Query         537021.9.peg.409_1
Match_columns 242
No_of_seqs    111 out of 3671
Neff          8.9 
Searched_HMMs 39220
Date          Wed May 25 05:25:51 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i peg_409.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 TIGR02784 addA_alphas double-s 100.0 4.5E-43       0  322.7  18.1  215   22-239     1-219 (1190)
  2 TIGR02785 addA_Gpos recombinat 100.0 1.8E-35 4.5E-40  269.3  17.8  211   18-239     1-223 (1295)
  3 TIGR01073 pcrA ATP-dependent D 100.0 5.3E-36 1.4E-40  272.9  12.6  205   17-234     2-220 (811)
  4 PRK11773 uvrD DNA-dependent he 100.0 6.4E-33 1.6E-37  251.3  16.1  127   12-176     2-130 (722)
  5 TIGR01075 uvrD DNA helicase II 100.0 5.6E-33 1.4E-37  251.7   8.0  182   16-235     1-188 (741)
  6 PRK10919 ATP-dependent DNA hel 100.0 6.6E-31 1.7E-35  237.1  13.3  121   20-177     3-125 (672)
  7 TIGR01074 rep ATP-dependent DN 100.0 4.6E-30 1.2E-34  231.2  11.5  124   17-177     1-126 (677)
  8 COG1074 RecB ATP-dependent exo 100.0 6.4E-29 1.6E-33  223.2  15.5  178   18-199     3-184 (1139)
  9 PRK13909 putative recombinatio 100.0 1.3E-28 3.3E-33  221.0  15.7  127   34-163     1-127 (911)
 10 pfam00580 UvrD-helicase UvrD/R 100.0 4.1E-29   1E-33  224.5  13.0  119   20-175     1-122 (494)
 11 PRK10876 recB exonuclease V su  99.9 1.9E-26 4.9E-31  205.7  15.1  144   31-179    16-170 (1181)
 12 PRK11054 helD DNA helicase IV;  99.9 6.6E-26 1.7E-30  202.0   9.2  103    9-151   184-290 (684)
 13 COG0210 UvrD Superfamily I DNA  99.9 4.5E-25 1.1E-29  196.1  11.5  121   19-176     2-124 (655)
 14 TIGR00609 recB exodeoxyribonuc  99.9 2.1E-23 5.3E-28  184.4  13.0  160   31-192     9-200 (1324)
 15 KOG2108 consensus               99.1 6.1E-11 1.6E-15   96.7   4.4   81    6-88      2-84  (853)
 16 KOG1803 consensus               99.0 5.5E-10 1.4E-14   90.0   6.2   65   16-83    182-250 (649)
 17 TIGR01447 recD exodeoxyribonuc  98.6 5.1E-08 1.3E-12   76.1   4.9  119   22-165   230-360 (753)
 18 COG3973 Superfamily I DNA and   98.4 3.5E-06 8.8E-11   63.3  10.3   70   11-80    204-278 (747)
 19 PRK10875 recD exonuclease V su  98.3   9E-07 2.3E-11   67.4   4.9   66   24-89    152-221 (607)
 20 KOG1805 consensus               98.3 6.5E-07 1.7E-11   68.3   4.0   67   16-85    666-736 (1100)
 21 KOG1802 consensus               98.0 4.6E-06 1.2E-10   62.4   2.8   66   18-85    409-477 (935)
 22 TIGR01448 recD_rel helicase, R  97.6 6.3E-05 1.6E-09   54.4   3.9   76    7-82    336-426 (769)
 23 COG3972 Superfamily I DNA and   97.5 6.5E-05 1.7E-09   54.3   2.5   72   17-89    161-233 (660)
 24 PRK09694 hypothetical protein;  97.5  0.0037 9.4E-08   42.0  11.3  158   17-175   287-467 (878)
 25 pfam00270 DEAD DEAD/DEAH box h  97.3 0.00031   8E-09   49.5   4.4  118   30-165    13-130 (167)
 26 KOG1807 consensus               97.3 0.00015 3.8E-09   51.8   2.7   64   21-84    381-449 (1025)
 27 cd00046 DEXDc DEAD-like helica  97.3 0.00028 7.1E-09   49.8   4.1  114   32-165     1-114 (144)
 28 PRK11664 ATP-dependent RNA hel  97.3 0.00031 7.9E-09   49.5   4.0   57   29-88     18-74  (812)
 29 pfam04851 ResIII Type III rest  97.2  0.0012   3E-08   45.5   5.9   51   30-83     17-67  (103)
 30 PRK13709 conjugal transfer nic  97.2 0.00062 1.6E-08   47.4   4.5   64   16-81    965-1036(1756)
 31 PRK13826 Dtr system oriT relax  97.1 0.00096 2.5E-08   46.1   5.1   67   12-81    374-444 (1102)
 32 COG1201 Lhr Lhr-like helicases  97.1  0.0011 2.8E-08   45.7   5.2  134    6-141    11-163 (814)
 33 smart00487 DEXDc DEAD-like hel  97.1 0.00077   2E-08   46.7   4.2  127   21-165    10-140 (201)
 34 PRK13889 conjugal transfer rel  97.1 0.00088 2.3E-08   46.3   4.5   60   19-81    346-409 (992)
 35 PRK13767 ATP-dependent helicas  97.0  0.0024 6.2E-08   43.2   6.3   69   20-88     33-110 (878)
 36 TIGR02782 TrbB_P P-type conjug  96.9 0.00055 1.4E-08   47.8   2.6   57   25-86    133-190 (315)
 37 PRK00149 dnaA chromosomal repl  96.9   0.031 7.9E-07   35.5  11.3   58   23-81    134-197 (447)
 38 PRK11776 ATP-dependent RNA hel  96.8  0.0029 7.4E-08   42.7   5.3   80    4-83      3-93  (459)
 39 TIGR01420 pilT_fam twitching m  96.8  0.0017 4.4E-08   44.3   4.0   31   26-56    122-152 (350)
 40 PRK11634 ATP-dependent RNA hel  96.5  0.0047 1.2E-07   41.2   4.5   69   16-84     26-96  (629)
 41 pfam02562 PhoH PhoH-like prote  96.4  0.0045 1.2E-07   41.4   4.3   55   17-72      2-59  (205)
 42 cd00268 DEADc DEAD-box helicas  96.3  0.0062 1.6E-07   40.4   4.4   70   16-85     19-92  (203)
 43 PRK05580 primosome assembly pr  96.3  0.0068 1.7E-07   40.1   4.6   66   20-88    169-240 (699)
 44 TIGR02768 TraA_Ti Ti-type conj  96.3  0.0072 1.8E-07   39.9   4.6   61   18-81    413-477 (888)
 45 pfam07652 Flavi_DEAD Flaviviru  96.2  0.0041   1E-07   41.7   3.2   48   34-84      5-53  (146)
 46 TIGR02173 cyt_kin_arch cytidyl  96.2  0.0022 5.7E-08   43.5   1.8   22   34-56      3-24  (173)
 47 PRK10590 ATP-dependent RNA hel  96.2  0.0092 2.3E-07   39.2   4.8   69   16-84     21-97  (457)
 48 cd01124 KaiC KaiC is a circadi  96.1  0.0026 6.7E-08   43.0   1.8   46   33-82      1-46  (187)
 49 PRK04328 hypothetical protein;  96.1  0.0039 9.9E-08   41.8   2.6   50   30-83     22-72  (250)
 50 TIGR00376 TIGR00376 DNA helica  96.1  0.0082 2.1E-07   39.5   4.1   69   18-87    201-273 (709)
 51 PRK11192 ATP-dependent RNA hel  96.0   0.013 3.2E-07   38.2   4.8   70   16-85     23-98  (417)
 52 cd03115 SRP The signal recogni  96.0  0.0049 1.2E-07   41.1   2.7   50   34-86      3-54  (173)
 53 PRK08116 hypothetical protein;  96.0  0.0051 1.3E-07   41.0   2.8   47   31-85    108-154 (262)
 54 TIGR03158 cas3_cyano CRISPR-as  96.0    0.02   5E-07   36.9   5.7   58   26-89      8-66  (357)
 55 pfam00437 GSPII_E Type II/IV s  96.0  0.0075 1.9E-07   39.8   3.6   29   27-55    135-163 (283)
 56 PRK01297 ATP-dependent RNA hel  96.0    0.02 5.2E-07   36.8   5.6   68   17-84    105-181 (472)
 57 pfam05970 DUF889 PIF1 helicase  95.9  0.0029 7.4E-08   42.7   1.2   38   38-78      1-38  (418)
 58 pfam06414 Zeta_toxin Zeta toxi  95.9    0.03 7.8E-07   35.5   6.4   24   32-55     13-36  (191)
 59 cd00009 AAA The AAA+ (ATPases   95.9   0.013 3.4E-07   38.1   4.5   51   29-80     17-68  (151)
 60 PRK02362 ski2-like helicase; P  95.9   0.017 4.3E-07   37.3   5.0   65   17-84     21-89  (736)
 61 PRK04837 ATP-dependent RNA hel  95.8   0.019 4.9E-07   36.9   5.1   71   16-90     29-108 (423)
 62 PRK13833 conjugal transfer pro  95.8  0.0077   2E-07   39.7   3.1   46   26-72    139-184 (323)
 63 pfam00448 SRP54 SRP54-type pro  95.8  0.0067 1.7E-07   40.1   2.7   51   33-86      3-55  (196)
 64 smart00489 DEXDc3 DEAD-like he  95.8   0.017 4.4E-07   37.3   4.7   49   28-76     24-75  (289)
 65 smart00488 DEXDc2 DEAD-like he  95.8   0.017 4.4E-07   37.3   4.7   49   28-76     24-75  (289)
 66 pfam10412 TrwB_AAD_bind Type I  95.8   0.012 3.2E-07   38.3   4.0   31   29-59     13-43  (386)
 67 TIGR02788 VirB11 P-type DNA tr  95.8  0.0077   2E-07   39.7   2.8   44   25-72    152-195 (328)
 68 PRK06067 flagellar accessory p  95.7  0.0056 1.4E-07   40.7   2.1   49   30-82     30-79  (241)
 69 PRK09302 circadian clock prote  95.7  0.0071 1.8E-07   40.0   2.6   42   31-75     24-66  (501)
 70 COG2804 PulE Type II secretory  95.7   0.014 3.7E-07   37.8   4.1   34   25-58    252-285 (500)
 71 COG1061 SSL2 DNA or RNA helica  95.7   0.017 4.4E-07   37.2   4.5   52   31-88     55-106 (442)
 72 PRK04863 mukB cell division pr  95.7     0.2 5.1E-06   29.8  12.2  115   30-147    25-219 (1486)
 73 TIGR01970 DEAH_box_HrpB ATP-de  95.7   0.013 3.3E-07   38.1   3.8   66   23-91      9-75  (858)
 74 COG1198 PriA Primosomal protei  95.7   0.011 2.8E-07   38.7   3.4   67   19-88    198-271 (730)
 75 COG1204 Superfamily II helicas  95.7   0.026 6.7E-07   36.0   5.3   77    5-83     18-97  (766)
 76 PRK09302 circadian clock prote  95.7  0.0059 1.5E-07   40.5   1.9   42   31-75    266-307 (501)
 77 TIGR02760 TraI_TIGR conjugativ  95.6  0.0037 9.3E-08   42.0   0.8   69   13-81   1125-1203(2193)
 78 pfam03796 DnaB_C DnaB-like hel  95.6   0.096 2.4E-06   32.0   8.0   52   31-86     19-71  (186)
 79 TIGR00631 uvrb excinuclease AB  95.6   0.015 3.9E-07   37.6   3.9  112   19-142    10-130 (667)
 80 TIGR01587 cas3_core CRISPR-ass  95.6   0.021 5.3E-07   36.7   4.6  112   34-146     2-129 (424)
 81 PRK10436 hypothetical protein;  95.6   0.017 4.2E-07   37.4   4.1   29   27-55    211-239 (461)
 82 PRK01172 ski2-like helicase; P  95.6   0.036 9.3E-07   35.0   5.8   76    4-84      9-87  (674)
 83 COG1110 Reverse gyrase [DNA re  95.6    0.22 5.6E-06   29.5  11.5   77    9-88     70-151 (1187)
 84 KOG0338 consensus               95.6   0.017 4.4E-07   37.3   4.0   86    4-93    180-279 (691)
 85 KOG0350 consensus               95.5   0.015 3.9E-07   37.6   3.7   54   31-84    183-237 (620)
 86 TIGR02533 type_II_gspE general  95.5   0.011 2.7E-07   38.7   2.8   32   24-55    238-269 (495)
 87 PRK13894 conjugal transfer ATP  95.5   0.012 3.1E-07   38.3   3.0   45   27-72    145-189 (320)
 88 COG2805 PilT Tfp pilus assembl  95.5   0.019 4.8E-07   37.0   3.9   32   26-57    120-151 (353)
 89 COG1643 HrpA HrpA-like helicas  95.4    0.02   5E-07   36.9   3.9   54   30-83     64-123 (845)
 90 PRK13851 type IV secretion sys  95.4  0.0093 2.4E-07   39.1   2.2   43   26-72    157-199 (343)
 91 PRK04537 ATP-dependent RNA hel  95.4   0.034 8.7E-07   35.2   5.1   70   15-84     28-106 (574)
 92 cd01129 PulE-GspE PulE/GspE Th  95.4   0.022 5.7E-07   36.5   4.1   28   28-55     77-104 (264)
 93 COG4098 comFA Superfamily II D  95.4   0.021 5.4E-07   36.6   4.0   57   29-88    114-170 (441)
 94 KOG0731 consensus               95.4    0.25 6.3E-06   29.1   9.5  122    8-134   321-448 (774)
 95 PRK09401 reverse gyrase; Revie  95.4    0.26 6.5E-06   29.0  12.1   63   22-87     81-146 (1176)
 96 COG4581 Superfamily II RNA hel  95.4   0.027 6.8E-07   35.9   4.4   62   25-89    128-189 (1041)
 97 PRK13768 GTPase; Provisional    95.4   0.019 4.8E-07   37.0   3.7   27   33-59      4-30  (253)
 98 pfam06745 KaiC KaiC. This fami  95.4   0.012   3E-07   38.4   2.6   51   30-84     17-69  (231)
 99 COG0552 FtsY Signal recognitio  95.4   0.031   8E-07   35.4   4.7   69   12-80    116-188 (340)
100 pfam05729 NACHT NACHT domain.   95.4   0.019 4.9E-07   36.9   3.7   31   32-63      1-31  (165)
101 cd01127 TrwB Bacterial conjuga  95.3   0.023 5.8E-07   36.4   4.0   29   31-59     42-70  (410)
102 PRK08074 bifunctional ATP-depe  95.3   0.057 1.4E-06   33.6   6.0   49   30-81    276-325 (932)
103 PRK06731 flhF flagellar biosyn  95.3   0.012 3.1E-07   38.3   2.6   52   34-86     78-129 (270)
104 cd01130 VirB11-like_ATPase Typ  95.3    0.02   5E-07   36.9   3.6   27   28-54     22-48  (186)
105 KOG0952 consensus               95.3   0.027 6.9E-07   35.9   4.2   61   28-88    123-190 (1230)
106 PRK10536 hypothetical protein;  95.3   0.027 6.9E-07   35.9   4.2   52   19-71     59-113 (262)
107 COG0513 SrmB Superfamily II DN  95.3   0.031   8E-07   35.4   4.5   72   16-87     49-124 (513)
108 PRK07952 DNA replication prote  95.3   0.012 3.1E-07   38.4   2.4   48   31-86     96-143 (242)
109 PRK13342 recombination factor   95.2    0.28 7.2E-06   28.7   9.4   50   29-84     35-84  (417)
110 CHL00176 ftsH cell division pr  95.2   0.036 9.1E-07   35.0   4.5   75   13-90    189-266 (631)
111 smart00382 AAA ATPases associa  95.1   0.021 5.2E-07   36.7   3.1   29   31-59      2-30  (148)
112 pfam00308 Bac_DnaA Bacterial d  95.0   0.051 1.3E-06   34.0   5.0   45   24-69     24-71  (219)
113 PRK06526 transposase; Provisio  95.0   0.036 9.1E-07   35.0   4.2   39   30-71     97-135 (254)
114 PRK04841 transcriptional regul  95.0   0.013 3.4E-07   38.0   2.0   25   28-52     28-53  (903)
115 KOG0330 consensus               95.0   0.038 9.7E-07   34.9   4.3   65   18-82     83-149 (476)
116 COG0467 RAD55 RecA-superfamily  95.0   0.017 4.3E-07   37.3   2.4   43   30-75     22-64  (260)
117 KOG0733 consensus               95.0    0.11 2.8E-06   31.7   6.6   79    7-86    199-313 (802)
118 TIGR00368 TIGR00368 Mg chelata  94.9   0.014 3.6E-07   37.9   1.9   48   31-79    213-265 (505)
119 pfam09848 DUF2075 Uncharacteri  94.9   0.034 8.7E-07   35.2   3.8   50   34-83      4-60  (348)
120 cd00984 DnaB_C DnaB helicase C  94.9    0.21 5.2E-06   29.7   7.8   53   31-87     13-66  (242)
121 COG1484 DnaC DNA replication p  94.8    0.02   5E-07   36.9   2.5   48   30-85    104-151 (254)
122 KOG0328 consensus               94.8  0.0021 5.3E-08   43.7  -2.5   67   17-83     48-116 (400)
123 COG1205 Distinct helicase fami  94.8   0.081 2.1E-06   32.5   5.6   69   20-90     71-143 (851)
124 PRK12377 putative replication   94.8   0.037 9.3E-07   35.0   3.8   48   30-85    100-147 (248)
125 PRK08181 transposase; Validate  94.8    0.04   1E-06   34.7   4.0   38   31-71    106-143 (269)
126 CHL00181 cbbX CbbX; Provisiona  94.8    0.37 9.5E-06   27.9  10.6   28   32-60     60-88  (287)
127 PRK13766 Hef nuclease; Provisi  94.8   0.038 9.6E-07   34.9   3.8   63   23-87     20-83  (764)
128 PRK11331 5-methylcytosine-spec  94.8   0.016 4.1E-07   37.5   1.9   42   30-72    193-234 (459)
129 PRK13407 bchI magnesium chelat  94.8   0.032 8.1E-07   35.4   3.4   29   27-56     24-53  (334)
130 PRK00254 ski2-like helicase; P  94.8   0.075 1.9E-06   32.8   5.3   65   17-84     21-90  (717)
131 TIGR01241 FtsH_fam ATP-depende  94.7   0.022 5.6E-07   36.5   2.5  100   28-133    89-195 (505)
132 COG0507 RecD ATP-dependent exo  94.7     0.2   5E-06   29.8   7.3   76    8-83    191-277 (696)
133 PRK05703 flhF flagellar biosyn  94.7   0.038 9.6E-07   34.9   3.5   50   31-82    210-262 (412)
134 PRK00411 cdc6 cell division co  94.7   0.042 1.1E-06   34.5   3.8   28   30-58     54-81  (394)
135 PRK08506 replicative DNA helic  94.6    0.17 4.4E-06   30.2   6.9  104   31-148   192-302 (473)
136 PRK12726 flagellar biosynthesi  94.6   0.028 7.1E-07   35.8   2.7   52   34-86    209-260 (407)
137 pfam01695 IstB IstB-like ATP b  94.6   0.051 1.3E-06   34.0   4.0   47   30-84     46-92  (178)
138 PRK08533 flagellar accessory p  94.6    0.02 5.1E-07   36.8   2.0   49   29-81     21-70  (230)
139 PRK06835 DNA replication prote  94.6    0.03 7.8E-07   35.5   2.9   47   30-84    182-228 (330)
140 PRK10463 hydrogenase nickel in  94.5   0.027   7E-07   35.9   2.6   45   36-85    109-153 (290)
141 PRK09183 transposase/IS protei  94.5   0.054 1.4E-06   33.8   4.1   47   30-84    100-146 (258)
142 KOG0991 consensus               94.5   0.058 1.5E-06   33.5   4.2   33   25-57     41-74  (333)
143 pfam00004 AAA ATPase family as  94.5   0.037 9.5E-07   34.9   3.2   51   34-87      1-51  (131)
144 PRK11747 dinG ATP-dependent DN  94.5   0.037 9.3E-07   35.0   3.1   46   31-79     47-93  (697)
145 TIGR03499 FlhF flagellar biosy  94.4    0.03 7.7E-07   35.5   2.6   34   34-69    197-231 (282)
146 PRK10733 hflB ATP-dependent me  94.4    0.06 1.5E-06   33.5   4.1   75   13-90    164-241 (644)
147 COG0606 Predicted ATPase with   94.4   0.026 6.5E-07   36.0   2.1   39   29-69    196-234 (490)
148 KOG0345 consensus               94.3   0.074 1.9E-06   32.8   4.5   55   30-84     42-101 (567)
149 PRK06921 hypothetical protein;  94.3   0.061 1.6E-06   33.4   4.0   39   30-71    115-154 (265)
150 COG4962 CpaF Flp pilus assembl  94.2   0.033 8.4E-07   35.3   2.5   42   27-72    169-210 (355)
151 pfam05496 RuvB_N Holliday junc  94.2   0.045 1.2E-06   34.3   3.2   26   30-56     49-74  (234)
152 PRK04195 replication factor C   94.2    0.03 7.7E-07   35.5   2.3   24   31-55     40-63  (403)
153 cd01131 PilT Pilus retraction   94.2   0.045 1.1E-06   34.4   3.1   26   32-57      2-27  (198)
154 PRK05298 excinuclease ABC subu  94.2   0.033 8.3E-07   35.3   2.4   68   18-91     13-87  (657)
155 cd01120 RecA-like_NTPases RecA  94.2    0.06 1.5E-06   33.4   3.7   46   34-83      2-47  (165)
156 TIGR00073 hypB hydrogenase acc  94.1   0.034 8.6E-07   35.2   2.3   61   20-85     15-83  (225)
157 PRK13900 type IV secretion sys  94.1   0.045 1.2E-06   34.3   2.9   41   26-71    155-196 (332)
158 pfam07728 AAA_5 AAA domain (dy  94.1   0.046 1.2E-06   34.3   3.0   24   33-57      1-24  (139)
159 TIGR00643 recG ATP-dependent D  94.0   0.087 2.2E-06   32.3   4.2   67   18-87    307-381 (721)
160 PRK03992 proteasome-activating  94.0    0.22 5.7E-06   29.4   6.3   28   28-56    163-190 (390)
161 KOG0734 consensus               94.0    0.19 4.7E-06   30.0   5.9   96   31-132   337-435 (752)
162 CHL00081 chlI Mg-protoporyphyr  93.9   0.043 1.1E-06   34.4   2.6   29   27-56     28-57  (347)
163 cd01126 TraG_VirD4 The TraG/Tr  93.9   0.037 9.5E-07   34.9   2.3   24   33-58      1-24  (384)
164 COG0593 DnaA ATPase involved i  93.9    0.16 4.1E-06   30.5   5.5   50   31-80    113-164 (408)
165 PRK12723 flagellar biosynthesi  93.9   0.064 1.6E-06   33.2   3.4   53   34-87    177-233 (388)
166 PRK10416 cell division protein  93.8   0.048 1.2E-06   34.1   2.7   54   31-85    293-348 (499)
167 pfam01443 Viral_helicase1 Vira  93.8   0.045 1.1E-06   34.3   2.5   20   34-53      1-20  (226)
168 PRK12608 transcription termina  93.8   0.087 2.2E-06   32.3   4.0   27   31-58    132-158 (379)
169 KOG0989 consensus               93.8   0.054 1.4E-06   33.8   2.8   37   30-66     55-92  (346)
170 PTZ00110 helicase; Provisional  93.8    0.12 3.1E-06   31.3   4.6   66   18-83    204-276 (602)
171 KOG0920 consensus               93.7     0.1 2.7E-06   31.8   4.2   64   22-86    176-243 (924)
172 pfam02399 Herpes_ori_bp Origin  93.7   0.083 2.1E-06   32.5   3.6   53   31-85     48-101 (829)
173 pfam03029 ATP_bind_1 Conserved  93.7   0.046 1.2E-06   34.2   2.3   23   36-58      1-23  (234)
174 PRK12724 flagellar biosynthesi  93.6   0.062 1.6E-06   33.4   2.9   48   34-81    226-274 (432)
175 pfam01580 FtsK_SpoIIIE FtsK/Sp  93.6    0.23 5.9E-06   29.4   5.8   39   33-72     40-80  (202)
176 COG2256 MGS1 ATPase related to  93.6    0.17 4.2E-06   30.3   5.1   55   30-87     47-101 (436)
177 COG5635 Predicted NTPase (NACH  93.6   0.057 1.5E-06   33.6   2.7   32   32-63    223-254 (824)
178 TIGR02881 spore_V_K stage V sp  93.6   0.027 6.8E-07   35.9   1.0  192   15-214    20-237 (261)
179 PRK11448 hsdR type I restricti  93.5    0.29 7.5E-06   28.6   6.3   41   31-72    436-476 (1126)
180 PRK11889 flhF flagellar biosyn  93.5   0.068 1.7E-06   33.1   3.0   48   34-81    244-291 (436)
181 cd01428 ADK Adenylate kinase (  93.5   0.091 2.3E-06   32.2   3.6   32   34-66      2-34  (194)
182 PRK06696 uridine kinase; Valid  93.5    0.27 6.8E-06   28.9   6.0   34   26-60     19-55  (227)
183 KOG0741 consensus               93.4   0.089 2.3E-06   32.2   3.5   55   22-76    527-586 (744)
184 COG1199 DinG Rad3-related DNA   93.4    0.13 3.2E-06   31.2   4.3   53   30-85     33-86  (654)
185 TIGR01242 26Sp45 26S proteasom  93.4   0.043 1.1E-06   34.5   1.9   46   26-82    151-196 (364)
186 TIGR03015 pepcterm_ATPase puta  93.4   0.096 2.5E-06   32.0   3.6   55   29-87     41-96  (269)
187 KOG0924 consensus               93.4   0.082 2.1E-06   32.5   3.3   55   30-87    370-433 (1042)
188 TIGR00064 ftsY signal recognit  93.4    0.11 2.9E-06   31.5   3.9   56   25-83     74-134 (284)
189 COG0556 UvrB Helicase subunit   93.3    0.05 1.3E-06   34.0   2.1   69   17-91     11-86  (663)
190 PRK08084 DNA replication initi  93.3    0.18 4.7E-06   30.0   4.9   39   29-70     43-81  (235)
191 PRK00771 signal recognition pa  93.3    0.12   3E-06   31.4   3.9   52   34-86    100-151 (433)
192 KOG0744 consensus               93.2   0.071 1.8E-06   33.0   2.7   88    1-88    144-247 (423)
193 KOG0727 consensus               93.2     0.1 2.5E-06   31.9   3.4  126    7-135   164-293 (408)
194 TIGR00602 rad24 checkpoint pro  93.2   0.053 1.3E-06   33.8   2.0   45   12-56     97-143 (670)
195 PRK06995 flhF flagellar biosyn  93.2   0.097 2.5E-06   32.0   3.3   34   34-69    179-213 (404)
196 COG1419 FlhF Flagellar GTP-bin  93.1    0.14 3.5E-06   30.9   4.1   45   11-56    184-228 (407)
197 KOG0327 consensus               93.1    0.22 5.7E-06   29.4   5.1   65   18-86     48-114 (397)
198 COG1125 OpuBA ABC-type proline  93.1    0.29 7.5E-06   28.6   5.7   68   30-102    25-97  (309)
199 PRK09270 frcK putative fructos  93.1    0.14 3.5E-06   30.9   4.1   30   28-58     29-60  (230)
200 PRK10867 signal recognition pa  93.1   0.094 2.4E-06   32.1   3.2   76   11-87     80-156 (453)
201 COG4096 HsdR Type I site-speci  93.1    0.29 7.4E-06   28.7   5.6   48   31-79    185-232 (875)
202 pfam05876 Terminase_GpA Phage   93.0    0.12   3E-06   31.4   3.6   53   32-86     34-87  (552)
203 KOG1532 consensus               93.0    0.11 2.8E-06   31.6   3.4   32   30-61     16-49  (366)
204 pfam10236 DAP3 Mitochondrial r  93.0    0.14 3.5E-06   30.9   3.9   32   28-59     20-51  (274)
205 pfam01078 Mg_chelatase Magnesi  92.9    0.16 4.1E-06   30.4   4.2   37   31-69     22-58  (207)
206 cd02025 PanK Pantothenate kina  92.9    0.04   1E-06   34.7   1.1   34   35-69      3-36  (220)
207 COG2019 AdkA Archaeal adenylat  92.9    0.18 4.5E-06   30.1   4.4   52   33-84      6-58  (189)
208 COG3854 SpoIIIAA ncharacterize  92.9    0.11 2.9E-06   31.5   3.3   40   32-72    138-180 (308)
209 PRK02496 adk adenylate kinase;  92.8    0.13 3.4E-06   31.0   3.5   36   32-67      2-37  (185)
210 PRK00440 rfc replication facto  92.7    0.11 2.9E-06   31.5   3.2   25   33-57     39-63  (318)
211 PRK13341 recombination factor   92.7    0.17 4.4E-06   30.2   4.1   55   23-83     43-98  (726)
212 PRK09862 putative ATP-dependen  92.7    0.11 2.9E-06   31.5   3.1   47   21-69    196-246 (506)
213 pfam03237 Terminase_6 Terminas  92.7   0.081 2.1E-06   32.5   2.3   53   35-88      1-54  (380)
214 pfam03215 Rad17 Rad17 cell cyc  92.6   0.075 1.9E-06   32.8   2.2   23   33-55     47-69  (490)
215 PRK11131 ATP-dependent RNA hel  92.6    0.15 3.8E-06   30.7   3.7   51   33-84     91-148 (1295)
216 COG0714 MoxR-like ATPases [Gen  92.6    0.16   4E-06   30.6   3.7   39   28-67     40-87  (329)
217 TIGR02858 spore_III_AA stage I  92.6     0.1 2.5E-06   31.9   2.7   27   33-60    125-151 (282)
218 COG1222 RPT1 ATP-dependent 26S  92.6   0.066 1.7E-06   33.1   1.8   95   27-132   181-286 (406)
219 COG0541 Ffh Signal recognition  92.5    0.11 2.9E-06   31.5   3.0   73   11-86     80-154 (451)
220 PRK06761 hypothetical protein;  92.5    0.16   4E-06   30.5   3.7   28   31-59      2-30  (281)
221 KOG0922 consensus               92.5   0.079   2E-06   32.6   2.1   60   28-87     63-128 (674)
222 TIGR00606 rad50 rad50; InterPr  92.5   0.074 1.9E-06   32.8   2.0   29   31-61     27-57  (1328)
223 TIGR03420 DnaA_homol_Hda DnaA   92.4    0.29 7.4E-06   28.6   4.9   29   31-59     38-66  (226)
224 TIGR02237 recomb_radB DNA repa  92.4    0.22 5.5E-06   29.5   4.3   38   35-72     16-64  (223)
225 PRK12422 chromosomal replicati  92.3    0.97 2.5E-05   25.0  14.0   47   32-81    142-191 (455)
226 PRK00279 adk adenylate kinase;  92.3    0.16 4.2E-06   30.4   3.5   34   33-67      2-36  (215)
227 PRK13974 thymidylate kinase; P  92.3    0.12   3E-06   31.4   2.7   53   34-86      6-58  (212)
228 PRK09376 rho transcription ter  92.3     0.2 5.1E-06   29.8   3.9   27   31-58    169-195 (416)
229 TIGR01359 UMP_CMP_kin_fam UMP-  92.2   0.065 1.7E-06   33.2   1.4   22   34-55      2-23  (189)
230 COG5008 PilU Tfp pilus assembl  92.2    0.12 3.1E-06   31.3   2.8   34   23-56    119-152 (375)
231 pfam07726 AAA_3 ATPase family   92.2    0.14 3.6E-06   30.8   3.1   24   33-57      1-24  (131)
232 KOG0923 consensus               92.1    0.12 3.1E-06   31.3   2.7   61   27-87    276-343 (902)
233 TIGR01425 SRP54_euk signal rec  92.1   0.049 1.3E-06   34.1   0.6   51   34-84    124-174 (453)
234 KOG1131 consensus               92.0    0.19 4.8E-06   30.0   3.6   58   24-81     28-90  (755)
235 KOG0738 consensus               92.0    0.12   3E-06   31.4   2.5   91   30-131   244-343 (491)
236 PRK13765 ATP-dependent proteas  92.0    0.17 4.3E-06   30.3   3.3   31   26-57     45-75  (637)
237 PRK08118 topology modulation p  92.0   0.089 2.3E-06   32.2   1.8   55   32-87      2-58  (167)
238 cd01123 Rad51_DMC1_radA Rad51_  92.0     0.6 1.5E-05   26.4   6.1   26   30-55     17-43  (235)
239 PRK09361 radB DNA repair and r  91.9     0.2   5E-06   29.8   3.5   37   30-69     21-58  (224)
240 KOG0951 consensus               91.8    0.31   8E-06   28.4   4.5   70   20-89    310-391 (1674)
241 KOG1533 consensus               91.8   0.062 1.6E-06   33.3   1.0   22   34-55      5-26  (290)
242 COG0378 HypB Ni2+-binding GTPa  91.8    0.12   3E-06   31.4   2.3   49   31-80     10-61  (202)
243 KOG0741 consensus               91.8     0.4   1E-05   27.7   5.1   51   32-88    257-311 (744)
244 KOG0925 consensus               91.8     1.1 2.8E-05   24.6   8.2   58   30-87     61-124 (699)
245 KOG0354 consensus               91.7   0.095 2.4E-06   32.0   1.7   65   21-86     65-130 (746)
246 COG1203 CRISPR-associated heli  91.7     0.3 7.7E-06   28.5   4.3   57   33-89    216-273 (733)
247 TIGR03600 phage_DnaB phage rep  91.6     1.1 2.9E-05   24.4   7.3   50   34-87    197-247 (421)
248 PRK07261 topology modulation p  91.6     0.1 2.6E-06   31.8   1.8   54   34-88      3-58  (171)
249 PRK10751 molybdopterin-guanine  91.6    0.29 7.3E-06   28.7   4.1   29   33-61      3-32  (170)
250 PRK07246 bifunctional ATP-depe  91.6    0.19 4.9E-06   29.9   3.2   49   29-81    262-310 (820)
251 TIGR02746 TraC-F-type type-IV   91.6    0.22 5.5E-06   29.5   3.4  142   30-195   488-647 (900)
252 cd01394 radB RadB. The archaea  91.5    0.16   4E-06   30.5   2.7   37   30-69     17-54  (218)
253 COG0563 Adk Adenylate kinase a  91.5    0.11 2.7E-06   31.7   1.8   22   33-55      2-23  (178)
254 pfam02534 TraG TraG/TraD famil  91.5   0.069 1.8E-06   33.0   0.9   28   28-57     40-68  (468)
255 CHL00195 ycf46 Ycf46; Provisio  91.5    0.12 3.1E-06   31.2   2.2   56   26-87    254-312 (491)
256 cd01128 rho_factor Transcripti  91.4    0.24   6E-06   29.3   3.5   23   31-54     16-38  (249)
257 PRK04040 adenylate kinase; Pro  91.4     0.2 5.2E-06   29.7   3.2   25   32-57      3-27  (189)
258 PRK08903 hypothetical protein;  91.4    0.46 1.2E-05   27.2   5.0   29   32-60     43-71  (227)
259 COG1474 CDC6 Cdc6-related prot  91.4    0.14 3.5E-06   30.9   2.3   26   31-57     42-67  (366)
260 TIGR02982 heterocyst_DevA ABC   91.3    0.13 3.4E-06   31.1   2.2   30   30-59     30-60  (220)
261 PRK13721 conjugal transfer ATP  91.3    0.31   8E-06   28.4   4.1   31   30-60    473-503 (864)
262 COG2909 MalT ATP-dependent tra  91.3    0.21 5.4E-06   29.6   3.2   22   32-53     38-59  (894)
263 pfam04466 Terminase_3 Phage te  91.3    0.12 2.9E-06   31.4   1.8   44   32-77      3-46  (387)
264 PRK13764 ATPase; Provisional    91.1    0.46 1.2E-05   27.3   4.8   33   27-59    255-287 (605)
265 PRK12402 replication factor C   91.1    0.23 5.8E-06   29.4   3.2   24   32-56     37-60  (337)
266 cd01122 GP4d_helicase GP4d_hel  91.1    0.32 8.2E-06   28.3   4.0   52   31-86     30-82  (271)
267 TIGR03348 VI_IcmF type VI secr  91.1    0.14 3.6E-06   30.8   2.1   18   34-51    114-131 (1169)
268 PRK13946 shikimate kinase; Pro  91.1    0.25 6.4E-06   29.1   3.4   36   20-56      9-44  (195)
269 PRK08939 primosomal protein Dn  91.1    0.28 7.1E-06   28.8   3.6   30   32-61    158-187 (306)
270 PHA02244 ATPase-like protein    91.0    0.38 9.8E-06   27.8   4.3   44   26-78    114-157 (383)
271 PRK06893 DNA replication initi  91.0    0.38 9.7E-06   27.8   4.3   30   30-59     37-67  (229)
272 KOG3079 consensus               91.0    0.37 9.4E-06   27.9   4.1   20   34-53     11-30  (195)
273 KOG1806 consensus               90.9    0.16   4E-06   30.5   2.2   68   17-85    737-806 (1320)
274 pfam00006 ATP-synt_ab ATP synt  90.9     0.3 7.6E-06   28.6   3.6   52   31-84     15-66  (213)
275 PTZ00301 uridine kinase; Provi  90.9    0.13 3.2E-06   31.2   1.7   32   34-66      6-37  (210)
276 TIGR00959 ffh signal recogniti  90.9    0.26 6.7E-06   28.9   3.3   78   10-88     78-160 (439)
277 PRK06620 hypothetical protein;  90.8    0.19 4.9E-06   29.9   2.6   17   32-48     45-61  (214)
278 pfam01935 DUF87 Domain of unkn  90.8    0.32 8.3E-06   28.3   3.7   27   31-57     23-49  (218)
279 COG0630 VirB11 Type IV secreto  90.7    0.29 7.5E-06   28.6   3.5   30   26-56    138-167 (312)
280 COG1224 TIP49 DNA helicase TIP  90.7    0.32 8.3E-06   28.3   3.7   32   30-62     64-95  (450)
281 COG3911 Predicted ATPase [Gene  90.7    0.19 4.7E-06   30.0   2.4   18   33-50     11-28  (183)
282 pfam04310 MukB MukB N-terminal  90.7     1.4 3.6E-05   23.8   7.0   24   35-58     31-54  (227)
283 PRK08727 hypothetical protein;  90.7    0.46 1.2E-05   27.3   4.4   30   30-59     40-69  (233)
284 COG1200 RecG RecG-like helicas  90.6     0.3 7.7E-06   28.5   3.5   56   18-73    262-330 (677)
285 pfam03266 DUF265 Protein of un  90.6    0.36 9.1E-06   28.0   3.8   27   34-61      2-29  (168)
286 PRK09751 putative ATP-dependen  90.6    0.25 6.4E-06   29.1   3.0   53   36-88      1-63  (1490)
287 COG0468 RecA RecA/RadA recombi  90.6    0.51 1.3E-05   26.9   4.6   40   30-69     58-109 (279)
288 pfam03205 MobB Molybdopterin g  90.6    0.35   9E-06   28.1   3.7   28   34-61      3-30  (122)
289 TIGR03117 cas_csf4 CRISPR-asso  90.5    0.49 1.3E-05   27.0   4.5   54   30-86     15-70  (636)
290 pfam00158 Sigma54_activat Sigm  90.5    0.28 7.2E-06   28.7   3.2   34   21-56     12-45  (168)
291 PTZ00088 adenylate kinase 1; P  90.5    0.34 8.6E-06   28.2   3.6   34   33-67      2-36  (225)
292 TIGR02538 type_IV_pilB type IV  90.4    0.24   6E-06   29.3   2.8   26   30-56    325-350 (577)
293 cd01882 BMS1 Bms1.  Bms1 is an  90.3    0.36 9.1E-06   28.0   3.6   26   34-59     42-67  (225)
294 PRK12727 flagellar biosynthesi  90.3    0.12 3.2E-06   31.2   1.3   47   31-79    348-398 (557)
295 TIGR01967 DEAH_box_HrpA ATP-de  90.3    0.16   4E-06   30.5   1.8   60   31-91     84-150 (1320)
296 cd02020 CMPK Cytidine monophos  90.3       1 2.6E-05   24.8   6.0   22   34-56      2-23  (147)
297 TIGR02546 III_secr_ATP type II  90.2     0.2 5.1E-06   29.8   2.3   22   31-52    153-174 (430)
298 PRK11608 pspF phage shock prot  90.2    0.35 8.8E-06   28.1   3.5   34   21-56     19-52  (325)
299 KOG0340 consensus               90.1    0.41   1E-05   27.6   3.8   73   10-88     21-97  (442)
300 pfam07724 AAA_2 AAA domain (Cd  90.1    0.35 8.8E-06   28.1   3.4   30   29-59      1-30  (168)
301 pfam06068 TIP49 TIP49 C-termin  90.0     0.4   1E-05   27.6   3.7   31   30-61     49-79  (395)
302 PRK06851 hypothetical protein;  90.0    0.17 4.4E-06   30.2   1.8   32   30-61     30-61  (368)
303 PRK03839 putative kinase; Prov  90.0    0.19 4.9E-06   29.9   2.0   19   34-53      3-21  (180)
304 cd02023 UMPK Uridine monophosp  89.9    0.33 8.3E-06   28.3   3.1   23   34-57      2-24  (198)
305 COG0464 SpoVK ATPases of the A  89.9     1.3 3.4E-05   23.9   6.3   57   29-88    274-330 (494)
306 TIGR02880 cbbX_cfxQ CbbX prote  89.8    0.34 8.7E-06   28.1   3.2  134    8-153    35-182 (284)
307 TIGR02640 gas_vesic_GvpN gas v  89.8    0.31 7.9E-06   28.4   2.9   30   29-59     19-48  (265)
308 TIGR01360 aden_kin_iso1 adenyl  89.8    0.15 3.9E-06   30.6   1.3   26   34-59      6-35  (191)
309 COG1618 Predicted nucleotide k  89.7    0.23 5.9E-06   29.3   2.2   34   32-66      6-40  (179)
310 PRK13695 putative NTPase; Prov  89.7    0.45 1.2E-05   27.3   3.7   28   33-61      5-33  (174)
311 KOG0743 consensus               89.6    0.24 6.2E-06   29.2   2.3   24   32-55    236-259 (457)
312 pfam02702 KdpD Osmosensitive K  89.5    0.51 1.3E-05   26.9   3.8   50   34-83      8-57  (211)
313 TIGR02928 TIGR02928 orc1/cdc6   89.3    0.45 1.1E-05   27.3   3.5   26   31-57     43-68  (383)
314 cd02028 UMPK_like Uridine mono  89.3    0.47 1.2E-05   27.1   3.6   27   34-61      2-29  (179)
315 TIGR01186 proV glycine betaine  89.2     1.6 4.2E-05   23.3   6.3   89   31-122    18-115 (372)
316 COG1102 Cmk Cytidylate kinase   89.1    0.34 8.7E-06   28.1   2.8   16   34-49      3-18  (179)
317 TIGR00176 mobB molybdopterin-g  89.1    0.29 7.5E-06   28.6   2.4   29   35-63      3-31  (165)
318 PRK13898 type IV secretion sys  89.1    0.49 1.2E-05   27.0   3.5   47   31-82    446-492 (800)
319 pfam05707 Zot Zonular occluden  89.0    0.42 1.1E-05   27.5   3.1   26   34-59      3-29  (183)
320 PRK05642 DNA replication initi  88.9    0.68 1.7E-05   26.0   4.2   27   32-59     46-73  (234)
321 PRK13705 plasmid-partitioning   88.9    0.25 6.3E-06   29.1   1.9   28   32-59    104-135 (388)
322 cd01133 F1-ATPase_beta F1 ATP   88.9    0.28 7.2E-06   28.7   2.2   53   31-83     69-121 (274)
323 KOG2227 consensus               88.9    0.58 1.5E-05   26.5   3.8   39   29-67    173-211 (529)
324 PRK13853 type IV secretion sys  88.8    0.51 1.3E-05   26.9   3.5   50   31-82    426-476 (789)
325 TIGR03029 EpsG chain length de  88.7    0.33 8.5E-06   28.2   2.5   26   34-59    107-132 (274)
326 pfam00485 PRK Phosphoribulokin  88.7    0.41 1.1E-05   27.6   2.9   31   34-65      2-33  (196)
327 TIGR01313 therm_gnt_kin carboh  88.6    0.38 9.8E-06   27.8   2.7   23   34-56      1-23  (175)
328 PRK09087 hypothetical protein;  88.5    0.41   1E-05   27.6   2.8   18   31-48     44-61  (226)
329 COG2842 Uncharacterized ATPase  88.5       2 5.1E-05   22.7   7.8   24   30-53     93-116 (297)
330 cd03114 ArgK-like The function  88.5    0.19 4.8E-06   30.0   1.1   24   36-59      4-27  (148)
331 PRK00131 aroK shikimate kinase  88.5    0.33 8.5E-06   28.2   2.3   25   31-56      4-28  (175)
332 KOG3928 consensus               88.4    0.53 1.3E-05   26.8   3.3   36   24-59    170-207 (461)
333 cd01672 TMPK Thymidine monopho  88.4    0.69 1.8E-05   26.0   3.9   27   34-60      3-29  (200)
334 COG4088 Predicted nucleotide k  88.4    0.47 1.2E-05   27.2   3.0   23   34-57      4-26  (261)
335 TIGR03453 partition_RepA plasm  88.3    0.23 5.8E-06   29.4   1.4   29   31-59    101-133 (387)
336 TIGR00446 nop2p NOL1/NOP2/sun   88.3    0.11 2.9E-06   31.5  -0.1   63    7-82     59-122 (284)
337 COG0610 Type I site-specific r  88.3    0.58 1.5E-05   26.5   3.5   95   31-146   273-368 (962)
338 PTZ00112 origin recognition co  88.2     0.5 1.3E-05   27.0   3.1   27   30-57    291-318 (650)
339 PRK13830 conjugal transfer pro  88.1    0.59 1.5E-05   26.5   3.4   48   31-82    456-503 (818)
340 COG3523 IcmF Type VI protein s  87.9    0.25 6.4E-06   29.1   1.4   20   34-53    128-147 (1188)
341 PRK13869 plasmid-partitioning   87.6    0.28 7.1E-06   28.8   1.5   28   32-59    119-150 (405)
342 TIGR00382 clpX ATP-dependent C  87.5     0.4   1E-05   27.7   2.2   26   31-57    152-177 (452)
343 KOG1970 consensus               87.4    0.57 1.4E-05   26.6   3.0   35   14-50     92-129 (634)
344 COG0465 HflB ATP-dependent Zn   87.3    0.72 1.8E-05   25.9   3.5   77    6-87    158-236 (596)
345 PRK07667 uridine kinase; Provi  87.3    0.84 2.1E-05   25.4   3.8   31   29-60     10-43  (190)
346 PRK05595 replicative DNA helic  87.3     2.4 6.1E-05   22.2   6.4  101   34-148   204-311 (444)
347 PRK03731 aroL shikimate kinase  87.2    0.44 1.1E-05   27.3   2.4   25   31-56      2-26  (172)
348 COG5192 BMS1 GTP-binding prote  87.2    0.63 1.6E-05   26.3   3.1   22   34-55     72-93  (1077)
349 COG1875 NYN ribonuclease and A  87.2    0.56 1.4E-05   26.6   2.9   51   17-67    226-281 (436)
350 KOG0926 consensus               87.2    0.77   2E-05   25.7   3.6   65   21-88    259-331 (1172)
351 pfam00625 Guanylate_kin Guanyl  87.1    0.58 1.5E-05   26.5   2.9   21   31-51      1-21  (182)
352 COG1223 Predicted ATPase (AAA+  87.0    0.41   1E-05   27.6   2.1   19   30-48    150-168 (368)
353 PRK13531 regulatory ATPase Rav  87.0       1 2.6E-05   24.8   4.1   29   28-57     36-64  (498)
354 pfam12340 DUF3638 Protein of u  87.0     2.5 6.3E-05   22.1   7.2   55   31-88     41-95  (229)
355 KOG0987 consensus               87.0    0.41   1E-05   27.6   2.1   67    7-79    108-182 (540)
356 COG1100 GTPase SAR1 and relate  86.9    0.41   1E-05   27.6   2.1   31   32-62      6-36  (219)
357 PRK10917 ATP-dependent DNA hel  86.9    0.78   2E-05   25.6   3.5   55   17-71    256-323 (677)
358 COG1674 FtsK DNA segregation A  86.9    0.97 2.5E-05   24.9   3.9   29   31-59    530-558 (858)
359 PRK05057 aroK shikimate kinase  86.8    0.44 1.1E-05   27.4   2.2   26   31-57      4-29  (172)
360 KOG0729 consensus               86.8    0.39 9.8E-06   27.8   1.8   27   20-46    198-226 (435)
361 KOG0331 consensus               86.7    0.48 1.2E-05   27.1   2.3   59   29-91    126-190 (519)
362 TIGR01243 CDC48 AAA family ATP  86.7    0.41   1E-05   27.6   1.9   30   26-56    235-264 (980)
363 PRK11034 clpA ATP-dependent Cl  86.7     1.6 4.1E-05   23.4   5.0   61   31-92    207-277 (758)
364 PRK00698 tmk thymidylate kinas  86.7       1 2.6E-05   24.8   4.0   29   33-61      5-33  (204)
365 PRK09112 DNA polymerase III su  86.6     2.6 6.6E-05   22.0   8.4   24   34-58     48-72  (352)
366 COG1855 ATPase (PilT family) [  86.6     1.5 3.7E-05   23.7   4.7   34   26-59    258-291 (604)
367 cd03116 MobB Molybdenum is an   86.6     1.1 2.7E-05   24.7   4.0   27   34-60      4-30  (159)
368 pfam02689 Herpes_Helicase Heli  86.6     1.1 2.9E-05   24.4   4.2   42   34-85     63-106 (801)
369 KOG0730 consensus               86.6    0.61 1.6E-05   26.4   2.8   19   30-48    217-235 (693)
370 pfam00406 ADK Adenylate kinase  86.5    0.52 1.3E-05   26.8   2.4   31   36-67      1-32  (186)
371 PRK13873 conjugal transfer ATP  86.4    0.86 2.2E-05   25.3   3.4   48   31-82    441-488 (815)
372 COG1797 CobB Cobyrinic acid a,  86.4    0.94 2.4E-05   25.0   3.6   27   33-59      1-29  (451)
373 PRK13947 shikimate kinase; Pro  86.3    0.49 1.3E-05   27.0   2.2   25   32-57      2-26  (171)
374 KOG0780 consensus               86.3    0.41   1E-05   27.6   1.7   48   34-81    104-151 (483)
375 TIGR01243 CDC48 AAA family ATP  86.3    0.43 1.1E-05   27.4   1.9   60   25-85    569-633 (980)
376 KOG0652 consensus               86.2    0.45 1.1E-05   27.3   1.9  100   28-132   202-306 (424)
377 TIGR00929 VirB4_CagE type IV s  86.2     0.9 2.3E-05   25.2   3.5   52   28-81    513-565 (931)
378 KOG3347 consensus               86.2    0.42 1.1E-05   27.5   1.8   24   32-56      7-31  (176)
379 pfam05872 DUF853 Bacterial pro  86.2     0.8   2E-05   25.6   3.2   57   29-85     19-81  (504)
380 PRK07429 phosphoribulokinase;   86.1       1 2.6E-05   24.8   3.7   28   29-57      4-33  (331)
381 KOG2228 consensus               86.1    0.84 2.1E-05   25.4   3.3   28   27-54     44-72  (408)
382 COG3842 PotA ABC-type spermidi  86.0    0.52 1.3E-05   26.9   2.2   26   30-56     29-55  (352)
383 PRK08694 consensus              86.0     2.8   7E-05   21.8   7.0   53   31-87    217-271 (468)
384 cd02022 DPCK Dephospho-coenzym  85.9     0.5 1.3E-05   27.0   2.0   15   34-48      2-16  (179)
385 pfam04665 Pox_A32 Poxvirus A32  85.8    0.95 2.4E-05   25.0   3.4   41   33-73     15-72  (241)
386 pfam00071 Ras Ras family. Incl  85.8    0.72 1.8E-05   25.8   2.8   19   34-53      2-20  (162)
387 pfam07088 GvpD GvpD gas vesicl  85.7    0.39 9.8E-06   27.8   1.4   48   29-77      8-64  (484)
388 PRK08233 hypothetical protein;  85.7    0.77   2E-05   25.7   2.9   22   34-56      6-27  (182)
389 PRK13700 conjugal transfer pro  85.7       1 2.7E-05   24.7   3.6   29   31-59    185-213 (732)
390 PRK13973 thymidylate kinase; P  85.5     1.3 3.2E-05   24.2   3.9   28   34-61      6-33  (216)
391 COG5271 MDN1 AAA ATPase contai  85.5     0.7 1.8E-05   25.9   2.6   32   22-53    455-486 (4600)
392 TIGR00956 3a01205 Pleiotropic   85.4    0.51 1.3E-05   26.9   1.9   53   29-83     86-138 (1466)
393 pfam02492 cobW CobW/HypB/UreG,  85.4    0.78   2E-05   25.6   2.8   21   33-53      1-22  (174)
394 KOG0332 consensus               85.4    0.41   1E-05   27.6   1.4   58   28-85    126-183 (477)
395 PRK00080 ruvB Holliday junctio  85.3    0.93 2.4E-05   25.1   3.2   28   29-57     49-76  (328)
396 cd02021 GntK Gluconate kinase   85.2    0.58 1.5E-05   26.5   2.1   21   34-54      2-22  (150)
397 COG0470 HolB ATPase involved i  85.1    0.89 2.3E-05   25.2   3.0   25   33-57     26-50  (325)
398 TIGR02868 CydC ABC transporter  85.1    0.67 1.7E-05   26.1   2.4   69   30-104   386-458 (566)
399 TIGR01187 potA polyamine ABC t  85.1    0.33 8.4E-06   28.2   0.8   19   36-55      1-19  (331)
400 TIGR01526 nadR_NMN_Atrans nico  85.1     1.2 3.1E-05   24.3   3.7   45   32-77    176-220 (346)
401 PRK10923 glnG nitrogen regulat  85.0    0.94 2.4E-05   25.1   3.1   34   21-56    151-184 (469)
402 COG0237 CoaE Dephospho-CoA kin  84.9    0.61 1.6E-05   26.3   2.1   15   34-48      5-19  (201)
403 TIGR03574 selen_PSTK L-seryl-t  84.8     1.4 3.5E-05   23.9   3.8   26   34-59      2-27  (249)
404 PRK13948 shikimate kinase; Pro  84.8     0.7 1.8E-05   26.0   2.4   27   30-57      9-35  (182)
405 PRK13896 cobyrinic acid a,c-di  84.8     1.1 2.8E-05   24.6   3.4   25   35-59      4-30  (432)
406 TIGR01618 phage_P_loop phage n  84.8     0.3 7.7E-06   28.5   0.5   55   32-86     14-79  (229)
407 COG1702 PhoH Phosphate starvat  84.8    0.72 1.8E-05   25.9   2.4   60   19-83    128-190 (348)
408 COG2205 KdpD Osmosensitive K+   84.8     1.3 3.4E-05   24.0   3.8  126   19-144     5-153 (890)
409 TIGR02903 spore_lon_C ATP-depe  84.8    0.87 2.2E-05   25.3   2.8   19   29-47    173-192 (616)
410 KOG0342 consensus               84.7       1 2.6E-05   24.8   3.2   67   20-86    106-178 (543)
411 cd03234 ABCG_White The White s  84.7    0.63 1.6E-05   26.3   2.1   26   30-56     32-57  (226)
412 PRK05563 DNA polymerase III su  84.6    0.67 1.7E-05   26.1   2.2   25   31-56     37-62  (541)
413 PRK03846 adenylylsulfate kinas  84.6     3.2 8.1E-05   21.3   8.0   67   21-87     12-90  (198)
414 PRK00300 gmk guanylate kinase;  84.6    0.68 1.7E-05   26.1   2.2   20   31-50      6-26  (208)
415 COG1936 Predicted nucleotide k  84.5    0.59 1.5E-05   26.5   1.9   19   34-53      3-21  (180)
416 smart00072 GuKc Guanylate kina  84.4     1.1 2.7E-05   24.7   3.1   24   31-54      2-25  (184)
417 COG0572 Udk Uridine kinase [Nu  84.4     1.1 2.8E-05   24.6   3.2   31   34-69     11-41  (218)
418 KOG0651 consensus               84.3    0.65 1.7E-05   26.2   2.0   58   28-88    163-220 (388)
419 KOG1942 consensus               84.3     3.3 8.4E-05   21.2   5.6   31   30-61     63-93  (456)
420 PRK13891 conjugal transfer pro  84.3     1.2   3E-05   24.3   3.4   26   31-56    488-513 (852)
421 TIGR01081 mpl UDP-N-acetylmura  84.2    0.96 2.5E-05   25.0   2.8   36   31-67    100-137 (459)
422 cd03230 ABC_DR_subfamily_A Thi  84.2    0.94 2.4E-05   25.0   2.8   26   30-56     24-50  (173)
423 pfam06309 Torsin Torsin. This   84.1     1.6 4.1E-05   23.4   4.0   33   29-61     49-83  (127)
424 TIGR00968 3a0106s01 sulfate AB  84.0    0.74 1.9E-05   25.8   2.2   19   30-48     24-43  (241)
425 PRK05748 replicative DNA helic  84.0     3.4 8.6E-05   21.1   7.3   50   34-87    206-256 (448)
426 cd04160 Arfrp1 Arfrp1 subfamil  83.8     0.8   2E-05   25.5   2.3   32   33-65      1-34  (167)
427 cd03213 ABCG_EPDR ABCG transpo  83.7    0.71 1.8E-05   25.9   2.0   21   30-50     34-54  (194)
428 KOG0742 consensus               83.6    0.41   1E-05   27.6   0.7   21   28-48    381-401 (630)
429 PRK05201 hslU ATP-dependent pr  83.6     3.5 8.9E-05   21.0   7.2   26   31-57     50-75  (442)
430 cd04157 Arl6 Arl6 subfamily.    83.6    0.83 2.1E-05   25.4   2.3   16   33-48      1-16  (162)
431 COG0305 DnaB Replicative DNA h  83.5     3.5   9E-05   21.0   5.9  103   33-148   198-306 (435)
432 KOG0735 consensus               83.5     1.9 4.8E-05   22.9   4.1   29   28-57    428-456 (952)
433 KOG0065 consensus               83.5    0.81 2.1E-05   25.5   2.2   27   29-55    139-165 (1391)
434 pfam12128 DUF3584 Protein of u  83.4     1.4 3.6E-05   23.8   3.4   38   28-68     14-51  (1192)
435 cd03253 ABCC_ATM1_transporter   83.4    0.85 2.2E-05   25.4   2.3   26   30-56     26-51  (236)
436 COG1158 Rho Transcription term  83.3    0.61 1.6E-05   26.4   1.6   28   31-59    173-200 (422)
437 COG2255 RuvB Holliday junction  83.2    0.82 2.1E-05   25.4   2.2   39   29-68     50-97  (332)
438 PRK05480 uridine kinase; Provi  83.2     1.2 3.2E-05   24.2   3.1   27   30-57      3-31  (209)
439 TIGR03263 guanyl_kin guanylate  83.2     1.3 3.2E-05   24.1   3.1   18   33-50      3-20  (180)
440 PRK10787 DNA-binding ATP-depen  83.1     1.9 4.9E-05   22.9   4.0   74   29-105   346-429 (784)
441 COG1111 MPH1 ERCC4-like helica  83.1     2.2 5.6E-05   22.5   4.3   61   23-86     20-82  (542)
442 cd00071 GMPK Guanosine monopho  83.0    0.86 2.2E-05   25.3   2.2   17   34-50      2-18  (137)
443 TIGR01407 dinG_rel DnaQ family  83.0    0.92 2.3E-05   25.1   2.3   72   17-91    259-339 (944)
444 PRK06547 hypothetical protein;  82.9       2 5.1E-05   22.7   4.1   25   29-54     10-37  (184)
445 PRK09280 F0F1 ATP synthase sub  82.8     1.3 3.3E-05   24.0   3.1   26   31-56    145-170 (466)
446 PRK05541 adenylylsulfate kinas  82.8     1.9 4.9E-05   22.8   3.9   53   33-85      9-70  (176)
447 TIGR00618 sbcc exonuclease Sbc  82.7     1.5 3.9E-05   23.6   3.4   52   31-83     30-89  (1063)
448 PRK10365 transcriptional regul  82.5     1.5 3.8E-05   23.7   3.3   33   22-56    153-185 (441)
449 cd00464 SK Shikimate kinase (S  82.5    0.89 2.3E-05   25.2   2.1   24   33-57      1-24  (154)
450 pfam08423 Rad51 Rad51. Rad51 i  82.5     2.3   6E-05   22.3   4.3   40   30-69     41-98  (261)
451 PRK10078 ribose 1,5-bisphospho  82.5    0.91 2.3E-05   25.1   2.2   19   32-50      3-21  (184)
452 PRK07263 consensus              82.5     3.8 9.8E-05   20.7   6.2   51   32-86    203-255 (453)
453 PRK12678 transcription termina  82.4    0.66 1.7E-05   26.1   1.4   27   31-58    411-437 (667)
454 cd03232 ABC_PDR_domain2 The pl  82.4     0.9 2.3E-05   25.2   2.1   20   30-49     32-51  (192)
455 cd01136 ATPase_flagellum-secre  82.4    0.91 2.3E-05   25.1   2.2   23   31-54     69-91  (326)
456 pfam07015 VirC1 VirC1 protein.  82.4     1.9 4.9E-05   22.9   3.8   28   33-60      2-31  (231)
457 PHA02519 plasmid partition pro  82.4    0.56 1.4E-05   26.6   1.1   30   30-59    101-135 (387)
458 cd01393 recA_like RecA is a  b  82.3     1.9 4.9E-05   22.8   3.8   30   30-59     17-47  (226)
459 COG1126 GlnQ ABC-type polar am  82.3    0.94 2.4E-05   25.0   2.2   62   31-96     27-93  (240)
460 PRK06321 replicative DNA helic  82.3     3.9   1E-04   20.7   6.3   50   34-87    229-279 (472)
461 COG4178 ABC-type uncharacteriz  82.3       1 2.6E-05   24.8   2.3   25   30-55    418-442 (604)
462 TIGR03185 DNA_S_dndD DNA sulfu  82.2     2.2 5.5E-05   22.5   4.0   28   29-57     25-53  (650)
463 COG4240 Predicted kinase [Gene  82.2     2.2 5.5E-05   22.5   4.0   32   29-60     46-79  (300)
464 PRK07933 thymidylate kinase; V  82.2       2 5.2E-05   22.7   3.9   35   34-71      3-37  (213)
465 pfam00910 RNA_helicase RNA hel  82.2     1.4 3.6E-05   23.8   3.0   23   34-56      1-23  (105)
466 TIGR03305 alt_F1F0_F1_bet alte  82.1     1.2 3.1E-05   24.3   2.7   27   31-57    138-164 (449)
467 PRK07270 DNA polymerase III su  82.1       4  0.0001   20.7   8.6   25   31-56     36-61  (557)
468 cd04153 Arl5_Arl8 Arl5/Arl8 su  82.1    0.98 2.5E-05   24.9   2.2   18   33-50     17-34  (174)
469 COG0125 Tmk Thymidylate kinase  82.0       2 5.2E-05   22.7   3.8   27   34-60      6-32  (208)
470 PRK04132 replication factor C   81.9    0.65 1.7E-05   26.2   1.2   18   33-50     48-65  (863)
471 PRK08769 DNA polymerase III su  81.9     1.8 4.6E-05   23.1   3.5   30   33-62     28-57  (319)
472 cd04155 Arl3 Arl3 subfamily.    81.9       1 2.6E-05   24.8   2.2   22   31-53     14-35  (173)
473 COG3839 MalK ABC-type sugar tr  81.9    0.99 2.5E-05   24.9   2.2   26   31-57     28-54  (338)
474 COG1763 MobB Molybdopterin-gua  81.8     1.6   4E-05   23.5   3.1   27   34-60      5-31  (161)
475 cd00878 Arf_Arl Arf (ADP-ribos  81.7       1 2.6E-05   24.8   2.2   18   34-52      2-19  (158)
476 TIGR02524 dot_icm_DotB Dot/Icm  81.7     2.4 6.1E-05   22.2   4.1   71   22-92    124-204 (358)
477 KOG1514 consensus               81.6       1 2.6E-05   24.8   2.1   27   30-56    420-447 (767)
478 PRK05896 DNA polymerase III su  81.6     4.1 0.00011   20.5   5.7   24   32-56     39-62  (613)
479 PRK13543 cytochrome c biogenes  81.5       1 2.7E-05   24.7   2.2   26   30-56     36-61  (214)
480 cd00544 CobU Adenosylcobinamid  81.5    0.58 1.5E-05   26.5   0.9   49   34-88      2-50  (169)
481 KOG4284 consensus               81.5    0.22 5.5E-06   29.5  -1.3   56   32-87     63-118 (980)
482 TIGR03265 PhnT2 putative 2-ami  81.5    0.96 2.4E-05   25.0   2.0   26   30-56     28-54  (353)
483 KOG1534 consensus               81.5     1.5 3.9E-05   23.6   3.0   48   33-83      5-59  (273)
484 cd01372 KISc_KIF4 Kinesin moto  81.4    0.54 1.4E-05   26.7   0.7   19   31-49     74-92  (341)
485 pfam09140 MipZ ATPase MipZ. Mi  81.4    0.62 1.6E-05   26.3   1.0   26   34-59      2-29  (261)
486 PRK11388 DNA-binding transcrip  81.4     1.8 4.6E-05   23.1   3.4   22   25-46    342-363 (639)
487 TIGR00595 priA primosomal prot  81.4    0.93 2.4E-05   25.1   1.9   52   35-89      1-52  (524)
488 pfam03308 ArgK ArgK protein. T  81.4     4.2 0.00011   20.5   5.6   26   34-59     32-57  (267)
489 PRK13477 bifunctional pantoate  81.3    0.88 2.3E-05   25.2   1.7   27   28-55    280-307 (512)
490 cd01369 KISc_KHC_KIF5 Kinesin   81.2    0.49 1.2E-05   27.1   0.4   20   31-50     77-96  (325)
491 cd03254 ABCC_Glucan_exporter_l  81.2     1.1 2.8E-05   24.6   2.2   26   30-56     28-53  (229)
492 cd03295 ABC_OpuCA_Osmoprotecti  81.2    0.97 2.5E-05   25.0   1.9   67   31-102    27-97  (242)
493 pfam01583 APS_kinase Adenylyls  81.1     2.4 6.2E-05   22.1   4.0   53   34-86      5-67  (157)
494 cd03300 ABC_PotA_N PotA is an   81.1     1.1 2.7E-05   24.6   2.1   25   31-56     26-50  (232)
495 PRK01184 hypothetical protein;  81.0       1 2.6E-05   24.8   2.0   39   34-81      4-42  (183)
496 CHL00060 atpB ATP synthase CF1  81.0     1.6 4.1E-05   23.4   3.0   25   31-55    155-179 (480)
497 KOG0242 consensus               80.9     0.5 1.3E-05   27.0   0.4   47    5-51     59-107 (675)
498 COG1341 Predicted GTPase or GT  80.9       3 7.5E-05   21.5   4.3   52    8-59     50-101 (398)
499 cd03261 ABC_Org_Solvent_Resist  80.9     1.1 2.8E-05   24.5   2.1   59   30-89     25-86  (235)
500 PRK06217 hypothetical protein;  80.8     1.8 4.7E-05   23.0   3.2   48   32-83      2-57  (185)

No 1  
>TIGR02784 addA_alphas double-strand break repair helicase AddA; InterPro: IPR014151   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 alphaproteobacteria and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species..
Probab=100.00  E-value=4.5e-43  Score=322.66  Aligned_cols=215  Identities=46%  Similarity=0.746  Sum_probs=199.5

Q ss_pred             HHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CCCCHHH
Q ss_conf             899998276888799848889967999999999982478988956677687899999999999967752167-4221464
Q 537021.9.peg.4   22 SEQLLASDPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITAWSHLS-DEILSAE  100 (242)
Q Consensus        22 ~qq~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~-~~~~~~~  100 (242)
                      +.|++|+||..|++|+|.||||||+||+.||+|||.+|++|++||||||||+||+||.+||=++|++|+... +......
T Consensus         1 ~~Q~~AaDP~~S~WVSANAGSGKTHVLt~RViRLLL~G~~P~~ILCLTYTKAAAAeMq~RvF~rL~~Wa~L~nD~~L~~~   80 (1190)
T TIGR02784         1 DRQAQAADPAASAWVSANAGSGKTHVLTQRVIRLLLAGTEPSKILCLTYTKAAAAEMQNRVFKRLGEWAVLDNDADLRAR   80 (1190)
T ss_pred             CCCCCCCCCCCCCEEEECCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHH
T ss_conf             94120037774701243167885224899999986178783100020555899999999987551044438886889999


Q ss_pred             HHHHH---CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf             99731---479997899999999999983100132111799998755542897588999851683789999999999999
Q 537021.9.peg.4  101 ITKIQ---GKKPNKSDMSKARHLLITILETPGGLKVQTIHAFCEAIMQQFPLEANITSHFAIADEEQSKKLIEEAKKSTL  177 (242)
Q Consensus       101 l~~~~---~~~~~~~~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~ilr~~~~~~gl~~~f~i~d~~~~~~l~~~~~~~~~  177 (242)
                      |..+.   ...++...+.++|+|+..+|++|+++.|.|||+||..+|++||.|.|++++|+++||-....+++++++.++
T Consensus        81 l~~LeGe~~~~~da~~L~~AR~LFArALETPGGLKIQTIHAFCe~LL~~FPLEAnv~~~F~~~DDr~~A~l~~~arr~ll  160 (1190)
T TIGR02784        81 LEALEGEAGKRPDAAKLAEARRLFARALETPGGLKIQTIHAFCEALLHQFPLEANVAGHFSVIDDRAAAALLEEARRELL  160 (1190)
T ss_pred             HHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCEEHHHHHHHHHHHHHHHHH
T ss_conf             99842546888888899999899999741787761577799999885207751378988533026899999999999997


Q ss_pred             HHHHCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             98432780359999999994169677999999999848999999866208999858999974
Q 537021.9.peg.4  178 ASIMLDNNEELKKAFYEILEISNDEDIETLISDIISNRTALKLIFFFFSYLWRRKIIEKSLW  239 (242)
Q Consensus       178 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~e~~l~  239 (242)
                      .......+..+..++..+.+..++.+++.++.++...|+.+..+..   .....+..++.++
T Consensus       161 ~~~~~~~d~~~~~a~a~~l~~~~e~gl~~ll~ei~~~R~~~~~fl~---~~~~~~~~~~~l~  219 (1190)
T TIGR02784       161 AGAAAPPDPALAEALATVLEAAGETGLEALLAEIVAKRDALSAFLD---EAGGAEGAEADLR  219 (1190)
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHH
T ss_conf             2303788405899999999871655878999999961688878999---8640235899999


No 2  
>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=100.00  E-value=1.8e-35  Score=269.25  Aligned_cols=211  Identities=22%  Similarity=0.266  Sum_probs=171.4

Q ss_pred             HCCCHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHCC---CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             509489999827688879984888996799999999998247---89889566776878999999999999677521674
Q 537021.9.peg.4   18 SQTKSEQLLASDPTRSAWVSANAGSGKTHILVQRVLRLLLAN---AHPSTLLCLTHTKAAAAEMSHRVLEIITAWSHLSD   94 (242)
Q Consensus        18 ~~~~~qq~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g---~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~~   94 (242)
                      .+|++|+.+|.+.+.++||.|+||||||+|||+||..-|.+|   |+.++.||+||||+||.|||+||.++|.......+
T Consensus         1 ~wT~~Q~~AI~~~G~nILVsAsAGSGKTaVLVERii~~i~~gE~pvdiDrLLVVTFTnaAA~EMK~Ri~~~l~k~l~~~~   80 (1295)
T TIGR02785         1 QWTDEQWQAIYDRGQNILVSASAGSGKTAVLVERIIKKILRGENPVDIDRLLVVTFTNAAAREMKERIEEALQKELAQEP   80 (1295)
T ss_pred             CCCHHHHHHHHHCCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             98788899996368864765322666147899999999647887702021036788899999999999999999743688


Q ss_pred             CCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCC-CHHHHHHHHHHH
Q ss_conf             2214649973147999789999999999998310013211179999875554289758899985168-378999999999
Q 537021.9.peg.4   95 EILSAEITKIQGKKPNKSDMSKARHLLITILETPGGLKVQTIHAFCEAIMQQFPLEANITSHFAIAD-EEQSKKLIEEAK  173 (242)
Q Consensus        95 ~~~~~~l~~~~~~~~~~~~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~ilr~~~~~~gl~~~f~i~d-~~~~~~l~~~~~  173 (242)
                                 ..+|...-.......+...|...+.+.|+|+||||.+++|+|++.++++|+|+|++ +.+...|.++++
T Consensus        81 -----------~d~P~~~ta~~~~~hl~~QL~lL~~A~ISTlhsFCL~Vir~~YYllDlDP~FRil~nd~e~~LL~~E~~  149 (1295)
T TIGR02785        81 -----------DDDPERRTAVDNSKHLRRQLALLNKANISTLHSFCLKVIRKHYYLLDLDPSFRILTNDTEELLLLKEVV  149 (1295)
T ss_pred             -----------CCCCHHHHCCHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCEEECCCCCCCCCCHHHHHHHHHHHH
T ss_conf             -----------887123204437899999996446765104578999997666043553788765775678889887579


Q ss_pred             HHHHHHHHCCCH-HHHHHHHHHHHH-HCCHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999998432780-359999999994-1696779999999998------48999999866208999858999974
Q 537021.9.peg.4  174 KSTLASIMLDNN-EELKKAFYEILE-ISNDEDIETLISDIIS------NRTALKLIFFFFSYLWRRKIIEKSLW  239 (242)
Q Consensus       174 ~~~~~~~~~~~~-~~~~~~l~~~~~-~~~~~~~~~~l~~~l~------~~~~~~~~~~~~~~~~~r~~~e~~l~  239 (242)
                      .++++......+ ..+......+.. ..++.++.+++-.++.      ++..|..-.............++.+|
T Consensus       150 ~d~~E~~y~~~d~~~F~~L~~~f~~rDR~D~~L~~li~~lY~F~~a~P~Pe~WL~~l~~~Y~V~~~~~~e~~~~  223 (1295)
T TIGR02785       150 DDVLEEEYYKEDNEAFFELVDNFSGRDRSDDGLRDLILKLYDFARATPNPEKWLNKLAEAYEVKEDFLIESKLL  223 (1295)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCHHHHHHHCCCCCCCCHHHHHHHHHH
T ss_conf             99999985201515899999865078977012899999999997449986788862655422340467888999


No 3  
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA; InterPro: IPR005751    The DNA helicase PcrA is found mainly in Gram-positive bacteria and belongs to a superfamily of helicases, together with Rep and UvrD helicases from Escherichia coli. The action of the 3'5' bacterial DNA helicase 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, destabilising 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=100.00  E-value=5.3e-36  Score=272.94  Aligned_cols=205  Identities=20%  Similarity=0.259  Sum_probs=135.8

Q ss_pred             HHCCCHHHHHHH-CCCCCEEEEECCCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHCCC
Q ss_conf             350948999982-76888799848889967999999999982-4789889566776878999999999999677-52167
Q 537021.9.peg.4   17 ISQTKSEQLLAS-DPTRSAWVSANAGSGKTHILVQRVLRLLL-ANAHPSTLLCLTHTKAAAAEMSHRVLEIITA-WSHLS   93 (242)
Q Consensus        17 ~~~~~~qq~~a~-~~~~~~lV~A~aGSGKT~tL~~rv~~ll~-~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~-~~~~~   93 (242)
                      +..+|+.|+.|+ |+.||+||.||||||||.+|++||+|||. +.|.|.+|||||||||||+||||||.+.++. |+...
T Consensus         2 l~~LN~~Q~~AV~tt~GPLLi~AGAGSGKTRVLThRIA~L~~e~~v~P~nILAiTFTNKAArEMkERv~~L~g~awaqqe   81 (811)
T TIGR01073         2 LAGLNPEQREAVKTTEGPLLIMAGAGSGKTRVLTHRIAHLLAEKNVAPWNILAITFTNKAAREMKERVEKLLGPAWAQQE   81 (811)
T ss_pred             CCCCCHHHHHHHHHCCCCCEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             01024899999730378410101378873105789999999722369850465532205316789999998524665457


