~l~~~~~P~gdQ~~Ai~---~L~~~l~~g~~~q-lL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk  214 (805)
                      +.|....-|.|.-.|.+..+   .+++.+-+|+..+ +-||.||||||++|.--           ..+.++.|....++-
T Consensus        45 ~~f~FD~Vf~~~~tQ~~vy~~v~plv~~~l~G~n~ti~aYGqTGSGKTyTm~G~-----------~~~~Giipr~~~~lf  113 (329)
T cd01366          45 KSFSFDRVFDPDASQEDVFEEVSPLVQSALDGYNVCIFAYGQTGSGKTYTMEGP-----------PENPGIIPRALEQLF  113 (329)
T ss_pred             EEEECCEEECCCCCHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCEEECCC-----------CCCCCCHHHHHHHHH
T ss_conf             077768673999998999999999999986777248996478999985472667-----------887780899999999


Q ss_pred             HHC---CCC--EEEEEEECCCCCC
Q ss_conf             867---898--3899862134444
Q gi|254780991|r  215 NFF---PHN--AVEYFVSYYDYYQ  233 (805)
Q Consensus       215 ~~F---p~n--~V~~f~S~~~~yq  233 (805)
                      ...   .+.  ...+.+||+-.|.
T Consensus       114 ~~i~~~~~~~~~~~v~vS~~EIYn  137 (329)
T cd01366         114 NTAEELKEKGWSYTITASMLEIYN  137 (329)
T ss_pred             HHHHHHHCCCCEEEEEEEEEEEEC
T ss_conf             999851136832899999998508


No 165
>cd01370 KISc_KIP3_like Kinesin motor domain, KIP3-like subgroup. The yeast kinesin KIP3 plays a role in positioning the mitotic spindle. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a sec
Probab=96.78  E-value=0.004  Score=41.97  Aligned_cols=84  Identities=19%  Similarity=0.291  Sum_probs=58.0

Q ss_pred             CCEEEEECCCCCCCHHHHHHH----HHHHHHCCCCEE-EEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHH
Q ss_conf             754775188888843899999----999887397337-998633764699999999971997899931634689999999
Q gi|254780991|r  139 TFFQMQTDYHPSGDQPAAIAQ----LLKGIHSREKVQ-LLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       139 ~~f~l~~~~~P~gdQ~~Ai~~----L~~~l~~g~~~q-lL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rf  213 (805)
                      +.|....-|.|...|.+..+.    |++.+-+|+..+ +-+|.||||||++|.---           -+.+|.|....++
T Consensus        54 ~~f~FD~vf~~~~tQ~~vy~~~~~plv~~~l~G~n~ti~aYGqTGSGKTyTm~G~~-----------~~~Giipr~~~~l  122 (338)
T cd01370          54 LKYSFDRVFDETSTQEEVYENTTKPLVDGVLNGYNATVFAYGATGAGKTHTMLGTD-----------SDPGLMVLTMKDL  122 (338)
T ss_pred             EEEECCCEECCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCEEECCCC-----------CCCCHHHHHHHHH
T ss_conf             17764635099999899999998999999858875589994899999897857887-----------6675268999999


Q ss_pred             ----HHHCCCCEEEEEEECCCCCC
Q ss_conf             ----98678983899862134444
Q gi|254780991|r  214 ----KNFFPHNAVEYFVSYYDYYQ  233 (805)
Q Consensus       214 ----k~~Fp~n~V~~f~S~~~~yq  233 (805)
                          ...-.+....+.+||+..|.
T Consensus       123 f~~i~~~~~~~~~~v~~S~~EIyn  146 (338)
T cd01370         123 FDKIEERKDDKEFEVSLSYLEIYN  146 (338)
T ss_pred             HHHHHHCCCCCEEEEEEEEEEEEC
T ss_conf             999874155856999999973016


No 166
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative; InterPro: IPR006310   These are a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of Escherichia coli. .
Probab=96.76  E-value=0.039  Score=34.50  Aligned_cols=513  Identities=14%  Similarity=0.136  Sum_probs=226.3

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCC-CEEEEEEECCCCHHHHHHHHHHH----CCCCEEEEECCHHHHHHHHHH----HHHHC
Q ss_conf             8888843899999999887397-33799863376469999999997----199789993163468999999----99867
Q gi|254780991|r  147 YHPSGDQPAAIAQLLKGIHSRE-KVQLLLGVTGSGKTFTMAKVIEA----MQRPAIVMAPNKILAAQLYSE----FKNFF  217 (805)
Q Consensus       147 ~~P~gdQ~~Ai~~L~~~l~~g~-~~qlL~GVTGSGKTevya~lI~~----~gr~aLvLvPei~La~QL~~r----fk~~F  217 (805)
                      |.=-..|..=-+.+...+..|. ...+.---||+|||.=|+=.+.-    .+||++|=++-|-|=.||+++    ++.-|
T Consensus       259 y~~R~~Q~~la~~v~~~l~~Gt~~~~lIEA~tG~GKtlgYLLPal~~~~~~~~~vviST~Tk~LQ~QL~E~d~P~l~~~~  338 (944)
T TIGR01407       259 YEYREEQLKLAELVEDELTHGTEEKSLIEAPTGTGKTLGYLLPALYLAKEEEKPVVISTATKVLQSQLLEKDIPLLNKIL  338 (944)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHEECCCCCCHHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHHHHHHHHHHHC
T ss_conf             53138899999999998415766113302376643258999999973137888569983636656565688889888651


Q ss_pred             CCC-EEEEEEECCCCCCCCCC---------CCCCCCCHHHHC-----------------------------------CCC
Q ss_conf             898-38998621344442101---------555432102210-----------------------------------358
Q gi|254780991|r  218 PHN-AVEYFVSYYDYYQPEAY---------VPRTDTYIEKES-----------------------------------SIN  252 (805)
Q Consensus       218 p~n-~V~~f~S~~~~yqpEay---------~p~~d~~i~k~~-----------------------------------s~n  252 (805)
                      +.. .+....|+-+|-.=..+         -+..+.-+.|..                                   ..|
T Consensus       339 ~fk~~~~~iKg~~~YlsL~~F~~~L~~~Cet~~~~~~~~KM~~LvWLTETetGDldEl~l~~~~~~f~~~~~~dG~~~l~  418 (944)
T TIGR01407       339 NFKLNVALIKGKKNYLSLQKFSQLLKENCETDNKEFELFKMQVLVWLTETETGDLDELNLLTGNKSFFAEVRHDGLGFLS  418 (944)
T ss_pred             CCCEEEEEEECCCCCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHEEEECCCCCCHHHHCCCCCCCHHHHHHHHHCCCCCC
T ss_conf             89712788507655436789999960478882489999987543210037987567520246750357788560564456


Q ss_pred             HHHHHHHHHHHHHHHCC--CCEEEEC------CHHHHCCCCCH-HHHHCCEEEEECCCC-----------CCHHHHHHHH
Q ss_conf             89999999999998549--9849982------77896168983-477225799941981-----------1178753234
Q gi|254780991|r  253 EQIDRMRHSATRSLLER--NDCIVVS------SVSCIYGIGSV-ESYSQMIVQLKIGDS-----------VEQKELLSSL  312 (805)
Q Consensus       253 ~~i~~~R~~a~~~l~~~--~~~IVVg------srSAIfgl~~P-~~~lglIIvdEehd~-----------~~~~~~~~~l  312 (805)
                      ..-.=---+=|+++.+.  ...|.|.      +++.=.   ++ +.--...|+||.|.=           .+..+.+.+.
T Consensus       419 ~~~~~~~~dF~~~~~~~A~~~~~~itNHA~L~~~~~~~---~~~~~~~~~liiDEAh~l~~~a~n~~~~~~~~~~~~~~i  495 (944)
T TIGR01407       419 KKDLFYEVDFYKRAQKKAEQAEILITNHAYLITRLVDK---PELLPEFRLLIIDEAHHLPDIASNLLQEELDYADLKYQI  495 (944)
T ss_pred             CCCCCHHHHHHHHHHHHHHHCCEEEECHHHHHHHHHHC---CCCCCCCCCEEEHHHHHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             65521128899999988833634565017887777644---777766773252226537999998611200488899999


Q ss_pred             HHCCCCCCHHHHHHHHHCCCCEE---EECCCCCHHHHHHHHCCCCCCHHHHHCCCCCCCCHHHHCCCCCCHHHHHCCCCH
Q ss_conf             31176563387754533187247---831788877888731044420022210166640011100001000000002563
Q gi|254780991|r  313 VKQQYKRQDIGIIRGTFRVCGDS---IEIFPSHLEDVAWRVSMFGNDIEEISEFYPLTGQKIRNVETIKIYANSHYVTPR  389 (805)
Q Consensus       313 ~~~~Y~R~D~a~~RG~f~~rg~I---Ldsatps~Es~~~Rie~f~deIe~I~~fDplT~~~~~~~~~~~i~Pa~~~v~~~  389 (805)
                      ...++.-++....|=.-..+--.   +++.+ .....--....+-|++-.+-..=..|.+....-+-....-..++.--.
T Consensus       496 ~~~~~~E~e~L~~r~~q~~~~~~~~~~~~~~-~~~~~L~~~~~e~deLfe~l~~~~~t~~~~s~~~~~~~~yr~~~~R~~  574 (944)
T TIGR01407       496 DKLGKGEKEQLLKRLQQLLKQELLELLEVKE-IDKTLLKASDEELDELFELLFSYVLTQKRDSDSDLLLLKYRIDILREQ  574 (944)
T ss_pred             HHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHC
T ss_conf             8741387357999999999988898765667-877788888889999999999998763146534553344444554221


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--CCCCCCCCHHHHHHCCCCCCC-CCHHHHHCCC
Q ss_conf             6788754558998998998875443321100124444777753321--120145101133311446555-6202330265
Q gi|254780991|r  390 PTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLET--TGSCQSIENYSRYLTGRNPGE-PPPTLFEYIP  466 (805)
Q Consensus       390 e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e--~G~~~gienyS~~L~~r~~ge-~P~tL~dY~p  466 (805)
                      ..+-.++..+......-+  ......+.....|..+....|..--.  .+-+.++..      .-..+| .-+|+.=|..
T Consensus       575 ~~l~~~~~~~~K~~~~~~--~~L~k~l~~~~~l~~~~~~~L~~~~~~~~~~f~~~~q------~l~e~E~~~~~l~~~~D  646 (944)
T TIGR01407       575 NVLTEEIKDSGKKLHEIL--DELNKLLQIFSELEHKVLDQLEKFDLALKDDFKRVIQ------SLKEEERILYELLLELD  646 (944)
T ss_pred             CHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHEEEEEEEC
T ss_conf             138999986202589999--8537899998773045888999998867889999999------88676412101345535


Q ss_pred             CCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCHHH------
Q ss_conf             44213210123447544543245654133323576655444322211101001215554544468675420132------
Q gi|254780991|r  467 EDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGSWELEQC------  540 (805)
Q Consensus       467 ~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~satPg~~e~e~~------  540 (805)
                      ++..-|+........+-...|-                 ...+---..+..|-+...+.+++|||=.-..--.+      
T Consensus       647 ~~~~~wi~~~~~~~~~~~~~~~-----------------~~~~~~~~l~~~~~p~~~~~~~~SaTL~~~~~~~~~~~lLG  709 (944)
T TIGR01407       647 DNRVSWIEIELLQAKSKKLLYI-----------------KDLEVGEVLLKRLLPKKKSVILTSATLKISKSKESLPDLLG  709 (944)
T ss_pred             CCCCEEEEEECCCCCCHHHEEE-----------------EHHHHCCCHHHHHHHHCCCEEEEEEEEEECCCCHHHHHHCC
T ss_conf             8851268862154200021143-----------------20110200245542001407898667755587026887338


Q ss_pred             -HHHHHHHHHCCCC------------CCCCCCEECCC---CCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf             -2002343201244------------67720000133---1016889999998630232124662147899999999863
Q gi|254780991|r  541 -QGIIVEQIIRPTG------------LVDPPVEIRSA---RTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYE  604 (805)
Q Consensus       541 -~~~~~eqi~rptg------------~idp~ieir~~---~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~  604 (805)
                       ..+.+..+..||-            .-.|-|.-.+.   ...|-+.+.++......  |+||.=+.+.|-.-+.+++.+
T Consensus       710 l~d~~F~t~evptp~~~a~n~~v~~p~D~p~i~~~S~~eYa~~~a~~I~e~~~~~~~--~~LVLFTS~~mL~~V~~~l~~  787 (944)
T TIGR01407       710 LTDVKFKTIEVPTPLNYAENARVLVPTDAPAIKNVSLEEYAQEVASKIVELAALESP--KILVLFTSKEMLKAVYDLLKE  787 (944)
T ss_pred             CCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHCCCHHHHHHHHHHHHHHHHHHCCC--CEEEEHHHHHHHHHHHHHHHH
T ss_conf             964227898735876542111562000102230157889999999999999720689--627516489999999998530


Q ss_pred             CCC--EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCC------------------CC
Q ss_conf             596--6873257645789999999973189869998458753578777117999628856------------------74
Q gi|254780991|r  605 RNI--RVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKE------------------GF  664 (805)
Q Consensus       605 ~~i--~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~------------------~f  664 (805)
                      +-.  ...-+-=+++.+++.+|+++|.+|+-.||.||.=-=+|.|||.-.+++.+=+=.|                  -|
T Consensus       788 l~~~~~~~~LaQ~~nsGs~~ki~K~F~~ge~~ILLG~~SFWEGvDf~~~~~~~lvi~RLPF~nP~~pL~kk~~~~~~~EG  867 (944)
T TIGR01407       788 LSEEEGLEVLAQGINSGSRAKIKKRFEKGEKAILLGASSFWEGVDFPGNELVILVIPRLPFANPKEPLTKKKLQKLEEEG  867 (944)
T ss_pred             CCHHCCCEEEEECCCCCCHHHHHHHHHCCCCCEEECCCCEECCCCCCCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHC
T ss_conf             20025806674126778578999986147875661155400240117997179998528677885389999998854311


Q ss_pred             CCCH---------HHHHHHHHHHCCCCC--CEEEEEE
Q ss_conf             4460---------137766543127998--6699982
Q gi|254780991|r  665 LRSK---------TSLIQTIGRAARNVN--SKVILYA  690 (805)
Q Consensus       665 ~~~~---------~~~~q~~GRagR~~~--G~~il~a  690 (805)
                      -..+         --|=|-.||--|+.+  |-++.+=
T Consensus       868 ~npF~~~~lP~A~~RlrQalGRliR~e~drg~~~~LD  904 (944)
T TIGR01407       868 KNPFYDYALPMAILRLRQALGRLIRRENDRGSILVLD  904 (944)
T ss_pred             CCCCHHCCCCHHHHHHHHHHHHHCCCCCCCEEEEEEC
T ss_conf             4641110130799998775100025523554689971


No 167
>cd01369 KISc_KHC_KIF5 Kinesin motor domain, kinesin heavy chain (KHC) or KIF5-like subgroup. Members of this group have been associated with organelle transport. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-c
Probab=96.74  E-value=0.0018  Score=44.61  Aligned_cols=87  Identities=21%  Similarity=0.291  Sum_probs=58.3

Q ss_pred             CCEEEEECCCCCCCHHHHHHH----HHHHHHCCCCEE-EEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHH
Q ss_conf             754775188888843899999----999887397337-998633764699999999971997899931634689999999
Q gi|254780991|r  139 TFFQMQTDYHPSGDQPAAIAQ----LLKGIHSREKVQ-LLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       139 ~~f~l~~~~~P~gdQ~~Ai~~----L~~~l~~g~~~q-lL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rf  213 (805)
                      +.|....-|.|...|.+-.+.    |++.+-+|+..+ +-+|.||||||++|.--..   -+     .+.+|.|....++
T Consensus        43 ~~f~FD~Vf~~~~~Q~~Vy~~~~~plv~~~l~G~n~ti~aYGqTGSGKTyTm~G~~~---~~-----~~~Giipr~~~~l  114 (325)
T cd01369          43 KTFSFDRVFPPNTTQEDVYNFVAKPIVDDVLNGYNGTIFAYGQTGSGKTYTMEGPPG---DP-----ELKGIIPRIVHDI  114 (325)
T ss_pred             CEEECCEEECCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCEECCCCC---CC-----CCCCHHHHHHHHH
T ss_conf             245568571999998999999889999999677864699745789998625127889---84-----5578379999999


Q ss_pred             HHHC---CC-CEEEEEEECCCCCC
Q ss_conf             9867---89-83899862134444
Q gi|254780991|r  214 KNFF---PH-NAVEYFVSYYDYYQ  233 (805)
Q Consensus       214 k~~F---p~-n~V~~f~S~~~~yq  233 (805)
                      -...   .. ....+++||+-.|.
T Consensus       115 f~~i~~~~~~~~~~v~~S~~EIYn  138 (325)
T cd01369         115 FEHISSMDENLEFHVKVSYLEIYM  138 (325)
T ss_pred             HHHHHHCCCCCEEEEEEEHHHHHC
T ss_conf             999971776745999999344231


No 168
>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=96.74  E-value=0.012  Score=38.34  Aligned_cols=73  Identities=26%  Similarity=0.339  Sum_probs=56.6

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCC--CCEEEEECCHHHHH-HHHHHHHHHCCC
Q ss_conf             88888438999999998873973379986337646999999999719--97899931634689-999999986789
Q gi|254780991|r  147 YHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQ--RPAIVMAPNKILAA-QLYSEFKNFFPH  219 (805)
Q Consensus       147 ~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~g--r~aLvLvPei~La~-QL~~rfk~~Fp~  219 (805)
                      |-++.+..+|+..|.-++..+....+|.|-.|||||.+.-.++++..  +...+++++-.+++ .++.-+-.-||.
T Consensus        22 ~y~s~~h~~al~~L~~~l~~~~g~~lltGe~GtGKTtllr~l~~~l~~~~~~~~~i~~~~l~~~~ll~~i~~~lg~   97 (269)
T TIGR03015        22 FYPSKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKRLDQERVVAAKLVNTRVDAEDLLRMVAADFGL   97 (269)
T ss_pred             CCCCHHHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHCCC
T ss_conf             1478669999999999996489659997299898899999999845934548999769999999999999998598


No 169
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=96.70  E-value=0.011  Score=38.57  Aligned_cols=94  Identities=29%  Similarity=0.429  Sum_probs=56.5

Q ss_pred             CCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCCEE-EEECCHHHHHHHHHHHHHHCCCCEEEEEEEC
Q ss_conf             884389999999988739733799863376469999999997199789-9931634689999999986789838998621
Q gi|254780991|r  150 SGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRPAI-VMAPNKILAAQLYSEFKNFFPHNAVEYFVSY  228 (805)
Q Consensus       150 ~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~aL-vLvPei~La~QL~~rfk~~Fp~n~V~~f~S~  228 (805)
                      -|-.+...+.+...+.....-.|+.|=||||||-++-.++.+.+.+.- |++=                 ++-|||-.+.
T Consensus       240 Lg~~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTLY~~L~~ln~~~~nI~Ti-----------------EDPVE~~~~g  302 (500)
T COG2804         240 LGMSPFQLARLLRLLNRPQGLILVTGPTGSGKTTTLYAALSELNTPERNIITI-----------------EDPVEYQLPG  302 (500)
T ss_pred             HCCCHHHHHHHHHHHHCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEE-----------------ECCEEEECCC
T ss_conf             38998899999999728970899968999988999999999862788508984-----------------0780451598


Q ss_pred             CCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHC-CCCEEEECC
Q ss_conf             3444421015554321022103588999999999999854-998499827
Q gi|254780991|r  229 YDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLE-RNDCIVVSS  277 (805)
Q Consensus       229 ~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~-~~~~IVVgs  277 (805)
                      ..  |               ..+|+.+.--=-.+.+++++ ..|+|+||-
T Consensus       303 I~--Q---------------~qVN~k~gltfa~~LRa~LRqDPDvImVGE  335 (500)
T COG2804         303 IN--Q---------------VQVNPKIGLTFARALRAILRQDPDVIMVGE  335 (500)
T ss_pred             CC--E---------------EECCCCCCCCHHHHHHHHHCCCCCEEEEEC
T ss_conf             51--5---------------631403599789999998665998599835


No 170
>cd01367 KISc_KIF2_like Kinesin motor domain, KIF2-like group. KIF2 is a protein expressed in neurons, which has been associated with axonal transport and neuron development; alternative splice forms have been implicated in lysosomal translocation. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found in the middle (M-type) of the protein chain. M-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second (KIF2 may be slower). To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and lo
Probab=96.62  E-value=0.0044  Score=41.59  Aligned_cols=84  Identities=19%  Similarity=0.297  Sum_probs=56.9

Q ss_pred             CCEEEEECCCCCCCHHHHHHH----HHHHHHCCCCEE-EEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHH
Q ss_conf             754775188888843899999----999887397337-998633764699999999971997899931634689999999
Q gi|254780991|r  139 TFFQMQTDYHPSGDQPAAIAQ----LLKGIHSREKVQ-LLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       139 ~~f~l~~~~~P~gdQ~~Ai~~----L~~~l~~g~~~q-lL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rf  213 (805)
                      ..|....-|.|...|.+-.+.    |++.+-+|+..+ +-||.||||||++|..      ..     .+.++.|+...++
T Consensus        51 ~~f~Fd~vf~~~~~q~~vy~~~~~plv~~~l~G~n~ti~aYGqTGSGKTyTm~G------~~-----~~~Giipr~~~~l  119 (322)
T cd01367          51 HTFRFDYVFDEAVTNEEVYRSTVKPLIPHVFEGGVATCFAYGQTGSGKTYTMLG------DE-----NQEGLYALAARDI  119 (322)
T ss_pred             CEEECCEECCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCEEECC------CC-----CCCCCHHHHHHHH
T ss_conf             456577564999998999999989999998689874899942688887268426------87-----6787154699999


Q ss_pred             HHHCCC--CEEEEEEECCCCCC
Q ss_conf             986789--83899862134444
Q gi|254780991|r  214 KNFFPH--NAVEYFVSYYDYYQ  233 (805)
Q Consensus       214 k~~Fp~--n~V~~f~S~~~~yq  233 (805)
                      -.....  ....+.+||+-.|+
T Consensus       120 f~~~~~~~~~~~v~~S~~EIYn  141 (322)
T cd01367         120 FRLLAQPNDDLGVTVSFFEIYG  141 (322)
T ss_pred             HHHHHCCCCCEEEEEEEEEEEC
T ss_conf             9987425565699999878618


No 171
>KOG0925 consensus
Probab=96.61  E-value=0.07  Score=32.61  Aligned_cols=147  Identities=14%  Similarity=0.168  Sum_probs=79.7

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH----CCCCEEEEECCHHHHHHHHHHHHH----HCCCCEEEE
Q ss_conf             389999999988739733799863376469999999997----199789993163468999999998----678983899
Q gi|254780991|r  153 QPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA----MQRPAIVMAPNKILAAQLYSEFKN----FFPHNAVEY  224 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~----~gr~aLvLvPei~La~QL~~rfk~----~Fp~n~V~~  224 (805)
                      |..-.-++..   + .+..+|.|-||||||--.-+-..+    ..+.+..--|-..-|-|+..|...    -.|+ .|.|
T Consensus        51 ~k~~F~~~l~---~-nQ~~v~vGetgsGKttQiPq~~~~~~~~~~~~v~CTQprrvaamsva~RVadEMDv~lG~-EVGy  125 (699)
T KOG0925          51 QKEEFLKLLL---N-NQIIVLVGETGSGKTTQIPQFVLEYELSHLTGVACTQPRRVAAMSVAQRVADEMDVTLGE-EVGY  125 (699)
T ss_pred             HHHHHHHHHH---C-CCEEEEEECCCCCCCCCCCHHHHHHHHHHCCCEEECCCHHHHHHHHHHHHHHHHCCCCCH-HCCC
T ss_conf             7999999986---4-826999934888864547499999987633661324715788999999888874431020-1153


Q ss_pred             EEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHH-HHHCCEEEEECCCCC
Q ss_conf             8621344442101555432102210358899999999999985499849982778961689834-772257999419811
Q gi|254780991|r  225 FVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVE-SYSQMIVQLKIGDSV  303 (805)
Q Consensus       225 f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~-~~lglIIvdEehd~~  303 (805)
                      -+                  .+.+.+.+.-+  .|+ .|-.++-++         |.-   .|+ ..-|.||.||.||.+
T Consensus       126 sI------------------rfEdC~~~~T~--Lky-~tDgmLlrE---------ams---~p~l~~y~viiLDeahERt  172 (699)
T KOG0925         126 SI------------------RFEDCTSPNTL--LKY-CTDGMLLRE---------AMS---DPLLGRYGVIILDEAHERT  172 (699)
T ss_pred             CC------------------CCCCCCCHHHH--HHH-HCCHHHHHH---------HHC---CCCCCCCCEEEECHHHHHH
T ss_conf             21------------------21236871589--999-533289998---------750---8554530079953166666


Q ss_pred             CHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHH
Q ss_conf             1787532343117656338775453318724783178887788
Q gi|254780991|r  304 EQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDV  346 (805)
Q Consensus       304 ~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~  346 (805)
                      --.+.     -+|--. +++..|   ..-.+|+-|+|...+.+
T Consensus       173 lATDi-----LmGllk-~v~~~r---pdLk~vvmSatl~a~Kf  206 (699)
T KOG0925         173 LATDI-----LMGLLK-EVVRNR---PDLKLVVMSATLDAEKF  206 (699)
T ss_pred             HHHHH-----HHHHHH-HHHHHC---CCCEEEEEECCCCHHHH
T ss_conf             78999-----999999-998619---88169994060125999


No 172
>PRK07952 DNA replication protein DnaC; Validated
Probab=96.52  E-value=0.044  Score=34.13  Aligned_cols=65  Identities=17%  Similarity=0.331  Sum_probs=51.3

Q ss_pred             CCHHHHHHH---HHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHHHHHHHHHHCCCC
Q ss_conf             843899999---99988739733799863376469999999997---19978999316346899999999867898
Q gi|254780991|r  151 GDQPAAIAQ---LLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQLYSEFKNFFPHN  220 (805)
Q Consensus       151 gdQ~~Ai~~---L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~QL~~rfk~~Fp~n  220 (805)
                      .+|..|++.   .++++..|+...+++|=.|+|||+.-+.+..+   .|++|++.+     ++.|..++++-|.++
T Consensus        76 ~~q~~al~~a~~y~enf~~~~~gLlF~G~~GTGKThLA~aIan~Li~~G~sVlf~t-----~~dLl~~lr~t~~~~  146 (242)
T PRK07952         76 EGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT-----VADIMSAMKDTFRNS  146 (242)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEE-----HHHHHHHHHHHHHCC
T ss_conf             77899999999999865438871799789999789999999999998799499977-----999999999998068


No 173
>cd00106 KISc Kinesin motor domain. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type), in some its is found in the middle (M-type), or C-terminal (C-type). N-type and M-type kinesins are (+) end-directed motors, while C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coil
Probab=96.51  E-value=0.0077  Score=39.80  Aligned_cols=86  Identities=20%  Similarity=0.330  Sum_probs=59.2

Q ss_pred             CCEEEEECCCCCCCHHHHHHHH----HHHHHCCCCEE-EEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHH
Q ss_conf             7547751888888438999999----99887397337-998633764699999999971997899931634689999999
Q gi|254780991|r  139 TFFQMQTDYHPSGDQPAAIAQL----LKGIHSREKVQ-LLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       139 ~~f~l~~~~~P~gdQ~~Ai~~L----~~~l~~g~~~q-lL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rf  213 (805)
                      +-|....=|.|..+|.+..+.+    ++.+-+|+..+ +-||.||||||++|..-           -.+.+|.|....++
T Consensus        45 ~~f~Fd~vf~~~~~q~~vy~~~~~plv~~~l~G~n~ti~aYGqTGSGKTyTm~G~-----------~~~~Giipr~~~~l  113 (328)
T cd00106          45 KSFTFDHVFDPNSTQEDVYETTAKPLVESVLEGYNGTIFAYGQTGSGKTYTMFGS-----------PKDPGIIPRALEDL  113 (328)
T ss_pred             CEEECCEEECCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCEEECCC-----------CCCCCHHHHHHHHH
T ss_conf             1776586779899989999998899999996888669999689999854074578-----------87665578999999


Q ss_pred             HHHCC-----CCEEEEEEECCCCCCCC
Q ss_conf             98678-----98389986213444421
Q gi|254780991|r  214 KNFFP-----HNAVEYFVSYYDYYQPE  235 (805)
Q Consensus       214 k~~Fp-----~n~V~~f~S~~~~yqpE  235 (805)
                      -....     +..+.+.+|++-.|.-.
T Consensus       114 f~~~~~~~~~~~~~~v~~S~~EIyne~  140 (328)
T cd00106         114 FNLIDERKEKNKSFSVSVSYLEIYNEK  140 (328)
T ss_pred             HHHHHHHHCCCCEEEEEEEEEEEECCE
T ss_conf             999974123595289999999963898


No 174
>pfam00225 Kinesin Kinesin motor domain.
Probab=96.50  E-value=0.014  Score=37.95  Aligned_cols=84  Identities=21%  Similarity=0.315  Sum_probs=57.3

Q ss_pred             CCEEEEECCCCCCCHHHHHHH----HHHHHHCCCCEE-EEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHH
Q ss_conf             754775188888843899999----999887397337-998633764699999999971997899931634689999999
Q gi|254780991|r  139 TFFQMQTDYHPSGDQPAAIAQ----LLKGIHSREKVQ-LLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       139 ~~f~l~~~~~P~gdQ~~Ai~~----L~~~l~~g~~~q-lL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rf  213 (805)
                      +.|....=|.|--+|.+..+.    |++.+-+|+... +-+|.||||||++|.--           ..+-+|.|.+...+
T Consensus        40 ~~f~FD~vf~~~~~q~~vy~~~~~plv~~~l~G~n~ti~aYGqTGSGKTyTm~G~-----------~~~~Giipr~~~~L  108 (321)
T pfam00225        40 KTFTFDRVFDPEATQEFVYEETAKPLVESVLEGYNVTIFAYGQTGSGKTYTMEGS-----------EGEPGIIPRALEDL  108 (321)
T ss_pred             EEEECCEEECCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCEEECCC-----------CCCCCHHHHHHHHH
T ss_conf             0876685779899989999999899999996887379999799999841652689-----------98761899999999


Q ss_pred             H----HHCCCCEEEEEEECCCCCC
Q ss_conf             9----8678983899862134444
Q gi|254780991|r  214 K----NFFPHNAVEYFVSYYDYYQ  233 (805)
Q Consensus       214 k----~~Fp~n~V~~f~S~~~~yq  233 (805)
                      -    ..-.+....+++|++-.|.
T Consensus       109 f~~~~~~~~~~~~~v~~S~~EIyn  132 (321)
T pfam00225       109 FERIEERKDKYEFSVRVSYLEIYN  132 (321)
T ss_pred             HHHHHHCCCCCEEEEEEEEEEEEC
T ss_conf             999983556743999999977867


No 175
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=96.48  E-value=0.024  Score=36.13  Aligned_cols=74  Identities=22%  Similarity=0.251  Sum_probs=49.9

Q ss_pred             CCHHHHHHHHHHHHC-CCCCEEEEHHHHHCCCCCCCC--CEEEEECCCC-----------------C----CC-----CC
Q ss_conf             457899999999731-898699984587535787771--1799962885-----------------6----74-----44
Q gi|254780991|r  616 VKTLERIEIIRDLRL-GKFDVLVGINLLREGLDIPEC--GLVAILDADK-----------------E----GF-----LR  666 (805)
Q Consensus       616 ~~~~~r~~il~~~~~-g~~diLvgt~~~akGlD~p~v--~lV~i~dAD~-----------------~----~f-----~~  666 (805)
                      .+..+..++|++|+. ++--||+|+.=+++|+|||+=  ..|+|.-..-                 .    +|     +.
T Consensus        31 ~~~~~~~~~l~~f~~~~~~avL~~vg~~sEGIDf~~d~~r~vii~glPfp~~~d~~~~~r~~~~~~~~~~~~~~~~~~~~  110 (141)
T smart00492       31 EDGKETGKLLEKYVEACENAILLATARFSEGVDFPGDYLRAVIIDGLPFPYPDSPILKARLELLRDKGQIRPFDFVSLPD  110 (141)
T ss_pred             CCCCHHHHHHHHHHHHCCCEEEEEECCCCCCEECCCCCEEEEEEECCCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHH
T ss_conf             99224999999999836880999703433442059845569999447889999899999999999856998424665899


Q ss_pred             CHHHHHHHHHHHCCCCC--CEEEEE
Q ss_conf             60137766543127998--669998
Q gi|254780991|r  667 SKTSLIQTIGRAARNVN--SKVILY  689 (805)
Q Consensus       667 ~~~~~~q~~GRagR~~~--G~~il~  689 (805)
                      .-+.+.|-+||.=|+.+  |.+|+.
T Consensus       111 A~r~v~Qa~GR~IR~~~D~G~iil~  135 (141)
T smart00492      111 AMRTLAQCVGRLIRGANDYGVVVIA  135 (141)
T ss_pred             HHHHHHHHHCCCCCCCCCEEEEEEE
T ss_conf             9999999868754578876999998


No 176
>KOG0384 consensus
Probab=96.47  E-value=0.085  Score=31.98  Aligned_cols=444  Identities=16%  Similarity=0.168  Sum_probs=228.8

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHH---HHHHHHH---CC
Q ss_conf             74026667888742158877547751888888438999999998873973379986337646999---9999997---19
Q gi|254780991|r  120 GKIWTPHRSWSINNHSKDITFFQMQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFT---MAKVIEA---MQ  193 (805)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~~~f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTev---ya~lI~~---~g  193 (805)
                      +..|.|.||  +..+......|.- . .+--.=|-+-++=|+-.--++ ..+.|--=-|=|||.-   +++-+-.   ..
T Consensus       346 ~~~~~~~rp--~f~Kle~qP~y~~-g-~~LRDYQLeGlNWLl~~W~k~-~n~ILADEMGLGKTvQtI~FLs~l~~~~~~~  420 (1373)
T KOG0384         346 GCKYRPQRP--RFRKLEKQPEYKG-G-NELRDYQLEGLNWLLYSWYKR-NNCILADEMGLGKTVQTITFLSYLFHSLQIH  420 (1373)
T ss_pred             CCCCCCCCH--HHHHHHCCCCCCC-C-CCHHHHHHCCHHHHHHHHHCC-CCEEEECCCCCCCHHHHHHHHHHHHHHCCCC
T ss_conf             543367874--5767640943126-7-614465631328999988646-8647540025774013459999999845447


Q ss_pred             CCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCC--CC
Q ss_conf             9789993163468999999998678983899862134444210155543210221035889999999999998549--98
Q gi|254780991|r  194 RPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLER--ND  271 (805)
Q Consensus       194 r~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~--~~  271 (805)
                      -|.||+||=-|+|+ -..+|..+-.=|.|.|+-+-.          ++++.-+-+...+             -.++  +-
T Consensus       421 GPfLvVvPLSTi~~-W~ref~~WtdmN~ivY~G~~~----------SR~~I~qYE~~~~-------------~~~~~~KF  476 (1373)
T KOG0384         421 GPFLVVVPLSTITA-WEREFETWTDMNVIVYHGNLE----------SRQLIRQYEFYHS-------------SNTKKLKF  476 (1373)
T ss_pred             CCEEEEEECCCCHH-HHHHHHHHHHCCEEEEECCHH----------HHHHHHHHHEEEC-------------CCCCEEEE
T ss_conf             88699986400078-999999875146588826656----------7899987650454-------------77751788


Q ss_pred             EEEECCHHHHCCCCCHHHHHC-----CEEEEECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHH
Q ss_conf             499827789616898347722-----579994198111787532343117656338775453318724783178887788
Q gi|254780991|r  272 CIVVSSVSCIYGIGSVESYSQ-----MIVQLKIGDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDV  346 (805)
Q Consensus       272 ~IVVgsrSAIfgl~~P~~~lg-----lIIvdEehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~  346 (805)
                      -+++.|---|.   .-...|+     ..++||.|--      +... ..-|.      .--+|...--+|=..||-..+.
T Consensus       477 n~LlTTyE~vL---kDk~~L~~i~W~~~~vDEAHRL------KN~~-s~Ly~------~L~~f~~~hrlLiTGTPLQNsi  540 (1373)
T KOG0384         477 NALLTTYEIVL---KDKAELSKIPWRYLLVDEAHRL------KNDE-SKLYE------SLNQFKMNHRLLITGTPLQNSL  540 (1373)
T ss_pred             EEEEHHHHHHH---CCHHHHCCCCEEEEEECHHHHH------CCCH-HHHHH------HHHHHHHCCEEEEECCCCCCCH
T ss_conf             76400189897---2688864575278974166550------6504-48999------9998643075775478540319


Q ss_pred             HHHHCCCCCCHHHHHCCCCCCCCHHHHCCCCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             87310444200222101666400111000010000000025636788754558998998998875443321100124444
Q gi|254780991|r  347 AWRVSMFGNDIEEISEFYPLTGQKIRNVETIKIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRI  426 (805)
Q Consensus       347 ~~Rie~f~deIe~I~~fDplT~~~~~~~~~~~i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~  426 (805)
                         -+     +-++-.               .+.|.....  .+......   ..+-...+..+....+    -++++|.
T Consensus       541 ---~E-----L~sLL~---------------Fl~P~kF~~--~~ef~~e~---~~~~e~~v~~Lq~~L~----P~~LRRl  588 (1373)
T KOG0384         541 ---KE-----LWSLLH---------------FLMPGKFDS--WDEFLEEF---DEETEEQVRKLQQILK----PFLLRRL  588 (1373)
T ss_pred             ---HH-----HHHHHH---------------HHCCCCCCC--HHHHHHHH---CCHHHHHHHHHHHHHH----HHHHHHH
T ss_conf             ---99-----999987---------------737555786--78998873---3023889999999876----8999998


Q ss_pred             HHHHHHH----H-----------HCCCCC--CCCHHHHHHCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCC
Q ss_conf             7777533----2-----------112014--5101133311446555620233026544213210123447544543245
Q gi|254780991|r  427 TYDLEML----E-----------TTGSCQ--SIENYSRYLTGRNPGEPPPTLFEYIPEDSLLFVDESHVTIPQISGMYRG  489 (805)
Q Consensus       427 ~~dle~l----~-----------e~G~~~--gienyS~~L~~r~~ge~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~  489 (805)
                      ..|+|.-    .           |.-|..  --.||+. |+-..-|..|.+ +.     ..   -               
T Consensus       589 KkDVEKSLp~K~E~IlrVels~lQk~yYk~ILtkN~~~-LtkG~~g~~~~l-lN-----im---m---------------  643 (1373)
T KOG0384         589 KKDVEKSLPPKEETILRVELSDLQKQYYKAILTKNFSA-LTKGAKGSTPSL-LN-----IM---M---------------  643 (1373)
T ss_pred             HHHHHHCCCCCCCEEEEEHHHHHHHHHHHHHHHHHHHH-HHCCCCCCCCHH-HH-----HH---H---------------
T ss_conf             88775227863122565405678999999999853999-836678898029-99-----99---9---------------


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCEECCCCCHHH
Q ss_conf             65413332357665544432221110100121555454446867542013220023432012446772000013310168
Q gi|254780991|r  490 DFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGSWELEQCQGIIVEQIIRPTGLVDPPVEIRSARTQVE  569 (805)
Q Consensus       490 d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~satPg~~e~e~~~~~~~eqi~rptg~idp~ieir~~~~qvd  569 (805)
                                   .|. -+||+|.-|..-++..-.-.-.          +........+|+..|.+=          -+|
T Consensus       644 -------------ELk-KccNHpyLi~gaee~~~~~~~~----------~~~d~~l~~lI~sSGKlV----------LLD  689 (1373)
T KOG0384         644 -------------ELK-KCCNHPYLIKGAEEKILGDFRD----------KMRDEALQALIQSSGKLV----------LLD  689 (1373)
T ss_pred             -------------HHH-HHCCCCCCCCCHHHHHHHHHHH----------CCHHHHHHHHHHHCCCEE----------EHH
T ss_conf             -------------999-8647800048588888876530----------146799999997168588----------698


Q ss_pred             HHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCC---CCEEEEHHHHHCCC
Q ss_conf             899999986302321246621478999999998635966873257645789999999973189---86999845875357
Q gi|254780991|r  570 DVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGK---FDVLVGINLLREGL  646 (805)
Q Consensus       570 dl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~---~diLvgt~~~akGl  646 (805)
                      .|+.   +....|.|||+|.---||-+-|++||.-+|+.---+||.+...-|...|..|..-.   +-.|..|--=.=|+
T Consensus       690 KLL~---rLk~~GHrVLIFSQMVRmLDIL~eYL~~r~ypfQRLDGsvrgelRq~AiDhFnap~SddFvFLLSTRAGGLGI  766 (1373)
T KOG0384         690 KLLP---RLKEGGHRVLIFSQMVRMLDILAEYLSLRGYPFQRLDGSVRGELRQQAIDHFNAPDSDDFVFLLSTRAGGLGI  766 (1373)
T ss_pred             HHHH---HHHCCCCEEEEEHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCEEEEEECCCCCCCC
T ss_conf             7789---9861894599719999999999999997388611146876168899888743699988649998315676640


Q ss_pred             CCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEECCCC-HHHHHHHHHHHHHH
Q ss_conf             8777117999628856744460137766543127-99866999824898-89999999878888
Q gi|254780991|r  647 DIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYADTIT-KSIQLAIDETTRRR  708 (805)
Q Consensus       647 D~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad~~t-~~~~~ai~e~~rrr  708 (805)
                      .+---.-|+|+|-|=     +++.=.|..-||-| |..-.|-.| ..|| +++++-|-|-.++.
T Consensus       767 NLatADTVIIFDSDW-----NPQNDLQAqARaHRIGQkk~VnVY-RLVTk~TvEeEilERAk~K  824 (1373)
T KOG0384         767 NLATADTVIIFDSDW-----NPQNDLQAQARAHRIGQKKHVNVY-RLVTKNTVEEEILERAKLK  824 (1373)
T ss_pred             CCCCCCEEEEECCCC-----CCCHHHHHHHHHHHHCCCCEEEEE-EEECCCCHHHHHHHHHHHH
T ss_conf             224466699968999-----950578999988660664547899-9745784489999999887


No 177
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.42  E-value=0.062  Score=33.03  Aligned_cols=86  Identities=26%  Similarity=0.198  Sum_probs=46.2

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCCCHHHH
Q ss_conf             33799863376469999999997199789993163468999999998678983899862134444210155543210221
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAYVPRTDTYIEKE  248 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yqpEay~p~~d~~i~k~  248 (805)
                      +...|.|=||+|||=+.|.+.++                     |.-+.+...|.+.              ..|||    
T Consensus       211 ~vvalVGPTGVGKTTTiAKLAA~---------------------~~l~~~~~kV~lI--------------T~Dty----  251 (412)
T PRK05703        211 GVVALVGPTGVGKTTTLAKLAAR---------------------YALEEGKDKVALI--------------TLDTY----  251 (412)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH---------------------HHHHCCCCEEEEE--------------EECCC----
T ss_conf             36999888887567699999999---------------------9997299817999--------------83767----


Q ss_pred             CCCCHHHHHHHHHHHHHHHC-----CCCEEEECCHHHHCCCCCHHHHHCCEEEEECCCCC
Q ss_conf             03588999999999999854-----99849982778961689834772257999419811
Q gi|254780991|r  249 SSINEQIDRMRHSATRSLLE-----RNDCIVVSSVSCIYGIGSVESYSQMIVQLKIGDSV  303 (805)
Q Consensus       249 ~s~n~~i~~~R~~a~~~l~~-----~~~~IVVgsrSAIfgl~~P~~~lglIIvdEehd~~  303 (805)
                                |..|+..|..     |=++-||-+.+.+-.+..=+.+..+|++|-.|-+.
T Consensus       252 ----------RigA~eQLk~Ya~ilgvp~~v~~~~~~l~~al~~~~~~dlILIDTaG~s~  301 (412)
T PRK05703        252 ----------RIGAVEQLKTYAKIMGIPVKVAYDPKELAKALEQLANCDLILIDTAGRSQ  301 (412)
T ss_pred             ----------CHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHCCCCEEEEECCCCCC
T ss_conf             ----------77799999999997197379847999999999871589979996898897


No 178
>TIGR00963 secA preprotein translocase, SecA subunit; InterPro: IPR000185   Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component. . From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins. The translocase protein subunits are encoded on the bacterial chromosome.     The translocase itself comprises 7 proteins, including a chaperone protein (SecB), an ATPase (SecA), an integral membrane complex (SecCY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) . The chaperone protein SecB  is a highly acidic homotetrameric protein that exists as a "dimer of dimers" in the bacterial cytoplasm. SecB maintains preproteins in an unfolded state after translation, and targets these to the peripheral membrane protein ATPase SecA for secretion .   SecA is a cytoplasmic protein of 800 to 960 amino acid residues. Homologs of secA are also encoded in the chloroplast genome of some algae  as well as in the nuclear genome of plants . It could be involved in the intraorganellar protein transport into thylakoids.; GO: 0005524 ATP binding, 0006605 protein targeting, 0006886 intracellular protein transport.
Probab=96.41  E-value=0.0077  Score=39.79  Aligned_cols=98  Identities=26%  Similarity=0.303  Sum_probs=73.9

Q ss_pred             CCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHH--HHHHHHCCCC
Q ss_conf             72000013310168899999986302321246621478999999998635966873257645789999--9999731898
Q gi|254780991|r  556 DPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIE--IIRDLRLGKF  633 (805)
Q Consensus       556 dp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~--il~~~~~g~~  633 (805)
                      .|.+.-.....+-+=+..||.+.-.+|.=+||||.+-...|-|+..|.+.||+=.-|-.--..-+|+.  |=+.=++|. 
T Consensus       409 ~~DlvY~te~~Kw~Av~~e~~~~h~~GqPvLvGT~svE~SE~LS~lL~~~~I~H~VLNAKPENh~rEAeIia~AG~kGA-  487 (904)
T TIGR00963       409 LPDLVYKTEEEKWKAVVDEIKEIHAKGQPVLVGTTSVEKSELLSKLLKERGIPHNVLNAKPENHEREAEIIAQAGRKGA-  487 (904)
T ss_pred             CCCCEECCHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHCCCCCC-
T ss_conf             7773464768899999999999874689877752217778999999985789812247874467789999996088864-


Q ss_pred             CEEEEHHHHHCCCCCCCCCEEEEEC
Q ss_conf             6999845875357877711799962
Q gi|254780991|r  634 DVLVGINLLREGLDIPECGLVAILD  658 (805)
Q Consensus       634 diLvgt~~~akGlD~p~v~lV~i~d  658 (805)
                       |=|+|||+.||=||   -|=||.|
T Consensus       488 -VTIATNMAGRGTDI---~LGGN~~  508 (904)
T TIGR00963       488 -VTIATNMAGRGTDI---KLGGNPD  508 (904)
T ss_pred             -EEEEECCCCCCCCE---EECCCHH
T ss_conf             -16762478776450---3178788


No 179
>cd01376 KISc_KID_like Kinesin motor domain, KIF22/Kid-like subgroup. Members of this group might play a role in regulating chromosomal movement along microtubules in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through
Probab=96.39  E-value=0.0087  Score=39.42  Aligned_cols=84  Identities=21%  Similarity=0.287  Sum_probs=56.1

Q ss_pred             CCEEEEECCCCCCCHHHHHHH----HHHHHHCCCCEE-EEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHH
Q ss_conf             754775188888843899999----999887397337-998633764699999999971997899931634689999999
Q gi|254780991|r  139 TFFQMQTDYHPSGDQPAAIAQ----LLKGIHSREKVQ-LLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       139 ~~f~l~~~~~P~gdQ~~Ai~~----L~~~l~~g~~~q-lL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rf  213 (805)
                      +.|....-|.|...|.+..+.    +++.+-+|+..+ +-+|-||||||++|.---           .+.+|.|..+.++
T Consensus        47 ~~f~FD~Vf~~~~tQ~~Vy~~~~~plv~~~l~G~n~ti~aYGqTGSGKTyTm~G~~-----------~~~Giipr~~~~l  115 (319)
T cd01376          47 KKYQFDAFYGTECTQEDIFSREVKPIVPHLLSGQNATVFAYGSTGAGKTHTMLGDP-----------NEPGLIPRTLSDL  115 (319)
T ss_pred             EEEECCEEECCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCEEECCCC-----------CCCCHHHHHHHHH
T ss_conf             46664867189999899998865999999868985599996789998746853787-----------6564258999999


Q ss_pred             HHHCC--CCEEEEEEECCCCCC
Q ss_conf             98678--983899862134444
Q gi|254780991|r  214 KNFFP--HNAVEYFVSYYDYYQ  233 (805)
Q Consensus       214 k~~Fp--~n~V~~f~S~~~~yq  233 (805)
                      -..-.  +....+.+||+..|.
T Consensus       116 f~~~~~~~~~~~v~vS~~EIYn  137 (319)
T cd01376         116 LRMGRKQAWTGAFSMSYYEIYN  137 (319)
T ss_pred             HHHHHCCCCCEEEEEEEEEEEC
T ss_conf             9976433772589999999887


No 180
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=96.35  E-value=0.017  Score=37.23  Aligned_cols=23  Identities=48%  Similarity=0.570  Sum_probs=17.0

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHH
Q ss_conf             33799863376469999999997
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEA  191 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~  191 (805)
                      +...|.|=||+|||=+.|.+.++
T Consensus       195 ~vi~lvGPTGVGKTTTiAKLAa~  217 (282)
T TIGR03499       195 GVIALVGPTGVGKTTTLAKLAAR  217 (282)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
T ss_conf             27999778887578899999999


No 181
>smart00129 KISc Kinesin motor, catalytic domain. ATPase. Microtubule-dependent molecular motors that play important roles in intracellular transport of organelles and in cell division.
Probab=96.35  E-value=0.0066  Score=40.31  Aligned_cols=85  Identities=18%  Similarity=0.263  Sum_probs=57.9

Q ss_pred             CCEEEEECCCCCCCHHHHHHHHH----HHHHCCCCEE-EEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHH
Q ss_conf             75477518888884389999999----9887397337-998633764699999999971997899931634689999999
Q gi|254780991|r  139 TFFQMQTDYHPSGDQPAAIAQLL----KGIHSREKVQ-LLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       139 ~~f~l~~~~~P~gdQ~~Ai~~L~----~~l~~g~~~q-lL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rf  213 (805)
                      +.|....-|.|...|.+-.+.++    +.+-+|+..+ +-+|.||||||++|..-           ..+-+|.|.+..++
T Consensus        46 ~~f~FD~vf~~~~~q~~vy~~~~~plv~~~~~G~n~ti~aYGqTGSGKTyTm~G~-----------~~~~Giipr~~~~l  114 (335)
T smart00129       46 KKFTFDKVFGATASQEDVFEETAAPLVDSVLEGYNATIFAYGQTGSGKTYTMSGT-----------PDSPGIIPRALKDL  114 (335)
T ss_pred             EEEECCEEECCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCEECCC-----------CCCCCHHHHHHHHH
T ss_conf             0656786879899989999998899999997897579999799999976475689-----------88763679999999


Q ss_pred             H----HHCCCCEEEEEEECCCCCCC
Q ss_conf             9----86789838998621344442
Q gi|254780991|r  214 K----NFFPHNAVEYFVSYYDYYQP  234 (805)
Q Consensus       214 k----~~Fp~n~V~~f~S~~~~yqp  234 (805)
                      -    ..=++....+.+||+-.|+-
T Consensus       115 f~~~~~~~~~~~~~v~vS~~EIyne  139 (335)
T smart00129      115 FEKIDKLEEGWQFQVKVSYLEIYNE  139 (335)
T ss_pred             HHHHHHCCCCCEEEEEEEEEEEECC
T ss_conf             9999713789549999998510166


No 182
>cd01374 KISc_CENP_E Kinesin motor domain, CENP-E/KIP2-like subgroup, involved in chromosome movement and/or spindle elongation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to
Probab=96.34  E-value=0.008  Score=39.69  Aligned_cols=84  Identities=18%  Similarity=0.209  Sum_probs=55.5

Q ss_pred             CCEEEEECCCCCCCHHHHHHH----HHHHHHCCCCEE-EEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHH
Q ss_conf             754775188888843899999----999887397337-998633764699999999971997899931634689999999
Q gi|254780991|r  139 TFFQMQTDYHPSGDQPAAIAQ----LLKGIHSREKVQ-LLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       139 ~~f~l~~~~~P~gdQ~~Ai~~----L~~~l~~g~~~q-lL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rf  213 (805)
                      +.|....-|.|...|.+..+.    |++.+-+|+..+ +-+|.||||||++|..--           -+.++.|.....+
T Consensus        40 ~~f~Fd~vf~~~~tQ~~vy~~~~~plv~~~l~G~n~ti~aYGqTGSGKTyTm~G~~-----------~~~Giipr~~~~l  108 (321)
T cd01374          40 QSFTFDRVFGGESTNREVYERIAKPVVRSALEGYNGTIFAYGQTSSGKTFTMSGDE-----------QEPGIIPLAVRDI  108 (321)
T ss_pred             CEEECCEEECCCCCHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCEECCCCC-----------CCCCHHHHHHHHH
T ss_conf             45664857498999899999988999999858973479962688999835747998-----------8764688999999


Q ss_pred             HHH---CCCCEEEEEEECCCCCC
Q ss_conf             986---78983899862134444
Q gi|254780991|r  214 KNF---FPHNAVEYFVSYYDYYQ  233 (805)
Q Consensus       214 k~~---Fp~n~V~~f~S~~~~yq  233 (805)
                      -..   .++....+.+|++..|.
T Consensus       109 f~~i~~~~~~~~~v~~S~~EIYn  131 (321)
T cd01374         109 FQRIQDTPDREFLLRVSYLEIYN  131 (321)
T ss_pred             HHHHHHCCCCCEEEEEEEHHHHC
T ss_conf             99997385876799999816629


No 183
>PRK10436 hypothetical protein; Provisional
Probab=96.34  E-value=0.037  Score=34.68  Aligned_cols=89  Identities=27%  Similarity=0.386  Sum_probs=49.7

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC---CCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECC
Q ss_conf             3899999999887397337998633764699999999971---9978999316346899999999867898389986213
Q gi|254780991|r  153 QPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM---QRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYY  229 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~---gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~  229 (805)
                      -+..++.+..-+.....-.|..|=||||||-++-.++++.   ++..+-+                   ++-|||...+.
T Consensus       200 ~~~~~~~~~~~~~~p~GliLvtGPTGSGKTTTLya~L~~l~~~~~~I~Ti-------------------EDPVE~~l~gi  260 (461)
T PRK10436        200 TPAQLAQFRQALQQPQGLVLVTGPTGSGKTVTLYSALQTLNTAQINICSV-------------------EDPVEIPLAGI  260 (461)
T ss_pred             CHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEE-------------------ECCCCCCCCCC
T ss_conf             99999999999838997799978999956999999997434677169996-------------------07743554675


Q ss_pred             CCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHC-CCCEEEECC
Q ss_conf             444421015554321022103588999999999999854-998499827
Q gi|254780991|r  230 DYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLE-RNDCIVVSS  277 (805)
Q Consensus       230 ~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~-~~~~IVVgs  277 (805)
                      .  |               ..+|+....---++.+++++ ..|+|+||-
T Consensus       261 ~--Q---------------~~vn~~~g~tfa~~lrs~LRqDPDVImvGE  292 (461)
T PRK10436        261 N--Q---------------TQIHPRAGLTFQRVLRALLRQDPDVIMVGE  292 (461)
T ss_pred             C--C---------------CEECCCCCHHHHHHHHHHHCCCCCEEEECC
T ss_conf             4--5---------------231322131399999998746999998657


No 184
>cd01365 KISc_KIF1A_KIF1B Kinesin motor domain, KIF1_like proteins. KIF1A (Unc104) transports synaptic vesicles to the nerve  terminal, KIF1B has been implicated in transport of mitochondria. Both proteins are expressed in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. In contrast to the majority of dimeric kinesins, most KIF1A/Unc104 kinesins are monomeric motors. A lysine-rich loop in KIF1A binds to the negatively charged C-terminus of tubulin and compensates for the lack of a second motor domain, allowing KIF1A to move processively.
Probab=96.25  E-value=0.014  Score=37.93  Aligned_cols=72  Identities=28%  Similarity=0.354  Sum_probs=47.1

Q ss_pred             CCHHHHHHH----HHHHHHCCCCEE-EEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCC---CC--
Q ss_conf             843899999----999887397337-99863376469999999997199789993163468999999998678---98--
Q gi|254780991|r  151 GDQPAAIAQ----LLKGIHSREKVQ-LLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFP---HN--  220 (805)
Q Consensus       151 gdQ~~Ai~~----L~~~l~~g~~~q-lL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp---~n--  220 (805)
                      ..|.+..+.    |++.+-+|+..+ +-||.||||||++|.-      -     -.+-+|.|....++=....   +.  
T Consensus        67 atQ~~vy~~~~~plv~~~l~G~n~ti~aYGqTGSGKTyTm~G------~-----~~~~Giipr~~~~lF~~i~~~~~~~~  135 (356)
T cd01365          67 ASQEDVFEDLGRELLDHAFEGYNVCLFAYGQTGSGKSYTMMG------Y-----KEEKGIIPRLCEELFQRIESKKEQNL  135 (356)
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCEEECC------C-----CCCCCHHHHHHHHHHHHHHHCCCCCC
T ss_conf             889999999989999999789857999878899983768626------9-----87650999999999999973436781


Q ss_pred             EEEEEEECCCCCC
Q ss_conf             3899862134444
Q gi|254780991|r  221 AVEYFVSYYDYYQ  233 (805)
Q Consensus       221 ~V~~f~S~~~~yq  233 (805)
                      ...+.+||+-.|.
T Consensus       136 ~~~v~~S~~EIYn  148 (356)
T cd01365         136 SYEVEVSYMEIYN  148 (356)
T ss_pred             EEEEEEEEEEEEC
T ss_conf             5999999999967


No 185
>pfam07652 Flavi_DEAD Flavivirus DEAD domain.
Probab=96.11  E-value=0.0045  Score=41.55  Aligned_cols=129  Identities=15%  Similarity=0.150  Sum_probs=72.3

Q ss_pred             EEEEEEECCCCHH-HHHHHHHHHC---CCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCCCH
Q ss_conf             3799863376469-9999999971---99789993163468999999998678983899862134444210155543210
Q gi|254780991|r  170 VQLLLGVTGSGKT-FTMAKVIEAM---QRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAYVPRTDTYI  245 (805)
Q Consensus       170 ~qlL~GVTGSGKT-evya~lI~~~---gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yqpEay~p~~d~~i  245 (805)
                      -.+|.=--||||| -+.-+++++.   +..+|||+|--..+..+++-++.    -.|-|.-+.+.               
T Consensus         4 ~t~ld~HPGaGKTr~vLP~~v~~~i~~~lRtlVLaPTRVV~~Em~eAL~g----~~vr~~t~a~~---------------   64 (146)
T pfam07652         4 LTVLDLHPGAGKTRKVLPELVRECIDRRLRTLVLAPTRVVLAEMEEALRG----LPIRYHTPAVS---------------   64 (146)
T ss_pred             EEEEECCCCCCCCCHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHCC----CCCEEECHHHH---------------
T ss_conf             27985389999702248999999997286189977279999999999758----99467523431---------------


Q ss_pred             HHHCCCCHHHHHHHHHHHHH-HHCCCCEEEECCHHHHCCCCCHHHHHCCEEEEECCCCCCHHHHHHHHHHCCCCCCHHHH
Q ss_conf             22103588999999999999-85499849982778961689834772257999419811178753234311765633877
Q gi|254780991|r  246 EKESSINEQIDRMRHSATRS-LLERNDCIVVSSVSCIYGIGSVESYSQMIVQLKIGDSVEQKELLSSLVKQQYKRQDIGI  324 (805)
Q Consensus       246 ~k~~s~n~~i~~~R~~a~~~-l~~~~~~IVVgsrSAIfgl~~P~~~lglIIvdEehd~~~~~~~~~~l~~~~Y~R~D~a~  324 (805)
                      . +..-++.+|.+.|++... +++                +.+..|-.+||.||.|=.=     .......     -...
T Consensus        65 ~-~~~~~~ivdvmCHAT~t~r~l~----------------~~~~~ny~viIMDE~H~~D-----P~SIAar-----G~~~  117 (146)
T pfam07652        65 S-EHTGREIVDVMCHATFTQRLLS----------------PVRVPNYEVIIMDEAHFTD-----PASIAAR-----GYIS  117 (146)
T ss_pred             C-CCCCCCEEEEECHHHHHHHHHC----------------CCCCCCEEEEEEECCCCCC-----HHHHHHH-----HHHH
T ss_conf             3-6688841889715988889736----------------8885644799985122389-----8999988-----9999


Q ss_pred             HHHHHCCCCEEEECCCCCHH
Q ss_conf             54533187247831788877
Q gi|254780991|r  325 IRGTFRVCGDSIEIFPSHLE  344 (805)
Q Consensus       325 ~RG~f~~rg~ILdsatps~E  344 (805)
                      .+..+..+..|.=+|||-..
T Consensus       118 ~~~~~g~~a~i~mTATPPG~  137 (146)
T pfam07652       118 TLVELGEAAAIFMTATPPGT  137 (146)
T ss_pred             HHHHCCCEEEEEEECCCCCC
T ss_conf             88543865799995689998


No 186
>KOG1002 consensus
Probab=96.05  E-value=0.14  Score=30.44  Aligned_cols=137  Identities=17%  Similarity=0.161  Sum_probs=95.7

Q ss_pred             CCCCHHHHHHHHHHHHHHCC--CCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCE---EE
Q ss_conf             33101688999999863023--21246621478999999998635966873257645789999999973189869---99
Q gi|254780991|r  563 SARTQVEDVYDEINLAAQQG--LRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDV---LV  637 (805)
Q Consensus       563 ~~~~qvddl~~ei~~~~~~~--~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~di---Lv  637 (805)
                      .....++-|.+|+.....+.  .+.+||.--.-|-+-+.=.|...|+.+.-+.|.++..+|...++.|.+. +|+   ||
T Consensus       617 qsSTKIEAL~EEl~~l~~rd~t~KsIVFSQFTSmLDLi~~rL~kaGfscVkL~GsMs~~ardatik~F~nd-~~c~vfLv  695 (791)
T KOG1002         617 QSSTKIEALVEELYFLRERDRTAKSIVFSQFTSMLDLIEWRLGKAGFSCVKLVGSMSPAARDATIKYFKND-IDCRVFLV  695 (791)
T ss_pred             CCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCC-CCEEEEEE
T ss_conf             00157999999999999715525420498778899999988612673389963677867789999974128-88179999


Q ss_pred             EHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHH
Q ss_conf             8458753578777117999628856744460137766543127998669998248988999999987
Q gi|254780991|r  638 GINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAARNVNSKVILYADTITKSIQLAIDET  704 (805)
Q Consensus       638 gt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR~~~G~~il~ad~~t~~~~~ai~e~  704 (805)
                      .-+--.-.|.+-+.+.|.++|.=-  -|+-+..-.-+|-|-|--++=+|+-|.  +.++++.-|-+.
T Consensus       696 SLkAGGVALNLteASqVFmmDPWW--NpaVe~Qa~DRiHRIGQ~rPvkvvrf~--iEnsiE~kIieL  758 (791)
T KOG1002         696 SLKAGGVALNLTEASQVFMMDPWW--NPAVEWQAQDRIHRIGQYRPVKVVRFC--IENSIEEKIIEL  758 (791)
T ss_pred             EECCCCEEEEECHHCEEEEECCCC--CHHHHHHHHHHHHHHCCCCCEEEEEEE--HHCCHHHHHHHH
T ss_conf             860584686310000257626643--677775544467760475652688863--012289999999


No 187
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=96.04  E-value=0.088  Score=31.88  Aligned_cols=133  Identities=23%  Similarity=0.218  Sum_probs=86.4

Q ss_pred             CCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHH----HHHCCCEEEECCCCCCHHHHHHHHHHHHCC
Q ss_conf             7200001331016889999998630232124662147899999999----863596687325764578999999997318
Q gi|254780991|r  556 DPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEY----LYERNIRVRYMHSEVKTLERIEIIRDLRLG  631 (805)
Q Consensus       556 dp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~----~~~~~i~~~~~h~~~~~~~r~~il~~~~~g  631 (805)
                      |-.|-.-...|..+-+++-|......|.|+.+-+.---+.-||+..    |.+.+|..+|-+|  +        ..||  
T Consensus       118 ~~lv~AV~GaGKTEMif~~i~~al~~G~~vciASPRvDVclEl~~Rlk~aF~~~~I~~Lyg~S--~--------~~fr--  185 (441)
T COG4098         118 DTLVWAVTGAGKTEMIFQGIEQALNQGGRVCIASPRVDVCLELYPRLKQAFSNCDIDLLYGDS--D--------SYFR--  185 (441)
T ss_pred             CEEEEEECCCCCHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHHCCCCEEEEECCC--C--------HHCC--
T ss_conf             689997427985101699999999659869984686101177789999762149866672587--1--------3133--


Q ss_pred             CCCEEEEH--HHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHH
Q ss_conf             98699984--5875357877711799962885674446013776654312799866999824898899999998788
Q gi|254780991|r  632 KFDVLVGI--NLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAARNVNSKVILYADTITKSIQLAIDETTR  706 (805)
Q Consensus       632 ~~diLvgt--~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR~~~G~~il~ad~~t~~~~~ai~e~~r  706 (805)
                       ..++|+|  |+++=--.|   .+++|=..|.  ||-+..-..|.+-+-+|..+|.-|..+...+.-.++.+..-+.
T Consensus       186 -~plvVaTtHQLlrFk~aF---D~liIDEVDA--FP~~~d~~L~~Av~~ark~~g~~IylTATp~k~l~r~~~~g~~  256 (441)
T COG4098         186 -APLVVATTHQLLRFKQAF---DLLIIDEVDA--FPFSDDQSLQYAVKKARKKEGATIYLTATPTKKLERKILKGNL  256 (441)
T ss_pred             -CCEEEEEHHHHHHHHHHC---CEEEEECCCC--CCCCCCHHHHHHHHHHHCCCCCEEEEECCCHHHHHHHHHHCCE
T ss_conf             -447997668888888643---3899830245--6566788899999975123673699964880788887540775


