Query         gi|254780928|ref|YP_003065341.1| histidyl-tRNA synthetase [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 496
No_of_seqs    207 out of 3013
Neff          8.2 
Searched_HMMs 39220
Date          Mon May 30 04:37:54 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780928.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 COG0124 HisS Histidyl-tRNA syn 100.0       0       0  748.7  35.6  425    6-489     1-428 (429)
  2 PRK12420 histidyl-tRNA synthet 100.0       0       0  732.5  38.6  417    7-462     2-421 (421)
  3 CHL00201 syh histidine-tRNA sy 100.0       0       0  703.0  36.3  418    7-490     2-422 (424)
  4 KOG1936 consensus              100.0       0       0  699.5  34.0  444    4-491    55-517 (518)
  5 PRK00037 hisS histidyl-tRNA sy 100.0       0       0  679.2  35.2  402    6-490     1-417 (417)
  6 PRK12292 hisZ ATP phosphoribos 100.0       0       0  603.0  33.8  376    7-431     1-378 (388)
  7 PRK12421 ATP phosphoribosyltra 100.0       0       0  531.3  33.6  387    1-449     1-390 (391)
  8 TIGR00442 hisS histidyl-tRNA s 100.0       0       0  489.0  27.0  429    7-462     2-441 (446)
  9 PRK12295 hisZ ATP phosphoribos 100.0       0       0  492.8  23.9  321   24-361     5-370 (373)
 10 cd00773 HisRS-like_core Class  100.0       0       0  476.6  19.5  261   22-363     1-261 (261)
 11 PRK12293 hisZ ATP phosphoribos 100.0       0       0  451.6  23.7  279    6-363     2-280 (281)
 12 COG3705 HisZ ATP phosphoribosy 100.0       0       0  400.1  26.5  378    7-436     1-379 (390)
 13 KOG1035 consensus              100.0       0       0  332.8  28.2  421   16-489   925-1350(1351)
 14 PRK12325 prolyl-tRNA synthetas 100.0 4.9E-36 1.3E-40  253.1  28.5  387    7-486    31-437 (438)
 15 TIGR00443 hisS_second histidyl 100.0 2.9E-37 7.4E-42  261.1  20.7  385    7-430     1-395 (414)
 16 PRK00413 thrS threonyl-tRNA sy 100.0 8.2E-34 2.1E-38  238.7  23.8  367   11-492   256-633 (639)
 17 PRK12304 thrS threonyl-tRNA sy 100.0   4E-33   1E-37  234.2  25.2  367   10-492   226-602 (604)
 18 PRK04483 threonyl-tRNA synthet 100.0 1.4E-33 3.6E-38  237.2  21.9  362   11-487   259-630 (634)
 19 PRK12305 thrS threonyl-tRNA sy 100.0 9.3E-33 2.4E-37  231.9  25.9  368   10-489   195-575 (576)
 20 PRK09194 prolyl-tRNA synthetas 100.0 1.6E-32   4E-37  230.4  26.0  458    7-490    31-569 (570)
 21 PRK03772 threonyl-tRNA synthet 100.0 2.8E-32 7.2E-37  228.8  24.3  363   12-490   260-633 (642)
 22 PRK12444 threonyl-tRNA synthet 100.0   2E-32 5.1E-37  229.7  23.3  368   12-492   263-638 (639)
 23 TIGR00418 thrS threonyl-tRNA s 100.0 2.3E-33 5.8E-38  235.8  17.0  370    8-487   197-593 (595)
 24 PRK03991 threonyl-tRNA synthet 100.0 2.9E-27 7.4E-32  196.2  25.7  362    9-489   213-592 (613)
 25 pfam00587 tRNA-synt_2b tRNA sy 100.0 8.9E-30 2.3E-34  212.5  10.3  155   25-183     1-161 (170)
 26 COG0441 ThrS Threonyl-tRNA syn 100.0 6.1E-26 1.5E-30  187.6  21.8  368   10-492   207-583 (589)
 27 TIGR00409 proS_fam_II prolyl-t  99.9 4.3E-25 1.1E-29  182.1  16.6  438    7-461    32-611 (620)
 28 TIGR00389 glyS_dimeric glycyl-  99.9 1.4E-23 3.5E-28  172.4  16.5  414   13-488    27-605 (606)
 29 COG0442 ProS Prolyl-tRNA synth  99.9 3.4E-22 8.7E-27  163.3  14.8  409    6-458    30-489 (500)
 30 PRK08661 prolyl-tRNA synthetas  99.9 3.4E-21 8.6E-26  156.8  19.9  338    9-495    31-392 (478)
 31 PRK04173 glycyl-tRNA synthetas  99.9 1.3E-20 3.3E-25  153.0  22.1  340   12-490    29-458 (460)
 32 COG0423 GRS1 Glycyl-tRNA synth  99.9 1.7E-20 4.3E-25  152.3  19.4  400   12-492    29-554 (558)
 33 KOG2324 consensus               99.9 4.9E-20 1.3E-24  149.2  18.3  375   12-485    41-454 (457)
 34 KOG1637 consensus               99.8   3E-19 7.6E-24  144.2  14.3  370    9-490   178-556 (560)
 35 cd00779 ProRS_core_prok Prolyl  99.8   1E-17 2.6E-22  134.3  12.3  154    7-161    15-175 (255)
 36 PRK12294 hisZ ATP phosphoribos  99.7 2.4E-17 6.2E-22  131.8  10.7  255   28-341    12-266 (272)
 37 TIGR00408 proS_fam_I prolyl-tR  99.7 3.5E-16 8.9E-21  124.3  16.4  345   10-495    26-420 (533)
 38 cd00772 ProRS_core Prolyl-tRNA  99.7 6.8E-17 1.7E-21  128.9  11.5  152    9-161    18-182 (264)
 39 cd00859 HisRS_anticodon HisRS   99.7 9.5E-17 2.4E-21  127.9  11.7   90  376-486     2-91  (91)
 40 cd00771 ThrRS_core Threonyl-tR  99.7 1.4E-16 3.7E-21  126.7  11.3  158   11-172    18-182 (298)
 41 cd00778 ProRS_core_arch_euk Pr  99.7   9E-16 2.3E-20  121.6  11.0  149   10-158    19-178 (261)
 42 cd00768 class_II_aaRS-like_cor  99.6 1.3E-15 3.2E-20  120.6   9.6  132   25-162     1-136 (211)
 43 cd00860 ThrRS_anticodon ThrRS   99.6 2.2E-14 5.6E-19  112.6  11.9   90  376-486     2-91  (91)
 44 pfam03129 HGTP_anticodon Antic  99.6 3.4E-14 8.7E-19  111.3  12.7   92  377-487     1-92  (93)
 45 cd00670 Gly_His_Pro_Ser_Thr_tR  99.6 1.9E-14 4.8E-19  113.0  10.6  146   23-172     2-157 (235)
 46 KOG2298 consensus               99.5 6.8E-12 1.7E-16   96.4  20.2  417   12-493    35-596 (599)
 47 cd00738 HGTP_anticodon HGTP an  99.5 2.4E-13 6.2E-18  105.8  12.1   90  375-465     1-91  (94)
 48 cd00858 GlyRS_anticodon GlyRS   99.4   3E-12 7.6E-17   98.7  11.9  101  370-490    21-121 (121)
 49 KOG4163 consensus               99.2 1.5E-09 3.8E-14   81.2  15.7  342   11-495    86-454 (551)
 50 cd00861 ProRS_anticodon_short   99.2 2.2E-10 5.5E-15   86.6  11.3   87  376-463     2-89  (94)
 51 cd00862 ProRS_anticodon_zinc P  99.1 4.6E-09 1.2E-13   78.0  13.7  109  369-495     4-116 (202)
 52 cd00770 SerRS_core Seryl-tRNA   99.1 6.7E-11 1.7E-15   90.0   3.7  145   13-161    40-196 (297)
 53 cd00774 GlyRS-like_core Glycyl  99.1 4.9E-10 1.2E-14   84.3   8.2  143   12-168    21-175 (254)
 54 cd02426 Pol_gamma_b_Cterm C-te  99.0 8.5E-09 2.2E-13   76.3  10.8   99  374-490    26-127 (128)
 55 COG0173 AspS Aspartyl-tRNA syn  99.0 1.7E-08 4.4E-13   74.3  11.7  102   21-136   139-240 (585)
 56 cd00775 LysRS_core Lys_tRNA sy  99.0 1.6E-08   4E-13   74.5  11.3  101   22-139     7-110 (329)
 57 PRK00484 lysS lysyl-tRNA synth  98.9   1E-07 2.6E-12   69.3  15.0   98   23-139   171-273 (491)
 58 PRK09537 pylS pyrolysyl-tRNA s  98.8 1.3E-08 3.4E-13   75.0   6.6  131   28-167   211-342 (420)
 59 cd00776 AsxRS_core Asx tRNA sy  98.8 3.4E-07 8.6E-12   65.9  13.7   97   21-136    22-121 (322)
 60 TIGR00459 aspS_bact aspartyl-t  98.7 6.1E-08 1.5E-12   70.7   7.4  104   20-137   148-255 (653)
 61 COG0017 AsnS Aspartyl/asparagi  98.6 4.2E-07 1.1E-11   65.3  10.1  115   20-156   131-247 (435)
 62 TIGR02367 PylS pyrrolysyl-tRNA  98.6 5.2E-08 1.3E-12   71.2   5.1  138   27-174   243-381 (453)
 63 COG0172 SerS Seryl-tRNA synthe  98.5 8.2E-07 2.1E-11   63.4   9.4  147   12-162   163-319 (429)
 64 pfam00152 tRNA-synt_2 tRNA syn  98.5 1.8E-06 4.7E-11   61.1   9.9  117   21-156    20-137 (341)
 65 pfam01409 tRNA-synt_2d tRNA sy  98.4 2.3E-06 5.8E-11   60.5   9.6  107   24-136    17-131 (243)
 66 PRK05431 seryl-tRNA synthetase  98.4 2.1E-06 5.3E-11   60.8   9.3  145   13-162   158-315 (422)
 67 cd00496 PheRS_alpha_core Pheny  98.4 2.2E-06 5.7E-11   60.6   9.0  107   27-139     4-114 (218)
 68 PRK09350 lysyl-tRNA synthetase  98.4 2.9E-06 7.5E-11   59.8   9.5  122   16-157     5-137 (325)
 69 PRK04172 pheS phenylalanyl-tRN  98.4 2.6E-06 6.7E-11   60.1   8.8  130   23-160   244-415 (501)
 70 PRK12820 bifunctional aspartyl  98.4 2.7E-06 6.9E-11   60.0   8.7   99   25-137   158-256 (706)
 71 PRK06462 asparagine synthetase  98.3   6E-06 1.5E-10   57.8   9.4  118   20-156    26-147 (332)
 72 PRK12445 lysyl-tRNA synthetase  98.3 7.8E-06   2E-10   57.1   9.2  101   22-139   183-286 (505)
 73 cd00669 Asp_Lys_Asn_RS_core As  98.3   8E-06   2E-10   57.0   9.1  112   24-156     2-116 (269)
 74 COG2269 Truncated, possibly in  98.3 8.8E-05 2.2E-09   50.2  14.2  141   20-186    13-161 (322)
 75 KOG1885 consensus               98.2 0.00012 3.1E-09   49.3  14.5   99   22-134   224-322 (560)
 76 PRK05159 aspC aspartyl-tRNA sy  98.2 8.4E-06 2.1E-10   56.8   8.6  112   23-156   137-251 (434)
 77 COG1190 LysU Lysyl-tRNA synthe  98.2   2E-05 5.1E-10   54.4  10.5  145   24-184   181-335 (502)
 78 PRK02983 lysS lysyl-tRNA synth  98.2 8.9E-06 2.3E-10   56.7   8.0   96   25-138   778-877 (1099)
 79 COG0016 PheS Phenylalanyl-tRNA  98.1 3.4E-05 8.7E-10   52.9  10.0  144    7-158    96-243 (335)
 80 PRK00476 aspS aspartyl-tRNA sy  98.1 1.6E-05   4E-10   55.0   8.1   96   23-136   142-241 (587)
 81 KOG2411 consensus               98.1 4.2E-05 1.1E-09   52.3   9.3  116   23-156   178-294 (628)
 82 cd00777 AspRS_core Asp tRNA sy  98.1 1.9E-05 4.9E-10   54.5   7.5   99   24-139     2-103 (280)
 83 PTZ00326 phenylalanyl-tRNA syn  98.1 2.6E-05 6.6E-10   53.7   8.1  132   24-160   242-421 (505)
 84 PRK06253 O-phosphoseryl-tRNA s  98.0 4.4E-06 1.1E-10   58.7   3.4   82   78-161   179-261 (527)
 85 PRK03932 asnC asparaginyl-tRNA  97.9 6.7E-05 1.7E-09   51.0   7.2  112   24-155   136-266 (462)
 86 KOG2509 consensus               97.9 0.00013 3.2E-09   49.2   8.6  147   12-162   172-332 (455)
 87 KOG0556 consensus               97.8 0.00033 8.5E-09   46.4   9.4  112   24-155   229-342 (533)
 88 PRK00488 pheS phenylalanyl-tRN  97.7 0.00031 7.8E-09   46.7   8.7  110   22-138   105-217 (338)
 89 cd00769 PheRS_beta_core Phenyl  97.4 0.00038 9.6E-09   46.1   6.0   90   26-119     2-92  (198)
 90 TIGR00414 serS seryl-tRNA synt  96.8  0.0087 2.2E-07   37.3   8.0  151   13-163   190-357 (460)
 91 KOG0554 consensus               96.5  0.0047 1.2E-07   39.0   4.7  114   17-142   126-243 (446)
 92 PRK00629 pheT phenylalanyl-tRN  96.3  0.0085 2.2E-07   37.3   5.2   34  151-184   421-466 (786)
 93 TIGR00458 aspS_arch aspartyl-t  96.3   0.019 4.7E-07   35.1   6.8  102   22-140   154-257 (466)
 94 KOG2784 consensus               96.3   0.015 3.8E-07   35.8   6.1   13  300-312   396-408 (483)
 95 COG0442 ProS Prolyl-tRNA synth  96.2   0.034 8.5E-07   33.5   7.5   90  389-494   304-394 (500)
 96 CHL00192 syfB phenylalanyl-tRN  96.1   0.028 7.2E-07   33.9   6.8   35  151-185   330-378 (702)
 97 TIGR00457 asnS asparaginyl-tRN  95.7   0.029 7.5E-07   33.8   5.7  124   18-157   141-287 (495)
 98 TIGR00462 genX lysyl-tRNA synt  95.6   0.078   2E-06   31.1   7.6  102   21-136    19-130 (330)
 99 COG3705 HisZ ATP phosphoribosy  95.2  0.0026 6.7E-08   40.6  -1.1   72  276-360   311-383 (390)
100 TIGR00470 sepS O-phosphoseryl-  95.2   0.038 9.7E-07   33.1   4.7   80   80-161   192-272 (558)
101 TIGR00468 pheS phenylalanyl-tR  95.1   0.084 2.1E-06   30.9   6.2  142   18-161    75-259 (362)
102 COG0072 PheT Phenylalanyl-tRNA  93.5    0.35   9E-06   26.8   6.7   35  151-185   287-333 (650)
103 COG2024 Phenylalanyl-tRNA synt  91.7   0.055 1.4E-06   32.1   0.6   81  278-363   255-340 (536)
104 TIGR00472 pheT_bact phenylalan  91.4    0.17 4.4E-06   28.8   2.8   89   29-117   523-612 (848)
105 TIGR00499 lysS_bact lysyl-tRNA  89.6     1.5 3.9E-05   22.7   7.8   98   21-132   188-285 (538)
106 cd00777 AspRS_core Asp tRNA sy  84.9    0.27 6.9E-06   27.6   0.3   33  334-366   235-267 (280)
107 cd00669 Asp_Lys_Asn_RS_core As  84.7    0.35   9E-06   26.8   0.8   33  334-366   224-256 (269)
108 TIGR01608 citD citrate lyase a  83.7     2.6 6.6E-05   21.2   4.9   48  146-204    44-91  (95)
109 pfam00152 tRNA-synt_2 tRNA syn  82.4    0.46 1.2E-05   26.1   0.6   21  345-365   307-327 (341)
110 PRK00960 seryl-tRNA synthetase  79.9     4.3 0.00011   19.8   6.7   29  463-491   477-505 (516)
111 TIGR02087 LEUD_arch 3-isopropy  76.3     5.5 0.00014   19.1   5.7  112  361-492    34-150 (159)
112 TIGR01854 lipid_A_lpxH UDP-2,3  76.1     5.3 0.00013   19.2   4.4   79   83-183    12-92  (241)
113 TIGR02700 flavo_MJ0208 archaeo  71.6       6 0.00015   18.8   3.8   45  331-388    83-135 (237)
114 TIGR01511 ATPase-IB1_Cu copper  71.0     7.3 0.00019   18.3   5.5   63  378-442   361-423 (545)
115 TIGR02071 PBP_1b penicillin-bi  70.7     3.6 9.1E-05   20.3   2.5   68  334-408   506-576 (742)
116 cd00733 GlyRS_alpha_core Class  69.3     4.5 0.00011   19.7   2.7   55  102-164    43-104 (279)
117 KOG0555 consensus               69.2       8  0.0002   18.0   4.1   99   21-136   241-340 (545)
118 TIGR00559 pdxJ pyridoxal phosp  67.1     8.8 0.00022   17.8   8.0   39  393-434   115-153 (265)
119 TIGR00471 pheT_arch phenylalan  66.6     7.2 0.00018   18.3   3.3   13   73-85    219-231 (605)
120 pfam02091 tRNA-synt_2e Glycyl-  66.3     5.6 0.00014   19.0   2.7   55  102-164    42-103 (284)
121 TIGR01292 TRX_reduct thioredox  63.3      10 0.00026   17.3   8.2   79  380-463   154-244 (321)
122 PRK10333 putative ligase; Prov  62.5       3 7.7E-05   20.8   0.8   27  330-356   146-172 (198)
123 TIGR02727 MTHFS_bact 5,10-meth  61.9     3.3 8.3E-05   20.5   0.9   27  330-356   136-162 (183)
124 PRK10846 bifunctional folylpol  61.7      11 0.00028   17.1   6.2   35  393-427   310-348 (416)
125 cd00003 PNPsynthase Pyridoxine  59.2      12 0.00031   16.8   6.0   17  268-284   167-183 (234)
126 TIGR02461 osmo_MPG_phos mannos  58.4      13 0.00032   16.7   5.0   32   73-106     3-35  (248)
127 PRK05265 pyridoxine 5'-phospha  58.2      13 0.00032   16.7   5.9   16  269-284   171-186 (240)
128 PRK13057 putative lipid kinase  55.6      14 0.00036   16.4   6.4   49   31-92     16-66  (287)
129 PRK06731 flhF flagellar biosyn  54.8      14 0.00037   16.4   9.1   43  392-434   200-244 (270)
130 PRK09348 glyQ glycyl-tRNA synt  54.3      11 0.00029   17.0   2.6   55  102-164    45-106 (291)
131 pfam01411 tRNA-synt_2c tRNA sy  52.5      16  0.0004   16.1   5.6  112   28-169     1-121 (545)
132 TIGR00455 apsK adenylylsulfate  52.5      16  0.0004   16.1   4.8   11  151-161    39-49  (187)
133 pfam03740 PdxJ Pyridoxal phosp  51.8      16 0.00041   16.0   5.6   16  269-284   171-186 (239)
134 COG4927 Predicted choloylglyci  51.6     9.6 0.00025   17.5   1.9   25  331-355   147-178 (336)
135 TIGR01318 gltD_gamma_fam gluta  51.2      16 0.00042   16.0   5.0   98  332-433   237-349 (480)
136 TIGR01162 purE phosphoribosyla  50.6      17 0.00043   15.9   6.9   26  142-170     8-33  (159)
137 cd02067 B12-binding B12 bindin  50.4      17 0.00043   15.9   8.4   13   34-46     20-32  (119)
138 TIGR01719 euk_UDPppase uridine  49.6      17 0.00044   15.8   6.0   76  394-490   224-300 (301)
139 cd02685 MIT_C MIT_C; domain fo  48.6      18 0.00045   15.8   2.8   24  269-293    70-93  (148)
140 TIGR01825 gly_Cac_T_rel pyrido  48.2     3.6 9.1E-05   20.3  -0.8  100  350-454   246-369 (392)
141 PRK07564 phosphoglucomutase; V  46.8     6.3 0.00016   18.7   0.3   11  174-184   242-252 (544)
142 PRK13054 lipid kinase; Reviewe  46.5      19 0.00049   15.5   7.8   15   78-92     58-72  (299)
143 TIGR02838 spore_V_AC stage V s  46.0     5.6 0.00014   19.0  -0.1   37  326-364    64-102 (141)
144 PRK02645 ppnK inorganic polyph  45.6      20 0.00051   15.4   5.7   17   30-46     21-37  (304)
145 COG0013 AlaS Alanyl-tRNA synth  45.2      20 0.00052   15.4   4.9   29   26-54      8-37  (879)
146 pfam01812 5-FTHF_cyc-lig 5-for  43.1     8.1 0.00021   18.0   0.4   26  330-355   136-161 (182)
147 cd02070 corrinoid_protein_B12-  42.9      22 0.00056   15.2   9.8   40  389-431   146-187 (201)
148 PRK04164 hypothetical protein;  42.8      22 0.00056   15.2   6.6   65  374-443    89-168 (183)
149 PRK12809 putative oxidoreducta  41.7      23 0.00058   15.1   5.6   63  380-446   454-524 (639)
150 PRK13337 putative lipid kinase  40.6      24 0.00061   14.9   7.1   72    1-92      1-74  (305)
151 PRK12775 putative trifunctiona  39.3      25 0.00063   14.8   5.0   71  380-454   576-657 (993)
152 PRK04452 acetyl-CoA decarbonyl  38.9      22 0.00057   15.1   2.1   33  269-301   186-221 (322)
153 pfam03664 Glyco_hydro_62 Glyco  38.9      18 0.00045   15.8   1.6   33  304-336   183-215 (271)
154 PRK00439 leuD 3-isopropylmalat  38.7      25 0.00065   14.8   7.0   46  394-443    65-111 (163)
155 COG4038 Predicted membrane pro  38.3      10 0.00026   17.3   0.3   29  324-353    19-47  (87)
156 PRK02261 methylaspartate mutas  35.5      28 0.00073   14.4   8.6   11  397-407   105-115 (137)
157 TIGR02861 SASP_H small acid-so  35.4      29 0.00073   14.4   4.5   53  397-465     6-59  (59)
158 TIGR00216 ispH_lytB 4-hydroxy-  34.9      29 0.00074   14.4   2.4   13  147-159    17-31  (354)
159 TIGR00326 eubact_ribD riboflav  33.9      22 0.00056   15.2   1.4   31  393-424   305-335 (393)
160 PRK03372 ppnK inorganic polyph  33.9      30 0.00077   14.3   6.0   27  147-176    82-108 (303)
161 cd02071 MM_CoA_mut_B12_BD meth  33.1      31 0.00079   14.2   8.3   25  397-423    95-119 (122)
162 pfam06506 PrpR_N Propionate ca  33.0      31  0.0008   14.2   5.9   42  391-438   110-151 (169)
163 pfam05211 NLBH Neuraminyllacto  33.0      31  0.0008   14.2   5.5   64   15-88     45-110 (228)
164 cd03085 PGM1 Phosphoglucomutas  32.6      21 0.00053   15.3   1.1   12   32-43     68-79  (548)
165 cd01645 RT_Rtv RT_Rtv: Reverse  32.4      32 0.00081   14.1   3.5   77  328-407   118-195 (213)
166 PRK12769 putative oxidoreducta  31.9      33 0.00083   14.1   5.7   62  380-445   471-540 (654)
167 TIGR00888 guaA_Nterm GMP synth  31.6      16 0.00042   16.0   0.5   14  345-358    70-83  (195)
168 COG0752 GlyQ Glycyl-tRNA synth  31.5      33 0.00084   14.0   2.4   54  102-163    48-108 (298)
169 TIGR02016 BchX chlorophyllide   31.3      33 0.00085   14.0   5.1   91  379-488   153-251 (355)
170 PRK04165 acetyl-CoA decarbonyl  31.2      33 0.00085   14.0   3.7   96   77-183    76-176 (454)
171 pfam02780 Transketolase_C Tran  30.3      35 0.00088   13.9   6.2   56  375-435     9-67  (124)
172 pfam04953 consensus             29.9      35 0.00089   13.8   3.8   52  146-209    44-95  (97)
173 pfam01071 GARS_A Phosphoribosy  29.7      35  0.0009   13.8   5.8   35  150-185     5-39  (193)
174 PRK11914 diacylglycerol kinase  29.6      35  0.0009   13.8   7.9   52   28-91     24-77  (304)
175 COG5410 Uncharacterized protei  29.4      25 0.00063   14.8   1.1   22  327-354   140-161 (305)
176 cd02072 Glm_B12_BD B12 binding  29.0      36 0.00093   13.7   8.3   25  396-422   100-124 (128)
177 cd04174 Rnd1_Rho6 Rnd1/Rho6 su  28.5      37 0.00095   13.7   3.0   93  326-432    66-165 (232)
178 PRK13371 4-hydroxy-3-methylbut  27.7      38 0.00098   13.6   6.6   90  395-490   286-384 (392)
179 TIGR01967 DEAH_box_HrpA ATP-de  27.7      38 0.00098   13.6   2.3  126   13-159   296-450 (1320)
180 PRK10786 ribD bifunctional dia  27.4      39 0.00099   13.6   3.3   43   86-136    79-123 (367)
181 pfam04800 ETC_C1_NDUFA4 ETC co  27.2      39   0.001   13.5   3.0   20  416-435    57-76  (101)
182 TIGR01573 cas2 CRISPR-associat  26.9      33 0.00085   14.0   1.4   32   20-51     10-41  (103)
183 cd07995 TPK Thiamine pyrophosp  26.6      40   0.001   13.5   7.3   11  331-341   101-111 (208)
184 PRK07535 methyltetrahydrofolat  25.8      41  0.0011   13.4   4.1   54  128-183    34-90  (268)
185 COG4635 HemG Flavodoxin [Energ  25.6      42  0.0011   13.3   4.5   16   85-100    11-26  (175)
186 COG0761 lytB 4-Hydroxy-3-methy  25.3      42  0.0011   13.3  11.7   16  146-161    18-33  (294)
187 cd04601 CBS_pair_IMPDH This cd  25.3      42  0.0011   13.3   3.5   34  417-450    74-107 (110)
188 PRK13590 putative bifunctional  24.1      41  0.0011   13.4   1.4   10  424-433   519-528 (590)
189 KOG3846 consensus               24.1      41  0.0011   13.4   1.4   33  272-309   201-233 (465)
190 PRK12778 putative bifunctional  23.6      45  0.0012   13.1   5.5   57  380-440   581-642 (760)
191 pfam00604 Flu_PB2 Influenza RN  23.5      46  0.0012   13.1   3.6   11  107-117   113-125 (759)
192 PRK13799 unknown domain/N-carb  23.2      44  0.0011   13.2   1.4   18  417-434   514-532 (591)
193 TIGR01494 ATPase_P-type ATPase  23.2      46  0.0012   13.1   4.3   50  378-429   316-365 (478)
194 PRK12446 N-acetylglucosaminyl   23.1      46  0.0012   13.1   6.2   40  397-438   265-308 (352)
195 TIGR00303 TIGR00303 conserved   22.9      35  0.0009   13.8   0.9   36  150-186   160-203 (350)
196 PRK04213 GTP-binding protein;   22.7      20 0.00052   15.4  -0.4   19  477-495   171-189 (195)
197 PRK01584 alanyl-tRNA synthetas  22.7      47  0.0012   13.0   8.0  130   27-187     4-150 (593)
198 PRK13059 putative lipid kinase  22.6      47  0.0012   13.0   7.0   72    1-92      1-72  (294)
199 cd01579 AcnA_Bact_Swivel Bacte  22.6      48  0.0012   13.0   5.3   55  394-459    65-120 (121)
200 TIGR01268 Phe4hydrox_tetr phen  22.3      48  0.0012   12.9   3.1   36   16-51    170-207 (445)
201 TIGR02374 nitri_red_nirB nitri  21.5      50  0.0013   12.8   7.6   15  173-187   388-402 (813)
202 KOG0835 consensus               21.2      51  0.0013   12.8   5.8   95   84-188    62-158 (367)
203 KOG2585 consensus               20.4      53  0.0013   12.7   6.1   56  378-435   269-328 (453)
204 KOG2395 consensus               20.3      53  0.0013   12.7   1.7   54  288-353   406-474 (644)
205 COG2139 RPL21A Ribosomal prote  20.2      53  0.0014   12.7   3.1   21  287-307    39-64  (98)
206 COG0212 5-formyltetrahydrofola  20.1      33 0.00085   14.0   0.3   27  330-356   138-164 (191)

No 1  
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00  E-value=0  Score=748.66  Aligned_cols=425  Identities=36%  Similarity=0.599  Sum_probs=363.4

Q ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCC-CCCCCCCEEEEECCCCCEEEEC
Q ss_conf             871037998765886689999999999999999859848016520228875202675-5433322168986999889998
Q gi|254780928|r    6 KLRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPD-EDRPNKGVFSLQDDDGQWISLR   84 (496)
Q Consensus         6 ~~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~-~~~~~k~~y~f~D~~g~~l~LR   84 (496)
                      .|+++.||||+||+|.++..|++|+++++++|++|||.+|+||+||++++|.++.|+ +|.+.|+||+|.|++|+.++||
T Consensus         1 ~~~~~~prG~~D~lp~d~~~~~~i~~~~~~v~~~yGf~eI~TPifE~telf~r~~Ge~td~v~kemY~F~Dkggr~laLR   80 (429)
T COG0124           1 MMKIQRPRGTRDFLPEDMALREYIESTIRKVFESYGFSEIRTPIFEYTELFARKSGEETDVVEKEMYTFKDKGGRSLALR   80 (429)
T ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEECCCCCCCCHHHHHHCCCCCCCCCCCCEEEEEECCCCEEEEC
T ss_conf             98766899866558677899999999999999980997655755111667620169743333210289994899889844


Q ss_pred             CCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             88838999999951120554112331013330258764442111110001210000245788999999999751888777
Q gi|254780928|r   85 YDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRND  164 (496)
Q Consensus        85 pDlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~  164 (496)
                      ||+|+|+||++++|....+.|+||||+|+|||||+||+||||||||||+|+||++++.+|||+|.++.++|+.||+.  +
T Consensus        81 pe~Tapv~R~~~en~~~~~~p~k~yy~g~vfRyErPQ~GR~RqF~Q~g~E~iG~~~~~~DAEvi~l~~~~l~~lGi~--~  158 (429)
T COG0124          81 PELTAPVARAVAENKLDLPKPLKLYYFGPVFRYERPQKGRYRQFYQFGVEVIGSDSPDADAEVIALAVEILEALGIG--G  158 (429)
T ss_pred             CCCCHHHHHHHHHCCCCCCCCEEEEEECCEECCCCCCCCCCEEEEECCEEEECCCCCCCCHHHHHHHHHHHHHCCCC--C
T ss_conf             66749999999956220368725998335623788888875036876767767998653899999999999974998--6


Q ss_pred             CEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             11303660558999998325603564334555333220012896789986210165003555304899977899888740
Q gi|254780928|r  165 YHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFL  244 (496)
Q Consensus       165 ~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (496)
                      |+|+|||+++++++++.+|+      ..+..+++.+||++|+    +..+|.+......            ..+.+..+.
T Consensus       159 ~~l~iN~~g~l~~~~~~~gi------~~~~~l~~~ldk~~k~----~~~~L~e~~~~r~------------~~n~lr~ld  216 (429)
T COG0124         159 FTLEINSRGILEGRLEYLGI------DQREALLRYLDKLDKI----GKLELDEDSKRRL------------KTNPLRVLD  216 (429)
T ss_pred             EEEEECCCCCHHHHHHHHCC------HHHHHHHHHHHHHHHH----HHHHHHHHHHHHH------------HHCHHHHHH
T ss_conf             79998176447888775061------1689999997465467----8987606655343------------114489998


Q ss_pred             CCC--CHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCC
Q ss_conf             478--568899899860357325888999999999987508884430011010012212341248998546667767666
Q gi|254780928|r  245 SID--LEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKP  322 (496)
Q Consensus       245 ~~~--~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~  322 (496)
                      +..  ....+..+.+++.....  ++++++..+.++|+.+|+   .+.+||++|||||||||+|||++...        .
T Consensus       217 ~k~~~~~~~~~~ap~i~~~~~~--e~~~~~~~v~~~L~~~g~---~~~id~~lvRGLDYYtg~VFE~~~~~--------~  283 (429)
T COG0124         217 SKKDSDQELLKNAPELLDYLDE--ESLEHLEELLALLDALGI---SYEIDPSLVRGLDYYTGTVFEAVTDG--------L  283 (429)
T ss_pred             HCCCHHHHHHHCCHHHHHHCCH--HHHHHHHHHHHHHHHCCC---CEEECCCEECCHHHCCCEEEEEEECC--------C
T ss_conf             6163289998520776401128--899999999999998399---77986630036132066689999768--------8


Q ss_pred             CCEEEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Q ss_conf             31011003232355211123456774213311016899999736877665557714899826976899999999999998
Q gi|254780928|r  323 VVFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRT  402 (496)
Q Consensus       323 ~~~~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~  402 (496)
                      +.++|||||||||+|++.|||+++||||||+|+|||+.+|+.... ........+|+|++++.+.  ..+++.+++.||+
T Consensus       284 ~~~~sI~gGGRYD~Lv~~~gG~~~pavGFaiGveRl~~~l~~~~~-~~~~~~~~~v~v~~~~~~~--~~~a~~la~~LR~  360 (429)
T COG0124         284 GAQGSVCGGGRYDGLVEEFGGKPTPAVGFAIGVERLILALEEEGK-EDPVETRVDVYVVPLGEDA--EPEALKLAQKLRA  360 (429)
T ss_pred             CCCCCEECCCCCHHHHHHHCCCCCCCEEEEHHHHHHHHHHHHCCC-CCCCCCCCCEEEEECCCHH--HHHHHHHHHHHHH
T ss_conf             644315527661589998489988713675179999999997188-7776777888999848615--9999999999997


Q ss_pred             CCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHHH
Q ss_conf             79839997189999889999998779989999887287488189978788836433112014432023351030799999
Q gi|254780928|r  403 AGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISELV  482 (496)
Q Consensus       403 ~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~  482 (496)
                      +|++|++++. .+++++|++||++.|++|+||+|++|+++|+|+||||.||+|                  .++|+++++
T Consensus       361 ~g~~~~~~~~-~r~~k~q~k~A~~~g~~~~viiGe~E~~~g~v~vKdl~t~eq------------------~~v~~~~~~  421 (429)
T COG0124         361 AGISVEVDYS-GRKLKKQFKYADKLGARFAVILGEDELANGVVTVKDLATGEQ------------------EEVPLDELV  421 (429)
T ss_pred             CCCCEEEEEC-CCCHHHHHHHHHHCCCCEEEEECCHHHHCCCEEEEECCCCCC------------------CEECHHHHH
T ss_conf             5994899855-656899999998779988999852588659789734777863------------------334499999


Q ss_pred             HHHHHHH
Q ss_conf             9999999
Q gi|254780928|r  483 STVKKIL  489 (496)
Q Consensus       483 ~~~~~~l  489 (496)
                      +.++..+
T Consensus       422 ~~~~~~~  428 (429)
T COG0124         422 EELKELL  428 (429)
T ss_pred             HHHHHHC
T ss_conf             9987423


No 2  
>PRK12420 histidyl-tRNA synthetase; Provisional
Probab=100.00  E-value=0  Score=732.51  Aligned_cols=417  Identities=31%  Similarity=0.528  Sum_probs=356.8

Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCC
Q ss_conf             71037998765886689999999999999999859848016520228875202675543332216898699988999888
Q gi|254780928|r    7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYD   86 (496)
Q Consensus         7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpD   86 (496)
                      |++|.||||||++|+++..+++|+++++++|++|||++|+||+||++|+|.++.|+++...|+||+|.|++|+.|+||||
T Consensus         2 m~~q~~rG~rD~lp~e~~~~~~i~~~~~~~~~~~Gy~~I~tP~~E~~elf~~~~g~~~~i~kemy~f~D~~gr~l~LRPe   81 (421)
T PRK12420          2 MEMKNVKGTKDYLPEEQVLRNKIKRACEDTFERYGCKPLETPTLNMYELMSYKYGGGDEILKEIYTLQDQGKRDLALRYD   81 (421)
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCHHHHHCCCCCCCCHHHHHEEEEECCCCCEEEECCC
T ss_conf             98889998887899999999999999999999859947247650118764244788442241107888189987985677


Q ss_pred             CHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCE
Q ss_conf             83899999995112055411233101333025876444211111000121000024578899999999975188877711
Q gi|254780928|r   87 LTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDYH  166 (496)
Q Consensus        87 lT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~~~  166 (496)
                      +|+|+||++++| ...++|+||||+|+|||||+||+||+|||||+|+|+||.+++.+|||+|.+++++|+++|+   +++
T Consensus        82 ~Ta~iaR~~a~~-~~~~~P~k~~y~g~vfR~erpq~GR~ReF~Q~GvEiiG~~~~~aDaEiI~la~~~l~~lgl---~~~  157 (421)
T PRK12420         82 LTIPFAKVVAMN-PNIRLPFKRYEIGKVFRDGPIKQGRFREFIQCDVDIVGVESVMAEAELMSMAFELFRTLNL---EVT  157 (421)
T ss_pred             CCHHHHHHHHHC-CCCCCCEEEEEECCEEECCCCCCCCCCEEEECCEEEECCCCHHHHHHHHHHHHHHHHHCCC---CEE
T ss_conf             658999999977-5777874588876778538987885551343575420788778899999999999996598---659


Q ss_pred             EECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHHCC
Q ss_conf             30366055899999832560356433455533322001289678998621016500355530489997789988874047
Q gi|254780928|r  167 IGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFLSI  246 (496)
Q Consensus       167 I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  246 (496)
                      |+|||++++.++++.++++.+.    ...+++.+|++++.+++.+...+.+.            ++..+..+.+..++..
T Consensus       158 i~i~~~~l~~~ll~~~~~~~e~----~~~~~~~ldk~~k~~~~~~~~~l~~~------------~~~~~~~~~~~~~~~~  221 (421)
T PRK12420        158 IQYNNRKLLNGILQAINIPTEL----TSDVILSLDKIEKIGIDGVRKDVLER------------GISEEMADTICNTVLS  221 (421)
T ss_pred             EEECCHHHHHHHHHHCCCCHHH----HHHHHHHHHHHHHHCHHHHHHHHHHC------------CCCHHHHHHHHHHHHC
T ss_conf             9955299999888870999999----99999998876531678899998866------------8888999879998735