Q ss_pred             CCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH----HCC--CCCCCCCCCCHHHH
Q ss_conf             42214649973147999789999999999998-310013211179999875554289----758--89998516837899
Q 537021.9.peg.4   94 DEILSAEITKIQGKKPNKSDMSKARHLLITIL-ETPGGLKVQTIHAFCEAIMQQFPL----EAN--ITSHFAIADEEQSK  166 (242)
Q Consensus        94 ~~~~~~~l~~~~~~~~~~~~~~~~~~ll~~~l-~~~~~~~i~Ti~~f~~~ilr~~~~----~~g--l~~~f~i~d~~~~~  166 (242)
                      +..--..+.+           -+.+.++...- ..-..+||+||||.|.||||+-..    .+|  +..+|+|+|..|+.
T Consensus        82 fsqrwellGk-----------yeqkqllsrvyk~~a~~~WisTFHS~cvRILRrdid~~qd~~Grr~~~~FsI~D~~Dq~  150 (811)
T TIGR01073        82 FSQRWELLGK-----------YEQKQLLSRVYKDVAEDIWISTFHSMCVRILRRDIDKLQDRIGRRINRNFSIIDTSDQL  150 (811)
T ss_pred             HHHHHHHHHH-----------HHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHH
T ss_conf             7678887434-----------66789999988652142323038999999888888889876211454157611178889


Q ss_pred             HHHHHHHH-HHHHHHHCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH-HH--HHHHHHHHHHHHHHHHHH
Q ss_conf             99999999-9999843278035999999999416967799999999984-89--999998662089998589
Q 537021.9.peg.4  167 KLIEEAKK-STLASIMLDNNEELKKAFYEILEISNDEDIETLISDIISN-RT--ALKLIFFFFSYLWRRKII  234 (242)
Q Consensus       167 ~l~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~~l~~-~~--~~~~~~~~~~~~~~r~~~  234 (242)
                      .+++.++. ..--+....++..+.-.+...++..-.  .++.....-+. .+  .-..|..||..+.+.+.+
T Consensus       151 ~l~K~i~~~~~dlD~Kkf~Pr~i~~~IS~~KN~l~~--P~~~~~~a~~~P~~~~va~VY~~YQ~~L~~n~~L  220 (811)
T TIGR01073       151 SLMKDIVKKDKDLDPKKFEPRSILGTISNAKNELLS--PEDFAKEATNYPFEKVVAEVYAEYQKQLLRNNAL  220 (811)
T ss_pred             HHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCCCC--HHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             999999744204777778850125546766514788--6899973068878889999999999998761478


No 4  
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=100.00  E-value=6.4e-33  Score=251.25  Aligned_cols=127  Identities=32%  Similarity=0.484  Sum_probs=111.4

Q ss_pred             HHHHHHHCCCHHHHHHH-CCCCCEEEEECCCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             89732350948999982-76888799848889967999999999982-47898895667768789999999999996775
Q 537021.9.peg.4   12 ETIDLISQTKSEQLLAS-DPTRSAWVSANAGSGKTHILVQRVLRLLL-ANAHPSTLLCLTHTKAAAAEMSHRVLEIITAW   89 (242)
Q Consensus        12 ~~~~~~~~~~~qq~~a~-~~~~~~lV~A~aGSGKT~tL~~rv~~ll~-~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~   89 (242)
                      .+-.+++.+|++|+.|+ ++.||+||+||||||||+||++||++||. .|++|++||++|||||||+||++||.+.++..
T Consensus         2 ~~~~~l~~LN~~Q~~AV~~~~g~~lV~AGaGSGKT~vL~~Ria~Li~~~gv~p~~ILalTFTnkAA~Emk~Rl~~~l~~~   81 (722)
T PRK11773          2 DVSYLLDSLNDKQREAVAAPLGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSILAVTFTNKAAAEMRHRIEQLLGTS   81 (722)
T ss_pred             CHHHHHHHCCHHHHHHHCCCCCCEEEEECCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             87899782699999998099998799973871599999999999998299987882898458999999999999871777


Q ss_pred             HCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHH
Q ss_conf             21674221464997314799978999999999999831001321117999987555428975889998516837899999
Q 537021.9.peg.4   90 SHLSDEILSAEITKIQGKKPNKSDMSKARHLLITILETPGGLKVQTIHAFCEAIMQQFPLEANITSHFAIADEEQSKKLI  169 (242)
Q Consensus        90 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~ilr~~~~~~gl~~~f~i~d~~~~~~l~  169 (242)
                                                            ...++|+||||||.+++|.++...|++++|.|+|+.++..++
T Consensus        82 --------------------------------------~~~~~i~TfHSfc~~iLr~~~~~~g~~~~f~I~d~~d~~~l~  123 (722)
T PRK11773         82 --------------------------------------QGGMWVGTFHGLAHRLLRAHWQDANLPQDFQILDSDDQLRLL  123 (722)
T ss_pred             --------------------------------------CCCCEEEEHHHHHHHHHHHHHHHHCCCCCCEEECHHHHHHHH
T ss_conf             --------------------------------------788889729999999999969983989998787689999999


Q ss_pred             HHHHHHH
Q ss_conf             9999999
Q 537021.9.peg.4  170 EEAKKST  176 (242)
Q Consensus       170 ~~~~~~~  176 (242)
                      ++++...
T Consensus       124 k~~~~~~  130 (722)
T PRK11773        124 KRLIKAL  130 (722)
T ss_pred             HHHHHHC
T ss_conf             9999976


No 5  
>TIGR01075 uvrD DNA helicase II; InterPro: IPR005753    The SOS response is required for efficient nucleotide excision repair (NER) of the major ultraviolet light (UV) induced DNA lesions. The expression of three NER genes, uvrA, uvrB, and uvrD, is upregulated as part of the SOS response. UvrD differs from the others in that it is not involved in lesion recognition but rather in promoting the post-incision steps of NER, including turnover of the UvrBC incision complex . The form of the UvrD helicase with optimal helicase activity is oligomeric with at least two sites for binding the DNA substrate, where one site contacts regions of the 3'-ssDNA tail that are distal from the single-stranded/double-stranded DNA junction.; GO: 0004003 ATP-dependent DNA helicase activity, 0006268 DNA unwinding during replication, 0005737 cytoplasm.
Probab=99.98  E-value=5.6e-33  Score=251.70  Aligned_cols=182  Identities=26%  Similarity=0.357  Sum_probs=132.6

Q ss_pred             HHHCCCHHHHHHHC-CCCCEEEEECCCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             23509489999827-6888799848889967999999999982-478988956677687899999999999967752167
Q 537021.9.peg.4   16 LISQTKSEQLLASD-PTRSAWVSANAGSGKTHILVQRVLRLLL-ANAHPSTLLCLTHTKAAAAEMSHRVLEIITAWSHLS   93 (242)
Q Consensus        16 ~~~~~~~qq~~a~~-~~~~~lV~A~aGSGKT~tL~~rv~~ll~-~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~   93 (242)
                      +|+.+|+.|+-|+. |.++.||+||||||||.+||+||+||+. ++++|-+|++||||||||+||+.||...+.....  
T Consensus         1 lLd~LN~~QreaVaap~~~~LvLAGAGSGKTRVL~hRIaWL~~v~~~s~~SiMAVTFTNKAA~Em~~Ri~~~~~~~~~--   78 (741)
T TIGR01075         1 LLDGLNDKQREAVAAPPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIEALLRKSAR--   78 (741)
T ss_pred             CCCCCCHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCEEEECHHHHHHHHHHHHHHHHHHHCCC--
T ss_conf             965566577887403422554873068885024788899887407899853563200347899999999998620114--


Q ss_pred             CCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHH
Q ss_conf             42214649973147999789999999999998310013211179999875554289758899985168378999999999
Q 537021.9.peg.4   94 DEILSAEITKIQGKKPNKSDMSKARHLLITILETPGGLKVQTIHAFCEAIMQQFPLEANITSHFAIADEEQSKKLIEEAK  173 (242)
Q Consensus        94 ~~~~~~~l~~~~~~~~~~~~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~ilr~~~~~~gl~~~f~i~d~~~~~~l~~~~~  173 (242)
                                                      ...-+++|+||||+|+|+||.|..+.+||.+|+|+|.+|+.+|+++.+
T Consensus        79 --------------------------------~~l~gMW~GTFHglaHRlLR~Hh~Da~LP~~FQilDs~DQlrL~KRli  126 (741)
T TIGR01075        79 --------------------------------HQLFGMWIGTFHGLAHRLLRAHHLDAGLPEDFQILDSDDQLRLIKRLI  126 (741)
T ss_pred             --------------------------------CEEEEEECHHHHHHHHHHHHHHHHHCCCCCCCCEECCHHHHHHHHHHH
T ss_conf             --------------------------------325553230577899999986675346861242364065799999999


Q ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHH---H-HHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999984327803599999999941696779999999998---4-899999986620899985899
Q 537021.9.peg.4  174 KSTLASIMLDNNEELKKAFYEILEISNDEDIETLISDIIS---N-RTALKLIFFFFSYLWRRKIIE  235 (242)
Q Consensus       174 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~~l~---~-~~~~~~~~~~~~~~~~r~~~e  235 (242)
                      +.+.    .++...+++-...+.+...+.+++....+..+   . +...+.|..|++.|.+-+.+|
T Consensus       127 k~~n----~~e~~~pPrq~~W~IN~qKdeGlRp~~i~~~~~d~~~~~~~~~Y~~Yq~~C~RaGlVD  188 (741)
T TIGR01075       127 KSLN----LDEKQFPPRQAMWYINNQKDEGLRPEHIEAFDNDPVERTWIKIYAEYQEACDRAGLVD  188 (741)
T ss_pred             HHCC----CCCCCCCCHHHHHCCCCCCCCCCCHHHCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHH
T ss_conf             8638----7633367134420103665678883235776777689999999999875306377345


No 6  
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=99.97  E-value=6.6e-31  Score=237.12  Aligned_cols=121  Identities=25%  Similarity=0.324  Sum_probs=103.7

Q ss_pred             CCHHHHHHH-CCCCCEEEEECCCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             948999982-768887998488899679999999999824-789889566776878999999999999677521674221
Q 537021.9.peg.4   20 TKSEQLLAS-DPTRSAWVSANAGSGKTHILVQRVLRLLLA-NAHPSTLLCLTHTKAAAAEMSHRVLEIITAWSHLSDEIL   97 (242)
Q Consensus        20 ~~~qq~~a~-~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~-g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~~~~~   97 (242)
                      +|++|+.|+ ++.||++|+||||||||+||++||++||.+ |++|++||++|||||||.||++||.+.++..        
T Consensus         3 Ln~~Q~~AV~~~~gp~lVlAGaGSGKT~tLt~Ria~Li~~~~v~P~~ILalTFT~kAA~Emk~Rl~~~lg~~--------   74 (672)
T PRK10919          3 LNPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVGQTLGRK--------   74 (672)
T ss_pred             CCHHHHHHHCCCCCCEEEEECCCHHHHHHHHHHHHHHHHCCCCCCCCEEEECCHHHHHHHHHHHHHHHCCCC--------
T ss_conf             998999998399999899973855879999999999986689893338544217999999999999771832--------


Q ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf             46499731479997899999999999983100132111799998755542897588999851683789999999999999
Q 537021.9.peg.4   98 SAEITKIQGKKPNKSDMSKARHLLITILETPGGLKVQTIHAFCEAIMQQFPLEANITSHFAIADEEQSKKLIEEAKKSTL  177 (242)
Q Consensus        98 ~~~l~~~~~~~~~~~~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~ilr~~~~~~gl~~~f~i~d~~~~~~l~~~~~~~~~  177 (242)
                                                   ....+.|+||||||.++++.++..+|++++|.|+|+.++..++++.....+
T Consensus        75 -----------------------------~~~~~~i~TFHS~~~~iLr~~~~~lg~~~~f~i~d~~d~~~~~k~~~~~~~  125 (672)
T PRK10919         75 -----------------------------EARGLMISTFHTLGLDIIKREYAALGMKSNFSLFDDTDQLALLKELTEGLI  125 (672)
T ss_pred             -----------------------------CCCCCEEECHHHHHHHHHHHHHHHHCCCCCCEEECHHHHHHHHHHHHHHHC
T ss_conf             -----------------------------137867884899999999998998289999836169999999999998732


No 7  
>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=99.97  E-value=4.6e-30  Score=231.16  Aligned_cols=124  Identities=26%  Similarity=0.361  Sum_probs=111.6

Q ss_pred             HHCCCHHHHHHHC-CCCCEEEEECCCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             3509489999827-6888799848889967999999999982-4789889566776878999999999999677521674
Q 537021.9.peg.4   17 ISQTKSEQLLASD-PTRSAWVSANAGSGKTHILVQRVLRLLL-ANAHPSTLLCLTHTKAAAAEMSHRVLEIITAWSHLSD   94 (242)
Q Consensus        17 ~~~~~~qq~~a~~-~~~~~lV~A~aGSGKT~tL~~rv~~ll~-~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~~   94 (242)
                      +..+|++|..|+. -+||+||+||||||||.||++.|+|||. -|-+|.+|.|||||||||.|||+|+.+.|+.      
T Consensus         1 M~~LNp~Q~~AV~Y~~GPlLVLAGAGSGKT~VI~~KIayLi~~cgY~a~~IaAvTFTNKAA~EMkERVA~~L~~------   74 (677)
T TIGR01074         1 MSKLNPQQQEAVEYVGGPLLVLAGAGSGKTRVITNKIAYLIQNCGYKAKNIAAVTFTNKAAREMKERVAKTLGK------   74 (677)
T ss_pred             CCCCCHHHHHHHHHHCCCCEEECCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHHHHHHHCCC------
T ss_conf             98887437999986158714651777786357888999987515878761689735237779999999852265------


Q ss_pred             CCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             22146499731479997899999999999983100132111799998755542897588999851683789999999999
Q 537021.9.peg.4   95 EILSAEITKIQGKKPNKSDMSKARHLLITILETPGGLKVQTIHAFCEAIMQQFPLEANITSHFAIADEEQSKKLIEEAKK  174 (242)
Q Consensus        95 ~~~~~~l~~~~~~~~~~~~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~ilr~~~~~~gl~~~f~i~d~~~~~~l~~~~~~  174 (242)
                                                     ....++.|+|||+++..|++.-...+|+.++|+|.|+.|+..++++...
T Consensus        75 -------------------------------~~~~GL~isTFH~LGL~Ii~~E~~~lG~K~nFSlFD~~D~~all~eL~~  123 (677)
T TIGR01074        75 -------------------------------GQAKGLTISTFHTLGLKIIRREHNALGLKSNFSLFDETDQLALLKELLE  123 (677)
T ss_pred             -------------------------------CCCCCCEEECCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf             -------------------------------4558544752057338999999986488999642067889999998752


Q ss_pred             HHH
Q ss_conf             999
Q 537021.9.peg.4  175 STL  177 (242)
Q Consensus       175 ~~~  177 (242)
                      ..+
T Consensus       124 ~~~  126 (677)
T TIGR01074       124 GEL  126 (677)
T ss_pred             HHH
T ss_conf             331


No 8  
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=99.96  E-value=6.4e-29  Score=223.16  Aligned_cols=178  Identities=33%  Similarity=0.422  Sum_probs=143.2

Q ss_pred             HCCCHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-
Q ss_conf             50948999982768887998488899679999999999824--789889566776878999999999999677521674-
Q 537021.9.peg.4   18 SQTKSEQLLASDPTRSAWVSANAGSGKTHILVQRVLRLLLA--NAHPSTLLCLTHTKAAAAEMSHRVLEIITAWSHLSD-   94 (242)
Q Consensus        18 ~~~~~qq~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~--g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~~-   94 (242)
                      +++.+++.++.+++++++|+||||||||+||+.||+++|..  |+.|++|||+|||||||.||++||.+++.++..... 
T Consensus         3 ~~~~~~~~~~~~~~~~~lveASAGSGKT~vL~~r~lrlLl~~~~~~v~~ILvvTFT~aAa~Emk~RI~~~L~~~~~~~~~   82 (1139)
T COG1074           3 DSTEALQPLASPPGQSVLVEASAGTGKTFVLAERVLRLLLEGGPLDVDEILVVTFTKAAAAEMKERIRDRLKEALQENDE   82 (1139)
T ss_pred             CCHHHHCHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCCCHHHEEEECCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             42544255535866668999668898421699999999972589985572344063888999999999999999870001


Q ss_pred             -CCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHH
Q ss_conf             -2214649973147999789999999999998310013211179999875554289758899985168378999999999
Q 537021.9.peg.4   95 -EILSAEITKIQGKKPNKSDMSKARHLLITILETPGGLKVQTIHAFCEAIMQQFPLEANITSHFAIADEEQSKKLIEEAK  173 (242)
Q Consensus        95 -~~~~~~l~~~~~~~~~~~~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~ilr~~~~~~gl~~~f~i~d~~~~~~l~~~~~  173 (242)
                       ......+..  ...........+..++...+...+.+.|.|||+||.++++.++.+.|++..|++.++.  ..+..+.+
T Consensus        83 ~~~~~~~l~~--~~~~~~~~~~~a~~~f~~a~~~~~~~~I~Tih~Fc~~~L~~~~~~~~~~~~fe~~~d~--~~l~~e~~  158 (1139)
T COG1074          83 KLASDDELLE--ALAALIQALIQAIRLFALALETNDEAAIFTIHGFCQRILRQFALEAGISFDFELLEDE--SDLFLELV  158 (1139)
T ss_pred             HCCCCCHHHH--HHHHCCCCHHHHHHHHHHHHHCCCCCEEEEHHHHHHHHHHHHHHHCCCCCCCCHHCCH--HHHHHHHH
T ss_conf             0001026788--7541431189999999999847785346413889999999847751776542000266--89999999


Q ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHC
Q ss_conf             99999843278035999999999416
Q 537021.9.peg.4  174 KSTLASIMLDNNEELKKAFYEILEIS  199 (242)
Q Consensus       174 ~~~~~~~~~~~~~~~~~~l~~~~~~~  199 (242)
                      +.++..........+.+.+..+....
T Consensus       159 ~d~~r~~~~~~~~~~~~~v~~~~~~~  184 (1139)
T COG1074         159 EDFWRRRFYPLPAELAQLVAQLYKFP  184 (1139)
T ss_pred             HHHHHHHHCCCCHHHHHHHHHHHHCC
T ss_conf             99998630468689999999986104


No 9  
>PRK13909 putative recombination protein RecB; Provisional
Probab=99.96  E-value=1.3e-28  Score=220.98  Aligned_cols=127  Identities=31%  Similarity=0.460  Sum_probs=102.3

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCHHH
Q ss_conf             79984888996799999999998247898895667768789999999999996775216742214649973147999789
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITAWSHLSDEILSAEITKIQGKKPNKSD  113 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~~  113 (242)
                      ++|.||||||||+||+.||++||.+|++|++|||+|||||||+|||+||...|..+...........+....... ....
T Consensus         1 l~i~AsAGSGKT~~L~~R~l~Ll~~g~~p~~ILavTFT~kAA~EMk~RI~~~L~~l~~~~~~~~~~~~~~~~~~~-~~~~   79 (911)
T PRK13909          1 LALKASAGSGKTFALSVRFLALLFKGANPNEILALTFTKKAANEMKERIIDTLLNLEKENKESELNELEEELGLS-KEEL   79 (911)
T ss_pred             CEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEECHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCC-HHHH
T ss_conf             979976704499999999999973897924487855688999999999999998663054305899999870899-8999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCH
Q ss_conf             99999999999831001321117999987555428975889998516837
Q 537021.9.peg.4  114 MSKARHLLITILETPGGLKVQTIHAFCEAIMQQFPLEANITSHFAIADEE  163 (242)
Q Consensus       114 ~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~ilr~~~~~~gl~~~f~i~d~~  163 (242)
                      ..++...+...+.  +.+.|+||||||++++|.++.++|++|+|.+.++.
T Consensus        80 ~~~~~~~~~~~l~--~~~~I~TIhsFc~~ilr~~~~~~gl~~~f~i~~~~  127 (911)
T PRK13909         80 LNKRDKVYERFLN--SELKISTIDAFFQKILRKFCLNLGLSPDFEVTSSH  127 (911)
T ss_pred             HHHHHHHHHHHHC--CCCEEEEHHHHHHHHHHHHHHHHCCCCCCEECCCH
T ss_conf             9999999997514--79869769999999999789982969997557118


No 10 
>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=99.96  E-value=4.1e-29  Score=224.53  Aligned_cols=119  Identities=31%  Similarity=0.489  Sum_probs=101.3

Q ss_pred             CCHHHHHHH-CCCCCEEEEECCCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             948999982-76888799848889967999999999982-4789889566776878999999999999677521674221
Q 537021.9.peg.4   20 TKSEQLLAS-DPTRSAWVSANAGSGKTHILVQRVLRLLL-ANAHPSTLLCLTHTKAAAAEMSHRVLEIITAWSHLSDEIL   97 (242)
Q Consensus        20 ~~~qq~~a~-~~~~~~lV~A~aGSGKT~tL~~rv~~ll~-~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~~~~~   97 (242)
                      +|++|+.|+ +++||++|+||||||||+||++|++++|. .|++|++||++|||||||+||++||.+.++..        
T Consensus         1 Ln~~Q~~av~~~~~~llV~AgAGSGKT~~L~~Ri~~li~~~~~~p~~IL~lTFT~kAA~Em~~Ri~~~l~~~--------   72 (494)
T pfam00580         1 LNPEQRKAVTHLGGPLLVLAGAGTGKTRVLTERIAYLILEGGIDPEEILAVTFTNKAAREMKERILKLLGKA--------   72 (494)
T ss_pred             CCHHHHHHHCCCCCCEEEEEECCHHHHHHHHHHHHHHHHHCCCCHHHEEEEECHHHHHHHHHHHHHHHCCCC--------
T ss_conf             998899998099999799971870689999999999998189997478767028999999999999873834--------


Q ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-CCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             4649973147999789999999999998310013211179999875554289758-89998516837899999999999
Q 537021.9.peg.4   98 SAEITKIQGKKPNKSDMSKARHLLITILETPGGLKVQTIHAFCEAIMQQFPLEAN-ITSHFAIADEEQSKKLIEEAKKS  175 (242)
Q Consensus        98 ~~~l~~~~~~~~~~~~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~ilr~~~~~~g-l~~~f~i~d~~~~~~l~~~~~~~  175 (242)
                                                   ..+.+.|+||||||.++++.++..+| ++++|.+.|+.+...++++.+..
T Consensus        73 -----------------------------~~~~~~i~T~Hsf~~~iLr~~~~~~g~~~~~f~i~d~~~~~~~~~~~~~~  122 (494)
T pfam00580        73 -----------------------------EASELNISTFHSFCLRILRKYANRIGDLLPNFSILDELDQLALLKEILKK  122 (494)
T ss_pred             -----------------------------CCCCCEEEHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHH
T ss_conf             -----------------------------46886785499999999999899837777788216678899999999987


No 11 
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=99.95  E-value=1.9e-26  Score=205.71  Aligned_cols=144  Identities=23%  Similarity=0.274  Sum_probs=103.6

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHH---------CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CCCCCHH
Q ss_conf             888799848889967999999999982---------47898895667768789999999999996775216--7422146
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLL---------ANAHPSTLLCLTHTKAAAAEMSHRVLEIITAWSHL--SDEILSA   99 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~---------~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~--~~~~~~~   99 (242)
                      .|.-||+||||||||+||+.+|+++|.         ++++|++|||||||||||+|||+||++++.+....  .......
T Consensus        16 ~G~~LVeASAGTGKT~~La~l~lRLll~~~~~~~~~~pl~id~ILvVTFT~aAA~EMk~RIr~~L~~~~~a~~~~~~~dp   95 (1181)
T PRK10876         16 QGERLIEASAGTGKTFTIAALYLRLLLGLGGSAAFPRPLTVEELLVVTFTEAATEELRGRIRSNIHELRIACLRETTDNP   95 (1181)
T ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEECHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCH
T ss_conf             99979887153667899999999998624455456799982819896567899999999999999999998750566888


Q ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             49973147999789999999999998310013211179999875554289758899985168378999999999999998
Q 537021.9.peg.4  100 EITKIQGKKPNKSDMSKARHLLITILETPGGLKVQTIHAFCEAIMQQFPLEANITSHFAIADEEQSKKLIEEAKKSTLAS  179 (242)
Q Consensus       100 ~l~~~~~~~~~~~~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~ilr~~~~~~gl~~~f~i~d~~~~~~l~~~~~~~~~~~  179 (242)
                      ..........   ....+...+..++.+++.+.|+||||||+++++.++.++|+.+++.++++..  .+..++...++..
T Consensus        96 ~~~~ll~~~~---d~~~~~~~L~~a~~~ld~A~I~TIHsFC~riLr~~a~e~g~~~~~~l~~de~--~l~~~~~~d~wr~  170 (1181)
T PRK10876         96 LYARLLEEID---DKAQAAQWLLLAERQMDEAAVFTIHGFCQRMLNLNAFESGMLFEQQLIEDES--LLRYQACADFWRR  170 (1181)
T ss_pred             HHHHHHHHCC---CHHHHHHHHHHHHHCCCCCCEEEHHHHHHHHHHHCHHHCCCCCCCCCCCCHH--HHHHHHHHHHHHH
T ss_conf             9999998586---7899999999998355888887099999999986999619995335647879--9999999999998


No 12 
>PRK11054 helD DNA helicase IV; Provisional
Probab=99.93  E-value=6.6e-26  Score=201.95  Aligned_cols=103  Identities=33%  Similarity=0.389  Sum_probs=85.1

Q ss_pred             HHHHHHHHH--HCCCHHHHHHH-CCCCCEEEEECCCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             888897323--50948999982-7688879984888996799999999998247-8988956677687899999999999
Q 537021.9.peg.4    9 EHSETIDLI--SQTKSEQLLAS-DPTRSAWVSANAGSGKTHILVQRVLRLLLAN-AHPSTLLCLTHTKAAAAEMSHRVLE   84 (242)
Q Consensus         9 ~~~~~~~~~--~~~~~qq~~a~-~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g-~~P~~IL~lTFT~kAA~El~~RI~~   84 (242)
                      ++...+|-+  +++|++|+.|+ ..+.++||+||||||||+||+.|++|||..| ++|++||++|||||||.||++||..
T Consensus       184 ~~~~fF~~~es~PLn~~Qr~Avi~~ed~~LVLAGAGSGKT~vLt~RiayLI~~g~~~P~~ILaLTFT~kAA~EMreRl~~  263 (684)
T PRK11054        184 EWADFFSQVESSPLNPSQARAVVNGEDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRKAAEEMDERIRE  263 (684)
T ss_pred             HHHHHHHHHCCCCCCHHHHHHEEECCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHEEEEECCHHHHHHHHHHHHH
T ss_conf             99999887417999989995727479964898338997077999999999975999866778686349999999999997


Q ss_pred             HHHHHHCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             9677521674221464997314799978999999999999831001321117999987555428975
Q 537021.9.peg.4   85 IITAWSHLSDEILSAEITKIQGKKPNKSDMSKARHLLITILETPGGLKVQTIHAFCEAIMQQFPLEA  151 (242)
Q Consensus        85 ~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~ilr~~~~~~  151 (242)
                      +++.                                        +.+.++||||||.++++......
T Consensus       264 ~lg~----------------------------------------~~v~~~TFHSlal~ILr~~~~~~  290 (684)
T PRK11054        264 RLGT----------------------------------------EDITARTFHALALHIIQQGSKKV  290 (684)
T ss_pred             HCCC----------------------------------------CCEEEEEHHHHHHHHHHHHCCCC
T ss_conf             5499----------------------------------------98378659999999999844457


No 13 
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=99.93  E-value=4.5e-25  Score=196.09  Aligned_cols=121  Identities=33%  Similarity=0.485  Sum_probs=103.6

Q ss_pred             CCCHHHHHHH-CCCCCEEEEECCCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             0948999982-768887998488899679999999999824-78988956677687899999999999967752167422
Q 537021.9.peg.4   19 QTKSEQLLAS-DPTRSAWVSANAGSGKTHILVQRVLRLLLA-NAHPSTLLCLTHTKAAAAEMSHRVLEIITAWSHLSDEI   96 (242)
Q Consensus        19 ~~~~qq~~a~-~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~-g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~~~~   96 (242)
                      .+|++|+.|+ ++.||++|+||||||||+||++||++|+.. |++|++||++|||||||.||++|+.+.++..       
T Consensus         2 ~Ln~~Q~~av~~~~gp~lV~AGaGsGKT~vlt~Ria~li~~~~v~p~~Il~vTFTnkAA~em~~Rl~~~~~~~-------   74 (655)
T COG0210           2 KLNPEQREAVLHPDGPLLVLAGAGSGKTRVLTERIAYLIAAGGVDPEQILAITFTNKAAAEMRERLLKLLGLP-------   74 (655)
T ss_pred             CCCHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHEEEEEEEHHHHHHHHHHHHHHHCCC-------
T ss_conf             9998999986188998699957998618999999999987389575771778967699999999999873855-------


Q ss_pred             CHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             14649973147999789999999999998310013211179999875554289758899985168378999999999999
Q 537021.9.peg.4   97 LSAEITKIQGKKPNKSDMSKARHLLITILETPGGLKVQTIHAFCEAIMQQFPLEANITSHFAIADEEQSKKLIEEAKKST  176 (242)
Q Consensus        97 ~~~~l~~~~~~~~~~~~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~ilr~~~~~~gl~~~f~i~d~~~~~~l~~~~~~~~  176 (242)
                                                    ....+.++|+|++|.++++.++...++..+|.++|..+...++++.....
T Consensus        75 ------------------------------~~~~~~v~TfHs~~~~~lr~~~~~~~~~~~f~i~d~~d~~~~~~~~~~~~  124 (655)
T COG0210          75 ------------------------------AAEGLTVGTFHSFALRILRRHGERLGLNANFTILDSDDQLALIKELLRRE  124 (655)
T ss_pred             ------------------------------CCCCEEEEEECHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHH
T ss_conf             ------------------------------44653999834677999999788548666871105200789999998654


No 14 
>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=99.91  E-value=2.1e-23  Score=184.38  Aligned_cols=160  Identities=23%  Similarity=0.289  Sum_probs=114.9

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHH-CC--------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC------
Q ss_conf             888799848889967999999999982-47--------898895667768789999999999996775216742------
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLL-AN--------AHPSTLLCLTHTKAAAAEMSHRVLEIITAWSHLSDE------   95 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~-~g--------~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~~~------   95 (242)
                      .|..|++|||||||||||+.-|+|+|. .|        ..+++|||||||+||++|||.||++++.+.......      
T Consensus         9 ~g~~LiEASAGTGKTFtI~~l~lRlll~~gg~~~F~~~~~v~eiLVvTFT~AAT~ELk~RIr~~i~~a~~~~~~~Giakl   88 (1324)
T TIGR00609         9 NGTFLIEASAGTGKTFTIAALYLRLLLEGGGENAFKRPLTVEEILVVTFTNAATEELKTRIRERIHEALRALKAKGIAKL   88 (1324)
T ss_pred             CCCEEEEEECCCHHHHHHHHHHHHHHHHCCCHHHCCCCCCCCCEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHH
T ss_conf             64068874176148999999999999851512202443461212111222788899889988889999999864573020


Q ss_pred             -----------------CCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             -----------------214649973147999789999999999998310013211179999875554289758899985
Q 537021.9.peg.4   96 -----------------ILSAEITKIQGKKPNKSDMSKARHLLITILETPGGLKVQTIHAFCEAIMQQFPLEANITSHFA  158 (242)
Q Consensus        96 -----------------~~~~~l~~~~~~~~~~~~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~ilr~~~~~~gl~~~f~  158 (242)
                                       .....+........+..........+..++.++|.+.|.|||+||.++++.|+.+++..-.-.
T Consensus        89 GddtlsdGiaay~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~A~~~~D~a~i~TIHgfC~~~L~~~~f~~~~~f~~~  168 (1324)
T TIGR00609        89 GDDTLSDGIAAYCEEHEETSDELPELLLEAIQDEKVKQAISRLRLALATLDEAAIYTIHGFCQRMLEQYAFESDEIFEQE  168 (1324)
T ss_pred             CCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH
T ss_conf             32034566899874256688732468888734754889999999999875476644663343566775323203300021


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             1683789999999999999984327803599999
Q 537021.9.peg.4  159 IADEEQSKKLIEEAKKSTLASIMLDNNEELKKAF  192 (242)
Q Consensus       159 i~d~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l  192 (242)
                      +..  +...++.++.+.++...+..-......++
T Consensus       169 l~~--~~~~l~~~~~~df~r~~f~~~~~~~~~~~  200 (1324)
T TIGR00609       169 LIE--DESLLLAEIVKDFWRRNFYNLPFDIAQIV  200 (1324)
T ss_pred             CCC--CHHHHHHHHHHHHHHHHCCCCHHHHHHHH
T ss_conf             035--87799999999999863046646899999


No 15 
>KOG2108 consensus
Probab=99.12  E-value=6.1e-11  Score=96.70  Aligned_cols=81  Identities=30%  Similarity=0.333  Sum_probs=67.6

Q ss_pred             HHHHHHHHHHHHHCCCHHHHHHHCC-CCCEEEEECCCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             0788888973235094899998276-888799848889967999999999982-47898895667768789999999999
Q 537021.9.peg.4    6 SFQEHSETIDLISQTKSEQLLASDP-TRSAWVSANAGSGKTHILVQRVLRLLL-ANAHPSTLLCLTHTKAAAAEMSHRVL   83 (242)
Q Consensus         6 ~~~~~~~~~~~~~~~~~qq~~a~~~-~~~~lV~A~aGSGKT~tL~~rv~~ll~-~g~~P~~IL~lTFT~kAA~El~~RI~   83 (242)
                      ++++...  .+.+..+.+|+..+.+ .+..=|+||||||||.+++.||+|++. +.++|++|++.||||||+.+|++|+.
T Consensus         2 ~~~~i~d--s~~~~l~~~q~~~~~~~~~~~rviagpgsgkt~~lt~~v~yli~~~~ik~~eI~~~t~tnka~~~~~~~l~   79 (853)
T KOG2108           2 SNRGIWD--SLYSLLNKSQRFSALSPLRRKRVIAGPGSGKTLVLTERVAYLINFNNIKPDEILINTGTNKAADSIKLNLI   79 (853)
T ss_pred             CCCHHHH--HHHHHHHHHHHHHHCCCCCCCCEEECCCCCCCCHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHH
T ss_conf             8720667--76665312201554388760203106877852103477778874268888989887468810789998688


Q ss_pred             HHHHH
Q ss_conf             99677
Q 537021.9.peg.4   84 EIITA   88 (242)
Q Consensus        84 ~~l~~   88 (242)
                      ..+..
T Consensus        80 ~il~~   84 (853)
T KOG2108          80 AILRT   84 (853)
T ss_pred             HHHCC
T ss_conf             87537


No 16 
>KOG1803 consensus
Probab=99.03  E-value=5.5e-10  Score=89.97  Aligned_cols=65  Identities=20%  Similarity=0.245  Sum_probs=55.9

Q ss_pred             HHHCCCHHHHHHHCC---C-CCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             235094899998276---8-8879984888996799999999998247898895667768789999999999
Q 537021.9.peg.4   16 LISQTKSEQLLASDP---T-RSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVL   83 (242)
Q Consensus        16 ~~~~~~~qq~~a~~~---~-~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~   83 (242)
                      +-..++++|+.|...   . .+.+|.+|||||||+||++.|..++.+|   ++||++.+||.|.++|.+|+.
T Consensus       182 ~~~~ln~SQk~Av~~~~~~k~l~~I~GPPGTGKT~TlvEiI~qlvk~~---k~VLVcaPSn~AVdNiverl~  250 (649)
T KOG1803         182 FNKNLNSSQKAAVSFAINNKDLLIIHGPPGTGKTRTLVEIISQLVKQK---KRVLVCAPSNVAVDNIVERLT  250 (649)
T ss_pred             CCCCCCHHHHHHHHHHHCCCCCEEEECCCCCCCEEEHHHHHHHHHHCC---CEEEEECCCHHHHHHHHHHHC
T ss_conf             774323779999999735688357557998884043999999999728---859997673678999998750


No 17 
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit; InterPro: IPR006344   This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. C-terminal part of the protein matches a domain found in viral RNA helicase, superfamily 1, IPR000606 from INTERPRO. ; GO: 0008854 exodeoxyribonuclease V activity, 0009338 exodeoxyribonuclease V complex.
Probab=98.62  E-value=5.1e-08  Score=76.13  Aligned_cols=119  Identities=15%  Similarity=0.136  Sum_probs=72.5

Q ss_pred             HHHHHHHC--CCCC-EEEEECCCCCHHHHHHHHHHHHHH----CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             89999827--6888-799848889967999999999982----4789889566776878999999999999677521674
Q 537021.9.peg.4   22 SEQLLASD--PTRS-AWVSANAGSGKTHILVQRVLRLLL----ANAHPSTLLCLTHTKAAAAEMSHRVLEIITAWSHLSD   94 (242)
Q Consensus        22 ~qq~~a~~--~~~~-~lV~A~aGSGKT~tL~~rv~~ll~----~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~~   94 (242)
                      +.|+.|+.  ..++ .||.+|||||||||++..+.-++.    .|.+--+|-..++|=|||.-|.+=|..........-.
T Consensus       230 D~Q~~a~~~aL~~~f~li~GGPGTGKTTTv~~LL~al~~~~~~~G~~~~~I~l~APTGKAa~RL~esl~~~~~~L~~~~~  309 (753)
T TIGR01447       230 DWQKVAVALALKSNFSLITGGPGTGKTTTVARLLLALIKQSPKQGKPRLRIALAAPTGKAAARLAESLRKAVKKLAAENM  309 (753)
T ss_pred             HHHHHHHHHHHHCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             79999999986087689987988977899999999999989864997404788668447999999999988632234236


Q ss_pred             CCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHH---CCCCCCCCCCCCHHH
Q ss_conf             22146499731479997899999999999983100132111799998755--542897---588999851683789
Q 537021.9.peg.4   95 EILSAEITKIQGKKPNKSDMSKARHLLITILETPGGLKVQTIHAFCEAIM--QQFPLE---ANITSHFAIADEEQS  165 (242)
Q Consensus        95 ~~~~~~l~~~~~~~~~~~~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~il--r~~~~~---~gl~~~f~i~d~~~~  165 (242)
                       ..+..                   +     -.--...+.|||.|-....  ....+.   --++-+.-|+||.-+
T Consensus       310 -aid~~-------------------~-----~~~~~~~~~TiHrLLG~~~I~~~~fr~h~~N~L~~DVLvvDEaSM  360 (753)
T TIGR01447       310 -AIDED-------------------L-----IAALPSEATTIHRLLGIKPIDTKRFRHHERNPLPLDVLVVDEASM  360 (753)
T ss_pred             -CCCHH-------------------H-----HCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCEEEECCCHH
T ss_conf             -65879-------------------8-----548720456888861661478767767777889855278706002


No 18 
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=98.43  E-value=3.5e-06  Score=63.26  Aligned_cols=70  Identities=26%  Similarity=0.318  Sum_probs=54.5

Q ss_pred             HHHHHHHHCCCHHHHHHH--CCCCCEEEEECCCCCHHHHHHHHHHHHHH--CCC-CHHHHHHHHHHHHHHHHHHH
Q ss_conf             889732350948999982--76888799848889967999999999982--478-98895667768789999999
Q 537021.9.peg.4   11 SETIDLISQTKSEQLLAS--DPTRSAWVSANAGSGKTHILVQRVLRLLL--ANA-HPSTLLCLTHTKAAAAEMSH   80 (242)
Q Consensus        11 ~~~~~~~~~~~~qq~~a~--~~~~~~lV~A~aGSGKT~tL~~rv~~ll~--~g~-~P~~IL~lTFT~kAA~El~~   80 (242)
                      +.|-|++...+.+|..|.  ..+++++|.++||||||++-.+|++||+.  +|. .-..||++.+.+--..-+..
T Consensus       204 ~~mrdIV~TIQkEQneIIR~ek~~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~vFleYis~  278 (747)
T COG3973         204 AKMRDIVETIQKEQNEIIRFEKNKILVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNRVFLEYISR  278 (747)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCCEEEECCCHHHHHHHHH
T ss_conf             127789998617677787555787489955888871358899999998535662466865998283899999987


No 19 
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=98.31  E-value=9e-07  Score=67.38  Aligned_cols=66  Identities=23%  Similarity=0.283  Sum_probs=48.3

Q ss_pred             HHHHH-CC-CCC-EEEEECCCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99982-76-888-799848889967999999999982-47898895667768789999999999996775
Q 537021.9.peg.4   24 QLLAS-DP-TRS-AWVSANAGSGKTHILVQRVLRLLL-ANAHPSTLLCLTHTKAAAAEMSHRVLEIITAW   89 (242)
Q Consensus        24 q~~a~-~~-~~~-~lV~A~aGSGKT~tL~~rv~~ll~-~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~   89 (242)
                      |++|+ .+ ..+ .+|.+|||||||||++..++-++. ..-++-+|...++|-|||+-|.|-|...+...
T Consensus       152 Qk~A~a~Al~~~~~vIsGGPGTGKTttV~~lLa~l~~~~~~~~l~I~LaAPTGKAAaRL~Esi~~~~~~l  221 (607)
T PRK10875        152 QKVAAAVALTRRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQL  221 (607)
T ss_pred             HHHHHHHHHHCCEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCEEEEECCHHHHHHHHHHHHHHHHHHC
T ss_conf             9999999875577899679998778899999999999645899708998822899999999998787534


No 20 
>KOG1805 consensus
Probab=98.30  E-value=6.5e-07  Score=68.35  Aligned_cols=67  Identities=16%  Similarity=0.185  Sum_probs=57.0

Q ss_pred             HHHCCCHHHHHHH----CCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             2350948999982----768887998488899679999999999824789889566776878999999999999
Q 537021.9.peg.4   16 LISQTKSEQLLAS----DPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEI   85 (242)
Q Consensus        16 ~~~~~~~qq~~a~----~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~   85 (242)
                      +...+|..|+.|.    .+.-..||.+=|||||||||+..|--|+..|   .+||..+||+-|++++--++...
T Consensus       666 ~~~~LN~dQr~A~~k~L~aedy~LI~GMPGTGKTTtI~~LIkiL~~~g---kkVLLtsyThsAVDNILiKL~~~  736 (1100)
T KOG1805         666 ILLRLNNDQRQALLKALAAEDYALILGMPGTGKTTTISLLIKILVALG---KKVLLTSYTHSAVDNILIKLKGF  736 (1100)
T ss_pred             HHHHCCHHHHHHHHHHHHCCCHHEEECCCCCCCHHHHHHHHHHHHHCC---CEEEEEEHHHHHHHHHHHHHHCC
T ss_conf             875318899999999873033220326998981225999999999738---81899850567889999987506


No 21 
>KOG1802 consensus
Probab=97.97  E-value=4.6e-06  Score=62.39  Aligned_cols=66  Identities=18%  Similarity=0.235  Sum_probs=54.0

Q ss_pred             HCCCHHHHHHH-C-CCCCE-EEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             50948999982-7-68887-998488899679999999999824789889566776878999999999999
Q 537021.9.peg.4   18 SQTKSEQLLAS-D-PTRSA-WVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEI   85 (242)
Q Consensus        18 ~~~~~qq~~a~-~-~~~~~-lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~   85 (242)
                      .-+|..|..|+ + -.+|+ |+.++||||||-|.+..|.+++.++.  ..|||++.+|-|.+.+.+.|.+.
T Consensus       409 pkLN~SQ~~AV~~VL~rplsLIQGPPGTGKTvtsa~IVyhl~~~~~--~~VLvcApSNiAVDqLaeKIh~t  477 (935)
T KOG1802         409 PKLNASQSNAVKHVLQRPLSLIQGPPGTGKTVTSATIVYHLARQHA--GPVLVCAPSNIAVDQLAEKIHKT  477 (935)
T ss_pred             HHHCHHHHHHHHHHHCCCCEEEECCCCCCCEEHHHHHHHHHHHHCC--CCEEEECCCCHHHHHHHHHHHHC
T ss_conf             1224678999999975985155469998833116899999998528--95699816500289999999861


No 22 
>TIGR01448 recD_rel helicase, RecD/TraA family; InterPro: IPR006345   These sequences represent a family similar to RecD, the exodeoxyribonuclease V alpha chain of IPR006344 from INTERPRO. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD. .
Probab=97.61  E-value=6.3e-05  Score=54.40  Aligned_cols=76  Identities=17%  Similarity=0.134  Sum_probs=48.6

Q ss_pred             HHHHHHHHHHHHC--CCHHHHHHHC-C--CCCEEEEECCCCCHHHHHHHHHHHHHH-CCC-----C----HHHHHHHHHH
Q ss_conf             7888889732350--9489999827-6--888799848889967999999999982-478-----9----8895667768
Q 537021.9.peg.4    7 FQEHSETIDLISQ--TKSEQLLASD-P--TRSAWVSANAGSGKTHILVQRVLRLLL-ANA-----H----PSTLLCLTHT   71 (242)
Q Consensus         7 ~~~~~~~~~~~~~--~~~qq~~a~~-~--~~~~lV~A~aGSGKT~tL~~rv~~ll~-~g~-----~----P~~IL~lTFT   71 (242)
                      .|+|--..+-...  ..+.|+.|.. .  .+=+++-+||||||||++=.-+..... .|.     +    --.|+.+.+|
T Consensus       336 ~Q~hi~eve~~~~~~l~~~Qk~AL~~~~~~Kv~iLTGGPGTGKtT~t~~i~~~~~~~~gl~l~~~~~vndd~~v~LaAPT  415 (769)
T TIGR01448       336 LQKHILEVEKKLRLKLSEEQKEALKTAIQDKVVILTGGPGTGKTTITKAIIELYEELKGLDLDKDDYVNDDLPVVLAAPT  415 (769)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCC
T ss_conf             99999986875067706889999999860948998577888616899999999987168775531245677648873774


Q ss_pred             HHHHHHHHHHH
Q ss_conf             78999999999
Q 537021.9.peg.4   72 KAAAAEMSHRV   82 (242)
Q Consensus        72 ~kAA~El~~RI   82 (242)
                      =|||+-|.|-=
T Consensus       416 GrAAkRl~E~T  426 (769)
T TIGR01448       416 GRAAKRLAEVT  426 (769)
T ss_pred             HHHHHHCCCCC
T ss_conf             37888511002


No 23 
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=97.48  E-value=6.5e-05  Score=54.32  Aligned_cols=72  Identities=22%  Similarity=0.170  Sum_probs=56.5

Q ss_pred             HHCCCHHHHHH-HCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             35094899998-27688879984888996799999999998247898895667768789999999999996775
Q 537021.9.peg.4   17 ISQTKSEQLLA-SDPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITAW   89 (242)
Q Consensus        17 ~~~~~~qq~~a-~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~   89 (242)
                      ..-.+.|.++| +.+.|+-.|-+-||||||-+|++..+.|-. .-|-.+|++..||+--+.-||+++.+-+-..
T Consensus       161 anfD~~Q~kaa~~~~~G~qrIrGLAGSGKT~~La~Kaa~lh~-knPd~~I~~Tfftk~L~s~~r~lv~~F~f~~  233 (660)
T COG3972         161 ANFDTDQTKAAFQSGFGKQRIRGLAGSGKTELLAHKAAELHS-KNPDSRIAFTFFTKILASTMRTLVPEFFFMR  233 (660)
T ss_pred             HCCCCHHHEEEEECCCCHHHHHCCCCCCCHHHHHHHHHHHHC-CCCCCEEEEEEEHHHHHHHHHHHHHHHHHHH
T ss_conf             523504231446547734652002478730298877789744-7998638998666788899999999999988


No 24 
>PRK09694 hypothetical protein; Provisional
Probab=97.46  E-value=0.0037  Score=41.97  Aligned_cols=158  Identities=19%  Similarity=0.202  Sum_probs=84.6

Q ss_pred             HHCCCHHHHHHHCCCCC--EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             35094899998276888--7998488899679999999999824789889566776878999999999999677521674
Q 537021.9.peg.4   17 ISQTKSEQLLASDPTRS--AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITAWSHLSD   94 (242)
Q Consensus        17 ~~~~~~qq~~a~~~~~~--~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~~   94 (242)
                      .++..-|+.+..-|.+|  ++|+|+.|+|||..-.....+|...| .-+.+...-+|.+.++.|-+|+.+.+......+.
T Consensus       287 ~~PrplQ~~~~~l~~~PgL~IiEAptG~GKTEAAL~~A~~L~~~~-~~~Gl~faLPT~ATaNaMf~Rv~~~~~~~~~~~~  365 (878)
T PRK09694        287 YQPRQLQTLVDALPLAPGLTVIEAPTGSGKTETALAYAWKLIDQQ-LADSVIFALPTQATANAMLSRMEAAASKLFPSPN  365 (878)
T ss_pred             CCCCHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHC-CCCCEEEECCHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             999679999984567998799975899975899999999999734-8983699774798899999999999997368997


Q ss_pred             CCCHHH-------HHHHHCCC---C-CHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHH---HHHHHCCCCCCCC
Q ss_conf             221464-------99731479---9-9789999999999--99831001321117999987555---4289758899985
Q 537021.9.peg.4   95 EILSAE-------ITKIQGKK---P-NKSDMSKARHLLI--TILETPGGLKVQTIHAFCEAIMQ---QFPLEANITSHFA  158 (242)
Q Consensus        95 ~~~~~~-------l~~~~~~~---~-~~~~~~~~~~ll~--~~l~~~~~~~i~Ti~~f~~~ilr---~~~~~~gl~~~f~  158 (242)
                      ....+.       ........   . ..........-+.  ...--...+-|+|++..-...++   .+-+..|+....-
T Consensus       366 v~LaHg~a~l~~~~~~l~~~~~~~~~~~~~~~~~~~W~~~~~Kr~LLap~~VGTiDQaLla~L~~kH~~LR~~gLa~kvv  445 (878)
T PRK09694        366 LILAHGNSRFNHLFQSIKSRAITEQGQEEAWVQCCQWLSQSNKRVFLGQIGVCTIDQVLISVLPVKHRFIRGLGIGRSVL  445 (878)
T ss_pred             EEEECCHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHCCCHHHHHCCCCEECCHHHHHHHHHCCCHHHHHHHHHCCCEE
T ss_conf             69744736550566651013676544543015777664111022313771546799999987461489999998628748


Q ss_pred             CCCCH-----HHHHHHHHHHHH
Q ss_conf             16837-----899999999999
Q 537021.9.peg.4  159 IADEE-----QSKKLIEEAKKS  175 (242)
Q Consensus       159 i~d~~-----~~~~l~~~~~~~  175 (242)
                      |+||-     -+..++...++.
T Consensus       446 IiDEVHAYD~Ym~~lL~~lL~w  467 (878)
T PRK09694        446 IVDEVHAYDAYMNGLLEAVLKA  467 (878)
T ss_pred             EEECCCCCCHHHHHHHHHHHHH
T ss_conf             9725333458899999999999


No 25 
>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=97.32  E-value=0.00031  Score=49.50  Aligned_cols=118  Identities=19%  Similarity=0.187  Sum_probs=67.6

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCC
Q ss_conf             68887998488899679999999999824789889566776878999999999999677521674221464997314799
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITAWSHLSDEILSAEITKIQGKKP  109 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~~~~~~~~l~~~~~~~~  109 (242)
                      -+++++|.|+.|||||++-..-+.+.+.+.....+++.+.+|+.=+.++.+++.+.+........ .       ..+   
T Consensus        13 ~g~~~iv~~pTGsGKT~~~~~~~l~~~~~~~~~~~~v~l~Pt~aL~~q~~~~~~~~~~~~~~~~~-~-------~~g---   81 (167)
T pfam00270        13 EGKDVLVQAPTGSGKTLAFLLPALQALLKNPDGPQALVLAPTRELAEQIYEELKKLGKYLGLKVA-L-------LYG---   81 (167)
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHHHHCCCCCEE-E-------ECC---
T ss_conf             69978998899975899999999999874778987999906088888999886432102676404-6-------417---


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHH
Q ss_conf             97899999999999983100132111799998755542897588999851683789
Q 537021.9.peg.4  110 NKSDMSKARHLLITILETPGGLKVQTIHAFCEAIMQQFPLEANITSHFAIADEEQS  165 (242)
Q Consensus       110 ~~~~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~ilr~~~~~~gl~~~f~i~d~~~~  165 (242)
                      +.....+.     ..+.....+-++|...++..+..... ..+ .-++-|+||.+.
T Consensus        82 ~~~~~~~~-----~~~~~~~~Ilv~Tp~~l~~~l~~~~~-~~~-~~~~lIvDE~H~  130 (167)
T pfam00270        82 GDSPKEQL-----RKLKKGPDILVGTPGRLLDLLERGGL-LLK-NLKLLVLDEAHR  130 (167)
T ss_pred             CCCHHHHH-----HHHCCCCCEEEECHHHHHHHHHHCCC-CCC-CEEEEEEECHHH
T ss_conf             86178898-----76405770799478999999980331-211-003899880886


No 26 
>KOG1807 consensus
Probab=97.32  E-value=0.00015  Score=51.78  Aligned_cols=64  Identities=22%  Similarity=0.306  Sum_probs=52.3

Q ss_pred             CHHHHHHHCC--CCCEEEEECCCCCHHHHHHHHHHHHHHCC---CCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             4899998276--88879984888996799999999998247---8988956677687899999999999
Q 537021.9.peg.4   21 KSEQLLASDP--TRSAWVSANAGSGKTHILVQRVLRLLLAN---AHPSTLLCLTHTKAAAAEMSHRVLE   84 (242)
Q Consensus        21 ~~qq~~a~~~--~~~~lV~A~aGSGKT~tL~~rv~~ll~~g---~~P~~IL~lTFT~kAA~El~~RI~~   84 (242)
                      ++||.+-...  -.--++.++||||||++=+..|.-||.+-   ..|+-||+++|||-|.+.+.+||..
T Consensus       381 sSq~~A~qs~ltyelsliqgppGTgkt~vtlkav~tLL~n~s~~~~~epIlvvC~Tnhavdq~ligiy~  449 (1025)
T KOG1807         381 SSQQFAKQSKLTYELSLIQGPPGTGKTLVTLKAVDTLLLNSSGYTEPEPILVVCLTNHAVDQYLIGIYY  449 (1025)
T ss_pred             HHHHHHHHHHHHHHHHEEECCCCCCCEEEHHHHHHHHHHCCCCCCCCCCEEEEEHHHHHHHHHHHHHHH
T ss_conf             889999987765632113259987722034999999996265545556446642235789999999873


No 27 
>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=97.31  E-value=0.00028  Score=49.84  Aligned_cols=114  Identities=19%  Similarity=0.149  Sum_probs=67.9

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCH
Q ss_conf             88799848889967999999999982478988956677687899999999999967752167422146499731479997
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITAWSHLSDEILSAEITKIQGKKPNK  111 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~~~~~~~~l~~~~~~~~~~  111 (242)
                      ++++|.|+.|||||.+...-+...+... ...+++++++|+..+.++.+++.+.......   ...       .......
T Consensus         1 ~~~lv~~ptGsGKT~~~~~~~~~~~~~~-~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~---~~~-------~~~~~~~   69 (144)
T cd00046           1 RDVLLAAPTGSGKTLAALLPILELLDSL-KGGQVLVLAPTRELANQVAERLKELFGEGIK---VGY-------LIGGTSI   69 (144)
T ss_pred             CCEEEECCCCCHHHHHHHHHHHHHHHHC-CCCEEEEECCHHHHHHHHHHHHHHHCCCCCE---EEE-------EECCCCH
T ss_conf             9999988997179999999999999756-8976999746799999999999997488717---999-------9613636


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHH
Q ss_conf             899999999999983100132111799998755542897588999851683789
Q 537021.9.peg.4  112 SDMSKARHLLITILETPGGLKVQTIHAFCEAIMQQFPLEANITSHFAIADEEQS  165 (242)
Q Consensus       112 ~~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~ilr~~~~~~gl~~~f~i~d~~~~  165 (242)
                      ..       ..........+-++|...+...+.+..-..  -.-.+-|+||.+.
T Consensus        70 ~~-------~~~~~~~~~~ilv~T~~~l~~~~~~~~~~~--~~~~~vViDEaH~  114 (144)
T cd00046          70 KQ-------QEKLLSGKTDIVVGTPGRLLDELERLKLSL--KKLDLLILDEAHR  114 (144)
T ss_pred             HH-------HHHHHCCCCCEEECCHHHHHHHHHCCCCCC--CCCCEEEEECHHH
T ss_conf             77-------898745898499828899999997387655--5100999988887


No 28 
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=97.28  E-value=0.00031  Score=49.52  Aligned_cols=57  Identities=23%  Similarity=0.349  Sum_probs=44.5

Q ss_pred             CCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             768887998488899679999999999824789889566776878999999999999677
Q 537021.9.peg.4   29 DPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITA   88 (242)
Q Consensus        29 ~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~   88 (242)
                      ..+.-++|.|+|||||||.+-   .+++..+..+.+|+|+-+-+-||..+.+|+...+++
T Consensus        18 ~~~~~~vl~a~tGsGKtTqvP---~~ll~~~~~~g~I~~~qPRR~AA~s~A~RvA~e~~e   74 (812)
T PRK11664         18 KTAPQVLLKAPTGAGKSTWLP---LQLLQQGGINGKIIMLEPRRLAARNVAQRLAEQLGE   74 (812)
T ss_pred             HHCCEEEEEECCCCCHHHHHH---HHHHHCCCCCCCEEEECCHHHHHHHHHHHHHHHHCC
T ss_conf             979979999089999899999---999964688993899388399999999999997299


No 29 
>pfam04851 ResIII Type III restriction enzyme, res subunit.
Probab=97.16  E-value=0.0012  Score=45.48  Aligned_cols=51  Identities=22%  Similarity=0.290  Sum_probs=41.8

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             688879984888996799999999998247898895667768789999999999
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVL   83 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~   83 (242)
                      -.++.+|.++.|||||.+....+.++...+   .++|++..|+.=+..+.+++.
T Consensus        17 ~~~~~~i~~pTGsGKT~~~~~~i~~~~~~~---~~~lvlvp~~~L~~Q~~~~~l   67 (103)
T pfam04851        17 EKKRGLIVMATGSGKTLTAAKLIARLLKGK---KKVLFLVPRKDLLEQALEEFV   67 (103)
T ss_pred             HCCCEEEEECCCCCHHHHHHHHHHHHHHCC---CCEEEEECCHHHHHHHHHHHH
T ss_conf             639869995899987999999999998469---929999082999999999656


No 30 
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.16  E-value=0.00062  Score=47.44  Aligned_cols=64  Identities=28%  Similarity=0.322  Sum_probs=48.1

Q ss_pred             HHHCCCHHHHHHH-----CCCCCEEEEECCCCCHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             2350948999982-----7688879984888996799999999998---2478988956677687899999999
Q 537021.9.peg.4   16 LISQTKSEQLLAS-----DPTRSAWVSANAGSGKTHILVQRVLRLL---LANAHPSTLLCLTHTKAAAAEMSHR   81 (242)
Q Consensus        16 ~~~~~~~qq~~a~-----~~~~~~lV~A~aGSGKT~tL~~rv~~ll---~~g~~P~~IL~lTFT~kAA~El~~R   81 (242)
                      .++.+++=|+.|.     ++++-+.|.+-||+||||.+-. +..+|   .....| +|+.|.+|-+|+.||++-
T Consensus       965 ~l~~LT~GQK~At~LIltT~DRFvaIQGyAGVGKTTql~a-vi~ai~tl~~~~rp-qViGLAPTH~AV~EL~~~ 1036 (1756)
T PRK13709        965 LMEKLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRA-VMSAVNMLPESERP-RVVGLGPTHRAVGEMRSA 1036 (1756)
T ss_pred             HHCCCCHHHHHHHHHHHCCCCCEEEEEECCCCCHHHHHHH-HHHHHHHCCCCCCC-CEEEECCHHHHHHHHHHC
T ss_conf             6635785778777563247872599870355666778999-99999725513587-267567517899999964


No 31 
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=97.11  E-value=0.00096  Score=46.07  Aligned_cols=67  Identities=22%  Similarity=0.138  Sum_probs=49.4

Q ss_pred             HHHHHHHCCCHHHHHHH-C---CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             89732350948999982-7---6888799848889967999999999982478988956677687899999999
Q 537021.9.peg.4   12 ETIDLISQTKSEQLLAS-D---PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHR   81 (242)
Q Consensus        12 ~~~~~~~~~~~qq~~a~-~---~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~R   81 (242)
                      +.+.....++++|+.|. +   +++-.+|++-|||||||+|..--...=..|   -++...+.+-|||..|.+-
T Consensus       374 ~a~~~~~~Ls~EQ~~Av~hiT~~~~Ia~VvG~AGaGKStmL~aAReawEa~G---yrV~GaALsGkAAegLe~~  444 (1102)
T PRK13826        374 ATFARHARLSDEQKTAIEHVAGAERIAAVIGRAGAGKTTMMKAAREAWEAAG---YRVVGGALAGKAAEGLEKE  444 (1102)
T ss_pred             HHHHHHCCCCHHHHHHHHHHCCCCCEEEEEECCCCCHHHHHHHHHHHHHHCC---CEEEEECCCHHHHHHHHHC
T ss_conf             9985021389999999998537886689984288878899999999999779---7798015007899977534


No 32 
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=97.09  E-value=0.0011  Score=45.66  Aligned_cols=134  Identities=18%  Similarity=0.133  Sum_probs=74.4

Q ss_pred             HHHHHHHHHHHHHCCCHHHHHHH---CCCCCEEEEECCCCCHHHHHHHHHHHHH-HCC-CCH---HHHHHHHHHHHHHHH
Q ss_conf             07888889732350948999982---7688879984888996799999999998-247-898---895667768789999
Q 537021.9.peg.4    6 SFQEHSETIDLISQTKSEQLLAS---DPTRSAWVSANAGSGKTHILVQRVLRLL-LAN-AHP---STLLCLTHTKAAAAE   77 (242)
Q Consensus         6 ~~~~~~~~~~~~~~~~~qq~~a~---~~~~~~lV~A~aGSGKT~tL~~rv~~ll-~~g-~~P---~~IL~lTFT~kAA~E   77 (242)
                      -+||.=+.-  ....++-|+.|.   .-+.++||+||-|||||-+-..-+...| ..| -+|   =..|.+|+=++=.+.
T Consensus        11 ~v~~~~~~~--~~~~t~~Q~~a~~~i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~D   88 (814)
T COG1201          11 RVREWFKRK--FTSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNND   88 (814)
T ss_pred             HHHHHHHHH--CCCCCHHHHHHHHHHHCCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCEEEEEECCHHHHHHH
T ss_conf             999999985--089987899999998589846998689997379999999999986068888885699995707888789


Q ss_pred             HHHHHHHHHHHHHCC---CCCCCHHHHHHHHCCCC-C-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999996775216---74221464997314799-9-------7899999999999983100132111799998
Q 537021.9.peg.4   78 MSHRVLEIITAWSHL---SDEILSAEITKIQGKKP-N-------KSDMSKARHLLITILETPGGLKVQTIHAFCE  141 (242)
Q Consensus        78 l~~RI~~~l~~~~~~---~~~~~~~~l~~~~~~~~-~-------~~~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~  141 (242)
                      |..||...+....-.   ....+.....+....+| +       ....--....+...+.+...+-|..+|.+..
T Consensus        89 i~~rL~~~~~~~G~~v~vRhGDT~~~er~r~~~~PPdILiTTPEsL~lll~~~~~r~~l~~vr~VIVDEiHel~~  163 (814)
T COG1201          89 IRRRLEEPLRELGIEVAVRHGDTPQSEKQKMLKNPPHILITTPESLAILLNSPKFRELLRDVRYVIVDEIHALAE  163 (814)
T ss_pred             HHHHHHHHHHHCCCCCCEECCCCCHHHHHHCCCCCCCEEEECHHHHHHHHCCHHHHHHHCCCCEEEEEHHHHHHC
T ss_conf             999999999975984444228788677630469999689958348999836888999860780999512545434


No 33 
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=97.06  E-value=0.00077  Score=46.73  Aligned_cols=127  Identities=17%  Similarity=0.146  Sum_probs=75.8

Q ss_pred             CHHHHHHHC---CC-CCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             489999827---68-88799848889967999999999982478988956677687899999999999967752167422
Q 537021.9.peg.4   21 KSEQLLASD---PT-RSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITAWSHLSDEI   96 (242)
Q Consensus        21 ~~qq~~a~~---~~-~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~~~~   96 (242)
                      .+.|..+..   .. +.++|.|++|||||++...-+...+..+- -.++++++.|+..+..+.+++.+.++......   
T Consensus        10 ~~~Q~~~~~~~~~~~~~~~i~~~tGsGKT~~~~~~~~~~~~~~~-~~~~li~~P~~~l~~q~~~~~~~~~~~~~~~~---   85 (201)
T smart00487       10 RPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRGK-GKRVLVLVPTRELAEQWAEELKKLGPSLGLKV---   85 (201)
T ss_pred             CHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHHCCC-CCEEEEEECCHHHHHHHHHHHHHCCCCCEEEE---
T ss_conf             98899999999838998899899996099999999999863389-97599990859999999988601021020445---


Q ss_pred             CHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHH
Q ss_conf             146499731479997899999999999983100132111799998755542897588999851683789
Q 537021.9.peg.4   97 LSAEITKIQGKKPNKSDMSKARHLLITILETPGGLKVQTIHAFCEAIMQQFPLEANITSHFAIADEEQS  165 (242)
Q Consensus        97 ~~~~l~~~~~~~~~~~~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~ilr~~~~~~gl~~~f~i~d~~~~  165 (242)
                             .........     ...+.........+-+.|++.+...+.....  ..-..++-|+||...
T Consensus        86 -------~~~~~~~~~-----~~~~~~~~~~~~~i~i~t~~~l~~~~~~~~~--~~~~~~~vIiDE~H~  140 (201)
T smart00487       86 -------VGLYGGDSK-----REQLRKLESGKTDILVTTPGRLLDLLENDLL--ELSNVDLVILDEAHR  140 (201)
T ss_pred             -------EEEECCCCH-----HHHHHHHHCCCCCEEEECHHHHHHHHHHCCC--CCCCCEEEEEECHHH
T ss_conf             -------565247737-----9999999759998999558999999972754--525431999989677


No 34 
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=97.06  E-value=0.00088  Score=46.33  Aligned_cols=60  Identities=20%  Similarity=0.050  Sum_probs=44.8

Q ss_pred             CCCHHHHHHH-C---CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             0948999982-7---6888799848889967999999999982478988956677687899999999
Q 537021.9.peg.4   19 QTKSEQLLAS-D---PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHR   81 (242)
Q Consensus        19 ~~~~qq~~a~-~---~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~R   81 (242)
                      .++++|+.|. +   +.+-.+|++-|||||||+|..--.-.=..|   -+|..++.|.|||.+|.+-
T Consensus       346 ~Ls~EQ~~A~~hiT~~~~iavVvG~AGtGKStmL~aAReawEa~G---yrV~GaALsGkAAegLe~~  409 (992)
T PRK13889        346 VLSGEQADALAHVTDGRDLGVVVGYAGTGKSAMLGVAREAWEAAG---YEVRGAALSGIAAENLEGG  409 (992)
T ss_pred             CCCHHHHHHHHHHCCCCCEEEEEECCCCCHHHHHHHHHHHHHHCC---CEEEEECCCHHHHHHHHHC
T ss_conf             879999999998647897589983388878899999999999779---8898115006899976534


No 35 
>PRK13767 ATP-dependent helicase; Provisional
Probab=97.00  E-value=0.0024  Score=43.25  Aligned_cols=69  Identities=16%  Similarity=0.201  Sum_probs=45.8

Q ss_pred             CCHHHHHHH---CCCCCEEEEECCCCCHHHHHHHHHH-HHHH---CCCC--HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             948999982---7688879984888996799999999-9982---4789--889566776878999999999999677
Q 537021.9.peg.4   20 TKSEQLLAS---DPTRSAWVSANAGSGKTHILVQRVL-RLLL---ANAH--PSTLLCLTHTKAAAAEMSHRVLEIITA   88 (242)
Q Consensus        20 ~~~qq~~a~---~~~~~~lV~A~aGSGKT~tL~~rv~-~ll~---~g~~--P~~IL~lTFT~kAA~El~~RI~~~l~~   88 (242)
                      .++-|+.|.   ..+.++||.||-|||||..-.-=++ .++.   .|..  +=++|.||++++=++++..++...+..
T Consensus        33 p~~~Q~~a~~~i~~G~~~Li~ApTGsGKTlAaflp~l~~l~~~~~~~~~~~~~~~LyIsPLkAL~~D~~r~L~~pl~~  110 (878)
T PRK13767         33 FTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLGIIDELFRLAEEGELEDSVYCIYVSPLRALNNDIHRNLEEPLEE  110 (878)
T ss_pred             CCHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEECCHHHHHHHHHHHHHHHHHH
T ss_conf             998999999999679988998999813999999999999985000367788728999684798899999988869999


No 36 
>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=96.94  E-value=0.00055  Score=47.77  Aligned_cols=57  Identities=21%  Similarity=0.290  Sum_probs=45.4

Q ss_pred             HHHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9982768887998488899679999999999824-7898895667768789999999999996
Q 537021.9.peg.4   25 LLASDPTRSAWVSANAGSGKTHILVQRVLRLLLA-NAHPSTLLCLTHTKAAAAEMSHRVLEII   86 (242)
Q Consensus        25 ~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~-g~~P~~IL~lTFT~kAA~El~~RI~~~l   86 (242)
                      ..|+...+++||++|-|||||| |+|-++.-|.. ..+-++|..+==|+    |+.=+-.+..
T Consensus       133 ~~Av~ar~NIlv~GGTGSGKTT-LaNAlla~I~~l~~P~dR~vIiEDT~----ElQC~A~N~V  190 (315)
T TIGR02782       133 REAVAARKNILVVGGTGSGKTT-LANALLAEIAKLNDPDDRVVIIEDTA----ELQCAAENLV  190 (315)
T ss_pred             HHHHHHCCCEEEECCCCCCHHH-HHHHHHHHHHHCCCCCCEEEEEECCH----HHHHCCCCEE
T ss_conf             9999712988998145885799-99999998852169996189985471----3201378706


No 37 
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=96.90  E-value=0.031  Score=35.47  Aligned_cols=58  Identities=17%  Similarity=0.358  Sum_probs=36.5

Q ss_pred             HHHHHHCCC---CCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHH---HHHHHHHHHHHH
Q ss_conf             999982768---88799848889967999999999982478988956677---687899999999
Q 537021.9.peg.4   23 EQLLASDPT---RSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLT---HTKAAAAEMSHR   81 (242)
Q Consensus        23 qq~~a~~~~---~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lT---FT~kAA~El~~R   81 (242)
                      ..+++..|+   -|++|.++.|.|||+.| +-+.+-+.+.-+..+|+.+|   |++.-..-++.+
T Consensus       134 A~~Va~~pg~~yNPLfIyG~~GlGKTHLl-~AIgn~~~~~~p~~~v~Y~tae~F~~~~v~al~~~  197 (447)
T PRK00149        134 ALAVAENPGKAYNPLFIYGGVGLGKTHLL-HAIGNYILEKNPNAKVVYVSSEKFTNDFVKALRNN  197 (447)
T ss_pred             HHHHHHCCCCCCCCEEEECCCCCCHHHHH-HHHHHHHHHHCCCCEEEEEEHHHHHHHHHHHHHCC
T ss_conf             99998376767785589779988788999-99999999858997289954999999999998518


No 38 
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=96.80  E-value=0.0029  Score=42.69  Aligned_cols=80  Identities=18%  Similarity=0.173  Sum_probs=49.2

Q ss_pred             CCHHHH---HHHHHH------HHHCCCHHHHHHH--CCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             100788---888973------2350948999982--76888799848889967999999999982478988956677687
Q 537021.9.peg.4    4 HNSFQE---HSETID------LISQTKSEQLLAS--DPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTK   72 (242)
Q Consensus         4 ~~~~~~---~~~~~~------~~~~~~~qq~~a~--~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~   72 (242)
                      |++|++   +..+.+      +..+|.=|+.++-  -.++.+++.|.-|||||-.-.-=++..+..+..--+.|++++|+
T Consensus         3 ~~sF~~l~L~~~ll~aL~~~G~~~pTpIQ~~aIP~il~G~Dvi~~A~TGSGKTlAfllPil~~l~~~~~~~qaLIL~PTR   82 (459)
T PRK11776          3 MTAFSTLPLPPALLANLDELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTR   82 (459)
T ss_pred             CCCHHHCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCEEEEECHH
T ss_conf             68863489799999999977999999899999999977998899889985899999999998411367898599996759


Q ss_pred             HHHHHHHHHHH
Q ss_conf             89999999999
Q 537021.9.peg.4   73 AAAAEMSHRVL   83 (242)
Q Consensus        73 kAA~El~~RI~   83 (242)
                      .=|....+-+.
T Consensus        83 ELa~QV~~~~~   93 (459)
T PRK11776         83 ELADQVAKEIR   93 (459)
T ss_pred             HHHHHHHHHHH
T ss_conf             99999999999


No 39 
>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=96.77  E-value=0.0017  Score=44.31  Aligned_cols=31  Identities=29%  Similarity=0.357  Sum_probs=26.3

Q ss_pred             HHHCCCCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             9827688879984888996799999999998
Q 537021.9.peg.4   26 LASDPTRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        26 ~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      .+.-|.|=+||-+|-||||||||+.-|-|+=
T Consensus       122 ~a~~~~GLiLVTGPTGSGKSTTlAsmIDyIN  152 (350)
T TIGR01420       122 LAERPRGLILVTGPTGSGKSTTLASMIDYIN  152 (350)
T ss_pred             HHHCCCCCEEEECCCCCCHHHHHHHHHHHHH
T ss_conf             9836699389876889867899999997874


No 40 
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=96.46  E-value=0.0047  Score=41.24  Aligned_cols=69  Identities=19%  Similarity=0.183  Sum_probs=47.0

Q ss_pred             HHHCCCHHHHHHH--CCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             2350948999982--76888799848889967999999999982478988956677687899999999999
Q 537021.9.peg.4   16 LISQTKSEQLLAS--DPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLE   84 (242)
Q Consensus        16 ~~~~~~~qq~~a~--~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~   84 (242)
                      +..+|.=|++++-  --++.+++.|.-|||||-.-.-=++..|.....--++|+|++|+.-|..+.+-+..
T Consensus        26 f~~PTpIQ~~aIP~iL~GkDvi~~AqTGSGKTlAFlLPiL~~l~~~~~~pqaLIL~PTRELA~QV~~~~~~   96 (629)
T PRK11634         26 YEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTD   96 (629)
T ss_pred             CCCCCHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCEEEECCCHHHHHHHHHHHHH
T ss_conf             99999999999999967998899788847899999999999866236898689978998999999999999


No 41 
>pfam02562 PhoH PhoH-like protein. PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation.
Probab=96.44  E-value=0.0045  Score=41.35  Aligned_cols=55  Identities=16%  Similarity=0.138  Sum_probs=40.4

Q ss_pred             HHCCCHHHHHHHCC--CC-CEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             35094899998276--88-8799848889967999999999982478988956677687
Q 537021.9.peg.4   17 ISQTKSEQLLASDP--TR-SAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTK   72 (242)
Q Consensus        17 ~~~~~~qq~~a~~~--~~-~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~   72 (242)
                      +.+-|+.|+.+.+.  +. -++|.++||||||+.-+...++++.+| ..++|+++-.+-
T Consensus         2 I~P~~~~Q~~~~~~l~~~~iv~~~GpAGtGKT~la~~~al~~l~~~-~~~kiii~Rp~v   59 (205)
T pfam02562         2 IKPKTLGQKRYVEAIRKNDIVFGIGPAGTGKTYLAVAAAVDALKDG-KVKRIILTRPAV   59 (205)
T ss_pred             CCCCCHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHHHHHC-CCCEEEEEECCC
T ss_conf             8789888999999971798079989998609999999999999718-943799975771


No 42 
>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=96.30  E-value=0.0062  Score=40.39  Aligned_cols=70  Identities=20%  Similarity=0.195  Sum_probs=47.0

Q ss_pred             HHHCCCHHHHHHHC--CCCCEEEEECCCCCHHHHHHHHHHHHHH-CC-CCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             23509489999827--6888799848889967999999999982-47-89889566776878999999999999
Q 537021.9.peg.4   16 LISQTKSEQLLASD--PTRSAWVSANAGSGKTHILVQRVLRLLL-AN-AHPSTLLCLTHTKAAAAEMSHRVLEI   85 (242)
Q Consensus        16 ~~~~~~~qq~~a~~--~~~~~lV~A~aGSGKT~tL~~rv~~ll~-~g-~~P~~IL~lTFT~kAA~El~~RI~~~   85 (242)
                      +-.+|.=|+..+-.  .++++++.|+.|||||..-+-=++..+. .. .+.-+.+++++|+.-|....+.+...
T Consensus        19 ~~~pt~IQ~~~ip~il~g~dvi~~a~TGSGKTlay~lpil~~l~~~~~~~~~~alil~PTrELa~Qi~~~~~~l   92 (203)
T cd00268          19 FEKPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKL   92 (203)
T ss_pred             CCCCCHHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCEEEEEECCHHHHHHHHHHHHHH
T ss_conf             99999999999999977998899757997222888869999986166768966999968799999999999985