No 188
>TIGR01420 pilT_fam twitching motility protein; InterPro: IPR006321   These represent the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction . Members of this family may be found in some species that do not have type IV pili but have related structures for DNA uptake and natural transformation. ; GO: 0005524 ATP binding, 0006810 transport.
Probab=96.02  E-value=0.048  Score=33.87  Aligned_cols=167  Identities=18%  Similarity=0.272  Sum_probs=97.0

Q ss_pred             HHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCC--CCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCC
Q ss_conf             999999998873973379986337646999999999719--978999316346899999999867898389986213444
Q gi|254780991|r  155 AAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQ--RPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYY  232 (805)
Q Consensus       155 ~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~g--r~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~y  232 (805)
                      .-+.++.+.   -..=.|..|=||||||=|+|.+|-..|  ++.=||+=                 ++-+||.|-     
T Consensus       117 ~v~~~~a~~---~~GLiLVTGPTGSGKSTTlAsmIDyIN~~~~~HIiTI-----------------EDPIEyvh~-----  171 (350)
T TIGR01420       117 PVLRELAER---PRGLILVTGPTGSGKSTTLASMIDYINKNKAGHIITI-----------------EDPIEYVHK-----  171 (350)
T ss_pred             HHHHHHHHC---CCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCCCEEE-----------------ECCEEEEEC-----
T ss_conf             899999836---6993898768898678999999978740388882563-----------------177314104-----


Q ss_pred             CCCCCCCCCCCCHHHHCCCCHH-----HHHHHHHHH-HHHHCCCCEEEECC-------HHHHCCCCCHHHHHCCEEEEEC
Q ss_conf             4210155543210221035889-----999999999-99854998499827-------7896168983477225799941
Q gi|254780991|r  233 QPEAYVPRTDTYIEKESSINEQ-----IDRMRHSAT-RSLLERNDCIVVSS-------VSCIYGIGSVESYSQMIVQLKI  299 (805)
Q Consensus       233 qpEay~p~~d~~i~k~~s~n~~-----i~~~R~~a~-~~l~~~~~~IVVgs-------rSAIfgl~~P~~~lglIIvdEe  299 (805)
                                   .|.|-||+.     +..+- .|+ .+|++..|+|+||=       .-||-   +-+  .|.      
T Consensus       172 -------------~~~sli~QREvG~DT~sF~-~ALraALReDPDvILiGE~RD~ET~~~AL~---AAE--TGH------  226 (350)
T TIGR01420       172 -------------NKRSLINQREVGLDTLSFA-NALRAALREDPDVILIGEMRDLETVELALT---AAE--TGH------  226 (350)
T ss_pred             -------------CCEEEEECCCCCCCHHHHH-HHHHHHHCCCCCEEEEECCCCHHHHHHHHH---HHH--HCC------
T ss_conf             -------------7702454362467545799-997684102898899825562789999998---742--131------


Q ss_pred             CCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCCHHHHHCCCCCCCCHHHHCCCCCC
Q ss_conf             98111787532343117656338775453318724783178887788873104442002221016664001110000100
Q gi|254780991|r  300 GDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEEISEFYPLTGQKIRNVETIKI  379 (805)
Q Consensus       300 hd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~~Rie~f~deIe~I~~fDplT~~~~~~~~~~~i  379 (805)
                                  ||--=-|-|+.+      .-..=|+|+||+.-- -.+|..+-...+      ...+|+-+.+.+..--
T Consensus       227 ------------LV~gTLHTnsA~------~ti~RIid~FP~~~~-~qiR~~La~~L~------Av~sQrL~p~~~G~GR  281 (350)
T TIGR01420       227 ------------LVFGTLHTNSAA------KTIERIIDVFPAEEQ-EQIRTQLAESLV------AVISQRLLPKKNGGGR  281 (350)
T ss_pred             ------------HHHHHHHHHHHH------HHHHHHHCCCCHHHH-HHHHHHHHHHHH------HHHCCCCEEECCCCCE
T ss_conf             ------------567666642388------876777425977566-899999987678------7700054223389625


Q ss_pred             HHHHHCCCCHHHHHHHH
Q ss_conf             00000025636788754
Q gi|254780991|r  380 YANSHYVTPRPTLNTAM  396 (805)
Q Consensus       380 ~Pa~~~v~~~e~l~~a~  396 (805)
                      -++.++...-|.+..-+
T Consensus       282 v~~~Eil~~Tpav~~lI  298 (350)
T TIGR01420       282 VLAVEILINTPAVRNLI  298 (350)
T ss_pred             EEEEEEECCCHHHHHHH
T ss_conf             88887521587899960


No 189
>KOG0242 consensus
Probab=96.02  E-value=0.015  Score=37.57  Aligned_cols=85  Identities=24%  Similarity=0.387  Sum_probs=55.3

Q ss_pred             CCEEEEECCCCCCCHHHHHHH----HHHHHHCCCCE-EEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHH-HHHHHH
Q ss_conf             754775188888843899999----99988739733-799863376469999999997199789993163468-999999
Q gi|254780991|r  139 TFFQMQTDYHPSGDQPAAIAQ----LLKGIHSREKV-QLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILA-AQLYSE  212 (805)
Q Consensus       139 ~~f~l~~~~~P~gdQ~~Ai~~----L~~~l~~g~~~-qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La-~QL~~r  212 (805)
                      ..|..-.-|-|.-.|.+..+.    |+.++-.|+.. ..=||.||||||++|.-.-.+   |-++     .|| ..|++.
T Consensus        53 ~~y~FD~VF~~~~t~~~VYe~~tkpiv~~~l~G~N~TVFAYG~TgSGKTyTM~G~~~~---PGii-----~la~~dif~~  124 (675)
T KOG0242          53 EKYEFDRVFGEESTQEDVYERTTKPLLLSVLEGFNATVFAYGQTGSGKTYTMSGSEDD---PGII-----PLAMKDIFEK  124 (675)
T ss_pred             CCEEEEEECCCCCCHHHHHHHCCHHHHHHHHCCCCCCEEEECCCCCCCCEEEECCCCC---CCEE-----EHHHHHHHHH
T ss_conf             4125200448998878898740078899974686652564237889875477515788---9733-----4589999999


Q ss_pred             HHHHCCCCEEEEEEECCCCC
Q ss_conf             99867898389986213444
Q gi|254780991|r  213 FKNFFPHNAVEYFVSYYDYY  232 (805)
Q Consensus       213 fk~~Fp~n~V~~f~S~~~~y  232 (805)
                      ... .++....+-+||+-.|
T Consensus       125 I~~-~~~r~f~v~vSYlEIY  143 (675)
T KOG0242         125 IDK-SGEREFSVRVSYLEIY  143 (675)
T ss_pred             HHH-CCCCEEEEEEEEEEEE
T ss_conf             873-6774068887888885


No 190
>PRK08939 primosomal protein DnaI; Reviewed
Probab=95.99  E-value=0.061  Score=33.09  Aligned_cols=63  Identities=22%  Similarity=0.297  Sum_probs=46.3

Q ss_pred             HHHHHHHHHH---HHHCCC--CEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHHHHHHHHHHCCCC
Q ss_conf             3899999999---887397--33799863376469999999997---19978999316346899999999867898
Q gi|254780991|r  153 QPAAIAQLLK---GIHSRE--KVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQLYSEFKNFFPHN  220 (805)
Q Consensus       153 Q~~Ai~~L~~---~l~~g~--~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~QL~~rfk~~Fp~n  220 (805)
                      -..|+.++.+   ....|.  +-..|+|--|+|||++++.+.-+   .|.+++++.     .|.+..++|+-|.++
T Consensus       137 R~~a~~~a~~F~~~y~~~~~~kGlyl~G~~G~GKTyL~~aian~La~~g~~v~~v~-----~p~~~~~lK~s~~d~  207 (306)
T PRK08939        137 RLDALMAALDFLEAYKPGEKVKGLYLYGDFGVGKTYLLAAIANELAKKGVSSTLVH-----FPEFIRELKNAISDG  207 (306)
T ss_pred             HHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEE-----HHHHHHHHHHHHCCC
T ss_conf             99999999999997376988877889899999899999999999998699299987-----599999999986489


No 191
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=95.99  E-value=0.028  Score=35.64  Aligned_cols=65  Identities=22%  Similarity=0.404  Sum_probs=46.5

Q ss_pred             CHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH---------CCCCEEEEECCHHHHHHHHHHHHHHCCCCEE
Q ss_conf             4389999999988739733799863376469999999997---------1997899931634689999999986789838
Q gi|254780991|r  152 DQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA---------MQRPAIVMAPNKILAAQLYSEFKNFFPHNAV  222 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~---------~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V  222 (805)
                      +|.++|.     .+++ ...+..|+.|||||-+-++=.+=         .++|+|||.||..+..-+-.=+-+ +|.+-|
T Consensus       216 EQneIIR-----~ek~-~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~vFleYis~VLPe-LGe~~V  288 (747)
T COG3973         216 EQNEIIR-----FEKN-KILVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNRVFLEYISRVLPE-LGEEGV  288 (747)
T ss_pred             HHHHHHH-----CCCC-CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCCEEEECCCHHHHHHHHHHCHH-HCCCCE
T ss_conf             6777875-----5578-74899558888713588999999985356624668659982838999999875544-166863


Q ss_pred             E
Q ss_conf             9
Q gi|254780991|r  223 E  223 (805)
Q Consensus       223 ~  223 (805)
                      .
T Consensus       289 ~  289 (747)
T COG3973         289 V  289 (747)
T ss_pred             E
T ss_conf             6


No 192
>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=95.98  E-value=0.04  Score=34.43  Aligned_cols=39  Identities=28%  Similarity=0.442  Sum_probs=28.2

Q ss_pred             CHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCC
Q ss_conf             438999999998873973379986337646999999999719
Q gi|254780991|r  152 DQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQ  193 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~g  193 (805)
                      +|-+.|+++..   ....-.++-|-||||||=++..++.+..
T Consensus        67 ~~~~~l~~~~~---~~~GlilitGptGSGKtTtl~a~l~~~~  105 (264)
T cd01129          67 ENLEIFRKLLE---KPHGIILVTGPTGSGKTTTLYSALSELN  105 (264)
T ss_pred             HHHHHHHHHHH---CCCCEEEEECCCCCCHHHHHHHHHHHHC
T ss_conf             99999999970---8998899978999977999999998643


No 193
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=95.97  E-value=0.02  Score=36.72  Aligned_cols=61  Identities=38%  Similarity=0.629  Sum_probs=41.4

Q ss_pred             HHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEH----HHHHCCCCCCCCCEEEEE
Q ss_conf             789999999986359668732576457899999999731898699984----587535787771179996
Q gi|254780991|r  592 KRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGI----NLLREGLDIPECGLVAIL  657 (805)
Q Consensus       592 kr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt----~~~akGlD~p~v~lV~i~  657 (805)
                      +..+++|++||.+.|+++...|+..     .+.+++|..|++|+|||+    ..+.+|||.|...--+|+
T Consensus       348 ~e~aeel~e~Lr~~Gi~a~~~~a~~-----~~~le~F~~GeidvLVGvAsyYG~lVRGlDLP~rirYaIF  412 (1187)
T COG1110         348 REKAEELAEYLRSHGINAELIHAEK-----EEALEDFEEGEVDVLVGVASYYGVLVRGLDLPHRIRYAVF  412 (1187)
T ss_pred             HHHHHHHHHHHHHCCCEEEEEECCC-----HHHHHHHCCCCEEEEEEECCCCCCEEECCCCHHHEEEEEE
T ss_conf             8999999999986696079862320-----2245665067601799850213430224774345457899


No 194
>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family; InterPro: IPR004473   There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements , , as summarised below:    Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA.    Type I restriction endonucleases are components of prokaryotic DNA restriction-modification mechanisms that protects the organism against invading foreign DNA. Type I enzymes have three different subunits subunits - M (modification), S (specificity) and R (restriction) - that form multifunctional enzymes with restriction (3.1.21.3 from EC), methylase (2.1.1.72 from EC) and ATPase activities , . The S subunit is required for both restriction and modification and is responsible for recognition of the DNA sequence specific for the system. The M subunit is necessary for modification, and the R subunit is required for restriction. These enzymes use S-Adenosyl-L-methionine (AdoMet) as the methyl group donor in the methylation reaction, and have a requirement for ATP. They recognize asymmetric DNA sequences split into two domains of specific sequence, one 3-4 bp long and another 4-5 bp long, separated by a nonspecific spacer 6-8 bp in length. Cleavage occurs a considerable distance from the recognition sites, rarely less than 400 bp away and up to 7000 bp away. Adenosyl residues are methylated, one on each strand of the recognition sequence. These enzymes are widespread in eubacteria and archaea. In enteric bacteria they have been subdivide into four families: types IA, IB, IC and ID.   This entry represents the R subunit (HsdR) of type I restriction endonucleases such as EcoRI (3.1.21.3 from EC), which recognises the DNA sequence 5'-GAATTC; the R protein (HsdR) is required for both nuclease and ATPase activity , , , .; GO: 0003677 DNA binding, 0005524 ATP binding, 0009035 Type I site-specific deoxyribonuclease activity, 0009307 DNA restriction-modification system.
Probab=95.96  E-value=0.058  Score=33.21  Aligned_cols=107  Identities=21%  Similarity=0.283  Sum_probs=73.0

Q ss_pred             HHHHHHHHHHHHHCCCHH--HHCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHC---C--CC-E
Q ss_conf             558999999998739603--20574026667888742158877547751888888438999999998873---9--73-3
Q gi|254780991|r   99 MTPSVQALARLIQSDNPL--LKNGKIWTPHRSWSINNHSKDITFFQMQTDYHPSGDQPAAIAQLLKGIHS---R--EK-V  170 (805)
Q Consensus        99 ~~~~~~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~f~l~~~~~P~gdQ~~Ai~~L~~~l~~---g--~~-~  170 (805)
                      ......++.||.++-+.|  .++..++   +.   ....+      ++...-|.=-|-.|++++++.+..   +  .+ -
T Consensus       258 ~~~~~~~~~GllkkE~lLd~i~~f~~f---~~---~~~~g------~~~k~~~~y~qy~av~ki~~~~~~~~~~k~~~n~  325 (813)
T TIGR00348       258 LKEFDILLNGLLKKERLLDFIRNFIIF---DK---EESVG------LVTKVIARYMQYRAVKKIVESILRKEKGKDKRNK  325 (813)
T ss_pred             CHHHHHHHHCCCCCHHHHHHHCCEEEE---EC---CCCCC------HHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf             367898740667703687633121366---14---51100------1101003889999999999999853137886367


Q ss_pred             EEEEEECCCCHHHHHHHHHHHC-------CCCEEEEECCHHHHHHHHHHHHHHC
Q ss_conf             7998633764699999999971-------9978999316346899999999867
Q gi|254780991|r  171 QLLLGVTGSGKTFTMAKVIEAM-------QRPAIVMAPNKILAAQLYSEFKNFF  217 (805)
Q Consensus       171 qlL~GVTGSGKTevya~lI~~~-------gr~aLvLvPei~La~QL~~rfk~~F  217 (805)
                      =+.|=-||||||.+|+-+...+       .=.++|+|-=.-|=.||+.+|.++.
T Consensus       326 G~iWHtQGSGKtlTm~f~A~k~~~~~~~~~p~v~fvvDR~eLd~Ql~~~~~~~~  379 (813)
T TIGR00348       326 GLIWHTQGSGKTLTMLFLARKLRKQKELKNPKVFFVVDRRELDEQLYKEFSSLK  379 (813)
T ss_pred             CEEEEEECCCHHHHHHHHHHHHHHHHHHCCCEEEEEEECHHHHHHHHHHHHHHH
T ss_conf             448985076378899999999987465269849999727277889999998764


No 195
>cd01375 KISc_KIF9_like Kinesin motor domain, KIF9-like subgroup; might play a role in cell shape remodeling. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, about 80 
Probab=95.80  E-value=0.014  Score=37.97  Aligned_cols=86  Identities=21%  Similarity=0.293  Sum_probs=55.4

Q ss_pred             CEEEEECCCCCCCHHHHHHHH----HHHHHCCCCEE-EEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHH
Q ss_conf             547751888888438999999----99887397337-9986337646999999999719978999316346899999999
Q gi|254780991|r  140 FFQMQTDYHPSGDQPAAIAQL----LKGIHSREKVQ-LLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFK  214 (805)
Q Consensus       140 ~f~l~~~~~P~gdQ~~Ai~~L----~~~l~~g~~~q-lL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk  214 (805)
                      -|....=|.|+ .|.+..+.+    ++.+-+|+..+ +-||.||||||++|..--..        ..+.++.|+....+-
T Consensus        49 ~F~Fd~Vf~~~-tQ~evy~~~~~plv~~~l~G~n~ti~aYGqTGSGKTyTm~G~~~~--------~~~~Giipr~~~~lF  119 (334)
T cd01375          49 SFKFDGVFHNA-SQEEVYETVAKPVVDSALDGYNGTIFAYGQTGAGKTFTMTGGTES--------YKDRGLIPRALEQVF  119 (334)
T ss_pred             EEECCEECCCC-CHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCEEEECCCCCC--------CCCCCHHHHHHHHHH
T ss_conf             77778677999-989999999899999985887257997135689975881378876--------244662678999999


Q ss_pred             HHC---CCCEEEEEEECCCCCCC
Q ss_conf             867---89838998621344442
Q gi|254780991|r  215 NFF---PHNAVEYFVSYYDYYQP  234 (805)
Q Consensus       215 ~~F---p~n~V~~f~S~~~~yqp  234 (805)
                      ...   ++....+.+||+-.|.-
T Consensus       120 ~~i~~~~~~~~~v~~S~~EIYnE  142 (334)
T cd01375         120 REVAMRATKTYTVHVSYLEIYNE  142 (334)
T ss_pred             HHHHHCCCCEEEEEEEEEEEECC
T ss_conf             99862868539999999997578


No 196
>PRK08116 hypothetical protein; Validated
Probab=95.79  E-value=0.051  Score=33.65  Aligned_cols=68  Identities=19%  Similarity=0.294  Sum_probs=46.2

Q ss_pred             CCCCCCHHHHHHH---HHHHHHC-CC--CEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHHHHHHHHHHC
Q ss_conf             8888843899999---9998873-97--33799863376469999999997---19978999316346899999999867
Q gi|254780991|r  147 YHPSGDQPAAIAQ---LLKGIHS-RE--KVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQLYSEFKNFF  217 (805)
Q Consensus       147 ~~P~gdQ~~Ai~~---L~~~l~~-g~--~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~QL~~rfk~~F  217 (805)
                      |.+...+++|++.   -++.+.. +.  ..-+|+|=+|+|||.+...+..+   .|.+|++.     -++.|..++++-|
T Consensus        81 ~~~~~~~~~a~~~a~~Y~~~f~~~~~~~~GLll~G~~GtGKThLa~aIa~~l~~~g~~V~~~-----~~~~ll~~lk~~~  155 (262)
T PRK08116         81 WLFRKGSEKAYKVAVKYVKKFEEMKKESVGLLLWGSPGNGKTYLAAAIANELIEKGVPVVFV-----NVPELLNRIKSTY  155 (262)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEE-----EHHHHHHHHHHHH
T ss_conf             56895259999999999998987364686189989899989999999999999879939998-----8999999999998


Q ss_pred             CC
Q ss_conf             89
Q gi|254780991|r  218 PH  219 (805)
Q Consensus       218 p~  219 (805)
                      .+
T Consensus       156 ~~  157 (262)
T PRK08116        156 NS  157 (262)
T ss_pred             HC
T ss_conf             63


No 197
>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=95.78  E-value=0.17  Score=29.71  Aligned_cols=63  Identities=16%  Similarity=0.171  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH----CCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             9999999988739733799863376469999999997----1997899931634689999999986789
Q gi|254780991|r  155 AAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA----MQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       155 ~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~----~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      ..++.+..|+..| .-.+|-|=+|.|||-..++++..    .|+||++..-|.+ ..|+..|+-+...+
T Consensus       182 ~~LD~~~~Gl~~g-~LiIiaARPsmGKTafalnia~n~A~~~g~~Vl~fSLEMs-~eql~~R~la~~s~  248 (421)
T TIGR03600       182 PKLDRLTNGLVKG-DLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLEMS-AEQLGERLLASKSG  248 (421)
T ss_pred             HHHHHHHCCCCCC-CEEEEEEECCCCHHHHHHHHHHHHHHHCCCEEEEEECCCC-HHHHHHHHHHHHCC
T ss_conf             7899983699988-6899985467874599999999999866983899925799-99999999998548


No 198
>pfam00580 UvrD-helicase UvrD/REP helicase. The Rep family helicases are composed of four structural domains. The Rep family function as dimers. REP helicases catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. Bacillus subtilis addA and Escherichia coli exodeoxyribonuclease V beta have large insertions near to the carboxy-terminus relative to other members of the family.
Probab=95.78  E-value=0.039  Score=34.56  Aligned_cols=62  Identities=16%  Similarity=0.190  Sum_probs=48.5

Q ss_pred             CHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH----C---CCCEEEEECCHHHHHHHHHHHHHHCCCC
Q ss_conf             4389999999988739733799863376469999999997----1---9978999316346899999999867898
Q gi|254780991|r  152 DQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA----M---QRPAIVMAPNKILAAQLYSEFKNFFPHN  220 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~----~---gr~aLvLvPei~La~QL~~rfk~~Fp~n  220 (805)
                      +|.+||..       ...+.++.+.-|||||.|+.+-|..    .   ....|+|+-...-|..|-+|+...++..
T Consensus         4 ~Q~~av~~-------~~~~llV~AgAGSGKT~~L~~Ri~~li~~~~~~p~~IL~lTFT~kAA~Em~~Ri~~~l~~~   72 (494)
T pfam00580         4 EQRKAVTH-------LGGPLLVLAGAGTGKTRVLTERIAYLILEGGIDPEEILAVTFTNKAAREMKERILKLLGKA   72 (494)
T ss_pred             HHHHHHCC-------CCCCEEEEEECCHHHHHHHHHHHHHHHHHCCCCHHHEEEEECHHHHHHHHHHHHHHHCCCC
T ss_conf             89999809-------9999799971870689999999999998189997478767028999999999999873834


No 199
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker  B motif (motif II). This domain contains the ATP- binding region.
Probab=95.77  E-value=0.18  Score=29.59  Aligned_cols=112  Identities=19%  Similarity=0.346  Sum_probs=75.0

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHH----HCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEH-----HHHHCC-CCCCCC
Q ss_conf             3212466214789999999986----359668732576457899999999731898699984-----587535-787771
Q gi|254780991|r  582 GLRILLTVLTKRMAEDLTEYLY----ERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGI-----NLLREG-LDIPEC  651 (805)
Q Consensus       582 ~~R~l~~~~tkr~~e~l~~~~~----~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt-----~~~akG-lD~p~v  651 (805)
                      +-++++.+-|+..+....+.+.    ..++++..+.|+.+.....+.+   +. .+||||||     +|+.+| +++.+|
T Consensus        69 ~~~alil~PTrELa~Qi~~~~~~l~~~~~i~~~~~~gg~~~~~~~~~l---~~-~~~IlI~TPgrl~~~l~~~~~~l~~l  144 (203)
T cd00268          69 GPQALILAPTRELALQIAEVARKLGKHTNLKVVVIYGGTSIDKQIRKL---KR-GPHIVVATPGRLLDLLERGKLDLSKV  144 (203)
T ss_pred             CCEEEEEECCHHHHHHHHHHHHHHCCCCCEEEEEEECCCCHHHHHHHH---HC-CCEEEEECCHHHHHHHHCCCCCCCCC
T ss_conf             966999968799999999999985057983899983898879999998---53-87599968189999998488651322


Q ss_pred             CEEEEECCCC---CCCCCCHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHH
Q ss_conf             1799962885---67444601377665431279986699982489889999999
Q gi|254780991|r  652 GLVAILDADK---EGFLRSKTSLIQTIGRAARNVNSKVILYADTITKSIQLAID  702 (805)
Q Consensus       652 ~lV~i~dAD~---~~f~~~~~~~~q~~GRagR~~~G~~il~ad~~t~~~~~ai~  702 (805)
                      .++++=.||.   .||...-+......     +.+-+.++|.-..+..+.+..+
T Consensus       145 ~~lVlDEAD~ll~~gf~~~i~~I~~~l-----~~~~Q~~lfSAT~~~~v~~l~~  193 (203)
T cd00268         145 KYLVLDEADRMLDMGFEDQIREILKLL-----PKDRQTLLFSATMPKEVRDLAR  193 (203)
T ss_pred             CEEEEECHHHHHHCCCHHHHHHHHHHC-----CCCCEEEEEEECCCHHHHHHHH
T ss_conf             489998588887477699999999858-----9677799998049988999999


No 200
>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=95.73  E-value=0.039  Score=34.53  Aligned_cols=62  Identities=16%  Similarity=0.225  Sum_probs=48.6

Q ss_pred             HHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH----CCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             999999988739733799863376469999999997----1997899931634689999999986789
Q gi|254780991|r  156 AIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA----MQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       156 Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~----~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      .++++..|+..| .-.++-|-||+|||.+.++++..    .|++++++..|.+ ..++..|+-+....
T Consensus         8 ~lD~~~gGl~~G-~l~vi~g~pg~GKS~~~~~~a~~~a~~~g~~Vl~~slEm~-~~~~~~R~~a~~~~   73 (186)
T pfam03796         8 DLDQLTGGLQKG-DLIIIAARPSMGKTAFALNIARNAALKQDKPVLFFSLEMS-AEQLAERLLSSESR   73 (186)
T ss_pred             HHHHHHCCCCCC-CEEEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEECCCCC-HHHHHHHHHHHHHC
T ss_conf             788642698888-1799996799987999999999999970996687547552-99999999998626


No 201
>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=95.69  E-value=0.042  Score=34.26  Aligned_cols=55  Identities=22%  Similarity=0.318  Sum_probs=34.7

Q ss_pred             HHHHHHH-HHHCCCCEEEEEEECCCCHHHHHHHHHHHCCC---------CEEEEECCHHHHHHHHH
Q ss_conf             9999999-88739733799863376469999999997199---------78999316346899999
Q gi|254780991|r  156 AIAQLLK-GIHSREKVQLLLGVTGSGKTFTMAKVIEAMQR---------PAIVMAPNKILAAQLYS  211 (805)
Q Consensus       156 Ai~~L~~-~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr---------~aLvLvPei~La~QL~~  211 (805)
                      +|+.+.. |+..| +-.-++|-.|||||.+-++++..+.+         .++++--|-++.++-..
T Consensus         7 ~lD~~LgGGip~G-~ItEi~G~~gsGKT~l~lqla~~~q~~~~~~~~~g~vvyIDtE~~f~~~rl~   71 (226)
T cd01393           7 ALDELLGGGIPTG-RITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLV   71 (226)
T ss_pred             HHHHHHCCCCCCC-EEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHH
T ss_conf             8998857998888-3999999999989999999999985422116999619999557753199999


No 202
>KOG1803 consensus
Probab=95.67  E-value=0.021  Score=36.47  Aligned_cols=58  Identities=22%  Similarity=0.488  Sum_probs=45.5

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC---CCCEEEEECCHHHHHHHHHHHH
Q ss_conf             3899999999887397337998633764699999999971---9978999316346899999999
Q gi|254780991|r  153 QPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM---QRPAIVMAPNKILAAQLYSEFK  214 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~---gr~aLvLvPei~La~QL~~rfk  214 (805)
                      |.+|+.....   .. ....+||--|+|||+|...+|.++   ++++||++|-=.--.-+.+|+-
T Consensus       190 Qk~Av~~~~~---~k-~l~~I~GPPGTGKT~TlvEiI~qlvk~~k~VLVcaPSn~AVdNiverl~  250 (649)
T KOG1803         190 QKAAVSFAIN---NK-DLLIIHGPPGTGKTRTLVEIISQLVKQKKRVLVCAPSNVAVDNIVERLT  250 (649)
T ss_pred             HHHHHHHHHC---CC-CCEEEECCCCCCCEEEHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHC
T ss_conf             9999999735---68-8357557998884043999999999728859997673678999998750


No 203
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=95.67  E-value=0.027  Score=35.75  Aligned_cols=70  Identities=19%  Similarity=0.197  Sum_probs=52.2

Q ss_pred             CHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC-------CCCEEEEECCHHHHHHHHHHHHHHCCCC----
Q ss_conf             43899999999887397337998633764699999999971-------9978999316346899999999867898----
Q gi|254780991|r  152 DQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM-------QRPAIVMAPNKILAAQLYSEFKNFFPHN----  220 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~-------gr~aLvLvPei~La~QL~~rfk~~Fp~n----  220 (805)
                      .|.+|+.       ....+.++...-|||||.|+.+-|+.+       ....|+|+=.-.-|..|-+|+...+|..    
T Consensus         6 ~Q~~AV~-------~~~gp~lVlAGaGSGKT~tLt~Ria~Li~~~~v~P~~ILalTFT~kAA~Emk~Rl~~~lg~~~~~~   78 (672)
T PRK10919          6 GQQQAVE-------FVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVGQTLGRKEARG   78 (672)
T ss_pred             HHHHHHC-------CCCCCEEEEECCCHHHHHHHHHHHHHHHHCCCCCCCCEEEECCHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf             9999983-------999998999738558799999999999866898933385442179999999999997718321378


Q ss_pred             -EEEEEEEC
Q ss_conf             -38998621
Q gi|254780991|r  221 -AVEYFVSY  228 (805)
Q Consensus       221 -~V~~f~S~  228 (805)
                       .|.-|||.
T Consensus        79 ~~i~TFHS~   87 (672)
T PRK10919         79 LMISTFHTL   87 (672)
T ss_pred             CEEECHHHH
T ss_conf             678848999


No 204
>KOG0243 consensus
Probab=95.66  E-value=0.0071  Score=40.04  Aligned_cols=94  Identities=20%  Similarity=0.341  Sum_probs=63.8

Q ss_pred             CCEEEEECCCCCCCHH----HHHHHHHHHHHCCCCEE-EEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHH
Q ss_conf             7547751888888438----99999999887397337-998633764699999999971997899931634689999999
Q gi|254780991|r  139 TFFQMQTDYHPSGDQP----AAIAQLLKGIHSREKVQ-LLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       139 ~~f~l~~~~~P~gdQ~----~Ai~~L~~~l~~g~~~q-lL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rf  213 (805)
                      +.|..---|-|..+|.    +|+..++..+-.|+.+. .-||-||+|||+||-.=....+   ..+-|+.++.|--+..+
T Consensus        95 k~ftFDkVFGpes~Q~d~Y~~~v~p~i~eVl~GyNCTIFAYGQTGTGKTyTMeG~~~~~~---g~l~~~aGIIPRal~~I  171 (1041)
T KOG0243          95 KTFTFDKVFGPESQQEDLYDQAVSPIIKEVLEGYNCTIFAYGQTGTGKTYTMEGGERKKN---GELPSEAGIIPRALRQI  171 (1041)
T ss_pred             CEEECCEEECCCHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCCEEEEECCCCCCC---CCCCCCCCCCHHHHHHH
T ss_conf             000011222752658999999988999998624772599864788885246236754345---88996578342999999


Q ss_pred             HHHCCCCEEEEE--EECCCCCCCC
Q ss_conf             986789838998--6213444421
Q gi|254780991|r  214 KNFFPHNAVEYF--VSYYDYYQPE  235 (805)
Q Consensus       214 k~~Fp~n~V~~f--~S~~~~yqpE  235 (805)
                      =.-+-..-.+|+  |||+-+|--|
T Consensus       172 Fd~Le~~~~EYsvKVSfLELYNEE  195 (1041)
T KOG0243         172 FDTLEAQGAEYSVKVSFLELYNEE  195 (1041)
T ss_pred             HHHHHHCCCEEEEEEEEHHHHHHH
T ss_conf             999984488179998742654178


No 205
>PRK06835 DNA replication protein DnaC; Validated
Probab=95.65  E-value=0.16  Score=29.86  Aligned_cols=51  Identities=22%  Similarity=0.394  Sum_probs=37.3

Q ss_pred             HHHCCCCEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHHHHHHHHHH-CC
Q ss_conf             88739733799863376469999999997---1997899931634689999999986-78
Q gi|254780991|r  163 GIHSREKVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQLYSEFKNF-FP  218 (805)
Q Consensus       163 ~l~~g~~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~QL~~rfk~~-Fp  218 (805)
                      .+.....--+++|-||+|||+.-..+..+   .|.+|++++     +++|.+.+++. |.
T Consensus       178 ~F~~~~~nLlf~G~~G~GKTfLa~~IA~ell~~g~sViy~t-----a~~L~~~l~~~~~~  232 (330)
T PRK06835        178 NFDKNNENLLFYGNTGTGKTFLSNCIAKELLDRGKTVIYRT-----SDELIENLREIRFN  232 (330)
T ss_pred             HCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEE-----HHHHHHHHHHHHCC
T ss_conf             24788886698899999889999999999998799499962-----99999999997545


No 206
>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=95.64  E-value=0.2  Score=29.25  Aligned_cols=59  Identities=25%  Similarity=0.425  Sum_probs=43.8

Q ss_pred             HHHHHHH-HHHCCCCEEEEEEECCCCHHHHHHHHHH----HCCCCEEEEECCHHHHHHHHHHHHHH
Q ss_conf             9999999-8873973379986337646999999999----71997899931634689999999986
Q gi|254780991|r  156 AIAQLLK-GIHSREKVQLLLGVTGSGKTFTMAKVIE----AMQRPAIVMAPNKILAAQLYSEFKNF  216 (805)
Q Consensus       156 Ai~~L~~-~l~~g~~~qlL~GVTGSGKTevya~lI~----~~gr~aLvLvPei~La~QL~~rfk~~  216 (805)
                      .++++.. |+..| ...|+.|-+|||||-.-++.+.    +.|.++|+++-|-+ ..|+..+++++
T Consensus         7 ~LD~~l~GGi~~g-s~~LI~G~pGsGKT~la~qfl~~ga~~~ge~~lYis~ee~-~~~l~~~~~~~   70 (231)
T pfam06745         7 GLDEILKGGIPEG-RVVLITGGPGTGKTIFGLQFLYNGALEYGEPGVYVTLEEP-PEDLRENAKSF   70 (231)
T ss_pred             HHHHHCCCCCCCC-EEEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEEECCC-HHHHHHHHHHC
T ss_conf             6886316998299-6999985897259999999999999865896899981379-99999999982


No 207
>cd01371 KISc_KIF3 Kinesin motor domain, kinesins II or KIF3_like proteins. Subgroup of kinesins, which form heterotrimers composed of 2 kinesins and one non-motor accessory subunit. Kinesins II play important roles in ciliary transport, and have been implicated in neuronal transport, melanosome transport, the secretory pathway, and mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this group the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain
Probab=95.61  E-value=0.0097  Score=39.06  Aligned_cols=87  Identities=23%  Similarity=0.350  Sum_probs=55.4

Q ss_pred             CCEEEEECCCCCCCHHHHHHH----HHHHHHCCCCEE-EEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHH
Q ss_conf             754775188888843899999----999887397337-998633764699999999971997899931634689999999
Q gi|254780991|r  139 TFFQMQTDYHPSGDQPAAIAQ----LLKGIHSREKVQ-LLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       139 ~~f~l~~~~~P~gdQ~~Ai~~----L~~~l~~g~~~q-lL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rf  213 (805)
                      +-|....-|.|.-+|.+..+.    |+..+-+|+..+ +-+|.||||||++|.-.-.   -     ..+.+|.|....++
T Consensus        48 ~~f~FD~vf~~~~tQ~~Vy~~~~~plv~~~l~G~n~ti~aYGqTGSGKTyTm~G~~~---~-----~~~~Glipr~~~~l  119 (333)
T cd01371          48 KVFTFDAVYDPNSTQEDVYNETARPLVDSVLEGYNGTIFAYGQTGTGKTFTMEGVRE---P-----PELRGIIPNSFAHI  119 (333)
T ss_pred             CEEECCEEECCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCEEECCCCCC---C-----HHHCCHHHHHHHHH
T ss_conf             266646686999998999999989999998488744899743689987177468899---8-----47567348999999


Q ss_pred             HHHC---CCCEEEEEEECCCCCC
Q ss_conf             9867---8983899862134444
Q gi|254780991|r  214 KNFF---PHNAVEYFVSYYDYYQ  233 (805)
Q Consensus       214 k~~F---p~n~V~~f~S~~~~yq  233 (805)
                      =...   ++....+.+||+-.|.
T Consensus       120 F~~~~~~~~~~~~v~~S~~EIYn  142 (333)
T cd01371         120 FGHIAKAENVQFLVRVSYLEIYN  142 (333)
T ss_pred             HHHHHCCCCCCEEEEEEEEECCC
T ss_conf             99874167860899999860116


No 208
>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=95.59  E-value=0.09  Score=31.79  Aligned_cols=53  Identities=17%  Similarity=0.320  Sum_probs=36.3

Q ss_pred             HHHHHHH-HHHCCCCEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHHH
Q ss_conf             9999999-88739733799863376469999999997---199789993163468999
Q gi|254780991|r  156 AIAQLLK-GIHSREKVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQL  209 (805)
Q Consensus       156 Ai~~L~~-~l~~g~~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~QL  209 (805)
                      .++.+.. |+..| ...++.|--|+|||-+.+++..+   .|..++++.-|-+...++
T Consensus         7 ~lD~vLgGGi~~G-~it~i~G~pG~GKStl~lq~a~~~~~~g~~v~YidtE~~~~er~   63 (218)
T cd01394           7 GLDELLGGGVERG-TVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDTEGLSSERF   63 (218)
T ss_pred             HHHHHHCCCCCCC-EEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCCHHH
T ss_conf             8999856998788-79999899998499999999999863698699996655676999


No 209
>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=95.57  E-value=0.14  Score=30.25  Aligned_cols=45  Identities=29%  Similarity=0.373  Sum_probs=32.7

Q ss_pred             CCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCC
Q ss_conf             884389999999988739733799863376469999999997199
Q gi|254780991|r  150 SGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQR  194 (805)
Q Consensus       150 ~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr  194 (805)
                      .|...+.+..+....-.+..-.+.-|=||||||-++-.+.....+
T Consensus       121 ~g~~~~~~~~~L~~~v~~~~~ilIsG~TGSGKTT~l~all~~i~~  165 (283)
T pfam00437       121 TGAFDADIAEFLRQAVQARGNILVSGGTGSGKTTLLYALLNEINT  165 (283)
T ss_pred             CCCCHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHCCC
T ss_conf             977859999999999981975999889999889999999984087


No 210
>PRK09354 recA recombinase A; Provisional
Probab=95.56  E-value=0.07  Score=32.61  Aligned_cols=92  Identities=21%  Similarity=0.264  Sum_probs=65.0

Q ss_pred             HHHHCCCCEEEEEEECCCCHHHHHHHHHHHC---CCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCC
Q ss_conf             9887397337998633764699999999971---9978999316346899999999867898389986213444421015
Q gi|254780991|r  162 KGIHSREKVQLLLGVTGSGKTFTMAKVIEAM---QRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAYV  238 (805)
Q Consensus       162 ~~l~~g~~~qlL~GVTGSGKTevya~lI~~~---gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yqpEay~  238 (805)
                      -|+..| +..-++|-.+||||.+-+++|+++   |..+.++=.|-++.++.+..+    |-|.=.+++     +||+.  
T Consensus        55 GG~P~G-RivEi~G~esSGKTtlal~~iaeaQk~Gg~~a~iDaE~ald~~~a~~l----GVd~d~llv-----~qpd~--  122 (350)
T PRK09354         55 GGLPKG-RIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYAKKL----GVDIDNLLV-----SQPDT--  122 (350)
T ss_pred             CCCCCC-CEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCCCCHHHHHHC----CCCHHHEEE-----ECCCH--
T ss_conf             996787-089998898777999999999999975994799960002798899984----977157178-----56867--


Q ss_pred             CCCCCCHHHHCCCCHHHHHHHHHHHHHHH-CC-CCEEEECCHHHHC
Q ss_conf             55432102210358899999999999985-49-9849982778961
Q gi|254780991|r  239 PRTDTYIEKESSINEQIDRMRHSATRSLL-ER-NDCIVVSSVSCIY  282 (805)
Q Consensus       239 p~~d~~i~k~~s~n~~i~~~R~~a~~~l~-~~-~~~IVVgsrSAIf  282 (805)
                                       --+-++....|. ++ -+.|||-|++|+-
T Consensus       123 -----------------~Eqal~i~e~Lvrsg~vd~IVvDSVaAL~  151 (350)
T PRK09354        123 -----------------GEQALEIADALVRSGAVDLIVVDSVAALV  151 (350)
T ss_pred             -----------------HHHHHHHHHHHHHCCCCCEEEEECCCCCC
T ss_conf             -----------------99999999999854884189982533457


No 211
>KOG0247 consensus
Probab=95.47  E-value=0.012  Score=38.35  Aligned_cols=54  Identities=31%  Similarity=0.446  Sum_probs=40.2

Q ss_pred             CCEEEEECCCCCCCHHHHHHHH----HHHHHCCCCEEEE--EEECCCCHHHHHHHHHHHCC
Q ss_conf             7547751888888438999999----9988739733799--86337646999999999719
Q gi|254780991|r  139 TFFQMQTDYHPSGDQPAAIAQL----LKGIHSREKVQLL--LGVTGSGKTFTMAKVIEAMQ  193 (805)
Q Consensus       139 ~~f~l~~~~~P~gdQ~~Ai~~L----~~~l~~g~~~qlL--~GVTGSGKTevya~lI~~~g  193 (805)
                      ..|-...=|.|+--|..-.+..    +..+..|.. .||  +||||||||.+|..-..+.|
T Consensus        81 ~~fsFt~VF~p~~tQ~dvF~~~~~plV~dlLkgqn-~LlFTyGVTgSGKTYTm~G~~~~~G  140 (809)
T KOG0247          81 KKFSFTKVFGPSVTQADVFDTTVAPLVKDLLKGQN-SLLFTYGVTGSGKTYTMTGTPDRPG  140 (809)
T ss_pred             EEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCC-EEEEEEECCCCCCEEEEECCCCCCC
T ss_conf             67632453598732799999876788999871643-2699850147874377506988777


No 212
>cd01373 KISc_KLP2_like Kinesin motor domain, KLP2-like subgroup. Members of this subgroup seem to play a role in mitosis and meiosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second
Probab=95.47  E-value=0.0095  Score=39.13  Aligned_cols=91  Identities=15%  Similarity=0.185  Sum_probs=56.2

Q ss_pred             CEEEEECCCCCCCHHHHHHHH----HHHHHCCCCEE-EEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHH
Q ss_conf             547751888888438999999----99887397337-9986337646999999999719978999316346899999999
Q gi|254780991|r  140 FFQMQTDYHPSGDQPAAIAQL----LKGIHSREKVQ-LLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFK  214 (805)
Q Consensus       140 ~f~l~~~~~P~gdQ~~Ai~~L----~~~l~~g~~~q-lL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk  214 (805)
                      .|....-|.|.-+|.+-.+.+    ++.+-+|+..+ +-||.||||||++|.--......   ..-.+.++.|..++.+-
T Consensus        42 ~f~FD~Vf~~~~tQ~~vy~~~~~plv~~~l~G~n~ti~aYGqTGSGKTyTm~G~~~~~~~---~~~~~~Giipr~~~~lf  118 (337)
T cd01373          42 MFTFDHVADSNTNQEDVFQSVGKPLVEDCLSGYNGSIFAYGQTGSGKTYTMMGPSSSDDE---SPHGLQGVIPRIFEYLF  118 (337)
T ss_pred             EEECCEECCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCEEEEECCCCCCCC---CCCCCCCHHHHHHHHHH
T ss_conf             766981549999989999998698999985888448997447888861798536654445---67543781799999999


Q ss_pred             HHC--------CCCEEEEEEECCCCCC
Q ss_conf             867--------8983899862134444
Q gi|254780991|r  215 NFF--------PHNAVEYFVSYYDYYQ  233 (805)
Q Consensus       215 ~~F--------p~n~V~~f~S~~~~yq  233 (805)
                      ...        .+....+.+||+-.|.
T Consensus       119 ~~i~~~~~~~~~~~~~~v~~S~~EIYn  145 (337)
T cd01373         119 SLIQREEEKRGDGLKFLCKCSFLEIYN  145 (337)
T ss_pred             HHHHHHHHHCCCCCEEEEEEEEEEEEC
T ss_conf             999888862256724999999999987


No 213
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=95.34  E-value=0.1  Score=31.47  Aligned_cols=84  Identities=24%  Similarity=0.184  Sum_probs=47.8

Q ss_pred             EEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCCCHHHHC
Q ss_conf             37998633764699999999971997899931634689999999986789838998621344442101555432102210
Q gi|254780991|r  170 VQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAYVPRTDTYIEKES  249 (805)
Q Consensus       170 ~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yqpEay~p~~d~~i~k~~  249 (805)
                      ...|.|=||+|||=|.|++.+                     +|.-+.|...|.+-              ..|||     
T Consensus       178 V~alVGPTGVGKTTTiAKLAA---------------------r~~l~~g~~kVaLI--------------T~DTY-----  217 (404)
T PRK06995        178 VFALVGPTGVGKTTTTAKLAA---------------------RCVMRHGASKVALL--------------TTDSY-----  217 (404)
T ss_pred             EEEEECCCCCCHHHHHHHHHH---------------------HHHHHHCCCCEEEE--------------ECCCC-----
T ss_conf             589866888763758999999---------------------99998389837999--------------76875-----


Q ss_pred             CCCHHHHHHHHHHHHHHHC-----CCCEEEECCHHHHCCCCCHHHHHCCEEEEECCCC
Q ss_conf             3588999999999999854-----9984998277896168983477225799941981
Q gi|254780991|r  250 SINEQIDRMRHSATRSLLE-----RNDCIVVSSVSCIYGIGSVESYSQMIVQLKIGDS  302 (805)
Q Consensus       250 s~n~~i~~~R~~a~~~l~~-----~~~~IVVgsrSAIfgl~~P~~~lglIIvdEehd~  302 (805)
                               |..|+..|..     |=++-||-+...+-..+.-+.+..+|++|-.|-+
T Consensus       218 ---------RIgAvEQLktYa~IlgvPv~vv~~~~eL~~aL~~l~~~dlILIDTaGrs  266 (404)
T PRK06995        218 ---------RIGGHEQLRIYGKILGVPVHAVKDAADLRLALAELRNKHIVLIDTVGMS  266 (404)
T ss_pred             ---------CHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHCCCCEEEEECCCCC
T ss_conf             ---------4789999999998759559995999999999997089999998099989


No 214
>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=95.34  E-value=0.083  Score=32.06  Aligned_cols=51  Identities=18%  Similarity=0.231  Sum_probs=44.2

Q ss_pred             HHHHCCCCEEEEEEECCCCHHHHHHHHHHHC---CCCEEEEECCHHHHHHHHHHH
Q ss_conf             9887397337998633764699999999971---997899931634689999999
Q gi|254780991|r  162 KGIHSREKVQLLLGVTGSGKTFTMAKVIEAM---QRPAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       162 ~~l~~g~~~qlL~GVTGSGKTevya~lI~~~---gr~aLvLvPei~La~QL~~rf  213 (805)
                      -|+..| +...++|-.+||||++.+++|+++   |..++++=.|-++.++....+
T Consensus        47 GGlP~G-Ri~ei~G~essGKTtlal~~ia~aQk~gg~~~~iD~E~a~d~~~a~~l  100 (322)
T pfam00154        47 GGLPKG-RIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYAKKL  100 (322)
T ss_pred             CCCCCC-EEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEHHHHCCHHHHHHC
T ss_conf             997787-089998898777899999999999734993899853660598899980


No 215
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.31  E-value=0.026  Score=35.85  Aligned_cols=34  Identities=29%  Similarity=0.383  Sum_probs=25.3

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECC
Q ss_conf             33799863376469999999997---19978999316
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPN  202 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPe  202 (805)
                      +..+|.||||||||=+.+.+...   .|+.+++.+-.
T Consensus       207 ~VIaLVGvnGvGKTTTiAKLA~~l~~~gkkV~LVAaD  243 (407)
T PRK12726        207 RIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTD  243 (407)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECC
T ss_conf             0899989998978999999999999779917999706


No 216
>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=95.28  E-value=0.12  Score=30.82  Aligned_cols=51  Identities=16%  Similarity=0.193  Sum_probs=44.3

Q ss_pred             HHHHCCCCEEEEEEECCCCHHHHHHHHHHHC---CCCEEEEECCHHHHHHHHHHH
Q ss_conf             9887397337998633764699999999971---997899931634689999999
Q gi|254780991|r  162 KGIHSREKVQLLLGVTGSGKTFTMAKVIEAM---QRPAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       162 ~~l~~g~~~qlL~GVTGSGKTevya~lI~~~---gr~aLvLvPei~La~QL~~rf  213 (805)
                      -|+..| +..-++|-.+||||.+.+++|+++   |..++++=.|-++.+.....+
T Consensus        50 GGiP~G-Rivei~G~essGKTtlal~~ia~aQk~gg~~~~iDaE~a~d~~~a~~l  103 (325)
T cd00983          50 GGYPKG-RIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALDPVYAKKL  103 (325)
T ss_pred             CCCCCC-EEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEHHHCCCHHHHHHC
T ss_conf             996688-089998898777999999999998735983999962542598999980


No 217
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=95.25  E-value=0.018  Score=36.95  Aligned_cols=104  Identities=18%  Similarity=0.186  Sum_probs=62.2

Q ss_pred             CHHHHH-HHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCC--CCCC
Q ss_conf             214789-9999999863596687325764578999999997318986999845875357877711799962885--6744
Q gi|254780991|r  589 VLTKRM-AEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADK--EGFL  665 (805)
Q Consensus       589 ~~tkr~-~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~--~~f~  665 (805)
                      .+|.|. --+|..-|...||...-.|++.+...      .|+..- .|-+.+=-=|||..+|   +|.++.|+.  .|+.
T Consensus       484 p~t~Rgy~~~li~SL~s~giq~hl~gvd~s~e~------~f~~dg-kvtis~IyrAKGnEap---fVy~lga~~~s~gLa  553 (660)
T COG3972         484 PGTMRGYIYELIHSLKSKGIQQHLWGVDISHET------KFKQDG-KVTISRIYRAKGNEAP---FVYALGAAYLSTGLA  553 (660)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCC------CCCCCC-EEEEEEEECCCCCCCC---EEEEEHHHHCCHHHH
T ss_conf             742100699999999873454404666765566------411366-3899863315677575---899961344274567


Q ss_pred             CCHHH-HHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHHHHH
Q ss_conf             46013-776654312799866999824898899999998788888
Q gi|254780991|r  666 RSKTS-LIQTIGRAARNVNSKVILYADTITKSIQLAIDETTRRRE  709 (805)
Q Consensus       666 ~~~~~-~~q~~GRagR~~~G~~il~ad~~t~~~~~ai~e~~rrr~  709 (805)
                       ..|- |--..-|+  -.--+|+.    ..++|.+.+.|.++.+.
T Consensus       554 -~~RN~LFTamTRS--kawvrV~g----~gpsm~~li~efn~l~q  591 (660)
T COG3972         554 -DWRNILFTAMTRS--KAWVRVVG----LGPQMQRLITEFNILRQ  591 (660)
T ss_pred             -HHHHHHHHHHHHH--HHHHEEEC----CCCHHHHHHHHHHHHHH
T ss_conf             -7776899999874--35413421----48017899999989875


No 218
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=95.25  E-value=0.21  Score=29.01  Aligned_cols=93  Identities=19%  Similarity=0.248  Sum_probs=50.5

Q ss_pred             CHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCHHHHHH
Q ss_conf             24556542267743211147558999999998739603205740266678887421588775477518888884389999
Q gi|254780991|r   79 QSQSSISMSEKQTREISEQTMTPSVQALARLIQSDNPLLKNGKIWTPHRSWSINNHSKDITFFQMQTDYHPSGDQPAAIA  158 (805)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~l~~~~~P~gdQ~~Ai~  158 (805)
                      .......+..+..+++.+..|...+  -+.++++=    +..  +.+         +.      +     +   .++.++
T Consensus         7 ~e~~i~~~l~ei~~aLleaDV~~~v--v~~~~~~i----k~k--~~~---------~~------~-----~---~~~vi~   55 (270)
T PRK06731          7 KQESVPFIIQKVIRMLEQNDVEQYF--IHAYAEKL----KVK--FEN---------AT------M-----I---TEEVIE   55 (270)
T ss_pred             CHHHHHHHHHHHHHHHHHCCCCHHH--HHHHHHHH----HHH--HCC---------CC------C-----H---HHHHHH
T ss_conf             2650999999999999976998899--99999999----988--504---------55------3-----2---999999


Q ss_pred             HHHHHHHC---------C-CCEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECC
Q ss_conf             99998873---------9-733799863376469999999997---19978999316
Q gi|254780991|r  159 QLLKGIHS---------R-EKVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPN  202 (805)
Q Consensus       159 ~L~~~l~~---------g-~~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPe  202 (805)
                      .|.+.+..         + -...+|-|+||||||=+.+.+...   .++.+++++-.
T Consensus        56 ~l~~~l~~~~~~~~~~~~~~~vI~lvG~~G~GKTTT~AKLA~~~~~~~~kV~lia~D  112 (270)
T PRK06731         56 YILEDMSSHFNTENVFEKEVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTD  112 (270)
T ss_pred             HHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEEC
T ss_conf             999999875076654679981899988898988999999999998679908999838


No 219
>KOG0388 consensus
Probab=95.21  E-value=0.27  Score=28.26  Aligned_cols=119  Identities=20%  Similarity=0.295  Sum_probs=94.8

Q ss_pred             CHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCE-EEEHHHHHC
Q ss_conf             0168899999986302321246621478999999998635966873257645789999999973189869-998458753
Q gi|254780991|r  566 TQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDV-LVGINLLRE  644 (805)
Q Consensus       566 ~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~di-Lvgt~~~ak  644 (805)
                      +..--|-+-..+..+.|.|+|.+.--.+|-+-+-+||.-.|+.-.-+||..+...|..++++|...++=| |+.|---.=
T Consensus      1028 gKL~~LDeLL~kLkaegHRvL~yfQMTkM~dl~EdYl~yr~Y~ylRLDGSsk~~dRrd~vrDwQ~sdiFvFLLSTRAGGL 1107 (1185)
T KOG0388        1028 GKLVVLDELLPKLKAEGHRVLMYFQMTKMIDLIEDYLVYRGYTYLRLDGSSKASDRRDVVRDWQASDIFVFLLSTRAGGL 1107 (1185)
T ss_pred             CCEEEHHHHHHHHHCCCCEEEEHHHHHHHHHHHHHHHHHHCCCEEEECCCCHHHHHHHHHHHCCCCCEEEEEEECCCCCC
T ss_conf             54363998989864178258821579899999999987604606985575404678888863357755899974046766


Q ss_pred             CCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEE
Q ss_conf             578777117999628856744460137766543127-998669998
Q gi|254780991|r  645 GLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILY  689 (805)
Q Consensus       645 GlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~  689 (805)
                      |+.+--..-|+-||.|-     +.+.=.|...||-| |..-.|-.|
T Consensus      1108 GINLTAADTViFYdSDW-----NPT~D~QAMDRAHRLGQTrdvtvy 1148 (1185)
T KOG0388        1108 GINLTAADTVIFYDSDW-----NPTADQQAMDRAHRLGQTRDVTVY 1148 (1185)
T ss_pred             CCCCCCCCEEEEECCCC-----CCCHHHHHHHHHHHCCCCCCEEEE
T ss_conf             20111242489944889-----963216778888750675430456


No 220
>pfam00308 Bac_DnaA Bacterial dnaA protein.
Probab=95.16  E-value=0.28  Score=28.14  Aligned_cols=96  Identities=19%  Similarity=0.189  Sum_probs=52.2

Q ss_pred             CCEEEEEEECCCCHHHHHHHHHHHC-----CCCEEEEECCHH-------HHHHHHHHHHHHCCCCEEEEEEECCCCCCCC
Q ss_conf             7337998633764699999999971-----997899931634-------6899999999867898389986213444421
Q gi|254780991|r  168 EKVQLLLGVTGSGKTFTMAKVIEAM-----QRPAIVMAPNKI-------LAAQLYSEFKNFFPHNAVEYFVSYYDYYQPE  235 (805)
Q Consensus       168 ~~~qlL~GVTGSGKTevya~lI~~~-----gr~aLvLvPei~-------La~QL~~rfk~~Fp~n~V~~f~S~~~~yqpE  235 (805)
                      +.+..|||-+|||||-..-.+..+.     +..+++|..+..       +......+|+..+.+-.+...    |     
T Consensus        34 ~npl~i~G~~G~GKTHLLqA~~~~~~~~~~~~~v~yl~~~~~~~~~~~~l~~~~~~~f~~~l~~~d~l~i----D-----  104 (219)
T pfam00308        34 YNPLFIYGGVGLGKTHLLHAIGNYALRNFPNLRVVYLTSEEFLNDFVDALRDNKIEAFKKSYRNVDLLLI----D-----  104 (219)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEEEHHHHHHHHHHHHHCCCHHHHHHHHHHCCHHHH----C-----
T ss_conf             7826998899998889999999999984999828884399999988999981888899999763233652----2-----


Q ss_pred             CCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHH
Q ss_conf             0155543210221035889999999999998549984998277896
Q gi|254780991|r  236 AYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCI  281 (805)
Q Consensus       236 ay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAI  281 (805)
                            |  |+ ..+-.+.++.+=+...+++.+....||+++..+.
T Consensus       105 ------D--i~-~l~~~~~~ee~lf~l~N~~~~~~~~lllts~~~p  141 (219)
T pfam00308       105 ------D--IQ-FLAGKEKTQEEFFHTFNALHENNKQIVLTSDRPP  141 (219)
T ss_pred             ------C--HH-HHCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCC
T ss_conf             ------3--67-6568647899999999999972986999779981


No 221
>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=95.15  E-value=0.23  Score=28.81  Aligned_cols=93  Identities=27%  Similarity=0.407  Sum_probs=63.8

Q ss_pred             CCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCC-EEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECC
Q ss_conf             843899999999887397337998633764699999999971997-8999316346899999999867898389986213
Q gi|254780991|r  151 GDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRP-AIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYY  229 (805)
Q Consensus       151 gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~-aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~  229 (805)
                      |=-++-++.+..-|..-..-.|..|=||||||=|.=.+..+++.+ .=||+=                 ++-|||=+.+=
T Consensus       228 Gm~~~~l~~~~~li~rpHGIiLVTGPTGSGKtTTLYaaL~~LN~~~~NIlTv-----------------EDPVEY~i~GI  290 (495)
T TIGR02533       228 GMSPELLSSLERLIKRPHGIILVTGPTGSGKTTTLYAALSRLNTPERNILTV-----------------EDPVEYQIEGI  290 (495)
T ss_pred             CCCHHHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHHHHHHHCCCCCCEEEE-----------------ECCEEEEECCC
T ss_conf             8888899999999718896188417789852588999998635899715686-----------------57824762487


Q ss_pred             CCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCC-CCEEEECC
Q ss_conf             4444210155543210221035889999999999998549-98499827
Q gi|254780991|r  230 DYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLER-NDCIVVSS  277 (805)
Q Consensus       230 ~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~-~~~IVVgs  277 (805)
                      +  |               .++|+.|+--=-.++|++++- .|+|.||=
T Consensus       291 g--Q---------------~Qvn~kIglTFA~GLRaILRQDPDiiMvGE  322 (495)
T TIGR02533       291 G--Q---------------IQVNPKIGLTFAAGLRAILRQDPDIIMVGE  322 (495)
T ss_pred             C--E---------------EEECCCCCHHHHHHHHHHHCCCCCEEEEEC
T ss_conf             6--3---------------651465430388887886427998899823


No 222
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.14  E-value=0.13  Score=30.50  Aligned_cols=138  Identities=23%  Similarity=0.326  Sum_probs=69.0

Q ss_pred             HHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC--CCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCC
Q ss_conf             899999999887397337998633764699999999971--997899931634689999999986789838998621344
Q gi|254780991|r  154 PAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM--QRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDY  231 (805)
Q Consensus       154 ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~--gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~  231 (805)
                      |..+.++.+   .-..-.|..|-|||||+-++|..|...  .++.-||+=|                 +-+||.|.    
T Consensus       114 P~i~~~~~~---~~~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIlTIE-----------------DPIE~vh~----  169 (353)
T COG2805         114 PPIVRELAE---SPRGLILVTGPTGSGKSTTLAAMIDYINKHKAKHILTIE-----------------DPIEYVHE----  169 (353)
T ss_pred             CHHHHHHHH---CCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCCEEEEC-----------------CCHHHHHC----
T ss_conf             779999982---879669986799996787999999998414775168723-----------------74686504----


Q ss_pred             CCCCCCCCCCCCCHHHHCCCCHHHHH---H-HHHHH-HHHHCCCCEEEECCH---HHHCCCCCHH--HHHCCEEEEECCC
Q ss_conf             44210155543210221035889999---9-99999-998549984998277---8961689834--7722579994198
Q gi|254780991|r  232 YQPEAYVPRTDTYIEKESSINEQIDR---M-RHSAT-RSLLERNDCIVVSSV---SCIYGIGSVE--SYSQMIVQLKIGD  301 (805)
Q Consensus       232 yqpEay~p~~d~~i~k~~s~n~~i~~---~-R~~a~-~~l~~~~~~IVVgsr---SAIfgl~~P~--~~lglIIvdEehd  301 (805)
                                    .|.|-||+.--+   . =..++ .+|++..|+|+||--   ..|.   +-+  .-.|.-+.=-.|-
T Consensus       170 --------------skkslI~QREvG~dT~sF~~aLraALReDPDVIlvGEmRD~ETi~---~ALtAAETGHLV~~TLHT  232 (353)
T COG2805         170 --------------SKKSLINQREVGRDTLSFANALRAALREDPDVILVGEMRDLETIR---LALTAAETGHLVFGTLHT  232 (353)
T ss_pred             --------------CHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCEEEEECCCCHHHHH---HHHHHHHCCCEEEEECCC
T ss_conf             --------------327666687745427889999999860299979982134699999---999898608877774023


Q ss_pred             CCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCCH
Q ss_conf             11178753234311765633877545331872478317888778887310444200
Q gi|254780991|r  302 SVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDI  357 (805)
Q Consensus       302 ~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~~Rie~f~deI  357 (805)
                      .                  +.+      .-..-++|+||+.-.+ .+|..+-...+
T Consensus       233 ~------------------sA~------~ti~RiidvFp~~ek~-~vR~~La~sL~  263 (353)
T COG2805         233 N------------------SAA------KTIDRIIDVFPAEEKD-QVRSQLAESLR  263 (353)
T ss_pred             C------------------CHH------HHHHHHHHHCCHHHHH-HHHHHHHHHHH
T ss_conf             6------------------377------7777988738863467-99999999999


No 223
>PRK11784 tRNA 2-selenouridine synthase; Provisional
Probab=95.13  E-value=0.036  Score=34.82  Aligned_cols=52  Identities=19%  Similarity=0.269  Sum_probs=34.0

Q ss_pred             HHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             99999887397337998633764699999999971997899931634689999999986789
Q gi|254780991|r  158 AQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       158 ~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      +.+.+.++.  +..+|.|-||||||++. +..++.|-|+|=|       --|+.---|-||.
T Consensus       129 ~~v~~~l~~--~~~vl~G~TG~GKT~lL-~~L~~~G~~viDL-------EglA~HRGS~FG~  180 (333)
T PRK11784        129 RFVIDTLEE--PLVVLGGMTGSGKTRLL-QALANAGAQVLDL-------EGLANHRGSSFGR  180 (333)
T ss_pred             HHHHHHHCC--CCEEEECCCCCCHHHHH-HHHHHCCCCEECH-------HHHHHCCCCCCCC
T ss_conf             999998546--85998678887789999-9999759974338-------9886325642358


No 224
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.10  E-value=0.29  Score=28.03  Aligned_cols=97  Identities=25%  Similarity=0.255  Sum_probs=55.3

Q ss_pred             CCCCCCCHHHHH--HHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEH--------------HHHHCCC
Q ss_conf             212466214789--999999986359668732576457899999999731898699984--------------5875357
Q gi|254780991|r  583 LRILLTVLTKRM--AEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGI--------------NLLREGL  646 (805)
Q Consensus       583 ~R~l~~~~tkr~--~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt--------------~~~akGl  646 (805)
                      .-.|++|-|-|+  .|-|..|=.-.||.+...   .+..+-..+|.+|+..++ |||-|              +++.-  
T Consensus       380 ~valit~DtyRiga~eQL~~y~~ilgvpv~~~---~~~~~l~~~l~~l~~~~l-vliDTaG~~~rd~~~~~~~~~l~~--  453 (557)
T PRK12727        380 DVALVTTDTQRVGGREQLHSYGRQLGIAVHEA---DSAESLLDLLERLRDYKL-VLIDTAGMGQRDRALAAQLNWLRA--  453 (557)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHCCEEEEE---CCHHHHHHHHHHHCCCCE-EEEECCCCCCCCHHHHHHHHHHHC--
T ss_conf             18999726640879999999999839757982---899999999998369998-999499988469999999998751--


Q ss_pred             CCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCEEEEEEC
Q ss_conf             8777117999628856744460137766543127-99866999824
Q gi|254780991|r  647 DIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVNSKVILYAD  691 (805)
Q Consensus       647 D~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~G~~il~ad  691 (805)
                       .++|.-.-++.|-.     ..+.+..++-+=++ +..|.+++=.|
T Consensus       454 -~~~~~~~Lvl~a~~-----~~~~l~~~~~~~~~~~~~~~i~TKlD  493 (557)
T PRK12727        454 -ARQVTSLLVLPANA-----HFSDLDEVVRRFAHAKPQGVVLTKLD  493 (557)
T ss_pred             -CCCCCEEEEEECCC-----CHHHHHHHHHHHCCCCCCEEEEEECC
T ss_conf             -47763599996889-----98999999998537998748996143


No 225
>PRK11054 helD DNA helicase IV; Provisional
Probab=95.10  E-value=0.053  Score=33.54  Aligned_cols=70  Identities=19%  Similarity=0.228  Sum_probs=52.2