Q ss_pred             CCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCCEE
Q ss_conf             85688998998603573258889999999999875088844300110100122123412489985466677676663101
Q gi|254780928|r  247 DLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVVFG  326 (496)
Q Consensus       247 ~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~~~  326 (496)
                      .....+....+... .....+++++|+.+.+.|+.+|++ .++.|||++|||||||||+|||++...        .+..+
T Consensus       222 ~~~~~~~~~~~~~~-~~~~~e~~~~l~~l~~~L~~~gi~-~~i~~D~~lVRGLdYYTg~VFE~~~~~--------~~~~~  291 (421)
T PRK12420        222 CLQLSIADFKEAFN-NPLVADGVNELQQLQQYLIALGIN-ENTIFNPFLARGLTMYTGTVYEIFLKD--------GSITS  291 (421)
T ss_pred             CCCHHHHHHHHHHC-CHHHHHHHHHHHHHHHHHHHCCCC-CEEEECHHHHCCCCCEEEEEEEEEECC--------CCCCC
T ss_conf             68013899863205-855599999999999999976999-518776767416664200589999558--------76443


Q ss_pred             EECCCCCCCCCCCCCCCCC--CCCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHC-
Q ss_conf             1003232355211123456--7742133110168999997368776655577148998269768999999999999987-
Q gi|254780928|r  327 SVGGGGRYDGLVSRFKGQN--VPATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTA-  403 (496)
Q Consensus       327 aI~~GGRYD~L~~~f~~~~--~pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~-  403 (496)
                      +||||||||+|++.|||++  +||||||+|+|||+.+|......    ....+++|+.++.+    .+++.+++.||++ 
T Consensus       292 ~i~gGGRYD~Li~~fgg~~~~~PavGfa~Gierl~~~L~~~~~~----~~~~~v~v~~~~~~----~~a~~ia~~LR~~~  363 (421)
T PRK12420        292 SIGSGGRYDNIIGAFRGDNMNYPTVGISFGLDVIYTALSQKETI----SSTADVFIIPLGTE----LQCLQIAQQLRSTT  363 (421)
T ss_pred             CCCCCCCHHHHHHHHCCCCCCCCEEEEEEHHHHHHHHHHCCCCC----CCCCCEEEEECCCH----HHHHHHHHHHHHCC
T ss_conf             44356650548988189989997479985199999998550457----98898899978778----99999999998459


Q ss_pred             CCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCC
Q ss_conf             98399971899998899999987799899998872874881899787888364331120
Q gi|254780928|r  404 GIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKN  462 (496)
Q Consensus       404 Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~  462 (496)
                      ||+|++++. ++++++||+||++.|++|++|+|++|+++|+|+||||.||+|.++++++
T Consensus       364 gi~~~~~~~-~~~lkkqlk~A~k~~~~~~iiiG~~E~~~~~v~lK~l~tg~q~~v~l~s  421 (421)
T PRK12420        364 SLKVELELA-GRKLKRALNYANKENIPYVLIIGEEELSTETVMLRNMKEGSEVKVPLSS  421 (421)
T ss_pred             CCEEEEECC-CCCHHHHHHHHHHCCCCEEEEECCHHHHCCEEEEEECCCCCEEEEECCC
T ss_conf             966999659-9999999999988799999998763887897899988999737982889


No 3  
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=100.00  E-value=0  Score=703.02  Aligned_cols=418  Identities=25%  Similarity=0.355  Sum_probs=329.3

Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCC-CCCCCCCEEEEECCCCCEEEECC
Q ss_conf             71037998765886689999999999999999859848016520228875202675-54333221689869998899988
Q gi|254780928|r    7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPD-EDRPNKGVFSLQDDDGQWISLRY   85 (496)
Q Consensus         7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~-~~~~~k~~y~f~D~~g~~l~LRp   85 (496)
                      .++|+|+|||||+|+++.++++|+++++++|++|||++|+||+||++|+|.+++|+ ++.+.++||+|.|++|+.++|||
T Consensus         2 ~~~~~~kG~rD~lp~e~~~~~~i~~~i~~~f~~~Gf~~I~TP~lE~~e~~~~~~g~~~d~i~k~~y~f~D~~g~~l~LRp   81 (424)
T CHL00201          2 AKLQPLRGTKDILPDEIEYWQFIHEKAATLLKLANYQEIRTPIFENTELFDRGIGEETDIVNKEMYRFFDRGNRSITLRP   81 (424)
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHCCCCCCCCHHHHHHHEEEECCCCCEEEECC
T ss_conf             89889999987899999999999999999999859925047540419886235787420566653254559998888678


Q ss_pred             CCHHHHHHHHHHHHH-HCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             883899999995112-0554112331013330258764442111110001210000245788999999999751888777
Q gi|254780928|r   86 DLTAPLARYVAENFD-TIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRND  164 (496)
Q Consensus        86 DlT~~~aR~~~~~~~-~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~  164 (496)
                      |+|+|+||++++|.. ..+.|+|+||+|+|||+|+||+||+|||||||+|+||.+++.+|||+|.+++++|+++|++  +
T Consensus        82 D~T~piaR~~~~~~~~~~~~P~r~~y~g~vfR~e~pq~GR~REF~Q~gvEiiG~~~~~aDaEvi~l~~~~l~~lgl~--~  159 (424)
T CHL00201         82 EGTASIVRAFIENRMAYHMRPQRLWYSGPMFRYERPQSGRQRQFHQLGIEFIGSSDPRADMEVIHLAMTLFNELPVH--R  159 (424)
T ss_pred             CCHHHHHHHHHHCCCCCCCCCEEEEEECCEEECCCCCCCCCCHHHHCCEEEECCCCHHHHHHHHHHHHHHHHHCCCC--C
T ss_conf             77099999999747655799878998754780589878864210414620006898287899999999999865965--2


Q ss_pred             CEEECCCCHHHHHHH-HHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             113036605589999-9832560356433455533322001289678998621016500355530489997789988874
Q gi|254780928|r  165 YHIGINNRKILDGIL-EKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSF  243 (496)
Q Consensus       165 ~~I~in~~~il~~il-~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (496)
                      +++.|||.+.+..-. ....+      ...  .....+++++...+.+                     ..+....+...
T Consensus       160 ~~i~in~~g~~~~~~~~~~~l------~~~--l~~~~~~l~~~~~~~l---------------------~~~~~~~l~~~  210 (424)
T CHL00201        160 LVLDINSIGKMEDRALYRDKL------TEY--LSQYNQDLDEDSQNRL---------------------SSNPLRILDSK  210 (424)
T ss_pred             EEHHCCCCCCHHHHHHHHHHH------HHH--HHHHHHHHCHHHHHHH---------------------HHHHHHHHHHH
T ss_conf             010003325599888899999------999--9998754377877532---------------------11489998730


Q ss_pred             HCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCC
Q ss_conf             04785688998998603573258889999999999875088844300110100122123412489985466677676663
Q gi|254780928|r  244 LSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPV  323 (496)
Q Consensus       244 ~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~  323 (496)
                       . .....+.+....+.. ....++.+++..+.+.+...|+.   +.||+++|||||||||+|||++..        ..+
T Consensus       211 -~-~~~~~~l~~~~~l~~-~~~~~~~~~l~~l~~~l~~~~v~---~~~D~slvRGLdYYTG~VFE~~~~--------~~~  276 (424)
T CHL00201        211 -N-GATQEILDMAPLLSD-FLSLESEEHFADVCEYLANLNIP---YKINPKLVRGLDYYNDTAFEIKTL--------GSD  276 (424)
T ss_pred             -C-CHHHHHHHHCHHHHH-HHCHHHHHHHHHHHHHHHHCCCC---CCCCHHHHCCCCCCCCCEEEEEEC--------CCC
T ss_conf             -6-047999864432010-20488899999999999843876---452877715767645736999967--------888


Q ss_pred             CEEEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHC
Q ss_conf             10110032323552111234567742133110168999997368776655577148998269768999999999999987
Q gi|254780928|r  324 VFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTA  403 (496)
Q Consensus       324 ~~~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~  403 (496)
                      ..++||||||||+|++.|||+++||||||||+|||+.+|++....+   ....+++|+.+  +......++.+|+.||++
T Consensus       277 ~~~si~gGGRYD~Lv~~fgg~~~PavGfaiGieRl~~~l~~~~~~~---~~~~~~~v~~~--~~~~~~~~~~ia~~LR~~  351 (424)
T CHL00201        277 AQDTVCGGGRYDSLVEQLGGPKTPAVGWAIGIERLLLIAKDNILLP---KPSIDFYIATK--GNVAIKIAFSIQRFLHNQ  351 (424)
T ss_pred             CCCCCCCCCCCHHHHHHCCCCCCCEEEEEECHHHHHHHHHHCCCCC---CCCCCEEEEEC--CHHHHHHHHHHHHHHHHC
T ss_conf             6234237877077899729999985778843999999997337777---77885899977--849999999999999988


Q ss_pred             CCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHHHH
Q ss_conf             98399971899998899999987799899998872874881899787888364331120144320233510307999999
Q gi|254780928|r  404 GIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISELVS  483 (496)
Q Consensus       404 Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~  483 (496)
                      ||+||+++. .+++++|++||++.|+||+||+|++|+++|+|+||||.||+|.++.+               +++.++++
T Consensus       352 gi~~e~~~~-~~~l~kql~~A~k~~~~~~iiiG~~E~~~~~v~lK~l~sg~Q~~~~~---------------~~l~~~i~  415 (424)
T CHL00201        352 GLKSELDLS-SSNFSKQIKQAAKKRALACIILGDNEIARGAITIKWLDSQIQENSQY---------------LNFKDFIS  415 (424)
T ss_pred             CCEEEEEEC-CCCHHHHHHHHHHCCCCEEEEECCHHHHCCEEEEEECCCCCCCCEEC---------------CCHHHHHH
T ss_conf             993999708-99999999999987999999985158868968998689988752302---------------47999999


Q ss_pred             HHHHHHH
Q ss_conf             9999998
Q gi|254780928|r  484 TVKKILQ  490 (496)
Q Consensus       484 ~~~~~l~  490 (496)
                      ++||.+.
T Consensus       416 ~lkk~~~  422 (424)
T CHL00201        416 YLKKKIL  422 (424)
T ss_pred             HHHHHHH
T ss_conf             9999872


No 4  
>KOG1936 consensus
Probab=100.00  E-value=0  Score=699.45  Aligned_cols=444  Identities=30%  Similarity=0.528  Sum_probs=388.8

Q ss_pred             CCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEE
Q ss_conf             65871037998765886689999999999999999859848016520228875202675543332216898699988999
Q gi|254780928|r    4 KTKLRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISL   83 (496)
Q Consensus         4 ~~~~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~L   83 (496)
                      +.+..+.+|+|||||.|+++.+|++|.+++.++|++||++.|+||+||.-++|..+.|+.   +|.+|.|.|++|+.++|
T Consensus        55 ~~k~~lKtPKGTrD~~p~qm~lRe~if~~i~~vFkrhGa~~iDTPVFElkeiL~gKYGEd---skLiYdlkDQGGEl~SL  131 (518)
T KOG1936          55 KKKFSLKTPKGTRDFSPEQMALREKIFSTIKEVFKRHGAETIDTPVFELKEILTGKYGED---SKLIYDLKDQGGELCSL  131 (518)
T ss_pred             CCCEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEECCCCCHHHHHHHHHHCCCC---CCEEEEHHHCCCCEEEE
T ss_conf             762320699987768888889999999999999997197444660045999986640553---23067523248858874


Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCC--CCCCCCCCCCCCHHHHH-CCCHHHHHHHHHHHHHHHHHCCC
Q ss_conf             8888389999999511205541123310133302587--64442111110001210-00024578899999999975188
Q gi|254780928|r   84 RYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKH--GPGRFRQFIQCDVDNVG-SSAETADAEMCMMMADTLEAVGI  160 (496)
Q Consensus        84 RpDlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p--~~Gr~REf~Q~g~eiiG-~~~~~~DaEii~l~~~~l~~lgl  160 (496)
                      |||||+|+|||+++|.   ...+|+|+|++|||+++|  .+|||||||||+|||.| .+...+||||+.+++++|+.||+
T Consensus       132 RYDLTVPfARylAmNk---i~sikRy~iAkVyRRd~P~mtrGR~REFYQcDFDIAG~~d~M~pdaE~lkiv~e~L~~l~I  208 (518)
T KOG1936         132 RYDLTVPFARYLAMNK---ITSIKRYHIAKVYRRDQPAMTRGRYREFYQCDFDIAGQFDPMIPDAECLKIVVEILSRLGI  208 (518)
T ss_pred             ECCCCCHHHHHHHHCC---CCCCEEEEEEEEEECCCCHHHCHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCC
T ss_conf             1356647999998714---5521104678787506814423024556506752126677778609999999999865275


Q ss_pred             CCCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHH
Q ss_conf             87771130366055899999832560356433455533322001289678998621016500355530489997789988
Q gi|254780928|r  161 KRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIM  240 (496)
Q Consensus       161 ~~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  240 (496)
                      .  +|.|++|||+||+++|..||+|++.    +..+|+++|||||.+|+++++++...           .+++++.++.+
T Consensus       209 g--d~~iKvNhRkiLdgmf~v~GVp~~~----frtICSsIDKLdK~pwedVkkEmv~e-----------KGlsee~ad~i  271 (518)
T KOG1936         209 G--DYGIKVNHRKILDGMFAVCGVPEDK----FRTICSSIDKLDKMPWEDVKKEMVFE-----------KGLSEEAADRI  271 (518)
T ss_pred             C--CEEEEECHHHHHHHHHHHHCCCHHH----HHHHHHHHHHHHCCCHHHHHHHHHHH-----------CCCCHHHHHHH
T ss_conf             5--1599714789999899880999789----62487765455038899999998774-----------17899999999


Q ss_pred             HHHHCCCCHHHH-HHHHH--HHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCC---
Q ss_conf             874047856889-98998--603573258889999999999875088844300110100122123412489985466---
Q gi|254780928|r  241 VSFLSIDLEKSM-HELYE--LVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFP---  314 (496)
Q Consensus       241 ~~~~~~~~~~~~-~~l~~--~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~---  314 (496)
                      .+++...+...+ +.+..  .+..+....+++++|+.++++++.+|+. .+|+||+|++||||||||+|||++....   
T Consensus       272 geyv~~~g~~eL~e~l~~d~~l~~n~~a~eal~dlk~Lf~y~~~fg~s-~~isfDlSLARGLDYYTGvIyEav~~~~~~~  350 (518)
T KOG1936         272 GEYVSLKGLDELLEKLIADPKLSQNEAAKEALADLKQLFEYLEIFGIS-ERISFDLSLARGLDYYTGVIYEAVLRGLRLI  350 (518)
T ss_pred             HHHHHHCCHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCC-CEEEEEHHHHCCCHHHHCEEEEEEECCCCCC
T ss_conf             878621668889999854875433388999899999999999972986-3378525875340133123445652254235


Q ss_pred             -CC-----CCCCCCCCEEEECCCCCCCCCCCCCCCC--CCCCCEEEECCHHHHHHHHHCCCCCCC--CCCCCEEEEEEEC
Q ss_conf             -67-----7676663101100323235521112345--677421331101689999973687766--5557714899826
Q gi|254780928|r  315 -VM-----NEKQKPVVFGSVGGGGRYDGLVSRFKGQ--NVPATGFSIGISRLIVALKSLESSTNN--IKEMGPVLITTMD  384 (496)
Q Consensus       315 -~~-----~~~~~~~~~~aI~~GGRYD~L~~~f~~~--~~pavGfaigverl~~~l~~~~~~~~~--~~~~~~v~V~~~~  384 (496)
                       +.     .....++..||||+|||||+|+.+|+.+  .+||||+|+|++||+.+|++.......  ....+.|+|...+
T Consensus       351 ~~a~~~~~~~~~e~~~vGSvaaGGRYDnLv~mf~~k~~~vPcvG~S~GVeRiFsile~r~~~~~~~iR~t~t~V~V~~~~  430 (518)
T KOG1936         351 CPAGRYDQAGSTEPGGVGSVAAGGRYDNLVGMFDKKGDKVPCVGQSVGVERIFSILEQRAATVATKIRTTETQVYVAAAG  430 (518)
T ss_pred             CCCHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCEEEHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECC
T ss_conf             76112220366567775451247632368987512457487454040076899999998876541025676289998367


Q ss_pred             CCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHH
Q ss_conf             97689999999999999879839997189999889999998779989999887287488189978788836433112014
Q gi|254780928|r  385 HDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNE  464 (496)
Q Consensus       385 ~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~  464 (496)
                        ...+.+++.+++.||.+||.+|..|..++++.+|++||++.|||++||+|++|+.+|.|+|||+.++++         
T Consensus       431 --k~~l~eR~k~v~~Lw~agI~aE~~yk~~~~~~~q~~~~e~~~ip~~vi~Ge~El~~G~V~vk~~~~re~---------  499 (518)
T KOG1936         431 --KNLLFERLKVVNALWDAGIKAEYLYKANPKLLKQFQYAEEAGIPLAVILGEEELADGSVKVKNVGTREE---------  499 (518)
T ss_pred             --CCHHHHHHHHHHHHHHCCCCHHHHHHCCCCHHHHHHHHHHCCCCEEEEECHHHHCCCEEEEEECCCCCC---------
T ss_conf             --740899999999998637552000104843778887888639976999344565077079876145533---------


Q ss_pred             HHHHCCCCCEEECHHHHHHHHHHHHHH
Q ss_conf             432023351030799999999999986
Q gi|254780928|r  465 SWREARVAQITIPISELVSTVKKILQE  491 (496)
Q Consensus       465 ~~~~~~~~q~~v~~~~l~~~~~~~l~~  491 (496)
                               +.|+.++++.++++++..
T Consensus       500 ---------~~v~~e~~v~~l~~~l~~  517 (518)
T KOG1936         500 ---------VLVKREQFVSELKDLLSQ  517 (518)
T ss_pred             ---------EECCHHHHHHHHHHHHCC
T ss_conf             ---------103399999999877528


No 5  
>PRK00037 hisS histidyl-tRNA synthetase; Reviewed
Probab=100.00  E-value=0  Score=679.19  Aligned_cols=402  Identities=36%  Similarity=0.566  Sum_probs=321.8

Q ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCC-CCCCCCCEEEEECCCCCEEEEC
Q ss_conf             871037998765886689999999999999999859848016520228875202675-5433322168986999889998
Q gi|254780928|r    6 KLRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPD-EDRPNKGVFSLQDDDGQWISLR   84 (496)
Q Consensus         6 ~~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~-~~~~~k~~y~f~D~~g~~l~LR   84 (496)
                      .|++++|+|||||+|.++.++++|+++++++|++|||++|.||+||++|+|.+++|+ ++...++||+|.|++|+.++||
T Consensus         1 ~~~~~~p~G~rD~lP~~~~~~~~i~~~i~~~~~~~Gy~~I~tP~lE~~d~~~~~~g~~~d~~~k~~y~f~D~~g~~l~LR   80 (417)
T PRK00037          1 MMKIQAPRGTRDILPEESAKWQYVEDTIREVFERYGFSEIRTPIFEYTELFKRKIGESTDIVEKEMYTFQDKGGRSLTLR   80 (417)
T ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCHHHHHCCCCCCCCCHHHHHEEEEECCCCCEEEEC
T ss_conf             99998999877679889999999999999999985995857752150988624577632201332056775999889856


Q ss_pred             CCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             8883899999995112--05541123310133302587644421111100012100002457889999999997518887
Q gi|254780928|r   85 YDLTAPLARYVAENFD--TIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKR  162 (496)
Q Consensus        85 pDlT~~~aR~~~~~~~--~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~  162 (496)
                      ||+|+|+||++++|..  ..++|+|+||+|+|||+|+||+||+|||+|+|+|+||.+++.+|||+|.++.++|+.+|++ 
T Consensus        81 pD~T~~iaR~~~~~~~~~~~~~P~r~~y~g~vfR~e~p~~GR~REf~Q~g~eiiG~~~~~aDaEvi~l~~~~l~~lGl~-  159 (417)
T PRK00037         81 PEGTAPVVRAVIENKLYNELPKPFKLYYIGPMFRYERPQKGRYRQFHQFGVEVIGSDSPAADAEVIALAADLLKALGLK-  159 (417)
T ss_pred             CCCCHHHHHHHHHHHHHCCCCCCEEEEEECCEEECCCCCCCCCCCEEECCHHHHCCCCHHHHHHHHHHHHHHHHHCCCC-
T ss_conf             7767299999997210106887658998724660478988763524563527746641788899999999999983996-


Q ss_pred             CCCEEECCCCH----------HHHHHHHHHCCCH--HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCC
Q ss_conf             77113036605----------5899999832560--35643345553332200128967899862101650035553048
Q gi|254780928|r  163 NDYHIGINNRK----------ILDGILEKIGLHG--DDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGA  230 (496)
Q Consensus       163 ~~~~I~in~~~----------il~~il~~lgi~~--~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~  230 (496)
                       ++.+.+||.+          ++.++++......  +........+++.+|++++                         
T Consensus       160 -~~~i~i~~~g~~~~~~~~r~~L~~~l~~~~~~l~~~~~~~~~~~~l~~ld~~~~-------------------------  213 (417)
T PRK00037        160 -GLVLLLNSLGDFEIRANYRKALVGYLEKHLDELDEDSKRRLETNPLRILDKKDK-------------------------  213 (417)
T ss_pred             -CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCH-------------------------
T ss_conf             -520010567768889999999999999976433878877665427787642388-------------------------


Q ss_pred             CCCHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEE
Q ss_conf             99977899888740478568899899860357325888999999999987508884430011010012212341248998
Q gi|254780928|r  231 NLTSEQIDIMVSFLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAI  310 (496)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~  310 (496)
                                      .....+..+..+..  ....+++++|.++.+.++.+|+   .+.||+++|||||||||+|||++
T Consensus       214 ----------------~~~~~~~~a~~l~~--~l~~~~~~~l~~l~~~l~~~~~---~~~~Dl~lvRgldYYTG~vFe~~  272 (417)
T PRK00037        214 ----------------EDQEILADAPKLLD--YLDEESKAHFEELKELLDALGI---PYVIDPRLVRGLDYYTGTVFEFV  272 (417)
T ss_pred             ----------------HHHHHHHHCHHHHH--HHCHHHHHHHHHHHHHHHHCCC---CEEECHHHCCCCCCCCCEEEEEE
T ss_conf             ----------------79999973625453--3277889999999999997599---69986245057665343389999


Q ss_pred             ECCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCHHHH
Q ss_conf             54666776766631011003232355211123456774213311016899999736877665557714899826976899
Q gi|254780928|r  311 LGFPVMNEKQKPVVFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHDSDSL  390 (496)
Q Consensus       311 ~~~~~~~~~~~~~~~~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~  390 (496)
                      ..        ..+..++||||||||+|++.|||+++||||||||+||++.+|.+.+.      .+.+|+|+++  +.+..
T Consensus       273 ~~--------~~~~~~si~gGGRYD~L~~~fgg~~~PAvGfa~gieRi~~~l~~~~~------~~~~v~v~~~--~~~~~  336 (417)
T PRK00037        273 TD--------GLGAQGTVCGGGRYDGLVEQFGGPPTPAVGFAIGIERLLLLLEELGL------ESVDVYVVVL--GEEAE  336 (417)
T ss_pred             EC--------CCCCCCEEECCCCHHHHHHHHCCCCCCEEEEEECHHHHHHHHHHCCC------CCCCEEEEEC--CHHHH
T ss_conf             37--------87650104258731578998489978747898639999999996487------8776799965--98999


Q ss_pred             HHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCC
Q ss_conf             99999999999879839997189999889999998779989999887287488189978788836433112014432023
Q gi|254780928|r  391 SKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREAR  470 (496)
Q Consensus       391 ~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~  470 (496)
                      ..+.+++++||++||+|++++. ++++++|++||++.|+||+||+|++|.++|+|+||||.+|+|               
T Consensus       337 ~~a~~i~~~Lr~~gi~v~~~~~-~~~l~k~~~~A~~~~~~~~vivG~~E~~~~~v~vk~l~~g~q---------------  400 (417)
T PRK00037        337 AAALKLAEKLRAAGIRVELDLG-GRKLKKQFKYADKSGARFALILGEDELANGTVTLKDLRTGEQ---------------  400 (417)
T ss_pred             HHHHHHHHHHHHCCCEEEEECC-CCCHHHHHHHHHHCCCCEEEEECCHHHHCCEEEEEECCCCCE---------------
T ss_conf             9999999999988996999589-989999999999879799999874488679689998999971---------------


Q ss_pred             CCCEEECHHHHHHHHHHHHH
Q ss_conf             35103079999999999998
Q gi|254780928|r  471 VAQITIPISELVSTVKKILQ  490 (496)
Q Consensus       471 ~~q~~v~~~~l~~~~~~~l~  490 (496)
                         .+||++++++.+++.|+
T Consensus       401 ---~~v~~~~l~~~lk~~l~  417 (417)
T PRK00037        401 ---ETVALDELVEFLKELLG  417 (417)
T ss_pred             ---EEEEHHHHHHHHHHHHC
T ss_conf             ---79659999999999749


No 6  
>PRK12292 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=100.00  E-value=0  Score=603.04  Aligned_cols=376  Identities=26%  Similarity=0.406  Sum_probs=309.8

Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECC-CCCEEEECC
Q ss_conf             7103799876588668999999999999999985984801652022887520267554333221689869-998899988
Q gi|254780928|r    7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDD-DGQWISLRY   85 (496)
Q Consensus         7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~-~g~~l~LRp   85 (496)
                      |+.++|+||+|++|+++..+++++++++++|++|||++|.||+||++|+|.+.+|+.  ..++||+|.|+ +|+.|+|||
T Consensus         1 m~~~~P~G~~D~lp~e~~~~~~i~~~~~~~f~~~Gy~~I~tP~lE~~e~f~~~~g~~--~~~~~~~f~D~~~Gr~l~LRp   78 (388)
T PRK12292          1 MTWQLPEGIRDLLPEEARKIEEIRRRLLDVFRLWGYEEVITPTLEYLDTLLTGGGAD--LDLRTFKLVDQLSGRTLGLRP   78 (388)
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHCCCCCCC--CCHHEEEEEECCCCCEEEECC
T ss_conf             987699998667999999999999999999998799673576606298854457750--211048998269997898568


Q ss_pred             CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             88389999999511205541123310133302587644421111100012100002457889999999997518887771
Q gi|254780928|r   86 DLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDY  165 (496)
Q Consensus        86 DlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~~  165 (496)
                      |+|+|+||++++++...+.|+|+||+|+|||+|+||+||+|||+|+|+|+||.+++.+|||+|.++.++|+.+|++  ++
T Consensus        79 D~T~~iaR~~~~~~~~~~~p~r~~Y~g~vfR~e~pq~Gr~REf~Q~G~EiiG~~~~~aDaEvI~l~~~~l~~lgl~--~~  156 (388)
T PRK12292         79 DMTPQIARIAATRLANRPGPLRLCYAGNVFRAQPRGLGRSREFLQSGVELIGDAGIEADAEVLSLLLDALKALGLP--NF  156 (388)
T ss_pred             CCCHHHHHHHHHHHHCCCCCEEEEEEEEEEEECCCCCCCCCEEEECCEEEECCCCHHHHHHHHHHHHHHHHHCCCC--CE
T ss_conf             7719999999973104678768998522687058989961023425755317888899999999999999976998--64


Q ss_pred             EEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHHC
Q ss_conf             13036605589999983256035643345553332200128967899862101650035553048999778998887404
Q gi|254780928|r  166 HIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFLS  245 (496)
Q Consensus       166 ~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  245 (496)
                      +|.|||+++++++++.++++.+.+    ..+.++++++++...+.                   ..++.+..+.+..+..
T Consensus       157 ~i~i~~~~i~~~ll~~~~~~~~~~----~~l~~~l~~kd~~~l~~-------------------l~~~~~~~~~l~~l~~  213 (388)
T PRK12292        157 TLDLGHVGLFRALLAALGLPEELE----EALRTALANKDYVALEE-------------------LDLPEELRARLLALPR  213 (388)
T ss_pred             EEEECCHHHHHHHHHHCCCCHHHH----HHHHHHHHHHCHHHHHH-------------------CCCCHHHHHHHHHHHH
T ss_conf             999778889999999839999999----99999998748666876-------------------3999999999998877


Q ss_pred             CCC-HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCC
Q ss_conf             785-6889989986035732588899999999998750888443001101001221234124899854666776766631
Q gi|254780928|r  246 IDL-EKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVV  324 (496)
Q Consensus       246 ~~~-~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~  324 (496)
                      ..+ .+.+.+..+.+.. ....+++++|..+++.++..++. ..|.|||++|||||||||+|||++....          
T Consensus       214 l~g~~~~~~~~~~~~~~-~~~~~~l~~l~~l~~~l~~~~~~-~~i~iD~~lvRGldYYTG~vFE~~~~~~----------  281 (388)
T PRK12292        214 LRGGPEVLLEARKLLPG-SPAKRALDELKALAEALEKAGYG-IYLQLDLGLLRHYDYYTGIVFQGYVDGV----------  281 (388)
T ss_pred             HCCCHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHCCCC-CEEEECCHHCCCCCCCCCEEEEEEECCC----------
T ss_conf             45999999999976679-55689999999999999844999-6472040003576665643999991898----------


Q ss_pred             EEEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHCC
Q ss_conf             01100323235521112345677421331101689999973687766555771489982697689999999999999879
Q gi|254780928|r  325 FGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTAG  404 (496)
Q Consensus       325 ~~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~G  404 (496)
                      ..+||||||||+|++.||+ +.||||||+|+|||+.+|....      ....+++|+..  +.+...+++.+|++||++|
T Consensus       282 ~~~i~gGGRYD~L~~~fG~-~~PAvGfa~g~eRl~~~l~~~~------~~~~~~~~v~~--~~~~~~~a~~~a~~LR~~G  352 (388)
T PRK12292        282 GNPIARGGRYDDLGGRFGR-ARPATGFSLDLDRLRELLPEEE------ERKQKDLLILA--PWERLEAALAAAQALRKKG  352 (388)
T ss_pred             CCEECCCCCHHHHHHHHCC-CCCEEEEEECHHHHHHHHHHCC------CCCCCEEEEEC--CHHHHHHHHHHHHHHHHCC
T ss_conf             8825057566479998389-9971589963999999864205------67886799985--8676999999999999779


Q ss_pred             CEEEEEECCCCCHHHHHHHHHHCCCCE
Q ss_conf             839997189999889999998779989
Q gi|254780928|r  405 IRAEMFLGSSKNFGNQLKYADRRNCPL  431 (496)
Q Consensus       405 i~~e~~~~~~~sl~~~~~~A~~~g~~~  431 (496)
                      ++|++++ .+++..++..++....++-
T Consensus       353 ~~v~~~l-~~~~~~~~~~~~~~~~~~~  378 (388)
T PRK12292        353 EIVVLAL-PGHDDAEAEAADRQLVCRE  378 (388)
T ss_pred             CEEEEEC-CCCCHHHHHHHHHHHHHCC
T ss_conf             8899989-9998688988779986158


No 7  
>PRK12421 ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=100.00  E-value=0  Score=531.25  Aligned_cols=387  Identities=22%  Similarity=0.325  Sum_probs=297.8

Q ss_pred             CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECC-CCC
Q ss_conf             9876587103799876588668999999999999999985984801652022887520267554333221689869-998
Q gi|254780928|r    1 MGKKTKLRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDD-DGQ   79 (496)
Q Consensus         1 m~k~~~~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~-~g~   79 (496)
                      |+..+  +-.+|+||+|++|+++..++++++++.++|++|||++|.||+||+.|+|.+..++.  ...++|+|.|+ +|+
T Consensus         1 ~~~~~--~wllP~G~~D~lP~ea~~~~~l~~~l~~~f~~~Gy~~V~tP~lE~~e~l~~~~g~~--~~~~~f~~~D~~sGr   76 (391)
T PRK12421          1 MDIDE--RWLLPDGVADLLPEEAQKIERLRRRLLDLFASRGYQLVMPPFIEYLESLLTGAGQD--LDLQTFKLIDQLSGR   76 (391)
T ss_pred             CCCCC--CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHCCCCCCC--CCEEEEEEEECCCCC
T ss_conf             98455--75698998758999999999999999999998699762167607287856566873--414799996179997


Q ss_pred             EEEECCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCC
Q ss_conf             89998888389999999511205541123310133302587644421111100012100002457889999999997518
Q gi|254780928|r   80 WISLRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVG  159 (496)
Q Consensus        80 ~l~LRpDlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lg  159 (496)
                      .++||||+|+|+||+.+ |....+.|.|+||+|+|||+++|+.||+|||+|+|+|+||.+++.+|+|+|.++.++|+.+|
T Consensus        77 ~l~LRpD~T~~vARi~a-~~~~~~~p~Rl~Y~G~V~R~~~~~~gr~Ref~Q~G~EliG~~~~~aD~EvI~l~~~~L~~lG  155 (391)
T PRK12421         77 LMGVRADITPQVARIDA-HLLNREGVARYCYAGSVLHTLPQGLNASRAPLQLGAELYGHAGIEADIEIIDLMLGLLRNAG  155 (391)
T ss_pred             EEEECCCCCHHHHHHHH-HHCCCCCCEEEEEECEEEECCCCCCCCCCCCEECCEEEECCCCHHHHHHHHHHHHHHHHHCC
T ss_conf             86556532068899998-74046886579996517751688888766521505898569987989999999999999769


Q ss_pred             CCCCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHH
Q ss_conf             88777113036605589999983256035643345553332200128967899862101650035553048999778998
Q gi|254780928|r  160 IKRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDI  239 (496)
Q Consensus       160 l~~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~  239 (496)
                      ++  +++|.|||+++++++++.++++.+.+..    +.   +.+++....++...            ....+...+....
T Consensus       156 l~--~~~l~lgh~~i~~~l~~~~~l~~~~~~~----l~---~~l~~k~~~~l~~~------------~~~~~~~~~~~~~  214 (391)
T PRK12421        156 VE--GLHLDLGHVGIFRSLAELAGLSPEEEEE----LF---DLLQRKALPELKEV------------TANLPMGSDLRRM  214 (391)
T ss_pred             CC--CEEEEECCHHHHHHHHHHCCCCHHHHHH----HH---HHHHHHCHHHHHHH------------HHHCCCCHHHHHH
T ss_conf             98--0699968747899999983999899999----99---99970387889999------------9864998389999


Q ss_pred             HHHHHCCCCH-HHHHHH-HHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCC
Q ss_conf             8874047856-889989-98603573258889999999999875088844300110100122123412489985466677
Q gi|254780928|r  240 MVSFLSIDLE-KSMHEL-YELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMN  317 (496)
Q Consensus       240 ~~~~~~~~~~-~~~~~l-~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~  317 (496)
                      +..+....+. ..+... ...........+++++|..+.+.++..+. ...|.||++.+||++||||+|||++...    
T Consensus       215 l~~L~~l~g~~~~l~~a~~~~~~~~~~~~~al~~L~~l~~~l~~~~~-~~~i~~Dl~~vRG~~YyTG~vFe~y~~g----  289 (391)
T PRK12421        215 FYALARLAGDLEALDRALSADALADAAIRAALDELKTLAAQLKNRWP-ELPVSIDLAELRGYHYHTGLVFAAYAPG----  289 (391)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCC-CCEEEECCHHCCCCCCCCEEEEEEEECC----
T ss_conf             88766744899999999985165888999999999999999862467-8518975210478644544899999489----


Q ss_pred             CCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHH
Q ss_conf             67666310110032323552111234567742133110168999997368776655577148998269768999999999
Q gi|254780928|r  318 EKQKPVVFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYT  397 (496)
Q Consensus       318 ~~~~~~~~~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia  397 (496)
                            ...+||+|||||+|.+.| |++.||||||++++||+.++..      . ..+ +.+++..+.+.    +....+
T Consensus       290 ------~~~~Ia~GGRYD~L~~~f-G~~~PA~GFsl~l~rL~~~~~~------~-~~~-~~i~~p~~~~~----~~~~~i  350 (391)
T PRK12421        290 ------RGAPLARGGRYDGIGEAF-GRARPATGFSMDLRALLALLTQ------F-AEP-EAVLAPWGDDP----DLLAAI  350 (391)
T ss_pred             ------CCCEEECCCCCCCHHHHC-CCCCCEEEEEECHHHHHHHCCC------C-CCC-CEEEEECCCCH----HHHHHH
T ss_conf             ------888354166637177753-9999804899669999972656------6-888-87997679979----999999


Q ss_pred             HHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEE
Q ss_conf             9999879839997189999889999998779989999887287488189978
Q gi|254780928|r  398 QMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKD  449 (496)
Q Consensus       398 ~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~  449 (496)
                      ++||++|.+|...+.....       +...+|...++.     .+|...|+-
T Consensus       351 ~~LR~~G~~Vv~~l~~~~~-------~~~~~c~~~l~~-----~~~~w~v~~  390 (391)
T PRK12421        351 AELRQQGERVVQLLPGDDG-------SSIPGCTHQLVL-----RDGQWVIEA  390 (391)
T ss_pred             HHHHHCCCEEEEECCCCCC-------CCCCCCCHHHEE-----CCCEEEEEE
T ss_conf             9999679799983899875-------000399972223-----198799986


No 8  
>TIGR00442 hisS histidyl-tRNA synthetase; InterPro: IPR015807   The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases .   Histidyl-tRNA synthetase (6.1.1.21 from EC) is an alpha2 dimer that belongs to class IIa. Every completed genome includes a histidyl-tRNA synthetase. Apparent second copies from Bacillus subtilis, Synechocystis sp., and Aquifex aeolicus are slightly shorter, more closely related to each other than to other hisS proteins, and not demonstrated to act as histidyl-tRNA synthetases (see IPR004517 from INTERPRO). The regulatory protein kinase GCN2 of Saccharomyces cerevisiae (YDR283c), and related proteins from other species designated eIF-2 alpha kinase, have a domain closely related to histidyl-tRNA synthetase that may serve to detect and respond to uncharged tRNA(his), an indicator of amino acid starvation, but these regulatory proteins are not orthologous.; GO: 0000166 nucleotide binding, 0004821 histidine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006427 histidyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=100.00  E-value=0  Score=489.02  Aligned_cols=429  Identities=31%  Similarity=0.532  Sum_probs=362.3

Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHC-CCCCCCCCCCCEEEEECCCCCEEEECC
Q ss_conf             7103799876588668999999999999999985984801652022887520-267554333221689869998899988
Q gi|254780928|r    7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGK-FLPDEDRPNKGVFSLQDDDGQWISLRY   85 (496)
Q Consensus         7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~-~~~~~~~~~k~~y~f~D~~g~~l~LRp   85 (496)
                      +.++.|+|++||+|.++..++++...++.++.+|||.+|.||++|+.++|.+ .+..++...+++|.|.|++|+.++|||
T Consensus         2 ~~~~~~~G~~d~~p~~~~~~~~~~~~~~~~~~~~g~~~~~~P~~e~~~~~~~~~~~~~~~~~~~~y~f~d~~~~~~~lrp   81 (446)
T TIGR00442         2 VDLQKPRGTKDWLPGELVYRQWIEAKLRSVLESYGYSEIRTPIFEYTELFARGIGKSGDEVEKELYTFKDKGGRDLALRP   81 (446)
T ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHEEEECCCCCEEEECC
T ss_conf             76323455200254157899999999999997517720012114445666530253013344443012127884144222


Q ss_pred             CCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHCCCCCC-CCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             88389999999511205--5411233101333025876-44421111100012100002457889999999997518887
Q gi|254780928|r   86 DLTAPLARYVAENFDTI--VFPCRTYRIGPVFRNEKHG-PGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKR  162 (496)
Q Consensus        86 DlT~~~aR~~~~~~~~~--~~p~k~yy~g~vfR~e~p~-~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~  162 (496)
                      |+|+|++|++..|....  ..|+|+||+|++||||+|+ +||+|||||+|+|++|..++.+|+|++.++...+..+|+. 
T Consensus        82 ~~t~~~~r~~~~~~~~~~~~~p~~~~~~g~~~r~e~p~~~gr~r~f~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~g~~-  160 (446)
T TIGR00442        82 ELTAPVVRLVAENKLLLPANKPLRLYYIGPVFRYERPQLKGRYREFWQFGCEVIGSESPLADAEVLSLAVEGLKALGLE-  160 (446)
T ss_pred             CHHHHHHHHHHHHHHHCCCCCCEEEEEEECHHHCCCHHHHCCHHHHHHCCEEEECCCCCHHHHHHHHHHHHHHHHHCCC-
T ss_conf             0036899999875431046764243232010102241230101133211504643665203689999999989860766-


Q ss_pred             CC-CEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHH
Q ss_conf             77-11303660558999998325603564334555333220012896789986210165003555304899977899888
Q gi|254780928|r  163 ND-YHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMV  241 (496)
Q Consensus       163 ~~-~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  241 (496)
                       + +.+.+||.++++++++..++..+.     ....+..+++++.+++.+...+..           ......+..+.+.
T Consensus       161 -~~~~~~~~~~g~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~~~  223 (446)
T TIGR00442       161 -GHFKLKLNHLGILEGILEYRGALEED-----VYLTPIKDKLDKDDQERLEEELTN-----------PLRILDEKVDELL  223 (446)
T ss_pred             -CEEEEEECCCHHHHHHHHHHCCHHHH-----HHHHHHHHHHCCCHHHHHHHHHHH-----------HHHHHHHHHHHHH
T ss_conf             -32788741300145666652110234-----566566666230115678998765-----------4432122245677


Q ss_pred             HHHCCC-CHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCC
Q ss_conf             740478-5688998998603573258889999999999875088844300110100122123412489985466677676
Q gi|254780928|r  242 SFLSID-LEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQ  320 (496)
Q Consensus       242 ~~~~~~-~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~  320 (496)
                      .++... .+..+..+...........+++..+..++..+...+++. .+.++++++||||||||++||++..        
T Consensus       224 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~rGldyy~g~~~e~~~~--------  294 (446)
T TIGR00442       224 ELLKLKGAPEILDYLDELLDESEGHFEGLKDLEELFQLLEDLGIDD-LYELNLGLARGLDYYTGTVFEIVTN--------  294 (446)
T ss_pred             HHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-EEEECCHHHHHHHHHCCEEEEEECC--------
T ss_conf             7763256225788888874123578889989999999986505421-0220511331001111323443101--------


Q ss_pred             CCCCEEEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCCCCCCCCCCCC-EEEEEEECCCHHHHHHHHHHHHH
Q ss_conf             66310110032323552111234567742133110168999997368776655577-14899826976899999999999
Q gi|254780928|r  321 KPVVFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSLESSTNNIKEMG-PVLITTMDHDSDSLSKYQMYTQM  399 (496)
Q Consensus       321 ~~~~~~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~~~~~~~~~~~~-~v~V~~~~~~~~~~~~~~~ia~~  399 (496)
                      ..+..+++|+|||||+|++.||++.+|++||++|+||++.++.............. .+.+.++........++..++..
T Consensus       295 ~~~~~~~~~~GG~yd~l~~~~~~~~~~~~G~~~g~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  374 (446)
T TIGR00442       295 ALGAQGTVCGGGRYDNLVEEFGGPPTPAVGFAFGLERLINLLDAEKPSFPLAKVVDARVFVLVVGLGEEALPEALRLAEK  374 (446)
T ss_pred             CCCCCCCEECCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEECCHHHHHHHHHHHHH
T ss_conf             12432100046510125665067545410023308999998756543100001111102577860642457899999999


Q ss_pred             HHHC--CCEEEEEEC-CCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCC-CEEEEECCC
Q ss_conf             9987--983999718-99998899999987799899998872874881899787888-364331120
Q gi|254780928|r  400 LRTA--GIRAEMFLG-SSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKG-KELSREIKN  462 (496)
Q Consensus       400 Lr~~--Gi~~e~~~~-~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g-~q~~~~~~~  462 (496)
                      ||+.  |+.+++++. ..+++++++++|++.|+.+++++|++|..++++.+|+|.++ +|..+...+
T Consensus       375 ~~~~~~g~~~~~~~~~~~~~~~~~~~~a~~~g~~~~~~~G~~~~~~~~~~~k~~~~~~~~~~~~~~~  441 (446)
T TIGR00442       375 LREALPGISAELYPKNNGRKLKKQFSYADKLGARFAVVLGEEELKEGKVTVKDLETGFEQTTLALDE  441 (446)
T ss_pred             HHHHCCCCEEEEEECCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCCCEEEHHHHHHHHHHHHHHHH
T ss_conf             9873378516885221100134555456434854899845310013412201223124567775787


No 9  
>PRK12295 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=100.00  E-value=0  Score=492.81  Aligned_cols=321  Identities=23%  Similarity=0.379  Sum_probs=248.5

Q ss_pred             HHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHHCC
Q ss_conf             99999999999999985984801652022887520267554333221689869998899988883899999995112055
Q gi|254780928|r   24 RIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDTIV  103 (496)
Q Consensus        24 ~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~~~  103 (496)
                      .+++.+.++++++|++|||++|+||+||+.|+|.+..|+.  ..++||+|.|++|+.+|||||+|+|+||+++++.  .+
T Consensus         5 ~r~~~~~~~i~~~f~~~Gy~~I~tP~lE~~d~~~~~~Ge~--~~~~~y~f~D~~g~~l~LRpDlT~piaR~~~~~~--~~   80 (373)
T PRK12295          5 SRSAALAEALLASFEAAGAVRVDPPILQPAEPFLDLSGED--IRRRIFVTSDENGEELCLRPDFTIPVCRRHLASN--AG   80 (373)
T ss_pred             HHHHHHHHHHHHHHHHCCCEEECCCCCCCHHHHCCCCCCH--HHEEEEEEECCCCCEEEEECCCCHHHHHHHHHHC--CC
T ss_conf             7799999999999998699685687604177641435633--1100488998998989981788899999999838--99


Q ss_pred             CCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCH-HHHHHHHHHHHHHHHHCCCCCCCCEEECCCCHHHHHHHHHH
Q ss_conf             41123310133302587644421111100012100002-45788999999999751888777113036605589999983
Q gi|254780928|r  104 FPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAE-TADAEMCMMMADTLEAVGIKRNDYHIGINNRKILDGILEKI  182 (496)
Q Consensus       104 ~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~-~~DaEii~l~~~~l~~lgl~~~~~~I~in~~~il~~il~~l  182 (496)
                      .|.|+||+|+|||+   |+||+|||+|||+|+||..++ .+|||||.+++++++.+|++  +++|.|||++++.++++.+
T Consensus        81 ~p~R~~Y~G~VfR~---q~gr~rEf~Q~GvEiiG~~~~~~aDaEvi~la~~~l~~lgl~--~~~i~ig~~~i~~~~l~~l  155 (373)
T PRK12295         81 EPARYSYLGEVFRQ---RRDRASEFLQAGIESFGRADPAAADAEVLALALEALAALGPA--DLEIRLGDVGLFEALIDAL  155 (373)
T ss_pred             CCEEEEEECCEEEC---CCCCCCCEEEEEEEEECCCCCCCCCHHHHHHHHHHHHHCCCC--CEEEEECCHHHHHHHHHHC
T ss_conf             98007877332245---799988516701578578982106499999999999975997--6399966789999999874


Q ss_pred             CCCHHHHHHHHHHHHH------HHHHCC----------------CCCHHHHHHHHHHC----CC------------CHH-
Q ss_conf             2560356433455533------322001----------------28967899862101----65------------003-
Q gi|254780928|r  183 GLHGDDKLNERLIVLR------AIDKLD----------------KFGLQGVKLLLGEG----RT------------DNS-  223 (496)
Q Consensus       183 gi~~~~~~~~~~~~~~------~idkl~----------------k~~~~~~~~~l~~~----~~------------~~~-  223 (496)
                      +++..++..-...+.+      .++++.                ....+.....+.+.    ..            +.. 
T Consensus       156 ~l~~~~~~~L~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~d~~~~~~~l~~~~~~~g~~~~~~r~~~ei~~rl~  235 (373)
T PRK12295        156 GLPPGWRRRLLRHFGRPRSLDALLARLAGPQPVDELAGVLAALAGSDEKAALALLEDLMSIAGISPVGGRSPAEIARRLL  235 (373)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHH
T ss_conf             99899999999987407779999998613444105789998763336889999999877640664213455889998888


Q ss_pred             -HHHHCCCCCCHHHHHHHHHHHCCC--CHHHHHHHHHHHCCCH-HHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCC
Q ss_conf             -555304899977899888740478--5688998998603573-258889999999999875088844300110100122
Q gi|254780928|r  224 -GDFTKGANLTSEQIDIMVSFLSID--LEKSMHELYELVKGTI-AGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGL  299 (496)
Q Consensus       224 -~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~-~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgL  299 (496)
                       .......+++.+..+.+..++...  ....+..+.++..... ....+++++..+++.+..+|++...|.||++++|||
T Consensus       236 ~k~~~~~~~l~~~~~~~l~~ll~i~~~~~~al~~l~~l~~~~~~~~~~~l~~l~~~~~~l~~~gi~~~~i~fD~sl~Rgl  315 (373)
T PRK12295        236 EKADLAAAALPAAALDLLKRFLAISGPPDAALAALRALAADAGLDLDAALDRFEARLGALAARGIDLERLRFSASFGRPL  315 (373)
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCC
T ss_conf             75553116789899999999985438889999999999865535589999999999999997399955599727746798


Q ss_pred             CCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCCCCCCCCCCC-CCCCCCCEEEECCHHHHHH
Q ss_conf             1234124899854666776766631011003232355211123-4567742133110168999
Q gi|254780928|r  300 EYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGLVSRFK-GQNVPATGFSIGISRLIVA  361 (496)
Q Consensus       300 dYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~L~~~f~-~~~~pavGfaigverl~~~  361 (496)
                      |||||+|||++....        +..++||||||||+|++.|| ++++||||||||+|||+.+
T Consensus       316 dYYTG~vFE~~~~~~--------~~~~~i~gGGRYD~L~~~fG~~~~~PAvGfaigidRl~~~  370 (373)
T PRK12295        316 DYYTGFVFEIHAAGN--------GGDPPLAGGGRYDGLLTRLGAGEPIPAVGFSIWLDRLAAL  370 (373)
T ss_pred             CCCCCCEEEEEECCC--------CCCCEEEECCCHHHHHHHHCCCCCCCEEEEEEEHHHHHHC
T ss_conf             788981899996898--------8667065116531799985899998636999709998536


No 10 
>cd00773 HisRS-like_core Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. This domain is also found at the C-terminus of eukaryotic GCN2 protein kinase and at the N-terminus of the ATP phosphoribosyltransferase accessory subunit, HisZ. HisZ along with HisG catalyze the first reaction in histidine biosynthesis. HisZ is found only in a subset of bacteria and differs from HisRS in lacking a C-terminal anti-codon binding domain.
Probab=100.00  E-value=0  Score=476.59  Aligned_cols=261  Identities=42%  Similarity=0.733  Sum_probs=228.7

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHH
Q ss_conf             89999999999999999859848016520228875202675543332216898699988999888838999999951120
Q gi|254780928|r   22 EIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDT  101 (496)
Q Consensus        22 ~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~  101 (496)
                      +++++++|+++++++|++|||++|.||+||++|+|....++.  ..++||+|.|++|+.+|||||+|+|+||++++|...
T Consensus         1 e~~~r~~i~~~l~~~f~~~Gy~~I~~P~lE~~d~~~~~~~~~--~~~~~~~f~D~~g~~l~LRpD~T~~iaR~~~~~~~~   78 (261)
T cd00773           1 EAALRRYIEDTLREVFERYGYEEIDTPVFEYTELFLRKSGDE--VSKEMYRFKDKGGRDLALRPDLTAPVARAVAENLLS   78 (261)
T ss_pred             CHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHCCCCCCC--CHHCEEEEECCCCCEEEECCCCCHHHHHHHHHHHCC
T ss_conf             968999999999999998699786677645276752446531--021169999799998976786627999999974153


Q ss_pred             CCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCEEECCCCHHHHHHHHH
Q ss_conf             55411233101333025876444211111000121000024578899999999975188877711303660558999998
Q gi|254780928|r  102 IVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDYHIGINNRKILDGILEK  181 (496)
Q Consensus       102 ~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~~~I~in~~~il~~il~~  181 (496)
                      .+.|+|+||+|+|||+++|+.||+|||+|+|+|+||.+++.+|+|+|.+++++|+.+|++  +++|.|||+++++++++.
T Consensus        79 ~~~p~r~~Y~g~VfR~~~~~~g~~rE~~Q~G~EiiG~~~~~ad~Eii~l~~~~l~~lg~~--~~~i~i~~~~i~~~~~~~  156 (261)
T cd00773          79 LPLPLKLYYIGPVFRYERPQKGRYREFYQVGVEIIGSDSPLADAEVIALAVEILEALGLK--DFQIKINHRGILDGIAGL  156 (261)
T ss_pred             CCCCEEEEEECCEEEECCCCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHCCCC--CEEEEEECHHHHHHHHHH
T ss_conf             788858999731899768999984432214699972897588999999999999976998--649998088999999865


Q ss_pred             HCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             32560356433455533322001289678998621016500355530489997789988874047856889989986035
Q gi|254780928|r  182 IGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFLSIDLEKSMHELYELVKG  261 (496)
Q Consensus       182 lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  261 (496)
                      ++++.+...       +..|++                                                          
T Consensus       157 ~~~~~~~~~-------~l~d~l----------------------------------------------------------  171 (261)
T cd00773         157 LEDREEYIE-------RLIDKL----------------------------------------------------------  171 (261)
T ss_pred             CCCCHHHHH-------HHHHHH----------------------------------------------------------
T ss_conf             499888999-------999875----------------------------------------------------------


Q ss_pred             CHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCCCCCCCCCC
Q ss_conf             73258889999999999875088844300110100122123412489985466677676663101100323235521112
Q gi|254780928|r  262 TIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGLVSRF  341 (496)
Q Consensus       262 ~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~L~~~f  341 (496)
                         .++++++|+.+.+.++.+|+. .+|.|||+++||++||||+|||++....        +..++||+|||||+|++.|
T Consensus       172 ---~~~~l~~l~~l~~~l~~~~~~-~~i~~D~~~~r~~~YYtG~vFe~~~~~~--------~~~~~i~~GGRYD~L~~~~  239 (261)
T cd00773         172 ---DKEALAHLEKLLDYLEALGVD-IKYSIDLSLVRGLDYYTGIVFEAVADGL--------GAQGSIAGGGRYDGLLEEF  239 (261)
T ss_pred             ---CHHHHHHHHHHHHHHHHCCCC-CEEEECCCCCCCCCCCCCEEEEEEECCC--------CCCCCEEECCCHHHHHHHH
T ss_conf             ---898899999999999865999-5399875126687576871999997898--------8657267544305889970


Q ss_pred             CCCCCCCCEEEECCHHHHHHHH
Q ss_conf             3456774213311016899999
Q gi|254780928|r  342 KGQNVPATGFSIGISRLIVALK  363 (496)
Q Consensus       342 ~~~~~pavGfaigverl~~~l~  363 (496)
                      +++++||||||+++|||+.+|+
T Consensus       240 ~~~~~pAvGfa~~ldrl~~~l~  261 (261)
T cd00773         240 GGEDVPAVGFAIGLERLLLALE  261 (261)
T ss_pred             CCCCCCEEEEEEEHHHHHHHHC
T ss_conf             8999975899960999999649


No 11 
>PRK12293 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=100.00  E-value=0  Score=451.61  Aligned_cols=279  Identities=21%  Similarity=0.316  Sum_probs=213.7

Q ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECC
Q ss_conf             87103799876588668999999999999999985984801652022887520267554333221689869998899988
Q gi|254780928|r    6 KLRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRY   85 (496)
Q Consensus         6 ~~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRp   85 (496)
                      .+.+|+|+||||++|+++.++++|+++++++|++|||++|.||+||+++.+.      +..+|+||+|.|++|+.++|||
T Consensus         2 ~~~~~lP~GtrD~~p~~~~~~~~Ie~~~~~~f~~~Gy~eI~TP~~E~~e~~~------~~~~kemy~f~D~~gr~l~LRP   75 (281)
T PRK12293          2 IYEHEIPQGSRLYFGKSAKLKRDIENVASEILYKEGFEEIVTPSFSYHQHLS------VADEKELLRFSDEKNHEISLRA   75 (281)
T ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCEEEEECCC------CCCCCEEEEEECCCCCEEEECC
T ss_conf             7667899978166819999999999999999998599485378568644346------6563017999879998799778


Q ss_pred             CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             88389999999511205541123310133302587644421111100012100002457889999999997518887771
Q gi|254780928|r   86 DLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDY  165 (496)
Q Consensus        86 DlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~~  165 (496)
                      |+|+|+||+++++....+.|+||||+|+|||||+      |||+|+|+|+||.+++   +|+|.++.++|+.||++.   
T Consensus        76 d~Ta~iaR~v~~~l~~~~~p~rl~Y~g~vFRye~------rEf~Q~GvEliG~~s~---~Evi~la~~~l~~lgl~~---  143 (281)
T PRK12293         76 DSTVDVVRIITKRLGRSTEHKKWFYIQPVFRYPT------TEIYQIGAEIIGESDL---SKVLNIAAEIFNELEIEP---  143 (281)
T ss_pred             CCCHHHHHHHHHCCCCCCCCEEEEEECCEEECCC------CCCEEECEEEECCCCH---HHHHHHHHHHHHHCCCCC---
T ss_conf             8878999999965544689757998756353467------7746847488779999---999999999999769962---


Q ss_pred             EEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHHC
Q ss_conf             13036605589999983256035643345553332200128967899862101650035553048999778998887404
Q gi|254780928|r  166 HIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFLS  245 (496)
Q Consensus       166 ~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  245 (496)
                      .+.|||.++...+.+.++.+.+..              ++...+.   .+. ...                 +.+..++.
T Consensus       144 ~l~i~~~~~~~~~~~~~~~~~~~~--------------~~~~~~~---l~~-~~~-----------------~~l~~l~~  188 (281)
T PRK12293        144 VLQISNIKIPKLLCEILDLDIEVF--------------ENGNIEK---ILA-QNL-----------------PWLEKLAR  188 (281)
T ss_pred             EEEECCCCCHHHHHHHHCCHHHHH--------------HHHHHHH---HHH-HHH-----------------HHHHHHHH
T ss_conf             499856562889999857009988--------------5642999---987-657-----------------77777765


Q ss_pred             CCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCCE
Q ss_conf             78568899899860357325888999999999987508884430011010012212341248998546667767666310
Q gi|254780928|r  246 IDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVVF  325 (496)
Q Consensus       246 ~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~~  325 (496)
                      ....+.+.++.+.+.  ....+.++++..+   ++..+.  .++.+|+.++||||||||+|||++...            
T Consensus       189 ~~~~~~l~~~~~~~p--~~~~~~l~~l~~~---~~~~~~--~~~~~d~~lvrgldYYTG~vFe~~~~~------------  249 (281)
T PRK12293        189 IKTVQDLDELIEIVP--DEIKEELEKLKEL---ASSIEY--ENLVIAPLYYAKMRYYDDLFFRFFDGN------------  249 (281)
T ss_pred             CCCHHHHHHHHHHCC--HHHHHHHHHHHHH---HHHCCC--CCEEECCCCCCCCCCCCCEEEEEECCC------------
T ss_conf             498888999998578--9999999999999---986799--637987761148868898089999489------------


Q ss_pred             EEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHH
Q ss_conf             11003232355211123456774213311016899999
Q gi|254780928|r  326 GSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALK  363 (496)
Q Consensus       326 ~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~  363 (496)
                      .+||||||||.       .++||||||+|+|||+.+|.
T Consensus       250 ~~i~gGGRYD~-------~~~pAvGFAi~idrli~aL~  280 (281)
T PRK12293        250 STLASGGNYEI-------DGLSSSGFALYTDALIEKLL  280 (281)
T ss_pred             CEEEECCCCCC-------CCCCEEEEEEEHHHHHHHHC
T ss_conf             98951465489-------99843689961999999866


No 12 
>COG3705 HisZ ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism]
Probab=100.00  E-value=0  Score=400.06  Aligned_cols=378  Identities=25%  Similarity=0.353  Sum_probs=285.0

Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCC
Q ss_conf             71037998765886689999999999999999859848016520228875202675543332216898699988999888
Q gi|254780928|r    7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYD   86 (496)
Q Consensus         7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpD   86 (496)
                      |+.++|.|+||.+|.++....+|++.+.+.|.+|||+.|+||++|++|+|....++.  ....+|.|.|..|+.+|||||
T Consensus         1 ~~~~lp~g~rd~Lp~e~~~~~~i~~~l~~~f~~~Gy~~v~tP~lE~~d~~l~~~g~~--l~~~~f~l~d~~g~~l~LRpD   78 (390)
T COG3705           1 MTWQLPEGIRDVLPLEARRKEEIRDQLLALFRAWGYERVETPTLEPADPLLDGAGED--LRRRLFKLEDETGGRLGLRPD   78 (390)
T ss_pred             CCCCCCCCCHHCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHCCCHH--HHHHHEEEECCCCCEEEECCC
T ss_conf             987688752010636776479999999999998087404663134026654022255--552206876578976883543


Q ss_pred             CHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCE
Q ss_conf             83899999995112055411233101333025876444211111000121000024578899999999975188877711
Q gi|254780928|r   87 LTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDYH  166 (496)
Q Consensus        87 lT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~~~  166 (496)
                      +|+|+||.+++.+..  .|.|+||.|+|||..+-..|+..||+|+|+|++|.++..+|||||.+++.+++.+|++  ++.
T Consensus        79 ~T~pVaR~~~~~~~~--~P~Rl~Y~G~Vfr~~~~~~g~~~Ef~QaGiEllG~~~~~ADaEvi~la~~~L~~~gl~--~~~  154 (390)
T COG3705          79 FTIPVARIHATLLAG--TPLRLSYAGKVFRAREGRHGRRAEFLQAGIELLGDDSAAADAEVIALALAALKALGLA--DLK  154 (390)
T ss_pred             CCHHHHHHHHHHCCC--CCCEEEECCHHHHCCHHCCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCC--CEE
T ss_conf             308999999982378--8714664014540201026764204553367737872000289999999999974886--748


Q ss_pred             EECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHHCC
Q ss_conf             30366055899999832560356433455533322001289678998621016500355530489997789988874047
Q gi|254780928|r  167 IGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFLSI  246 (496)
Q Consensus       167 I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  246 (496)
                      |.|||.+++++++..++++..++..    +.+++.               ++.......+....+.+++....+..++..
T Consensus       155 l~LG~~gif~all~~~~l~~~~~~~----L~~a~~---------------~k~~~~~~~~~~~~~~~~~~~~~l~~l~~l  215 (390)
T COG3705         155 LELGHAGIFRALLAAAGLPGGWRAR----LRRAFG---------------DKDLLGLELLVLAAPLSPELRGRLSELLAL  215 (390)
T ss_pred             EEECCHHHHHHHHHHCCCCHHHHHH----HHHHHH---------------CCCHHHHHHHHHCCCCCHHHHHHHHHHHHH
T ss_conf             9945589999999974998669999----999985---------------526666988764148984456889998998


Q ss_pred             -CCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCCE
Q ss_conf             -8568899899860357325888999999999987508884430011010012212341248998546667767666310
Q gi|254780928|r  247 -DLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVVF  325 (496)
Q Consensus       247 -~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~~  325 (496)
                       .+.+.+..+...+........+++++..+.+....++   .++.+|++.+|+.+||||++|+++....          -
T Consensus       216 ~gg~e~l~~~~~~l~~~~~~~~al~~~~~l~di~~~~~---e~i~lDLg~l~~~~YyTg~~F~ay~~~~----------~  282 (390)
T COG3705         216 LGGREVLERARGLLDELMAQGIALNEGRALADIARRLI---EKIALDLGRLRHFDYYTGLVFLAYADGL----------G  282 (390)
T ss_pred             HCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC---HHHEEHHHCCCCCCHHHCEEEEEEECCC----------C
T ss_conf             68888899999764211332024453110999985225---1111163236664312200234652565----------6


Q ss_pred             EEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHCCC
Q ss_conf             11003232355211123456774213311016899999736877665557714899826976899999999999998798
Q gi|254780928|r  326 GSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTAGI  405 (496)
Q Consensus       326 ~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi  405 (496)
                      .++++|||||+|.+.|+. ..||+||++.++.|...      ..+.......+.+.  .........+.++++++|.+|-
T Consensus       283 ~al~~GGRYd~l~~~f~~-~~patGf~~~l~~l~~~------~~~~~~~~~~~~f~--~~~~~~~~~~~e~~~~~r~~g~  353 (390)
T COG3705         283 DALASGGRYDGLLGLFGR-AAPATGFALRLDALAQG------GLPLEERRYAALFG--RELDYYTGAAFEAAQALRLAGG  353 (390)
T ss_pred             CHHHCCCCHHHHHHHCCC-CCCCHHHHHHHHHHHHC------CCCCCCCHHHHCCC--CCCHHHHHHHHHHHHHHCCCCC
T ss_conf             433214220002332276-66640167319999834------78854430222037--5401567799999997242688


Q ss_pred             EEEEEECCCCCHHHHHHHHHHCCCCEEEEEC
Q ss_conf             3999718999988999999877998999988
Q gi|254780928|r  406 RAEMFLGSSKNFGNQLKYADRRNCPLAIIQG  436 (496)
Q Consensus       406 ~~e~~~~~~~sl~~~~~~A~~~g~~~viiig  436 (496)
                      .+-..+..+  ++   .++...++.+.+.+.
T Consensus       354 ~~~~~l~~g--~~---~~~~~~~~~~~~~~~  379 (390)
T COG3705         354 GRYDRLLTG--LG---ASEEIPGVGFSLWLD  379 (390)
T ss_pred             EEEEECCCC--CC---HHHHHCCCCEEEEEC
T ss_conf             078723123--52---076504643067603


No 13 
>KOG1035 consensus
Probab=100.00  E-value=0  Score=332.83  Aligned_cols=421  Identities=19%  Similarity=0.261  Sum_probs=294.6

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHH
Q ss_conf             65886689999999999999999859848016520228875202675543332216898699988999888838999999
Q gi|254780928|r   16 ADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYV   95 (496)
Q Consensus        16 ~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~   95 (496)
                      .++.+....++++|.+.+.++|++||+.+++||.+     ..+..  ....+...+.|.|++|..+.|++|+|.|+|||+
T Consensus       925 ~~~~~~~~~l~~~v~e~~~~ifr~Hga~~l~tpp~-----~~~~~--~~~~~~~~v~~ld~sG~~v~Lp~DLr~pfar~v  997 (1351)
T KOG1035         925 IQYTEINNELREYVVEEVVKIFRKHGAIELETPPL-----SLRNA--CAYFSRKAVELLDHSGDVVELPYDLRLPFARYV  997 (1351)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHCCEECCCCCC-----CCCCC--CCHHCCCEEEEECCCCCEEEEECCCCCHHHHHH
T ss_conf             12114578999999999999999824302167865-----53345--420015403544279978996300124677886


Q ss_pred             HHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCEEECCCCHHH
Q ss_conf             95112055411233101333025876444211111000121000024578899999999975188877711303660558
Q gi|254780928|r   96 AENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDYHIGINNRKIL  175 (496)
Q Consensus        96 ~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~~~I~in~~~il  175 (496)
                      ++|.   .+.+|+|.+++|||.+. .. +|+|++||+|||||.+....|||+|.++++++.. -+...++.|++||..++
T Consensus       998 s~N~---~~~~Kry~i~rVyr~~~-~~-hP~~~~ec~fDii~~t~sl~~AE~L~vi~Ei~~~-~l~~~n~~i~lnH~~LL 1071 (1351)
T KOG1035         998 SRNS---VLSFKRYCISRVYRPAI-HN-HPKECLECDFDIIGPTTSLTEAELLKVIVEITTE-ILHEGNCDIHLNHADLL 1071 (1351)
T ss_pred             HHCH---HHHHHHHHHHEEECCCC-CC-CCCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHH-HHCCCCEEEEECHHHHH
T ss_conf             6052---88877762320344634-58-9840100156675587774078999999999999-86057536995769999


Q ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHH-HHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHHCCCCHHHHHH
Q ss_conf             9999983256035643345553332-200128967899862101650035553048999778998887404785688998
Q gi|254780928|r  176 DGILEKIGLHGDDKLNERLIVLRAI-DKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFLSIDLEKSMHE  254 (496)
Q Consensus       176 ~~il~~lgi~~~~~~~~~~~~~~~i-dkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  254 (496)
                      ++++..||+|.+............. .+..+...+.....+...    +   ...+.+....  ....++.......+..
T Consensus      1072 ~Ai~~~~~i~~~~r~~v~~~l~~~~~~r~~~~~~~~~~~~~~~~----s---~~~~~l~~~~--~~~~~~~~~~~~~l~~ 1142 (1351)
T KOG1035        1072 EAILSHCGIPKDQRRKVAELLSDMGSSRPQRSEKELKWVFIRRS----S---LQLAKLPEFV--LNRLFLVAGRFQALKL 1142 (1351)
T ss_pred             HHHHHHCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH----H---HHHHHHHHHH--HHHHHHHHCCHHHHHH
T ss_conf             99999749988899999999998764363078888788621487----7---8764048998--7323554224345688


Q ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCCC
Q ss_conf             99860357325888999999999987508884430011010012212341248998546667767666310110032323
Q gi|254780928|r  255 LYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRY  334 (496)
Q Consensus       255 l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRY  334 (496)
                      ++..+....... +|++|+.++.++...|+.. .+.|+.++.+.-.-..|++|++...    ...+..+....+|+||||
T Consensus      1143 ~~~~~~~~~~vr-~L~eLe~~~~~~~~~~i~~-~~~i~~g~~~~~~~~~g~~~qi~a~----~~~~~~~~~~~la~GgRy 1216 (1351)
T KOG1035        1143 IRGKLRADSLVR-ALKELENVVGLLRSLGIEE-HVHIYVGPTESRHRNGGIQFQITAE----IKSNTSGDPVLLAAGGRY 1216 (1351)
T ss_pred             HHHHHHHHHHHH-HHHHHHHHHHHHHHHCCCC-CEEEEECCCEEEECCCCEEEEEEEC----CCCCCCCCCEEEECCCCH
T ss_conf             764443567877-7899999999998740145-4588632514677388579999642----568876883244156524


Q ss_pred             CCCCCCCCCCC---C-CCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEE
Q ss_conf             55211123456---7-7421331101689999973687766555771489982697689999999999999879839997
Q gi|254780928|r  335 DGLVSRFKGQN---V-PATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMF  410 (496)
Q Consensus       335 D~L~~~f~~~~---~-pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~  410 (496)
                      |.|+..|++.+   + +|+|.+. +..+...+ ..+......+..++|+||+++  ...+..++.++++||+.||+||+.
T Consensus      1217 d~~~~~~~~~~~~~~p~a~gv~~-~~~~~~~~-~~~~~~~~~~~~cdvlics~g--~~l~t~~~~l~~~LWs~gI~a~i~ 1292 (1351)
T KOG1035        1217 DSLLQEVRDEQKMNLPGAIGVSA-LSTIRQHA-PKDLEPIKTPSSCDVLICSRG--SGLLTQRMELVAKLWSKGIKAEIV 1292 (1351)
T ss_pred             HHHHHHHHHHHHHCCCCCCEEHH-HHHHHHHH-HCCCCCCCCCCCCCEEEEECC--CCHHHHHHHHHHHHHHCCCCCCEE
T ss_conf             77899863566515864210034-68888764-314667778653617999658--714789999999999737630124


Q ss_pred             ECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHHHHHHHHHH
Q ss_conf             1899998899999987799899998872874881899787888364331120144320233510307999999999999
Q gi|254780928|r  411 LGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISELVSTVKKIL  489 (496)
Q Consensus       411 ~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~~~l  489 (496)
                      +++..++..+..||+.--+.+++|+-     +++.+||......                .++..|-.-+|++.+...+
T Consensus      1293 ~~~s~~~~e~~e~~~~~~i~~iliv~-----n~~~~vks~~~e~----------------~se~~~~~~elv~f~~~~~ 1350 (1351)
T KOG1035        1293 PDPSPSLEELTEYANEHEITCILIVT-----NQKEKVKSFELER----------------KSEKVVGRTELVEFLLQAL 1350 (1351)
T ss_pred             ECCCCCHHHHHHHHHCCCEEEEEEEE-----CCEEEECHHHHHH----------------HHHHHHHHHHHHHHHHHHH
T ss_conf             07871068999997457438999973-----5614522457766----------------6666656889999999850


No 14 
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=100.00  E-value=4.9e-36  Score=253.15  Aligned_cols=387  Identities=18%  Similarity=0.234  Sum_probs=234.4

Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCC
Q ss_conf             71037998765886689999999999999999859848016520228875202675543332216898699988999888
Q gi|254780928|r    7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYD   86 (496)
Q Consensus         7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpD   86 (496)
                      |.-+.-.|+..|+|...+++++|++.+++.+.+.||++|.||.+-..+++ +.+|..+....+||.+.|++++.++|+|-
T Consensus        31 ~i~~~~~Gl~~wlP~G~~i~~~le~~ir~e~~~~G~~eV~tP~l~~~~Lw-~~SGh~~~y~~~mf~~~d~~~~~~~l~Pm  109 (438)
T PRK12325         31 MIRQQAAGIYSWLPLGLKVLKKIENIVREEQNRAGAIEILMPTIQPADLW-RESGRYDAYGKEMLRIKDRHDREMLYGPT  109 (438)
T ss_pred             CCCCCCCCCCEECCCHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHH-HHHCCHHHHHHHHCEEECCCCCEECCCCC
T ss_conf             75634687322160589999999999999999749979987765877899-86287645557421213477774313899


Q ss_pred             CHHHHHHHHHHHH-HHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCHHHHH---HHHHHHHHHHHHCC
Q ss_conf             8389999999511-2055411233101333025-87644--4211111000121000024578---89999999997518
Q gi|254780928|r   87 LTAPLARYVAENF-DTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAETADA---EMCMMMADTLEAVG  159 (496)
Q Consensus        87 lT~~~aR~~~~~~-~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~~~Da---Eii~l~~~~l~~lg  159 (496)
                      -.+.++..+.... ....+|+|+|++|++||+| +|..|  |.|||+|-++.+|..+...+..   .+..+..+++++||
T Consensus       110 nc~~~~~i~~~~~~SYRdLPlrl~q~g~~~R~E~sp~~GLlRvReF~m~Dah~F~~~~e~~~~~~~~v~~~y~~if~~lg  189 (438)
T PRK12325        110 NEEMITDIFRSYVKSYKDLPLNLYHIQWKFRDEIRPRFGVMRGREFLMKDAYSFDLDEEGARKSYNRMFVAYLRTFKRLG  189 (438)
T ss_pred             CCHHHHHHHHHCCCCHHHCCHHHHHHHHEECCCCCCCCCCCEEEEEECCCHHHCCCCHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             84999999974034265425788764440112026764410122333041543246889999999999999999999809


Q ss_pred             CCCCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHH
Q ss_conf             88777113036605589999983256035643345553332200128967899862101650035553048999778998
Q gi|254780928|r  160 IKRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDI  239 (496)
Q Consensus       160 l~~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~  239 (496)
                      ++.  +.++... +.+       |-...   ..+..+..       .+.+.+   +...   ...+.    .....    
T Consensus       190 l~~--~~v~ad~-g~i-------gg~~s---~Ef~~~~~-------~ged~i---~~~~---~~~~~----~~~~~----  235 (438)
T PRK12325        190 LKA--IPMRADT-GPI-------GGDLS---HEFHILAE-------TGESTV---FYDK---DFLDL----PVPGE----  235 (438)
T ss_pred             CCE--EEEEECC-CCC-------CCCCH---HHHHHHHH-------CCCHHE---EECH---HHHHC----CCCCC----
T ss_conf             944--8998236-766-------77512---67476652-------265024---6613---33422----56765----


Q ss_pred             HHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCC-CHHHCCCCCCCCCEEEEEEECCCCCCC
Q ss_conf             8874047856889989986035732588899999999998750888443001-101001221234124899854666776
Q gi|254780928|r  240 MVSFLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKI-SSTIVRGLEYYTGCVYEAILGFPVMNE  318 (496)
Q Consensus       240 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~-Dl~lvRgLdYYTG~vFE~~~~~~~~~~  318 (496)
                           ..+....+...........   ...+++.   +. ..++    .+.- ++...||.+  .|.+|..         
T Consensus       236 -----~~~~~~~~~~~~~~~~~~~---~~~~~~~---~~-~~~~----~~~~~~~~~~~~iE--vG~if~l---------  288 (438)
T PRK12325        236 -----DIDYDADLQDIVDEWTSLY---AATDEMH---DE-AKFA----AVPEERRLSARGIE--VGHIFYF---------  288 (438)
T ss_pred             -----CCCHHHHHHHHHHHHHHHH---HHHHHHC---CH-HHCC----CCCHHHHEECCCEE--EEEEEEC---------
T ss_conf             -----5462356678998887650---3466434---67-5537----66756630113303--3124304---------