No 43 
>PRK05580 primosome assembly protein PriA; Validated
Probab=96.29  E-value=0.0068  Score=40.09  Aligned_cols=66  Identities=23%  Similarity=0.210  Sum_probs=52.6

Q ss_pred             CCHHHHHHHC------CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9489999827------68887998488899679999999999824789889566776878999999999999677
Q 537021.9.peg.4   20 TKSEQLLASD------PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITA   88 (242)
Q Consensus        20 ~~~qq~~a~~------~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~   88 (242)
                      +++.|..|.+      ...+.|+.+.+|||||.+..+.+...+..|   .++|++-+.-+=+..|.+|+.++++.
T Consensus       169 L~~eQ~~a~~~i~~~~~~~~~LL~GvTGSGKTevYl~li~~~l~~G---kqvLiLvPEI~lt~q~~~rl~~~fg~  240 (699)
T PRK05580        169 LNEEQAAALAAIRAAGGFSAFLLDGVTGSGKTEVYLQAIAEALAQG---KQALVLVPEIALTPQLLARFRARFGA  240 (699)
T ss_pred             CCHHHHHHHHHHHHCCCCCCEEEECCCCCHHHHHHHHHHHHHHHCC---CCEEEEECCHHHHHHHHHHHHHHHCC
T ss_conf             8999999999998558887178747898607999999999999739---97899917678789999999987099


No 44 
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA; InterPro: IPR014136   This entry represents the Ti-type conjugative transfer relaxase TraA. TraA contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, IPR005053 from INTERPRO) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, IPR014129 from INTERPRO). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer ..
Probab=96.28  E-value=0.0072  Score=39.94  Aligned_cols=61  Identities=16%  Similarity=0.117  Sum_probs=42.8

Q ss_pred             HCCC-HHHHHHHCC---CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             5094-899998276---888799848889967999999999982478988956677687899999999
Q 537021.9.peg.4   18 SQTK-SEQLLASDP---TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHR   81 (242)
Q Consensus        18 ~~~~-~qq~~a~~~---~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~R   81 (242)
                      ..++ ||+.++-+-   .+=.+|++-|||||||.|.--=..-...|   =+|..=.-+=|||.+|.+-
T Consensus       413 ~rLs~EQ~~Av~hvt~s~~iavVvG~AGtGKSt~L~aAR~AWe~~G---y~V~GAALsGKAAegLe~~  477 (888)
T TIGR02768       413 ERLSEEQKEAVRHVTGSGDIAVVVGRAGTGKSTMLKAAREAWEAAG---YRVIGAALSGKAAEGLEAE  477 (888)
T ss_pred             CCCHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCC---CEEEEHHHHHHHHHHHHCC
T ss_conf             7745899999875328996489974899876678999999998739---7787154555898873002


No 45 
>pfam07652 Flavi_DEAD Flavivirus DEAD domain.
Probab=96.25  E-value=0.0041  Score=41.68  Aligned_cols=48  Identities=25%  Similarity=0.256  Sum_probs=39.7

Q ss_pred             EEEEECCCCCHHHH-HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             79984888996799-9999999982478988956677687899999999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHI-LVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLE   84 (242)
Q Consensus        34 ~lV~A~aGSGKT~t-L~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~   84 (242)
                      -++-.-||+|||+. |.+.+...+.++   -+.|+++.||-.++||.+-+..
T Consensus         5 t~ld~HPGaGKTr~vLP~~v~~~i~~~---lRtlVLaPTRVV~~Em~eAL~g   53 (146)
T pfam07652         5 TVLDLHPGAGKTRKVLPELVRECIDRR---LRTLVLAPTRVVLAEMEEALRG   53 (146)
T ss_pred             EEEECCCCCCCCCHHHHHHHHHHHHCC---CEEEEECCHHHHHHHHHHHHCC
T ss_conf             798538999970224899999999728---6189977279999999999758


No 46 
>TIGR02173 cyt_kin_arch cytidylate kinase, putative; InterPro: IPR011892    Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by IPR003136 from INTERPRO.; GO: 0004127 cytidylate kinase activity, 0005524 ATP binding, 0006139 nucleobase nucleoside nucleotide and nucleic acid metabolic process.
Probab=96.24  E-value=0.0022  Score=43.52  Aligned_cols=22  Identities=32%  Similarity=0.389  Sum_probs=15.7

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             79984888996799999999998
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      +.|+++|||||||+- ..++.-|
T Consensus         3 I~ISGpPGSGktTvA-~~lA~~L   24 (173)
T TIGR02173         3 ITISGPPGSGKTTVA-KILAEKL   24 (173)
T ss_pred             EEEECCCCCCHHHHH-HHHHHHC
T ss_conf             887358968647899-9999863


No 47 
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=96.20  E-value=0.0092  Score=39.18  Aligned_cols=69  Identities=28%  Similarity=0.295  Sum_probs=46.2

Q ss_pred             HHHCCCHHHHHHH--CCCCCEEEEECCCCCHHHHHHHHHHHHHH-CC-----CCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             2350948999982--76888799848889967999999999982-47-----8988956677687899999999999
Q 537021.9.peg.4   16 LISQTKSEQLLAS--DPTRSAWVSANAGSGKTHILVQRVLRLLL-AN-----AHPSTLLCLTHTKAAAAEMSHRVLE   84 (242)
Q Consensus        16 ~~~~~~~qq~~a~--~~~~~~lV~A~aGSGKT~tL~~rv~~ll~-~g-----~~P~~IL~lTFT~kAA~El~~RI~~   84 (242)
                      +..+|.=|++++-  -.++.+++.|.-|||||-.-+-=++..|. ..     -.|-+.|++++|+.-|..+.+-+..
T Consensus        21 ~~~PTpIQ~~aIP~iL~GrDvl~~A~TGSGKTlAflLPil~~l~~~~~~~~~~~~~~aLIL~PTRELA~Qi~~~~~~   97 (457)
T PRK10590         21 YREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENVRD   97 (457)
T ss_pred             CCCCCHHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEECCHHHHHHHHHHHHHH
T ss_conf             99999999999999977998899889811899999999999986367654456882499976879999999999997


No 48 
>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=96.15  E-value=0.0026  Score=43.03  Aligned_cols=46  Identities=24%  Similarity=0.274  Sum_probs=34.1

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             87998488899679999999999824789889566776878999999999
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRV   82 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI   82 (242)
                      +.||.++||||||+.-.+-+.+.+.+|   ++++.+||.. ....+..+.
T Consensus         1 stLi~G~pGsGKT~~a~qfl~~~a~~g---e~~lyis~eE-~~~~l~~~~   46 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGLARG---EPGLYVTLEE-SPEELIENA   46 (187)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHHHHCC---CCEEEEEECC-CHHHHHHHH
T ss_conf             915876899999999999999998769---9789999507-999999999


No 49 
>PRK04328 hypothetical protein; Provisional
Probab=96.12  E-value=0.0039  Score=41.80  Aligned_cols=50  Identities=16%  Similarity=0.233  Sum_probs=37.5

Q ss_pred             CCCC-EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             6888-79984888996799999999998247898895667768789999999999
Q 537021.9.peg.4   30 PTRS-AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVL   83 (242)
Q Consensus        30 ~~~~-~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~   83 (242)
                      |.|+ +||.++||||||+--.+-+.+-+.+|   ++.+.+||..... .+..+..
T Consensus        22 p~gs~~Lv~G~pGtGKT~la~qFl~~g~~~G---E~~lyis~eE~~~-~l~~~~~   72 (250)
T PRK04328         22 PERNVVLLSGGPGTGKSIFSQQFLWNGLQMG---EPGIYVALEEHPV-QVRRNMA   72 (250)
T ss_pred             CCCEEEEEEECCCCCHHHHHHHHHHHHHHCC---CCEEEEEEECCHH-HHHHHHH
T ss_conf             7996999982899998999999999998769---9779999727999-9999999


No 50 
>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=96.07  E-value=0.0082  Score=39.52  Aligned_cols=69  Identities=17%  Similarity=0.226  Sum_probs=55.5

Q ss_pred             HCCCHHHHHHHC----CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             509489999827----6888799848889967999999999982478988956677687899999999999967
Q 537021.9.peg.4   18 SQTKSEQLLASD----PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        18 ~~~~~qq~~a~~----~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~   87 (242)
                      ..+++.|+.+..    ...-.++.++||||||++++..+...+..| ..++++++..++.++..+.+++.....
T Consensus       201 ~~l~~~~~~~~~~~~~~~~~~~~~gp~g~g~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~d~~~~~~~~~~p  273 (709)
T TIGR00376       201 PNLNESQKEAVGFALSSKDLFLIHGPPGTGKTRTLVELIRQLVKRG-PEERVLVTAPSNIAVDNLLERLAPLYP  273 (709)
T ss_pred             CCCCHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHHHCC-CCCCEEEECCCCHHHHHHHHHHHHHCC
T ss_conf             2322346777654312344168726777762156899999998528-533067623531037788888764145


No 51 
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=96.03  E-value=0.013  Score=38.24  Aligned_cols=70  Identities=26%  Similarity=0.288  Sum_probs=45.8

Q ss_pred             HHHCCCHHHHHHH--CCCCCEEEEECCCCCHHHHHHHHHH-HHHH---CCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             2350948999982--7688879984888996799999999-9982---4789889566776878999999999999
Q 537021.9.peg.4   16 LISQTKSEQLLAS--DPTRSAWVSANAGSGKTHILVQRVL-RLLL---ANAHPSTLLCLTHTKAAAAEMSHRVLEI   85 (242)
Q Consensus        16 ~~~~~~~qq~~a~--~~~~~~lV~A~aGSGKT~tL~~rv~-~ll~---~g~~P~~IL~lTFT~kAA~El~~RI~~~   85 (242)
                      +..+|.=|+.++-  -.++++++.|+-|||||..-.-=++ +++.   ....+-++|++++|+.=|..+.+.+...
T Consensus        23 ~~~pT~IQ~~aIp~il~g~dvl~~A~TGSGKTlaylLPil~~l~~~~~~~~~~~~~LIl~PTrELa~Qi~~~~~~l   98 (417)
T PRK11192         23 YTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQAREL   98 (417)
T ss_pred             CCCCCHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEECHHHHHHHHHHHHHHH
T ss_conf             9999999999999997799889989998679999999999998752103689964999947199999999999986


No 52 
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=96.03  E-value=0.0049  Score=41.13  Aligned_cols=50  Identities=22%  Similarity=0.187  Sum_probs=32.1

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH--HHHHHHHHHHHHHHH
Q ss_conf             79984888996799999999998247898895667768--789999999999996
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHT--KAAAAEMSHRVLEII   86 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT--~kAA~El~~RI~~~l   86 (242)
                      +++.+++|+|||||++....++..+|.   +|.++|--  |.+|.|=-.-..+.+
T Consensus         3 i~lvGptGvGKTTTiaKLA~~~~~~~~---kV~lit~Dt~R~gA~eQL~~~a~~l   54 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKKKGK---KVLLVAADTYRPAAIEQLRVLGEQV   54 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCC---EEEEEECCCCCHHHHHHHHHHHHHC
T ss_conf             999899999889999999999997699---2899974887577999999999974


No 53 
>PRK08116 hypothetical protein; Validated
Probab=96.01  E-value=0.0051  Score=40.96  Aligned_cols=47  Identities=13%  Similarity=0.202  Sum_probs=33.1

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             8887998488899679999999999824789889566776878999999999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEI   85 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~   85 (242)
                      +..++..++||||||+..+...-.++.+|.   .++.++++.     +-++|...
T Consensus       108 ~~GLll~G~~GtGKThLa~aIa~~l~~~g~---~V~~~~~~~-----ll~~lk~~  154 (262)
T PRK08116        108 SVGLLLWGSPGNGKTYLAAAIANELIEKGV---PVVFVNVPE-----LLNRIKST  154 (262)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHCCC---EEEEEEHHH-----HHHHHHHH
T ss_conf             861899898999899999999999998799---399988999-----99999999


No 54 
>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=96.01  E-value=0.02  Score=36.88  Aligned_cols=58  Identities=19%  Similarity=0.288  Sum_probs=42.1

Q ss_pred             HHHCCCCCE-EEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             982768887-9984888996799999999998247898895667768789999999999996775
Q 537021.9.peg.4   26 LASDPTRSA-WVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITAW   89 (242)
Q Consensus        26 ~a~~~~~~~-lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~   89 (242)
                      ++.+.+.++ ++.||-|||||..-.-   ..+..+   .+++.+++|++-++.+.+|+.+.+..+
T Consensus         8 ~~~~~~~~~ivitAPTgsGKT~Aa~l---p~l~~~---~~~lyi~P~kAL~~Dq~~~l~~~~~~~   66 (357)
T TIGR03158         8 ALQSKDADIIFNTAPTGAGKTLAWLT---PLLHGE---NDTIALYPTNALIEDQTEAIKEFVDVF   66 (357)
T ss_pred             HHHCCCCCEEEEECCCCCCHHHHHHH---HHHHCC---CCEEEECCHHHHHHHHHHHHHHHHHHH
T ss_conf             99768998699989998569999999---997389---879997778999999999999999874


No 55 
>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=95.99  E-value=0.0075  Score=39.79  Aligned_cols=29  Identities=31%  Similarity=0.392  Sum_probs=22.6

Q ss_pred             HHCCCCCEEEEECCCCCHHHHHHHHHHHH
Q ss_conf             82768887998488899679999999999
Q 537021.9.peg.4   27 ASDPTRSAWVSANAGSGKTHILVQRVLRL   55 (242)
Q Consensus        27 a~~~~~~~lV~A~aGSGKT~tL~~rv~~l   55 (242)
                      ++...++++|.++.||||||+|-.-..++
T Consensus       135 ~v~~~~~ilIsG~TGSGKTT~l~all~~i  163 (283)
T pfam00437       135 AVQARGNILVSGGTGSGKTTLLYALLNEI  163 (283)
T ss_pred             HHHCCCEEEEECCCCCCHHHHHHHHHHHC
T ss_conf             99819759998899998899999999840


No 56 
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=95.95  E-value=0.02  Score=36.75  Aligned_cols=68  Identities=16%  Similarity=0.181  Sum_probs=42.2

Q ss_pred             HHCCCHHHHHHH--CCCCCEEEEECCCCCHHHHHHHHHH-HHHHCCCCHH------HHHHHHHHHHHHHHHHHHHHH
Q ss_conf             350948999982--7688879984888996799999999-9982478988------956677687899999999999
Q 537021.9.peg.4   17 ISQTKSEQLLAS--DPTRSAWVSANAGSGKTHILVQRVL-RLLLANAHPS------TLLCLTHTKAAAAEMSHRVLE   84 (242)
Q Consensus        17 ~~~~~~qq~~a~--~~~~~~lV~A~aGSGKT~tL~~rv~-~ll~~g~~P~------~IL~lTFT~kAA~El~~RI~~   84 (242)
                      ..+|.=|++.+-  --++++++.|.-|||||-.-.-=++ +++......+      +.|++++|+.=|..+.+-+..
T Consensus       105 ~~PTpIQ~~aIP~iL~GkDvi~~A~TGSGKTlAyLLPil~~ll~~~~~~~~~~~~p~aLIL~PTRELa~QI~~~~~~  181 (472)
T PRK01297        105 PYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAAA  181 (472)
T ss_pred             CCCCHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHHHHHHHHHCCCCHHCCCCCCEEEEECCCHHHHHHHHHHHHH
T ss_conf             99999999999999769988998999867999999999999971775101136895299987999999999999999


No 57 
>pfam05970 DUF889 PIF1 helicase. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated.
Probab=95.93  E-value=0.0029  Score=42.71  Aligned_cols=38  Identities=21%  Similarity=0.239  Sum_probs=30.1

Q ss_pred             ECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             48889967999999999982478988956677687899999
Q 537021.9.peg.4   38 ANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEM   78 (242)
Q Consensus        38 A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El   78 (242)
                      ++||||||++|-..+.++-..+   ..++++++|-.||..+
T Consensus         1 G~AGTGKS~ll~~i~~~l~~~~---~~v~vtA~TGiAA~~i   38 (418)
T pfam05970         1 GYGGTGKTFLWNALSARIRSRG---KIVLNVASSGIAALLL   38 (418)
T ss_pred             CCCCCCHHHHHHHHHHHHHHCC---CEEEEECCHHHHHHCC
T ss_conf             9798879999999999997689---8899989689998516


No 58 
>pfam06414 Zeta_toxin Zeta toxin. This family consists of several bacterial zeta toxin proteins. Zeta toxin is thought to be part of a postregulational killing system in bacteria. It relies on antitoxin/toxin systems that secure stable inheritance of low and medium copy number plasmids during cell division and kill cells that have lost the plasmid.
Probab=95.92  E-value=0.03  Score=35.52  Aligned_cols=24  Identities=21%  Similarity=0.324  Sum_probs=17.6

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHH
Q ss_conf             887998488899679999999999
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRL   55 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~l   55 (242)
                      .-+++-++||||||++.-.....+
T Consensus        13 kai~laG~pGAGKS~~~~~~~~~~   36 (191)
T pfam06414        13 VAVLLGGQPGAGKTELARALLEEL   36 (191)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHC
T ss_conf             799995799888899999998753


No 59 
>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=95.91  E-value=0.013  Score=38.07  Aligned_cols=51  Identities=16%  Similarity=0.155  Sum_probs=30.0

Q ss_pred             CCCCCEEEEECCCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             76888799848889967999999999982-47898895667768789999999
Q 537021.9.peg.4   29 DPTRSAWVSANAGSGKTHILVQRVLRLLL-ANAHPSTLLCLTHTKAAAAEMSH   80 (242)
Q Consensus        29 ~~~~~~lV~A~aGSGKT~tL~~rv~~ll~-~g~~P~~IL~lTFT~kAA~El~~   80 (242)
                      .+.+++++.++||||||++. ..+++.+. .+.+--.+-+-.++.+...+...
T Consensus        17 ~~~~~ill~GppGtGKT~la-~~ia~~~~~~~~~~~~~~~~~~~~~~~~~~~~   68 (151)
T cd00009          17 PPPKNLLLYGPPGTGKTTLA-RAIANELFRPGAPFLYLNASDLLEGLVVAELF   68 (151)
T ss_pred             CCCCEEEEECCCCCCHHHHH-HHHHHHHCCCCCCEEEEEHHHCCHHHHHHHHH
T ss_conf             79980899899998865999-99999712137982785477704677775760


No 60 
>PRK02362 ski2-like helicase; Provisional
Probab=95.88  E-value=0.017  Score=37.30  Aligned_cols=65  Identities=20%  Similarity=0.194  Sum_probs=49.3

Q ss_pred             HHCCCHHHHHHHC----CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             3509489999827----6888799848889967999999999982478988956677687899999999999
Q 537021.9.peg.4   17 ISQTKSEQLLASD----PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLE   84 (242)
Q Consensus        17 ~~~~~~qq~~a~~----~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~   84 (242)
                      +..+.+-|..+..    .+++++|.||-|||||.+----+.+.+.+|   .+++.+++.++=++|-...+.+
T Consensus        21 I~~Lyp~Q~eal~~gl~~g~NlvvsaPTgsGKTlvAElail~~l~~g---~k~vYi~P~kALa~EK~~~~~~   89 (736)
T PRK02362         21 IEELYPPQAEAVEAGLLEGKNLLAAIPTASGKTLLAELAMLKAIAEG---GKALYIVPLRALASEKFEEFSE   89 (736)
T ss_pred             CCCCCHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHHHC---CEEEEECCHHHHHHHHHHHHHH
T ss_conf             97578999999986435698189979999858999999999999839---9799985879999999999998


No 61 
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=95.84  E-value=0.019  Score=36.91  Aligned_cols=71  Identities=18%  Similarity=0.167  Sum_probs=43.2

Q ss_pred             HHHCCCHHHHHHH--CCCCCEEEEECCCCCHHHHHHHHHH-HHHHCCCCH------HHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             2350948999982--7688879984888996799999999-998247898------895667768789999999999996
Q 537021.9.peg.4   16 LISQTKSEQLLAS--DPTRSAWVSANAGSGKTHILVQRVL-RLLLANAHP------STLLCLTHTKAAAAEMSHRVLEII   86 (242)
Q Consensus        16 ~~~~~~~qq~~a~--~~~~~~lV~A~aGSGKT~tL~~rv~-~ll~~g~~P------~~IL~lTFT~kAA~El~~RI~~~l   86 (242)
                      +..+|.=|++++-  ..++.+++.|.-|||||..-+-=++ +++....+.      -+.|++++|+.    +...|.+.+
T Consensus        29 ~~~pTpIQ~~aIP~il~G~Dvi~~A~TGSGKTlAfllPil~~ll~~~~~~~~~~~~p~aLIL~PTRE----La~Qi~~~~  104 (423)
T PRK04837         29 FEYCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHHLLSHPAPEGRKVNQPRALIMAPTRE----LAVQIHADA  104 (423)
T ss_pred             CCCCCHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEECCHH----HHHHHHHHH
T ss_conf             9999999999999996799889989998749999999999999837453345567861899938899----999999999


Q ss_pred             HHHH
Q ss_conf             7752
Q 537021.9.peg.4   87 TAWS   90 (242)
Q Consensus        87 ~~~~   90 (242)
                      ..++
T Consensus       105 ~~l~  108 (423)
T PRK04837        105 EPLA  108 (423)
T ss_pred             HHHH
T ss_conf             9974


No 62 
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=95.84  E-value=0.0077  Score=39.71  Aligned_cols=46  Identities=26%  Similarity=0.283  Sum_probs=29.6

Q ss_pred             HHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             98276888799848889967999999999982478988956677687
Q 537021.9.peg.4   26 LASDPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTK   72 (242)
Q Consensus        26 ~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~   72 (242)
                      .++....+++|.+|.||||||.+-.. +..+....+-++|+.+-=|.
T Consensus       139 ~aV~~r~nilVsGgTGSGKTTllnaL-~~~i~~~~p~eRivtIEDt~  184 (323)
T PRK13833        139 SAISSRLNIVISGGTGSGKTTLANAV-IAEIVASAPEDRLVILEDTA  184 (323)
T ss_pred             HHHHCCCCEEEECCCCCCHHHHHHHH-HHHHCCCCCHHEEEEECCCC
T ss_conf             99981896899917777568999999-98640289323399945750


No 63 
>pfam00448 SRP54 SRP54-type protein, GTPase domain. This family includes relatives of the G-domain of the SRP54 family of proteins.
Probab=95.84  E-value=0.0067  Score=40.14  Aligned_cols=51  Identities=24%  Similarity=0.244  Sum_probs=33.9

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH--HHHHHHHHHHHHHHH
Q ss_conf             879984888996799999999998247898895667768--789999999999996
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHT--KAAAAEMSHRVLEII   86 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT--~kAA~El~~RI~~~l   86 (242)
                      -+++.+++|+|||||++....++..+|.   +|..+|--  |.+|.|--....+.+
T Consensus         3 vi~lvGptGvGKTTTiaKLAa~~~~~~~---~V~lit~Dt~R~gA~eQL~~ya~~l   55 (196)
T pfam00448         3 VILLVGLQGSGKTTTIAKLAAYLKKQGK---KVLLVAADTFRAAAIEQLKQLAERL   55 (196)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCC---EEEEEECCCCCHHHHHHHHHHHHHC
T ss_conf             9999899999889999999999997799---2899975877688999999999863


No 64 
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=95.80  E-value=0.017  Score=37.26  Aligned_cols=49  Identities=20%  Similarity=0.211  Sum_probs=31.9

Q ss_pred             HCCCCCEEEEECCCCCHHHHHH-HHHHHHHHCC--CCHHHHHHHHHHHHHHH
Q ss_conf             2768887998488899679999-9999998247--89889566776878999
Q 537021.9.peg.4   28 SDPTRSAWVSANAGSGKTHILV-QRVLRLLLAN--AHPSTLLCLTHTKAAAA   76 (242)
Q Consensus        28 ~~~~~~~lV~A~aGSGKT~tL~-~rv~~ll~~g--~~P~~IL~lTFT~kAA~   76 (242)
                      ....+.++++||.|||||-.+. .-+.|+..++  .....+..+|-|...-.
T Consensus        24 l~~~~~~llEaPTGtGKTlalL~~al~~~~~~~~~~~~~ki~~~t~t~~~~~   75 (289)
T smart00489       24 LDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIE   75 (289)
T ss_pred             HHCCCEEEEECCCCHHHHHHHHHHHHHHHHHCHHCCCCCEEEEEECCHHHHH
T ss_conf             9749979998999651899999999999996701024561687615378899


No 65 
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=95.80  E-value=0.017  Score=37.26  Aligned_cols=49  Identities=20%  Similarity=0.211  Sum_probs=31.9

Q ss_pred             HCCCCCEEEEECCCCCHHHHHH-HHHHHHHHCC--CCHHHHHHHHHHHHHHH
Q ss_conf             2768887998488899679999-9999998247--89889566776878999
Q 537021.9.peg.4   28 SDPTRSAWVSANAGSGKTHILV-QRVLRLLLAN--AHPSTLLCLTHTKAAAA   76 (242)
Q Consensus        28 ~~~~~~~lV~A~aGSGKT~tL~-~rv~~ll~~g--~~P~~IL~lTFT~kAA~   76 (242)
                      ....+.++++||.|||||-.+. .-+.|+..++  .....+..+|-|...-.
T Consensus        24 l~~~~~~llEaPTGtGKTlalL~~al~~~~~~~~~~~~~ki~~~t~t~~~~~   75 (289)
T smart00488       24 LDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIE   75 (289)
T ss_pred             HHCCCEEEEECCCCHHHHHHHHHHHHHHHHHCHHCCCCCEEEEEECCHHHHH
T ss_conf             9749979998999651899999999999996701024561687615378899


No 66 
>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=95.80  E-value=0.012  Score=38.26  Aligned_cols=31  Identities=19%  Similarity=0.290  Sum_probs=24.6

Q ss_pred             CCCCCEEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             7688879984888996799999999998247
Q 537021.9.peg.4   29 DPTRSAWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        29 ~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      +..++++|.|++|||||..+..-+-.++..|
T Consensus        13 ~~~~H~lviG~tGsGKT~~i~~~i~~~~~~~   43 (386)
T pfam10412        13 SETQHILIVGTTGTGKTQALRELLDQIRARG   43 (386)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf             7767589988999988879999999999779


No 67 
>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=95.77  E-value=0.0077  Score=39.73  Aligned_cols=44  Identities=25%  Similarity=0.434  Sum_probs=28.4

Q ss_pred             HHHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             998276888799848889967999999999982478988956677687
Q 537021.9.peg.4   25 LLASDPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTK   72 (242)
Q Consensus        25 ~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~   72 (242)
                      +.|....++++|.+|+||||||-+ +-++..|=..   +||+.|==|+
T Consensus       152 ~~Ai~~~knIii~GGTgSGKTTf~-kal~~~IP~~---ER~iTIED~~  195 (328)
T TIGR02788       152 RLAIASRKNIIISGGTGSGKTTFL-KALVKEIPKD---ERLITIEDTR  195 (328)
T ss_pred             HHHHHCCCEEEEEECCCCHHHHHH-HHHHHCCCCC---CCEEEEEEEE
T ss_conf             999873891999906897189999-9997327622---5278885201


No 68 
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=95.75  E-value=0.0056  Score=40.70  Aligned_cols=49  Identities=18%  Similarity=0.202  Sum_probs=35.7

Q ss_pred             CCCC-EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             6888-7998488899679999999999824789889566776878999999999
Q 537021.9.peg.4   30 PTRS-AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRV   82 (242)
Q Consensus        30 ~~~~-~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI   82 (242)
                      |.|+ ++|.++||||||+.-.+-+...+.+|   ++.+.+||-... .++..+.
T Consensus        30 p~g~~~li~G~~G~GKt~~~~~f~~~~~~~g---~~~~~~~~ee~~-~~~~~~~   79 (241)
T PRK06067         30 PFGSLILIEGENDTGKSVLSQQFVWGALNQG---KRGLAITTENTS-KSYLKQM   79 (241)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC---CEEEEEEECCCH-HHHHHHH
T ss_conf             7990899980799887999999999998679---829999942899-9999999


No 69 
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=95.75  E-value=0.0071  Score=39.96  Aligned_cols=42  Identities=24%  Similarity=0.272  Sum_probs=26.5

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHH
Q ss_conf             8887998488899679999999999824-78988956677687899
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLA-NAHPSTLLCLTHTKAAA   75 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~-g~~P~~IL~lTFT~kAA   75 (242)
                      ++..||.++||||||+.-.+-..+-+.+ |   +..|.+||+....
T Consensus        24 g~~~LV~G~pGsGKTtla~QfL~~Ga~~~G---E~~lyitl~E~~~   66 (501)
T PRK09302         24 GRPTLVSGTAGTGKTLFALQFLHNGIKSFG---EPGVFVTFEESPE   66 (501)
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHHHHHHCC---CCEEEEECCCCHH
T ss_conf             977999838999999999999999988559---9789998579999


No 70 
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.72  E-value=0.014  Score=37.80  Aligned_cols=34  Identities=29%  Similarity=0.312  Sum_probs=27.1

Q ss_pred             HHHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHC
Q ss_conf             9982768887998488899679999999999824
Q 537021.9.peg.4   25 LLASDPTRSAWVSANAGSGKTHILVQRVLRLLLA   58 (242)
Q Consensus        25 ~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~   58 (242)
                      ..+..|.|-+||-+|.||||||||-.-+.++-..
T Consensus       252 ~~~~~p~GliLvTGPTGSGKTTTLY~~L~~ln~~  285 (500)
T COG2804         252 RLLNRPQGLILVTGPTGSGKTTTLYAALSELNTP  285 (500)
T ss_pred             HHHHCCCEEEEEECCCCCCHHHHHHHHHHHHCCC
T ss_conf             9972897089996899998899999999986278


No 71 
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=95.72  E-value=0.017  Score=37.24  Aligned_cols=52  Identities=19%  Similarity=0.255  Sum_probs=43.2

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             8887998488899679999999999824789889566776878999999999999677
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITA   88 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~   88 (242)
                      .+..+|++++|+|||.+-..-+..+...      +|+|..|+.-...+++++...+..
T Consensus        55 ~~~gvivlpTGaGKT~va~~~~~~~~~~------~Lvlv~~~~L~~Qw~~~~~~~~~~  106 (442)
T COG1061          55 ERRGVIVLPTGAGKTVVAAEAIAELKRS------TLVLVPTKELLDQWAEALKKFLLL  106 (442)
T ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHCCC------EEEEECCHHHHHHHHHHHHHHCCC
T ss_conf             7867999679998899999999982698------899978299999999999973488


No 72 
>PRK04863 mukB cell division protein MukB; Provisional
Probab=95.71  E-value=0.2  Score=29.77  Aligned_cols=115  Identities=16%  Similarity=0.186  Sum_probs=66.6

Q ss_pred             CCCCE-EEEECCCCCHHHHHHHHHHHHHHC--------------------------------------------------
Q ss_conf             68887-998488899679999999999824--------------------------------------------------
Q 537021.9.peg.4   30 PTRSA-WVSANAGSGKTHILVQRVLRLLLA--------------------------------------------------   58 (242)
Q Consensus        30 ~~~~~-lV~A~aGSGKT~tL~~rv~~ll~~--------------------------------------------------   58 (242)
                      -.++| -.++|-|.||||||..-|.-||-.                                                  
T Consensus        25 Ld~lVttLsGgNGAGKSTtMaAf~taLIPD~tlLhfrnttEagat~~srDkgl~gkL~~g~cya~Ldv~ns~~qR~l~gV  104 (1486)
T PRK04863         25 LDELVTTLSGGNGAGKSTTMAAFVTALIPDLTLLHFRNTTEAGATSGSRDKGLHGKLKAGVCYAALDVVNSRHQRVVVGV  104 (1486)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCEEECCCCCCCCCCCCCCCHHHHCCCCCCCEEEEEEEECCCCCEEEEEE
T ss_conf             24420330058886579899999999676430231146665554456543112203588850687755247775689998


Q ss_pred             ------------------------CCCHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCC
Q ss_conf             ------------------------7898895667768789-----99999999999677521674221464997314799
Q 537021.9.peg.4   59 ------------------------NAHPSTLLCLTHTKAA-----AAEMSHRVLEIITAWSHLSDEILSAEITKIQGKKP  109 (242)
Q Consensus        59 ------------------------g~~P~~IL~lTFT~kA-----A~El~~RI~~~l~~~~~~~~~~~~~~l~~~~~~~~  109 (242)
                                              ++.|-.+|..+-.+.-     -.|+|+++...-..+.......-.+....-.+.-|
T Consensus       105 rlqqvaGrd~kVdikpF~i~gLp~~v~Ptd~L~e~~~~~~arv~~l~elkd~aa~lG~~fk~f~Si~dYh~~mFd~GV~P  184 (1486)
T PRK04863        105 RLQQVAGRDKKVDIKPFAIQGLPDSVQPTDLLTETVGERQARVLTLNELKDKAAELGVQFKQFNSITDYHSLMFDLGIIP  184 (1486)
T ss_pred             EEEECCCCCCCCCCCEEEEECCCCCCCHHHHHHHHCCCCEECCCCHHHHHHHHHHHCCEEEECCCHHHHHHHHHHCCCCC
T ss_conf             76540578886676401441686555779999986189310167778899999983873010798789999998679885


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             97899999999999983100132111799998755542
Q 537021.9.peg.4  110 NKSDMSKARHLLITILETPGGLKVQTIHAFCEAIMQQF  147 (242)
Q Consensus       110 ~~~~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~ilr~~  147 (242)
                      ........+..++.+++..-   .+-|.+-..+-+|.|
T Consensus       185 krLrs~~DRskfyrlieaSl---yGgIssaItrsLrdY  219 (1486)
T PRK04863        185 RRLRSSSDRSKFYRLIEASL---YGGISSAITRSLRDY  219 (1486)
T ss_pred             HHCCCHHHHHHHHHHHHHHH---CCCHHHHHHHHHHHH
T ss_conf             10068666899999999997---067068888899998


No 73 
>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=95.71  E-value=0.013  Score=38.15  Aligned_cols=66  Identities=20%  Similarity=0.146  Sum_probs=51.7

Q ss_pred             HHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             9999827688879984888996799999999998247-89889566776878999999999999677521
Q 537021.9.peg.4   23 EQLLASDPTRSAWVSANAGSGKTHILVQRVLRLLLAN-AHPSTLLCLTHTKAAAAEMSHRVLEIITAWSH   91 (242)
Q Consensus        23 qq~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g-~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~   91 (242)
                      +=+.+.+..--|+..|+||.||||.+=   +-||..+ .--.+|+++=+=|=||...-.|+.+.+++-..
T Consensus         9 ~Lr~al~~~~~vvL~APpGAGKsT~~P---LaLL~~pW~~~~kIimLEPRRlAAR~~A~rlA~~LgE~VG   75 (858)
T TIGR01970         9 ALRDALAAHPQVVLEAPPGAGKSTAVP---LALLDAPWLIGGKIIMLEPRRLAARSAAQRLASQLGEEVG   75 (858)
T ss_pred             HHHHHHHCCCCEEEECCCCCCHHHHHH---HHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHHHCCCCC
T ss_conf             999986117650641672247110588---9976626434880787474478999999999997088988


No 74 
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=95.70  E-value=0.011  Score=38.65  Aligned_cols=67  Identities=21%  Similarity=0.265  Sum_probs=49.3

Q ss_pred             CCCHHHHHHHCC-------CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             094899998276-------8887998488899679999999999824789889566776878999999999999677
Q 537021.9.peg.4   19 QTKSEQLLASDP-------TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITA   88 (242)
Q Consensus        19 ~~~~qq~~a~~~-------~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~   88 (242)
                      .+|.+|..|.+.       -.+.|+.+.+|||||.+..+.+...|..|   .++|++-+--+=..-|-+|+..+++.
T Consensus       198 ~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~G---kqvLvLVPEI~Ltpq~~~rf~~rFg~  271 (730)
T COG1198         198 ALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQG---KQVLVLVPEIALTPQLLARFKARFGA  271 (730)
T ss_pred             CCCHHHHHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHHHHHCC---CEEEEEECCCCCHHHHHHHHHHHHCC
T ss_conf             038899999999997505666536767778858999999999999759---87999956534569999999998678


No 75 
>COG1204 Superfamily II helicase [General function prediction only]
Probab=95.69  E-value=0.026  Score=35.98  Aligned_cols=77  Identities=22%  Similarity=0.191  Sum_probs=58.2

Q ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHC--C-CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             0078888897323509489999827--6-888799848889967999999999982478988956677687899999999
Q 537021.9.peg.4    5 NSFQEHSETIDLISQTKSEQLLASD--P-TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHR   81 (242)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~qq~~a~~--~-~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~R   81 (242)
                      ..+-|+.+.-.+-...+.||-++-.  . ++++||.||-|||||-.--..+++-+.+|  -.+++.+.++++=|.|+.++
T Consensus        18 ~~v~~i~~~~~~~el~~~qq~av~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~--~~k~vYivPlkALa~Ek~~~   95 (766)
T COG1204          18 DRVLEILKGDGIDELFNPQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEG--GGKVVYIVPLKALAEEKYEE   95 (766)
T ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHC--CCCEEEEECHHHHHHHHHHH
T ss_conf             7899886048847755789987411125798679976788866999999999999855--98389990759999999998


Q ss_pred             HH
Q ss_conf             99
Q 537021.9.peg.4   82 VL   83 (242)
Q Consensus        82 I~   83 (242)
                      ..
T Consensus        96 ~~   97 (766)
T COG1204          96 FS   97 (766)
T ss_pred             HH
T ss_conf             66


No 76 
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=95.68  E-value=0.0059  Score=40.54  Aligned_cols=42  Identities=19%  Similarity=0.171  Sum_probs=34.8

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
Q ss_conf             888799848889967999999999982478988956677687899
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAA   75 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA   75 (242)
                      +...||.++||||||+.-.+-+..-..+|   ++.+.++|-....
T Consensus       266 GsstLi~Gp~GtGKTtla~qFl~~~a~~G---E~~l~~~FeE~~~  307 (501)
T PRK09302        266 GSIILVSGATGTGKTLLVSKFAEAACRRG---ERCLLFAFEESRA  307 (501)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHCC---CCEEEEEEECCHH
T ss_conf             94699988999888999999999998659---9089999967999


No 77 
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI; InterPro: IPR014129   This entry represents TraI, which is a component of the relaxosome complex. In the process of conjugative plasmid transfer the relaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein ..
Probab=95.64  E-value=0.0037  Score=41.99  Aligned_cols=69  Identities=25%  Similarity=0.237  Sum_probs=52.5

Q ss_pred             HHHHHHCCCHHHHHHHC-----CCCCEEEEECCCCCHHHHHHH----HHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             97323509489999827-----688879984888996799999----9999982-478988956677687899999999
Q 537021.9.peg.4   13 TIDLISQTKSEQLLASD-----PTRSAWVSANAGSGKTHILVQ----RVLRLLL-ANAHPSTLLCLTHTKAAAAEMSHR   81 (242)
Q Consensus        13 ~~~~~~~~~~qq~~a~~-----~~~~~lV~A~aGSGKT~tL~~----rv~~ll~-~g~~P~~IL~lTFT~kAA~El~~R   81 (242)
                      ..++...++.=|+.+.+     .++=|+|.+.||.||||.+..    ++-.... -...+-+++.|.+|=+|+.||+..
T Consensus      1125 ~l~~~~~lT~Gqk~a~~li~~T~DrFv~~QGlAGvGK~T~~~sr~l~~~~~~~~~~~~~~~~~iGLAPTH~AV~El~~~ 1203 (2193)
T TIGR02760      1125 YLELLETLTHGQKQAIHLIVSTKDRFVAVQGLAGVGKTTMLESRDLEVVKAVKQAAESEQLQVIGLAPTHEAVGELKAA 1203 (2193)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCCCEEEEEECCCHHHHHHHHHCCCCCCEEEECCCCCHHHHHHHHH
T ss_conf             5445355335667886410002362689821137782676553150467888873046886575137751677888860


No 78 
>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=95.64  E-value=0.096  Score=32.02  Aligned_cols=52  Identities=17%  Similarity=0.229  Sum_probs=38.8

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHH-HHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             8887998488899679999999999-8247898895667768789999999999996
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRL-LLANAHPSTLLCLTHTKAAAAEMSHRVLEII   86 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~l-l~~g~~P~~IL~lTFT~kAA~El~~RI~~~l   86 (242)
                      +.=++|-|.||+|||+.+.+...+. +..|   ..++.+++ +....++..|+....
T Consensus        19 G~l~vi~g~pg~GKS~~~~~~a~~~a~~~g---~~Vl~~sl-Em~~~~~~~R~~a~~   71 (186)
T pfam03796        19 GDLIIIAARPSMGKTAFALNIARNAALKQD---KPVLFFSL-EMSAEQLAERLLSSE   71 (186)
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHHHHHHCC---CCEEEECC-CCCHHHHHHHHHHHH
T ss_conf             817999967999879999999999999709---96687547-552999999999986


No 79 
>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=95.63  E-value=0.015  Score=37.62  Aligned_cols=112  Identities=15%  Similarity=0.118  Sum_probs=57.5

Q ss_pred             CCCHHHHHHH-------CCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             0948999982-------768887998488899679999999999824789889566776878999999999999677521
Q 537021.9.peg.4   19 QTKSEQLLAS-------DPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITAWSH   91 (242)
Q Consensus        19 ~~~~qq~~a~-------~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~   91 (242)
                      ++=+|=++|.       +-.+....++.-|||||||+++-|+.+ .+.     =||++..+==|+-|-.-....+.+.|-
T Consensus        10 P~GDQP~AI~~L~~~l~~G~~~QtLLGvTGsGKTFT~AnVIa~~-~rP-----TLV~aHNKTLAAQLY~EfKefFPeNAV   83 (667)
T TIGR00631        10 PAGDQPKAIAKLVEGLEAGEKEQTLLGVTGSGKTFTMANVIAQV-QRP-----TLVLAHNKTLAAQLYNEFKEFFPENAV   83 (667)
T ss_pred             CCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCHHHHHHHHHHHH-CCC-----EEEECCCHHHHHHHHHHHHHHCCCCCE
T ss_conf             67881899999999985688714785321486278898999984-798-----499857776799999999863867724


Q ss_pred             CCCCCCHHH--HHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             674221464--997314799978999999999999831001321117999987
Q 537021.9.peg.4   92 LSDEILSAE--ITKIQGKKPNKSDMSKARHLLITILETPGGLKVQTIHAFCEA  142 (242)
Q Consensus        92 ~~~~~~~~~--l~~~~~~~~~~~~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~  142 (242)
                      --+.++..+  +..+....+  .-..+..    .+-++.+.+++++.+|+..|
T Consensus        84 EYFvSYYDYYQPEAYvP~~D--tyIEKda----SINdeIerlR~SAT~SLl~R  130 (667)
T TIGR00631        84 EYFVSYYDYYQPEAYVPSKD--TYIEKDA----SINDEIERLRLSATKSLLER  130 (667)
T ss_pred             EEEEECCCCCCCCCCCCCCC--CEEECCC----CHHHHHHHHHHHHHHHHCCC
T ss_conf             52552032378732147988--4130455----30046767788988864237


No 80 
>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=95.63  E-value=0.021  Score=36.71  Aligned_cols=112  Identities=17%  Similarity=0.184  Sum_probs=69.3

Q ss_pred             EEEEECCCCCHHHHHHHHHHH---HHHCCCCHHHHHHHHHHHHHHHHHHHHHHH----HHHH--HHCCCCCC-CHHH---
Q ss_conf             799848889967999999999---982478988956677687899999999999----9677--52167422-1464---
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLR---LLLANAHPSTLLCLTHTKAAAAEMSHRVLE----IITA--WSHLSDEI-LSAE---  100 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~---ll~~g~~P~~IL~lTFT~kAA~El~~RI~~----~l~~--~~~~~~~~-~~~~---  100 (242)
                      ++|.||-|.|||+.=..-..+   ++..+ .-+++...-+|+..++.|.+|+.+    .+++  ........ +.+.   
T Consensus         2 ~v~~APTG~GKTe~aL~~A~~sah~~k~~-~~~~~I~alP~r~~~na~~~r~~~sash~Fg~P~~~~~~~ssrfnh~~~~   80 (424)
T TIGR01587         2 LVIEAPTGYGKTEAALLWALKSAHLIKKQ-KADKVIFALPTRVTINAMYRRLKESASHLFGSPELVLLLHSSRFNHLASS   80 (424)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHHHHH-HHCCEEEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHH
T ss_conf             68861789987899999998636664224-44010122026888999999999867754178543233455226789999


Q ss_pred             -HHHHHCCCCCHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             -99731479997899999999999--98310013211179999875554
Q 537021.9.peg.4  101 -ITKIQGKKPNKSDMSKARHLLIT--ILETPGGLKVQTIHAFCEAIMQQ  146 (242)
Q Consensus       101 -l~~~~~~~~~~~~~~~~~~ll~~--~l~~~~~~~i~Ti~~f~~~ilr~  146 (242)
                       ..+......+.....+...++..  .---...+.|+|++..-..+.+.
T Consensus        81 ik~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~pi~~~T~d~~~~~~~~~  129 (424)
T TIGR01587        81 IKLRKIKEKGDSEELEKLVKLYIHSNKKLFLKPITVCTIDQVLKSVFGE  129 (424)
T ss_pred             HHHHHHHCCCCHHHHHHHHHHHCCCCHHEEECCCCCCCHHHHHEEEECC
T ss_conf             9987763047827999999852242121013178853412200000055


No 81 
>PRK10436 hypothetical protein; Provisional
Probab=95.62  E-value=0.017  Score=37.39  Aligned_cols=29  Identities=31%  Similarity=0.391  Sum_probs=23.7

Q ss_pred             HHCCCCCEEEEECCCCCHHHHHHHHHHHH
Q ss_conf             82768887998488899679999999999
Q 537021.9.peg.4   27 ASDPTRSAWVSANAGSGKTHILVQRVLRL   55 (242)
Q Consensus        27 a~~~~~~~lV~A~aGSGKT~tL~~rv~~l   55 (242)
                      +..|.|=+||.++.||||||||-.-+..+
T Consensus       211 ~~~p~GliLvtGPTGSGKTTTLya~L~~l  239 (461)
T PRK10436        211 LQQPQGLVLVTGPTGSGKTVTLYSALQTL  239 (461)
T ss_pred             HHCCCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             83899779997899995699999999743


No 82 
>PRK01172 ski2-like helicase; Provisional
Probab=95.62  E-value=0.036  Score=34.98  Aligned_cols=76  Identities=18%  Similarity=0.177  Sum_probs=53.3

Q ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHH---CCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             1007888889732350948999982---7688879984888996799999999998247898895667768789999999
Q 537021.9.peg.4    4 HNSFQEHSETIDLISQTKSEQLLAS---DPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSH   80 (242)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~qq~~a~---~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~   80 (242)
                      -.+|+++-+.-.+ .. -+-|..+.   .-+++++|.||-|||||.+---.+.+.+..|   .+++.+++.++=++|..+
T Consensus         9 ~~~~~~~~~~~g~-~l-~p~Q~ea~~~~~~gkNllvsaPTgsGKTlvAe~ai~~~l~~~---~k~iyi~P~kAL~~EK~~   83 (674)
T PRK01172          9 DDEFLNLFTGNDF-EL-YDHQRMAIEQLRKGENVIVSVPTAAGKTLIAYSAIYETFLAG---LKSIYIVPLRSLAMEKYE   83 (674)
T ss_pred             CHHHHHHHHHCCC-CC-CHHHHHHHHHHHCCCCEEEECCCCCCHHHHHHHHHHHHHHHC---CCEEEECCHHHHHHHHHH
T ss_conf             9799999996799-88-989999999997799599978999869999999999999858---979998778999999999


Q ss_pred             HHHH
Q ss_conf             9999
Q 537021.9.peg.4   81 RVLE   84 (242)
Q Consensus        81 RI~~   84 (242)
                      -+..
T Consensus        84 ~~~~   87 (674)
T PRK01172         84 ELSR   87 (674)
T ss_pred             HHHH
T ss_conf             9998


No 83 
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=95.59  E-value=0.22  Score=29.47  Aligned_cols=77  Identities=18%  Similarity=0.104  Sum_probs=54.4

Q ss_pred             HHHHHHHHHHCC--CHHHHHHH---CCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             888897323509--48999982---7688879984888996799999999998247898895667768789999999999
Q 537021.9.peg.4    9 EHSETIDLISQT--KSEQLLAS---DPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVL   83 (242)
Q Consensus         9 ~~~~~~~~~~~~--~~qq~~a~---~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~   83 (242)
                      +--+.++-....  -+.|+.=+   --+.+.-++||.|.||||....--+++-..|   .+.+.+-+|.-=+..-.+||.
T Consensus        70 ~~~~fF~k~~G~~~ws~QR~WakR~~rg~SFaiiAPTGvGKTTfg~~~sl~~a~kg---kr~yii~PT~~Lv~Q~~~kl~  146 (1187)
T COG1110          70 EFEEFFKKATGFRPWSAQRVWAKRLVRGKSFAIIAPTGVGKTTFGLLMSLYLAKKG---KRVYIIVPTTTLVRQVYERLK  146 (1187)
T ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEECCCCCCHHHHHHHHHHHHHHCC---CEEEEEECCHHHHHHHHHHHH
T ss_conf             99999998638986078899999987378448982788765479999999987558---749999667899999999999


Q ss_pred             HHHHH
Q ss_conf             99677
Q 537021.9.peg.4   84 EIITA   88 (242)
Q Consensus        84 ~~l~~   88 (242)
                      +....
T Consensus       147 ~~~e~  151 (1187)
T COG1110         147 KFAED  151 (1187)
T ss_pred             HHHHH
T ss_conf             98865


No 84 
>KOG0338 consensus
Probab=95.56  E-value=0.017  Score=37.29  Aligned_cols=86  Identities=23%  Similarity=0.318  Sum_probs=55.2

Q ss_pred             CCHHHHHH---------HHHHHHHCCCHHHHHHH--CCCCCEEEEECCCCCHHHHHHHHHH-HHHH--CCCCHHHHHHHH
Q ss_conf             10078888---------89732350948999982--7688879984888996799999999-9982--478988956677
Q 537021.9.peg.4    4 HNSFQEHS---------ETIDLISQTKSEQLLAS--DPTRSAWVSANAGSGKTHILVQRVL-RLLL--ANAHPSTLLCLT   69 (242)
Q Consensus         4 ~~~~~~~~---------~~~~~~~~~~~qq~~a~--~~~~~~lV~A~aGSGKT~tL~~rv~-~ll~--~g~~P~~IL~lT   69 (242)
                      +.|||+-.         +..-+..+|+=|++-|-  -.++.++--|.-|||||-.-+--++ +||.  .+++..++|+++
T Consensus       180 ~~sF~~mNLSRPlLka~~~lGy~~PTpIQ~a~IPvallgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~  259 (691)
T KOG0338         180 NESFQSMNLSRPLLKACSTLGYKKPTPIQVATIPVALLGKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLV  259 (691)
T ss_pred             HHHHHHCCCCHHHHHHHHHCCCCCCCCHHHHCCCHHHHCCHHHHEECCCCCCHHHHHHHHHHHHHCCCCCCCCEEEEEEE
T ss_conf             65488600246999988743878887403310127752222564011468711456788999985273567612699983


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             687899999999999967752167
Q 537021.9.peg.4   70 HTKAAAAEMSHRVLEIITAWSHLS   93 (242)
Q Consensus        70 FT~kAA~El~~RI~~~l~~~~~~~   93 (242)
                      +|+    |+.-.+-.....++...
T Consensus       260 PTR----ELaiQv~sV~~qlaqFt  279 (691)
T KOG0338         260 PTR----ELAIQVHSVTKQLAQFT  279 (691)
T ss_pred             CCH----HHHHHHHHHHHHHHHHC
T ss_conf             508----99999999999987660


No 85 
>KOG0350 consensus
Probab=95.54  E-value=0.015  Score=37.63  Aligned_cols=54  Identities=24%  Similarity=0.295  Sum_probs=39.6

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             88879984888996799999999998247-8988956677687899999999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLAN-AHPSTLLCLTHTKAAAAEMSHRVLE   84 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g-~~P~~IL~lTFT~kAA~El~~RI~~   84 (242)
                      .|.++|.|+-|||||-.-+-=|+.+|... ++-=+-+++-+|+.=+....+-+..
T Consensus       183 ~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~L~~QV~~~f~~  237 (620)
T KOG0350         183 PRDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRELALQVYDTFKR  237 (620)
T ss_pred             CCCEEEECCCCCCCEEEEHHHHHHHHCCCCCCCEEEEEEEEHHHHHHHHHHHHHH
T ss_conf             7754775578988456651378999703873405799995479999999999998


No 86 
>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=95.52  E-value=0.011  Score=38.74  Aligned_cols=32  Identities=34%  Similarity=0.431  Sum_probs=24.4

Q ss_pred             HHHHHCCCCCEEEEECCCCCHHHHHHHHHHHH
Q ss_conf             99982768887998488899679999999999
Q 537021.9.peg.4   24 QLLASDPTRSAWVSANAGSGKTHILVQRVLRL   55 (242)
Q Consensus        24 q~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~l   55 (242)
                      .+++.-|=|=+||=+|-||||||||=.-..+|
T Consensus       238 ~~li~rpHGIiLVTGPTGSGKtTTLYaaL~~L  269 (495)
T TIGR02533       238 ERLIKRPHGIILVTGPTGSGKTTTLYAALSRL  269 (495)
T ss_pred             HHHHHCCCCEEEECCCCCCCHHHHHHHHHHHH
T ss_conf             99971889618841778985258899999863


No 87 
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=95.51  E-value=0.012  Score=38.34  Aligned_cols=45  Identities=20%  Similarity=0.323  Sum_probs=29.5

Q ss_pred             HHCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             8276888799848889967999999999982478988956677687
Q 537021.9.peg.4   27 ASDPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTK   72 (242)
Q Consensus        27 a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~   72 (242)
                      ++....+++|.+|.||||||.+-..+..+.. .-+.++|+.+-=|.
T Consensus       145 ~V~~r~nilI~G~TgsGKTTll~all~~i~~-~~p~eRivtIED~~  189 (320)
T PRK13894        145 AVRAHRNILVIGGTGSGKTTLVNAIINEMVI-QDPTERVFIIEDTG  189 (320)
T ss_pred             HHHCCCCEEEECCCCCCHHHHHHHHHHHHCC-CCCCCCEEEECCHH
T ss_conf             9972875899858886568999999863202-69520177525878


No 88 
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.46  E-value=0.019  Score=36.98  Aligned_cols=32  Identities=28%  Similarity=0.329  Sum_probs=27.0

Q ss_pred             HHHCCCCCEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             98276888799848889967999999999982
Q 537021.9.peg.4   26 LASDPTRSAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        26 ~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      .+..|.|-+||-++-||||||||+.-|-++=.
T Consensus       120 ~~~~~~GLILVTGpTGSGKSTTlAamId~iN~  151 (353)
T COG2805         120 LAESPRGLILVTGPTGSGKSTTLAAMIDYINK  151 (353)
T ss_pred             HHHCCCCEEEEECCCCCCHHHHHHHHHHHHHC
T ss_conf             98287966998679999678799999999841


No 89 
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=95.43  E-value=0.02  Score=36.88  Aligned_cols=54  Identities=26%  Similarity=0.311  Sum_probs=33.5

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHH--CC----CCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             6888799848889967999999999982--47----898895667768789999999999
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLL--AN----AHPSTLLCLTHTKAAAAEMSHRVL   83 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~--~g----~~P~~IL~lTFT~kAA~El~~RI~   83 (242)
                      ...-++|.|.+||||||-+-........  .|    ..|.+|-+.+-.++.|.||-+.+.
T Consensus        64 ~~~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRlAArsvA~RvAeel~~~~G  123 (845)
T COG1643          64 QNQVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLAARSVAERVAEELGEKLG  123 (845)
T ss_pred             HCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCEEEECCCHHHHHHHHHHHHHHHHCCCCC
T ss_conf             697899867998875878899999600166875996584389999999999998389867


No 90 
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=95.41  E-value=0.0093  Score=39.14  Aligned_cols=43  Identities=16%  Similarity=0.216  Sum_probs=28.3

Q ss_pred             HHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             98276888799848889967999999999982478988956677687
Q 537021.9.peg.4   26 LASDPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTK   72 (242)
Q Consensus        26 ~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~   72 (242)
                      .++....+++|.+|.||||||.+-. .+..+-..   ++|+.+-=|.
T Consensus       157 ~aV~~r~NIlIsGgTGSGKTTllnA-Ll~~IP~~---eRIvtIEDt~  199 (343)
T PRK13851        157 ACVVGRLTMLLCGPTGSGKTTMSKT-LISAIPPQ---ERLITIEDTL  199 (343)
T ss_pred             HHHHCCCCEEEECCCCCCHHHHHHH-HHHCCCCC---CCEEEECCCC
T ss_conf             9997698899988898619999999-99628965---5279961150


No 91 
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=95.41  E-value=0.034  Score=35.17  Aligned_cols=70  Identities=24%  Similarity=0.298  Sum_probs=44.0

Q ss_pred             HHHHCCCHHHHHHH--CCCCCEEEEECCCCCHHHHHHHHHH-HHHHCC----CCH--HHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             32350948999982--7688879984888996799999999-998247----898--8956677687899999999999
Q 537021.9.peg.4   15 DLISQTKSEQLLAS--DPTRSAWVSANAGSGKTHILVQRVL-RLLLAN----AHP--STLLCLTHTKAAAAEMSHRVLE   84 (242)
Q Consensus        15 ~~~~~~~~qq~~a~--~~~~~~lV~A~aGSGKT~tL~~rv~-~ll~~g----~~P--~~IL~lTFT~kAA~El~~RI~~   84 (242)
                      -+..+|.=|++.+-  ..++++++.|.-|||||..-+-=++ +++...    -.+  -+.|+|++|+.=|..+.+-+.+
T Consensus        28 Gf~~PTpIQ~~aIP~iL~GkDvi~~A~TGSGKTLAYlLPiL~~Ll~~~~l~~~~~~~p~aLILvPTRELA~QI~~~~~~  106 (574)
T PRK04537         28 GFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDAVK  106 (574)
T ss_pred             CCCCCCHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHH
T ss_conf             9998999999999999579988998489888999999999999983744345778996199977989999999999999


No 92 
>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=95.41  E-value=0.022  Score=36.49  Aligned_cols=28  Identities=32%  Similarity=0.425  Sum_probs=22.4

Q ss_pred             HCCCCCEEEEECCCCCHHHHHHHHHHHH
Q ss_conf             2768887998488899679999999999
Q 537021.9.peg.4   28 SDPTRSAWVSANAGSGKTHILVQRVLRL   55 (242)
Q Consensus        28 ~~~~~~~lV~A~aGSGKT~tL~~rv~~l   55 (242)
                      ..|.|-++|.+++||||||||..-+.++
T Consensus        77 ~~~~GlilitGptGSGKtTtl~a~l~~~  104 (264)
T cd01129          77 EKPHGIILVTGPTGSGKTTTLYSALSEL  104 (264)
T ss_pred             HCCCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             0899889997899997799999999864


No 93 
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=95.40  E-value=0.021  Score=36.62  Aligned_cols=57  Identities=18%  Similarity=0.225  Sum_probs=49.2

Q ss_pred             CCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             768887998488899679999999999824789889566776878999999999999677
Q 537021.9.peg.4   29 DPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITA   88 (242)
Q Consensus        29 ~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~   88 (242)
                      .--.+.||-|..|+|||..+-.-+...+.+|   .+|...|+--.-.-|+..|+...+..
T Consensus       114 ~~k~~~lv~AV~GaGKTEMif~~i~~al~~G---~~vciASPRvDVclEl~~Rlk~aF~~  170 (441)
T COG4098         114 KQKEDTLVWAVTGAGKTEMIFQGIEQALNQG---GRVCIASPRVDVCLELYPRLKQAFSN  170 (441)
T ss_pred             HHCCCEEEEEECCCCCHHHHHHHHHHHHHCC---CEEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             7157689997427985101699999999659---86998468610117778999976214


No 94 
>KOG0731 consensus
Probab=95.40  E-value=0.25  Score=29.12  Aligned_cols=122  Identities=15%  Similarity=0.170  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             8888897323509489999827688879984888996799999999998--24789889566776878999999999999
Q 537021.9.peg.4    8 QEHSETIDLISQTKSEQLLASDPTRSAWVSANAGSGKTHILVQRVLRLL--LANAHPSTLLCLTHTKAAAAEMSHRVLEI   85 (242)
Q Consensus         8 ~~~~~~~~~~~~~~~qq~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll--~~g~~P~~IL~lTFT~kAA~El~~RI~~~   85 (242)
                      ||.++.-+.+---..=|+.-+-+.+-+|..++||||||-.     +..+  ..|||-=.+-+--|...-..-=-.|++..
T Consensus       321 ~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLL-----AKAiAGEAgVPF~svSGSEFvE~~~g~~asrvr~l  395 (774)
T KOG0731         321 EELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLL-----AKAIAGEAGVPFFSVSGSEFVEMFVGVGASRVRDL  395 (774)
T ss_pred             HHHHHHHHHHCCHHHHHHCCCCCCCCEEEECCCCCCHHHH-----HHHHHCCCCCCEEEECHHHHHHHHCCCCHHHHHHH
T ss_conf             9999999984398999874776767517878999867899-----99885305896464133788887603434888999


Q ss_pred             HHHHHCCCCCCCHH-HHHHHHCCC---CCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             67752167422146-499731479---99789999999999998310013211
Q 537021.9.peg.4   86 ITAWSHLSDEILSA-EITKIQGKK---PNKSDMSKARHLLITILETPGGLKVQ  134 (242)
Q Consensus        86 l~~~~~~~~~~~~~-~l~~~~~~~---~~~~~~~~~~~ll~~~l~~~~~~~i~  134 (242)
                      +...-...+.-.+. .+.......   ....-..+...-++.++-..|++...
T Consensus       396 f~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~  448 (774)
T KOG0731         396 FPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETS  448 (774)
T ss_pred             HHHHHCCCCEEEEECCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCC
T ss_conf             98743269807971454200312556666788807888999887875277677


No 95 
>PRK09401 reverse gyrase; Reviewed
Probab=95.40  E-value=0.26  Score=29.02  Aligned_cols=63  Identities=17%  Similarity=0.066  Sum_probs=48.7

Q ss_pred             HHHHHHH---CCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             8999982---76888799848889967999999999982478988956677687899999999999967
Q 537021.9.peg.4   22 SEQLLAS---DPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        22 ~qq~~a~---~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~   87 (242)
                      +.|+.=+   --+.+.-++||.|.||||-..---+++-.+|   .+.+.+-+|+-=+....+|+.....
T Consensus        81 ~~Qr~WakR~~~g~SFaiiAPTG~GKTtfgl~~sly~a~kg---kks~~i~PT~~Lv~Q~~~kl~~~~~  146 (1176)
T PRK09401         81 SLQRTWAKRLLLGESFAIIAPTGVGKTTFGLVMALYLAKKG---KKSYIIFPTRLLVEQVVEKLRKLAE  146 (1176)
T ss_pred             HHHHHHHHHHHCCCCEEEECCCCCCHHHHHHHHHHHHHHCC---CEEEEEECCHHHHHHHHHHHHHHHH
T ss_conf             88999999986689748988899888899999999998659---8399996888999999999999999


No 96 
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=95.38  E-value=0.027  Score=35.93  Aligned_cols=62  Identities=18%  Similarity=0.138  Sum_probs=49.4

Q ss_pred             HHHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99827688879984888996799999999998247898895667768789999999999996775
Q 537021.9.peg.4   25 LLASDPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITAW   89 (242)
Q Consensus        25 ~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~   89 (242)
                      ..+.+.+.+|+|.|+-|||||.+--.-+...+.+|   .++...|+.++=.+..-.++...+++.
T Consensus       128 ~~~Ler~esVlV~ApTssGKTvVaeyAi~~al~~~---qrviYTsPIKALsNQKyrdl~~~fgdv  189 (1041)
T COG4581         128 IAILERGESVLVCAPTSSGKTVVAEYAIALALRDG---QRVIYTSPIKALSNQKYRDLLAKFGDV  189 (1041)
T ss_pred             HHHHHCCCCEEEECCCCCCCCHHHHHHHHHHHHCC---CCEEECCCHHHHHHHHHHHHHHHHHHH
T ss_conf             99984799579973378985559999999998718---944861630664206799999986005


No 97 
>PRK13768 GTPase; Provisional
Probab=95.38  E-value=0.019  Score=36.98  Aligned_cols=27  Identities=26%  Similarity=0.187  Sum_probs=21.0

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             879984888996799999999998247
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      -++|.++|||||||-......++-..|
T Consensus         4 ~~~ViGpaGSGKsT~~~~l~~~l~~~~   30 (253)
T PRK13768          4 IVFFLGTAGSGKTTLVGALSDWLEEQG   30 (253)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf             899989999988999999999999769


No 98 
>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=95.37  E-value=0.012  Score=38.42  Aligned_cols=51  Identities=16%  Similarity=0.220  Sum_probs=35.3

Q ss_pred             CCCC-EEEEECCCCCHHHHHHHHHHH-HHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             6888-799848889967999999999-982478988956677687899999999999
Q 537021.9.peg.4   30 PTRS-AWVSANAGSGKTHILVQRVLR-LLLANAHPSTLLCLTHTKAAAAEMSHRVLE   84 (242)
Q Consensus        30 ~~~~-~lV~A~aGSGKT~tL~~rv~~-ll~~g~~P~~IL~lTFT~kAA~El~~RI~~   84 (242)
                      |.|+ +||.++||||||.-..+-+.. ++..|   ++++.+||... .+++..+...
T Consensus        17 ~~gs~~LI~G~pGsGKT~la~qfl~~ga~~~g---e~~lYis~ee~-~~~l~~~~~~   69 (231)
T pfam06745        17 PEGRVVLITGGPGTGKTIFGLQFLYNGALEYG---EPGVYVTLEEP-PEDLRENAKS   69 (231)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHHCC---CCEEEEEECCC-HHHHHHHHHH
T ss_conf             29969999858972599999999999998658---96899981379-9999999998


No 99 
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=95.36  E-value=0.031  Score=35.44  Aligned_cols=69  Identities=14%  Similarity=0.094  Sum_probs=42.4

Q ss_pred             HHHHHHHCCCHH--HHHHHCCCCC--EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             897323509489--9998276888--79984888996799999999998247898895667768789999999
Q 537021.9.peg.4   12 ETIDLISQTKSE--QLLASDPTRS--AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSH   80 (242)
Q Consensus        12 ~~~~~~~~~~~q--q~~a~~~~~~--~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~   80 (242)
                      ++++++++....  -..+....+|  +|+.+.=|+||||||.....++..+|.+.==..+=||--.|...|+.
T Consensus       116 ~l~~il~~~~~~~~~~~~~~~~~p~Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~  188 (340)
T COG0552         116 ALIEILRPVDKVDLPLEIPKEKKPFVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEV  188 (340)
T ss_pred             HHHHHHCCCCCCCCHHHHCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHH
T ss_conf             9999846554444365523589867999993488863717999999999789869998233478999999999


No 100
>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=95.35  E-value=0.019  Score=36.90  Aligned_cols=31  Identities=32%  Similarity=0.475  Sum_probs=22.4

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHHCCCCHH
Q ss_conf             88799848889967999999999982478988
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLLLANAHPS   63 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~   63 (242)
                      +.++|.+.||+||||.+-. ++....+|..+.
T Consensus         1 r~i~i~G~aG~GKTtll~k-l~~~wa~g~~~~   31 (165)
T pfam05729         1 RTVILQGEAGSGKTTLLQK-LALLWAQGKLPQ   31 (165)
T ss_pred             CEEEEECCCCCCHHHHHHH-HHHHHHCCCCCC
T ss_conf             9899982798989999999-999998698436


No 101
>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=95.35  E-value=0.023  Score=36.43  Aligned_cols=29  Identities=14%  Similarity=0.228  Sum_probs=24.6

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             88879984888996799999999998247
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      .++++|.|++|||||+++-.-+...+.+|
T Consensus        42 ~~H~lv~G~tGsGKT~~i~~li~~~~~rg   70 (410)
T cd01127          42 EAHTMIIGTTGTGKTTQIRELLASIRARG   70 (410)
T ss_pred             HCCEEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf             27479988999988999999999999869


No 102
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=95.34  E-value=0.057  Score=33.61  Aligned_cols=49  Identities=20%  Similarity=0.240  Sum_probs=36.0

Q ss_pred             CCCCEEEEECCCCCHHH-HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             68887998488899679-99999999982478988956677687899999999
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTH-ILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHR   81 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~-tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~R   81 (242)
                      -+++++|+||.|||||. .|+--+.+...+|   ..|++-|-|+.=-+.+-++
T Consensus       276 ~~~~l~iEApTGtGKTlaYLlPai~~A~~~~---~~vvIST~T~~LQ~QL~~k  325 (932)
T PRK08074        276 DSRHALIEAGTGTGKTLAYLLPAAYFAKKKE---EPVIISTYTVQLQQQLLEK  325 (932)
T ss_pred             CCCCEEEECCCCCCCHHHHHHHHHHHHHHCC---CCEEEEECCHHHHHHHHHH
T ss_conf             3884799868888713687999999999759---9099991628899999986


No 103
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=95.34  E-value=0.012  Score=38.34  Aligned_cols=52  Identities=12%  Similarity=0.094  Sum_probs=34.0

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             79984888996799999999998247898895667768789999999999996
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEII   86 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l   86 (242)
                      ++..++.|+|||||++....++..+|-++.=|-+=||=-.|...++ ...+.+
T Consensus        78 I~lvG~~G~GKTTT~AKLA~~~~~~~~kV~lia~DtyR~aA~eQLk-~~a~~l  129 (270)
T PRK06731         78 IALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQ-DYVKTI  129 (270)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEECCCCHHHHHHHH-HHHHHH
T ss_conf             9998889898899999999999867990899983888888999999-999981


No 104
>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=95.33  E-value=0.02  Score=36.87  Aligned_cols=27  Identities=26%  Similarity=0.385  Sum_probs=21.6

Q ss_pred             HCCCCCEEEEECCCCCHHHHHHHHHHH
Q ss_conf             276888799848889967999999999
Q 537021.9.peg.4   28 SDPTRSAWVSANAGSGKTHILVQRVLR   54 (242)
Q Consensus        28 ~~~~~~~lV~A~aGSGKT~tL~~rv~~   54 (242)
                      +...++++|.+++||||||+|-..+.+
T Consensus        22 v~~~~nIlIsG~tGSGKTTll~al~~~   48 (186)
T cd01130          22 VEARKNILISGGTGSGKTTLLNALLAF   48 (186)
T ss_pred             HHCCCCEEEECCCCCCHHHHHHHHHHH
T ss_conf             985998999899999899999999961


No 105
>KOG0952 consensus
Probab=95.29  E-value=0.027  Score=35.87  Aligned_cols=61  Identities=23%  Similarity=0.302  Sum_probs=51.7

Q ss_pred             HCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCC-------CHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             276888799848889967999999999982478-------9889566776878999999999999677
Q 537021.9.peg.4   28 SDPTRSAWVSANAGSGKTHILVQRVLRLLLANA-------HPSTLLCLTHTKAAAAEMSHRVLEIITA   88 (242)
Q Consensus        28 ~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~-------~P~~IL~lTFT~kAA~El~~RI~~~l~~   88 (242)
                      =..+.+.||.||-|||||-+--.-|++++.++.       +--+|+.+.++++=|.||.+...++|..
T Consensus       123 Y~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~kkl~~  190 (1230)
T KOG0952         123 YKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSKKLAP  190 (1230)
T ss_pred             HCCCCCEEEECCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEECHHHHHHHHHHHHHHHCCC
T ss_conf             14788779977789971678999999999850145543468713999925688999999998664242


No 106
>PRK10536 hypothetical protein; Provisional
Probab=95.29  E-value=0.027  Score=35.87  Aligned_cols=52  Identities=17%  Similarity=0.253  Sum_probs=35.6

Q ss_pred             CCCHHHHHHHC---CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf             09489999827---688879984888996799999999998247898895667768
Q 537021.9.peg.4   19 QTKSEQLLASD---PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHT   71 (242)
Q Consensus        19 ~~~~qq~~a~~---~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT   71 (242)
                      +-|+.|+...+   .+.-+++.++||||||+.-+...+.++.++ ..++|++.-.+
T Consensus        59 pkt~~Q~~yi~~i~~~~ivf~~GpAGTGKT~lA~a~Al~~l~~~-~~~kIIltRP~  113 (262)
T PRK10536         59 ARNEAQLHYLKAIESKQLIFATGEAGCGKTWISAAKAAEALIHK-DVDRIIVTRPV  113 (262)
T ss_pred             CCCHHHHHHHHHHHHCCEEEEECCCCCCHHHHHHHHHHHHHHHC-CCCEEEEECCC
T ss_conf             89864999999986198399989998758999999999999858-88689996678


No 107
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=95.28  E-value=0.031  Score=35.45  Aligned_cols=72  Identities=18%  Similarity=0.195  Sum_probs=46.9

Q ss_pred             HHHCCCHHHHHHH--CCCCCEEEEECCCCCHHHHHHHHHHHHHHC-CCCHHH-HHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             2350948999982--768887998488899679999999999824-789889-56677687899999999999967
Q 537021.9.peg.4   16 LISQTKSEQLLAS--DPTRSAWVSANAGSGKTHILVQRVLRLLLA-NAHPST-LLCLTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        16 ~~~~~~~qq~~a~--~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~-g~~P~~-IL~lTFT~kAA~El~~RI~~~l~   87 (242)
                      +..+|.=|++.+-  ..++.+++.|.-|||||-.-.-=++..+.. ...+.. .|++++|+.-|..+.+-+.....
T Consensus        49 f~~pt~IQ~~~iP~~l~g~Dvi~~A~TGsGKT~Af~lP~l~~i~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~~~  124 (513)
T COG0513          49 FEEPTPIQLAAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKLGK  124 (513)
T ss_pred             CCCCCHHHHHHCHHHHCCCCEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCCCEEEECCCHHHHHHHHHHHHHHHH
T ss_conf             8998989996587763699979986898717899999999997400455777569977999999999999999986


No 108
>PRK07952 DNA replication protein DnaC; Validated
Probab=95.26  E-value=0.012  Score=38.36  Aligned_cols=48  Identities=23%  Similarity=0.340  Sum_probs=37.1

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             88879984888996799999999998247898895667768789999999999996
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEII   86 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l   86 (242)
                      .++++..++||||||+.-+...-.|+.+|.   .++.+|..     ++-++|....
T Consensus        96 ~~gLlF~G~~GTGKThLA~aIan~Li~~G~---sVlf~t~~-----dLl~~lr~t~  143 (242)
T PRK07952         96 IASFIFSGKPGTGKNHLAAAICNELLLRGK---SVLIITVA-----DIMSAMKDTF  143 (242)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHCCC---EEEEEEHH-----HHHHHHHHHH
T ss_conf             871799789999789999999999998799---49997799-----9999999998


No 109
>PRK13342 recombination factor protein RarA; Reviewed
Probab=95.25  E-value=0.28  Score=28.70  Aligned_cols=50  Identities=16%  Similarity=0.192  Sum_probs=28.5

Q ss_pred             CCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             76888799848889967999999999982478988956677687899999999999
Q 537021.9.peg.4   29 DPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLE   84 (242)
Q Consensus        29 ~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~   84 (242)
                      +--.+++.-++|||||||. +..++.-+..  .   ..-+.=|..-..++++-|.+
T Consensus        35 ~~~~s~Il~GPPG~GKTTl-A~iiA~~~~~--~---f~~lnA~~~gv~dir~ii~~   84 (417)
T PRK13342         35 GRLSSMILWGPPGTGKTTL-ARIIAGATDA--E---FEALSAVTSGVKDLREVIEE   84 (417)
T ss_pred             CCCCEEEEECCCCCCHHHH-HHHHHHHHCC--C---EEEEECCCCCHHHHHHHHHH
T ss_conf             9997599889699989999-9999998689--8---89961410388999999999


No 110
>CHL00176 ftsH cell division protein; Validated
Probab=95.16  E-value=0.036  Score=35.04  Aligned_cols=75  Identities=11%  Similarity=0.115  Sum_probs=45.3