Q ss_pred             CHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHH----HC---CCCEEEEECCHHHHHHHHHHHHHHCCCCEEE-
Q ss_conf             438999999998873973379986337646999999999----71---9978999316346899999999867898389-
Q gi|254780991|r  152 DQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIE----AM---QRPAIVMAPNKILAAQLYSEFKNFFPHNAVE-  223 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~----~~---gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~-  223 (805)
                      .|..|+       -.+....|+.---|||||-|+..=|+    .-   ....|.|+=..--|..|-+|+++++|.+.|. 
T Consensus       200 ~Qr~Av-------i~~ed~~LVLAGAGSGKT~vLt~RiayLI~~g~~~P~~ILaLTFT~kAA~EMreRl~~~lg~~~v~~  272 (684)
T PRK11054        200 SQARAV-------VNGEDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRKAAEEMDERIRERLGTEDITA  272 (684)
T ss_pred             HHHHHE-------EECCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHEEEEECCHHHHHHHHHHHHHHCCCCCEEE
T ss_conf             999572-------7479964898338997077999999999975999866778686349999999999997549998378


Q ss_pred             -EEEEC
Q ss_conf             -98621
Q gi|254780991|r  224 -YFVSY  228 (805)
Q Consensus       224 -~f~S~  228 (805)
                       -|||.
T Consensus       273 ~TFHSl  278 (684)
T PRK11054        273 RTFHAL  278 (684)
T ss_pred             EEHHHH
T ss_conf             659999


No 226
>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=95.03  E-value=0.041  Score=34.40  Aligned_cols=62  Identities=15%  Similarity=0.165  Sum_probs=48.2

Q ss_pred             HHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHH----HCCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             99999998873973379986337646999999999----71997899931634689999999986789
Q gi|254780991|r  156 AIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIE----AMQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       156 Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~----~~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      .++++..|+..| .-.++-|-||+|||.+.++++.    +.|.++++...|.+- .|+..|+-+....
T Consensus        19 ~LD~~~~Gl~~G-eL~viaarpg~GKT~f~~~~a~~~~~~~g~~vl~~SlEm~~-~~~~~Rlls~~~g   84 (271)
T cd01122          19 VLNKLTKGLRKG-ELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEEPV-VRTARRLLGQYAG   84 (271)
T ss_pred             HHHHHHCCCCCC-CEEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEEECCCCH-HHHHHHHHHHHHC
T ss_conf             688873799998-08999968998699999999999999769908999704999-9999999999829


No 227
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=95.03  E-value=0.2  Score=29.23  Aligned_cols=74  Identities=27%  Similarity=0.386  Sum_probs=47.2

Q ss_pred             CCHHHHHHHHHHHHCCCC---CEEEEHH--HHHCCCCCCC--CCEEEEECCCC--C-------------------CC---
Q ss_conf             457899999999731898---6999845--8753578777--11799962885--6-------------------74---
Q gi|254780991|r  616 VKTLERIEIIRDLRLGKF---DVLVGIN--LLREGLDIPE--CGLVAILDADK--E-------------------GF---  664 (805)
Q Consensus       616 ~~~~~r~~il~~~~~g~~---diLvgt~--~~akGlD~p~--v~lV~i~dAD~--~-------------------~f---  664 (805)
                      .+..++.++|+.|....-   -||.++.  -+++|+|||+  +..|+|+-.--  +                   +|   
T Consensus        28 ~~~~~~~~~l~~f~~~~~~~gaiL~~v~~Gk~sEGiDf~~~~~r~viivglP~p~~~d~~~~~r~~y~~~~~~~~~~~~~  107 (142)
T smart00491       28 KDSGETEELLEKYSAACEARGALLLAVARGKVSEGIDFPDDLGRAVIIVGIPFPNPDSPILRARLEYLDEKGGIRPFDEV  107 (142)
T ss_pred             CCHHHHHHHHHHHHHHHCCCCEEEEEEECCEEEEEECCCCCCEEEEEEEECCCCCCCCHHHHHHHHHHHHHCCCCCCCEE
T ss_conf             98357999999999862369819999844157521505997765999970899999999999999999986489983311


Q ss_pred             --CCCHHHHHHHHHHHCCCCC--CEEEEE
Q ss_conf             --4460137766543127998--669998
Q gi|254780991|r  665 --LRSKTSLIQTIGRAARNVN--SKVILY  689 (805)
Q Consensus       665 --~~~~~~~~q~~GRagR~~~--G~~il~  689 (805)
                        +..-+.+.|-+||.=|+.+  |.+|+.
T Consensus       108 y~~~a~~~v~QaiGR~IR~~~D~g~iil~  136 (142)
T smart00491      108 YLFDAMRALAQAIGRAIRHKNDYGVVVLL  136 (142)
T ss_pred             EHHHHHHHHHHHHCCCCCCCCCEEEEEEE
T ss_conf             25899999999829675468853999997


No 228
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=94.99  E-value=0.25  Score=28.48  Aligned_cols=58  Identities=24%  Similarity=0.298  Sum_probs=24.3

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHH-HH----HHHH-CC-----CCEEEEECCHHHHHHHHHHHHH
Q ss_conf             389999999988739733799863376469999-99----9997-19-----9789993163468999999998
Q gi|254780991|r  153 QPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTM-AK----VIEA-MQ-----RPAIVMAPNKILAAQLYSEFKN  215 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevy-a~----lI~~-~g-----r~aLvLvPei~La~QL~~rfk~  215 (805)
                      |..||..+.+    | +..|+--=||||||+.- +-    +.+. .+     -.+|+++|=++|..-+..+++.
T Consensus        27 Q~~a~~~i~~----G-~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~   95 (814)
T COG1201          27 QRYAIPEIHS----G-ENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEE   95 (814)
T ss_pred             HHHHHHHHHC----C-CCEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCEEEEEECCHHHHHHHHHHHHHH
T ss_conf             9999999858----9-8469986899973799999999999860688888856999957078887899999999


No 229
>PRK12377 putative replication protein; Provisional
Probab=94.98  E-value=0.16  Score=29.87  Aligned_cols=63  Identities=17%  Similarity=0.266  Sum_probs=49.5

Q ss_pred             CHHHHHH---HHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             4389999---999988739733799863376469999999997---1997899931634689999999986789
Q gi|254780991|r  152 DQPAAIA---QLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       152 dQ~~Ai~---~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      +|..|+.   .+.+++.+|....++.|=+|.|||-.-..+--+   .|++|++..     ++.|+.+++.-+.+
T Consensus        82 ~~~~a~~~a~~~~~~F~~~~~NlIf~G~pGtGKTHLA~AIg~~a~~~G~sVlF~t-----~~dLv~~L~~a~~~  150 (248)
T PRK12377         82 GQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVT-----VPDVMSRLHESYDN  150 (248)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEE-----HHHHHHHHHHHHHC
T ss_conf             8999999999999987318860899899998788999999999998799699988-----99999999999984


No 230
>KOG0245 consensus
Probab=94.90  E-value=0.024  Score=36.11  Aligned_cols=95  Identities=25%  Similarity=0.291  Sum_probs=63.6

Q ss_pred             CCCHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHH----HCCCCEEE-EEEECCCCHHHHHH
Q ss_conf             39603205740266678887421588775477518888884389999999988----73973379-98633764699999
Q gi|254780991|r  112 SDNPLLKNGKIWTPHRSWSINNHSKDITFFQMQTDYHPSGDQPAAIAQLLKGI----HSREKVQL-LLGVTGSGKTFTMA  186 (805)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~l~~~~~P~gdQ~~Ai~~L~~~l----~~g~~~ql-L~GVTGSGKTevya  186 (805)
                      +..|-|.-.+.+-.|.+.+|-        |-         +|.+..+.|-..+    -.|+..++ -||-|||||+++|.
T Consensus        44 k~~~~FtfD~SYWS~d~edPh--------fA---------sQ~qVYedlg~~mL~~AfEGYN~ClFAYGQTGSGKSYTMM  106 (1221)
T KOG0245          44 KDAPKFTFDYSYWSHDSEDPH--------FA---------SQKQVYEDLGREMLDHAFEGYNVCLFAYGQTGSGKSYTMM  106 (1221)
T ss_pred             CCCCCEECCEEEECCCCCCCC--------HH---------HHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCEEEE
T ss_conf             667750111145437888975--------04---------3889998876899997752464578873367888602663


Q ss_pred             HHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCC-----EEEEEEECCCCC
Q ss_conf             9999719978999316346899999999867898-----389986213444
Q gi|254780991|r  187 KVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHN-----AVEYFVSYYDYY  232 (805)
Q Consensus       187 ~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n-----~V~~f~S~~~~y  232 (805)
                      -      ++   =--|.++.||+..++=++--+|     ...++|||+-.|
T Consensus       107 G------~~---~~~e~GIIPrlCEeLF~ri~~nq~~~~sy~VevSymEIY  148 (1221)
T KOG0245         107 G------FQ---EPDEPGIIPRLCEELFSRIADNQSQQMSYSVEVSYMEIY  148 (1221)
T ss_pred             C------CC---CCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEEEEHHHH
T ss_conf             5------67---878897515889999999860455561389998622577


No 231
>cd01127 TrwB Bacterial conjugation protein TrwB,  ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component of Type IV secretion and is responsible for the horizontal transfer of DNA between bacteria.
Probab=94.89  E-value=0.057  Score=33.30  Aligned_cols=39  Identities=28%  Similarity=0.538  Sum_probs=32.2

Q ss_pred             CCEEEEEEECCCCHHHHHHHHHHHC---CCCEEEEECCHHHH
Q ss_conf             7337998633764699999999971---99789993163468
Q gi|254780991|r  168 EKVQLLLGVTGSGKTFTMAKVIEAM---QRPAIVMAPNKILA  206 (805)
Q Consensus       168 ~~~qlL~GVTGSGKTevya~lI~~~---gr~aLvLvPei~La  206 (805)
                      .++.++.|-||||||.++.++|.+.   |.+++|.=|.=.++
T Consensus        42 ~~H~lv~G~tGsGKT~~i~~li~~~~~rg~~~II~DpkGe~~   83 (410)
T cd01127          42 EAHTMIIGTTGTGKTTQIRELLASIRARGDRAIIYDPNGGFV   83 (410)
T ss_pred             HCCEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCHHH
T ss_conf             274799889999889999999999998699099995885499


No 232
>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=94.84  E-value=0.31  Score=27.76  Aligned_cols=45  Identities=27%  Similarity=0.334  Sum_probs=38.0

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHHCCC---CEEEEECCHHHHHHHHHHH
Q ss_conf             33799863376469999999997199---7899931634689999999
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEAMQR---PAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~~gr---~aLvLvPei~La~QL~~rf  213 (805)
                      +..+|+|-+|||||.+...++.+.++   +++++.++..........+
T Consensus         3 ~~ill~G~~GsGKTtl~~~la~~~~~~~~~v~~~~~~~~~~~~~~~~~   50 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLL   50 (148)
T ss_pred             CEEEEECCCCHHHHHHHHHHHHHHCCCCCCEEEEEHHHHHHHHHHHHH
T ss_conf             789999999702999999999872668996899875998988898765


No 233
>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=94.78  E-value=0.062  Score=33.02  Aligned_cols=116  Identities=15%  Similarity=0.091  Sum_probs=50.4

Q ss_pred             CHHHHHCCHHHHHHHHHHHHHH---HHHCCHHHHHHHHHHHHHCCCHHHHCCCC-CCCCCCCCCCCCCC--CCCCEEEEE
Q ss_conf             0023201245565422677432---11147558999999998739603205740-26667888742158--877547751
Q gi|254780991|r   72 TASKGEFQSQSSISMSEKQTRE---ISEQTMTPSVQALARLIQSDNPLLKNGKI-WTPHRSWSINNHSK--DITFFQMQT  145 (805)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~--~~~~f~l~~  145 (805)
                      .......-..+-+.+-+..+-+   +..||+|..-  +..+|..|.+---.... -.+..+..++..+.  ...+-.   
T Consensus       105 ~~~~~~~gD~Lvalf~E~~S~a~Y~Lk~qgi~Rl~--~~~~ish~i~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~---  179 (774)
T TIGR02639       105 GKKEIDIGDLLVALFDEEDSHASYFLKSQGITRLD--ILNYISHGISKDDKKDQLGEEAAEEEEELQEEKEDSAREE---  179 (774)
T ss_pred             CCCCCCCCHHHHEECCCCCCHHHHHHHHCCCCHHH--HHHHHCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCC---
T ss_conf             88602311100111027861310203321786999--9997414554578756331222342014314677787665---


Q ss_pred             CCCCCCCHHHHHHHHHHHHHC----CC-----------------------CEEEEEEECCCCHHHHH---HHHHHHC
Q ss_conf             888888438999999998873----97-----------------------33799863376469999---9999971
Q gi|254780991|r  146 DYHPSGDQPAAIAQLLKGIHS----RE-----------------------KVQLLLGVTGSGKTFTM---AKVIEAM  192 (805)
Q Consensus       146 ~~~P~gdQ~~Ai~~L~~~l~~----g~-----------------------~~qlL~GVTGSGKTevy---a~lI~~~  192 (805)
                      +=.-+.+|..||++.+..|..    |.                       .-=+|-|=-|-|||-+-   |+-|.+-
T Consensus       180 ~~~~~~~~~~aL~~yt~~Lt~~A~~GkiDPLIGRE~EleRtiQvLCRR~KNNPl~VGEPGVGKTAI~EGLA~~I~~~  256 (774)
T TIGR02639       180 DTDKAKKQQDALEKYTVDLTEKAKNGKIDPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIVEGLAQRIAEG  256 (774)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCEECCCCCCHHHHHHHHHHHHHCC
T ss_conf             66520046569988415489998608878734566887423332034567887204488864489999999986415


No 234
>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=94.77  E-value=0.095  Score=31.64  Aligned_cols=60  Identities=15%  Similarity=0.219  Sum_probs=46.5

Q ss_pred             HHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH----CCCCEEEEECCHHHHHHHHHHHHHHCC
Q ss_conf             99999988739733799863376469999999997----199789993163468999999998678
Q gi|254780991|r  157 IAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA----MQRPAIVMAPNKILAAQLYSEFKNFFP  218 (805)
Q Consensus       157 i~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~----~gr~aLvLvPei~La~QL~~rfk~~Fp  218 (805)
                      ++++..|+..| .-.++-|-||+|||...++++..    .|.+++++..|.+ ..++..|+-+..-
T Consensus         3 LD~~~gG~~~G-~L~vi~a~~g~GKS~~~~~la~~~a~~~g~~V~~~SlEm~-~~~~~~R~~s~~~   66 (242)
T cd00984           3 LDNLTGGLQPG-DLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMS-KEQLLQRLLASES   66 (242)
T ss_pred             HHHHHCCCCCC-CEEEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEEECCCC-HHHHHHHHHHHHH
T ss_conf             23431699998-1899996899999999999999999977995999933353-8899999999982


No 235
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=94.75  E-value=0.17  Score=29.74  Aligned_cols=67  Identities=22%  Similarity=0.314  Sum_probs=47.8

Q ss_pred             CCCCCCHHHHHHHHH---HHHHCCCCEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHHHHHHHHHHCCCC
Q ss_conf             888884389999999---988739733799863376469999999997---19978999316346899999999867898
Q gi|254780991|r  147 YHPSGDQPAAIAQLL---KGIHSREKVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQLYSEFKNFFPHN  220 (805)
Q Consensus       147 ~~P~gdQ~~Ai~~L~---~~l~~g~~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~QL~~rfk~~Fp~n  220 (805)
                      +.|. .+.+|+..+.   +.+..+ ...+|+|=.|+|||.+.+.+.-+   .|.+++++     -++.++.+++.-|.++
T Consensus        83 ~~~~-~~~~~l~~~~~~~~~~~~~-~nl~l~G~~G~GKthLa~Ai~~~l~~~g~sv~f~-----~~~el~~~Lk~~~~~~  155 (254)
T COG1484          83 FQPG-IDKKALEDLASLVEFFERG-ENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFI-----TAPDLLSKLKAAFDEG  155 (254)
T ss_pred             CCCH-HHHHHHHHHHHHHHHHCCC-CCEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEE-----EHHHHHHHHHHHHHCC
T ss_conf             8855-6699999999999873258-8289989999879999999999999839849998-----8599999999987455


No 236
>KOG1805 consensus
Probab=94.75  E-value=0.047  Score=33.90  Aligned_cols=125  Identities=18%  Similarity=0.274  Sum_probs=74.7

Q ss_pred             CCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEE
Q ss_conf             884389999999988739733799863376469999999997---19978999316346899999999867898389986
Q gi|254780991|r  150 SGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFV  226 (805)
Q Consensus       150 ~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~  226 (805)
                      --||.+|+.+....    ..+.+.+|.-|+|||-++..+|+-   .||.+|+-+=.-+--.-+.-.++. |+-..+.+  
T Consensus       671 N~dQr~A~~k~L~a----edy~LI~GMPGTGKTTtI~~LIkiL~~~gkkVLLtsyThsAVDNILiKL~~-~~i~~lRL--  743 (1100)
T KOG1805         671 NNDQRQALLKALAA----EDYALILGMPGTGKTTTISLLIKILVALGKKVLLTSYTHSAVDNILIKLKG-FGIYILRL--  743 (1100)
T ss_pred             CHHHHHHHHHHHHC----CCHHEEECCCCCCCHHHHHHHHHHHHHCCCEEEEEEHHHHHHHHHHHHHHC-CCCCEEEC--
T ss_conf             88999999998730----332203269989812259999999997388189985056788999998750-67110344--


Q ss_pred             ECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHH------HHHHHHHH--CCCCEEEECCHHHHCCCCCHHH-H--HCCEE
Q ss_conf             213444421015554321022103588999999------99999985--4998499827789616898347-7--22579
Q gi|254780991|r  227 SYYDYYQPEAYVPRTDTYIEKESSINEQIDRMR------HSATRSLL--ERNDCIVVSSVSCIYGIGSVES-Y--SQMIV  295 (805)
Q Consensus       227 S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R------~~a~~~l~--~~~~~IVVgsrSAIfgl~~P~~-~--lglII  295 (805)
                                         -++..++++++..-      ......+.  -+...||.+|=-   |++.|.- +  -...|
T Consensus       744 -------------------G~~~kih~~v~e~~~~~~~s~ks~~~l~~~~~~~~IVa~TCl---gi~~plf~~R~FD~cI  801 (1100)
T KOG1805         744 -------------------GSEEKIHPDVEEFTLTNETSEKSYADLKKFLDQTSIVACTCL---GINHPLFVNRQFDYCI  801 (1100)
T ss_pred             -------------------CCCCCCCHHHHHHHCCCCCCHHHHHHHHHHHCCCCEEEEECC---CCCCHHHHCCCCCEEE
T ss_conf             -------------------872224468998712344545339999997289767999715---7886555214267899


Q ss_pred             EEECCCCC
Q ss_conf             99419811
Q gi|254780991|r  296 QLKIGDSV  303 (805)
Q Consensus       296 vdEehd~~  303 (805)
                      +||-.+-+
T Consensus       802 iDEASQI~  809 (1100)
T KOG1805         802 IDEASQIL  809 (1100)
T ss_pred             ECCCCCCC
T ss_conf             86511114


No 237
>PRK08006 replicative DNA helicase; Provisional
Probab=94.75  E-value=0.35  Score=27.38  Aligned_cols=63  Identities=11%  Similarity=0.218  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH----CCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             9999999988739733799863376469999999997----1997899931634689999999986789
Q gi|254780991|r  155 AAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA----MQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       155 ~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~----~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      ..++.+..|+..| .-.+|-|=+|.|||-..++++..    .|+|+++..-|.+ ..|++.|+-+-...
T Consensus       212 ~~LD~~t~Gl~~G-~LiviaaRPsmGKTalalnia~~~a~~~~~~V~~fSlEMs-~~ql~~Rlla~~s~  278 (471)
T PRK08006        212 DDLNKKTAGLQPS-DLIIVAARPSMGKTTFAMNLCENAAMLQDKPVLIFSLEMP-GEQIMMRMLASLSR  278 (471)
T ss_pred             HHHHHHHCCCCCC-CEEEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEEECCCC-HHHHHHHHHHHHCC
T ss_conf             8898641688217-3899994699876999999999999866995799816799-99999999997447


No 238
>PRK13767 ATP-dependent helicase; Provisional
Probab=94.72  E-value=0.32  Score=27.65  Aligned_cols=121  Identities=17%  Similarity=0.154  Sum_probs=77.7

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHH-HHHHHHC-----------CCCEEEEECCHHHHHHHHHHHHH
Q ss_conf             88884389999999988739733799863376469999-9999971-----------99789993163468999999998
Q gi|254780991|r  148 HPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTM-AKVIEAM-----------QRPAIVMAPNKILAAQLYSEFKN  215 (805)
Q Consensus       148 ~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevy-a~lI~~~-----------gr~aLvLvPei~La~QL~~rfk~  215 (805)
                      +|+.-|.+||..+.+    | +..|+.-=||||||+-+ +-++.++           +-.+|+++|=++|+..+...+..
T Consensus        32 ~p~~~Q~~a~~~i~~----G-~~~Li~ApTGsGKTlAaflp~l~~l~~~~~~~~~~~~~~~LyIsPLkAL~~D~~r~L~~  106 (878)
T PRK13767         32 TFTPPQRYAIPLIHE----G-KNVLISSPTGSGKTLAAFLGIIDELFRLAEEGELEDSVYCIYVSPLRALNNDIHRNLEE  106 (878)
T ss_pred             CCCHHHHHHHHHHHC----C-CCEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEECCHHHHHHHHHHHHHH
T ss_conf             999899999999967----9-98899899981399999999999998500036778872899968479889999998886


Q ss_pred             -------HC---CC----CEEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHH
Q ss_conf             -------67---89----83899862134444210155543210221035889999999999998549984998277896
Q gi|254780991|r  216 -------FF---PH----NAVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCI  281 (805)
Q Consensus       216 -------~F---p~----n~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAI  281 (805)
                             .+   |-    -.|+..|+-.                    +     ..+|    +++....+.|+|.|--.+
T Consensus       107 pl~~i~~~~~~~g~~~~~i~v~vr~GDT--------------------~-----~~er----~r~~~~pp~ILiTTPEsL  157 (878)
T PRK13767        107 PLEEIREIAKERGIELPEIRHAVRTGDT--------------------S-----SYEK----QKMLRKPPHILITTPETL  157 (878)
T ss_pred             HHHHHHHHHHHCCCCCCCCEEEEECCCC--------------------C-----HHHH----HHHHHCCCCEEECCHHHH
T ss_conf             9999999987527887774477636999--------------------9-----9999----999748998798798999


Q ss_pred             CC-CCCH-----HHHHCCEEEEECCCC
Q ss_conf             16-8983-----477225799941981
Q gi|254780991|r  282 YG-IGSV-----ESYSQMIVQLKIGDS  302 (805)
Q Consensus       282 fg-l~~P-----~~~lglIIvdEehd~  302 (805)
                      .- +..|     +.++..+|+||.|+-
T Consensus       158 ~lll~~~~~~~~l~~l~~VIvDE~H~l  184 (878)
T PRK13767        158 AILLNSPKFREKLRTVKWVIVDEIHSL  184 (878)
T ss_pred             HHHHCCHHHHHHHCCCCEEEECCCHHH
T ss_conf             999549679998558999998171675


No 239
>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=94.69  E-value=0.36  Score=27.28  Aligned_cols=61  Identities=23%  Similarity=0.217  Sum_probs=43.4

Q ss_pred             HHHHHHHHHHH--HHCCCCEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             38999999998--8739733799863376469999999997---1997899931634689999999986789
Q gi|254780991|r  153 QPAAIAQLLKG--IHSREKVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       153 Q~~Ai~~L~~~--l~~g~~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      .+..+..|..+  ++.+ +..+|.|-+|+|||.....+..+   .|.+|+++.     ++.|..+++.-+.+
T Consensus        31 ~~~~i~~L~~~~~i~~~-~Nlll~G~~GtGKThLA~Ai~~~~~~~g~~v~f~~-----~~~L~~~l~~~~~~   96 (178)
T pfam01695        31 DRRLIAELAGLDWIEQA-ENLLLLGPPGVGKTHLACALGHQACRAGYSVLFTR-----TPDLVEQLKRARGD   96 (178)
T ss_pred             CHHHHHHHHCCCCHHCC-CCEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEE-----CHHHHHHHHHHHHC
T ss_conf             99999988559742158-76899899998789999999999998698599996-----16799999987526


No 240
>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=94.57  E-value=0.39  Score=27.07  Aligned_cols=32  Identities=34%  Similarity=0.527  Sum_probs=24.2

Q ss_pred             EEEEEECCCCHHHHHHHHHHHC---CCCEEEEECC
Q ss_conf             7998633764699999999971---9978999316
Q gi|254780991|r  171 QLLLGVTGSGKTFTMAKVIEAM---QRPAIVMAPN  202 (805)
Q Consensus       171 qlL~GVTGSGKTevya~lI~~~---gr~aLvLvPe  202 (805)
                      .+|-|.||+|||=+.+++....   |+++.+++=.
T Consensus         3 i~lvGptGvGKTTTiaKLA~~~~~~~~kV~lit~D   37 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAAD   37 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECC
T ss_conf             99989999988999999999999769928999748


No 241
>PRK06921 hypothetical protein; Provisional
Probab=94.55  E-value=0.27  Score=28.26  Aligned_cols=46  Identities=26%  Similarity=0.427  Sum_probs=34.3

Q ss_pred             CCCEEEEEEECCCCHHHHHHHHHHH----CCCCEEEEECCHHHHHHHHHHHHHHC
Q ss_conf             9733799863376469999999997----19978999316346899999999867
Q gi|254780991|r  167 REKVQLLLGVTGSGKTFTMAKVIEA----MQRPAIVMAPNKILAAQLYSEFKNFF  217 (805)
Q Consensus       167 g~~~qlL~GVTGSGKTevya~lI~~----~gr~aLvLvPei~La~QL~~rfk~~F  217 (805)
                      +....+|+|=+|||||+.-..++.+    .|.+||++.     .+++..+++.-|
T Consensus       115 ~~~~l~f~G~~G~GKThLa~aIa~~Ll~~~~~~Vly~~-----~~~~~~~lk~~~  164 (265)
T PRK06921        115 RKNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFP-----FVEGFGDLKDDF  164 (265)
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCEEEEEE-----HHHHHHHHHHHH
T ss_conf             76627997289898899999999999996297199988-----799999999888


No 242
>TIGR02759 TraD_Ftype type IV conjugative transfer system coupling protein TraD; InterPro: IPR014128   The TraD protein performs an essential coupling function in conjugative type IV secretion systems. This protein sits at the inner membrane in contact with the assembled pilus and its scaffold as well as the relaxosome-plasmid DNA complex (through TraM) , .; GO: 0000746 conjugation.
Probab=94.54  E-value=0.039  Score=34.54  Aligned_cols=31  Identities=32%  Similarity=0.517  Sum_probs=26.2

Q ss_pred             CEEEEEEECCCCHHHHHHHHHH---HCCCCEEEE
Q ss_conf             3379986337646999999999---719978999
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIE---AMQRPAIVM  199 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~---~~gr~aLvL  199 (805)
                      ++-|+||=||||||..+-++.+   +.|-+|+|-
T Consensus       209 Qh~L~~GTtG~GKs~~lr~LL~~iR~rGd~AIiY  242 (613)
T TIGR02759       209 QHILIHGTTGSGKSVALRKLLRWIRQRGDRAIIY  242 (613)
T ss_pred             CCEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEE
T ss_conf             2526645417438999999999998639858998


No 243
>pfam10412 TrwB_AAD_bind Type IV secretion-system coupling protein DNA-binding domain. The plasmid conjugative coupling protein TrwB forms hexamers from six structurally very similar protomers. This hexamer contains a central channel running from the cytosolic pole (made up by the AADs) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB_AAD (all-alpha domain) domain appears to be the DNA-binding domain of the structure. TrwB, a basic integral inner-membrane nucleoside-triphosphate-binding protein, is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells and export.
Probab=94.54  E-value=0.085  Score=31.98  Aligned_cols=43  Identities=26%  Similarity=0.512  Sum_probs=33.1

Q ss_pred             CCCCEEEEEEECCCCHHHHHHHHHHHC---CCCEEEEECCHHHHHH
Q ss_conf             397337998633764699999999971---9978999316346899
Q gi|254780991|r  166 SREKVQLLLGVTGSGKTFTMAKVIEAM---QRPAIVMAPNKILAAQ  208 (805)
Q Consensus       166 ~g~~~qlL~GVTGSGKTevya~lI~~~---gr~aLvLvPei~La~Q  208 (805)
                      ...++.++.|-||||||..+.++|...   |.+++|+=|--.++..
T Consensus        13 ~~~~H~lviG~tGsGKT~~i~~~i~~~~~~~~s~iv~DpKGe~~~~   58 (386)
T pfam10412        13 SETQHILIVGTTGTGKTQALRELLDQIRARGDRAIIYDPTGTFVER   58 (386)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCHHHHH
T ss_conf             7767589988999988879999999999779919999587368898


No 244
>KOG0239 consensus
Probab=94.47  E-value=0.048  Score=33.83  Aligned_cols=17  Identities=12%  Similarity=0.264  Sum_probs=11.0

Q ss_pred             CCCCCCCCCEEEEECCC
Q ss_conf             35787771179996288
Q gi|254780991|r  644 EGLDIPECGLVAILDAD  660 (805)
Q Consensus       644 kGlD~p~v~lV~i~dAD  660 (805)
                      .++.+|+++.+-|-+.+
T Consensus       476 ~~~~V~~~t~~~V~s~~  492 (670)
T KOG0239         476 GNLMVPLLTVIKVGSSE  492 (670)
T ss_pred             CCEECCCCEEEECCCHH
T ss_conf             84653553587449878


No 245
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.46  E-value=0.41  Score=26.91  Aligned_cols=109  Identities=21%  Similarity=0.242  Sum_probs=60.7

Q ss_pred             HHHHHHHHHHHHHCCC----------CEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCEE
Q ss_conf             3899999999887397----------337998633764699999999971997899931634689999999986789838
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE----------KVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAV  222 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~----------~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V  222 (805)
                      ..+.|.-|.+..++.|          +..-|-|=||.|||=+.|.+.++.                     .  ..+..|
T Consensus       216 ~~~~~~~~~~~~~~~~~~~~~~~~~~q~IALVGPTGVGKTTTIAKLAArf---------------------~--~~~KkV  272 (436)
T PRK11889        216 EEEVIKYILEDMRSHFNTENVFEKEVQTIALIGPTGVGKTTTLAKMAWQF---------------------H--GKKKTV  272 (436)
T ss_pred             HHHHHHHHHHHHHHHCCHHHHHHHHCEEEEEECCCCCCHHHHHHHHHHHH---------------------H--CCCCEE
T ss_conf             99999999999887403101336417179998999988899999999998---------------------6--169808


Q ss_pred             EEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHC-----CCCEEEECCHHHHCCCCCHHHH---HCCE
Q ss_conf             9986213444421015554321022103588999999999999854-----9984998277896168983477---2257
Q gi|254780991|r  223 EYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLE-----RNDCIVVSSVSCIYGIGSVESY---SQMI  294 (805)
Q Consensus       223 ~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~-----~~~~IVVgsrSAIfgl~~P~~~---lglI  294 (805)
                      .+-              ..|||              |..|...|..     +=+++|+-+.+.+-....-+..   ..+|
T Consensus       273 ALI--------------TtDTY--------------RIGAVEQLKTYAeIMgVPV~VV~dp~eL~~AL~~lkdka~~DLI  324 (436)
T PRK11889        273 GFI--------------TTDHS--------------RIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYI  324 (436)
T ss_pred             EEE--------------ECCCC--------------HHHHHHHHHHHHHHHCCCEEEECCHHHHHHHHHHHHHCCCCCEE
T ss_conf             999--------------80663--------------47699999999998499439968889999999987633688889


Q ss_pred             EEEECCCCCCHHHHHHHH
Q ss_conf             999419811178753234
Q gi|254780991|r  295 VQLKIGDSVEQKELLSSL  312 (805)
Q Consensus       295 IvdEehd~~~~~~~~~~l  312 (805)
                      ++|-.|-+..-.....++
T Consensus       325 LIDTAGRS~RD~~~I~EL  342 (436)
T PRK11889        325 LIDTAGKNYRASETVEEM  342 (436)
T ss_pred             EEECCCCCCCCHHHHHHH
T ss_conf             992989884689999999


No 246
>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=94.46  E-value=0.13  Score=30.73  Aligned_cols=39  Identities=18%  Similarity=0.328  Sum_probs=25.8

Q ss_pred             HHHHHHHHHHHHH-CCCCEEEEEEECCCCHHHHHHHHHHH
Q ss_conf             3899999999887-39733799863376469999999997
Q gi|254780991|r  153 QPAAIAQLLKGIH-SREKVQLLLGVTGSGKTFTMAKVIEA  191 (805)
Q Consensus       153 Q~~Ai~~L~~~l~-~g~~~qlL~GVTGSGKTevya~lI~~  191 (805)
                      -.+=|+.+.+=|. ....--+|.|=-|-|||-+.=.+..+
T Consensus       178 Rd~Ei~r~i~IL~Rr~KNNpiLVGepGVGKTAIvEGLA~r  217 (852)
T TIGR03346       178 RDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQR  217 (852)
T ss_pred             CHHHHHHHHHHHHHHCCCCCCEECCCCCCHHHHHHHHHHH
T ss_conf             3699999999998732489721279998799999999999


No 247
>TIGR03167 tRNA_sel_U_synt tRNA 2-selenouridine synthase. The Escherichia coli YbbB protein was shown to encode a selenophosphate-dependent tRNA 2-selenouridine synthase, essential for modification of some tRNAs to replace a sulfur atom with selenium. This enzyme works with SelD, the selenium donor protein, which also acts in selenocysteine incorporation. Although the members of this protein family show a fairly deep split, sequences from both sides of the split are supported by co-occurence with, and often proximity to, the selD gene.
Probab=94.44  E-value=0.069  Score=32.65  Aligned_cols=46  Identities=22%  Similarity=0.195  Sum_probs=30.2

Q ss_pred             CCCCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             397337998633764699999999971997899931634689999999986789
Q gi|254780991|r  166 SREKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       166 ~g~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      ...+..+|.|-||||||.+.-++ ++.|-|+|=|       -.|+.---|-||.
T Consensus       125 ~~~~~~vl~G~TG~GKT~iL~~L-~~~G~qviDL-------EglAnHRGS~FG~  170 (311)
T TIGR03167       125 QPFPLIVLGGMTGSGKTELLHAL-ANAGAQVLDL-------EGLANHRGSSFGA  170 (311)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHH-HHCCCCCCCH-------HHHHHCCCCCCCC
T ss_conf             46876998788887789999999-9769974258-------9986314653468


No 248
>KOG4280 consensus
Probab=94.43  E-value=0.045  Score=34.08  Aligned_cols=84  Identities=21%  Similarity=0.290  Sum_probs=55.3

Q ss_pred             CCEEEEECCCCCCCHHHHHH----HHHHHHHCCCCEE-EEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHH----HH
Q ss_conf             75477518888884389999----9999887397337-998633764699999999971997899931634689----99
Q gi|254780991|r  139 TFFQMQTDYHPSGDQPAAIA----QLLKGIHSREKVQ-LLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAA----QL  209 (805)
Q Consensus       139 ~~f~l~~~~~P~gdQ~~Ai~----~L~~~l~~g~~~q-lL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~----QL  209 (805)
                      +.|.+..-|.+...|..-.+    .|++..-+|+..+ +=||-||||||++|.-.      .    .+..+++|    +|
T Consensus        52 ~~ftfD~vf~~~stQ~dvy~~~~~~lV~svl~GyNgtvFaYGQtGsGKTyTM~G~------~----~~~~Giipraf~~l  121 (574)
T KOG4280          52 KSFTFDAVFDSDSTQDDVYQETVAPLVESVLEGYNGTVFAYGQTGSGKTYTMIGP------D----PELRGLIPRAFEHL  121 (574)
T ss_pred             CCCEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCCCEEEECC------C----HHHCCCCHHHHHHH
T ss_conf             8733235546997799999987189999985446843886225789873477478------8----44278506899999


Q ss_pred             HHHHHHHCCCCEEEEEEECCCCC
Q ss_conf             99999867898389986213444
Q gi|254780991|r  210 YSEFKNFFPHNAVEYFVSYYDYY  232 (805)
Q Consensus       210 ~~rfk~~Fp~n~V~~f~S~~~~y  232 (805)
                      .......=......+-+||.-.|
T Consensus       122 F~~I~~~~~~~~f~vrvS~lEiY  144 (574)
T KOG4280         122 FRHIDERKEKTRFLVRVSYLEIY  144 (574)
T ss_pred             HHHHHHCCCCCEEEEEEEHHHHH
T ss_conf             99997414563478985357777


No 249
>KOG0240 consensus
Probab=94.37  E-value=0.13  Score=30.71  Aligned_cols=86  Identities=20%  Similarity=0.342  Sum_probs=55.5

Q ss_pred             CCEEEEECCCCCCCHHH----HHHHHHHHHHCCCC-EEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHH
Q ss_conf             75477518888884389----99999998873973-37998633764699999999971997899931634689999999
Q gi|254780991|r  139 TFFQMQTDYHPSGDQPA----AIAQLLKGIHSREK-VQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       139 ~~f~l~~~~~P~gdQ~~----Ai~~L~~~l~~g~~-~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rf  213 (805)
                      .+|...--|.|+.-|.+    |+..++..+-.|+. ...-+|-||||||.+|-.+....        .+.++.|-++.++
T Consensus        49 ~~y~FDrVF~pnatQe~Vy~~~a~~Iv~dVL~GYNGTvfaYGqT~sGKTytm~G~~~d~--------~~~GIipRi~~di  120 (607)
T KOG0240          49 KTYVFDRVFSPNATQEDVYEFAAKPIVDDVLLGYNGTVFAYGQTGSGKTYTMEGIGHDP--------EEMGIIPRILNDI  120 (607)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCEEECCCCCCH--------HHCCCHHHHHHHH
T ss_conf             64000030599711999999988999999865665158996578888512302567872--------3137478999999


Q ss_pred             HHHC---CCC-EEEEEEECCCCC
Q ss_conf             9867---898-389986213444
Q gi|254780991|r  214 KNFF---PHN-AVEYFVSYYDYY  232 (805)
Q Consensus       214 k~~F---p~n-~V~~f~S~~~~y  232 (805)
                      =...   ++| .+.+=|||+-.|
T Consensus       121 F~~Iys~~~n~efhVkVsy~EIY  143 (607)
T KOG0240         121 FDHIYSMEENLEFHVKVSYFEIY  143 (607)
T ss_pred             HHHHHCCCCCCEEEEEEEEEHHH
T ss_conf             99986276563699999852124


No 250
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=94.35  E-value=0.25  Score=28.44  Aligned_cols=32  Identities=31%  Similarity=0.515  Sum_probs=23.3

Q ss_pred             EEEEEECCCCHHHHHHHHHHHCCC--CEEEEECC
Q ss_conf             799863376469999999997199--78999316
Q gi|254780991|r  171 QLLLGVTGSGKTFTMAKVIEAMQR--PAIVMAPN  202 (805)
Q Consensus       171 qlL~GVTGSGKTevya~lI~~~gr--~aLvLvPe  202 (805)
                      .|.-|-||||||-+++.++...++  +.-|++=|
T Consensus         4 iLitG~TGSGKTTtl~all~~i~~~~~~~IiTiE   37 (198)
T cd01131           4 VLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIE   37 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCCEEEEEC
T ss_conf             9998999997999999999853637883699964


No 251
>pfam01935 DUF87 Domain of unknown function DUF87. The function of this prokaryotic domain is unknown. It contains several conserved aspartates and histidines that could be metal ligands.
Probab=94.34  E-value=0.06  Score=33.10  Aligned_cols=34  Identities=32%  Similarity=0.581  Sum_probs=28.1

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHHC----CCCEEEEECC
Q ss_conf             337998633764699999999971----9978999316
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEAM----QRPAIVMAPN  202 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~~----gr~aLvLvPe  202 (805)
                      ++.-..|.||||||.+..-++++.    +-++||+=|.
T Consensus        24 rH~aIlg~TGsGKS~tv~vLl~~l~~~~~~~vlVfDpH   61 (218)
T pfam01935        24 RHFAILGSTGSGKSNTVAVLLEELLEKKGATVLIFDPH   61 (218)
T ss_pred             HHEEEECCCCCCHHHHHHHHHHHHHHCCCCCEEEECCC
T ss_conf             21478726999769999999999985479978998288


No 252
>TIGR00631 uvrb excinuclease ABC, B subunit; InterPro: IPR004807 All proteins in this family for which functions are known are DNA helicases that function in the nucleotide excision repair and are endonucleases that make the 3' incision next to DNA damage. They are part of a pathway requiring UvrA, UvrB, UvrC, and UvrD homologs.; GO: 0009381 excinuclease ABC activity, 0006289 nucleotide-excision repair, 0005737 cytoplasm, 0009380 excinuclease repair complex.
Probab=94.31  E-value=0.36  Score=27.34  Aligned_cols=286  Identities=16%  Similarity=0.182  Sum_probs=153.6

Q ss_pred             HHHHHHH---------HHHHHHHHCC-CHHHHHHHHHCCCCCH---HHH--HHHHHHHHCCCHHHHHHHHCCCCCCCCCC
Q ss_conf             1677641---------3456664233-1368888874022100---036--77775101023234321000367532100
Q gi|254780991|r    8 FPKKDSR---------IQSISTRVDD-LDYFSFEEKQLEVDKT---MVA--DAMRRIRSEAGKHRKNAAKRMLIHQRENT   72 (805)
Q Consensus         8 ~~~~~~~---------~~~~~~~~~~-~~~~~~~~~~~~~~~~---~~~--e~~~~~~~~~~~~~~~~~~~~~~~~~~~~   72 (805)
                      |||.|.-         |+.|+.=|.+ +.||.=-|+.+|+-++   +-+  |++++++==+|-++  +++-+.|+.--.+
T Consensus       242 fPA~HyV~p~e~~~~Ai~~I~~EL~eRl~~f~~~~kllEaQRL~qRT~yDLEMl~e~G~C~GIEN--YSRhl~GR~~GEp  319 (667)
T TIGR00631       242 FPASHYVTPEERLERAIKEIEKELEERLKYFEEQGKLLEAQRLKQRTEYDLEMLREMGYCSGIEN--YSRHLSGRKPGEP  319 (667)
T ss_pred             ECCCEECCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCH--HCCCCCCCCCCCC
T ss_conf             05400025804799999999999999999998779517888898868877888750673377000--0002167776315


Q ss_pred             HHHHHCCHHHHHHH---H-------------HHHHHHHHHCCHHHHHHHHHHHHHCC---------CHH-------HHCC
Q ss_conf             02320124556542---2-------------67743211147558999999998739---------603-------2057
Q gi|254780991|r   73 ASKGEFQSQSSISM---S-------------EKQTREISEQTMTPSVQALARLIQSD---------NPL-------LKNG  120 (805)
Q Consensus        73 ~~~~~~~~~~~~~~---~-------------~~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~-------~~~~  120 (805)
                      +      .-+.||+   |             .|+=++|-.+..+.    =+.||+-|         |||       .=+-
T Consensus       320 P------~tLlDYF~gfP~DfLlviDESHVT~PQ~~GMY~GD~SR----K~~LVeYGFRLPSAlDNRPLkfeEF~~~~~Q  389 (667)
T TIGR00631       320 P------YTLLDYFIGFPEDFLLVIDESHVTLPQIGGMYNGDRSR----KQTLVEYGFRLPSALDNRPLKFEEFEERINQ  389 (667)
T ss_pred             C------CCHHHHCCCCCCCEEEEEEECCCCHHHHHHHHHCCHHH----HHHHHHCCCCCCHHCCCCCCCHHHHHHHCCC
T ss_conf             9------64776504688650898840257502213441304676----5433202775300135878987999985598


Q ss_pred             CCCCCCCCCCCCCCC------------CC--CCCEEEEECCCCCCCHH-HHHHHHHHHHHCCCCEEEEEEECCCCHHHHH
Q ss_conf             402666788874215------------88--77547751888888438-9999999988739733799863376469999
Q gi|254780991|r  121 KIWTPHRSWSINNHS------------KD--ITFFQMQTDYHPSGDQP-AAIAQLLKGIHSREKVQLLLGVTGSGKTFTM  185 (805)
Q Consensus       121 ~~~~~~~~~~~~~~~------------~~--~~~f~l~~~~~P~gdQ~-~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevy  185 (805)
                      -+++..-| .+++-+            +|  ++|---   =.|+.-|= .=+.+|.+.++.                   
T Consensus       390 ~vyVSATP-G~~E~e~S~~~vvEQiiRPTGLlDP~i~---VRP~~gQvdDL~~EI~~R~~~-------------------  446 (667)
T TIGR00631       390 VVYVSATP-GDYELEQSGGNVVEQIIRPTGLLDPEIE---VRPTDGQVDDLLSEIRQRVAR-------------------  446 (667)
T ss_pred             EEEEECCC-CHHHHHHHCCCEEEEEECCCCCCCCEEE---EECCCCHHHHHHHHHHHHHHC-------------------
T ss_conf             89996388-5899973269158998737786488368---835851588889999999972-------------------


Q ss_pred             HHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCC--EEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHH-HHHHH
Q ss_conf             99999719978999316346899999999867898--3899862134444210155543210221035889999-99999
Q gi|254780991|r  186 AKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHN--AVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDR-MRHSA  262 (805)
Q Consensus       186 a~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n--~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~-~R~~a  262 (805)
                             |--+||.    |||-.|++++-.||.+-  +|.|.||                          +||. +|.+-
T Consensus       447 -------~ERvLVT----TLTKkMAEdLTdYl~E~Gikv~YLHS--------------------------eIdt~ER~ei  489 (667)
T TIGR00631       447 -------NERVLVT----TLTKKMAEDLTDYLKELGIKVRYLHS--------------------------EIDTLERVEI  489 (667)
T ss_pred             -------CCCEEEE----EHHHHHHHHHHHHHHCCCCEEEEECC--------------------------HHHHHHHHHH
T ss_conf             -------8948998----20167788999997058837987145--------------------------5789999999


Q ss_pred             HHHHHCCCCEEEECC---HHHHCCCCCHHHHHCCEE-EEECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEE--
Q ss_conf             999854998499827---789616898347722579-99419811178753234311765633877545331872478--
Q gi|254780991|r  263 TRSLLERNDCIVVSS---VSCIYGIGSVESYSQMIV-QLKIGDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSI--  336 (805)
Q Consensus       263 ~~~l~~~~~~IVVgs---rSAIfgl~~P~~~lglII-vdEehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~IL--  336 (805)
                      .+.|+.|+-.|.||=   |=-|=   .|+=.|=.|+ -|+||=       ++..-.+     =.-..||--.+.|-|+  
T Consensus       490 irdLR~G~fDVLVGINLLREGLD---lPEVSLVAILDADKEGF-------LRSerSL-----IQTIGRAARN~~G~VilY  554 (667)
T TIGR00631       490 IRDLRLGEFDVLVGINLLREGLD---LPEVSLVAILDADKEGF-------LRSERSL-----IQTIGRAARNVNGKVILY  554 (667)
T ss_pred             HHHHCCCCCEEEEECCHHHCCCC---CHHHHHHHHHCCCCCCC-------CCCCCHH-----HHHHHHHHHCCCCEEEEE
T ss_conf             99844788408860002002465---11488997632788899-------8663027-----889888752579659997


Q ss_pred             -ECCCCCHHHHHHHHCCCCCCHHHHHCCCCCCCCHHHHCCCCCCHHHHHCCCCHHHHHHHHHHHH
Q ss_conf             -3178887788873104442002221016664001110000100000000256367887545589
Q gi|254780991|r  337 -EIFPSHLEDVAWRVSMFGNDIEEISEFYPLTGQKIRNVETIKIYANSHYVTPRPTLNTAMKYIK  400 (805)
Q Consensus       337 -dsatps~Es~~~Rie~f~deIe~I~~fDplT~~~~~~~~~~~i~Pa~~~v~~~e~l~~a~~~i~  400 (805)
                       |-.|.|++. ++      +|.++.|             .-=.-|...|-++|.+..+.....+.
T Consensus       555 AD~iT~sM~~-AI------~ET~RRR-------------~~Q~~YNe~HgItP~ti~K~i~~~~~  599 (667)
T TIGR00631       555 ADKITDSMQK-AI------EETERRR-------------KIQIAYNEEHGITPQTIRKKIKDILD  599 (667)
T ss_pred             CCCCCHHHHH-HH------HHHHHHH-------------HHHHHHHHHCCCCCCCCCHHHHHHHH
T ss_conf             2870078999-99------9878889-------------99999997538978854056888777


No 253
>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]
Probab=94.30  E-value=0.18  Score=29.60  Aligned_cols=92  Identities=23%  Similarity=0.394  Sum_probs=58.9

Q ss_pred             HHHHHHHHHHHHH---CCCCEEEEEEECCCCHHHHHHHHHHHC----CCCEEEE----ECCHHHHHHHHHHHHHHCCCCE
Q ss_conf             3899999999887---397337998633764699999999971----9978999----3163468999999998678983
Q gi|254780991|r  153 QPAAIAQLLKGIH---SREKVQLLLGVTGSGKTFTMAKVIEAM----QRPAIVM----APNKILAAQLYSEFKNFFPHNA  221 (805)
Q Consensus       153 Q~~Ai~~L~~~l~---~g~~~qlL~GVTGSGKTevya~lI~~~----gr~aLvL----vPei~La~QL~~rfk~~Fp~n~  221 (805)
                      |..|+.++.+.++   ......||.|=||.|| |+.|++|.+.    .||-+.+    .||--|-.       +.||+.+
T Consensus       228 ~S~am~~ll~~i~~VA~Sd~tVLi~GETGtGK-ElvAraIH~~S~R~~kPfV~~NCAAlPesLlES-------ELFGHeK  299 (550)
T COG3604         228 RSPAMRQLLKEIEVVAKSDSTVLIRGETGTGK-ELVARAIHQLSPRRDKPFVKLNCAALPESLLES-------ELFGHEK  299 (550)
T ss_pred             CCHHHHHHHHHHHHHHCCCCEEEEECCCCCCH-HHHHHHHHHHCCCCCCCCEEEECCCCCHHHHHH-------HHHCCCC
T ss_conf             69999999999998726898079845888538-999999987375557986663122253788888-------8745332


Q ss_pred             EEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHHHHCCEEEEECCC
Q ss_conf             89986213444421015554321022103588999999999999854998499827789616898347722579994198
Q gi|254780991|r  222 VEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVESYSQMIVQLKIGD  301 (805)
Q Consensus       222 V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~~lglIIvdEehd  301 (805)
                      -++                                           +    =.+++|..-|    -..+-|-.+.||.||
T Consensus       300 GAF-------------------------------------------T----GA~~~r~GrF----ElAdGGTLFLDEIGe  328 (550)
T COG3604         300 GAF-------------------------------------------T----GAINTRRGRF----ELADGGTLFLDEIGE  328 (550)
T ss_pred             CCC-------------------------------------------C----CCHHCCCCCE----EECCCCEEECHHHCC
T ss_conf             233-------------------------------------------3----5101467635----655797576022036


Q ss_pred             CC
Q ss_conf             11
Q gi|254780991|r  302 SV  303 (805)
Q Consensus       302 ~~  303 (805)
                      -.
T Consensus       329 lP  330 (550)
T COG3604         329 LP  330 (550)
T ss_pred             CC
T ss_conf             78


No 254
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=94.27  E-value=0.44  Score=26.62  Aligned_cols=161  Identities=14%  Similarity=0.115  Sum_probs=96.0

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHH-HHHC------------CCCEEEEECCHHHHHHHHHHHHH
Q ss_conf             8884389999999988739733799863376469999999-9971------------99789993163468999999998
Q gi|254780991|r  149 PSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKV-IEAM------------QRPAIVMAPNKILAAQLYSEFKN  215 (805)
Q Consensus       149 P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~l-I~~~------------gr~aLvLvPei~La~QL~~rfk~  215 (805)
                      ||.=|.+||-.+.+    | +..+..-=||||||..|+=- ++++            +-.+|||+|.--|+.|++..++.
T Consensus        32 PTpIQ~~aIP~iL~----G-kDvi~~A~TGSGKTLAYlLPiL~~Ll~~~~l~~~~~~~p~aLILvPTRELA~QI~~~~~~  106 (574)
T PRK04537         32 CTPIQALTLPVALP----G-GDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDAVK  106 (574)
T ss_pred             CCHHHHHHHHHHHC----C-CCEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHH
T ss_conf             99999999999957----9-988998489888999999999999983744345778996199977989999999999999


Q ss_pred             HCCCC--EEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCC-----CCHH
Q ss_conf             67898--3899862134444210155543210221035889999999999998549984998277896168-----9834
Q gi|254780991|r  216 FFPHN--AVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGI-----GSVE  288 (805)
Q Consensus       216 ~Fp~n--~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl-----~~P~  288 (805)
                      +...-  .+...+...+                        ++.+     ...+.....|||||--.+.-+     ..-+
T Consensus       107 l~~~~~lr~~~l~GG~~------------------------~~~q-----~~~L~~g~dIVVaTPGRLld~L~~~~~~~L  157 (574)
T PRK04537        107 FGADLGLRFALVYGGVD------------------------YDKQ-----RELLQQGVDVIIATPGRLIDYVKQHKVVSL  157 (574)
T ss_pred             HHCCCCCEEEEEECCCC------------------------HHHH-----HHHHCCCCCEEEECHHHHHHHHHHCCCCCC
T ss_conf             86458977999979966------------------------8899-----998735999899898999999981798653


Q ss_pred             HHHCCEEEEECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHH---CCCCEEEECCCCCHHHHHHHHCCCC
Q ss_conf             77225799941981117875323431176563387754533---1872478317888778887310444
Q gi|254780991|r  289 SYSQMIVQLKIGDSVEQKELLSSLVKQQYKRQDIGIIRGTF---RVCGDSIEIFPSHLEDVAWRVSMFG  354 (805)
Q Consensus       289 ~~lglIIvdEehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f---~~rg~ILdsatps~Es~~~Rie~f~  354 (805)
                      .++.++|+||...-.+          .+|.. ++...-..+   ..+-.++=|||-+.+-..+...++.
T Consensus       158 ~~vk~LVLDEAD~LLd----------~gF~~-di~~IL~~lP~~~~rQ~iLfSATl~~~V~~la~~~l~  215 (574)
T PRK04537        158 HACEICVLDEADRMFD----------LGFIK-DIRFLLRRMPERGTRQTLLFSATLSHRVLELAYEHMN  215 (574)
T ss_pred             CCEEEEEECCCHHHHC----------CCCHH-HHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHHCC
T ss_conf             3315899627326542----------87799-9999999666556855899983277799999999779


No 255
>cd01363 Motor_domain Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes.
Probab=94.27  E-value=0.026  Score=35.85  Aligned_cols=31  Identities=39%  Similarity=0.533  Sum_probs=25.0

Q ss_pred             HHHHHHHHHCCCCEE-EEEEECCCCHHHHHHH
Q ss_conf             999999887397337-9986337646999999
Q gi|254780991|r  157 IAQLLKGIHSREKVQ-LLLGVTGSGKTFTMAK  187 (805)
Q Consensus       157 i~~L~~~l~~g~~~q-lL~GVTGSGKTevya~  187 (805)
                      ++.|++.+-+|+..+ +-||-||||||++|..
T Consensus        12 v~plv~~~l~G~n~ti~aYGqTGSGKTyTm~G   43 (186)
T cd01363          12 VGPLLQSALDGYNVCIFAYGQTGSGKTYTMEG   43 (186)
T ss_pred             HHHHHHHHHCCCCEEEEEECCCCCCCCEEECC
T ss_conf             89999999788746999967999987528235


No 256
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=94.22  E-value=0.073  Score=32.49  Aligned_cols=111  Identities=21%  Similarity=0.300  Sum_probs=68.0

Q ss_pred             HHHHHHHHHHHHHCCC--CEEEEEEECCCCHHHHHHHHHHH-CCCCEEEEECCHHH-HHHHHHHHHHHCCCCEEEEEEEC
Q ss_conf             3899999999887397--33799863376469999999997-19978999316346-89999999986789838998621
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE--KVQLLLGVTGSGKTFTMAKVIEA-MQRPAIVMAPNKIL-AAQLYSEFKNFFPHNAVEYFVSY  228 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~--~~qlL~GVTGSGKTevya~lI~~-~gr~aLvLvPei~L-a~QL~~rfk~~Fp~n~V~~f~S~  228 (805)
                      |....+.|..++..|.  +..|++|.-|.|||-+ |+++++ ++-...+ ..+-+. .--....+++.+.++.+      
T Consensus        26 Q~~~~~~l~n~i~~~~~~~aylf~G~rG~GKTt~-Ari~ak~lnc~~~~-~~~~~~~~c~~c~~c~~i~~~~~~------   97 (507)
T PRK06645         26 QEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTS-ARIIAKAVNCSALI-TENTTIKTCEKCTNCISFNNHNHP------   97 (507)
T ss_pred             CHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHH-HHHHHHHHCCCCCC-CCCCCCCCCCCCHHHHHHHCCCCC------
T ss_conf             3999999999997399663477458799788999-99999996799988-889988888887678998658999------


Q ss_pred             CCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHH-HHCCEEEEECCCCC
Q ss_conf             3444421015554321022103588999999999999854998499827789616898347-72257999419811
Q gi|254780991|r  229 YDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVES-YSQMIVQLKIGDSV  303 (805)
Q Consensus       229 ~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~-~lglIIvdEehd~~  303 (805)
                                    -.+|-|++.|..+|..|     .|.+.          +-|   +|.. .-...|+||+|.-+
T Consensus        98 --------------dv~EiDaas~~gv~~ir-----~l~~~----------~~~---~p~~~~~kv~iidE~hmls  141 (507)
T PRK06645         98 --------------DIIEIDAASKTSVDDIR-----RIIES----------AEY---KPLQGKHKIFIIDEVHMLS  141 (507)
T ss_pred             --------------CEEEEECCCCCCHHHHH-----HHHHH----------CCC---CCCCCCEEEEEECCHHHCC
T ss_conf             --------------85996378888889999-----99863----------551---7876743589952142248


No 257
>COG3857 AddB ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]
Probab=94.11  E-value=0.19  Score=29.43  Aligned_cols=10  Identities=20%  Similarity=0.331  Sum_probs=5.1

Q ss_pred             HHHHHHHHCC
Q ss_conf             7766543127
Q gi|254780991|r  671 LIQTIGRAAR  680 (805)
Q Consensus       671 ~~q~~GRagR  680 (805)
                      |.-.+++.+-
T Consensus       944 YLdai~q~~~  953 (1108)
T COG3857         944 YLDAIKQNAP  953 (1108)
T ss_pred             HHHHHHHHHH
T ss_conf             9999987404


No 258
>PRK08727 hypothetical protein; Validated
Probab=94.08  E-value=0.48  Score=26.35  Aligned_cols=107  Identities=14%  Similarity=0.096  Sum_probs=56.3

Q ss_pred             HHHHHHHHHHH-CCCCEEEEEEECCCCHHHHHHHH---HHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCC
Q ss_conf             99999999887-39733799863376469999999---997199789993163468999999998678983899862134
Q gi|254780991|r  155 AAIAQLLKGIH-SREKVQLLLGVTGSGKTFTMAKV---IEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYD  230 (805)
Q Consensus       155 ~Ai~~L~~~l~-~g~~~qlL~GVTGSGKTevya~l---I~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~  230 (805)
                      .++..+..-.. .......|+|-+|||||-..-.+   ..+.|+.+.+|. -........+-+...=..+.|++     |
T Consensus        27 ~~~a~l~~~~~~~~~~~lyl~G~~GsGKTHLl~a~~~~~~~~~~~~~yl~-l~~~~~~~~~~l~~le~~~ll~i-----D  100 (233)
T PRK08727         27 GLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALSLCAAAEQAGRSSAYLP-LQAAAGRLRDALEALEGRSLVAL-----D  100 (233)
T ss_pred             HHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEE-HHHHHHHHHHHHHHHCCCCEEEE-----E
T ss_conf             99999998743888898999899999889999999999982799728844-78853202567753103897898-----5


Q ss_pred             CCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHH
Q ss_conf             444210155543210221035889999999999998549984998277896
Q gi|254780991|r  231 YYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCI  281 (805)
Q Consensus       231 ~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAI  281 (805)
                      -             |+. .+-+++++..=+..++++.+....++++++.+-
T Consensus       101 D-------------id~-i~g~~~~e~aLFhL~N~~~~~~~~ll~ts~~~P  137 (233)
T PRK08727        101 G-------------VDS-IAGQREDEVALFDFHNRARAAGITLLYTARQMP  137 (233)
T ss_pred             C-------------CHH-CCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCH
T ss_conf             5-------------011-269827999999999999861983899779895


No 259
>KOG0389 consensus
Probab=94.03  E-value=0.49  Score=26.29  Aligned_cols=120  Identities=17%  Similarity=0.169  Sum_probs=92.9

Q ss_pred             CCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCC--CCEEEEHHHH
Q ss_conf             10168899999986302321246621478999999998635966873257645789999999973189--8699984587
Q gi|254780991|r  565 RTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGK--FDVLVGINLL  642 (805)
Q Consensus       565 ~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~--~diLvgt~~~  642 (805)
                      .+.+..|-.-..+....|.|||+|.---.|-+-|-.+|.-.++.-.-+||...-..|+.++.+|...+  +-.|..|--=
T Consensus       760 SgK~r~L~~LLp~~k~~G~RVLiFSQFTqmLDILE~~L~~l~~~ylRLDGsTqV~~RQ~lId~Fn~d~difVFLLSTKAG  839 (941)
T KOG0389         760 SGKCRKLKELLPKIKKKGDRVLIFSQFTQMLDILEVVLDTLGYKYLRLDGSTQVNDRQDLIDEFNTDKDIFVFLLSTKAG  839 (941)
T ss_pred             HHHHHHHHHHHHHHHHCCCEEEEEEHHHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHCCCCCEEEEEEEECCC
T ss_conf             03276999987887616877999608889999999999862733786148864138999998626677557999861467


Q ss_pred             HCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCC--CEEEEE
Q ss_conf             53578777117999628856744460137766543127-998--669998
Q gi|254780991|r  643 REGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NVN--SKVILY  689 (805)
Q Consensus       643 akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~~--G~~il~  689 (805)
                      .=|+.+---..|+++|-|-     ++-.=-|.--|+-| |..  =.|+-+
T Consensus       840 G~GINLt~An~VIihD~dF-----NP~dD~QAEDRcHRvGQtkpVtV~rL  884 (941)
T KOG0389         840 GFGINLTCANTVIIHDIDF-----NPYDDKQAEDRCHRVGQTKPVTVYRL  884 (941)
T ss_pred             CCEECCCCCCEEEEEECCC-----CCCCCCHHHHHHHHHCCCCEEEEEEE
T ss_conf             6502112364589960577-----97552046888876178540699998


No 260
>cd01126 TraG_VirD4 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer to plant cells and is required for virulence.
Probab=93.98  E-value=0.35  Score=27.42  Aligned_cols=53  Identities=19%  Similarity=0.216  Sum_probs=35.4

Q ss_pred             EEEEEEECCCCHHHHHH--HHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEE
Q ss_conf             37998633764699999--999971997899931634689999999986789838998
Q gi|254780991|r  170 VQLLLGVTGSGKTFTMA--KVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYF  225 (805)
Q Consensus       170 ~qlL~GVTGSGKTevya--~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f  225 (805)
                      +.+..|-||||||..++  +++ +.+.+++|.-|---|...++ +++..+|. .|.+|
T Consensus         1 H~lvig~tGsGKt~~~vip~ll-~~~~s~vv~D~Kgel~~~t~-~~~~~~G~-~v~v~   55 (384)
T cd01126           1 HVLVFAPTRSGKGVGFVIPNLL-TWPGSVVVLDPKGENFELTS-EHRRALGR-KVFVF   55 (384)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH-HCCCCEEEEECCHHHHHHHH-HHHHHCCC-EEEEE
T ss_conf             9799889999731899999998-18998899948789999999-99998799-68998


No 261
>KOG0921 consensus
Probab=93.98  E-value=0.13  Score=30.70  Aligned_cols=85  Identities=21%  Similarity=0.221  Sum_probs=65.4

Q ss_pred             CCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCC-C------------CCCCHHHHH
Q ss_conf             966873257645789999999973189869998458753578777117999628856-7------------444601377
Q gi|254780991|r  606 NIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKE-G------------FLRSKTSLI  672 (805)
Q Consensus       606 ~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~-~------------f~~~~~~~~  672 (805)
                      .+.-.-+|+-....++.++.+..-.|..||++-|+.+.--+-+..|+.|++.+--+. +            -..+..+++
T Consensus       674 ~y~ilp~Hsq~~~~eqrkvf~~~p~gv~kii~stniaetsiTidd~v~vid~cka~~~~~~s~nn~~~~Atvw~sktn~e  753 (1282)
T KOG0921         674 KYEILPLHSQLTSQEQRKVFEPVPEGVTKIILSTNIAETSITIDDVVYVIDSCKAKEKLFTSHNNMTHYATVWASKTNLE  753 (1282)
T ss_pred             HCCCCCCHHHCCCHHHHHCCCCCCCCCCCCCCCCCEEEEEEEECCEEEEEEEEEEEEEEECCCCCEEEEEEECCCCCCHH
T ss_conf             03466502201447664136755455654013453366764204506887520011112104432034455226643067


Q ss_pred             HHHHHHCCCCCCEEEEEE
Q ss_conf             665431279986699982
Q gi|254780991|r  673 QTIGRAARNVNSKVILYA  690 (805)
Q Consensus       673 q~~GRagR~~~G~~il~a  690 (805)
                      |+-||+||-+.|.+....
T Consensus       754 qr~gr~grvR~G~~f~lc  771 (1282)
T KOG0921         754 QRKGRAGRVRPGFCFHLC  771 (1282)
T ss_pred             HHCCCCCEECCCCCCCCC
T ss_conf             642667413566231210


No 262
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=93.93  E-value=0.51  Score=26.15  Aligned_cols=32  Identities=31%  Similarity=0.572  Sum_probs=23.7

Q ss_pred             HHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC
Q ss_conf             999887397337998633764699999999971
Q gi|254780991|r  160 LLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM  192 (805)
Q Consensus       160 L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~  192 (805)
                      |...+..+ ...+.-|-||||||-.+-.++...
T Consensus       142 L~~~V~~r-~nilI~G~TgsGKTTll~all~~i  173 (320)
T PRK13894        142 IIAAVRAH-RNILVIGGTGSGKTTLVNAIINEM  173 (320)
T ss_pred             HHHHHHCC-CCEEEECCCCCCHHHHHHHHHHHH
T ss_conf             99999728-758998588865689999998632