Q ss_pred             CCCCCCEEEECCCCCCCCC-CCCC---CCCCCCC--CEEEECCHHHHHHHHHCCC-----CCCCCCCCCEEEEEEECC-C
Q ss_conf             7666310110032323552-1112---3456774--2133110168999997368-----776655577148998269-7
Q gi|254780928|r  319 KQKPVVFGSVGGGGRYDGL-VSRF---KGQNVPA--TGFSIGISRLIVALKSLES-----STNNIKEMGPVLITTMDH-D  386 (496)
Q Consensus       319 ~~~~~~~~aI~~GGRYD~L-~~~f---~~~~~pa--vGfaigverl~~~l~~~~~-----~~~~~~~~~~v~V~~~~~-~  386 (496)
                                  |=+|..= -..|   .|+..|.  .-|+||+||++.++.++.+     ..|.+-+|.+|.|+++.. +
T Consensus       289 ------------g~~ys~~~~~~~~~~dg~~~~~~m~~~GIgieR~ia~liE~~~d~~G~~wP~wlAP~QV~Iipi~~~~  356 (438)
T PRK12325        289 ------------GTKYSEPMNAKVQGPDGKEVPVHMGSYGIGVSRLVAAIIEASHDDKGIIWPESVAPFKVGIINLKQGD  356 (438)
T ss_pred             ------------CCCCCHHCCCCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEEEEECCCC
T ss_conf             ------------53015220674448777732225541334287899999998364688546767486579999706997


Q ss_pred             HHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHH
Q ss_conf             68999999999999987983999718999988999999877998999988728748818997878883643311201443
Q gi|254780928|r  387 SDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESW  466 (496)
Q Consensus       387 ~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~  466 (496)
                      ......|.+++++|.++||+|.++.. +.++++.++.|+..|+||+||||++|+++|+|+||+..++++           
T Consensus       357 ~~~~~~A~~l~~~L~~~girv~~Ddr-~e~lG~Kir~a~l~giPy~ivVG~ke~e~g~V~vR~R~~~~~-----------  424 (438)
T PRK12325        357 AACDAACEKLYAALTAAGVDVLYDDT-DERAGAKFATMDLIGLPWQIIVGPKGLAEGKVELKDRKTGER-----------  424 (438)
T ss_pred             HHHHHHHHHHHHHHHHCCCEEEEECC-CCCHHHHHHHHHHCCCCEEEEEECCHHHCCEEEEEECCCCCE-----------
T ss_conf             99999999999999978998999899-999729999998669998999907805469899999889960-----------


Q ss_pred             HHCCCCCEEECHHHHHHHHH
Q ss_conf             20233510307999999999
Q gi|254780928|r  467 REARVAQITIPISELVSTVK  486 (496)
Q Consensus       467 ~~~~~~q~~v~~~~l~~~~~  486 (496)
                             .+||++++++.|+
T Consensus       425 -------~~v~ide~i~~lk  437 (438)
T PRK12325        425 -------EELSVEAAINRLK  437 (438)
T ss_pred             -------EEEEHHHHHHHHC
T ss_conf             -------6764999999860


No 15 
>TIGR00443 hisS_second histidyl-tRNA synthetase 2, putative; InterPro: IPR004517   The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases .   Histidyl-tRNA synthetase (6.1.1.21 from EC) is an alpha2 dimer that belongs to class IIa (see IPR004516 from INTERPRO). Every completed genome includes a histidyl-tRNA synthetase. Apparent second copies from Bacillus subtilis, Synechocystis spp., and Aquifex aeolicus are slightly shorter, more closely related to each other than to other hisS proteins, and not demonstrated to act as histidyl-tRNA synthetases. The regulatory protein kinase GCN2 of Saccharomyces cerevisiae (YDR283c), and related proteins from other species designated eIF-2 alpha kinase, have a domain closely related to histidyl-tRNA synthetase that may serve to detect and respond to uncharged tRNA(his), an indicator of amino acid starvation, but these regulatory proteins are not orthologous.   An unusual feature is that this putative second HisS is shorter at the C-terminus. It shows greater similarity to archaeal HisS than to other bacterial HisS. There is reason by analogy to suspect this second HisS may have a function other than (or in addition to) ligating His to its tRNA: the protein kinase DGCN2 of Drosophila has a C-terminal domain related to HisS that appears to detect uncharged tRNA(his), an indicator of amino acid starvation, and respond by phosphorylating eIF-2alpha.; GO: 0000105 histidine biosynthetic process, 0005737 cytoplasm.
Probab=100.00  E-value=2.9e-37  Score=261.15  Aligned_cols=385  Identities=24%  Similarity=0.348  Sum_probs=275.4

Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCC-CCEEEECC
Q ss_conf             71037998765886689999999999999999859848016520228875202675543332216898699-98899988
Q gi|254780928|r    7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDD-GQWISLRY   85 (496)
Q Consensus         7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~-g~~l~LRp   85 (496)
                      |+...|.|.+|++|.+......+.+.+.++|.+|||+.+.+|.+|+++.....++.   ..++++.+.|.+ +..++|||
T Consensus         1 ~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~d~~~~~~~~l~~   77 (414)
T TIGR00443         1 FKFEPPAGERDLLPGEYELKKKINKKLTDLFDKWGYQFIETSTLEWYDTLGLGGAI---GAKELIKLLDSGTGGTLGLRP   77 (414)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCCCCCHHHHHHHCCCC---CHHHHHEEECCCCCCCEEECC
T ss_conf             96665554034445677788899889999998614012101322112333210110---000210000034554021122


Q ss_pred             CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCC-CCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             883899999995112055411233101333025-8764442111110001210000245788999999999751888777
Q gi|254780928|r   86 DLTAPLARYVAENFDTIVFPCRTYRIGPVFRNE-KHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRND  164 (496)
Q Consensus        86 DlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e-~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~  164 (496)
                      |+|.+++|..+.+......|.|.||.++|||.+ ....||.-||.|.|+|++|..+..+|+|++.++.++++.+|+.  +
T Consensus        78 ~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~p~~~~g~~~~~~~~g~~l~~~~~~~~d~~~~~~~~~~l~~~gl~--~  155 (414)
T TIGR00443        78 DLTGPIARAAVSKLLDNGLPERVGYFANVFRLPPEGYGGRGFEFLQAGVELLGDGGVLADAEVLLLLTGCLKSLGLA--D  155 (414)
T ss_pred             CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCH--H
T ss_conf             20146889999887623661133222111026753345654123442023210343012578999999988631501--3


Q ss_pred             CEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             11303660558999998325603564334555333220012896789986210165003555304899977899888740
Q gi|254780928|r  165 YHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFL  244 (496)
Q Consensus       165 ~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (496)
                      +.+-++|.++.+.++...--.-.    ......+.+..++....               .+..+..+.+......+..++
T Consensus       156 ~~~~~~~~g~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~---------------~~~~~~~p~~~~~~~~~~~~~  216 (414)
T TIGR00443       156 WKLILGHAGLARALLDELPGLLE----RAAFLRRCLEELDYVGG---------------REHVKSLPLPDEDKNDLLELL  216 (414)
T ss_pred             HHHHHHCCHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH---------------HHHHHHCCCCCHHHHHHHHHH
T ss_conf             45554101046788775333456----77888888888776543---------------344531577402467888888


Q ss_pred             CCCC--HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHC--CCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCC
Q ss_conf             4785--6889989986035732588899999999998750--88844300110100122123412489985466677676
Q gi|254780928|r  245 SIDL--EKSMHELYELVKGTIAGEKGFNELVVISELVRKS--GYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQ  320 (496)
Q Consensus       245 ~~~~--~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~--gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~  320 (496)
                      ....  .+.+..+.+ +.........++++..+...+..+  |.. ..+.+|++.++.++||||++||++..        
T Consensus       217 ~~~~~~~~~~~~~~~-~~~~~~~~~~~d~l~~l~~~~~~~gdg~~-~~~~~dl~~~~~~~~~~g~~~~~~~~--------  286 (414)
T TIGR00443       217 ELRGTGPEVLGRLEK-LDLEGEGLGLVDELLALGDLLEDFGDGPT-ENLALDLGWVRPFPYYTGVLFEVYAL--------  286 (414)
T ss_pred             HHCCCHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHCCCCC-HHHHHHHHHHCCCCHHHHHHHHHHHH--------
T ss_conf             740422788766654-43211112368999999999986157731-12322123312453023366655441--------


Q ss_pred             CCCCEEEECCCCCCCCCCCCCCCCC--CCCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHH
Q ss_conf             6631011003232355211123456--77421331101689999973687766555771489982697689999999999
Q gi|254780928|r  321 KPVVFGSVGGGGRYDGLVSRFKGQN--VPATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQ  398 (496)
Q Consensus       321 ~~~~~~aI~~GGRYD~L~~~f~~~~--~pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~  398 (496)
                      ..+.--.+++|||||+|.+.|+.+.  .|++||++.+++++.++......+. ...+.+.+|+  +.+..  .....++.
T Consensus       287 ~~~~c~~~~~gg~~~~l~~~~~~~~~~~p~~g~~~~~~~l~~~l~~~~~~p~-~~~~~d~~~~--~~~~~--~~~~~~~~  361 (414)
T TIGR00443       287 KAGNCFVLGGGGRYDKLLGHYGPPYQSFPATGFGLNLERLLECLPKLGTLPT-EPCPIDYLVC--PKDDK--AEGLALAD  361 (414)
T ss_pred             CCCCEEEEECCCCHHHHHHHCCCCHHCCCCCCCHHHHHHHHHHHHHCCCCCC-CCCCCCEEEE--CCHHH--HHHHHHHH
T ss_conf             2575367506741234554316300014666520228889998752166665-4233322662--33023--45667776


Q ss_pred             HHHHCCCE--EEEEECCCCCHHHHHHHHHHCCCC
Q ss_conf             99987983--999718999988999999877998
Q gi|254780928|r  399 MLRTAGIR--AEMFLGSSKNFGNQLKYADRRNCP  430 (496)
Q Consensus       399 ~Lr~~Gi~--~e~~~~~~~sl~~~~~~A~~~g~~  430 (496)
                      ..+..|-+  +.+....+.....++-++-..+..
T Consensus       362 ~~~~~~~~pd~~~~~~~~~~~~~~~~~~~~~~~~  395 (414)
T TIGR00443       362 AERLKGKKPDVGLELLLGGGLEPELLKAFAKGFK  395 (414)
T ss_pred             HHHHHCCCCCCHHHHHHCCCCCHHHHHHHHHHHH
T ss_conf             7875035764111111113420467777664334


No 16 
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=100.00  E-value=8.2e-34  Score=238.73  Aligned_cols=367  Identities=19%  Similarity=0.271  Sum_probs=243.3

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHH
Q ss_conf             79987658866899999999999999998598480165202288752026755433322168986999889998888389
Q gi|254780928|r   11 LPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAP   90 (496)
Q Consensus        11 ~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~   90 (496)
                      .-.|+..|+|..+.+++.+++.+++...++||++|.||.+-..+++ +.+|..+.....||...+.+++.++|+|--.+.
T Consensus       256 ~~pGl~~w~P~G~~i~~~le~~~r~~~~~~Gy~eV~TP~i~~~~Lw-~~SGHw~~Y~e~Mf~~~~~~~~~~~lKPMNCP~  334 (639)
T PRK00413        256 EGPGLPFWHPKGWIIRNELEDYMRRRHLKAGYQEVNTPHILDRSLW-ETSGHWDHYRENMFPTMSDDGEDYALKPMNCPG  334 (639)
T ss_pred             CCCCCEEECCCHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHH-HHCCCHHHHCCCCCCCEECCCCEEEECCCCCCC
T ss_conf             6887646637689999999999999999869859836413468899-654742232254223240152103204668700


Q ss_pred             HHHHHHHH-HHHCCCCHHHHHHHHHHCCCCCCC--C--CCCCCCCCCHHHHHCCCHHH-HH-HHHHHHHHHHHHCCCCCC
Q ss_conf             99999951-120554112331013330258764--4--42111110001210000245-78-899999999975188877
Q gi|254780928|r   91 LARYVAEN-FDTIVFPCRTYRIGPVFRNEKHGP--G--RFRQFIQCDVDNVGSSAETA-DA-EMCMMMADTLEAVGIKRN  163 (496)
Q Consensus        91 ~aR~~~~~-~~~~~~p~k~yy~g~vfR~e~p~~--G--r~REf~Q~g~eiiG~~~~~~-Da-Eii~l~~~~l~~lgl~~~  163 (496)
                      -+-++... .+...+|+|++.+|.|||||.++.  |  |.|.|+|-|+.||...+... |. .++.++.++++.||++  
T Consensus       335 H~~if~~~~~SYRdLPlR~aEfg~~~R~E~SG~L~GL~RvR~FtqdDaHIFc~~dQi~~Ei~~~l~~~~~vy~~fGf~--  412 (639)
T PRK00413        335 HILIFKSGLRSYRELPLRLAEFGTVHRYEKSGALHGLMRVRGFTQDDAHIFCTPEQIKDELLSVLDLILSVYKDFGLT--  412 (639)
T ss_pred             HHHHHHCCCCCHHHCCHHHHHHHHHHCCCCCCCCCCEEEEEEEECCCCEEECCHHHHHHHHHHHHHHHHHHHHHCCCC--
T ss_conf             335644355355547556664113205677874456423300001584132478999999999999999999974998--


Q ss_pred             CCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             71130366055899999832560356433455533322001289678998621016500355530489997789988874
Q gi|254780928|r  164 DYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSF  243 (496)
Q Consensus       164 ~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (496)
                      ++.++++.+.  +   ..+|-++.+...                .+.++..+.+...    .+....+...-..+++   
T Consensus       413 ~~~~~lStrp--e---k~~g~~e~W~~A----------------e~~L~~al~~~g~----~y~~~~GegAFYGPKI---  464 (639)
T PRK00413        413 DYYLELSTRP--E---KRVGSDELWEKA----------------TEALREALEESGL----EYVENPGEGAFYGPKI---  464 (639)
T ss_pred             EEEEEEECCC--C---CCCCCHHHHHHH----------------HHHHHHHHHHCCC----CEEECCCCCCEECCEE---
T ss_conf             0389996475--1---135888999999----------------9999999997499----8087888611110166---


Q ss_pred             HCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCC--CCCCCCEEEEEEECCCCCCCCCC
Q ss_conf             0478568899899860357325888999999999987508884430011010012--21234124899854666776766
Q gi|254780928|r  244 LSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRG--LEYYTGCVYEAILGFPVMNEKQK  321 (496)
Q Consensus       244 ~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRg--LdYYTG~vFE~~~~~~~~~~~~~  321 (496)
                           +             .....++..         .+.+  .-|.+|+.+..-  |.| ++          ..+...+
T Consensus       465 -----D-------------~~~~DalgR---------~wq~--~TiQlDf~lPerF~l~Y-~~----------~dg~~~~  504 (639)
T PRK00413        465 -----D-------------VQLKDAIGR---------TWQC--GTIQLDFNLPERFDLEY-IA----------ADGEKHR  504 (639)
T ss_pred             -----E-------------EEEECCCCC---------EEEC--CHHHHHHCCHHHCCCEE-EC----------CCCCCCC
T ss_conf             -----7-------------785144687---------1320--02332222454248889-98----------8898163


Q ss_pred             CCCE-EEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHC-CCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHH
Q ss_conf             6310-1100323235521112345677421331101689999973-6877665557714899826976899999999999
Q gi|254780928|r  322 PVVF-GSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSL-ESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQM  399 (496)
Q Consensus       322 ~~~~-~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~-~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~  399 (496)
                      |+.+ +||                    .|   .+||++.+|.++ ....|.+-+|.+|.|+++  ......+|.++.+.
T Consensus       505 PVmIHRAi--------------------~G---S~ERfiaiLiEh~~G~~P~WLaP~Qv~IipV--~~~~~~ya~~v~~~  559 (639)
T PRK00413        505 PVMIHRAI--------------------FG---SIERFIGILIEHYAGAFPLWLAPVQVVVIPI--TDEHADYAKEVAKA  559 (639)
T ss_pred             EEEEEECC--------------------CC---CHHHHHHHHHHHHCCCCCCCCCCCEEEEEEC--CHHHHHHHHHHHHH
T ss_conf             08999525--------------------56---5899999999980898873657615899961--84789999999999


Q ss_pred             HHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHH
Q ss_conf             99879839997189999889999998779989999887287488189978788836433112014432023351030799
Q gi|254780928|r  400 LRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPIS  479 (496)
Q Consensus       400 Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~  479 (496)
                      |+++|++|+++.. +.++++.++.|...++||++|||++|.++|+|.||....++                  +.++|++
T Consensus       560 l~~~giRv~vD~~-~e~l~~KIR~a~~~kiPy~~VvGdkE~~~~~VsvR~r~~~~------------------~~~~~~~  620 (639)
T PRK00413        560 LRDAGIRVEVDLR-NEKIGYKIREAQLQKVPYMLVVGDKEVEAGTVSVRRRGGGD------------------LGTMPVD  620 (639)
T ss_pred             HHHCCCEEEEECC-CCCHHHHHHHHHHCCCCEEEEEEHHHHHCCEEEEEECCCCC------------------CCEEEHH
T ss_conf             9978988999789-98575999998653799899980036535958999778972------------------4656899


Q ss_pred             HHHHHHHHHHHHH
Q ss_conf             9999999999864
Q gi|254780928|r  480 ELVSTVKKILQEN  492 (496)
Q Consensus       480 ~l~~~~~~~l~~~  492 (496)
                      ++++.+++-++..
T Consensus       621 efi~~l~~ei~~r  633 (639)
T PRK00413        621 EFVEKIKEEIARR  633 (639)
T ss_pred             HHHHHHHHHHHHH
T ss_conf             9999999999875


No 17 
>PRK12304 thrS threonyl-tRNA synthetase; Reviewed
Probab=100.00  E-value=4e-33  Score=234.25  Aligned_cols=367  Identities=17%  Similarity=0.236  Sum_probs=241.6

Q ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHH
Q ss_conf             37998765886689999999999999999859848016520228875202675543332216898699988999888838
Q gi|254780928|r   10 ELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTA   89 (496)
Q Consensus        10 ~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~   89 (496)
                      ....|+..|+|..+.+++.+++.+++...++||++|.||.+-..+++ +.+|..+....+|| +.+.+++..+|+|--.+
T Consensus       226 ~~g~G~~~wlP~G~~i~~~le~~~r~~~~~~Gy~eV~TP~i~~~~Lw-~~SGH~~~Y~e~Mf-~~~~d~~~y~lKPMNCP  303 (604)
T PRK12304        226 EIGAGLPIWLPKGARLRSKLEHLLYKAHRLRGYEPVRGPEILKSDVW-KISGHYANYKENMY-FTTIDEQEYGIKPMNCV  303 (604)
T ss_pred             CCCCCCEEECCCHHHHHHHHHHHHHHHHHHCCCEEECCCCCCCHHHH-HCCCHHHHHCCCCC-EEECCCCEEECCCCCCH
T ss_conf             45887536837754999999999999999829968038654558887-30551532105764-45057743303677957


Q ss_pred             HHHHHHHHH-HHHCCCCHHHHHHHHHHCCCCCC--CC--CCCCCCCCCHHHHHCCCHHHH-H-HHHHHHHHHHHHCCCCC
Q ss_conf             999999951-12055411233101333025876--44--421111100012100002457-8-89999999997518887
Q gi|254780928|r   90 PLARYVAEN-FDTIVFPCRTYRIGPVFRNEKHG--PG--RFRQFIQCDVDNVGSSAETAD-A-EMCMMMADTLEAVGIKR  162 (496)
Q Consensus        90 ~~aR~~~~~-~~~~~~p~k~yy~g~vfR~e~p~--~G--r~REf~Q~g~eiiG~~~~~~D-a-Eii~l~~~~l~~lgl~~  162 (496)
                      .-+-++.+. .+...+|+|++.+|.|||+|.++  .|  |.|.|+|-|+.||...+...+ . .++.++.++++.||++ 
T Consensus       304 ~H~~if~~~~rSYRdLPlR~aEfg~~hR~E~SG~L~GL~RvR~FtqDDaHIFc~~dQi~~Ei~~~l~~~~~vy~~fGf~-  382 (604)
T PRK12304        304 GHIKVYQSDLRSYRDLPLKFFEYGVVHRHEKSGVLHGLFRVREFTQDDAHIFCMPSQIKEEVLEILDFVDKIMKAFDFS-  382 (604)
T ss_pred             HHHHHHHCCCCCHHHCCHHHHHCCCEECCCCCCCCCCCCCCCCCCCCCCEEECCHHHHHHHHHHHHHHHHHHHHHCCCE-
T ss_conf             4999986277444435555454353202677766346455778977884465489999999999999999999745961-


Q ss_pred             CCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHH
Q ss_conf             77113036605589999983256035643345553332200128967899862101650035553048999778998887
Q gi|254780928|r  163 NDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVS  242 (496)
Q Consensus       163 ~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  242 (496)
                        +.+.++.+.=     ..+|-.+.+...                .+.++..|.+...    ++....+...-..+++. 
T Consensus       383 --~~~~lstrpe-----k~~G~de~W~~A----------------e~~L~~aL~~~g~----~y~~~~GegAFYGPKID-  434 (604)
T PRK12304        383 --YEMEISTKPA-----KAIGDDEVWEKA----------------TKALKEALDENGL----KYGIDEGGGAFYGPKID-  434 (604)
T ss_pred             --EEEEECCCCC-----CCCCCHHHHHHH----------------HHHHHHHHHHCCC----CCCCCCCCCCCEECCEE-
T ss_conf             --9999768863-----347988999999----------------9999999996499----86657485520321101-


Q ss_pred             HHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCC-CCCCEEEEEEECCCCCCCCCC
Q ss_conf             4047856889989986035732588899999999998750888443001101001221-234124899854666776766
Q gi|254780928|r  243 FLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLE-YYTGCVYEAILGFPVMNEKQK  321 (496)
Q Consensus       243 ~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLd-YYTG~vFE~~~~~~~~~~~~~  321 (496)
                                          .....++..--+           ..-|.+|+.+..-++ .|++          ..+...+
T Consensus       435 --------------------~~v~DalgR~wq-----------~~TIQlDf~lPeRF~l~Y~~----------~dg~~~r  473 (604)
T PRK12304        435 --------------------IKITDALKRKWQ-----------CGTIQVDFNLPERFKLEYTD----------ENNEKKQ  473 (604)
T ss_pred             --------------------EEEECCCCCHHH-----------HHHHHHHHHCHHHCCCEEEC----------CCCCCCC
T ss_conf             --------------------798622488988-----------77888876364315738988----------8998367


Q ss_pred             CCCE-EEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHC-CCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHH
Q ss_conf             6310-1100323235521112345677421331101689999973-6877665557714899826976899999999999
Q gi|254780928|r  322 PVVF-GSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSL-ESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQM  399 (496)
Q Consensus       322 ~~~~-~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~-~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~  399 (496)
                      |+.+ +||.|                       .+||++.+|.++ ....|.+-+|.+|.|+++  ......+|.+++..
T Consensus       474 PVmIHRAilG-----------------------S~ERfiaiLiEh~~G~~P~WLaP~Qv~IipV--~~~~~~YA~~v~~~  528 (604)
T PRK12304        474 PVMIHRAILG-----------------------SFERFIGILTEHFAGEFPFFIAPTQVAIVPI--NEAHHVYAKELQKE  528 (604)
T ss_pred             CEEEEEECCC-----------------------CHHHHHHHHHHHCCCCCCCCCCCCEEEEEEC--CHHHHHHHHHHHHH
T ss_conf             7899720357-----------------------7899999999980899985757616899960--77789999999999


Q ss_pred             HHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHH
Q ss_conf             99879839997189999889999998779989999887287488189978788836433112014432023351030799
Q gi|254780928|r  400 LRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPIS  479 (496)
Q Consensus       400 Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~  479 (496)
                      |+++|++|+++.. +.++++.++.|...++||++|||++|+++|+|.||....++                  +.++|++
T Consensus       529 L~~~girv~~D~~-~e~l~~KIR~a~~~kiPy~lVvGdkE~~~~~vsvR~r~~~~------------------~~~~~~~  589 (604)
T PRK12304        529 LLKLDIDSEVYDK-NESLNKKIRTAEKQRVPMILVLGDEEVENRSVAIRDRRARE------------------QYNLSLD  589 (604)
T ss_pred             HHHCCCEEEEECC-CCCHHHHHHHHHHCCCCEEEEEEHHHHHCCEEEEEECCCCC------------------CCEEEHH
T ss_conf             9988987997389-99776999997643899899984467655968899778874------------------5706299


Q ss_pred             HHHHHHHHHHHHH
Q ss_conf             9999999999864
Q gi|254780928|r  480 ELVSTVKKILQEN  492 (496)
Q Consensus       480 ~l~~~~~~~l~~~  492 (496)
                      ++++.+++-+++.
T Consensus       590 efi~~l~~eI~~~  602 (604)
T PRK12304        590 EFLNLVKEKMSEV  602 (604)
T ss_pred             HHHHHHHHHHHHC
T ss_conf             9999999997442


No 18 
>PRK04483 threonyl-tRNA synthetase; Validated
Probab=100.00  E-value=1.4e-33  Score=237.20  Aligned_cols=362  Identities=14%  Similarity=0.207  Sum_probs=233.7

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHH
Q ss_conf             79987658866899999999999999998598480165202288752026755433322168986999889998888389
Q gi|254780928|r   11 LPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAP   90 (496)
Q Consensus        11 ~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~   90 (496)
                      .-.|+..|+|....+++.+++.+++...++||++|.||.+-..+++ +.+|..+.....|| +.+..++.++|+|--.+.
T Consensus       259 ~~pG~~~wlP~G~~i~~~le~~~r~~~~~~Gy~eV~tP~i~~~~Lw-~~SGH~~~Y~e~Mf-~~~~~~~~~~lKPMNCP~  336 (634)
T PRK04483        259 EAPGLVFWHPKGWSLWQVVEQYMRKVYRDSGYGEVRCPQILDVSLW-QKSGHWDNYQDAMF-FTESEKRTYAVKPMNCPG  336 (634)
T ss_pred             CCCCCEEECCCHHHHHHHHHHHHHHHHHHCCCEEEECCEECCHHHH-HHCCCHHHHHHCCC-EECCCCCEEEECCCCCHH
T ss_conf             7886438816689999999999999999829959988625137787-62561645530371-342554035515768564


Q ss_pred             HHHHHHHH-HHHCCCCHHHHHHHHHHCCCCCC--CC--CCCCCCCCCHHHHHCCCHHH-HH-HHHHHHHHHHHHCCCCCC
Q ss_conf             99999951-12055411233101333025876--44--42111110001210000245-78-899999999975188877
Q gi|254780928|r   91 LARYVAEN-FDTIVFPCRTYRIGPVFRNEKHG--PG--RFRQFIQCDVDNVGSSAETA-DA-EMCMMMADTLEAVGIKRN  163 (496)
Q Consensus        91 ~aR~~~~~-~~~~~~p~k~yy~g~vfR~e~p~--~G--r~REf~Q~g~eiiG~~~~~~-Da-Eii~l~~~~l~~lgl~~~  163 (496)
                      -+-++.+. .+...+|+|++.+|.|||||+++  .|  |.|.|+|-|+.||...+... +. .++.++.++++.||++  
T Consensus       337 H~~if~~~~rSYRdLPlR~aE~g~~~R~E~SG~L~GL~RvR~FtqdDaHIFc~~dQi~~Ei~~~l~~~~~vy~~fGf~--  414 (634)
T PRK04483        337 HVQVFNQGLHSYRDLPIRYGEFGACHRNEPSGALHGILRVRGFTQDDGHVFCLESQIEAEVTAFHQQALAVYTAFGFD--  414 (634)
T ss_pred             HHHHHHCCCCCHHHCCHHHHHCCCEEECCCCCCCCCCCCCCCCCCCCCEEECCHHHHHHHHHHHHHHHHHHHHHCCCC--
T ss_conf             879987177444434366554330220567765457456889988983356389999999999999999999863995--


Q ss_pred             CCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             71130366055899999832560356433455533322001289678998621016500355530489997789988874
Q gi|254780928|r  164 DYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSF  243 (496)
Q Consensus       164 ~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (496)
                      ++.++++.+.-     ..+|-+..                    |+.....|.+..        ...++.         +
T Consensus       415 ~~~~~lStrpe-----k~~G~~~~--------------------W~~AE~~L~~al--------~~~g~~---------y  452 (634)
T PRK04483        415 DIQIKIALRPE-----KRLGDDAT--------------------WDKAEAALRSAL--------GVCGVE---------W  452 (634)
T ss_pred             EEEEEECCCCC-----CCCCCHHH--------------------HHHHHHHHHHHH--------HHCCCC---------C
T ss_conf             38999635762-----34587556--------------------889999999999--------974987---------0


Q ss_pred             HCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCC-CCCEEEEEEECCCCCCCCCCC
Q ss_conf             0478568899899860357325888999999999987508884430011010012212-341248998546667767666
Q gi|254780928|r  244 LSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEY-YTGCVYEAILGFPVMNEKQKP  322 (496)
Q Consensus       244 ~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdY-YTG~vFE~~~~~~~~~~~~~~  322 (496)
                      ....++.++--  ..+.  .....++.         +.+-  ..-|.+|+.+..-++. |++          ..+...+|
T Consensus       453 ~~~~GegAFYG--PKID--~~v~Dalg---------R~~q--~~TiQlDf~lP~rF~l~Y~~----------~dg~~~rP  507 (634)
T PRK04483        453 QELPGEGAFYG--PKIE--YHLKDAIG---------RTWQ--LGTMQVDFMMPGRLGAEYVD----------ENSQKKHP  507 (634)
T ss_pred             EECCCCCCEEC--CCEE--EEEEECCC---------CEEE--CCEEEEECCCCCCCCCEEEC----------CCCCCCCE
T ss_conf             77679701056--6228--99992799---------8674--11457621453436778985----------68983860


Q ss_pred             CCE-EEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHC-CCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHH
Q ss_conf             310-1100323235521112345677421331101689999973-68776655577148998269768999999999999
Q gi|254780928|r  323 VVF-GSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSL-ESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQML  400 (496)
Q Consensus       323 ~~~-~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~-~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~L  400 (496)
                      +.+ +||                    .|   .+||++.+|.++ ....|.+-+|.+|.|+++  ......+|.++++.|
T Consensus       508 vmIHRAi--------------------lG---S~ERfi~iLiEh~~G~fP~WLaP~Qv~iipv--~~~~~~ya~~v~~~L  562 (634)
T PRK04483        508 VMLHRAI--------------------VG---SMERFIGILIEHHAGAFPAWLAPVQVVVANI--TDAQAEYVDSVRKTL  562 (634)
T ss_pred             EEEEECC--------------------CC---CHHHHHHHHHHHCCCCCCCCCCCCEEEEEEC--CHHHHHHHHHHHHHH
T ss_conf             8999457--------------------67---7899999999973798985768735899955--804899999999999


Q ss_pred             HHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHH
Q ss_conf             98798399971899998899999987799899998872874881899787888364331120144320233510307999
Q gi|254780928|r  401 RTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISE  480 (496)
Q Consensus       401 r~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~  480 (496)
                      +++|++|+++.. +.++++.++.|...++||++|||++|+++|+|.||+...+++                  .++|+++
T Consensus       563 ~~~g~rv~vD~~-~e~lg~KIR~a~~~kiPy~lVvG~kE~e~~~VsvR~r~~~~~------------------~~~~~~~  623 (634)
T PRK04483        563 ANQGFRVSADLR-NEKIGYKIREHTLQRVPYLLVVGDREKENGAVAVRTRSGEDL------------------GTMTVSA  623 (634)
T ss_pred             HHCCCEEEEECC-CCCHHHHHHHHHHCCCCEEEEECHHHHHCCEEEEEECCCCCC------------------CEEEHHH
T ss_conf             978978999789-985749999874338998999812566459789997789745------------------7156999


Q ss_pred             HHHHHHH
Q ss_conf             9999999
Q gi|254780928|r  481 LVSTVKK  487 (496)
Q Consensus       481 l~~~~~~  487 (496)
                      +++.+++
T Consensus       624 fi~~l~~  630 (634)
T PRK04483        624 FIERLQA  630 (634)
T ss_pred             HHHHHHH
T ss_conf             9999998


No 19 
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=100.00  E-value=9.3e-33  Score=231.89  Aligned_cols=368  Identities=16%  Similarity=0.165  Sum_probs=233.5

Q ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHH
Q ss_conf             37998765886689999999999999999859848016520228875202675543332216898699988999888838
Q gi|254780928|r   10 ELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTA   89 (496)
Q Consensus        10 ~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~   89 (496)
                      ....|+..|+|..+.+++.+++.+++...++||++|.||.+-..++ +..+|..+....+||.-.+..++.++|+|--.+
T Consensus       195 ~~gpG~~~wlP~G~~i~~~le~~~r~~~~~~Gy~eV~TP~i~~~~L-w~~SGH~~~Y~e~Mf~~~~~~~e~~~lKPMNCP  273 (576)
T PRK12305        195 LAGQGFPIWLENGMIIKNAIRKFILELDRKYGFDEVLTPHFGEKKL-YKTSGHLDHYKDDMFKPLKIENEELIPRPMTCP  273 (576)
T ss_pred             CCCCCCEEECCCHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHH-HHHCCCHHHHHHHCCCCEECCCCEEEECCCCCH
T ss_conf             4688764674767899999999999999986998984642142889-976664655664257306315641653577863


Q ss_pred             HHHHHHHHH-HHHCCCCHHHHHHHHHHCCCCCC--CC--CCCCCCCCCHHHHHCCCHHH-HH-HHHHHHHHHHHHCCCCC
Q ss_conf             999999951-12055411233101333025876--44--42111110001210000245-78-89999999997518887
Q gi|254780928|r   90 PLARYVAEN-FDTIVFPCRTYRIGPVFRNEKHG--PG--RFRQFIQCDVDNVGSSAETA-DA-EMCMMMADTLEAVGIKR  162 (496)
Q Consensus        90 ~~aR~~~~~-~~~~~~p~k~yy~g~vfR~e~p~--~G--r~REf~Q~g~eiiG~~~~~~-Da-Eii~l~~~~l~~lgl~~  162 (496)
                      .-+-.+.+. .+...+|+|++.+|.|||+|..+  .|  |.|+|+|-|+.||...+... +. .++.++.+++..||+. 
T Consensus       274 ~H~~if~~~~rSYRdLPlR~aEfg~~~R~E~SG~L~GL~RvR~FtqDDAHIFct~dQi~~Ei~~~l~~i~~vy~~fGf~-  352 (576)
T PRK12305        274 HHIILYSNELRSYRDLPIRLSEQSRLYRYEKSGALTGLERVRAMDLTEGHIFVRKDQIESEVKHLFKMIQEALSIFKIK-  352 (576)
T ss_pred             HHHHHHHCCCCCHHHCCHHHHCCCCEECCCCCCCCCCCCCCCCCCCCCCCEEECHHHHHHHHHHHHHHHHHHHHHCCCC-
T ss_conf             2677764277544432422000443544788865557554668876871212089999999999999999999853987-


Q ss_pred             CCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHH
Q ss_conf             77113036605589999983256035643345553332200128967899862101650035553048999778998887
Q gi|254780928|r  163 NDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVS  242 (496)
Q Consensus       163 ~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  242 (496)
                       ++.+.++-+.--+ --..+|-.+                    .|+.....|.+.        ++..++.         
T Consensus       353 -~~~~~lS~r~~~~-~ek~~g~de--------------------~W~~Ae~~L~~a--------l~~~g~~---------  393 (576)
T PRK12305        353 -IFYISLSLRDPND-KEKFFDDDQ--------------------MWEQAEADLKKM--------LKDNKIN---------  393 (576)
T ss_pred             -CCEEEEEECCCCC-CCCCCCCCH--------------------HHHHHHHHHHHH--------HHHCCCC---------
T ss_conf             -3158999438988-753459727--------------------699999999999--------9974997---------


Q ss_pred             HHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCC
Q ss_conf             40478568899899860357325888999999999987508884430011010012212341248998546667767666
Q gi|254780928|r  243 FLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKP  322 (496)
Q Consensus       243 ~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~  322 (496)
                      +....++.++                             +|.   +|.|.+.-+-|=.+-.|+| |+-            
T Consensus       394 y~~~~GegAF-----------------------------YGP---KID~~v~DalgR~wq~~TI-QlD------------  428 (576)
T PRK12305        394 YKEMIGEAAF-----------------------------YGP---KIDFQVKTVLNKEITVSTI-QLD------------  428 (576)
T ss_pred             CEECCCCCCE-----------------------------ECC---CCCEEEECCCCCEEEEEEE-EEE------------
T ss_conf             1423065010-----------------------------567---6346985067867874245-666------------


Q ss_pred             CCEEEECCCCCCCC-CCCCCCCCCCCCC-EE-EE-CCHHHHHHHHHC-CCCCCCCCCCCEEEEEEECCCHH-HHHHHHHH
Q ss_conf             31011003232355-2111234567742-13-31-101689999973-68776655577148998269768-99999999
Q gi|254780928|r  323 VVFGSVGGGGRYDG-LVSRFKGQNVPAT-GF-SI-GISRLIVALKSL-ESSTNNIKEMGPVLITTMDHDSD-SLSKYQMY  396 (496)
Q Consensus       323 ~~~~aI~~GGRYD~-L~~~f~~~~~pav-Gf-ai-gverl~~~l~~~-~~~~~~~~~~~~v~V~~~~~~~~-~~~~~~~i  396 (496)
                           ..-..|+|- .+..=|.+..|-+ .- .+ .+||++.+|.++ ....|.+-+|.+|.|++++  .. ...+|.++
T Consensus       429 -----f~lPeRF~l~Y~~~dg~~~rPVmIHRAilGS~ERfigiLiEh~~G~~P~WLaP~Qv~IipV~--e~~~~~ya~~v  501 (576)
T PRK12305        429 -----FLLPEKFNISYINENNEKETPVLIHRGLIGTYERFIAILLEQTKGNLPFWLSPKQVIIIPVN--ENLNTDYAKEL  501 (576)
T ss_pred             -----ECCHHHCCCEEECCCCCCCCCEEEEECCCCCHHHHHHHHHHHCCCCCCCCCCCCEEEEEECC--CCHHHHHHHHH
T ss_conf             -----34585579888778887678759873354748999999999707999836273037999538--60359999999