Q ss_pred             HHHHHHCCCHHH---HHHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             973235094899---99827688879984888996799999999998247898895667768789999999999996775
Q 537021.9.peg.4   13 TIDLISQTKSEQ---LLASDPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITAW   89 (242)
Q Consensus        13 ~~~~~~~~~~qq---~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~   89 (242)
                      +-|+++-+..-+   +.-+-+.+-+|..+|||||||-. +.-++.  ..|+|-=.|-.-.|...-+..=..|++..+...
T Consensus       189 l~EivdfLk~P~k~~~~Gak~PkGvLL~GpPGTGKTlL-AkAvAg--Ea~vpF~~~sgs~F~e~~vGvga~rVR~LF~~A  265 (631)
T CHL00176        189 LEEVVTFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLL-AKAIAG--EAEVPFFSISGSEFVEMFVGVGAARVRDLFKKA  265 (631)
T ss_pred             HHHHHHHHCCHHHHHHCCCCCCCEEEEECCCCCCHHHH-HHHHHC--CCCCCEEEEEHHHHHHHHCCHHHHHHHHHHHHH
T ss_conf             99999983595887644996896589889899878899-999856--558846998837855642155589999999999


Q ss_pred             H
Q ss_conf             2
Q 537021.9.peg.4   90 S   90 (242)
Q Consensus        90 ~   90 (242)
                      .
T Consensus       266 r  266 (631)
T CHL00176        266 K  266 (631)
T ss_pred             H
T ss_conf             8


No 111
>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=95.07  E-value=0.021  Score=36.73  Aligned_cols=29  Identities=21%  Similarity=0.153  Sum_probs=21.7

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             88879984888996799999999998247
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      ...+++.++||||||+.+......+...+
T Consensus         2 ~~~ill~G~~GsGKTtl~~~la~~~~~~~   30 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPG   30 (148)
T ss_pred             CCEEEEECCCCHHHHHHHHHHHHHHCCCC
T ss_conf             97899999997029999999998726689


No 112
>pfam00308 Bac_DnaA Bacterial dnaA protein.
Probab=95.05  E-value=0.051  Score=33.97  Aligned_cols=45  Identities=27%  Similarity=0.361  Sum_probs=27.0

Q ss_pred             HHHHHCCC---CCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             99982768---88799848889967999999999982478988956677
Q 537021.9.peg.4   24 QLLASDPT---RSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLT   69 (242)
Q Consensus        24 q~~a~~~~---~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lT   69 (242)
                      ++++..|+   .|++|.+++|||||+.|-. +++-..++.+-.++..++
T Consensus        24 ~~i~~~~~~~~npl~i~G~~G~GKTHLLqA-~~~~~~~~~~~~~v~yl~   71 (219)
T pfam00308        24 LAVAEAPGKAYNPLFIYGGVGLGKTHLLHA-IGNYALRNFPNLRVVYLT   71 (219)
T ss_pred             HHHHHCCCCCCCCEEEECCCCCCHHHHHHH-HHHHHHHHCCCCEEEEEE
T ss_conf             999967587678269988999988899999-999999849998288843


No 113
>PRK06526 transposase; Provisional
Probab=95.04  E-value=0.036  Score=35.05  Aligned_cols=39  Identities=23%  Similarity=0.266  Sum_probs=30.4

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf             688879984888996799999999998247898895667768
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHT   71 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT   71 (242)
                      -..++++.++||||||+..+..-...+.+|-   +++.+|.+
T Consensus        97 ~~~Nvil~G~~GtGKThLA~Alg~~A~~~G~---~v~f~~~~  135 (254)
T PRK06526         97 GKENVVFLGPPGTGKTHLAIGLGIRACQAGH---RVLFATAA  135 (254)
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHHCCC---CEEEEEHH
T ss_conf             5887899899998689999999999998699---67998779


No 114
>PRK04841 transcriptional regulator MalT; Provisional
Probab=95.03  E-value=0.013  Score=38.05  Aligned_cols=25  Identities=28%  Similarity=0.287  Sum_probs=19.0

Q ss_pred             HCCCCC-EEEEECCCCCHHHHHHHHH
Q ss_conf             276888-7998488899679999999
Q 537021.9.peg.4   28 SDPTRS-AWVSANAGSGKTHILVQRV   52 (242)
Q Consensus        28 ~~~~~~-~lV~A~aGSGKT~tL~~rv   52 (242)
                      ....++ ++|.||||.||||.++.-.
T Consensus        28 ~~~~~~l~lv~APaG~GKTtl~a~w~   53 (903)
T PRK04841         28 GANNYRLVLVRSPAGYGKTTLASQWA   53 (903)
T ss_pred             HHCCCCEEEEECCCCCCHHHHHHHHH
T ss_conf             51589979997799988999999998


No 115
>KOG0330 consensus
Probab=95.00  E-value=0.038  Score=34.85  Aligned_cols=65  Identities=26%  Similarity=0.239  Sum_probs=44.7

Q ss_pred             HCCCHHHHHH--HCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             5094899998--2768887998488899679999999999824789889566776878999999999
Q 537021.9.peg.4   18 SQTKSEQLLA--SDPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRV   82 (242)
Q Consensus        18 ~~~~~qq~~a--~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI   82 (242)
                      .+|.=|+.++  +.-++.++..|--|||||-+-+-=|+..|.+.-.+=..|++|+||.=|..+.+-.
T Consensus        83 ~PT~IQ~~aiP~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA~QI~e~f  149 (476)
T KOG0330          83 KPTKIQSEAIPVALGGRDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRELAQQIAEQF  149 (476)
T ss_pred             CCCHHHHHHCCHHHCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCCEEEEECCCHHHHHHHHHHH
T ss_conf             8744445206554379857999435888402317999999971987744899648289999999999


No 116
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=94.99  E-value=0.017  Score=37.34  Aligned_cols=43  Identities=14%  Similarity=0.203  Sum_probs=33.4

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
Q ss_conf             6888799848889967999999999982478988956677687899
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAA   75 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA   75 (242)
                      +++.++|.++||||||.-..+-+...+.+|   +.++.+|+.....
T Consensus        22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~~~g---e~vlyvs~~e~~~   64 (260)
T COG0467          22 RGSVVLITGPPGTGKTIFALQFLYEGAREG---EPVLYVSTEESPE   64 (260)
T ss_pred             CCCEEEEEECCCCCHHHHHHHHHHHHHHCC---CEEEEEEEECCHH
T ss_conf             997899993899868999999999776269---8589999206989


No 117
>KOG0733 consensus
Probab=94.98  E-value=0.11  Score=31.66  Aligned_cols=79  Identities=23%  Similarity=0.284  Sum_probs=51.8

Q ss_pred             HHHHHHHHHHHHCCCHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHC------------CCC-------------
Q ss_conf             7888889732350948999982768887998488899679999999999824------------789-------------
Q 537021.9.peg.4    7 FQEHSETIDLISQTKSEQLLASDPTRSAWVSANAGSGKTHILVQRVLRLLLA------------NAH-------------   61 (242)
Q Consensus         7 ~~~~~~~~~~~~~~~~qq~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~------------g~~-------------   61 (242)
                      +-|-..++..+..-..=+..-+.|.+.||+.++||+|||. |++-++.-+.-            |+.             
T Consensus       199 ~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~-lA~AiAgel~vPf~~isApeivSGvSGESEkkiRelF~~  277 (802)
T KOG0733         199 LAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTS-LANAIAGELGVPFLSISAPEIVSGVSGESEKKIRELFDQ  277 (802)
T ss_pred             HHHHHHHHHHHCCCHHHHHCCCCCCCCEEEECCCCCCHHH-HHHHHHHHCCCCEEEECCHHHHCCCCCCCHHHHHHHHHH
T ss_conf             9999999988528116866287799751644899864789-999975212885485141465315575228999999998


Q ss_pred             ----------HHHHHHHHHHHH-HHHHHHHHHHHHH
Q ss_conf             ----------889566776878-9999999999996
Q 537021.9.peg.4   62 ----------PSTLLCLTHTKA-AAAEMSHRVLEII   86 (242)
Q Consensus        62 ----------P~~IL~lTFT~k-AA~El~~RI~~~l   86 (242)
                                -++|=++|..|+ |-.||..||-..|
T Consensus       278 A~~~aPcivFiDeIDAI~pkRe~aqreMErRiVaQL  313 (802)
T KOG0733         278 AKSNAPCIVFIDEIDAITPKREEAQREMERRIVAQL  313 (802)
T ss_pred             HHCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHH
T ss_conf             736697599851100136440457889999999999


No 118
>TIGR00368 TIGR00368 Mg chelatase homolog; InterPro: IPR004482   This family of bacterial proteins are variously described as 'hypothetical protein yifB', 'competence protein', 'hypothetical protein' or 'Mg chelatase-related protein'. These proteins are a subset of the magnesium chelatase, ChlI subunit family and either belong to or show significant homology to the non-peptidase homologs of the MEROPS peptidase family S16 (lon protease family, clan SF), IPR001984 from INTERPRO. .
Probab=94.91  E-value=0.014  Score=37.87  Aligned_cols=48  Identities=21%  Similarity=0.263  Sum_probs=28.5

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHH---HCCCC--HHHHHHHHHHHHHHHHHH
Q ss_conf             88879984888996799999999998---24789--889566776878999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLL---LANAH--PSTLLCLTHTKAAAAEMS   79 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll---~~g~~--P~~IL~lTFT~kAA~El~   79 (242)
                      +.+++.++|||||||- ++.|+.-+|   .+...  ..+|+-|.=...--..++
T Consensus       213 GHNlll~GPPGsGKTm-la~r~~giLP~L~~~EalE~~~v~S~~~~l~~~~~~~  265 (505)
T TIGR00368       213 GHNLLLLGPPGSGKTM-LASRLQGILPPLTNEEALETARVLSLVGKLIDRKQWK  265 (505)
T ss_pred             CCCEEEECCCCCCHHH-HHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCHH
T ss_conf             5643767824962689-9987510578645126666788888887576523011


No 119
>pfam09848 DUF2075 Uncharacterized conserved protein (DUF2075). This domain, found in various prokaryotic proteins (including putative ATP/GTP binding proteins), has no known function.
Probab=94.90  E-value=0.034  Score=35.19  Aligned_cols=50  Identities=22%  Similarity=0.198  Sum_probs=30.3

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHH--CC-----CCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             799848889967999999999982--47-----898895667768789999999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLL--AN-----AHPSTLLCLTHTKAAAAEMSHRVL   83 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~--~g-----~~P~~IL~lTFT~kAA~El~~RI~   83 (242)
                      ++|.++||||||-+.++.+..+..  .+     +.++.=++.++.++-+..+..+..
T Consensus         4 ~~V~G~pGtGKTvv~l~l~~~l~~~~~~~~~~~l~~N~~~~~~l~~~l~~~~~~~~~   60 (348)
T pfam09848         4 FLVTGGPGTGKTVVALNLFAELSDSDLGRTAVFLSGNHPLVLVLYEALAGDLKVRKK   60 (348)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCCCEEEEECCHHHHHHHHHHHHHHCCHHHC
T ss_conf             999777993899999999999864402682089957866999999998604120010


No 120
>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=94.88  E-value=0.21  Score=29.69  Aligned_cols=53  Identities=13%  Similarity=0.174  Sum_probs=38.3

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHH-HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             88879984888996799999999998-2478988956677687899999999999967
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLL-LANAHPSTLLCLTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll-~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~   87 (242)
                      +.-.+|-|+||.|||+.+.+-..++. .+|.   .++.+|+ .....++..|+.....
T Consensus        13 G~L~vi~a~~g~GKS~~~~~la~~~a~~~g~---~V~~~Sl-Em~~~~~~~R~~s~~~   66 (242)
T cd00984          13 GDLIIIAARPSMGKTAFALNIAENIAKKQGK---PVLFFSL-EMSKEQLLQRLLASES   66 (242)
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHHHHHHCCC---CEEEEEC-CCCHHHHHHHHHHHHH
T ss_conf             8189999689999999999999999997799---5999933-3538899999999982


No 121
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=94.84  E-value=0.02  Score=36.87  Aligned_cols=48  Identities=21%  Similarity=0.272  Sum_probs=34.7

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             68887998488899679999999999824789889566776878999999999999
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEI   85 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~   85 (242)
                      -..+++..++||+|||+.++..--.++..|+   +++.+|.+     |+..+|...
T Consensus       104 ~~~nl~l~G~~G~GKthLa~Ai~~~l~~~g~---sv~f~~~~-----el~~~Lk~~  151 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELLKAGI---SVLFITAP-----DLLSKLKAA  151 (254)
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHHCCC---EEEEEEHH-----HHHHHHHHH
T ss_conf             5882899899998799999999999998398---49998859-----999999998


No 122
>KOG0328 consensus
Probab=94.84  E-value=0.0021  Score=43.74  Aligned_cols=67  Identities=22%  Similarity=0.268  Sum_probs=50.3

Q ss_pred             HHCCCHHHHHHHC--CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             3509489999827--688879984888996799999999998247898895667768789999999999
Q 537021.9.peg.4   17 ISQTKSEQLLASD--PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVL   83 (242)
Q Consensus        17 ~~~~~~qq~~a~~--~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~   83 (242)
                      ..++.=||+++..  -++.|++.|--|||||.+.+--++..+.-++.--+.|++++|+.-|..+.+-|.
T Consensus        48 ekPS~IQqrAi~~IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi~~vi~  116 (400)
T KOG0328          48 EKPSAIQQRAIPQILKGRDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQIQKVIL  116 (400)
T ss_pred             CCCHHHHHHHHHHHHCCCCEEEEECCCCCCEEEEEEEEEEECCCCCCEEEEEEECCHHHHHHHHHHHHH
T ss_conf             781677761024563366147870478884478986631403434200357895470899999999999


No 123
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=94.82  E-value=0.081  Score=32.53  Aligned_cols=69  Identities=30%  Similarity=0.331  Sum_probs=52.5

Q ss_pred             CCHHHHHHH---CCCCCEEEEECCCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             948999982---76888799848889967999999999982-478988956677687899999999999967752
Q 537021.9.peg.4   20 TKSEQLLAS---DPTRSAWVSANAGSGKTHILVQRVLRLLL-ANAHPSTLLCLTHTKAAAAEMSHRVLEIITAWS   90 (242)
Q Consensus        20 ~~~qq~~a~---~~~~~~lV~A~aGSGKT~tL~~rv~~ll~-~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~   90 (242)
                      +=..|..|.   ..+++++|..|.|||||-.---=|...+. ....  +-|++-+||+=|+.=.+|+.+......
T Consensus        71 lY~HQ~~A~~~~~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~a--~AL~lYPtnALa~DQ~~rl~~~~~~~~  143 (851)
T COG1205          71 LYSHQVDALRLIREGRNVVVTTGTGSGKTESFLLPILDHLLRDPSA--RALLLYPTNALANDQAERLRELISDLP  143 (851)
T ss_pred             CCHHHHHHHHHHHCCCCEEEECCCCCCHHHHHHHHHHHHHHCCCCC--EEEEEECHHHHHHHHHHHHHHHHHHCC
T ss_conf             0077999999997799889978998854589899999998308665--089980437767669999999998478


No 124
>PRK12377 putative replication protein; Provisional
Probab=94.81  E-value=0.037  Score=34.96  Aligned_cols=48  Identities=23%  Similarity=0.304  Sum_probs=35.2

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             68887998488899679999999999824789889566776878999999999999
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEI   85 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~   85 (242)
                      -.++++..++||||||+.-+..-..++.+|.   +++.+|-     .++..++...
T Consensus       100 ~~~NlIf~G~pGtGKTHLA~AIg~~a~~~G~---sVlF~t~-----~dLv~~L~~a  147 (248)
T PRK12377        100 GCTNFVFSGKPGTGKNHLAAAIGNRLLAKGR---SVIVVTV-----PDVMSRLHES  147 (248)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHCCC---EEEEEEH-----HHHHHHHHHH
T ss_conf             8860899899998788999999999998799---6999889-----9999999999


No 125
>PRK08181 transposase; Validated
Probab=94.80  E-value=0.04  Score=34.68  Aligned_cols=38  Identities=21%  Similarity=0.227  Sum_probs=29.7

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf             88879984888996799999999998247898895667768
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHT   71 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT   71 (242)
                      ..+|++.++||||||+.-+..-...+.+|.   +++.+|.+
T Consensus       106 ~~Nvil~Gp~GtGKThLA~Alg~~A~~~G~---~V~f~~~~  143 (269)
T PRK08181        106 GANLLLFGPPGGGKSHLAAAIGLALIENGW---RVLFTRTT  143 (269)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHCCC---EEEEEEHH
T ss_conf             870899899998788999999999998799---39997899


No 126
>CHL00181 cbbX CbbX; Provisional
Probab=94.80  E-value=0.37  Score=27.87  Aligned_cols=28  Identities=18%  Similarity=0.286  Sum_probs=19.3

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHH-CCC
Q ss_conf             88799848889967999999999982-478
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLLL-ANA   60 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll~-~g~   60 (242)
                      .+.+-.++|||||||+- ..++.++. -|+
T Consensus        60 ~h~vF~GnPGTGKTTVA-Rl~a~il~~lG~   88 (287)
T CHL00181         60 LHMSFTGSPGTGKTTVA-LKMADILYRLGY   88 (287)
T ss_pred             CEEEEECCCCCCHHHHH-HHHHHHHHHCCC
T ss_conf             53888789986799999-999999998699


No 127
>PRK13766 Hef nuclease; Provisional
Probab=94.79  E-value=0.038  Score=34.87  Aligned_cols=63  Identities=24%  Similarity=0.245  Sum_probs=46.2

Q ss_pred             HHHHHHC-CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999827-6888799848889967999999999982478988956677687899999999999967
Q 537021.9.peg.4   23 EQLLASD-PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        23 qq~~a~~-~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~   87 (242)
                      |+.++.. -.++.+|..|-|+|||+.-+..+.+.+..  +|.+|+.+..|+-=+..=.+.+.+.++
T Consensus        20 Q~el~~~Al~~NtiVvLPTG~GKT~IA~lvi~~~l~~--~~gKilFLaPT~pLV~Qq~~~~~~~l~   83 (764)
T PRK13766         20 QQLLAAKALKGNTLVVLPTGLGKTAIALLVIAERLQK--YGGKVLILAPTKPLVEQHAEFFRKFLN   83 (764)
T ss_pred             HHHHHHHHHHCCEEEEECCCCCHHHHHHHHHHHHHHH--CCCEEEEECCCHHHHHHHHHHHHHHCC
T ss_conf             9999999985898999599866899999999999974--898899985888899999999999709


No 128
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=94.78  E-value=0.016  Score=37.46  Aligned_cols=42  Identities=19%  Similarity=0.332  Sum_probs=30.3

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             6888799848889967999999999982478988956677687
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTK   72 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~   72 (242)
                      +-..|+..++||||||+. +.|+++.|..+..++++..+.|-.
T Consensus       193 tKknvIL~G~pGtGKT~l-Ak~lA~~l~g~~~~~rv~~Vqfhp  234 (459)
T PRK11331        193 IKKNIILQGPPGVGKTFV-ARRLAYLLTGEKAPQRVNMVQFHQ  234 (459)
T ss_pred             CCCCEEEECCCCCCHHHH-HHHHHHHHHCCCCCCCEEEEEECC
T ss_conf             588279658999887899-999999970788778468998358


No 129
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=94.77  E-value=0.032  Score=35.41  Aligned_cols=29  Identities=34%  Similarity=0.501  Sum_probs=22.9

Q ss_pred             HHCCC-CCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             82768-8879984888996799999999998
Q 537021.9.peg.4   27 ASDPT-RSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        27 a~~~~-~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      |++|+ |+||+.++||||||+ |+.++..+|
T Consensus        24 av~p~~ggvLi~G~~GtgKSt-laR~l~~iL   53 (334)
T PRK13407         24 AIDPGIGGVLVFGDRGTGKST-AVRALAALL   53 (334)
T ss_pred             HCCCCCCEEEEECCCCCCHHH-HHHHHHHHC
T ss_conf             727898608997899865999-999999728


No 130
>PRK00254 ski2-like helicase; Provisional
Probab=94.76  E-value=0.075  Score=32.78  Aligned_cols=65  Identities=23%  Similarity=0.187  Sum_probs=46.5

Q ss_pred             HHCCCHHHHHHHC----CCCCEEEEECCCCCHHHHHHHHHHH-HHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             3509489999827----6888799848889967999999999-982478988956677687899999999999
Q 537021.9.peg.4   17 ISQTKSEQLLASD----PTRSAWVSANAGSGKTHILVQRVLR-LLLANAHPSTLLCLTHTKAAAAEMSHRVLE   84 (242)
Q Consensus        17 ~~~~~~qq~~a~~----~~~~~lV~A~aGSGKT~tL~~rv~~-ll~~g~~P~~IL~lTFT~kAA~El~~RI~~   84 (242)
                      +..+.+-|..+..    -+++++|.||-|||||.+---.+++ ++.+|   .+++.++++++=++|--..+.+
T Consensus        21 I~~l~p~Q~e~l~~g~~~g~NllvsaPT~sGKTlvAElail~~~l~~~---~k~iyi~P~kALa~EK~~~f~~   90 (717)
T PRK00254         21 IEELYPPQAEALTSGVLEGKNLLIAIPTASGKTLIAEIAMVNKLLREG---GKAVYLVPLKALAEEKFREFKD   90 (717)
T ss_pred             CCCCCHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHHHCC---CEEEEECCHHHHHHHHHHHHHH
T ss_conf             872689999998742336981899899887489999999999998529---9299992679999999999987


No 131
>TIGR01241 FtsH_fam ATP-dependent metallopeptidase HflB; InterPro: IPR005936   Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site . The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases .   Peptidases are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry. Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins.   Families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule.    This group of metallopeptidases belong to MEROPS peptidase family M41 (FtsH endopeptidase family, clan MA(E)). The predicted active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH.    FtsH is a membrane-anchored ATP-dependent protease that degrades misfolded or misassembled membrane proteins as well as a subset of cytoplasmic regulatory proteins. FtsH is a 647-residue protein of 70 kDa, with two putative transmembrane segments towards its N terminus which anchor the protein to the membrane, giving rise to a periplasmic domain of 70 residues and a cytoplasmic segment of 520 residues containing the ATPase and protease domains . ; GO: 0004222 metalloendopeptidase activity, 0030163 protein catabolic process, 0016020 membrane.
Probab=94.73  E-value=0.022  Score=36.51  Aligned_cols=100  Identities=11%  Similarity=0.092  Sum_probs=50.9

Q ss_pred             HCCCCCEEEEECCCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHH----
Q ss_conf             27688879984888996799999999998--247898895667768789999999999996775216742214649----
Q 537021.9.peg.4   28 SDPTRSAWVSANAGSGKTHILVQRVLRLL--LANAHPSTLLCLTHTKAAAAEMSHRVLEIITAWSHLSDEILSAEI----  101 (242)
Q Consensus        28 ~~~~~~~lV~A~aGSGKT~tL~~rv~~ll--~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~~~~~~~~l----  101 (242)
                      +=.++-||.++|||||||=     .++.+  +.|||-=+|=.=-|=..-+.-=..|++..+.+.....+-=.+-+.    
T Consensus        89 aKIPKGVLLvGPPGTGKTL-----LAKAvAGEA~VPFF~iSGSdFVEMFVGVGASRVRDLFeqAK~nAPCIIFIDEIDAV  163 (505)
T TIGR01241        89 AKIPKGVLLVGPPGTGKTL-----LAKAVAGEAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAV  163 (505)
T ss_pred             CCCCCCEEEECCCCCCHHH-----HHHHHHCCCCCCCEEECCCCEEECCCCCCCEEHHHHHHHHHHHCCCEEEEECHHHC
T ss_conf             8898714731787842467-----88752025889624740761011120564000144579999718970564010000


Q ss_pred             -HHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             -97314799978999999999999831001321
Q 537021.9.peg.4  102 -TKIQGKKPNKSDMSKARHLLITILETPGGLKV  133 (242)
Q Consensus       102 -~~~~~~~~~~~~~~~~~~ll~~~l~~~~~~~i  133 (242)
                       .++......-.+ .+-.+-|+.+|-..|++.-
T Consensus       164 Gr~RGaG~lGGGn-DEREQTLNQLLVEMDGF~~  195 (505)
T TIGR01241       164 GRQRGAGELGGGN-DEREQTLNQLLVEMDGFGT  195 (505)
T ss_pred             CCCCCCCCCCCCC-CHHHHHHHHHHEECCCCCC
T ss_conf             3335643667654-1355433233133178589


No 132
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=94.69  E-value=0.2  Score=29.81  Aligned_cols=76  Identities=16%  Similarity=0.185  Sum_probs=52.1

Q ss_pred             HHHHHHHHHHHCCCHHHHHHH-CCCCCEEEE-ECCCCCHHHHHHHHHHHHHHC-------CCCHHHHHHHHHHHHHHHHH
Q ss_conf             888889732350948999982-768887998-488899679999999999824-------78988956677687899999
Q 537021.9.peg.4    8 QEHSETIDLISQTKSEQLLAS-DPTRSAWVS-ANAGSGKTHILVQRVLRLLLA-------NAHPSTLLCLTHTKAAAAEM   78 (242)
Q Consensus         8 ~~~~~~~~~~~~~~~qq~~a~-~~~~~~lV~-A~aGSGKT~tL~~rv~~ll~~-------g~~P~~IL~lTFT~kAA~El   78 (242)
                      +.......+-.-.++|..++. ....+..++ +|||||||++++.-+..++..       .....+|..+..|.+++.++
T Consensus       191 d~i~~~~g~~~~~~~r~~a~~~~~~~~~~~~~~G~~t~~~~~i~kl~~~l~~~~~~~~~~~~~~~~i~l~~~~~k~~~~~  270 (696)
T COG0507         191 DKIALNLGIPGNSPERIRAAALALLEEFSLISGGPGTGKTTTIAKLLLKLLEQPEIEVLKSGLAQRISLLAPTGKAALRL  270 (696)
T ss_pred             HHHHHHCCCCCCCHHHHHHHHHHHHHHHHEECCCCCEEEHHHHHHHHHHHHCCHHHHHHHHCHHHHHHHHCCCHHHHHHH
T ss_conf             88987538877885877778887643765525788455679999999998554044433201115677634014888863


Q ss_pred             HH--HHH
Q ss_conf             99--999
Q 537021.9.peg.4   79 SH--RVL   83 (242)
Q Consensus        79 ~~--RI~   83 (242)
                      .+  .+.
T Consensus       271 ~e~~sl~  277 (696)
T COG0507         271 TERGSLR  277 (696)
T ss_pred             CCHHHHH
T ss_conf             1114599


No 133
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=94.66  E-value=0.038  Score=34.88  Aligned_cols=50  Identities=18%  Similarity=0.150  Sum_probs=31.6

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHH-HCCCCHHHHHHHHHH--HHHHHHHHHHH
Q ss_conf             88879984888996799999999998-247898895667768--78999999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLL-LANAHPSTLLCLTHT--KAAAAEMSHRV   82 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll-~~g~~P~~IL~lTFT--~kAA~El~~RI   82 (242)
                      .+-+..++|.|.||||||+...++.. .+|-  .+|..||.-  |-+|.|--.-.
T Consensus       210 ~~vvalVGPTGVGKTTTiAKLAA~~~l~~~~--~kV~lIT~DtyRigA~eQLk~Y  262 (412)
T PRK05703        210 GGVVALVGPTGVGKTTTLAKLAARYALEEGK--DKVALITLDTYRIGAVEQLKTY  262 (412)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHHCCC--CEEEEEEECCCCHHHHHHHHHH
T ss_conf             7369998888875676999999999997299--8179998376777799999999


No 134
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=94.65  E-value=0.042  Score=34.52  Aligned_cols=28  Identities=21%  Similarity=0.357  Sum_probs=21.6

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHC
Q ss_conf             68887998488899679999999999824
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLA   58 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~   58 (242)
                      ..++++|.++||||||.+. ..|..-+.+
T Consensus        54 ~~~n~~I~G~pGTGKT~~v-k~v~~~l~~   81 (394)
T PRK00411         54 RPSNVLILGPPGTGKTTTV-KKVFEELEE   81 (394)
T ss_pred             CCCCEEEECCCCCCHHHHH-HHHHHHHHH
T ss_conf             9984799889999899999-999999997


No 135
>PRK08506 replicative DNA helicase; Provisional
Probab=94.63  E-value=0.17  Score=30.20  Aligned_cols=104  Identities=14%  Similarity=0.195  Sum_probs=54.2

Q ss_pred             CCCEEEEEC-CCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCC
Q ss_conf             888799848-8899679999999999824789889566776878999999999999677521674221464997314799
Q 537021.9.peg.4   31 TRSAWVSAN-AGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITAWSHLSDEILSAEITKIQGKKP  109 (242)
Q Consensus        31 ~~~~lV~A~-aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~~~~~~~~l~~~~~~~~  109 (242)
                      .|.++|+|+ ||-|||....+...+.+.+|.   .++.++. ...+.++..|+....+....          .++-....
T Consensus       192 ~gdLiIIAARPsmGKTAfAlniA~~~a~~~~---~V~~FSL-EMs~~ql~~Rlls~~s~V~~----------~~lr~g~l  257 (473)
T PRK08506        192 KGDLIIIAARPSMGKTTLVLNMVLKALNQGK---GVAFFSL-EMPAEQLMLRMLSAKTSIPL----------QNLRTGDL  257 (473)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHCCC---CEEEEEC-CCCHHHHHHHHHHHHCCCCC----------CCCCCCCC
T ss_conf             5627999507998678999999999996599---6589822-47999999999997288783----------10006899


Q ss_pred             CHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9789999999999998------31001321117999987555428
Q 537021.9.peg.4  110 NKSDMSKARHLLITIL------ETPGGLKVQTIHAFCEAIMQQFP  148 (242)
Q Consensus       110 ~~~~~~~~~~ll~~~l------~~~~~~~i~Ti~~f~~~ilr~~~  148 (242)
                      +...+.+.......+-      .....+.+..|.+-|-++.+.++
T Consensus       258 ~~~e~~~~~~a~~~l~~~~l~IdD~~~lti~~Ira~~Rr~k~~~~  302 (473)
T PRK08506        258 DDDEWENLSDACDELSQKKLFVYDSGYVNIHQVRAQLRKLKSQHP  302 (473)
T ss_pred             CHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf             999999999999998659889988999999999999999999769


No 136
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=94.59  E-value=0.028  Score=35.81  Aligned_cols=52  Identities=21%  Similarity=0.193  Sum_probs=35.1

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             79984888996799999999998247898895667768789999999999996
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEII   86 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l   86 (242)
                      ++++++-|+|||||++....++..+|-++-=+-+=||=-.|...|+ -..+++
T Consensus       209 IaLVGvnGvGKTTTiAKLA~~l~~~gkkV~LVAaDTFRaAAiEQLk-~~g~rl  260 (407)
T PRK12726        209 ISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQ-GYADKL  260 (407)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHH-HHHHHH
T ss_conf             9998999897899999999999977991799970667788999999-999997


No 137
>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=94.57  E-value=0.051  Score=33.97  Aligned_cols=47  Identities=15%  Similarity=0.185  Sum_probs=34.2

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             6888799848889967999999999982478988956677687899999999999
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLE   84 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~   84 (242)
                      ...++++.+++|||||+..+.....++.+|.   +++.+|.+     +|.+++..
T Consensus        46 ~~~Nlll~G~~GtGKThLA~Ai~~~~~~~g~---~v~f~~~~-----~L~~~l~~   92 (178)
T pfam01695        46 QAENLLLLGPPGVGKTHLACALGHQACRAGY---SVLFTRTP-----DLVEQLKR   92 (178)
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHHCCC---EEEEEECH-----HHHHHHHH
T ss_conf             5876899899998789999999999998698---59999616-----79999998


No 138
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=94.56  E-value=0.02  Score=36.79  Aligned_cols=49  Identities=12%  Similarity=0.189  Sum_probs=33.4

Q ss_pred             CCCCC-EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             76888-799848889967999999999982478988956677687899999999
Q 537021.9.peg.4   29 DPTRS-AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHR   81 (242)
Q Consensus        29 ~~~~~-~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~R   81 (242)
                      -|.|+ +||.+.||||||..-.+-+...+.+|   ++++.+|+-+ ...++.+.
T Consensus        21 ip~gs~~li~G~~GtGKsi~~~~~~~~~l~~g---~~~~yis~e~-t~~~~i~q   70 (230)
T PRK08533         21 IPFGSIILIEGDESTGKSILSQRLAYGFLQNG---YSVSYVSSQL-TTTEFIKQ   70 (230)
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHHHHHCC---CEEEEEEECC-CHHHHHHH
T ss_conf             88984899986899878999999999998789---8699999438-99999999


No 139
>PRK06835 DNA replication protein DnaC; Validated
Probab=94.55  E-value=0.03  Score=35.52  Aligned_cols=47  Identities=23%  Similarity=0.236  Sum_probs=34.8

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             6888799848889967999999999982478988956677687899999999999
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLE   84 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~   84 (242)
                      +..+++..+++|+|||+......-.++.+|.   .|+.+|.+     ++-++|..
T Consensus       182 ~~~nLlf~G~~G~GKTfLa~~IA~ell~~g~---sViy~ta~-----~L~~~l~~  228 (330)
T PRK06835        182 NNENLLFYGNTGTGKTFLSNCIAKELLDRGK---TVIYRTSD-----ELIENLRE  228 (330)
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHHCCC---EEEEEEHH-----HHHHHHHH
T ss_conf             8886698899999889999999999998799---49996299-----99999999


No 140
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=94.53  E-value=0.027  Score=35.85  Aligned_cols=45  Identities=22%  Similarity=0.299  Sum_probs=24.5

Q ss_pred             EEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             98488899679999999999824789889566776878999999999999
Q 537021.9.peg.4   36 VSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEI   85 (242)
Q Consensus        36 V~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~   85 (242)
                      +..|||||||+.|..-+.. +....+..=|-.=-.|.    .=.+||++.
T Consensus       109 l~sSPGSGKTtLLe~ti~~-L~~~~~~aVIeGD~~T~----~DA~RI~~~  153 (290)
T PRK10463        109 LVSSPGSGKTTLLTETLMR-LKDSVPCAVIEGDQQTV----NDAARIRAT  153 (290)
T ss_pred             ECCCCCCCHHHHHHHHHHH-HHCCCCEEEEEECCCCH----HHHHHHHHC
T ss_conf             3069987889999999998-73367579996042356----679999976


No 141
>PRK09183 transposase/IS protein; Provisional
Probab=94.51  E-value=0.054  Score=33.75  Aligned_cols=47  Identities=19%  Similarity=0.208  Sum_probs=33.3

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             6888799848889967999999999982478988956677687899999999999
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLE   84 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~   84 (242)
                      -..+|++.++||||||+.-+..-...+.+|.   +++.+|     +.+|.+++..
T Consensus       100 ~~~Nvil~G~~GtGKThLA~Alg~~A~~~G~---~v~f~~-----~~~L~~~L~~  146 (258)
T PRK09183        100 RNENIVLLGPSGVGKTHLAIALGYEAVRAGI---KVRFTT-----AADLLLQLST  146 (258)
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHHCCC---EEEEEE-----HHHHHHHHHH
T ss_conf             5886799899998689999999999998799---399978-----9999999999


No 142
>KOG0991 consensus
Probab=94.51  E-value=0.058  Score=33.53  Aligned_cols=33  Identities=24%  Similarity=0.303  Sum_probs=22.3

Q ss_pred             HHHHCCCCC-EEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             998276888-799848889967999999999982
Q 537021.9.peg.4   25 LLASDPTRS-AWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        25 ~~a~~~~~~-~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      ..|-+.+-| +++.++||+||||++-...-.||.
T Consensus        41 via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG   74 (333)
T KOG0991          41 VIAKEGNMPNLIISGPPGTGKTTSILCLARELLG   74 (333)
T ss_pred             HHHHCCCCCCEEEECCCCCCHHHHHHHHHHHHHC
T ss_conf             9997289986675279998616489999999838


No 143
>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=94.46  E-value=0.037  Score=34.89  Aligned_cols=51  Identities=20%  Similarity=0.166  Sum_probs=26.4

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             799848889967999999999982478988956677687899999999999967
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~   87 (242)
                      +|+.++||||||++. .-+++.+.  .+.-+|-+-.+..+...+...+|...+.
T Consensus         1 iLl~GppGtGKT~~a-~~la~~~~--~~~~~v~~~~~~~~~~g~~~~~i~~~f~   51 (131)
T pfam00004         1 LLLYGPPGTGKTTLA-KAVAKELG--APFIEISGSELVSKYVGESEKRLRELFE   51 (131)
T ss_pred             CEEECCCCCCHHHHH-HHHHHHHC--CCCEECCCCCCCCCCCCHHHHHHHHHHH
T ss_conf             987899999999999-99999978--9853324201222334506888999999


No 144
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=94.46  E-value=0.037  Score=34.97  Aligned_cols=46  Identities=20%  Similarity=0.181  Sum_probs=31.8

Q ss_pred             CCCEEEEECCCCCHHHH-HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             88879984888996799-99999999824789889566776878999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHI-LVQRVLRLLLANAHPSTLLCLTHTKAAAAEMS   79 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~t-L~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~   79 (242)
                      .+.++|+||.|||||.. |+--+.+...+|   ++|++-|-|+.=-+.+-
T Consensus        47 ~~~l~iEAgTGtGKTlaYL~Pai~~a~~~~---~~vvIST~T~~LQeQL~   93 (697)
T PRK11747         47 RHILVIEAGTGVGKSLAYLLAGIPIARAEK---KKLVISTATVALQEQLV   93 (697)
T ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHHHHCC---CCEEEECCCHHHHHHHH
T ss_conf             866999899972089999999999999829---97999889889999998


No 145
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=94.43  E-value=0.03  Score=35.55  Aligned_cols=34  Identities=24%  Similarity=0.317  Sum_probs=22.7

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHH-CCCCHHHHHHHH
Q ss_conf             799848889967999999999982-478988956677
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLL-ANAHPSTLLCLT   69 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~-~g~~P~~IL~lT   69 (242)
                      +.+++|.|.|||||++...++... .|-  .+|..+|
T Consensus       197 i~lvGPTGVGKTTTiAKLAa~~~l~~~~--~~V~lIT  231 (282)
T TIGR03499       197 IALVGPTGVGKTTTLAKLAARFVLEHGK--KKVALIT  231 (282)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHCCC--CCEEEEE
T ss_conf             9997788875788999999999997389--9679998


No 146
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=94.40  E-value=0.06  Score=33.47  Aligned_cols=75  Identities=13%  Similarity=0.136  Sum_probs=43.0

Q ss_pred             HHHHHHCCCHHH---HHHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             973235094899---99827688879984888996799999999998247898895667768789999999999996775
Q 537021.9.peg.4   13 TIDLISQTKSEQ---LLASDPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITAW   89 (242)
Q Consensus        13 ~~~~~~~~~~qq---~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~   89 (242)
                      +-|+++-+..-+   +.-+-+.+-+|..++||||||.. +.-++.  ..|++-=.|-.-.|..+-+.+=..|++..+...
T Consensus       164 l~EiVdfLk~P~k~~~~Gak~PkGvLL~GPPGtGKTlL-AkAvAg--Ea~vpF~~~sgsef~e~~vGvga~rVR~lF~~A  240 (644)
T PRK10733        164 VAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLL-AKAIAG--EAKVPFFTISGSDFVEMFVGVGASRVRDMFEQA  240 (644)
T ss_pred             HHHHHHHHHCHHHHHHCCCCCCCCEEEECCCCCCHHHH-HHHHHC--CCCCEEEEEEHHHHHHEEEECCHHHHHHHHHHH
T ss_conf             99999981297999974997998517779899877899-999864--559808997847730222530689999999999


Q ss_pred             H
Q ss_conf             2
Q 537021.9.peg.4   90 S   90 (242)
Q Consensus        90 ~   90 (242)
                      .
T Consensus       241 r  241 (644)
T PRK10733        241 K  241 (644)
T ss_pred             H
T ss_conf             9


No 147
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=94.37  E-value=0.026  Score=36.05  Aligned_cols=39  Identities=21%  Similarity=0.221  Sum_probs=26.0

Q ss_pred             CCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             76888799848889967999999999982478988956677
Q 537021.9.peg.4   29 DPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLT   69 (242)
Q Consensus        29 ~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lT   69 (242)
                      .-+.++++.++||||||... .|.-.+|= -..+.++|-+|
T Consensus       196 AGgHnLl~~GpPGtGKTmla-~Rl~~lLP-pls~~E~lE~s  234 (490)
T COG0606         196 AGGHNLLLVGPPGTGKTMLA-SRLPGLLP-PLSIPEALEVS  234 (490)
T ss_pred             HCCCCEEEECCCCCCHHHHH-HHHHCCCC-CCCHHHHHHHH
T ss_conf             43886787569988656764-23102599-98708889998


No 148
>KOG0345 consensus
Probab=94.35  E-value=0.074  Score=32.80  Aligned_cols=55  Identities=24%  Similarity=0.372  Sum_probs=39.9

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHH---CCCCHHHH--HHHHHHHHHHHHHHHHHHH
Q ss_conf             6888799848889967999999999982---47898895--6677687899999999999
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLL---ANAHPSTL--LCLTHTKAAAAEMSHRVLE   84 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~---~g~~P~~I--L~lTFT~kAA~El~~RI~~   84 (242)
                      .+..|+|.|+-|||||-.-+-=+...|.   ...+|.+|  +++|+||.=|..+.+-+..
T Consensus        42 ~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~~~  101 (567)
T KOG0345          42 KNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVAQP  101 (567)
T ss_pred             CCCCEEEECCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEEEECCCHHHHHHHHHHHHH
T ss_conf             278568985678871066899999999861157896512479965719999999999999


No 149
>PRK06921 hypothetical protein; Provisional
Probab=94.29  E-value=0.061  Score=33.39  Aligned_cols=39  Identities=26%  Similarity=0.343  Sum_probs=29.5

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
Q ss_conf             68887998488899679999999999824-7898895667768
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLA-NAHPSTLLCLTHT   71 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~-g~~P~~IL~lTFT   71 (242)
                      ...+++..+.||||||+..+...-.|+.+ |++   ++.++|.
T Consensus       115 ~~~~l~f~G~~G~GKThLa~aIa~~Ll~~~~~~---Vly~~~~  154 (265)
T PRK06921        115 RKNSIALLGQPGSGKTHLLTAAANELMRKKGVP---VLYFPFV  154 (265)
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCE---EEEEEHH
T ss_conf             766279972898988999999999999962971---9998879


No 150
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=94.25  E-value=0.033  Score=35.27  Aligned_cols=42  Identities=21%  Similarity=0.319  Sum_probs=26.9

Q ss_pred             HHCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             8276888799848889967999999999982478988956677687
Q 537021.9.peg.4   27 ASDPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTK   72 (242)
Q Consensus        27 a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~   72 (242)
                      |+....+.||.+|-||||||+|-. +...+...   ++|+++-=|.
T Consensus       169 av~~r~NILisGGTGSGKTTlLNa-l~~~i~~~---eRvItiEDta  210 (355)
T COG4962         169 AVGIRCNILISGGTGSGKTTLLNA-LSGFIDSD---ERVITIEDTA  210 (355)
T ss_pred             HHHHCEEEEEECCCCCCHHHHHHH-HHHCCCCC---CEEEEEEEHH
T ss_conf             986201599967878879999999-97157976---5089981236


No 151
>pfam05496 RuvB_N Holliday junction DNA helicase ruvB N-terminus. The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This family contains the N-terminal region of the protein.
Probab=94.23  E-value=0.045  Score=34.30  Aligned_cols=26  Identities=15%  Similarity=0.227  Sum_probs=18.2

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             688879984888996799999999998
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      +..+++.-++||+|||+. +..++.-+
T Consensus        49 ~l~h~lf~GPPG~GKTTl-AriiAk~~   74 (234)
T pfam05496        49 ALDHVLLYGPPGLGKTTL-ANIIANEM   74 (234)
T ss_pred             CCCEEEEECCCCCCHHHH-HHHHHHHH
T ss_conf             766278878999988899-99999840


No 152
>PRK04195 replication factor C large subunit; Provisional
Probab=94.21  E-value=0.03  Score=35.53  Aligned_cols=24  Identities=17%  Similarity=0.260  Sum_probs=17.8

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHH
Q ss_conf             8887998488899679999999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRL   55 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~l   55 (242)
                      .+++|..+|||+|||++. +-+++-
T Consensus        40 ~k~lLL~GPpGvGKTT~a-~~lAk~   63 (403)
T PRK04195         40 KKALLLYGPPGVGKTSLA-HALAND   63 (403)
T ss_pred             CCEEEEECCCCCCHHHHH-HHHHHH
T ss_conf             746998893998799999-999998


No 153
>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=94.19  E-value=0.045  Score=34.35  Aligned_cols=26  Identities=23%  Similarity=0.230  Sum_probs=20.9

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             88799848889967999999999982
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      |-+||.++.||||||||..-+.++-.
T Consensus         2 GliLitG~TGSGKTTtl~all~~i~~   27 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINK   27 (198)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             38999899999799999999985363


No 154
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=94.19  E-value=0.033  Score=35.31  Aligned_cols=68  Identities=19%  Similarity=0.230  Sum_probs=43.5

Q ss_pred             HCCCHHHHHHHC-------CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             509489999827-------6888799848889967999999999982478988956677687899999999999967752
Q 537021.9.peg.4   18 SQTKSEQLLASD-------PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITAWS   90 (242)
Q Consensus        18 ~~~~~qq~~a~~-------~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~   90 (242)
                      .++-+|-++|..       -.+.-..++..|||||+|+++-|..+ .+.     -|+++..+-=|+.+-.-+...+.+.+
T Consensus        13 ~P~GDQP~AI~~L~~gi~~g~~~Q~LlGvTGSGKTfTmAnvI~~~-~rP-----tLVlahNKTLAAQLy~Efk~fFP~Na   86 (657)
T PRK05298         13 KPAGDQPQAIAELVEGIESGEKHQTLLGVTGSGKTFTMANVIARV-QRP-----TLVLAHNKTLAAQLYGEFKEFFPENA   86 (657)
T ss_pred             CCCCCCHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHH-CCC-----EEEECCCHHHHHHHHHHHHHHCCCCC
T ss_conf             999987999999998997499636997036785668999999986-897-----59976658899999999997688871


Q ss_pred             C
Q ss_conf             1
Q 537021.9.peg.4   91 H   91 (242)
Q Consensus        91 ~   91 (242)
                      -
T Consensus        87 V   87 (657)
T PRK05298         87 V   87 (657)
T ss_pred             E
T ss_conf             7


No 155
>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=94.15  E-value=0.06  Score=33.43  Aligned_cols=46  Identities=22%  Similarity=0.362  Sum_probs=31.9

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             79984888996799999999998247898895667768789999999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVL   83 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~   83 (242)
                      ++|.++||||||+.+.+-..+...+|   ..++.+.+-. ...+.++|+.
T Consensus         2 ~li~g~~g~GKttl~~~~~~~~~~~~---~~~~~~~~ee-~~~q~~~~~~   47 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIATKG---GKVVYVDIEE-EIEELTERLI   47 (165)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCC---CEEEEEECCC-CHHHHHHHHH
T ss_conf             89998999989999999999987639---9799998666-4489999999


No 156
>TIGR00073 hypB hydrogenase accessory protein HypB; InterPro: IPR004392 The hydrogenase accessory protein HypB is a GTP hydrolase for assembly of nickel metallocentre of hydrogenase. A similar protein, ureG, is an accessory protein for urease, which also uses nickel.; GO: 0016151 nickel ion binding, 0006461 protein complex assembly.
Probab=94.10  E-value=0.034  Score=35.22  Aligned_cols=61  Identities=20%  Similarity=0.206  Sum_probs=33.4

Q ss_pred             CCHHHHHHHC------CCCC-EE-EEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9489999827------6888-79-98488899679999999999824789889566776878999999999999
Q 537021.9.peg.4   20 TKSEQLLASD------PTRS-AW-VSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEI   85 (242)
Q Consensus        20 ~~~qq~~a~~------~~~~-~l-V~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~   85 (242)
                      +...++.|..      ..|- ++ ...+||||||+.|-.-+.+ +...++--=|..=--|+.=    .+|+++.
T Consensus        15 L~~N~rlA~~Nr~~~~~~g~~~lNfmsspGSGKT~LiEk~~~~-~~~~~K~Avi~GD~~t~~D----A~RlR~~   83 (225)
T TIGR00073        15 LSKNDRLAEKNRERFDKEGLLVLNFMSSPGSGKTTLIEKLIER-LDDEVKIAVIEGDVQTKND----ADRLRKY   83 (225)
T ss_pred             HHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCHHHHHHHHHHH-HCCCCCEEEEECCHHHHHH----HHHHHHC
T ss_conf             8988899999999998659789980258861158999999998-4578978999755322556----9999864


No 157
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=94.08  E-value=0.045  Score=34.31  Aligned_cols=41  Identities=17%  Similarity=0.211  Sum_probs=27.3

Q ss_pred             HHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCH-HHHHHHHHH
Q ss_conf             9827688879984888996799999999998247898-895667768
Q 537021.9.peg.4   26 LASDPTRSAWVSANAGSGKTHILVQRVLRLLLANAHP-STLLCLTHT   71 (242)
Q Consensus        26 ~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P-~~IL~lTFT   71 (242)
                      .++....+++|.++.||||||.+-.     +..-++| ++|+.+-=|
T Consensus       155 ~aV~~r~NilI~G~TgSGKTTll~a-----L~~~ip~~eRiitIEDt  196 (332)
T PRK13900        155 HAVISKKNIIISGGTSTGKTTFTNA-----ALREIPAIERLITVEDA  196 (332)
T ss_pred             HHHHCCCCEEEECCCCCCHHHHHHH-----HHHCCCCCCCEEEECCC
T ss_conf             9986487199988889889999999-----98358953535663140


No 158
>pfam07728 AAA_5 AAA domain (dynein-related subfamily). This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.
Probab=94.08  E-value=0.046  Score=34.26  Aligned_cols=24  Identities=21%  Similarity=0.404  Sum_probs=18.6

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             8799848889967999999999982
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      +||+.++||||||+.. ..+++.+.
T Consensus         1 ~vll~Gp~G~GKT~la-~~la~~l~   24 (139)
T pfam07728         1 GVLLVGPPGTGKSELA-ERLAAALS   24 (139)
T ss_pred             CEEEECCCCCHHHHHH-HHHHHHCC
T ss_conf             9899989975699999-99999807


No 159
>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=93.99  E-value=0.087  Score=32.33  Aligned_cols=67  Identities=15%  Similarity=0.238  Sum_probs=45.4

Q ss_pred             HCCCHHHHHHH----CCCC--C--EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             50948999982----7688--8--799848889967999999999982478988956677687899999999999967
Q 537021.9.peg.4   18 SQTKSEQLLAS----DPTR--S--AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        18 ~~~~~qq~~a~----~~~~--~--~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~   87 (242)
                      .+|++|++++.    |-..  |  -||.+==|||||=|.+--.+..|..|   -+...+.+|.==|.---+.+.+.|.
T Consensus       307 ~LT~aQ~r~v~EI~~DL~~~~pMnRLlQGDVGSGKT~VA~la~l~~i~~G---YQ~ALMAPTEiLA~QHy~~~~~~l~  381 (721)
T TIGR00643       307 ELTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIESG---YQVALMAPTEILAEQHYDSLRNLLA  381 (721)
T ss_pred             CCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCC---CEEEEECCHHHHHHHHHHHHHHHHC
T ss_conf             77677899999999861478753222110106638999999999998469---8099917768999999999999623


No 160
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=93.97  E-value=0.22  Score=29.42  Aligned_cols=28  Identities=25%  Similarity=0.395  Sum_probs=21.0

Q ss_pred             HCCCCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             27688879984888996799999999998
Q 537021.9.peg.4   28 SDPTRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        28 ~~~~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      ..|.+.+|..++||||||. |+..++.-.
T Consensus       163 i~pPkGvLLyGPPGtGKTl-lAkAvA~e~  190 (390)
T PRK03992        163 IEPPKGVLLYGPPGTGKTL-LAKAVAHET  190 (390)
T ss_pred             CCCCCEEEEECCCCCCHHH-HHHHHHHHH
T ss_conf             9999727868989997899-999999874


No 161
>KOG0734 consensus
Probab=93.96  E-value=0.19  Score=30.00  Aligned_cols=96  Identities=23%  Similarity=0.211  Sum_probs=48.4

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCCCCCHHHHHHHHCC
Q ss_conf             88879984888996799999999998--24789889566776878999999999999677521-6742214649973147
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLL--LANAHPSTLLCLTHTKAAAAEMSHRVLEIITAWSH-LSDEILSAEITKIQGK  107 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll--~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~-~~~~~~~~~l~~~~~~  107 (242)
                      .+.||..++||||||- |    ++.+  ..||+-=..-.--|-.--+..=..|++..+..... .+-.-+-..+-.....
T Consensus       337 PKGVLLvGPPGTGKTl-L----ARAvAGEA~VPFF~~sGSEFdEm~VGvGArRVRdLF~aAk~~APcIIFIDEiDavG~k  411 (752)
T KOG0734         337 PKGVLLVGPPGTGKTL-L----ARAVAGEAGVPFFYASGSEFDEMFVGVGARRVRDLFAAAKARAPCIIFIDEIDAVGGK  411 (752)
T ss_pred             CCCEEEECCCCCCHHH-H----HHHHHCCCCCCEEECCCCCHHHHHHCCCHHHHHHHHHHHHHCCCEEEEEECHHHHCCC
T ss_conf             8853876899975569-9----9986055689747416620445422014899999999987349859997200220566


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9997899999999999983100132
Q 537021.9.peg.4  108 KPNKSDMSKARHLLITILETPGGLK  132 (242)
Q Consensus       108 ~~~~~~~~~~~~ll~~~l~~~~~~~  132 (242)
                      +.. .....++.-++.++-..|++.
T Consensus       412 R~~-~~~~y~kqTlNQLLvEmDGF~  435 (752)
T KOG0734         412 RNP-SDQHYAKQTLNQLLVEMDGFK  435 (752)
T ss_pred             CCC-CHHHHHHHHHHHHHHHHCCCC
T ss_conf             786-277899989999999842867


No 162
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=93.95  E-value=0.043  Score=34.44  Aligned_cols=29  Identities=24%  Similarity=0.535  Sum_probs=22.6

Q ss_pred             HHCCC-CCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             82768-8879984888996799999999998
Q 537021.9.peg.4   27 ASDPT-RSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        27 a~~~~-~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      +.+|. |.|||.+.+|||||+.. .-+..+|
T Consensus        28 av~p~iGgVLi~G~~GtgKStlv-Rala~lL   57 (347)
T CHL00081         28 VIDPKIGGVMIMGDRGTGKSTTI-RALVDLL   57 (347)
T ss_pred             HCCCCCCEEEEECCCCCCHHHHH-HHHHHHC
T ss_conf             25788786998789987499999-9999857


No 163
>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=93.94  E-value=0.037  Score=34.89  Aligned_cols=24  Identities=33%  Similarity=0.209  Sum_probs=18.0

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHHC
Q ss_conf             87998488899679999999999824
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLLLA   58 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll~~   58 (242)
                      +++|+|++|||||+.++  +-.++..
T Consensus         1 H~lvig~tGsGKt~~~v--ip~ll~~   24 (384)
T cd01126           1 HVLVFAPTRSGKGVGFV--IPNLLTW   24 (384)
T ss_pred             CEEEECCCCCCHHHHHH--HHHHHHC
T ss_conf             97998899997318999--9999818


No 164
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=93.91  E-value=0.16  Score=30.45  Aligned_cols=50  Identities=18%  Similarity=0.187  Sum_probs=32.5

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHH--HHHHHHHHHHHHHHHHH
Q ss_conf             888799848889967999999999982478988--95667768789999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLANAHPS--TLLCLTHTKAAAAEMSH   80 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~--~IL~lTFT~kAA~El~~   80 (242)
                      -.|+++-+|.|+|||+.|-.--.+....+..+.  -+-.-.|++..+..+++
T Consensus       113 ~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~~~v~a~~~  164 (408)
T COG0593         113 YNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDFVKALRD  164 (408)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHHHHHHHHHHH
T ss_conf             8957998799997899999999999862998648850489989999999885


No 165
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.90  E-value=0.064  Score=33.23  Aligned_cols=53  Identities=11%  Similarity=0.080  Sum_probs=31.3

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHC-CCCHHHHHH---HHHHHHHHHHHHHHHHHHHH
Q ss_conf             7998488899679999999999824-789889566---77687899999999999967
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLA-NAHPSTLLC---LTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~-g~~P~~IL~---lTFT~kAA~El~~RI~~~l~   87 (242)
                      +..+++.|+||||||+...+++..+ +-+.-+|..   =|| |-||.|=-....+.++
T Consensus       177 i~lVGPTGvGKTTTiAKLAa~~~l~~~~k~~~V~lit~Dty-RigAveQLktya~il~  233 (388)
T PRK12723        177 FILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNY-RIGAKKQIQTYGDIMG  233 (388)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEEEECCC-CHHHHHHHHHHHHHHC
T ss_conf             99989988757879999999999862676773799980787-5889999999999978


No 166
>PRK10416 cell division protein FtsY; Provisional
Probab=93.85  E-value=0.048  Score=34.15  Aligned_cols=54  Identities=13%  Similarity=-0.006  Sum_probs=35.4

Q ss_pred             CCC--EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             888--7998488899679999999999824789889566776878999999999999
Q 537021.9.peg.4   31 TRS--AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEI   85 (242)
Q Consensus        31 ~~~--~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~   85 (242)
                      .+|  +|+.+.=|+|||||+.....++-.+|-++-=+-+=||--+|...++ -..++
T Consensus       293 ~~P~VIl~vGvNG~GKTTTigKLA~~~~~~gkkVllaA~DTfRaAAieQL~-~w~~r  348 (499)
T PRK10416        293 KTPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQ-VWGQR  348 (499)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCCCHHHHHHHH-HHHCC
T ss_conf             998799997478787898999999999977995378840667568999999-98424


No 167
>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=93.83  E-value=0.045  Score=34.32  Aligned_cols=20  Identities=20%  Similarity=0.311  Sum_probs=16.1

Q ss_pred             EEEEECCCCCHHHHHHHHHH
Q ss_conf             79984888996799999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVL   53 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~   53 (242)
                      ++|.|.|||||||.|.+.+-
T Consensus         1 ~vV~gvpGsGKSt~I~~l~~   20 (226)
T pfam01443         1 IVVHGVPGCGKSTLIRKLLR   20 (226)
T ss_pred             CEEEECCCCCHHHHHHHHHH
T ss_conf             95940799988999999986


No 168
>PRK12608 transcription termination factor Rho; Provisional
Probab=93.83  E-value=0.087  Score=32.31  Aligned_cols=27  Identities=26%  Similarity=0.339  Sum_probs=20.4

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHC
Q ss_conf             8887998488899679999999999824
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLA   58 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~   58 (242)
                      +...||.|+|+||||+.|-+ +++-|..
T Consensus       132 GQRgLIVAPPkaGKT~LLq~-IA~aI~~  158 (379)
T PRK12608        132 GQRGLIVAPPRAGKTILLQQ-IAQAVAA  158 (379)
T ss_pred             CCCCEEECCCCCCHHHHHHH-HHHHHHH
T ss_conf             74012745898657899999-9999985


No 169
>KOG0989 consensus
Probab=93.77  E-value=0.054  Score=33.78  Aligned_cols=37  Identities=19%  Similarity=0.166  Sum_probs=24.9

Q ss_pred             CCCC-EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHH
Q ss_conf             6888-799848889967999999999982478988956
Q 537021.9.peg.4   30 PTRS-AWVSANAGSGKTHILVQRVLRLLLANAHPSTLL   66 (242)
Q Consensus        30 ~~~~-~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL   66 (242)
                      ...| .|-.+|||||||.|+-.--..|......|.+++
T Consensus        55 ~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl   92 (346)
T KOG0989          55 RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVL   92 (346)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCHH
T ss_conf             68860786689998676899999998557423555424


No 170
>PTZ00110 helicase; Provisional
Probab=93.76  E-value=0.12  Score=31.28  Aligned_cols=66  Identities=21%  Similarity=0.232  Sum_probs=40.3

Q ss_pred             HCCCHHHHHH--HCCCCCEEEEECCCCCHHHHHH-HHHHHHHHCC-CCHH---HHHHHHHHHHHHHHHHHHHH
Q ss_conf             5094899998--2768887998488899679999-9999998247-8988---95667768789999999999
Q 537021.9.peg.4   18 SQTKSEQLLA--SDPTRSAWVSANAGSGKTHILV-QRVLRLLLAN-AHPS---TLLCLTHTKAAAAEMSHRVL   83 (242)
Q Consensus        18 ~~~~~qq~~a--~~~~~~~lV~A~aGSGKT~tL~-~rv~~ll~~g-~~P~---~IL~lTFT~kAA~El~~RI~   83 (242)
                      .+|.=|.+.+  +-.++.++..|.-|||||-.-+ -.+.++..+. ..|.   ..|+|++||.-|..+.+-+.
T Consensus       204 ~PTPIQ~qaIPiaLsGrDvIgiAqTGSGKTLAFlLP~l~hi~~q~~~~~~~gP~aLILaPTRELA~QI~~e~~  276 (602)
T PTZ00110        204 EPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRPGDGPIVLVLAPTRELAEQIREQAL  276 (602)
T ss_pred             CCCHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEECCHHHHHHHHHHHHH
T ss_conf             9998999998798569867998789788999999999999851634367899769997383999999999999


No 171
>KOG0920 consensus
Probab=93.71  E-value=0.1  Score=31.76  Aligned_cols=64  Identities=19%  Similarity=0.268  Sum_probs=49.7

Q ss_pred             HHHHHHHCC---CCCEEEEECCCCCHHHHHHHHHHH-HHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             899998276---888799848889967999999999-98247898895667768789999999999996
Q 537021.9.peg.4   22 SEQLLASDP---TRSAWVSANAGSGKTHILVQRVLR-LLLANAHPSTLLCLTHTKAAAAEMSHRVLEII   86 (242)
Q Consensus        22 ~qq~~a~~~---~~~~lV~A~aGSGKT~tL~~rv~~-ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l   86 (242)
                      ..+..+.+.   ..-++|.+..|+||||-+...++. .+..| ++-+|+|.-.-+-||-.+.+|+..-.
T Consensus       176 ~~r~~Il~~i~~~qVvvIsGeTGcGKtTQvpQfiLd~~~~~~-~~~~IicTQPRRIsAIsvAeRVa~ER  243 (924)
T KOG0920         176 KMRDTILDAIEENQVVVISGETGCGKTTQVPQFILDEAIESG-AACNIICTQPRRISAISVAERVAKER  243 (924)
T ss_pred             HHHHHHHHHHHHCCEEEEECCCCCCCHHHHHHHHHHHHHHCC-CCCEEEECCCCHHHHHHHHHHHHHHH
T ss_conf             789999999974966999578898712246699999998628-99738866775177899999998875


No 172
>pfam02399 Herpes_ori_bp Origin of replication binding protein. This Pfam family represents the herpesvirus origin of replication binding protein, probably involved in DNA replication.
Probab=93.66  E-value=0.083  Score=32.47  Aligned_cols=53  Identities=23%  Similarity=0.308  Sum_probs=38.8

Q ss_pred             CCCE-EEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             8887-998488899679999999999824789889566776878999999999999
Q 537021.9.peg.4   31 TRSA-WVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEI   85 (242)
Q Consensus        31 ~~~~-lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~   85 (242)
                      .+|| +|=||=||||||.|..-....|..  +--++|+++=-|.-++++.+|+...
T Consensus        48 ~r~V~VVRAPMGSGKTTALi~wL~~~L~~--~d~SvLVVSCRRSFT~tL~~Rf~~a  101 (829)
T pfam02399        48 ARPVLVVRAPMGSGKTTALIEWLRAALDS--PDTSVLVVSCRRSFTQTLLDRFNDA  101 (829)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHCC--CCCEEEEEECHHHHHHHHHHHHHHC
T ss_conf             74468997688887189999999997378--6654999970167899999999866


No 173
>pfam03029 ATP_bind_1 Conserved hypothetical ATP binding protein. Members of this family are found in a range of archaea and eukaryotes and have hypothesized ATP binding activity.
Probab=93.65  E-value=0.046  Score=34.24  Aligned_cols=23  Identities=39%  Similarity=0.328  Sum_probs=16.5

Q ss_pred             EEECCCCCHHHHHHHHHHHHHHC
Q ss_conf             98488899679999999999824
Q 537021.9.peg.4   36 VSANAGSGKTHILVQRVLRLLLA   58 (242)
Q Consensus        36 V~A~aGSGKT~tL~~rv~~ll~~   58 (242)
                      |.++|||||||-...-..++-..
T Consensus         1 ViGpaGSGKTT~~~~l~~~l~~~   23 (234)
T pfam03029         1 VVGGAGSGKTTFVGALSEILPLR   23 (234)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHC
T ss_conf             98989898899999999999977


No 174
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.63  E-value=0.062  Score=33.37  Aligned_cols=48  Identities=17%  Similarity=0.153  Sum_probs=32.8

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHH-HCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             79984888996799999999998-2478988956677687899999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLL-LANAHPSTLLCLTHTKAAAAEMSHR   81 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll-~~g~~P~~IL~lTFT~kAA~El~~R   81 (242)
                      +..++|.|.||||||+...+++. ..|.+..=|.+=||==.|+..|+.-
T Consensus       226 i~lVGPTGVGKTTTiAKLAA~~~l~~~kkVaLIT~DTYRIgAvEQLktY  274 (432)
T PRK12724        226 VFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRY  274 (432)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHH
T ss_conf             9998999988899999999999997499279995266537799999999


No 175
>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=93.62  E-value=0.23  Score=29.35  Aligned_cols=39  Identities=23%  Similarity=0.370  Sum_probs=28.4

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHHCCCCHHH--HHHHHHHH
Q ss_conf             87998488899679999999999824789889--56677687
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLLLANAHPST--LLCLTHTK   72 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~--IL~lTFT~   72 (242)
                      ++||.+.+|||||..|-..+..++... +|++  +.++-|..
T Consensus        40 H~Lv~G~tGsGKS~~l~~li~sl~~~~-~p~~v~l~liD~K~   80 (202)
T pfam01580        40 HLLIAGATGSGKSTFLNTLILSLAARH-SPEEVRLYLIDPKG   80 (202)
T ss_pred             CEEEECCCCCCCCHHHHHHHHHHHHHC-CCCEEEEEEECCCC
T ss_conf             689965899980099999999998737-96206999974896


No 176
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=93.59  E-value=0.17  Score=30.34  Aligned_cols=55  Identities=18%  Similarity=0.116  Sum_probs=37.3

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             6888799848889967999999999982478988956677687899999999999967
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~   87 (242)
                      --.+.+.-+|||+|||+.- ..++.  ..+..-.++=++|++.|-..+.-++-.+...
T Consensus        47 ~l~SmIl~GPPG~GKTTlA-~liA~--~~~~~f~~~sAv~~gvkdlr~i~e~a~~~~~  101 (436)
T COG2256          47 HLHSMILWGPPGTGKTTLA-RLIAG--TTNAAFEALSAVTSGVKDLREIIEEARKNRL  101 (436)
T ss_pred             CCCEEEEECCCCCCHHHHH-HHHHH--HHCCCEEEECCCCCCHHHHHHHHHHHHHHHH
T ss_conf             9860577789998888999-99987--6177669951523467999999999999872


No 177
>COG5635 Predicted NTPase (NACHT family) [Signal transduction mechanisms]
Probab=93.58  E-value=0.057  Score=33.58  Aligned_cols=32  Identities=28%  Similarity=0.348  Sum_probs=23.0

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHHCCCCHH
Q ss_conf             88799848889967999999999982478988
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLLLANAHPS   63 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~   63 (242)
                      +.++|+|.|||||||.+-...+....+--.|+
T Consensus       223 ~~~~Ilg~pGsGKTtfl~~lA~~~~~~~~~~~  254 (824)
T COG5635         223 AKLLILGAPGSGKTTFLQRLALWLAQRTLEPE  254 (824)
T ss_pred             HHEEEECCCCCCHHHHHHHHHHHHHHCCCCCC
T ss_conf             23334468887626799999999741525665


No 178
>TIGR02881 spore_V_K stage V sporulation protein K; InterPro: IPR014232   Proteins in this entry include the stage V sporulation protein K (SpoVK), a close homologue of the Rubisco expression protein CbbX (IPR000470 from INTERPRO), and are members of an ATPase family associated with various cellular activities. These proteins are strictly limited to bacterial endospore-forming species, but are not found universally among members of this group; they are missing from the Clostridium species..
Probab=93.55  E-value=0.027  Score=35.92  Aligned_cols=192  Identities=13%  Similarity=0.135  Sum_probs=77.9

Q ss_pred             HHHHCCCHHHHHHHC-----C-CCCEEEEECCCCCHHHHHHHHHHHHHHC-CCCH-------HH-HHHHHHHHHHHHHHH
Q ss_conf             323509489999827-----6-8887998488899679999999999824-7898-------89-566776878999999
Q 537021.9.peg.4   15 DLISQTKSEQLLASD-----P-TRSAWVSANAGSGKTHILVQRVLRLLLA-NAHP-------ST-LLCLTHTKAAAAEMS   79 (242)
Q Consensus        15 ~~~~~~~~qq~~a~~-----~-~~~~lV~A~aGSGKT~tL~~rv~~ll~~-g~~P-------~~-IL~lTFT~kAA~El~   79 (242)
                      |+..+..=|++++..     + .-+-+=-+.|||||||+- ..+.+|..+ ||-+       |+ =||==|==-.|.--|
T Consensus        20 EiYA~i~i~~kR~~~GLk~~~~~LHMiFKGNPGTGKTTVA-R~~gklf~emnvL~KGH~iE~ERADLVGEYIGHTAqkTR   98 (261)
T TIGR02881        20 EIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVA-RLLGKLFKEMNVLSKGHLIEVERADLVGEYIGHTAQKTR   98 (261)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHH-HHHHHHHHHCCCCCCCCEEEEEECCCCCCCCCCHHHHHH
T ss_conf             9999999988887510114884478774278668438999-999999853375678867887622212232030048999


Q ss_pred             HHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             99999967752167422146499731479997899999999999983100132111799998755542897588999851
Q 537021.9.peg.4   80 HRVLEIITAWSHLSDEILSAEITKIQGKKPNKSDMSKARHLLITILETPGGLKVQTIHAFCEAIMQQFPLEANITSHFAI  159 (242)
Q Consensus        80 ~RI~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~ilr~~~~~~gl~~~f~i  159 (242)
                      +-|.+.+|..       ++.+-...+-+--....-++|...+-+.-++...-.|..+=++...--.-....-||++.|-|
T Consensus        99 e~~kkA~GGv-------LFiDEAYSLaRGGEKDFGKEAIDtLVK~mEd~~~~lvlILAGY~~EM~yFL~~NPGL~SRFPi  171 (261)
T TIGR02881        99 EVIKKALGGV-------LFIDEAYSLARGGEKDFGKEAIDTLVKAMEDQRNELVLILAGYSDEMDYFLSLNPGLRSRFPI  171 (261)
T ss_pred             HHHHHHCCCC-------HHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHCCCCCCCCCCC
T ss_conf             9999863880-------055777776148888766208889999876156986899708768999986207797776650


Q ss_pred             CC---CHHHHHHHHHHHHHHHHHHHCC---CHHHHHHHHHHHHHH----CCH-HHHHHHHHHHHHH
Q ss_conf             68---3789999999999999984327---803599999999941----696-7799999999984
Q 537021.9.peg.4  160 AD---EEQSKKLIEEAKKSTLASIMLD---NNEELKKAFYEILEI----SND-EDIETLISDIISN  214 (242)
Q Consensus       160 ~d---~~~~~~l~~~~~~~~~~~~~~~---~~~~~~~~l~~~~~~----~~~-~~~~~~l~~~l~~  214 (242)
                      .-   |-+..+|+.-+-.-+-+....-   ..+.+...+....+.    .++ .-++|++..++..
T Consensus       172 ~i~FPdY~~eeL~~Ia~~m~~~ReY~Lt~~A~~~lr~~l~~~~~~~~~~~sNaR~vRN~iE~AIR~  237 (261)
T TIGR02881       172 SIDFPDYTVEELMEIAERMVKEREYKLTEEAKWKLREHLAKVDQLSSREFSNARYVRNIIEKAIRR  237 (261)
T ss_pred             EEECCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHH
T ss_conf             541889988899999999986464225788999999997412444210057620124288999999


No 179
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=93.54  E-value=0.29  Score=28.61  Aligned_cols=41  Identities=27%  Similarity=0.414  Sum_probs=31.0

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             888799848889967999999999982478988956677687
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTK   72 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~   72 (242)
                      .+.+||.=..|||||+|.+..+-+|+..| ...+||-|.=.+
T Consensus       436 ~rraLl~MATGTGKTrtaial~~rLlk~~-~~kRILFLvDR~  476 (1126)
T PRK11448        436 QREILLAMATGTGKTRTAIALMYRLLKAK-RFKRILFLVDRR  476 (1126)
T ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCC-CCCEEEEECCHH
T ss_conf             85468872488858989999999999658-767257985658


No 180
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=93.51  E-value=0.068  Score=33.06  Aligned_cols=48  Identities=10%  Similarity=0.057  Sum_probs=32.4

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             799848889967999999999982478988956677687899999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHR   81 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~R   81 (242)
                      +-.++|-|.||||||+...+++..++-+..=|-+=||==.|+..++.-
T Consensus       244 IALVGPTGVGKTTTIAKLAArf~~~~KkVALITtDTYRIGAVEQLKTY  291 (436)
T PRK11889        244 IALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDY  291 (436)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHCCCCEEEEEECCCCHHHHHHHHHHH
T ss_conf             999899998889999999999861698089998066347699999999


No 181
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=93.49  E-value=0.091  Score=32.18  Aligned_cols=32  Identities=25%  Similarity=0.343  Sum_probs=20.8

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHH-HCCCCHHHHH
Q ss_conf             79984888996799999999998-2478988956
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLL-LANAHPSTLL   66 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll-~~g~~P~~IL   66 (242)
                      ++|.++|||||||.- .+++... ..-++.+.+|
T Consensus         2 i~l~G~PGsGKgTqa-~~La~~~~~~~is~gdlL   34 (194)
T cd01428           2 ILLLGPPGSGKGTQA-ERLAKKYGLPHISTGDLL   34 (194)
T ss_pred             EEEECCCCCCHHHHH-HHHHHHHCCEEECHHHHH
T ss_conf             899899999879999-999999798467688999


No 182
>PRK06696 uridine kinase; Validated
Probab=93.48  E-value=0.27  Score=28.91  Aligned_cols=34  Identities=21%  Similarity=0.248  Sum_probs=24.7

Q ss_pred             HHHCCCCCEE--EEECCCCCHHHHHHHHHHHHHH-CCC
Q ss_conf             9827688879--9848889967999999999982-478
Q 537021.9.peg.4   26 LASDPTRSAW--VSANAGSGKTHILVQRVLRLLL-ANA   60 (242)
Q Consensus        26 ~a~~~~~~~l--V~A~aGSGKT~tL~~rv~~ll~-~g~   60 (242)
                      ....|++|++  |-+++|||||| ++++++..+. .|.
T Consensus        19 ~~~~p~rpl~VgIdG~~gSGKTT-lA~~La~~L~~~G~   55 (227)
T PRK06696         19 LTLNLTRPLRVAIDGITASGKTT-FANELAEEIKKRGR   55 (227)
T ss_pred             HHCCCCCCEEEEEECCCCCCHHH-HHHHHHHHHHHCCC
T ss_conf             83599986899977899878799-99999999974699


No 183
>KOG0741 consensus
Probab=93.43  E-value=0.089  Score=32.24  Aligned_cols=55  Identities=24%  Similarity=0.317  Sum_probs=37.2

Q ss_pred             HHHHHHHC--CCCCEEEEECCCCCHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHHH
Q ss_conf             89999827--688879984888996799999999998---24789889566776878999
Q 537021.9.peg.4   22 SEQLLASD--PTRSAWVSANAGSGKTHILVQRVLRLL---LANAHPSTLLCLTHTKAAAA   76 (242)
Q Consensus        22 ~qq~~a~~--~~~~~lV~A~aGSGKT~tL~~rv~~ll---~~g~~P~~IL~lTFT~kAA~   76 (242)
                      -||...++  +..++|+.++||||||..-+.....--   ..-++|+.+..++=+-|.+.
T Consensus       527 v~qvk~s~~s~lvSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKiiSpe~miG~sEsaKc~~  586 (744)
T KOG0741         527 VQQVKNSERSPLVSVLLEGPPGSGKTALAAKIALSSDFPFVKIISPEDMIGLSESAKCAH  586 (744)
T ss_pred             HHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHHCCCCEEEEECHHHHCCCCHHHHHHH
T ss_conf             998633466763589986699887688999997527998479737787037466788999