No 263
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=93.90  E-value=0.5  Score=26.23  Aligned_cols=87  Identities=26%  Similarity=0.299  Sum_probs=49.6

Q ss_pred             HHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCC--EEEE--ECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCC
Q ss_conf             999887397337998633764699999999971997--8999--316346899999999867898389986213444421
Q gi|254780991|r  160 LLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRP--AIVM--APNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPE  235 (805)
Q Consensus       160 L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~--aLvL--vPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yqpE  235 (805)
                      |...+..+ +..+.-|-||||||-.+-.++......  .+.+  +||..+.           -.|.|.++.+.-.  +. 
T Consensus       155 L~~aV~~r-~NIlIsGgTGSGKTTllnALl~~IP~~eRIvtIEDt~EL~l~-----------~~n~V~l~~~~~~--~g-  219 (343)
T PRK13851        155 LHACVVGR-LTMLLCGPTGSGKTTMSKTLISAIPPQERLITIEDTLELVIP-----------HENHVRLLYSKNG--AG-  219 (343)
T ss_pred             HHHHHHCC-CCEEEECCCCCCHHHHHHHHHHCCCCCCCEEEECCCCCCCCC-----------CCCEEEEEECCCC--CC-
T ss_conf             99999769-889998889861999999999628965527996115002589-----------9996899965898--88-


Q ss_pred             CCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCH
Q ss_conf             0155543210221035889999999999998549984998277
Q gi|254780991|r  236 AYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSV  278 (805)
Q Consensus       236 ay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsr  278 (805)
                                  ...++     ++--...+|+-+.|.||||=+
T Consensus       220 ------------~~~vt-----~~~Ll~~aLRmrPDRIivGEv  245 (343)
T PRK13851        220 ------------LGAVT-----AEHLLQASLRMRPDRILLGEM  245 (343)
T ss_pred             ------------CCCCC-----HHHHHHHHHCCCCCEEEEEEE
T ss_conf             ------------58397-----999999986079982899852


No 264
>TIGR00595 priA primosomal protein N'; InterPro: IPR005259    All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.; GO: 0003677 DNA binding, 0006260 DNA replication.
Probab=93.89  E-value=0.012  Score=38.38  Aligned_cols=113  Identities=14%  Similarity=0.069  Sum_probs=61.3

Q ss_pred             HHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCCCCHH
Q ss_conf             00000256367887545589989989988754433211001244447777533211201451011333114465556202
Q gi|254780991|r  381 ANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGEPPPT  460 (805)
Q Consensus       381 Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L~~r~~ge~P~t  460 (805)
                      |.+|......+...+.......++.+ .+.....+......|....++.++..++...+.+.++|+..+.|+.|      
T Consensus       156 p~~~~~~l~~r~~~~~~p~~~~~d~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~q~~~f~n~rg~~~~~~c~~c------  228 (524)
T TIGR00595       156 PQRHLLVLPRRVGGRKPPEVKLIDLR-KEPRQGNRSFLSPELLTALEETLAAGEQAILFLNRRGYSPNLLCRSC------  228 (524)
T ss_pred             CHHHHHHHHHHHCCCCCCEEEEEECC-CCCCCCCCCCCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCEEECCC------
T ss_conf             20321110132057757515676221-00021321022589999999887416706898615566530000026------


Q ss_pred             HHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHH----HCCCCCCCCCCCCCCC
Q ss_conf             330265442132101234475445432456541333235766554443222111010012----1555454446867542
Q gi|254780991|r  461 LFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNC----LRPTTIVVSATPGSWE  536 (805)
Q Consensus       461 L~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~----~~~~~~~~satPg~~e  536 (805)
                                                              |+.+.|..|...+.||....    ...|+.|.+..|-+..
T Consensus       229 ----------------------------------------g~~~~cp~c~~~~~~h~~~~~g~p~l~ch~c~~~~~~p~~  268 (524)
T TIGR00595       229 ----------------------------------------GYVLECPNCDVSLTYHKKEGNGQPKLRCHYCGYQEPVPKT  268 (524)
T ss_pred             ----------------------------------------CCCEECCCCCEEEEEEEECCCCCCEEEEECCCCCCCCCCC
T ss_conf             ----------------------------------------7501056653023553213688620122105766777543


Q ss_pred             CHHH
Q ss_conf             0132
Q gi|254780991|r  537 LEQC  540 (805)
Q Consensus       537 ~e~~  540 (805)
                      +..|
T Consensus       269 cp~c  272 (524)
T TIGR00595       269 CPAC  272 (524)
T ss_pred             CCCC
T ss_conf             6444


No 265
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.89  E-value=0.4  Score=26.98  Aligned_cols=24  Identities=42%  Similarity=0.631  Sum_probs=20.2

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHHC
Q ss_conf             337998633764699999999971
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEAM  192 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~~  192 (805)
                      +...|.|-||+|||=+.|.+.+..
T Consensus       175 ~vi~lVGPTGvGKTTTiAKLAa~~  198 (388)
T PRK12723        175 RIFILVGPTGVGKTTTIAKLAAIY  198 (388)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             289998998875787999999999


No 266
>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=93.85  E-value=0.18  Score=29.55  Aligned_cols=45  Identities=22%  Similarity=0.299  Sum_probs=28.3

Q ss_pred             CCCCCCHHHHHHHHHHHHHC-CCCEEEEEEECCCCHHHHHHHHHHH
Q ss_conf             88888438999999998873-9733799863376469999999997
Q gi|254780991|r  147 YHPSGDQPAAIAQLLKGIHS-REKVQLLLGVTGSGKTFTMAKVIEA  191 (805)
Q Consensus       147 ~~P~gdQ~~Ai~~L~~~l~~-g~~~qlL~GVTGSGKTevya~lI~~  191 (805)
                      +.|-=--.+=|..+.+=|.. ...--+|.|=-|-|||-+.=.+..+
T Consensus       186 lDPvIGRd~EI~r~iqIL~Rr~KNNPiLVGepGVGKTAIvEGLA~r  231 (852)
T TIGR03345       186 IDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALR  231 (852)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHCCCCCEEECCCCCCHHHHHHHHHHH
T ss_conf             9988694999999999998624799746579998799999999999


No 267
>KOG0246 consensus
Probab=93.79  E-value=0.029  Score=35.54  Aligned_cols=43  Identities=33%  Similarity=0.475  Sum_probs=29.6

Q ss_pred             EEEEECCCCCCCHHHH------HHHHHHHH-HCCCCEEEEEEECCCCHHHHH
Q ss_conf             4775188888843899------99999988-739733799863376469999
Q gi|254780991|r  141 FQMQTDYHPSGDQPAA------IAQLLKGI-HSREKVQLLLGVTGSGKTFTM  185 (805)
Q Consensus       141 f~l~~~~~P~gdQ~~A------i~~L~~~l-~~g~~~qlL~GVTGSGKTevy  185 (805)
                      |+..  |.--+++..+      ++-|++-| +.|...+.-||-||||||++|
T Consensus       260 F~FD--yaFDe~~sNe~VYrfTa~PlV~~IF~~G~ATCFAYGQTGSGKT~TM  309 (676)
T KOG0246         260 FRFD--YAFDESASNELVYRFTAKPLVKTIFEGGMATCFAYGQTGSGKTYTM  309 (676)
T ss_pred             EEEE--EECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCEEEC
T ss_conf             7776--6316666527898875567889998277254565125788741551


No 268
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=93.77  E-value=0.44  Score=26.63  Aligned_cols=58  Identities=14%  Similarity=0.258  Sum_probs=41.3

Q ss_pred             HHHHH-HHHHCCCCEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHHHHHHHHHH
Q ss_conf             99999-988739733799863376469999999997---1997899931634689999999986
Q gi|254780991|r  157 IAQLL-KGIHSREKVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQLYSEFKNF  216 (805)
Q Consensus       157 i~~L~-~~l~~g~~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~QL~~rfk~~  216 (805)
                      ++++. -|+..| ...++.|-+|||||-.-++.+.+   .|.++++++=|-+- .|++...+++
T Consensus        21 lD~~l~GG~p~g-~~~li~G~~G~GKt~~~~~f~~~~~~~g~~~~~~~~ee~~-~~~~~~~~~~   82 (241)
T PRK06067         21 IDRKLGGGIPFG-SLILIEGENDTGKSVLSQQFVWGALNQGKRGLAITTENTS-KSYLKQMESL   82 (241)
T ss_pred             HHHHCCCCCCCC-EEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEECCCH-HHHHHHHHHC
T ss_conf             786506997799-0899980799887999999999998679829999942899-9999999983


No 269
>CHL00095 clpC Clp protease ATP binding subunit
Probab=93.74  E-value=0.18  Score=29.48  Aligned_cols=39  Identities=18%  Similarity=0.325  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHHHC-CCCEEEEEEECCCCHHHHHHHHHHH
Q ss_conf             38999999998873-9733799863376469999999997
Q gi|254780991|r  153 QPAAIAQLLKGIHS-REKVQLLLGVTGSGKTFTMAKVIEA  191 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~-g~~~qlL~GVTGSGKTevya~lI~~  191 (805)
                      -.+=|..+.+=|.. ...--+|.|=-|-|||-+.=.+..+
T Consensus       184 Rd~EI~r~i~IL~RR~KNNpiLvGepGVGKTAIvEGLA~r  223 (823)
T CHL00095        184 RDKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQR  223 (823)
T ss_pred             CHHHHHHHHHHHHHHCCCCCEEECCCCCCHHHHHHHHHHH
T ss_conf             5699999999997732488502379998799999999997


No 270
>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=93.70  E-value=0.41  Score=26.87  Aligned_cols=42  Identities=29%  Similarity=0.340  Sum_probs=31.7

Q ss_pred             CHHHHHHHHHHHHHC-CCCEEEEEEECCCCHHHHHHHHHHHCC
Q ss_conf             438999999998873-973379986337646999999999719
Q gi|254780991|r  152 DQPAAIAQLLKGIHS-REKVQLLLGVTGSGKTFTMAKVIEAMQ  193 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~-g~~~qlL~GVTGSGKTevya~lI~~~g  193 (805)
                      .|...+..+...+.. ..+..+|+|-+|+|||.+...+..+.+
T Consensus         2 ~~~~~~~~l~~~~~~~~~~~ill~GppGtGKT~la~~ia~~~~   44 (151)
T cd00009           2 GQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELF   44 (151)
T ss_pred             CCHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHC
T ss_conf             8579999999998187998089989999886599999999712


No 271
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=93.64  E-value=0.57  Score=25.79  Aligned_cols=83  Identities=29%  Similarity=0.308  Sum_probs=46.0

Q ss_pred             HHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCC----CEEEE---ECCHHHHHHHHHHHHHHCCCCEEEEEEECCCC
Q ss_conf             999988739733799863376469999999997199----78999---31634689999999986789838998621344
Q gi|254780991|r  159 QLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQR----PAIVM---APNKILAAQLYSEFKNFFPHNAVEYFVSYYDY  231 (805)
Q Consensus       159 ~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr----~aLvL---vPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~  231 (805)
                      -|...++.+ ...+.-|-||||||-.+-.++....+    .=+|.   +||..+           -..|.|.++.+.   
T Consensus       136 ~L~~aV~~r-~nilVsGgTGSGKTTllnaL~~~i~~~~p~eRivtIEDt~EL~~-----------~~~n~v~l~~~~---  200 (323)
T PRK13833        136 TIRSAISSR-LNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVILEDTAEIQC-----------AAENAVLLHTSD---  200 (323)
T ss_pred             HHHHHHHCC-CCEEEECCCCCCHHHHHHHHHHHHCCCCCHHEEEEECCCCCCCC-----------CCCCEEEEECCC---
T ss_conf             999999818-96899917777568999999986402893233999457501146-----------788777875169---


Q ss_pred             CCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHH
Q ss_conf             442101555432102210358899999999999985499849982778
Q gi|254780991|r  232 YQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVS  279 (805)
Q Consensus       232 yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrS  279 (805)
                                        .+    + ++--...+|+-+.|.||||=+.
T Consensus       201 ------------------~v----~-~~~Ll~~aLRmrPDRIivGEvR  225 (323)
T PRK13833        201 ------------------TV----D-MARLLKSTMRLRPDRIIVGEVR  225 (323)
T ss_pred             ------------------CC----C-HHHHHHHHHCCCCCEEEEECCC
T ss_conf             ------------------86----9-9999999744699758883006


No 272
>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=93.63  E-value=0.52  Score=26.07  Aligned_cols=39  Identities=31%  Similarity=0.438  Sum_probs=27.5

Q ss_pred             HHHHHHHH-HHHCCCCEEEEEEECCCCHHHHHHHHHHHCCC
Q ss_conf             99999999-88739733799863376469999999997199
Q gi|254780991|r  155 AAIAQLLK-GIHSREKVQLLLGVTGSGKTFTMAKVIEAMQR  194 (805)
Q Consensus       155 ~Ai~~L~~-~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr  194 (805)
                      ..|+.+.. |+..| .-..+.|-.|||||.+-+++...+..
T Consensus         6 ~~lD~~L~GGi~~G-~itEi~G~~GsGKTql~lqla~~~~~   45 (235)
T cd01123           6 KALDELLGGGIETG-SITEIFGEFGSGKTQLCHQLAVTVQL   45 (235)
T ss_pred             HHHHHHCCCCCCCC-EEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             78996507996478-79999999998499999999999842


No 273
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=93.62  E-value=0.57  Score=25.77  Aligned_cols=160  Identities=20%  Similarity=0.130  Sum_probs=96.8

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHH-HHHHCC------CC-EEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             8888438999999998873973379986337646999999-999719------97-899931634689999999986789
Q gi|254780991|r  148 HPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAK-VIEAMQ------RP-AIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       148 ~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~-lI~~~g------r~-aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      +|+.=|.+||-.+..|     +..+-..-||||||.-|+= +++...      .+ +|||+|.--||.|+++.++.+-..
T Consensus        51 ~pt~IQ~~~iP~~l~g-----~Dvi~~A~TGsGKT~Af~lP~l~~i~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~~~~  125 (513)
T COG0513          51 EPTPIQLAAIPLILAG-----RDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKLGKN  125 (513)
T ss_pred             CCCHHHHHHCHHHHCC-----CCEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCCCEEEECCCHHHHHHHHHHHHHHHHH
T ss_conf             9898999658776369-----99799868987178999999999974004557775699779999999999999999862


Q ss_pred             C---EEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHC---CC-CCHHHHHC
Q ss_conf             8---38998621344442101555432102210358899999999999985499849982778961---68-98347722
Q gi|254780991|r  220 N---AVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIY---GI-GSVESYSQ  292 (805)
Q Consensus       220 n---~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIf---gl-~~P~~~lg  292 (805)
                      .   .+..++...+                    +..+       . .+|..| +.|||||--=+.   .- -.-+..+.
T Consensus       126 ~~~~~~~~i~GG~~--------------------~~~q-------~-~~l~~g-~~ivVaTPGRllD~i~~~~l~l~~v~  176 (513)
T COG0513         126 LGGLRVAVVYGGVS--------------------IRKQ-------I-EALKRG-VDIVVATPGRLLDLIKRGKLDLSGVE  176 (513)
T ss_pred             CCCCEEEEEECCCC--------------------HHHH-------H-HHHHCC-CCEEEECCCHHHHHHHCCCCCCCCEE
T ss_conf             45842999989989--------------------8999-------9-987249-98999796089999864885546501


Q ss_pred             CEEEEECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHC-CCCEEEECCCCCHHHHHHHHCC
Q ss_conf             57999419811178753234311765633877545331-8724783178887788873104
Q gi|254780991|r  293 MIVQLKIGDSVEQKELLSSLVKQQYKRQDIGIIRGTFR-VCGDSIEIFPSHLEDVAWRVSM  352 (805)
Q Consensus       293 lIIvdEehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~-~rg~ILdsatps~Es~~~Rie~  352 (805)
                      ..|.||...-.          .+++.. ++...-.... .+-.++-|||.+-+-..+...+
T Consensus       177 ~lVlDEADrml----------d~gf~~-~i~~I~~~~p~~~qtllfSAT~~~~i~~l~~~~  226 (513)
T COG0513         177 TLVLDEADRML----------DMGFID-DIEKILKALPPDRQTLLFSATMPDDIRELARRY  226 (513)
T ss_pred             EEEECCHHHHC----------CCCCHH-HHHHHHHHCCCCCEEEEEEECCCHHHHHHHHHH
T ss_conf             89967617663----------887689-999999738977489999824898999999997


No 274
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=93.60  E-value=0.18  Score=29.57  Aligned_cols=47  Identities=21%  Similarity=0.306  Sum_probs=38.3

Q ss_pred             EECCCCCCCHHHHHHHHHHHHHCCC--CEEEEEEECCCCHHHHHHHHHHHC
Q ss_conf             5188888843899999999887397--337998633764699999999971
Q gi|254780991|r  144 QTDYHPSGDQPAAIAQLLKGIHSRE--KVQLLLGVTGSGKTFTMAKVIEAM  192 (805)
Q Consensus       144 ~~~~~P~gdQ~~Ai~~L~~~l~~g~--~~qlL~GVTGSGKTevya~lI~~~  192 (805)
                      .+.|.|=  |++|++.|...++.|.  +.-|++|--|+||+.+-..+++..
T Consensus         2 ~~~~~PW--q~~~~~~L~~~i~~~rl~HA~Lf~Gp~G~GK~~~A~~~A~~l   50 (319)
T PRK08769          2 TSAFSPW--QQRAFDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHV   50 (319)
T ss_pred             CCCCCCC--CHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             8555877--689999999999769942068758999878999999999998


No 275
>PRK10865 protein disaggregation chaperone; Provisional
Probab=93.57  E-value=0.19  Score=29.33  Aligned_cols=65  Identities=15%  Similarity=0.334  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHHHHC-CCCEEEEEEECCCCHHHHHHHHHHHC----------CCCEEEEECCHHHH-----HHHHHHHHHH
Q ss_conf             38999999998873-97337998633764699999999971----------99789993163468-----9999999986
Q gi|254780991|r  153 QPAAIAQLLKGIHS-REKVQLLLGVTGSGKTFTMAKVIEAM----------QRPAIVMAPNKILA-----AQLYSEFKNF  216 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~-g~~~qlL~GVTGSGKTevya~lI~~~----------gr~aLvLvPei~La-----~QL~~rfk~~  216 (805)
                      -.+=|..+.+-|.. ...--+|.|=-|-|||-+.=.+..+.          ++..+-|-----+|     .++.+|+++.
T Consensus       183 Rd~EI~r~i~IL~RR~KNNpiLvGepGVGKTAIvEGLA~rI~~g~VP~~L~~~~I~~LDlg~L~AGakyRGeFEeRLk~i  262 (857)
T PRK10865        183 RDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEERLKGV  262 (857)
T ss_pred             CHHHHHHHHHHHHCCCCCCCEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCCEEEEEHHHHHHCCCCCHHHHHHHHHH
T ss_conf             29999999999702578997587899988999999999999838999788169024733887861476521179999999


Q ss_pred             C
Q ss_conf             7
Q gi|254780991|r  217 F  217 (805)
Q Consensus       217 F  217 (805)
                      .
T Consensus       263 l  263 (857)
T PRK10865        263 L  263 (857)
T ss_pred             H
T ss_conf             9


No 276
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=93.54  E-value=0.55  Score=25.92  Aligned_cols=47  Identities=23%  Similarity=0.381  Sum_probs=34.0

Q ss_pred             HHHHHHHH-HHHCCCCEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECC
Q ss_conf             99999999-88739733799863376469999999997---19978999316
Q gi|254780991|r  155 AAIAQLLK-GIHSREKVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPN  202 (805)
Q Consensus       155 ~Ai~~L~~-~l~~g~~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPe  202 (805)
                      .+++++.. |+..| ...++.|-.|||||-+-+++..+   .|..+|++.-|
T Consensus        10 ~~lD~~LgGGi~~G-~itei~G~pG~GKTtl~lq~a~~~~~~g~~vlYidtE   60 (224)
T PRK09361         10 KSLDELLGGGIERG-TITQIYGPPGSGKTNICIQLAVEAARQGKKVIYIDTE   60 (224)
T ss_pred             HHHHHHHCCCCCCC-EEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECCC
T ss_conf             89998626998888-7999989999859999999999999749909996787


No 277
>KOG0701 consensus
Probab=93.53  E-value=0.027  Score=35.69  Aligned_cols=77  Identities=18%  Similarity=0.139  Sum_probs=59.2

Q ss_pred             HHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHC-----------C--CCCC
Q ss_conf             78999999997318986999845875357877711799962885674446013776654312-----------7--9986
Q gi|254780991|r  618 TLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAA-----------R--NVNS  684 (805)
Q Consensus       618 ~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRag-----------R--~~~G  684 (805)
                      ...|.....+|+.+++..++.|--.-.|+|+--+.+|...+     ..-+..+++|-.|++.           |  +..|
T Consensus       707 ~~~rn~~~~~~~~~~v~~~~~pss~~~g~~~~~~~~v~~~~-----~~~~i~~~~q~~~~~~~~~s~l~~~~~r~~~~~~  781 (1606)
T KOG0701         707 GMYRNDDQPQFYVAEVLPLLAPSSLFPGLDYETFNEVYRFK-----YALTITSLNQSLLDVDHTSSRLNLLVPRGDNQKG  781 (1606)
T ss_pred             HHHHCCCCCCEEEEEEEEECCCHHCCCCCCHHEEEEEEECC-----CCCHHHHCCCCCCCCCCCHHHHCCCCCHHHCCCC
T ss_conf             64424664414654312302631017996621002356404-----1001221221003555531232025753331466


Q ss_pred             EEEEEECCCCHHHHH
Q ss_conf             699982489889999
Q gi|254780991|r  685 KVILYADTITKSIQL  699 (805)
Q Consensus       685 ~~il~ad~~t~~~~~  699 (805)
                      .+...+...|..+..
T Consensus       782 ~~l~~~s~~~e~~~~  796 (1606)
T KOG0701         782 SALPNSSSETERLKD  796 (1606)
T ss_pred             CEEECCCCHHHHHHH
T ss_conf             245415640244268


No 278
>TIGR03029 EpsG chain length determinant protein tyrosine kinase EpsG. The proteins in this family are homologs of the EpsG protein found in Methylobacillus strain 12S and are generally found in operons with other Eps homologs. The protein is believed to function as the protein tyrosine kinase component of the chain length regulator (along with the transmembrane component EpsF).
Probab=93.53  E-value=0.17  Score=29.74  Aligned_cols=64  Identities=16%  Similarity=0.252  Sum_probs=46.7

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHH-----CCCCEE-EEEEECCCCHHHHHHHHHH---HCCCCEEEEECCH
Q ss_conf             54775188888843899999999887-----397337-9986337646999999999---7199789993163
Q gi|254780991|r  140 FFQMQTDYHPSGDQPAAIAQLLKGIH-----SREKVQ-LLLGVTGSGKTFTMAKVIE---AMQRPAIVMAPNK  203 (805)
Q Consensus       140 ~f~l~~~~~P~gdQ~~Ai~~L~~~l~-----~g~~~q-lL~GVTGSGKTevya~lI~---~~gr~aLvLvPei  203 (805)
                      .-+|.+-|+|.+.|-+|+..|...+-     .+.+.- +--.--|-|||+|-+|+.-   +.|+.+|++==+.
T Consensus        70 ~~~l~aa~~P~s~~~Ea~R~lRs~l~~~~~~~~~~~LaItS~~pGEGKS~vAaNLA~~~Aq~G~RvLLVDaDL  142 (274)
T TIGR03029        70 SPDLIAAYQPFSPQVEALRALRSQLMLRWFSEGRKALAVVSAKSGEGCSYIAANLAIVFSQLGEKTLLIDANL  142 (274)
T ss_pred             CHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEEECCC
T ss_conf             9899877389988999999999999998457888389996899999899999999999996799199995888


No 279
>PRK06893 DNA replication initiation factor; Validated
Probab=93.44  E-value=0.45  Score=26.57  Aligned_cols=106  Identities=15%  Similarity=0.174  Sum_probs=59.0

Q ss_pred             CCHHHHHHHHHHHHHC-CCCEEEEEEECCCCHHHHHHHHHH---HCCCCEEEEECC--HHHHHHHHHHHHHHCCCCEEEE
Q ss_conf             8438999999998873-973379986337646999999999---719978999316--3468999999998678983899
Q gi|254780991|r  151 GDQPAAIAQLLKGIHS-REKVQLLLGVTGSGKTFTMAKVIE---AMQRPAIVMAPN--KILAAQLYSEFKNFFPHNAVEY  224 (805)
Q Consensus       151 gdQ~~Ai~~L~~~l~~-g~~~qlL~GVTGSGKTevya~lI~---~~gr~aLvLvPe--i~La~QL~~rfk~~Fp~n~V~~  224 (805)
                      |.=.+++..|.+...+ +.+...|+|-+|||||...-.+..   ..+++++++--+  ..+.+...+.+++.   +.|.+
T Consensus        21 ~~n~~~~~~l~~~~~~~~~~~l~i~G~~gsGKTHLLqa~~~~~~~~~~~~~yi~~~~~~~~~~~~l~~l~~~---d~l~i   97 (229)
T PRK06893         21 DNNLLLLDSLRKNFIDLKQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQYFSPAVLENLEQQ---DLVCL   97 (229)
T ss_pred             CCHHHHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHCCCEEEEEHHHHHHCCHHHHHHHHHC---CEEEE
T ss_conf             874999999997550246987999899999889999999999997189859997377564069999876547---97999


Q ss_pred             EEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCC-CCEEEECCH
Q ss_conf             862134444210155543210221035889999999999998549-984998277
Q gi|254780991|r  225 FVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLER-NDCIVVSSV  278 (805)
Q Consensus       225 f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~-~~~IVVgsr  278 (805)
                        --.+                . ..-+++++..=+...+++.+. ...|++++.
T Consensus        98 --DDi~----------------~-i~g~~~~e~~lF~l~N~l~~~~~~~ll~ss~  133 (229)
T PRK06893         98 --DDLQ----------------A-VIGNEEWELAIFDLFNRIKESGKTLLLISAN  133 (229)
T ss_pred             --ECHH----------------H-HCCCHHHHHHHHHHHHHHHHCCCCEEEEECC
T ss_conf             --6723----------------4-2488389999999999999759917998579


No 280
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=93.41  E-value=0.22  Score=28.87  Aligned_cols=40  Identities=23%  Similarity=0.292  Sum_probs=33.4

Q ss_pred             HHHHHHHHHHHHHCCC-CEEEEEEECCCCHHHHHHHHHHHC
Q ss_conf             3899999999887397-337998633764699999999971
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE-KVQLLLGVTGSGKTFTMAKVIEAM  192 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~-~~qlL~GVTGSGKTevya~lI~~~  192 (805)
                      |+.+++.|..-+++|. .+-+++|--|+|||-+..-+.+++
T Consensus        20 q~~i~~~L~~~~~~~~~phlLf~GPpG~GKTt~A~~lA~~l   60 (337)
T PRK12402         20 QESVVDHLSALAASGNLPHLVVYGPSGSGKTAAVRALAREL   60 (337)
T ss_pred             CHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             79999999999977998769888929848999999999996


No 281
>pfam02562 PhoH PhoH-like protein. PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation.
Probab=93.31  E-value=0.23  Score=28.76  Aligned_cols=132  Identities=16%  Similarity=0.259  Sum_probs=65.0

Q ss_pred             CHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC---C--CCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEE
Q ss_conf             43899999999887397337998633764699999999971---9--978999316346899999999867898389986
Q gi|254780991|r  152 DQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM---Q--RPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFV  226 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~---g--r~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~  226 (805)
                      .|..|++.|.+    . .-..+.|.+|||||++-+...-+.   +  +..+|.=|.+....    + -.|+|.+.-+-+.
T Consensus         8 ~Q~~~~~~l~~----~-~iv~~~GpAGtGKT~la~~~al~~l~~~~~~kiii~Rp~v~~g~----~-iGfLPG~~~eK~~   77 (205)
T pfam02562         8 GQKRYVEAIRK----N-DIVFGIGPAGTGKTYLAVAAAVDALKDGKVKRIILTRPAVEAGE----K-LGFLPGDLEEKVD   77 (205)
T ss_pred             HHHHHHHHHHC----C-CEEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCC----C-CCCCCCCHHHHHH
T ss_conf             89999999717----9-80799899986099999999999997189437999757712577----5-4558897899999


Q ss_pred             ECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHHHHCCEEEEECCCCCCHH
Q ss_conf             21344442101555432102210358899999999999985499849982778961689834772257999419811178
Q gi|254780991|r  227 SYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVESYSQMIVQLKIGDSVEQK  306 (805)
Q Consensus       227 S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~~lglIIvdEehd~~~~~  306 (805)
                             |... |-.|.+       ++.   ..-+++..+.+ +..|-+-+.+-+-|.    ++-..+|+..|-++..++
T Consensus        78 -------p~~~-p~~d~l-------~~~---~~~~~~~~l~~-~~~Ie~~pl~~iRGr----Tf~n~~iIvDEaQN~t~~  134 (205)
T pfam02562        78 -------PYLR-PLYDAL-------YDM---LGAEKVEKLIE-RGVIEIAPLAYMRGR----TLNDAFIILDEAQNTTPE  134 (205)
T ss_pred             -------HHHH-HHHHHH-------HHH---HCHHHHHHHHH-CCCEEECCHHHHCCC----CCCCCEEEEECHHCCCHH
T ss_conf             -------9999-999999-------987---28999999997-597566146765547----625688999722139999


Q ss_pred             HHHHHHHHCC
Q ss_conf             7532343117
Q gi|254780991|r  307 ELLSSLVKQQ  316 (805)
Q Consensus       307 ~~~~~l~~~~  316 (805)
                      +...-+...+
T Consensus       135 ~lk~ilTRiG  144 (205)
T pfam02562       135 QMKMFLTRIG  144 (205)
T ss_pred             HHHHHHHHCC
T ss_conf             9999984217


No 282
>PRK08082 consensus
Probab=93.29  E-value=0.4  Score=26.96  Aligned_cols=63  Identities=11%  Similarity=0.120  Sum_probs=50.9

Q ss_pred             HHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH----CCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             9999999988739733799863376469999999997----1997899931634689999999986789
Q gi|254780991|r  155 AAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA----MQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       155 ~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~----~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      ..++++..|+..| .-.+|-|=+|.|||-..++++..    .|+++++..-|.+ ..|+..|+-+....
T Consensus       191 ~~LD~lt~G~~~g-~LiviaaRPsmGKTa~alnia~~~a~~~~~~V~~fSlEM~-~~~l~~R~la~~s~  257 (453)
T PRK08082        191 TELDRMTAGFQRN-DLIIVAARPSVGKTAFALNIAQNVATKTDENVAIFSLEMG-ADQLVMRMLCAEGN  257 (453)
T ss_pred             HHHHHHHCCCCCC-CEEEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEEECCCC-HHHHHHHHHHCCCC
T ss_conf             8888641477758-5799986788757899999999999855994899731389-89999999971558


No 283
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=93.26  E-value=0.58  Score=25.74  Aligned_cols=67  Identities=22%  Similarity=0.240  Sum_probs=44.7

Q ss_pred             CHHHHHHHHHHHHHCCC-CE-EEEEEECCCCHHHHHHHHHHHCC-----C-CEEEEECCHHHHHHHHHHHHHHCC
Q ss_conf             43899999999887397-33-79986337646999999999719-----9-789993163468999999998678
Q gi|254780991|r  152 DQPAAIAQLLKGIHSRE-KV-QLLLGVTGSGKTFTMAKVIEAMQ-----R-PAIVMAPNKILAAQLYSEFKNFFP  218 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~-~~-qlL~GVTGSGKTevya~lI~~~g-----r-~aLvLvPei~La~QL~~rfk~~Fp  218 (805)
                      +|-..+......+-.|. .. .+++|-||+|||.+.-.+.++..     + .+=|=+.+..---|++..+-.-|+
T Consensus        24 ~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~~~   98 (366)
T COG1474          24 EEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKLG   98 (366)
T ss_pred             HHHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCCCEEEEEEEECCCHHHHHHHHHHHHC
T ss_conf             899999999999855899860799889998732899999999973315675799951307878799999999826


No 284
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=93.22  E-value=0.58  Score=25.73  Aligned_cols=61  Identities=23%  Similarity=0.322  Sum_probs=45.9

Q ss_pred             CHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC--CCCEEEEECCHHHHHHHHHH
Q ss_conf             43899999999887397337998633764699999999971--99789993163468999999
Q gi|254780991|r  152 DQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM--QRPAIVMAPNKILAAQLYSE  212 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~--gr~aLvLvPei~La~QL~~r  212 (805)
                      +-.+|+..+..++..|...-++.|.-|||||.+-=.+.+..  ++-+.|..|+-+++.+...+
T Consensus        35 ~h~e~l~~l~~~i~d~qg~~~vtGevGsGKTv~~Ral~~s~~~d~~~~v~i~~~~~s~~~~~~   97 (269)
T COG3267          35 DHNEALLMLHAAIADGQGILAVTGEVGSGKTVLRRALLASLNEDQVAVVVIDKPTLSDATLLE   97 (269)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHH
T ss_conf             015999997777751785599974477763699999998557885179983576301788999


No 285
>COG1519 KdtA 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]
Probab=93.22  E-value=0.66  Score=25.32  Aligned_cols=45  Identities=9%  Similarity=0.177  Sum_probs=18.1

Q ss_pred             EEEEEECCCCHHHHHHHHHHHC-----CCCEEEEECCHHHHHHHHHHHHHHCCCC
Q ss_conf             7998633764699999999971-----9978999316346899999999867898
Q gi|254780991|r  171 QLLLGVTGSGKTFTMAKVIEAM-----QRPAIVMAPNKILAAQLYSEFKNFFPHN  220 (805)
Q Consensus       171 qlL~GVTGSGKTevya~lI~~~-----gr~aLvLvPei~La~QL~~rfk~~Fp~n  220 (805)
                      .++|++. -|-|-..+-+|++.     +-+.|+-    +-|+-=.++.+++||+.
T Consensus        52 vWiHaaS-VGEv~a~~pLv~~l~~~~P~~~ilvT----t~T~Tg~e~a~~~~~~~  101 (419)
T COG1519          52 VWIHAAS-VGEVLAALPLVRALRERFPDLRILVT----TMTPTGAERAAALFGDS  101 (419)
T ss_pred             EEEEECC-HHHHHHHHHHHHHHHHHCCCCCEEEE----ECCCCHHHHHHHHCCCC
T ss_conf             7999644-66788889999999976899878999----52763799999876987


No 286
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=93.21  E-value=0.22  Score=28.95  Aligned_cols=45  Identities=20%  Similarity=0.324  Sum_probs=29.6

Q ss_pred             CCCCCCHHHHHHHHHHHHHCC-CCEEEEEEECCCCHHHHHHHHHHH
Q ss_conf             888884389999999988739-733799863376469999999997
Q gi|254780991|r  147 YHPSGDQPAAIAQLLKGIHSR-EKVQLLLGVTGSGKTFTMAKVIEA  191 (805)
Q Consensus       147 ~~P~gdQ~~Ai~~L~~~l~~g-~~~qlL~GVTGSGKTevya~lI~~  191 (805)
                      +.|----.+.|..+.+=|-.. ..--+|-|=-|.|||-+.=.+..+
T Consensus       169 lDPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~r  214 (786)
T COG0542         169 LDPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQR  214 (786)
T ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCCCEEECCCCCCHHHHHHHHHHH
T ss_conf             8877374799999999983568899847668988899999899999


No 287
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=93.13  E-value=0.2  Score=29.14  Aligned_cols=40  Identities=20%  Similarity=0.306  Sum_probs=32.7

Q ss_pred             HHHHHHHHHHHHHCCC-CEEEEEEECCCCHHHHHHHHHHHC
Q ss_conf             3899999999887397-337998633764699999999971
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE-KVQLLLGVTGSGKTFTMAKVIEAM  192 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~-~~qlL~GVTGSGKTevya~lI~~~  192 (805)
                      |..+++.|..-+++|. .+-+++|-.|+|||=+...+++++
T Consensus        21 ~~~~~~~L~~~i~~~~~phlLf~GppG~GKTt~a~~la~~l   61 (318)
T PRK00440         21 QEEIVERLKSFVKEKNMPHLLFAGPPGTGKTTAALALAREL   61 (318)
T ss_pred             CHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             69999999999987998669888959988999999999997


No 288
>PRK13700 conjugal transfer protein TraD; Provisional
Probab=93.08  E-value=0.14  Score=30.47  Aligned_cols=39  Identities=13%  Similarity=0.186  Sum_probs=31.4

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHH
Q ss_conf             33799863376469999999997---1997899931634689
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAA  207 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~  207 (805)
                      ++.+++|-||||||-++-+++.+   .|..|+|.=|.=+.+.
T Consensus       186 qH~li~GTtGtGKS~~ir~LL~qIR~RGdrAIIyD~~G~Fv~  227 (732)
T PRK13700        186 QNFCLHGTVGAGKSEVIRRLANYARQRGDMVVIYDRSGEFVK  227 (732)
T ss_pred             HEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECCCCCCHH
T ss_conf             126774688888999999999999972995899939985339


No 289
>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=93.07  E-value=0.14  Score=30.39  Aligned_cols=61  Identities=21%  Similarity=0.327  Sum_probs=43.0

Q ss_pred             HHHHHHHHHH----HHCCCCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHH-HHHHHHHH
Q ss_conf             8999999998----87397337998633764699999999971997899931634689-99999998
Q gi|254780991|r  154 PAAIAQLLKG----IHSREKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAA-QLYSEFKN  215 (805)
Q Consensus       154 ~~Ai~~L~~~----l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~-QL~~rfk~  215 (805)
                      -.+++.+...    |+.|+ +.=|.|=||.|||=+-+++.++.+|||++|.=+--|+. -|++++..
T Consensus         4 t~~v~~v~~R~l~yL~~G~-PvHl~GPaG~GKT~LA~hvA~~r~RPV~l~~Gd~eL~~~DLvG~~~g   69 (265)
T TIGR02640         4 TDAVKRVTSRALRYLKSGY-PVHLRGPAGTGKTTLAMHVARKRDRPVVLINGDAELTTSDLVGSYAG   69 (265)
T ss_pred             CHHHHHHHHHHHHHHCCCC-CEEEECCCCCCHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCCCC
T ss_conf             7237999998766322788-66744788855689999999736896899865823265442315467


No 290
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB; InterPro: IPR014149   This entry represents TrbB, a protein, which is encoded in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer . TrbB is a homologue of the vir system VirB11 ATPase , and the Flp pilus system ATPase TadA ..
Probab=93.04  E-value=0.38  Score=27.10  Aligned_cols=48  Identities=38%  Similarity=0.427  Sum_probs=32.6

Q ss_pred             HHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHH-HCCCCEEEE
Q ss_conf             9999999988739733799863376469999999997199789993163468999999998-678983899
Q gi|254780991|r  155 AAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKN-FFPHNAVEY  224 (805)
Q Consensus       155 ~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~-~Fp~n~V~~  224 (805)
                      ++...|.+.+.+. +--|.-|=||||||                     |||.=+..+.-. .||+++|..
T Consensus       127 aQ~d~l~~Av~ar-~NIlv~GGTGSGKT---------------------TLaNAlla~I~~l~~P~dR~vI  175 (315)
T TIGR02782       127 AQRDVLREAVAAR-KNILVVGGTGSGKT---------------------TLANALLAEIAKLNDPDDRVVI  175 (315)
T ss_pred             HHHHHHHHHHHHC-CCEEEECCCCCCHH---------------------HHHHHHHHHHHHCCCCCCEEEE
T ss_conf             8999999999712-98899814588579---------------------9999999988521699961899


No 291
>PRK08084 DNA replication initiation factor; Provisional
Probab=92.99  E-value=0.71  Score=25.08  Aligned_cols=111  Identities=14%  Similarity=0.197  Sum_probs=60.2

Q ss_pred             CCCCCCHHHHHHHHHHHHH-CCCCEEEEEEECCCCHHHHHHHHH---HHCCCCEEEEECCH--HHHHHHHHHHHHHCCCC
Q ss_conf             8888843899999999887-397337998633764699999999---97199789993163--46899999999867898
Q gi|254780991|r  147 YHPSGDQPAAIAQLLKGIH-SREKVQLLLGVTGSGKTFTMAKVI---EAMQRPAIVMAPNK--ILAAQLYSEFKNFFPHN  220 (805)
Q Consensus       147 ~~P~gdQ~~Ai~~L~~~l~-~g~~~qlL~GVTGSGKTevya~lI---~~~gr~aLvLvPei--~La~QL~~rfk~~Fp~n  220 (805)
                      |-+ |+-.+++..+..... .+.+...|+|-+|||||-.+-.+.   .+.++.+.++.-+.  ...+++.+.++++   +
T Consensus        24 Fi~-g~n~~~~~al~~~~~~~~~~~l~l~G~~G~GKTHLLqA~~~~~~~~~~~~~yl~~~~~~~~~~~~l~~l~~~---d   99 (235)
T PRK08084         24 FYP-GDNDSLLAALQNVLRQEHSGYIYLWGREGAGRSHLLHAACAELSQRGDAVGYVPLDKRAWFVPEVLEGMEQL---S   99 (235)
T ss_pred             CCC-CCCHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCEEEEEHHHHHHHHHHHHHHHHHC---C
T ss_conf             344-886999999999985789876999899998889999999999970798579987798665179999876418---9


Q ss_pred             EEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHC-CCCEEEECCHHH
Q ss_conf             389986213444421015554321022103588999999999999854-998499827789
Q gi|254780991|r  221 AVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLE-RNDCIVVSSVSC  280 (805)
Q Consensus       221 ~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~-~~~~IVVgsrSA  280 (805)
                      .|.+     |--             +. .+-.++++..=+...+++.+ |+..||+++..+
T Consensus       100 ll~i-----DDi-------------~~-i~g~~~~ee~lF~l~N~~~~~g~~~ll~ts~~~  141 (235)
T PRK08084        100 LVCI-----DNI-------------EC-IAGDELWEMAIFDLYNRILESGKTRLLITGDRP  141 (235)
T ss_pred             EEEE-----ECH-------------HH-HCCCHHHHHHHHHHHHHHHHHCCCEEEEECCCC
T ss_conf             8998-----274-------------55-469978999999999999984896699967988


No 292
>PRK05748 replicative DNA helicase; Provisional
Probab=92.89  E-value=0.73  Score=24.98  Aligned_cols=63  Identities=10%  Similarity=0.124  Sum_probs=49.1

Q ss_pred             HHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH----CCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             9999999988739733799863376469999999997----1997899931634689999999986789
Q gi|254780991|r  155 AAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA----MQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       155 ~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~----~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      ..++.+..|+..| .-.++-|=+|.|||-..++++..    .|+|+++..-|.+ +.|+..|+-+....
T Consensus       191 ~~LD~~~~G~~~g-~LiviaaRP~mGKTa~alnia~~~a~~~~~~v~~fSlEM~-~~~l~~R~la~~s~  257 (448)
T PRK05748        191 RDLDKMTSGLQPN-DLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSLEMG-AESLVMRMLCAEGR  257 (448)
T ss_pred             HHHHHHHCCCCCC-CEEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEEECCCC-HHHHHHHHHHHHHC
T ss_conf             7899982798867-3799984799876899999999999856980899817788-88999999999746


No 293
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=92.86  E-value=0.44  Score=26.62  Aligned_cols=50  Identities=20%  Similarity=0.260  Sum_probs=24.8

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHHC-------CCCEEEEECCHHHHHHHHHHHHHHCC
Q ss_conf             337998633764699999999971-------99789993163468999999998678
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEAM-------QRPAIVMAPNKILAAQLYSEFKNFFP  218 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~~-------gr~aLvLvPei~La~QL~~rfk~~Fp  218 (805)
                      .+.++..--|||||-|..+=|+.+       ....|.++=--..|..|-.|+...++
T Consensus        16 gp~lV~AGaGsGKT~vlt~Ria~li~~~~v~p~~Il~vTFTnkAA~em~~Rl~~~~~   72 (655)
T COG0210          16 GPLLVLAGAGSGKTRVLTERIAYLIAAGGVDPEQILAITFTNKAAAEMRERLLKLLG   72 (655)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHEEEEEEEHHHHHHHHHHHHHHHC
T ss_conf             986999579986189999999999873895757717789676999999999998738


No 294
>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]
Probab=92.86  E-value=0.74  Score=24.95  Aligned_cols=107  Identities=19%  Similarity=0.224  Sum_probs=67.5

Q ss_pred             HHHHHHH-HHHHCCCCEEEEEEECCCCHHHHHHHHHHHC---CCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCC
Q ss_conf             9999999-9887397337998633764699999999971---99789993163468999999998678983899862134
Q gi|254780991|r  155 AAIAQLL-KGIHSREKVQLLLGVTGSGKTFTMAKVIEAM---QRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYD  230 (805)
Q Consensus       155 ~Ai~~L~-~~l~~g~~~qlL~GVTGSGKTevya~lI~~~---gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~  230 (805)
                      .++.++. -|+..| +-.=++|--|||||-+-++++..+   |..+.++--|=+|-|+-...+-..+-+|..   +    
T Consensus        47 ~~LD~~LGGGl~~g-~ItEiyG~~gsGKT~lal~~~~~aq~~g~~a~fIDtE~~l~p~r~~~l~~~~~d~l~---v----  118 (279)
T COG0468          47 LALDEALGGGLPRG-RITEIYGPESSGKTTLALQLVANAQKPGGKAAFIDTEHALDPERAKQLGVDLLDNLL---V----  118 (279)
T ss_pred             HHHHHHHCCCCCCC-EEEEEECCCCCCHHHHHHHHHHHHHCCCCEEEEEECCCCCCHHHHHHHHHHHHCCEE---E----
T ss_conf             55787746886553-589984688765466899998886537980899958999899999998875421536---8----


Q ss_pred             CCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHC---CCCEEEECCHHHHCCCCCHHHHHC
Q ss_conf             44421015554321022103588999999999999854---998499827789616898347722
Q gi|254780991|r  231 YYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLE---RNDCIVVSSVSCIYGIGSVESYSQ  292 (805)
Q Consensus       231 ~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~---~~~~IVVgsrSAIfgl~~P~~~lg  292 (805)
                       +||-.+                  +.+..-+-..+..   .-+.|||=|++|.|    |..+.+
T Consensus       119 -~~~~~~------------------e~q~~i~~~~~~~~~~~i~LvVVDSvaa~~----r~~~~~  160 (279)
T COG0468         119 -SQPDTG------------------EQQLEIAEKLARSGAEKIDLLVVDSVAALV----RAEEIE  160 (279)
T ss_pred             -ECCCCH------------------HHHHHHHHHHHHHCCCCCCEEEEECCCCCC----HHHHCC
T ss_conf             -668977------------------999999999987546887889982574346----365548


No 295
>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=92.83  E-value=0.47  Score=26.46  Aligned_cols=30  Identities=33%  Similarity=0.475  Sum_probs=23.6

Q ss_pred             EEEEECCCCHHHHHHHHHHHCCCCEEEEEC
Q ss_conf             998633764699999999971997899931
Q gi|254780991|r  172 LLLGVTGSGKTFTMAKVIEAMQRPAIVMAP  201 (805)
Q Consensus       172 lL~GVTGSGKTevya~lI~~~gr~aLvLvP  201 (805)
                      ||||.-|+|||.+.-.+..+.+.+.+.+..
T Consensus         2 Ll~GppGtGKT~~a~~la~~~~~~~~~v~~   31 (131)
T pfam00004         2 LLYGPPGTGKTTLAKAVAKELGAPFIEISG   31 (131)
T ss_pred             EEECCCCCCHHHHHHHHHHHHCCCCEECCC
T ss_conf             878999999999999999997898533242


No 296
>PRK05541 adenylylsulfate kinase; Provisional
Probab=92.68  E-value=0.46  Score=26.53  Aligned_cols=78  Identities=23%  Similarity=0.410  Sum_probs=48.4

Q ss_pred             CEEEEEEECCCCHHHHHHHHHH---HCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCCCH
Q ss_conf             3379986337646999999999---7199789993163468999999998678983899862134444210155543210
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIE---AMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAYVPRTDTYI  245 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~---~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yqpEay~p~~d~~i  245 (805)
                      ...++.|..|||||-+--.+-.   +.|.++++|=-         +++|..|++.       .|+               
T Consensus         8 ~viW~TGLsGSGKTTiA~~l~~~L~~~g~~~~~LDG---------D~lR~~~~~~-------gfs---------------   56 (176)
T PRK05541          8 YVIWITGLAGSGKTTIAKALYERLKLKYSNVIYLDG---------DELREIFGHS-------GYD---------------   56 (176)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECC---------HHHHHHHCCC-------CCC---------------
T ss_conf             799978999998999999999999975997799886---------8999873658-------989---------------


Q ss_pred             HHHCCCCHHHH-HHHHHHHHHHHCCCCEEEECCHHHHC
Q ss_conf             22103588999-99999999985499849982778961
Q gi|254780991|r  246 EKESSINEQID-RMRHSATRSLLERNDCIVVSSVSCIY  282 (805)
Q Consensus       246 ~k~~s~n~~i~-~~R~~a~~~l~~~~~~IVVgsrSAIf  282 (805)
                           ..+..+ ..|......++.....+||.|.-+.|
T Consensus        57 -----~~~R~~n~~r~~~lak~l~~~g~~vIvs~isp~   89 (176)
T PRK05541         57 -----KESRIEMALKRAKLAAFLADQGMIVIVTTISMF   89 (176)
T ss_pred             -----HHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCC
T ss_conf             -----999999999999999998646980367522798


No 297
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=92.67  E-value=0.78  Score=24.77  Aligned_cols=126  Identities=21%  Similarity=0.262  Sum_probs=74.6

Q ss_pred             CCEEEEEEECCCCHHHHHHHHH---HHC--CCCEEEEECCHHH-------HHHHHHHHHHHCCCCEEEEEEECCCCCCCC
Q ss_conf             7337998633764699999999---971--9978999316346-------899999999867898389986213444421
Q gi|254780991|r  168 EKVQLLLGVTGSGKTFTMAKVI---EAM--QRPAIVMAPNKIL-------AAQLYSEFKNFFPHNAVEYFVSYYDYYQPE  235 (805)
Q Consensus       168 ~~~qlL~GVTGSGKTevya~lI---~~~--gr~aLvLvPei~L-------a~QL~~rfk~~Fp~n~V~~f~S~~~~yqpE  235 (805)
                      +.+..+||-+|.|||-.+-.+-   .+.  ++.++++..|-..       -..-..+||.+|-+-.|.+.    |=-|  
T Consensus       145 yNPLfIyG~~GlGKTHLl~AIgn~~~~~~p~~~v~Y~tae~F~~~~v~al~~~~~~~Fr~~yr~~DvLli----DDiq--  218 (447)
T PRK00149        145 YNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVSSEKFTNDFVKALRNNAMEEFKEKYRSVDVLLI----DDIQ--  218 (447)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEEEHHHHHHHHHHHHHCCCHHHHHHHHHCCCEEEE----CHHH--
T ss_conf             7855897799887889999999999985899728995499999999999851869999999972885432----1488--


Q ss_pred             CCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHHHHCCEEEEECCCCCCHHHHHHHHHHC
Q ss_conf             01555432102210358899999999999985499849982778961689834772257999419811178753234311
Q gi|254780991|r  236 AYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVESYSQMIVQLKIGDSVEQKELLSSLVKQ  315 (805)
Q Consensus       236 ay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~~lglIIvdEehd~~~~~~~~~~l~~~  315 (805)
                              +    .+--+.+.-+=+...+.|.+..-+||+++--      +|.+-.++      ++              
T Consensus       219 --------f----l~gk~~tqeeff~~fn~l~~~~kqiv~tsd~------~P~~l~~l------~~--------------  260 (447)
T PRK00149        219 --------F----LAGKEKTQEEFFHTFNALHENNKQIVITSDR------PPKELEGL------ED--------------  260 (447)
T ss_pred             --------H----HHCCHHHHHHHHHHHHHHHHCCCEEEEECCC------CHHHCCCC------CH--------------
T ss_conf             --------8----6055779999999999999849968995788------96765651------17--------------


Q ss_pred             CCCCCHHHHHHHHHCCCCEEEECCCCCHHHH
Q ss_conf             7656338775453318724783178887788
Q gi|254780991|r  316 QYKRQDIGIIRGTFRVCGDSIEIFPSHLEDV  346 (805)
Q Consensus       316 ~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~  346 (805)
                            .  .+..| ..|.++++-+|.+|+.
T Consensus       261 ------r--L~SRf-~~Gl~~~i~~Pd~e~r  282 (447)
T PRK00149        261 ------R--LRSRF-EWGLTVDIEPPDLETR  282 (447)
T ss_pred             ------H--HHHHH-HCCEEEECCCCCHHHH
T ss_conf             ------7--88676-3762651059999999


No 298
>TIGR01389 recQ ATP-dependent DNA helicase RecQ; InterPro: IPR006293   The ATP-dependent DNA helicase RecQ (3.6.1 from EC) is involved in genome maintenance . All homologues tested to date unwind paired DNA, translocating in a 3' to 5' direction and several have a preference for forked or 4-way DNA structures (e.g. Holliday junctions) or for G-quartet DNA. The yeast protein, Sgs1, is present in numerous foci that coincide with sites of de novo synthesis DNA, such as the replication fork, and protein levels peak during S-phase.    A model has been proposed for Sgs1p action in the S-phase checkpoint response, both as a 'sensor' for damage during replication and a 'resolvase' for structures that arise at paused forks, such as the four-way 'chickenfoot' structure. The action of Sgs1p may serve to maintain the proper amount and integrity of ss DNA that is necessary for the binding of RPA (replication protein A, the eukaryotic ss DNA-binding protein)DNA pol complexes. Sgs1p would thus function by detecting (or resolving) aberrant DNA structures, and would thus contribute to the full activation of the DNA-dependent protein kinase, Mec1p and the effector kinase, Rad53p. Its ability to bind both the large subunit of RPA and the RecA-like protein Rad51p, place it in a unique position to resolve inappropriate fork structures that can occur when either the leading or lagging strand synthesis is stalled. Thus, RecQ helicases integrate checkpoint activation and checkpoint response. ; GO: 0004003 ATP-dependent DNA helicase activity, 0006310 DNA recombination, 0009432 SOS response.
Probab=92.64  E-value=0.58  Score=25.73  Aligned_cols=90  Identities=11%  Similarity=0.239  Sum_probs=56.9

Q ss_pred             ECCCCHHHHHHHHHHH--------------C-CCCEEEEECCHHHHHHHHHHHHHHCCCC---EEEEEEECCCCCCCCCC
Q ss_conf             3376469999999997--------------1-9978999316346899999999867898---38998621344442101
Q gi|254780991|r  176 VTGSGKTFTMAKVIEA--------------M-QRPAIVMAPNKILAAQLYSEFKNFFPHN---AVEYFVSYYDYYQPEAY  237 (805)
Q Consensus       176 VTGSGKTevya~lI~~--------------~-gr~aLvLvPei~La~QL~~rfk~~Fp~n---~V~~f~S~~~~yqpEay  237 (805)
                      |||--.-.++.+++++              . |++=+|=    +.|..=++++.+++-.+   ++.| |-+++       
T Consensus       194 ~~SFdRpNl~~~v~~k~n~~~~l~~yl~~~~~G~SGIIY----a~sR~~VE~~~~~L~s~G~~A~~Y-HAGL~-------  261 (607)
T TIGR01389       194 ISSFDRPNLRFSVVKKNNKKKFLLEYLKKHREGQSGIIY----ASSRKKVEELAERLESQGISALAY-HAGLS-------  261 (607)
T ss_pred             CCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCCCCEEEE----CCCHHHHHHHHHHHHHCCCCEEEC-CCCCC-------
T ss_conf             256775114334312037813689997507999534787----677045899999997479620403-67987-------


Q ss_pred             CCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHHHHCCEEEE
Q ss_conf             555432102210358899999999999985499849982778961689834772257999
Q gi|254780991|r  238 VPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVESYSQMIVQL  297 (805)
Q Consensus       238 ~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~~lglIIvd  297 (805)
                                        +..|-+.-+.-+.-+..|||||+.  ||+|-=.+|.-.+|-.
T Consensus       262 ------------------~~~R~e~Q~~Fl~d~~~vmVAT~A--FGMGIdKpnVRFViH~  301 (607)
T TIGR01389       262 ------------------NKVRAENQEDFLYDDVKVMVATNA--FGMGIDKPNVRFVIHA  301 (607)
T ss_pred             ------------------HHHHHHHHHHHHHHCCEEEEEEEC--CCCCCCCCCCCEEEEE
T ss_conf             ------------------768999975444625548888712--3587478765488863


No 299
>KOG1802 consensus
Probab=92.62  E-value=0.29  Score=28.00  Aligned_cols=63  Identities=29%  Similarity=0.499  Sum_probs=50.2

Q ss_pred             EEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHH----HHHCCCCEEEEECCHHHHHHHHHHHHH
Q ss_conf             77518888884389999999988739733799863376469999999----997199789993163468999999998
Q gi|254780991|r  142 QMQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKV----IEAMQRPAIVMAPNKILAAQLYSEFKN  215 (805)
Q Consensus       142 ~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~l----I~~~gr~aLvLvPei~La~QL~~rfk~  215 (805)
                      +|++.      |..|.+....     ..-.|+.|--|+|||.|-+.+    +++.+-|+||.+|--.-..||+.-...
T Consensus       410 kLN~S------Q~~AV~~VL~-----rplsLIQGPPGTGKTvtsa~IVyhl~~~~~~~VLvcApSNiAVDqLaeKIh~  476 (935)
T KOG1802         410 KLNAS------QSNAVKHVLQ-----RPLSLIQGPPGTGKTVTSATIVYHLARQHAGPVLVCAPSNIAVDQLAEKIHK  476 (935)
T ss_pred             HHCHH------HHHHHHHHHC-----CCCEEEECCCCCCCEEHHHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHH
T ss_conf             22467------8999999975-----9851554699988331168999999985289569981650028999999986


No 300
>pfam10236 DAP3 Mitochondrial ribosomal death-associated protein 3. This is a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).
Probab=92.47  E-value=0.4  Score=26.97  Aligned_cols=47  Identities=23%  Similarity=0.296  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHCCC-CEEEEEEECCCCHHHHHHHHHHH--CCCCEEEEECC
Q ss_conf             9999999887397-33799863376469999999997--19978999316
Q gi|254780991|r  156 AIAQLLKGIHSRE-KVQLLLGVTGSGKTFTMAKVIEA--MQRPAIVMAPN  202 (805)
Q Consensus       156 Ai~~L~~~l~~g~-~~qlL~GVTGSGKTevya~lI~~--~gr~aLvLvPe  202 (805)
                      .++.|.+.-.++. ...+|+|..|||||.+.++++.-  .+.=.++=+|+
T Consensus        10 l~~~l~~~~~~~~~~r~vL~G~~GsGKS~~L~q~v~~A~~~~wiVl~vP~   59 (274)
T pfam10236        10 LTKKLKEADASKKVVRFVLTGERGSGKSVLLAQAMAYALTQGWVVLHVPE   59 (274)
T ss_pred             HHHHHHHHCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCEEEEECCC
T ss_conf             99999874047995189988979977999999999999859989998498


No 301
>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=92.34  E-value=0.86  Score=24.48  Aligned_cols=107  Identities=15%  Similarity=0.175  Sum_probs=57.3

Q ss_pred             CCHHHHHHHHHHHHH-CCCCEEEEEEECCCCHHHHHHHHH---HHCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEE
Q ss_conf             843899999999887-397337998633764699999999---9719978999316346899999999867898389986
Q gi|254780991|r  151 GDQPAAIAQLLKGIH-SREKVQLLLGVTGSGKTFTMAKVI---EAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFV  226 (805)
Q Consensus       151 gdQ~~Ai~~L~~~l~-~g~~~qlL~GVTGSGKTevya~lI---~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~  226 (805)
                      |+=..|+..+....+ .+.+...|+|=+|||||...-.+.   .+.++.++++..+.. .. ...+.-..+.+.      
T Consensus        20 ~~N~~~~~~l~~~~~~~~~~~l~i~G~~GsGKTHLl~a~~~~~~~~~~~~~yl~~~~~-~~-~~~~~l~~l~~~------   91 (226)
T TIGR03420        20 GGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAEL-AQ-ADPEVLEGLEQA------   91 (226)
T ss_pred             CCHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCEEEECHHHH-HH-HHHHHHHHCCCC------
T ss_conf             8679999999987646688869998999998899999999998626995799529998-77-539999727448------


Q ss_pred             ECCCCCCCCCCCCCCCCCHHHHC---CCCHHHHHHHHHHHHHHHCCCCEEEECCHHH
Q ss_conf             21344442101555432102210---3588999999999999854998499827789
Q gi|254780991|r  227 SYYDYYQPEAYVPRTDTYIEKES---SINEQIDRMRHSATRSLLERNDCIVVSSVSC  280 (805)
Q Consensus       227 S~~~~yqpEay~p~~d~~i~k~~---s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSA  280 (805)
                                     |..+-.|.   .-+..++..=+..++.+.+....||+++..+
T Consensus        92 ---------------d~l~iDDi~~i~~~~~~e~~lF~l~N~~~~~~~~ilits~~~  133 (226)
T TIGR03420        92 ---------------DLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAA  133 (226)
T ss_pred             ---------------CEEEEECHHHHCCCHHHHHHHHHHHHHHHHHCCEEEEECCCC
T ss_conf             ---------------999996633343783789999999999986528289867888


No 302
>PRK04328 hypothetical protein; Provisional
Probab=92.33  E-value=0.42  Score=26.77  Aligned_cols=59  Identities=29%  Similarity=0.446  Sum_probs=42.3

Q ss_pred             HHHHHH-HHHCCCCEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHHHHHHHHHHCC
Q ss_conf             999999-88739733799863376469999999997---199789993163468999999998678
Q gi|254780991|r  157 IAQLLK-GIHSREKVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQLYSEFKNFFP  218 (805)
Q Consensus       157 i~~L~~-~l~~g~~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~QL~~rfk~~Fp  218 (805)
                      ++++.. |+..| ...|+.|-+|||||-.-+|.+.+   .|.++|+++=|-+ ..|++..+++ ||
T Consensus        13 LD~lL~GGlp~g-s~~Lv~G~pGtGKT~la~qFl~~g~~~GE~~lyis~eE~-~~~l~~~~~~-~G   75 (250)
T PRK04328         13 MDEILYGGIPER-NVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALEEH-PVQVRRNMAQ-FG   75 (250)
T ss_pred             HHHHCCCCCCCC-EEEEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEEEECC-HHHHHHHHHH-CC
T ss_conf             787515998799-699998289999899999999999876997799997279-9999999998-09


No 303
>PRK06762 hypothetical protein; Provisional
Probab=92.30  E-value=0.83  Score=24.57  Aligned_cols=31  Identities=26%  Similarity=0.470  Sum_probs=25.4

Q ss_pred             EEEEEEECCCCHHHHHHHHHHHCCCCEEEEE
Q ss_conf             3799863376469999999997199789993
Q gi|254780991|r  170 VQLLLGVTGSGKTFTMAKVIEAMQRPAIVMA  200 (805)
Q Consensus       170 ~qlL~GVTGSGKTevya~lI~~~gr~aLvLv  200 (805)
                      -.+|-|=.|||||-+-.++-++.|+.++++.
T Consensus         4 LIiiRGNSgSGKtT~Ak~L~~~~G~g~lLvs   34 (166)
T PRK06762          4 LIIIRGNSGSGKTTIAKQLQERLGRGTLLVS   34 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCCCEEEE
T ss_conf             8999788888878999999998688857853


No 304
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=92.28  E-value=0.16  Score=29.96  Aligned_cols=70  Identities=21%  Similarity=0.221  Sum_probs=41.9

Q ss_pred             CHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH----CC---CCEEEEECCHHHHHHHHHHHHHHCCCCE---
Q ss_conf             4389999999988739733799863376469999999997----19---9789993163468999999998678983---
Q gi|254780991|r  152 DQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA----MQ---RPAIVMAPNKILAAQLYSEFKNFFPHNA---  221 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~----~g---r~aLvLvPei~La~QL~~rfk~~Fp~n~---  221 (805)
                      .|.+|+.       ....+.++...-|||||.|+.+=|+.    .|   ...|+|+=.-.-|..|-+|+...++.+.   
T Consensus        13 ~Q~~AV~-------~~~g~~lV~AGaGSGKT~vL~~Ria~Li~~~gv~p~~ILalTFTnkAA~Emk~Rl~~~l~~~~~~~   85 (722)
T PRK11773         13 KQREAVA-------APLGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSILAVTFTNKAAAEMRHRIEQLLGTSQGGM   85 (722)
T ss_pred             HHHHHHC-------CCCCCEEEEECCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC
T ss_conf             9999980-------999987999738715999999999999982999878828984589999999999998717777888


Q ss_pred             -EEEEEEC
Q ss_conf             -8998621
Q gi|254780991|r  222 -VEYFVSY  228 (805)
Q Consensus       222 -V~~f~S~  228 (805)
                       |.-|||.
T Consensus        86 ~i~TfHSf   93 (722)
T PRK11773         86 WVGTFHGL   93 (722)
T ss_pred             EEEEHHHH
T ss_conf             89729999


No 305
>pfam00448 SRP54 SRP54-type protein, GTPase domain. This family includes relatives of the G-domain of the SRP54 family of proteins.
Probab=92.25  E-value=0.87  Score=24.40  Aligned_cols=33  Identities=39%  Similarity=0.638  Sum_probs=23.9

Q ss_pred             EEEEEEECCCCHHHHHHHHHHHC---CCCEEEEECC
Q ss_conf             37998633764699999999971---9978999316
Q gi|254780991|r  170 VQLLLGVTGSGKTFTMAKVIEAM---QRPAIVMAPN  202 (805)
Q Consensus       170 ~qlL~GVTGSGKTevya~lI~~~---gr~aLvLvPe  202 (805)
                      ..+|-|.||+|||=+.|++.+..   |+.+.+++=.
T Consensus         3 vi~lvGptGvGKTTTiaKLAa~~~~~~~~V~lit~D   38 (196)
T pfam00448         3 VILLVGLQGSGKTTTIAKLAAYLKKQGKKVLLVAAD   38 (196)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECC
T ss_conf             999989999988999999999999779928999758


No 306
>PRK07667 uridine kinase; Provisional
Probab=92.22  E-value=0.53  Score=26.03  Aligned_cols=35  Identities=26%  Similarity=0.328  Sum_probs=24.3