Q ss_pred             HHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEE
Q ss_conf             99999879839997189999889999998779989999887287488189978788836433112014432023351030
Q gi|254780928|r  397 TQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITI  476 (496)
Q Consensus       397 a~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v  476 (496)
                      +..|+++|++|+++.. +.++++.++.|...++||++|||++|+++|+|.||+..+++                  +.++
T Consensus       502 ~~~L~~~giRv~vD~~-~e~lg~KIR~a~~~kiPy~lVvGdkE~~~~~VsvR~r~~~~------------------~~~~  562 (576)
T PRK12305        502 NKKLFKLGFRSEIDLR-NERLSKKIREAQISKIKFQIIIGDEEIKNNTITYRKYGSEE------------------TTTV  562 (576)
T ss_pred             HHHHHHCCCEEEEECC-CCCHHHHHHHHHHCCCCEEEEEEHHHHHCCEEEEEECCCCC------------------CCEE
T ss_conf             9999978987999789-99676999997534999899980035545968999778885------------------5546


Q ss_pred             CHHHHHHHHHHHH
Q ss_conf             7999999999999
Q gi|254780928|r  477 PISELVSTVKKIL  489 (496)
Q Consensus       477 ~~~~l~~~~~~~l  489 (496)
                      |++++++.++++.
T Consensus       563 ~l~efi~~l~~l~  575 (576)
T PRK12305        563 SIEDFIKMLKNLK  575 (576)
T ss_pred             EHHHHHHHHHHHC
T ss_conf             8999999999730


No 20 
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=100.00  E-value=1.6e-32  Score=230.42  Aligned_cols=458  Identities=18%  Similarity=0.206  Sum_probs=255.0

Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCC
Q ss_conf             71037998765886689999999999999999859848016520228875202675543332216898699988999888
Q gi|254780928|r    7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYD   86 (496)
Q Consensus         7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpD   86 (496)
                      |+-|.-.|.+.|||...++.++|++.+++.+.+.|++||.+|++.+.++ |+.+|.++....+||+|.|+.|+.++|-|-
T Consensus        31 ~Ir~~~sGiy~~LPlg~rvl~Kie~IIr~em~~iGa~Ev~mp~l~p~el-W~~sgR~~~~g~el~r~kDR~~~~~~L~PT  109 (570)
T PRK09194         31 YIRKLASGIYTYLPLGLRVLRKIENIVREEMNKIGAQEVLMPALQPAEL-WQESGRWEKYGPELLRLKDRHGRDFVLGPT  109 (570)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHH-HHHCCCHHHCCHHHEEEECCCCCEEEECCC
T ss_conf             7341437725542436999999999999999864987985356797789-876188212361346985278985653787


Q ss_pred             C---HHHHHHHHHHHHHHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCHHHH---HHHHHHHHHHHHH
Q ss_conf             8---3899999995112055411233101333025-87644--421111100012100002457---8899999999975
Q gi|254780928|r   87 L---TAPLARYVAENFDTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAETAD---AEMCMMMADTLEA  157 (496)
Q Consensus        87 l---T~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~~~D---aEii~l~~~~l~~  157 (496)
                      -   -+.++|-...  ....+|+++|+|++.||+| ||..|  |-|||.--|+-.|-.+...++   -.+......+|++
T Consensus       110 hEE~it~lv~~~i~--SYkqLP~~lYQIqtKfRDE~RPR~GllR~REF~MKDaYSFd~~~e~l~~tY~~~~~AY~~IF~r  187 (570)
T PRK09194        110 HEEVITDLVRNEIK--SYKQLPLNLYQIQTKFRDEIRPRFGLMRGREFIMKDAYSFHADEESLDETYDAMYQAYSRIFTR  187 (570)
T ss_pred             CHHHHHHHHHHHHC--CHHHCCHHEECCCCEECCCCCCCCCCHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             38999999998511--3764680200132333477887676234565345124566699899999999999999999998


Q ss_pred             CCCCCCCCEEECCCCHHHHHH----HHHHCCCHHHHHHHHHHHHHH--HHHCCCC----CHHHHHHHHHH---CCCCHHH
Q ss_conf             188877711303660558999----998325603564334555333--2200128----96789986210---1650035
Q gi|254780928|r  158 VGIKRNDYHIGINNRKILDGI----LEKIGLHGDDKLNERLIVLRA--IDKLDKF----GLQGVKLLLGE---GRTDNSG  224 (496)
Q Consensus       158 lgl~~~~~~I~in~~~il~~i----l~~lgi~~~~~~~~~~~~~~~--idkl~k~----~~~~~~~~l~~---~~~~~~~  224 (496)
                      +||+   |.+--.+.+-+-+-    |..+.-..|+..-.+...-.+  +++....    ....-...+.+   .....+.
T Consensus       188 lgL~---~~~v~ADsG~iGG~~ShEF~~~s~~GED~i~~C~~c~yaaN~E~A~~~~~~~~~~~~~~~~e~v~TP~~~TIe  264 (570)
T PRK09194        188 LGLD---FRAVEADSGAIGGSASHEFMVLAESGEDTIVYSDESDYAANIEKAEALPPPEPRAAPTEELEKVDTPNAKTIE  264 (570)
T ss_pred             HCCC---EEEEEECCCCCCCCCCEEEEEECCCCCCEEEEECCCCHHHHHHHHHCCCCCCCCCCCCCCCEEECCCCCCHHH
T ss_conf             0986---2999914667588665237876378971799968976056487751147766675430003042599962199


Q ss_pred             HHHCCCCCCHHHHHH--------------HHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHH----HHHHHCCCCC
Q ss_conf             553048999778998--------------8874047856889989986035732588899999999----9987508884
Q gi|254780928|r  225 DFTKGANLTSEQIDI--------------MVSFLSIDLEKSMHELYELVKGTIAGEKGFNELVVIS----ELVRKSGYNS  286 (496)
Q Consensus       225 ~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~----~~l~~~gv~~  286 (496)
                      ++...++.+....-+              +.-++..+-+-...++...+.........-+++....    .++...+.+ 
T Consensus       265 ~l~~~~~v~~~~~iKtl~~~~~~~~~~~~v~v~irGD~evNe~Kl~~~~~~~~l~~a~~eei~~~~g~~~G~iGPv~~~-  343 (570)
T PRK09194        265 ELAEFLNVPAEKTVKTLLVKADEEGEGELVAVLVRGDHELNEVKLENLLGAAPLELATEEEIRKLFGAPPGFLGPVNLP-  343 (570)
T ss_pred             HHHHHHCCCHHHHEEEEEEEEECCCCCCEEEEEECCCCCCCHHHHHHCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCC-
T ss_conf             9998749998881356899842178873589982265200489887403753122489999997518987755666788-


Q ss_pred             CCCCCCHHHCCCCCCC----------CCEEEEEEE----CCCCCCCCCCCCC--------------EEEECC-CCCCCCC
Q ss_conf             4300110100122123----------412489985----4666776766631--------------011003-2323552
Q gi|254780928|r  287 NRIKISSTIVRGLEYY----------TGCVYEAIL----GFPVMNEKQKPVV--------------FGSVGG-GGRYDGL  337 (496)
Q Consensus       287 ~~i~~Dl~lvRgLdYY----------TG~vFE~~~----~~~~~~~~~~~~~--------------~~aI~~-GGRYD~L  337 (496)
                      ..+.+|.++..+-++-          .++.++--.    ..+......+..+              +|-|.- |=||-.-
T Consensus       344 v~ii~D~~v~~~~n~v~GAN~~d~H~~~vn~~RD~~~~~~~Di~~v~~GD~Cp~c~~~L~~~rgIEVGHiF~LGtkYS~~  423 (570)
T PRK09194        344 IPIIADRSVADMSNFVVGANEDDKHYVGVNWGRDFPVPEVADLRNVVEGDPSPDGGGTLKIARGIEVGHIFQLGTKYSEA  423 (570)
T ss_pred             CEEEEEHHHHHHCCHHCCCCCCCCEEECCCCCCCCCCCCCCCHHHCCCCCCCCCCCCEEEEEEEEEEEEEECCCCCCCHH
T ss_conf             14997034521000100358876454067656567864311255525688898899712774036888763123301462


Q ss_pred             CC-CC---CCCCCCCC--EEEECCHHHHHHHHHCCCCCCCCC-----CCCEEEEEEEC-CCHHHHHHHHHHHHHHHHCCC
Q ss_conf             11-12---34567742--133110168999997368776655-----57714899826-976899999999999998798
Q gi|254780928|r  338 VS-RF---KGQNVPAT--GFSIGISRLIVALKSLESSTNNIK-----EMGPVLITTMD-HDSDSLSKYQMYTQMLRTAGI  405 (496)
Q Consensus       338 ~~-~f---~~~~~pav--Gfaigverl~~~l~~~~~~~~~~~-----~~~~v~V~~~~-~~~~~~~~~~~ia~~Lr~~Gi  405 (496)
                      +. .|   .|+..|.+  .++|||+|++.++.++.+......     +|..|.|++++ .+.+....|.++.+.|.++|+
T Consensus       424 m~a~~~d~~Gk~~p~~MGCYGIGVsRllaAiiEq~~De~Gi~WP~~IAPf~V~Ii~~~~~~~~~~~~ae~iy~~L~~~Gi  503 (570)
T PRK09194        424 MNATFLDENGKAQPLTMGCYGIGVSRLVAAAIEQNHDERGIIWPKAIAPFDVHIVPVNMKDEEVRELAEKLYAELLAAGI  503 (570)
T ss_pred             CCCEEECCCCCCCCCEEEEEECCHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHHCCC
T ss_conf             09879998898976145620024678999999983777754078886884999996799988999999999999997899


Q ss_pred             EEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHHHHHH
Q ss_conf             39997189999889999998779989999887287488189978788836433112014432023351030799999999
Q gi|254780928|r  406 RAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISELVSTV  485 (496)
Q Consensus       406 ~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~  485 (496)
                      .|-++. .+.+++..|+.|+-+|+|+.||||++.+++|.|.+|+..+|+-                  ..||++++++.|
T Consensus       504 dVllDD-R~er~G~Kf~DaDLIGiP~~vvvGkk~l~~g~vEvk~R~~~~~------------------~~v~~~el~~~v  564 (570)
T PRK09194        504 DVLLDD-RKERPGVKFADAELIGIPHRIVVGKRGLAEGIVEYKNRRTGEK------------------EEVKLDELVEFL  564 (570)
T ss_pred             EEEEEC-CCCCHHHHHHHHHHCCCCEEEEECCCCCCCCEEEEEEECCCCE------------------EEECHHHHHHHH
T ss_conf             899989-9988536667516418997999926740158599999068975------------------886199999999


Q ss_pred             HHHHH
Q ss_conf             99998
Q gi|254780928|r  486 KKILQ  490 (496)
Q Consensus       486 ~~~l~  490 (496)
                      +++|+
T Consensus       565 ~~ll~  569 (570)
T PRK09194        565 KELLK  569 (570)
T ss_pred             HHHHC
T ss_conf             99855


No 21 
>PRK03772 threonyl-tRNA synthetase; Validated
Probab=100.00  E-value=2.8e-32  Score=228.75  Aligned_cols=363  Identities=16%  Similarity=0.213  Sum_probs=235.7

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHH
Q ss_conf             99876588668999999999999999985984801652022887520267554333221689869998899988883899
Q gi|254780928|r   12 PRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPL   91 (496)
Q Consensus        12 P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~   91 (496)
                      -.|+..|+|..+.+++.+++.+++...++||++|.||.+-..+++ +.+|..+...+.||.+ +..++..+|+|--.+.-
T Consensus       260 ~pG~~fwlP~G~~i~~~le~~~r~~~~~~Gy~eV~TP~i~~~~Lw-~~SGH~~~Y~e~Mf~~-~~e~~ey~lKPMNCP~H  337 (642)
T PRK03772        260 APGMVFWHNDGWTIFRELEVFVRSKLKEYQYQEVKGPFMMDRVLW-EKTGHWDNYADAMFTT-SSENREYAIKPMNCPGH  337 (642)
T ss_pred             CCCCEEECCCHHHHHHHHHHHHHHHHHHCCCEEEECCHHCCHHHH-HHCCHHHHHHCCCCCC-CCCHHHHCCCCCCCHHH
T ss_conf             887636658588999999999999999869859855432137788-7344476641034223-42014430467787348


Q ss_pred             HHHHHHH-HHHCCCCHHHHHHHHHHCCCCCCC--C--CCCCCCCCCHHHHHCCCHHH-HH-HHHHHHHHHHHHCCCCCCC
Q ss_conf             9999951-120554112331013330258764--4--42111110001210000245-78-8999999999751888777
Q gi|254780928|r   92 ARYVAEN-FDTIVFPCRTYRIGPVFRNEKHGP--G--RFRQFIQCDVDNVGSSAETA-DA-EMCMMMADTLEAVGIKRND  164 (496)
Q Consensus        92 aR~~~~~-~~~~~~p~k~yy~g~vfR~e~p~~--G--r~REf~Q~g~eiiG~~~~~~-Da-Eii~l~~~~l~~lgl~~~~  164 (496)
                      +-++..+ .+...+|+|++.+|.|||||+++.  |  |.|.|+|-|+.||...+... |. .++.++.++++.||++  +
T Consensus       338 ~~iy~~~~rSYRdLPlR~aEfg~~~R~E~SG~L~GL~RVR~FtqdDaHIFC~~dQi~~Ei~~~l~~~~~vy~~fGf~--~  415 (642)
T PRK03772        338 VQIFNQGLKSYRDLPLRMAEFGSCHRNEPSGSLHGLMRVRGFTQDDAHIFCTEEQIRDEVNSCIKMVYDMYSTFGFE--K  415 (642)
T ss_pred             HHHHHCCCCCHHHCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEECCHHHHHHHHHHHHHHHHHHHHHCCCC--E
T ss_conf             89986166434436545554113431666655347456889987884355378999999999999999999973986--3


Q ss_pred             CEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             11303660558999998325603564334555333220012896789986210165003555304899977899888740
Q gi|254780928|r  165 YHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFL  244 (496)
Q Consensus       165 ~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (496)
                      +.+.++.+.-     ..+|-++.                    |+.....|.+........+....+..        .|.
T Consensus       416 ~~~~LStrpe-----k~~G~~e~--------------------W~~AE~~L~~aL~~~g~~y~~~~Geg--------AFY  462 (642)
T PRK03772        416 IVVKLSTRPE-----KRIGSDEM--------------------WDRAEADLAVALEENNIPFEYQPGEG--------AFY  462 (642)
T ss_pred             EEEEECCCCH-----HCCCCHHH--------------------HHHHHHHHHHHHHHCCCCEEECCCCC--------CCC
T ss_conf             8999626822-----02588889--------------------99999999999997399704556763--------444


Q ss_pred             CCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCC--CCCCCCEEEEEEECCCCCCCCCCC
Q ss_conf             478568899899860357325888999999999987508884430011010012--212341248998546667767666
Q gi|254780928|r  245 SIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRG--LEYYTGCVYEAILGFPVMNEKQKP  322 (496)
Q Consensus       245 ~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRg--LdYYTG~vFE~~~~~~~~~~~~~~  322 (496)
                         +++.-          .....++.         +.+-+  .-|.+|+.+-.-  |.| ++          ..+...+|
T Consensus       463 ---GPKID----------~~v~Dalg---------R~wq~--~TiQlDF~lP~RF~l~Y-~~----------~dg~~~~P  507 (642)
T PRK03772        463 ---GPKIE----------FTLYDCLD---------RAWQC--GTVQLDFSLPGRLSASY-VG----------EDNERKVP  507 (642)
T ss_pred             ---CCCCC----------EEEECCCC---------CEEEE--CCCEEECCCHHHCCCEE-EC----------CCCCCCCC
T ss_conf             ---55302----------59970789---------76880--23243001354428888-87----------89985785


Q ss_pred             CCE-EEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHC-CCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHH
Q ss_conf             310-1100323235521112345677421331101689999973-68776655577148998269768999999999999
Q gi|254780928|r  323 VVF-GSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSL-ESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQML  400 (496)
Q Consensus       323 ~~~-~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~-~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~L  400 (496)
                      +.+ +||                    .|   .+||++.+|.++ ....|.+-+|.+|.|+++  ......+|.++++.|
T Consensus       508 VmIHRAi--------------------lG---S~ERfiaiLiEh~~G~~P~WLaP~Qv~VipI--s~~~~~YA~~v~~~L  562 (642)
T PRK03772        508 VMIHRAI--------------------LG---SMERFIGILTEEYAGFFPTWLAPVQVVVMNI--TDSQSDYVQEVTKKL  562 (642)
T ss_pred             EEEEECC--------------------CC---CHHHHHHHHHHHCCCCCCCCCCCCEEEEEEC--CCHHHHHHHHHHHHH
T ss_conf             8999246--------------------47---7899999999980799985647604799954--815899999999999


Q ss_pred             HHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHH
Q ss_conf             98798399971899998899999987799899998872874881899787888364331120144320233510307999
Q gi|254780928|r  401 RTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISE  480 (496)
Q Consensus       401 r~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~  480 (496)
                      +++|++|+++.. +.++++.++.|...++||++|||++|.++|+|.||+...++                  +.++|+++
T Consensus       563 ~~~giRv~vD~~-~e~l~~KIR~a~~~kiPy~lVvGdkE~~~~~VsvR~r~~~~------------------~~~~~l~~  623 (642)
T PRK03772        563 QNAGIRVKADLR-NEKIGFKIREHTLRRVPYMLVCGDKEVEAGKVAVRTRRGKD------------------LGSMDVND  623 (642)
T ss_pred             HHCCCEEEEECC-CCCHHHHHHHHHHCCCCEEEEEEHHHHHCCEEEEEECCCCC------------------CCEEEHHH
T ss_conf             978978999789-98187999998761799899980246525958999778973------------------57167999


Q ss_pred             HHHHHHHHHH
Q ss_conf             9999999998
Q gi|254780928|r  481 LVSTVKKILQ  490 (496)
Q Consensus       481 l~~~~~~~l~  490 (496)
                      +++.+++-++
T Consensus       624 fi~~l~~ei~  633 (642)
T PRK03772        624 FIEKLQQEIR  633 (642)
T ss_pred             HHHHHHHHHH
T ss_conf             9999999998


No 22 
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=100.00  E-value=2e-32  Score=229.69  Aligned_cols=368  Identities=16%  Similarity=0.234  Sum_probs=235.1

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHH
Q ss_conf             99876588668999999999999999985984801652022887520267554333221689869998899988883899
Q gi|254780928|r   12 PRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPL   91 (496)
Q Consensus        12 P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~   91 (496)
                      -.|+..|+|..+.+++.+++.+++...++||++|.||.+-..+++ +.+|..+.....||.. +..++.++|+|--.+.-
T Consensus       263 ~pG~~fwlP~G~~i~~~le~~~r~~~~~~GY~eV~TP~i~~~~Lw-~~SGH~~~Y~e~Mf~~-~~d~~~~~lKPMNCP~H  340 (639)
T PRK12444        263 APGMPFYLPKGQIIRNELEAFLREIQKEYNYQEVRTPFMMNQELW-ERSGHWGHYKDNMYFS-EVDNKSFALKPMNCPGH  340 (639)
T ss_pred             CCCCEEEECCHHHHHHHHHHHHHHHHHHCCCEEECCCEEEHHHHH-HHCCHHHHHHHCCCCC-CCCCCEEECCCCCCHHH
T ss_conf             897447846786999999999999999839878228666215687-6166043333027554-54540331267685889


Q ss_pred             HHHHHHH-HHHCCCCHHHHHHHHHHCCCCCC--CC--CCCCCCCCCHHHHHCCCHHHH-H-HHHHHHHHHHHHCCCCCCC
Q ss_conf             9999951-12055411233101333025876--44--421111100012100002457-8-8999999999751888777
Q gi|254780928|r   92 ARYVAEN-FDTIVFPCRTYRIGPVFRNEKHG--PG--RFRQFIQCDVDNVGSSAETAD-A-EMCMMMADTLEAVGIKRND  164 (496)
Q Consensus        92 aR~~~~~-~~~~~~p~k~yy~g~vfR~e~p~--~G--r~REf~Q~g~eiiG~~~~~~D-a-Eii~l~~~~l~~lgl~~~~  164 (496)
                      +-++.+. .+...+|+|++.+|.|||||..+  .|  |.|+|+|-|+.||...+...+ . .++.++.++++.||+   +
T Consensus       341 ~~if~~~~rSYRdLPlR~aEfg~vhR~E~SG~L~GL~RVR~FtqDDAHIFct~dQi~~Ei~~~~~~~~~vy~~fGf---~  417 (639)
T PRK12444        341 MLMFKNKLHSYRELPIRMCEFGQVHRHEFSGALNGLLRVRTFCQDDAHLFVTPEQIEDEIKSVMAQIDYVYKTFGF---E  417 (639)
T ss_pred             HHHHHCCCCCHHHCCHHHHHCCCEECCCCCCCCCCCCCCCCCCCCCCEEECCHHHHHHHHHHHHHHHHHHHHHCCC---E
T ss_conf             9998605621443652224336463377876645767788998798246538899999999999999999974797---2


Q ss_pred             CEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             11303660558999998325603564334555333220012896789986210165003555304899977899888740
Q gi|254780928|r  165 YHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFL  244 (496)
Q Consensus       165 ~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (496)
                      |.+.++.+.=     ..+|-...                    |+.....|.+.        ++..++.         |.
T Consensus       418 ~~~~LStrpe-----k~~G~de~--------------------W~~Ae~~L~~a--------L~~~g~~---------y~  455 (639)
T PRK12444        418 YEVELSTRPE-----DSMGDDKL--------------------WEQAEAALENV--------LQSLNYK---------YR  455 (639)
T ss_pred             EEEEECCCCC-----CCCCCHHH--------------------HHHHHHHHHHH--------HHHCCCC---------EE
T ss_conf             9998167863-----34588899--------------------99999999999--------9974997---------58


Q ss_pred             CCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCC
Q ss_conf             47856889989986035732588899999999998750888443001101001221234124899854666776766631
Q gi|254780928|r  245 SIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVV  324 (496)
Q Consensus       245 ~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~  324 (496)
                      ...++.++--  ..+.  .....++.         +.+.  ..-|.+|+.+..-        |...+. ...+...+|+.
T Consensus       456 ~~~GegAFYG--PKiD--~~v~Dalg---------R~wq--~~TIQlDF~lPeR--------F~l~Y~-~~dg~~~rPVm  511 (639)
T PRK12444        456 LNEGDGAFYG--PKID--FHIKDALN---------RSHQ--CGTIQLDFQMPEK--------FDLNYI-DEKNEKVRPVV  511 (639)
T ss_pred             ECCCCCCCCC--CEEE--EEEEECCC---------CEEE--CCEEEEEECCHHH--------CCCEEE-CCCCCCCCCEE
T ss_conf             6768636403--2656--89980788---------7245--1234552056633--------587778-78998259889


Q ss_pred             EEEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHC-CCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHC
Q ss_conf             01100323235521112345677421331101689999973-68776655577148998269768999999999999987
Q gi|254780928|r  325 FGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSL-ESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTA  403 (496)
Q Consensus       325 ~~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~-~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~  403 (496)
                      +..                    |+ ++ .+||++.+|.++ ....|.+-+|.+|.|++++. .....+|.+++++|.++
T Consensus       512 IHR--------------------Ai-lG-S~ERFigiLiEh~~G~fP~WLaP~Qv~Iipi~~-~~~~~Ya~~v~~~L~~~  568 (639)
T PRK12444        512 IHR--------------------AV-LG-SLDRFLAILIEHFGGAFPAWVAPVQVKVIPVSN-AVHVQYADEVADKLAQA  568 (639)
T ss_pred             EEE--------------------CC-CC-CHHHHHHHHHHHCCCCCCCCCCCCEEEEEECCC-CHHHHHHHHHHHHHHHC
T ss_conf             995--------------------78-77-789999999997279898565720069995377-02799999999999978


Q ss_pred             CCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHHHH
Q ss_conf             98399971899998899999987799899998872874881899787888364331120144320233510307999999
Q gi|254780928|r  404 GIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISELVS  483 (496)
Q Consensus       404 Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~  483 (496)
                      |++|+++.. +.++++.++.|...++||++|||++|+++|+|.||....++                  +.++|++++++
T Consensus       569 giRv~vD~~-~e~l~~KIR~a~~~kiPy~lVVGdkE~e~~~VsvR~r~~~~------------------~~~~~~~~fi~  629 (639)
T PRK12444        569 GVRVERDER-DEKLGYKIREAQMQKIPYVLVIGDKEMENGAVNVRKYGEEK------------------SEVVELDMFVE  629 (639)
T ss_pred             CCEEEEECC-CCCHHHHHHHHHHCCCCEEEEEEHHHHHCCEEEEEECCCCC------------------CCEEEHHHHHH
T ss_conf             988999899-99775999987433899899984156535958999778873------------------47067999999


Q ss_pred             HHHHHHHHH
Q ss_conf             999999864
Q gi|254780928|r  484 TVKKILQEN  492 (496)
Q Consensus       484 ~~~~~l~~~  492 (496)
                      .+++-+...
T Consensus       630 ~l~~ei~~r  638 (639)
T PRK12444        630 SIKEEIKNR  638 (639)
T ss_pred             HHHHHHHHC
T ss_conf             999999745


No 23 
>TIGR00418 thrS threonyl-tRNA synthetase; InterPro: IPR002320   The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases .   Threonyl-tRNA synthetase (6.1.1.3 from EC) exists as a monomer and belongs to class IIa. The enzyme from Escherichia coli represses the translation of its own mRNA. The crystal structure of the complex between tRNA(Thr) and ThrRS show structural features that reveal novel strategies for providing specificity in tRNA selection. These include an amino-terminal domain containing a novel protein fold that makes minor groove contacts with the tRNA acceptor stem. The enzyme induces a large deformation of the anticodon loop, resulting in an interaction between two adjacent anticodon bases, which accounts for their prominent role in tRNA identity and translational regulation. A zinc ion found in the active site is implicated in amino acid recognition/discrimination . The zinc ion may act to ensure that only amino acids that possess a hydroxyl group attached to the beta-position are activated .; GO: 0004829 threonine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006435 threonyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=100.00  E-value=2.3e-33  Score=235.83  Aligned_cols=370  Identities=17%  Similarity=0.232  Sum_probs=243.8

Q ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCC
Q ss_conf             10379987658866899999999999999998598480165202288752026755433322168986999889998888
Q gi|254780928|r    8 RAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDL   87 (496)
Q Consensus         8 ~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDl   87 (496)
                      .+..=.|+--|+|.+..+|+.|++-++.....+||.+|.||.+-..+++ ..+|..++....||.+..-+.+.++|||=-
T Consensus       197 ~~~~gpG~~~WlPkG~~ir~~ledf~~~~~~~~Gy~~V~TP~m~~~~l~-~~sGH~~~Y~e~Mf~~~~~~~~~~~LkPMn  275 (595)
T TIGR00418       197 EPEIGPGLPFWLPKGALIRNLLEDFVREKQIKRGYEEVETPIMYDSELW-EISGHWDHYKERMFPFTEEDNQEFMLKPMN  275 (595)
T ss_pred             CCCCCCCCEEECCCHHHHHHHHHHHHHHHHHHCCCCCCCCCEECCCCCH-HHHHHHHHCCCCCCCCEEECCCCCCCCCCC
T ss_conf             8320487414657646789999999999998758864157412156542-453054503423540101035303345677


Q ss_pred             HHHHHHHHHHH-HHHCCCCHHHHHHH-HHHCCCCCCC--C--CCCCCCCCCHHHHHC-CCHH-HHH-HHHHHHHHHHHHC
Q ss_conf             38999999951-12055411233101-3330258764--4--421111100012100-0024-578-8999999999751
Q gi|254780928|r   88 TAPLARYVAEN-FDTIVFPCRTYRIG-PVFRNEKHGP--G--RFRQFIQCDVDNVGS-SAET-ADA-EMCMMMADTLEAV  158 (496)
Q Consensus        88 T~~~aR~~~~~-~~~~~~p~k~yy~g-~vfR~e~p~~--G--r~REf~Q~g~eiiG~-~~~~-~Da-Eii~l~~~~l~~l  158 (496)
                      .+.=+.++-+. .....+|+|+|.+| .|||||..|.  |  |.|.|+|-|++||.. .+.+ .|. +++.++.++++.|
T Consensus       276 CpgH~~i~k~~~~SYR~LP~R~aE~g~~~hR~E~sG~L~GL~RvR~FT~dDaHifc~d~dQi~~E~~~~~~l~~~v~~~f  355 (595)
T TIGR00418       276 CPGHILIFKSSLRSYRDLPLRIAELGTTVHRYEKSGALHGLKRVRGFTQDDAHIFCTDEDQIKSEIKNQFRLIQKVYSKF  355 (595)
T ss_pred             CHHHHHHHCCCCCCHHHCCCHHHHCCCEEEEEECCCCCCHHHHHHHCCCCCCCEEECCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             54453300177777323350343318604788425421010164430699852453786779999999999999998872


Q ss_pred             CCCCCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHH
Q ss_conf             88877711303660558999998325603564334555333220012896789986210165003555304899977899
Q gi|254780928|r  159 GIKRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQID  238 (496)
Q Consensus       159 gl~~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~  238 (496)
                      |++  ++.+.|+-|.           |+++..        .+|.  --.|+.-...|.+...+.-.++....+...-..+
T Consensus       356 gf~--~~~~~LS~R~-----------Pe~~~K--------y~g~--d~~W~~~~~~l~~~l~~~~~~yei~~G~~AFYGP  412 (595)
T TIGR00418       356 GFS--NYKYELSTRD-----------PENDKK--------YIGE--DELWEKAESALEEALKELGVDYEIDEGEGAFYGP  412 (595)
T ss_pred             CCC--CCEEEEEECC-----------CCCCCC--------CCCC--HHHHHHHHHHHHHHHHCCCCCEEEECCCCEEECC
T ss_conf             884--2168998717-----------775455--------4588--7899999999999985079840550788113022


Q ss_pred             HHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCC
Q ss_conf             88874047856889989986035732588899999999998750888443001101001221234124899854666776
Q gi|254780928|r  239 IMVSFLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNE  318 (496)
Q Consensus       239 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~  318 (496)
                      ++                     .....++|+.-         .  ...-|.+|..+.                      
T Consensus       413 Ki---------------------Df~~~DaL~R~---------~--q~~TvQlDf~lP----------------------  438 (595)
T TIGR00418       413 KI---------------------DFQIKDALGRE---------W--QCATVQLDFELP----------------------  438 (595)
T ss_pred             EE---------------------EEEEEECCCCH---------H--HCCCEEEECCCC----------------------
T ss_conf             26---------------------88875101764---------2--588148871588----------------------


Q ss_pred             CCCCCCEEEECCCCCCC-CCCCCC--CCCCCCC---CEEEECCHHHHHHHHHCC-CCC-----CCCCCCCEEEEEEECCC
Q ss_conf             76663101100323235-521112--3456774---213311016899999736-877-----66555771489982697
Q gi|254780928|r  319 KQKPVVFGSVGGGGRYD-GLVSRF--KGQNVPA---TGFSIGISRLIVALKSLE-SST-----NNIKEMGPVLITTMDHD  386 (496)
Q Consensus       319 ~~~~~~~~aI~~GGRYD-~L~~~f--~~~~~pa---vGfaigverl~~~l~~~~-~~~-----~~~~~~~~v~V~~~~~~  386 (496)
                                   .||| .-+..-  +....|-   +|..=.+||++.+|.+.- ...     --+.|-.|+.|.+++.+
T Consensus       439 -------------eRF~l~Y~~~dqd~~~~~Pv~IHra~~GS~ERfi~iL~E~~~G~fde~~PMLP~WLaP~QV~viPV~  505 (595)
T TIGR00418       439 -------------ERFDLTYINEDQDNKEKRPVMIHRAILGSIERFIAILLEKYAGAFDERLPMLPLWLAPVQVVVIPVS  505 (595)
T ss_pred             -------------CCCCCEEEEECCCCCCCCCEEEECCCCHHHHHHHHHHHHHHHHHHHCCCCCCCEECCCEEEEEEECC
T ss_conf             -------------7203148420367870067789804400589999999987522211468988542176238997057


Q ss_pred             -HHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHC--CCEEEEECC---CCCEEEEEC
Q ss_conf             -68999999999999987983999718999988999999877998999988728748--818997878---883643311
Q gi|254780928|r  387 -SDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSR--GMLQIKDLA---KGKELSREI  460 (496)
Q Consensus       387 -~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~--~~v~vK~l~---~g~q~~~~~  460 (496)
                       .....+|.+|+++|.++||+|++|...+ +|++.++.|....|||++|||++|+++  ++|+||+..   .++      
T Consensus       506 i~~h~~yA~kv~~~L~~~giRv~~D~r~e-~lgkKIR~a~~~kiPy~~V~Gd~E~e~~K~~v~vR~~~t~k~~~------  578 (595)
T TIGR00418       506 IEKHLDYAKKVAEKLKKEGIRVDVDDRNE-RLGKKIREAQKQKIPYMLVVGDKEMEELKEAVNVRTRKTLKGQK------  578 (595)
T ss_pred             HHHHHHHHHHHHHHHHHCCCEEEECCCCC-CHHHHHHHHHCCCCCEEEEECCHHHHCCCCEEEECCHHHHCCCC------
T ss_conf             78899999999999985797798838888-01332022013220679998730231389668522402104631------


Q ss_pred             CCHHHHHHCCCCCEEECHHHHHHHHHH
Q ss_conf             201443202335103079999999999
Q gi|254780928|r  461 KNNESWREARVAQITIPISELVSTVKK  487 (496)
Q Consensus       461 ~~~~~~~~~~~~q~~v~~~~l~~~~~~  487 (496)
                                  ..+++.+|+++.|++
T Consensus       579 ------------~~~m~~~E~~~~~~~  593 (595)
T TIGR00418       579 ------------LEKMSLDEFLEKVRK  593 (595)
T ss_pred             ------------EEEECHHHHHHHHHH
T ss_conf             ------------014309999999973


No 24 
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=99.97  E-value=2.9e-27  Score=196.19  Aligned_cols=362  Identities=17%  Similarity=0.249  Sum_probs=220.0

Q ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCH
Q ss_conf             03799876588668999999999999999985984801652022887520267554333221689869998899988883
Q gi|254780928|r    9 AELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLT   88 (496)
Q Consensus         9 ~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT   88 (496)
                      +.-..|.--|+|....+++-+++-+++....+||.+|.||.+=..+ ++..++..+.....||.+ +-+++.++|||-..
T Consensus       213 p~Sd~G~~rw~PkG~~i~~lle~Yv~~~~~~~G~~eV~TP~m~d~~-~~~~sgH~~~f~e~my~~-~~d~~~~~LrpmnC  290 (613)
T PRK03991        213 PGSDVGHMRYYPKGRLMKDLLEDYVYNLVKELGAMPVETPNMYDLS-HPAIREHADKFGERQYRV-KSDKKDLMLRFAAC  290 (613)
T ss_pred             CCCCCCCEEECCCHHHHHHHHHHHHHHHHHHCCCEEEECCCEEECC-CCHHHHHHHHHCCCCEEE-ECCCHHHCCCCCCC
T ss_conf             4787775123554789999999999999986396684576164055-402556887611134256-32763323044578


Q ss_pred             HHHHHHHHH-HHHHCCCCHHHHHHHHH-HCCCCCC--CC--CCCCCCCCCHHHHHCC-CHHHH--HHHHHHHHHHHHHCC
Q ss_conf             899999995-11205541123310133-3025876--44--4211111000121000-02457--889999999997518
Q gi|254780928|r   89 APLARYVAE-NFDTIVFPCRTYRIGPV-FRNEKHG--PG--RFRQFIQCDVDNVGSS-AETAD--AEMCMMMADTLEAVG  159 (496)
Q Consensus        89 ~~~aR~~~~-~~~~~~~p~k~yy~g~v-fR~e~p~--~G--r~REf~Q~g~eiiG~~-~~~~D--aEii~l~~~~l~~lg  159 (496)
                      ..-..++-. ......+|+|+|.+|++ ||||+++  .|  |.|.|+|-|+.||..+ +...|  ..++.++.+++..||
T Consensus       291 pgh~~i~~~~~~SYRdLPlRl~E~g~~syR~E~SG~L~GL~RVR~FTqdDaHIFC~~~dQi~~E~~~~~~li~~v~~~fG  370 (613)
T PRK03991        291 FGQFAMLKDMTISYKNLPLKMYELSDYSFRLEQRGELVGLKRLRAFTMPDMHTLCKDMDEAMEEFEKQHKLILETGRDLG  370 (613)
T ss_pred             CCCEEEECCCCCCHHHCCHHHHHHCCCEEECCCCCCEECEEEEECCCCCCCEECCCCHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             63123510244574326467765224202125677444401332356686113168778999999999999999998639


Q ss_pred             CCCCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHH
Q ss_conf             88777113036605589999983256035643345553332200128967899862101650035553048999778998
Q gi|254780928|r  160 IKRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDI  239 (496)
Q Consensus       160 l~~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~  239 (496)
                      +.   +.+.++..   +.+++..    +                     +.+...+.+...+...+.....         
T Consensus       371 ~~---y~~~~r~t---~e~w~~a----e---------------------~~l~~~~~~~g~~~~~e~~~g~---------  410 (613)
T PRK03991        371 RD---YEVAFRFT---EDFYEEN----K---------------------DWIVELAKREGKPVLVEILPER---------  410 (613)
T ss_pred             CC---EEEEECCC---HHHHHHH----H---------------------HHHHHHHHHCCCCCEEEECCCC---------
T ss_conf             76---37997078---8888899----9---------------------9999999972997147665876---------


Q ss_pred             HHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCC--CCCCCCCEEEEEEECCCCCC
Q ss_conf             8874047856889989986035732588899999999998750888443001101001--22123412489985466677
Q gi|254780928|r  240 MVSFLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVR--GLEYYTGCVYEAILGFPVMN  317 (496)
Q Consensus       240 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvR--gLdYYTG~vFE~~~~~~~~~  317 (496)
                       ..|.....             ......++.         +.+.  ..-|.+|+.+..  |+.| +|          ..+
T Consensus       411 -~~fyGPKI-------------Df~v~DalG---------R~wq--~~TiQlDf~lp~RF~l~Y-v~----------edg  454 (613)
T PRK03991        411 -KHYWVLKV-------------EFAIIDSLG---------RPIE--NPTVQIDVENAERFGIKY-VD----------ENG  454 (613)
T ss_pred             -CCEECCCE-------------EEEEEECCC---------CCEE--EEEEEEECCCHHHCCCEE-EC----------CCC
T ss_conf             -31431416-------------899984689---------7245--015898327832268789-98----------999