No 184
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=93.43  E-value=0.13  Score=31.16  Aligned_cols=53  Identities=23%  Similarity=0.218  Sum_probs=37.6

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHH-HHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             688879984888996799999999-99824789889566776878999999999999
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVL-RLLLANAHPSTLLCLTHTKAAAAEMSHRVLEI   85 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~-~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~   85 (242)
                      -++.++|+||.|||||.....-.+ +....|   .++.+.|-|+..-..+-++....
T Consensus        33 ~~~~~~iEapTGtGKTl~yL~~al~~~~~~~---~~viist~t~~lq~q~~~~~~~~   86 (654)
T COG1199          33 GGEGLLIEAPTGTGKTLAYLLPALAYAREEG---KKVIISTRTKALQEQLLEEDLPI   86 (654)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHHCC---CEEEEECCCHHHHHHHHHHHHHH
T ss_conf             6871899889985175999999998677529---75999899576888987621345


No 185
>TIGR01242 26Sp45 26S proteasome subunit P45 family; InterPro: IPR005937    Intracellular proteins, including short-lived proteins such as cyclin, Mos, Myc, p53, NF-kappaB, and IkappaB, are degraded by the ubiquitin-proteasome system. The 26S proteasome (a 2 MDa complex) is made up of two subcomplexes: the 20S proteasome and the regulatory complex. The former is a 700 kDa cylindrical protease complex consisting of four stacks of heptameric rings with 28 subunits (i.e., 7777) with molecular masses of about 20-35 kDa, whereas the latter is a 700-1000 kDa complex consisting of at least 18 subunits with molecular masses of 28-110 kDa, including 6 putative ATPases (Rpt1-Rpt6) and 12 non-ATPase subunits (Rpn1-12).     Members of the 26S proteasome subunit P45 family: ATPase p45/Sug1/Rpt6 may be phosphorylated within the proteasome. This phosphorylation event may play a key role in ATP-dependent proteolysis because a good correlation exists between the inhibition pattern of protein kinase inhibitors against the phosphorylation of p45 and that against the ATP-dependent proteolytic activity , .   More information about these protein can be found at Protein of the Month: AAA ATPases .; GO: 0016787 hydrolase activity, 0030163 protein catabolic process, 0005634 nucleus, 0005737 cytoplasm.
Probab=93.42  E-value=0.043  Score=34.45  Aligned_cols=46  Identities=20%  Similarity=0.328  Sum_probs=30.0

Q ss_pred             HHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             982768887998488899679999999999824789889566776878999999999
Q 537021.9.peg.4   26 LASDPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRV   82 (242)
Q Consensus        26 ~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI   82 (242)
                      .-.+|.+.||..+|||||||- |+.-+++-..          -||-+--+.|+....
T Consensus       151 vGI~PPKGvLLyGPPGtGKTL-lAKAvA~et~----------ATFIrvVgSElV~Ky  196 (364)
T TIGR01242       151 VGIEPPKGVLLYGPPGTGKTL-LAKAVAHETN----------ATFIRVVGSELVRKY  196 (364)
T ss_pred             CCCCCCCCEEEECCCCCCHHH-HHHHHHCCCC----------CEEEEEEHHHHHHHH
T ss_conf             288989865700757976889-9998631455----------126886044444444


No 186
>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=93.40  E-value=0.096  Score=32.00  Aligned_cols=55  Identities=18%  Similarity=0.256  Sum_probs=29.9

Q ss_pred             CCCCCEEEEECCCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             76888799848889967999999999982-478988956677687899999999999967
Q 537021.9.peg.4   29 DPTRSAWVSANAGSGKTHILVQRVLRLLL-ANAHPSTLLCLTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        29 ~~~~~~lV~A~aGSGKT~tL~~rv~~ll~-~g~~P~~IL~lTFT~kAA~El~~RI~~~l~   87 (242)
                      ...|.++|.+.+|||||+.+ ...+.-+. ..+.+   ..+..|.-...|+-.-|...++
T Consensus        41 ~~~g~~lltGe~GtGKTtll-r~l~~~l~~~~~~~---~~i~~~~l~~~~ll~~i~~~lg   96 (269)
T TIGR03015        41 QREGFILITGEVGAGKTTLI-RNLLKRLDQERVVA---AKLVNTRVDAEDLLRMVAADFG   96 (269)
T ss_pred             CCCCEEEEECCCCCCHHHHH-HHHHHHCCCCCEEE---EEECCCCCCHHHHHHHHHHHCC
T ss_conf             48965999729989889999-99998459345489---9976999999999999999859


No 187
>KOG0924 consensus
Probab=93.40  E-value=0.082  Score=32.49  Aligned_cols=55  Identities=24%  Similarity=0.323  Sum_probs=42.2

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHCC---------CCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             688879984888996799999999998247---------8988956677687899999999999967
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLAN---------AHPSTLLCLTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g---------~~P~~IL~lTFT~kAA~El~~RI~~~l~   87 (242)
                      .+.-|+|.+--||||||.|+.   +|...|         ..|.++.+++--+.-+.||--.|....|
T Consensus       370 ~n~vvvivgETGSGKTTQl~Q---yL~edGY~~~GmIGcTQPRRvAAiSVAkrVa~EM~~~lG~~VG  433 (1042)
T KOG0924         370 ENQVVVIVGETGSGKTTQLAQ---YLYEDGYADNGMIGCTQPRRVAAISVAKRVAEEMGVTLGDTVG  433 (1042)
T ss_pred             HCCEEEEEECCCCCCHHHHHH---HHHHCCCCCCCEEEECCCHHHHHHHHHHHHHHHHCCCCCCCCC
T ss_conf             385799993588985016679---9986224558715435722789999999999985876453112


No 188
>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=93.35  E-value=0.11  Score=31.51  Aligned_cols=56  Identities=16%  Similarity=0.124  Sum_probs=39.3

Q ss_pred             HHHHCCCCC--EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHH---HHHHHHHHHHHHHHHH
Q ss_conf             998276888--7998488899679999999999824789889566---7768789999999999
Q 537021.9.peg.4   25 LLASDPTRS--AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLC---LTHTKAAAAEMSHRVL   83 (242)
Q Consensus        25 ~~a~~~~~~--~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~---lTFT~kAA~El~~RI~   83 (242)
                      ......++|  .|+.+-=|+||||||.--.-++..+|   -+++.   =||-=+|.+-|..=..
T Consensus        74 ~~~~~~~kp~Vil~VGVNG~GKTTTIaKLA~~l~~~G---k~V~laAgDTFRAAA~EQL~~Wa~  134 (284)
T TIGR00064        74 EELPEEKKPNVILFVGVNGVGKTTTIAKLANKLKKQG---KSVLLAAGDTFRAAAIEQLEVWAK  134 (284)
T ss_pred             HHCCCCCCCEEEEEEEEECCCHHHHHHHHHHHHHHCC---CEEEEECCCHHHHHHHHHHHHHHH
T ss_conf             4301478977999984408860102889999998749---908998275247999999999898


No 189
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=93.34  E-value=0.05  Score=34.00  Aligned_cols=69  Identities=17%  Similarity=0.216  Sum_probs=39.3

Q ss_pred             HHCCCHHHHHHHC-------CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             3509489999827-------688879984888996799999999998247898895667768789999999999996775
Q 537021.9.peg.4   17 ISQTKSEQLLASD-------PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITAW   89 (242)
Q Consensus        17 ~~~~~~qq~~a~~-------~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~   89 (242)
                      ..++-+|..+|..       -.+.-..++.-|||||+|+++-|... ...     -|+++..+-=|+.+-.-....+.+.
T Consensus        11 f~PaGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~AnVI~~~-~rP-----tLV~AhNKTLAaQLy~Efk~fFP~N   84 (663)
T COG0556          11 FKPAGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMANVIAKV-QRP-----TLVLAHNKTLAAQLYSEFKEFFPEN   84 (663)
T ss_pred             CCCCCCCHHHHHHHHHHHHCCCEEEEEEEECCCCCHHHHHHHHHHH-CCC-----EEEEECCHHHHHHHHHHHHHHCCCC
T ss_conf             8999986799999998886386025886203688310799999986-897-----1998255547999999999768676


Q ss_pred             HC
Q ss_conf             21
Q 537021.9.peg.4   90 SH   91 (242)
Q Consensus        90 ~~   91 (242)
                      +-
T Consensus        85 aV   86 (663)
T COG0556          85 AV   86 (663)
T ss_pred             CE
T ss_conf             45


No 190
>PRK08084 DNA replication initiation factor; Provisional
Probab=93.32  E-value=0.18  Score=30.05  Aligned_cols=39  Identities=13%  Similarity=0.246  Sum_probs=25.0

Q ss_pred             CCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHH
Q ss_conf             768887998488899679999999999824789889566776
Q 537021.9.peg.4   29 DPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTH   70 (242)
Q Consensus        29 ~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTF   70 (242)
                      .+..++.+.+++|+|||+.|-.-.......|   .++..++.
T Consensus        43 ~~~~~l~l~G~~G~GKTHLLqA~~~~~~~~~---~~~~yl~~   81 (235)
T PRK08084         43 EHSGYIYLWGREGAGRSHLLHAACAELSQRG---DAVGYVPL   81 (235)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHHHCCC---CCEEEEEH
T ss_conf             8987699989999888999999999997079---85799877


No 191
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=93.28  E-value=0.12  Score=31.38  Aligned_cols=52  Identities=17%  Similarity=0.094  Sum_probs=33.9

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             79984888996799999999998247898895667768789999999999996
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEII   86 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l   86 (242)
                      +++.+-=|||||||.+....++-.+|-+|-=+-+=||-.+|... ..-+.+.+
T Consensus       100 im~vGlqGsGKTTT~aKLA~~~kk~g~kv~lvaaDt~RpaA~eQ-L~~la~~~  151 (433)
T PRK00771        100 ILLVGLQGSGKTTTAAKLARYFQKKGLKVGVICADTWRPGAYEQ-LKQLCEKI  151 (433)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCHHHHHH-HHHHHHHC
T ss_conf             99973788978999999999999779946785067883689999-99999863


No 192
>KOG0744 consensus
Probab=93.25  E-value=0.071  Score=32.95  Aligned_cols=88  Identities=17%  Similarity=0.250  Sum_probs=44.6

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCHHHHHHHC---CCCCEEEEECCCCCHHHHHHHHHHHHH--HCCCCH---------HHHH
Q ss_conf             97310078888897323509489999827---688879984888996799999999998--247898---------8956
Q 537021.9.peg.4    1 MIYHNSFQEHSETIDLISQTKSEQLLASD---PTRSAWVSANAGSGKTHILVQRVLRLL--LANAHP---------STLL   66 (242)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~qq~~a~~---~~~~~lV~A~aGSGKT~tL~~rv~~ll--~~g~~P---------~~IL   66 (242)
                      .||-++..|+--.+-..+..=++-+.-..   -++-+|+-+|||||||..--.....|-  .++--+         .++-
T Consensus       144 Liyds~lK~~ll~Ya~s~l~fsek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinshsLF  223 (423)
T KOG0744         144 LIYDSNLKERLLSYAASALLFSEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSHSLF  223 (423)
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEEEECCCCCCHHHHHHHHHHHHEEEECCCCCCCEEEEEEHHHHH
T ss_conf             76413289999999999988876178874466414899857999882279999987514652376444069997046788


Q ss_pred             H--HHHHHHHHHHHHHHHHHHHHH
Q ss_conf             6--776878999999999999677
Q 537021.9.peg.4   67 C--LTHTKAAAAEMSHRVLEIITA   88 (242)
Q Consensus        67 ~--lTFT~kAA~El~~RI~~~l~~   88 (242)
                      -  ..=+-|-.+-|-..|.+.+.+
T Consensus       224 SKWFsESgKlV~kmF~kI~ELv~d  247 (423)
T KOG0744         224 SKWFSESGKLVAKMFQKIQELVED  247 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             988712113899999999999717


No 193
>KOG0727 consensus
Probab=93.19  E-value=0.1  Score=31.90  Aligned_cols=126  Identities=21%  Similarity=0.202  Sum_probs=57.2

Q ss_pred             HHHHHHHHHHHHCCCHHHHHH-HCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             788888973235094899998-2768887998488899679999999999824789889566776878999999999999
Q 537021.9.peg.4    7 FQEHSETIDLISQTKSEQLLA-SDPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEI   85 (242)
Q Consensus         7 ~~~~~~~~~~~~~~~~qq~~a-~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~   85 (242)
                      -||.-++.++--.-.+-.+++ .||.+.||..++||||||- |+..|++.-..  .-=++..--|-.|-..|=-.-++..
T Consensus       164 kqeireavelplt~~~ly~qigidpprgvllygppg~gktm-l~kava~~t~a--~firvvgsefvqkylgegprmvrdv  240 (408)
T KOG0727         164 KQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTM-LAKAVANHTTA--AFIRVVGSEFVQKYLGEGPRMVRDV  240 (408)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHCCCCCCCEEEECCCCCCHHH-HHHHHHHCCCH--HEEEECCHHHHHHHHCCCCHHHHHH
T ss_conf             89999888365307889997088998622775799975789-99998612611--1446301899999855483899999


Q ss_pred             HHHHHC-CCCCCCHHHHHHHHCCCCC--HHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             677521-6742214649973147999--7899999999999983100132111
Q 537021.9.peg.4   86 ITAWSH-LSDEILSAEITKIQGKKPN--KSDMSKARHLLITILETPGGLKVQT  135 (242)
Q Consensus        86 l~~~~~-~~~~~~~~~l~~~~~~~~~--~~~~~~~~~ll~~~l~~~~~~~i~T  135 (242)
                      +.-... .+..-+-..+..+....++  .....+.++.+-..+.+.+++.-.|
T Consensus       241 frlakenapsiifideidaiatkrfdaqtgadrevqril~ellnqmdgfdq~~  293 (408)
T KOG0727         241 FRLAKENAPSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQTT  293 (408)
T ss_pred             HHHHHCCCCCEEEEEHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCCC
T ss_conf             99876169837986224567664124444631899999999997514767666


No 194
>TIGR00602 rad24 checkpoint protein rad24; InterPro: IPR004582    To be effective as a mechanism that preserves genomic integrity, the DNA damage checkpoint must be extremely sensitive in its ability to detect DNA damage. In Saccharomyces cerevisiae the Ddc1/Rad17/Mec3 complex and Rad24 are DNA damage checkpoint components which may promote checkpoint activation by "sensing" DNA damage directly . Rad24 shares sequence homology with RF-c, a protein that recognises DNA template/RNA primer hybrids during DNA replication. The Ddc1 complex has structural homology to proliferating-cell nuclear antigen (PCNA), which clamps onto DNA and confers processivity to DNA polymerases delta and epsilon. Rad24 is postulated to recognise DNA lesions and then recruit the Ddc1 complex to generate checkpoint signals. ; GO: 0006281 DNA repair, 0007049 cell cycle, 0005634 nucleus.
Probab=93.18  E-value=0.053  Score=33.84  Aligned_cols=45  Identities=16%  Similarity=0.135  Sum_probs=25.7

Q ss_pred             HHHHHHHCCCHHHHHHH-CCCCC-EEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             89732350948999982-76888-79984888996799999999998
Q 537021.9.peg.4   12 ETIDLISQTKSEQLLAS-DPTRS-AWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        12 ~~~~~~~~~~~qq~~a~-~~~~~-~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      +.-++-.++..+-.-.. +-+|+ +||.+|||+||||+|--.---|.
T Consensus        97 Ki~~v~~wl~a~~Le~~~~rGGs~LLi~GPsGCgKsT~~k~LsKelg  143 (670)
T TIGR00602        97 KIEEVEEWLKAQVLESAKKRGGSILLITGPSGCGKSTTIKILSKELG  143 (670)
T ss_pred             HHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf             79999999752002045667753788417558844789999988864


No 195
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=93.17  E-value=0.097  Score=31.99  Aligned_cols=34  Identities=26%  Similarity=0.264  Sum_probs=24.1

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHH-CCCCHHHHHHHH
Q ss_conf             799848889967999999999982-478988956677
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLL-ANAHPSTLLCLT   69 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~-~g~~P~~IL~lT   69 (242)
                      +..++|.|.||||||+...++... +|-  ++|..||
T Consensus       179 ~alVGPTGVGKTTTiAKLAAr~~l~~g~--~kVaLIT  213 (404)
T PRK06995        179 FALVGPTGVGKTTTTAKLAARCVMRHGA--SKVALLT  213 (404)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHHCC--CCEEEEE
T ss_conf             8986688876375899999999998389--8379997


No 196
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=93.15  E-value=0.14  Score=30.88  Aligned_cols=45  Identities=24%  Similarity=0.285  Sum_probs=29.8

Q ss_pred             HHHHHHHHCCCHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             8897323509489999827688879984888996799999999998
Q 537021.9.peg.4   11 SETIDLISQTKSEQLLASDPTRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        11 ~~~~~~~~~~~~qq~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      ++...-+.....+.. +.-+.|-+..++|.|-||||||+...++..
T Consensus       184 ~~~l~~~~~~~~~~~-~~~~~~vi~LVGPTGVGKTTTlAKLAar~~  228 (407)
T COG1419         184 SEKLRKLLLSLIENL-IVEQKRVIALVGPTGVGKTTTLAKLAARYV  228 (407)
T ss_pred             HHHHHHHHHHHCCCC-CCCCCCEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf             999999887644111-124685799989988758879999999997


No 197
>KOG0327 consensus
Probab=93.13  E-value=0.22  Score=29.44  Aligned_cols=65  Identities=17%  Similarity=0.275  Sum_probs=43.6

Q ss_pred             HCCCHHHHHHH--CCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             50948999982--7688879984888996799999999998247898895667768789999999999996
Q 537021.9.peg.4   18 SQTKSEQLLAS--DPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEII   86 (242)
Q Consensus        18 ~~~~~qq~~a~--~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l   86 (242)
                      -++.=||+++.  ..+..+.+.|-+|||||.+-.--++..+.-..+-.+++.+.+|+    ||..++.+..
T Consensus        48 kPSaIQqrAI~p~i~G~dv~~qaqsgTgKt~af~i~ilq~iD~~~ke~qalilaPtr----eLa~q~~~v~  114 (397)
T KOG0327          48 KPSAIQQRAILPCIKGHDVIAQAQSGTGKTAAFLISILQQIDMSVKETQALILAPTR----ELAQQIQKVV  114 (397)
T ss_pred             CCHHHHHCCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHCCCCHHHHHHHHHCCHH----HHHHHHHHHH
T ss_conf             822777634355346874467630254411466788875137416777798861327----8889899998


No 198
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=93.13  E-value=0.29  Score=28.61  Aligned_cols=68  Identities=18%  Similarity=0.238  Sum_probs=40.5

Q ss_pred             CCCC-EEEEECCCCCHHHHHHHHHHHHHH--CCCCHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHH
Q ss_conf             6888-799848889967999999999982--4789889566--77687899999999999967752167422146499
Q 537021.9.peg.4   30 PTRS-AWVSANAGSGKTHILVQRVLRLLL--ANAHPSTLLC--LTHTKAAAAEMSHRVLEIITAWSHLSDEILSAEIT  102 (242)
Q Consensus        30 ~~~~-~lV~A~aGSGKT~tL~~rv~~ll~--~g~~P~~IL~--lTFT~kAA~El~~RI~~~l~~~~~~~~~~~~~~l~  102 (242)
                      +.|. .+++++-||||||+| .-|-+|+.  .|    +|+.  -.-++--..|||-+|.=.++...-.++-+....+.
T Consensus        25 ~~gef~vliGpSGsGKTTtL-kMINrLiept~G----~I~i~g~~i~~~d~~~LRr~IGYviQqigLFPh~Tv~eNIa   97 (309)
T COG1125          25 EEGEFLVLIGPSGSGKTTTL-KMINRLIEPTSG----EILIDGEDISDLDPVELRRKIGYVIQQIGLFPHLTVAENIA   97 (309)
T ss_pred             CCCEEEEEECCCCCCHHHHH-HHHHCCCCCCCC----EEEECCEECCCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHH
T ss_conf             59728999878997578799-999605588885----38989904465888999875335422215677635987787


No 199
>PRK09270 frcK putative fructose transport system kinase; Reviewed
Probab=93.12  E-value=0.14  Score=30.88  Aligned_cols=30  Identities=20%  Similarity=0.465  Sum_probs=21.1

Q ss_pred             HCCCCCEE--EEECCCCCHHHHHHHHHHHHHHC
Q ss_conf             27688879--98488899679999999999824
Q 537021.9.peg.4   28 SDPTRSAW--VSANAGSGKTHILVQRVLRLLLA   58 (242)
Q Consensus        28 ~~~~~~~l--V~A~aGSGKT~tL~~rv~~ll~~   58 (242)
                      .+|+++++  |.++|||||||.- ..++..|.+
T Consensus        29 ~~~~rR~lIgIaG~pGSGKSTlA-~~l~~~L~~   60 (230)
T PRK09270         29 AEPQRRTVVGIAGPPGAGKSTLA-ETLWEALSQ   60 (230)
T ss_pred             CCCCCEEEEEEECCCCCCHHHHH-HHHHHHHHH
T ss_conf             59997189999899988999999-999999862


No 200
>PRK10867 signal recognition particle protein; Provisional
Probab=93.09  E-value=0.094  Score=32.06  Aligned_cols=76  Identities=16%  Similarity=0.124  Sum_probs=36.8

Q ss_pred             HHHHHHHHCCCHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             88973235094899998276888799848889967999999999982-478988956677687899999999999967
Q 537021.9.peg.4   11 SETIDLISQTKSEQLLASDPTRSAWVSANAGSGKTHILVQRVLRLLL-ANAHPSTLLCLTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        11 ~~~~~~~~~~~~qq~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~-~g~~P~~IL~lTFT~kAA~El~~RI~~~l~   87 (242)
                      .++++++...++.-.....+..-+++.+-=|||||||++....++-. .|-++-=+-|=||--+|...+ .-+.+.++
T Consensus        80 ~eL~~lLg~~~~~l~~~~~~p~VIm~vGLqGsGKTTT~aKLA~~lk~k~~k~vllvaaDt~RpaA~eQL-~~la~~~~  156 (453)
T PRK10867         80 NELVAAMGEENQTLNLAAQPPAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVYRPAAIKQL-ETLAEQVG  156 (453)
T ss_pred             HHHHHHHCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHH-HHHHHHCC
T ss_conf             999998588876663378999699997468885185899999999973898379855887705899999-99998519


No 201
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=93.08  E-value=0.29  Score=28.65  Aligned_cols=48  Identities=21%  Similarity=0.279  Sum_probs=35.8

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             8887998488899679999999999824789889566776878999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMS   79 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~   79 (242)
                      ...+||+=.+|||||+|-...+-+|+..| ...+||-++=+|.=...-.
T Consensus       185 ~~raLlvMATGTGKTrTAiaii~rL~r~~-~~KRVLFLaDR~~Lv~QA~  232 (875)
T COG4096         185 QNRALLVMATGTGKTRTAIAIIDRLIKSG-WVKRVLFLADRNALVDQAY  232 (875)
T ss_pred             CCEEEEEEECCCCCCEEHHHHHHHHHHCC-HHHEEEEEECHHHHHHHHH
T ss_conf             74489997058885231999999999614-1430567612678999999


No 202
>pfam05876 Terminase_GpA Phage terminase large subunit (GpA). This family consists of several phage terminase large subunit proteins as well as related sequences from several bacterial species. The DNA packaging enzyme of bacteriophage lambda, terminase, is a heteromultimer composed of a small subunit, gpNu1, and a large subunit, gpA, products of the Nu1 and A genes, respectively. Terminase is involved in the site-specific binding and cutting of the DNA in the initial stages of packaging. It is now known that gpA is actively involved in late stages of packaging, including DNA translocation, and that this enzyme contains separate functional domains for its early and late packaging activities.
Probab=93.05  E-value=0.12  Score=31.35  Aligned_cols=53  Identities=23%  Similarity=0.308  Sum_probs=44.3

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH-HHHHHHH
Q ss_conf             887998488899679999999999824789889566776878999999-9999996
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMS-HRVLEII   86 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~-~RI~~~l   86 (242)
                      .-|.|..||-+|||.++.+-+.|.+..  +|..||++..|..+|+++. +||...+
T Consensus        34 ~~V~~~k~aQ~GkT~~~~n~igy~i~~--~P~p~l~v~Pt~~~a~~~s~~rl~Pmi   87 (552)
T pfam05876        34 ERVVFMKSAQVGKTELLLNWIGYFIDH--DPAPMLVVQPTDDDAKRFSKDRLDPMI   87 (552)
T ss_pred             EEEEEEECCCCCHHHHHHHHHHHHHHH--CCCCEEEEECCHHHHHHHHHHHHHHHH
T ss_conf             499999578703889999999886630--898879994189999999999899998


No 203
>KOG1532 consensus
Probab=93.00  E-value=0.11  Score=31.63  Aligned_cols=32  Identities=28%  Similarity=0.248  Sum_probs=24.6

Q ss_pred             CCCC--EEEEECCCCCHHHHHHHHHHHHHHCCCC
Q ss_conf             6888--7998488899679999999999824789
Q 537021.9.peg.4   30 PTRS--AWVSANAGSGKTHILVQRVLRLLLANAH   61 (242)
Q Consensus        30 ~~~~--~lV~A~aGSGKT~tL~~rv~~ll~~g~~   61 (242)
                      +.+|  ++|++=|||||||-+-..+.++-.++.+
T Consensus        16 ~~~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~p   49 (366)
T KOG1532          16 IQRPVIILVVGMAGSGKTTFMQRLNSHLHAKKTP   49 (366)
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHHHHHCCCC
T ss_conf             5687079999447788413999999998623699


No 204
>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=92.99  E-value=0.14  Score=30.90  Aligned_cols=32  Identities=25%  Similarity=0.278  Sum_probs=27.4

Q ss_pred             HCCCCCEEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             27688879984888996799999999998247
Q 537021.9.peg.4   28 SDPTRSAWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        28 ~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      ..+....++-+.+|||||.+|.+-+.+...+|
T Consensus        20 ~~~~~r~vL~G~~GsGKS~~L~q~v~~A~~~~   51 (274)
T pfam10236        20 SKKVVRFVLTGERGSGKSVLLAQAMAYALTQG   51 (274)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf             79951899889799779999999999998599


No 205
>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=92.94  E-value=0.16  Score=30.43  Aligned_cols=37  Identities=24%  Similarity=0.308  Sum_probs=24.1

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             888799848889967999999999982478988956677
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLT   69 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lT   69 (242)
                      ..++|..++||||||.. +.|+..++ -...+++.+-+|
T Consensus        22 ~H~lLl~GpPG~GKTml-A~rl~~iL-P~l~~~e~le~~   58 (207)
T pfam01078        22 GHNLLMIGPPGSGKTML-AKRLPGIL-PPLTEQEALEVT   58 (207)
T ss_pred             CCCEEEECCCCCCHHHH-HHHHHCCC-CCCCHHHHHHHH
T ss_conf             87589788998029999-97630148-998789988777


No 206
>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=92.93  E-value=0.04  Score=34.67  Aligned_cols=34  Identities=15%  Similarity=0.150  Sum_probs=20.9

Q ss_pred             EEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             99848889967999999999982478988956677
Q 537021.9.peg.4   35 WVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLT   69 (242)
Q Consensus        35 lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lT   69 (242)
                      =|.+|+|||||| ++..+..++.......++.+++
T Consensus         3 GIaG~sgSGKST-~a~~l~~~l~~~~~~~~v~ii~   36 (220)
T cd02025           3 GIAGSVAVGKST-TARVLQALLSRWPDHPNVELIT   36 (220)
T ss_pred             EEECCCCCCHHH-HHHHHHHHHHHCCCCCCEEEEE
T ss_conf             978899877999-9999999860026999489997


No 207
>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]
Probab=92.92  E-value=0.18  Score=30.13  Aligned_cols=52  Identities=17%  Similarity=0.191  Sum_probs=33.5

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             879984888996799999999998247-8988956677687899999999999
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLLLAN-AHPSTLLCLTHTKAAAAEMSHRVLE   84 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll~~g-~~P~~IL~lTFT~kAA~El~~RI~~   84 (242)
                      -++|.+-||+||||++-.-...++... +..+.+..=+=-++.--|-++-+++
T Consensus         6 vvvitGVpGvGKTTVl~~~~~~l~~~~ivNyG~~Mle~A~k~glve~rD~~Rk   58 (189)
T COG2019           6 VVVITGVPGVGKTTVLKIALKELVKHKIVNYGDLMLEIAKKKGLVEHRDEMRK   58 (189)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCEEEEHHHHHHHHHHHHCCCCCHHHHHC
T ss_conf             99997579887266999999877522000076999999998387202898852


No 208
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=92.85  E-value=0.11  Score=31.53  Aligned_cols=40  Identities=20%  Similarity=0.280  Sum_probs=30.0

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHHCC---CCHHHHHHHHHHH
Q ss_conf             8879984888996799999999998247---8988956677687
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLLLAN---AHPSTLLCLTHTK   72 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll~~g---~~P~~IL~lTFT~   72 (242)
                      -+.|++++||+||||.| .-+++++..|   ..|.++.++--.+
T Consensus       138 lntLiigpP~~GKTTlL-RdiaR~~s~g~~~~l~kkv~IiDers  180 (308)
T COG3854         138 LNTLIIGPPQVGKTTLL-RDIARLLSDGINQFLPKKVGIIDERS  180 (308)
T ss_pred             EEEEEECCCCCCHHHHH-HHHHHHHHCCCCCCCCCEEEEEECCC
T ss_conf             24699659988707799-99999863151126773289971500


No 209
>PRK02496 adk adenylate kinase; Provisional
Probab=92.76  E-value=0.13  Score=31.04  Aligned_cols=36  Identities=17%  Similarity=0.146  Sum_probs=21.5

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHH
Q ss_conf             887998488899679999999999824789889566
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLC   67 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~   67 (242)
                      ..+++.+||||||+|.-.....++=...++...+|-
T Consensus         2 ~riillG~PGSGKgTqa~~L~~~~~~~his~GdllR   37 (185)
T PRK02496          2 ARLIFLGPPGAGKGTQAVVLAEHLQIPHISTGDILR   37 (185)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHCCEEECHHHHHH
T ss_conf             189997999999899999999996997788889999


No 210
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=92.74  E-value=0.11  Score=31.51  Aligned_cols=25  Identities=20%  Similarity=0.194  Sum_probs=17.9

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             8799848889967999999999982
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      ++|..+|||||||++.-.-.-.+..
T Consensus        39 hlLf~GppG~GKTt~a~~la~~l~~   63 (318)
T PRK00440         39 HLLFAGPPGTGKTTAALALARELYG   63 (318)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             6988895998899999999999769


No 211
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=92.69  E-value=0.17  Score=30.20  Aligned_cols=55  Identities=20%  Similarity=0.151  Sum_probs=28.8

Q ss_pred             HHHHHH-CCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999982-7688879984888996799999999998247898895667768789999999999
Q 537021.9.peg.4   23 EQLLAS-DPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVL   83 (242)
Q Consensus        23 qq~~a~-~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~   83 (242)
                      =.+.+. +.-.+++.-+|||||||| |+..++.-...     +...+.=+...++++|+-|.
T Consensus        43 Lrr~i~~~~~~S~Il~GPPGtGKTT-LA~iIA~~t~~-----~F~~lsAv~sgvkdlr~ii~   98 (726)
T PRK13341         43 LRRAIKADRVGSLILYGPPGVGKTT-LARIIANHTRA-----HFSSLNAVLAGVKDLRAEVD   98 (726)
T ss_pred             HHHHHHCCCCCEEEEECCCCCCHHH-HHHHHHHHHCC-----CEEEEECCCCCHHHHHHHHH
T ss_conf             9999976999827888979999999-99999887488-----67998562037799999999


No 212
>PRK09862 putative ATP-dependent protease; Provisional
Probab=92.68  E-value=0.11  Score=31.48  Aligned_cols=47  Identities=19%  Similarity=0.231  Sum_probs=27.8

Q ss_pred             CHHHHHH---HCC-CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             4899998---276-888799848889967999999999982478988956677
Q 537021.9.peg.4   21 KSEQLLA---SDP-TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLT   69 (242)
Q Consensus        21 ~~qq~~a---~~~-~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lT   69 (242)
                      +++.+.|   +.+ ..++|..++||||||- |+.|+-.++ -...+++.+=+|
T Consensus       196 q~~akraleIAAAGgHnlLl~GpPG~GKTM-lA~rlp~IL-PpLt~~e~lEv~  246 (506)
T PRK09862        196 QEQGKRGLEITAAGGHNLLLIGPPGTGKTM-LASRINGLL-PDLSNEEALESA  246 (506)
T ss_pred             CHHHHHHHHHHHCCCCCEEEECCCCCCHHH-HHHHHHHCC-CCCCHHHHHHHH
T ss_conf             799999999974468865987699945989-997751238-998989999999


No 213
>pfam03237 Terminase_6 Terminase-like family. This family represents a group of terminase proteins.
Probab=92.65  E-value=0.081  Score=32.53  Aligned_cols=53  Identities=26%  Similarity=0.329  Sum_probs=37.2

Q ss_pred             EEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH-HHHHHHH
Q ss_conf             99848889967999999999982478988956677687899999999-9999677
Q 537021.9.peg.4   35 WVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHR-VLEIITA   88 (242)
Q Consensus        35 lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~R-I~~~l~~   88 (242)
                      ++.+|+|||||++++..+++.... .++..++++..|...+.+...+ +...+.+
T Consensus         1 ~~~ggr~~GKT~~~~~~~~~~a~~-~~~~~~~i~~~t~~~~~~~~~~~~~~~~~~   54 (380)
T pfam03237         1 NILGSRQSGKTFAFAREALRHALG-NGPKNQIILSASKAQARLEFKKGIIEIAGD   54 (380)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHH-CCCCCEEEEECCHHHHHHHHHHHHHHHHHH
T ss_conf             942645252839999999999985-899728999799999999999999996688


No 214
>pfam03215 Rad17 Rad17 cell cycle checkpoint protein.
Probab=92.65  E-value=0.075  Score=32.76  Aligned_cols=23  Identities=17%  Similarity=0.221  Sum_probs=16.4

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHH
Q ss_conf             87998488899679999999999
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRL   55 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~l   55 (242)
                      -++.-++||+|||+|+-...-.|
T Consensus        47 iLlLtGPaG~GKTTTI~lLAkeL   69 (490)
T pfam03215        47 ILLLTGPSGCGKSTTVKVLSKEL   69 (490)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
T ss_conf             89987989988999999999975


No 215
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=92.64  E-value=0.15  Score=30.68  Aligned_cols=51  Identities=27%  Similarity=0.290  Sum_probs=32.3

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHHCC-------CCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             879984888996799999999998247-------8988956677687899999999999
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLLLAN-------AHPSTLLCLTHTKAAAAEMSHRVLE   84 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll~~g-------~~P~~IL~lTFT~kAA~El~~RI~~   84 (242)
                      =++|.+--||||||-|-..+... ..|       +.|.+|-+++-.+.=|.||.+.+..
T Consensus        91 Vvii~GeTGsGKTTQiPq~~le~-g~g~~~~I~~TQPRRiAA~svA~RVA~E~~~~lG~  148 (1295)
T PRK11131         91 VVIVAGETGSGKTTQLPKICLEL-GRGIKGLIGHTQPRRLAARTVANRIAEELETELGG  148 (1295)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHC-CCCCCCEEEECCCHHHHHHHHHHHHHHHHCCCCCC
T ss_conf             69997689998788999999962-79999989977965999999999999981999899


No 216
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=92.59  E-value=0.16  Score=30.55  Aligned_cols=39  Identities=26%  Similarity=0.274  Sum_probs=27.0

Q ss_pred             HCCCCCEEEEECCCCCHHHHHHHHHHHHHH---------CCCCHHHHHH
Q ss_conf             276888799848889967999999999982---------4789889566
Q 537021.9.peg.4   28 SDPTRSAWVSANAGSGKTHILVQRVLRLLL---------ANAHPSTLLC   67 (242)
Q Consensus        28 ~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~---------~g~~P~~IL~   67 (242)
                      ...++++++.+.||+|||.. +..++..+.         .+..|+.++.
T Consensus        40 ~~~~~~vll~G~PG~gKT~l-a~~lA~~l~~~~~~i~~t~~l~p~d~~G   87 (329)
T COG0714          40 LLAGGHVLLEGPPGVGKTLL-ARALARALGLPFVRIQCTPDLLPSDLLG   87 (329)
T ss_pred             HHCCCCEEEECCCCCCHHHH-HHHHHHHHCCCCEEEECCCCCCHHHHCC
T ss_conf             98599778779898777999-9999998389818995689988888205


No 217
>TIGR02858 spore_III_AA stage III sporulation protein AA; InterPro: IPR014217   Proteins in this entry include the stage III sporulation protein AA that is encoded by one of several genes in the spoIIIA locus. This protein is only found in species that are capable of endospore formation..
Probab=92.57  E-value=0.1  Score=31.90  Aligned_cols=27  Identities=22%  Similarity=0.395  Sum_probs=24.0

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHHCCC
Q ss_conf             8799848889967999999999982478
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLLLANA   60 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll~~g~   60 (242)
                      +.||+.||=|||||.| .=+++.+.+|+
T Consensus       125 NTLiIsPPq~GKTTlL-RDlaR~~StG~  151 (282)
T TIGR02858       125 NTLIISPPQCGKTTLL-RDLARILSTGI  151 (282)
T ss_pred             EEEEECCCCCCCCCHH-HHHHHHHHCCC
T ss_conf             7888868898851048-88988860785


No 218
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=92.56  E-value=0.066  Score=33.15  Aligned_cols=95  Identities=20%  Similarity=0.317  Sum_probs=47.8

Q ss_pred             HHCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH--------HHHHHH-HCCCCCCC
Q ss_conf             827688879984888996799999999998247898895667768789999999999--------996775-21674221
Q 537021.9.peg.4   27 ASDPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVL--------EIITAW-SHLSDEIL   97 (242)
Q Consensus        27 a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~--------~~l~~~-~~~~~~~~   97 (242)
                      -.+|.+.||..++||||||- |+.-|++-.          -.||-+-+..|+.....        ..+.-. .+.+..-+
T Consensus       181 GI~PPKGVLLYGPPGTGKTL-LAkAVA~~T----------~AtFIrvvgSElVqKYiGEGaRlVRelF~lArekaPsIIF  249 (406)
T COG1222         181 GIDPPKGVLLYGPPGTGKTL-LAKAVANQT----------DATFIRVVGSELVQKYIGEGARLVRELFELAREKAPSIIF  249 (406)
T ss_pred             CCCCCCCEEEECCCCCCHHH-HHHHHHHCC----------CCEEEEECCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEE
T ss_conf             99999712766899975889-999987205----------8669994219999998341169999999987414984999


Q ss_pred             HHHHHHHHCCCCCH--HHHHHHHHHHHHHHHHHHHHH
Q ss_conf             46499731479997--899999999999983100132
Q 537021.9.peg.4   98 SAEITKIQGKKPNK--SDMSKARHLLITILETPGGLK  132 (242)
Q Consensus        98 ~~~l~~~~~~~~~~--~~~~~~~~ll~~~l~~~~~~~  132 (242)
                      ...+-.+.....+.  .-..+-++.+-.+|.+.|++.
T Consensus       250 iDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD  286 (406)
T COG1222         250 IDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFD  286 (406)
T ss_pred             EECHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCCCC
T ss_conf             8311223111136888850999999999998605889


No 219
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=92.53  E-value=0.11  Score=31.51  Aligned_cols=73  Identities=18%  Similarity=0.116  Sum_probs=43.7

Q ss_pred             HHHHHHHHCCCHHHHHHHCC--CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             88973235094899998276--88879984888996799999999998247898895667768789999999999996
Q 537021.9.peg.4   11 SETIDLISQTKSEQLLASDP--TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEII   86 (242)
Q Consensus        11 ~~~~~~~~~~~~qq~~a~~~--~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l   86 (242)
                      -+++.++..  +.+.+...+  ..-++..+--|||||||......|+-..|-+|-=+-|=||-.+|-..++ .+.+..
T Consensus        80 eELv~llG~--~~~~l~l~~~~P~vImmvGLQGsGKTTt~~KLA~~lkk~~~kvllVaaD~~RpAA~eQL~-~La~q~  154 (451)
T COG0541          80 EELVKLLGG--ENSELNLAKKPPTVILMVGLQGSGKTTTAGKLAKYLKKKGKKVLLVAADTYRPAAIEQLK-QLAEQV  154 (451)
T ss_pred             HHHHHHHCC--CCCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHH-HHHHHC
T ss_conf             999998488--876650378998589998156797486899999999974994589850567868999999-999860


No 220
>PRK06761 hypothetical protein; Provisional
Probab=92.50  E-value=0.16  Score=30.49  Aligned_cols=28  Identities=18%  Similarity=0.145  Sum_probs=19.9

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHH-HCC
Q ss_conf             88879984888996799999999998-247
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLL-LAN   59 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll-~~g   59 (242)
                      ++-++|++-||||||||. +++...| ..|
T Consensus         2 ~kLIiIEGlPGsGKSTta-~~l~d~L~~~g   30 (281)
T PRK06761          2 TKLIIIEGLPGFGKSTTA-HLLNDKLSQLK   30 (281)
T ss_pred             CCEEEEECCCCCCHHHHH-HHHHHHHHHCC
T ss_conf             617999668999801499-99999998669


No 221
>KOG0922 consensus
Probab=92.49  E-value=0.079  Score=32.60  Aligned_cols=60  Identities=20%  Similarity=0.247  Sum_probs=44.7

Q ss_pred             HCCCCCEEEEECCCCCHHHHHHHHHHHHH-H-CC----CCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             27688879984888996799999999998-2-47----8988956677687899999999999967
Q 537021.9.peg.4   28 SDPTRSAWVSANAGSGKTHILVQRVLRLL-L-AN----AHPSTLLCLTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        28 ~~~~~~~lV~A~aGSGKT~tL~~rv~~ll-~-~g----~~P~~IL~lTFT~kAA~El~~RI~~~l~   87 (242)
                      +.-+.-++|.+--||||||-|.......- . .|    +.|.+|.|+|--++-|.||..++.+..|
T Consensus        63 ve~nqvlIviGeTGsGKSTQipQyL~eaG~~~~g~I~~TQPRRVAavslA~RVAeE~~~~lG~~VG  128 (674)
T KOG0922          63 VEDNQVLIVIGETGSGKSTQIPQYLAEAGFASSGKIACTQPRRVAAVSLAKRVAEEMGCQLGEEVG  128 (674)
T ss_pred             HHHCCEEEEECCCCCCCCCCHHHHHHHCCCCCCCCEEEECCCHHHHHHHHHHHHHHHCCCCCCEEE
T ss_conf             987877999848989853327699986265668827750671677888999999985897676222


No 222
>TIGR00606 rad50 rad50; InterPro: IPR004584   Rad50 is involved in recombination, recombinational repair, and/or non-homologous end joining. It is a component of an exonuclease complex with MRE11 homologs. The Saccharomyces cerevisiae Rad50/MRE11 complex possesses single-stranded endonuclease activity and ATP-dependent double-strand-specific exonuclease activity. Rad50 provides an ATP-dependent control of MRE11 by unwinding and repositioning DNA ends into the MRE11 active site. This family is distantly related to the SbcC family of bacterial proteins.    When the N- and C-terminal globular regions of Rad50 from Pyrococcus furiosus P58301 from SWISSPROT are co-expressed in Escherichia coli, they spontaneously associate to form a stable complex that possesses ATP-binding and weak ATP-hydrolysing activities. The structure formed is known as the Rad50 catalytic domain (Rad50cd1). In the presence of ATP, two Rad50cd1 molecules interact via their ATP-binding and highly conserved 'signature' motifs to form a dimer. As ATP is buried deep within this dimer interface, the two Rad50cd1 molecules may have to completely disengage after ATP hydrolysis to allow the release of ADP before binding of a new ATP molecule. ATP binding is also accompanied by a 30° rotation of two distinct domains within each Rad50cd1 part of the dimer. This rotation and dimerisation creates a positively charged surface which, potentially, could provide a DNA-binding site capable of accommodating two DNA molecules.   The Mre11-docking site within Rad50 has been mapped to two 40-residue heptad-repeat sequences that lie adjacent to the N- and C-terminal ATPase segments. A distinct region within this domain forms a conserved hydrophobic patch that is believed to be the actual Mre11-binding site and lies immediately adjacent to the putative DNA-binding site of Rad50. As Rad50 dimerises in the presence of ATP and forms a stoichiometric complex with Mre11 (one Mre11 subunit binding to one Rad50 subunit), it is possible that the MR complex forms a closely coordinated DNA-binding unit that has the potential to act on two DNA molecules simultaneously. Within this unit, ATP-dependent control of nuclease action might be achieved via Rad50 unwinding or repositioning DNA ends into the active-site of Mre11 . ; GO: 0005524 ATP binding, 0006281 DNA repair, 0030870 Mre11 complex.
Probab=92.47  E-value=0.074  Score=32.79  Aligned_cols=29  Identities=21%  Similarity=0.307  Sum_probs=21.5

Q ss_pred             CCCE-EEEECCCCCHHHHHHHHHHHHHHCC-CC
Q ss_conf             8887-9984888996799999999998247-89
Q 537021.9.peg.4   31 TRSA-WVSANAGSGKTHILVQRVLRLLLAN-AH   61 (242)
Q Consensus        31 ~~~~-lV~A~aGSGKT~tL~~rv~~ll~~g-~~   61 (242)
                      -.|+ ++++|-||||||+|-  .+..|..| .|
T Consensus        27 ~SP~T~l~GPNG~GKTT~IE--~L~y~~TG~~P   57 (1328)
T TIGR00606        27 LSPLTLLVGPNGAGKTTIIE--ALKYVTTGDFP   57 (1328)
T ss_pred             ECCCCEEECCCCCCHHHHHH--HHHHHCCCCCC
T ss_conf             16601012778875258987--54332048898


No 223
>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=92.42  E-value=0.29  Score=28.62  Aligned_cols=29  Identities=24%  Similarity=0.319  Sum_probs=20.3

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             88879984888996799999999998247
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      ..++++.+++|||||+.+-.-.......+
T Consensus        38 ~~~l~i~G~~GsGKTHLl~a~~~~~~~~~   66 (226)
T TIGR03420        38 DRFLYLWGESGSGKSHLLQAACAAAEERG   66 (226)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHCCC
T ss_conf             88699989999988999999999986269


No 224
>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=92.42  E-value=0.22  Score=29.53  Aligned_cols=38  Identities=18%  Similarity=0.257  Sum_probs=27.4

Q ss_pred             EEEECCCCCHHHHHHHHHHHHHH----------CC-CCHHHHHHHHHHH
Q ss_conf             99848889967999999999982----------47-8988956677687
Q 537021.9.peg.4   35 WVSANAGSGKTHILVQRVLRLLL----------AN-AHPSTLLCLTHTK   72 (242)
Q Consensus        35 lV~A~aGSGKT~tL~~rv~~ll~----------~g-~~P~~IL~lTFT~   72 (242)
                      =|-++||||||+.=..--+.-..          +| .+|++|..+.=.+
T Consensus        16 QiYGp~G~GKTn~c~~~a~~a~~~Gk~v~YiDTEGGLS~ER~~q~~~~~   64 (223)
T TIGR02237        16 QIYGPPGSGKTNICLILAVNAARQGKKVVYIDTEGGLSPERFKQIAEDR   64 (223)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHCC
T ss_conf             9875899867899999999998618958999628983289999986305


No 225
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=92.30  E-value=0.97  Score=24.96  Aligned_cols=47  Identities=19%  Similarity=0.350  Sum_probs=31.0

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHH---HHHHHHHHHHHH
Q ss_conf             88799848889967999999999982478988956677---687899999999
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLT---HTKAAAAEMSHR   81 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lT---FT~kAA~El~~R   81 (242)
                      -|+.+-+++|.|||+.|-. +.+-+.+.  --+|+.+|   ||+.-..-++..
T Consensus       142 NPLfIyG~~GlGKTHLL~A-Ign~i~~~--~~kV~Yvtae~F~~~~v~ai~~~  191 (455)
T PRK12422        142 NPIYLFGPEGSGKTHLMQA-AVSALRES--GGKILYVSSELFTEHLVSAIRSG  191 (455)
T ss_pred             CCEEEECCCCCCHHHHHHH-HHHHHHCC--CCEEEEECHHHHHHHHHHHHHCC
T ss_conf             8758878999978999999-99985379--98699974999999999999758


No 226
>PRK00279 adk adenylate kinase; Reviewed
Probab=92.28  E-value=0.16  Score=30.37  Aligned_cols=34  Identities=12%  Similarity=0.162  Sum_probs=21.9

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHH-HCCCCHHHHHH
Q ss_conf             879984888996799999999998-24789889566
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLL-LANAHPSTLLC   67 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll-~~g~~P~~IL~   67 (242)
                      .+++.++|||||+|.- .+++.-. ...++...+|-
T Consensus         2 ~iillG~PGsGKgTqa-~~la~~~~~~~is~GdllR   36 (215)
T PRK00279          2 RLILLGPPGAGKGTQA-KFIAEKYGIPHISTGDMLR   36 (215)
T ss_pred             EEEEECCCCCCHHHHH-HHHHHHHCCEEECHHHHHH
T ss_conf             7999899999879999-9999986991786889999


No 227
>PRK13974 thymidylate kinase; Provisional
Probab=92.28  E-value=0.12  Score=31.42  Aligned_cols=53  Identities=13%  Similarity=0.139  Sum_probs=34.5

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             79984888996799999999998247898895667768789999999999996
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEII   86 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l   86 (242)
                      +.+++.=||||||.+-....+|-.+|..+...-+++...-....+-+.|++.+
T Consensus         6 Iv~EGiDGsGKsTq~~~L~~~L~~~g~~~~~~~~~~~rePg~t~~g~~ir~~l   58 (212)
T PRK13974          6 IVLEGIDGCGKTTQIDHLSKWLPSSGLMPKGAKLIITREPGGTLLGKSLRELL   58 (212)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCHHHHHHHHH
T ss_conf             99889999989999999999998658753586157714999980699999998


No 228
>PRK09376 rho transcription termination factor Rho; Provisional
Probab=92.26  E-value=0.2  Score=29.79  Aligned_cols=27  Identities=19%  Similarity=0.278  Sum_probs=20.6

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHC
Q ss_conf             8887998488899679999999999824
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLA   58 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~   58 (242)
                      +...||+|+|.||||+.|-. +++-|..
T Consensus       169 GQRgLIVAPPkaGKT~lLq~-IA~aI~~  195 (416)
T PRK09376        169 GQRGLIVAPPKAGKTVLLQN-IANSITT  195 (416)
T ss_pred             CCCCEEECCCCCCHHHHHHH-HHHHHHH
T ss_conf             85003756998754799999-9999985


No 229
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family; InterPro: IPR006266   This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic. ; GO: 0005524 ATP binding, 0016776 phosphotransferase activity phosphate group as acceptor, 0019201 nucleotide kinase activity, 0006139 nucleobase nucleoside nucleotide and nucleic acid metabolic process.
Probab=92.23  E-value=0.065  Score=33.21  Aligned_cols=22  Identities=27%  Similarity=0.336  Sum_probs=16.1

Q ss_pred             EEEEECCCCCHHHHHHHHHHHH
Q ss_conf             7998488899679999999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRL   55 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~l   55 (242)
                      +.|++||||||=|-=+..+-++
T Consensus         2 ~FvLGGPGSGKGTQCa~Iv~~f   23 (189)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENF   23 (189)
T ss_pred             EEEECCCCCCHHHHHHHHHHHC
T ss_conf             7763698987567899999853


No 230
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=92.21  E-value=0.12  Score=31.26  Aligned_cols=34  Identities=18%  Similarity=0.080  Sum_probs=28.1

Q ss_pred             HHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             9999827688879984888996799999999998
Q 537021.9.peg.4   23 EQLLASDPTRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        23 qq~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      -+..|..+.|-|+|+++-||||+|+++.-+.|.=
T Consensus       119 lk~la~~kRGLviiVGaTGSGKSTtmAaMi~yRN  152 (375)
T COG5008         119 LKDLALAKRGLVIIVGATGSGKSTTMAAMIGYRN  152 (375)
T ss_pred             HHHHHCCCCCEEEEECCCCCCCHHHHHHHHCCCC
T ss_conf             9975204374599987788884016899860134


No 231
>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=92.20  E-value=0.14  Score=30.80  Aligned_cols=24  Identities=21%  Similarity=0.201  Sum_probs=18.6

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             8799848889967999999999982
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      ++|+.++||+|||+.+ ..+++.+.
T Consensus         1 hVLL~GppG~GKT~l~-~~lA~~~~   24 (131)
T pfam07726         1 HVLLEGVPGLAKTLLA-RTLARSLG   24 (131)
T ss_pred             CEEEECCCCCHHHHHH-HHHHHHHC
T ss_conf             9878989987699999-99999959


No 232
>KOG0923 consensus
Probab=92.10  E-value=0.12  Score=31.29  Aligned_cols=61  Identities=18%  Similarity=0.242  Sum_probs=40.6

Q ss_pred             HHCCCCCEEEEECCCCCHHHHHHHHHHHH-H-HCC-----CCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             82768887998488899679999999999-8-247-----8988956677687899999999999967
Q 537021.9.peg.4   27 ASDPTRSAWVSANAGSGKTHILVQRVLRL-L-LAN-----AHPSTLLCLTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        27 a~~~~~~~lV~A~aGSGKT~tL~~rv~~l-l-~~g-----~~P~~IL~lTFT~kAA~El~~RI~~~l~   87 (242)
                      |+....-++|.+-+||||||-|-...... . ..|     ..|.+|.+++-.-+-|.||-.++..-+|
T Consensus       276 av~e~QVLiI~GeTGSGKTTQiPQyL~EaGytk~gk~IgcTQPRRVAAmSVAaRVA~EMgvkLG~eVG  343 (902)
T KOG0923         276 AVKEHQVLIIVGETGSGKTTQIPQYLYEAGYTKGGKKIGCTQPRRVAAMSVAARVAEEMGVKLGHEVG  343 (902)
T ss_pred             HHHHCCEEEEECCCCCCCCCCCCHHHHHCCCCCCCCEEEECCCCHHHHHHHHHHHHHHHCCCCCCCCC
T ss_conf             99867089997578898644562898854213589467406850688777999999985740143144


No 233
>TIGR01425 SRP54_euk signal recognition particle protein SRP54; InterPro: IPR006325    The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes , . SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor . In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane.    This entry represents the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species.; GO: 0005525 GTP binding, 0008312 7S RNA binding, 0006614 SRP-dependent cotranslational protein targeting to membrane, 0048500 signal recognition particle.
Probab=92.09  E-value=0.049  Score=34.06  Aligned_cols=51  Identities=14%  Similarity=0.107  Sum_probs=42.0

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             799848889967999999999982478988956677687899999999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLE   84 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~   84 (242)
                      +.-++==|||||||.+...+|.=.+|-+|.=|.|=||===|=+-|+.=-.+
T Consensus       124 iMfVGLQGaGKTTtctKLA~YYk~rGfK~~lvCADTFRAGAFdQLkqNA~k  174 (453)
T TIGR01425       124 IMFVGLQGAGKTTTCTKLAYYYKRRGFKPALVCADTFRAGAFDQLKQNATK  174 (453)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHCCCCCEEEECCCCCCCCHHHHHHHHHHH
T ss_conf             888621488715668787777632664325651775423248999874764


No 234
>KOG1131 consensus
Probab=92.04  E-value=0.19  Score=29.97  Aligned_cols=58  Identities=19%  Similarity=0.205  Sum_probs=42.3

Q ss_pred             HHHHHCCCCCEEEEECCCCCHHHHHHHHHH-HHHHCCCCHHHHHHHHHH----HHHHHHHHHH
Q ss_conf             999827688879984888996799999999-998247898895667768----7899999999
Q 537021.9.peg.4   24 QLLASDPTRSAWVSANAGSGKTHILVQRVL-RLLLANAHPSTLLCLTHT----KAAAAEMSHR   81 (242)
Q Consensus        24 q~~a~~~~~~~lV~A~aGSGKT~tL~~rv~-~ll~~g~~P~~IL~lTFT----~kAA~El~~R   81 (242)
                      -+...|+.|+-|.+-|-|||||-+|...+. |.+.....+.+++.++=|    .||..||+.=
T Consensus        28 lKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRTvpEieK~l~El~~l   90 (755)
T KOG1131          28 LKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRTVPEIEKALEELKRL   90 (755)
T ss_pred             HHHHHCCCCCEEEECCCCCCCCHHHHHHHHHHHHHCCCCCCEEEEECCCCHHHHHHHHHHHHH
T ss_conf             987634578379977888873128999999999867763335899637526899999999999


No 235
>KOG0738 consensus
Probab=92.01  E-value=0.12  Score=31.37  Aligned_cols=91  Identities=16%  Similarity=0.303  Sum_probs=41.9

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHC--CCCCCCHHH
Q ss_conf             6888799848889967999999999982478988956677687899999999-------9999677521--674221464
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHR-------VLEIITAWSH--LSDEILSAE  100 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~R-------I~~~l~~~~~--~~~~~~~~~  100 (242)
                      |=+.||..++||||||- |+.-|+-  .-|        .||=|-.+.-|...       |...|-+.++  .+..-+...
T Consensus       244 PWkgvLm~GPPGTGKTl-LAKAvAT--Ec~--------tTFFNVSsstltSKwRGeSEKlvRlLFemARfyAPStIFiDE  312 (491)
T KOG0738         244 PWKGVLMVGPPGTGKTL-LAKAVAT--ECG--------TTFFNVSSSTLTSKWRGESEKLVRLLFEMARFYAPSTIFIDE  312 (491)
T ss_pred             CCCEEEEECCCCCCHHH-HHHHHHH--HHC--------CEEEEECHHHHHHHHCCCHHHHHHHHHHHHHHHCCCEEEHHH
T ss_conf             53000556799974789-9999988--616--------727874024565553252699999999999874885353356


Q ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9973147999789999999999998310013
Q 537021.9.peg.4  101 ITKIQGKKPNKSDMSKARHLLITILETPGGL  131 (242)
Q Consensus       101 l~~~~~~~~~~~~~~~~~~ll~~~l~~~~~~  131 (242)
                      +..++........-.-.++.=..+|.+.|++
T Consensus       313 IDslcs~RG~s~EHEaSRRvKsELLvQmDG~  343 (491)
T KOG0738         313 IDSLCSQRGGSSEHEASRRVKSELLVQMDGV  343 (491)
T ss_pred             HHHHHHCCCCCCCHHHHHHHHHHHHHHHHCC
T ss_conf             7788725798650367888888999986334


No 236
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=91.96  E-value=0.17  Score=30.31  Aligned_cols=31  Identities=26%  Similarity=0.415  Sum_probs=23.1

Q ss_pred             HHHCCCCCEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             98276888799848889967999999999982
Q 537021.9.peg.4   26 LASDPTRSAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        26 ~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      .|+.-.+++++++.||||| ..|+.-+..+|-
T Consensus        45 ~Aa~qrrhvlliG~PGtGK-Smlakam~elLp   75 (637)
T PRK13765         45 KAAKQRRHVMLIGSPGTGK-SMLAKAMAELLP   75 (637)
T ss_pred             HHHHHHCCEEEECCCCCCH-HHHHHHHHHHCC
T ss_conf             9998437389868999879-999999997579


No 237
>PRK08118 topology modulation protein; Reviewed
Probab=91.96  E-value=0.089  Score=32.24  Aligned_cols=55  Identities=18%  Similarity=0.210  Sum_probs=27.8

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHH-CCCCHHHHHHH-HHHHHHHHHHHHHHHHHHH
Q ss_conf             88799848889967999999999982-47898895667-7687899999999999967
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLLL-ANAHPSTLLCL-THTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll~-~g~~P~~IL~l-TFT~kAA~El~~RI~~~l~   87 (242)
                      .-++|++++|||||| |+.++...+. .-+.-++|-=. .-++...+|+.+++...+.
T Consensus         2 ~rI~IiG~~GsGKST-lAr~L~~~~~ip~~~LD~l~w~~~w~~~~~~e~~~~~~~~~~   58 (167)
T PRK08118          2 KKIILIGSGGSGKST-LARQLGEKLNIPVHHLDALFWKPNWEGVPKEEQRTVQNELVK   58 (167)
T ss_pred             CEEEEECCCCCCHHH-HHHHHHHHHCCCEEECCCEEECCCCCCCCHHHHHHHHHHHHH
T ss_conf             679998899987999-999999988969796443476689946888999999999983


No 238
>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=91.95  E-value=0.6  Score=26.43  Aligned_cols=26  Identities=31%  Similarity=0.298  Sum_probs=19.1

Q ss_pred             CCCCE-EEEECCCCCHHHHHHHHHHHH
Q ss_conf             68887-998488899679999999999
Q 537021.9.peg.4   30 PTRSA-WVSANAGSGKTHILVQRVLRL   55 (242)
Q Consensus        30 ~~~~~-lV~A~aGSGKT~tL~~rv~~l   55 (242)
                      |.|.+ .|.+.||||||+....-.+..
T Consensus        17 ~~G~itEi~G~~GsGKTql~lqla~~~   43 (235)
T cd01123          17 ETGSITEIFGEFGSGKTQLCHQLAVTV   43 (235)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             478799999999984999999999998


No 239
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=91.89  E-value=0.2  Score=29.82  Aligned_cols=37  Identities=19%  Similarity=0.292  Sum_probs=26.6

Q ss_pred             CCCC-EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             6888-799848889967999999999982478988956677
Q 537021.9.peg.4   30 PTRS-AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLT   69 (242)
Q Consensus        30 ~~~~-~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lT   69 (242)
                      |.|. .++.++||||||+...+-.+.....|   .+++.++
T Consensus        21 ~~G~itei~G~pG~GKTtl~lq~a~~~~~~g---~~vlYid   58 (224)
T PRK09361         21 ERGTITQIYGPPGSGKTNICIQLAVEAARQG---KKVIYID   58 (224)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC---CCEEEEC
T ss_conf             8887999989999859999999999999749---9099967


No 240
>KOG0951 consensus
Probab=91.85  E-value=0.31  Score=28.39  Aligned_cols=70  Identities=21%  Similarity=0.237  Sum_probs=54.2

Q ss_pred             CCHHHHHHHC----CCCCEEEEECCCCCHHHHHHHHHHHHHHCC--------CCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9489999827----688879984888996799999999998247--------8988956677687899999999999967
Q 537021.9.peg.4   20 TKSEQLLASD----PTRSAWVSANAGSGKTHILVQRVLRLLLAN--------AHPSTLLCLTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        20 ~~~qq~~a~~----~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g--------~~P~~IL~lTFT~kAA~El~~RI~~~l~   87 (242)
                      +|.-|-.+.+    ...++++-||+|+|||-+-+.-++.-+..+        ..|-+|..+...++=++||..-+.+++.
T Consensus       310 LNrIQS~V~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLVqE~VgsfSkRla  389 (1674)
T KOG0951         310 LNRIQSKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFSKRLA  389 (1674)
T ss_pred             HHHHHHHHHHHHHCCCCCEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCEECCCCEEEEEEEHHHHHHHHHHHHHHHCC
T ss_conf             66788777788755767378742678882379999999998535454454102561379984289999999988886423


Q ss_pred             HH
Q ss_conf             75
Q 537021.9.peg.4   88 AW   89 (242)
Q Consensus        88 ~~   89 (242)
                      .+
T Consensus       390 ~~  391 (1674)
T KOG0951         390 PL  391 (1674)
T ss_pred             CC
T ss_conf             56


No 241
>KOG1533 consensus
Probab=91.85  E-value=0.062  Score=33.33  Aligned_cols=22  Identities=27%  Similarity=0.147  Sum_probs=16.4

Q ss_pred             EEEEECCCCCHHHHHHHHHHHH
Q ss_conf             7998488899679999999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRL   55 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~l   55 (242)
                      .+|+++|||||||--......+
T Consensus         5 qvVIGPPgSGKsTYc~g~~~fl   26 (290)
T KOG1533           5 QVVIGPPGSGKSTYCNGMSQFL   26 (290)
T ss_pred             EEEECCCCCCCCCHHHHHHHHH
T ss_conf             6887699998531132099999


No 242
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=91.84  E-value=0.12  Score=31.41  Aligned_cols=49  Identities=22%  Similarity=0.188  Sum_probs=28.0

Q ss_pred             CCC---EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             888---79984888996799999999998247898895667768789999999
Q 537021.9.peg.4   31 TRS---AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSH   80 (242)
Q Consensus        31 ~~~---~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~   80 (242)
                      ++|   +-|-++||||||+.|..-+-.|-.+ .++-=|..=-+|+.=|..++.
T Consensus        10 ~~~~~~i~v~Gp~GSGKTaLie~~~~~L~~~-~~~aVI~~Di~t~~Da~~l~~   61 (202)
T COG0378          10 NRPMLRIGVGGPPGSGKTALIEKTLRALKDE-YKIAVITGDIYTKEDADRLRK   61 (202)
T ss_pred             CCCEEEEEECCCCCCCHHHHHHHHHHHHHHH-CCEEEEECEEECHHHHHHHHH
T ss_conf             5864899961799867899999999999752-776899640400655999973


No 243
>KOG0741 consensus
Probab=91.83  E-value=0.4  Score=27.67  Aligned_cols=51  Identities=18%  Similarity=0.321  Sum_probs=30.5

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHHCC----CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             8879984888996799999999998247----89889566776878999999999999677
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLLLAN----AHPSTLLCLTHTKAAAAEMSHRVLEIITA   88 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll~~g----~~P~~IL~lTFT~kAA~El~~RI~~~l~~   88 (242)
                      +.+|..+|||||||- ++..+..+|-..    |.--+||     +|=+.|=.+-|++.+.+
T Consensus       257 KGiLLyGPPGTGKTL-iARqIGkMLNArePKIVNGPeIL-----~KYVGeSE~NvR~LFaD  311 (744)
T KOG0741         257 KGILLYGPPGTGKTL-IARQIGKMLNAREPKIVNGPEIL-----NKYVGESEENVRKLFAD  311 (744)
T ss_pred             EEEEEECCCCCCHHH-HHHHHHHHHCCCCCCCCCCHHHH-----HHHHCCCHHHHHHHHHH
T ss_conf             357887799987018-99998787457998634757889-----87606307889999875


No 244
>KOG0925 consensus
Probab=91.81  E-value=1.1  Score=24.57  Aligned_cols=58  Identities=22%  Similarity=0.258  Sum_probs=45.4

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHH-H--CC---CCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             688879984888996799999999998-2--47---8988956677687899999999999967
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLL-L--AN---AHPSTLLCLTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll-~--~g---~~P~~IL~lTFT~kAA~El~~RI~~~l~   87 (242)
                      -+.-+++++-+|||||+.+-..++... .  .|   ..|.++.+++-..+-|.||-=-|..-.|
T Consensus        61 ~nQ~~v~vGetgsGKttQiPq~~~~~~~~~~~~v~CTQprrvaamsva~RVadEMDv~lG~EVG  124 (699)
T KOG0925          61 NNQIIVLVGETGSGKTTQIPQFVLEYELSHLTGVACTQPRRVAAMSVAQRVADEMDVTLGEEVG  124 (699)
T ss_pred             CCCEEEEEECCCCCCCCCCCHHHHHHHHHHCCCEEECCCHHHHHHHHHHHHHHHHCCCCCHHCC
T ss_conf             4826999934888864547499999987633661324715788999999888874431020115


No 245
>KOG0354 consensus
Probab=91.68  E-value=0.095  Score=32.04  Aligned_cols=65  Identities=14%  Similarity=0.119  Sum_probs=43.4

Q ss_pred             CHHHHHHHCC-CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             4899998276-88879984888996799999999998247898895667768789999999999996
Q 537021.9.peg.4   21 KSEQLLASDP-TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEII   86 (242)
Q Consensus        21 ~~qq~~a~~~-~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l   86 (242)
                      +-|..++.-+ ..+.+|.+|-|+|||+.-+.-..+.+. ..+=.+|+.++.|+-=...-..++...+
T Consensus        65 ~YQ~eivq~ALgkNtii~lPTG~GKTfIAa~Vm~nh~r-w~p~~KiVF~aP~~pLv~QQ~a~~~~~~  130 (746)
T KOG0354          65 NYQEELVQPALGKNTIIALPTGSGKTFIAAVIMKNHFE-WRPKGKVVFLAPTRPLVNQQIACFSIYL  130 (746)
T ss_pred             HHHHHHHHHHHCCCEEEEEECCCCCCCHHHHHHHHHHH-CCCCCEEEEEECCCHHHHHHHHHHHHCC
T ss_conf             78999867862687699953599861047999999972-3776438996077117888898876206


No 246
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=91.67  E-value=0.3  Score=28.50  Aligned_cols=57  Identities=23%  Similarity=0.238  Sum_probs=46.4

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             879984888996799999999998247-898895667768789999999999996775
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLLLAN-AHPSTLLCLTHTKAAAAEMSHRVLEIITAW   89 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll~~g-~~P~~IL~lTFT~kAA~El~~RI~~~l~~~   89 (242)
                      -++..||-|.|||..-+.-..+.+.++ -..+++..+.+++.+.+.|..|+...++..
T Consensus       216 ~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~~~~~  273 (733)
T COG1203         216 LVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEIFGLF  273 (733)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHHHHHHHHHCCC
T ss_conf             1899916888719999999999753113545628996558999999999998751235


No 247
>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=91.64  E-value=1.1  Score=24.45  Aligned_cols=50  Identities=18%  Similarity=0.276  Sum_probs=34.8

Q ss_pred             EEEEECCCCCHHHHHHHHHHHH-HHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             7998488899679999999999-82478988956677687899999999999967
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRL-LLANAHPSTLLCLTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~l-l~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~   87 (242)
                      ++|-|.||.|||....+-..+. +.+|.   .++.+|. ...+.++..|+.....
T Consensus       197 iIiaARPsmGKTafalnia~n~A~~~g~---~Vl~fSL-EMs~eql~~R~la~~s  247 (421)
T TIGR03600       197 IVIGARPSMGKTTLALNIAENVALREGK---PVLFFSL-EMSAEQLGERLLASKS  247 (421)
T ss_pred             EEEEEECCCCHHHHHHHHHHHHHHHCCC---EEEEEEC-CCCHHHHHHHHHHHHC
T ss_conf             9998546787459999999999986698---3899925-7999999999999854


No 248
>PRK07261 topology modulation protein; Provisional
Probab=91.61  E-value=0.1  Score=31.84  Aligned_cols=54  Identities=15%  Similarity=0.134  Sum_probs=28.9

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHC-CCCHHHHHH-HHHHHHHHHHHHHHHHHHHHH
Q ss_conf             7998488899679999999999824-789889566-776878999999999999677
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLA-NAHPSTLLC-LTHTKAAAAEMSHRVLEIITA   88 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~-g~~P~~IL~-lTFT~kAA~El~~RI~~~l~~   88 (242)
                      ++|++++|||||| |+.++...+.- -+.-+.+-- =-.+...-+|..+++...+..
T Consensus         3 I~IiG~sGsGKST-lAr~L~~~~~ip~~~LD~l~w~p~w~~~~~~e~~~~~~~~~~~   58 (171)
T PRK07261          3 IAIIGYSGSGKST-LARFLGQHYNCPVLHLDQLHFSSNWQERDDDDMIADISNFLLK   58 (171)
T ss_pred             EEEECCCCCCHHH-HHHHHHHHHCCCEEEECCEEECCCCEECCHHHHHHHHHHHHHC
T ss_conf             9998899986899-9999999879797970227888999888899999999999848


No 249
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=91.55  E-value=0.29  Score=28.68  Aligned_cols=29  Identities=24%  Similarity=0.326  Sum_probs=23.4

Q ss_pred             CEE-EEECCCCCHHHHHHHHHHHHHHCCCC
Q ss_conf             879-98488899679999999999824789
Q 537021.9.peg.4   33 SAW-VSANAGSGKTHILVQRVLRLLLANAH   61 (242)
Q Consensus        33 ~~l-V~A~aGSGKT~tL~~rv~~ll~~g~~   61 (242)
                      |++ |.+--||||||.+...+..|-.+|.+
T Consensus         3 Pii~ivG~s~SGKTTLi~kli~~l~~~G~r   32 (170)
T PRK10751          3 PLLAIAAWSGTGKTTLLKKLIPALCARGIR   32 (170)
T ss_pred             CEEEEEECCCCCHHHHHHHHHHHHHHCCCE
T ss_conf             779999469999999999999999987984


No 250
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=91.55  E-value=0.19  Score=29.92  Aligned_cols=49  Identities=18%  Similarity=0.232  Sum_probs=29.6

Q ss_pred             CCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             76888799848889967999999999982478988956677687899999999
Q 537021.9.peg.4   29 DPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHR   81 (242)
Q Consensus        29 ~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~R   81 (242)
                      ..+++++|+||.|||||..-.-=   .+..+ .-.+|++-|-|+.=-+.+-++
T Consensus       262 ~~~~~l~IEAgTGtGKTlaYLlP---aia~~-~~~~vVIST~T~~LQeQL~~k  310 (820)
T PRK07246        262 HDGVASFIEAQTGIGKTYGYLLP---LLAQS-DQNQIIVSVPTKLLQDQIMAG  310 (820)
T ss_pred             CCCCCEEEECCCCCCHHHHHHHH---HHHHC-CCCEEEEEECCHHHHHHHHHH
T ss_conf             05883899889996479999999---99843-798399990869999999997


No 251
>TIGR02746 TraC-F-type type-IV secretion system protein TraC; InterPro: IPR014117   The proteins in this entry are found in the F, P and I-like type IV secretion systems. Gene symbols include TraC (F-type), TrbE/VirB4 (P-type) and TraU (I-type). The proteins contain the Walker A and B motifs and so are putative nucleotide triphosphatases..
Probab=91.55  E-value=0.22  Score=29.54  Aligned_cols=142  Identities=15%  Similarity=0.143  Sum_probs=67.1

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHH--HH
Q ss_conf             688879984888996799999999998247898895667----768789999999999996775216742214649--97
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCL----THTKAAAAEMSHRVLEIITAWSHLSDEILSAEI--TK  103 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~l----TFT~kAA~El~~RI~~~l~~~~~~~~~~~~~~l--~~  103 (242)
                      .+=++.|.|++|+||++.+-.-+...+..|   ..|-+|    +|-+         +-+.++.       .+-..-  ..
T Consensus       488 ~NYN~~~~g~sG~GKSf~~Q~~~~~~L~~G---~kv~viDvG~Sy~K---------LC~~lgG-------~Yie~~~e~~  548 (900)
T TIGR02746       488 TNYNIAVVGGSGAGKSFFMQELIVSVLSRG---GKVWVIDVGRSYKK---------LCEMLGG-------TYIEFSPEST  548 (900)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHCC---CEEEEEEECCCHHH---------HHHHHCC-------CEECCCCCCC
T ss_conf             771489972889871687989999985179---84899960788488---------8765187-------1210466776


Q ss_pred             HHCCCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHCCCCCCCCCCCCHHHH------HHHHHH
Q ss_conf             3147999-789999999999998310013211179----99987555428975889998516837899------999999
Q 537021.9.peg.4  104 IQGKKPN-KSDMSKARHLLITILETPGGLKVQTIH----AFCEAIMQQFPLEANITSHFAIADEEQSK------KLIEEA  172 (242)
Q Consensus       104 ~~~~~~~-~~~~~~~~~ll~~~l~~~~~~~i~Ti~----~f~~~ilr~~~~~~gl~~~f~i~d~~~~~------~l~~~~  172 (242)
                      +...+++ .. ...++.    -....+.-.|..|+    --...|....+..+|++-+..=.-+.++.      ..+.++
T Consensus       549 i~LNPFTHL~-i~~A~~----~~~~~~~~~v~~i~Geqv~~~~~i~~~ia~MAGlDl~P~~~l~~~q~lmaryCs~l~~A  623 (900)
T TIGR02746       549 ICLNPFTHLD-IEEARF----DIIDFDGNNVTEIDGEQVDEIDQITALIALMAGLDLSPEGGLSDEQELMARYCSLLEEA  623 (900)
T ss_pred             CCCCCCCCCC-CCCCCC----CEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHH
T ss_conf             3238744466-000333----22673634677567402889999999999884466684556788889999999999999


Q ss_pred             HHHHHHHHHCCC-HHHHHHHHHHH
Q ss_conf             999999843278-03599999999
Q 537021.9.peg.4  173 KKSTLASIMLDN-NEELKKAFYEI  195 (242)
Q Consensus       173 ~~~~~~~~~~~~-~~~~~~~l~~~  195 (242)
                      +...|....-.. -......|...
T Consensus       624 I~~~W~~~g~~a~~tdV~~~L~~~  647 (900)
T TIGR02746       624 ILAAWKEKGNEATITDVADALEQL  647 (900)
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHC
T ss_conf             999999712248848999999852