Q ss_pred             EEEECCCCHHHHHHHHHHHC---CCCEEEEECCHHHHH
Q ss_conf             98633764699999999971---997899931634689
Q gi|254780991|r  173 LLGVTGSGKTFTMAKVIEAM---QRPAIVMAPNKILAA  207 (805)
Q Consensus       173 L~GVTGSGKTevya~lI~~~---gr~aLvLvPei~La~  207 (805)
                      +-|.||||||-+-.++.+++   |.+++++--.-...+
T Consensus        19 IaG~sgSGKTTla~~L~~~l~~~~~~v~v~~~Dd~~~~   56 (190)
T PRK07667         19 IDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDDHIVE   56 (190)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCCC
T ss_conf             77989788999999999998665983799966624265


No 307
>pfam08423 Rad51 Rad51. Rad51 is a DNA repair and recombination protein and is a homologue of the bacterial ATPase RecA protein.
Probab=92.19  E-value=0.64  Score=25.40  Aligned_cols=36  Identities=22%  Similarity=0.329  Sum_probs=24.2

Q ss_pred             HHHHHHHH-HHHCCCCEEEEEEECCCCHHHHHHHHHHH
Q ss_conf             99999999-88739733799863376469999999997
Q gi|254780991|r  155 AAIAQLLK-GIHSREKVQLLLGVTGSGKTFTMAKVIEA  191 (805)
Q Consensus       155 ~Ai~~L~~-~l~~g~~~qlL~GVTGSGKTevya~lI~~  191 (805)
                      .+|+.|.. |+..| .-.=++|.-|||||-+-+++.-.
T Consensus        30 ~~LD~lLgGGi~~g-~ITEi~G~~gsGKTQlc~qlav~   66 (261)
T pfam08423        30 KELDKLLGGGIETG-SITEVFGEFRTGKTQLCHTLCVT   66 (261)
T ss_pred             HHHHHHHCCCCCCC-EEEEEECCCCCCHHHHHHHHHHH
T ss_conf             78998737986677-29999899888789999999999


No 308
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB; InterPro: IPR013374    This model describes a protein involved in type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly, and is closely related to GspE (IPR013369 from INTERPRO) of type II secretion systems (also referred to as the main terminal branch of the general secretion pathway). Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.; GO: 0005524 ATP binding, 0008565 protein transporter activity, 0009297 pilus biogenesis.
Probab=92.06  E-value=0.21  Score=29.01  Aligned_cols=45  Identities=29%  Similarity=0.519  Sum_probs=32.6

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCCE
Q ss_conf             88888438999999998873973379986337646999999999719978
Q gi|254780991|r  147 YHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRPA  196 (805)
Q Consensus       147 ~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~a  196 (805)
                      |+|     ..-+.+.+.|.+=+.-.|..|=||||||.+.=...-.++++.
T Consensus       310 FeP-----~Qk~~fL~Ai~kPqGMvLVTGPTGSGKTVSLYTaLniLN~~~  354 (577)
T TIGR02538       310 FEP-----DQKALFLEAIHKPQGMVLVTGPTGSGKTVSLYTALNILNTEE  354 (577)
T ss_pred             CCH-----HHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHCCCCCCC
T ss_conf             888-----899999999707997288626659841687876311257767


No 309
>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=91.96  E-value=0.94  Score=24.17  Aligned_cols=45  Identities=22%  Similarity=0.323  Sum_probs=35.7

Q ss_pred             EEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHHHHHHHHHH
Q ss_conf             799863376469999999997---1997899931634689999999986
Q gi|254780991|r  171 QLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQLYSEFKNF  216 (805)
Q Consensus       171 qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~QL~~rfk~~  216 (805)
                      .|+.|-+|||||-.-++.+.+   .|.++|+++-|.+ ..|+...++++
T Consensus         2 tLi~G~pGsGKT~~a~qfl~~~a~~ge~~lyis~eE~-~~~l~~~~~~~   49 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLEES-PEELIENAESL   49 (187)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEEECCC-HHHHHHHHHHC
T ss_conf             1587689999999999999999876997899995079-99999999983


No 310
>PRK08840 replicative DNA helicase; Provisional
Probab=91.94  E-value=0.59  Score=25.68  Aligned_cols=63  Identities=14%  Similarity=0.239  Sum_probs=50.4

Q ss_pred             HHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH----CCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             9999999988739733799863376469999999997----1997899931634689999999986789
Q gi|254780991|r  155 AAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA----MQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       155 ~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~----~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      ..+..+..|+..| .-.+|-|=+|+|||-..++++..    .|+|+++..-|.+ +.|++.|+-+-...
T Consensus       205 ~~LD~~~~Gl~~G-~LiviaaRPsmGKTalalnia~n~a~~~~~~v~~fSlEMs-~~ql~~Rlls~~s~  271 (464)
T PRK08840        205 TDLNKKTAGLQGS-DLIIVAARPSMGKTTFAMNLCENAAMDQDKPVLIFSLEMP-AEQLMMRMLASLSR  271 (464)
T ss_pred             HHHHHHCCCCCCC-CEEEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEECCCCC-HHHHHHHHHHHHCC
T ss_conf             9998753698757-6799983798736899999999999965996799767799-89999999998538


No 311
>PRK07263 consensus
Probab=91.85  E-value=0.62  Score=25.52  Aligned_cols=62  Identities=13%  Similarity=0.200  Sum_probs=50.3

Q ss_pred             HHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH----CCCCEEEEECCHHHHHHHHHHHHHHCC
Q ss_conf             9999999988739733799863376469999999997----199789993163468999999998678
Q gi|254780991|r  155 AAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA----MQRPAIVMAPNKILAAQLYSEFKNFFP  218 (805)
Q Consensus       155 ~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~----~gr~aLvLvPei~La~QL~~rfk~~Fp  218 (805)
                      ..++++..|+..| .-.+|-|=+|.|||-..++++..    .|+++++..-|.+ ..|+..|+-+--.
T Consensus       191 ~~LD~~t~Gl~~G-dLiviaaRPsmGKTa~alnia~~iA~~~~~~V~~fSlEMs-~~ql~~R~la~~~  256 (453)
T PRK07263        191 RDLDKITTGLHPD-QLIILAARPAVGKTAFVLNIAQNVGTKQKKTVAIFSLEMG-AESLVDRMLAAEG  256 (453)
T ss_pred             HHHHHHHCCCCCC-CEEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEEECCCC-HHHHHHHHHHHHC
T ss_conf             8799773289978-6899972788847899999999999855982899924699-8999999999861


No 312
>PHA00350 putative assembly protein
Probab=91.85  E-value=0.13  Score=30.72  Aligned_cols=53  Identities=25%  Similarity=0.336  Sum_probs=33.5

Q ss_pred             EEEEEEECCCCHHH--HHHHHHHH--CCCCEEEEECCHHHHHHHHHHHHHHCCC---CEEEEEEE
Q ss_conf             37998633764699--99999997--1997899931634689999999986789---83899862
Q gi|254780991|r  170 VQLLLGVTGSGKTF--TMAKVIEA--MQRPAIVMAPNKILAAQLYSEFKNFFPH---NAVEYFVS  227 (805)
Q Consensus       170 ~qlL~GVTGSGKTe--vya~lI~~--~gr~aLvLvPei~La~QL~~rfk~~Fp~---n~V~~f~S  227 (805)
                      -.+++|.-|||||.  |+.+++..  .||.++-=+|.  |   -++.|..+||+   .+-.++++
T Consensus         3 I~~~~G~pGSyKS~~av~~~ilPALk~GR~ViTNi~g--l---~le~i~k~~~~~p~~~~liri~   62 (402)
T PHA00350          3 IYAIVGRPGSYKSYEAVVYHIIPALKDGRKVITNIPG--L---NLDVFEKVFGEFPDTAELIRIV   62 (402)
T ss_pred             EEEEECCCCCCCCEEEEHHHHHHHHHCCCEEEECCCC--C---CHHHHHHHCCCCCCCHHEEEEE
T ss_conf             7998259999766011086768898569989977899--8---8899998717883603227874


No 313
>TIGR02773 addB_Gpos ATP-dependent nuclease subunit B; InterPro: IPR014140   DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RexAB) in others. AddA is conserved between the firmicutes and the alphaproteobacteria, while its partner protein (RexB) is not. This entry describes the ATP-dependent nuclease subunit B (AddB/RexB) protein as found Bacillus subtilis and related species. Although the RexB protein of Streptococcus and Lactococcus is considered to be orthologous and functionally equivalent, merely named differently, all members of this protein family have a P-loop nucleotide binding motif GxxGxGK[ST] at the N-terminus, unlike RexB proteins, and a CxxCxxxxxC motif at the C-terminus, both of which may be relevant to function..
Probab=91.84  E-value=0.25  Score=28.45  Aligned_cols=47  Identities=21%  Similarity=0.491  Sum_probs=37.9

Q ss_pred             EEEEEEECCCCHHHHHHHHHHH------CCCCEEEEECCHHHHHHHHHHHHHHC
Q ss_conf             3799863376469999999997------19978999316346899999999867
Q gi|254780991|r  170 VQLLLGVTGSGKTFTMAKVIEA------MQRPAIVMAPNKILAAQLYSEFKNFF  217 (805)
Q Consensus       170 ~qlL~GVTGSGKTevya~lI~~------~gr~aLvLvPei~La~QL~~rfk~~F  217 (805)
                      -+.+.|=.|||||.++++=|++      .|+|-++|||+. -|=|+-..|-+-=
T Consensus         3 l~~i~GRaGtGKs~~~i~~Ik~ki~~~p~g~~iillVPdQ-~TFq~E~~l~~~~   55 (1192)
T TIGR02773         3 LRFIYGRAGTGKSTFIIDEIKQKIKENPLGKPIILLVPDQ-MTFQMEKALLNDI   55 (1192)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHCCCCCCCEEEECCCC-CHHHHHHHHHCCC
T ss_conf             1799832687545788899999971078989537876885-2489999981677


No 314
>PRK08694 consensus
Probab=91.84  E-value=0.68  Score=25.24  Aligned_cols=63  Identities=17%  Similarity=0.194  Sum_probs=49.7

Q ss_pred             HHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC---C-CCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             99999999887397337998633764699999999971---9-97899931634689999999986789
Q gi|254780991|r  155 AAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM---Q-RPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       155 ~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~---g-r~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      ..+..+..|+..| .-.++-|=+|.|||-..++++...   + +++++..-|.+ ..|++.|+-+-.+.
T Consensus       206 ~~LD~~t~Gl~~G-~LiVIaaRPsmGKTalalnia~~~a~~~~~~V~~fSLEMs-~~~l~~Rlla~~s~  272 (468)
T PRK08694        206 IDLDKKTSGLQPG-DLIIVAGRPSMGKTAFSINIAEHVAVEGKLPVAVFSMEMG-GAQLVMRMLGSVGR  272 (468)
T ss_pred             HHHHHHHCCCCCC-CEEEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEECCCCC-HHHHHHHHHHHHCC
T ss_conf             8898764488878-4799961786537899999999999847984799778899-99999999997259


No 315
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family; InterPro: IPR006001    This family of proteins includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases (IPR000577 from INTERPRO).; GO: 0016301 kinase activity, 0005975 carbohydrate metabolic process.
Probab=91.71  E-value=0.13  Score=30.71  Aligned_cols=22  Identities=32%  Similarity=0.569  Sum_probs=15.8

Q ss_pred             EEEEEECCCCHHHHHHHHHHHC
Q ss_conf             7998633764699999999971
Q gi|254780991|r  171 QLLLGVTGSGKTFTMAKVIEAM  192 (805)
Q Consensus       171 qlL~GVTGSGKTevya~lI~~~  192 (805)
                      .+|-||.|||||-|=..|+++.
T Consensus         1 ~VlmGvaG~GKs~~a~~l~~~l   22 (175)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (175)
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
T ss_conf             9676027862889999999985


No 316
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=91.70  E-value=1  Score=23.97  Aligned_cols=143  Identities=17%  Similarity=0.155  Sum_probs=81.0

Q ss_pred             CCCHHHHHHHHHHHHHC-CCCEEEEEEECCCCHHHHHHHHHH---HCCC--CEEEEECCH-------HHHHHHHHHHHHH
Q ss_conf             88438999999998873-973379986337646999999999---7199--789993163-------4689999999986
Q gi|254780991|r  150 SGDQPAAIAQLLKGIHS-REKVQLLLGVTGSGKTFTMAKVIE---AMQR--PAIVMAPNK-------ILAAQLYSEFKNF  216 (805)
Q Consensus       150 ~gdQ~~Ai~~L~~~l~~-g~~~qlL~GVTGSGKTevya~lI~---~~gr--~aLvLvPei-------~La~QL~~rfk~~  216 (805)
                      +.....|+..-++.-.. -+.+..|+|=+|||||-.+-.+-.   +.+.  -++.+..|-       ++-..-+..||.+
T Consensus        94 ~N~~A~aa~~~va~~~g~~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~~~v~a~~~~~~~~Fk~~  173 (408)
T COG0593          94 SNRLAYAAAKAVAENPGGAYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDFVKALRDNEMEKFKEK  173 (408)
T ss_pred             CHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             44999999999875668868957998799997899999999999862998648850489989999999885048888876


Q ss_pred             CCCCEEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHHHHCCEEE
Q ss_conf             78983899862134444210155543210221035889999999999998549984998277896168983477225799
Q gi|254780991|r  217 FPHNAVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVESYSQMIVQ  296 (805)
Q Consensus       217 Fp~n~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~~lglIIv  296 (805)
                      + +-.+.++ ---.                 -.+-.+.++.+-+...++|......||+.+..      +|....++   
T Consensus       174 y-~~dlllI-DDiq-----------------~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr------~P~~l~~~---  225 (408)
T COG0593         174 Y-SLDLLLI-DDIQ-----------------FLAGKERTQEEFFHTFNALLENGKQIVLTSDR------PPKELNGL---  225 (408)
T ss_pred             H-CCCEEEE-CHHH-----------------HHCCCHHHHHHHHHHHHHHHHCCCEEEEECCC------CCHHHCCC---
T ss_conf             4-2673555-1386-----------------75677157999999999888508879997078------83221103---


Q ss_pred             EECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHH
Q ss_conf             94198111787532343117656338775453318724783178887788
Q gi|254780991|r  297 LKIGDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDV  346 (805)
Q Consensus       297 dEehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~  346 (805)
                                               ...-+..|. .|.++++-||..|+.
T Consensus       226 -------------------------~~rL~SR~~-~Gl~~~I~~Pd~e~r  249 (408)
T COG0593         226 -------------------------EDRLRSRLE-WGLVVEIEPPDDETR  249 (408)
T ss_pred             -------------------------CHHHHHHHH-CEEEEEECCCCHHHH
T ss_conf             -------------------------588998986-305775279888999


No 317
>PRK09183 transposase/IS protein; Provisional
Probab=91.63  E-value=0.68  Score=25.25  Aligned_cols=61  Identities=20%  Similarity=0.144  Sum_probs=43.4

Q ss_pred             HHHHHHHHHHH--HHCCCCEEEEEEECCCCHHHHHHHHHH---HCCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             38999999998--873973379986337646999999999---71997899931634689999999986789
Q gi|254780991|r  153 QPAAIAQLLKG--IHSREKVQLLLGVTGSGKTFTMAKVIE---AMQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       153 Q~~Ai~~L~~~--l~~g~~~qlL~GVTGSGKTevya~lI~---~~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      -...|..|..+  ++.+ ...+|.|-||.|||.+-..+--   +.|.+|++..     ++.|+.+++.-..+
T Consensus        85 ~~~~i~~La~~~fi~~~-~Nvil~G~~GtGKThLA~Alg~~A~~~G~~v~f~~-----~~~L~~~L~~a~~~  150 (258)
T PRK09183         85 PQKQLQSLRSLSFIERN-ENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTT-----AADLLLQLSTAQRQ  150 (258)
T ss_pred             CHHHHHHHHCCCHHHCC-CCEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEE-----HHHHHHHHHHHHHC
T ss_conf             38999988258166558-86799899998689999999999998799399978-----99999999999876


No 318
>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=91.60  E-value=0.23  Score=28.80  Aligned_cols=40  Identities=28%  Similarity=0.378  Sum_probs=32.9

Q ss_pred             EEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHH
Q ss_conf             379986337646999999999719978999316346899999999
Q gi|254780991|r  170 VQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFK  214 (805)
Q Consensus       170 ~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk  214 (805)
                      -.+++|-||||||..-+.+.+++|-|++.+=     .-|.|.++.
T Consensus         3 l~~I~GpT~~GKT~~ai~lA~~~g~~iis~D-----~~Q~y~el~   42 (232)
T pfam01745         3 LYLIWGATCTGKTAEAIALAKETGWPVIVLD-----RVQCCSQLA   42 (232)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCCEEEEC-----HHHHHHCCC
T ss_conf             6899788777716999999999599779620-----344300113


No 319
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=91.57  E-value=1  Score=23.87  Aligned_cols=111  Identities=13%  Similarity=0.287  Sum_probs=59.5

Q ss_pred             HHHHH-HHHHCCCCEEEEEEECCCCHHHHHHHHHH----HCCCCEEEEECCHHHHHHHHHHHHHH-------CCCCEEEE
Q ss_conf             99999-98873973379986337646999999999----71997899931634689999999986-------78983899
Q gi|254780991|r  157 IAQLL-KGIHSREKVQLLLGVTGSGKTFTMAKVIE----AMQRPAIVMAPNKILAAQLYSEFKNF-------FPHNAVEY  224 (805)
Q Consensus       157 i~~L~-~~l~~g~~~qlL~GVTGSGKTevya~lI~----~~gr~aLvLvPei~La~QL~~rfk~~-------Fp~n~V~~  224 (805)
                      +++|. -|+..| +..|+.|-.|||||-.-+|.+-    +.|.++|+++=+-+- .++++-.+++       ..+..+.+
T Consensus        13 LD~iL~GGlp~g-~~~LV~G~pGsGKTtla~QfL~~Ga~~~GE~~lyitl~E~~-~~l~~~~~~~g~~~~~~~~~~~l~i   90 (501)
T PRK09302         13 FDDITNGGLPKG-RPTLVSGTAGTGKTLFALQFLHNGIKSFGEPGVFVTFEESP-EDIIRNVASFGWDLQKLIDEGKLFI   90 (501)
T ss_pred             HHHHHCCCCCCC-CEEEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEEECCCCH-HHHHHHHHHCCCCHHHHHHCCCEEE
T ss_conf             577854898899-77999838999999999999999988559978999857999-9999999984998689732683899


Q ss_pred             EEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHC-CCCEEEECCHHHHC
Q ss_conf             86213444421015554321022103588999999999999854-99849982778961
Q gi|254780991|r  225 FVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLE-RNDCIVVSSVSCIY  282 (805)
Q Consensus       225 f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~-~~~~IVVgsrSAIf  282 (805)
                      .+..-+   ++.+.       +   .-.-+++..--.-...+.+ +.+.|||=|.++++
T Consensus        91 ~d~~~~---~~~~~-------~---~~~~dL~~l~~~I~~~v~~~~~~RvViDSlt~l~  136 (501)
T PRK09302         91 LDASPD---PSEQE-------E---AGEYDLSALIERIEYAIRKIKAKRVVIDSIEALF  136 (501)
T ss_pred             EECCCC---CCCCC-------C---CCCCCHHHHHHHHHHHHHHHCCCEEEECCHHHHH
T ss_conf             961567---43111-------3---3447689999999999997199999999978998


No 320
>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=91.50  E-value=0.57  Score=25.78  Aligned_cols=37  Identities=32%  Similarity=0.403  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCC
Q ss_conf             99999998873973379986337646999999999719
Q gi|254780991|r  156 AIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQ  193 (805)
Q Consensus       156 Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~g  193 (805)
                      ..+-|...++.+ ...+.-|-||||||-++..++....
T Consensus        14 ~~~~L~~~v~~~-~nIlIsG~tGSGKTTll~al~~~i~   50 (186)
T cd01130          14 QAAYLWLAVEAR-KNILISGGTGSGKTTLLNALLAFIP   50 (186)
T ss_pred             HHHHHHHHHHCC-CCEEEECCCCCCHHHHHHHHHHHCC
T ss_conf             999999999859-9899989999989999999996133


No 321
>PRK08903 hypothetical protein; Validated
Probab=91.49  E-value=0.89  Score=24.35  Aligned_cols=53  Identities=17%  Similarity=0.332  Sum_probs=35.1

Q ss_pred             CCHHHHHHHHHHHHH--CCCCEEEEEEECCCCHHHHHHHHHH---HCCCCEEEEECCH
Q ss_conf             843899999999887--3973379986337646999999999---7199789993163
Q gi|254780991|r  151 GDQPAAIAQLLKGIH--SREKVQLLLGVTGSGKTFTMAKVIE---AMQRPAIVMAPNK  203 (805)
Q Consensus       151 gdQ~~Ai~~L~~~l~--~g~~~qlL~GVTGSGKTevya~lI~---~~gr~aLvLvPei  203 (805)
                      |.=..|+..+.+-..  .+.....|||-+|||||-..-.+..   +.++.+.++..+.
T Consensus        23 g~n~~~~~~l~~~~~~~~~~~~l~i~G~~G~GKTHLl~a~~~~~~~~~~~~~yl~~~~   80 (227)
T PRK08903         23 GENAELVTRLRELAAGPVADRFFYLWGEAGSGRSHLLQALVAAASEGGKNARYLDPAS   80 (227)
T ss_pred             CCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECCCC
T ss_conf             7759999999988743887866999899999888999999999980699749965110


No 322
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.45  E-value=0.51  Score=26.18  Aligned_cols=110  Identities=18%  Similarity=0.273  Sum_probs=61.4

Q ss_pred             HHHHHHHHHHHHHCCC--CEEEEEEECCCCHHHHHHHHHHHC-CCCEEEEECCHHHHHHHH---HHHHHHCCCCEEEEEE
Q ss_conf             3899999999887397--337998633764699999999971-997899931634689999---9999867898389986
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE--KVQLLLGVTGSGKTFTMAKVIEAM-QRPAIVMAPNKILAAQLY---SEFKNFFPHNAVEYFV  226 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~--~~qlL~GVTGSGKTevya~lI~~~-gr~aLvLvPei~La~QL~---~rfk~~Fp~n~V~~f~  226 (805)
                      |.-..+.|..+|+.|.  +..|+.|.-|.|||- .|+++++. +-.-  -..|.+.+..=.   .-+++...++-|    
T Consensus        21 Q~~v~~~l~na~~~~r~~haylf~G~rGvGKTt-~ari~Ak~lnc~~--~~~~~g~~~~pcg~C~~C~~i~~g~~~----   93 (721)
T PRK12323         21 QEHVVRALTHALEQQRLHHAYLFTGTRGVGKTT-LSRILAKSLNCTG--PDGEGGITAQPCGQCRACTEIDAGRFV----   93 (721)
T ss_pred             CHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHH-HHHHHHHHHCCCC--CCCCCCCCCCCCCCCHHHHHHHCCCCC----
T ss_conf             599999999999719975447502799888989-9999999976899--866789878878776546877568987----


Q ss_pred             ECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHH-HHCCEEEEECCCCC
Q ss_conf             213444421015554321022103588999999999999854998499827789616898347-72257999419811
Q gi|254780991|r  227 SYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVES-YSQMIVQLKIGDSV  303 (805)
Q Consensus       227 S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~-~lglIIvdEehd~~  303 (805)
                                      -+||-|++.|..+|..|     .|++.          +-|   .|.. ..+..|+||+|.-+
T Consensus        94 ----------------d~~EiDaas~~~v~~~r-----~l~~~----------~~y---~P~~~~~KvyiiDevhmls  137 (721)
T PRK12323         94 ----------------DYIEMDAASNRGVDEMA-----QLLDQ----------AVY---APTAGRFKVYMIDEVHMLT  137 (721)
T ss_pred             ----------------CEEEEECCCCCCHHHHH-----HHHHH----------CCC---CCCCCCEEEEEEECCCCCC
T ss_conf             ----------------64774367678889999-----99985----------455---8876644699985400058


No 323
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=91.40  E-value=0.23  Score=28.73  Aligned_cols=39  Identities=21%  Similarity=0.306  Sum_probs=26.1

Q ss_pred             HHHHHHHHHHHHHC-CCCEEEEEEECCCCHHHHHHHHHHH
Q ss_conf             38999999998873-9733799863376469999999997
Q gi|254780991|r  153 QPAAIAQLLKGIHS-REKVQLLLGVTGSGKTFTMAKVIEA  191 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~-g~~~qlL~GVTGSGKTevya~lI~~  191 (805)
                      -.+-|+.+.+-|.. ...--+|.|=.|-|||-+.=.+..+
T Consensus       191 R~~Ei~r~i~iL~Rr~KNNpiLvGepGVGKTAIvEGLA~r  230 (758)
T PRK11034        191 REKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWR  230 (758)
T ss_pred             CHHHHHHHHHHHHHHCCCCCEEECCCCCCHHHHHHHHHHH
T ss_conf             4899999999997632589602169998699999999999


No 324
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=91.29  E-value=0.75  Score=24.89  Aligned_cols=60  Identities=22%  Similarity=0.307  Sum_probs=43.0

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCCEEE-EECCHHHHHHHHHHH
Q ss_conf             3899999999887397337998633764699999999971997899-931634689999999
Q gi|254780991|r  153 QPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRPAIV-MAPNKILAAQLYSEF  213 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~aLv-LvPei~La~QL~~rf  213 (805)
                      +..++..+..++..| .+.+|-|.+|.|||...-.+.+.++.+... ....-.+..++....
T Consensus        29 ~~~~~~~~l~a~~~~-~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~~t~~l~p~d~~G~~   89 (329)
T COG0714          29 DEEVIELALLALLAG-GHVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTY   89 (329)
T ss_pred             CHHHHHHHHHHHHCC-CCEEEECCCCCCHHHHHHHHHHHHCCCCEEEECCCCCCHHHHCCHH
T ss_conf             699999999999859-9778779898777999999999838981899568998888820568


No 325
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=91.22  E-value=0.46  Score=26.48  Aligned_cols=38  Identities=26%  Similarity=0.452  Sum_probs=30.9

Q ss_pred             HHHHHHHHHHHHHCCC--CEEEEEEECCCCHHHHHHHHHHH
Q ss_conf             3899999999887397--33799863376469999999997
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE--KVQLLLGVTGSGKTFTMAKVIEA  191 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~--~~qlL~GVTGSGKTevya~lI~~  191 (805)
                      |...++.|..+|+.|.  +..|+.|.-|.|||- .|+++++
T Consensus        21 Q~~v~~~L~nal~~~rl~haylf~G~rGvGKTt-~Ari~Ak   60 (704)
T PRK08691         21 QEHVVKALQNALDEGRLHHAYLLTGTRGVGKTT-IARILAK   60 (704)
T ss_pred             CHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHH-HHHHHHH
T ss_conf             699999999999819975237502789878889-9999999


No 326
>PRK06526 transposase; Provisional
Probab=91.19  E-value=1.1  Score=23.60  Aligned_cols=61  Identities=20%  Similarity=0.187  Sum_probs=43.6

Q ss_pred             HHHHHHHHHHH--HHCCCCEEEEEEECCCCHHHHHHHHHH---HCCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             38999999998--873973379986337646999999999---71997899931634689999999986789
Q gi|254780991|r  153 QPAAIAQLLKG--IHSREKVQLLLGVTGSGKTFTMAKVIE---AMQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       153 Q~~Ai~~L~~~--l~~g~~~qlL~GVTGSGKTevya~lI~---~~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      -+..|.+|..+  ++++ ...++.|-||+|||.+-..+.-   +.|.+|++.     -+++|+.+|..-..+
T Consensus        82 ~~~~i~~La~~~fi~~~-~Nvil~G~~GtGKThLA~Alg~~A~~~G~~v~f~-----~~~~L~~~L~~a~~~  147 (254)
T PRK06526         82 KRDTIAHLGTLDFVTGK-ENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFA-----TAAQWVARLAAAHHA  147 (254)
T ss_pred             CHHHHHHHHCCCHHHCC-CCEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEE-----EHHHHHHHHHHHHHC
T ss_conf             99999998637177658-8789989999868999999999999869967998-----779999999998855


No 327
>PRK08506 replicative DNA helicase; Provisional
Probab=91.17  E-value=0.82  Score=24.60  Aligned_cols=63  Identities=13%  Similarity=0.148  Sum_probs=51.6

Q ss_pred             HHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             9999999988739733799863376469999999997---1997899931634689999999986789
Q gi|254780991|r  155 AAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       155 ~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      ..+..+..|+..| .-.+|-|=+|.|||-..++++..   .|++|++..-|.+ +.||..|+-+-...
T Consensus       181 ~~LD~~t~Gl~~g-dLiIIAARPsmGKTAfAlniA~~~a~~~~~V~~FSLEMs-~~ql~~Rlls~~s~  246 (473)
T PRK08506        181 KQLNKMTKGFNKG-DLIIIAARPSMGKTTLVLNMVLKALNQGKGVAFFSLEMP-AEQLMLRMLSAKTS  246 (473)
T ss_pred             HHHHHHHCCCCCC-CEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCC-HHHHHHHHHHHHCC
T ss_conf             8788872699856-279995079986789999999999965996589822479-99999999997288


No 328
>TIGR00064 ftsY signal recognition particle-docking protein FtsY; InterPro: IPR004390   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 includes the cell division ABC transporter and the periplasmic substrate-binding protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In Escherichia coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.; GO: 0005525 GTP binding.
Probab=91.10  E-value=0.24  Score=28.58  Aligned_cols=75  Identities=21%  Similarity=0.262  Sum_probs=44.4

Q ss_pred             EEECCCCCCCHHHHHHH--HHHHHHCCCCEE-EEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHH---HHHHHH
Q ss_conf             75188888843899999--999887397337-99863376469999999997---1997899931634689---999999
Q gi|254780991|r  143 MQTDYHPSGDQPAAIAQ--LLKGIHSREKVQ-LLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAA---QLYSEF  213 (805)
Q Consensus       143 l~~~~~P~gdQ~~Ai~~--L~~~l~~g~~~q-lL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~---QL~~rf  213 (805)
                      |.+.+.+.-++..-+.-  .....+.+.... |+-||-|+|||=+.+.+...   .|+.+|+=+=.-.=|+   || +..
T Consensus        54 l~~~~~~~~~~~~~~~~~~~~~~~~~~kp~Vil~VGVNG~GKTTTIaKLA~~l~~~Gk~V~laAgDTFRAAA~EQL-~~W  132 (284)
T TIGR00064        54 LKEILKEILDKDTLLDLEQIEELPEEKKPNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDTFRAAAIEQL-EVW  132 (284)
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHCCCCCCCEEEEEEEEECCCHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHH-HHH
T ss_conf             9998741123211334433443014789779999844088601028899999987499089982752479999999-998


Q ss_pred             HHHCC
Q ss_conf             98678
Q gi|254780991|r  214 KNFFP  218 (805)
Q Consensus       214 k~~Fp  218 (805)
                      -+|.+
T Consensus       133 a~R~g  137 (284)
T TIGR00064       133 AKRLG  137 (284)
T ss_pred             HHHHC
T ss_conf             98838


No 329
>PTZ00301 uridine kinase; Provisional
Probab=91.05  E-value=1.2  Score=23.51  Aligned_cols=75  Identities=21%  Similarity=0.387  Sum_probs=34.2

Q ss_pred             EEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCC-CHHHH--C
Q ss_conf             98633764699999999971997899931634689999999986789838998621344442101555432-10221--0
Q gi|254780991|r  173 LLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAYVPRTDT-YIEKE--S  249 (805)
Q Consensus       173 L~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yqpEay~p~~d~-~i~k~--~  249 (805)
                      +-|-+|||||.                     +|..+..+|...++.+.|.+ +|--+||.+..-+|..+. ++..|  .
T Consensus         8 IaGgSgSGKTT---------------------~a~~i~~~l~~~~~~~~v~i-i~~D~Yy~d~~~~~~~~~~~~NfDhP~   65 (210)
T PTZ00301          8 ISGASGSGKSS---------------------LSTNIVSELMAHCGPVSIGV-ICEDFYYRDQSNIPESERAYTNYDHPK   65 (210)
T ss_pred             EECCCCCCHHH---------------------HHHHHHHHHHHHCCCCCEEE-EECCCCCCCCCCCCHHHCCCCCCCCCC
T ss_conf             96887678999---------------------99999999876149980799-836766778765886562788999823


Q ss_pred             CCCHHHHHHHHHHHHHHHCCCCE
Q ss_conf             35889999999999998549984
Q gi|254780991|r  250 SINEQIDRMRHSATRSLLERNDC  272 (805)
Q Consensus       250 s~n~~i~~~R~~a~~~l~~~~~~  272 (805)
                      +++  ++.+ .+....|.+|+.+
T Consensus        66 a~D--~dLl-~~~L~~Lk~Gk~I   85 (210)
T PTZ00301         66 SLE--HDLL-TTHLRELKSGKTV   85 (210)
T ss_pred             CCC--HHHH-HHHHHHHHCCCCE
T ss_conf             036--9999-9999999769963


No 330
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=91.00  E-value=1  Score=23.93  Aligned_cols=59  Identities=12%  Similarity=0.160  Sum_probs=41.8

Q ss_pred             HHHHHHHCCCCEEEEEEECCCCHHHHHHHHHH---HCCCCEEEEECCHHHHHHHHHHHHHHCCCC
Q ss_conf             99998873973379986337646999999999---719978999316346899999999867898
Q gi|254780991|r  159 QLLKGIHSREKVQLLLGVTGSGKTFTMAKVIE---AMQRPAIVMAPNKILAAQLYSEFKNFFPHN  220 (805)
Q Consensus       159 ~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~---~~gr~aLvLvPei~La~QL~~rfk~~Fp~n  220 (805)
                      .|--|+..| .-.++.|-.|||||-.-++.+-   +.|.++++++-|-+ +.+.+...++ |+-+
T Consensus        16 ~lggGip~g-s~~li~G~~GtGKsi~~~~~~~~~l~~g~~~~yis~e~t-~~~~i~qm~s-~g~d   77 (230)
T PRK08533         16 RLGGGIPFG-SIILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSSQLT-TTEFIKQMMS-LGYD   77 (230)
T ss_pred             HHCCCCCCC-CEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEECCC-HHHHHHHHHH-CCCC
T ss_conf             717898898-489998689987899999999999878986999994389-9999999998-6998


No 331
>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=90.97  E-value=1.2  Score=23.46  Aligned_cols=114  Identities=16%  Similarity=0.169  Sum_probs=77.3

Q ss_pred             HHHCCCCEEEEEEECCCCHHHHHHHHHH---HCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCC
Q ss_conf             8873973379986337646999999999---7199789993163468999999998678983899862134444210155
Q gi|254780991|r  163 GIHSREKVQLLLGVTGSGKTFTMAKVIE---AMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAYVP  239 (805)
Q Consensus       163 ~l~~g~~~qlL~GVTGSGKTevya~lI~---~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yqpEay~p  239 (805)
                      |++.| =-.=+||=-|||||-+-+.+.-   +.||.|+++=-|=+|-+   +||++.+.+++.                 
T Consensus         8 GvE~G-~iTQiYGp~G~GKTn~c~~~a~~a~~~Gk~v~YiDTEGGLS~---ER~~q~~~~~~~-----------------   66 (223)
T TIGR02237         8 GVERG-IITQIYGPPGSGKTNICLILAVNAARQGKKVVYIDTEGGLSP---ERFKQIAEDRAL-----------------   66 (223)
T ss_pred             CCCCC-EEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCHH---HHHHHHHHCCCC-----------------
T ss_conf             51203-588987589986789999999999861895899962898328---999998630588-----------------


Q ss_pred             CCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHHHHCCEEEEECCCCCCHHHHHHHHHHCCCCC
Q ss_conf             54321022103588999999999999854998499827789616898347722579994198111787532343117656
Q gi|254780991|r  240 RTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVESYSQMIVQLKIGDSVEQKELLSSLVKQQYKR  319 (805)
Q Consensus       240 ~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~~lglIIvdEehd~~~~~~~~~~l~~~~Y~R  319 (805)
                                                                    .|+.-+..+|+.|.++      +..|....+-..
T Consensus        67 ----------------------------------------------D~e~~~~~~iv~~~~~------f~eQ~~ai~~~~   94 (223)
T TIGR02237        67 ----------------------------------------------DPERVLSNVIVFEVFD------FDEQEVAIQKTS   94 (223)
T ss_pred             ----------------------------------------------CHHHHHCCEEEECCCC------HHHHHHHHHHHH
T ss_conf             ----------------------------------------------9888841535523535------678999999999


Q ss_pred             CHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCC
Q ss_conf             3387754533187247831788877888731044420
Q gi|254780991|r  320 QDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGND  356 (805)
Q Consensus       320 ~D~a~~RG~f~~rg~ILdsatps~Es~~~Rie~f~de  356 (805)
                       +++-..| -+.--+||||+|.     .+|.+.-+|.
T Consensus        95 -~~~~~~G-~~~~LvVvDs~t~-----~YRle~~~d~  124 (223)
T TIGR02237        95 -KLIDRDG-DKADLVVVDSFTA-----LYRLERSDDR  124 (223)
T ss_pred             -HHHHCCC-CEEEEEEEECCHH-----HHHHCCCCCC
T ss_conf             -9986068-8331488815334-----5420257860


No 332
>PRK08760 replicative DNA helicase; Provisional
Probab=90.87  E-value=1  Score=23.85  Aligned_cols=63  Identities=16%  Similarity=0.154  Sum_probs=49.5

Q ss_pred             HHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH----CCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             9999999988739733799863376469999999997----1997899931634689999999986789
Q gi|254780991|r  155 AAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA----MQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       155 ~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~----~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      ..+..+..|+..| .-.+|-|=+|.|||-..++++..    .++++++..-|.+ ..|+..|+-+--..
T Consensus       217 ~~LD~~t~Gl~~G-~LiViaaRPsmGKTalalnia~~~A~~~~~~V~~fSLEMs-~~ql~~Rlls~~s~  283 (476)
T PRK08760        217 NDFDAMTAGLQPT-DLIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSMEMS-ASQLAMRLISSNGR  283 (476)
T ss_pred             HHHHHHHCCCCCC-CEEEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEEECCCC-HHHHHHHHHHHHCC
T ss_conf             8899744699877-7799987788747899999999999837997899703699-99999999998338


No 333
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=90.82  E-value=0.59  Score=25.66  Aligned_cols=110  Identities=16%  Similarity=0.251  Sum_probs=61.1

Q ss_pred             HHHHHHHHHHHHHCCC--CEEEEEEECCCCHHHHHHHHHHH-CCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECC
Q ss_conf             3899999999887397--33799863376469999999997-19978999316346899999999867898389986213
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE--KVQLLLGVTGSGKTFTMAKVIEA-MQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYY  229 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~--~~qlL~GVTGSGKTevya~lI~~-~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~  229 (805)
                      |....+.|...|.+|.  +..|+.|.-|+|||-+ +.++++ ++-.-   -|+..- --....++....++         
T Consensus        20 Qe~v~~~L~~Ai~~gri~HAYLFsGprG~GKTt~-ARilAkaLNC~~---~~~~~P-Cg~C~sC~~i~~g~---------   85 (775)
T PRK07764         20 QEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSS-ARILARSLNCAQ---GPTSTP-CGVCDSCVALAPGG---------   85 (775)
T ss_pred             CHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHH-HHHHHHHHCCCC---CCCCCC-CCCCHHHHHHHCCC---------
T ss_conf             5999999999998199763376237888788899-999999966899---999898-88876378886389---------


Q ss_pred             CCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHH-HHCCEEEEECCCCC
Q ss_conf             444421015554321022103588999999999999854998499827789616898347-72257999419811
Q gi|254780991|r  230 DYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVES-YSQMIVQLKIGDSV  303 (805)
Q Consensus       230 ~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~-~lglIIvdEehd~~  303 (805)
                               +.+--+||-|+..|.-+|..|     .|.+          .+-|   .|.. ..+..|+||.|.-+
T Consensus        86 ---------~~~~DviEiDAAS~~gVddiR-----eL~e----------~~~y---~P~~~ryKVyIIDEaHmls  133 (775)
T PRK07764         86 ---------PGSLDVVEIDAASHGGVDDAR-----ELRE----------RAFF---APAQSRYRIFIIDEAHMVT  133 (775)
T ss_pred             ---------CCCCCEEEECCCCCCCHHHHH-----HHHH----------HCCC---CCCCCCEEEEEEECHHHHC
T ss_conf             ---------888866873156556889999-----9998----------5476---8767863599985354407


No 334
>PRK05595 replicative DNA helicase; Provisional
Probab=90.77  E-value=1.2  Score=23.42  Aligned_cols=63  Identities=13%  Similarity=0.113  Sum_probs=50.1

Q ss_pred             HHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH----CCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             9999999988739733799863376469999999997----1997899931634689999999986789
Q gi|254780991|r  155 AAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA----MQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       155 ~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~----~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      ..+.++..|+..| .-.++-|=+|.|||-..++++..    .|++|++..-|.+ ..|+..|+-+....
T Consensus       189 ~~LD~~t~Gl~~G-dLiiiaaRP~mGKTa~alnia~~~a~~~g~~V~~fSlEMs-~~ql~~R~ls~~s~  255 (444)
T PRK05595        189 RELDAKTSGFQKG-DMILIAARPSMGKTTFALNIAEYAALREGKSVVIFSLEMS-KEQLAYKLLCSEAN  255 (444)
T ss_pred             HHHHHHHCCCCCC-CEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCC-HHHHHHHHHHHHCC
T ss_conf             7699874599857-7799985798980799999999999866993799958899-99999999996469


No 335
>PRK07004 replicative DNA helicase; Provisional
Probab=90.73  E-value=0.99  Score=24.00  Aligned_cols=63  Identities=17%  Similarity=0.222  Sum_probs=49.9

Q ss_pred             HHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHH----HCCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             999999998873973379986337646999999999----71997899931634689999999986789
Q gi|254780991|r  155 AAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIE----AMQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       155 ~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~----~~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      ..++.+..|+..| .-.+|-|=+|.|||-..++++.    +.|+|+++..-|.+ +.||+.|+-+--..
T Consensus       201 ~~LD~~t~Gl~~g-dLiIIAARPsmGKTafAlniA~n~A~~~g~~V~~FSLEMs-~eql~~Rlls~~s~  267 (460)
T PRK07004        201 VDLDRMTSGMHGG-ELIIVAGRPSMGKTAFSMNIGEYVAVEYGLPVAVFSMEMP-GTQLAMRMLGSVGR  267 (460)
T ss_pred             HHHHHHHCCCCCC-CEEEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEECCCCC-HHHHHHHHHHHCCC
T ss_conf             8898652389877-5799973687642699999999998725886699847799-99999999986069


No 336
>PRK08770 DNA polymerase III subunits gamma and tau; Validated
Probab=90.68  E-value=0.6  Score=25.63  Aligned_cols=106  Identities=17%  Similarity=0.225  Sum_probs=60.0

Q ss_pred             HHHHHHHHHHHHHCCC-CE-EEEEEECCCCHHHHHHHHHHHC-CCCEEE-EECCHHHHHHHHHHH-HHHCCCCEEEEEEE
Q ss_conf             3899999999887397-33-7998633764699999999971-997899-931634689999999-98678983899862
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE-KV-QLLLGVTGSGKTFTMAKVIEAM-QRPAIV-MAPNKILAAQLYSEF-KNFFPHNAVEYFVS  227 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~-~~-qlL~GVTGSGKTevya~lI~~~-gr~aLv-LvPei~La~QL~~rf-k~~Fp~n~V~~f~S  227 (805)
                      |.-..+.|..+|+.|. ++ .|+.|.-|.||| +.++++++. +-..-+ -.|=-.  -....++ ..+|.|        
T Consensus        21 q~~~~~~l~~~~~~~~~~~a~lf~g~rg~gkt-~~ar~~a~~lnc~~~~~~~pc~~--c~~c~~i~~~~~~d--------   89 (663)
T PRK08770         21 QEHVVRALSNALDSGRVHHAFLFTGTRGVGKT-TIARIFAKSLNCETGTSADPCGQ--CPACLDIDAGRYID--------   89 (663)
T ss_pred             CHHHHHHHHHHHHCCCCCEEEEEECCCCCCHH-HHHHHHHHHHCCCCCCCCCCCCC--CHHHHHHHCCCCCC--------
T ss_conf             59999999999970997404762279988888-99999999867899999997877--87789885489886--------


Q ss_pred             CCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHH-HHCCEEEEECCCCC
Q ss_conf             13444421015554321022103588999999999999854998499827789616898347-72257999419811
Q gi|254780991|r  228 YYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVES-YSQMIVQLKIGDSV  303 (805)
Q Consensus       228 ~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~-~lglIIvdEehd~~  303 (805)
                                      +||-|++.|-.+|-.|     .|++.          +-|   +|.. .-+.-|+||+|.-+
T Consensus        90 ----------------~~e~daas~~~v~~~r-----~~~~~----------~~~---~p~~~~~kvy~idevhmls  132 (663)
T PRK08770         90 ----------------LLEIDAASNTGVDDVR-----EVIEN----------AQY---MPSRGKFKVYLIDEVHMLS  132 (663)
T ss_pred             ----------------EEEEECCCCCCHHHHH-----HHHHH----------CCC---CCCCCCEEEEEEECHHHCC
T ss_conf             ----------------5886467658889999-----99984----------435---8877743699970043328


No 337
>PRK04195 replication factor C large subunit; Provisional
Probab=90.66  E-value=1.1  Score=23.59  Aligned_cols=43  Identities=28%  Similarity=0.241  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHHHH---CCC---CEEEEEEECCCCHHHHHHHHHHHCCCC
Q ss_conf             3899999999887---397---337998633764699999999971997
Q gi|254780991|r  153 QPAAIAQLLKGIH---SRE---KVQLLLGVTGSGKTFTMAKVIEAMQRP  195 (805)
Q Consensus       153 Q~~Ai~~L~~~l~---~g~---~~qlL~GVTGSGKTevya~lI~~~gr~  195 (805)
                      |..+++.|..=++   +|.   +..||+|-.|+|||-+.--+..+.|-.
T Consensus        19 ~~~~v~~l~~Wl~~w~~g~~~~k~lLL~GPpGvGKTT~a~~lAk~~g~~   67 (403)
T PRK04195         19 NEKAKKQLREWIESWLKGKPPKKALLLYGPPGVGKTSLAHALANDYGWE   67 (403)
T ss_pred             CHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCC
T ss_conf             8999999999999987399657469988939987999999999984998


No 338
>PRK06749 replicative DNA helicase; Provisional
Probab=90.59  E-value=1.1  Score=23.75  Aligned_cols=62  Identities=13%  Similarity=0.082  Sum_probs=49.5

Q ss_pred             HHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHHHHHHHHHHCC
Q ss_conf             9999999988739733799863376469999999997---199789993163468999999998678
Q gi|254780991|r  155 AAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQLYSEFKNFFP  218 (805)
Q Consensus       155 ~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~QL~~rfk~~Fp  218 (805)
                      ..++++..|+..| .-.++-|=+|.|||-..++++..   .|+++++..-|.+ ..|+..|+-+--.
T Consensus       174 ~~LD~lt~Gl~~g-~LiviaaRPsmGKTa~alnia~~~a~~g~~v~~fSlEMs-~~~l~~R~ls~~s  238 (428)
T PRK06749        174 TSLNKMTCGLQEG-DFVVLGARPSMGKTAFALNVGLHAAKSGAAVGLFSLEMS-SKQLLKRMASCVG  238 (428)
T ss_pred             HHHHHHHCCCCCC-CEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCC-HHHHHHHHHHHHC
T ss_conf             8898752499988-689996279897689999999999964992799837899-9999999999754


No 339
>PRK00139 murE UDP-N-acetylmuramoylalanyl-D-glutamate--2,6-diaminopimelate ligase; Provisional
Probab=90.41  E-value=0.72  Score=25.04  Aligned_cols=47  Identities=30%  Similarity=0.434  Sum_probs=31.7

Q ss_pred             CHHHHHHHHHHHHHCCCCEE-EEEEECCC-CHHH---HHHHHHHHCCCCEEE
Q ss_conf             43899999999887397337-99863376-4699---999999971997899
Q gi|254780991|r  152 DQPAAIAQLLKGIHSREKVQ-LLLGVTGS-GKTF---TMAKVIEAMQRPAIV  198 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~~~q-lL~GVTGS-GKTe---vya~lI~~~gr~aLv  198 (805)
                      |-.+|+..|...+-...... -+.||||| |||=   ..+++.+..|+++-+
T Consensus        80 d~~~al~~la~~~y~~~~~~l~vIgITGTnGKTTt~~~l~~iL~~~g~~~~~  131 (481)
T PRK00139         80 DLRRALALLAAAFYGNPSDKLKLIGVTGTNGKTTTAYLIAQILRLLGKKAAL  131 (481)
T ss_pred             CHHHHHHHHHHHHHCCCHHCCCEEEEECCCCCHHHHHHHHHHHHHCCCCCEE
T ss_conf             9999999999998708043180899958998434999999999874986314


No 340
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=90.40  E-value=1  Score=23.84  Aligned_cols=31  Identities=35%  Similarity=0.529  Sum_probs=22.9

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHHC----CCCEEEE
Q ss_conf             337998633764699999999971----9978999
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEAM----QRPAIVM  199 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~~----gr~aLvL  199 (805)
                      +...|-|=||.|||=+.|.+.++.    |+.+-++
T Consensus       224 kvi~lVGPTGVGKTTTiAKLAA~~~l~~~kkVaLI  258 (432)
T PRK12724        224 KVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLY  258 (432)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHHCCCEEEEE
T ss_conf             29999899998889999999999999749927999


No 341
>KOG0244 consensus
Probab=90.24  E-value=0.38  Score=27.11  Aligned_cols=59  Identities=22%  Similarity=0.223  Sum_probs=42.2

Q ss_pred             CCCCCCCCCCCEEEEECCCCCCCHHHHHH----HHHHHHHCCCCEE-EEEEECCCCHHHHHHHH
Q ss_conf             87421588775477518888884389999----9999887397337-99863376469999999
Q gi|254780991|r  130 SINNHSKDITFFQMQTDYHPSGDQPAAIA----QLLKGIHSREKVQ-LLLGVTGSGKTFTMAKV  188 (805)
Q Consensus       130 ~~~~~~~~~~~f~l~~~~~P~gdQ~~Ai~----~L~~~l~~g~~~q-lL~GVTGSGKTevya~l  188 (805)
                      .|.-..++-+-|.-.--|.+..+|..+.+    .|++++-.|+... +-+|-||||||.+|-..
T Consensus        23 ~pqv~ig~~~s~t~d~v~~~~~~Q~~~~e~~V~~l~~~lf~gynatvlaygQtgsgkTytmgt~   86 (913)
T KOG0244          23 TPQVAIGKDASFTYDKVFLDLESQKEVYESCVRPLREKLFAGYNATVLAYGQTGSGKTYTMGTN   86 (913)
T ss_pred             CCCEEECCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHCCEEEEECCCCCCCEEECCCC
T ss_conf             9843535775345322115734789999999999999986300011343235678731434566


No 342
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=90.19  E-value=1.4  Score=22.98  Aligned_cols=95  Identities=19%  Similarity=0.207  Sum_probs=47.7

Q ss_pred             HHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCC
Q ss_conf             99999887397337998633764699999999971997899931634689999999986789838998621344442101
Q gi|254780991|r  158 AQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAY  237 (805)
Q Consensus       158 ~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yqpEay  237 (805)
                      .-|...++.+ +..+.-|-||||||-.+-.++......-=|++=|=+.--+|     ...| |.|.++-+.-.       
T Consensus       151 ~fL~~aV~~r-~NilI~G~TgSGKTTll~aL~~~ip~~eRiitIEDt~EL~l-----~~~p-n~v~l~~~~~~-------  216 (332)
T PRK13900        151 EFLEHAVISK-KNIIISGGTSTGKTTFTNAALREIPAIERLITVEDAREIVL-----SSHP-NRVHLLASKGG-------  216 (332)
T ss_pred             HHHHHHHHCC-CCEEEECCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHCC-----CCCC-CEEEEEECCCC-------
T ss_conf             9999998648-71999888898899999999835895353566314066356-----6688-88999971688-------


Q ss_pred             CCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHH
Q ss_conf             555432102210358899999999999985499849982778
Q gi|254780991|r  238 VPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVS  279 (805)
Q Consensus       238 ~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrS  279 (805)
                              +....++-     +--.-.+|+-+.|.||||=+.
T Consensus       217 --------~g~~~vt~-----~~Ll~~aLR~rPDRIivGEvR  245 (332)
T PRK13900        217 --------QGRAKVTT-----QDLIEACLRLRPDRIIVGELR  245 (332)
T ss_pred             --------CCCCEECH-----HHHHHHHHCCCCCEEEECCCC
T ss_conf             --------88660869-----999999756899758445557


No 343
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=90.18  E-value=1.1  Score=23.54  Aligned_cols=94  Identities=19%  Similarity=0.351  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC--CCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCC
Q ss_conf             3899999999887397337998633764699999999971--99789993163468999999998678983899862134
Q gi|254780991|r  153 QPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM--QRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYD  230 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~--gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~  230 (805)
                      =|+-++.|.-   ....-.+..|.|||||.-+||..|.-.  +.+--|++=|-                 .+||-|-|  
T Consensus       115 LPevlk~la~---~kRGLviiVGaTGSGKSTtmAaMi~yRN~~s~gHIiTIED-----------------PIEfih~h--  172 (375)
T COG5008         115 LPEVLKDLAL---AKRGLVIIVGATGSGKSTTMAAMIGYRNKNSTGHIITIED-----------------PIEFIHKH--  172 (375)
T ss_pred             CCHHHHHHHC---CCCCEEEEECCCCCCCHHHHHHHHCCCCCCCCCCEEEECC-----------------HHHHHHCC--
T ss_conf             8488997520---4374599987788884016899860134688773588238-----------------19987415--


Q ss_pred             CCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHH
Q ss_conf             4442101555432102210358899999999999985499849982778
Q gi|254780991|r  231 YYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVS  279 (805)
Q Consensus       231 ~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrS  279 (805)
                               ....+...+  +.-+++.|-...-+.|....|+|+||-+-
T Consensus       173 ---------~~CIvTQRE--vGvDTesw~~AlkNtlRQaPDvI~IGEvR  210 (375)
T COG5008         173 ---------KRCIVTQRE--VGVDTESWEVALKNTLRQAPDVILIGEVR  210 (375)
T ss_pred             ---------CCEEEEEEE--ECCCHHHHHHHHHHHHHCCCCEEEEEECC
T ss_conf             ---------641587334--14461889999998775189869997304


No 344
>PRK08181 transposase; Validated
Probab=90.14  E-value=1.4  Score=22.95  Aligned_cols=66  Identities=18%  Similarity=0.174  Sum_probs=45.5

Q ss_pred             CCCCCCHHHHHHHHHHH---HHCCCCEEEEEEECCCCHHHHHHHHHH---HCCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             88888438999999998---873973379986337646999999999---71997899931634689999999986789
Q gi|254780991|r  147 YHPSGDQPAAIAQLLKG---IHSREKVQLLLGVTGSGKTFTMAKVIE---AMQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       147 ~~P~gdQ~~Ai~~L~~~---l~~g~~~qlL~GVTGSGKTevya~lI~---~~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      +.|.= ....|..|..+   ++++ ...+|.|-||+|||.+-..+--   +.|.+|++..     ++.|+.+|..--.+
T Consensus        84 ~~p~i-~~~~i~~L~~~~~fi~~~-~Nvil~Gp~GtGKThLA~Alg~~A~~~G~~V~f~~-----~~~L~~~L~~a~~~  155 (269)
T PRK08181         84 AVPMI-SKAQVMALAAGDSWLAKG-ANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTR-----TTDLVQKLQVARRE  155 (269)
T ss_pred             CCCCC-CHHHHHHHHCCCHHHHCC-CEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEE-----HHHHHHHHHHHHHC
T ss_conf             68998-999999996567588648-70899899998788999999999998799399978-----99999999997755


No 345
>PRK06696 uridine kinase; Validated
Probab=90.05  E-value=1.1  Score=23.79  Aligned_cols=59  Identities=20%  Similarity=0.276  Sum_probs=35.1

Q ss_pred             CCCHHHHHHHHHHHHHC---CCCE-EEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHH
Q ss_conf             88438999999998873---9733-799863376469999999997---19978999316346899
Q gi|254780991|r  150 SGDQPAAIAQLLKGIHS---REKV-QLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQ  208 (805)
Q Consensus       150 ~gdQ~~Ai~~L~~~l~~---g~~~-qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~Q  208 (805)
                      +.--.+-|++|++-|..   +... .=+-|.+|||||.+-.++.+.   .|++++++-=.=.+.++
T Consensus         4 ~~~r~~~~~~~~~~i~~~~p~rpl~VgIdG~~gSGKTTlA~~La~~L~~~G~~V~~v~~Ddf~~~~   69 (227)
T PRK06696          4 SMNRKQVVKEIANHILTLNLTRPLRVAIDGITASGKTTFANELAEEIKKRGRPVIRASIDDFHNPK   69 (227)
T ss_pred             CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECCCCCCCCH
T ss_conf             962878999999999835999868999778998787999999999997469948997154434737


No 346
>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=90.01  E-value=1.4  Score=22.88  Aligned_cols=97  Identities=24%  Similarity=0.268  Sum_probs=58.2

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCC
Q ss_conf             38999999998873973379986337646999999999719978999316346899999999867898389986213444
Q gi|254780991|r  153 QPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYY  232 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~y  232 (805)
                      -+.+++.|...++.+ +.-+.-|-||||||-.+..+..-.....-+++=|-+-      +++- ..+|-|.++.+-....
T Consensus       129 ~~~~~ayL~~~ie~~-~siii~G~t~sGKTt~lnall~~Ip~~~rivtIEdt~------E~~~-~~~n~~~l~~r~~~~~  200 (312)
T COG0630         129 SPEQAAYLWLAIEAR-KSIIICGGTASGKTTLLNALLDFIPPEERIVTIEDTP------ELKL-PHENWVQLVTREGESG  200 (312)
T ss_pred             CHHHHHHHHHHHHCC-CCEEEECCCCCCHHHHHHHHHHHCCCCCCEEEECCCC------EECC-CCCCEEEEEECCCCCC
T ss_conf             888999999999769-9499988888864959999986378522189952555------4147-8876589983257776


Q ss_pred             CCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHH-HHHCCCCEEEECCH
Q ss_conf             42101555432102210358899999999999-98549984998277
Q gi|254780991|r  233 QPEAYVPRTDTYIEKESSINEQIDRMRHSATR-SLLERNDCIVVSSV  278 (805)
Q Consensus       233 qpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~-~l~~~~~~IVVgsr  278 (805)
                                     .+.++      ..+..+ ++..+.|-||||-.
T Consensus       201 ---------------~~~v~------~~dll~aalR~rPd~IivgEv  226 (312)
T COG0630         201 ---------------SSEVS------LEDLLRAALRQRPDYIIVGEL  226 (312)
T ss_pred             ---------------CCCCC------HHHHHHHHHCCCCCEEEEEEE
T ss_conf             ---------------56666------999999986239986999633


No 347
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=89.88  E-value=1.4  Score=22.80  Aligned_cols=141  Identities=21%  Similarity=0.165  Sum_probs=74.7

Q ss_pred             HHHHHHHHHHHHHCC-----CCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEE
Q ss_conf             389999999988739-----733799863376469999999997199789993163468999999998678983899862
Q gi|254780991|r  153 QPAAIAQLLKGIHSR-----EKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVS  227 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g-----~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S  227 (805)
                      =.+++..+...+...     .+...|.|=||-|||=+.|.+.++..                     -.-+...|.+-  
T Consensus       183 ~~~~l~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTlAKLAar~~---------------------~~~~~~kVaiI--  239 (407)
T COG1419         183 FSEKLRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARYV---------------------MLKKKKKVAII--  239 (407)
T ss_pred             HHHHHHHHHHHHCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHH---------------------HHCCCCCEEEE--
T ss_conf             7999999887644111124685799989988758879999999997---------------------53257606899--


Q ss_pred             CCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHHHHCCEEEEECCCCCCHHH
Q ss_conf             13444421015554321022103588999999999999854998499827789616898347722579994198111787
Q gi|254780991|r  228 YYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVESYSQMIVQLKIGDSVEQKE  307 (805)
Q Consensus       228 ~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~~lglIIvdEehd~~~~~~  307 (805)
                                  .+|+|   ...     ..+-+.....++.=.-.+|..+..-.. ...++.+-.+|+||-.|-+..-..
T Consensus       240 ------------TtDtY---RIG-----A~EQLk~Ya~im~vp~~vv~~~~el~~-ai~~l~~~d~ILVDTaGrs~~D~~  298 (407)
T COG1419         240 ------------TTDTY---RIG-----AVEQLKTYADIMGVPLEVVYSPKELAE-AIEALRDCDVILVDTAGRSQYDKE  298 (407)
T ss_pred             ------------EECCC---HHH-----HHHHHHHHHHHHCCCEEEECCHHHHHH-HHHHHHCCCEEEEECCCCCCCCHH
T ss_conf             ------------71441---152-----899999999986995599639999999-999853188899968998833789


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHH
Q ss_conf             532343117656338775453318724783178887788
Q gi|254780991|r  308 LLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDV  346 (805)
Q Consensus       308 ~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~  346 (805)
                      +..++         .++....+..-..++=|+|...++.
T Consensus       299 ~i~el---------~~~~~~~~~i~~~Lvlsat~K~~dl  328 (407)
T COG1419         299 KIEEL---------KELIDVSHSIEVYLVLSATTKYEDL  328 (407)
T ss_pred             HHHHH---------HHHHHCCCCCEEEEEEECCCCHHHH
T ss_conf             99999---------9997035662179998457646889


No 348
>PRK06872 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.79  E-value=0.65  Score=25.35  Aligned_cols=38  Identities=26%  Similarity=0.493  Sum_probs=32.0

Q ss_pred             HHHHHHHHHHHHHCCC--CEEEEEEECCCCHHHHHHHHHHH
Q ss_conf             3899999999887397--33799863376469999999997
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE--KVQLLLGVTGSGKTFTMAKVIEA  191 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~--~~qlL~GVTGSGKTevya~lI~~  191 (805)
                      |.-..+.|..+|..|.  +..|+.|.-|.||| +.|+++++
T Consensus        21 q~~v~~~l~~a~~~~r~~haylf~g~rg~gkt-t~ari~ak   60 (696)
T PRK06872         21 QEHILTALSNGLKENRLHHAYLFSGTRGVGKT-SIARLFAK   60 (696)
T ss_pred             CHHHHHHHHHHHHCCCCCCEEEEECCCCCCHH-HHHHHHHH
T ss_conf             59999999999971986304751178988888-99999999


No 349
>PRK05642 DNA replication initiation factor; Validated
Probab=89.70  E-value=1.5  Score=22.71  Aligned_cols=109  Identities=14%  Similarity=0.227  Sum_probs=55.4

Q ss_pred             CCHHHHHHHHHHHHH--CC--CCEEEEEEECCCCHHHHHHHH---HHHCCCCEEEEECCHH--HHHHHHHHHHHHCCCCE
Q ss_conf             843899999999887--39--733799863376469999999---9971997899931634--68999999998678983
Q gi|254780991|r  151 GDQPAAIAQLLKGIH--SR--EKVQLLLGVTGSGKTFTMAKV---IEAMQRPAIVMAPNKI--LAAQLYSEFKNFFPHNA  221 (805)
Q Consensus       151 gdQ~~Ai~~L~~~l~--~g--~~~qlL~GVTGSGKTevya~l---I~~~gr~aLvLvPei~--La~QL~~rfk~~Fp~n~  221 (805)
                      |.-..|+..+..-++  .|  .+...|+|-+|||||-..-.+   +++.+++++++.-+-.  ..+.+.+.++.+   +.
T Consensus        24 g~N~~a~~~~~~l~~~~~~~~~~~l~i~G~~G~GKTHLL~A~~~~~~~~~~~~~yl~~~~~~~~~~~~~~~l~~~---d~  100 (234)
T PRK05642         24 GANAAALGYVERLCEADAGWTESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLAELLDRGPELLDNLEQY---EL  100 (234)
T ss_pred             CCCHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEHHHHHHHHHHHHHHHHHC---CE
T ss_conf             875999999999876067877883899889999889999999999980799679978999875449998624227---98


Q ss_pred             EEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHH
Q ss_conf             899862134444210155543210221035889999999999998549984998277896
Q gi|254780991|r  222 VEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCI  281 (805)
Q Consensus       222 V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAI  281 (805)
                      |.+     |-.             +. .+-+.+++.+=+..++++.+....+|+++..+.
T Consensus       101 l~I-----DDi-------------~~-i~g~~~~e~~lF~l~N~~~~~~~~llits~~~P  141 (234)
T PRK05642        101 VCI-----DDL-------------DV-IAGKADWEEALFHLFNRLRDSGRRLLLAASKSP  141 (234)
T ss_pred             EEE-----ECH-------------HH-HCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCH
T ss_conf             989-----364-------------55-468859999999999999983995999578795


No 350
>PRK13830 conjugal transfer protein TrbE; Provisional
Probab=89.61  E-value=0.94  Score=24.19  Aligned_cols=38  Identities=21%  Similarity=0.368  Sum_probs=20.8

Q ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCCHHHH--HHCCCCCCC
Q ss_conf             00124444777753321120145101133--311446555
Q gi|254780991|r  419 AQRLEQRITYDLEMLETTGSCQSIENYSR--YLTGRNPGE  456 (805)
Q Consensus       419 a~rL~qR~~~dle~l~e~G~~~gienyS~--~L~~r~~ge  456 (805)
                      ...+.++....--.++..|+...+|....  -+.+.-||+
T Consensus       355 ~~~l~~~~~~v~~~l~~~Gf~~~~E~~n~~~Af~aqLPGn  394 (818)
T PRK13830        355 RERLQEKAEAIRRLIQAEGFGARIETLNATDAFLGSLPGN  394 (818)
T ss_pred             HHHHHHHHHHHHHHHHHCCCEEEEECCCCHHHHHHHCCCC
T ss_conf             9999999999999997389468980202199999859887