Q ss_pred             CCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCCCC-------CCCCCCCCEEEEEEECCCHHHH
Q ss_conf             676663101100323235521112345677421331101689999973687-------7665557714899826976899
Q gi|254780928|r  318 EKQKPVVFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSLESS-------TNNIKEMGPVLITTMDHDSDSL  390 (496)
Q Consensus       318 ~~~~~~~~~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~~~~-------~~~~~~~~~v~V~~~~~~~~~~  390 (496)
                      ...+++.+.                      ....-.+||++.+|.+....       +..+.|..|+.|.+++......
T Consensus       455 ~~~~PvmiH----------------------rAi~GS~ERfi~~LiE~~ag~~~~Gk~p~~P~WLaP~Qv~iiPVs~~~~  512 (613)
T PRK03991        455 KEKYPVILH----------------------CSPTGSIERVIYALLEKAAKEEKEGKVPMLPTWLSPVQVRVIPVSEEHL  512 (613)
T ss_pred             CCCCCEEEE----------------------CCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEEEEEECHHHH
T ss_conf             895885897----------------------2665639999999999850101247878888787860379997073689


Q ss_pred             HHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCC
Q ss_conf             99999999999879839997189999889999998779989999887287488189978788836433112014432023
Q gi|254780928|r  391 SKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREAR  470 (496)
Q Consensus       391 ~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~  470 (496)
                      .+|.+++.+|+++||+|+++.. +.++++.++.|....+||++|||++|.++|+|.||...+|++.              
T Consensus       513 ~ya~~v~~~L~~~giRv~vD~r-~e~lgkKIR~A~~~kiPyi~VvGdkE~e~gtvsVR~R~~~~~~--------------  577 (613)
T PRK03991        513 DYAEEVADKLEAAGIRVDVDDR-DESLGKKIRDAGKEWVPYVVVIGDKEMESGKLTVTVREESEKE--------------  577 (613)
T ss_pred             HHHHHHHHHHHHCCCEEEEECC-CCCHHHHHHHHHHCCCCEEEEEEHHHHHCCEEEEEECCCCCCC--------------
T ss_conf             9999999999977988998778-8856189998754358889999313542493799987788616--------------


Q ss_pred             CCCEEECHHHHHHHHHHHH
Q ss_conf             3510307999999999999
Q gi|254780928|r  471 VAQITIPISELVSTVKKIL  489 (496)
Q Consensus       471 ~~q~~v~~~~l~~~~~~~l  489 (496)
                          .++++++++.|++=.
T Consensus       578 ----~msleeli~~i~~ev  592 (613)
T PRK03991        578 ----EMTLEELIERIKEET  592 (613)
T ss_pred             ----CCCHHHHHHHHHHHH
T ss_conf             ----122999999999997


No 25 
>pfam00587 tRNA-synt_2b tRNA synthetase class II core domain (G, H, P, S and T). Other tRNA synthetase sub-families are too dissimilar to be included. This domain is the core catalytic domain of tRNA synthetases and includes glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases.
Probab=99.96  E-value=8.9e-30  Score=212.53  Aligned_cols=155  Identities=28%  Similarity=0.511  Sum_probs=136.2

Q ss_pred             HHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHH-HCC
Q ss_conf             9999999999999985984801652022887520267554333221689869998899988883899999995112-055
Q gi|254780928|r   25 IRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFD-TIV  103 (496)
Q Consensus        25 ~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~-~~~  103 (496)
                      ++++|++.+++++.++||++|.||+|++.+++.+++ ..+...++||+|.|++|+.++|||+.|+|++|+++.+.. ...
T Consensus         1 l~~~l~~~~~~~~~~~G~~~i~tP~l~~~~~~~~sg-~~~~~~~~my~~~d~~~~~l~Lrp~~~~~~~~~~~~~~~~~~~   79 (170)
T pfam00587         1 LRNALENFIRDLFKRYGYQEVDTPILEPKELWEGSG-HWDDYFDEMYRFKDRGGEELYLRPTAEVGITRLFKNEILSYRD   79 (170)
T ss_pred             CHHHHHHHHHHHHHHCCCEEEECCEEEEHHHHHHCC-CCCCCHHHEEEEECCCCCEEEEECCCCHHHHHHHHHHCCCCCC
T ss_conf             979999999999998599899999175678983447-7655753125673589976887325745888998862003235


Q ss_pred             CCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCC--CHHHHHHHHHHHHHHHHHCCCCCCCCEEECCCCHHHHHH
Q ss_conf             411233101333025-87644--4211111000121000--024578899999999975188877711303660558999
Q gi|254780928|r  104 FPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSS--AETADAEMCMMMADTLEAVGIKRNDYHIGINNRKILDGI  178 (496)
Q Consensus       104 ~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~--~~~~DaEii~l~~~~l~~lgl~~~~~~I~in~~~il~~i  178 (496)
                      +|+|+||+|+|||+| +|++|  |+|||+|+++++||.+  +..+++|++.++.++|+.|||   +|.+.++|++.+.+.
T Consensus        80 lP~r~~~~~~~fR~E~~~~~Gl~R~reF~q~d~~~~~~~e~s~~~~~e~~~~~~~~~~~lgl---~~~i~~~~~g~l~~~  156 (170)
T pfam00587        80 LPLKLYQIGPCFRYEARPRRGLGRVREFTQVDAEIFGTPEQSEEEDEELLKLAEEILQDLGL---PYRVVLNTRGDLGGY  156 (170)
T ss_pred             CCCEEECCCCCCCCCCCCCCCCCEEEEEEEECEEEEECCCHHHHHHHHHHHHHHHHHHHCCC---CEEEEECCCCCCCCH
T ss_conf             86013306530067777666774367889804799967004299999999999999998799---679997267778986


Q ss_pred             HHHHC
Q ss_conf             99832
Q gi|254780928|r  179 LEKIG  183 (496)
Q Consensus       179 l~~lg  183 (496)
                      ....+
T Consensus       157 ~~~~~  161 (170)
T pfam00587       157 ASKTG  161 (170)
T ss_pred             HHHCC
T ss_conf             78607


No 26 
>COG0441 ThrS Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=99.95  E-value=6.1e-26  Score=187.62  Aligned_cols=368  Identities=19%  Similarity=0.275  Sum_probs=236.1

Q ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHH
Q ss_conf             37998765886689999999999999999859848016520228875202675543332216898699988999888838
Q gi|254780928|r   10 ELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTA   89 (496)
Q Consensus        10 ~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~   89 (496)
                      ....|+.-|+|..+.+++.+++-++.....+||++|.||.+-..++. ..+|..++....||.+.. .++.++|||--.+
T Consensus       207 ~~~~G~~~~~pkG~~ir~~le~y~~~~~~~~Gy~~V~TP~~~~~~l~-~~SGH~~~y~e~mf~~~~-~~~~~~lKpmNCp  284 (589)
T COG0441         207 EEGPGLPFWHPKGATIRNLLEDYVRTKLRSYGYQEVKTPVLADLELW-ELSGHWDNYKEDMFLTES-DDREYALKPMNCP  284 (589)
T ss_pred             CCCCCCEEECCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEEECCCC-HHCCCHHHCCCCCEEECC-CCHHHEEEECCCH
T ss_conf             45885069878846699999999998987558527128736300001-011204551366066213-7723306410787


Q ss_pred             HHHHHHHHHHH-HCCCCHHHHHHHHHHCCCCCC--CC--CCCCCCCCCHHHHHCCCHHH-HH-HHHHHHHHHHHHCCCCC
Q ss_conf             99999995112-055411233101333025876--44--42111110001210000245-78-89999999997518887
Q gi|254780928|r   90 PLARYVAENFD-TIVFPCRTYRIGPVFRNEKHG--PG--RFRQFIQCDVDNVGSSAETA-DA-EMCMMMADTLEAVGIKR  162 (496)
Q Consensus        90 ~~aR~~~~~~~-~~~~p~k~yy~g~vfR~e~p~--~G--r~REf~Q~g~eiiG~~~~~~-Da-Eii~l~~~~l~~lgl~~  162 (496)
                      .-+.++.+... ...+|+|++.+|.|||+|.++  .|  |.|.|+|-+..||...+... ++ +++.++.++++.||++ 
T Consensus       285 gh~~ifk~~~~SYR~LP~r~~E~g~v~R~E~SGal~GL~RvR~ftqdD~Hifc~~dQi~~E~~~~~~~i~~v~~~fg~~-  363 (589)
T COG0441         285 GHILIFKSGLRSYRELPLRLAEFGYVYRYEKSGALHGLMRVRGFTQDDAHIFCTPDQIKDEFKGILELILEVYKDFGFT-  363 (589)
T ss_pred             HHHHHHHCCCCCEECCCHHHHHCCEEECCCCCCHHHCCCCCCCEEECCCCEECCHHHHHHHHHHHHHHHHHHHHHCCCC-
T ss_conf             6899985378611004404331442211567642222400113224562014046788999999999999999846975-


Q ss_pred             CCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHH
Q ss_conf             77113036605589999983256035643345553332200128967899862101650035553048999778998887
Q gi|254780928|r  163 NDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVS  242 (496)
Q Consensus       163 ~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  242 (496)
                       +|.+.++-+.      ...|....+...  .              +.++..+......    +....+        -..
T Consensus       364 -~y~~~ls~r~------k~ig~d~~W~~a--~--------------~~l~~al~~~~~~----~~~~~G--------~ga  408 (589)
T COG0441         364 -DYEVKLSTRP------KFIGSDEMWDKA--E--------------AALREALKEIGVE----YVEEPG--------EGA  408 (589)
T ss_pred             -EEEEEEECCC------CCCCCHHHHHHH--H--------------HHHHHHHHHHCCE----EEECCC--------CEE
T ss_conf             -3799996477------646873556778--8--------------9999888760860----364687--------357


Q ss_pred             HHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCC
Q ss_conf             40478568899899860357325888999999999987508884430011010012212341248998546667767666
Q gi|254780928|r  243 FLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKP  322 (496)
Q Consensus       243 ~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~  322 (496)
                      |.....+-.             ...++..         ..  ...-|.+|..+..        .|.+.+.. ..+...++
T Consensus       409 FyGPKid~~-------------v~Dalgr---------~~--q~~TIQlDf~lpe--------RF~l~Yv~-~d~~~~~P  455 (589)
T COG0441         409 FYGPKIDFQ-------------VKDALGR---------EW--QLGTIQLDFNLPE--------RFDLEYVD-EDGEKKRP  455 (589)
T ss_pred             EECCCCCEE-------------EEECCCC---------CE--ECCEEEEECCCHH--------HCEEEEEC-CCCCCCCC
T ss_conf             977664248-------------8735686---------10--0561787037724--------21479985-77875387


Q ss_pred             CCE-EEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHH-CCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHH
Q ss_conf             310-110032323552111234567742133110168999997-368776655577148998269768999999999999
Q gi|254780928|r  323 VVF-GSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKS-LESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQML  400 (496)
Q Consensus       323 ~~~-~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~-~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~L  400 (496)
                      +.+ +                     |+  .-.+||.+.+|.+ .....+.  +..|+.|++++.+.+....|.+++++|
T Consensus       456 vmiHr---------------------ai--~GSiERfi~iLiE~~~G~~P~--WLaPvQv~VipV~~~~~~ya~~v~~~L  510 (589)
T COG0441         456 VIIHR---------------------AI--LGSIERFIGILLEHYAGALPT--WLAPVQVRVIPVADEHLDYAKEVAEKL  510 (589)
T ss_pred             EEEEE---------------------CC--CHHHHHHHHHHHHHCCCCCCC--CCCCCEEEEEEECHHHHHHHHHHHHHH
T ss_conf             89992---------------------46--414899999999864698876--578517999993737778999999999


Q ss_pred             HHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHH
Q ss_conf             98798399971899998899999987799899998872874881899787888364331120144320233510307999
Q gi|254780928|r  401 RTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISE  480 (496)
Q Consensus       401 r~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~  480 (496)
                      +++||+|+++.. +-++++.++-|....+||++++|++|+++++|.+|...++++                  .++++++
T Consensus       511 ~~~giRvdvD~~-~e~l~kKIR~a~~~kipyiiVvG~kE~e~~~v~vR~r~~~~~------------------~~~~l~e  571 (589)
T COG0441         511 RKAGIRVDIDDR-NEKLGKKIREAGTQKIPYVIVVGDKEVETGTVVVRRRGGKQQ------------------KSMTLEE  571 (589)
T ss_pred             HHCCCEEEECCC-CCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCC------------------CCCCHHH
T ss_conf             972970241256-660689999877628787999731432038717997267755------------------6346999


Q ss_pred             HHHHHHHHHHHH
Q ss_conf             999999999864
Q gi|254780928|r  481 LVSTVKKILQEN  492 (496)
Q Consensus       481 l~~~~~~~l~~~  492 (496)
                      +++.+++-.++.
T Consensus       572 ~i~~ik~e~~~~  583 (589)
T COG0441         572 LVEELKKEIEGR  583 (589)
T ss_pred             HHHHHHHHHHCC
T ss_conf             999999876445


No 27 
>TIGR00409 proS_fam_II prolyl-tRNA synthetase; InterPro: IPR004500   The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases .   Prolyl-tRNA synthetase (6.1.1.15 from EC) exists in two forms, which are loosely related. The first form, is present in the majority of eubacteria species. The second one, present in some eubacteria, is essentially present in archaea and eukaryota. Prolyl-tRNA synthetase belongs to class IIa.    This family includes the enzyme from Escherichia coli that contains all three of the conserved consensus motifs characteristic of class II aminoacyl-tRNA synthetases  and the enzyme from the spirochete Borrelia burgdorferi.; GO: 0000166 nucleotide binding, 0004827 proline-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006433 prolyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=99.94  E-value=4.3e-25  Score=182.09  Aligned_cols=438  Identities=19%  Similarity=0.245  Sum_probs=248.1

Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCC-CEEEECCCHHHHHHHHCCCCCCCCCCC---CEEEEECCCCCEEE
Q ss_conf             71037998765886689999999999999999859-848016520228875202675543332---21689869998899
Q gi|254780928|r    7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYG-FDPIETPLLEYSDSLGKFLPDEDRPNK---GVFSLQDDDGQWIS   82 (496)
Q Consensus         7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G-~~~I~tP~lE~~~~~~~~~~~~~~~~k---~~y~f~D~~g~~l~   82 (496)
                      |+-+.-.|.+-|||...++.++|.+.+++.+.++| +.|+.+|.|....-||..+|.++...+   +|++|.|+.|+.+|
T Consensus        32 fIR~~~SGlY~~LPL~~rVL~Kv~~ivreeM~~~GGA~E~~lp~~~~la~LW~~SGRW~~YG~seGELl~lkDR~~r~f~  111 (620)
T TIGR00409        32 FIRRLGSGLYNWLPLGLRVLKKVENIVREEMNKDGGAIEVLLPALQPLAELWQESGRWDTYGPSEGELLRLKDRKGREFV  111 (620)
T ss_pred             EEEECCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCCC
T ss_conf             47724341445657899999988999998622678533466766778999875407532468654336676526888735


Q ss_pred             ECC----CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCHHHHHH---HHHHHH
Q ss_conf             988----883899999995112055411233101333025-87644--42111110001210000245788---999999
Q gi|254780928|r   83 LRY----DLTAPLARYVAENFDTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAETADAE---MCMMMA  152 (496)
Q Consensus        83 LRp----DlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~~~DaE---ii~l~~  152 (496)
                      |-|    ++|.=+.+++.+..   .+|+-+|||.+-||+| ||..|  |-|||.-=|+=.|-++....+++   +=....
T Consensus       112 LgpT~EEvIT~l~~~~i~SYK---qLP~~lYQI~tKFRDEiRPRFGl~RgREFiMKDAYSFH~~~ESL~~ty~~m~~aY~  188 (620)
T TIGR00409       112 LGPTHEEVITDLVRNEIKSYK---QLPLNLYQIQTKFRDEIRPRFGLLRGREFIMKDAYSFHSDEESLDATYQKMDQAYS  188 (620)
T ss_pred             CCCCCHHHHHHHHHHHHHHHH---HCCCCEECCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCHHHHHHHHHHHHHHHH
T ss_conf             678665568999999875453---06830100451214420488760001232302425544787679999889999999


Q ss_pred             HHHHHCCCCCCCCE-EECCCCH-HHHH-------HHHHHCCCHHHHHHHHH------H-----------------HHHHH
Q ss_conf             99975188877711-3036605-5899-------99983256035643345------5-----------------53332
Q gi|254780928|r  153 DTLEAVGIKRNDYH-IGINNRK-ILDG-------ILEKIGLHGDDKLNERL------I-----------------VLRAI  200 (496)
Q Consensus       153 ~~l~~lgl~~~~~~-I~in~~~-il~~-------il~~lgi~~~~~~~~~~------~-----------------~~~~i  200 (496)
                      +||++|||.   |. |-.-+.| -+-|       +|..+|   |+..-.+.      +                 .....
T Consensus       189 ~IF~rlGld---FR~iV~ADSGdaIGG~~S~EF~vL~~~G---EDti~~~~h~~dyaAlNiE~A~~~~~~~P~~~~~~~~  262 (620)
T TIGR00409       189 NIFSRLGLD---FRPIVQADSGDAIGGSASHEFMVLAESG---EDTIVYSDHESDYAALNIELAEALKPGEPRNAPTAEL  262 (620)
T ss_pred             HHHHHCCCC---CCEEEEECCCCCCCCCCCHHHHHHHHCC---CCEEEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHCC
T ss_conf             999865898---2106871578757888625678866458---9617886257651232367776425788750113314


Q ss_pred             HHCCCC--------------CHH-HHHHHHHHCCCCHHHHHH---------------CCCCCCHHHHH--HHHHHHCCCC
Q ss_conf             200128--------------967-899862101650035553---------------04899977899--8887404785
Q gi|254780928|r  201 DKLDKF--------------GLQ-GVKLLLGEGRTDNSGDFT---------------KGANLTSEQID--IMVSFLSIDL  248 (496)
Q Consensus       201 dkl~k~--------------~~~-~~~~~l~~~~~~~~~~~~---------------~~~~~~~~~~~--~~~~~~~~~~  248 (496)
                      ++..+.              +.+ .++.++.+..........               +..+.....++  ...+.+....
T Consensus       263 ~~~~tPN~~ti~~~~~~f~~~~~~~~K~ll~ka~~~~~K~~~v~l~vRGD~ielnevK~~n~l~klaPhy~~~~~le~~~  342 (620)
T TIGR00409       263 KKVDTPNTKTIAELVEFFNLPAEKVVKTLLVKAVDKSGKEPLVALLVRGDDIELNEVKAKNLLNKLAPHYLVAQVLELAT  342 (620)
T ss_pred             CCCCCCCCHHHHHHHHHHCCCHHHHHCEEEEEEEECCCCEEEEEEEEECCCCCHHHHCCCCCCCHHCCCHHHCCEEECCC
T ss_conf             45477441118999998678876831031466651378606888897367013221113466202134101034011147


Q ss_pred             -HHHHHH-HHHHHC--C--CH--------HHHHHHHHHHHHHHHHHHCCCCCCCCCCCH------H-HCCCCCC-CCCEE
Q ss_conf             -688998-998603--5--73--------258889999999999875088844300110------1-0012212-34124
Q gi|254780928|r  249 -EKSMHE-LYELVK--G--TI--------AGEKGFNELVVISELVRKSGYNSNRIKISS------T-IVRGLEY-YTGCV  306 (496)
Q Consensus       249 -~~~~~~-l~~~~~--~--~~--------~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl------~-lvRgLdY-YTG~v  306 (496)
                       ...+.. ......  .  ..        ..+.....+..+.+.++.       |.|+.      . ++.-.++ |+++=
T Consensus       343 ~~~~~~~~~~~~~~~~g~~~~~~sddyiatnkqv~~~~~~~~khvd~-------iif~~~~~~~f~~~A~~~~~h~~~vn  415 (620)
T TIGR00409       343 GEEEIEQKIASKPDLLGPVKINGSDDYIATNKQVFIDIPVLIKHVDQ-------IIFTVALMSDFAAGANADDKHYKNVN  415 (620)
T ss_pred             CHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHCCCCCEECCCCCCCEEECC
T ss_conf             14799998864067555656665310233101344203566644646-------62126352685010345456503026


Q ss_pred             E-------EEE--ECCCCCCCCCCCCCEEE-----------ECC-CCCCCC-CCCCCC---CCCC-CC-C-EEEECCHHH
Q ss_conf             8-------998--54666776766631011-----------003-232355-211123---4567-74-2-133110168
Q gi|254780928|r  307 Y-------EAI--LGFPVMNEKQKPVVFGS-----------VGG-GGRYDG-LVSRFK---GQNV-PA-T-GFSIGISRL  358 (496)
Q Consensus       307 F-------E~~--~~~~~~~~~~~~~~~~a-----------I~~-GGRYD~-L~~~f~---~~~~-pa-v-Gfaigverl  358 (496)
                      .       |++  +.....+...-|.+.|+           |.- |-+|-. |-..|-   |++- |= . ..+|||.|+
T Consensus       416 ~~~~~~~~~~~~D~r~~~eGDrP~Pdg~G~L~~~~gIEVGHIF~LG~kYS~al~A~f~de~Gk~~t~~~MGCYGIGVSRl  495 (620)
T TIGR00409       416 WDRDVAIPEVVADIRKVKEGDRPSPDGKGTLKIAKGIEVGHIFKLGTKYSKALKATFLDENGKEQTFLTMGCYGIGVSRL  495 (620)
T ss_pred             CCCCCCHHHHHHHHHHEEECCCCCCCCCCEEEECCCCEEEEEECCCHHHHHHHCCEEECCCCCCCCEEECCCCCCHHHHH
T ss_conf             31002113222001000247778843874056405623411330220333330655646688502525605557138999


Q ss_pred             HHHHHHCCCCCCCCCC-----CCEEEEEEECCCH--HHHHHHHHHHHHHH-----HCCCEEEEEECCCCCHHHHHHH--H
Q ss_conf             9999973687766555-----7714899826976--89999999999999-----8798399971899998899999--9
Q gi|254780928|r  359 IVALKSLESSTNNIKE-----MGPVLITTMDHDS--DSLSKYQMYTQMLR-----TAGIRAEMFLGSSKNFGNQLKY--A  424 (496)
Q Consensus       359 ~~~l~~~~~~~~~~~~-----~~~v~V~~~~~~~--~~~~~~~~ia~~Lr-----~~Gi~~e~~~~~~~sl~~~~~~--A  424 (496)
                      +.|+.++..-.....|     |-.|.|++.+...  ....-|.++.+.|+     ++|+.+-+|.. +..++-.++.  .
T Consensus       496 ~~Ai~Eq~~D~~G~~WP~~~APy~V~Iv~~N~~~se~~~~~A~~~Y~~L~ndPtm~~g~dvllDDR-~ER~Gv~f~Dkl~  574 (620)
T TIGR00409       496 VSAIAEQHYDERGIIWPKAIAPYDVVIVVMNMKDSEEQKQLAEEVYSELLNDPTMAQGVDVLLDDR-NERAGVKFRDKLS  574 (620)
T ss_pred             HHHHHHHCCCCCCCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH-HCCCCCCHHHHHH
T ss_conf             999998505878636764538814899617898427899999999998502711365335664101-0235551566777


Q ss_pred             HHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECC
Q ss_conf             8779989999887287488189978788836433112
Q gi|254780928|r  425 DRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIK  461 (496)
Q Consensus       425 ~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~  461 (496)
                      +-+|+|+.||||++.++++.+.+|..++||...+...
T Consensus       575 eLIG~P~~v~~G~~~l~~~~~Ev~~R~~gEk~~i~~~  611 (620)
T TIGR00409       575 ELIGIPLRVVVGKKNLDNGEIEVKKRRNGEKQLIKKD  611 (620)
T ss_pred             HHCCCCEEEEECCCCCCCCCEEEEECCCCCHHHHHHH
T ss_conf             7559871999756216775168986155104577789


No 28 
>TIGR00389 glyS_dimeric glycyl-tRNA synthetase; InterPro: IPR002315   The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases .   In eubacteria, glycyl-tRNA synthetase (6.1.1.14 from EC) is an alpha2/beta2 tetramer composed of 2 different subunits , , . In some eubacteria, in archaea and eukaryota, glycyl-tRNA synthetase is an alpha2 dimer, this family. It belongs to class IIc and is one of the most complex synthetases. What is most interesting is the lack of similarity between the two types: divergence at the sequence level is so great that it is impossible to infer descent from common genes. The alpha (see IPR002310 from INTERPRO) and beta subunits (see IPR002311 from INTERPRO) also lack significant sequence similarity. However, they are translated from a single mRNA , and a single chain glycyl-tRNA synthetase from Chlamydia trachomatis has been found to have significant similarity with both domains, suggesting divergence from a single polypeptide chain .   The sequence and crystal structure of the homodimeric glycyl-tRNA synthetase from Thermus thermophilus, shows that each monomer consists of an active site strongly resembling that of the aspartyl and seryl enzymes, a C-terminal anticodon recognition domain of 100 residues and a third domain unusually inserted between motifs 1 and 2 almost certainly interacting with the acceptor arm of tRNA(Gly). The C-terminal domain has a novel five-stranded parallel-antiparallel beta-sheet structure with three surrounding helices. The active site residues most probably responsible for substrate recognition, in particular in the Gly binding pocket, can be identified by inference from aspartyl-tRNA synthetase due to the conserved nature of the class II active site , .; GO: 0000166 nucleotide binding, 0004820 glycine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006426 glycyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=99.92  E-value=1.4e-23  Score=172.37  Aligned_cols=414  Identities=21%  Similarity=0.247  Sum_probs=250.0

Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHH-HHCC-CEEEECCCHHHHHHHHCCCCCCCC---------CCCC------------
Q ss_conf             9876588668999999999999999-9859-848016520228875202675543---------3322------------
Q gi|254780928|r   13 RGFADCPTKEIRIRNRILDSIRNIY-ENYG-FDPIETPLLEYSDSLGKFLPDEDR---------PNKG------------   69 (496)
Q Consensus        13 ~G~~D~~p~~~~~~~~i~~~l~~~f-~~~G-~~~I~tP~lE~~~~~~~~~~~~~~---------~~k~------------   69 (496)
                      .|+-||-|..+.++++|.+.|++-| ..++ +-+|+||+|-+++.+..+| .-|.         .+++            
T Consensus        27 aG~~DyGPLG~~Lk~~I~~~wr~~fi~~e~d~~~id~P~i~~~evlKASG-Hvd~F~D~~v~Ck~C~~~fRADHl~e~~~  105 (606)
T TIGR00389        27 AGFWDYGPLGAVLKNNIKNAWRKFFIINERDVLEIDSPIITPEEVLKASG-HVDNFTDPMVDCKKCKERFRADHLIEEKL  105 (606)
T ss_pred             HHHHHCCCCHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCCHHHHHHCC-CCCCCCCCEEECCCCCCEECHHHHHHHHH
T ss_conf             20010157247899999998887511103653464245337257997528-64567312267378880401012325665


Q ss_pred             ----------------------------------------------------------------EEEEE-CC-C--CCEE
Q ss_conf             ----------------------------------------------------------------16898-69-9--9889
Q gi|254780928|r   70 ----------------------------------------------------------------VFSLQ-DD-D--GQWI   81 (496)
Q Consensus        70 ----------------------------------------------------------------~y~f~-D~-~--g~~l   81 (496)
                                                                                      ||... -. +  .+..
T Consensus       106 ~~~~~~dqqiK~V~~~D~K~~E~iL~~iDG~~~~eL~E~m~~~~i~CP~C~g~~nl~~v~~FNLMF~T~IG~~~~~~~~g  185 (606)
T TIGR00389       106 GKDVEGDQQIKDVKLDDVKEYEKILAKIDGETGPELKEVMEKYDINCPNCGGENNLTEVRSFNLMFQTEIGVVGDSKRKG  185 (606)
T ss_pred             HHHCCCCCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHCCCCCEEEECCCCCCCCEE
T ss_conf             10004761001268545777998975507871156787763427889822354561350120454110211334776224


Q ss_pred             EECCCCHH-----HHHHHHHHHHHHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCC--CHHHHHH-----
Q ss_conf             99888838-----99999995112055411233101333025-87644--4211111000121000--0245788-----
Q gi|254780928|r   82 SLRYDLTA-----PLARYVAENFDTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSS--AETADAE-----  146 (496)
Q Consensus        82 ~LRpDlT~-----~~aR~~~~~~~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~--~~~~DaE-----  146 (496)
                      -|||| ||     +|=|.+.-+.  ..+|+-..++|+-||+| -|+.|  |.|||.|+=+|+|-.+  ..++..+     
T Consensus       186 YLRPE-TAQG~FinFk~LL~~~r--~klPFgvAQiGKSfRNEIsPr~gl~R~REF~QaE~E~FV~P~~k~h~~F~~~~~~  262 (606)
T TIGR00389       186 YLRPE-TAQGIFINFKRLLQFFR--NKLPFGVAQIGKSFRNEISPRQGLIRLREFEQAEIEFFVDPEDKSHPKFEEVKQE  262 (606)
T ss_pred             ECCCH-HCCCCCHHHHHHHHHHC--CCCCEEEEEECCEEECCCCCCCCEEEECHHHHHHHHHCCCCCCCCCCCHHHHHHC
T ss_conf             14760-10475121689999745--8996489974413604003898757103154466874259600167200145405


Q ss_pred             HHHHHH--HHHHHCCCCCCCCEEECC---------------CCHHHHHHHHHHC-CCHHHHHHHHHH-----HHHHHHHC
Q ss_conf             999999--999751888777113036---------------6055899999832-560356433455-----53332200
Q gi|254780928|r  147 MCMMMA--DTLEAVGIKRNDYHIGIN---------------NRKILDGILEKIG-LHGDDKLNERLI-----VLRAIDKL  203 (496)
Q Consensus       147 ii~l~~--~~l~~lgl~~~~~~I~in---------------~~~il~~il~~lg-i~~~~~~~~~~~-----~~~~idkl  203 (496)
                      .+.++-  +-++.-|-....+.+.++               |.+....+|...| ++++ +++.+.+     .+.|.|..
T Consensus       263 ~~~Llp~~R~~~E~g~~~~~v~~t~gEAVe~G~i~ne~L~YFia~~~~FL~~igkI~~d-klRFrqH~~~E~AHYA~dcw  341 (606)
T TIGR00389       263 VVPLLPAERQMQESGESEKPVKMTIGEAVEKGIIENETLAYFIALVKRFLLEIGKINPD-KLRFRQHLKNEMAHYAKDCW  341 (606)
T ss_pred             CCCCCCCCCCCHHCCCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHCCCCHH-HHHHHHCCCHHHHHHHHHHE
T ss_conf             00136764540001576405444178886346521006899999999999865278878-85233136004556555362


Q ss_pred             C------CCCHHHHHHHHHHCCCCHHHHHHCCCCCCH--------------HHHHHHHHHHCCCCHHHHHHHHHHHCCCH
Q ss_conf             1------289678998621016500355530489997--------------78998887404785688998998603573
Q gi|254780928|r  204 D------KFGLQGVKLLLGEGRTDNSGDFTKGANLTS--------------EQIDIMVSFLSIDLEKSMHELYELVKGTI  263 (496)
Q Consensus       204 ~------k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  263 (496)
                      |      +.||.++.-.-.....|- ..-.+..+.+.              -.+.....++.....+....+.+.+    
T Consensus       342 D~E~~t~~yGwiE~~GiADR~~yDL-~~Hsk~s~~~L~Vf~~~DeP~~~~~~~i~~~~k~~G~~FrkdAk~ies~L----  416 (606)
T TIGR00389       342 DAEILTSRYGWIEVVGIADRTDYDL-TQHSKFSGKDLSVFQELDEPREVTKREIELNKKKLGPKFRKDAKKIESAL----  416 (606)
T ss_pred             EEEEECCCCCCEEEEEEECCCCCCH-HHHHHHHCCCCEEEECCCCCEEEEEEEEEEECCCCCCHHHCHHHHHHHHH----
T ss_conf             3556657987389987406772216-88999849896163057887257788987301346843201178999999----


Q ss_pred             HHHHHH--HHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCCCCCCCCCC
Q ss_conf             258889--999999999875088844300110100122123412489985466677676663101100323235521112
Q gi|254780928|r  264 AGEKGF--NELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGLVSRF  341 (496)
Q Consensus       264 ~~~~~l--~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~L~~~f  341 (496)
                         .++  +++..+.+.|+..|-    +.+..         +|-.||+.-..........      +..|=         
T Consensus       417 ---~~lse~dl~~~~~~l~~~G~----f~~~~---------dG~~ve~~~~~v~i~~~~~------v~~~e---------  465 (606)
T TIGR00389       417 ---ENLSEDDLEEVEKELDEEGK----FIIEV---------DGKEVEILKDLVEIKEVEE------VVTGE---------  465 (606)
T ss_pred             ---HHCCHHHHHHHHHHHHCCCE----EEEEE---------CCEEEEECHHHEEEEEEEE------EEEEE---------
T ss_conf             ---73287478999998634986----99998---------5818987121242666678------88534---------


Q ss_pred             CCCCCCCC-EEEECCHHHHHHHHHCC-------------CCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHCCCEE
Q ss_conf             34567742-13311016899999736-------------87766555771489982697689999999999999879839
Q gi|254780928|r  342 KGQNVPAT-GFSIGISRLIVALKSLE-------------SSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTAGIRA  407 (496)
Q Consensus       342 ~~~~~pav-Gfaigverl~~~l~~~~-------------~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~  407 (496)
                        +=+|.| ==|+|+|||+.++..+.             ...++.-+|..|.|+++....+....|.+|.+.||..||.+
T Consensus       466 --k~iP~VIEPS~Gi~Ri~Y~~l~hsy~~~~~d~e~R~vL~Lp~~~aP~kv~VlPLvnk~~l~~~a~~i~~~Lr~~~i~~  543 (606)
T TIGR00389       466 --KYIPHVIEPSFGIDRIIYSLLEHSYQEEVLDGEEREVLRLPPHVAPIKVAVLPLVNKEELKEIAKEIEQALRKSGIII  543 (606)
T ss_pred             --EEECCEEECCCHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCEE
T ss_conf             --880607616750378999999874323510278613741586628567999631156540789999999986269769


Q ss_pred             EEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHHHHHHHH
Q ss_conf             99718999988999999877998999988728748818997878883643311201443202335103079999999999
Q gi|254780928|r  408 EMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISELVSTVKK  487 (496)
Q Consensus       408 e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~~  487 (496)
                      +++ +++-|+|+.++.||.+|+||.|.|--+.+++++||||+..|-                  .|+.|+|.||++.+++
T Consensus       544 ~~D-dSG~SIGkRYrR~DEIGtPF~vT~DfetlED~tVT~ReRds~------------------~QvRv~I~eL~~~~~~  604 (606)
T TIGR00389       544 EYD-DSGTSIGKRYRRADEIGTPFCVTVDFETLEDETVTIRERDSL------------------KQVRVKIEELVSYLKK  604 (606)
T ss_pred             EEC-CCCCCHHHHHHCCCCCCCCCEEEECCCCCCCCEEEEEECCCC------------------EEEEEEHHHHHHHHHH
T ss_conf             987-789861003101443688715874253110764677307884------------------0453663438999986


Q ss_pred             H
Q ss_conf             9
Q gi|254780928|r  488 I  488 (496)
Q Consensus       488 ~  488 (496)
                      .
T Consensus       605 ~  605 (606)
T TIGR00389       605 L  605 (606)
T ss_pred             C
T ss_conf             0


No 29 
>COG0442 ProS Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=99.89  E-value=3.4e-22  Score=163.29  Aligned_cols=409  Identities=18%  Similarity=0.193  Sum_probs=222.7

Q ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECC
Q ss_conf             87103799876588668999999999999999985984801652022887520267554333221689869998899988
Q gi|254780928|r    6 KLRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRY   85 (496)
Q Consensus         6 ~~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRp   85 (496)
                      .|.-+.-+|+.-|+|...+++++|.+.+++.+++.|.+++..|+|.+ .-|++-++..+-...+||.++|++++.++|||
T Consensus        30 g~i~~~~~G~y~~lP~g~rv~~kI~~iir~em~~~G~~Evl~P~L~p-~eLwkEs~r~~~f~~El~~v~drg~~~l~L~P  108 (500)
T COG0442          30 GMIRKPVKGLYVWLPLGLRVLEKIENIIREEMDKIGAQEVLFPTLIP-AELWKESGRWEGFGPELFRVKDRGDRPLALRP  108 (500)
T ss_pred             CCEEECCCCEEEECCCHHHHHHHHHHHHHHHHHHCCCEEEECHHCCH-HHHHHHHCHHHCCCHHHEEEECCCCCEEEECC
T ss_conf             86020257169977658999999999999999860850883110587-89998748563036444899716996343578


Q ss_pred             CC---HHHHHH-HHHHHHHHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCHHHHH---HHHHHHHHHH
Q ss_conf             88---389999-9995112055411233101333025-87644--4211111000121000024578---8999999999
Q gi|254780928|r   86 DL---TAPLAR-YVAENFDTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAETADA---EMCMMMADTL  155 (496)
Q Consensus        86 Dl---T~~~aR-~~~~~~~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~~~Da---Eii~l~~~~l  155 (496)
                      --   -.++.| ++.++   ..+|+++|+++++||+| ||..|  |-|||+--+..-|-.+...++.   +++.+..++|
T Consensus       109 TsEe~it~~~~~~i~SY---kdLPl~lYQi~~kfRdE~rpr~gllR~REF~mkdaySfh~~~e~a~~~y~~~~~~Y~~if  185 (500)
T COG0442         109 TSEEVITDMFRKWIRSY---KDLPLKLYQIQSKFRDEKRPRFGLLRGREFLMKDAYSFHADEEDAEETYEKMLDAYSRIF  185 (500)
T ss_pred             CCHHHHHHHHHHHHHHH---HHCCCCEEEEEEEEECCCCCCCCCCCHHEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             86899999999986556---518812101345884334688773000203301112102898999999999999999999