No 252
>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=91.55  E-value=0.16  Score=30.51  Aligned_cols=37  Identities=19%  Similarity=0.234  Sum_probs=26.6

Q ss_pred             CCCC-EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             6888-799848889967999999999982478988956677
Q 537021.9.peg.4   30 PTRS-AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLT   69 (242)
Q Consensus        30 ~~~~-~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lT   69 (242)
                      +.|. .++-+.||+|||+.+.+-.......|   ..++.++
T Consensus        17 ~~G~it~i~G~pG~GKStl~lq~a~~~~~~g---~~v~Yid   54 (218)
T cd01394          17 ERGTVTQVYGPPGTGKTNIAIQLAVETAGQG---KKVAYID   54 (218)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC---CEEEEEE
T ss_conf             7887999989999849999999999986369---8699996


No 253
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=91.53  E-value=0.11  Score=31.71  Aligned_cols=22  Identities=14%  Similarity=0.379  Sum_probs=16.0

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHH
Q ss_conf             87998488899679999999999
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRL   55 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~l   55 (242)
                      .++|+++|||||||.- .+++..
T Consensus         2 riiilG~pGaGK~T~A-~~La~~   23 (178)
T COG0563           2 RILILGPPGAGKSTLA-KKLAKK   23 (178)
T ss_pred             EEEEECCCCCCHHHHH-HHHHHH
T ss_conf             7999899999889999-999997


No 254
>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=91.50  E-value=0.069  Score=33.04  Aligned_cols=28  Identities=36%  Similarity=0.414  Sum_probs=20.3

Q ss_pred             HCCC-CCEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             2768-88799848889967999999999982
Q 537021.9.peg.4   28 SDPT-RSAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        28 ~~~~-~~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      -+++ .+++|+||+|||||...|  +=.|+.
T Consensus        40 ~~~~~~H~lviaptgsGKt~~~V--iPnLl~   68 (468)
T pfam02534        40 TDGDFSHVLVFAGTGSGKGVGVV--IPNLLV   68 (468)
T ss_pred             ECCCCCEEEEECCCCCCCCCCCH--HHHHHH
T ss_conf             17997679998489997234242--988851


No 255
>CHL00195 ycf46 Ycf46; Provisional
Probab=91.49  E-value=0.12  Score=31.25  Aligned_cols=56  Identities=14%  Similarity=0.146  Sum_probs=31.7

Q ss_pred             HHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             982768887998488899679999999999824---78988956677687899999999999967
Q 537021.9.peg.4   26 LASDPTRSAWVSANAGSGKTHILVQRVLRLLLA---NAHPSTLLCLTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        26 ~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~---g~~P~~IL~lTFT~kAA~El~~RI~~~l~   87 (242)
                      -...|.+.+|..++||||||..- .-++.-..-   .+++.++     ..+=..|=..++++.+.
T Consensus       254 ~gl~~PkGvLL~GpPG~GKtl~A-KAvA~e~~~p~l~l~~~~l-----~~~~vGesE~~~r~~f~  312 (491)
T CHL00195        254 YGLPTPRGLLLVGIQGTGKSLTA-KAIANEWNLPLLRLDVGKL-----FGGIVGESESRMRQMIQ  312 (491)
T ss_pred             CCCCCCCEEEEECCCCCCHHHHH-HHHHHHHCCCEEEEEHHHH-----HHHHCCHHHHHHHHHHH
T ss_conf             59999987999799998789999-9998663894699667997-----56006704999999999


No 256
>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.
Probab=91.43  E-value=0.24  Score=29.26  Aligned_cols=23  Identities=22%  Similarity=0.343  Sum_probs=17.7

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHH
Q ss_conf             888799848889967999999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLR   54 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~   54 (242)
                      +...+|.||||+|||+.|.. +++
T Consensus        16 GQR~gI~g~~gvGKT~Ll~~-i~~   38 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQS-IAN   38 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHH-HHH
T ss_conf             86778878999889999999-999


No 257
>PRK04040 adenylate kinase; Provisional
Probab=91.42  E-value=0.2  Score=29.71  Aligned_cols=25  Identities=32%  Similarity=0.414  Sum_probs=18.4

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             88799848889967999999999982
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      .-++|.+.||+||||++.. +...+.
T Consensus         3 k~VvvtGiPGvGKTTv~~~-~~~~l~   27 (189)
T PRK04040          3 KVVVVTGVPGVGKTTVLNK-ALEKLK   27 (189)
T ss_pred             EEEEEECCCCCCHHHHHHH-HHHHHC
T ss_conf             1899975898878999999-999723


No 258
>PRK08903 hypothetical protein; Validated
Probab=91.41  E-value=0.46  Score=27.22  Aligned_cols=29  Identities=28%  Similarity=0.352  Sum_probs=19.8

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHHCCC
Q ss_conf             88799848889967999999999982478
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLLLANA   60 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll~~g~   60 (242)
                      ..+.|.+++|||||+.|-.-.-.....+.
T Consensus        43 ~~l~i~G~~G~GKTHLl~a~~~~~~~~~~   71 (227)
T PRK08903         43 RFFYLWGEAGSGRSHLLQALVAAASEGGK   71 (227)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHCCC
T ss_conf             66999899999888999999999980699


No 259
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=91.40  E-value=0.14  Score=30.91  Aligned_cols=26  Identities=23%  Similarity=0.305  Sum_probs=19.4

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             888799848889967999999999982
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      ..+++|.++||||||.++ ..+...+.
T Consensus        42 p~n~~iyG~~GTGKT~~~-~~v~~~l~   67 (366)
T COG1474          42 PSNIIIYGPTGTGKTATV-KFVMEELE   67 (366)
T ss_pred             CCCEEEECCCCCCHHHHH-HHHHHHHH
T ss_conf             860799889998732899-99999997


No 260
>TIGR02982 heterocyst_DevA ABC exporter ATP-binding subunit, DevA family; InterPro: IPR014324   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs.   ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain .    The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyze ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarize the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site , , .   The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).    This entry represents the ATP-binding subunit DevA, found mostly in the Cyanobacteria, but also in the Planctomycetes. Cyanobacterial examples are involved in heterocyst formation, by which some fraction of members of the colony undergo a developmental change and become capable of nitrogen fixation. The ABC transporter encoded by the devBCA operon is induced by nitrogen deficiency and is necessary for the formation of the laminated layer which envelops heterocysts , . It is thought to be involved in the export of either the heterocyst-specific glycolipids found in the laminated layer, or an enzyme essential for their formation..
Probab=91.35  E-value=0.13  Score=31.05  Aligned_cols=30  Identities=27%  Similarity=0.296  Sum_probs=20.7

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHH-HHHHCC
Q ss_conf             688879984888996799999999-998247
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVL-RLLLAN   59 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~-~ll~~g   59 (242)
                      |+.=|+.-+|=||||||.|+-.=. |-+.+|
T Consensus        30 ~GEiViltGPSGSGKTTLLtLiG~LR~~Q~G   60 (220)
T TIGR02982        30 PGEIVILTGPSGSGKTTLLTLIGGLRSVQEG   60 (220)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHCCCCCC
T ss_conf             7647984378898468899988762565556


No 261
>PRK13721 conjugal transfer ATP-binding protein TraC; Provisional
Probab=91.32  E-value=0.31  Score=28.41  Aligned_cols=31  Identities=19%  Similarity=0.279  Sum_probs=26.1

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHCCC
Q ss_conf             6888799848889967999999999982478
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLANA   60 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~   60 (242)
                      .+-+..|.|+.||||++.+-+.+...+..|.
T Consensus       473 tN~N~~I~g~SGsGKSf~~q~l~~~~~~~G~  503 (864)
T PRK13721        473 TNYNMAVCGTSGAGKTGLIQPLIRSVLDSGG  503 (864)
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHHCCC
T ss_conf             8700699828998689999999999985799


No 262
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=91.28  E-value=0.21  Score=29.59  Aligned_cols=22  Identities=45%  Similarity=0.445  Sum_probs=18.0

Q ss_pred             CCEEEEECCCCCHHHHHHHHHH
Q ss_conf             8879984888996799999999
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVL   53 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~   53 (242)
                      +-+++.||||+||||.++.-..
T Consensus        38 RL~li~APAGfGKttl~aq~~~   59 (894)
T COG2909          38 RLILISAPAGFGKTTLLAQWRE   59 (894)
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
T ss_conf             3899867887758899999998


No 263
>pfam04466 Terminase_3 Phage terminase large subunit. Initiation of packaging of double-stranded viral DNA involves the specific interaction of the prohead with viral DNA in a process mediated by a phage-encoded terminase protein. The terminase enzymes are usually hetero-oligomers composed of a small and a large subunit. This region is found on the large subunit and possess an endonuclease and ATPase activity that require Mg2+ and a neutral or slightly basic reaction. This region is also found in bacterial sequences.
Probab=91.27  E-value=0.12  Score=31.45  Aligned_cols=44  Identities=27%  Similarity=0.394  Sum_probs=33.1

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHH
Q ss_conf             8879984888996799999999998247898895667768789999
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAE   77 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~E   77 (242)
                      +-.++.+|-|||||+.++..++..+.+  .|.++|++.-|.....+
T Consensus         3 r~~v~~GGrgsgKS~~~a~~~i~~~~~--~~~~~l~~r~~~~slr~   46 (387)
T pfam04466         3 RYKVAKGGRGSGKSYHIALKLVLKLLM--HPRTNLVIREVKNTIED   46 (387)
T ss_pred             CEEEEEECCCCHHHHHHHHHHHHHHHH--CCCEEEEEECCHHHHHH
T ss_conf             689999088867999999999999987--89869999755688999


No 264
>PRK13764 ATPase; Provisional
Probab=91.14  E-value=0.46  Score=27.26  Aligned_cols=33  Identities=9%  Similarity=0.089  Sum_probs=23.8

Q ss_pred             HHCCCCCEEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             827688879984888996799999999998247
Q 537021.9.peg.4   27 ASDPTRSAWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        27 a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      ...-.+.+||.++||+||||--.....++...|
T Consensus       255 l~~~a~GilIaG~PGaGKsTfaqalA~~~~~~g  287 (605)
T PRK13764        255 LEERAEGILIAGAPGAGKSTFAQALAEFYADMG  287 (605)
T ss_pred             HHHCCCEEEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf             873366499977999977899999999998479


No 265
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=91.10  E-value=0.23  Score=29.36  Aligned_cols=24  Identities=33%  Similarity=0.320  Sum_probs=17.7

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             8879984888996799999999998
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      .++|..+|||+|||++.-. +++-+
T Consensus        37 phlLf~GPpG~GKTt~A~~-lA~~l   60 (337)
T PRK12402         37 PHLVVYGPSGSGKTAAVRA-LAREL   60 (337)
T ss_pred             CEEEEECCCCCCHHHHHHH-HHHHH
T ss_conf             7698889298489999999-99996


No 266
>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=91.10  E-value=0.32  Score=28.33  Aligned_cols=52  Identities=19%  Similarity=0.259  Sum_probs=35.1

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             888799848889967999999999982-47898895667768789999999999996
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLL-ANAHPSTLLCLTHTKAAAAEMSHRVLEII   86 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~-~g~~P~~IL~lTFT~kAA~El~~RI~~~l   86 (242)
                      +.-++|-|.||+|||+.+.+-+.+++. .|.   .++.+++ .....++..|+....
T Consensus        30 GeL~viaarpg~GKT~f~~~~a~~~~~~~g~---~vl~~Sl-Em~~~~~~~Rlls~~   82 (271)
T cd01122          30 GELIILTAGTGVGKTTFLREYALDLITQHGV---RVGTISL-EEPVVRTARRLLGQY   82 (271)
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHHHHHHCCC---EEEEEEC-CCCHHHHHHHHHHHH
T ss_conf             8089999689986999999999999997699---0899970-499999999999998


No 267
>TIGR03348 VI_IcmF type VI secretion protein IcmF. Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.
Probab=91.10  E-value=0.14  Score=30.84  Aligned_cols=18  Identities=39%  Similarity=0.468  Sum_probs=15.4

Q ss_pred             EEEEECCCCCHHHHHHHH
Q ss_conf             799848889967999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQR   51 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~r   51 (242)
                      -+|+++||||||+.|.+=
T Consensus       114 YlviG~~gsGKTt~l~~S  131 (1169)
T TIGR03348       114 YLVIGPPGSGKTTLLQNS  131 (1169)
T ss_pred             EEEECCCCCCHHHHHHHC
T ss_conf             899789998668999837


No 268
>PRK13946 shikimate kinase; Provisional
Probab=91.09  E-value=0.25  Score=29.08  Aligned_cols=36  Identities=25%  Similarity=0.374  Sum_probs=26.0

Q ss_pred             CCHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             9489999827688879984888996799999999998
Q 537021.9.peg.4   20 TKSEQLLASDPTRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        20 ~~~qq~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      .++++..+..-..+++.++-+|||||++= ..++..+
T Consensus         9 ~~~~~~~~~l~kknIvLIG~mGsGKStvG-k~LA~~L   44 (195)
T PRK13946          9 SQEEQIRAALGKRTVVLVGLMGAGKSTVG-RRLATML   44 (195)
T ss_pred             CHHHHHHHHHCCCCEEEECCCCCCHHHHH-HHHHHHH
T ss_conf             55999999858995899899999889999-9999997


No 269
>PRK08939 primosomal protein DnaI; Reviewed
Probab=91.05  E-value=0.28  Score=28.76  Aligned_cols=30  Identities=20%  Similarity=0.273  Sum_probs=23.2

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHHCCCC
Q ss_conf             887998488899679999999999824789
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLLLANAH   61 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~   61 (242)
                      +.+.+.+++|+|||+.+....-.|..+|++
T Consensus       158 kGlyl~G~~G~GKTyL~~aian~La~~g~~  187 (306)
T PRK08939        158 KGLYLYGDFGVGKTYLLAAIANELAKKGVS  187 (306)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHCCCE
T ss_conf             778898999998999999999999986992


No 270
>PHA02244 ATPase-like protein
Probab=91.04  E-value=0.38  Score=27.79  Aligned_cols=44  Identities=23%  Similarity=0.344  Sum_probs=29.7

Q ss_pred             HHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             98276888799848889967999999999982478988956677687899999
Q 537021.9.peg.4   26 LASDPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEM   78 (242)
Q Consensus        26 ~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El   78 (242)
                      .++..+-||+..+|||||||+.. .-|+..|.-.        .-||++-+.|.
T Consensus       114 ~~v~~nipV~L~G~AGsGKt~~A-~qIA~aLdl~--------FYf~gAI~~ef  157 (383)
T PHA02244        114 KIVNANIPVFLKGGAGSGKNHIA-EQIAEALDLD--------FYFMNAIMDEF  157 (383)
T ss_pred             HHHHCCCCEEEECCCCCCHHHHH-HHHHHHHCCC--------CEECHHHHHHH
T ss_conf             98735985699758888634899-9999985888--------24413230134


No 271
>PRK06893 DNA replication initiation factor; Validated
Probab=91.03  E-value=0.38  Score=27.81  Aligned_cols=30  Identities=23%  Similarity=0.330  Sum_probs=20.5

Q ss_pred             CCCC-EEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             6888-79984888996799999999998247
Q 537021.9.peg.4   30 PTRS-AWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        30 ~~~~-~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      ...+ +.+-+++|||||+.|-.-.-.....+
T Consensus        37 ~~~~~l~i~G~~gsGKTHLLqa~~~~~~~~~   67 (229)
T PRK06893         37 LKQPFFYIWGGKSSGKSHLLKAVSNHYLLNQ   67 (229)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHHHHHC
T ss_conf             4698799989999988999999999999718


No 272
>KOG3079 consensus
Probab=90.95  E-value=0.37  Score=27.92  Aligned_cols=20  Identities=30%  Similarity=0.283  Sum_probs=14.9

Q ss_pred             EEEEECCCCCHHHHHHHHHH
Q ss_conf             79984888996799999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVL   53 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~   53 (242)
                      ++|++||||||-|.=...+.
T Consensus        11 ifVlGGPGsgKgTqC~kiv~   30 (195)
T KOG3079          11 IFVLGGPGSGKGTQCEKIVE   30 (195)
T ss_pred             EEEECCCCCCCCHHHHHHHH
T ss_conf             99976898882269999999


No 273
>KOG1806 consensus
Probab=90.89  E-value=0.16  Score=30.48  Aligned_cols=68  Identities=21%  Similarity=0.293  Sum_probs=51.0

Q ss_pred             HHCCCHHHHHHHCC--CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             35094899998276--8887998488899679999999999824789889566776878999999999999
Q 537021.9.peg.4   17 ISQTKSEQLLASDP--TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEI   85 (242)
Q Consensus        17 ~~~~~~qq~~a~~~--~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~   85 (242)
                      +-.+..|-.++..-  .|-..|.+|||||||-+-+..+ .-+.+..+-.+-+++|-+|.|-+-+-+.|.+.
T Consensus       737 v~ft~~qveai~sg~qpgltmvvgppgtgktd~avqil-~~lyhn~p~qrTlivthsnqaln~lfeKi~~~  806 (1320)
T KOG1806         737 VKFTPTQVEAILSGMQPGLTMVVGPPGTGKTDVAVQIL-SVLYHNSPNQRTLIVTHSNQALNQLFEKIMAL  806 (1320)
T ss_pred             HCCCHHHHHHHHHCCCCCCEEEECCCCCCCCCHHHHHH-HHHHHCCCCCCEEEEEECCCCHHHHHHHHHHC
T ss_conf             20688999998834787754630699999743024454-45651698762489985231256787777861


No 274
>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=90.88  E-value=0.3  Score=28.56  Aligned_cols=52  Identities=15%  Similarity=0.131  Sum_probs=33.1

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             888799848889967999999999982478988956677687899999999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLE   84 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~   84 (242)
                      +..++|.|+||+|||+.+..-+.+.-.+++.  =++++--...-+.|+.+.+..
T Consensus        15 GQr~~I~g~~g~GKt~l~~~i~~~~~~~~~~--V~~~iGer~~ev~~~~~~~~~   66 (213)
T pfam00006        15 GQRIGIFGGSGTGKTVLLGMIARNAKADVVE--VYVLIGERGREVAEFIEELLG   66 (213)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHCCCE--EEEECCCCHHHHHHHHHHHHC
T ss_conf             8887787899998899999999856618935--998137777999999997521


No 275
>PTZ00301 uridine kinase; Provisional
Probab=90.87  E-value=0.13  Score=31.20  Aligned_cols=32  Identities=25%  Similarity=0.424  Sum_probs=18.4

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHH
Q ss_conf             799848889967999999999982478988956
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANAHPSTLL   66 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL   66 (242)
                      +-|.+|-||||||.- .+++..+.....|..+.
T Consensus         6 IgIaGgSgSGKTT~a-~~i~~~l~~~~~~~~v~   37 (210)
T PTZ00301          6 IGISGASGSGKSSLS-TNIVSELMAHCGPVSIG   37 (210)
T ss_pred             EEEECCCCCCHHHHH-HHHHHHHHHHCCCCCEE
T ss_conf             999688767899999-99999987614998079


No 276
>TIGR00959 ffh signal recognition particle protein; InterPro: IPR004780    The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes , . SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor . In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane.    This entry represents various SRP subunits.; GO: 0008312 7S RNA binding, 0006614 SRP-dependent cotranslational protein targeting to membrane, 0048500 signal recognition particle.
Probab=90.87  E-value=0.26  Score=28.94  Aligned_cols=78  Identities=22%  Similarity=0.178  Sum_probs=51.5

Q ss_pred             HHHHHHHHHCC---CHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHH-HH-CCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             88897323509---48999982768887998488899679999999999-82-478988956677687899999999999
Q 537021.9.peg.4   10 HSETIDLISQT---KSEQLLASDPTRSAWVSANAGSGKTHILVQRVLRL-LL-ANAHPSTLLCLTHTKAAAAEMSHRVLE   84 (242)
Q Consensus        10 ~~~~~~~~~~~---~~qq~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~l-l~-~g~~P~~IL~lTFT~kAA~El~~RI~~   84 (242)
                      |-+++.++...   +.+=..+..++..++-.+==|||||||-.-...|| .. .|-+|= +.+|=--|-||-|=-..|.+
T Consensus        78 ~eEL~~~LG~~~~E~~~L~~~~~~P~vilmvGLQGsGKTTt~gKLA~~ll~kk~~~kvL-Lva~D~yRPAA~~QL~~Lg~  156 (439)
T TIGR00959        78 HEELVAILGGKGRESAELKLAEKRPTVILMVGLQGSGKTTTAGKLALYLLKKKEGKKVL-LVACDLYRPAAIEQLKVLGE  156 (439)
T ss_pred             HHHHHHHCCCCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCEE-EEEHHCCCHHHHHHHHHHHH
T ss_conf             68999851666732567555678683899731378857889999999999986389703-40321034789999999767


Q ss_pred             HHHH
Q ss_conf             9677
Q 537021.9.peg.4   85 IITA   88 (242)
Q Consensus        85 ~l~~   88 (242)
                      +.+-
T Consensus       157 Q~gV  160 (439)
T TIGR00959       157 QVGV  160 (439)
T ss_pred             HCCC
T ss_conf             5288


No 277
>PRK06620 hypothetical protein; Validated
Probab=90.81  E-value=0.19  Score=29.87  Aligned_cols=17  Identities=24%  Similarity=0.286  Sum_probs=13.9

Q ss_pred             CCEEEEECCCCCHHHHH
Q ss_conf             88799848889967999
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHIL   48 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL   48 (242)
                      ..+++.|++|||||+.+
T Consensus        45 ~~l~I~Gp~gSGKTHL~   61 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLT   61 (214)
T ss_pred             CEEEEECCCCCCHHHHH
T ss_conf             55999879999889999


No 278
>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=90.79  E-value=0.32  Score=28.29  Aligned_cols=27  Identities=26%  Similarity=0.330  Sum_probs=23.8

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             888799848889967999999999982
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      .+++.|.|..|||||++..-.+..++.
T Consensus        23 ~rH~aIlg~TGsGKS~tv~vLl~~l~~   49 (218)
T pfam01935        23 SRHFAILGSTGSGKSNTVAVLLEELLE   49 (218)
T ss_pred             HHHEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             421478726999769999999999985


No 279
>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=90.73  E-value=0.29  Score=28.60  Aligned_cols=30  Identities=30%  Similarity=0.488  Sum_probs=22.9

Q ss_pred             HHHCCCCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             9827688879984888996799999999998
Q 537021.9.peg.4   26 LASDPTRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        26 ~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      .+....++++|.++.|||||+.|-. +..++
T Consensus       138 ~~ie~~~siii~G~t~sGKTt~lna-ll~~I  167 (312)
T COG0630         138 LAIEARKSIIICGGTASGKTTLLNA-LLDFI  167 (312)
T ss_pred             HHHHCCCCEEEECCCCCCHHHHHHH-HHHHC
T ss_conf             9997699499988888864959999-98637


No 280
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=90.72  E-value=0.32  Score=28.29  Aligned_cols=32  Identities=22%  Similarity=0.287  Sum_probs=23.5

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCH
Q ss_conf             688879984888996799999999998247898
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLANAHP   62 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P   62 (242)
                      .++-+|+.+|||||||-.-+ -+++-|..++|-
T Consensus        64 aGrgiLi~GppgTGKTAlA~-gIa~eLG~dvPF   95 (450)
T COG1224          64 AGRGILIVGPPGTGKTALAM-GIARELGEDVPF   95 (450)
T ss_pred             CCCEEEEECCCCCCHHHHHH-HHHHHHCCCCCC
T ss_conf             66179997899976889999-999985899982


No 281
>COG3911 Predicted ATPase [General function prediction only]
Probab=90.71  E-value=0.19  Score=30.01  Aligned_cols=18  Identities=28%  Similarity=0.493  Sum_probs=15.6

Q ss_pred             CEEEEECCCCCHHHHHHH
Q ss_conf             879984888996799999
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQ   50 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~   50 (242)
                      -.++.+|||+|||+.|..
T Consensus        11 ~fIltGgpGaGKTtLL~a   28 (183)
T COG3911          11 RFILTGGPGAGKTTLLAA   28 (183)
T ss_pred             EEEEECCCCCCHHHHHHH
T ss_conf             899837999768999999


No 282
>pfam04310 MukB MukB N-terminal. This family represents the N-terminal region of MukB, one of a group of bacterial proteins essential for the movement of nucleoids from mid-cell towards the cell quarters (i.e. chromosome partitioning). The structure of the N-terminal domain consists of an antiparallel six-stranded beta sheet surrounded by one helix on one side and by five helices on the other side. It contains an exposed Walker A loop in an unexpected helix-loop-helix motif (in other proteins, Walker A motifs generally adopt a P loop conformation as part of a strand-loop-helix motif embedded in a conserved topology of alternating helices and (parallel) beta strands).
Probab=90.66  E-value=1.4  Score=23.81  Aligned_cols=24  Identities=21%  Similarity=0.336  Sum_probs=20.8

Q ss_pred             EEEECCCCCHHHHHHHHHHHHHHC
Q ss_conf             998488899679999999999824
Q 537021.9.peg.4   35 WVSANAGSGKTHILVQRVLRLLLA   58 (242)
Q Consensus        35 lV~A~aGSGKT~tL~~rv~~ll~~   58 (242)
                      -.+++-|.|||+++..-+.-||-+
T Consensus        31 tLsG~NGAGKsT~m~Af~talIPD   54 (227)
T pfam04310        31 TLSGGNGAGKSTTMAAFITALIPD   54 (227)
T ss_pred             EEECCCCCCHHHHHHHHHHHHCCC
T ss_conf             864478765487999999986666


No 283
>PRK08727 hypothetical protein; Validated
Probab=90.66  E-value=0.46  Score=27.26  Aligned_cols=30  Identities=27%  Similarity=0.339  Sum_probs=20.3

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             688879984888996799999999998247
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      +..++.+.+++|||||+.+-.-.......|
T Consensus        40 ~~~~lyl~G~~GsGKTHLl~a~~~~~~~~~   69 (233)
T PRK08727         40 SSDWLYLSGPAGTGKTHLALSLCAAAEQAG   69 (233)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf             889899989999988999999999998279


No 284
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=90.65  E-value=0.3  Score=28.50  Aligned_cols=56  Identities=21%  Similarity=0.342  Sum_probs=40.4

Q ss_pred             HCCCHHHHHHH----CCCCC----EEEEECCCCCHHHHHHHHHHHHHHCC-----CCHHHHHHHHHHHH
Q ss_conf             50948999982----76888----79984888996799999999998247-----89889566776878
Q 537021.9.peg.4   18 SQTKSEQLLAS----DPTRS----AWVSANAGSGKTHILVQRVLRLLLAN-----AHPSTLLCLTHTKA   73 (242)
Q Consensus        18 ~~~~~qq~~a~----~~~~~----~lV~A~aGSGKT~tL~~rv~~ll~~g-----~~P~~IL~lTFT~k   73 (242)
                      ..|+.|++++.    |...|    -|+.+-=|||||-+.+--.+..+..|     ..|.+||+=-.-..
T Consensus       262 ~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~G~Q~ALMAPTEILA~QH~~~  330 (677)
T COG1200         262 KLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAGYQAALMAPTEILAEQHYES  330 (677)
T ss_pred             CCCHHHHHHHHHHHHHHCCCHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHH
T ss_conf             767899999999986644866667875267677789999999999987288168866379999999999


No 285
>pfam03266 DUF265 Protein of unknown function, DUF265.
Probab=90.60  E-value=0.36  Score=28.01  Aligned_cols=27  Identities=26%  Similarity=0.584  Sum_probs=19.8

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHH-HCCCC
Q ss_conf             79984888996799999999998-24789
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLL-LANAH   61 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll-~~g~~   61 (242)
                      +++-+.||+||||.+ .+++..+ ..|.+
T Consensus         2 i~ITG~pGvGKTTli-~kv~~~l~~~~~~   29 (168)
T pfam03266         2 IFITGPPGVGKTTLV-KKVIELLKSEGVK   29 (168)
T ss_pred             EEEECCCCCCHHHHH-HHHHHHHHHCCCE
T ss_conf             899789998899999-9999999867970


No 286
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=90.60  E-value=0.25  Score=29.06  Aligned_cols=53  Identities=25%  Similarity=0.291  Sum_probs=38.3

Q ss_pred             EEECCCCCHHHHHHHHHHH-HHHCCCC------H---HHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9848889967999999999-9824789------8---89566776878999999999999677
Q 537021.9.peg.4   36 VSANAGSGKTHILVQRVLR-LLLANAH------P---STLLCLTHTKAAAAEMSHRVLEIITA   88 (242)
Q Consensus        36 V~A~aGSGKT~tL~~rv~~-ll~~g~~------P---~~IL~lTFT~kAA~El~~RI~~~l~~   88 (242)
                      |.|+-|||||-.--.=++. |+.++.+      |   -++|.||+.|+=++.+...+...+..
T Consensus         1 VvAPTGSGKTLAAFL~aLd~L~~~~~~~~~~~~~~~~~~VLYISPLKALa~Dv~rNL~~PL~g   63 (1490)
T PRK09751          1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQIPLKG   63 (1490)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEEEEECCHHHHHHHHHHHHHHHHHH
T ss_conf             959887439899999999999961455555567889738999592788899999999879988


No 287
>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]
Probab=90.58  E-value=0.51  Score=26.90  Aligned_cols=40  Identities=23%  Similarity=0.198  Sum_probs=29.4

Q ss_pred             CCCCEE-EEECCCCCHHHHHHHHHHHHHHCC-----------CCHHHHHHHH
Q ss_conf             688879-984888996799999999998247-----------8988956677
Q 537021.9.peg.4   30 PTRSAW-VSANAGSGKTHILVQRVLRLLLAN-----------AHPSTLLCLT   69 (242)
Q Consensus        30 ~~~~~l-V~A~aGSGKT~tL~~rv~~ll~~g-----------~~P~~IL~lT   69 (242)
                      |.|.+. |-+++|||||+.-.+.++.....|           .+|+++..+.
T Consensus        58 ~~g~ItEiyG~~gsGKT~lal~~~~~aq~~g~~a~fIDtE~~l~p~r~~~l~  109 (279)
T COG0468          58 PRGRITEIYGPESSGKTTLALQLVANAQKPGGKAAFIDTEHALDPERAKQLG  109 (279)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHCCCCEEEEEECCCCCCHHHHHHHH
T ss_conf             5535899846887654668999988865379808999589998999999988


No 288
>pfam03205 MobB Molybdopterin guanine dinucleotide synthesis protein B. This protein contains a P-loop.
Probab=90.56  E-value=0.35  Score=28.05  Aligned_cols=28  Identities=21%  Similarity=0.158  Sum_probs=23.3

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCC
Q ss_conf             7998488899679999999999824789
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANAH   61 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~~   61 (242)
                      ++|.++.+||||+.+-..+-+++.+|-.
T Consensus         3 v~i~G~~~sGKttl~~~L~~~~~~~g~~   30 (122)
T pfam03205         3 VLVVGPKDSGKTTLIRKLLNYLKRRGYR   30 (122)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCC
T ss_conf             9999489998999999999999987994


No 289
>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=90.51  E-value=0.49  Score=27.02  Aligned_cols=54  Identities=17%  Similarity=0.189  Sum_probs=34.4

Q ss_pred             CCCCEEEEECCCCCHHHH-HHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             688879984888996799-9999999982-47898895667768789999999999996
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHI-LVQRVLRLLL-ANAHPSTLLCLTHTKAAAAEMSHRVLEII   86 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~t-L~~rv~~ll~-~g~~P~~IL~lTFT~kAA~El~~RI~~~l   86 (242)
                      -.+-++|+||-|||||.. |+--+.+... .|   .+|++-|-|..=-+.+..+....+
T Consensus        15 ~~~v~lVEAGTGTGKSLAYLvPAl~~a~~~~g---~rVVISTaT~aLQeQL~~kd~pl~   70 (636)
T TIGR03117        15 QKRIGMLEASTGVGKTLAMIMAALTMLKERPD---QKIAIAVPTLALMGQLWSELERLT   70 (636)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHHCCC---CCEEEECCCHHHHHHHHHHHHHHH
T ss_conf             38489998999710889999999999985799---988997987999999976656599


No 290
>pfam00158 Sigma54_activat Sigma-54 interaction domain.
Probab=90.46  E-value=0.28  Score=28.73  Aligned_cols=34  Identities=15%  Similarity=0.249  Sum_probs=25.0

Q ss_pred             CHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             489999827688879984888996799999999998
Q 537021.9.peg.4   21 KSEQLLASDPTRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        21 ~~qq~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      -++-+.++..+.||||.+.+||||+.  +.|..|-.
T Consensus        12 ~~~i~~~a~~~~pVLI~GE~GtGK~~--lAr~IH~~   45 (168)
T pfam00158        12 LELAKRVAPTDATVLITGESGTGKEL--FARAIHQL   45 (168)
T ss_pred             HHHHHHHHCCCCCEEEECCCCCCHHH--HHHHHHHH
T ss_conf             99999995889988998999888899--99999985


No 291
>PTZ00088 adenylate kinase 1; Provisional
Probab=90.46  E-value=0.34  Score=28.18  Aligned_cols=34  Identities=15%  Similarity=0.173  Sum_probs=23.2

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHH-HCCCCHHHHHH
Q ss_conf             879984888996799999999998-24789889566
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLL-LANAHPSTLLC   67 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll-~~g~~P~~IL~   67 (242)
                      .++++++|||||+| .+.+++... ..-+++..+|-
T Consensus         2 ~iillGpPGsGKgT-~a~~l~~~~~~~hiStGdllR   36 (225)
T PTZ00088          2 KIVLFGAPGVGKGT-FAEILSKKEKLKHINMGNILR   36 (225)
T ss_pred             EEEEECCCCCCHHH-HHHHHHHHHCCEEECHHHHHH
T ss_conf             79998999998799-999999987990687899999


No 292
>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=90.42  E-value=0.24  Score=29.27  Aligned_cols=26  Identities=38%  Similarity=0.517  Sum_probs=19.3

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             688879984888996799999999998
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      |=|=|||=+|-|||||-|| .=-++.|
T Consensus       325 PqGMvLVTGPTGSGKTVSL-YTaLniL  350 (577)
T TIGR02538       325 PQGMVLVTGPTGSGKTVSL-YTALNIL  350 (577)
T ss_pred             CCCCEEEECCCCCCHHHHH-HHHHCCC
T ss_conf             9972886266598416878-7631125


No 293
>cd01882 BMS1 Bms1.  Bms1 is an essential, evolutionarily conserved, nucleolar protein.  Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits.  Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit.  The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly.  It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.
Probab=90.35  E-value=0.36  Score=28.01  Aligned_cols=26  Identities=27%  Similarity=0.259  Sum_probs=20.7

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             79984888996799999999998247
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      |.|.++||+||||.|-..|-+...+.
T Consensus        42 VavvGPpgvGKtTLiksLvk~ytk~~   67 (225)
T cd01882          42 VAVVGPPGVGKTTLIKSLVKNYTKQN   67 (225)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf             99989899778899999999985443


No 294
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=90.33  E-value=0.12  Score=31.22  Aligned_cols=47  Identities=13%  Similarity=0.175  Sum_probs=28.9

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHH-HCCCCHHHHHHH---HHHHHHHHHHH
Q ss_conf             88879984888996799999999998-247898895667---76878999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLL-LANAHPSTLLCL---THTKAAAAEMS   79 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll-~~g~~P~~IL~l---TFT~kAA~El~   79 (242)
                      +|-+-.+++.|.|||||++...++.+ ..|.+  +|..|   ||-=-|...++
T Consensus       348 gGv~AlvGpTGvGKTTT~aKlAa~~~~~~g~~--~valit~DtyRiga~eQL~  398 (557)
T PRK12727        348 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPR--DVALVTTDTQRVGGREQLH  398 (557)
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHHHHHCCCC--EEEEEECCCCCHHHHHHHH
T ss_conf             76478743777673117999999999973998--1899972664087999999


No 295
>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=90.31  E-value=0.16  Score=30.50  Aligned_cols=60  Identities=20%  Similarity=0.255  Sum_probs=41.7

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCC-------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             88879984888996799999999998247-------89889566776878999999999999677521
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLAN-------AHPSTLLCLTHTKAAAAEMSHRVLEIITAWSH   91 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g-------~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~   91 (242)
                      +-=|+|.+=-||||||-| -.|+==|..|       +.|.+|-|=|--+.=|.||..-+.+.+|=..+
T Consensus        84 nQVviiAGETGSGKTTQL-PKICLELGrG~~GlIGHTQPRRlAAR~VA~R~AeELgtplGe~VGYkVR  150 (1320)
T TIGR01967        84 NQVVIIAGETGSGKTTQL-PKICLELGRGSRGLIGHTQPRRLAARSVAERVAEELGTPLGELVGYKVR  150 (1320)
T ss_pred             CCEEEEECCCCCCCCCCC-HHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCEEE
T ss_conf             898999724487620232-1677754278765412471468899999999999838898861320366


No 296
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=90.31  E-value=1  Score=24.76  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=15.1

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             79984888996799999999998
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      +-|.++|||||||+- ..++..+
T Consensus         2 IaIdGpagsGKsT~a-k~lA~~l   23 (147)
T cd02020           2 IAIDGPAGSGKSTVA-KLLAKKL   23 (147)
T ss_pred             EEEECCCCCCHHHHH-HHHHHHH
T ss_conf             888689978989999-9999990


No 297
>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase; InterPro: IPR013380    Proteins in this entry are found in a variety of bacteria, and are predicted to be ATPases involved in type III secretion systems. One example is YscN (P40290 from SWISSPROT) from Yersinia enterocolitica, which is thought to energise the YOP (Yersinia outer protein) secretion system .; GO: 0046961 hydrogen ion transporting ATPase activity rotational mechanism, 0030254 protein secretion by the type III secretion system.
Probab=90.25  E-value=0.2  Score=29.76  Aligned_cols=22  Identities=27%  Similarity=0.270  Sum_probs=17.5

Q ss_pred             CCCEEEEECCCCCHHHHHHHHH
Q ss_conf             8887998488899679999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRV   52 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv   52 (242)
                      +-.+=|.|+||+||||.|...+
T Consensus       153 GQRiGIFA~aG~GKSTLL~~i~  174 (430)
T TIGR02546       153 GQRIGIFAGAGVGKSTLLGMIA  174 (430)
T ss_pred             CCEEEEEECCCCCHHHHHHHHH
T ss_conf             5305787088861668999986


No 298
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=90.24  E-value=0.35  Score=28.10  Aligned_cols=34  Identities=18%  Similarity=0.217  Sum_probs=24.9

Q ss_pred             CHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             489999827688879984888996799999999998
Q 537021.9.peg.4   21 KSEQLLASDPTRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        21 ~~qq~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      -++-+.++..+.||||.+-+||||+..  .|..|..
T Consensus        19 ~~~~~~~A~~~~pVLI~GE~GtGK~~~--Ar~IH~~   52 (325)
T PRK11608         19 LEQVSHLAPLDKPVLIIGERGTGKELI--ASRLHYL   52 (325)
T ss_pred             HHHHHHHHCCCCCEEEECCCCCCHHHH--HHHHHHC
T ss_conf             999999968899989889898379999--9999965


No 299
>KOG0340 consensus
Probab=90.15  E-value=0.41  Score=27.57  Aligned_cols=73  Identities=26%  Similarity=0.327  Sum_probs=49.2

Q ss_pred             HHHHHHHHHCCCHHHHHHHC--CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHH--HHHHHHHHHHHHHHHHHHHH
Q ss_conf             88897323509489999827--688879984888996799999999998247898895--66776878999999999999
Q 537021.9.peg.4   10 HSETIDLISQTKSEQLLASD--PTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTL--LCLTHTKAAAAEMSHRVLEI   85 (242)
Q Consensus        10 ~~~~~~~~~~~~~qq~~a~~--~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~I--L~lTFT~kAA~El~~RI~~~   85 (242)
                      --+...+-.+|+=|+.-+-.  .++..+=-|--|||||+..+.-+..-+.+  +|..|  |++|+|+    |+.-+|.+.
T Consensus        21 ~l~~l~i~~pTpiQ~~cIpkILeGrdcig~AkTGsGKT~AFaLPil~rLse--dP~giFalvlTPTr----ELA~QiaEQ   94 (442)
T KOG0340          21 QLKALGIKKPTPIQQACIPKILEGRDCIGCAKTGSGKTAAFALPILNRLSE--DPYGIFALVLTPTR----ELALQIAEQ   94 (442)
T ss_pred             HHHHHCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHCC--CCCCCEEEEECCHH----HHHHHHHHH
T ss_conf             999835889982676524878546631031346887411222787776133--88760699954528----888888899


Q ss_pred             HHH
Q ss_conf             677
Q 537021.9.peg.4   86 ITA   88 (242)
Q Consensus        86 l~~   88 (242)
                      +..
T Consensus        95 F~a   97 (442)
T KOG0340          95 FIA   97 (442)
T ss_pred             HHH
T ss_conf             998


No 300
>pfam07724 AAA_2 AAA domain (Cdc48 subfamily). This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.
Probab=90.09  E-value=0.35  Score=28.09  Aligned_cols=30  Identities=30%  Similarity=0.447  Sum_probs=22.9

Q ss_pred             CCCCCEEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             7688879984888996799999999998247
Q 537021.9.peg.4   29 DPTRSAWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        29 ~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      .|-++.+..+++|+|||. |+..++..+..+
T Consensus         1 ~p~~~~l~~GPsGvGKT~-lAk~la~~l~~~   30 (168)
T pfam07724         1 RPIGSFLFLGPTGVGKTE-LAKALAELLFGD   30 (168)
T ss_pred             CCCEEEEEECCCCCCHHH-HHHHHHHHHCCC
T ss_conf             983799988989989999-999999996798


No 301
>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=90.04  E-value=0.4  Score=27.63  Aligned_cols=31  Identities=19%  Similarity=0.318  Sum_probs=22.9

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCC
Q ss_conf             68887998488899679999999999824789
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLANAH   61 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~   61 (242)
                      +++-+|+.++||||||-.- .-++.-|..++|
T Consensus        49 aGraiLlaGppGTGKTAlA-~aiakeLG~~vP   79 (395)
T pfam06068        49 AGRAVLIAGPPGTGKTALA-IAISKELGEDTP   79 (395)
T ss_pred             CCCEEEEECCCCCCHHHHH-HHHHHHHCCCCC
T ss_conf             7738998779998889999-999997487997


No 302
>PRK06851 hypothetical protein; Provisional
Probab=90.02  E-value=0.17  Score=30.24  Aligned_cols=32  Identities=16%  Similarity=0.215  Sum_probs=23.8

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCC
Q ss_conf             68887998488899679999999999824789
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLANAH   61 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~   61 (242)
                      ..+-.++-+||||||++.|-..-..++.+|-+
T Consensus        30 ~~ri~ilKGGpGtGKStlmK~ig~~~~~~Gyd   61 (368)
T PRK06851         30 ANRIFILKGGPGTGKSTLMKKIGEEFLEKGYD   61 (368)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCC
T ss_conf             12799996899977899999999999968983


No 303
>PRK03839 putative kinase; Provisional
Probab=89.98  E-value=0.19  Score=29.87  Aligned_cols=19  Identities=26%  Similarity=0.387  Sum_probs=14.1

Q ss_pred             EEEEECCCCCHHHHHHHHHH
Q ss_conf             79984888996799999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVL   53 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~   53 (242)
                      ++|-+.|||||||+ +..++
T Consensus         3 I~ITGTPGtGKTTv-a~~La   21 (180)
T PRK03839          3 IAITGTPGVGKTTI-SKLLA   21 (180)
T ss_pred             EEEECCCCCCHHHH-HHHHH
T ss_conf             99978999998999-99999


No 304
>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=89.93  E-value=0.33  Score=28.29  Aligned_cols=23  Identities=26%  Similarity=0.462  Sum_probs=16.8

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             799848889967999999999982
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      +.|.++.||||||. +..+...+.
T Consensus         2 IgI~G~sgsGKTT~-a~~L~~~l~   24 (198)
T cd02023           2 IGIAGGSGSGKTTV-AEEIIEQLG   24 (198)
T ss_pred             EEEECCCCCCHHHH-HHHHHHHHC
T ss_conf             89889998859999-999999809


No 305
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=89.86  E-value=1.3  Score=23.95  Aligned_cols=57  Identities=14%  Similarity=0.125  Sum_probs=30.8

Q ss_pred             CCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             768887998488899679999999999824789889566776878999999999999677
Q 537021.9.peg.4   29 DPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITA   88 (242)
Q Consensus        29 ~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~   88 (242)
                      .+.+.+|..++||||||..-.+ ++...  +.+--++..-..+.+=..|-...|+..+..
T Consensus       274 ~~~~giLl~GpPGtGKT~lAka-va~~~--~~~fi~v~~~~l~sk~vGesek~ir~~F~~  330 (494)
T COG0464         274 RPPKGVLLYGPPGTGKTLLAKA-VALES--RSRFISVKGSELLSKWVGESEKNIRELFEK  330 (494)
T ss_pred             CCCCEEEEECCCCCCHHHHHHH-HHHHC--CCCEEEECCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             8883699988999758999999-87544--982488433555407765999999999999


No 306
>TIGR02880 cbbX_cfxQ CbbX protein; InterPro: IPR000470 Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. The Cfx genes in Alcaligenes eutrophus encode a number of Calvin cycle enzymes . The observed sizes of two of the gene products, CfxX and CfxY, are 35 kDa and 27 kDa respectively . No functions could be assigned to CfxX and CfxY. These proteins show a high degree of similarity to the Bacillus subtilis stage V sporulation protein K . ; GO: 0005524 ATP binding.
Probab=89.79  E-value=0.34  Score=28.14  Aligned_cols=134  Identities=19%  Similarity=0.279  Sum_probs=66.1

Q ss_pred             HHHHHHHHHHHCCCHHHHHHH-CCCCCEEEEECCCCCHHHHHHHHHHHHHH-CC-CCHHHHHHHH----------HHHHH
Q ss_conf             888889732350948999982-76888799848889967999999999982-47-8988956677----------68789
Q 537021.9.peg.4    8 QEHSETIDLISQTKSEQLLAS-DPTRSAWVSANAGSGKTHILVQRVLRLLL-AN-AHPSTLLCLT----------HTKAA   74 (242)
Q Consensus         8 ~~~~~~~~~~~~~~~qq~~a~-~~~~~~lV~A~aGSGKT~tL~~rv~~ll~-~g-~~P~~IL~lT----------FT~kA   74 (242)
                      .|.+++. ++.....+...+. .|.-+...-+.||||||++- .+.+.++. -| +.-.+++.+|          .|---
T Consensus        35 ~~~a~ll-lv~~~r~~~~l~~~~P~lhm~ftG~PGtGkttva-~~m~~~l~~lGy~r~G~~~~~trddlvGqy~GhtaPk  112 (284)
T TIGR02880        35 REIAALL-LVERLRQKLGLASAAPSLHMSFTGNPGTGKTTVA-LRMAQILHRLGYVRKGHLVSVTRDDLVGQYIGHTAPK  112 (284)
T ss_pred             HHHHHHH-HHHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHH-HHHHHHHHHCCCCCCCCEEEEEHHHHHHHHHCCCCCH
T ss_conf             9999999-9999998742210488326775168987248999-9999999871540036267853001311221257722


Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             99999999999677521674221464997314799978-99999999999983100132111799998755542897588
Q 537021.9.peg.4   75 AAEMSHRVLEIITAWSHLSDEILSAEITKIQGKKPNKS-DMSKARHLLITILETPGGLKVQTIHAFCEAIMQQFPLEANI  153 (242)
Q Consensus        75 A~El~~RI~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~-~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~ilr~~~~~~gl  153 (242)
                      +.|+..|-..          .-.+.+-..++..+.++. -..++...+....+|...--+..+-++..+.-.-|...-|+
T Consensus       113 tke~lk~a~G----------Gvlfideayyly~P~nerdyG~eaieillq~men~r~~lvvi~aGy~~rm~~f~~snPG~  182 (284)
T TIGR02880       113 TKEVLKRAMG----------GVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGL  182 (284)
T ss_pred             HHHHHHHHCC----------CEEEEECHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCCEEEEEECCHHHHHHHHHCCCCH
T ss_conf             6899987428----------736642203321776410223799999999872365537888717078888875117862


No 307
>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=89.77  E-value=0.31  Score=28.44  Aligned_cols=30  Identities=23%  Similarity=0.221  Sum_probs=23.0

Q ss_pred             CCCCCEEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             7688879984888996799999999998247
Q 537021.9.peg.4   29 DPTRSAWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        29 ~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      ..+.||=..+|||||||+.- .-+++-+.+.
T Consensus        19 ~~G~PvHl~GPaG~GKT~LA-~hvA~~r~RP   48 (265)
T TIGR02640        19 KSGYPVHLRGPAGTGKTTLA-MHVARKRDRP   48 (265)
T ss_pred             CCCCCEEEECCCCCCHHHHH-HHHHHHCCCC
T ss_conf             27886674478885568999-9999736896


No 308
>TIGR01360 aden_kin_iso1 adenylate kinase; InterPro: IPR006267   Members of this family are adenylate kinase, 2.7.4.3 from EC. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (IPR006266 from INTERPRO), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in IPR006259 from INTERPRO.; GO: 0004017 adenylate kinase activity, 0005524 ATP binding, 0046034 ATP metabolic process, 0005737 cytoplasm.
Probab=89.76  E-value=0.15  Score=30.63  Aligned_cols=26  Identities=23%  Similarity=0.319  Sum_probs=18.2

Q ss_pred             EEEEECCCCCHHHH---HHHHHHH-HHHCC
Q ss_conf             79984888996799---9999999-98247
Q 537021.9.peg.4   34 AWVSANAGSGKTHI---LVQRVLR-LLLAN   59 (242)
Q Consensus        34 ~lV~A~aGSGKT~t---L~~rv~~-ll~~g   59 (242)
                      ++|++||||||=|-   ||+.|-+ +|..|
T Consensus         6 iFivGGPGSGKGTQC~KiV~KYGfTHLSsG   35 (191)
T TIGR01360         6 IFIVGGPGSGKGTQCEKIVEKYGFTHLSSG   35 (191)
T ss_pred             EEEECCCCCCCCHHHHHHHHHCCCCCCCHH
T ss_conf             888658888840136898864188645406


No 309
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=89.69  E-value=0.23  Score=29.33  Aligned_cols=34  Identities=15%  Similarity=0.318  Sum_probs=22.7

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHH-HCCCCHHHHH
Q ss_conf             8879984888996799999999998-2478988956
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLL-LANAHPSTLL   66 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll-~~g~~P~~IL   66 (242)
                      -.+.|-+.||+||||.+ .+++..| .+|....-++
T Consensus         6 mki~ITG~PGvGKtTl~-~ki~e~L~~~g~kvgGf~   40 (179)
T COG1618           6 MKIFITGRPGVGKTTLV-LKIAEKLREKGYKVGGFI   40 (179)
T ss_pred             EEEEEECCCCCCHHHHH-HHHHHHHHHCCCEEEEEE
T ss_conf             59998679984589999-999999985596651398


No 310
>PRK13695 putative NTPase; Provisional
Probab=89.67  E-value=0.45  Score=27.27  Aligned_cols=28  Identities=21%  Similarity=0.351  Sum_probs=20.5

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHH-CCCC
Q ss_conf             8799848889967999999999982-4789
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLLL-ANAH   61 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll~-~g~~   61 (242)
                      -+++-+.||+||||.+ .++...|. .|..
T Consensus         5 kI~iTG~PGvGKTTli-~Kv~~~L~~~g~~   33 (174)
T PRK13695          5 RIGITGMPGVGKTTLV-LKIAELLAREGYK   33 (174)
T ss_pred             EEEEECCCCCCHHHHH-HHHHHHHHHCCCE
T ss_conf             9998789998899999-9999998636961


No 311
>KOG0743 consensus
Probab=89.57  E-value=0.24  Score=29.20  Aligned_cols=24  Identities=21%  Similarity=0.314  Sum_probs=18.1

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHH
Q ss_conf             887998488899679999999999
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRL   55 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~l   55 (242)
                      +.=|.-+|||||||+.|+...-+|
T Consensus       236 RGYLLYGPPGTGKSS~IaAmAn~L  259 (457)
T KOG0743         236 RGYLLYGPPGTGKSSFIAAMANYL  259 (457)
T ss_pred             CCCEEECCCCCCHHHHHHHHHHHC
T ss_conf             041204799998889999997205


No 312
>pfam02702 KdpD Osmosensitive K+ channel His kinase sensor domain. This is a family of KdpD sensor kinase proteins that regulate the kdpFABC operon responsible for potassium transport. The aligned region corresponds to the N-terminal cytoplasmic part of the protein which may be the sensor domain responsible for sensing turgor pressure.
Probab=89.47  E-value=0.51  Score=26.93  Aligned_cols=50  Identities=22%  Similarity=0.239  Sum_probs=37.2

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             79984888996799999999998247898895667768789999999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVL   83 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~   83 (242)
                      +..-++||.|||+.+....-.+..+|++.===.+=|..++.+.+|.+.+.
T Consensus         8 IylG~apGVGKTy~ML~eA~~l~~~G~DVViG~vEthgR~eT~~l~~gLe   57 (211)
T pfam02702         8 IFLGAAPGVGKTYAMLSEAHELLERGVDVVIGYVETHGRAETAALLEGLE   57 (211)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCCCCHHHHHHHCCCC
T ss_conf             98535998778999999999999789956999953799789999976876


No 313
>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=89.32  E-value=0.45  Score=27.32  Aligned_cols=26  Identities=23%  Similarity=0.451  Sum_probs=19.7

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             888799848889967999999999982
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      +-++++-+.+|||||.+. ..+...|.
T Consensus        43 P~Ni~iYGkTGtGKT~vt-~~v~~~l~   68 (383)
T TIGR02928        43 PSNIFIYGKTGTGKTAVT-KYVMKELE   68 (383)
T ss_pred             CCCEEEECCCCCCHHHHH-HHHHHHHH
T ss_conf             872588788898788999-99999999


No 314
>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).
Probab=89.26  E-value=0.47  Score=27.14  Aligned_cols=27  Identities=22%  Similarity=0.362  Sum_probs=18.4

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHH-HCCCC
Q ss_conf             79984888996799999999998-24789
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLL-LANAH   61 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll-~~g~~   61 (242)
                      +-|.+|.||||||. ++++...+ .+|..
T Consensus         2 IgIaG~SgSGKTT~-a~~L~~~l~~~~~~   29 (179)
T cd02028           2 VGIAGPSGSGKTTF-AKKLSNQLRVNGIG   29 (179)
T ss_pred             EEEECCCCCCHHHH-HHHHHHHHHHCCCC
T ss_conf             89989897789999-99999998464885


No 315
>TIGR01186 proV glycine betaine/L-proline transport ATP binding subunit; InterPro: IPR005892   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 comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation.   Functionally, this transport system is involved in osmoregulation. Under conditions of stress, the organism recruits this transport system to accumulate glycine betaine and other solutes which offer osmo-protection. It has been demonstrated that glycine betaine uptake is accompanied by symport with sodium ions. The locus has been named variously as proU or opuA. A gene library from L. lactis functionally complements an Escherichia coli proU mutant. The complementing locus is similar to a opuA locus in Bacillus subtlis. This clarifies the differences in nomenclature.; GO: 0005524 ATP binding, 0015171 amino acid transmembrane transporter activity, 0006865 amino acid transport, 0016020 membrane.
Probab=89.24  E-value=1.6  Score=23.34  Aligned_cols=89  Identities=15%  Similarity=0.179  Sum_probs=45.7

Q ss_pred             CCC-EEEEECCCCCHHHHHHHHHHHHHH--CC---CCHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHCCCCCCCHHHHHH
Q ss_conf             888-799848889967999999999982--47---8988956677687899999999-9999677521674221464997
Q 537021.9.peg.4   31 TRS-AWVSANAGSGKTHILVQRVLRLLL--AN---AHPSTLLCLTHTKAAAAEMSHR-VLEIITAWSHLSDEILSAEITK  103 (242)
Q Consensus        31 ~~~-~lV~A~aGSGKT~tL~~rv~~ll~--~g---~~P~~IL~lTFT~kAA~El~~R-I~~~l~~~~~~~~~~~~~~l~~  103 (242)
                      .|- .++.+.-||||||++ .-+=|||+  .|   ++-+.|.-  .+..--+|.|.| |.=.++.++-.|+-+.-.....
T Consensus        18 ~GEi~vi~GlSGsGKsT~v-rmlNRLIEPt~G~i~IDG~~I~~--~~~~eLREVRRkKI~~V~Q~~aLfPHmTil~N~~~   94 (372)
T TIGR01186        18 KGEIFVIMGLSGSGKSTLV-RMLNRLIEPTAGQIFIDGENIMK--ISDVELREVRRKKIGMVFQQFALFPHMTILQNTSL   94 (372)
T ss_pred             CCEEEEEECCCCCCHHHHH-HHHHHCCCCCCCCEEECCHHHHC--CCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHH
T ss_conf             5438999778998578999-99872257778746766214313--69347544424566565444302764157778777


Q ss_pred             --HHCCCCCHHHHHHHHHHHH
Q ss_conf             --3147999789999999999
Q 537021.9.peg.4  104 --IQGKKPNKSDMSKARHLLI  122 (242)
Q Consensus       104 --~~~~~~~~~~~~~~~~ll~  122 (242)
                        .+..-+......+|+..|+
T Consensus        95 g~~L~g~~~~~R~ekAle~Lk  115 (372)
T TIGR01186        95 GLELLGIPEQERKEKALELLK  115 (372)
T ss_pred             HHHHCCCCHHHHHHHHHHHHH
T ss_conf             477518867788999998764


No 316
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=89.13  E-value=0.34  Score=28.14  Aligned_cols=16  Identities=38%  Similarity=0.408  Sum_probs=12.9

Q ss_pred             EEEEECCCCCHHHHHH
Q ss_conf             7998488899679999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILV   49 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~   49 (242)
                      +-|.+.|||||||+-.
T Consensus         3 ItIsG~pGsG~TTva~   18 (179)
T COG1102           3 ITISGLPGSGKTTVAR   18 (179)
T ss_pred             EEECCCCCCCCHHHHH
T ss_conf             9961799997027999


No 317
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein B; InterPro: IPR004435   The majority of molybdenum-containing enzymes utilise a molybdenum cofactor (MoCF or Moco) consisting of a Mo atom coordinated via a cisdithiolene moiety to molybdopterin (MPT). MoCF is ubiquitous in nature, and the pathway for MoCF biosynthesis is conserved in all three domains of life. MoCF-containing enzymes function as oxidoreductases in carbon, nitrogen, and sulphur metabolism , .    In Escherichia coli, biosynthesis of MoCF is a three stage process. It begins with the MoaA and MoaC conversion of GTP to the meta-stable pterin intermediate precursor Z. The second stage involves MPT synthase (MoaD and MoaE), which coverts precursor Z to MPT; MoeB is involved in the recycling of MPT synthase. The final step in MoCF synthesis is the attachment of mononuclear Mo to MPT, a process that requires MoeA and which is enhanced by MogA in an Mg2 ATP-dependent manner . MoCF is the active co-factor in eukaryotic and some prokaryotic molybdoenzymes, but the majority of bacterial enzymes requiring MoCF, need a modification of MTP for it to be active; MobA is involved in the attachment of a nucleotide monophosphate to MPT resulting in the MGD co-factor, the active co-factor for most prokaryotic molybdoenzymes. Bacterial two-hybrid studies have revealed the close interactions between MoeA, MogA, and MobA in the synthesis of MoCF . Moreover the close functional association of MoeA and MogA in the synthesis of MoCF is supported by fact that the known eukaryotic homologues to MoeA and MogA exist as fusion proteins: CNX1 () of Arabidopsis thaliana (Mouse-ear cress), mammalian Gephryin (e.g. Q9NQX3 from SWISSPROT) and Drosophila melanogaster (Fruit fly) Cinnamon (P39205 from SWISSPROT) .   The MobB domain is similar to that of the urease accessory protein UreG and the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocentres of their respective target enzymes. It is involved in the final step of molybdenum-cofactor biosynthesis. While its precise function has not been identified it is thought to be involved in the transfer of a guanine dinucleotide moiety to molybdopterin, as it shows GTP-binding and weak GTPase activity . The MobB protein (P32125 from SWISSPROT) from Escherichia coli, which is comprised of this domain, is a homodimer . Each molecule is composed of two distinct regions - an outer region comprised of 6 beta-strands and three alpha helices, and an inner region comprised of a two-strand beta hairpin followed by an alpha helix. These regions require interaction with the second monomer to allow proper folding to occur. The two monomers are intertwined and form an extensive 16-stranded beta-sheet. While the active site could not be positively identified, the presence of highly conserved residues suggests the substrate binding site occurs in the central solvent channel.; GO: 0005525 GTP binding, 0006777 Mo-molybdopterin cofactor biosynthetic process.
Probab=89.08  E-value=0.29  Score=28.61  Aligned_cols=29  Identities=21%  Similarity=0.170  Sum_probs=22.3

Q ss_pred             EEEECCCCCHHHHHHHHHHHHHHCCCCHH
Q ss_conf             99848889967999999999982478988
Q 537021.9.peg.4   35 WVSANAGSGKTHILVQRVLRLLLANAHPS   63 (242)
Q Consensus        35 lV~A~aGSGKT~tL~~rv~~ll~~g~~P~   63 (242)
                      -|.+.=+||||+.|..-|-.|-.+|.++.
T Consensus         3 ~i~G~k~SGKTtL~~~l~~~L~~~Gy~V~   31 (165)
T TIGR00176         3 QIVGYKNSGKTTLIERLVKALKARGYRVA   31 (165)
T ss_pred             EEEEECCCCHHHHHHHHHHHHHCCCCCEE
T ss_conf             78962588678999999999970799508


No 318
>PRK13898 type IV secretion system ATPase VirB4; Provisional
Probab=89.05  E-value=0.49  Score=27.05  Aligned_cols=47  Identities=19%  Similarity=0.224  Sum_probs=30.1

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             8887998488899679999999999824789889566776878999999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRV   82 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI   82 (242)
                      .|+-+|.++.|||||+.+.-..+.+-.-  .| +  ++-|-+.-..++--|.
T Consensus       446 ~GHtlI~G~TGsGKTtl~~fL~aq~~ky--~~-~--~f~fDkd~~~~i~~~a  492 (800)
T PRK13898        446 VGHTLIIGPTGAGKTVLMNFLCAQAMKF--SP-R--MFFFDKDRGAEIFIRA  492 (800)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHHHH--CC-E--EEEEECCCCHHHHHHH
T ss_conf             7756998999998999999999998754--88-7--9999799986999998


No 319
>pfam05707 Zot Zonular occludens toxin (Zot). This family consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot). Zot is elaborated by bacteriophages present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers
Probab=88.95  E-value=0.42  Score=27.53  Aligned_cols=26  Identities=31%  Similarity=0.351  Sum_probs=21.2

Q ss_pred             EEEEECCCCCHHHHHHHH-HHHHHHCC
Q ss_conf             799848889967999999-99998247
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQR-VLRLLLAN   59 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~r-v~~ll~~g   59 (242)
                      -++.+.||||||.-.|.. +...+.+|
T Consensus         3 ~litG~pGsGKS~~aV~~~i~~al~~G   29 (183)
T pfam05707         3 YLITGKPGSGKTLEAVSYHILPALKKG   29 (183)
T ss_pred             EEEECCCCCCCCHHHHHHHHHHHHHCC
T ss_conf             999359999622999999999998789


No 320
>PRK05642 DNA replication initiation factor; Validated
Probab=88.91  E-value=0.68  Score=26.02  Aligned_cols=27  Identities=15%  Similarity=0.278  Sum_probs=19.1

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHH-HCC
Q ss_conf             8879984888996799999999998-247
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLL-LAN   59 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll-~~g   59 (242)
                      .++.+.+++|+|||+.|-. +++.. ..|
T Consensus        46 ~~l~i~G~~G~GKTHLL~A-~~~~~~~~~   73 (234)
T PRK05642         46 SLIYLWGKDGVGRSHLLQA-ACLRFEQRG   73 (234)
T ss_pred             CEEEEECCCCCCHHHHHHH-HHHHHHHCC
T ss_conf             8389988999988999999-999998079


No 321
>PRK13705 plasmid-partitioning protein SopA; Provisional
Probab=88.91  E-value=0.25  Score=29.13  Aligned_cols=28  Identities=29%  Similarity=0.129  Sum_probs=21.9

Q ss_pred             CCEEEEECC----CCCHHHHHHHHHHHHHHCC
Q ss_conf             887998488----8996799999999998247
Q 537021.9.peg.4   32 RSAWVSANA----GSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        32 ~~~lV~A~a----GSGKT~tL~~rv~~ll~~g   59 (242)
                      .+..|+|-+    |+|||||-++...+|-.+|
T Consensus       104 ~~~~VIAVaNqKGGvGKTTTavnLA~~LAl~G  135 (388)
T PRK13705        104 EFPPVIGVAAHKGGVYKTSVSVHLAQDLALKG  135 (388)
T ss_pred             CCCEEEEEECCCCCCCHHHHHHHHHHHHHHCC
T ss_conf             98728999527888559999999999999779


No 322
>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1,  is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.
Probab=88.89  E-value=0.28  Score=28.74  Aligned_cols=53  Identities=15%  Similarity=0.182  Sum_probs=29.3

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             88879984888996799999999998247898895667768789999999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVL   83 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~   83 (242)
                      +...+|.|++|+|||+.+...+.+.......-.=+.++=-...-+.|+.+.+.
T Consensus        69 GQR~~I~~~~g~GKt~ll~~ii~~~~~~~~~v~V~~~IGer~~ev~~~~~~~~  121 (274)
T cd01133          69 GGKIGLFGGAGVGKTVLIMELINNIAKAHGGYSVFAGVGERTREGNDLYHEMK  121 (274)
T ss_pred             CCEEEEECCCCCCCCHHHHHHHHHHHHCCCCEEEEEEECCCHHHHHHHHHHHC
T ss_conf             85778757999982368999999998508987999984255488999999720


No 323
>KOG2227 consensus
Probab=88.89  E-value=0.58  Score=26.51  Aligned_cols=39  Identities=28%  Similarity=0.416  Sum_probs=29.3

Q ss_pred             CCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHH
Q ss_conf             768887998488899679999999999824789889566
Q 537021.9.peg.4   29 DPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLC   67 (242)
Q Consensus        29 ~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~   67 (242)
                      .+.|++-|.+.||||||-.+-.-+..+-..+..|..+-+
T Consensus       173 ~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~i  211 (529)
T KOG2227         173 NTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYI  211 (529)
T ss_pred             CCCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEE
T ss_conf             667645751799865488999998740343166516998


No 324
>PRK13853 type IV secretion system protein VirB4; Provisional
Probab=88.81  E-value=0.51  Score=26.92  Aligned_cols=50  Identities=16%  Similarity=0.170  Sum_probs=29.8

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             888799848889967999999999982478-9889566776878999999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLANA-HPSTLLCLTHTKAAAAEMSHRV   82 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~-~P~~IL~lTFT~kAA~El~~RI   82 (242)
                      .|+-+|+++.|||||+.+.-.++.+-.-.. +..+|++  |-+.-..++--|.
T Consensus       426 ~GHt~I~G~TGsGKTtll~fL~aq~~ky~~~~~~~~~~--fDkd~s~~i~~~a  476 (789)
T PRK13853        426 VGMTAIFGPIGRGKTTLMTFILAMLEQSMVDRAGAVVF--FDKDRGGELLVRA  476 (789)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCEEEE--EECCCCHHHHHHH
T ss_conf             77448878999988999999999999742235770899--9588638999998


No 325
>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=88.69  E-value=0.33  Score=28.21  Aligned_cols=26  Identities=27%  Similarity=0.250  Sum_probs=22.1

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             79984888996799999999998247
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      +++++.||-||||+-++...-+-..|
T Consensus       107 aItS~~pGEGKS~vAaNLA~~~Aq~G  132 (274)
T TIGR03029       107 AVVSAKSGEGCSYIAANLAIVFSQLG  132 (274)
T ss_pred             EEECCCCCCCHHHHHHHHHHHHHHCC
T ss_conf             99689999989999999999999679


No 326
>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=88.66  E-value=0.41  Score=27.55  Aligned_cols=31  Identities=16%  Similarity=0.344  Sum_probs=21.9

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHH-HCCCCHHHH
Q ss_conf             79984888996799999999998-247898895
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLL-LANAHPSTL   65 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll-~~g~~P~~I   65 (242)
                      +-|.+|.||||||.- .++...+ ..|+.+..+
T Consensus         2 IgIaG~SgSGKTT~a-~~L~~~l~~~~~~~~~~   33 (196)
T pfam00485         2 IGVAGSSGAGKTTVA-RTFVSIFGREGVPAAGI   33 (196)
T ss_pred             EEEECCCCCCHHHHH-HHHHHHHCCCCCCCCCC
T ss_conf             899899857199999-99999966058776412


No 327
>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=88.59  E-value=0.38  Score=27.78  Aligned_cols=23  Identities=35%  Similarity=0.261  Sum_probs=16.6

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             79984888996799999999998
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      .+|.+.||||||++=..-..+|=
T Consensus         1 ~VlmGvaG~GKs~~a~~l~~~lg   23 (175)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRLG   23 (175)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHH
T ss_conf             96760278628899999999854


No 328
>PRK09087 hypothetical protein; Validated
Probab=88.52  E-value=0.41  Score=27.59  Aligned_cols=18  Identities=33%  Similarity=0.527  Sum_probs=14.1

Q ss_pred             CCCEEEEECCCCCHHHHH
Q ss_conf             888799848889967999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHIL   48 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL   48 (242)
                      .+.+.+.+++|||||+.+
T Consensus        44 ~~~~~L~Gp~gsGKTHL~   61 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLA   61 (226)
T ss_pred             CCEEEEECCCCCCHHHHH
T ss_conf             775899899999886999


No 329
>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]
Probab=88.50  E-value=2  Score=22.71  Aligned_cols=24  Identities=25%  Similarity=0.116  Sum_probs=19.3

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHH
Q ss_conf             688879984888996799999999
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVL   53 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~   53 (242)
                      ++..+.|.+.+|.|||+...++..
T Consensus        93 ~g~l~~vyg~~g~gKt~a~~~y~~  116 (297)
T COG2842          93 TGSLVVVYGYAGLGKTQAAKNYAP  116 (297)
T ss_pred             CCCEEEEECCCCCHHHHHHHHHCC
T ss_conf             685478863322006899986533


No 330
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=88.48  E-value=0.19  Score=29.97  Aligned_cols=24  Identities=17%  Similarity=0.332  Sum_probs=19.9

Q ss_pred             EEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             984888996799999999998247
Q 537021.9.peg.4   36 VSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        36 V~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      |-++||+|||+.+-..+.++..+|
T Consensus         4 itG~pGaGKStLi~~l~~~~~~~g   27 (148)
T cd03114           4 ITGVPGAGKSTLIDALITALRARG   27 (148)
T ss_pred             ECCCCCCCHHHHHHHHHHHHHHCC
T ss_conf             258997878999999999999789


No 331
>PRK00131 aroK shikimate kinase; Reviewed
Probab=88.47  E-value=0.33  Score=28.20  Aligned_cols=25  Identities=20%  Similarity=0.213  Sum_probs=18.2

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             88879984888996799999999998
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      ..++++++.|||||||+= ..++..+
T Consensus         4 ~~nI~liG~~GsGKTtvg-k~LA~~L   28 (175)
T PRK00131          4 GPNIVLIGMMGAGKSTIG-RLLAKRL   28 (175)
T ss_pred             CCEEEEECCCCCCHHHHH-HHHHHHH
T ss_conf             980898889999989999-9999995


No 332
>KOG3928 consensus
Probab=88.41  E-value=0.53  Score=26.80  Aligned_cols=36  Identities=22%  Similarity=0.279  Sum_probs=28.1

Q ss_pred             HHHHH--CCCCCEEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             99982--7688879984888996799999999998247
Q 537021.9.peg.4   24 QLLAS--DPTRSAWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        24 q~~a~--~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      ++.++  .|.+..+.-+.||||||-+|++-+.+...++
T Consensus       170 ~r~~d~~~P~~r~vL~Ge~GtGKSiaL~qa~h~a~~~~  207 (461)
T KOG3928         170 KRLVDPMHPVKRFVLDGEPGTGKSIALAQAVHYAADQK  207 (461)
T ss_pred             HHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHCCC
T ss_conf             64036567635899857998762059999999873178


No 333
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=88.40  E-value=0.69  Score=25.97  Aligned_cols=27  Identities=22%  Similarity=0.169  Sum_probs=21.2

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCC
Q ss_conf             799848889967999999999982478
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANA   60 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~   60 (242)
                      +.|++.-||||||.+-....+|-.+|.
T Consensus         3 IviEG~dGsGKsT~~~~L~~~L~~~g~   29 (200)
T cd01672           3 IVFEGIDGAGKTTLIELLAERLEARGY   29 (200)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCC
T ss_conf             999899899999999999999997799


No 334
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=88.37  E-value=0.47  Score=27.16  Aligned_cols=23  Identities=26%  Similarity=0.362  Sum_probs=16.4

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             799848889967999999999982
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      +++-+.||||||+-- ...+..|.
T Consensus         4 iIlTGyPgsGKTtfa-keLak~L~   26 (261)
T COG4088           4 IILTGYPGSGKTTFA-KELAKELR   26 (261)
T ss_pred             EEEECCCCCCCHHHH-HHHHHHHH
T ss_conf             998269998801789-99999999


No 335
>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=88.32  E-value=0.23  Score=29.37  Aligned_cols=29  Identities=31%  Similarity=0.210  Sum_probs=22.7

Q ss_pred             CCCEEEEECC----CCCHHHHHHHHHHHHHHCC
Q ss_conf             8887998488----8996799999999998247
Q 537021.9.peg.4   31 TRSAWVSANA----GSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        31 ~~~~lV~A~a----GSGKT~tL~~rv~~ll~~g   59 (242)
                      +.++-|+|-+    |+|||||-++...+|-.+|
T Consensus       101 g~~~~VIav~N~KGGVGKTTtav~LA~~LA~~G  133 (387)
T TIGR03453       101 GEHLQVIAVTNFKGGSGKTTTSAHLAQYLALRG  133 (387)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHHCC
T ss_conf             998808999788876569999999999999779


No 336
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase; InterPro: IPR011023   This domain is found in archaeal, bacterial and eukaryotic proteins.    In the archaea and bacteria, they are primarily restricted to the euryarchaeota and proteobacteria respectively; where they are either described as either nucleolar protein or tRNA/rRNA cytosine-C5-methylase. They all have the S-adenosyl methionine (SAM) binding domain and are related to bacterial Fmu (16S rRNA m5C 967 methyltransferase) where the structure of the methyl transferase domain has been determined .    In the eukaryota, the majority are annotated as being 'nucleolar protein'. None of the eukaryotic members in this family have a the SAM binding signature. Despite this, the yeast Nop2p is a probable RNA m(5)C methyltransferase, essential for processing and maturation of 27S pre-rRNA and large ribosomal subunit biogenesis ; localised to the nucleolus and is essential for viability . Reduced Nop2p expression limits yeast growth and decreases levels of mature 60S ribosomal subunits while altering rRNA processing . There is substantial identity between Nop2p and human p120 (NOL1), which is also called the proliferation-associated nucleolar antigen , . .
Probab=88.32  E-value=0.11  Score=31.49  Aligned_cols=63  Identities=16%  Similarity=0.219  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHHCCCHHHHHHHCCCCCEE-EEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             78888897323509489999827688879-98488899679999999999824789889566776878999999999
Q 537021.9.peg.4    7 FQEHSETIDLISQTKSEQLLASDPTRSAW-VSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRV   82 (242)
Q Consensus         7 ~~~~~~~~~~~~~~~~qq~~a~~~~~~~l-V~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI   82 (242)
                      .||.|||+=.+..-.+     -.|+.-|| +-|+|| ||||-|+.+..+   +    .-|+|.-+.+.=.+-|.+=|
T Consensus        59 ~q~aSSmiPp~aL~p~-----Gn~~~~vlD~AAaPG-gKTT~is~~m~N---~----G~i~Ane~~ksR~k~L~~NI  122 (284)
T TIGR00446        59 VQEASSMIPPLALEPE-----GNEKERVLDMAAAPG-GKTTQISALMKN---E----GAIVANEVSKSRTKVLIANI  122 (284)
T ss_pred             HHHHHHCCCCEEECCC-----CCCCCEEEEEECCCC-CHHHHHHHHHCC---C----CEEEEECCCCCCCHHHHHHH
T ss_conf             9878736760301778-----768887999740889-648999998658---8----51899737634106678655


No 337
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=88.26  E-value=0.58  Score=26.50  Aligned_cols=95  Identities=20%  Similarity=0.343  Sum_probs=51.8