No 351
>PRK13891 conjugal transfer protein TrbE; Provisional
Probab=89.61  E-value=0.99  Score=24.00  Aligned_cols=26  Identities=19%  Similarity=0.178  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCHH
Q ss_conf             01244447777533211201451011
Q gi|254780991|r  420 QRLEQRITYDLEMLETTGSCQSIENY  445 (805)
Q Consensus       420 ~rL~qR~~~dle~l~e~G~~~gieny  445 (805)
                      ..+.++.....-.++..|+...+|..
T Consensus       387 ~~l~~~~~~v~~~l~~~GF~~~~Et~  412 (852)
T PRK13891        387 ERLEASALLVEKAINRLAFAARIETI  412 (852)
T ss_pred             HHHHHHHHHHHHHHHHCCCEEEEEHH
T ss_conf             99999999999999868967986110


No 352
>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=89.59  E-value=1.5  Score=22.65  Aligned_cols=44  Identities=20%  Similarity=0.274  Sum_probs=34.0

Q ss_pred             EEEEEECCCCHHHHHHHHHHHC---CCCEEEEECCHHHHHHHHHHHHH
Q ss_conf             7998633764699999999971---99789993163468999999998
Q gi|254780991|r  171 QLLLGVTGSGKTFTMAKVIEAM---QRPAIVMAPNKILAAQLYSEFKN  215 (805)
Q Consensus       171 qlL~GVTGSGKTevya~lI~~~---gr~aLvLvPei~La~QL~~rfk~  215 (805)
                      .++.|=+|||||-..++++...   +..++++.-|... .|+..++..
T Consensus         2 ~li~g~~g~GKttl~~~~~~~~~~~~~~~~~~~~ee~~-~q~~~~~~~   48 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEI-EELTERLIG   48 (165)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCH-HHHHHHHHH
T ss_conf             89998999989999999999987639979999866644-899999998


No 353
>PRK10416 cell division protein FtsY; Provisional
Probab=89.49  E-value=1.5  Score=22.60  Aligned_cols=23  Identities=17%  Similarity=0.224  Sum_probs=10.8

Q ss_pred             HHHHHHCCCCCCEEEEEECCCCH
Q ss_conf             66543127998669998248988
Q gi|254780991|r  673 QTIGRAARNVNSKVILYADTITK  695 (805)
Q Consensus       673 q~~GRagR~~~G~~il~ad~~t~  695 (805)
                      .++.+.--+.+-.++|-.|..++
T Consensus       404 rvi~k~~~~aP~e~lLVlDa~tG  426 (499)
T PRK10416        404 RVMKKLDVEAPHEVMLTIDASTG  426 (499)
T ss_pred             HHHHHCCCCCCCEEEEEEECCCC
T ss_conf             99972378999748999778767


No 354
>PRK06321 replicative DNA helicase; Provisional
Probab=89.47  E-value=1.4  Score=22.77  Aligned_cols=63  Identities=14%  Similarity=0.188  Sum_probs=49.2

Q ss_pred             HHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC----CCCEEEEECCHHHHHHHHHHHHHHCC
Q ss_conf             899999999887397337998633764699999999971----99789993163468999999998678
Q gi|254780991|r  154 PAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM----QRPAIVMAPNKILAAQLYSEFKNFFP  218 (805)
Q Consensus       154 ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~----gr~aLvLvPei~La~QL~~rfk~~Fp  218 (805)
                      =..+.++..|+..| .-.+|-|=+|.|||-..++++..+    ++++++..-|.+ ..||+.|+-+--.
T Consensus       213 f~~LD~lt~Gl~~G-dliviaaRPsmGKTalalnia~~~a~~~~~~v~~fSLEMs-~~ql~~R~ls~~s  279 (472)
T PRK06321        213 FIDLDKMINGFSPS-NLMILAARPAMGKTALALNIAENFCFQNRLPVGIFSLEMT-VDQLIHRIICSRS  279 (472)
T ss_pred             HHHHHHHHCCCCCC-CEEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEECCCCC-HHHHHHHHHHHHC
T ss_conf             48899985598867-5799853899977999999999999856994699757799-9999999987403


No 355
>TIGR02785 addA_Gpos recombination helicase AddA; InterPro: IPR014152   AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologues between the Firmicutes and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species..
Probab=89.35  E-value=0.34  Score=27.45  Aligned_cols=37  Identities=19%  Similarity=0.336  Sum_probs=21.8

Q ss_pred             EEEEECCCCHHHHHHHHHHHCCCCEEEEECCHH-HHHHHHHHHHHH
Q ss_conf             998633764699999999971997899931634-689999999986
Q gi|254780991|r  172 LLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKI-LAAQLYSEFKNF  216 (805)
Q Consensus       172 lL~GVTGSGKTevya~lI~~~gr~aLvLvPei~-La~QL~~rfk~~  216 (805)
                      +.-.-||+=+-..|        |-..||+|-.. -++|+.+.|+..
T Consensus       588 vYD~~~g~~R~~~Y--------~DIviL~rs~~k~n~~I~~~f~~~  625 (1295)
T TIGR02785       588 VYDKKTGEYRPVKY--------RDIVILTRSRGKWNLQIMEEFKKY  625 (1295)
T ss_pred             CHHHHCCCCCCEEE--------EEEEEECCCCCCCHHHHHHHHHHC
T ss_conf             00321386266025--------567886789864337999999848


No 356
>KOG2543 consensus
Probab=89.26  E-value=0.59  Score=25.70  Aligned_cols=49  Identities=14%  Similarity=0.248  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHHCC---CCE-EEEEEECCCCHHHHHHHHHHHCCCCEEEEECC
Q ss_conf             89999999988739---733-79986337646999999999719978999316
Q gi|254780991|r  154 PAAIAQLLKGIHSR---EKV-QLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPN  202 (805)
Q Consensus       154 ~~Ai~~L~~~l~~g---~~~-qlL~GVTGSGKTevya~lI~~~gr~aLvLvPe  202 (805)
                      ..+|..|..-+-+.   ... ..|+|.+|||||++.-++....+.+...+-+=
T Consensus        12 e~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~~vw~n~~   64 (438)
T KOG2543          12 ESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNLENVWLNCV   64 (438)
T ss_pred             HHHHHHHHHHHCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEHH
T ss_conf             89999999984789866651579961478745599999986037863054157


No 357
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=89.08  E-value=0.61  Score=25.60  Aligned_cols=27  Identities=30%  Similarity=0.539  Sum_probs=21.3

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHHCCCC
Q ss_conf             337998633764699999999971997
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEAMQRP  195 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~~gr~  195 (805)
                      +..++.||.|||||-|=..+.+++|-+
T Consensus         4 ~a~VVmGVsGsGKSTvg~~LA~~L~~~   30 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAALFSAK   30 (176)
T ss_pred             CEEEEEECCCCCHHHHHHHHHHHHCCC
T ss_conf             579998289899899999999995987


No 358
>PRK05636 replicative DNA helicase; Provisional
Probab=89.07  E-value=1.6  Score=22.39  Aligned_cols=63  Identities=8%  Similarity=0.218  Sum_probs=49.3

Q ss_pred             HHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH----CCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             9999999988739733799863376469999999997----1997899931634689999999986789
Q gi|254780991|r  155 AAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA----MQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       155 ~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~----~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      ..+..+..|+..| .-.+|-|=+|.|||-..++++..    .|+++++..-|.+ +.||..|+-+-...
T Consensus       255 ~~LD~~t~Gl~~G-~LiIiAARPsmGKTalAlnia~n~A~~~g~~v~~fSLEMs-~~ql~~Rlla~~s~  321 (507)
T PRK05636        255 KDLDDLTNGLRGG-QMIIVAARPGVGKSTIALDFMRSASIKNNKASVIFSLEMS-KSEIVMRLLSAEAE  321 (507)
T ss_pred             HHHHHHHCCCCCC-CEEEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEEECCCC-HHHHHHHHHHHHCC
T ss_conf             8899755088835-6799973787866899999999999876993799715699-89999999998479


No 359
>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB; InterPro: IPR013363    Proteins in this entry are the DotB component of Dot/Icm secretion systems, as found in the obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the literature now seems to favor calling this the Dot/Icm system. This family is most closely related to the TraJ proteins of plasmid transfer (IPR013364 from INTERPRO), rather than to proteins of other type IV secretion systems..
Probab=89.01  E-value=0.79  Score=24.73  Aligned_cols=91  Identities=26%  Similarity=0.416  Sum_probs=51.6

Q ss_pred             HHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC------CCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCC
Q ss_conf             99999887397337998633764699999999971------997899931634689999999986789838998621344
Q gi|254780991|r  158 AQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM------QRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDY  231 (805)
Q Consensus       158 ~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~------gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~  231 (805)
                      +.+++.+.-.+....+.|.|||||.-..+.+|+++      .|.+|-  -|-- ..-.|+++...-   ++   ||    
T Consensus       124 ~~i~~aiaPqeG~v~~tGatGsGkstlla~iirel~e~~ds~rk~lt--ye~P-ie~vyd~~~t~~---a~---v~----  190 (358)
T TIGR02524       124 DAIVEAIAPQEGVVYVTGATGSGKSTLLAAIIRELIEASDSNRKVLT--YEAP-IEYVYDELETIS---AV---VS----  190 (358)
T ss_pred             HHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCEEEE--ECCC-HHHHHHCCCCCE---EE---EE----
T ss_conf             79998517888669986267763688999999998606765641464--2263-233221101001---12---22----


Q ss_pred             CCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECC
Q ss_conf             4421015554321022103588999999999999854998499827
Q gi|254780991|r  232 YQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSS  277 (805)
Q Consensus       232 yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgs  277 (805)
                       |               +-+...+...--..-++|.+....|+||-
T Consensus       191 -q---------------seiPrhl~~fa~GvrnalrrkP~~i~vGe  220 (358)
T TIGR02524       191 -Q---------------SEIPRHLNSFADGVRNALRRKPRLILVGE  220 (358)
T ss_pred             -H---------------HHCCHHHHHHHHHHHHHHHCCCCEEEEEC
T ss_conf             -0---------------00212256788888887522885689833


No 360
>KOG1808 consensus
Probab=89.00  E-value=0.94  Score=24.19  Aligned_cols=67  Identities=22%  Similarity=0.197  Sum_probs=51.6

Q ss_pred             ECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCC-CEEEEECCHHHHHHHHH
Q ss_conf             18888884389999999988739733799863376469999999997199-78999316346899999
Q gi|254780991|r  145 TDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQR-PAIVMAPNKILAAQLYS  211 (805)
Q Consensus       145 ~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr-~aLvLvPei~La~QL~~  211 (805)
                      +.|-+|--+++-+..+...+..|..+.+|.|-||||||-+...+..++|+ .+=|.-|+-+=+.-.++
T Consensus       417 ~~~i~T~~vq~~la~~~~a~~~~~~pillqG~tssGKtsii~~la~~~g~~~vrinnhehtd~qeyig  484 (1856)
T KOG1808         417 THYIITPRVQKNLADLARAISSGKFPILLQGPTSSGKTSIIKELARATGKNIVRINNHEHTDLQEYIG  484 (1856)
T ss_pred             CEEECCHHHHHHHHHHHHHHHCCCCCEEEECCCCCCCHHHHHHHHHHHCCCCEEHHCCCCCHHHHHHH
T ss_conf             41204689998899999999658998677547676811599999998546734200246333999986


No 361
>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=88.93  E-value=0.49  Score=26.27  Aligned_cols=23  Identities=30%  Similarity=0.514  Sum_probs=17.2

Q ss_pred             EEEEEECCCCHHHHHHHHHHHCC
Q ss_conf             79986337646999999999719
Q gi|254780991|r  171 QLLLGVTGSGKTFTMAKVIEAMQ  193 (805)
Q Consensus       171 qlL~GVTGSGKTevya~lI~~~g  193 (805)
                      .++.||.|||||-+-..+.++.|
T Consensus         2 iiv~GvsGsGKSTia~~La~~lg   24 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERLG   24 (150)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
T ss_conf             89991899999999999999719


No 362
>COG3451 VirB4 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]
Probab=88.86  E-value=1.7  Score=22.29  Aligned_cols=23  Identities=30%  Similarity=0.551  Sum_probs=11.7

Q ss_pred             EEEEEEECCCCHHHHHHHHHHHC
Q ss_conf             37998633764699999999971
Q gi|254780991|r  170 VQLLLGVTGSGKTFTMAKVIEAM  192 (805)
Q Consensus       170 ~qlL~GVTGSGKTevya~lI~~~  192 (805)
                      +.++.|-||||||-.+.=++++.
T Consensus       438 hT~I~G~tGaGKTvLl~~lla~~  460 (796)
T COG3451         438 HTLIIGPTGAGKTVLLSFLLAQA  460 (796)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
T ss_conf             74998898887899999999999


No 363
>PRK11930 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional
Probab=88.49  E-value=1.8  Score=22.12  Aligned_cols=38  Identities=26%  Similarity=0.364  Sum_probs=29.1

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCC-CHHHH
Q ss_conf             5477518888884389999999988739733799863376-46999
Q gi|254780991|r  140 FFQMQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGS-GKTFT  184 (805)
Q Consensus       140 ~f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGS-GKTev  184 (805)
                      +|-++.      |--+|+.+|.....+.+. .-+-||||| |||-|
T Consensus        86 ~~i~V~------Dtl~ALq~LA~~~R~~~~-~~VIgITGSnGKTtt  124 (824)
T PRK11930         86 NFLIVK------NPLKALQKLAAYYRKQFD-IPIIGITGSNGKTIV  124 (824)
T ss_pred             CEEEEC------CHHHHHHHHHHHHHHHCC-CCEEEEECCCCHHHH
T ss_conf             789989------899999999999997489-989999499978999


No 364
>pfam00006 ATP-synt_ab ATP synthase alpha/beta family, nucleotide-binding domain. This family includes the ATP synthase alpha and beta subunits, the ATP synthase associated with flagella and the termination factor Rho.
Probab=88.46  E-value=1.8  Score=22.10  Aligned_cols=54  Identities=13%  Similarity=0.079  Sum_probs=36.1

Q ss_pred             HCCCCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             7397337998633764699999999971997899931634689999999986789
Q gi|254780991|r  165 HSREKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       165 ~~g~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      -.| +..++.|--|+|||.++.+++.........+.==|..-+.-+.+|...|-+
T Consensus        13 g~G-Qr~~I~g~~g~GKt~l~~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~~~~   66 (213)
T pfam00006        13 GKG-QRIGIFGGSGTGKTVLLGMIARNAKADVVEVYVLIGERGREVAEFIEELLG   66 (213)
T ss_pred             CCC-CEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHHHC
T ss_conf             578-887787899998899999999856618935998137777999999997521


No 365
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=88.45  E-value=0.67  Score=25.29  Aligned_cols=41  Identities=27%  Similarity=0.382  Sum_probs=27.9

Q ss_pred             CCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHH
Q ss_conf             7337998633764699999999971997899931634689999999
Q gi|254780991|r  168 EKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       168 ~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rf  213 (805)
                      .+-.++.|-||||||.+-+++.++.+-..+-     +=+-|+|..+
T Consensus         4 ~~ii~i~GpTasGKs~la~~la~~~~~eIIs-----aDS~QvYk~l   44 (304)
T PRK00091          4 PKLIVLVGPTASGKTALAIELAKRLNGEIIS-----VDSMQVYRGM   44 (304)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHCCCEEEE-----ECHHHHHCCC
T ss_conf             9779998988658999999999987998994-----1268874999


No 366
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=88.40  E-value=0.64  Score=25.41  Aligned_cols=39  Identities=36%  Similarity=0.468  Sum_probs=30.3

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHH
Q ss_conf             33799863376469999999997---1997899931634689
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAA  207 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~  207 (805)
                      ...|+.||-|+|||=+.+.+...   .|+++++-+-.-.-|+
T Consensus       140 ~Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAa  181 (340)
T COG0552         140 FVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAA  181 (340)
T ss_pred             EEEEEEECCCCCHHHHHHHHHHHHHHCCCEEEEEECCHHHHH
T ss_conf             799999348886371799999999978986999823347899


No 367
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype; InterPro: IPR013444    This entry represents a CRISPR-associated putative DEAH-box helicase, or Cas3, subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. The proteins include both DEAH and HD motifs..
Probab=88.30  E-value=0.17  Score=29.72  Aligned_cols=97  Identities=25%  Similarity=0.231  Sum_probs=56.0

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHH------HHHHHHH-----------CCCCCEEEEHHHHHC
Q ss_conf             32124662147899999999863596687325764578999------9999973-----------189869998458753
Q gi|254780991|r  582 GLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERI------EIIRDLR-----------LGKFDVLVGINLLRE  644 (805)
Q Consensus       582 ~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~------~il~~~~-----------~g~~diLvgt~~~ak  644 (805)
                      |.-++||+.|-+.+..+...|++..-....+-+.++..++.      +|+.+|-           +-..=+||+|+-+.=
T Consensus       311 g~~~~Vf~~~~~~v~~v~a~L~k~~~~~~~ltG~vr~~~~d~lar~~~~~~~~Lpp~~~~s~g~~~~g~~~vVaTst~EV  390 (975)
T TIGR02621       311 GEAILVFCNTVDEVKKVVAKLPKEARRLEDLTGTVRGLERDMLARRGEIFNRFLPPYRSGSEGRPQQGTVYVVATSTGEV  390 (975)
T ss_pred             CCEEEEEECCCCHHHHHHHHCCCCCCCHHHHCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCEEEEEECCEEE
T ss_conf             86699987684306898864577454077628810433478520013145314876456773668998779997324255


Q ss_pred             CCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CC--CCEE
Q ss_conf             578777117999628856744460137766543127-99--8669
Q gi|254780991|r  645 GLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NV--NSKV  686 (805)
Q Consensus       645 GlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~--~G~~  686 (805)
                      |-||.-=-||.-..        ..+||+||.||--| |.  +|.+
T Consensus       391 GadldfdhLvt~~~--------~~~sl~QRfGRvnR~G~r~~~~~  427 (975)
T TIGR02621       391 GADLDFDHLVTDLA--------PFESLVQRFGRVNRFGERLDGSI  427 (975)
T ss_pred             CCCCCCCHHHHCCC--------HHHHHHHHHHHHCCCCCCCCCEE
T ss_conf             03443111221144--------24578654300200022316505


No 368
>PRK06904 replicative DNA helicase; Validated
Probab=88.30  E-value=1.8  Score=22.03  Aligned_cols=63  Identities=14%  Similarity=0.236  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH----CCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             9999999988739733799863376469999999997----1997899931634689999999986789
Q gi|254780991|r  155 AAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA----MQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       155 ~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~----~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      ..++.+..|+..| .-.+|-|=+|.|||-..++++..    .++|+++..-|.+ ..||+.|+-+--..
T Consensus       209 ~~LD~~t~Gl~~g-~LiViAaRPsmGKTa~alnia~n~A~~~~~~V~~fSLEM~-~~~l~~R~ls~~s~  275 (472)
T PRK06904        209 TDLDKKTAGLQPS-DLIIVAARPSMGKTTFAMNLCENAAMASEKPVLVFSLEMP-AEQIMMRMLASLSR  275 (472)
T ss_pred             HHHHHHHCCCCCC-CEEEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEECCCCC-HHHHHHHHHHHHCC
T ss_conf             9997441588757-5799973798756899999999999955995799778799-99999999998649


No 369
>PRK10536 hypothetical protein; Provisional
Probab=88.26  E-value=1.8  Score=22.01  Aligned_cols=136  Identities=18%  Similarity=0.269  Sum_probs=62.0

Q ss_pred             CHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC---C--CCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEE
Q ss_conf             43899999999887397337998633764699999999971---9--978999316346899999999867898389986
Q gi|254780991|r  152 DQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM---Q--RPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFV  226 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~---g--r~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~  226 (805)
                      .|...|..|..    . .-....|..|||||++-+...-+.   +  +..++.=|.......|     .|+|.+.-+=+-
T Consensus        63 ~Q~~yi~~i~~----~-~ivf~~GpAGTGKT~lA~a~Al~~l~~~~~~kIIltRP~V~~ge~l-----GfLPGdl~EK~~  132 (262)
T PRK10536         63 AQLHYLKAIES----K-QLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADEDL-----GFLPGDIAEKFA  132 (262)
T ss_pred             HHHHHHHHHHH----C-CEEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCC-----CCCCCCHHHHHH
T ss_conf             49999999861----9-8399989998758999999999999858886899966787567666-----769898799887


Q ss_pred             ECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCC-CCEEEECCHHHHCCCCCHHHHHCCEEEEECCCCCCH
Q ss_conf             2134444210155543210221035889999999999998549-984998277896168983477225799941981117
Q gi|254780991|r  227 SYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLER-NDCIVVSSVSCIYGIGSVESYSQMIVQLKIGDSVEQ  305 (805)
Q Consensus       227 S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~-~~~IVVgsrSAIfgl~~P~~~lglIIvdEehd~~~~  305 (805)
                      -|.        -|-.|.+       ++.+..   +.+..+... ...|-|.+.+-+-|.    ++-..+|+..|-++...
T Consensus       133 Pyl--------~Pi~D~L-------~~~lg~---~~~~~~~~~e~G~Iei~PlafmRGr----Tf~na~IIvDEaQN~T~  190 (262)
T PRK10536        133 PYF--------RPVYDVL-------VRRLGA---SFMQYCLRPEIGKVEIAPFAYMRGR----TFENAVVILDEAQNVTA  190 (262)
T ss_pred             HHH--------HHHHHHH-------HHHHCH---HHHHHHHHHHCCCEEEEEHHHHCCC----CCCCEEEEEEHHHCCCH
T ss_conf             888--------7899999-------999685---9999998730594899875874477----51442899841212899


Q ss_pred             HHHHHHHHHCCCCC
Q ss_conf             87532343117656
Q gi|254780991|r  306 KELLSSLVKQQYKR  319 (805)
Q Consensus       306 ~~~~~~l~~~~Y~R  319 (805)
                      .++..-+...+..-
T Consensus       191 ~qmk~iLTRiG~~S  204 (262)
T PRK10536        191 AQMKMFLTRLGENV  204 (262)
T ss_pred             HHHHHHHHHCCCCC
T ss_conf             99988985425996


No 370
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=88.23  E-value=1.1  Score=23.60  Aligned_cols=70  Identities=19%  Similarity=0.162  Sum_probs=38.6

Q ss_pred             HHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCC--CCEEEEECCHHHHHHHHHHHHHHCCCCEEEEE
Q ss_conf             8999999998873973379986337646999999999719--97899931634689999999986789838998
Q gi|254780991|r  154 PAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQ--RPAIVMAPNKILAAQLYSEFKNFFPHNAVEYF  225 (805)
Q Consensus       154 ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~g--r~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f  225 (805)
                      .++++++.. +.....+.|+.|=||+||+.+-..+.....  ..+-+++=|=+.-+.=-.+.. .||...-+++
T Consensus        88 ~~~~eqik~-~ap~~~~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~NCa~~~en~~~~e-LFG~~kGaft  159 (403)
T COG1221          88 QELREQIKA-YAPSGLPVLIIGETGTGKELFARLIHALSARRAEAPFIAFNCAAYSENLQEAE-LFGHEKGAFT  159 (403)
T ss_pred             HHHHHHHHH-HCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCCEEEEEHHHHCCCHHHHH-HHCCCCCEEE
T ss_conf             999999986-18999847986688753889999999861213589879977777376777777-7320000002


No 371
>KOG0736 consensus
Probab=88.19  E-value=1.5  Score=22.73  Aligned_cols=118  Identities=25%  Similarity=0.272  Sum_probs=63.5

Q ss_pred             HHHHHHHHHHHHH----------CCCCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHH-----------HHHH
Q ss_conf             3899999999887----------397337998633764699999999971997899931634689-----------9999
Q gi|254780991|r  153 QPAAIAQLLKGIH----------SREKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAA-----------QLYS  211 (805)
Q Consensus       153 Q~~Ai~~L~~~l~----------~g~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~-----------QL~~  211 (805)
                      +++-+-.+++-+.          ......||||.+|||||-+...+..++|.+.+=. +--.|+.           +.+.
T Consensus       406 ~~~~~~~l~~vl~p~~~~s~~~~~~~~~vLLhG~~g~GK~t~V~~vas~lg~h~~ev-dc~el~~~s~~~~etkl~~~f~  484 (953)
T KOG0736         406 LEAKVLELVAVLSPQKQPSGALLTLNPSVLLHGPPGSGKTTVVRAVASELGLHLLEV-DCYELVAESASHTETKLQAIFS  484 (953)
T ss_pred             CHHHHHHHHHHHCCCCCCCHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCEEEC-CHHHHHHCCCCHHHHHHHHHHH
T ss_conf             027999999984865585300133553799867999875799999999838725701-3898864363313789999999


Q ss_pred             HHHHHCCCCEEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHH-------CCCCEEEECCHHHHCCC
Q ss_conf             99986789838998621344442101555432102210358899999999999985-------49984998277896168
Q gi|254780991|r  212 EFKNFFPHNAVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLL-------ERNDCIVVSSVSCIYGI  284 (805)
Q Consensus       212 rfk~~Fp~n~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~-------~~~~~IVVgsrSAIfgl  284 (805)
                      +-+-.  .++|- |.-++|-.-           |..+-  ++  +..=+++.+-++       .+..+||||+.+.+=++
T Consensus       485 ~a~~~--~pavi-fl~~~dvl~-----------id~dg--ge--d~rl~~~i~~~ls~e~~~~~~~~~ivv~t~~s~~~l  546 (953)
T KOG0736         485 RARRC--SPAVL-FLRNLDVLG-----------IDQDG--GE--DARLLKVIRHLLSNEDFKFSCPPVIVVATTSSIEDL  546 (953)
T ss_pred             HHHHC--CCEEE-EEECCCEEE-----------ECCCC--CH--HHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCC
T ss_conf             87526--86289-872242455-----------33777--44--277999999997202356779965999962530239


Q ss_pred             CCHHH
Q ss_conf             98347
Q gi|254780991|r  285 GSVES  289 (805)
Q Consensus       285 ~~P~~  289 (805)
                      .+-..
T Consensus       547 p~~i~  551 (953)
T KOG0736         547 PADIQ  551 (953)
T ss_pred             CHHHH
T ss_conf             87898


No 372
>PRK09165 replicative DNA helicase; Provisional
Probab=87.93  E-value=1.9  Score=21.87  Aligned_cols=63  Identities=17%  Similarity=0.140  Sum_probs=49.9

Q ss_pred             HHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHH------------------CCCCEEEEECCHHHHHHHHHHHHHH
Q ss_conf             9999999988739733799863376469999999997------------------1997899931634689999999986
Q gi|254780991|r  155 AAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEA------------------MQRPAIVMAPNKILAAQLYSEFKNF  216 (805)
Q Consensus       155 ~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~------------------~gr~aLvLvPei~La~QL~~rfk~~  216 (805)
                      ..+..+..|+..| .-.++-|=+|.|||-..++++..                  .|++|++..-|.+ ..|++.|+-+-
T Consensus       193 ~~LD~~t~G~~~G-dLiIIAARPsmGKTafaLniA~n~A~~~~~~~~~~~~~~~~~g~~V~~FSLEMs-~~ql~~Rlls~  270 (484)
T PRK09165        193 RDLDSKLGGLHPS-DLIILAGRPSMGKTALATNIAFNAAKAYLREAQPDGSKKAVNGGVVGFFSLEMS-AEQLATRILSE  270 (484)
T ss_pred             HHHHHHHCCCCCC-CEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEECCCC-HHHHHHHHHHH
T ss_conf             4599871588877-379996079997789999999999987410222233211368984899947799-99999999999


Q ss_pred             CCC
Q ss_conf             789
Q gi|254780991|r  217 FPH  219 (805)
Q Consensus       217 Fp~  219 (805)
                      -..
T Consensus       271 ~s~  273 (484)
T PRK09165        271 QSE  273 (484)
T ss_pred             HHC
T ss_conf             726


No 373
>TIGR01074 rep ATP-dependent DNA helicase Rep; InterPro: IPR005752    RepA hexameric DNA helicase contain ATP-binding domains similar to those seen in monomeric helicases but which are arranged in a ring. There is compelling evidence to suggest that a single ssDNA molecule passes through the centre of the hexameric ring. Activity of the enzyme is based upon two separate but coupled activities, ssDNA translocation and duplex destabilisation, and is driven by energy derived from the continuous ATP-binding and hydrolysis events that take place in the active-site cleft. The resulting conformational changes that accompany these events underpin the coupling process and allow the helicase to translocate along the DNA, destabilizing the duplex and separating the two strands in an active process  ; GO: 0004003 ATP-dependent DNA helicase activity, 0006268 DNA unwinding during replication, 0005737 cytoplasm.
Probab=87.85  E-value=0.36  Score=27.31  Aligned_cols=59  Identities=24%  Similarity=0.222  Sum_probs=40.2

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHH----HCCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             38999999998873973379986337646999999999----71997899931634689999999986789
Q gi|254780991|r  153 QPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIE----AMQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~----~~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      |.+|+.- +    .|  ++|.+-=.|||||-|+.+=|+    ++|=++=-++ =||=|..-+.|+|+|.+.
T Consensus         8 Q~~AV~Y-~----~G--PlLVLAGAGSGKT~VI~~KIayLi~~cgY~a~~Ia-AvTFTNKAA~EMkERVA~   70 (677)
T TIGR01074         8 QQEAVEY-V----GG--PLLVLAGAGSGKTRVITNKIAYLIQNCGYKAKNIA-AVTFTNKAAREMKERVAK   70 (677)
T ss_pred             HHHHHHH-H----CC--CCEEECCCCCCCCHHHHHHHHHHHHHCCCCCCCEE-EEECCHHHHHHHHHHHHH
T ss_conf             7999986-1----58--71465177778635788899998751587876168-973523777999999985


No 374
>pfam06414 Zeta_toxin Zeta toxin. This family consists of several bacterial zeta toxin proteins. Zeta toxin is thought to be part of a postregulational killing system in bacteria. It relies on antitoxin/toxin systems that secure stable inheritance of low and medium copy number plasmids during cell division and kill cells that have lost the plasmid.
Probab=87.84  E-value=0.91  Score=24.29  Aligned_cols=42  Identities=26%  Similarity=0.492  Sum_probs=32.1

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHHC-CCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             337998633764699999999971-997899931634689999999986789
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEAM-QRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~~-gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      ...+|-|-.|||||.+...++... +...+++-+.         +||.++|+
T Consensus        13 kai~laG~pGAGKS~~~~~~~~~~~~~~~v~In~D---------~~r~~~P~   55 (191)
T pfam06414        13 VAVLLGGQPGAGKTELARALLEELGGGNVVRIDPD---------ELRTYHPD   55 (191)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHCCCCCCEEECCH---------HHHHHHHH
T ss_conf             79999579988889999999875378993897135---------87887774


No 375
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=87.83  E-value=1.1  Score=23.55  Aligned_cols=109  Identities=16%  Similarity=0.269  Sum_probs=61.3

Q ss_pred             HHHHHHHHHHHHHCCC-CE-EEEEEECCCCHHHHHHHHHHH-CCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECC
Q ss_conf             3899999999887397-33-799863376469999999997-19978999316346899999999867898389986213
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE-KV-QLLLGVTGSGKTFTMAKVIEA-MQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYY  229 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~-~~-qlL~GVTGSGKTevya~lI~~-~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~  229 (805)
                      |..+++.|...+..|. .+ .|++|.-|+||| +.|.++++ ++-..-  .++.. .--.....+++..++.+-      
T Consensus        22 Q~~vv~~L~nai~~~ri~HAyLF~GprGtGKT-T~ArilAkaLnC~~~--~~~~~-pCg~C~~C~~I~~g~~~D------   91 (462)
T PRK06305         22 QDAVVTVLKNALRFNRAAHAYLFSGIRGTGKT-TLARIFAKALNCQNP--TEDQE-PCNQCAICKEISSGTSLD------   91 (462)
T ss_pred             CHHHHHHHHHHHHCCCCCCEEEEECCCCCCHH-HHHHHHHHHHCCCCC--CCCCC-CCCCCHHHHHHHCCCCCC------
T ss_conf             09999999999984997623430389985999-999999999679999--88889-887668889986389998------


Q ss_pred             CCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHH-HHCCEEEEECCCCC
Q ss_conf             444421015554321022103588999999999999854998499827789616898347-72257999419811
Q gi|254780991|r  230 DYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVES-YSQMIVQLKIGDSV  303 (805)
Q Consensus       230 ~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~-~lglIIvdEehd~~  303 (805)
                                    ++|-|++.|..+|..|     .|.+          ..-|   +|.. .-...|+||.|.-+
T Consensus        92 --------------ViEiDaAs~~gVddIR-----el~e----------~v~~---~P~~~~yKVyIIDEvhmLs  134 (462)
T PRK06305         92 --------------VIEIDGASHRGIEDIR-----QINE----------TVLF---TPSKSQYKIYIIDEVHMLT  134 (462)
T ss_pred             --------------EEEECCCCCCCHHHHH-----HHHH----------HHCC---CCCCCCEEEEEEECHHHCC
T ss_conf             --------------6864355344668999-----9997----------7100---8867750599981521179


No 376
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=87.60  E-value=1.3  Score=23.03  Aligned_cols=38  Identities=24%  Similarity=0.434  Sum_probs=30.9

Q ss_pred             HHHHHHHHHHHHHCCC-CE-EEEEEECCCCHHHHHHHHHHH
Q ss_conf             3899999999887397-33-799863376469999999997
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE-KV-QLLLGVTGSGKTFTMAKVIEA  191 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~-~~-qlL~GVTGSGKTevya~lI~~  191 (805)
                      |...++.|...|..|. ++ .|+.|.-|.||| +.++++++
T Consensus        21 Q~~v~~~l~nal~~~rl~haylf~G~rGvGKT-t~aRi~Ak   60 (816)
T PRK07003         21 QEHVVRALTHALDGGRLHHAYLFTGTRGVGKT-TLSRIFAK   60 (816)
T ss_pred             CHHHHHHHHHHHHCCCCCCEEEEECCCCCCHH-HHHHHHHH
T ss_conf             49999999999970986314751178988888-99999999


No 377
>pfam01580 FtsK_SpoIIIE FtsK/SpoIIIE family. FtsK has extensive sequence similarity to wide variety of proteins from prokaryotes and plasmids, termed the FtsK/SpoIIIE family. This domain contains a putative ATP binding P-loop motif.  It is found in the FtsK cell division protein from E. coli and the stage III sporulation protein E SpoIIIE which has roles in regulation of prespore specific gene expression in B. subtilis. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer.
Probab=87.57  E-value=0.42  Score=26.80  Aligned_cols=36  Identities=28%  Similarity=0.414  Sum_probs=26.3

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHHC---CCC---EEEEECCHH
Q ss_conf             337998633764699999999971---997---899931634
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEAM---QRP---AIVMAPNKI  204 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~~---gr~---aLvLvPei~  204 (805)
                      .+.|+-|.||||||...-.+|..+   ..|   -++|+-=+.
T Consensus        39 pH~Lv~G~tGsGKS~~l~~li~sl~~~~~p~~v~l~liD~K~   80 (202)
T pfam01580        39 PHLLIAGATGSGKSTFLNTLILSLAARHSPEEVRLYLIDPKG   80 (202)
T ss_pred             CCEEEECCCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCC
T ss_conf             868996589998009999999999873796206999974896


No 378
>pfam01949 DUF99 Protein of unknown function DUF99. The function of this archaebacterial protein family is unknown.
Probab=87.56  E-value=2  Score=21.71  Aligned_cols=68  Identities=26%  Similarity=0.310  Sum_probs=51.4

Q ss_pred             CHHHHHHHHHHHHHCC-CCEEEEEEECCCCHHHHHHHHHH-HCCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             4389999999988739-73379986337646999999999-71997899931634689999999986789
Q gi|254780991|r  152 DQPAAIAQLLKGIHSR-EKVQLLLGVTGSGKTFTMAKVIE-AMQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g-~~~qlL~GVTGSGKTevya~lI~-~~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      |--.+|..++.+.... -+..+|.|+|=+|=-.+=+..+. ++|.|+++++=+..=-.-+..-++.+||+
T Consensus        47 DaT~~i~~mv~~~~~~~i~~V~L~Git~aGFNvvD~~~l~~~tg~PVI~V~~~~p~~~~ie~AL~khf~d  116 (185)
T pfam01949        47 DATDAIIDLVKGKFRPDIRVILLDGITFGGFNIIDIEELYEETGLPVIVVMRKEPDLEGIESALRKHFPD  116 (185)
T ss_pred             CHHHHHHHHHHHCCCCCCEEEEECCEEEEEEEEECHHHHHHHHCCCEEEEEEECCCHHHHHHHHHHHCCC
T ss_conf             2799999999843556622999877625314884599999987998899997379868999999987899


No 379
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=87.46  E-value=1.4  Score=22.80  Aligned_cols=44  Identities=23%  Similarity=0.323  Sum_probs=35.0

Q ss_pred             CCCCHHHHHHHHHHHHHCCC--CEEEEEEECCCCHHHHHHHHHHHC
Q ss_conf             88843899999999887397--337998633764699999999971
Q gi|254780991|r  149 PSGDQPAAIAQLLKGIHSRE--KVQLLLGVTGSGKTFTMAKVIEAM  192 (805)
Q Consensus       149 P~gdQ~~Ai~~L~~~l~~g~--~~qlL~GVTGSGKTevya~lI~~~  192 (805)
                      .-|-|+.+++.|...+.+|.  +..|+.|--|+||+-+-..+.+.+
T Consensus         7 ~~~~Q~~i~~~L~~~i~~~rl~HA~Lf~Gp~G~GK~~~A~~~A~~L   52 (329)
T PRK08058          7 LTALQPIVVKMLQNSIAKNRLAHAYLFEGAKGTGKKATALWLAKSL   52 (329)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             8831899999999999859966156557899988999999999997


No 380
>PRK11545 gntK gluconate kinase 1; Provisional
Probab=87.23  E-value=0.87  Score=24.44  Aligned_cols=26  Identities=31%  Similarity=0.591  Sum_probs=19.1

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHHCCC
Q ss_conf             33799863376469999999997199
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEAMQR  194 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~~gr  194 (805)
                      +-.++.||.|||||-+=..+.+++|-
T Consensus         9 ~iiVVMGVsGsGKSTig~~LA~~l~~   34 (177)
T PRK11545          9 HIYVLMGVSGSGKSAVASAVAHQLHA   34 (177)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             59999847989999999999998199


No 381
>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]
Probab=87.23  E-value=2.1  Score=21.58  Aligned_cols=65  Identities=25%  Similarity=0.403  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHH---HCCCCEEEEEEECCCCHHHHHHHHHHHC----CCCEEEEECCHHHHHHHHHHHHHHCCCCE
Q ss_conf             389999999988---7397337998633764699999999971----99789993163468999999998678983
Q gi|254780991|r  153 QPAAIAQLLKGI---HSREKVQLLLGVTGSGKTFTMAKVIEAM----QRPAIVMAPNKILAAQLYSEFKNFFPHNA  221 (805)
Q Consensus       153 Q~~Ai~~L~~~l---~~g~~~qlL~GVTGSGKTevya~lI~~~----gr~aLvLvPei~La~QL~~rfk~~Fp~n~  221 (805)
                      +..|+++|...+   .......|++|=||||| |+.|+.|.+.    ++|-+-+ -==++.+++.+.  +.||+..
T Consensus       146 ~S~am~~l~~~i~kvA~s~a~VLI~GESGtGK-ElvAr~IH~~S~R~~~PFVav-NcaAip~~l~ES--ELFGhek  217 (464)
T COG2204         146 ESPAMQQLRRLIAKVAPSDASVLITGESGTGK-ELVARAIHQASPRAKGPFIAV-NCAAIPENLLES--ELFGHEK  217 (464)
T ss_pred             CCHHHHHHHHHHHHHHCCCCCEEEECCCCCCH-HHHHHHHHHHCCCCCCCCEEE-ECCCCCHHHHHH--HHHCCCC
T ss_conf             69999999999999847799789977898758-999999986074458992563-346489888777--7614565


No 382
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=87.22  E-value=2.1  Score=21.58  Aligned_cols=126  Identities=16%  Similarity=0.198  Sum_probs=63.2

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCHH
Q ss_conf             32012455654226774321114755899999999873960320574026667888742158877547751888888438
Q gi|254780991|r   75 KGEFQSQSSISMSEKQTREISEQTMTPSVQALARLIQSDNPLLKNGKIWTPHRSWSINNHSKDITFFQMQTDYHPSGDQP  154 (805)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~l~~~~~P~gdQ~  154 (805)
                      +++.+.........+.+.++.+..|.-.|  .++++++=+-.....++         +++            ..|   ++
T Consensus        20 ~~~l~E~~i~~~l~eIr~ALLeADV~~~v--vk~f~~~vk~k~~g~~v---------~~~------------~~p---~q   73 (433)
T PRK00771         20 ATVIDKKTVKEVVKDIQRALLQADVNVKL--VMNLSKEIERRALEEEP---------PKG------------MSK---KE   73 (433)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHCCCCHHH--HHHHHHHHHHHHCCCCC---------CCC------------CCH---HH
T ss_conf             99889999999999999999965678799--99999999999714624---------578------------998---99


Q ss_pred             HHHHH----HHHHHHC------CCCEEEEEEECCCCHHHHHHHHHH---HCCCCEEEEECCHHHHHHHHHHHHHHCCCCE
Q ss_conf             99999----9998873------973379986337646999999999---7199789993163468999999998678983
Q gi|254780991|r  155 AAIAQ----LLKGIHS------REKVQLLLGVTGSGKTFTMAKVIE---AMQRPAIVMAPNKILAAQLYSEFKNFFPHNA  221 (805)
Q Consensus       155 ~Ai~~----L~~~l~~------g~~~qlL~GVTGSGKTevya~lI~---~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~  221 (805)
                      .-++-    |++-+..      .-...++.|+.|||||-+.+.+..   +.|+.+++.+-...-++ -++.++.+=-...
T Consensus        74 ~iikiv~~eL~~llg~~~~~~~kP~Vim~vGlqGsGKTTT~aKLA~~~kk~g~kv~lvaaDt~Rpa-A~eQL~~la~~~~  152 (433)
T PRK00771         74 HIIKIVYEELVKLLGEEAEILLKPQTILLVGLQGSGKTTTAAKLARYFQKKGLKVGVICADTWRPG-AYEQLKQLCEKIN  152 (433)
T ss_pred             HHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCHH-HHHHHHHHHHHCC
T ss_conf             999999999999849676566898589997378897899999999999977994678506788368-9999999998638


Q ss_pred             EEEEEE
Q ss_conf             899862
Q gi|254780991|r  222 VEYFVS  227 (805)
Q Consensus       222 V~~f~S  227 (805)
                      |.+|.+
T Consensus       153 v~~~~~  158 (433)
T PRK00771        153 VPFYGD  158 (433)
T ss_pred             CCCCCC
T ss_conf             873178


No 383
>COG5059 KIP1 Kinesin-like protein [Cytoskeleton]
Probab=87.13  E-value=0.45  Score=26.54  Aligned_cols=81  Identities=21%  Similarity=0.312  Sum_probs=49.9

Q ss_pred             EEEEECCCCCCCHHHHHHH----HHHHHHCCCCEE-EEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHH
Q ss_conf             4775188888843899999----999887397337-99863376469999999997199789993163468999999998
Q gi|254780991|r  141 FQMQTDYHPSGDQPAAIAQ----LLKGIHSREKVQ-LLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKN  215 (805)
Q Consensus       141 f~l~~~~~P~gdQ~~Ai~~----L~~~l~~g~~~q-lL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~  215 (805)
                      |...--|.|+-.|..-.+.    +.+.+..|+... ..+|-||||||++|---.           -+.++.|....++..
T Consensus        58 ~~fdkvf~~~~~q~~v~e~~~~~l~~~~l~g~N~TvfayGqTgsgKtyt~~G~~-----------~~~Gii~~~l~~lf~  126 (568)
T COG5059          58 YAFDKVFGPSATQEDVYEETIKPLIDSLLLGYNCTVFAYGQTGSGKTYTMSGTE-----------EEPGIIPLSLKELFS  126 (568)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCEEEECCCC-----------CCCCHHHHHHHHHHH
T ss_conf             887432587765799999876678999972566559985035788527831785-----------535558999999999


Q ss_pred             HCCCC----EEEEEEECCCCC
Q ss_conf             67898----389986213444
Q gi|254780991|r  216 FFPHN----AVEYFVSYYDYY  232 (805)
Q Consensus       216 ~Fp~n----~V~~f~S~~~~y  232 (805)
                      ..-+.    ...+-+||+-.|
T Consensus       127 ~l~~~~~~~~~~v~is~lEiY  147 (568)
T COG5059         127 KLEDLSMTKDFAVSISYLEIY  147 (568)
T ss_pred             HHHHCCCCCCHHEEHHHHHHH
T ss_conf             986321365511002689998


No 384
>TIGR00376 TIGR00376 DNA helicase, putative; InterPro: IPR004483 Eukaryotic members of this family have been characterised as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterised as helicases.; GO: 0003677 DNA binding, 0005524 ATP binding.
Probab=87.12  E-value=2.1  Score=21.54  Aligned_cols=119  Identities=20%  Similarity=0.308  Sum_probs=71.5

Q ss_pred             HHHHHHHHHHHHCCC-HHHHCCCCCCCC-CCCCCC-CCCCCCCCEE--EEECCCCCCCHHHHHHHHHHHHHCCCCEEEEE
Q ss_conf             589999999987396-032057402666-788874-2158877547--75188888843899999999887397337998
Q gi|254780991|r  100 TPSVQALARLIQSDN-PLLKNGKIWTPH-RSWSIN-NHSKDITFFQ--MQTDYHPSGDQPAAIAQLLKGIHSREKVQLLL  174 (805)
Q Consensus       100 ~~~~~~l~~~~~~~~-~~~~~~~~~~~~-~~~~~~-~~~~~~~~f~--l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~  174 (805)
                      .....++..+.+.+. |.-+--...+.. .|..|- ........|.  |+.....  .|..|+...+.    .....++|
T Consensus       151 ~~~~~~~~~~~~~~~gp~~~~~~~~~g~~~p~~p~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~----~~~~~~~~  224 (709)
T TIGR00376       151 KRLKEALRKLTENGSGPASRLLDFLLGLEAPSKPLGPEVNDFEFFDSFLNPNLNE--SQKEAVGFALS----SKDLFLIH  224 (709)
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHCCCCCH--HHHHHHHHHHC----CCCEEEEE
T ss_conf             8899998766541145125788987620146554322100002334552223223--46777654312----34416872


Q ss_pred             EECCCCHHHHHHHHHHHC---CC--CEEEEECCHHHHHHHHHHHHHHCCCCEEEE
Q ss_conf             633764699999999971---99--789993163468999999998678983899
Q gi|254780991|r  175 GVTGSGKTFTMAKVIEAM---QR--PAIVMAPNKILAAQLYSEFKNFFPHNAVEY  224 (805)
Q Consensus       175 GVTGSGKTevya~lI~~~---gr--~aLvLvPei~La~QL~~rfk~~Fp~n~V~~  224 (805)
                      |--|+|||.+...++.+.   |.  .+|+..|.-.....+...+...+|+..+.-
T Consensus       225 gp~g~g~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~d~~~~~~~~~~p~~~~~~  279 (709)
T TIGR00376       225 GPPGTGKTRTLVELIRQLVKRGPEERVLVTAPSNIAVDNLLERLAPLYPDLKLLR  279 (709)
T ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCCEEEECCCCHHHHHHHHHHHHHCCCCEEEE
T ss_conf             6777762156899999998528533067623531037788888764145410222


No 385
>pfam10593 Z1 Z1 domain. This uncharacterized domain was identified by Iyer and colleagues. It is found associated with a helicase domain of superfamily type II.
Probab=87.09  E-value=1.7  Score=22.27  Aligned_cols=92  Identities=22%  Similarity=0.232  Sum_probs=54.5

Q ss_pred             CCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHH---HHHHHHHHHC-C-CCCCEEEEEECCCCHHHHHHHHHH
Q ss_conf             1898699984587535787771179996288567444601---3776654312-7-998669998248988999999987
Q gi|254780991|r  630 LGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKT---SLIQTIGRAA-R-NVNSKVILYADTITKSIQLAIDET  704 (805)
Q Consensus       630 ~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~---~~~q~~GRag-R-~~~G~~il~ad~~t~~~~~ai~e~  704 (805)
                      .|..-|+||=+.|+||+-+.+.+...        |+|+..   +|.|+.==-| | |-..-+=+|...-.-.-.+.|.+.
T Consensus       125 ~~~~~I~IGG~~LsRGlTleGL~vsY--------f~R~s~~~DTL~QmgRwFGYR~gY~dlcRi~~t~~~~~~f~~i~~~  196 (231)
T pfam10593       125 NGLTVIAIGGNKLSRGLTLEGLTVSY--------FLRTSKMADTLMQMGRWFGYRPGYEDLCRLYMTEDLYEWFRHIAEA  196 (231)
T ss_pred             CCEEEEEECCCCCCCCEEECCEEEEE--------EECCCCHHHHHHHHCCCCCCCCCCCCCEEEECCHHHHHHHHHHHHH
T ss_conf             77079998873024752265707999--------7068643899998455467886650215676388999999999999


Q ss_pred             HHHHHHHHHHHHHHCCCCHHHHHHH
Q ss_conf             8888888876887188530234667
Q gi|254780991|r  705 TRRREKQLEHNKKHNINPQSVKEKI  729 (805)
Q Consensus       705 ~rrr~~q~~~n~~~~i~p~~i~k~i  729 (805)
                      +.....|+..-...+.||+...-.+
T Consensus       197 ~e~lr~~l~~~~~~~~tP~~~~l~v  221 (231)
T pfam10593       197 EEELREQLKRMAEAGLTPKEFGLKV  221 (231)
T ss_pred             HHHHHHHHHHHHHCCCCHHHHCHHH
T ss_conf             9999999999997699979958488


No 386
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=87.03  E-value=2.1  Score=21.51  Aligned_cols=37  Identities=27%  Similarity=0.431  Sum_probs=25.1

Q ss_pred             HHHHHHHH-HHHCCCCEEEEEEECCCCHHHHHHHHHHHC
Q ss_conf             99999999-887397337998633764699999999971
Q gi|254780991|r  155 AAIAQLLK-GIHSREKVQLLLGVTGSGKTFTMAKVIEAM  192 (805)
Q Consensus       155 ~Ai~~L~~-~l~~g~~~qlL~GVTGSGKTevya~lI~~~  192 (805)
                      .+++.|.. |++.| .-.=++|--|||||-+-+++.-.+
T Consensus        90 ~~lD~lLgGGi~~g-~ITEi~Ge~gsGKTQlc~qLav~~  127 (318)
T PRK04301         90 KELDELLGGGIETQ-SITEFYGEFGSGKTQICHQLAVNV  127 (318)
T ss_pred             HHHHHHCCCCCCCC-EEEEEECCCCCCCHHHHHHHHHHE
T ss_conf             78880547983367-078886688787035667767653


No 387
>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+). This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.
Probab=87.02  E-value=0.75  Score=24.92  Aligned_cols=41  Identities=32%  Similarity=0.548  Sum_probs=24.6

Q ss_pred             EEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCC
Q ss_conf             986337646999999999719978999316346899999999867898389986213444421015554
Q gi|254780991|r  173 LLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAYVPRT  241 (805)
Q Consensus       173 L~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yqpEay~p~~  241 (805)
                      +-|.||||||.+--.+.+                         .||+..|   +|-=|||-|.+-+|..
T Consensus         4 IaG~S~SGKTTla~~L~~-------------------------~l~~~~i---I~qDdyYk~~~~~~~~   44 (187)
T cd02024           4 ISGVTNSGKTTLAKLLQR-------------------------ILPNCCV---IHQDDFFKPEDEIPVD   44 (187)
T ss_pred             EECCCCCCHHHHHHHHHH-------------------------HCCCCEE---ECCCCCCCCCCCCCHH
T ss_conf             968888759999999999-------------------------8799889---7154467884327621


No 388
>PRK08233 hypothetical protein; Provisional
Probab=86.91  E-value=0.6  Score=25.63  Aligned_cols=22  Identities=23%  Similarity=0.442  Sum_probs=16.1

Q ss_pred             EEEEECCCCHHHHHHHHHHHCC
Q ss_conf             9986337646999999999719
Q gi|254780991|r  172 LLLGVTGSGKTFTMAKVIEAMQ  193 (805)
Q Consensus       172 lL~GVTGSGKTevya~lI~~~g  193 (805)
                      -.-|.||||||-+--+++++.+
T Consensus         7 gIaGgSgSGKTtla~~l~~~l~   28 (182)
T PRK08233          7 TIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             EEECCCCCCHHHHHHHHHHHCC
T ss_conf             9968886789999999999746


No 389
>PRK05917 DNA polymerase III subunit delta'; Validated
Probab=86.75  E-value=1.3  Score=23.07  Aligned_cols=40  Identities=20%  Similarity=0.189  Sum_probs=33.2

Q ss_pred             HHHHHHHHHHHHHCCC--CEEEEEEECCCCHHHHHHHHHHHC
Q ss_conf             3899999999887397--337998633764699999999971
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE--KVQLLLGVTGSGKTFTMAKVIEAM  192 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~--~~qlL~GVTGSGKTevya~lI~~~  192 (805)
                      |.+|++.|...+++|.  +..|++|-.|+||+.+-..+.+..
T Consensus         2 ~~~~We~L~~~i~~~Rl~HAyLf~Gp~G~GK~~~A~~~A~~L   43 (290)
T PRK05917          2 ENAAWEALLQRVRDQKVPSAILLHGQDLSNLSQYAYELASLI   43 (290)
T ss_pred             CCHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             854999999999839966068768999865999999999998


No 390
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=86.75  E-value=2.2  Score=21.40  Aligned_cols=53  Identities=23%  Similarity=0.281  Sum_probs=39.7

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHH---HCCCCEEEEECC
Q ss_conf             888888438999999998873973379986337646999999999---719978999316
Q gi|254780991|r  146 DYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIE---AMQRPAIVMAPN  202 (805)
Q Consensus       146 ~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~---~~gr~aLvLvPe  202 (805)
                      .|.-+++|..|+..+..    +.+-.++-|.-|+|||.++..+-+   ..|..|+=++|-
T Consensus       344 ~~~Ls~EQ~~A~~hiT~----~~~iavVvG~AGtGKStmL~aAReawEa~GyrV~GaALs  399 (992)
T PRK13889        344 GLVLSGEQADALAHVTD----GRDLGVVVGYAGTGKSAMLGVAREAWEAAGYEVRGAALS  399 (992)
T ss_pred             CCCCCHHHHHHHHHHCC----CCCEEEEEECCCCCHHHHHHHHHHHHHHCCCEEEEECCC
T ss_conf             68879999999998647----897589983388878899999999999779889811500


No 391
>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=86.75  E-value=0.76  Score=24.86  Aligned_cols=41  Identities=27%  Similarity=0.403  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCCE
Q ss_conf             999999998873973379986337646999999999719978
Q gi|254780991|r  155 AAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRPA  196 (805)
Q Consensus       155 ~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~a  196 (805)
                      --++.|. .++=+..--||-|=||||||..--.+.+.++=|-
T Consensus       140 velehle-eVEL~KSNILLiGPTGSGKTLLAqTLA~~L~VPf  180 (452)
T TIGR00382       140 VELEHLE-EVELSKSNILLIGPTGSGKTLLAQTLARILNVPF  180 (452)
T ss_pred             HHHHHHH-HHHHHCCCEEEECCCCCCHHHHHHHHHHHCCCCE
T ss_conf             2354444-4333006624546888526899999998738874


No 392
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=86.73  E-value=2.2  Score=21.39  Aligned_cols=23  Identities=35%  Similarity=0.446  Sum_probs=17.1

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHH
Q ss_conf             33799863376469999999997
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEA  191 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~  191 (805)
                      +..+++|--|.|||..-..+...
T Consensus        19 ~~v~~~g~~~~~~t~~~~~~a~~   41 (494)
T COG0464          19 KGVLLHGPPGTGKTLLARALANE   41 (494)
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHC
T ss_conf             21000368876503665676512


No 393
>TIGR01143 murF UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; InterPro: IPR005863   The bacterial cell wall provides strength and rigidity to counteract internal osmotic pressure, and protection against the environment. The peptidoglycan layer gives the cell wall its strength, and helps maintain the overall shape of the cell. The basic peptidoglycan structure of both Gram-positive and Gram-negative bacteria is comprised of a sheet of glycan chains connected by short cross-linking polypeptides. Biosynthesis of peptidoglycan is a multi-step (11-12 steps) process comprising three main stages:    (1) formation of UDP-N-acetylmuramic acid (UDPMurNAc) from N-acetylglucosamine (GlcNAc). (2) addition of a short polypeptide chain to the UDPMurNAc. (3) addition of a second GlcNAc to the disaccharide-pentapeptide building block and transport of this unit through the cytoplasmic membrane and incorporation into the growing peptidoglycan layer.    Stage two involves four key Mur ligase enzymes: MurC (6.3.2.8 from EC) , MurD (6.3.2.9 from EC) , MurE (6.3.2.13 from EC)  and MurF (6.3.2.10 from EC) . These four Mur ligases are responsible for the successive additions of L-alanine, D-glutamate, meso-diaminopimelate or L-lysine, and D-alanyl-D-alanine to UDP-N-acetylmuramic acid. All four Mur ligases are topologically similar to one another, even though they display low sequence identity. They are each composed of three domains: an N-terminal Rossmann-fold domain responsible for binding the UDPMurNAc substrate; a central domain (similar to ATP-binding domains of several ATPases and GTPases); and a C-terminal domain (similar to dihydrofolate reductase fold) that appears to be associated with binding the incoming amino acid. The conserved sequence motifs found in the four Mur enzymes also map to other members of the Mur ligase family, including folylpolyglutamate synthetase, cyanophycin synthetase and the capB enzyme from Bacillales .    This entry represents UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase (MurF, 6.3.2.15 from EC), which is required to catalyze the final step in the synthesis of the cytoplasmic precursor of the bacterial cell wall peptidoglycan.  ATP + UDP-N-acetylmuramoyl-L-alanyl-D-glutamyl-meso-2,6-diaminoheptanedioate + D-alanyl-D-alanine = ADP + phosphate + UDP-N-acetylmuramoyl-L-alanyl-D-glutamyl-6-carboxy-L-lysyl-D-alanyl-D-alanine.. The crystal structure of the MurF apo-enzyme has been determined and refined to 2.3 A resolution. It contains three consecutive open alpha/beta-sheet domains. The topology of the N-terminal domain of MurF is unique, while its central and C-terminal domains exhibit similar mononucleotide and dinucleotide-binding folds to MurD. The apo-enzyme of MurF crystal structure reveals an open conformation with the three domains juxtaposed in a crescent-like arrangement creating a wide-open space where substrates are expected to bind. As such, catalysis is not feasible and significant domain closure is expected upon substrate binding . ; GO: 0005524 ATP binding, 0008766 UDP-N-acetylmuramoylalanyl-D-glutamyl-26-diaminopimelate-D-alanyl-D-alanine ligase activity, 0008360 regulation of cell shape, 0009252 peptidoglycan biosynthetic process, 0009273 peptidoglycan-based cell wall biogenesis, 0051301 cell division, 0005737 cytoplasm.
Probab=86.70  E-value=0.75  Score=24.92  Aligned_cols=43  Identities=30%  Similarity=0.450  Sum_probs=30.2

Q ss_pred             CH-HHHHHHHHHHHHCCCCEEE-EEEECCC-CHHHH---HHHHHHHCCC
Q ss_conf             43-8999999998873973379-9863376-46999---9999997199
Q gi|254780991|r  152 DQ-PAAIAQLLKGIHSREKVQL-LLGVTGS-GKTFT---MAKVIEAMQR  194 (805)
Q Consensus       152 dQ-~~Ai~~L~~~l~~g~~~ql-L~GVTGS-GKTev---ya~lI~~~gr  194 (805)
                      |= -+|+++|-....+.+...- +-||||| |||=|   .+.+..+.++
T Consensus        63 DtV~~AL~~lA~~~~~~~~~~~~~igiTGS~GKTTtKEm~~~iL~~~~~  111 (462)
T TIGR01143        63 DTVLAALQALASAKREKFSAKRRVIGITGSSGKTTTKEMLAAILSHKYK  111 (462)
T ss_pred             CHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHHHHHCC
T ss_conf             6589999999999997439975899985689606799999999985359


No 394
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=86.63  E-value=1.7  Score=22.29  Aligned_cols=116  Identities=21%  Similarity=0.220  Sum_probs=62.4

Q ss_pred             HHHHHHHHHHHHHCCC--CEEEEEEECCCCHHHHHHHHHHH-CCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECC
Q ss_conf             3899999999887397--33799863376469999999997-19978999316346899999999867898389986213
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE--KVQLLLGVTGSGKTFTMAKVIEA-MQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYY  229 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~--~~qlL~GVTGSGKTevya~lI~~-~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~  229 (805)
                      |..+.+.|..++..|.  +..|++|..|+|||-+ |.++++ ++-..    +.-.  ..-.+.+.+-.+.        . 
T Consensus        23 Qe~Vv~tL~nAI~~gRIaHAYLF~GPRGvGKTT~-ARIfAKaLNC~~----~~d~--~~pC~~C~~~~~~--------s-   86 (718)
T PRK07133         23 QDHIIETLKNIIKSGKISHAYLFSGPHGTGKTSV-AKIFANALNCSH----KTDL--IEPCQNCIENFNN--------N-   86 (718)
T ss_pred             CHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHH-HHHHHHHHCCCC----CCCC--CCCCCCHHHCCCC--------C-
T ss_conf             5999999999997499750586238998688999-999999967999----9999--9977021430478--------9-


Q ss_pred             CCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHH-HHCCEEEEECCCCCC--HH
Q ss_conf             444421015554321022103588999999999999854998499827789616898347-722579994198111--78
Q gi|254780991|r  230 DYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVES-YSQMIVQLKIGDSVE--QK  306 (805)
Q Consensus       230 ~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~-~lglIIvdEehd~~~--~~  306 (805)
                                  --++|-|++.|..+|..|     .|.+.          +-|   +|.. .-...|+||+|.-+.  ..
T Consensus        87 ------------~DViEIDAASn~gVDdIR-----eLie~----------v~y---~P~~gkYKVyIIDEvHMLS~~AfN  136 (718)
T PRK07133         87 ------------LDIIEMDAASNNGVDEIR-----ELREN----------VKN---LPQISKYKIYIIDEVHMLSKSAFN  136 (718)
T ss_pred             ------------CCEEEECCCCCCCHHHHH-----HHHHH----------HCC---CCCCCCEEEEEEECCCCCCHHHHH
T ss_conf             ------------873775455668889999-----99998----------255---887787249999662007999999


Q ss_pred             HHHHHHHH
Q ss_conf             75323431
Q gi|254780991|r  307 ELLSSLVK  314 (805)
Q Consensus       307 ~~~~~l~~  314 (805)
                      .+.+-+..
T Consensus       137 ALLKtLEE  144 (718)
T PRK07133        137 ALLKTLEE  144 (718)
T ss_pred             HHHHHHCC
T ss_conf             99985027


No 395
>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=86.62  E-value=0.88  Score=24.37  Aligned_cols=33  Identities=27%  Similarity=0.445  Sum_probs=23.3

Q ss_pred             CCCCEE--EEEEECCCCHHHHHHHHHHH----CCCCEEEE
Q ss_conf             397337--99863376469999999997----19978999
Q gi|254780991|r  166 SREKVQ--LLLGVTGSGKTFTMAKVIEA----MQRPAIVM  199 (805)
Q Consensus       166 ~g~~~q--lL~GVTGSGKTevya~lI~~----~gr~aLvL  199 (805)
                      .+.+.+  +|.|..|||||- .|++.++    .|-++.+|
T Consensus        15 ~~h~g~vlWlTGLSGsGKsT-iA~Al~~~L~~~G~~~~~L   53 (187)
T TIGR00455        15 NKHRGVVLWLTGLSGSGKST-IANALEKKLEKKGYRVYVL   53 (187)
T ss_pred             CCCCEEEEEEECCCCCHHHH-HHHHHHHHHHHCCCEEEEE
T ss_conf             27973898511688563579-9999999999669749997


No 396
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=86.32  E-value=2  Score=21.77  Aligned_cols=26  Identities=27%  Similarity=0.208  Sum_probs=15.8

Q ss_pred             EEEEHHHHHCCCCCCCCCEEEEECCC
Q ss_conf             99984587535787771179996288
Q gi|254780991|r  635 VLVGINLLREGLDIPECGLVAILDAD  660 (805)
Q Consensus       635 iLvgt~~~akGlD~p~v~lV~i~dAD  660 (805)
                      |=|-|==.+|||-||=|=|..+.+.+
T Consensus       744 VrImTIHkSKGLEfPiVflp~~~~~~  769 (1139)
T COG1074         744 VRIMTIHKSKGLEFPIVFLPFILSKR  769 (1139)
T ss_pred             EEEEEEECCCCCCCCEEEECCCCCCC
T ss_conf             89999853577889989975888888


No 397
>PRK10867 signal recognition particle protein; Provisional
Probab=86.30  E-value=2.3  Score=21.24  Aligned_cols=57  Identities=19%  Similarity=0.367  Sum_probs=36.4

Q ss_pred             EEEEEECCCCHHHHHHHHHH----HCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEEC
Q ss_conf             79986337646999999999----71997899931634689999999986789838998621
Q gi|254780991|r  171 QLLLGVTGSGKTFTMAKVIE----AMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSY  228 (805)
Q Consensus       171 qlL~GVTGSGKTevya~lI~----~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~  228 (805)
                      .++.|+-|||||-+.+.+..    +.++++|+.+-...-+ --++.++.+=-...|.+|.++
T Consensus       103 Im~vGLqGsGKTTT~aKLA~~lk~k~~k~vllvaaDt~Rp-aA~eQL~~la~~~~v~~~~~~  163 (453)
T PRK10867        103 VLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVYRP-AAIKQLETLAEQVGVDFFPSD  163 (453)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCHH-HHHHHHHHHHHHCCCCEECCC
T ss_conf             9997468885185899999999973898379855887705-899999999985198043678


No 398
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=86.25  E-value=1.2  Score=23.50  Aligned_cols=31  Identities=29%  Similarity=0.418  Sum_probs=21.8

Q ss_pred             CEEEEEEECCCCHHHHHHHHHH----HCCCCEEEEE
Q ss_conf             3379986337646999999999----7199789993
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIE----AMQRPAIVMA  200 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~----~~gr~aLvLv  200 (805)
                      ...+|.|..|||||-+ |++.+    +.|+.+-+|=
T Consensus        24 ~viW~TGLSGsGKSTi-A~ale~~L~~~G~~~y~LD   58 (197)
T COG0529          24 AVIWFTGLSGSGKSTI-ANALEEKLFAKGYHVYLLD   58 (197)
T ss_pred             EEEEEECCCCCCHHHH-HHHHHHHHHHCCCEEEEEC
T ss_conf             5999646888878799-9999999997597589855