Q ss_pred             HHCCCCCCCCEEECCCCHHHH--------HHHHHHCCCHHHHHHHHHHHHHHHHHCC-CCCHHHHH-HHHHHCCCCHHHH
Q ss_conf             751888777113036605589--------9999832560356433455533322001-28967899-8621016500355
Q gi|254780928|r  156 EAVGIKRNDYHIGINNRKILD--------GILEKIGLHGDDKLNERLIVLRAIDKLD-KFGLQGVK-LLLGEGRTDNSGD  225 (496)
Q Consensus       156 ~~lgl~~~~~~I~in~~~il~--------~il~~lgi~~~~~~~~~~~~~~~idkl~-k~~~~~~~-~~l~~~~~~~~~~  225 (496)
                      .++|+.   +...--+.+..-        .+....   .+.+..........+++.. ....+.-. ..+..       .
T Consensus       186 ~~i~l~---~~~~~ad~g~~Gg~~S~eF~~l~pd~---ge~qi~ts~~y~aN~e~a~~~~~~~~~~~~~~~~-------v  252 (500)
T COG0442         186 LRLPLI---FGPVPADEGFIGGSYSHEFEALMPDG---GEDQIATSHHYGANFEKAFIDIKFEDEEEGELEY-------V  252 (500)
T ss_pred             HHCCCE---EEEECCCCCCCCCCCCEEEEEECCCC---CCCEEEEECCHHHHHHHHCCCCCCCCCCCCCCEE-------E
T ss_conf             858953---88625667788876536999985689---8547998062666687744677755666554147-------5


Q ss_pred             HHCCCCCCHHHHHHHHHHHCCC-----CHHHHHHH-----HHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCC-HH
Q ss_conf             5304899977899888740478-----56889989-----9860357325888999999999987508884430011-01
Q gi|254780928|r  226 FTKGANLTSEQIDIMVSFLSID-----LEKSMHEL-----YELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKIS-ST  294 (496)
Q Consensus       226 ~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~l-----~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~D-l~  294 (496)
                      .....+++......+. .+..+     ++..+...     .........-...++.-..+...+...+   ..+..| .+
T Consensus       253 ~t~s~~~s~r~~~~~i-~i~GDn~G~v~Pp~vA~~qV~~~~~~~~ga~~h~~~~~~~rd~~~~l~~~~---~~~~~D~~~  328 (500)
T COG0442         253 HTTSYGISTRIIGAAI-LIHGDNEGLVLPPIVADIQVVIVPIFIKGANEHYKVVNYGRDVAEPLEKLG---IRVEGDDRS  328 (500)
T ss_pred             CCCCEEEEEEEEEEEE-EEECCCCCCCCCCHHCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHCC---EEEECCCCC
T ss_conf             1462688740015899-971488776487500453489975133674101334304544456654302---588424568


Q ss_pred             -HCCCCCCC------CCEEEEEEECCCCCCCCCCCCCEEEECCCCCCCCC-CCCCC---CCC--CCCCEEEECCHHHHHH
Q ss_conf             -00122123------41248998546667767666310110032323552-11123---456--7742133110168999
Q gi|254780928|r  295 -IVRGLEYY------TGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGL-VSRFK---GQN--VPATGFSIGISRLIVA  361 (496)
Q Consensus       295 -lvRgLdYY------TG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~L-~~~f~---~~~--~pavGfaigverl~~~  361 (496)
                       -..|.-||      -|.+||+                     |=||-.- -..+-   |+.  .--+-+++|++|++.+
T Consensus       329 ~~~~G~kl~~~e~ieVghif~l---------------------G~kyse~~~a~v~~r~g~~~~~~mg~ygigvsr~v~a  387 (500)
T COG0442         329 PDGPGFKLNIWEGIEVGHIFEL---------------------GTKYSEAMNATVLDRDGKEQPKTMGCYGIGVSRLVAA  387 (500)
T ss_pred             CCCCCCEEEEEECCCCCEEEEE---------------------CCHHHHHCEEEEEECCCCCCCEEEECHHHHHHHHHHH
T ss_conf             9999721102102445779998---------------------7412541804999248871441787000003459999


Q ss_pred             HHHCCC--CCCCCC---CCCEEEEEEECC-CHHHHHHHHHHHHHHHHCC-CEEEEEECCCCCHHHHHHHHHHCCCCEEEE
Q ss_conf             997368--776655---577148998269-7689999999999999879-839997189999889999998779989999
Q gi|254780928|r  362 LKSLES--STNNIK---EMGPVLITTMDH-DSDSLSKYQMYTQMLRTAG-IRAEMFLGSSKNFGNQLKYADRRNCPLAII  434 (496)
Q Consensus       362 l~~~~~--~~~~~~---~~~~v~V~~~~~-~~~~~~~~~~ia~~Lr~~G-i~~e~~~~~~~sl~~~~~~A~~~g~~~vii  434 (496)
                      +.++.+  ....++   .+..+.|+.+.. +......+.++...|..+| ..|.++.. +...+..+..|+-+|+|+.++
T Consensus       388 ~ieq~~d~~gi~w~~a~apf~~~iv~~n~~~~~~~~~~~~~~~~l~~~G~~e~~~ddr-~er~g~k~~~a~liGiP~~~~  466 (500)
T COG0442         388 LLEQIHDENGIIWPKAIAPFDVHIVPVNTKDFKQAEAAEKLYVELPWCGTVEVLLDDR-DERPGVKFADADLIGIPLRIV  466 (500)
T ss_pred             HHHHHCCCCCCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHCCCHHHHHHHH-CCCCCCCCCCCEEECCCCEEE
T ss_conf             9997362226716001475000799748635999987565899877578621445422-014675014874710440331


Q ss_pred             ECHHHHHCCCEEEEECCCCCEEEE
Q ss_conf             887287488189978788836433
Q gi|254780928|r  435 QGTGERSRGMLQIKDLAKGKELSR  458 (496)
Q Consensus       435 ig~~e~~~~~v~vK~l~~g~q~~~  458 (496)
                      +|++ .+.|.|.+|...+|+...+
T Consensus       467 ~g~~-~~~g~~e~k~r~~ge~~~~  489 (500)
T COG0442         467 VGKR-LAEGEVEVKCRKCGEKEAV  489 (500)
T ss_pred             ECCC-CCCCCEEEEECCCCCHHHC
T ss_conf             0334-4688236886477861015


No 30 
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=99.89  E-value=3.4e-21  Score=156.80  Aligned_cols=338  Identities=20%  Similarity=0.206  Sum_probs=210.1

Q ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEEC----CCCCEEEEC
Q ss_conf             0379987658866899999999999999998598480165202288752026755433322168986----999889998
Q gi|254780928|r    9 AELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQD----DDGQWISLR   84 (496)
Q Consensus         9 ~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D----~~g~~l~LR   84 (496)
                      ....+|+.-|.|-.+.+++.|.+.+++.|++.|-+++..|+|-+.+.|.+-.+.-.-...+++..+-    +-.+.++||
T Consensus        31 ~~~VkG~~v~~P~g~~iw~~i~~~~~~~~~~~g~~~~~fP~liP~~~l~kE~~hvegF~pE~~~VT~~G~~~l~~~l~lr  110 (478)
T PRK08661         31 YSPVKGCMVIRPYGYAIWENIQKILDEMFKETGHENVYFPLLIPESLLQKEAEHIEGFAPEVAWVTHGGGEKLEEPLALR  110 (478)
T ss_pred             CCCCCEEEEECCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCC
T ss_conf             36887279978748999999999999999863980873024066899986665661567404899547875556763108


Q ss_pred             CCCH----HHHHHHHHHHHHHCCCCHHHHHHHHHHCCC-CCCCC-CCCCCCCCCHHHHHCCCHHHHHH---HHHHHHHHH
Q ss_conf             8883----899999995112055411233101333025-87644-42111110001210000245788---999999999
Q gi|254780928|r   85 YDLT----APLARYVAENFDTIVFPCRTYRIGPVFRNE-KHGPG-RFRQFIQCDVDNVGSSAETADAE---MCMMMADTL  155 (496)
Q Consensus        85 pDlT----~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e-~p~~G-r~REf~Q~g~eiiG~~~~~~DaE---ii~l~~~~l  155 (496)
                      |-.-    .-+++++.++.   .+|+++|++.+|||+| +|... |-|||+--...-+-.+...++.|   ++.+..+++
T Consensus       111 PTsEt~i~~~~~~wI~Syr---dLPl~l~Qw~~v~R~E~r~r~flR~rEFl~qe~ht~h~t~eea~~~~~~~~~~Y~~~~  187 (478)
T PRK08661        111 PTSETIIYPMFKKWIQSYR---DLPLLYNQWVNVVRWEKKTRPFLRTREFLWQEGHTAHATEEEAEEETLEMLEIYKEFA  187 (478)
T ss_pred             CCCHHHHHHHHHHHHHHHH---HCCCEEEEEEEEEECCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             8879999999999852365---2690002004458657889631434263542120113999999999999999999999


Q ss_pred             H-HCCCCCCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCH
Q ss_conf             7-518887771130366055899999832560356433455533322001289678998621016500355530489997
Q gi|254780928|r  156 E-AVGIKRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTS  234 (496)
Q Consensus       156 ~-~lgl~~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  234 (496)
                      + .|+++-    + .|.             ..+.               +|+.                     ++... 
T Consensus       188 e~~LaiPv----i-~g~-------------k~~~---------------ekFa---------------------Ga~~T-  212 (478)
T PRK08661        188 EDYLAIPV----I-IGK-------------KTEW---------------EKFA---------------------GADYT-  212 (478)
T ss_pred             HHHCCCCE----E-CCC-------------CCCC---------------CCCC---------------------CCCCC-
T ss_conf             98378755----6-377-------------7830---------------2178---------------------98654-


Q ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCC
Q ss_conf             78998887404785688998998603573258889999999999875088844300110100122123412489985466
Q gi|254780928|r  235 EQIDIMVSFLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFP  314 (496)
Q Consensus       235 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~  314 (496)
                      -.++.    +-.++.                  +|          + .|  .   ++.|    |-+|  .-.|.+.+...
T Consensus       213 ~~iea----~m~dGk------------------aL----------Q-~g--t---sH~L----Gq~f--skaf~i~f~d~  248 (478)
T PRK08661        213 YTIEA----MMPDGK------------------AL----------Q-IG--T---SHYL----GQNF--AKAFDIKFQDK  248 (478)
T ss_pred             CEEEE----ECCCCC------------------EE----------E-CC--C---EECC----CHHH--HHHCCCEEECC
T ss_conf             20588----726886------------------31----------1-43--1---4216----2235--67549699889


Q ss_pred             CCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCC--CEEEECCHHHHHHHHHCC-----CCCCCCCCCCEEEEEEECCCH
Q ss_conf             6776766631011003232355211123456774--213311016899999736-----877665557714899826976
Q gi|254780928|r  315 VMNEKQKPVVFGSVGGGGRYDGLVSRFKGQNVPA--TGFSIGISRLIVALKSLE-----SSTNNIKEMGPVLITTMDHDS  387 (496)
Q Consensus       315 ~~~~~~~~~~~~aI~~GGRYD~L~~~f~~~~~pa--vGfaigverl~~~l~~~~-----~~~~~~~~~~~v~V~~~~~~~  387 (496)
                                                 .|+..++  .-++|+ +|++.++...+     ...|+...+.+|.|+++..+.
T Consensus       249 ---------------------------~g~~~~~~~ts~Gis-tR~iga~Im~H~Dd~GlvlPp~iAP~qVvIvPi~~~~  300 (478)
T PRK08661        249 ---------------------------DGKLEYVHQTSWGVS-TRLIGALIMVHGDDKGLVLPPKIAPIQVVIIPILKKK  300 (478)
T ss_pred             ---------------------------CCCEEEEEEECCCHH-HHHHHHHHHHHCCCCCCCCCHHHCCCCEEEEEECCCC
T ss_conf             ---------------------------998867887534542-7899999998479986517845598308999845788


Q ss_pred             ---HHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHH
Q ss_conf             ---89999999999999879839997189999889999998779989999887287488189978788836433112014
Q gi|254780928|r  388 ---DSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNE  464 (496)
Q Consensus       388 ---~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~  464 (496)
                         .....+.++...|.++||+|.++..+ .+.+..+..++.+|+|+.|.||++++++|+|.|....+|+          
T Consensus       301 ~~~~v~~~~~~i~~~L~~~girv~~Ddrd-~~pG~Kf~~~elkGvPlRieiGprDle~~~v~v~RRDt~e----------  369 (478)
T PRK08661        301 EEEEVLEYAKELAEELKAAGIRVKLDDRD-KTPGWKFYEWELKGVPLRIEIGPRDLENNTVVLVRRDTLE----------  369 (478)
T ss_pred             CHHHHHHHHHHHHHHHHHCCEEEEEECCC-CCHHHHHHHHHHCCCCEEEEECCCHHCCCEEEEEECCCCC----------
T ss_conf             78999999999999998779079981766-5665666661014785899977201028979999867986----------


Q ss_pred             HHHHCCCCCEEECHHHHHHHHHHHHHHHHHC
Q ss_conf             4320233510307999999999999864204
Q gi|254780928|r  465 SWREARVAQITIPISELVSTVKKILQENKEE  495 (496)
Q Consensus       465 ~~~~~~~~q~~v~~~~l~~~~~~~l~~~~~~  495 (496)
                              -.+||++++++.+..+|++-++.
T Consensus       370 --------K~~v~~~~l~~~v~~lL~~Iq~~  392 (478)
T PRK08661        370 --------KETVSLDELVEEVPELLDEIQEN  392 (478)
T ss_pred             --------CEEECHHHHHHHHHHHHHHHHHH
T ss_conf             --------14665999999999999999999


No 31 
>PRK04173 glycyl-tRNA synthetase; Provisional
Probab=99.89  E-value=1.3e-20  Score=153.02  Aligned_cols=340  Identities=17%  Similarity=0.180  Sum_probs=202.9

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHHH--CCCEEEECCCHHHHHHHHCCCCCCCCC---------C-------------
Q ss_conf             9987658866899999999999999998--598480165202288752026755433---------3-------------
Q gi|254780928|r   12 PRGFADCPTKEIRIRNRILDSIRNIYEN--YGFDPIETPLLEYSDSLGKFLPDEDRP---------N-------------   67 (496)
Q Consensus        12 P~G~~D~~p~~~~~~~~i~~~l~~~f~~--~G~~~I~tP~lE~~~~~~~~~~~~~~~---------~-------------   67 (496)
                      ..|+.||.|..+.+++.|.+.|++.|-.  -+..+|++|++-+..++..+|- -+..         +             
T Consensus        29 ~ag~~DyGPlG~~LK~Ni~~~W~~~fv~~~~~~~~id~~ii~~~~V~~ASGH-v~~F~D~~v~c~~~~~r~RaD~Lie~~  107 (460)
T PRK04173         29 LAGFWDYGPLGVELKNNIKKAWWKSFVQERPDVVGIDSPIIMPPEVWKASGH-VDNFSDPLVECKKCKKRYRADHLIEEY  107 (460)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHCCCC-CCCCCCCEEECCCCCCEECHHHHHHHH
T ss_conf             1236155853599999999999999865258778861444489878544677-465676234757678363016776665


Q ss_pred             --------------------------------------CCEEEEE----CCCCCEEEECCCCH----HHHHHHHHHHHHH
Q ss_conf             --------------------------------------2216898----69998899988883----8999999951120
Q gi|254780928|r   68 --------------------------------------KGVFSLQ----DDDGQWISLRYDLT----APLARYVAENFDT  101 (496)
Q Consensus        68 --------------------------------------k~~y~f~----D~~g~~l~LRpDlT----~~~aR~~~~~~~~  101 (496)
                                                            -.||...    ...+...-||||..    +.+-|.+-.+  .
T Consensus       108 ~~~~~~~~~~~~l~~~i~~~~i~cP~cg~~~lt~~~~FNLMF~T~iG~~~~~~~~~YLRPETAQGiFvnFk~v~~~~--r  185 (460)
T PRK04173        108 LGIDAEGLSNEELEELIEENNIKCPECGGENWTEVRQFNLMFKTFIGPVEDSSSLGYLRPETAQGIFVNFKNVLRTA--R  185 (460)
T ss_pred             HHHCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCCEEECHHHHHHHHHHHHHHHHHC--C
T ss_conf             32012335899999999970887999999677544312055575135566777502316044104566119999971--7


Q ss_pred             CCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCHHHH--HHHHHHHHHHHHHCCCCCCCCEEECCCCHHHH
Q ss_conf             55411233101333025-87644--421111100012100002457--88999999999751888777113036605589
Q gi|254780928|r  102 IVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAETAD--AEMCMMMADTLEAVGIKRNDYHIGINNRKILD  176 (496)
Q Consensus       102 ~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~~~D--aEii~l~~~~l~~lgl~~~~~~I~in~~~il~  176 (496)
                      ..+|+-..++|++||+| .|+.|  |.|||.|+-+|.|-.++...+  +--+.-..+.+.++|++..++..+ -|.    
T Consensus       186 ~KlPFgiaQIGKaFRNEIsPr~~lfR~REFeQmEiE~F~~P~~~~e~~~yw~~~~~~fl~~lGi~~~~lR~r-~h~----  260 (460)
T PRK04173        186 KKLPFGIAQIGKSFRNEITPRNFIFRTREFEQMELEFFVKPGTDEEWFAYWIALRKNFLLDLGIDPENLRFR-EHL----  260 (460)
T ss_pred             CCCCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHEEEE-ECC----
T ss_conf             788804310040012430655451223455552433105867458999999999999999839988994786-306----


Q ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             99998325603564334555333220012896789986210165003555304899977899888740478568899899
Q gi|254780928|r  177 GILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFLSIDLEKSMHELY  256 (496)
Q Consensus       177 ~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  256 (496)
                               .+ +..+     .+                                  .+..+.-..+.  .+        
T Consensus       261 ---------~~-elAH-----Ya----------------------------------~~~~D~E~~~~--~G--------  281 (460)
T PRK04173        261 ---------PE-ELAH-----YS----------------------------------KATWDIEYKFP--FG--------  281 (460)
T ss_pred             ---------CH-HHCC-----CC----------------------------------HHHEEEEEECC--CC--------
T ss_conf             ---------13-4200-----02----------------------------------20055899458--98--------


Q ss_pred             HHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCCCCC
Q ss_conf             86035732588899999999998750888443001101001221234124899854666776766631011003232355
Q gi|254780928|r  257 ELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDG  336 (496)
Q Consensus       257 ~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~  336 (496)
                                  ..|         ..|+ .++=.+||+-.   .=|+|.-.+++-.                ..|.+   
T Consensus       282 ------------w~E---------~~Gi-a~RtdyDL~~H---~~~Sg~~L~~~d~----------------~~~~k---  317 (460)
T PRK04173        282 ------------WGE---------LEGI-ANRTDYDLSRH---SKHSGEDLSYFDQ----------------ETGEK---  317 (460)
T ss_pred             ------------EEE---------EEEE-CCCCHHHHHHH---HHHCCCCEEEEEC----------------CCCCE---
T ss_conf             ------------288---------7664-06421027889---8744887179822----------------55856---


Q ss_pred             CCCCCCCCCCCC-CEEEECCHHHHHHHHHCCC--------------CCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHH
Q ss_conf             211123456774-2133110168999997368--------------7766555771489982697689999999999999
Q gi|254780928|r  337 LVSRFKGQNVPA-TGFSIGISRLIVALKSLES--------------STNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLR  401 (496)
Q Consensus       337 L~~~f~~~~~pa-vGfaigverl~~~l~~~~~--------------~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr  401 (496)
                              -+|- |=-|+|+||++.++....-              ..++.-+|..|.|+++...++....|.++...|+
T Consensus       318 --------~iPhVIEpS~GvdR~~la~L~~ay~ee~~~~~e~R~vL~l~p~lAPikvaVlPL~kk~~l~~~a~~i~~~L~  389 (460)
T PRK04173        318 --------YIPYVIEPSFGLDRLFLAFLEDAYTEEELGDGDKRTVLRLPPALAPVKVAVLPLVKKDKLSEKAREIYAELR  389 (460)
T ss_pred             --------ECCEEEEECCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCEEEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf             --------134056404671089999998765200047875058996266457716999965566125899999999998


Q ss_pred             HCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHH
Q ss_conf             87983999718999988999999877998999988728748818997878883643311201443202335103079999
Q gi|254780928|r  402 TAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISEL  481 (496)
Q Consensus       402 ~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l  481 (496)
                      +.|+.+..+. ++ |+++.+..++..|+||.|.|..+.+++++|+||+..|.+                  |..|++++|
T Consensus       390 ~~~~~~~~D~-sg-sIGkRY~R~DeiGtPf~ITiD~~tled~tVTiR~RDt~~------------------Q~Rv~i~~l  449 (460)
T PRK04173        390 KDGFNVDYDD-SG-SIGKRYRRQDEIGTPFCVTVDFDTLEDNTVTIRDRDTME------------------QVRVKIDEL  449 (460)
T ss_pred             HCCCEEEEEC-CC-CHHHHHHHCCCCCCCEEEEECCCCCCCCCEEEEECCCCC------------------EEEEEHHHH
T ss_conf             7797599968-99-854544531026898799976886768948978358753------------------489899999


Q ss_pred             HHHHHHHHH
Q ss_conf             999999998
Q gi|254780928|r  482 VSTVKKILQ  490 (496)
Q Consensus       482 ~~~~~~~l~  490 (496)
                      ++.|.+++.
T Consensus       450 ~~~l~~~~~  458 (460)
T PRK04173        450 EDYLAEKLK  458 (460)
T ss_pred             HHHHHHHHC
T ss_conf             999999866


No 32 
>COG0423 GRS1 Glycyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=99.88  E-value=1.7e-20  Score=152.26  Aligned_cols=400  Identities=17%  Similarity=0.223  Sum_probs=215.5

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHHH--CCCEEEECCCHHHHHHHHCCCCCC---CC-----CC--------------
Q ss_conf             9987658866899999999999999998--598480165202288752026755---43-----33--------------
Q gi|254780928|r   12 PRGFADCPTKEIRIRNRILDSIRNIYEN--YGFDPIETPLLEYSDSLGKFLPDE---DR-----PN--------------   67 (496)
Q Consensus        12 P~G~~D~~p~~~~~~~~i~~~l~~~f~~--~G~~~I~tP~lE~~~~~~~~~~~~---~~-----~~--------------   67 (496)
                      ..|+.||.|..+.+++.|.+.|++.|-.  -+..+|+||++-+.+.|..+|--.   |.     .+              
T Consensus        29 ~~GfyDYGPlG~~LK~nI~~~Wrk~fV~~~e~~~eIdtpii~p~~V~kASGHvd~FsDplv~c~~c~~~yRADHLiEe~l  108 (558)
T COG0423          29 LAGFYDYGPLGVELKNNIKEAWRKSFVTEREDVVEIDTPIILPEEVWKASGHVDKFSDPLVECKKCGERYRADHLIEEYL  108 (558)
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHEECCCCEEEECCCCCCCHHHHHHCCCCCCCCCCEEECCCCCHHHHHHHHHHHHH
T ss_conf             34653257751899999999999986624687678425544868886434761346562043462453453368889876


Q ss_pred             -------------------------------------CCEEEEE-C-CCCCEEEECCCCH----HHHHHHHHHHHHHCCC
Q ss_conf             -------------------------------------2216898-6-9998899988883----8999999951120554
Q gi|254780928|r   68 -------------------------------------KGVFSLQ-D-DDGQWISLRYDLT----APLARYVAENFDTIVF  104 (496)
Q Consensus        68 -------------------------------------k~~y~f~-D-~~g~~l~LRpDlT----~~~aR~~~~~~~~~~~  104 (496)
                                                           -.||+.. - .+|+..-|||+--    +.+-|.+..+  ...+
T Consensus       109 ~~~~~~~~~~~e~~~ii~~~~ir~p~~g~~l~~v~~FNLMF~T~IGp~~~~~~YLRPETAQGiFvnFk~l~~~~--r~kl  186 (558)
T COG0423         109 GKDGHGNMSPEELTEIIREYDIRCPECGGELNEVREFNLMFKTTIGPVEDSLGYLRPETAQGIFVNFKNLLEFA--RNKL  186 (558)
T ss_pred             HHCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEEEEEECCCCCCCEEECCCCCCHHHHHHHHHHHHH--CCCC
T ss_conf             41034557878888888861775887688668750344666731457788632456510021215369999975--3689


Q ss_pred             CHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCH--------HHHHHHHHHHHHHHHHCC-----CCCCCCEEE
Q ss_conf             11233101333025-87644--421111100012100002--------457889999999997518-----887771130
Q gi|254780928|r  105 PCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAE--------TADAEMCMMMADTLEAVG-----IKRNDYHIG  168 (496)
Q Consensus       105 p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~--------~~DaEii~l~~~~l~~lg-----l~~~~~~I~  168 (496)
                      |+-..++|+.||+| .|+.|  |.|||.|+-+|.|-....        .+| +.+.++....+.=+     +..+   +.
T Consensus       187 PFgiaQIGKsfRNEISPr~gl~R~REF~QaEiE~Fv~P~~k~~p~f~~v~~-~~l~l~~~~~q~~~~~~EAv~~g---~~  262 (558)
T COG0423         187 PFGIAQIGKSFRNEISPRNGLFRTREFEQAEIEFFVDPEEKEHPKFNEVKD-EKLPLLPREAQEEGTEEEAVEEG---IV  262 (558)
T ss_pred             CEEEEEECHHHCCCCCCCCCEEEHHHHHHHEEEEEECCCCCCCCCHHHHHH-HHCCCCCHHHHHHHHHHHHHHCC---EE
T ss_conf             848886231014652766536651234312013588777556863333321-00246647776410034554415---45


Q ss_pred             CC-----CCHHHHHHHHHHCCCHHHHHHHHHHH-----HHHHHH------CCCCCHHHHHHHHHHCCCCHHHHHHCCCCC
Q ss_conf             36-----60558999998325603564334555-----333220------012896789986210165003555304899
Q gi|254780928|r  169 IN-----NRKILDGILEKIGLHGDDKLNERLIV-----LRAIDK------LDKFGLQGVKLLLGEGRTDNSGDFTKGANL  232 (496)
Q Consensus       169 in-----~~~il~~il~~lgi~~~~~~~~~~~~-----~~~idk------l~k~~~~~~~~~l~~~~~~~~~~~~~~~~~  232 (496)
                      -|     .......++..+|++.+.- +.+...     ..+.|.      .+..+|-++.-.-...-.|    +......
T Consensus       263 ~n~~~~y~~~~~~~fl~~lGI~~e~l-Rfrqh~~~E~AHYa~~twD~E~~~~~~gWiE~~GiAdRtdYD----L~~H~k~  337 (558)
T COG0423         263 ENETLAYFIARTKFFLEDLGIDPEKL-RFRQHLPEELAHYSKDTWDAEYKFPFGGWIELVGIADRTDYD----LSRHSKF  337 (558)
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCHHHH-HHHHCCHHHHHHHHHCCEEEEEECCCCCEEEEEEEECCCCCC----HHHHHHH
T ss_conf             04438999999999999809998980-665239087766544023279963788669999861355445----5656540


Q ss_pred             CHHHHHHHHH----------HHCCC----CHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCC
Q ss_conf             9778998887----------40478----568899899860357325888999999999987508884430011010012
Q gi|254780928|r  233 TSEQIDIMVS----------FLSID----LEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRG  298 (496)
Q Consensus       233 ~~~~~~~~~~----------~~~~~----~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRg  298 (496)
                      +.+..-....          ....+    +++.-.......       +++.++......+       +.+.++..+   
T Consensus       338 s~~~l~v~~~~~ePk~v~~~~~~~~~~~~gp~~k~~a~~v~-------~~~se~~~~~~~~-------~~~~~~~~~---  400 (558)
T COG0423         338 SGEDLTVFREYDEPKEVERWHSKVDLKFLGPEFKKDAKKVA-------EALSELEELEKEL-------NGYEVSKDL---  400 (558)
T ss_pred             CCCCCEEEECCCCCCEEEEEECCCCHHHCCHHHHHHHHHHH-------HHHHHHHHHHHCC-------CCCCCCCCH---
T ss_conf             36662233214776223310014662103814455667776-------5445666665304-------762135310---


Q ss_pred             CCCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCC-CEEEECCHHHHHHHHHCCC----------
Q ss_conf             21234124899854666776766631011003232355211123456774-2133110168999997368----------
Q gi|254780928|r  299 LEYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGLVSRFKGQNVPA-TGFSIGISRLIVALKSLES----------  367 (496)
Q Consensus       299 LdYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~L~~~f~~~~~pa-vGfaigverl~~~l~~~~~----------  367 (496)
                            ..||..          .      ...|-+|           +|- |==|+|+||++.++....-          
T Consensus       401 ------~~i~~~----------~------~~~~e~~-----------iP~VIEPSfGidRi~y~~l~~ay~~ee~~e~R~  447 (558)
T COG0423         401 ------VIIEEV----------E------KVTGEKY-----------IPHVIEPSFGIDRIFYALLEHAYTEEEVEEKRI  447 (558)
T ss_pred             ------HHHEEE----------E------ECCCCEE-----------CCCEECCCCCCHHHHHHHHHHHHCCCCCCCCEE
T ss_conf             ------010011----------0------0247550-----------671565677711899999987620113566505


Q ss_pred             --CCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCE
Q ss_conf             --776655577148998269768999999999999987983999718999988999999877998999988728748818
Q gi|254780928|r  368 --STNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGML  445 (496)
Q Consensus       368 --~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v  445 (496)
                        ..++.-+|..+.|+.+....+....+.++.+.|++.|+.++++ +++ |+++.+..+|..|.||.|.|..+.+++++|
T Consensus       448 vLrl~p~lAPikvaVlPL~~k~~l~~~a~~i~~~L~~~~~~v~yD-dsG-sIGrRYrR~DEIGtPfcVTvD~eTleD~tV  525 (558)
T COG0423         448 VLRLPPDLAPIKVAVLPLVKKDELVEIAKEIFEKLRELGFNVDYD-DSG-SIGRRYRRQDEIGTPFCVTVDFETLEDNTV  525 (558)
T ss_pred             EEECCCCCCCEEEEEEEEECCCCHHHHHHHHHHHHHHCCCEEEEC-CCC-CHHHHHHHCCCCCCCEEEEECCCCCCCCCE
T ss_conf             995586558527999960224214689999999998539669862-888-376655533445896189954775667847


Q ss_pred             EEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHHHHHHHHHHHHH
Q ss_conf             99787888364331120144320233510307999999999999864
Q gi|254780928|r  446 QIKDLAKGKELSREIKNNESWREARVAQITIPISELVSTVKKILQEN  492 (496)
Q Consensus       446 ~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~~~l~~~  492 (496)
                      +||+..|-                  .|+.|++++|++.|+.++...
T Consensus       526 TiReRDs~------------------~QvRv~i~el~~~l~~~~~~~  554 (558)
T COG0423         526 TIRERDSM------------------EQVRVKIEELADYLRELIKGG  554 (558)
T ss_pred             EEEECCCH------------------HEEEEEHHHHHHHHHHHHCCC
T ss_conf             98625761------------------204545999999999984256


No 33 
>KOG2324 consensus
Probab=99.87  E-value=4.9e-20  Score=149.24  Aligned_cols=375  Identities=20%  Similarity=0.314  Sum_probs=219.4

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECC----CC
Q ss_conf             99876588668999999999999999985984801652022887520267554333221689869998899988----88
Q gi|254780928|r   12 PRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRY----DL   87 (496)
Q Consensus        12 P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRp----Dl   87 (496)
                      -.|+.-|+|-..+..+++.+.+...|++-|.+.|..|++-..+ +|...+.++....++|+|.|++|+++||-|    |.
T Consensus        41 ~~G~yq~LPlg~R~~~K~~~~l~~~mqs~Ga~kIslp~ls~~~-LWekTgRw~~~gsEl~rl~Dr~gkq~cL~pThEE~i  119 (457)
T KOG2324          41 SPGLYQLLPLGLRVLNKLCRLLDNEMQSGGAQKISLPILSSKE-LWEKTGRWDAMGSELFRLHDRKGKQMCLTPTHEEDI  119 (457)
T ss_pred             CCCCEEECCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCHHH-HHHHCCCCCCCCHHHEEEECCCCCEECCCCCHHHHH
T ss_conf             9870121300379999999999999872367057404468689-987618511246045375104787730577548999


Q ss_pred             HHHHHHHHHHHHHHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCHH---HHHHHHHHHHHHHHHCCCC
Q ss_conf             3899999995112055411233101333025-87644--4211111000121000024---5788999999999751888
Q gi|254780928|r   88 TAPLARYVAENFDTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAET---ADAEMCMMMADTLEAVGIK  161 (496)
Q Consensus        88 T~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~~---~DaEii~l~~~~l~~lgl~  161 (496)
                      |.-+|-+..  .....+|++.|++|+.||+| ||..|  |-|||+--|.--|.++...   .-.-+....+.+|+.||++
T Consensus       120 T~lmat~~~--lsykqlPi~vYQigrKfRDElrpRfGLlRgREFlMKDmYsFd~~~etA~qTy~~v~~aY~~iFkqL~~p  197 (457)
T KOG2324         120 TALMATYIP--LSYKQLPIRVYQIGRKFRDELRPRFGLLRGREFLMKDMYSFDSDEETAQQTYQLVDQAYDRIFKQLGLP  197 (457)
T ss_pred             HHHHHHCCC--CCCCCCCEEEEEECHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             999986274--322028677665054544134754230124788876533025888899999999999999999973997


Q ss_pred             CCCCEEECC-CCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHH
Q ss_conf             777113036-6055899999832560356433455533322001289678998621016500355530489997789988
Q gi|254780928|r  162 RNDYHIGIN-NRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIM  240 (496)
Q Consensus       162 ~~~~~I~in-~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  240 (496)
                      -    +.++ +.+.+-+-     ++-+     +..+..                ..+    .....+..++.+.+.-.  
T Consensus       198 f----Vkv~AdsG~iGG~-----vShE-----fhl~~~----------------vgE----D~l~~C~~C~~s~n~e~--  241 (457)
T KOG2324         198 F----VKVWADSGDIGGE-----VSHE-----FHLIHP----------------VGE----DTLMSCPSCGYSKNSED--  241 (457)
T ss_pred             E----EEEEECCCCCCCE-----EEEE-----EECCCC----------------CCC----CCEEECCCCCCCCCHHH--
T ss_conf             6----9986035664761-----0125-----752576----------------675----00344676775576012--


Q ss_pred             HHHHC-CCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCC
Q ss_conf             87404-78568899899860357325888999999999987508884430011010012212341248998546667767
Q gi|254780928|r  241 VSFLS-IDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEK  319 (496)
Q Consensus       241 ~~~~~-~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~  319 (496)
                      .++.. ..+++        +.                         ..    ++.-+++.+-  |-+|  ++        
T Consensus       242 ~~~sk~~~Cp~--------C~-------------------------~~----~L~~~~~IEV--gHtF--~L--------  272 (457)
T KOG2324         242 LDLSKIASCPK--------CN-------------------------EG----RLTKTKSIEV--GHTF--LL--------  272 (457)
T ss_pred             HCCCCCCCCCC--------CC-------------------------CC----CCCCCCCEEE--EEEE--EE--------
T ss_conf             13776566876--------56-------------------------77----7511243477--7788--71--------


Q ss_pred             CCCCCEEEECCCCCCCC-CCCC---CCCCC--CCCCEEEECCHHHHHHHHHCCCCCCC---CCCCCEEEEEEECC-CHHH
Q ss_conf             66631011003232355-2111---23456--77421331101689999973687766---55577148998269-7689
Q gi|254780928|r  320 QKPVVFGSVGGGGRYDG-LVSR---FKGQN--VPATGFSIGISRLIVALKSLESSTNN---IKEMGPVLITTMDH-DSDS  389 (496)
Q Consensus       320 ~~~~~~~aI~~GGRYD~-L~~~---f~~~~--~pavGfaigverl~~~l~~~~~~~~~---~~~~~~v~V~~~~~-~~~~  389 (496)
                                 |--|.. |-..   +.|++  +.-..++|||.|++.|..+.......   +....|..||+++. ....
T Consensus       273 -----------G~kYS~~lna~f~~~~gKpe~l~MgCyGIGVtRllaAa~evls~~~~lrwP~~iAPy~vcli~pk~~~~  341 (457)
T KOG2324         273 -----------GTKYSKPLNAKFVNVEGKPEFLHMGCYGIGVTRLLAAAAEVLSDDKGLRWPSLIAPYKVCLIGPKKGSK  341 (457)
T ss_pred             -----------CCCCCCCCCCEEEEECCCCCEEEECCEECCHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCH
T ss_conf             -----------430154347655440598406874020004898999999981565543150002751347853688402


Q ss_pred             HHHHHHHHHHHHHCCCE----EEEEEC--CCCCHHHHHHHHHHCCCCEEEEEC-HHHHHCCCEEEEECCCCCEEEEECCC
Q ss_conf             99999999999987983----999718--999988999999877998999988-72874881899787888364331120
Q gi|254780928|r  390 LSKYQMYTQMLRTAGIR----AEMFLG--SSKNFGNQLKYADRRNCPLAIIQG-TGERSRGMLQIKDLAKGKELSREIKN  462 (496)
Q Consensus       390 ~~~~~~ia~~Lr~~Gi~----~e~~~~--~~~sl~~~~~~A~~~g~~~viiig-~~e~~~~~v~vK~l~~g~q~~~~~~~  462 (496)
                      -..+.+++.+|-...+.    -++.++  ...++++.++.|++.|+||+||+| ..-..+..+.|+-..+||-.+...+.
T Consensus       342 ~q~~~ev~~el~~~~~~~~l~~~iLlddr~~ltiG~Ri~dA~~lG~PfviVvg~s~~~~~~~~EV~~~~~ge~~~l~~~~  421 (457)
T KOG2324         342 SQRAQEVISELLNDEAVGNLHGEILLDDREELTIGKRIKDANRLGIPFVIVVGNSASWDNPEIEVRTIRWGESAELDKDG  421 (457)
T ss_pred             HHHHHHHHHHHHCCHHHHHHCCCEECCCHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCEEEEEEEECCCEECCCHHH
T ss_conf             31399999876043234443245001306663267766567754998799970334678965899982047320252566


Q ss_pred             HHH----------HHHCCCCCEEECHHHHHHHH
Q ss_conf             144----------32023351030799999999
Q gi|254780928|r  463 NES----------WREARVAQITIPISELVSTV  485 (496)
Q Consensus       463 ~~~----------~~~~~~~q~~v~~~~l~~~~  485 (496)
                      +..          .++.-+.+-++|+..+++.+
T Consensus       422 ~~~l~~~~~~~~~~le~G~~~h~~~~~~~~~V~  454 (457)
T KOG2324         422 FMKLLSEVQWVCTKLEHGIEKHTVPIQHLAEVI  454 (457)
T ss_pred             HHHHHHHHHHEEHHHCCCCCCCCCHHHHHHHHH
T ss_conf             888743242010023057544663777898773