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCC
Q ss_conf             88879984888996799999999998247898895667768789999999999996775216742214649973147999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITAWSHLSDEILSAEITKIQGKKPN  110 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~~~~~~~~l~~~~~~~~~  110 (242)
                      ...-+|-=..|||||-|+..-...++.. ..-..|+.||=-+    ++-+.+..-+..+...            ....+.
T Consensus       273 ~~~G~IWHtqGSGKTltm~~~A~~l~~~-~~~~~v~fvvDR~----dLd~Q~~~~f~~~~~~------------~~~~~~  335 (962)
T COG0610         273 GKGGYIWHTQGSGKTLTMFKLARLLLEL-PKNPKVLFVVDRK----DLDDQTSDEFQSFGKV------------AFNDPK  335 (962)
T ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHC-CCCCEEEEEECHH----HHHHHHHHHHHHHHHH------------HHCCCC
T ss_conf             7723898406983789999999999836-5999699996728----8999999999998876------------320444


Q ss_pred             HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHH
Q ss_conf             78999999999999831-0013211179999875554
Q 537021.9.peg.4  111 KSDMSKARHLLITILET-PGGLKVQTIHAFCEAIMQQ  146 (242)
Q Consensus       111 ~~~~~~~~~ll~~~l~~-~~~~~i~Ti~~f~~~ilr~  146 (242)
                          ......+...++. .+++.+.||+.|.......
T Consensus       336 ----~~s~~~Lk~~l~~~~~~ii~TTIQKf~~~~~~~  368 (962)
T COG0610         336 ----AESTSELKELLEDGKGKIIVTTIQKFNKAVKED  368 (962)
T ss_pred             ----CCCHHHHHHHHHCCCCCEEEEEECCCCHHHHCC
T ss_conf             ----457999999986589848999710264333333


No 338
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=88.22  E-value=0.5  Score=26.96  Aligned_cols=27  Identities=30%  Similarity=0.422  Sum_probs=19.1

Q ss_pred             CCCC-EEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             6888-799848889967999999999982
Q 537021.9.peg.4   30 PTRS-AWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        30 ~~~~-~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      ..|. +-|++.||||||-|.-+ |.+.|.
T Consensus       291 GtG~cLYISGVPGTGKTATV~e-VIr~L~  318 (650)
T PTZ00112        291 GTGQILYISGVPGTGKTATVYM-VIKELQ  318 (650)
T ss_pred             CCCCEEEEECCCCCCCHHHHHH-HHHHHH
T ss_conf             8665699978999980036999-999999


No 339
>PRK13830 conjugal transfer protein TrbE; Provisional
Probab=88.07  E-value=0.59  Score=26.49  Aligned_cols=48  Identities=13%  Similarity=0.110  Sum_probs=29.7

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             8887998488899679999999999824789889566776878999999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRV   82 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI   82 (242)
                      -|+-+|+++.|||||+.+.-..+..-.  -++.+|  +-|=+.-..|+--|.
T Consensus       456 vGHtlIiGpTGsGKTvll~fl~aq~~k--y~~~~v--f~FDKd~s~~i~~~a  503 (818)
T PRK13830        456 VGHTLIFGPTGSGKSTLLALIAAQFRR--YAGAQI--FAFDKGRSMLPLTLA  503 (818)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHH--CCCCEE--EEECCCCCHHHHHHH
T ss_conf             650589899999889999999999864--279838--997488768999998


No 340
>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and    vesicular transport]
Probab=87.86  E-value=0.25  Score=29.06  Aligned_cols=20  Identities=40%  Similarity=0.423  Sum_probs=16.7

Q ss_pred             EEEEECCCCCHHHHHHHHHH
Q ss_conf             79984888996799999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVL   53 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~   53 (242)
                      -+|+++||||||+.|.+--.
T Consensus       128 y~viG~pgsGKTtal~~sgl  147 (1188)
T COG3523         128 YMVIGPPGSGKTTALLNSGL  147 (1188)
T ss_pred             EEEECCCCCCCCHHHHCCCC
T ss_conf             58854888984008751553


No 341
>PRK13869 plasmid-partitioning protein RepA; Provisional
Probab=87.63  E-value=0.28  Score=28.76  Aligned_cols=28  Identities=32%  Similarity=0.235  Sum_probs=21.6

Q ss_pred             CCEEEEECC----CCCHHHHHHHHHHHHHHCC
Q ss_conf             887998488----8996799999999998247
Q 537021.9.peg.4   32 RSAWVSANA----GSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        32 ~~~lV~A~a----GSGKT~tL~~rv~~ll~~g   59 (242)
                      .++-|+|.+    |+|||||-++...+|-.+|
T Consensus       119 ~~~kVIaVaN~KGGVGKTTtav~LA~~LA~~G  150 (405)
T PRK13869        119 EHLQVIAVTNFKGGSGKTTTSAHLAQYLALQG  150 (405)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHHCC
T ss_conf             99828999788877659999999999999779


No 342
>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=87.54  E-value=0.4  Score=27.69  Aligned_cols=26  Identities=35%  Similarity=0.502  Sum_probs=17.6

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             888799848889967999999999982
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      --++|.++|-||||| .|+.-.++.|.
T Consensus       152 KSNILLiGPTGSGKT-LLAqTLA~~L~  177 (452)
T TIGR00382       152 KSNILLIGPTGSGKT-LLAQTLARILN  177 (452)
T ss_pred             CCCEEEECCCCCCHH-HHHHHHHHHCC
T ss_conf             066245468885268-99999998738


No 343
>KOG1970 consensus
Probab=87.42  E-value=0.57  Score=26.60  Aligned_cols=35  Identities=17%  Similarity=0.223  Sum_probs=22.6

Q ss_pred             HHHHHCCCHHHHHHHCCC-C--CEEEEECCCCCHHHHHHH
Q ss_conf             732350948999982768-8--879984888996799999
Q 537021.9.peg.4   14 IDLISQTKSEQLLASDPT-R--SAWVSANAGSGKTHILVQ   50 (242)
Q Consensus        14 ~~~~~~~~~qq~~a~~~~-~--~~lV~A~aGSGKT~tL~~   50 (242)
                      -|+-.|+.  |-....|. +  -+|+-+++|+|||||+--
T Consensus        92 ~eVk~WL~--~~~~~~~~l~~~iLLltGPsGcGKSTtvkv  129 (634)
T KOG1970          92 SEVKQWLK--QVAEFTPKLGSRILLLTGPSGCGKSTTVKV  129 (634)
T ss_pred             HHHHHHHH--HHHHHCCCCCCEEEEEECCCCCCCHHHHHH
T ss_conf             99999999--999745366760799857988871319999


No 344
>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]
Probab=87.32  E-value=0.72  Score=25.88  Aligned_cols=77  Identities=18%  Similarity=0.212  Sum_probs=38.9

Q ss_pred             HHHHHHHHHHHHHCCCHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             078888897323509489999827688879984888996799999999998--247898895667768789999999999
Q 537021.9.peg.4    6 SFQEHSETIDLISQTKSEQLLASDPTRSAWVSANAGSGKTHILVQRVLRLL--LANAHPSTLLCLTHTKAAAAEMSHRVL   83 (242)
Q Consensus         6 ~~~~~~~~~~~~~~~~~qq~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll--~~g~~P~~IL~lTFT~kAA~El~~RI~   83 (242)
                      ..+|.++..|.+---+-=++.-.-..+.|+..++||||||-.     ++.+  ..+||-=.|=.=.|-.--+.-=..|++
T Consensus       158 akeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLL-----AkAvAgEA~VPFf~iSGS~FVemfVGvGAsRVR  232 (596)
T COG0465         158 AKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLL-----AKAVAGEAGVPFFSISGSDFVEMFVGVGASRVR  232 (596)
T ss_pred             HHHHHHHHHHHHHCCHHHHHCCCCCCCCEEEECCCCCCCHHH-----HHHHHCCCCCCCEECCCHHHHHHHCCCCCHHHH
T ss_conf             999999999986385566752353456526855999872789-----999845468983530344464431478838889


Q ss_pred             HHHH
Q ss_conf             9967
Q 537021.9.peg.4   84 EIIT   87 (242)
Q Consensus        84 ~~l~   87 (242)
                      ..+.
T Consensus       233 dLF~  236 (596)
T COG0465         233 DLFE  236 (596)
T ss_pred             HHHH
T ss_conf             9999


No 345
>PRK07667 uridine kinase; Provisional
Probab=87.29  E-value=0.84  Score=25.41  Aligned_cols=31  Identities=16%  Similarity=0.134  Sum_probs=20.1

Q ss_pred             CCCCCE--EEEECCCCCHHHHHHHHHHHHH-HCCC
Q ss_conf             768887--9984888996799999999998-2478
Q 537021.9.peg.4   29 DPTRSA--WVSANAGSGKTHILVQRVLRLL-LANA   60 (242)
Q Consensus        29 ~~~~~~--lV~A~aGSGKT~tL~~rv~~ll-~~g~   60 (242)
                      ++++..  =|.++.|||||| +++.++..+ ..|+
T Consensus        10 ~~~~r~iIgIaG~sgSGKTT-la~~L~~~l~~~~~   43 (190)
T PRK07667         10 HKENRFILGIDGLSRSGKTT-FVANLKENMKQEGI   43 (190)
T ss_pred             CCCCEEEEEEECCCCCCHHH-HHHHHHHHHHHCCC
T ss_conf             75986999977989788999-99999999866598


No 346
>PRK05595 replicative DNA helicase; Provisional
Probab=87.26  E-value=2.4  Score=22.21  Aligned_cols=101  Identities=10%  Similarity=0.173  Sum_probs=51.2

Q ss_pred             EEEEECCCCCHHHHHHHHHHHH-HHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCHH
Q ss_conf             7998488899679999999999-824789889566776878999999999999677521674221464997314799978
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRL-LLANAHPSTLLCLTHTKAAAAEMSHRVLEIITAWSHLSDEILSAEITKIQGKKPNKS  112 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~l-l~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~  112 (242)
                      ++|-|-||.|||....+...+. +.+|.   .++.+++ ...+.++..|+.........          ..+-....+..
T Consensus       204 iiiaaRP~mGKTa~alnia~~~a~~~g~---~V~~fSl-EMs~~ql~~R~ls~~s~i~~----------~~i~~g~l~~~  269 (444)
T PRK05595        204 ILIAARPSMGKTTFALNIAEYAALREGK---SVVIFSL-EMSKEQLAYKLLCSEANVDM----------LRLRTGNLEDK  269 (444)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCC---CEEEEEC-CCCHHHHHHHHHHHHCCCCC----------CCCCCCCCCHH
T ss_conf             9998579898079999999999986699---3799958-89999999999996469884----------42326897999


Q ss_pred             HHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999999999------831001321117999987555428
Q 537021.9.peg.4  113 DMSKARHLLITI------LETPGGLKVQTIHAFCEAIMQQFP  148 (242)
Q Consensus       113 ~~~~~~~ll~~~------l~~~~~~~i~Ti~~f~~~ilr~~~  148 (242)
                      .+.+.......+      +.....+.+.+|.+-|.++.+.++
T Consensus       270 ~~~~~~~a~~~l~~~~l~i~d~~~~ti~~i~~~~r~~~~~~~  311 (444)
T PRK05595        270 DWENIARASGPLAAAKIYIDDTAGVSVMEMRSKCRRLKIEHG  311 (444)
T ss_pred             HHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHCC
T ss_conf             999999999998548970548999648999999999998739


No 347
>PRK03731 aroL shikimate kinase II; Reviewed
Probab=87.24  E-value=0.44  Score=27.34  Aligned_cols=25  Identities=24%  Similarity=0.365  Sum_probs=18.4

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             88879984888996799999999998
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      ..|++.++-+|||||++= .+++..+
T Consensus         2 ~~~I~LiG~mGsGKstiG-k~LA~~L   26 (172)
T PRK03731          2 TQPLFLVGPRGCGKTTVG-MALAQAL   26 (172)
T ss_pred             CCCEEEECCCCCCHHHHH-HHHHHHH
T ss_conf             998899889999889999-9999985


No 348
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=87.23  E-value=0.63  Score=26.27  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=16.3

Q ss_pred             EEEEECCCCCHHHHHHHHHHHH
Q ss_conf             7998488899679999999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRL   55 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~l   55 (242)
                      |.|.++|||||||.|-..|-+.
T Consensus        72 vavvGPpGtGKsTLirSlVrr~   93 (1077)
T COG5192          72 VAVVGPPGTGKSTLIRSLVRRF   93 (1077)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
T ss_conf             9963699887468999999998


No 349
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General    function prediction only]
Probab=87.19  E-value=0.56  Score=26.60  Aligned_cols=51  Identities=24%  Similarity=0.300  Sum_probs=30.0

Q ss_pred             HHCCCHHHHHHHC----CCCC-EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHH
Q ss_conf             3509489999827----6888-7998488899679999999999824789889566
Q 537021.9.peg.4   17 ISQTKSEQLLASD----PTRS-AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLC   67 (242)
Q Consensus        17 ~~~~~~qq~~a~~----~~~~-~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~   67 (242)
                      +++-|.+|+.|.+    ++-+ |-..+.||||||-.-..--++-+.+.-...+|++
T Consensus       226 i~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiV  281 (436)
T COG1875         226 IRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIV  281 (436)
T ss_pred             CCCCCHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHHCEEEE
T ss_conf             57455888888998638777848863357766769999989999987754302788


No 350
>KOG0926 consensus
Probab=87.17  E-value=0.77  Score=25.65  Aligned_cols=65  Identities=23%  Similarity=0.221  Sum_probs=39.4

Q ss_pred             CHHHHHHHCCC-CC-EEEEECCCCCHHHHHHHHHHHHHHCCC------CHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             48999982768-88-799848889967999999999982478------9889566776878999999999999677
Q 537021.9.peg.4   21 KSEQLLASDPT-RS-AWVSANAGSGKTHILVQRVLRLLLANA------HPSTLLCLTHTKAAAAEMSHRVLEIITA   88 (242)
Q Consensus        21 ~~qq~~a~~~~-~~-~lV~A~aGSGKT~tL~~rv~~ll~~g~------~P~~IL~lTFT~kAA~El~~RI~~~l~~   88 (242)
                      -++|++.-.-+ -| |+|-+--||||||-+-.-.   -..|.      +|+-|-+.-.-|-||-.|..|+..-++.
T Consensus       259 aeEq~IMEaIn~n~vvIIcGeTGsGKTTQvPQFL---YEAGf~s~~~~~~gmIGITqPRRVAaiamAkRVa~EL~~  331 (1172)
T KOG0926         259 AEEQRIMEAINENPVVIICGETGSGKTTQVPQFL---YEAGFASEQSSSPGMIGITQPRRVAAIAMAKRVAFELGV  331 (1172)
T ss_pred             HHHHHHHHHHHCCCEEEEECCCCCCCCCCCHHHH---HHCCCCCCCCCCCCEEEECCCHHHHHHHHHHHHHHHHCC
T ss_conf             7899999986228749995488888644341899---871347766799870540572278999999999998525


No 351
>pfam00625 Guanylate_kin Guanylate kinase.
Probab=87.06  E-value=0.58  Score=26.51  Aligned_cols=21  Identities=33%  Similarity=0.428  Sum_probs=17.1

Q ss_pred             CCCEEEEECCCCCHHHHHHHH
Q ss_conf             888799848889967999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQR   51 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~r   51 (242)
                      .++++++++.|+|||+.+-..
T Consensus         1 ~klivl~GPSG~GK~tl~~~L   21 (182)
T pfam00625         1 RRPIVLSGPSGVGKSHIKKAL   21 (182)
T ss_pred             CCEEEEECCCCCCHHHHHHHH
T ss_conf             986999898999999999999


No 352
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=87.02  E-value=0.41  Score=27.58  Aligned_cols=19  Identities=21%  Similarity=0.385  Sum_probs=16.1

Q ss_pred             CCCCEEEEECCCCCHHHHH
Q ss_conf             6888799848889967999
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHIL   48 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL   48 (242)
                      +.++||-.++||||||.+-
T Consensus       150 APknVLFyGppGTGKTm~A  168 (368)
T COG1223         150 APKNVLFYGPPGTGKTMMA  168 (368)
T ss_pred             CCCEEEEECCCCCCHHHHH
T ss_conf             7541687789996487999


No 353
>PRK13531 regulatory ATPase RavA; Provisional
Probab=87.00  E-value=1  Score=24.80  Aligned_cols=29  Identities=14%  Similarity=0.177  Sum_probs=21.1

Q ss_pred             HCCCCCEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             276888799848889967999999999982
Q 537021.9.peg.4   28 SDPTRSAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        28 ~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      +-.+.+++++++|||||+- |+.|+...+.
T Consensus        36 alagehvlllGPPGtAKS~-larrl~~~~~   64 (498)
T PRK13531         36 ALSGESVFLLGPPGIAKSL-IARRLKFAFQ   64 (498)
T ss_pred             HHCCCCEEEECCCCHHHHH-HHHHHHHHHC
T ss_conf             9728946988899513889-9999999855


No 354
>pfam12340 DUF3638 Protein of unknown function (DUF3638). This domain family is found in eukaryotes, and is approximately 230 amino acids in length. There are two conserved sequence motifs: LLE and NMG.
Probab=87.00  E-value=2.5  Score=22.11  Aligned_cols=55  Identities=22%  Similarity=0.285  Sum_probs=41.4

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             8887998488899679999999999824789889566776878999999999999677
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITA   88 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~   88 (242)
                      +.+-+..--=|.|||++|+--++-.+++|   ++++.+.+-+.=...+..=+..+++.
T Consensus        41 ~~n~v~QlnMGeGKTsVI~Pmla~~LAdg---~~Lvr~vvp~~Ll~q~~~~L~~~lgg   95 (229)
T pfam12340        41 GSNSVLQLNMGEGKTSVIVPMVAAVLADG---SRLVRVIVPKPLLRQMAQMLQSRLGG   95 (229)
T ss_pred             CCCEEEHHHCCCCCCEEEHHHHHHHHCCC---CCEEEEECCHHHHHHHHHHHHHHHHH
T ss_conf             88722011206996224378899997488---84589982688999999999998642


No 355
>KOG0987 consensus
Probab=86.96  E-value=0.41  Score=27.57  Aligned_cols=67  Identities=19%  Similarity=0.209  Sum_probs=44.3

Q ss_pred             HHHHHHHHHHHHCCCHHHH--------HHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             7888889732350948999--------98276888799848889967999999999982478988956677687899999
Q 537021.9.peg.4    7 FQEHSETIDLISQTKSEQL--------LASDPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEM   78 (242)
Q Consensus         7 ~~~~~~~~~~~~~~~~qq~--------~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El   78 (242)
                      .+.|.+....+   +.+|+        .+.+..|+++-.+.+|||||+.+-.-+.-+-.+|   ...++++.+..|+.=.
T Consensus       108 ~~~~~~~~~~l---~~eqk~v~d~~~~~v~~~~g~~ff~g~~gtgKt~l~~t~~~~~~~~g---~~~~~v~~s~ia~~~l  181 (540)
T KOG0987         108 KEKHAELPKKL---TPEQKRVYDAILEAVENNLGGVFFYGFGGTGKTYLLKTLIAALRSRG---KIVLNVASSGIAALLL  181 (540)
T ss_pred             HHHHHHHHHHC---CHHHHHHHHHHHHHHHCCCCCEEECCCCCCCCEEEHHHHHHHHHHCC---CCEEEEEECCHHHHHC
T ss_conf             55310236655---98776379999999854787653436788654023788999997458---7146653301244315


Q ss_pred             H
Q ss_conf             9
Q 537021.9.peg.4   79 S   79 (242)
Q Consensus        79 ~   79 (242)
                      .
T Consensus       182 ~  182 (540)
T KOG0987         182 E  182 (540)
T ss_pred             C
T ss_conf             6


No 356
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=86.94  E-value=0.41  Score=27.57  Aligned_cols=31  Identities=26%  Similarity=0.215  Sum_probs=22.1

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHHCCCCH
Q ss_conf             8879984888996799999999998247898
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLLLANAHP   62 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P   62 (242)
                      .-++|.+.+|+|||+.+...+.+...++.+|
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~   36 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDEFPEGYPP   36 (219)
T ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCC
T ss_conf             7999999999988999999964767655676


No 357
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=86.89  E-value=0.78  Score=25.60  Aligned_cols=55  Identities=20%  Similarity=0.325  Sum_probs=38.5

Q ss_pred             HHCCCHHHHHHHC----C--CCC--EEEEECCCCCHHHHHHHHHHHHHHCC-----CCHHHHHHHHHH
Q ss_conf             3509489999827----6--888--79984888996799999999998247-----898895667768
Q 537021.9.peg.4   17 ISQTKSEQLLASD----P--TRS--AWVSANAGSGKTHILVQRVLRLLLAN-----AHPSTLLCLTHT   71 (242)
Q Consensus        17 ~~~~~~qq~~a~~----~--~~~--~lV~A~aGSGKT~tL~~rv~~ll~~g-----~~P~~IL~lTFT   71 (242)
                      -+.|++|++++.+    .  +.|  -|+.+--|||||-+...-....+..|     ..|.+||+--.-
T Consensus       256 F~LT~~Q~~~~~ei~~dl~~~~~m~rllqGDVGsGKT~va~~a~~~~~~~g~q~a~maPTeiLa~Qh~  323 (677)
T PRK10917        256 FELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEAGYQAALMAPTEILAEQHY  323 (677)
T ss_pred             CCCCHHHHHHHHHHHHHHCCCCCCHHHHCCCCCCCHHHHHHHHHHHHHHHCCEEEEECCCHHHHHHHH
T ss_conf             98898899999999987659954277732876788899999999999981994899876799999999


No 358
>COG1674 FtsK DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]
Probab=86.87  E-value=0.97  Score=24.94  Aligned_cols=29  Identities=28%  Similarity=0.422  Sum_probs=25.7

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             88879984888996799999999998247
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      .++++|.+.+||||++.|-..+..++...
T Consensus       530 ~~hlli~G~tgsGKSv~lnt~i~Sll~~~  558 (858)
T COG1674         530 AGHLLIAGATGSGKSVALNTMILSLLYTH  558 (858)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf             88878824888651558999999987518


No 359
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=86.84  E-value=0.44  Score=27.36  Aligned_cols=26  Identities=23%  Similarity=0.399  Sum_probs=19.2

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             888799848889967999999999982
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      .+++++++.||||||++= ..++..+.
T Consensus         4 kknI~LiG~mGsGKstvg-k~LA~~l~   29 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIG-RQLAQQLN   29 (172)
T ss_pred             CCCEEEECCCCCCHHHHH-HHHHHHHC
T ss_conf             882898899999889999-99999969


No 360
>KOG0729 consensus
Probab=86.79  E-value=0.39  Score=27.77  Aligned_cols=27  Identities=26%  Similarity=0.491  Sum_probs=20.3

Q ss_pred             CCHHHHHH--HCCCCCEEEEECCCCCHHH
Q ss_conf             94899998--2768887998488899679
Q 537021.9.peg.4   20 TKSEQLLA--SDPTRSAWVSANAGSGKTH   46 (242)
Q Consensus        20 ~~~qq~~a--~~~~~~~lV~A~aGSGKT~   46 (242)
                      ++++.-..  .+|.+.+|..++||||||-
T Consensus       198 L~PErfv~LGIdPPKGvllyGPPGtGKTL  226 (435)
T KOG0729         198 LHPERFVNLGIDPPKGVLLYGPPGTGKTL  226 (435)
T ss_pred             CCHHHHHHCCCCCCCCEEEECCCCCCHHH
T ss_conf             58888875278998733786899986108


No 361
>KOG0331 consensus
Probab=86.73  E-value=0.48  Score=27.08  Aligned_cols=59  Identities=22%  Similarity=0.240  Sum_probs=37.3

Q ss_pred             CCCCCEEEEECCCCCHHHHHH-HHHHHHHH-CC--CC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             768887998488899679999-99999982-47--89--889566776878999999999999677521
Q 537021.9.peg.4   29 DPTRSAWVSANAGSGKTHILV-QRVLRLLL-AN--AH--PSTLLCLTHTKAAAAEMSHRVLEIITAWSH   91 (242)
Q Consensus        29 ~~~~~~lV~A~aGSGKT~tL~-~rv~~ll~-~g--~~--P~~IL~lTFT~kAA~El~~RI~~~l~~~~~   91 (242)
                      --++.++.+|--|||||..-. --+.++.. .+  -.  --.+|++++||    |+...|..-+.++..
T Consensus       126 l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTR----ELA~QV~~~~~~~~~  190 (519)
T KOG0331         126 LSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTR----ELAVQVQAEAREFGK  190 (519)
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCEEEEECCCH----HHHHHHHHHHHHHCC
T ss_conf             26886577823578620555557999987004443479998699976859----999999999999707


No 362
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily; InterPro: IPR005938    The ATPase Cdc48 is required for membrane fusion and protein degradation. It possesses chaperone-like activities and can functionally interact with Hsc70. Yeast CDC48 plays a role in cell division control whereas eukaryotic homologues are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.; GO: 0016787 hydrolase activity.
Probab=86.69  E-value=0.41  Score=27.61  Aligned_cols=30  Identities=27%  Similarity=0.417  Sum_probs=19.4

Q ss_pred             HHHCCCCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             9827688879984888996799999999998
Q 537021.9.peg.4   26 LASDPTRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        26 ~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      ....|...+|..+|||||||- |+.-+++-+
T Consensus       235 lGiePPkG~ll~GPPGtGktl-laka~ane~  264 (980)
T TIGR01243       235 LGIEPPKGVLLYGPPGTGKTL-LAKAVANEA  264 (980)
T ss_pred             CCCCCCCCEEEECCCCCCHHH-HHHHHHHHC
T ss_conf             188998735875589861789-999987530


No 363
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=86.66  E-value=1.6  Score=23.41  Aligned_cols=61  Identities=15%  Similarity=0.251  Sum_probs=39.4

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHH-----HHHHHHHHHHH-----HHHHHHHHHHHHHHHHCC
Q ss_conf             888799848889967999999999982478988-----95667768789-----999999999996775216
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLANAHPS-----TLLCLTHTKAA-----AAEMSHRVLEIITAWSHL   92 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~-----~IL~lTFT~kA-----A~El~~RI~~~l~~~~~~   92 (242)
                      .-+.+.++-||.|||... +-++..|.+|--|+     +|+.+--..--     -.|+.+|+...+.+....
T Consensus       207 KNNpiLvGepGVGKTAIv-EGLA~rI~~g~VP~~L~~~~i~~Ldl~~LiAGtkyRGefEeRlk~vi~e~~~~  277 (758)
T PRK11034        207 KNNPLLVGESGVGKTAIA-EGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFKALLKQLEQD  277 (758)
T ss_pred             CCCCEEECCCCCCHHHHH-HHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCCCCCHHHHHHHHHHHHHHHHC
T ss_conf             589602169998699999-99999997389976558988998458778616864154999999999999857


No 364
>PRK00698 tmk thymidylate kinase; Validated
Probab=86.65  E-value=1  Score=24.76  Aligned_cols=29  Identities=17%  Similarity=0.093  Sum_probs=22.6

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHHCCCC
Q ss_conf             87998488899679999999999824789
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLLLANAH   61 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll~~g~~   61 (242)
                      =+.+++.-||||||..-....+|-.+|.+
T Consensus         5 fIviEGiDGsGKsTq~~~L~~~L~~~g~~   33 (204)
T PRK00698          5 FITIEGIDGAGKSTQIELLAERLEEQGRD   33 (204)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCC
T ss_conf             99998899998999999999999967997


No 365
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=86.61  E-value=2.6  Score=21.97  Aligned_cols=24  Identities=17%  Similarity=0.246  Sum_probs=17.4

Q ss_pred             EEEEECCCCCHHHHHHHHHH-HHHHC
Q ss_conf             79984888996799999999-99824
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVL-RLLLA   58 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~-~ll~~   58 (242)
                      .|..+++|+|||++- .+++ +++.+
T Consensus        48 ~Lf~GP~GiGKaTlA-~~~A~~Ll~~   72 (352)
T PRK09112         48 LLFEGPEGIGKATLA-FHLANHILSH   72 (352)
T ss_pred             EEEECCCCCCHHHHH-HHHHHHHHCC
T ss_conf             653589980899999-9999998669


No 366
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=86.61  E-value=1.5  Score=23.71  Aligned_cols=34  Identities=9%  Similarity=0.089  Sum_probs=24.0

Q ss_pred             HHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             9827688879984888996799999999998247
Q 537021.9.peg.4   26 LASDPTRSAWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        26 ~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      +-......+||.++||+||||--..-.-++..+|
T Consensus       258 RL~eraeGILIAG~PGaGKsTFaqAlAefy~~~G  291 (604)
T COG1855         258 RLEERAEGILIAGAPGAGKSTFAQALAEFYASQG  291 (604)
T ss_pred             HHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf             9886416469956999974689999999998669


No 367
>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.
Probab=86.60  E-value=1.1  Score=24.70  Aligned_cols=27  Identities=26%  Similarity=0.236  Sum_probs=21.7

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCC
Q ss_conf             799848889967999999999982478
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANA   60 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~   60 (242)
                      +-|.+--||||||.+...+..|-.+|.
T Consensus         4 i~ivG~snSGKTTLi~kli~~l~~~G~   30 (159)
T cd03116           4 IGFVGYSGSGKTTLLEKLIPALSARGL   30 (159)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCC
T ss_conf             999967999999999999999997798


No 368
>pfam02689 Herpes_Helicase Helicase. This family consists of Helicases from the Herpes viruses. Helicases are responsible for the unwinding of DNA and are essential for replication and completion of the viral life cycle.
Probab=86.57  E-value=1.1  Score=24.44  Aligned_cols=42  Identities=24%  Similarity=0.354  Sum_probs=33.5

Q ss_pred             EEEEECCCCCHHHHHHHHHHHH--HHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             7998488899679999999999--824789889566776878999999999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRL--LLANAHPSTLLCLTHTKAAAAEMSHRVLEI   85 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~l--l~~g~~P~~IL~lTFT~kAA~El~~RI~~~   85 (242)
                      .||-+-||+|||+.+......|  |-.|          =|+-||+++...+...
T Consensus        63 ylITGtAGaGKSTsIq~L~~~LdCvITG----------aT~VAAQNls~~L~~~  106 (801)
T pfam02689        63 YLITGTAGAGKSTSIQTLNENLDCLITG----------ATRVAAQNLSAKLSRA  106 (801)
T ss_pred             EEEECCCCCCCHHHHHHHHHHCCEEEEC----------CHHHHHHHHHHHHHHC
T ss_conf             9995378887051899999753928956----------1589988999986213


No 369
>KOG0730 consensus
Probab=86.55  E-value=0.61  Score=26.35  Aligned_cols=19  Identities=32%  Similarity=0.625  Sum_probs=12.5

Q ss_pred             CCCCEEEEECCCCCHHHHH
Q ss_conf             6888799848889967999
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHIL   48 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL   48 (242)
                      |.+.+|..++||+|||...
T Consensus       217 ~prg~Ll~gppg~Gkt~l~  235 (693)
T KOG0730         217 PPRGLLLYGPPGTGKTFLV  235 (693)
T ss_pred             CCCCCCCCCCCCCCHHHHH
T ss_conf             9987444389999818999


No 370
>pfam00406 ADK Adenylate kinase.
Probab=86.52  E-value=0.52  Score=26.83  Aligned_cols=31  Identities=19%  Similarity=0.349  Sum_probs=17.8

Q ss_pred             EEECCCCCHHHHHHHHHHHHH-HCCCCHHHHHH
Q ss_conf             984888996799999999998-24789889566
Q 537021.9.peg.4   36 VSANAGSGKTHILVQRVLRLL-LANAHPSTLLC   67 (242)
Q Consensus        36 V~A~aGSGKT~tL~~rv~~ll-~~g~~P~~IL~   67 (242)
                      +.++|||||+|.- .+++.-. ..-+....+|-
T Consensus         1 i~G~PGsGKgTqa-~~La~~~~~~~is~GdllR   32 (186)
T pfam00406         1 LLGPPGAGKGTQA-ERIVQKYGIVHLSTGDLLR   32 (186)
T ss_pred             CCCCCCCCHHHHH-HHHHHHHCCEEECHHHHHH
T ss_conf             9188989859999-9999985990676999999


No 371
>PRK13873 conjugal transfer ATPase TrbE; Provisional
Probab=86.37  E-value=0.86  Score=25.32  Aligned_cols=48  Identities=15%  Similarity=0.159  Sum_probs=29.5

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             8887998488899679999999999824789889566776878999999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRV   82 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI   82 (242)
                      -|+-+|+++.|||||+.|.-..+....  -++.+|  +-|=+....++--|.
T Consensus       441 vGHtlI~GpTGsGKTvll~~l~~q~~r--y~~~~v--f~FDkd~s~~i~~~a  488 (815)
T PRK13873        441 VGHTLVVGPTGAGKSVLLALMALQFRR--YPGSQV--FAFDFGGSIRAAALA  488 (815)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHHH--CCCCCE--EEEECCCCHHHHHHH
T ss_conf             764389788999899999999999864--489848--999789878999998


No 372
>COG1797 CobB Cobyrinic acid a,c-diamide synthase [Coenzyme metabolism]
Probab=86.36  E-value=0.94  Score=25.04  Aligned_cols=27  Identities=33%  Similarity=0.305  Sum_probs=18.5

Q ss_pred             CEEEEECC--CCCHHHHHHHHHHHHHHCC
Q ss_conf             87998488--8996799999999998247
Q 537021.9.peg.4   33 SAWVSANA--GSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        33 ~~lV~A~a--GSGKT~tL~~rv~~ll~~g   59 (242)
                      +.+|+||+  |+||||+=......|..+|
T Consensus         1 ~~vvIAg~~SG~GKTTvT~glm~aL~~rg   29 (451)
T COG1797           1 PAVVIAGTSSGSGKTTVTLGLMRALRRRG   29 (451)
T ss_pred             CCEEEECCCCCCCHHHHHHHHHHHHHHCC
T ss_conf             93599548888858999999999998668


No 373
>PRK13947 shikimate kinase; Provisional
Probab=86.32  E-value=0.49  Score=27.01  Aligned_cols=25  Identities=24%  Similarity=0.302  Sum_probs=18.5

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             88799848889967999999999982
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      ++++.++-|||||||+= .+++..+.
T Consensus         2 knI~LiG~mGsGKTtiG-k~La~~L~   26 (171)
T PRK13947          2 KNIVLIGFMGTGKTTVG-KKVATTLS   26 (171)
T ss_pred             CCEEEECCCCCCHHHHH-HHHHHHHC
T ss_conf             85899799999889999-99999979


No 374
>KOG0780 consensus
Probab=86.26  E-value=0.41  Score=27.59  Aligned_cols=48  Identities=15%  Similarity=0.059  Sum_probs=39.4

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             799848889967999999999982478988956677687899999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHR   81 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~R   81 (242)
                      ++..+--|+|||||.+....|+=.+|.+|-=|.+=||--.|-..++--
T Consensus       104 imfVGLqG~GKTTtc~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkqn  151 (483)
T KOG0780         104 IMFVGLQGSGKTTTCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQN  151 (483)
T ss_pred             EEEEECCCCCCCEEHHHHHHHHHHCCCCEEEEEECCCCCCHHHHHHHH
T ss_conf             999830578863008999999984687245776022453068999987


No 375
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily; InterPro: IPR005938    The ATPase Cdc48 is required for membrane fusion and protein degradation. It possesses chaperone-like activities and can functionally interact with Hsc70. Yeast CDC48 plays a role in cell division control whereas eukaryotic homologues are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.; GO: 0016787 hydrolase activity.
Probab=86.26  E-value=0.43  Score=27.40  Aligned_cols=60  Identities=22%  Similarity=0.268  Sum_probs=36.2

Q ss_pred             HHHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHCC---CCHHHHHH--HHHHHHHHHHHHHHHHHH
Q ss_conf             99827688879984888996799999999998247---89889566--776878999999999999
Q 537021.9.peg.4   25 LLASDPTRSAWVSANAGSGKTHILVQRVLRLLLAN---AHPSTLLC--LTHTKAAAAEMSHRVLEI   85 (242)
Q Consensus        25 ~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g---~~P~~IL~--lTFT~kAA~El~~RI~~~   85 (242)
                      +....|.+.+|..+|||||||- |+.-++.--...   +.--+|+.  +--+.++..++-.|-+..
T Consensus       569 k~G~~PP~Gvll~GPPGtGktl-lakava~es~anfi~v~GPe~lskWvGese~~ir~if~~arq~  633 (980)
T TIGR01243       569 KLGIRPPKGVLLFGPPGTGKTL-LAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQA  633 (980)
T ss_pred             HCCCCCCCCEEEECCCCCCHHH-HHHHHHHCCCCCEEEECCCHHHHHHHCHHHHHHHHHHHHHHHC
T ss_conf             6078899734874689861688-8887740145646774073122344032479999999986412


No 376
>KOG0652 consensus
Probab=86.24  E-value=0.45  Score=27.32  Aligned_cols=100  Identities=14%  Similarity=0.179  Sum_probs=45.0

Q ss_pred             HCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCC---CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHH
Q ss_conf             276888799848889967999999999982478---98895667768789999999999996775216742214649973
Q 537021.9.peg.4   28 SDPTRSAWVSANAGSGKTHILVQRVLRLLLANA---HPSTLLCLTHTKAAAAEMSHRVLEIITAWSHLSDEILSAEITKI  104 (242)
Q Consensus        28 ~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~---~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~~~~~~~~l~~~  104 (242)
                      ..|.+.||..++||||||-.  .|.+..-.+-.   -..--|+-.|--..|.=.++-..-.-.   ..+-.-+-..+-.+
T Consensus       202 i~pPKGvLmYGPPGTGKTlm--ARAcAaqT~aTFLKLAgPQLVQMfIGdGAkLVRDAFaLAKE---kaP~IIFIDElDAI  276 (424)
T KOG0652         202 IRPPKGVLMYGPPGTGKTLM--ARACAAQTNATFLKLAGPQLVQMFIGDGAKLVRDAFALAKE---KAPTIIFIDELDAI  276 (424)
T ss_pred             CCCCCCEEEECCCCCCHHHH--HHHHHHHCCCHHHHHCCHHHHHHHHCCHHHHHHHHHHHHHC---CCCEEEEEECHHHH
T ss_conf             88997227657999757799--99998740106887326477766533418899999987533---49838997300232


Q ss_pred             HCCCCCHHHH--HHHHHHHHHHHHHHHHHH
Q ss_conf             1479997899--999999999983100132
Q 537021.9.peg.4  105 QGKKPNKSDM--SKARHLLITILETPGGLK  132 (242)
Q Consensus       105 ~~~~~~~~~~--~~~~~ll~~~l~~~~~~~  132 (242)
                      ....++....  .+.++....++.+.+++.
T Consensus       277 GtKRfDSek~GDREVQRTMLELLNQLDGFs  306 (424)
T KOG0652         277 GTKRFDSEKAGDREVQRTMLELLNQLDGFS  306 (424)
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHCCCCC
T ss_conf             334365312343899999999998604899


No 377
>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=86.23  E-value=0.9  Score=25.18  Aligned_cols=52  Identities=21%  Similarity=0.191  Sum_probs=34.2

Q ss_pred             HCCCCCEEEEECCCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             276888799848889967999999999982-478988956677687899999999
Q 537021.9.peg.4   28 SDPTRSAWVSANAGSGKTHILVQRVLRLLL-ANAHPSTLLCLTHTKAAAAEMSHR   81 (242)
Q Consensus        28 ~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~-~g~~P~~IL~lTFT~kAA~El~~R   81 (242)
                      .-..|+.+|.++-|||||+.|.=..+.+-. .+-.|  +-++-|-|.--.|.--|
T Consensus       513 ~r~~GhT~IfG~~G~GKTtLl~fL~a~~~ky~~~~a--~~~~~fDkd~g~~~~~~  565 (931)
T TIGR00929       513 KRVLGHTLIFGPTGSGKTTLLNFLLAQLQKYKPNFA--LTIFAFDKDRGMEIFIR  565 (931)
T ss_pred             HHHCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCCC--EEEEEEECCCCCHHHHE
T ss_conf             110387778888898469999999999742488987--06999887898210411


No 378
>KOG3347 consensus
Probab=86.21  E-value=0.42  Score=27.47  Aligned_cols=24  Identities=25%  Similarity=0.480  Sum_probs=17.9

Q ss_pred             CC-EEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             88-79984888996799999999998
Q 537021.9.peg.4   32 RS-AWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        32 ~~-~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      +| +||-+.||+||||+- .+++...
T Consensus         7 ~PNILvtGTPG~GKstl~-~~lae~~   31 (176)
T KOG3347           7 RPNILVTGTPGTGKSTLA-ERLAEKT   31 (176)
T ss_pred             CCCEEEECCCCCCCHHHH-HHHHHHH
T ss_conf             788798679998802599-9999973


No 379
>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=86.18  E-value=0.8  Score=25.55  Aligned_cols=57  Identities=18%  Similarity=0.180  Sum_probs=35.3

Q ss_pred             CCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCH------HHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             7688879984888996799999999998247898------89566776878999999999999
Q 537021.9.peg.4   29 DPTRSAWVSANAGSGKTHILVQRVLRLLLANAHP------STLLCLTHTKAAAAEMSHRVLEI   85 (242)
Q Consensus        29 ~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P------~~IL~lTFT~kAA~El~~RI~~~   85 (242)
                      ..+++-||-+.-|||||.||--....+=..||+.      ..+-.++-.-....-+.+|+.+.
T Consensus        19 ~~NRHGLiaGATGTGKTvTLq~lAE~~S~~GVPvf~aDvKGDLsGia~~G~~~~kl~~R~~~~   81 (504)
T pfam05872        19 MANRHGLIAGATGTGKTVTLQVLAESFSDAGVPVFLADVKGDLSGIAAPGEPQDKLAARAASI   81 (504)
T ss_pred             HCCCCCEECCCCCCCHHHHHHHHHHHHHHCCCCEEEECCCCCHHHCCCCCCCCHHHHHHHHHC
T ss_conf             605216622657786178999999987454993887105661432168899975799999971


No 380
>PRK07429 phosphoribulokinase; Provisional
Probab=86.13  E-value=1  Score=24.81  Aligned_cols=28  Identities=29%  Similarity=0.547  Sum_probs=21.0

Q ss_pred             CCCCCEE--EEECCCCCHHHHHHHHHHHHHH
Q ss_conf             7688879--9848889967999999999982
Q 537021.9.peg.4   29 DPTRSAW--VSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        29 ~~~~~~l--V~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      .+.+|++  |-+|-|||||| ++.++...+.
T Consensus         4 m~~rP~IIGIAGgSGSGKTT-v~r~I~~~fg   33 (331)
T PRK07429          4 MPDRPVIIGVAGDSGCGKST-FLRRLADLFG   33 (331)
T ss_pred             CCCCCEEEEEECCCCCCHHH-HHHHHHHHHC
T ss_conf             99999899985788778999-9999999838


No 381
>KOG2228 consensus
Probab=86.06  E-value=0.84  Score=25.39  Aligned_cols=28  Identities=25%  Similarity=0.303  Sum_probs=22.8

Q ss_pred             HHC-CCCCEEEEECCCCCHHHHHHHHHHH
Q ss_conf             827-6888799848889967999999999
Q 537021.9.peg.4   27 ASD-PTRSAWVSANAGSGKTHILVQRVLR   54 (242)
Q Consensus        27 a~~-~~~~~lV~A~aGSGKT~tL~~rv~~   54 (242)
                      |.+ ..-+|+++++.|||||..+..+...
T Consensus        44 ~~~gEsnsviiigprgsgkT~li~~~Ls~   72 (408)
T KOG2228          44 ILHGESNSVIIIGPRGSGKTILIDTRLSD   72 (408)
T ss_pred             HHHCCCCCEEEECCCCCCCEEEEHHHHHH
T ss_conf             98447772699814778816740778766


No 382
>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=86.00  E-value=0.52  Score=26.86  Aligned_cols=26  Identities=19%  Similarity=0.272  Sum_probs=18.3

Q ss_pred             CCCC-EEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             6888-79984888996799999999998
Q 537021.9.peg.4   30 PTRS-AWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        30 ~~~~-~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      ..|. +.+++|-||||||+| .-++-+.
T Consensus        29 ~~Gef~tlLGPSGcGKTTlL-R~IAGfe   55 (352)
T COG3842          29 KKGEFVTLLGPSGCGKTTLL-RMIAGFE   55 (352)
T ss_pred             CCCCEEEEECCCCCCHHHHH-HHHHCCC
T ss_conf             48868999899888889999-9996777


No 383
>PRK08694 consensus
Probab=85.98  E-value=2.8  Score=21.75  Aligned_cols=53  Identities=15%  Similarity=0.224  Sum_probs=34.1

Q ss_pred             CCC-EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH-HHHHHHHHHHHHHHHH
Q ss_conf             888-79984888996799999999998247898895667768-7899999999999967
Q 537021.9.peg.4   31 TRS-AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHT-KAAAAEMSHRVLEIIT   87 (242)
Q Consensus        31 ~~~-~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT-~kAA~El~~RI~~~l~   87 (242)
                      .|. ++|-|-||.|||....+-..+...+|-.|    ++=|| ...+.++..|+....+
T Consensus       217 ~G~LiVIaaRPsmGKTalalnia~~~a~~~~~~----V~~fSLEMs~~~l~~Rlla~~s  271 (468)
T PRK08694        217 PGDLIIVAGRPSMGKTAFSINIAEHVAVEGKLP----VAVFSMEMGGAQLVMRMLGSVG  271 (468)
T ss_pred             CCCEEEEEECCCCCHHHHHHHHHHHHHHHCCCC----EEEECCCCCHHHHHHHHHHHHC
T ss_conf             784799961786537899999999999847984----7997788999999999999725


No 384
>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=85.93  E-value=0.5  Score=27.00  Aligned_cols=15  Identities=27%  Similarity=0.452  Sum_probs=13.1

Q ss_pred             EEEEECCCCCHHHHH
Q ss_conf             799848889967999
Q 537021.9.peg.4   34 AWVSANAGSGKTHIL   48 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL   48 (242)
                      +-|-+++|||||++.
T Consensus         2 igiTG~igSGKStv~   16 (179)
T cd02022           2 IGLTGGIGSGKSTVA   16 (179)
T ss_pred             EEEECCCCCCHHHHH
T ss_conf             886378757899999


No 385
>pfam04665 Pox_A32 Poxvirus A32 protein. The A32 protein is thought to be involved in viral DNA packaging.
Probab=85.81  E-value=0.95  Score=25.01  Aligned_cols=41  Identities=22%  Similarity=0.337  Sum_probs=28.4

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHHC----------------C-CCHHHHHHHHHHHH
Q ss_conf             87998488899679999999999824----------------7-89889566776878
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLLLA----------------N-AHPSTLLCLTHTKA   73 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll~~----------------g-~~P~~IL~lTFT~k   73 (242)
                      ...++||-|||||+-|....-.++..                | +=|++|--+|=.++
T Consensus        15 rmaivGgSGSGKT~yLlsLf~tlv~kykhIfLfTpv~N~~Yd~YVwPdHV~~vtt~ee   72 (241)
T pfam04665        15 RMAIVGGSGSGKTTYLLSLLRTLVRKFKHIFLFTPVYNNAYDGYVWPDHIFKVTTNEE   72 (241)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHHEEEEEECCCCCCCCCCCCCCCCEEEECCHHH
T ss_conf             5999815887566999999999977415899962446732365257773256257235


No 386
>pfam00071 Ras Ras family. Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See pfam00009 pfam00025, pfam00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices.
Probab=85.77  E-value=0.72  Score=25.85  Aligned_cols=19  Identities=26%  Similarity=0.445  Sum_probs=15.5

Q ss_pred             EEEEECCCCCHHHHHHHHHH
Q ss_conf             79984888996799999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVL   53 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~   53 (242)
                      ++|++.+|+|||+.+ +|++
T Consensus         2 i~vvG~~~vGKTsli-~r~~   20 (162)
T pfam00071         2 LVLVGDGGVGKSSLL-IRFT   20 (162)
T ss_pred             EEEECCCCCCHHHHH-HHHH
T ss_conf             899997997799999-9996


No 387
>pfam07088 GvpD GvpD gas vesicle protein. This family consists of several archaeal GvpD gas vesicle proteins. GvpD is thought to be involved in the regulation of gas vesicle formation.
Probab=85.73  E-value=0.39  Score=27.77  Aligned_cols=48  Identities=19%  Similarity=0.241  Sum_probs=28.1

Q ss_pred             CCCCCEEEEECCCCCHHHHHHHHHHHHHHC---------CCCHHHHHHHHHHHHHHHH
Q ss_conf             768887998488899679999999999824---------7898895667768789999
Q 537021.9.peg.4   29 DPTRSAWVSANAGSGKTHILVQRVLRLLLA---------NAHPSTLLCLTHTKAAAAE   77 (242)
Q Consensus        29 ~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~---------g~~P~~IL~lTFT~kAA~E   77 (242)
                      +++..+||.+-||||||.- +-+.+.-+.+         .+.++.|.-.=|-.+.+-+
T Consensus         8 ~~G~tLlIkG~PGTGKTlf-Tl~~Ld~l~~~~~vlYvStRvdqd~V~e~yf~~~~~~~   64 (484)
T pfam07088         8 DFGKTLLINGAPGTGKTLF-TIRGLDVLRRHHDVLYVSTRVDQETVHEMYFEGHGSLD   64 (484)
T ss_pred             CCCCEEEEECCCCCCCEEE-EEEHHHHHHCCCCEEEEEECCCHHHHHHHHHHCCCCCC
T ss_conf             9984799936999872389-85737788516976999632377888774020025557


No 388
>PRK08233 hypothetical protein; Provisional
Probab=85.69  E-value=0.77  Score=25.65  Aligned_cols=22  Identities=32%  Similarity=0.472  Sum_probs=15.4

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             79984888996799999999998
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      +-|.+|.|||||+.. +.+...+
T Consensus         6 IgIaGgSgSGKTtla-~~l~~~l   27 (182)
T PRK08233          6 ITIAAVSGGGKTTLT-ERLTHKL   27 (182)
T ss_pred             EEEECCCCCCHHHHH-HHHHHHC
T ss_conf             999688867899999-9999974


No 389
>PRK13700 conjugal transfer protein TraD; Provisional
Probab=85.66  E-value=1  Score=24.73  Aligned_cols=29  Identities=10%  Similarity=0.162  Sum_probs=24.0

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             88879984888996799999999998247
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      ..+.+|.+.+|||||+.|-..+-..-.+|
T Consensus       185 ~qH~li~GTtGtGKS~~ir~LL~qIR~RG  213 (732)
T PRK13700        185 IQNFCLHGTVGAGKSEVIRRLANYARQRG  213 (732)
T ss_pred             HHEEEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf             31267746888889999999999999729


No 390
>PRK13973 thymidylate kinase; Provisional
Probab=85.50  E-value=1.3  Score=24.15  Aligned_cols=28  Identities=21%  Similarity=0.172  Sum_probs=22.9

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCC
Q ss_conf             7998488899679999999999824789
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANAH   61 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~~   61 (242)
                      +++++.-||||||.+-....+|..+|.+
T Consensus         6 Iv~EGiDGsGKsTq~~~L~~~L~~~g~~   33 (216)
T PRK13973          6 ITFEGGEGAGKSTQIRLLAERLRAAGYD   33 (216)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCC
T ss_conf             9988999998999999999999977995


No 391
>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=85.47  E-value=0.7  Score=25.93  Aligned_cols=32  Identities=19%  Similarity=0.310  Sum_probs=20.8

Q ss_pred             HHHHHHHCCCCCEEEEECCCCCHHHHHHHHHH
Q ss_conf             89999827688879984888996799999999
Q 537021.9.peg.4   22 SEQLLASDPTRSAWVSANAGSGKTHILVQRVL   53 (242)
Q Consensus        22 ~qq~~a~~~~~~~lV~A~aGSGKT~tL~~rv~   53 (242)
                      +|-..-...+.|+|.++-.|||||+++-....
T Consensus       455 eql~~~Iq~nep~LLVGeTGtGKTT~IQ~La~  486 (4600)
T COG5271         455 EQLLWNIQNNEPTLLVGETGTGKTTMIQYLAL  486 (4600)
T ss_pred             HHHHHHHCCCCCEEEEECCCCCHHHHHHHHHH
T ss_conf             99987741698458871488765469999999


No 392
>TIGR00956 3a01205 Pleiotropic Drug Resistance (PDR) Family protein; InterPro: IPR005285   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 transporters, whose physiological function is not yet established. These proteins are thought to confer resistance to the chemicals cycloheximide and sulphomethuron methyl, BFA, azole antifungal agents, other antifungal agents: amorolfine and terbinafine. Some of them could serve as an efflux pump of various antibiotics..
Probab=85.43  E-value=0.51  Score=26.88  Aligned_cols=53  Identities=15%  Similarity=0.082  Sum_probs=30.1

Q ss_pred             CCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             7688879984888996799999999998247898895667768789999999999
Q 537021.9.peg.4   29 DPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVL   83 (242)
Q Consensus        29 ~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~   83 (242)
                      .|+.=++|++.||||+||-|-.-....-.  -.-..=-.+++.--.-+||+.+.+
T Consensus        86 ~PGEl~vVLGrPGaGCsTlLk~ia~~t~g--f~~~~~g~i~YdG~~~~ei~k~yr  138 (1466)
T TIGR00956        86 KPGELTVVLGRPGAGCSTLLKTIASKTDG--FHIGVEGVITYDGITPEEIKKHYR  138 (1466)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHEEE--EECCCCCEEEECCCCHHHHHCCCC
T ss_conf             67617997248997356655565320001--431576448746888465411477


No 393
>pfam02492 cobW CobW/HypB/UreG, nucleotide-binding domain. This domain is found in HypB, a hydrogenase expression / formation protein, and UreG a urease accessory protein. Both these proteins contain a P-loop nucleotide binding motif. HypB has GTPase activity and is a guanine nucleotide binding protein. It is not known whether UreG binds GTP or some other nucleotide. Both enzymes are involved in nickel binding. HypB can store nickel and is required for nickel dependent hydrogenase expression. UreG is required for functional incorporation of the urease nickel metallocenter. GTP hydrolysis may required by these proteins for nickel incorporation into other nickel proteins. This family of domains also contains P47K, a Pseudomonas chlororaphis protein needed for nitrile hydratase expression, and the cobW gene product, which may be involved in cobalamin biosynthesis in Pseudomonas denitrificans.
Probab=85.39  E-value=0.78  Score=25.61  Aligned_cols=21  Identities=29%  Similarity=0.346  Sum_probs=15.3

Q ss_pred             CE-EEEECCCCCHHHHHHHHHH
Q ss_conf             87-9984888996799999999
Q 537021.9.peg.4   33 SA-WVSANAGSGKTHILVQRVL   53 (242)
Q Consensus        33 ~~-lV~A~aGSGKT~tL~~rv~   53 (242)
                      |+ +|-+-.||||||.|-+-+.
T Consensus         1 Pv~iitGFLGsGKTTll~~ll~   22 (174)
T pfam02492         1 PVTVLTGFLGSGKTTLLEHLLR   22 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
T ss_conf             9699934887889999999998


No 394
>KOG0332 consensus
Probab=85.35  E-value=0.41  Score=27.58  Aligned_cols=58  Identities=22%  Similarity=0.382  Sum_probs=42.3

Q ss_pred             HCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             2768887998488899679999999999824789889566776878999999999999
Q 537021.9.peg.4   28 SDPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEI   85 (242)
Q Consensus        28 ~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~   85 (242)
                      ..|..+++-.+--|||||..-+.-.+-.+.-.+..-+-+|+.+|+.-|.-|-+-+.+.
T Consensus       126 ~~Pp~nlIaQsqsGtGKTaaFvL~MLsRvd~~~~~PQ~iCLaPtrELA~Q~~eVv~eM  183 (477)
T KOG0332         126 AEPPQNLIAQSQSGTGKTAAFVLTMLSRVDPDVVVPQCICLAPTRELAPQTGEVVEEM  183 (477)
T ss_pred             CCCCHHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCCCCEEECCHHHHHHHHHHHHHHH
T ss_conf             5982656655017886058999999873483335877405476177799898999984


No 395
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=85.33  E-value=0.93  Score=25.06  Aligned_cols=28  Identities=18%  Similarity=0.205  Sum_probs=20.8

Q ss_pred             CCCCCEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             76888799848889967999999999982
Q 537021.9.peg.4   29 DPTRSAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        29 ~~~~~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      .+..++|..++||.|||| |++-+++-+.
T Consensus        49 e~ldH~Ll~GPPGlGKTT-LA~iiA~E~~   76 (328)
T PRK00080         49 EALDHVLLYGPPGLGKTT-LANIIANEMG   76 (328)
T ss_pred             CCCCCEEEECCCCCCHHH-HHHHHHHHHC
T ss_conf             998805765889988999-9999999868


No 396
>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=85.22  E-value=0.58  Score=26.50  Aligned_cols=21  Identities=29%  Similarity=0.230  Sum_probs=14.9

Q ss_pred             EEEEECCCCCHHHHHHHHHHH
Q ss_conf             799848889967999999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLR   54 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~   54 (242)
                      ++|-+.+||||||+=.....+
T Consensus         2 iiv~GvsGsGKSTia~~La~~   22 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
T ss_conf             899918999999999999997


No 397
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=85.14  E-value=0.89  Score=25.20  Aligned_cols=25  Identities=24%  Similarity=0.231  Sum_probs=18.7

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             8799848889967999999999982
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      .+|+.++||+|||++.-.....+..
T Consensus        26 alL~~Gp~G~Gktt~a~~lA~~l~~   50 (325)
T COG0470          26 ALLFYGPPGVGKTTAALALAKELLC   50 (325)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             1003799999789999999999658


No 398
>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=85.12  E-value=0.67  Score=26.07  Aligned_cols=69  Identities=20%  Similarity=0.293  Sum_probs=42.9

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHH--CCCCHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHH
Q ss_conf             6888799848889967999999999982--4789889566--7768789999999999996775216742214649973
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLL--ANAHPSTLLC--LTHTKAAAAEMSHRVLEIITAWSHLSDEILSAEITKI  104 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~--~g~~P~~IL~--lTFT~kAA~El~~RI~~~l~~~~~~~~~~~~~~l~~~  104 (242)
                      |+..+-|.++=||||||.| .-+..++.  +|    +|..  +..+.-.-.|++.||. .+.+.++.+..+..+.+.--
T Consensus       386 ~G~r~Ai~G~SG~GKsTLL-~~L~G~l~P~~G----~vtl~G~~~~~~~~~evrr~v~-~~aQ~aHlF~ttvr~NLrla  458 (566)
T TIGR02868       386 PGERVAILGPSGSGKSTLL-ATLAGLLDPLQG----EVTLDGVPVSSLSEDEVRRRVS-VFAQDAHLFDTTVRENLRLA  458 (566)
T ss_pred             CCCCEEEECCCCCCHHHHH-HHHHHHCCCCCC----CEEECCCCHHHCCCCHHEHHEE-ECCCCCCCCCCCHHHHHHHC
T ss_conf             8860898668876578999-999840289999----1787773243257311000003-12788621105478788731


No 399
>TIGR01187 potA polyamine ABC transporter, ATP-binding protein; InterPro: IPR005893   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 comprises the spermidine/putrescine ABC transporter, ATP binding subunit in bacteria and its equivalents in archaea. This transport system belongs to the larger ATP-Binding Cassette (ABC) transporter superfamily. Polyamines like spermidine and putrescine play a vital role in cell proliferation, differentiation, and ion homeostasis. The concentration of polyamines within the cell are regulated by biosynthesis, degradation and transport (uptake and efflux included).; GO: 0015417 polyamine-transporting ATPase activity, 0015846 polyamine transport, 0016020 membrane.
Probab=85.07  E-value=0.33  Score=28.24  Aligned_cols=19  Identities=26%  Similarity=0.410  Sum_probs=13.4

Q ss_pred             EEECCCCCHHHHHHHHHHHH
Q ss_conf             98488899679999999999
Q 537021.9.peg.4   36 VSANAGSGKTHILVQRVLRL   55 (242)
Q Consensus        36 V~A~aGSGKT~tL~~rv~~l   55 (242)
                      ++++-||||||+|= -++-+
T Consensus         1 LLGpSGcGKTTlLr-lLAGf   19 (331)
T TIGR01187         1 LLGPSGCGKTTLLR-LLAGF   19 (331)
T ss_pred             CCCCCCCCHHHHHH-HHHCC
T ss_conf             97888874799999-98345


No 400
>TIGR01526 nadR_NMN_Atrans nicotinamide-nucleotide adenylyltransferase; InterPro: IPR006417   The NadR protein of Escherichia coli and closely related bacteria is both enzyme and regulatory protein. The first 60 or so amino acids, N-terminal region is a DNA-binding helix-turn-helix domain (IPR001387 from INTERPRO) responsible for repressing the nadAB genes of NAD de novo biosynthesis. The NadR homologs in Mycobacterium tuberculosis, Haemophilus influenzae, and others appear to lack the repressor domain. NadR has recently been shown to act as an enzyme of the salvage pathway of NAD biosynthesis, nicotinamide-nucleotide adenylyltransferase; members of this family are presumed to share this activity. E. coli NadR has also been found to regulate the import of its substrate, nicotinamide ribonucleotide, but it is not known if the other members of this family share that activity.  ; GO: 0003677 DNA binding, 0030528 transcription regulator activity, 0006810 transport, 0019363 pyridine nucleotide biosynthetic process, 0045449 regulation of transcription.
Probab=85.06  E-value=1.2  Score=24.27  Aligned_cols=45  Identities=16%  Similarity=0.161  Sum_probs=31.9

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHH
Q ss_conf             8879984888996799999999998247898895667768789999
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAE   77 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~E   77 (242)
                      +-|-|++|+-|||| |||++++..+-..-.||.=--.-|.+..-.|
T Consensus       176 k~V~ilG~eStGKs-tLv~~lA~~~nt~~~~Eyar~y~e~~~ggDe  220 (346)
T TIGR01526       176 KTVAILGGESTGKS-TLVNKLAEKLNTTSAWEYAREYVEAKLGGDE  220 (346)
T ss_pred             EEEEEECCCCCCHH-HHHHHHHHHHCCCCCHHHHHHHHHHHCCCCH
T ss_conf             58888558886368-9999999984688712565566665168721


No 401
>PRK10923 glnG nitrogen regulation protein NR(I); Provisional
Probab=84.98  E-value=0.94  Score=25.06  Aligned_cols=34  Identities=18%  Similarity=0.135  Sum_probs=24.4

Q ss_pred             CHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             489999827688879984888996799999999998
Q 537021.9.peg.4   21 KSEQLLASDPTRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        21 ~~qq~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      -++-..++..+.||||.+-+||||+..  .|..|..
T Consensus       151 ~~~i~~~a~~~~pVLI~GE~GTGK~~~--Ar~IH~~  184 (469)
T PRK10923        151 FRIIGRLSRSSISVLINGESGTGKELV--AHALHRH  184 (469)
T ss_pred             HHHHHHHHCCCCCEEEECCCCCCHHHH--HHHHHHC
T ss_conf             999999858899789989898269999--9999974


No 402
>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]
Probab=84.94  E-value=0.61  Score=26.34  Aligned_cols=15  Identities=27%  Similarity=0.452  Sum_probs=12.7

Q ss_pred             EEEEECCCCCHHHHH
Q ss_conf             799848889967999
Q 537021.9.peg.4   34 AWVSANAGSGKTHIL   48 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL   48 (242)
                      +-|-++|||||||+.
T Consensus         5 IglTG~igsGKStva   19 (201)
T COG0237           5 IGLTGGIGSGKSTVA   19 (201)
T ss_pred             EEEECCCCCCHHHHH
T ss_conf             999578877889999


No 403
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=84.84  E-value=1.4  Score=23.93  Aligned_cols=26  Identities=19%  Similarity=0.180  Sum_probs=17.5

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             79984888996799999999998247
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      +++.+-|||||||.--....++-..|
T Consensus         2 ivl~GlP~SGKSt~a~~L~~~l~~~~   27 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELSKKLSEKN   27 (249)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHC
T ss_conf             78967899989999999999999829


No 404
>PRK13948 shikimate kinase; Provisional
Probab=84.83  E-value=0.7  Score=25.97  Aligned_cols=27  Identities=26%  Similarity=0.305  Sum_probs=18.6

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             6888799848889967999999999982
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      |...++.++-+|||||++= ..++..+.
T Consensus         9 ~~~~IvLIG~mGsGKStiG-k~LA~~l~   35 (182)
T PRK13948          9 PATFVALAGFMGTGKSRIG-WELSRALA   35 (182)
T ss_pred             CCCCEEEECCCCCCHHHHH-HHHHHHHC
T ss_conf             9981898899999889999-99999969


No 405
>PRK13896 cobyrinic acid a,c-diamide synthase; Provisional
Probab=84.78  E-value=1.1  Score=24.55  Aligned_cols=25  Identities=32%  Similarity=0.225  Sum_probs=14.8

Q ss_pred             EEEECC--CCCHHHHHHHHHHHHHHCC
Q ss_conf             998488--8996799999999998247
Q 537021.9.peg.4   35 WVSANA--GSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        35 lV~A~a--GSGKT~tL~~rv~~ll~~g   59 (242)
                      +|+|+|  |||||++-+.....|-.+|
T Consensus         4 ilIAa~~SgsGKTtvt~gL~~aL~~rG   30 (432)
T PRK13896          4 VVLAGTSSGVGKTVATLAVLQALADAG   30 (432)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf             899778999989999999999999784


No 406
>TIGR01618 phage_P_loop phage nucleotide-binding protein; InterPro: IPR006505   These sequences represent an uncharacterised family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of these proteins is unknown..
Probab=84.78  E-value=0.3  Score=28.52  Aligned_cols=55  Identities=15%  Similarity=0.054  Sum_probs=34.8

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHH-HH--CC---CC--HHHHHH--HHH-HHHHHHHHHHHHHHHH
Q ss_conf             887998488899679999999999-82--47---89--889566--776-8789999999999996
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRL-LL--AN---AH--PSTLLC--LTH-TKAAAAEMSHRVLEII   86 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~l-l~--~g---~~--P~~IL~--lTF-T~kAA~El~~RI~~~l   86 (242)
                      -..+|-|-||+|||+|+=....+= +.  .+   |-  -+.|=+  ++| +++-.++|.|-+.+..
T Consensus        14 ~~~lIYG~~G~GKTS~~K~l~GktL~l~~D~SSkVL~G~~nvdiim~~~d~~~~~~~~~e~~~~~~   79 (229)
T TIGR01618        14 FRYLIYGKPGLGKTSTIKYLPGKTLVLSLDKSSKVLAGDENVDIIMADLDDEKPIQEMVEFYKELQ   79 (229)
T ss_pred             CEEEEECCCCCCCCCEEEECCCCEEEEECCCCCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHH
T ss_conf             368887589887230566458878988367864434689983389986069984789999999973


No 407
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=84.76  E-value=0.72  Score=25.85  Aligned_cols=60  Identities=18%  Similarity=0.191  Sum_probs=37.9

Q ss_pred             CCCHHHHHHHC-CC--CCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             09489999827-68--8879984888996799999999998247898895667768789999999999
Q 537021.9.peg.4   19 QTKSEQLLASD-PT--RSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVL   83 (242)
Q Consensus        19 ~~~~qq~~a~~-~~--~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~   83 (242)
                      +-++.|+.=.. ..  --++-.++||||||+.-+.--+..+.+| ..++|+..-+    |-|.=+++.
T Consensus       128 ~kt~~Q~~y~eai~~~di~fGiGpAGTGKTyLava~av~al~~~-~v~rIiLtRP----aVEAGEklG  190 (348)
T COG1702         128 PKTPGQNMYPEAIEEHDIVFGIGPAGTGKTYLAVAKAVDALGAG-QVRRIILTRP----AVEAGEKLG  190 (348)
T ss_pred             ECCHHHHHHHHHHHHCCEEEEECCCCCCCCHHHHHHHHHHHHCC-CHHEEECCCC----CHHCCCCCC
T ss_conf             66845878899987427366415645697111277665265406-4120100683----130364237


No 408
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=84.76  E-value=1.3  Score=24.02  Aligned_cols=126  Identities=17%  Similarity=0.205  Sum_probs=64.1

Q ss_pred             CCCHHHHHHHCC---CCC--EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH------
Q ss_conf             094899998276---888--799848889967999999999982478988956677687899999999999967------
Q 537021.9.peg.4   19 QTKSEQLLASDP---TRS--AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIIT------   87 (242)
Q Consensus        19 ~~~~qq~~a~~~---~~~--~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~------   87 (242)
                      +.++....+..+   .|.  +..=++||-|||+-+.....++..+|++.-==++=|.-|+-+..|.+-+...-.      
T Consensus         5 rp~p~~Ll~~~~~~~RGklkIf~G~apGVGKTyaML~~a~~~~~~G~DvviG~vEtHgR~ET~al~eGl~~ip~r~i~~~   84 (890)
T COG2205           5 RPDPDALLANLEKEERGKLKIFLGAAPGVGKTYAMLSEAQRLLAEGVDVVIGVVETHGRRETAALLEGLEVIPRRRIEYR   84 (890)
T ss_pred             CCCHHHHHHCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCCCCHHHHHHHCCCCCCCCCCCCCC
T ss_conf             89968986225634577468996268886279999999999997599679998337883689999738766886411217


Q ss_pred             -----------HHHCCCCCCCHHHH-HHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             -----------75216742214649-9731479997899999999999983100132111799998755
Q 537021.9.peg.4   88 -----------AWSHLSDEILSAEI-TKIQGKKPNKSDMSKARHLLITILETPGGLKVQTIHAFCEAIM  144 (242)
Q Consensus        88 -----------~~~~~~~~~~~~~l-~~~~~~~~~~~~~~~~~~ll~~~l~~~~~~~i~Ti~~f~~~il  144 (242)
                                 .+++.+..-....+ +.........+.+..-+.++...++-+--++|..+.|+-.-+-
T Consensus        85 g~~l~E~Dlda~L~r~P~lvLvDELAHTNa~gsrh~KR~qDiEelL~aGIDV~TT~NvQHlESLnDvV~  153 (890)
T COG2205          85 GRTLSEFDLDAALARRPALVLVDELAHTNAPGSRHPKRWQDIEELLAAGIDVYTTVNVQHLESLNDVVA  153 (890)
T ss_pred             CEEEEECCHHHHHHCCCCEEEEEHHHCCCCCCCCCCCHHHHHHHHHHCCCEEEEEEHHHHHHHHHHHHH
T ss_conf             823011257789735997898514330489888883035409999976980677400555767888998


No 409
>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=84.75  E-value=0.87  Score=25.30  Aligned_cols=19  Identities=26%  Similarity=0.413  Sum_probs=16.5

Q ss_pred             CC-CCCEEEEECCCCCHHHH
Q ss_conf             76-88879984888996799
Q 537021.9.peg.4   29 DP-TRSAWVSANAGSGKTHI   47 (242)
Q Consensus        29 ~~-~~~~lV~A~aGSGKT~t   47 (242)
                      -| ..+++.-+|||-||||.
T Consensus       173 SPfPQHiiLYGPPGVGKTTa  192 (616)
T TIGR02903       173 SPFPQHIILYGPPGVGKTTA  192 (616)
T ss_pred             CCCCCCEEEECCCCCCHHHH
T ss_conf             88866078557338847899


No 410
>KOG0342 consensus
Probab=84.66  E-value=1  Score=24.76  Aligned_cols=67  Identities=19%  Similarity=0.206  Sum_probs=40.4

Q ss_pred             CCHHHHHHH--CCCCCEEEEECCCCCHHHH-HHHHHHHHHHCCC---CHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             948999982--7688879984888996799-9999999982478---98895667768789999999999996
Q 537021.9.peg.4   20 TKSEQLLAS--DPTRSAWVSANAGSGKTHI-LVQRVLRLLLANA---HPSTLLCLTHTKAAAAEMSHRVLEII   86 (242)
Q Consensus        20 ~~~qq~~a~--~~~~~~lV~A~aGSGKT~t-L~~rv~~ll~~g~---~P~~IL~lTFT~kAA~El~~RI~~~l   86 (242)
                      |.=||+.+.  -++..|++.|--|||||.. |+-.+..++....   +|-.++++++||.=|-....-..+.+
T Consensus       106 T~VQ~~ti~pll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRELA~Q~~~eak~Ll  178 (543)
T KOG0342         106 TPVQQKTIPPLLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRELAMQIFAEAKELL  178 (543)
T ss_pred             HHHHHHHCCCCCCCCCCEEEECCCCCCEEEEHHHHHHHHHHCCCCCCCCEEEEEECCCHHHHHHHHHHHHHHH
T ss_conf             2888742676679843124512688741010468999998536577787148996562899998999999999


No 411
>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors.  The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan.  The pigment precursors are encoded by the white, brown, and scarlet genes, respectively.  Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan.  However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes.  Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in 
Probab=84.65  E-value=0.63  Score=26.26  Aligned_cols=26  Identities=23%  Similarity=0.298  Sum_probs=18.1

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             688879984888996799999999998
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      ++.-+.|+++.||||||.|-. +..++
T Consensus        32 ~Ge~~~ilGpnGsGKSTLl~~-i~G~~   57 (226)
T cd03234          32 SGQVMAILGSSGSGKTTLLDA-ISGRV   57 (226)
T ss_pred             CCCEEEEECCCCCHHHHHHHH-HHCCC
T ss_conf             880999998999609999999-96789


No 412
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=84.62  E-value=0.67  Score=26.07  Aligned_cols=25  Identities=16%  Similarity=0.215  Sum_probs=16.0

Q ss_pred             CCC-EEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             888-79984888996799999999998
Q 537021.9.peg.4   31 TRS-AWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        31 ~~~-~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      -.+ .|-.+++|||||++- ..+++.|
T Consensus        37 i~hayLf~GprG~GKTs~A-ri~akal   62 (541)
T PRK05563         37 IAHAYLFCGTRGTGKTSTA-KIFAKAV   62 (541)
T ss_pred             CCEEEEEECCCCCCHHHHH-HHHHHHH
T ss_conf             3204530387995899999-9999995


No 413
>PRK03846 adenylylsulfate kinase; Provisional
Probab=84.59  E-value=3.2  Score=21.32  Aligned_cols=67  Identities=24%  Similarity=0.252  Sum_probs=40.5

Q ss_pred             CHHHHHHHCCCCC--EEEEECCCCCHHHHHHHHHHHHHHCCCC--------HHHHHH--HHHHHHHHHHHHHHHHHHHH
Q ss_conf             4899998276888--7998488899679999999999824789--------889566--77687899999999999967
Q 537021.9.peg.4   21 KSEQLLASDPTRS--AWVSANAGSGKTHILVQRVLRLLLANAH--------PSTLLC--LTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        21 ~~qq~~a~~~~~~--~lV~A~aGSGKT~tL~~rv~~ll~~g~~--------P~~IL~--lTFT~kAA~El~~RI~~~l~   87 (242)
                      +..++.+..--.+  +++-+-+||||||.--.....|-..|.+        -..++.  +-||.+.-.+...|+.....
T Consensus        12 ~~~~r~~~~~~kg~viWlTGLSGSGKTTlA~~L~~~L~~~~~~~~~LDGD~lR~~l~~dlgfs~~dR~~n~~r~~~lak   90 (198)
T PRK03846         12 TKAQREQLHGHKGVVLWFTGLSGSGKSTVAGALEEALHELGVHTYLLDGDNVRHGLCSDLGFSDADRKENIRRVGEVAK   90 (198)
T ss_pred             CHHHHHHHHCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHH
T ss_conf             9999999868998699987999998899999999999975997599777999874366789899999999999999999


No 414
>PRK00300 gmk guanylate kinase; Provisional
Probab=84.56  E-value=0.68  Score=26.05  Aligned_cols=20  Identities=25%  Similarity=0.351  Sum_probs=13.8

Q ss_pred             CCC-EEEEECCCCCHHHHHHH
Q ss_conf             888-79984888996799999
Q 537021.9.peg.4   31 TRS-AWVSANAGSGKTHILVQ   50 (242)
Q Consensus        31 ~~~-~lV~A~aGSGKT~tL~~   50 (242)
                      .|. ++|+||.|+|||+.+-.
T Consensus         6 ~g~livisGPSG~GK~tl~~~   26 (208)
T PRK00300          6 RGLLIVLSAPSGAGKSTLVRA   26 (208)
T ss_pred             CCCEEEEECCCCCCHHHHHHH
T ss_conf             883899999998899999999


No 415
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=84.46  E-value=0.59  Score=26.46  Aligned_cols=19  Identities=21%  Similarity=0.345  Sum_probs=14.1

Q ss_pred             EEEEECCCCCHHHHHHHHHH
Q ss_conf             79984888996799999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVL   53 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~   53 (242)
                      ++|-+-||+||||+- .++.
T Consensus         3 I~ITGTPGvGKTT~~-~~L~   21 (180)
T COG1936           3 IAITGTPGVGKTTVC-KLLR   21 (180)
T ss_pred             EEEECCCCCCHHHHH-HHHH
T ss_conf             799379998668799-9999