No 399
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=86.25  E-value=2.3  Score=21.22  Aligned_cols=131  Identities=15%  Similarity=0.149  Sum_probs=65.3

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHH---HCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEE
Q ss_conf             88888438999999998873973379986337646999999999---719978999316346899999999867898389
Q gi|254780991|r  147 YHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIE---AMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVE  223 (805)
Q Consensus       147 ~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~---~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~  223 (805)
                      +.-+++|..||..+..    +.+-.++.|.-|+|||.++..+-+   ..|..|+=+++    +.--...+..==|=. ..
T Consensus       380 ~~Ls~EQ~~Av~hiT~----~~~Ia~VvG~AGaGKStmL~aAReawEa~GyrV~GaAL----sGkAAegLe~~sGI~-Sr  450 (1102)
T PRK13826        380 ARLSDEQKTAIEHVAG----AERIAAVIGRAGAGKTTMMKAAREAWEAAGYRVVGGAL----AGKAAEGLEKEAGIA-SR  450 (1102)
T ss_pred             CCCCHHHHHHHHHHCC----CCCEEEEEECCCCCHHHHHHHHHHHHHHCCCEEEEECC----CHHHHHHHHHCCCCC-CH
T ss_conf             1389999999998537----88668998428887889999999999977977980150----078999775346953-03


Q ss_pred             EEEEC-CCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHH-HCCCCEEEECCHHHHC--CCCCHH
Q ss_conf             98621-34444210155543210221035889999999999998-5499849982778961--689834
Q gi|254780991|r  224 YFVSY-YDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSL-LERNDCIVVSSVSCIY--GIGSVE  288 (805)
Q Consensus       224 ~f~S~-~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l-~~~~~~IVVgsrSAIf--gl~~P~  288 (805)
                      -.+|. +.+.+...-++..|.++=-+++...--...|  ..... ..|-.+|.||-..=+-  +.|++|
T Consensus       451 TlAs~e~~w~~gr~~L~~~dVlVIDEAGMVgsrqmar--vl~~ae~aGAKvVLVGD~~QLQpIeAGaaF  517 (1102)
T PRK13826        451 TLSSWELRWNQGRDQLDNKTVFVLDEAGMVSSRQMAL--FVEAVTRAGAKLVLVGDPEQLQPIEAGAAF  517 (1102)
T ss_pred             HHHHHHHHHCCCCCCCCCCCEEEEECCCCCCHHHHHH--HHHHHHHCCCEEEEECCHHHHCCCCCCHHH
T ss_conf             3899998743586556787389984555655799999--999999759989996887882761046889


No 400
>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=86.21  E-value=1.4  Score=22.84  Aligned_cols=33  Identities=24%  Similarity=0.482  Sum_probs=22.9

Q ss_pred             HHHHHHHHHHHCC-CCEEEEEEECCCCHHHHHHHHHH
Q ss_conf             9999999988739-73379986337646999999999
Q gi|254780991|r  155 AAIAQLLKGIHSR-EKVQLLLGVTGSGKTFTMAKVIE  190 (805)
Q Consensus       155 ~Ai~~L~~~l~~g-~~~qlL~GVTGSGKTevya~lI~  190 (805)
                      .|...+..   .| .+..++.|-+||||||..=.++.
T Consensus        81 ~Ay~~m~~---~~~~QsIiisGESGaGKTes~K~il~  114 (677)
T smart00242       81 NAYRNMLN---DKENQSIIISGESGAGKTENTKKIMQ  114 (677)
T ss_pred             HHHHHHHH---CCCCCEEEEECCCCCCHHHHHHHHHH
T ss_conf             99999986---39992799968898887799999999


No 401
>TIGR00603 rad25 DNA repair helicase rad25; InterPro: IPR001161   Xeroderma pigmentosum (XP)  is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. People's skin cells with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-G is one of the most rare and phenotypically heterogeneous of XP, showing anything from slight to extreme dysfunction in DNA excision repair , . XP-G can be corrected by a 133 Kd nuclear protein, XPGC . XPGC is an acidic protein that confers normal UV resistance in expressing cells . It is a magnesium-dependent, single-strand DNA endonuclease that makes structure-specific endonucleolytic incisions in a DNA substrate containing a duplex region and single-stranded arms , . XPGC cleaves one strand of the duplex at the border with the single-stranded region .   XPG belongs to a family of proteins that includes RAD2 from Saccharomyces cerevisiae (Baker's yeast) and rad13 from Schizosaccharomyces pombe (Fission yeast), which are single-stranded DNA endonucleases , ; mouse and human FEN-1, a structure-specific endonuclease; RAD2 from fission yeast and RAD27 from budding yeast; fission yeast exo1, a 5'-3' double-stranded DNA exonuclease that may act in a pathway that corrects mismatched base pairs; yeast DHS1, and yeast DIN7. Sequence alignment of this family of proteins reveals that similarities are largely confined to two regions. The first is located at the N-terminal extremity (N-region) and corresponds to the first 95 to 105 amino acids. The second region is internal (I-region) and found towards the C-terminus; it spans about 140 residues and contains a highly conserved core of 27 amino acids that includes a conserved pentapeptide (E-A-[DE]-A-[QS]). It is possible that the conserved acidic residues are involved in the catalytic mechanism of DNA excision repair in XPG. The amino acids linking the N- and I-regions are not conserved.   This entry represents XP group B (XP-B) give rise to both XP and Cockayne syndrome . The DNA/RNA helicase domain IPR001650 from INTERPRO is also present in this group of proteins.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding, 0006289 nucleotide-excision repair, 0005634 nucleus.
Probab=86.14  E-value=1.1  Score=23.79  Aligned_cols=113  Identities=16%  Similarity=0.216  Sum_probs=75.9

Q ss_pred             HHHHHHHHHHHHHCCC-CEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHH--CCCCEEEEEEECC
Q ss_conf             3899999999887397-337998633764699999999971997899931634689999999986--7898389986213
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE-KVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNF--FPHNAVEYFVSYY  229 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~-~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~--Fp~n~V~~f~S~~  229 (805)
                      |.+-+.  .+=+-+|. |.=+.-===|.|||.|=..+.-.+.|.+|||.-.-----|=-..|+-+  .-+..++.|-|= 
T Consensus       274 QEKSLr--sKMFGNGRARSGiIVLPCGAGKsLVGvTAACTvkKs~lVLctS~VSV~QW~~QFk~WSti~d~~IcrFTSD-  350 (756)
T TIGR00603       274 QEKSLR--SKMFGNGRARSGIIVLPCGAGKSLVGVTAACTVKKSVLVLCTSAVSVEQWKQQFKLWSTIDDSQICRFTSD-  350 (756)
T ss_pred             HHHHCC--CCCCCCCCCCCCCEECCCCCCCCHHHHHHHEEEEEEEEEEECCCHHHHHHHHHHHHCCCCCCCCCCCCCCC-
T ss_conf             111044--45667861105517767788831122544202310078972671008899988752268873551102521-


Q ss_pred             CCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHH-CCCC-C-----HHHH-----HCCEEEE
Q ss_conf             4444210155543210221035889999999999998549984998277896-1689-8-----3477-----2257999
Q gi|254780991|r  230 DYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCI-YGIG-S-----VESY-----SQMIVQL  297 (805)
Q Consensus       230 ~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAI-fgl~-~-----P~~~-----lglIIvd  297 (805)
                                                .++|       ..|.+.|||.|-|=| |+-- +     -.++     -|+||.|
T Consensus       351 --------------------------~Ke~-------~~~~~gv~vsTYsMva~t~kRS~es~k~m~~l~~rEWGl~~LD  397 (756)
T TIGR00603       351 --------------------------AKEK-------FHGEAGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLD  397 (756)
T ss_pred             --------------------------CCCC-------CCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHCCCCEEEEEC
T ss_conf             --------------------------3576-------2665335887330002475431889999999706873179861


Q ss_pred             ECCC
Q ss_conf             4198
Q gi|254780991|r  298 KIGD  301 (805)
Q Consensus       298 Eehd  301 (805)
                      |+|=
T Consensus       398 EVHv  401 (756)
T TIGR00603       398 EVHV  401 (756)
T ss_pred             CCCC
T ss_conf             1010


No 402
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=86.08  E-value=1.5  Score=22.55  Aligned_cols=97  Identities=25%  Similarity=0.293  Sum_probs=49.8

Q ss_pred             CHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC--CCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECC
Q ss_conf             43899999999887397337998633764699999999971--9978999316346899999999867898389986213
Q gi|254780991|r  152 DQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM--QRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYY  229 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~--gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~  229 (805)
                      ||.+.+..++.+    ....|+-|=||||||-+.-.+....  ..-++.+  |=+.--|+      --| +.|.+ ... 
T Consensus       161 ~~a~~L~~av~~----r~NILisGGTGSGKTTlLNal~~~i~~~eRvIti--EDtaELql------~~p-h~vrL-~TR-  225 (355)
T COG4962         161 RAAKFLRRAVGI----RCNILISGGTGSGKTTLLNALSGFIDSDERVITI--EDTAELQL------AHP-HVVRL-ETR-  225 (355)
T ss_pred             HHHHHHHHHHHH----CEEEEEECCCCCCHHHHHHHHHHCCCCCCEEEEE--EEHHHHCC------CCC-CEEEE-EEC-
T ss_conf             999999999862----0159996787887999999997157976508998--12366446------998-55788-634-


Q ss_pred             CCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHH
Q ss_conf             444421015554321022103588999999999999854998499827789
Q gi|254780991|r  230 DYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSC  280 (805)
Q Consensus       230 ~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSA  280 (805)
                          |    |.    +|-.-.     -.||--.-++|.-+.|.||||-+--
T Consensus       226 ----~----~n----~Eg~ge-----vtm~dLvkn~LRmRPDRIiVGEVRG  259 (355)
T COG4962         226 ----P----PN----VEGTGE-----VTMRDLVKNALRMRPDRIIVGEVRG  259 (355)
T ss_pred             ----C----CC----CCCCCE-----EEHHHHHHHHHHCCCCCEEEEEECC
T ss_conf             ----8----87----777655-----8899999987532865368888607


No 403
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=85.97  E-value=1  Score=23.84  Aligned_cols=16  Identities=19%  Similarity=0.349  Sum_probs=9.8

Q ss_pred             CCCCCCCCCCCCCCCC
Q ss_conf             5554544468675420
Q gi|254780991|r  522 RPTTIVVSATPGSWEL  537 (805)
Q Consensus       522 ~~~~~~~satPg~~e~  537 (805)
                      ..++.|.|..||+=..
T Consensus       292 tG~cLYISGVPGTGKT  307 (650)
T PTZ00112        292 TGQILYISGVPGTGKT  307 (650)
T ss_pred             CCCEEEEECCCCCCCH
T ss_conf             6656999789999800


No 404
>PRK13873 conjugal transfer ATPase TrbE; Provisional
Probab=85.97  E-value=1.7  Score=22.32  Aligned_cols=36  Identities=11%  Similarity=0.145  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHHHHHHCCCCCCCCHHHH--HHCCCCCCC
Q ss_conf             124444777753321120145101133--311446555
Q gi|254780991|r  421 RLEQRITYDLEMLETTGSCQSIENYSR--YLTGRNPGE  456 (805)
Q Consensus       421 rL~qR~~~dle~l~e~G~~~gienyS~--~L~~r~~ge  456 (805)
                      .+.++....--.++..|+...+|....  -+.+.-||+
T Consensus       345 ~l~~~~~~v~~~l~~~Gf~~~~Etlna~~A~~aqLPGn  382 (815)
T PRK13873        345 VADEKLRLVEKVIQGRDFTCMPETLNAVEAWLGSLPGH  382 (815)
T ss_pred             HHHHHHHHHHHHHHHCCCEEEEECCCCHHHHHHHCCCC
T ss_conf             99999999999998589579981312199998609998


No 405
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=85.96  E-value=2.1  Score=21.56  Aligned_cols=35  Identities=31%  Similarity=0.480  Sum_probs=28.2

Q ss_pred             HHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC
Q ss_conf             999999887397337998633764699999999971
Q gi|254780991|r  157 IAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM  192 (805)
Q Consensus       157 i~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~  192 (805)
                      |+....+++. .+...|.|+.|+|||++--.+...+
T Consensus       184 i~~~~~sLkt-KknvIL~G~pGtGKT~lAk~lA~~l  218 (459)
T PRK11331        184 IETILKRLTI-KKNIILQGPPGVGKTFVARRLAYLL  218 (459)
T ss_pred             HHHHHHHHCC-CCCEEEECCCCCCHHHHHHHHHHHH
T ss_conf             9999998545-8827965899988789999999997


No 406
>pfam01443 Viral_helicase1 Viral (Superfamily 1) RNA helicase. Helicase activity for this family has been demonstrated and NTPase activity. This helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis.
Probab=85.92  E-value=0.79  Score=24.72  Aligned_cols=29  Identities=28%  Similarity=0.516  Sum_probs=21.3

Q ss_pred             EEEEECCCCHHHHHHHHHHHCCCCEEEEECCH
Q ss_conf             99863376469999999997199789993163
Q gi|254780991|r  172 LLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNK  203 (805)
Q Consensus       172 lL~GVTGSGKTevya~lI~~~gr~aLvLvPei  203 (805)
                      +.|||-|||||-..-+++.+..   ++++|..
T Consensus         2 vV~gvpGsGKSt~I~~l~~~~~---~~~~p~~   30 (226)
T pfam01443         2 VVHGVPGCGKSTLIRKLLRTDL---TVIRPTA   30 (226)
T ss_pred             EEEECCCCCHHHHHHHHHHHCC---CCCCCCH
T ss_conf             5940799988999999986478---6423227


No 407
>PRK03846 adenylylsulfate kinase; Provisional
Probab=85.71  E-value=1.1  Score=23.67  Aligned_cols=76  Identities=14%  Similarity=0.225  Sum_probs=45.2

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCCCH
Q ss_conf             33799863376469999999997---199789993163468999999998678983899862134444210155543210
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAYVPRTDTYI  245 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yqpEay~p~~d~~i  245 (805)
                      ...+|.|..|||||-+--.+.++   .|.++++|=-         ++||..|..+-     + |+               
T Consensus        25 ~viWlTGLSGSGKTTlA~~L~~~L~~~~~~~~~LDG---------D~lR~~l~~dl-----g-fs---------------   74 (198)
T PRK03846         25 VVLWFTGLSGSGKSTVAGALEEALHELGVHTYLLDG---------DNVRHGLCSDL-----G-FS---------------   74 (198)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECH---------HHHHHHHCCCC-----C-CC---------------
T ss_conf             699987999998899999999999975997599777---------99987436678-----9-89---------------


Q ss_pred             HHHCCCCHHHH-HHHHHHHHHHHCCCCEEEECCHH
Q ss_conf             22103588999-99999999985499849982778
Q gi|254780991|r  246 EKESSINEQID-RMRHSATRSLLERNDCIVVSSVS  279 (805)
Q Consensus       246 ~k~~s~n~~i~-~~R~~a~~~l~~~~~~IVVgsrS  279 (805)
                           ..+..+ ..|+.....++...-.|||.|.=
T Consensus        75 -----~~dR~~n~~r~~~lak~l~~~G~iVIvs~I  104 (198)
T PRK03846         75 -----DADRKENIRRVGEVAKLMVDAGLVVLTAFI  104 (198)
T ss_pred             -----HHHHHHHHHHHHHHHHHHHHCCCEEEECCC
T ss_conf             -----999999999999999999858983664147


No 408
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=85.70  E-value=1  Score=23.85  Aligned_cols=31  Identities=32%  Similarity=0.475  Sum_probs=24.2

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHHCCCCEEEE
Q ss_conf             3379986337646999999999719978999
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEAMQRPAIVM  199 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~~gr~aLvL  199 (805)
                      .--||.|=||||||++.=.+.+-++-|-.+.
T Consensus       110 sNILliGPTG~GKTlla~tLAk~l~vPF~ia  140 (411)
T PRK05342        110 SNILLIGPTGSGKTLLAQTLARILNVPFAIA  140 (411)
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHHCCCEEEE
T ss_conf             5389989999778899999999869998998


No 409
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=85.67  E-value=1.3  Score=23.05  Aligned_cols=35  Identities=17%  Similarity=0.215  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHC
Q ss_conf             999999999719978999316346899999999867
Q gi|254780991|r  182 TFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFF  217 (805)
Q Consensus       182 Tevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~F  217 (805)
                      -++|+++-.+.+. -+.|.-|==-++.+++-....|
T Consensus       427 i~~yl~a~~~~~~-~~~L~~NfRS~~~vv~~vN~lF  461 (1181)
T PRK10876        427 IFTYMKARSEVSA-HYTLDTNWRSAPGMVNSVNKLF  461 (1181)
T ss_pred             HHHHHHHHHCCCC-EEECCCCCCCCHHHHHHHHHHH
T ss_conf             9999986324355-3588768899479999999999


No 410
>PRK00889 adenylylsulfate kinase; Provisional
Probab=85.62  E-value=1.1  Score=23.56  Aligned_cols=81  Identities=21%  Similarity=0.248  Sum_probs=45.8

Q ss_pred             CCCCEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCC
Q ss_conf             39733799863376469999999997---199789993163468999999998678983899862134444210155543
Q gi|254780991|r  166 SREKVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAYVPRTD  242 (805)
Q Consensus       166 ~g~~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yqpEay~p~~d  242 (805)
                      +| ...+|.|..|||||-+--.+.++   .+.++++|=-         +.+|..|..+.     +|              
T Consensus         3 kg-~viWltGlsgSGKTTia~~l~~~L~~~~~~~~~LDG---------D~lR~~l~~~l-----gf--------------   53 (175)
T PRK00889          3 RG-VTVWFTGLSGAGKTTISHALAEKLRARGYPVEVLDG---------DIVRTNLSKGL-----GF--------------   53 (175)
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECC---------HHHHHHHCCCC-----CC--------------
T ss_conf             88-899988989999999999999999986996799776---------88887536788-----98--------------


Q ss_pred             CCHHHHCCCCHHHH-HHHHHHHHHHHCCCCEEEECCHHHHC
Q ss_conf             21022103588999-99999999985499849982778961
Q gi|254780991|r  243 TYIEKESSINEQID-RMRHSATRSLLERNDCIVVSSVSCIY  282 (805)
Q Consensus       243 ~~i~k~~s~n~~i~-~~R~~a~~~l~~~~~~IVVgsrSAIf  282 (805)
                             +..+..+ ..|......++.+.-.+||.|.-+.|
T Consensus        54 -------s~~dR~~n~~r~~~la~~l~~~g~~vIvs~isp~   87 (175)
T PRK00889         54 -------SKEDRDTNIRRIGFVAHLLTRHGVIVLVSAISPY   87 (175)
T ss_pred             -------CHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCC
T ss_conf             -------9899999999999999999818986888504799


No 411
>TIGR01846 type_I_sec_HlyB type I secretion system ATPase; InterPro: IPR010132   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 entry contains 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, 0008565 protein transporter activity, 0015031 protein transport, 0016021 integral to membrane.
Probab=85.21  E-value=2.6  Score=20.87  Aligned_cols=95  Identities=24%  Similarity=0.354  Sum_probs=62.6

Q ss_pred             HHHCCHH----HHHHHHHHHHHCCCHHHHCCCCCCCCCCCCCCCCC-------CCCCCEEEEECCCCCCCHHHHHHHHHH
Q ss_conf             1114755----89999999987396032057402666788874215-------887754775188888843899999999
Q gi|254780991|r   94 ISEQTMT----PSVQALARLIQSDNPLLKNGKIWTPHRSWSINNHS-------KDITFFQMQTDYHPSGDQPAAIAQLLK  162 (805)
Q Consensus        94 ~~~~~~~----~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~f~l~~~~~P~gdQ~~Ai~~L~~  162 (805)
                      |+++-||    ..+|.=||-=.-+.-+.|-|++-..=+.+.++.+.       |.++.=....=|.|  |+|+-|+.|.=
T Consensus       409 MlAG~V~~PvlRLAQ~WQDFQq~~Ia~~RlGDiLn~P~E~~~d~g~aalP~l~G~i~F~nirFRY~p--D~PeVL~nl~L  486 (703)
T TIGR01846       409 MLAGRVSQPVLRLAQLWQDFQQVGIAIERLGDILNSPTEPSSDAGLAALPELKGSITFENIRFRYKP--DSPEVLSNLSL  486 (703)
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCC--CCCHHHHCCCC
T ss_conf             3136302358989987666887766653121005868488999873035422572678753314688--87178732687


Q ss_pred             HHHCCCCEEEEEEECCCCHHHHHHHHHHHC
Q ss_conf             887397337998633764699999999971
Q gi|254780991|r  163 GIHSREKVQLLLGVTGSGKTFTMAKVIEAM  192 (805)
Q Consensus       163 ~l~~g~~~qlL~GVTGSGKTevya~lI~~~  192 (805)
                      .|+.|+ .-=.-|=.||||. |..+++++.
T Consensus       487 ~I~~Ge-~IGIvGpSGSGKS-TLTKL~QRL  514 (703)
T TIGR01846       487 DIKPGE-VIGIVGPSGSGKS-TLTKLLQRL  514 (703)
T ss_pred             CCCCCE-EEEEECCCCCCHH-HHHHHHHHH
T ss_conf             657865-7998727898678-999998861


No 412
>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=85.19  E-value=0.36  Score=27.28  Aligned_cols=32  Identities=31%  Similarity=0.323  Sum_probs=21.4

Q ss_pred             EEECCCCHHHHHHHHHHHC----CCCEEEEECCHHH
Q ss_conf             8633764699999999971----9978999316346
Q gi|254780991|r  174 LGVTGSGKTFTMAKVIEAM----QRPAIVMAPNKIL  205 (805)
Q Consensus       174 ~GVTGSGKTevya~lI~~~----gr~aLvLvPei~L  205 (805)
                      +=.||||||.|||.+|-+.    =|.-|+.|---..
T Consensus         3 ~matgsgkt~~ma~lil~~y~kgyr~flffvnq~ni   38 (812)
T COG3421           3 EMATGSGKTLVMAGLILECYKKGYRNFLFFVNQANI   38 (812)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHCHHHEEEEECCHHH
T ss_conf             433588700599999999997340418998521168


No 413
>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=85.17  E-value=1.6  Score=22.49  Aligned_cols=79  Identities=16%  Similarity=0.237  Sum_probs=44.3

Q ss_pred             CEEEEEEECCCCHHHHHHHHHH---HCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCCCH
Q ss_conf             3379986337646999999999---7199789993163468999999998678983899862134444210155543210
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIE---AMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAYVPRTDTYI  245 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~---~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yqpEay~p~~d~~i  245 (805)
                      ...++.|..|||||.+--.+-+   +.++++++|=-         +++|.-|..+        ++|+             
T Consensus         3 ~viW~TGLsGsGKTTlA~~l~~~L~~~~~~~~~LDG---------D~~R~~l~~d--------lgys-------------   52 (157)
T pfam01583         3 CTVWFTGLSGSGKSTIANALERKLFAQGISVYVLDG---------DNVRHGLNKD--------LGFS-------------   52 (157)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECC---------HHHHCCCCCC--------CCCC-------------
T ss_conf             899988989999999999999999975997799768---------8775012577--------7989-------------


Q ss_pred             HHHCCCCHHHH-HHHHHHHHHHHCCCCEEEECCHHHHC
Q ss_conf             22103588999-99999999985499849982778961
Q gi|254780991|r  246 EKESSINEQID-RMRHSATRSLLERNDCIVVSSVSCIY  282 (805)
Q Consensus       246 ~k~~s~n~~i~-~~R~~a~~~l~~~~~~IVVgsrSAIf  282 (805)
                           ..+..+ ..|+.....++...-.+||.+.-+.|
T Consensus        53 -----~~~R~~n~~r~~~lak~l~~~g~~VIvs~isp~   85 (157)
T pfam01583        53 -----EEDRTENIRRIAEVAKLFADAGLIVITSFISPY   85 (157)
T ss_pred             -----HHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCC
T ss_conf             -----899999999999999998428965887215789


No 414
>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=84.93  E-value=1.3  Score=23.07  Aligned_cols=40  Identities=25%  Similarity=0.334  Sum_probs=30.7

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHH
Q ss_conf             337998633764699999999971997899931634689999999
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEF  213 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rf  213 (805)
                      +-.++.|=|+||||.+-+++.++.|-+++-+     =..|.|..+
T Consensus         4 ~~i~I~GPTAsGKT~lai~LAk~~~~eIIs~-----DSmQvYr~m   43 (308)
T COG0324           4 KLIVIAGPTASGKTALAIALAKRLGGEIISL-----DSMQVYRGL   43 (308)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHCCCCEEEC-----CHHHHCCCC
T ss_conf             3799989887577899999999829928930-----235531888


No 415
>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=84.68  E-value=2.7  Score=20.70  Aligned_cols=23  Identities=26%  Similarity=0.404  Sum_probs=17.6

Q ss_pred             EEEEECCCCHHHHHHHHHHHCCC
Q ss_conf             99863376469999999997199
Q gi|254780991|r  172 LLLGVTGSGKTFTMAKVIEAMQR  194 (805)
Q Consensus       172 lL~GVTGSGKTevya~lI~~~gr  194 (805)
                      -+-|-+|||||.+--.+.+..++
T Consensus         3 gIaG~SgSGKTT~a~~L~~~l~~   25 (196)
T pfam00485         3 GVAGSSGAGKTTVARTFVSIFGR   25 (196)
T ss_pred             EEECCCCCCHHHHHHHHHHHHCC
T ss_conf             99899857199999999999660


No 416
>TIGR00929 VirB4_CagE type IV secretion/conjugal transfer ATPase, VirB4 family; InterPro: IPR004346   This family includes the Helicobacter pylori protein CagE (see examples), which together with other proteins from the cag pathogenicity island (PAI), encodes a type IV transporter secretion system. The precise role of CagE is not known, but studies in animal models have shown that it is essential for pathogenesis in Helicobacter pylori induced gastritis and peptic ulceration . Indeed, the expression of the cag PAI has been shown to be essential for stimulating human gastric epithelial cell apoptosis in vitro .    Similar type IV transport systems are also found in other bacteria. This family includes proteins from the trb and Vir conjugal transfer systems in Agrobacterium tumefaciens and homologues of VirB proteins from other species.; GO: 0005524 ATP binding.
Probab=84.64  E-value=0.84  Score=24.53  Aligned_cols=53  Identities=23%  Similarity=0.263  Sum_probs=34.4

Q ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCC
Q ss_conf             88775477518888884389999999988739733799863376469999999997199
Q gi|254780991|r  136 KDITFFQMQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQR  194 (805)
Q Consensus       136 ~~~~~f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr  194 (805)
                      .+++||-++--....++.+ | +..    ..-..++++.|-||||||-.+-=++++++|
T Consensus       490 ~~gtPfyfNFH~~~~~~~~-A-~~~----~r~~GhT~IfG~~G~GKTtLl~fL~a~~~k  542 (931)
T TIGR00929       490 QSGTPFYFNFHVRDAKEKN-A-DEG----KRVLGHTLIFGPTGSGKTTLLNFLLAQLQK  542 (931)
T ss_pred             CCCCCEECCCCCCCCCCCC-C-CCC----HHHCCCEEEECCCCCCHHHHHHHHHHHHHC
T ss_conf             7898602245457212465-0-003----110387778888898469999999999742


No 417
>PRK09270 frcK putative fructose transport system kinase; Reviewed
Probab=84.62  E-value=2.8  Score=20.68  Aligned_cols=48  Identities=21%  Similarity=0.304  Sum_probs=24.9

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHH----HHCCCCEE-EEEEECCCCHHHHHHHHHHHC
Q ss_conf             547751888888438999999998----87397337-998633764699999999971
Q gi|254780991|r  140 FFQMQTDYHPSGDQPAAIAQLLKG----IHSREKVQ-LLLGVTGSGKTFTMAKVIEAM  192 (805)
Q Consensus       140 ~f~l~~~~~P~gdQ~~Ai~~L~~~----l~~g~~~q-lL~GVTGSGKTevya~lI~~~  192 (805)
                      .|.....|.     ++.+++|..-    ...+.+.- =+-|.+|||||-+--.+.+.+
T Consensus         6 ~~~~~~~~~-----~~~~~~~~~~~~~~~~~~rR~lIgIaG~pGSGKSTlA~~l~~~L   58 (230)
T PRK09270          6 GLDVQAQYL-----DELIEEVHKPLMLAAEPQRRTVVGIAGPPGAGKSTLAETLWEAL   58 (230)
T ss_pred             CEEEEEEEC-----HHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             616674514-----56689999999871599971899998999889999999999998


No 418
>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=84.61  E-value=1.9  Score=21.83  Aligned_cols=33  Identities=24%  Similarity=0.460  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHHCC-CCEEEEEEECCCCHHHHHHHHHH
Q ss_conf             9999999988739-73379986337646999999999
Q gi|254780991|r  155 AAIAQLLKGIHSR-EKVQLLLGVTGSGKTFTMAKVIE  190 (805)
Q Consensus       155 ~Ai~~L~~~l~~g-~~~qlL~GVTGSGKTevya~lI~  190 (805)
                      .|...+..   .+ .+..++.|-+||||||.--.+++
T Consensus        75 ~Ay~~m~~---~~~~QsIiisGESGaGKTes~K~il~  108 (679)
T cd00124          75 RAYRNMLR---DRRNQSIIISGESGAGKTENTKLIMK  108 (679)
T ss_pred             HHHHHHHH---CCCCCEEEEECCCCCCHHHHHHHHHH
T ss_conf             99999986---39996799967898888899999999


No 419
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=84.45  E-value=2.8  Score=20.63  Aligned_cols=70  Identities=19%  Similarity=0.217  Sum_probs=54.9

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHH---HHHHHCCC--CEEEEECCHHHHHHHHHHHHHHC
Q ss_conf             888843899999999887397337998633764699999---99997199--78999316346899999999867
Q gi|254780991|r  148 HPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMA---KVIEAMQR--PAIVMAPNKILAAQLYSEFKNFF  217 (805)
Q Consensus       148 ~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya---~lI~~~gr--~aLvLvPei~La~QL~~rfk~~F  217 (805)
                      .-|.||.+|++.+..-++.+.+..+|..--|=||+-..=   .++.+.+.  .++|-+|++.-+..|..-...-|
T Consensus       211 ~~T~dQ~~~l~~~~~l~~~~~~~~vlTAdRGRGKSA~lGi~~~~~~~~~~~~~iiVTAP~~~nv~~Lf~fa~~~l  285 (758)
T COG1444         211 CLTEDQAEALEILERLLDAPKRALVLTADRGRGKSAALGIALAAAARLAGSVRIIVTAPTPANVQTLFEFAGKGL  285 (758)
T ss_pred             HCCHHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHH
T ss_conf             037518999999999970898359998677874768874999999973377208996797788999999998769


No 420
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=84.44  E-value=2.4  Score=21.09  Aligned_cols=41  Identities=29%  Similarity=0.479  Sum_probs=33.5

Q ss_pred             CHHHHHHHHHHHHHCCC--CEEEEEEECCCCHHHHHHHHHHHC
Q ss_conf             43899999999887397--337998633764699999999971
Q gi|254780991|r  152 DQPAAIAQLLKGIHSRE--KVQLLLGVTGSGKTFTMAKVIEAM  192 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~--~~qlL~GVTGSGKTevya~lI~~~  192 (805)
                      -|+.|++.|...+.+|.  +..+++|-.|+||+.+-...++..
T Consensus         8 Gq~~~~~~L~~ai~~~rl~hAyLF~Gp~G~GK~~~A~~fa~~L   50 (314)
T PRK07399          8 GQPLAIELLTAAIEQNRIAPAYLFAGPEGVGRKLAALRFIEGL   50 (314)
T ss_pred             CCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             9499999999999859967448778999832999999999998


No 421
>TIGR00609 recB exodeoxyribonuclease V, beta subunit; InterPro: IPR004586   Exodeoxyribonuclease V, or RecBCD holoenzyme, (3.1.11.5 from EC) is a multifunctional nuclease with potent ATP-dependent exodeoxyribonuclease activity. Ejection of RecD, as occurs at chi recombinational hotspots, cripples exonuclease activity in favor of recombinagenic helicase activity. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. The complex catalyses exonucleolytic cleavage in either the 5' to 3' or 3' to 5' direction to yield 5-phosphooligonucleotides in the presence of ATP. This is the beta subunit .; GO: 0005524 ATP binding, 0008854 exodeoxyribonuclease V activity, 0006281 DNA repair.
Probab=84.30  E-value=1.8  Score=22.00  Aligned_cols=153  Identities=15%  Similarity=0.087  Sum_probs=77.0

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHH----CC------C-----CEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEEC-----
Q ss_conf             33799863376469999999997----19------9-----7899931634689999999986789838998621-----
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEA----MQ------R-----PAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSY-----  228 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~----~g------r-----~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~-----  228 (805)
                      ...||=-=-|+||||+.++|+=+    .|      |     .+||++=+.+-|.-|..|.|+... +++..+..+     
T Consensus        10 g~~LiEASAGTGKTFtI~~l~lRlll~~gg~~~F~~~~~v~eiLVvTFT~AAT~ELk~RIr~~i~-~a~~~~~~~Giakl   88 (1324)
T TIGR00609        10 GTFLIEASAGTGKTFTIAALYLRLLLEGGGENAFKRPLTVEEILVVTFTNAATEELKTRIRERIH-EALRALKAKGIAKL   88 (1324)
T ss_pred             CCEEEEEECCCHHHHHHHHHHHHHHHHCCCHHHCCCCCCCCCEEEEHHHHHHHHHHHHHHHHHHH-HHHHHHHHCCCHHH
T ss_conf             40688741761489999999999998515122024434612121112227888998899888899-99999864573020


Q ss_pred             --------CCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHC-CCCEEEECC--HHHHCCCCCHHHHHCCEEEE
Q ss_conf             --------3444421015554321022103588999999999999854-998499827--78961689834772257999
Q gi|254780991|r  229 --------YDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLE-RNDCIVVSS--VSCIYGIGSVESYSQMIVQL  297 (805)
Q Consensus       229 --------~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~-~~~~IVVgs--rSAIfgl~~P~~~lglIIvd  297 (805)
                              ...||-|.-.+..+++..--..++.. ...+...|.+... .=|.--|-|  =+|=+    ++.-.+-    
T Consensus        89 GddtlsdGiaay~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~l~~A~~~~D~a~i~TIHgfC~~----~L~~~~f----  159 (1324)
T TIGR00609        89 GDDTLSDGIAAYCEEHEETSDELPELLLEAIQDE-KVKQAISRLRLALATLDEAAIYTIHGFCQR----MLEQYAF----  159 (1324)
T ss_pred             CCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHH----
T ss_conf             3203456689987425668873246888873475-488999999999987547664466334356----6775323----


Q ss_pred             ECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCC
Q ss_conf             419811178753234311765633877545331872
Q gi|254780991|r  298 KIGDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCG  333 (805)
Q Consensus       298 Eehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg  333 (805)
                       ..+.++.+.+......+.+.. -.+++|..|..-+
T Consensus       160 -~~~~~f~~~l~~~~~~l~~~~-~~df~r~~f~~~~  193 (1324)
T TIGR00609       160 -ESDEIFEQELIEDESLLLAEI-VKDFWRRNFYNLP  193 (1324)
T ss_pred             -HHCCCHHHHCCCCHHHHHHHH-HHHHHHHHCCCCH
T ss_conf             -203300021035877999999-9999986304664


No 422
>pfam01121 CoaE Dephospho-CoA kinase. This family catalyses the phosphorylation of the 3'-hydroxyl group of dephosphocoenzyme A to form Coenzyme A EC:2.7.1.24. This enzyme uses ATP in its reaction.
Probab=84.17  E-value=0.93  Score=24.19  Aligned_cols=47  Identities=21%  Similarity=0.343  Sum_probs=32.6

Q ss_pred             EEEECCCCHHHHHHHHHHHCCCCEEE---EECCHHHH-HHHHHHHHHHCCCC
Q ss_conf             98633764699999999971997899---93163468-99999999867898
Q gi|254780991|r  173 LLGVTGSGKTFTMAKVIEAMQRPAIV---MAPNKILA-AQLYSEFKNFFPHN  220 (805)
Q Consensus       173 L~GVTGSGKTevya~lI~~~gr~aLv---LvPei~La-~QL~~rfk~~Fp~n  220 (805)
                      |.|--|||||.| ++.+++.|-+++-   +++++-.. +..+..++..||.+
T Consensus         5 iTG~IgsGKStv-~~~l~~~G~~vidaD~i~~~l~~~~~~~~~~i~~~fg~~   55 (179)
T pfam01121         5 LTGGIGSGKSTV-ANLFADLGVPIVDADVIARQVVEPGSPALAAIVDHFGPD   55 (179)
T ss_pred             EECCCCCCHHHH-HHHHHHCCCCEEECHHHHHHHHHCCHHHHHHHHHHHCHH
T ss_conf             857864789999-999998799199180999999865858999999981998


No 423
>PRK05201 hslU ATP-dependent protease ATP-binding subunit; Provisional
Probab=84.10  E-value=1.4  Score=22.84  Aligned_cols=31  Identities=32%  Similarity=0.435  Sum_probs=25.2

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHHCCCCEEEE
Q ss_conf             3379986337646999999999719978999
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEAMQRPAIVM  199 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~~gr~aLvL  199 (805)
                      +--||.|=||+||||+.=.+.+=++-|-+..
T Consensus        51 kNILmIGPTGvGKTeIARrLAkl~~aPFvkv   81 (442)
T PRK05201         51 KNILMIGPTGVGKTEIARRLAKLANAPFIKV   81 (442)
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHHCCCEEEE
T ss_conf             3168878888667899999999848985875


No 424
>pfam02534 TraG TraG/TraD family. These proteins contain a P-loop and walker-B site for nucleotide binding. TraG is essential for DNA transfer in bacterial conjugation. These proteins are thought to mediate interactions between the DNA-processing (Dtr) and the mating pair formation (Mpf) systems.
Probab=84.06  E-value=2.9  Score=20.51  Aligned_cols=57  Identities=18%  Similarity=0.151  Sum_probs=41.1

Q ss_pred             CCCCEEEEEEECCCCHHHHH--HHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEE
Q ss_conf             39733799863376469999--9999971997899931634689999999986789838998
Q gi|254780991|r  166 SREKVQLLLGVTGSGKTFTM--AKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYF  225 (805)
Q Consensus       166 ~g~~~qlL~GVTGSGKTevy--a~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f  225 (805)
                      .+.++.++.|=||||||.-+  =+++ ..+-+++|+=|---|...+..-++++ |. .|.+|
T Consensus        42 ~~~~H~lviaptgsGKt~~~ViPnLl-~~~~S~VV~DpKGEl~~~Ta~~r~~~-G~-~V~v~  100 (468)
T pfam02534        42 GDFSHVLVFAGTGSGKGVGVVIPNLL-VWKGSIVVLDPKGELWELTSGIREKQ-GR-KVFVL  100 (468)
T ss_pred             CCCCEEEEECCCCCCCCCCCHHHHHH-HCCCCEEEEECCHHHHHHHHHHHHHC-CC-EEEEE
T ss_conf             99767999848999723424298885-18997899948488999999999977-99-69999


No 425
>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=83.98  E-value=1.6  Score=22.36  Aligned_cols=58  Identities=31%  Similarity=0.398  Sum_probs=36.4

Q ss_pred             HHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCC-CEEEE---ECCHHHHHHHHHHHHHHC-CCCEEEEEEECC
Q ss_conf             99988739733799863376469999999997199-78999---316346899999999867-898389986213
Q gi|254780991|r  160 LLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQR-PAIVM---APNKILAAQLYSEFKNFF-PHNAVEYFVSYY  229 (805)
Q Consensus       160 L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr-~aLvL---vPei~La~QL~~rfk~~F-p~n~V~~f~S~~  229 (805)
                      |..++..+ +.-++-|=||||||=.+=.++....+ .=||.   ++|+.|          .+ | |.|.+|.|+-
T Consensus       151 l~~Ai~~~-knIii~GGTgSGKTTf~kal~~~IP~~ER~iTIED~~E~~~----------~hhp-N~V~L~ysk~  213 (328)
T TIGR02788       151 LRLAIASR-KNIIISGGTGSGKTTFLKALVKEIPKDERLITIEDTRELFL----------PHHP-NKVHLFYSKG  213 (328)
T ss_pred             HHHHHHCC-CEEEEEECCCCHHHHHHHHHHHCCCCCCCEEEEEEEECCCC----------CCCC-CEEEEEECCC
T ss_conf             99998738-91999906897189999999732762252788852011478----------8898-6456553464


No 426
>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=83.97  E-value=0.7  Score=25.15  Aligned_cols=83  Identities=17%  Similarity=0.278  Sum_probs=57.9

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHC-----CCCEEEEECCHHHHHHHHHHHHH
Q ss_conf             4775188888843899999999887397337998633764699999999971-----99789993163468999999998
Q gi|254780991|r  141 FQMQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAM-----QRPAIVMAPNKILAAQLYSEFKN  215 (805)
Q Consensus       141 f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~-----gr~aLvLvPei~La~QL~~rfk~  215 (805)
                      =.|...|.+  +|+.+++.+.=.++.|++ .-+.|=|||||| |.++++...     |.=+|==+|=-++...-+.+.-+
T Consensus       363 ~~ls~~~pg--~~~~vl~~V~L~l~~G~r-~Ai~G~SG~GKs-TLL~~L~G~l~P~~G~vtl~G~~~~~~~~~evrr~v~  438 (566)
T TIGR02868       363 RDLSVGYPG--APPNVLDGVSLDLPPGER-VAILGPSGSGKS-TLLATLAGLLDPLQGEVTLDGVPVSSLSEDEVRRRVS  438 (566)
T ss_pred             EEEEEECCC--CCHHHHCCCCCCCCCCCC-EEEECCCCCCHH-HHHHHHHHHCCCCCCCEEECCCCHHHCCCCHHEHHEE
T ss_conf             877652698--734654278641138860-898668876578-9999998402899991787773243257311000003


Q ss_pred             HCCCCEEEEEEEC
Q ss_conf             6789838998621
Q gi|254780991|r  216 FFPHNAVEYFVSY  228 (805)
Q Consensus       216 ~Fp~n~V~~f~S~  228 (805)
                      +|+. ...+|.+=
T Consensus       439 ~~aQ-~aHlF~tt  450 (566)
T TIGR02868       439 VFAQ-DAHLFDTT  450 (566)
T ss_pred             ECCC-CCCCCCCC
T ss_conf             1278-86211054


No 427
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=83.95  E-value=2.8  Score=20.65  Aligned_cols=40  Identities=25%  Similarity=0.316  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHHHHCCC--CEEEEEEECCCCHHHHHHHHHHHC
Q ss_conf             3899999999887397--337998633764699999999971
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE--KVQLLLGVTGSGKTFTMAKVIEAM  192 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~--~~qlL~GVTGSGKTevya~lI~~~  192 (805)
                      |..+++.|...+..|.  +..|++|--|+|||-+-.-+.+.+
T Consensus        19 Qe~iv~~L~nAi~~~Rl~HAYLFsGPrGvGKTt~ArifAkaL   60 (523)
T PRK08451         19 QESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFSRAL   60 (523)
T ss_pred             CHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             499999999999859967158757899868899999999997


No 428
>pfam00063 Myosin_head Myosin head (motor domain).
Probab=83.90  E-value=2.3  Score=21.30  Aligned_cols=34  Identities=24%  Similarity=0.469  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHHHCC-CCEEEEEEECCCCHHHHHHHHHH
Q ss_conf             89999999988739-73379986337646999999999
Q gi|254780991|r  154 PAAIAQLLKGIHSR-EKVQLLLGVTGSGKTFTMAKVIE  190 (805)
Q Consensus       154 ~~Ai~~L~~~l~~g-~~~qlL~GVTGSGKTevya~lI~  190 (805)
                      ..|...+..   .+ .+..++.|-+||||||.--.++.
T Consensus        73 ~~Ay~~m~~---~~~~QsIiiSGESGAGKTes~K~il~  107 (679)
T pfam00063        73 DRAYRHMLR---DKENQCIVISGESGAGKTENTKKLMQ  107 (679)
T ss_pred             HHHHHHHHH---HCCCCEEEEECCCCCCHHHHHHHHHH
T ss_conf             999999997---08982799967886888999999999


No 429
>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=83.72  E-value=1.5  Score=22.58  Aligned_cols=77  Identities=21%  Similarity=0.336  Sum_probs=42.7

Q ss_pred             EEEEEECCCCHHHHHHHHHH---HCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCCCHHH
Q ss_conf             79986337646999999999---719978999316346899999999867898389986213444421015554321022
Q gi|254780991|r  171 QLLLGVTGSGKTFTMAKVIE---AMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAYVPRTDTYIEK  247 (805)
Q Consensus       171 qlL~GVTGSGKTevya~lI~---~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yqpEay~p~~d~~i~k  247 (805)
                      .++.|..|||||-+--.+-+   +.++++++|--         +++|+.|..+ .    + |+                 
T Consensus         2 iW~tGLsgsGKTTlA~~l~~~L~~~~~~~~~lDG---------D~iR~~l~~~-l----g-ys-----------------   49 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKLFQRGRPVYVLDG---------DNVRHGLNKD-L----G-FS-----------------   49 (149)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECC---------HHHHHHHCCC-C----C-CC-----------------
T ss_conf             8987999999999999999999986997599774---------8899773655-5----9-88-----------------


Q ss_pred             HCCCCHHHH-HHHHHHHHHHHCCCCEEEECCHHHHC
Q ss_conf             103588999-99999999985499849982778961
Q gi|254780991|r  248 ESSINEQID-RMRHSATRSLLERNDCIVVSSVSCIY  282 (805)
Q Consensus       248 ~~s~n~~i~-~~R~~a~~~l~~~~~~IVVgsrSAIf  282 (805)
                         ..+... ..|+.....++...-.+||.+.-+.|
T Consensus        50 ---~~~R~~n~~r~~~lak~l~~qg~~VIvs~isp~   82 (149)
T cd02027          50 ---REDREENIRRIAEVAKLLADAGLIVIAAFISPY   82 (149)
T ss_pred             ---HHHHHHHHHHHHHHHHHHHHCCCEEEEECCCCC
T ss_conf             ---788999999999999999837982788416788


No 430
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=83.59  E-value=2.4  Score=21.16  Aligned_cols=38  Identities=26%  Similarity=0.448  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHHHCCC--CEEEEEEECCCCHHHHHHHHHHH
Q ss_conf             3899999999887397--33799863376469999999997
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE--KVQLLLGVTGSGKTFTMAKVIEA  191 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~--~~qlL~GVTGSGKTevya~lI~~  191 (805)
                      |....+.|..+|..|.  +..|+.|.-|+|||- .|+++++
T Consensus        21 Q~~v~~~l~na~~~~r~~haylf~G~rG~GKtt-~ari~ak   60 (643)
T PRK07994         21 QEHVLTALANGLSLGRIHHAYLFSGTRGVGKTS-IARLLAK   60 (643)
T ss_pred             CHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHH-HHHHHHH
T ss_conf             799999999999829866348745899888889-9999999


No 431
>pfam07728 AAA_5 AAA domain (dynein-related subfamily). This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.
Probab=83.55  E-value=0.89  Score=24.33  Aligned_cols=29  Identities=31%  Similarity=0.578  Sum_probs=22.6

Q ss_pred             EEEEEECCCCHHHHHHHHHHHC-CCCEEEE
Q ss_conf             7998633764699999999971-9978999
Q gi|254780991|r  171 QLLLGVTGSGKTFTMAKVIEAM-QRPAIVM  199 (805)
Q Consensus       171 qlL~GVTGSGKTevya~lI~~~-gr~aLvL  199 (805)
                      .+|.|-+|+|||.+.-++.+.+ +++...+
T Consensus         2 vll~Gp~G~GKT~la~~la~~l~~~~~~~i   31 (139)
T pfam07728         2 VLLVGPPGTGKSELAERLAAALSNRPVFYV   31 (139)
T ss_pred             EEEECCCCCHHHHHHHHHHHHCCCCCCHHH
T ss_conf             899989975699999999998079831112


No 432
>TIGR02142 modC_ABC molybdate ABC transporter, ATP-binding protein; InterPro: IPR011868   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 cassette (ABC) protein of the three subunit molybdate ABC transporter. The three proteins of this complex are homologous to proteins of the sulphate ABC transporter. Molybdenum may be used in nitrogenases of nitrogen-fixing bacteria and in molybdopterin cofactors. In some cases, molybdate may be transported by a sulphate transporter rather than by a specific molybdate transporter.; GO: 0005524 ATP binding, 0015098 molybdate ion transmembrane transporter activity, 0015689 molybdate ion transport, 0009276 1-2nm peptidoglycan-based cell wall.
Probab=83.51  E-value=1.1  Score=23.57  Aligned_cols=115  Identities=25%  Similarity=0.280  Sum_probs=64.6

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCC---EEEEECCHHHHHHHHHHHHHH
Q ss_conf             54775188888843899999999887397337998633764699999999971997---899931634689999999986
Q gi|254780991|r  140 FFQMQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRP---AIVMAPNKILAAQLYSEFKNF  216 (805)
Q Consensus       140 ~f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~---aLvLvPei~La~QL~~rfk~~  216 (805)
                      .|+|..+|+-                .|...+=|+|..||||| +++++|+=+-||   -|+|                 
T Consensus        11 ~f~Ld~~~~~----------------pg~GvtAlFG~SGsGKT-tli~~iaGL~rp~~G~i~l-----------------   56 (361)
T TIGR02142        11 DFELDVDLTL----------------PGQGVTALFGRSGSGKT-TLIRLIAGLTRPDEGEIVL-----------------   56 (361)
T ss_pred             CEEEEEEEEC----------------CCCEEEEEECCCCCHHH-HHHHHHHHCCCCCCCEEEE-----------------
T ss_conf             5477776532----------------87406871258997078-9999987316756687998-----------------


Q ss_pred             CCCCEEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHH-HHCCEE
Q ss_conf             7898389986213444421015554321022103588999999999999854998499827789616898347-722579
Q gi|254780991|r  217 FPHNAVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVES-YSQMIV  295 (805)
Q Consensus       217 Fp~n~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~-~lglII  295 (805)
                         |-..+|-|                                                  +--||  ++|.. -.|++|
T Consensus        57 ---~G~~L~ds--------------------------------------------------~k~i~--Lp~ekRr~GYVF   81 (361)
T TIGR02142        57 ---NGEVLFDS--------------------------------------------------RKGIF--LPPEKRRIGYVF   81 (361)
T ss_pred             ---CCEEEECC--------------------------------------------------CCCCC--CCCCCCEEEEEE
T ss_conf             ---87462056--------------------------------------------------77667--872011353688


Q ss_pred             EEECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHH
Q ss_conf             9941981117875323431176563387754533187247831788877888
Q gi|254780991|r  296 QLKIGDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVA  347 (805)
Q Consensus       296 vdEehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~  347 (805)
                      .+-   +.|+-...+.=-.+||.+.+....+-.+.....+|++-|- ++=+|
T Consensus        82 QeA---~LFPHl~Vr~NL~YG~~~~~~~~r~i~~~~v~~lLgi~hL-L~R~p  129 (361)
T TIGR02142        82 QEA---RLFPHLSVRGNLRYGMKRARPKERRISFERVIELLGIEHL-LERLP  129 (361)
T ss_pred             ECC---EECCCHHHHHHHHCCCCCCCHHHCCCCHHHHHHHHCCCCC-CCCCC
T ss_conf             535---5078523345512572105741213788999987467511-21678


No 433
>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated
Probab=83.51  E-value=3  Score=20.37  Aligned_cols=99  Identities=18%  Similarity=0.205  Sum_probs=46.2

Q ss_pred             HHHHHCCCCCCCCCHHHHHHHHHHHHHHHC---CCEEEE---CCCCCCHHHHHHHHHHHHC-CCCC-EEEEHHHHHCCCC
Q ss_conf             986302321246621478999999998635---966873---2576457899999999731-8986-9998458753578
Q gi|254780991|r  576 NLAAQQGLRILLTVLTKRMAEDLTEYLYER---NIRVRY---MHSEVKTLERIEIIRDLRL-GKFD-VLVGINLLREGLD  647 (805)
Q Consensus       576 ~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~---~i~~~~---~h~~~~~~~r~~il~~~~~-g~~d-iLvgt~~~akGlD  647 (805)
                      +++...|..+----.-..++++|.+.+|..   |+...-   .-|.+++..+. +...|.+ +... .|+--|.++.||.
T Consensus       359 r~~L~~G~~IPeWft~PeV~~eLrr~~PPr~~~G~tiwlTGLsgsGKsTiA~a-l~~~L~~~~~~~v~lLDGD~~R~~l~  437 (568)
T PRK05537        359 RRRLREGLEIPEWFSFPEVVAELRRTYPPRHKQGFTVFFTGLSGAGKSTIAKA-LMAKLMEMRGRPVTLLDGDVVRKHLS  437 (568)
T ss_pred             HHHHHCCCCCCCCCCCHHHHHHHHHHCCCCCCCCEEEEEECCCCCCHHHHHHH-HHHHHHHCCCEEEEEECCHHHHHHHC
T ss_conf             99986799899553877899999985687445864999845788877699999-99999971892799954688874215


Q ss_pred             CCCCCEEEEECCCCCCCCCCHHH-HHHHHHHHCC--CCCCEEE
Q ss_conf             77711799962885674446013-7766543127--9986699
Q gi|254780991|r  648 IPECGLVAILDADKEGFLRSKTS-LIQTIGRAAR--NVNSKVI  687 (805)
Q Consensus       648 ~p~v~lV~i~dAD~~~f~~~~~~-~~q~~GRagR--~~~G~~i  687 (805)
                      -           | -||-+..|. -+.|+|-.++  +.+|-+.
T Consensus       438 ~-----------d-Lgfs~~dR~enirR~~~va~~~~~~g~i~  468 (568)
T PRK05537        438 S-----------E-LGFSKEDRDLNILRIGFVASEITKNGGIA  468 (568)
T ss_pred             C-----------C-CCCCHHHHHHHHHHHHHHHHHHHHCCCEE
T ss_conf             5-----------7-89898899999999999999998589789


No 434
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=83.33  E-value=2.6  Score=20.89  Aligned_cols=51  Identities=18%  Similarity=0.139  Sum_probs=39.8

Q ss_pred             EEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCC
Q ss_conf             799863376469999999997---1997899931634689999999986789838998621344442
Q gi|254780991|r  171 QLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQP  234 (805)
Q Consensus       171 qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yqp  234 (805)
                      -+.+|--.||||+-.++.+.+   .|+.++|..|.|-          .||+.+.|   +|+-..+.|
T Consensus         7 ~~i~gpM~SGKT~eLl~r~~~~~~~g~~v~vfkp~iD----------~R~~~~~V---~Sr~G~~~~   60 (201)
T COG1435           7 EFIYGPMFSGKTEELLRRARRYKEAGMKVLVFKPAID----------TRYGVGKV---SSRIGLSSE   60 (201)
T ss_pred             EEEECCCCCCCHHHHHHHHHHHHHCCCEEEEEECCCC----------CCCCCCEE---EECCCCCCC
T ss_conf             9997157686359999999999975980899852533----------53564336---531587665


No 435
>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=83.32  E-value=2.4  Score=21.13  Aligned_cols=35  Identities=17%  Similarity=0.372  Sum_probs=24.2

Q ss_pred             HHHHHHHHHHHHCC-CCEEEEEEECCCCHHHHHHHHHHH
Q ss_conf             89999999988739-733799863376469999999997
Q gi|254780991|r  154 PAAIAQLLKGIHSR-EKVQLLLGVTGSGKTFTMAKVIEA  191 (805)
Q Consensus       154 ~~Ai~~L~~~l~~g-~~~qlL~GVTGSGKTevya~lI~~  191 (805)
                      ..|...+..   .+ .+..++.|-+||||||.--.++.-
T Consensus        74 ~~Ay~~m~~---~~~~QsIiiSGESGaGKTe~~K~il~y  109 (671)
T cd01381          74 DNAYTNMQR---EKKNQCIIISGESGAGKTESTKLILQY  109 (671)
T ss_pred             HHHHHHHHH---CCCCCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             999999997---299967999579988879999999999


No 436
>KOG2373 consensus
Probab=83.31  E-value=0.52  Score=26.10  Aligned_cols=39  Identities=18%  Similarity=0.226  Sum_probs=29.1

Q ss_pred             HHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEE
Q ss_conf             9999971997899931634689999999986789838998
Q gi|254780991|r  186 AKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYF  225 (805)
Q Consensus       186 a~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f  225 (805)
                      +.+.+.++-+++-|-++..+-||++--.-+.|. ..+-++
T Consensus       135 lal~~~t~~~t~~LP~g~~~lP~~~LPyLE~F~-~i~fWl  173 (514)
T KOG2373         135 LALYEATKALTFALPHGEILLPQLVLPYLEEFD-KIYFWL  173 (514)
T ss_pred             HHHHHHCCCEEEECCCCCCCCCHHHHHHHHHHH-EEEEEE
T ss_conf             777641486378726654348277778898652-599980


No 437
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=82.92  E-value=2  Score=21.66  Aligned_cols=61  Identities=20%  Similarity=0.403  Sum_probs=43.6

Q ss_pred             HHHHHH-HHHCCCCEEEEEEECCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHHHHHHHHHHCCCC
Q ss_conf             999999-88739733799863376469999999997---19978999316346899999999867898
Q gi|254780991|r  157 IAQLLK-GIHSREKVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQLYSEFKNFFPHN  220 (805)
Q Consensus       157 i~~L~~-~l~~g~~~qlL~GVTGSGKTevya~lI~~---~gr~aLvLvPei~La~QL~~rfk~~Fp~n  220 (805)
                      +.++.. |+..| +..++.|-.|||||-.-+|.+-+   .|.++++++-+.. ...+...+++ |+-+
T Consensus        12 lD~~l~GG~p~g-~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e~-~~~l~~~~~~-~g~d   76 (260)
T COG0467          12 LDEILGGGLPRG-SVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEES-PEELLENARS-FGWD   76 (260)
T ss_pred             HHHHHCCCCCCC-CEEEEEECCCCCHHHHHHHHHHHHHHCCCEEEEEEEECC-HHHHHHHHHH-CCCC
T ss_conf             888836898899-789999389986899999999977626985899992069-8999999988-0997


No 438
>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=82.90  E-value=2.5  Score=20.94  Aligned_cols=32  Identities=22%  Similarity=0.411  Sum_probs=21.5

Q ss_pred             HHHHHHHHHHCC-CCEEEEEEECCCCHHHHHHHHHH
Q ss_conf             999999988739-73379986337646999999999
Q gi|254780991|r  156 AIAQLLKGIHSR-EKVQLLLGVTGSGKTFTMAKVIE  190 (805)
Q Consensus       156 Ai~~L~~~l~~g-~~~qlL~GVTGSGKTevya~lI~  190 (805)
                      |...+..   .+ .+..++.|-+||||||.-=.++.
T Consensus        76 Ay~~m~~---~~~nQsIiisGESGaGKTe~~K~il~  108 (674)
T cd01378          76 AYRSMKS---ENENQCVIISGESGAGKTEAAKKIMQ  108 (674)
T ss_pred             HHHHHHH---CCCCCEEEEECCCCCCHHHHHHHHHH
T ss_conf             9999997---19993799967887888899999999


No 439
>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=82.86  E-value=2.5  Score=20.93  Aligned_cols=33  Identities=27%  Similarity=0.430  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHHCC-CCEEEEEEECCCCHHHHHHHHHH
Q ss_conf             9999999988739-73379986337646999999999
Q gi|254780991|r  155 AAIAQLLKGIHSR-EKVQLLLGVTGSGKTFTMAKVIE  190 (805)
Q Consensus       155 ~Ai~~L~~~l~~g-~~~qlL~GVTGSGKTevya~lI~  190 (805)
                      .|...+..   .+ .+..++.|-+||||||.--.++.
T Consensus        83 ~Ay~~m~~---~~~~QsIiiSGESGaGKTe~~K~il~  116 (692)
T cd01385          83 VAYYNMLR---KKVNQCIVISGESGSGKTESTNFLIH  116 (692)
T ss_pred             HHHHHHHH---CCCCEEEEEECCCCCCHHHHHHHHHH
T ss_conf             99999987---39982899964898987899999999


No 440
>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=82.85  E-value=2.6  Score=20.86  Aligned_cols=33  Identities=27%  Similarity=0.390  Sum_probs=22.0

Q ss_pred             HHHHHHHHHHHCC-CCEEEEEEECCCCHHHHHHHHHH
Q ss_conf             9999999988739-73379986337646999999999
Q gi|254780991|r  155 AAIAQLLKGIHSR-EKVQLLLGVTGSGKTFTMAKVIE  190 (805)
Q Consensus       155 ~Ai~~L~~~l~~g-~~~qlL~GVTGSGKTevya~lI~  190 (805)
                      .|...+..   .+ .+..++.|-+||||||..=.++.
T Consensus        77 ~Ay~~m~~---~~~nQsIiiSGESGAGKTes~K~il~  110 (674)
T cd01384          77 AAYRAMIN---EGKSQSILVSGESGAGKTETTKMLMR  110 (674)
T ss_pred             HHHHHHHH---CCCCCEEEEECCCCCCHHHHHHHHHH
T ss_conf             99999997---38996699955898888999999999


No 441
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=82.82  E-value=3.1  Score=20.31  Aligned_cols=40  Identities=23%  Similarity=0.248  Sum_probs=31.4

Q ss_pred             HHHHHHHHHHHHHCCC--CEEEEEEECCCCHHHHHHHHHHHC
Q ss_conf             3899999999887397--337998633764699999999971
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE--KVQLLLGVTGSGKTFTMAKVIEAM  192 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~--~~qlL~GVTGSGKTevya~lI~~~  192 (805)
                      |..+.+.|...+..|.  +..|++|-.|+|||-+-..+.+.+
T Consensus        21 Qe~iv~~L~nAI~~~RiaHAYLFsGPrGvGKTTlArifAkaL   62 (613)
T PRK05896         21 QELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAI   62 (613)
T ss_pred             CHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             299999999999849976227755899848899999999996


No 442
>TIGR03453 partition_RepA plasmid partitioning protein RepA. Members of this family are the RepA (or ParA) protein involved in replicon partitioning. All known examples occur in bacterial species with two or more replicons, on a plasmid or the smaller chromosome. Note that an apparent exception may be seen as a pseudomolecule from assembly of an incompletely sequenced genome. Members of this family belong to a larger family that also includes the enzyme cobyrinic acid a,c-diamide synthase, but assignment of that name to members of this family would be in error.
Probab=82.75  E-value=3.2  Score=20.14  Aligned_cols=93  Identities=19%  Similarity=0.192  Sum_probs=53.6

Q ss_pred             CHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHH-----------HC
Q ss_conf             7558999999998739603205740266678887421588775477518888884389999999988-----------73
Q gi|254780991|r   98 TMTPSVQALARLIQSDNPLLKNGKIWTPHRSWSINNHSKDITFFQMQTDYHPSGDQPAAIAQLLKGI-----------HS  166 (805)
Q Consensus        98 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~l~~~~~P~gdQ~~Ai~~L~~~l-----------~~  166 (805)
                      |++.+.  |..|..+|             +-|.|+....|.+-|.|        +|-..+..+.+.-           ..
T Consensus        44 gv~~~~--lr~~~~~g-------------~~p~p~~~~~grR~ytl--------~ei~~lR~~l~~~~~~~~~~~p~R~~  100 (387)
T TIGR03453        44 GVTDSY--LRQLSLEG-------------KGPQPEVLANGRRSYTL--------EQINELRRHLAQRPREALRYLPHRRG  100 (387)
T ss_pred             CCCHHH--HHHHHHCC-------------CCCCCCCCCCCCEEEEH--------HHHHHHHHHHHHCCCCCCCCCCCCCC
T ss_conf             969999--99998669-------------99998758998258439--------99999999998624455545899999


Q ss_pred             CCCEEEEEEE---CCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             9733799863---376469999999997---1997899931634689999999986789
Q gi|254780991|r  167 REKVQLLLGV---TGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQLYSEFKNFFPH  219 (805)
Q Consensus       167 g~~~qlL~GV---TGSGKTevya~lI~~---~gr~aLvLvPei~La~QL~~rfk~~Fp~  219 (805)
                      |.+.|++-=+   -|+|||-+-+++..-   .|+.||++    -|=||-  -+-..||-
T Consensus       101 g~~~~VIav~N~KGGVGKTTtav~LA~~LA~~G~RVLvI----DLDPQa--nlT~~~G~  153 (387)
T TIGR03453       101 GEHLQVIAVTNFKGGSGKTTTSAHLAQYLALRGYRVLAI----DLDPQA--SLSALFGF  153 (387)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEE----ECCCHH--HHHHHCCC
T ss_conf             998808999788876569999999999999779988999----537016--78875289


No 443
>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=82.47  E-value=1.8  Score=22.14  Aligned_cols=30  Identities=23%  Similarity=0.215  Sum_probs=24.9

Q ss_pred             EEEEEEECCCCHHHHHHHHHHHCCCCEEEE
Q ss_conf             379986337646999999999719978999
Q gi|254780991|r  170 VQLLLGVTGSGKTFTMAKVIEAMQRPAIVM  199 (805)
Q Consensus       170 ~qlL~GVTGSGKTevya~lI~~~gr~aLvL  199 (805)
                      +.||.|-+|.|||.+...+.+.+|++..-+
T Consensus         1 hVLL~GppG~GKT~l~~~lA~~~~~~~~~i   30 (131)
T pfam07726         1 HVLLEGVPGLAKTLLARTLARSLGLDFRRI   30 (131)
T ss_pred             CEEEECCCCCHHHHHHHHHHHHHCCCCEEE
T ss_conf             987898998769999999999959981688


No 444
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=82.37  E-value=1.8  Score=21.99  Aligned_cols=31  Identities=32%  Similarity=0.455  Sum_probs=21.9

Q ss_pred             CCCCEEEEEEECCCCHHHHHHHHHHHCCCCE
Q ss_conf             3973379986337646999999999719978
Q gi|254780991|r  166 SREKVQLLLGVTGSGKTFTMAKVIEAMQRPA  196 (805)
Q Consensus       166 ~g~~~qlL~GVTGSGKTevya~lI~~~gr~a  196 (805)
                      -+....||.|=||||||..--.+.+-++-|-
T Consensus        95 L~KSNILLiGPTGsGKTlLAqTLAk~LnVPF  125 (408)
T COG1219          95 LSKSNILLIGPTGSGKTLLAQTLAKILNVPF  125 (408)
T ss_pred             EEECCEEEECCCCCCHHHHHHHHHHHHCCCE
T ss_conf             3203179988899757799999999848984


No 445
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=82.18  E-value=3.2  Score=20.18  Aligned_cols=39  Identities=15%  Similarity=0.290  Sum_probs=32.0

Q ss_pred             HHHHHHHHHHHHHCCC--CEEEEEEECCCCHHHHHHHHHHH
Q ss_conf             3899999999887397--33799863376469999999997
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE--KVQLLLGVTGSGKTFTMAKVIEA  191 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~--~~qlL~GVTGSGKTevya~lI~~  191 (805)
                      |+.+++.|...+.+|.  +..|+.|--|+|||-+-..+.+.
T Consensus         9 q~~i~~~L~~~i~~~rl~HAyLF~Gp~G~GK~~~A~~~A~~   49 (313)
T PRK05564          9 HENIKNRIDNSIIKGKFSHASLIVGEDGIGKSILAKEIANK   49 (313)
T ss_pred             HHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             29999999999987998750432799985099999999999


No 446
>PRK13898 type IV secretion system ATPase VirB4; Provisional
Probab=82.17  E-value=1.1  Score=23.71  Aligned_cols=56  Identities=13%  Similarity=0.221  Sum_probs=21.7

Q ss_pred             HCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHH-------HHHHHHHHHCCCCCCEEEEEEC
Q ss_conf             31898699984587535787771179996288567444601-------3776654312799866999824
Q gi|254780991|r  629 RLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKT-------SLIQTIGRAARNVNSKVILYAD  691 (805)
Q Consensus       629 ~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~-------~~~q~~GRagR~~~G~~il~ad  691 (805)
                      ..|.+-=+.  |=-.-.+|+.+...+|+ |.  ..|+.++.       .+.|+|-+.--|.  ..|++.|
T Consensus       587 ~~G~~g~~f--Dn~~D~l~~~~~~~~gf-d~--t~ll~~~~~~~pvl~Ylf~rie~~ldG~--p~ii~iD  649 (800)
T PRK13898        587 GKGSHAAIF--DNEEDLLDFQKARVFGF-EM--TELLKDPVSLAPVLLYLFHRISISLDGT--PSMIVLD  649 (800)
T ss_pred             CCCCEEECC--CCCCCCCCCCCCCEEEE-EC--HHHCCCCHHHHHHHHHHHHHHHHHCCCC--CEEEEEE
T ss_conf             699805224--89755668666808999-84--6752882048999999999999752898--2699960


No 447
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=82.05  E-value=3.3  Score=20.13  Aligned_cols=106  Identities=20%  Similarity=0.276  Sum_probs=63.1

Q ss_pred             HHHHHHHHHHHHHCCC--CEEEEEEECCCCHHHHHHHHHHHC-C--------CCEEEEECCHHHHHHHHHHHHHHCCCCE
Q ss_conf             3899999999887397--337998633764699999999971-9--------9789993163468999999998678983
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE--KVQLLLGVTGSGKTFTMAKVIEAM-Q--------RPAIVMAPNKILAAQLYSEFKNFFPHNA  221 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~--~~qlL~GVTGSGKTevya~lI~~~-g--------r~aLvLvPei~La~QL~~rfk~~Fp~n~  221 (805)
                      |..-.+.|..++..|.  +..|+.|+-|.||| +.|+++++. +        .|+.-...+-.-...+   -..+|.| .
T Consensus        28 q~~~~~~l~~~~~~~~~~~a~l~~g~rg~gkt-t~ari~a~~lnc~~~~~~~~~~~~~c~~c~~c~~i---~~~~~~d-~  102 (600)
T PRK09111         28 QEAMVRTLRNAFETGRIAQAFMLTGVRGVGKT-TTARILARALNYKGPDGVGGPTIDPCGVGEHCQAI---MEGRHVD-V  102 (600)
T ss_pred             CHHHHHHHHHHHHCCCCCCEEEEECCCCCCHH-HHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHH---HCCCCCC-E
T ss_conf             59999999999972984204764578987899-99999999966988766689988989988658988---6689987-5


Q ss_pred             EEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHH-HHCCEEEEECC
Q ss_conf             89986213444421015554321022103588999999999999854998499827789616898347-72257999419
Q gi|254780991|r  222 VEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVES-YSQMIVQLKIG  300 (805)
Q Consensus       222 V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~-~lglIIvdEeh  300 (805)
                                             +|-|++.|-.+|-.|     .|.+.   |       -|   .|.. .-...|+||+|
T Consensus       103 -----------------------~e~daas~~~v~~~r-----~~~~~---~-------~~---~p~~~~~kv~iidevh  141 (600)
T PRK09111        103 -----------------------IEMDAASHTGVDDIR-----EIIES---V-------RY---RPVSARYKVYIIDEVH  141 (600)
T ss_pred             -----------------------EEEECCCCCCHHHHH-----HHHHH---H-------CC---CCCCCCEEEEEEECCC
T ss_conf             -----------------------885155457888999-----99986---0-------53---8877754699960011


Q ss_pred             CCCC
Q ss_conf             8111
Q gi|254780991|r  301 DSVE  304 (805)
Q Consensus       301 d~~~  304 (805)
                      .-+.
T Consensus       142 mls~  145 (600)
T PRK09111        142 MLST  145 (600)
T ss_pred             CCCH
T ss_conf             0579


No 448
>PRK11929 putative bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2,6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase; Provisional
Probab=81.83  E-value=3.5  Score=19.91  Aligned_cols=47  Identities=23%  Similarity=0.355  Sum_probs=32.2

Q ss_pred             CHHHHHHHHHHHHHCCC-CEEEEEEECCC-CHHHH---HHHHHHHCCCCEEE
Q ss_conf             43899999999887397-33799863376-46999---99999971997899
Q gi|254780991|r  152 DQPAAIAQLLKGIHSRE-KVQLLLGVTGS-GKTFT---MAKVIEAMQRPAIV  198 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~-~~qlL~GVTGS-GKTev---ya~lI~~~gr~aLv  198 (805)
                      |=.+|+..|...+-... +.-.+.||||| |||=|   ..++.+..|+++-+
T Consensus        91 d~r~al~~la~~fy~~ps~~l~vigVTGTNGKTTt~~~i~~il~~~g~~~~~  142 (953)
T PRK11929         91 DLRKALGELADEWYGKPSQDLSVVAVTGTNGKTSCAQWLAQMLTRLGKPCGS  142 (953)
T ss_pred             CHHHHHHHHHHHHHCCCCCCCCEEEEECCCCHHHHHHHHHHHHHHCCCCEEE
T ss_conf             8999999999998649675887899979997999999999999867998899


No 449
>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=81.82  E-value=2.9  Score=20.54  Aligned_cols=33  Identities=36%  Similarity=0.542  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHHCC-CCEEEEEEECCCCHHHHHHHHHH
Q ss_conf             9999999988739-73379986337646999999999
Q gi|254780991|r  155 AAIAQLLKGIHSR-EKVQLLLGVTGSGKTFTMAKVIE  190 (805)
Q Consensus       155 ~Ai~~L~~~l~~g-~~~qlL~GVTGSGKTevya~lI~  190 (805)
                      .|...+..   .| .+..++.|-+||||||.--.++.
T Consensus        80 ~Ay~~m~~---~~~~QsIiiSGESGAGKTes~K~il~  113 (693)
T cd01377          80 NAYRSMLQ---DRENQSILITGESGAGKTENTKKVIQ  113 (693)
T ss_pred             HHHHHHHH---CCCCCEEEEECCCCCCHHHHHHHHHH
T ss_conf             99999997---49980699968898888999999999


No 450
>KOG3308 consensus
Probab=81.73  E-value=2.5  Score=20.95  Aligned_cols=51  Identities=27%  Similarity=0.403  Sum_probs=35.6

Q ss_pred             EEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCC-CHHHHCCC
Q ss_conf             98633764699999999971997899931634689999999986789838998621344442101555432-10221035
Q gi|254780991|r  173 LLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAYVPRTDT-YIEKESSI  251 (805)
Q Consensus       173 L~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yqpEay~p~~d~-~i~k~~s~  251 (805)
                      |-|+|-||||-                     |    +..|..+||+..+   ++-=|||-||.-+|...- ++..++.-
T Consensus         9 iSG~TnsGKTT---------------------L----ak~l~~~f~~~~l---IhqDDFyKp~~Ei~v~~~n~~~wd~~e   60 (225)
T KOG3308           9 ISGCTNSGKTT---------------------L----AKSLHRFFPGCSL---IHQDDFYKPENEIEVDYNNIDNWDLLE   60 (225)
T ss_pred             EECCCCCCHHH---------------------H----HHHHHHHCCCCEE---ECCCCCCCCHHHHHCCCCCCCHHCCHH
T ss_conf             64246787768---------------------9----9999987368746---402234675534211237721110131


No 451
>KOG0745 consensus
Probab=81.66  E-value=1.8  Score=22.09  Aligned_cols=39  Identities=31%  Similarity=0.436  Sum_probs=25.4

Q ss_pred             CCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHH
Q ss_conf             7337998633764699999999971997899931634689
Q gi|254780991|r  168 EKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAA  207 (805)
Q Consensus       168 ~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~  207 (805)
                      ..-.||.|-||||||+.--.+.+=++-|- +++-=-+||.
T Consensus       226 KSNvLllGPtGsGKTllaqTLAr~ldVPf-aIcDcTtLTQ  264 (564)
T KOG0745         226 KSNVLLLGPTGSGKTLLAQTLARVLDVPF-AICDCTTLTQ  264 (564)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHCCCE-EEECCCCHHH
T ss_conf             35479977888764389999999708876-8732552200


No 452
>pfam03237 Terminase_6 Terminase-like family. This family represents a group of terminase proteins.
Probab=81.54  E-value=3.6  Score=19.83  Aligned_cols=47  Identities=23%  Similarity=0.301  Sum_probs=31.8

Q ss_pred             EEEEECCCCHHHHHHHHHH-H----CCCCEEEEECCHHHHHHHHHH-HHHHCC
Q ss_conf             9986337646999999999-7----199789993163468999999-998678
Q gi|254780991|r  172 LLLGVTGSGKTFTMAKVIE-A----MQRPAIVMAPNKILAAQLYSE-FKNFFP  218 (805)
Q Consensus       172 lL~GVTGSGKTevya~lI~-~----~gr~aLvLvPei~La~QL~~r-fk~~Fp  218 (805)
                      ++.|=.|||||++.+..+- .    -+...+|+.|...-+.....+ +....+
T Consensus         1 ~~~ggr~~GKT~~~~~~~~~~a~~~~~~~~~i~~~t~~~~~~~~~~~~~~~~~   53 (380)
T pfam03237         1 NILGSRQSGKTFAFAREALRHALGNGPKNQIILSASKAQARLEFKKGIIEIAG   53 (380)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHHHH
T ss_conf             94264525283999999999998589972899979999999999999999668


No 453
>PRK13869 plasmid-partitioning protein RepA; Provisional
Probab=81.34  E-value=3.6  Score=19.79  Aligned_cols=92  Identities=21%  Similarity=0.241  Sum_probs=52.8

Q ss_pred             CHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHH------------
Q ss_conf             75589999999987396032057402666788874215887754775188888843899999999887------------
Q gi|254780991|r   98 TMTPSVQALARLIQSDNPLLKNGKIWTPHRSWSINNHSKDITFFQMQTDYHPSGDQPAAIAQLLKGIH------------  165 (805)
Q Consensus        98 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~l~~~~~P~gdQ~~Ai~~L~~~l~------------  165 (805)
                      ||+.+.  |..+..+|       ..      |.|+....|.+-|.|        +|-.++......-.            
T Consensus        59 gv~~~~--lr~~~~~g-------~~------p~p~~~~~grr~ytl--------~~i~~lR~~l~~~~~~~~~~~~~p~R  115 (405)
T PRK13869         59 KISDST--LRKMTLAG-------EG------PQPELASNGRRFYTL--------GQINEIRGMLAGSTRGRESIDFVPHR  115 (405)
T ss_pred             CCCHHH--HHHHHHCC-------CC------CCCCCCCCCCCEECH--------HHHHHHHHHHHHCCCCCCCCCCCCCC
T ss_conf             969999--99998659-------99------999878998543019--------99999999997405555543458999


Q ss_pred             -CCCCEEEEEEE---CCCCHHHHHHHHHHH---CCCCEEEEECCHHHHHHHHHHHHHHCC
Q ss_conf             -39733799863---376469999999997---199789993163468999999998678
Q gi|254780991|r  166 -SREKVQLLLGV---TGSGKTFTMAKVIEA---MQRPAIVMAPNKILAAQLYSEFKNFFP  218 (805)
Q Consensus       166 -~g~~~qlL~GV---TGSGKTevya~lI~~---~gr~aLvLvPei~La~QL~~rfk~~Fp  218 (805)
                       .|.+.|++-=+   -|+|||-+-+++..-   .|+.||++    -|=||-  -+-..||
T Consensus       116 ~~~~~~kVIaVaN~KGGVGKTTtav~LA~~LA~~G~RVLlI----DLDPQg--nlS~~lG  169 (405)
T PRK13869        116 RGSEHLQVIAVTNFKGGSGKTTTSAHLAQYLALQGYRVLAV----DLDPQA--SLSALLG  169 (405)
T ss_pred             CCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEE----ECCHHH--HHHHHHC
T ss_conf             99999828999788877659999999999999779988999----645617--8889808


No 454
>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=81.26  E-value=3  Score=20.42  Aligned_cols=35  Identities=26%  Similarity=0.386  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHH
Q ss_conf             8999999998873973379986337646999999999
Q gi|254780991|r  154 PAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIE  190 (805)
Q Consensus       154 ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~  190 (805)
                      ..|...+...  ...+..++.|-+||||||..=.++.
T Consensus        74 ~~Ay~~m~~~--~~nQsIiiSGESGaGKTestK~il~  108 (653)
T cd01379          74 DAAYQSLVTY--NQDQCIVISGESGSGKTESAHLLVQ  108 (653)
T ss_pred             HHHHHHHHHC--CCCEEEEEECCCCCCHHHHHHHHHH
T ss_conf             9999999874--8982899957898987688999999


No 455
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=81.02  E-value=3.5  Score=19.87  Aligned_cols=40  Identities=25%  Similarity=0.350  Sum_probs=31.9

Q ss_pred             HHHHHHHHHHHHHCCC--------------CEEEEEEECCCCHHHHHHHHHHHC
Q ss_conf             3899999999887397--------------337998633764699999999971
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE--------------KVQLLLGVTGSGKTFTMAKVIEAM  192 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~--------------~~qlL~GVTGSGKTevya~lI~~~  192 (805)
                      |+.+++.|...+..+.              +.-|..|-.|+|||.+-..+.+.+
T Consensus        10 Qe~v~~~L~~A~~~~R~~~~~~~~~~~~~~HAyLF~Gp~G~Gk~~~A~~~A~~l   63 (395)
T PRK07940         10 QDAVVAELRAAARAARADSAHSAAAGSGMTHAWLFTGPPGSGRSNAARAFAAAL   63 (395)
T ss_pred             CHHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             299999999999836343443333468766037636899878899999999996


No 456
>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.
Probab=80.95  E-value=3.7  Score=19.69  Aligned_cols=18  Identities=39%  Similarity=0.625  Sum_probs=11.8

Q ss_pred             EEEECCCCHHHHHHHHHHH
Q ss_conf             9863376469999999997
Q gi|254780991|r  173 LLGVTGSGKTFTMAKVIEA  191 (805)
Q Consensus       173 L~GVTGSGKTevya~lI~~  191 (805)
                      +-|-+|||||-+ ++.+++
T Consensus         4 IaG~sgSGKST~-a~~l~~   21 (220)
T cd02025           4 IAGSVAVGKSTT-ARVLQA   21 (220)
T ss_pred             EECCCCCCHHHH-HHHHHH
T ss_conf             788998779999-999999


No 457
>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=80.93  E-value=3.6  Score=19.76  Aligned_cols=35  Identities=26%  Similarity=0.441  Sum_probs=23.8

Q ss_pred             HHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHH
Q ss_conf             8999999998873973379986337646999999999
Q gi|254780991|r  154 PAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIE  190 (805)
Q Consensus       154 ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~  190 (805)
                      ..|...+...  ...+..++.|-+||||||.-=.++.
T Consensus        75 ~~Ay~~m~~~--~~~QsIiisGESGAGKTes~K~il~  109 (677)
T cd01387          75 NLAFAKMLDA--KQNQCVIISGESGSGKTEATKLILR  109 (677)
T ss_pred             HHHHHHHHHC--CCCCEEEEEECCCCCHHHHHHHHHH
T ss_conf             9999998870--9992599982797889889999999


No 458
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=80.68  E-value=3.8  Score=19.63  Aligned_cols=152  Identities=13%  Similarity=0.147  Sum_probs=97.4

Q ss_pred             CHHHHHHHHHHHHHCCC--CEEEEEEECCCCHHHHHHHHHHHCCC--CEEEEEC--CHHHHHHHHHHHHHHCCCCEEEEE
Q ss_conf             43899999999887397--33799863376469999999997199--7899931--634689999999986789838998
Q gi|254780991|r  152 DQPAAIAQLLKGIHSRE--KVQLLLGVTGSGKTFTMAKVIEAMQR--PAIVMAP--NKILAAQLYSEFKNFFPHNAVEYF  225 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~--~~qlL~GVTGSGKTevya~lI~~~gr--~aLvLvP--ei~La~QL~~rfk~~Fp~n~V~~f  225 (805)
                      .|.+|+-+=...+-+|.  ...||+|.-|+||.-..-.++.+.+.  .-||=|+  ++.--|-|++.+|.+ | ..+.+|
T Consensus        67 ~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLVEV~k~dl~~Lp~l~~~Lr~~-~-~kFIlF  144 (287)
T COG2607          67 RQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADEGLRLVEVDKEDLATLPDLVELLRAR-P-EKFILF  144 (287)
T ss_pred             HHHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEECHHHHHHHHHHHHHHHCC-C-CEEEEE
T ss_conf             89999999899997288652367763777774799999999987417707997688886579999999618-8-608999


Q ss_pred             EECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCC------CCEEEECC--HHHHCCCCCHHHHHCCEEEE
Q ss_conf             62134444210155543210221035889999999999998549------98499827--78961689834772257999
Q gi|254780991|r  226 VSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLER------NDCIVVSS--VSCIYGIGSVESYSQMIVQL  297 (805)
Q Consensus       226 ~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~------~~~IVVgs--rSAIfgl~~P~~~lglIIvd  297 (805)
                      .--+++-.                      +-..+.+..++++|      ..+++.+|  |--+    .|+.+.     |
T Consensus       145 cDDLSFe~----------------------gd~~yK~LKs~LeG~ve~rP~NVl~YATSNRRHL----l~e~~~-----d  193 (287)
T COG2607         145 CDDLSFEE----------------------GDDAYKALKSALEGGVEGRPANVLFYATSNRRHL----LPEDMK-----D  193 (287)
T ss_pred             ECCCCCCC----------------------CCHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCC----CCHHHH-----H
T ss_conf             56777777----------------------8138999999853885568870799971587533----627664-----2


Q ss_pred             ECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCC-CEEEECCCCCHHHHHH
Q ss_conf             41981117875323431176563387754533187-2478317888778887
Q gi|254780991|r  298 KIGDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVC-GDSIEIFPSHLEDVAW  348 (805)
Q Consensus       298 Eehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~r-g~ILdsatps~Es~~~  348 (805)
                      .++-.            ---|..|.+...=.++.| |.-|+.+|++.++|--
T Consensus       194 n~~~~------------~eih~~eaveEKlSlSDRFGLwL~F~~~~Q~~YL~  233 (287)
T COG2607         194 NEGST------------GEIHPSEAVEEKLSLSDRFGLWLSFYPCDQDEYLK  233 (287)
T ss_pred             CCCCC------------CCCCHHHHHHHHHCHHHHCCEEECCCCCCHHHHHH
T ss_conf             77840------------23580677877625464234045036878899999


No 459
>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=80.19  E-value=3.2  Score=20.15  Aligned_cols=24  Identities=17%  Similarity=0.331  Sum_probs=16.9

Q ss_pred             HHHHHHCCHHHHHHHHHHHHHHHH
Q ss_conf             999974148999999999999999
Q gi|254780991|r  772 HLAADNLNFEEAARIRDEIKRLKS  795 (805)
Q Consensus       772 ~~aa~~l~fE~Aa~lRD~i~~l~~  795 (805)
                      -|+-++||.+..+.+-+.++++..
T Consensus       626 DE~ts~LD~~~e~~i~~~l~~~~~  649 (694)
T TIGR03375       626 DEPTSAMDNRSEERFKDRLKRWLA  649 (694)
T ss_pred             ECCCCCCCHHHHHHHHHHHHHHCC
T ss_conf             787568899999999999998669


No 460
>PRK13342 recombination factor protein RarA; Reviewed
Probab=80.03  E-value=4  Score=19.48  Aligned_cols=46  Identities=26%  Similarity=0.391  Sum_probs=29.2

Q ss_pred             HHHHHH---HHHHHHHCCC-CEEEEEEECCCCHHHHHHHHHHH-CCCCEEEE
Q ss_conf             389999---9999887397-33799863376469999999997-19978999
Q gi|254780991|r  153 QPAAIA---QLLKGIHSRE-KVQLLLGVTGSGKTFTMAKVIEA-MQRPAIVM  199 (805)
Q Consensus       153 Q~~Ai~---~L~~~l~~g~-~~qlL~GVTGSGKTevya~lI~~-~gr~aLvL  199 (805)
                      |...+.   -|..-++++. ...+|+|--|+||| +.|++|++ ++.+.+-|
T Consensus        18 Q~hllg~~~~L~~~i~~~~~~s~Il~GPPG~GKT-TlA~iiA~~~~~~f~~l   68 (417)
T PRK13342         18 QEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKT-TLARIIAGATDAEFEAL   68 (417)
T ss_pred             CHHHHCCCHHHHHHHHCCCCCEEEEECCCCCCHH-HHHHHHHHHHCCCEEEE
T ss_conf             8776089719999997699975998896999899-99999999868988996


No 461
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=79.97  E-value=4  Score=19.47  Aligned_cols=40  Identities=28%  Similarity=0.291  Sum_probs=31.9

Q ss_pred             HHHHHHHHHHHHHCCC--CEEEEEEECCCCHHHHHHHHHHHC
Q ss_conf             3899999999887397--337998633764699999999971
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE--KVQLLLGVTGSGKTFTMAKVIEAM  192 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~--~~qlL~GVTGSGKTevya~lI~~~  192 (805)
                      |..|.+.|...+.+|.  +..|+.|-.|+|||-+-..+++.+
T Consensus        22 qe~~~~~L~~a~~~grl~HA~Lf~Gp~GiGK~tlA~~~A~~l   63 (363)
T PRK07471         22 HAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFL   63 (363)
T ss_pred             HHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             199999999999859976458767999818899999999998


No 462
>cd01380 MYSc_type_V Myosin motor domain, type V myosins. Myosins V transport a variety of intracellular cargo processively along actin filaments, such as membraneous organelles and mRNA. 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 act
Probab=79.84  E-value=3.8  Score=19.63  Aligned_cols=34  Identities=21%  Similarity=0.431  Sum_probs=21.8

Q ss_pred             HHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHH
Q ss_conf             999999998873973379986337646999999999
Q gi|254780991|r  155 AAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIE  190 (805)
Q Consensus       155 ~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~  190 (805)
                      .|...+...  ...+..++-|-+||||||.-=.+++
T Consensus        75 ~Ay~~m~~~--~~~QsIiiSGESGaGKTe~~K~il~  108 (691)
T cd01380          75 EAYKQMTRD--EKNQSIIVSGESGAGKTVSAKYIMR  108 (691)
T ss_pred             HHHHHHHHC--CCCEEEEEECCCCCCHHHHHHHHHH
T ss_conf             999999863--9980699962799987799999999


No 463
>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=79.76  E-value=3.9  Score=19.56  Aligned_cols=23  Identities=26%  Similarity=0.384  Sum_probs=18.8

Q ss_pred             CCEEEEEEECCCCHHHHHHHHHH
Q ss_conf             73379986337646999999999
Q gi|254780991|r  168 EKVQLLLGVTGSGKTFTMAKVIE  190 (805)
Q Consensus       168 ~~~qlL~GVTGSGKTevya~lI~  190 (805)
                      .+..++.|-+||||||.-=.+++
T Consensus        91 ~QsIiiSGESGAGKTestK~il~  113 (717)
T cd01382          91 SQSIIVSGESGAGKTENTKFVLR  113 (717)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
T ss_conf             94799966899997899999999


No 464
>KOG0054 consensus
Probab=79.75  E-value=3.1  Score=20.30  Aligned_cols=55  Identities=15%  Similarity=0.277  Sum_probs=38.1

Q ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCC
Q ss_conf             775477518888884389999999988739733799863376469999999997199
Q gi|254780991|r  138 ITFFQMQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQR  194 (805)
Q Consensus       138 ~~~f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr  194 (805)
                      +........|.+ .+++..++.|.=-++.|. -...-|-|||||+=....+.-|+.+
T Consensus       519 i~i~~~sfsW~~-~~~~~tL~dIn~~i~~G~-lvaVvG~vGsGKSSLL~AiLGEm~~  573 (1381)
T KOG0054         519 IEIKNGSFSWDS-ESPEPTLKDINFEIKKGQ-LVAVVGPVGSGKSSLLSAILGEMPK  573 (1381)
T ss_pred             EEEEEEEEECCC-CCCCCCCCCEEEEECCCC-EEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf             798510685189-998653014158962898-8999899988889999999658755


No 465
>TIGR01271 CFTR_protein cystic fibrosis transmembrane conductor regulator (CFTR); InterPro: IPR005291   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).    These proteins are integral membrane proteins and they are involved in the transport of chloride ions. Many of these proteins are the cystis fibrosis transmembrane conductor regulators (CFTR) in eukaryotes. The principal role of this protein is chloride ion conductance. The protein is predicted to consist of 12 transmembrane domains. Mutations or lesions in the genetic loci have been linked to the aetiology of asthma, bronchiectasis, chronic obstructive pulmonary disease etc. Disease-causing mutations have been studied by 36Cl efflux assays in vitro cell cultures and electrophysiology, all of which point to the impairment of chloride channel stability and not the biosynthetic processing per se.; GO: 0005254 chloride channel activity, 0006811 ion transport, 0016020 membrane.
Probab=79.70  E-value=2.3  Score=21.24  Aligned_cols=35  Identities=26%  Similarity=0.233  Sum_probs=21.2

Q ss_pred             CC-CCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCC
Q ss_conf             57-64578999999997318986999845875357877
Q gi|254780991|r  613 HS-EVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIP  649 (805)
Q Consensus       613 h~-~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p  649 (805)
                      |+ ...++.+.+.-..+|+-.  .+--++.++--|||=
T Consensus       809 ~sv~~g~~~~~~~~~s~RK~~--~~~~~~~~~sElDIY  844 (1534)
T TIGR01271       809 HSVSRGENKREKLRASVRKVS--LITQANELASELDIY  844 (1534)
T ss_pred             HHHHCCCCHHHHHHHHHHHHH--HCCHHHHHHHHHHHH
T ss_conf             775316305677766543343--146023444221232


No 466
>smart00851 MGS MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.
Probab=79.66  E-value=2.6  Score=20.91  Aligned_cols=61  Identities=20%  Similarity=0.316  Sum_probs=39.8

Q ss_pred             HHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHH
Q ss_conf             999998630232124662147899999999863596687325764578999999997318986999845
Q gi|254780991|r  572 YDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGIN  640 (805)
Q Consensus       572 ~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~  640 (805)
                      ++-+++...-|+..+-+.+|       +++|.+.|+.+.-+|.-+... +..+++.++.|++|++|-|-
T Consensus         3 ~~~ak~l~~lGf~l~AT~GT-------a~~L~~~Gi~v~~l~~ki~~g-~~~i~~~i~~~~IdlVInt~   63 (90)
T smart00851        3 VELAKRLAELGFELVATGGT-------AKFLREAGLPVKTLHPKVHGG-ILAILDLIKNGEIDLVINTL   63 (90)
T ss_pred             HHHHHHHHHCCCEEEECCHH-------HHHHHHCCCCCEEEECCCCCC-CCCHHHHHCCCCEEEEEEEC
T ss_conf             89999999889989981258-------999997599710430244356-10489981978879999846


No 467
>cd01386 MYSc_type_XVIII Myosin motor domain, type XVIII myosins. 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 
Probab=79.62  E-value=4  Score=19.45  Aligned_cols=33  Identities=33%  Similarity=0.588  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHHCC-CCEEEEEEECCCCHHHHHHHHHH
Q ss_conf             9999999988739-73379986337646999999999
Q gi|254780991|r  155 AAIAQLLKGIHSR-EKVQLLLGVTGSGKTFTMAKVIE  190 (805)
Q Consensus       155 ~Ai~~L~~~l~~g-~~~qlL~GVTGSGKTevya~lI~  190 (805)
                      .|...+..   .+ .+..++-|=+||||||..=.++.
T Consensus        75 ~Ay~~m~~---~~~nQsIIiSGESGAGKTEstK~im~  108 (767)
T cd01386          75 TAYRALLE---TRRDQSIIFLGRSGAGKTTSCKHALE  108 (767)
T ss_pred             HHHHHHHH---CCCCCEEEEECCCCCCHHHHHHHHHH
T ss_conf             99999997---08995799955898888899999999


No 468
>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport.  Other members of this system include the MetP permease and  the MetQ substrate binding protein.  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=79.36  E-value=0.25  Score=28.43  Aligned_cols=51  Identities=20%  Similarity=0.476  Sum_probs=36.2

Q ss_pred             EEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCC
Q ss_conf             75188888843899999999887397337998633764699999999971997
Q gi|254780991|r  143 MQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRP  195 (805)
Q Consensus       143 l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~  195 (805)
                      |+-.|...+..-.|++.+.=.++.| ...-|.|-+||||| |.+++|.-.-+|
T Consensus         7 l~k~y~~~~~~~~al~~vsl~i~~G-e~~~ivG~SGsGKS-Tllr~i~gL~~p   57 (233)
T cd03258           7 VSKVFGDTGGKVTALKDVSLSVPKG-EIFGIIGRSGAGKS-TLIRCINGLERP   57 (233)
T ss_pred             EEEEECCCCCEEEEEECCEEEECCC-CEEEEECCCCCHHH-HHHHHHHCCCCC
T ss_conf             6999799997799984828899999-99999889805899-999999679999


No 469
>pfam02367 UPF0079 Uncharacterized P-loop hydrolase UPF0079. This uncharacterized family contains a P-loop.
Probab=79.24  E-value=2.7  Score=20.77  Aligned_cols=65  Identities=25%  Similarity=0.358  Sum_probs=42.1

Q ss_pred             HHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCC
Q ss_conf             9999988739733799863376469999999997199789993163468999999998678983899862134444
Q gi|254780991|r  158 AQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQ  233 (805)
Q Consensus       158 ~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~yq  233 (805)
                      ++|.+.+..| ...+|.|--|||||...-.+++..|-..-|-+|-=+|. |.|.     .+ + ..  +.|+|+|+
T Consensus         6 ~~ia~~l~~G-~vi~L~G~LGaGKTtfvr~i~~~lg~~~~V~SPTF~lv-~~Y~-----~~-~-~~--i~H~DlYR   70 (123)
T pfam02367         6 KRLAQLLKAG-DVVLLSGDLGAGKTTFVRGLAKGLGITGNVTSPTFTLV-NVYE-----PG-K-LP--LYHYDLYR   70 (123)
T ss_pred             HHHHHHCCCC-CEEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCEEEE-EEEC-----CC-C-CE--EEEEEEEC
T ss_conf             9999768999-79999888778899999999998599887379955889-9970-----89-9-63--99998332


No 470
>pfam05872 DUF853 Bacterial protein of unknown function (DUF853). This family consists of several bacterial proteins of unknown function. One member from Brucella melitensis is thought to be an ATPase.
Probab=79.20  E-value=2.3  Score=21.22  Aligned_cols=50  Identities=24%  Similarity=0.333  Sum_probs=32.9

Q ss_pred             CCCEEEEEEECCCCHHHHHHHHHHH---CCCCEEEE---------ECCHHHHHHHHHHHHHH
Q ss_conf             9733799863376469999999997---19978999---------31634689999999986
Q gi|254780991|r  167 REKVQLLLGVTGSGKTFTMAKVIEA---MQRPAIVM---------APNKILAAQLYSEFKNF  216 (805)
Q Consensus       167 g~~~qlL~GVTGSGKTevya~lI~~---~gr~aLvL---------vPei~La~QL~~rfk~~  216 (805)
                      -.++=|.-|.||+|||.+.--+.|.   .|-|+.+.         +--=.-.+.+..|..+.
T Consensus        20 ~NRHGLiaGATGTGKTvTLq~lAE~~S~~GVPvf~aDvKGDLsGia~~G~~~~kl~~R~~~~   81 (504)
T pfam05872        20 ANRHGLIAGATGTGKTVTLQVLAESFSDAGVPVFLADVKGDLSGIAAPGEPQDKLAARAASI   81 (504)
T ss_pred             CCCCCEECCCCCCCHHHHHHHHHHHHHHCCCCEEEECCCCCHHHCCCCCCCCHHHHHHHHHC
T ss_conf             05216622657786178999999987454993887105661432168899975799999971


No 471
>pfam02456 Adeno_IVa2 Adenovirus IVa2 protein. IVa2 protein can interact with the adenoviral packaging signal and that this interaction involves DNA sequences that have previously been demonstrated to be required for packaging. During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter.
Probab=79.19  E-value=1.9  Score=21.83  Aligned_cols=35  Identities=20%  Similarity=0.476  Sum_probs=27.5

Q ss_pred             EEEEEECCCCHHHHHHHHHHH-----CCCCEEEEECCHHH
Q ss_conf             799863376469999999997-----19978999316346
Q gi|254780991|r  171 QLLLGVTGSGKTFTMAKVIEA-----MQRPAIVMAPNKIL  205 (805)
Q Consensus       171 qlL~GVTGSGKTevya~lI~~-----~gr~aLvLvPei~L  205 (805)
                      .+.+|-|||||.-..=++|--     ..-.+.+++|++.-
T Consensus        90 ~vVYGPTG~GKSQLlRNlis~~lI~P~PETVfFItPq~~m  129 (370)
T pfam02456        90 GVVYGPTGCGKSQLLRNLLSCQLIQPIPETVFFITPQKDM  129 (370)
T ss_pred             EEEECCCCCCHHHHHHHHHHCCCCCCCCCEEEEECCCCCC
T ss_conf             9998899877899999987346677999728997677786


No 472
>cd01383 MYSc_type_VIII Myosin motor domain, plant-specific type VIII myosins, a subgroup which has been associated with endocytosis, cytokinesis, cell-to-cell coupling and gating at plasmodesmata. 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 f
Probab=79.05  E-value=4  Score=19.44  Aligned_cols=34  Identities=21%  Similarity=0.404  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHHCC-CCEEEEEEECCCCHHHHHHHHHH
Q ss_conf             89999999988739-73379986337646999999999
Q gi|254780991|r  154 PAAIAQLLKGIHSR-EKVQLLLGVTGSGKTFTMAKVIE  190 (805)
Q Consensus       154 ~~Ai~~L~~~l~~g-~~~qlL~GVTGSGKTevya~lI~  190 (805)
                      ..|...+..   .+ .+..++.|-+||||||.-=.++.
T Consensus        80 ~~Ay~~m~~---~~~nQsIiiSGESGaGKTe~~K~il~  114 (677)
T cd01383          80 DTAYNEMMR---DEVNQSIIISGESGAGKTETAKIAMQ  114 (677)
T ss_pred             HHHHHHHHH---CCCCEEEEEECCCCCCHHHHHHHHHH
T ss_conf             999999987---28980899967888985899999999


No 473
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=79.00  E-value=4.3  Score=19.26  Aligned_cols=126  Identities=19%  Similarity=0.218  Sum_probs=76.5

Q ss_pred             CCEEEEEEECCCCHHHHHHHH---HHHCCCCEEEEECCHHH-------HHHHHHHHHHHCCCCEEEEEEECCCCCCCCCC
Q ss_conf             733799863376469999999---99719978999316346-------89999999986789838998621344442101
Q gi|254780991|r  168 EKVQLLLGVTGSGKTFTMAKV---IEAMQRPAIVMAPNKIL-------AAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAY  237 (805)
Q Consensus       168 ~~~qlL~GVTGSGKTevya~l---I~~~gr~aLvLvPei~L-------a~QL~~rfk~~Fp~n~V~~f~S~~~~yqpEay  237 (805)
                      +.+..+||-+|.|||-.+-.+   +.+.++.++++..|...       -..-..+||.+|-+-.|.+.    |=-|    
T Consensus       141 yNPLfIyG~~GlGKTHLL~AIgn~i~~~~~kV~Yvtae~F~~~~v~ai~~~~~~~Fr~~yr~~DvLLI----DDIQ----  212 (455)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVSALRESGGKILYVSSELFTEHLVSAIRSGEMQRFRSFYRNVDALFI----EDIE----  212 (455)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHHCCCCEEEEECHHHHHHHHHHHHHCCCHHHHHHHHHCCCEEEE----EHHH----
T ss_conf             78758878999978999999999853799869997499999999999975889999999963887763----1478----


Q ss_pred             CCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCHHHHHCCEEEEECCCCCCHHHHHHHHHHCCC
Q ss_conf             55543210221035889999999999998549984998277896168983477225799941981117875323431176
Q gi|254780991|r  238 VPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVESYSQMIVQLKIGDSVEQKELLSSLVKQQY  317 (805)
Q Consensus       238 ~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfgl~~P~~~lglIIvdEehd~~~~~~~~~~l~~~~Y  317 (805)
                            +    .+--+.+-.+=+.+.++|.+...+||+.+-.      +|.+-.|+      +                 
T Consensus       213 ------f----l~gK~~tqeEff~tfN~L~~~~KQIVitsDr------~P~el~~l------~-----------------  253 (455)
T PRK12422        213 ------V----FSGKGATQEEFFHTFNSLHTEGKLIVISSSY------APGDLKAM------E-----------------  253 (455)
T ss_pred             ------H----HHCCHHHHHHHHHHHHHHHHCCCEEEEECCC------CHHHHHHH------H-----------------
T ss_conf             ------8----7284889999999999999859969996898------95765126------8-----------------


Q ss_pred             CCCHHHHHHHHHCCCCEEEECCCCCHHHH
Q ss_conf             56338775453318724783178887788
Q gi|254780991|r  318 KRQDIGIIRGTFRVCGDSIEIFPSHLEDV  346 (805)
Q Consensus       318 ~R~D~a~~RG~f~~rg~ILdsatps~Es~  346 (805)
                         +  -.+..| ..|.++++-||..|+.
T Consensus       254 ---~--RL~SRf-~~GL~v~I~~Pd~etr  276 (455)
T PRK12422        254 ---E--RLISRF-EWGIAIPIHPLTREGL  276 (455)
T ss_pred             ---H--HHHHHH-HCCEEECCCCCCHHHH
T ss_conf             ---9--999886-3761321689998999


No 474
>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=78.94  E-value=4.3  Score=19.24  Aligned_cols=65  Identities=18%  Similarity=0.246  Sum_probs=43.4

Q ss_pred             HHHH---HHHHHHHHHCCC---CEEEEEEECCCCHHHHHHHHHHHCCCCEE--------EEECCHHHHHHHHHHHHHHC
Q ss_conf             3899---999999887397---33799863376469999999997199789--------99316346899999999867
Q gi|254780991|r  153 QPAA---IAQLLKGIHSRE---KVQLLLGVTGSGKTFTMAKVIEAMQRPAI--------VMAPNKILAAQLYSEFKNFF  217 (805)
Q Consensus       153 Q~~A---i~~L~~~l~~g~---~~qlL~GVTGSGKTevya~lI~~~gr~aL--------vLvPei~La~QL~~rfk~~F  217 (805)
                      |.+|   .--+++-+++|.   +..||-|-.|+|||.+-+.+.+++|..+-        |-..|+.-|-=|.+-||.--
T Consensus        29 Q~~AReAagiiv~mIk~~K~aGraiLlaGppGTGKTAlA~aiakeLG~~vPF~~i~gSEvyS~E~kKTE~L~qafRrsI  107 (395)
T pfam06068        29 QEKAREAAGVIVEMIKEGKIAGRAVLIAGPPGTGKTALAIAISKELGEDTPFCPISGSEVYSLEMKKTEALTQAFRKAI  107 (395)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEHHEEECCCCCHHHHHHHHHHHHH
T ss_conf             4999999899999997277577389987799988899999999974879973450011121256548899999998875


No 475
>PRK09087 hypothetical protein; Validated
Probab=78.76  E-value=4.3  Score=19.20  Aligned_cols=119  Identities=18%  Similarity=0.164  Sum_probs=59.1

Q ss_pred             HHHHHHHHHHHHHCC-CCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCC
Q ss_conf             389999999988739-7337998633764699999999971997899931634689999999986789838998621344
Q gi|254780991|r  153 QPAAIAQLLKGIHSR-EKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDY  231 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g-~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~~  231 (805)
                      -..|++-|. ...+. .....|+|-.|||||-...-..++.+-  +++-+ ..+.....    ....++.+.+  =-.| 
T Consensus        29 N~~a~~~l~-~~~~w~~~~~~L~Gp~gsGKTHL~~~~~~~~~a--~~~~~-~~~~~~~~----~~~~~~~~~i--dd~d-   97 (226)
T PRK09087         29 NRAAVSLVD-RWPNWPSPVVVLAGPVGSGKTHLASIWREKADA--LLVHP-NEIGSDAA----NAAAERPVLI--EDID-   97 (226)
T ss_pred             HHHHHHHHH-HCCCCCCCEEEEECCCCCCHHHHHHHHHHHHCC--EEECH-HHCCHHHH----HHHCCCCEEE--ECCC-
T ss_conf             999999998-472677775899899999886999999998099--68366-87474667----6532798899--7487-


Q ss_pred             CCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCC--CCCH--HHHHCCEEEEECCC
Q ss_conf             4421015554321022103588999999999999854998499827789616--8983--47722579994198
Q gi|254780991|r  232 YQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYG--IGSV--ESYSQMIVQLKIGD  301 (805)
Q Consensus       232 yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l~~~~~~IVVgsrSAIfg--l~~P--~~~lglIIvdEehd  301 (805)
                                     . ...++   ..=+..++.+.+....++++++...-.  +..|  .+.++...+.+.+.
T Consensus        98 ---------------~-~~~dE---e~LFhl~N~~~~~~~~LLlts~~~p~~l~~~L~DL~SRL~~~~~~~I~~  152 (226)
T PRK09087         98 ---------------A-GGFDE---TGLFHLINSVRQAGTSLLMTSRLWPSAWNVKLPDLKSRLKAATVVEIGE  152 (226)
T ss_pred             ---------------C-CCCCH---HHHHHHHHHHHHCCCEEEEECCCCHHHCCCCCHHHHHHHHCCEEEEECC
T ss_conf             ---------------7-77478---9999999999853987999889895666762468999985785798359


No 476
>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=78.51  E-value=2.3  Score=21.19  Aligned_cols=40  Identities=35%  Similarity=0.363  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHHHCCC-CEEEEEEECCCCHHHHHHHHHHHCC
Q ss_conf             3899999999887397-3379986337646999999999719
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE-KVQLLLGVTGSGKTFTMAKVIEAMQ  193 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~-~~qlL~GVTGSGKTevya~lI~~~g  193 (805)
                      |..||++|++=+.+=| +|.+|||==|-||| |.|++.=+-.
T Consensus       160 QerAI~aLlaK~aSPfPQHiiLYGPPGVGKT-TaARl~LEe~  200 (616)
T TIGR02903       160 QERAIKALLAKLASPFPQHIILYGPPGVGKT-TAARLALEEA  200 (616)
T ss_pred             HHHHHHHHHHHHCCCCCCCEEEECCCCCCHH-HHHHHHHHHC
T ss_conf             4689999997631888660785573388478-9999987621


No 477
>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=78.29  E-value=3.4  Score=20.02  Aligned_cols=36  Identities=19%  Similarity=0.296  Sum_probs=26.0

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHH
Q ss_conf             337998633764699999999971997899931634
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKI  204 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~  204 (805)
                      +..+|.|.+||||+.++..++++..-.-...++-.|
T Consensus         3 r~iil~Gpsg~GK~tl~~~l~~~~~~~~~~~v~~TT   38 (184)
T smart00072        3 RPIVLSGPSGVGKGTLLAELIQEIPDAFERVVSHTT   38 (184)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHCCCCEEEEEEEEC
T ss_conf             779999999999999999998639645057787672


No 478
>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=78.27  E-value=2.4  Score=21.08  Aligned_cols=24  Identities=21%  Similarity=0.338  Sum_probs=20.3

Q ss_pred             CCEEEEEEECCCCHHHHHHHHHHH
Q ss_conf             733799863376469999999997
Q gi|254780991|r  168 EKVQLLLGVTGSGKTFTMAKVIEA  191 (805)
Q Consensus       168 ~~~qlL~GVTGSGKTevya~lI~~  191 (805)
                      ....||.|..|||||-.+.++...
T Consensus         3 ~ptvLllGl~~sGKT~Lf~~L~~~   26 (181)
T pfam09439         3 QPAVIIAGLCDSGKTSLFTLLTTG   26 (181)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             886999868999899999999759


No 479
>PRK10773 murF UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed
Probab=78.23  E-value=4.5  Score=19.09  Aligned_cols=32  Identities=31%  Similarity=0.367  Sum_probs=23.2

Q ss_pred             CHHHHHHHHHHHHHCCCCEEEEEEECCC-CHHHH
Q ss_conf             4389999999988739733799863376-46999
Q gi|254780991|r  152 DQPAAIAQLLKGIHSREKVQLLLGVTGS-GKTFT  184 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~~~qlL~GVTGS-GKTev  184 (805)
                      |-.+|+..|..-....+.. -+-||||| |||=|
T Consensus        82 d~~~al~~la~~~~~~~~~-~vIgITGSnGKTTt  114 (452)
T PRK10773         82 DTRLAFGQLAAWVRQQVPA-RVVALTGSSGKTSV  114 (452)
T ss_pred             CHHHHHHHHHHHHHHCCCC-CEEEEEECCCCCHH
T ss_conf             9999999999987515997-58999916996259


No 480
>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=78.17  E-value=3.4  Score=20.03  Aligned_cols=37  Identities=24%  Similarity=0.399  Sum_probs=25.8

Q ss_pred             HHHHHHHHHHHHHC------CCCEE--EEEEECCCCHHHHHHHHHH
Q ss_conf             38999999998873------97337--9986337646999999999
Q gi|254780991|r  153 QPAAIAQLLKGIHS------REKVQ--LLLGVTGSGKTFTMAKVIE  190 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~------g~~~q--lL~GVTGSGKTevya~lI~  190 (805)
                      |+-|.+.++..+..      ..++-  -+||-||+||++|- ++|+
T Consensus        30 Qhla~~~v~~al~~~l~~~~p~KpLVlSfHG~tGtGKn~vs-~liA   74 (127)
T pfam06309        30 QHLVKQLVVRSVKGHWENPKPRKPLVLSFHGWTGTGKNFVA-EIIA   74 (127)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCHHHHH-HHHH
T ss_conf             79899999999999974899999748870189998798999-9999


No 481
>PRK13634 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=77.66  E-value=0.5  Score=26.23  Aligned_cols=41  Identities=24%  Similarity=0.343  Sum_probs=32.1

Q ss_pred             CHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCC
Q ss_conf             4389999999988739733799863376469999999997199
Q gi|254780991|r  152 DQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQR  194 (805)
Q Consensus       152 dQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr  194 (805)
                      ++..|++.+.=.+..| ....|.|-+||||| |.++++.-.-+
T Consensus         5 ~e~~AL~~Vsl~i~~G-e~vaiiG~sGsGKS-TLl~~l~GLl~   45 (276)
T PRK13634          5 FERRALYDVNVSIPSG-SYVAIIGHTGSGKS-TLLQHLNGLLK   45 (276)
T ss_pred             CCCEEEECCEEEECCC-CEEEEECCCCCHHH-HHHHHHHCCCC
T ss_conf             9766651447799899-89999999996999-99999974999


No 482
>CHL00195 ycf46 Ycf46; Provisional
Probab=77.63  E-value=3.9  Score=19.53  Aligned_cols=28  Identities=18%  Similarity=0.145  Sum_probs=17.9

Q ss_pred             HHHHHCC-CCCCEEEEEECCCCHHHHHHHHHHH
Q ss_conf             6543127-9986699982489889999999878
Q gi|254780991|r  674 TIGRAAR-NVNSKVILYADTITKSIQLAIDETT  705 (805)
Q Consensus       674 ~~GRagR-~~~G~~il~ad~~t~~~~~ai~e~~  705 (805)
                      -.=|.|| ..    ++|.|.++....+.|-++.
T Consensus       376 ellR~GRFD~----~~~v~lP~~~~R~~I~~ih  404 (491)
T CHL00195        376 ELLRKGRFDE----IFFLDLPNLEERELIFKIH  404 (491)
T ss_pred             HHCCCCCCCE----EEECCCCCHHHHHHHHHHH
T ss_conf             7708987770----4764895989999999999


No 483
>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=77.61  E-value=4.7  Score=18.97  Aligned_cols=36  Identities=22%  Similarity=0.257  Sum_probs=28.9

Q ss_pred             EEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHH
Q ss_conf             799863376469999999997199789993163468
Q gi|254780991|r  171 QLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILA  206 (805)
Q Consensus       171 qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La  206 (805)
                      -+|-|..|||||-+--.+.++++.+.+=+=..|.-.
T Consensus         2 I~LiG~~G~GKstigk~la~~l~~~fiD~D~~Ie~~   37 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKALGLPFVDLDELIEQR   37 (154)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCEEECCHHHHHH
T ss_conf             899889999889999999999798979685999999


No 484
>PRK13909 putative recombination protein RecB; Provisional
Probab=77.61  E-value=4  Score=19.45  Aligned_cols=19  Identities=21%  Similarity=0.268  Sum_probs=14.8

Q ss_pred             EEEEHHHHHCCCCCCCCCE
Q ss_conf             9998458753578777117
Q gi|254780991|r  635 VLVGINLLREGLDIPECGL  653 (805)
Q Consensus       635 iLvgt~~~akGlD~p~v~l  653 (805)
                      |=|=|==-+|||-||-|-+
T Consensus       602 V~iMTIHkSKGLEFpvVil  620 (911)
T PRK13909        602 VQIMTVHKSKGLEFPHVIV  620 (911)
T ss_pred             EEEEEEEECCCCCCCEEEE
T ss_conf             0777632025766887996


No 485
>PRK13721 conjugal transfer ATP-binding protein TraC; Provisional
Probab=77.38  E-value=3.4  Score=20.01  Aligned_cols=17  Identities=12%  Similarity=0.106  Sum_probs=11.6

Q ss_pred             CCHHHHHHHHHHHHHHH
Q ss_conf             98899999998788888
Q gi|254780991|r  693 ITKSIQLAIDETTRRRE  709 (805)
Q Consensus       693 ~t~~~~~ai~e~~rrr~  709 (805)
                      -.+.|..+|++..|+-.
T Consensus       700 ~n~~~~~FIe~~yRr~R  716 (864)
T PRK13721        700 KNHKVGEFIEKGYRTAR  716 (864)
T ss_pred             CCHHHHHHHHHHHHHHH
T ss_conf             98789999999999988


No 486
>KOG3354 consensus
Probab=77.37  E-value=2.8  Score=20.64  Aligned_cols=25  Identities=32%  Similarity=0.476  Sum_probs=21.5

Q ss_pred             EEEEEEECCCCHHHHHHHHHHHCCC
Q ss_conf             3799863376469999999997199
Q gi|254780991|r  170 VQLLLGVTGSGKTFTMAKVIEAMQR  194 (805)
Q Consensus       170 ~qlL~GVTGSGKTevya~lI~~~gr  194 (805)
                      ..++.||.||||+-+-..++++.+.
T Consensus        14 ~i~vmGvsGsGKSTigk~L~~~l~~   38 (191)
T KOG3354          14 VIVVMGVSGSGKSTIGKALSEELGL   38 (191)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHCC
T ss_conf             5999835887744599999998588


No 487
>PRK13853 type IV secretion system protein VirB4; Provisional
Probab=77.31  E-value=1.6  Score=22.39  Aligned_cols=25  Identities=20%  Similarity=0.162  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCH
Q ss_conf             0124444777753321120145101
Q gi|254780991|r  420 QRLEQRITYDLEMLETTGSCQSIEN  444 (805)
Q Consensus       420 ~rL~qR~~~dle~l~e~G~~~gien  444 (805)
                      ..|.+++......+...|+..-+|.
T Consensus       331 ~~l~~~~~~v~~~l~~~G~~~~rE~  355 (789)
T PRK13853        331 NSLADRGARARTRLADAGAVVVQEG  355 (789)
T ss_pred             HHHHHHHHHHHHHHHHCCCEEEEEC
T ss_conf             9999999999999974895799840


No 488
>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import.  Responsible for energy coupling to the transport system.  The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP).  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=77.25  E-value=2  Score=21.73  Aligned_cols=39  Identities=38%  Similarity=0.627  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCC
Q ss_conf             99999999887397337998633764699999999971997
Q gi|254780991|r  155 AAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRP  195 (805)
Q Consensus       155 ~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~  195 (805)
                      .|++.+.=.++.| ....+.|-+||||| |.+++|.-.-+|
T Consensus        16 ~~l~~is~~v~~G-e~~~iiGpSGsGKS-Tll~~i~Gl~~p   54 (239)
T cd03296          16 VALDDVSLDIPSG-ELVALLGPSGSGKT-TLLRLIAGLERP   54 (239)
T ss_pred             EEECCCEEEECCC-CEEEEECCCCCHHH-HHHHHHHCCCCC
T ss_conf             9986638698899-89999999997799-999999769999


No 489
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=77.09  E-value=3.4  Score=19.99  Aligned_cols=39  Identities=28%  Similarity=0.333  Sum_probs=30.1

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHH
Q ss_conf             8888884389999999988739733799863376469999
Q gi|254780991|r  146 DYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTM  185 (805)
Q Consensus       146 ~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevy  185 (805)
                      +|+--=.|+.|-..|.-+. .|.+.-++.|--|||||++.
T Consensus       177 D~~DV~GQ~~AKrAleiAA-AGgHnLl~~GpPGtGKTmla  215 (490)
T COG0606         177 DFKDVKGQEQAKRALEIAA-AGGHNLLLVGPPGTGKTMLA  215 (490)
T ss_pred             CHHHHCCCHHHHHHHHHHH-HCCCCEEEECCCCCCHHHHH
T ss_conf             6666438499999999998-43886787569988656764


No 490
>PRK10646 putative ATPase; Provisional
Probab=77.04  E-value=4.5  Score=19.06  Aligned_cols=71  Identities=21%  Similarity=0.327  Sum_probs=43.6

Q ss_pred             CHHHHHHHHHH-HHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCC
Q ss_conf             43899999999-88739733799863376469999999997199789993163468999999998678983899862134
Q gi|254780991|r  152 DQPAAIAQLLK-GIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYD  230 (805)
Q Consensus       152 dQ~~Ai~~L~~-~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n~V~~f~S~~~  230 (805)
                      .+-.++.+-.. .+..| ...+|+|--|||||...-.+++..|.+.-|-.|-=+|.. .|.     .+  ...  +.|+|
T Consensus        12 ~~T~~lg~~la~~l~~g-~vi~L~G~LGaGKTtf~r~i~~~lg~~~~V~SPTf~lv~-~Y~-----~~--~~~--~~H~D   80 (153)
T PRK10646         12 QATLDLGERVAKACDGA-TVIYLYGDLGAGKTTFSRGFLQALGHQGNVKSPTYTLVE-PYT-----LD--NLM--VYHFD   80 (153)
T ss_pred             HHHHHHHHHHHHHCCCC-CEEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCEEEEE-EEC-----CC--CCE--EEEEE
T ss_conf             99999999999768999-799998888789999999999984997862699764799-732-----89--933--89998


Q ss_pred             CCC
Q ss_conf             444
Q gi|254780991|r  231 YYQ  233 (805)
Q Consensus       231 ~yq  233 (805)
                      .|+
T Consensus        81 lYR   83 (153)
T PRK10646         81 LYR   83 (153)
T ss_pred             EEC
T ss_conf             534


No 491
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=76.80  E-value=4.4  Score=19.16  Aligned_cols=64  Identities=19%  Similarity=0.243  Sum_probs=31.1

Q ss_pred             CCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCC
Q ss_conf             62147899999999863596687325764578999999997318986999845875357877711799962885674446
Q gi|254780991|r  588 TVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRS  667 (805)
Q Consensus       588 ~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~il~~~~~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~  667 (805)
                      ++|.--.|..|...|...|..+..+|+                         +-++.||.           .|. ||-..
T Consensus       453 gsGKstiA~~le~~L~~~g~~~~~LDG-------------------------d~lR~gl~-----------~dl-gf~~~  495 (613)
T PRK05506        453 GSGKSTIANLVERRLHALGRHTYVLDG-------------------------DNVRHGLN-----------RDL-GFTDA  495 (613)
T ss_pred             CCCHHHHHHHHHHHHHHCCCCEEEECC-------------------------HHHHHHHC-----------CCC-CCCHH
T ss_conf             897479999999999977998799880-------------------------89874104-----------577-97989


Q ss_pred             HHH-HHHHHHHHCC--CCCCEEEE
Q ss_conf             013-7766543127--99866999
Q gi|254780991|r  668 KTS-LIQTIGRAAR--NVNSKVIL  688 (805)
Q Consensus       668 ~~~-~~q~~GRagR--~~~G~~il  688 (805)
                      .+. -+-|+|..++  ...|.+.+
T Consensus       496 dR~enirR~~eva~l~~~aG~i~i  519 (613)
T PRK05506        496 DRVENIRRVAEVARLMADAGLIVL  519 (613)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCEEE
T ss_conf             999999999999999986898899


No 492
>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=76.69  E-value=4.9  Score=18.79  Aligned_cols=36  Identities=33%  Similarity=0.419  Sum_probs=18.6

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHH
Q ss_conf             3899999999887397337998633764699999999
Q gi|254780991|r  153 QPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVI  189 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI  189 (805)
                      ----+.+|.-++... .+.||.|-||.|||-+.-.+.
T Consensus       450 sl~lleql~~~Iq~n-ep~LLVGeTGtGKTT~IQ~La  485 (4600)
T COG5271         450 SLWLLEQLLWNIQNN-EPTLLVGETGTGKTTMIQYLA  485 (4600)
T ss_pred             HHHHHHHHHHHHCCC-CCEEEEECCCCCHHHHHHHHH
T ss_conf             799999998774169-845887148876546999999


No 493
>PRK08853 DNA polymerase III subunits gamma and tau; Validated
Probab=76.67  E-value=4.9  Score=18.79  Aligned_cols=38  Identities=21%  Similarity=0.379  Sum_probs=30.8

Q ss_pred             HHHHHHHHHHHHHCCC-CEE-EEEEECCCCHHHHHHHHHHH
Q ss_conf             3899999999887397-337-99863376469999999997
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE-KVQ-LLLGVTGSGKTFTMAKVIEA  191 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~-~~q-lL~GVTGSGKTevya~lI~~  191 (805)
                      |...++.|..+|..|. .+- |+.|.-|.|||- .|+++++
T Consensus        21 Q~~v~~~L~nal~~~rl~haylf~G~rGvGKTt-~ARi~Ak   60 (717)
T PRK08853         21 QSHVLTALENALAHNRLHHAYLFSGTRGVGKTT-IGRLFAK   60 (717)
T ss_pred             CHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHH-HHHHHHH
T ss_conf             599999999999709974057610889888989-9999999


No 494
>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=76.66  E-value=4.3  Score=19.25  Aligned_cols=33  Identities=30%  Similarity=0.317  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHH
Q ss_conf             3899999999887397337998633764699999
Q gi|254780991|r  153 QPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMA  186 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya  186 (805)
                      |..|...|.-.. .|.++.+|.|--|||||..--
T Consensus         8 Q~~akrAl~iAa-aG~H~lLl~GpPG~GKTmlA~   40 (207)
T pfam01078         8 QEQAKRALEIAA-AGGHNLLMIGPPGSGKTMLAK   40 (207)
T ss_pred             CHHHHHHHHHHH-CCCCCEEEECCCCCCHHHHHH
T ss_conf             599999999985-478758978899802999997


No 495
>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=76.47  E-value=2.6  Score=20.90  Aligned_cols=23  Identities=35%  Similarity=0.466  Sum_probs=19.4

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHH
Q ss_conf             33799863376469999999997
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEA  191 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~  191 (805)
                      +..++.|..|+|||-...+++-.
T Consensus         1 r~i~i~G~aG~GKTtll~kl~~~   23 (165)
T pfam05729         1 RTVILQGEAGSGKTTLLQKLALL   23 (165)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
T ss_conf             98999827989899999999999


No 496
>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=76.43  E-value=3.2  Score=20.18  Aligned_cols=22  Identities=36%  Similarity=0.511  Sum_probs=14.7

Q ss_pred             EEEEECCCCHHHHHHHHHHHCC
Q ss_conf             9986337646999999999719
Q gi|254780991|r  172 LLLGVTGSGKTFTMAKVIEAMQ  193 (805)
Q Consensus       172 lL~GVTGSGKTevya~lI~~~g  193 (805)
                      -+-|.+|||||-+--.+.+..+
T Consensus         3 gI~G~sgsGKTT~a~~L~~~l~   24 (198)
T cd02023           3 GIAGGSGSGKTTVAEEIIEQLG   24 (198)
T ss_pred             EEECCCCCCHHHHHHHHHHHHC
T ss_conf             9889998859999999999809


No 497
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=76.33  E-value=5  Score=18.72  Aligned_cols=33  Identities=30%  Similarity=0.338  Sum_probs=26.0

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHHCCCCEEEEEC
Q ss_conf             337998633764699999999971997899931
Q gi|254780991|r  169 KVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAP  201 (805)
Q Consensus       169 ~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvP  201 (805)
                      +-.||||--|+|||.+--.+..+++-+.+-+..
T Consensus       167 kGvLLyGPPGtGKTllAkAvA~e~~~~fi~v~~  199 (390)
T PRK03992        167 KGVLLYGPPGTGKTLLAKAVAHETNATFIRVVG  199 (390)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHCCCEEEEEH
T ss_conf             727868989997899999999874888799667


No 498
>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.
Probab=76.11  E-value=3.9  Score=19.57  Aligned_cols=48  Identities=23%  Similarity=0.272  Sum_probs=32.2

Q ss_pred             EEEEECCCCHHHHHHHHHHHCCCCEEE---EECCHHHH-HHHHHHHHHHCCCC
Q ss_conf             998633764699999999971997899---93163468-99999999867898
Q gi|254780991|r  172 LLLGVTGSGKTFTMAKVIEAMQRPAIV---MAPNKILA-AQLYSEFKNFFPHN  220 (805)
Q Consensus       172 lL~GVTGSGKTevya~lI~~~gr~aLv---LvPei~La-~QL~~rfk~~Fp~n  220 (805)
                      -+.|--|||||.+- +.+++.|-+++-   +++++... +..+..+...||.+
T Consensus         3 giTG~igSGKStv~-~~l~~~g~~v~~aD~i~~~l~~~~~~~~~~i~~~fg~~   54 (179)
T cd02022           3 GLTGGIGSGKSTVA-KLLKELGIPVIDADKIAHEVYEPGGPALQAIVEAFGPD   54 (179)
T ss_pred             EEECCCCCCHHHHH-HHHHHCCCEEEECHHHHHHHHHCCHHHHHHHHHHCCCH
T ss_conf             86378757899999-99998799099635999998860769999999873713


No 499
>PRK07270 DNA polymerase III subunits gamma and tau; Validated
Probab=76.01  E-value=5.1  Score=18.66  Aligned_cols=40  Identities=28%  Similarity=0.327  Sum_probs=31.7

Q ss_pred             HHHHHHHHHHHHHCCC-CE-EEEEEECCCCHHHHHHHHHHHC
Q ss_conf             3899999999887397-33-7998633764699999999971
Q gi|254780991|r  153 QPAAIAQLLKGIHSRE-KV-QLLLGVTGSGKTFTMAKVIEAM  192 (805)
Q Consensus       153 Q~~Ai~~L~~~l~~g~-~~-qlL~GVTGSGKTevya~lI~~~  192 (805)
                      |..+.+.|...+.+|. .+ .|.+|--|+|||-+..-+.+.+
T Consensus        20 Qe~i~~~L~nal~~~ri~HAyLF~GP~GtGKts~ArifAkaL   61 (557)
T PRK07270         20 QEVVATTLKQAVESGKISHAYLFSGPRGTGKTSAAKIFAKAM   61 (557)
T ss_pred             HHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             199999999999859954044210899868999999999995


No 500
>PRK07576 short chain dehydrogenase; Provisional
Probab=75.99  E-value=5.1  Score=18.66  Aligned_cols=61  Identities=16%  Similarity=0.228  Sum_probs=0.0

Q ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHH-----HHHHHHHHHCCCCCEEE
Q ss_conf             9986302321246621478999999998635966873257645789-----99999997318986999
Q gi|254780991|r  575 INLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLE-----RIEIIRDLRLGKFDVLV  637 (805)
Q Consensus       575 i~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~-----r~~il~~~~~g~~diLv  637 (805)
                      .......|.++.+...++...+++.+.+.+.+..+.++..|+...+     -.++.++|  |.+||||
T Consensus        25 a~~la~~Ga~V~i~~r~~~~~~~~~~~l~~~~~~~~~~~~Dv~~~~~~~~~~~~~~~~~--G~iDiLV   90 (260)
T PRK07576         25 AQAFARAGANVAVASRSQEKVDAAVAQLQQAGPEALGVSADVRDYAAVEAAFAAIADEF--GPIDVLV   90 (260)
T ss_pred             HHHHHHCCCEEEEEECCHHHHHHHHHHHHHCCCCEEEEEECCCCHHHHHHHHHHHHHHH--CCCCEEE
T ss_conf             99999879999999798899999999999539948999931899999999999999984--9998999


Done!