No 416
>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=84.40  E-value=1.1  Score=24.67  Aligned_cols=24  Identities=25%  Similarity=0.397  Sum_probs=18.8

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHH
Q ss_conf             888799848889967999999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLR   54 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~   54 (242)
                      .+++++.++.|+||++.+...+..
T Consensus         2 ~r~iil~Gpsg~GK~tl~~~l~~~   25 (184)
T smart00072        2 RRPIVLSGPSGVGKGTLLAELIQE   25 (184)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             977999999999999999999863


No 417
>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]
Probab=84.38  E-value=1.1  Score=24.57  Aligned_cols=31  Identities=19%  Similarity=0.347  Sum_probs=19.4

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             799848889967999999999982478988956677
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLT   69 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lT   69 (242)
                      +-|.+|.||||| |++.++...+..    +.+.+++
T Consensus        11 IgIaG~SgSGKT-Tv~~~l~~~~~~----~~~~~I~   41 (218)
T COG0572          11 IGIAGGSGSGKT-TVAKELSEQLGV----EKVVVIS   41 (218)
T ss_pred             EEEECCCCCCHH-HHHHHHHHHHCC----CCCEEEE
T ss_conf             998679877889-999999998286----7524765


No 418
>KOG0651 consensus
Probab=84.30  E-value=0.65  Score=26.17  Aligned_cols=58  Identities=12%  Similarity=0.164  Sum_probs=31.7

Q ss_pred             HCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             2768887998488899679999999999824789889566776878999999999999677
Q 537021.9.peg.4   28 SDPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITA   88 (242)
Q Consensus        28 ~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~   88 (242)
                      ..|..-+++-+|||||||+.- ..|+.  .-|+.|=.+.+=.+--+=+.|-..=|++++..
T Consensus       163 Ik~Pkg~ll~GppGtGKTlla-~~Vaa--~mg~nfl~v~ss~lv~kyiGEsaRlIRemf~y  220 (388)
T KOG0651         163 IKPPKGLLLYGPPGTGKTLLA-RAVAA--TMGVNFLKVVSSALVDKYIGESARLIRDMFRY  220 (388)
T ss_pred             CCCCCEEEEECCCCCCHHHHH-HHHHH--HCCCCEEEEEHHHHHHHHCCCHHHHHHHHHHH
T ss_conf             778825687679998645999-99998--65985477447666330026578899999977


No 419
>KOG1942 consensus
Probab=84.28  E-value=3.3  Score=21.22  Aligned_cols=31  Identities=19%  Similarity=0.318  Sum_probs=22.3

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHCCCC
Q ss_conf             68887998488899679999999999824789
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLLANAH   61 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~   61 (242)
                      .++-+|+.+|||||||..-.. +..-|..|+|
T Consensus        63 aGravLlaGppgtGKTAlAla-isqELG~kvP   93 (456)
T KOG1942          63 AGRAVLLAGPPGTGKTALALA-ISQELGPKVP   93 (456)
T ss_pred             CCCEEEEECCCCCCHHHHHHH-HHHHHCCCCC
T ss_conf             672799736998765689999-9997479998


No 420
>PRK13891 conjugal transfer protein TrbE; Provisional
Probab=84.26  E-value=1.2  Score=24.31  Aligned_cols=26  Identities=19%  Similarity=0.204  Sum_probs=21.1

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             88879984888996799999999998
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      -|+-+|+++.|+|||+.|.-..+...
T Consensus       488 vGHTlIiGpTGaGKTvll~fL~aQ~~  513 (852)
T PRK13891        488 LGHTFMFGPTGAGKSTHLGIIAAQLR  513 (852)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHH
T ss_conf             66407878999988999999999974


No 421
>TIGR01081 mpl UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-diaminopimelate ligase; InterPro: IPR005757    The tripeptide L-ananyl-gamma-D-glutamyl-meso-diaminopimelic acid is efficiently re-cycled during the formation of bacterial cell wall murein. UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-diaminopimelate ligase is an essential enzyme in this process which links the tripeptide to UDP-N-acetylmuramate.; GO: 0016874 ligase activity, 0007047 cell wall organization and biogenesis.
Probab=84.16  E-value=0.96  Score=24.98  Aligned_cols=36  Identities=33%  Similarity=0.474  Sum_probs=27.7

Q ss_pred             CCCEEEEECCCC-CHHHHHHHHHHHHHH-CCCCHHHHHH
Q ss_conf             888799848889-967999999999982-4789889566
Q 537021.9.peg.4   31 TRSAWVSANAGS-GKTHILVQRVLRLLL-ANAHPSTLLC   67 (242)
Q Consensus        31 ~~~~lV~A~aGS-GKT~tL~~rv~~ll~-~g~~P~~IL~   67 (242)
                      .+.-+|+|.+|| |||||- .-+.+.|+ .|.+|.=++.
T Consensus       100 L~drWVlaV~GTHGKTTT~-~M~~WvLE~~G~~pGFliG  137 (459)
T TIGR01081       100 LRDRWVLAVAGTHGKTTTA-SMLAWVLEQCGLKPGFLIG  137 (459)
T ss_pred             HHCCEEEEEECCCCCHHHH-HHHHHHHHHCCCCCCCEEC
T ss_conf             2134278950788604688-9999999863798872673


No 422
>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity.  In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins.  Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family.  The ATP-binding domain shows the highest similarity between all members of the ABC transporter family.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=84.15  E-value=0.94  Score=25.04  Aligned_cols=26  Identities=27%  Similarity=0.508  Sum_probs=16.8

Q ss_pred             CCCCEE-EEECCCCCHHHHHHHHHHHHH
Q ss_conf             688879-984888996799999999998
Q 537021.9.peg.4   30 PTRSAW-VSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        30 ~~~~~l-V~A~aGSGKT~tL~~rv~~ll   56 (242)
                      +.|.++ +.++-|+||||.+ .-+..++
T Consensus        24 ~~Gei~gl~G~NGaGKSTLl-~~i~Gl~   50 (173)
T cd03230          24 EKGEIYGLLGPNGAGKTTLI-KIILGLL   50 (173)
T ss_pred             CCCCEEEEECCCCCCHHHHH-HHHHCCC
T ss_conf             79939999878997999999-9997685


No 423
>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=84.12  E-value=1.6  Score=23.43  Aligned_cols=33  Identities=15%  Similarity=0.167  Sum_probs=21.5

Q ss_pred             CCCCCEE--EEECCCCCHHHHHHHHHHHHHHCCCC
Q ss_conf             7688879--98488899679999999999824789
Q 537021.9.peg.4   29 DPTRSAW--VSANAGSGKTHILVQRVLRLLLANAH   61 (242)
Q Consensus        29 ~~~~~~l--V~A~aGSGKT~tL~~rv~~ll~~g~~   61 (242)
                      .|.+|++  --+++||||+++---..-+|-..|..
T Consensus        49 ~p~KpLVlSfHG~tGtGKn~vs~liA~~Ly~~G~~   83 (127)
T pfam06309        49 KPRKPLVLSFHGWTGTGKNFVAEIIADNLYRDGLR   83 (127)
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCC
T ss_conf             99997488701899987989999999998754347


No 424
>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein; InterPro: IPR005666   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 involved in the transmembrane transport of sulphate and thiosulphate.; GO: 0042626 ATPase activity coupled to transmembrane movement of substances, 0006810 transport, 0016020 membrane.
Probab=84.03  E-value=0.74  Score=25.76  Aligned_cols=19  Identities=42%  Similarity=0.588  Sum_probs=15.9

Q ss_pred             CCCCE-EEEECCCCCHHHHH
Q ss_conf             68887-99848889967999
Q 537021.9.peg.4   30 PTRSA-WVSANAGSGKTHIL   48 (242)
Q Consensus        30 ~~~~~-lV~A~aGSGKT~tL   48 (242)
                      +.|.+ -.++|-||||||.|
T Consensus        24 ~~G~lvaLLGPSGSGKsTLL   43 (241)
T TIGR00968        24 PTGSLVALLGPSGSGKSTLL   43 (241)
T ss_pred             CCCEEEEEECCCCCCHHHHH
T ss_conf             38527985468987378999


No 425
>PRK05748 replicative DNA helicase; Provisional
Probab=83.95  E-value=3.4  Score=21.13  Aligned_cols=50  Identities=16%  Similarity=0.161  Sum_probs=33.1

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHH-HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             79984888996799999999998-2478988956677687899999999999967
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLL-LANAHPSTLLCLTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll-~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~   87 (242)
                      ++|-|-||.|||....+-..+.. ..|.   .++.++. ...+.++..|+....+
T Consensus       206 iviaaRP~mGKTa~alnia~~~a~~~~~---~v~~fSl-EM~~~~l~~R~la~~s  256 (448)
T PRK05748        206 IIVAARPSVGKTAFALNIAQNVATKTDK---NVAIFSL-EMGAESLVMRMLCAEG  256 (448)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHCCC---EEEEEEC-CCCHHHHHHHHHHHHH
T ss_conf             9998479987689999999999985698---0899817-7888899999999974


No 426
>cd04160 Arfrp1 Arfrp1 subfamily.  Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif.  Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes.  It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network.  Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D.  Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.
Probab=83.77  E-value=0.8  Score=25.55  Aligned_cols=32  Identities=25%  Similarity=0.348  Sum_probs=20.7

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHH-H-HCCCCHHHH
Q ss_conf             87998488899679999999999-8-247898895
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRL-L-LANAHPSTL   65 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~l-l-~~g~~P~~I   65 (242)
                      ++++++.+|+|||+.| +|+... . ..+..+.++
T Consensus         1 ~ivilG~~~~GKTsll-~~l~~~~~~~~~~~~~~~   34 (167)
T cd04160           1 SVLILGLDNAGKTTFL-EQLKTLFSKYKGLPPSKI   34 (167)
T ss_pred             CEEEECCCCCCHHHHH-HHHHHCCCCCCCCCCCCC
T ss_conf             9999999998888999-988750367677765540


No 427
>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR).  DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes.  Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.
Probab=83.73  E-value=0.71  Score=25.90  Aligned_cols=21  Identities=24%  Similarity=0.434  Sum_probs=16.1

Q ss_pred             CCCCEEEEECCCCCHHHHHHH
Q ss_conf             688879984888996799999
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQ   50 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~   50 (242)
                      ++.-+.+.++.||||||.|-.
T Consensus        34 ~Gei~~ilGpnGaGKSTLl~~   54 (194)
T cd03213          34 PGELTAIMGPSGAGKSTLLNA   54 (194)
T ss_pred             CCEEEEEECCCCCHHHHHHHH
T ss_conf             881999998999519999999


No 428
>KOG0742 consensus
Probab=83.59  E-value=0.41  Score=27.59  Aligned_cols=21  Identities=29%  Similarity=0.420  Sum_probs=16.7

Q ss_pred             HCCCCCEEEEECCCCCHHHHH
Q ss_conf             276888799848889967999
Q 537021.9.peg.4   28 SDPTRSAWVSANAGSGKTHIL   48 (242)
Q Consensus        28 ~~~~~~~lV~A~aGSGKT~tL   48 (242)
                      ..|=++++..+|||||||-.-
T Consensus       381 ~apfRNilfyGPPGTGKTm~A  401 (630)
T KOG0742         381 QAPFRNILFYGPPGTGKTMFA  401 (630)
T ss_pred             CCHHHHEEEECCCCCCHHHHH
T ss_conf             430440032479998604999


No 429
>PRK05201 hslU ATP-dependent protease ATP-binding subunit; Provisional
Probab=83.58  E-value=3.5  Score=21.03  Aligned_cols=26  Identities=23%  Similarity=0.420  Sum_probs=21.6

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             888799848889967999999999982
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      ..++|.++|-|+|||. |+.|++.++.
T Consensus        50 pkNILmIGPTGvGKTe-IARrLAkl~~   75 (442)
T PRK05201         50 PKNILMIGPTGVGKTE-IARRLAKLAN   75 (442)
T ss_pred             CCCEEEECCCCCCHHH-HHHHHHHHHC
T ss_conf             4316887888866789-9999999848


No 430
>cd04157 Arl6 Arl6 subfamily.  Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases.  Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development.  Arl6 is also believed to have a role in cilia or flagella function.  Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p.  Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation.  At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism.  Older literature suggests that A
Probab=83.56  E-value=0.83  Score=25.42  Aligned_cols=16  Identities=38%  Similarity=0.426  Sum_probs=14.7

Q ss_pred             CEEEEECCCCCHHHHH
Q ss_conf             8799848889967999
Q 537021.9.peg.4   33 SAWVSANAGSGKTHIL   48 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL   48 (242)
                      ++++++-+|||||+.|
T Consensus         1 ~Il~lGl~~sGKTtil   16 (162)
T cd04157           1 NILVVGLDNSGKTTII   16 (162)
T ss_pred             CEEEECCCCCCHHHHH
T ss_conf             9999999999889999


No 431
>COG0305 DnaB Replicative DNA helicase [DNA replication, recombination, and repair]
Probab=83.52  E-value=3.5  Score=21.01  Aligned_cols=103  Identities=14%  Similarity=0.216  Sum_probs=58.6

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCHH
Q ss_conf             87998488899679999999999824789889566776878999999999999677521674221464997314799978
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITAWSHLSDEILSAEITKIQGKKPNKS  112 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~  112 (242)
                      -++|-|.||=|||+-..+...++-...-.|   +++=.....+.++..|+....+....          .+......+..
T Consensus       198 LiilAaRP~mGKTafalnia~n~a~~~~~~---v~iFSLEM~~eql~~R~Ls~~s~v~~----------~kirtg~l~~~  264 (435)
T COG0305         198 LIIVAARPGMGKTALALNIALNAAADGRKP---VAIFSLEMSEEQLVMRLLSSESGIES----------SKLRTGRLSDD  264 (435)
T ss_pred             EEEECCCCCCCHHHHHHHHHHHHHHHCCCC---EEEEECCCCHHHHHHHHHCCCCCCCH----------HCCCCCCCCHH
T ss_conf             799716899975899999999999855897---59998267999999975340115451----------00212542689


Q ss_pred             HHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999999998------31001321117999987555428
Q 537021.9.peg.4  113 DMSKARHLLITIL------ETPGGLKVQTIHAFCEAIMQQFP  148 (242)
Q Consensus       113 ~~~~~~~ll~~~l------~~~~~~~i~Ti~~f~~~ilr~~~  148 (242)
                      .+.+.......+-      .+...+.+..+-+-|-++.+.+.
T Consensus       265 d~~~l~~a~~~l~~~~i~IdD~~~~si~eir~~aRrlk~~~~  306 (435)
T COG0305         265 EWERLIKAASELSEAPIFIDDTPGLTITEIRSKARRLKLKHN  306 (435)
T ss_pred             HHHHHHHHHHHHHHCCEEECCCCCCCHHHHHHHHHHHHHHCC
T ss_conf             999999999987617854337888878889999998887459


No 432
>KOG0735 consensus
Probab=83.47  E-value=1.9  Score=22.93  Aligned_cols=29  Identities=17%  Similarity=0.264  Sum_probs=20.4

Q ss_pred             HCCCCCEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             276888799848889967999999999982
Q 537021.9.peg.4   28 SDPTRSAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        28 ~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      .-..+.+++-+++|||||... .++..-..
T Consensus       428 v~~~~~Ill~G~~GsGKT~L~-kal~~~~~  456 (952)
T KOG0735         428 VFRHGNILLNGPKGSGKTNLV-KALFDYYS  456 (952)
T ss_pred             CCCCCCEEEECCCCCCHHHHH-HHHHHHHC
T ss_conf             334661898679987776999-99998751


No 433
>KOG0065 consensus
Probab=83.47  E-value=0.81  Score=25.51  Aligned_cols=27  Identities=33%  Similarity=0.409  Sum_probs=20.8

Q ss_pred             CCCCCEEEEECCCCCHHHHHHHHHHHH
Q ss_conf             768887998488899679999999999
Q 537021.9.peg.4   29 DPTRSAWVSANAGSGKTHILVQRVLRL   55 (242)
Q Consensus        29 ~~~~~~lV~A~aGSGKT~tL~~rv~~l   55 (242)
                      .|++.+||+++|||||||.|...-..+
T Consensus       139 ~pg~m~lvLG~pgsG~ttllkal~g~~  165 (1391)
T KOG0065         139 KPGEMTLVLGPPGSGKTTLLKALAGKL  165 (1391)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf             677269983389986478999983788


No 434
>pfam12128 DUF3584 Protein of unknown function (DUF3584). This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 943 to 1234 amino acids in length. There are two conserved sequence motifs: GKT and YLP.
Probab=83.44  E-value=1.4  Score=23.82  Aligned_cols=38  Identities=18%  Similarity=0.160  Sum_probs=28.0

Q ss_pred             HCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHH
Q ss_conf             27688879984888996799999999998247898895667
Q 537021.9.peg.4   28 SDPTRSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCL   68 (242)
Q Consensus        28 ~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~l   68 (242)
                      .+.+|++-+.+.=|+||||.|-...   +.=|..|++|+.-
T Consensus        14 l~ldGnt~~~GTnG~GKTTlLRlIp---~FYga~p~rlv~~   51 (1192)
T pfam12128        14 LDLDGHTNICGTNAAGKTTLQRLIP---LFYGEYPSRIVPK   51 (1192)
T ss_pred             EECCCCEEEECCCCCCHHHHHHHHH---HHCCCCHHHCCCC
T ss_conf             7337872574488886999998999---7528975532887


No 435
>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria.  Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins.  ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.  The nucleotide binding domain shows the highest similarity between all members of the family.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=83.35  E-value=0.85  Score=25.37  Aligned_cols=26  Identities=27%  Similarity=0.500  Sum_probs=19.0

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             688879984888996799999999998
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      |+.-+.|.++-||||||.+ .-+..++
T Consensus        26 ~Ge~v~ivG~sGsGKSTLl-~ll~gl~   51 (236)
T cd03253          26 AGKKVAIVGPSGSGKSTIL-RLLFRFY   51 (236)
T ss_pred             CCCEEEEECCCCCCHHHHH-HHHCCCC
T ss_conf             9999999999999899999-9974385


No 436
>COG1158 Rho Transcription termination factor [Transcription]
Probab=83.34  E-value=0.61  Score=26.35  Aligned_cols=28  Identities=21%  Similarity=0.340  Sum_probs=21.6

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             88879984888996799999999998247
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      +...||+|||-+|||+.|- .+++.|..+
T Consensus       173 GQR~LIVAPPkaGKT~lLq-~IA~aIt~N  200 (422)
T COG1158         173 GQRGLIVAPPKAGKTTLLQ-NIANAITTN  200 (422)
T ss_pred             CCEEEEECCCCCCCHHHHH-HHHHHHHCC
T ss_conf             8465686698787338999-999998637


No 437
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=83.25  E-value=0.82  Score=25.45  Aligned_cols=39  Identities=21%  Similarity=0.293  Sum_probs=26.4

Q ss_pred             CCCCCEEEEECCCCCHHHHHHHHHHHHHH------CC---CCHHHHHHH
Q ss_conf             76888799848889967999999999982------47---898895667
Q 537021.9.peg.4   29 DPTRSAWVSANAGSGKTHILVQRVLRLLL------AN---AHPSTLLCL   68 (242)
Q Consensus        29 ~~~~~~lV~A~aGSGKT~tL~~rv~~ll~------~g---~~P~~IL~l   68 (242)
                      .+..++|..++||.|||| |++.+++=+.      .|   .+|..++++
T Consensus        50 e~lDHvLl~GPPGlGKTT-LA~IIA~Emgvn~k~tsGp~leK~gDlaai   97 (332)
T COG2255          50 EALDHVLLFGPPGLGKTT-LAHIIANELGVNLKITSGPALEKPGDLAAI   97 (332)
T ss_pred             CCCCEEEEECCCCCCHHH-HHHHHHHHHCCCEEECCCCCCCCHHHHHHH
T ss_conf             876747864799876888-999999985677376366201572659999


No 438
>PRK05480 uridine kinase; Provisional
Probab=83.23  E-value=1.2  Score=24.21  Aligned_cols=27  Identities=22%  Similarity=0.325  Sum_probs=18.3

Q ss_pred             CCCCEE--EEECCCCCHHHHHHHHHHHHHH
Q ss_conf             688879--9848889967999999999982
Q 537021.9.peg.4   30 PTRSAW--VSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        30 ~~~~~l--V~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      ..+|++  |.+|.||||||.- .++...+.
T Consensus         3 ~k~P~iIgIaG~SgSGKTT~a-~~L~~~l~   31 (209)
T PRK05480          3 MKQPIIIGIAGGSGSGKTTVA-STIYEELG   31 (209)
T ss_pred             CCCCEEEEEECCCCCCHHHHH-HHHHHHCC
T ss_conf             889889999899977899999-99999808


No 439
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=83.16  E-value=1.3  Score=24.13  Aligned_cols=18  Identities=22%  Similarity=0.368  Sum_probs=14.6

Q ss_pred             CEEEEECCCCCHHHHHHH
Q ss_conf             879984888996799999
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQ   50 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~   50 (242)
                      -++|.+++|+|||+.+-.
T Consensus         3 livl~GpsG~GK~tl~~~   20 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKA   20 (180)
T ss_pred             EEEEECCCCCCHHHHHHH
T ss_conf             999989998899999999


No 440
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=83.11  E-value=1.9  Score=22.89  Aligned_cols=74  Identities=15%  Similarity=0.145  Sum_probs=42.4

Q ss_pred             CCCCC-EEEEECCCCCHHHHHHHHHHHHHHC--------CCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCH
Q ss_conf             76888-7998488899679999999999824--------789-8895667768789999999999996775216742214
Q 537021.9.peg.4   29 DPTRS-AWVSANAGSGKTHILVQRVLRLLLA--------NAH-PSTLLCLTHTKAAAAEMSHRVLEIITAWSHLSDEILS   98 (242)
Q Consensus        29 ~~~~~-~lV~A~aGSGKT~tL~~rv~~ll~~--------g~~-P~~IL~lTFT~kAA~El~~RI~~~l~~~~~~~~~~~~   98 (242)
                      ...|| +|..+|||.|||.. ..-|+..+.+        |+. ..+|-.---|=  ...|-.||.+.+.......+....
T Consensus       346 ~~kg~IlclvGpPGvGKTSl-~~sIA~al~r~f~rislGGv~DeaeirGHrrTY--vgampGrii~~l~~a~~~nPv~ll  422 (784)
T PRK10787        346 KIKGPILCLVGPPGVGKTSL-GQSIAKATGRKYVRMALGGVRDEAEIRGHRRTY--IGSMPGKLIQKMAKVGVKNPLFLL  422 (784)
T ss_pred             CCCCCEEEEECCCCCCHHHH-HHHHHHHHCCCEEEEECCCCCCHHHHCCCCCCC--CCCCCHHHHHHHHHHCCCCCEEEE
T ss_conf             67787799646998772469-999999858986998068878888825643343--443683899999974898856650


Q ss_pred             HHHHHHH
Q ss_conf             6499731
Q 537021.9.peg.4   99 AEITKIQ  105 (242)
Q Consensus        99 ~~l~~~~  105 (242)
                      ..+-+..
T Consensus       423 DEiDK~~  429 (784)
T PRK10787        423 DEIDKMS  429 (784)
T ss_pred             HHHHHHC
T ss_conf             0355522


No 441
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=83.08  E-value=2.2  Score=22.45  Aligned_cols=61  Identities=20%  Similarity=0.183  Sum_probs=42.7

Q ss_pred             HHHHHHC-CCCCEEEEECCCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999827-6888799848889967999999999982-47898895667768789999999999996
Q 537021.9.peg.4   23 EQLLASD-PTRSAWVSANAGSGKTHILVQRVLRLLL-ANAHPSTLLCLTHTKAAAAEMSHRVLEII   86 (242)
Q Consensus        23 qq~~a~~-~~~~~lV~A~aGSGKT~tL~~rv~~ll~-~g~~P~~IL~lTFT~kAA~El~~RI~~~l   86 (242)
                      |+.+++. -.++.||..|-|=|||+.-+.-+++.+. .|   ..+|.+++|+-=+..=.+.+.+.+
T Consensus        20 Q~~i~a~al~~NtLvvlPTGLGKT~IA~~V~~~~l~~~~---~kvlfLAPTKPLV~Qh~~~~~~v~   82 (542)
T COG1111          20 QLNIAAKALFKNTLVVLPTGLGKTFIAAMVIANRLRWFG---GKVLFLAPTKPLVLQHAEFCRKVT   82 (542)
T ss_pred             HHHHHHHHHHCCEEEEECCCCCHHHHHHHHHHHHHHHCC---CEEEEECCCCHHHHHHHHHHHHHH
T ss_conf             999999986448389952875079999999999987458---848996589517999999999985


No 442
>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.
Probab=82.99  E-value=0.86  Score=25.32  Aligned_cols=17  Identities=29%  Similarity=0.481  Sum_probs=14.1

Q ss_pred             EEEEECCCCCHHHHHHH
Q ss_conf             79984888996799999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQ   50 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~   50 (242)
                      ++|.++.|||||+.+-.
T Consensus         2 ivi~GPSG~GK~tl~~~   18 (137)
T cd00071           2 IVLSGPSGVGKSTLLKR   18 (137)
T ss_pred             EEEECCCCCCHHHHHHH
T ss_conf             99999998899999999


No 443
>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=82.97  E-value=0.92  Score=25.12  Aligned_cols=72  Identities=15%  Similarity=0.194  Sum_probs=45.2

Q ss_pred             HHCCCHHHHHHH-------C-CCCCEEEEECCCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             350948999982-------7-6888799848889967999999999982478-988956677687899999999999967
Q 537021.9.peg.4   17 ISQTKSEQLLAS-------D-PTRSAWVSANAGSGKTHILVQRVLRLLLANA-HPSTLLCLTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        17 ~~~~~~qq~~a~-------~-~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g~-~P~~IL~lTFT~kAA~El~~RI~~~l~   87 (242)
                      ...=.+|.+.|-       + +...++|+||-|+|||..=..=++   ..+. +-..|++=|-|+-=-+-+.|+-..+++
T Consensus       259 y~~R~~Q~~la~~v~~~l~~Gt~~~~lIEA~tG~GKtlgYLLPal---~~~~~~~~~vviST~Tk~LQ~QL~E~d~P~l~  335 (944)
T TIGR01407       259 YEYREEQLKLAELVEDELTHGTEEKSLIEAPTGTGKTLGYLLPAL---YLAKEEEKPVVISTATKVLQSQLLEKDIPLLN  335 (944)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHEECCCCCCHHHHHHHHHH---HHCCCCCCCEEEEECCHHHHHHHHHHHHHHHH
T ss_conf             531388999999999984157661133023766432589999999---73137888569983636656565688889888


Q ss_pred             HHHC
Q ss_conf             7521
Q 537021.9.peg.4   88 AWSH   91 (242)
Q Consensus        88 ~~~~   91 (242)
                      +...
T Consensus       336 ~~~~  339 (944)
T TIGR01407       336 KILN  339 (944)
T ss_pred             HHCC
T ss_conf             6518


No 444
>PRK06547 hypothetical protein; Provisional
Probab=82.91  E-value=2  Score=22.72  Aligned_cols=25  Identities=20%  Similarity=0.242  Sum_probs=17.0

Q ss_pred             CCCCC---EEEEECCCCCHHHHHHHHHHH
Q ss_conf             76888---799848889967999999999
Q 537021.9.peg.4   29 DPTRS---AWVSANAGSGKTHILVQRVLR   54 (242)
Q Consensus        29 ~~~~~---~lV~A~aGSGKT~tL~~rv~~   54 (242)
                      -..|+   |.|-+++||||||.- .++..
T Consensus        10 ~~~g~~~iVaIDG~sGaGKTTLA-~~La~   37 (184)
T PRK06547         10 LCGGDMITVLIDGRSGSGKTTLA-GELAA   37 (184)
T ss_pred             HCCCCEEEEEEECCCCCCHHHHH-HHHHH
T ss_conf             55997699998689988889999-99997


No 445
>PRK09280 F0F1 ATP synthase subunit beta; Validated
Probab=82.84  E-value=1.3  Score=24.04  Aligned_cols=26  Identities=19%  Similarity=0.259  Sum_probs=20.3

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             88879984888996799999999998
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      ++.+.+.||+|+|||..+...+.+..
T Consensus       145 GqrigIfggaGvGKTvLl~eli~n~a  170 (466)
T PRK09280        145 GGKIGLFGGAGVGKTVLIMELINNIA  170 (466)
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHHH
T ss_conf             74798557999980089999999999


No 446
>PRK05541 adenylylsulfate kinase; Provisional
Probab=82.80  E-value=1.9  Score=22.85  Aligned_cols=53  Identities=26%  Similarity=0.337  Sum_probs=29.4

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHHCCCC-----HH---HHHH-HHHHHHHHHHHHHHHHHH
Q ss_conf             87998488899679999999999824789-----88---9566-776878999999999999
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLLLANAH-----PS---TLLC-LTHTKAAAAEMSHRVLEI   85 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll~~g~~-----P~---~IL~-lTFT~kAA~El~~RI~~~   85 (242)
                      =+|.-+-|||||||.--....+|-..|.+     -+   +++. ..||++.=.+...|+...
T Consensus         9 viW~TGLsGSGKTTiA~~l~~~L~~~g~~~~~LDGD~lR~~~~~~gfs~~~R~~n~~r~~~l   70 (176)
T PRK05541          9 VIWITGLAGSGKTTIAKALYERLKLKYSNVIYLDGDELREIFGHSGYDKESRIEMALKRAKL   70 (176)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECCHHHHHHHCCCCCCHHHHHHHHHHHHHH
T ss_conf             99978999998999999999999975997799886899987365898999999999999999


No 447
>TIGR00618 sbcc exonuclease SbcC; InterPro: IPR004592 All proteins in this family for which functions are known are part of an exonuclease complex with sbcD homologs. This complex is involved in the initiation of recombination to regulate the levels of palindromic sequences in DNA. SbcC may have nuclease activity that is functionally related to one of the nuclease activities of the RecBCD enzyme (IPR004586 from INTERPRO).; GO: 0004527 exonuclease activity, 0006259 DNA metabolic process.
Probab=82.69  E-value=1.5  Score=23.57  Aligned_cols=52  Identities=19%  Similarity=0.258  Sum_probs=34.2

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHCC-CCH-------HHHHHHHHHHHHHHHHHHHHH
Q ss_conf             88879984888996799999999998247-898-------895667768789999999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLAN-AHP-------STLLCLTHTKAAAAEMSHRVL   83 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~g-~~P-------~~IL~lTFT~kAA~El~~RI~   83 (242)
                      .+-.+|-|+-|+|||+.| .-|.|.|... ++-       .+.+.-.-|..|-.++.=-+.
T Consensus        30 l~~f~i~G~tGAGKtsLl-dAI~yALYGkP~~~~s~~~~~~~~~~~~~~~~~~~~lef~~~   89 (1063)
T TIGR00618        30 LKLFVICGKTGAGKTSLL-DAITYALYGKPVPRESEVVASKNSLSRADSEEALAELEFALD   89 (1063)
T ss_pred             CCEEEEECCCCCCHHHHH-HHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHEEC
T ss_conf             573677788998354599-999998728887751467888754200107877654640135


No 448
>PRK10365 transcriptional regulatory protein ZraR; Provisional
Probab=82.53  E-value=1.5  Score=23.65  Aligned_cols=33  Identities=21%  Similarity=0.387  Sum_probs=23.6

Q ss_pred             HHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             89999827688879984888996799999999998
Q 537021.9.peg.4   22 SEQLLASDPTRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        22 ~qq~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      ++-..++..+.|||+.+-+||||..+  .|..|..
T Consensus       153 ~~i~~~A~s~~pVLI~GE~GTGK~~~--Ar~IH~~  185 (441)
T PRK10365        153 SEIALVAPSEATVLIHGDSGTGKELV--ARAIHAS  185 (441)
T ss_pred             HHHHHHHCCCCCEEEECCCCHHHHHH--HHHHHHC
T ss_conf             99999848899489989998109999--9999965


No 449
>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=82.53  E-value=0.89  Score=25.21  Aligned_cols=24  Identities=21%  Similarity=0.203  Sum_probs=17.2

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             8799848889967999999999982
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      +++.++-||||||++- .+++..+.
T Consensus         1 nI~LiG~~G~GKstig-k~la~~l~   24 (154)
T cd00464           1 NIVLIGMMGAGKTTVG-RLLAKALG   24 (154)
T ss_pred             CEEEECCCCCCHHHHH-HHHHHHHC
T ss_conf             9899889999889999-99999979


No 450
>pfam08423 Rad51 Rad51. Rad51 is a DNA repair and recombination protein and is a homologue of the bacterial ATPase RecA protein.
Probab=82.51  E-value=2.3  Score=22.26  Aligned_cols=40  Identities=18%  Similarity=0.163  Sum_probs=24.0

Q ss_pred             CCCCEE-EEECCCCCHHHHHHHHHHHH----------------HHCC-CCHHHHHHHH
Q ss_conf             688879-98488899679999999999----------------8247-8988956677
Q 537021.9.peg.4   30 PTRSAW-VSANAGSGKTHILVQRVLRL----------------LLAN-AHPSTLLCLT   69 (242)
Q Consensus        30 ~~~~~l-V~A~aGSGKT~tL~~rv~~l----------------l~~g-~~P~~IL~lT   69 (242)
                      |.|.+- |.++||||||..-....+..                =.+| .+|+++.-+.
T Consensus        41 ~~g~ITEi~G~~gsGKTQlc~qlav~~qlp~~~gg~~g~vvyIDTEg~f~~eRl~qia   98 (261)
T pfam08423        41 ETGSITEVFGEFRTGKTQLCHTLCVTCQLPLEMGGGEGKALYIDTEGTFRPERIVAIA   98 (261)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHCHHHHCCCCCEEEEEECCCCCCHHHHHHHH
T ss_conf             6772999989988878999999999940709656999728999368886989999999


No 451
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=82.49  E-value=0.91  Score=25.13  Aligned_cols=19  Identities=32%  Similarity=0.705  Sum_probs=14.7

Q ss_pred             CCEEEEECCCCCHHHHHHH
Q ss_conf             8879984888996799999
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQ   50 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~   50 (242)
                      .-++|+||-|+||||.+-.
T Consensus         3 ~LivvsgPSGaGK~Tli~~   21 (184)
T PRK10078          3 KLIWLMGPSGSGKDSLLAA   21 (184)
T ss_pred             EEEEEECCCCCCHHHHHHH
T ss_conf             0999989986999999999


No 452
>PRK07263 consensus
Probab=82.48  E-value=3.8  Score=20.74  Aligned_cols=51  Identities=16%  Similarity=0.203  Sum_probs=32.8

Q ss_pred             CC-EEEEECCCCCHHHHHHHHHHHH-HHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             88-7998488899679999999999-8247898895667768789999999999996
Q 537021.9.peg.4   32 RS-AWVSANAGSGKTHILVQRVLRL-LLANAHPSTLLCLTHTKAAAAEMSHRVLEII   86 (242)
Q Consensus        32 ~~-~lV~A~aGSGKT~tL~~rv~~l-l~~g~~P~~IL~lTFT~kAA~El~~RI~~~l   86 (242)
                      |. ++|-|-||.|||....+...+. +.+|.   .++.++. ...+.++..|+....
T Consensus       203 GdLiviaaRPsmGKTa~alnia~~iA~~~~~---~V~~fSl-EMs~~ql~~R~la~~  255 (453)
T PRK07263        203 DQLIILAARPAVGKTAFVLNIAQNVGTKQKK---TVAIFSL-EMGAESLVDRMLAAE  255 (453)
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHHHHHHCCC---EEEEEEC-CCCHHHHHHHHHHHH
T ss_conf             8689997278884789999999999985598---2899924-699899999999986


No 453
>PRK12678 transcription termination factor Rho; Provisional
Probab=82.45  E-value=0.66  Score=26.13  Aligned_cols=27  Identities=19%  Similarity=0.311  Sum_probs=20.6

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHC
Q ss_conf             8887998488899679999999999824
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLLA   58 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~~   58 (242)
                      +...||+|+|-+|||++|-. |++-|..
T Consensus       411 GQRgLIVapPkaGKT~ll~~-ia~ai~~  437 (667)
T PRK12678        411 GQRGLIVSPPKAGKTTILQD-IANAITT  437 (667)
T ss_pred             CCEEEEECCCCCCCHHHHHH-HHHHHHH
T ss_conf             84546757997872599999-9999985


No 454
>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters. PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes.  This PDR subfamily represents domain I of its (ABC-IM)2 organization.  ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including 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=82.44  E-value=0.9  Score=25.16  Aligned_cols=20  Identities=30%  Similarity=0.463  Sum_probs=15.8

Q ss_pred             CCCCEEEEECCCCCHHHHHH
Q ss_conf             68887998488899679999
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILV   49 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~   49 (242)
                      |+.-+.++++.||||||.|-
T Consensus        32 ~Ge~~~llGpnGaGKSTLl~   51 (192)
T cd03232          32 PGTLTALMGESGAGKTTLLD   51 (192)
T ss_pred             CCEEEEEECCCCCCHHHHHH
T ss_conf             88399999999998899999


No 455
>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.
Probab=82.43  E-value=0.91  Score=25.14  Aligned_cols=23  Identities=26%  Similarity=0.385  Sum_probs=17.1

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHH
Q ss_conf             888799848889967999999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLR   54 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~   54 (242)
                      +...+|.|++|+|||+.+ ..+++
T Consensus        69 GQR~~Ifg~~g~GKt~Ll-~~i~~   91 (326)
T cd01136          69 GQRLGIFAGSGVGKSTLL-GMIAR   91 (326)
T ss_pred             CCEEEEECCCCCCCCHHH-HHHHH
T ss_conf             987874369999846678-76864


No 456
>pfam07015 VirC1 VirC1 protein. This family consists of several bacterial VirC1 proteins. In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon which enhances T-DNA processing probably does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA.
Probab=82.40  E-value=1.9  Score=22.86  Aligned_cols=28  Identities=21%  Similarity=0.184  Sum_probs=20.4

Q ss_pred             CEEEEEC--CCCCHHHHHHHHHHHHHHCCC
Q ss_conf             8799848--889967999999999982478
Q 537021.9.peg.4   33 SAWVSAN--AGSGKTHILVQRVLRLLLANA   60 (242)
Q Consensus        33 ~~lV~A~--aGSGKT~tL~~rv~~ll~~g~   60 (242)
                      +++..|+  -|+||||+.++....+..+|.
T Consensus         2 ~vi~~~~~KGG~GKtT~a~~la~~~~~~g~   31 (231)
T pfam07015         2 QLITFCSFKGGAGKTTALMGLCSALASDGK   31 (231)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCC
T ss_conf             379996179986599999999999996899


No 457
>PHA02519 plasmid partition protein SopA; Reviewed
Probab=82.40  E-value=0.56  Score=26.62  Aligned_cols=30  Identities=30%  Similarity=0.214  Sum_probs=23.1

Q ss_pred             CCC-CEEEEECC----CCCHHHHHHHHHHHHHHCC
Q ss_conf             688-87998488----8996799999999998247
Q 537021.9.peg.4   30 PTR-SAWVSANA----GSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        30 ~~~-~~lV~A~a----GSGKT~tL~~rv~~ll~~g   59 (242)
                      |.+ +..|+|-+    |+|||||-++...+|-.+|
T Consensus       101 p~~~~~~VIAVaN~KGGVGKTTTavnLA~~LAl~G  135 (387)
T PHA02519        101 PDDKNPVVLAVMSHKGGVYKTSSAVHTAQWLALQG  135 (387)
T ss_pred             CCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf             89887528998616887769999999999999769


No 458
>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=82.34  E-value=1.9  Score=22.83  Aligned_cols=30  Identities=30%  Similarity=0.387  Sum_probs=21.6

Q ss_pred             CCCC-EEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             6888-79984888996799999999998247
Q 537021.9.peg.4   30 PTRS-AWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        30 ~~~~-~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      |.|. .-|.+.||||||+...+-.+.....|
T Consensus        17 p~G~ItEi~G~~gsGKT~l~lqla~~~q~~~   47 (226)
T cd01393          17 PTGRITEIFGEFGSGKTQLCLQLAVEAQLPG   47 (226)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHCCC
T ss_conf             8883999999999989999999999985422


No 459
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=82.27  E-value=0.94  Score=25.04  Aligned_cols=62  Identities=16%  Similarity=0.221  Sum_probs=31.0

Q ss_pred             CCC-EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             888-79984888996799999999998247898895667----7687899999999999967752167422
Q 537021.9.peg.4   31 TRS-AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCL----THTKAAAAEMSHRVLEIITAWSHLSDEI   96 (242)
Q Consensus        31 ~~~-~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~l----TFT~kAA~El~~RI~~~l~~~~~~~~~~   96 (242)
                      .|. ++|+++-||||||.|  |-++.|..- .-.+|.+=    +... -...+|.++.=.++.+.-.++.+
T Consensus        27 ~Gevv~iiGpSGSGKSTlL--RclN~LE~~-~~G~I~i~g~~~~~~~-~~~~~R~~vGmVFQ~fnLFPH~T   93 (240)
T COG1126          27 KGEVVVIIGPSGSGKSTLL--RCLNGLEEP-DSGSITVDGEDVGDKK-DILKLRRKVGMVFQQFNLFPHLT   93 (240)
T ss_pred             CCCEEEEECCCCCCHHHHH--HHHHCCCCC-CCCEEEECCEECCCHH-HHHHHHHHCCEECCCCCCCCCCH
T ss_conf             8978999899999888999--999778688-7864999987225454-69999985576624665465532


No 460
>PRK06321 replicative DNA helicase; Provisional
Probab=82.27  E-value=3.9  Score=20.69  Aligned_cols=50  Identities=16%  Similarity=0.238  Sum_probs=33.3

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH-HHHHHHHHHHHHHHHH
Q ss_conf             79984888996799999999998247898895667768-7899999999999967
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHT-KAAAAEMSHRVLEIIT   87 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT-~kAA~El~~RI~~~l~   87 (242)
                      ++|-|-||.|||....+-..+...++-.|    ++=|| ...+.++..|+.....
T Consensus       229 iviaaRPsmGKTalalnia~~~a~~~~~~----v~~fSLEMs~~ql~~R~ls~~s  279 (472)
T PRK06321        229 MILAARPAMGKTALALNIAENFCFQNRLP----VGIFSLEMTVDQLIHRIICSRS  279 (472)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHCCCC----EEEECCCCCHHHHHHHHHHHHC
T ss_conf             99853899977999999999999856994----6997577999999999987403


No 461
>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]
Probab=82.26  E-value=1  Score=24.81  Aligned_cols=25  Identities=28%  Similarity=0.574  Sum_probs=18.5

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHH
Q ss_conf             68887998488899679999999999
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRL   55 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~l   55 (242)
                      |+..++|.+..|+|||+.+ .-++.|
T Consensus       418 ~G~~llI~G~SG~GKTsLl-RaiaGL  442 (604)
T COG4178         418 PGERLLITGESGAGKTSLL-RALAGL  442 (604)
T ss_pred             CCCEEEEECCCCCCHHHHH-HHHHCC
T ss_conf             9987998789998788999-999645


No 462
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=82.24  E-value=2.2  Score=22.50  Aligned_cols=28  Identities=21%  Similarity=0.292  Sum_probs=19.6

Q ss_pred             CCCCCEEEEEC-CCCCHHHHHHHHHHHHHH
Q ss_conf             76888799848-889967999999999982
Q 537021.9.peg.4   29 DPTRSAWVSAN-AGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        29 ~~~~~~lV~A~-aGSGKT~tL~~rv~~ll~   57 (242)
                      ++++|+.+++| =|+||||.|-. +.+.|.
T Consensus        25 ~~~k~i~li~G~NG~GKTTll~A-i~~~LY   53 (650)
T TIGR03185        25 SSPKPIILIGGLNGAGKTTLLDA-IQLGLY   53 (650)
T ss_pred             CCCCCEEEEECCCCCCHHHHHHH-HHHHHC
T ss_conf             99998799977999978999999-999956


No 463
>COG4240 Predicted kinase [General function prediction only]
Probab=82.24  E-value=2.2  Score=22.50  Aligned_cols=32  Identities=25%  Similarity=0.224  Sum_probs=23.1

Q ss_pred             CCCCCE--EEEECCCCCHHHHHHHHHHHHHHCCC
Q ss_conf             768887--99848889967999999999982478
Q 537021.9.peg.4   29 DPTRSA--WVSANAGSGKTHILVQRVLRLLLANA   60 (242)
Q Consensus        29 ~~~~~~--lV~A~aGSGKT~tL~~rv~~ll~~g~   60 (242)
                      ..++|+  -|+++-||||||+-+..+..|-..|.
T Consensus        46 e~grPli~gisGpQGSGKStls~~i~~~L~~kg~   79 (300)
T COG4240          46 ERGRPLIVGISGPQGSGKSTLSALIVRLLAAKGL   79 (300)
T ss_pred             HCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHCC
T ss_conf             1279639985268887653599999999997365


No 464
>PRK07933 thymidylate kinase; Validated
Probab=82.19  E-value=2  Score=22.68  Aligned_cols=35  Identities=17%  Similarity=0.152  Sum_probs=25.2

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf             79984888996799999999998247898895667768
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHT   71 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT   71 (242)
                      +.++++=||||||.+-....+|-..|.   .+..+.|.
T Consensus         3 I~fEGiDGsGKSTq~~~L~~~L~~~g~---~v~~~reP   37 (213)
T PRK07933          3 IAIEGVDGAGKRTLTEALRAALEAAGR---SVATLAFP   37 (213)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCC---EEEEEECC
T ss_conf             999889999899999999999997799---07998468


No 465
>pfam00910 RNA_helicase RNA helicase. This family includes RNA helicases thought to be involved in duplex unwinding during viral RNA replication. Members of this family are found in a variety of single stranded RNA viruses.
Probab=82.15  E-value=1.4  Score=23.80  Aligned_cols=23  Identities=26%  Similarity=0.468  Sum_probs=16.1

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             79984888996799999999998
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      +++.++||+|||+..-.....++
T Consensus         1 i~l~G~~G~GKS~~a~~la~~~~   23 (105)
T pfam00910         1 IWLYGPPGCGKSTLAKYLARALL   23 (105)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHH
T ss_conf             98979998988999999999999


No 466
>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta. A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.
Probab=82.13  E-value=1.2  Score=24.25  Aligned_cols=27  Identities=26%  Similarity=0.287  Sum_probs=21.7

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             888799848889967999999999982
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      ++.+.+.|++|+|||..+...+.+...
T Consensus       138 Gqr~gIfggaGvGKT~Ll~e~i~n~~~  164 (449)
T TIGR03305       138 GGKAGLFGGAGVGKTVLLTEMIHNMVG  164 (449)
T ss_pred             CCEEEEECCCCCCCCCHHHHHHHHHHH
T ss_conf             756566527999841018999986564


No 467
>PRK07270 DNA polymerase III subunits gamma and tau; Validated
Probab=82.13  E-value=4  Score=20.65  Aligned_cols=25  Identities=24%  Similarity=0.302  Sum_probs=16.1

Q ss_pred             CCCE-EEEECCCCCHHHHHHHHHHHHH
Q ss_conf             8887-9984888996799999999998
Q 537021.9.peg.4   31 TRSA-WVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        31 ~~~~-lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      -.++ |-.+++|||||++- ..++..|
T Consensus        36 i~HAyLF~GP~GtGKts~A-rifAkaL   61 (557)
T PRK07270         36 ISHAYLFSGPRGTGKTSAA-KIFAKAM   61 (557)
T ss_pred             CCEEEEEECCCCCCHHHHH-HHHHHHH
T ss_conf             5404421089986899999-9999995


No 468
>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily.  Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus.  Arl5 is developmentally regulated during embryogenesis in mice.  Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion.  Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library.  It is found in brain, heart, lung, cartilage, and kidney.  No function has been assigned for Arl8 to date.
Probab=82.10  E-value=0.98  Score=24.93  Aligned_cols=18  Identities=33%  Similarity=0.386  Sum_probs=15.3

Q ss_pred             CEEEEECCCCCHHHHHHH
Q ss_conf             879984888996799999
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQ   50 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~   50 (242)
                      -++|++.+|||||+.|-.
T Consensus        17 KililG~~~sGKTsil~~   34 (174)
T cd04153          17 KVIIVGLDNAGKTTILYQ   34 (174)
T ss_pred             EEEEECCCCCCHHHHHHH
T ss_conf             999998999988999999


No 469
>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]
Probab=82.02  E-value=2  Score=22.70  Aligned_cols=27  Identities=22%  Similarity=0.074  Sum_probs=23.0

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCC
Q ss_conf             799848889967999999999982478
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANA   60 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~   60 (242)
                      +.+++.=||||||.+-....++-.+|.
T Consensus         6 I~iEGiDGaGKTT~~~~L~~~l~~~g~   32 (208)
T COG0125           6 IVIEGIDGAGKTTQAELLKERLEERGI   32 (208)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCC
T ss_conf             999788889889999999999998298


No 470
>PRK04132 replication factor C small subunit; Provisional
Probab=81.94  E-value=0.65  Score=26.18  Aligned_cols=18  Identities=22%  Similarity=0.302  Sum_probs=14.4

Q ss_pred             CEEEEECCCCCHHHHHHH
Q ss_conf             879984888996799999
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQ   50 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~   50 (242)
                      ++|-.+|||+|||++-..
T Consensus        48 HLLFaGPPGvGKt~~al~   65 (863)
T PRK04132         48 HLLFAGPPGVGKTTAALA   65 (863)
T ss_pred             CEEECCCCCCCCHHHHHH
T ss_conf             443048998771447888


No 471
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=81.94  E-value=1.8  Score=23.06  Aligned_cols=30  Identities=17%  Similarity=0.315  Sum_probs=21.5

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHHCCCCH
Q ss_conf             879984888996799999999998247898
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLLLANAHP   62 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P   62 (242)
                      -.|+.+++|+||+++-.....+++..+..|
T Consensus        28 A~Lf~Gp~G~GK~~~A~~~A~~llc~~~~~   57 (319)
T PRK08769         28 GLLICGPEGLGKRAVALALAEHVLASGPDP   57 (319)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHCCCCCC
T ss_conf             687589998789999999999983799797


No 472
>cd04155 Arl3 Arl3 subfamily.  Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension.  In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form.  The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector.  Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2).  It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery.  In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.
Probab=81.93  E-value=1  Score=24.84  Aligned_cols=22  Identities=23%  Similarity=0.314  Sum_probs=17.0

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHH
Q ss_conf             88879984888996799999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVL   53 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~   53 (242)
                      .--+++++.+|+|||+.+ +++.
T Consensus        14 ~~Ki~ilG~~~sGKTsll-~~l~   35 (173)
T cd04155          14 EPRILILGLDNAGKTTIL-KQLA   35 (173)
T ss_pred             CCEEEEECCCCCCHHHHH-HHHH
T ss_conf             758999979999889999-9985


No 473
>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]
Probab=81.89  E-value=0.99  Score=24.89  Aligned_cols=26  Identities=19%  Similarity=0.267  Sum_probs=18.7

Q ss_pred             CCC-EEEEECCCCCHHHHHHHHHHHHHH
Q ss_conf             888-799848889967999999999982
Q 537021.9.peg.4   31 TRS-AWVSANAGSGKTHILVQRVLRLLL   57 (242)
Q Consensus        31 ~~~-~lV~A~aGSGKT~tL~~rv~~ll~   57 (242)
                      .|. +.++++-||||||+| .-++-|..
T Consensus        28 ~Gef~vllGPSGcGKSTlL-r~IAGLe~   54 (338)
T COG3839          28 DGEFVVLLGPSGCGKSTLL-RMIAGLEE   54 (338)
T ss_pred             CCCEEEEECCCCCCHHHHH-HHHHCCCC
T ss_conf             7979999899988889999-99968877


No 474
>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]
Probab=81.77  E-value=1.6  Score=23.50  Aligned_cols=27  Identities=22%  Similarity=0.192  Sum_probs=20.9

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCC
Q ss_conf             799848889967999999999982478
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANA   60 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~   60 (242)
                      +-|.+.=||||||.|...+-.|-.+|.
T Consensus         5 l~ivG~k~SGKTTLie~lv~~L~~~G~   31 (161)
T COG1763           5 LGIVGYKNSGKTTLIEKLVRKLKARGY   31 (161)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCC
T ss_conf             999962799734289999999975793


No 475
>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases.  Arf proteins are activators of phospholipase D isoforms.  Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated.  Arfs are N-terminally myristoylated.  Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner.  They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site.  Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins.  Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus.  Most other Arf family proteins are so far relatively poorly characterized.  Thu
Probab=81.71  E-value=1  Score=24.79  Aligned_cols=18  Identities=33%  Similarity=0.505  Sum_probs=14.9

Q ss_pred             EEEEECCCCCHHHHHHHHH
Q ss_conf             7998488899679999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRV   52 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv   52 (242)
                      ++|++.+|+|||+.+ +|+
T Consensus         2 i~ilG~~~vGKTsll-~~l   19 (158)
T cd00878           2 ILILGLDGAGKTTIL-YKL   19 (158)
T ss_pred             EEEECCCCCCHHHHH-HHH
T ss_conf             999999999889999-999


No 476
>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=81.67  E-value=2.4  Score=22.20  Aligned_cols=71  Identities=17%  Similarity=0.237  Sum_probs=45.1

Q ss_pred             HHHHHHHCC-CCCEEEEECCCCCHHHHHHHHHHHHHHCC---------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             899998276-88879984888996799999999998247---------89889566776878999999999999677521
Q 537021.9.peg.4   22 SEQLLASDP-TRSAWVSANAGSGKTHILVQRVLRLLLAN---------AHPSTLLCLTHTKAAAAEMSHRVLEIITAWSH   91 (242)
Q Consensus        22 ~qq~~a~~~-~~~~lV~A~aGSGKT~tL~~rv~~ll~~g---------~~P~~IL~lTFT~kAA~El~~RI~~~l~~~~~   91 (242)
                      +.-.-|..| .|-|.|-+..||||.+.|+..+-.|+...         ..|=+-+.=..+...|.--...|...+..++.
T Consensus       124 ~~i~~aiaPqeG~v~~tGatGsGkstlla~iirel~e~~ds~rk~ltye~Pie~vyd~~~t~~a~v~qseiPrhl~~fa~  203 (358)
T TIGR02524       124 DAIVEAIAPQEGVVYVTGATGSGKSTLLAAIIRELIEASDSNRKVLTYEAPIEYVYDELETISAVVSQSEIPRHLNSFAD  203 (358)
T ss_pred             HHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCEEEEECCCHHHHHHCCCCCEEEEEHHHCCHHHHHHHH
T ss_conf             79998517888669986267763688999999998606765641464226323322110100112220002122567888


Q ss_pred             C
Q ss_conf             6
Q 537021.9.peg.4   92 L   92 (242)
Q Consensus        92 ~   92 (242)
                      +
T Consensus       204 G  204 (358)
T TIGR02524       204 G  204 (358)
T ss_pred             H
T ss_conf             8


No 477
>KOG1514 consensus
Probab=81.63  E-value=1  Score=24.83  Aligned_cols=27  Identities=26%  Similarity=0.374  Sum_probs=18.8

Q ss_pred             CCCC-EEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             6888-79984888996799999999998
Q 537021.9.peg.4   30 PTRS-AWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        30 ~~~~-~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      ..|+ .-|.+.||||||.|.-.-+-.|.
T Consensus       420 ~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq  447 (767)
T KOG1514         420 GLGSCMYISGVPGTGKTATVLEVMKELQ  447 (767)
T ss_pred             CCCEEEEEECCCCCCCEEHHHHHHHHHH
T ss_conf             7740799846999883212999999999


No 478
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=81.58  E-value=4.1  Score=20.52  Aligned_cols=24  Identities=25%  Similarity=0.293  Sum_probs=16.7

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             8879984888996799999999998
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      ...|-.+++|+|||++- ..++..|
T Consensus        39 HAYLFsGPrGvGKTTlA-rifAkaL   62 (613)
T PRK05896         39 HAYIFSGPRGIGKTSIA-KIFAKAI   62 (613)
T ss_pred             CEEEEECCCCCCHHHHH-HHHHHHH
T ss_conf             22775589984889999-9999996


No 479
>PRK13543 cytochrome c biogenesis protein CcmA; Provisional
Probab=81.55  E-value=1  Score=24.71  Aligned_cols=26  Identities=31%  Similarity=0.449  Sum_probs=18.7

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             688879984888996799999999998
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      ++.-+.+.++=|+||||.|- -++.++
T Consensus        36 ~Ge~~~l~GpNGaGKTTLlr-~l~Gl~   61 (214)
T PRK13543         36 AGEALLVQGDNGAGKTTLLR-VLAGLL   61 (214)
T ss_pred             CCCEEEEECCCCCCHHHHHH-HHHCCC
T ss_conf             89899999999987999999-997697


No 480
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=81.54  E-value=0.58  Score=26.53  Aligned_cols=49  Identities=20%  Similarity=0.236  Sum_probs=29.6

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             7998488899679999999999824789889566776878999999999999677
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITA   88 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~   88 (242)
                      +||.+|+.|||+.---.    +..+.-  .+++.+.=...-=.||++||...-..
T Consensus         2 iLVtGG~rSGKS~~AE~----la~~~~--~~~~YiAT~~~~D~Em~~RI~~Hr~~   50 (169)
T cd00544           2 ILVTGGARSGKSRFAER----LAAELG--GPVTYIATAEAFDDEMAERIARHRKR   50 (169)
T ss_pred             EEEECCCCCCHHHHHHH----HHHHCC--CCCEEEECCCCCCHHHHHHHHHHHHC
T ss_conf             89977866368999999----998459--98199978898898999999999966


No 481
>KOG4284 consensus
Probab=81.53  E-value=0.22  Score=29.52  Aligned_cols=56  Identities=20%  Similarity=0.241  Sum_probs=40.5

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             88799848889967999999999982478988956677687899999999999967
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIIT   87 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~   87 (242)
                      -.++|.|--|||||-+-+-.++.-+.-...--+++++|+||.-|-.+++-+.+...
T Consensus        63 mDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTREiaVQI~~tv~~v~~  118 (980)
T KOG4284          63 MDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTREIAVQIKETVRKVAP  118 (980)
T ss_pred             CCEEEEECCCCCCEEEEEEEEEHHCCCCCCCCEEEEEECCHHHHHHHHHHHHHHCC
T ss_conf             53589813788855899854302227566762069971435664579999998652


No 482
>TIGR03265 PhnT2 putative 2-aminoethylphosphonate ABC transport system, ATP-binding protein component. This ABC transporter ATP-binding protein is found in a number of genomes in operon-like contexts strongly suggesting a substrate specificity for 2-aminoethylphosphonate (2-AEP). The characterized PhnSTUV system is absent in the genomes in which this system is found. These genomes encode systems for the catabolism of 2-AEP, making the need for a 2-AEP-specific transporter likely.
Probab=81.49  E-value=0.96  Score=24.99  Aligned_cols=26  Identities=23%  Similarity=0.321  Sum_probs=18.6

Q ss_pred             CCCC-EEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             6888-79984888996799999999998
Q 537021.9.peg.4   30 PTRS-AWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        30 ~~~~-~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      +.|. +.++++-||||||+| .-++.|.
T Consensus        28 ~~Ge~~~llGpSG~GKtTlL-r~iaGl~   54 (353)
T TIGR03265        28 KKGEFVCLLGPSGCGKTTLL-RIIAGLE   54 (353)
T ss_pred             CCCCEEEEECCCCCHHHHHH-HHHHCCC
T ss_conf             89999999999953599999-9997699


No 483
>KOG1534 consensus
Probab=81.46  E-value=1.5  Score=23.56  Aligned_cols=48  Identities=15%  Similarity=0.133  Sum_probs=32.7

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHHCC-------CCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             879984888996799999999998247-------898895667768789999999999
Q 537021.9.peg.4   33 SAWVSANAGSGKTHILVQRVLRLLLAN-------AHPSTLLCLTHTKAAAAEMSHRVL   83 (242)
Q Consensus        33 ~~lV~A~aGSGKT~tL~~rv~~ll~~g-------~~P~~IL~lTFT~kAA~El~~RI~   83 (242)
                      -.+|.++|||||+|--...+.+.-.-|       .+|-   +..|.-..+-.+|+=|.
T Consensus         5 a~lV~GpAgSGKSTyC~~~~~h~e~~gRs~~vVNLDPA---ae~f~y~~~iDiRdlIs   59 (273)
T KOG1534           5 AQLVMGPAGSGKSTYCSSMYEHCETVGRSVHVVNLDPA---AEHFNYPVTIDIRDLIS   59 (273)
T ss_pred             EEEEECCCCCCCCHHHHHHHHHHHHHCCEEEEEECCHH---HHHHCCCCCCCHHHHCC
T ss_conf             58987467888430789999999862854588626878---88608962002887521


No 484
>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=81.45  E-value=0.54  Score=26.73  Aligned_cols=19  Identities=26%  Similarity=0.328  Sum_probs=16.3

Q ss_pred             CCCEEEEECCCCCHHHHHH
Q ss_conf             8887998488899679999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILV   49 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~   49 (242)
                      +..++.-+..|||||+||.
T Consensus        74 n~ti~aYGqTGSGKTyTm~   92 (341)
T cd01372          74 NATVLAYGQTGSGKTYTMG   92 (341)
T ss_pred             CEEEEEECCCCCCCCCCCC
T ss_conf             5169997147889864413


No 485
>pfam09140 MipZ ATPase MipZ. MipZ is an ATPase that forms a complex with the chromosome partitioning protein ParB near the chromosomal origin of replication. It is responsible for the temporal and spatial regulation of FtsZ ring formation.
Probab=81.40  E-value=0.62  Score=26.32  Aligned_cols=26  Identities=35%  Similarity=0.445  Sum_probs=19.8

Q ss_pred             EEEEEC--CCCCHHHHHHHHHHHHHHCC
Q ss_conf             799848--88996799999999998247
Q 537021.9.peg.4   34 AWVSAN--AGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        34 ~lV~A~--aGSGKT~tL~~rv~~ll~~g   59 (242)
                      ++++|.  =|+|||||-++-...|...|
T Consensus         2 IIaVaNqKGGvGKTTtavnLA~aLA~~G   29 (261)
T pfam09140         2 VIVVGNEKGGSGKSTTAVHVAVALLYLG   29 (261)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf             7999717898729999999999999889


No 486
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=81.40  E-value=1.8  Score=23.06  Aligned_cols=22  Identities=18%  Similarity=0.232  Sum_probs=17.8

Q ss_pred             HHHHCCCCCEEEEECCCCCHHH
Q ss_conf             9982768887998488899679
Q 537021.9.peg.4   25 LLASDPTRSAWVSANAGSGKTH   46 (242)
Q Consensus        25 ~~a~~~~~~~lV~A~aGSGKT~   46 (242)
                      +.++..+.||||.+-+||||+.
T Consensus       342 ~~~a~~~~pVLI~GE~GtGKe~  363 (639)
T PRK11388        342 RQAAKSSFPILLCGEEGVGKAL  363 (639)
T ss_pred             HHHHCCCCCEEEECCCCCCHHH
T ss_conf             9996889968988989810999


No 487
>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=81.39  E-value=0.93  Score=25.08  Aligned_cols=52  Identities=21%  Similarity=0.243  Sum_probs=41.7

Q ss_pred             EEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9984888996799999999998247898895667768789999999999996775
Q 537021.9.peg.4   35 WVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHRVLEIITAW   89 (242)
Q Consensus        35 lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~RI~~~l~~~   89 (242)
                      ++.+.+|||||.+-..-+...+..|   .+++++-.--.-+-.+..|+..+++..
T Consensus         1 ll~G~tGsGkte~y~~~~~~~l~~g---~~~~~l~Pei~l~~q~~~~~~~~fg~~   52 (524)
T TIGR00595         1 LLFGVTGSGKTEVYLQAIEKVLALG---KSALVLVPEIALTPQTLQRFKGRFGSQ   52 (524)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHCC---CEEEEEECCHHHHHHHHHHHHHHHCCC
T ss_conf             9545678861688899999997337---717897042110167899999971872


No 488
>pfam03308 ArgK ArgK protein. The ArgK protein acts as an ATPase enzyme and as a kinase, and phosphorylates periplasmic binding proteins involved in the LAO (lysine, arginine, ornithine)/AO transport systems.
Probab=81.36  E-value=4.2  Score=20.47  Aligned_cols=26  Identities=15%  Similarity=0.240  Sum_probs=21.5

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             79984888996799999999998247
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      +=|-++||.||++.+-..+.+++..|
T Consensus        32 iGiTG~PGaGKStli~~l~~~~~~~g   57 (267)
T pfam03308        32 VGITGVPGAGKSTLIEALGMELRRRG   57 (267)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf             98768998879999999999999689


No 489
>PRK13477 bifunctional pantoate ligase/cytidylate kinase; Provisional
Probab=81.28  E-value=0.88  Score=25.24  Aligned_cols=27  Identities=22%  Similarity=0.305  Sum_probs=18.2

Q ss_pred             HCCCCCE-EEEECCCCCHHHHHHHHHHHH
Q ss_conf             2768887-998488899679999999999
Q 537021.9.peg.4   28 SDPTRSA-WVSANAGSGKTHILVQRVLRL   55 (242)
Q Consensus        28 ~~~~~~~-lV~A~aGSGKT~tL~~rv~~l   55 (242)
                      ..+.+|+ -|-++|||||+|+- ..++..
T Consensus       280 L~~~~~IIAIDGPAgSGKSTvA-K~lA~~  307 (512)
T PRK13477        280 LMKRRPIIAIDGPAGAGKSTVT-RAVAKK  307 (512)
T ss_pred             CCCCCCEEEEECCCCCCHHHHH-HHHHHH
T ss_conf             1578877998678757878999-999998


No 490
>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=81.24  E-value=0.49  Score=27.06  Aligned_cols=20  Identities=25%  Similarity=0.368  Sum_probs=17.0

Q ss_pred             CCCEEEEECCCCCHHHHHHH
Q ss_conf             88879984888996799999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQ   50 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~   50 (242)
                      +..++.-+..|||||+||..
T Consensus        77 n~ti~aYGqTGSGKTyTm~G   96 (325)
T cd01369          77 NGTIFAYGQTGSGKTYTMEG   96 (325)
T ss_pred             CEEEEEECCCCCCCCCEECC
T ss_conf             64699745789998625127


No 491
>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein.  In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor.  This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export.  The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD).  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=81.17  E-value=1.1  Score=24.57  Aligned_cols=26  Identities=23%  Similarity=0.543  Sum_probs=19.3

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             688879984888996799999999998
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      ++.-+.|.++-||||||.+ .-+..++
T Consensus        28 ~Ge~vaivG~sGsGKSTLl-~ll~gl~   53 (229)
T cd03254          28 PGETVAIVGPTGAGKTTLI-NLLMRFY   53 (229)
T ss_pred             CCCEEEEECCCCCHHHHHH-HHHHCCC
T ss_conf             9999999999998099999-9996686


No 492
>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment.  ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.  The nucleotide binding domain shows the highest similarity between all members of the family.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=81.16  E-value=0.97  Score=24.95  Aligned_cols=67  Identities=15%  Similarity=0.215  Sum_probs=34.4

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHH--CCCCHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHH
Q ss_conf             888799848889967999999999982--4789889566--77687899999999999967752167422146499
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLLL--ANAHPSTLLC--LTHTKAAAAEMSHRVLEIITAWSHLSDEILSAEIT  102 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll~--~g~~P~~IL~--lTFT~kAA~El~~RI~~~l~~~~~~~~~~~~~~l~  102 (242)
                      +.-+.++++-||||||+| .-+..++.  .|    +|++  ...++....+++.+|.=.+++.+-.++-+....+.
T Consensus        27 Ge~~~ilGpSG~GKSTll-r~i~gl~~p~~G----~I~i~g~~i~~~~~~~lrr~ig~vfQ~~~Lfp~ltV~eNi~   97 (242)
T cd03295          27 GEFLVLIGPSGSGKTTTM-KMINRLIEPTSG----EIFIDGEDIREQDPVELRRKIGYVIQQIGLFPHMTVEENIA   97 (242)
T ss_pred             CCEEEEECCCCCHHHHHH-HHHHCCCCCCCE----EEEECCEECCCCCHHHHHCCCEEEECCCCCCCCCCHHHHHH
T ss_conf             989999999995699999-999759999815----99999999999997897388679917997588882999999


No 493
>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=81.13  E-value=2.4  Score=22.14  Aligned_cols=53  Identities=23%  Similarity=0.312  Sum_probs=31.9

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCC-----HH---HHHH--HHHHHHHHHHHHHHHHHHH
Q ss_conf             7998488899679999999999824789-----88---9566--7768789999999999996
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANAH-----PS---TLLC--LTHTKAAAAEMSHRVLEII   86 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~~-----P~---~IL~--lTFT~kAA~El~~RI~~~l   86 (242)
                      +|+-+-|||||||.--.-..+|-..|.+     -+   ..+.  +.||.+.=.+.-.|+....
T Consensus         5 iW~TGLsGsGKTTlA~~l~~~L~~~~~~~~~LDGD~~R~~l~~dlgys~~~R~~n~~r~~~la   67 (157)
T pfam01583         5 VWFTGLSGSGKSTIANALERKLFAQGISVYVLDGDNVRHGLNKDLGFSEEDRTENIRRIAEVA   67 (157)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCCCCCCHHHHHHHHHHHHHHH
T ss_conf             998898999999999999999997599779976887750125777989899999999999999


No 494
>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D.  PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB.  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=81.08  E-value=1.1  Score=24.64  Aligned_cols=25  Identities=20%  Similarity=0.215  Sum_probs=17.0

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             88879984888996799999999998
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRLL   56 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~ll   56 (242)
                      +.-+.++++-||||||.| .-+..+.
T Consensus        26 Ge~~~iiGpSGsGKSTll-r~i~Gl~   50 (232)
T cd03300          26 GEFFTLLGPSGCGKTTLL-RLIAGFE   50 (232)
T ss_pred             CCEEEEECCCCCHHHHHH-HHHHCCC
T ss_conf             989999999998399999-9997799


No 495
>PRK01184 hypothetical protein; Provisional
Probab=81.01  E-value=1  Score=24.81  Aligned_cols=39  Identities=18%  Similarity=0.180  Sum_probs=20.8

Q ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             799848889967999999999982478988956677687899999999
Q 537021.9.peg.4   34 AWVSANAGSGKTHILVQRVLRLLLANAHPSTLLCLTHTKAAAAEMSHR   81 (242)
Q Consensus        34 ~lV~A~aGSGKT~tL~~rv~~ll~~g~~P~~IL~lTFT~kAA~El~~R   81 (242)
                      +.+-++||||||++- ....   ..|     +.++.+..-...++++|
T Consensus         4 IGlTG~iGSGKstva-~i~~---e~G-----~~vi~~~Divr~~v~~~   42 (183)
T PRK01184          4 IIVTGMPGSGKGEFS-KIAR---ELG-----IPVVVMGDVIREEVKKR   42 (183)
T ss_pred             EEEECCCCCCHHHHH-HHHH---HCC-----CEEEECCHHHHHHHHHC
T ss_conf             999689988789999-9999---779-----93998607789999983


No 496
>CHL00060 atpB ATP synthase CF1 beta subunit
Probab=80.99  E-value=1.6  Score=23.41  Aligned_cols=25  Identities=20%  Similarity=0.286  Sum_probs=19.8

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHH
Q ss_conf             8887998488899679999999999
Q 537021.9.peg.4   31 TRSAWVSANAGSGKTHILVQRVLRL   55 (242)
Q Consensus        31 ~~~~lV~A~aGSGKT~tL~~rv~~l   55 (242)
                      ++.+.+.||+|+|||+.+...+.+.
T Consensus       155 GQRigIfggaGvGKTvLl~eli~ni  179 (480)
T CHL00060        155 GGKIGLFGGAGVGKTVLIMELINNI  179 (480)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             6688765689988789999999612


No 497
>KOG0242 consensus
Probab=80.90  E-value=0.5  Score=26.96  Aligned_cols=47  Identities=26%  Similarity=0.309  Sum_probs=34.4

Q ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHC-C-CCCEEEEECCCCCHHHHHHHH
Q ss_conf             0078888897323509489999827-6-888799848889967999999
Q 537021.9.peg.4    5 NSFQEHSETIDLISQTKSEQLLASD-P-TRSAWVSANAGSGKTHILVQR   51 (242)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~qq~~a~~-~-~~~~lV~A~aGSGKT~tL~~r   51 (242)
                      ..|-+.+..-|+...+...-...+- . ++.|+-.+.-|||||+|+...
T Consensus        59 ~VF~~~~t~~~VYe~~tkpiv~~~l~G~N~TVFAYG~TgSGKTyTM~G~  107 (675)
T KOG0242          59 RVFGEESTQEDVYERTTKPLLLSVLEGFNATVFAYGQTGSGKTYTMSGS  107 (675)
T ss_pred             EECCCCCCHHHHHHHCCHHHHHHHHCCCCCCEEEECCCCCCCCEEEECC
T ss_conf             0448998878898740078899974686652564237889875477515


No 498
>COG1341 Predicted GTPase or GTP-binding protein [General function prediction only]
Probab=80.87  E-value=3  Score=21.55  Aligned_cols=52  Identities=19%  Similarity=0.219  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHCC
Q ss_conf             8888897323509489999827688879984888996799999999998247
Q 537021.9.peg.4    8 QEHSETIDLISQTKSEQLLASDPTRSAWVSANAGSGKTHILVQRVLRLLLAN   59 (242)
Q Consensus         8 ~~~~~~~~~~~~~~~qq~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll~~g   59 (242)
                      ++-+...|-+..+-+.-.......+-++|.++=+|||||..+...=.++.+|
T Consensus        50 ~d~~~~~e~i~~~~~~~~~~~~~~~~vmvvG~vDSGKSTLt~~LaN~~l~rG  101 (398)
T COG1341          50 EDRSEPLEEIADTWESKSESAGKVGVVMVVGPVDSGKSTLTTYLANKLLARG  101 (398)
T ss_pred             HHHHHHHHHHHHCCCCCCHHCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf             6763178997632244201206873899989867678899999998876447


No 499
>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; 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=80.85  E-value=1.1  Score=24.54  Aligned_cols=59  Identities=15%  Similarity=0.110  Sum_probs=29.8

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHH--CC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             6888799848889967999999999982--47-898895667768789999999999996775
Q 537021.9.peg.4   30 PTRSAWVSANAGSGKTHILVQRVLRLLL--AN-AHPSTLLCLTHTKAAAAEMSHRVLEIITAW   89 (242)
Q Consensus        30 ~~~~~lV~A~aGSGKT~tL~~rv~~ll~--~g-~~P~~IL~lTFT~kAA~El~~RI~~~l~~~   89 (242)
                      ++.-+.++++-||||||++ .-+..|+.  .| +-....-+...+++....++.+|.-.++..
T Consensus        25 ~Ge~~~iiG~SGsGKSTll-~~i~gL~~p~~G~I~~~g~~i~~~~~~~~~~~r~~ig~vfQ~~   86 (235)
T cd03261          25 RGEILAIIGPSGSGKSTLL-RLIVGLLRPDSGEVLIDGEDISGLSEAELYRLRRRMGMLFQSG   86 (235)
T ss_pred             CCCEEEEECCCCCHHHHHH-HHHHCCCCCCCCEEEECCEECCCCCHHHHHHHHCCEEEEECCC
T ss_conf             9989999999997299999-9997599989858999999999899889999757829970498


No 500
>PRK06217 hypothetical protein; Validated
Probab=80.79  E-value=1.8  Score=22.99  Aligned_cols=48  Identities=21%  Similarity=0.266  Sum_probs=29.5

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHH-CCCC-------HHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             88799848889967999999999982-4789-------8895667768789999999999
Q 537021.9.peg.4   32 RSAWVSANAGSGKTHILVQRVLRLLL-ANAH-------PSTLLCLTHTKAAAAEMSHRVL   83 (242)
Q Consensus        32 ~~~lV~A~aGSGKT~tL~~rv~~ll~-~g~~-------P~~IL~lTFT~kAA~El~~RI~   83 (242)
                      ..++|.++.||||||. ..++...+. .-++       |..   ..||.|=..+-+.++.
T Consensus         2 ~rI~i~G~sGsGkSTl-a~~La~~l~~~~~~lD~~~W~p~~---~pf~~kR~~~eR~~ll   57 (185)
T PRK06217          2 MRIHITGASGSGTTTL-GAALAEALDLPHLDTDDFFWLPTD---PPFTTKREPEERLRLL   57 (185)
T ss_pred             CEEEEECCCCCCHHHH-HHHHHHHHCCCEEECCCCEECCCC---CCCCCCCCHHHHHHHH
T ss_conf             6799978998878999-999999759896864555356899---9756437999999999


Done!