No 34 
>KOG1637 consensus
Probab=99.83  E-value=3e-19  Score=144.18  Aligned_cols=370  Identities=16%  Similarity=0.215  Sum_probs=228.8

Q ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCH
Q ss_conf             03799876588668999999999999999985984801652022887520267554333221689869998899988883
Q gi|254780928|r    9 AELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLT   88 (496)
Q Consensus         9 ~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT   88 (496)
                      .++-.|.-.|+|..+++.+.+.+.++..++.+||+||.||.+=... |+..+|...+..++||+|.-. .+..+|.|.-.
T Consensus       178 ~~lSPGS~FflP~G~~iyN~Lv~fir~ey~~rGf~EVitPniy~~~-LWe~SGHwqnY~enmF~~e~e-ke~~~LKPMNC  255 (560)
T KOG1637         178 HELSPGSCFFLPHGTRIYNTLVDFIRAEYRKRGFTEVITPNIYNKK-LWETSGHWQNYSENMFKFEVE-KEEFALKPMNC  255 (560)
T ss_pred             CCCCCCCEEECCCCCHHHHHHHHHHHHHHHHCCCCEECCCCHHHHH-HHHHCCCHHHHHHHCEEEEEC-HHHHCCCCCCC
T ss_conf             3579862453148642788999999999875387432272212156-665325255544310123101-03322586689


Q ss_pred             HHHHHHHHHH-HHHCCCCHHHHHHHHHHCCCCCC--CC--CCCCCCCCCHHHHHCCCHHH-HHH-HHHHHHHHHHHCCCC
Q ss_conf             8999999951-12055411233101333025876--44--42111110001210000245-788-999999999751888
Q gi|254780928|r   89 APLARYVAEN-FDTIVFPCRTYRIGPVFRNEKHG--PG--RFRQFIQCDVDNVGSSAETA-DAE-MCMMMADTLEAVGIK  161 (496)
Q Consensus        89 ~~~aR~~~~~-~~~~~~p~k~yy~g~vfR~e~p~--~G--r~REf~Q~g~eiiG~~~~~~-DaE-ii~l~~~~l~~lgl~  161 (496)
                      +.-+-+.... .....+|+|..-+|.+.|+|-.+  .|  |.|.|.|-++.||...+..- +.. ++.....++.-+|+ 
T Consensus       256 PgHcLmf~~r~rS~reLPlR~aDFg~LHRnE~SGaLsGLTRvRrFqQDDaHIFCt~~Qi~~Eik~~l~fl~~vY~~fgf-  334 (560)
T KOG1637         256 PGHCLMFAHRDRSYRELPLRFADFGVLHRNEASGALSGLTRVRRFQQDDAHIFCTPDQVKEEIKGCLDFLDYVYGVFGF-  334 (560)
T ss_pred             CCCCCCCCCCCCCHHHCCCCCCCCCEEEECCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHHHHHHCCC-
T ss_conf             7530133667742744784226752253054564232210110110157158855763799998799999999861254-


Q ss_pred             CCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHH
Q ss_conf             77711303660558999998325603564334555333220012896789986210165003555304899977899888
Q gi|254780928|r  162 RNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMV  241 (496)
Q Consensus       162 ~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  241 (496)
                        .|.+.+|.|-=  ..+..+   +.                    |+.....|.+...+.-..+.-+.+-        .
T Consensus       335 --~f~l~lSTRPe--~~lG~l---~~--------------------Wd~AE~~L~~al~e~g~pw~lN~GD--------G  379 (560)
T KOG1637         335 --TFKLNLSTRPE--KFLGDL---ET--------------------WDEAEFKLEEALNESGEPWVLNPGD--------G  379 (560)
T ss_pred             --CCEEEECCCHH--HHCCCH---HH--------------------HHHHHHHHHHHHHHHCCCCEECCCC--------C
T ss_conf             --20257416758--766578---88--------------------9999999999999709971422898--------5


Q ss_pred             HHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCC
Q ss_conf             74047856889989986035732588899999999998750888443001101001221234124899854666776766
Q gi|254780928|r  242 SFLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQK  321 (496)
Q Consensus       242 ~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~  321 (496)
                      .|.   +++.-..+          .+++..-.+....-..+   .-++.|||      .|-|-           .+...+
T Consensus       380 AFY---GPKIDi~l----------~Dal~r~hQcaTIQLDF---qLP~rFdL------~y~~~-----------~g~~er  426 (560)
T KOG1637         380 AFY---GPKIDITL----------DDALGRKHQCATIQLDF---QLPIRFDL------EYETE-----------DGDLER  426 (560)
T ss_pred             CEE---CCEEEEEH----------HHHCCCCCCEEEEEECC---CCHHHCCC------EEECC-----------CCCCCC
T ss_conf             302---64332572----------43327610102566313---67333175------11046-----------665231


Q ss_pred             CCCE-EEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHC-CCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHH
Q ss_conf             6310-1100323235521112345677421331101689999973-6877665557714899826976899999999999
Q gi|254780928|r  322 PVVF-GSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSL-ESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQM  399 (496)
Q Consensus       322 ~~~~-~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~-~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~  399 (496)
                      ++.+ +||            |        |   .++|.+.+|.+. ....+.+.++-.+.|+.++  ......|..+..+
T Consensus       427 PVmIHRAI------------l--------G---SvERmiaiL~E~~~gkwPFWlSPRq~~vIpVs--e~~~~ya~~V~~q  481 (560)
T KOG1637         427 PVMIHRAI------------L--------G---SVERMIAILLESYGGKWPFWLSPRQAVVIPVS--EGPLDYATSVQKQ  481 (560)
T ss_pred             HHHHHHHH------------H--------H---HHHHHHHHHHHHHCCCCCEEECCCEEEEEECC--CCHHHHHHHHHHH
T ss_conf             23589987------------5--------2---19999999999707999844546238999778--7403389999999


Q ss_pred             HHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHH
Q ss_conf             99879839997189999889999998779989999887287488189978788836433112014432023351030799
Q gi|254780928|r  400 LRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPIS  479 (496)
Q Consensus       400 Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~  479 (496)
                      |+.+|+-++++++. .++.+.++.|.-.+..|.++||++|++.++|.||.....+.               ..|.++.++
T Consensus       482 l~~a~f~~Dld~t~-~tl~kkir~Aqla~yn~i~VVGdkE~~~~~vnVr~Rd~~~~---------------~~~~~~tie  545 (560)
T KOG1637         482 LEEAGFYVDLDPTD-STLRKKIRNAQLAHYNFIFVVGDKEVETGRVNVRTRDNRDN---------------KTESEMTIE  545 (560)
T ss_pred             HHHHHCEEECCCCC-CHHHHHHHHHHHCCCEEEEEECHHHHHCCCEEEEECCCCCC---------------CCCHHEEHH
T ss_conf             98620066147763-56888886623225029999754565327478994357554---------------321023299


Q ss_pred             HHHHHHHHHHH
Q ss_conf             99999999998
Q gi|254780928|r  480 ELVSTVKKILQ  490 (496)
Q Consensus       480 ~l~~~~~~~l~  490 (496)
                      ++.++++++-+
T Consensus       546 ~~~~~~~~l~~  556 (560)
T KOG1637         546 ELSDEFKELKS  556 (560)
T ss_pred             HHHHHHHHHHH
T ss_conf             99999998675


No 35 
>cd00779 ProRS_core_prok Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. This subfamily contains the core domain of ProRS from prokaryotes and from the mitochondria of eukaryotes.
Probab=99.76  E-value=1e-17  Score=134.26  Aligned_cols=154  Identities=20%  Similarity=0.276  Sum_probs=127.7

Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCC
Q ss_conf             71037998765886689999999999999999859848016520228875202675543332216898699988999888
Q gi|254780928|r    7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYD   86 (496)
Q Consensus         7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpD   86 (496)
                      |.-+.-.|+..|+|..+++++.|++.+++.+++.||++|.+|+|-+.+++ +..|..+....+||.+.|++++.++|||-
T Consensus        15 ~i~~~~~G~~~~lP~G~~i~~~i~~~i~~~~~~~G~~ev~~P~l~~~~l~-~~sg~~~~f~~emf~v~d~~~~~~~L~PT   93 (255)
T cd00779          15 FIRQTSSGLYSWLPLGLRVLKKIENIIREEMNKIGAQEILMPILQPAELW-KESGRWDAYGPELLRLKDRHGKEFLLGPT   93 (255)
T ss_pred             CCCCCCCCCEEECCHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHH-HHHCCCCCCCCCEEEEECCCCCEEEECCC
T ss_conf             87657886278850299999999999999999859989976534738887-44253013687315445378877731688


Q ss_pred             CHHHHHHHHHHHH-HHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCHHHHH---HHHHHHHHHHHHCC
Q ss_conf             8389999999511-2055411233101333025-87644--4211111000121000024578---89999999997518
Q gi|254780928|r   87 LTAPLARYVAENF-DTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAETADA---EMCMMMADTLEAVG  159 (496)
Q Consensus        87 lT~~~aR~~~~~~-~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~~~Da---Eii~l~~~~l~~lg  159 (496)
                      --++++.++.... ....+|+|+|++++|||+| +|..|  |.|||+|.+...|..+...++.   .+...+.++|++||
T Consensus        94 ~E~~~~~~~~~~i~SyrdLPl~~~q~~~~fR~E~r~~~GllR~rEF~~~d~hsf~~~~e~a~~~~~~~~~~y~~i~~~Lg  173 (255)
T cd00779          94 HEEVITDLVANEIKSYKQLPLNLYQIQTKFRDEIRPRFGLMRGREFLMKDAYSFDIDEESLEETYEKMYQAYSRIFKRLG  173 (255)
T ss_pred             CHHHHHHHHHHHCCCHHHCCEEEECCCCEECCCCCCCCCCCEEEEEEEEHHHCCCCCHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             74889999986503612257454135335425667886632431377002203569989999999999999999999839


Q ss_pred             CC
Q ss_conf             88
Q gi|254780928|r  160 IK  161 (496)
Q Consensus       160 l~  161 (496)
                      ++
T Consensus       174 lp  175 (255)
T cd00779         174 LP  175 (255)
T ss_pred             CC
T ss_conf             98


No 36 
>PRK12294 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=99.74  E-value=2.4e-17  Score=131.75  Aligned_cols=255  Identities=18%  Similarity=0.254  Sum_probs=164.5

Q ss_pred             HHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHHCCCCHH
Q ss_conf             99999999999859848016520228875202675543332216898699988999888838999999951120554112
Q gi|254780928|r   28 RILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDTIVFPCR  107 (496)
Q Consensus        28 ~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~~~~p~k  107 (496)
                      .-+-.+.+-|..++|.-|+...+|..+  |+.....|-....-=+|--.++...+||.|+|-|+.|+++...   +...|
T Consensus        12 e~e~~flk~f~~~~y~~vdf~~ie~l~--w~~l~~~dlqqm~er~Fwqh~~~~~aLRnDFTdqL~RyYS~yp---~~~~r   86 (272)
T PRK12294         12 ESETAFLKYFNKADYELVDFSVVEKLD--WKQLNHEDLQQMGERNFWQHEHQIYALRNDFTDQLLRYYSMYP---TAATK   86 (272)
T ss_pred             HHHHHHHHHHHHCCCCEEEEHHHHHHH--HHHCCHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHCCC---CCHHH
T ss_conf             988999999987697187316876631--4322788899866668987278579963340589999997089---50020


Q ss_pred             HHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCEEECCCCHHHHHHHHHHCCCHH
Q ss_conf             33101333025876444211111000121000024578899999999975188877711303660558999998325603
Q gi|254780928|r  108 TYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDYHIGINNRKILDGILEKIGLHGD  187 (496)
Q Consensus       108 ~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~~~I~in~~~il~~il~~lgi~~~  187 (496)
                      ..|.|+++|.++.       ..|+|+|.++.+-....-+.+.++.-+-+.++... + .+.|||-.+++.+++.---.  
T Consensus        87 v~YaG~I~R~n~v-------~kQiGIE~y~ps~~~~~~~f~~f~~fI~~~L~d~i-~-fvilGhyQlld~Lld~s~Qt--  155 (272)
T PRK12294         87 VAYTGLIIRNNEA-------AVQVGLENYAPSLANVQQSLKLFIQFIQQQLRDNV-H-FVVLGHYQLLDALLDKSLQT--  155 (272)
T ss_pred             HEECCHHHCCCHH-------HHHHCHHHCCCCHHHHHHHHHHHHHHHHHHHCCCC-E-EEEECHHHHHHHHHHCCCCC--
T ss_conf             0111222322237-------56414342485088899999999999999967896-1-99962799999998256466--


Q ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHH
Q ss_conf             56433455533322001289678998621016500355530489997789988874047856889989986035732588
Q gi|254780928|r  188 DKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFLSIDLEKSMHELYELVKGTIAGEK  267 (496)
Q Consensus       188 ~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  267 (496)
                            ..++.               +..+   ..+..+....+.+...+..+.+    .....+..+..++.+.-.+..
T Consensus       156 ------~~il~---------------li~E---rnls~li~kl~~~hpLv~lLKe----~t~nQL~~L~~lipndhp~~~  207 (272)
T PRK12294        156 ------PDILS---------------MIEE---RNLSGLVTYLSTEHPIVQILKE----NTQQQLNVLEHYIPNDHPALV  207 (272)
T ss_pred             ------HHHHH---------------HHHH---CCHHHHHHHCCCCCHHHHHHHH----HHHHHHHHHHHHCCCCCHHHH
T ss_conf             ------89999---------------9985---2788999860554379999866----557799888763788768999


Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCCCCCCCCCC
Q ss_conf             89999999999875088844300110100122123412489985466677676663101100323235521112
Q gi|254780928|r  268 GFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGLVSRF  341 (496)
Q Consensus       268 ~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~L~~~f  341 (496)
                         .+...-.-++..|+.  .|.+|.+.+...+||||+.|.++......          .|.+||+||+=++-|
T Consensus       208 ---sl~~w~~w~~~~gik--~IhLDit~qPprsYY~g~f~kc~~~~~~~----------~iLtGG~Y~g~legf  266 (272)
T PRK12294        208 ---ELKIWERWLHTQGYK--DIHLDITAQPPRSYYTGLFIQCHFAENES----------RVLTGGYYKGSIEGF  266 (272)
T ss_pred             ---HHHHHHHHHHHCCCC--EEEEECCCCCCHHHHHHHHHHHHHHCCCC----------CCCCCCCCCCEEECC
T ss_conf             ---999999999876983--38874467895577776999999724678----------644377405611034


No 37 
>TIGR00408 proS_fam_I prolyl-tRNA synthetase; InterPro: IPR004499   The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by IPR002314 from INTERPRO, which recognises tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent families. This family includes the archaeal enzyme, the Pro-specific domain of a human multifunctional tRNA ligase, and the enzyme from the spirochete Borrelia burgdorferi (Lyme desease spirochete). The other family, IPR004500 from INTERPRO, includes enzymes from Escherichia coli, Bacillus subtilis, Synechocystis sp.  (strain PCC6803), and one of the two prolyl-tRNA synthetases of Saccharomyces cerevisiae (Baker's yeast).; GO: 0000166 nucleotide binding, 0004827 proline-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006433 prolyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=99.74  E-value=3.5e-16  Score=124.25  Aligned_cols=345  Identities=17%  Similarity=0.208  Sum_probs=209.5

Q ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHC-------------------CCEEEECCCHHHHHHHHCCCC--CCCCCCC
Q ss_conf             3799876588668999999999999999985-------------------984801652022887520267--5543332
Q gi|254780928|r   10 ELPRGFADCPTKEIRIRNRILDSIRNIYENY-------------------GFDPIETPLLEYSDSLGKFLP--DEDRPNK   68 (496)
Q Consensus        10 ~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~-------------------G~~~I~tP~lE~~~~~~~~~~--~~~~~~k   68 (496)
                      -..+|+.=|+|....+|+.|.+.+++.+.+-                   |-+++..|+|=+++.|.+-..  ++  .+-
T Consensus        26 ypVKG~~v~~P~g~~iw~~iq~~~~~~~~~~~~~~~~~L~~F~P~~~~~Y~h~~v~fP~L~p~~~L~KEk~HikG--F~p  103 (533)
T TIGR00408        26 YPVKGCYVFLPYGFKIWENIQKILRDKLDEIKLKDKVILKKFIPIESLPYGHEEVYFPMLIPESELEKEKDHIKG--FEP  103 (533)
T ss_pred             CCCCCEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHEECCCCCCHHHHHHHCCCCCC--CCC
T ss_conf             760103784598778999999999999987643546766405677777777001005644525578632135688--584


Q ss_pred             CEEEEECCCC----CEEEECCCCHHHHHHHHH-HHHHHCCCCHHHHHHHHHHCCCC--CCCC-CCCCCC--CCCHHHHHC
Q ss_conf             2168986999----889998888389999999-51120554112331013330258--7644-421111--100012100
Q gi|254780928|r   69 GVFSLQDDDG----QWISLRYDLTAPLARYVA-ENFDTIVFPCRTYRIGPVFRNEK--HGPG-RFRQFI--QCDVDNVGS  138 (496)
Q Consensus        69 ~~y~f~D~~g----~~l~LRpDlT~~~aR~~~-~~~~~~~~p~k~yy~g~vfR~e~--p~~G-r~REf~--Q~g~eiiG~  138 (496)
                      |+|=.++-|.    +-|+|||=-=+.+.-+.+ .-.....+|+|+||+-+|||||.  ++.- |.|||+  |=+==++-.
T Consensus       104 Ev~wi~~~G~~~L~~pLaLRPTSEt~~y~m~~kWv~sy~DLPlk~nQw~~vfR~E~kHTRPflR~rEf~twqE~HT~H~t  183 (533)
T TIGR00408       104 EVYWITHGGLKKLDEPLALRPTSETAMYNMYKKWVKSYRDLPLKINQWVNVFRYEKKHTRPFLRTREFLTWQEAHTAHAT  183 (533)
T ss_pred             HHHHEECCCCCCCCCCCEECCCCHHHHHHHHHHHHHHCCCCCEEEEEEEEEEECCCCCCCCCHHHHHHHCCCCCCCCCCC
T ss_conf             00210103777246750125861788876578785121588768984358898021787861023332101000131437


Q ss_pred             --CCHHHHHHHHHHHHHHHH-HCCCCCCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHH
Q ss_conf             --002457889999999997-51888777113036605589999983256035643345553332200128967899862
Q gi|254780928|r  139 --SAETADAEMCMMMADTLE-AVGIKRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLL  215 (496)
Q Consensus       139 --~~~~~DaEii~l~~~~l~-~lgl~~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l  215 (496)
                        ++..+=.+++.+..+++. .|+|+.   .+  +             ...++               +|+.        
T Consensus       184 ~~eAee~v~~~~~~Yk~f~~~~LaIP~---~~--g-------------~k~E~---------------eKFa--------  222 (533)
T TIGR00408       184 AEEAEEEVLKALDLYKEFIENLLAIPY---FV--G-------------RKSEK---------------EKFA--------  222 (533)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCCE---EE--E-------------CCCCC---------------CCCC--------
T ss_conf             778899999999988999750288646---87--1-------------48875---------------5478--------


Q ss_pred             HHCCCCHHHHHHCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHH
Q ss_conf             10165003555304899977899888740478568899899860357325888999999999987508884430011010
Q gi|254780928|r  216 GEGRTDNSGDFTKGANLTSEQIDIMVSFLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTI  295 (496)
Q Consensus       216 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~l  295 (496)
                                   ++.-.- .++.    +-.++.+++.-.    .        .++|.      .+|             
T Consensus       223 -------------GA~~T~-~~e~----imPDgG~~LQ~A----T--------sH~LG------qnF-------------  253 (533)
T TIGR00408       223 -------------GAEYTW-TFET----IMPDGGRTLQIA----T--------SHDLG------QNF-------------  253 (533)
T ss_pred             -------------CCCCCE-EEEE----ECCCCCEEHHHH----H--------HHHHH------CCC-------------
T ss_conf             -------------876223-5675----247765001221----2--------11330------354-------------


Q ss_pred             CCCCCCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHH-----HHCCCCCC
Q ss_conf             0122123412489985466677676663101100323235521112345677421331101689999-----97368776
Q gi|254780928|r  296 VRGLEYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVAL-----KSLESSTN  370 (496)
Q Consensus       296 vRgLdYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l-----~~~~~~~~  370 (496)
                      +|        .|++.+....               |...++....     -.+.|+|   +|++.+|     ++.+.-.|
T Consensus       254 ~K--------~F~i~fe~p~---------------Gs~~~~~~ay-----q~s~G~S---tR~igali~~HsD~~GLVLP  302 (533)
T TIGR00408       254 AK--------TFDIKFENPT---------------GSDMDKVYAY-----QTSYGIS---TRVIGALILIHSDEKGLVLP  302 (533)
T ss_pred             EE--------EEEEEEECCC---------------CCCCCCCCCE-----ECCCCHH---HHHHHHEEEEECCCCCCCCC
T ss_conf             02--------0367887788---------------8976410100-----1013357---88754500012267775167


Q ss_pred             CCCCCCEEEEEE---ECCC-----HHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHC
Q ss_conf             655577148998---2697-----68999999999999987983999718999988999999877998999988728748
Q gi|254780928|r  371 NIKEMGPVLITT---MDHD-----SDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSR  442 (496)
Q Consensus       371 ~~~~~~~v~V~~---~~~~-----~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~  442 (496)
                      +..++.+|.|+.   +...     ...+..|..+...|.+.+|||.++..++-.+|+++..++-+|||+-++||+++.+.
T Consensus       303 p~vAp~Qvv~~Pv~IFkK~s~E~~~~~~e~a~~v~~~Lk~~~iRv~~D~~~~~~pG~kf~~~E~kGiPlR~evGP~D~~~  382 (533)
T TIGR00408       303 PRVAPIQVVIIPVIIFKKKSDEENKKVMELARKVEDKLKKLGIRVHLDKRDNYRPGKKFSKWELKGIPLRLEVGPNDIEK  382 (533)
T ss_pred             CCCCCEEEEEEEEEEECCCCCCCCHHHHHHHHHHHHHHHCCEEEEEEECCCCCCCCCHHHCCCEEECCEEEEECCCCCCC
T ss_conf             01273358999867755875214778999999999877304100797035575323132045333042699877751043


Q ss_pred             CCEEEEECCCCC--EEEEECCCHHHHHHCCCCCEEECHHHHHHH-HHHHHHHHHHC
Q ss_conf             818997878883--643311201443202335103079999999-99999864204
Q gi|254780928|r  443 GMLQIKDLAKGK--ELSREIKNNESWREARVAQITIPISELVST-VKKILQENKEE  495 (496)
Q Consensus       443 ~~v~vK~l~~g~--q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~-~~~~l~~~~~~  495 (496)
                      |.|.|=-..+.+  ..                  .|+.++|.+. |.+++.+-+++
T Consensus       383 n~~~~~rR~~~~kfK~------------------~~~~~~L~~~k~~~~~~~~~~~  420 (533)
T TIGR00408       383 NIVVVSRRDTKRKFKY------------------QVSLDELEERKVVELLNEMQED  420 (533)
T ss_pred             CEEEEEEECCCCEEEE------------------EEEHHHHHHHHHHHHHHHHHHH
T ss_conf             7689999617713557------------------7205454467899999999999


No 38 
>cd00772 ProRS_core Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain.
Probab=99.73  E-value=6.8e-17  Score=128.88  Aligned_cols=152  Identities=22%  Similarity=0.282  Sum_probs=124.1

Q ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCC-CCCCEEEEECCCCCE----EEE
Q ss_conf             037998765886689999999999999999859848016520228875202675543-332216898699988----999
Q gi|254780928|r    9 AELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDR-PNKGVFSLQDDDGQW----ISL   83 (496)
Q Consensus         9 ~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~-~~k~~y~f~D~~g~~----l~L   83 (496)
                      -..-+|+.-|+|...+++++|.+.+++.+++.|+++|.+|+|-+.+++.+. |..+. ...+++.++|++++.    ++|
T Consensus        18 ~~~~~G~~~~lP~G~~i~~ki~~~i~~e~~~~G~qev~~P~l~p~~lw~ks-gr~~~~~~~e~~~~~~~~~~~~e~~~~L   96 (264)
T cd00772          18 QGPGRGIINFLPLAKAILDKIENVLDKMFKEHGAQNALFPFFILASFLEKE-AEHDEGFSKELAVFKDAGDEELEEDFAL   96 (264)
T ss_pred             CCCCCCEEEECHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHC-CCHHHCCCCCEEEEEECCCCCCCCCCCC
T ss_conf             489887588890599999999999999999829949812567998999976-9844437852379973487421235201


Q ss_pred             CCCCHHHHHHHHHHHH-HHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCHHHHH---HHHHHHHHHHH
Q ss_conf             8888389999999511-2055411233101333025-87644--4211111000121000024578---89999999997
Q gi|254780928|r   84 RYDLTAPLARYVAENF-DTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAETADA---EMCMMMADTLE  156 (496)
Q Consensus        84 RpDlT~~~aR~~~~~~-~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~~~Da---Eii~l~~~~l~  156 (496)
                      ||---..++.++.... ....+|+|+|+++++||+| +|..|  |-|||+|-+...|-.+...++.   +++.+..++++
T Consensus        97 ~PT~Ee~~~~~~~~~i~SyrdLPl~lyQ~~~~fR~E~r~r~GllR~REFlmkDahsf~~t~e~a~~~y~~~~~~Y~~if~  176 (264)
T cd00772          97 RPTLEENIGEIAAKFIKSWKDLPQHLNQIGNKFRDEIRPRFGFLRAREFIMKDGHSAHADAEEADEEFLNMLSAYAEIAR  176 (264)
T ss_pred             CCCCCHHHHHHHHHHCCCHHHCCHHHHHHHHHHHCCCCCCCCCHHHEEEEEEEEEECCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             67786899999986407665579778765578605788554332320434110353259999999999999999999999


Q ss_pred             HCC-CC
Q ss_conf             518-88
Q gi|254780928|r  157 AVG-IK  161 (496)
Q Consensus       157 ~lg-l~  161 (496)
                      ++| ++
T Consensus       177 ~lg~lp  182 (264)
T cd00772         177 DLAAID  182 (264)
T ss_pred             HHCCCC
T ss_conf             966985


No 39 
>cd00859 HisRS_anticodon HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=99.72  E-value=9.5e-17  Score=127.91  Aligned_cols=90  Identities=34%  Similarity=0.568  Sum_probs=77.7

Q ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCE
Q ss_conf             71489982697689999999999999879839997189999889999998779989999887287488189978788836
Q gi|254780928|r  376 GPVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKE  455 (496)
Q Consensus       376 ~~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q  455 (496)
                      .+|+|++++  .+...++..+++.||++|++|++++. ++++++|+++|++.|+||++|+|++|.++|+|+||||.||+|
T Consensus         2 vdv~ii~~~--~~~~~~a~~i~~~LR~~gi~v~~~~~-~~~l~kqlk~A~k~~~~~~iiiG~~E~~~~~v~iK~~~t~~q   78 (91)
T cd00859           2 VDVYVVPLG--EGALSEALELAEQLRDAGIKAEIDYG-GRKLKKQFKYADRSGARFAVILGEDELAAGVVTVKDLETGEQ   78 (91)
T ss_pred             CEEEEEEEC--HHHHHHHHHHHHHHHHCCCCEEEEEC-CCCHHHHHHHHHHHCCCEEEEECCHHHHCCEEEEEECCCCCE
T ss_conf             489999818--69999999999999988993999736-887889999999709988999865142169799999999958


Q ss_pred             EEEECCCHHHHHHCCCCCEEECHHHHHHHHH
Q ss_conf             4331120144320233510307999999999
Q gi|254780928|r  456 LSREIKNNESWREARVAQITIPISELVSTVK  486 (496)
Q Consensus       456 ~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~  486 (496)
                      .                  ++|+++++++||
T Consensus        79 ~------------------~i~~~eli~~lK   91 (91)
T cd00859          79 E------------------TVALDELVEELK   91 (91)
T ss_pred             E------------------EEEHHHHHHHHC
T ss_conf             9------------------988999999759


No 40 
>cd00771 ThrRS_core Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain.
Probab=99.71  E-value=1.4e-16  Score=126.74  Aligned_cols=158  Identities=20%  Similarity=0.290  Sum_probs=128.9

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHH
Q ss_conf             79987658866899999999999999998598480165202288752026755433322168986999889998888389
Q gi|254780928|r   11 LPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAP   90 (496)
Q Consensus        11 ~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~   90 (496)
                      .-.|+.-|+|..+.+++.+++.+++....+||++|.||.+-..+++ +.+|..+....+||.+ +..++.++|||--.++
T Consensus        18 ~g~G~~~w~P~G~~i~~~L~~~ir~~~~~~Gy~eV~tP~i~~~~Lw-~~SGH~~~y~e~mf~~-~~~~~~~~LkPmnCp~   95 (298)
T cd00771          18 AGPGLPFWLPKGAIIRNELEDFLRELQRKRGYQEVETPIIYNKELW-ETSGHWDHYRENMFPF-EEEDEEYGLKPMNCPG   95 (298)
T ss_pred             CCCCCEEECCCHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHH-HHCCCCCCCCCCEEEE-EECCCCEEEECCCCHH
T ss_conf             6676578838889999999999999999869989988612665567-5477631136856888-8625416885068688


Q ss_pred             HHHHHHHHH-HHCCCCHHHHHHHHHHCCCCCC--CC--CCCCCCCCCHHHHHCCCHHH-HH-HHHHHHHHHHHHCCCCCC
Q ss_conf             999999511-2055411233101333025876--44--42111110001210000245-78-899999999975188877
Q gi|254780928|r   91 LARYVAENF-DTIVFPCRTYRIGPVFRNEKHG--PG--RFRQFIQCDVDNVGSSAETA-DA-EMCMMMADTLEAVGIKRN  163 (496)
Q Consensus        91 ~aR~~~~~~-~~~~~p~k~yy~g~vfR~e~p~--~G--r~REf~Q~g~eiiG~~~~~~-Da-Eii~l~~~~l~~lgl~~~  163 (496)
                      -+-++.... ....+|+|++.+|+|||+|..+  .|  |.|+|+|.++.||...+... |. .++.++.++++.+|++  
T Consensus        96 h~~i~~~~~~SYrdLPlR~~E~g~~~R~E~sG~L~GL~RvR~FtqdDaHiFc~~eQ~~~E~~~~~~~~~~vy~~fG~~--  173 (298)
T cd00771          96 HCLIFKSKPRSYRDLPLRLAEFGTVHRYEQSGALHGLTRVRGFTQDDAHIFCTPDQIKEEIKGVLDLIKEVYSDFGFF--  173 (298)
T ss_pred             HHHHHHCCCCCHHHCCHHHHCCCCEECCCCCCCCCCCCCCCCCCCCCCEEECCHHHHHHHHHHHHHHHHHHHHHHCCC--
T ss_conf             999986355673434676520750554767767557445556745763244168899999999999999999982887--


Q ss_pred             CCEEECCCC
Q ss_conf             711303660
Q gi|254780928|r  164 DYHIGINNR  172 (496)
Q Consensus       164 ~~~I~in~~  172 (496)
                      ++.+.++-+
T Consensus       174 ~~~~~ls~r  182 (298)
T cd00771         174 DYKVELSTR  182 (298)
T ss_pred             CCEEEEECC
T ss_conf             324899647


No 41 
>cd00778 ProRS_core_arch_euk Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. This subfamily contains the core domain of ProRS from archaea, the cytoplasm of eukaryotes and some bacteria.
Probab=99.67  E-value=9e-16  Score=121.57  Aligned_cols=149  Identities=17%  Similarity=0.134  Sum_probs=113.7

Q ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCC----CCEEEECC
Q ss_conf             37998765886689999999999999999859848016520228875202675543332216898699----98899988
Q gi|254780928|r   10 ELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDD----GQWISLRY   85 (496)
Q Consensus        10 ~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~----g~~l~LRp   85 (496)
                      ..-+|+.-|+|...++++.|++.+++.++++||++|.||++-+.+++++.++..+....+||.+.+.+    ++.++|+|
T Consensus        19 ~pv~G~~~~lP~G~~i~~~l~~~~r~~~~~~G~~ev~~P~l~~~~~~~k~sgh~~~y~~emf~v~~~g~~~~d~~y~LkP   98 (261)
T cd00778          19 GPVKGCMVFRPYGYAIWENIQKILDKEIKETGHENVYFPLLIPESELEKEKEHIEGFAPEVAWVTHGGLEELEEPLALRP   98 (261)
T ss_pred             CCCCCEEEECCCHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHCHHHCCCCCCEEEECCCCCCCCCCCCCCC
T ss_conf             79983088863289999999999999999869969988332788999974281430576533552168520135603478


Q ss_pred             CCHHHHHHHHHHHH-HHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCHHHHHH---HHHHHHHHHHHC
Q ss_conf             88389999999511-2055411233101333025-87644--42111110001210000245788---999999999751
Q gi|254780928|r   86 DLTAPLARYVAENF-DTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAETADAE---MCMMMADTLEAV  158 (496)
Q Consensus        86 DlT~~~aR~~~~~~-~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~~~DaE---ii~l~~~~l~~l  158 (496)
                      ---+.++.++.... +...+|+|+|++|+|||+| ++..|  |.|||+|-++..|-.+...+..|   ++.++.+++..+
T Consensus        99 mne~~~~~i~~~~~~SYRdLPlrl~q~g~~~R~E~s~~~gL~RvReF~~dDahs~~~t~eq~~~e~~~~~~~y~~i~~~l  178 (261)
T cd00778          99 TSETAIYPMFSKWIRSYRDLPLKINQWVNVFRWETKTTRPFLRTREFLWQEGHTAHATEEEAEEEVLQILDLYKEFYEDL  178 (261)
T ss_pred             CCHHHHHHHHHHHHCCCCCCCHHHHHCCCEECCCCCCCCCCCEEEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             88699999997350540227825553042243778888765325425234233655899999999999999999999984


No 42 
>cd00768 class_II_aaRS-like_core Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA.   PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. These enzymes are usually homodimers. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. The substrate specificity of this reaction is further determined by additional domains. Intererestingly, this domain is also found is asparagine synthase A (AsnA), in the accessory subunit of mitochondrial polymerase gamma and in the bacterial  ATP  phosphoribosyltransferase regulatory subunit HisZ.
Probab=99.64  E-value=1.3e-15  Score=120.60  Aligned_cols=132  Identities=31%  Similarity=0.489  Sum_probs=111.8

Q ss_pred             HHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHHCCC
Q ss_conf             99999999999999859848016520228875202675543332216898699988999888838999999951120554
Q gi|254780928|r   25 IRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDTIVF  104 (496)
Q Consensus        25 ~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~~~~  104 (496)
                      ++++|++.+++.+..+||++|.||++...+++.+.+..    .+.++.+.+..+..++|||-.++++++++..+.  ..+
T Consensus         1 ~r~~ie~~~r~~~~~~G~~ev~~P~l~~~~~~~~sg~~----~~~~~~~~~~~~~~~~L~pt~e~~~~~~~~~~~--~dL   74 (211)
T cd00768           1 IRSKIEQKLRRFMAELGFQEVETPIVEREPLLEKAGHE----PKDLLPVGAENEEDLYLRPTLEPGLVRLFVSHI--RKL   74 (211)
T ss_pred             CHHHHHHHHHHHHHHCCCEEEECCEECCHHHHHHCCCC----HHHHHHHCCCCCCEEEEECCCCHHHHHHHHHHH--HHC
T ss_conf             97899999999999869989999834279999750676----222301104679769995168499999975247--657


Q ss_pred             CHHHHHHHHHHCCCCCCCC--CCCCCCCCCHHHHHCCCHHHH--HHHHHHHHHHHHHCCCCC
Q ss_conf             1123310133302587644--421111100012100002457--889999999997518887
Q gi|254780928|r  105 PCRTYRIGPVFRNEKHGPG--RFRQFIQCDVDNVGSSAETAD--AEMCMMMADTLEAVGIKR  162 (496)
Q Consensus       105 p~k~yy~g~vfR~e~p~~G--r~REf~Q~g~eiiG~~~~~~D--aEii~l~~~~l~~lgl~~  162 (496)
                      |+|+|++++|||+|..++|  |.|||+|.+..+|+.+...++  .+++..+.++++.||++.
T Consensus        75 P~r~~~~~~~fR~E~~~~Gl~RvreF~~~e~~~f~~~~~~~~~~~~~~~~~~~i~~~lgl~~  136 (211)
T cd00768          75 PLRLAEIGPAFRNEGGRRGLRRVREFTQLEGEVFGEDGEEASEFEELIELTEELLRALGIKL  136 (211)
T ss_pred             CHHHHEECCEECCCCCCCCCCCCCCEEEEEEEEEECCHHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             77864320056057888884460468898479998848889999999999999999749988


No 43 
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=99.59  E-value=2.2e-14  Score=112.56  Aligned_cols=90  Identities=21%  Similarity=0.383  Sum_probs=75.9

Q ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCE
Q ss_conf             71489982697689999999999999879839997189999889999998779989999887287488189978788836
Q gi|254780928|r  376 GPVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKE  455 (496)
Q Consensus       376 ~~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q  455 (496)
                      .+|.|+++  ..+...+|.+++.+||++||+|+++.. +.++++++++|++.|+||++|+|++|+++|+|+||++.+|+|
T Consensus         2 ~QV~Iipi--~~~~~~ya~~i~~~Lr~~girv~~D~~-~~~lg~ki~~a~~~~ip~~iiiG~~E~~~~~v~vr~r~~~~q   78 (91)
T cd00860           2 VQVVVIPV--TDEHLDYAKEVAKKLSDAGIRVEVDLR-NEKLGKKIREAQLQKIPYILVVGDKEVETGTVSVRTRDGGDL   78 (91)
T ss_pred             EEEEEEEE--CHHHHHHHHHHHHHHHHCCCEEEEECC-CCCHHHHHHHHHHHCCCEEEEECHHHHHCCEEEEEECCCCCE
T ss_conf             28999988--887999999999999988998999658-898759999999819998999960465389799999899936


Q ss_pred             EEEECCCHHHHHHCCCCCEEECHHHHHHHHH
Q ss_conf             4331120144320233510307999999999
Q gi|254780928|r  456 LSREIKNNESWREARVAQITIPISELVSTVK  486 (496)
Q Consensus       456 ~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~  486 (496)
                      .+                  +|++++++.+|
T Consensus        79 ~~------------------v~~~~~i~~lk   91 (91)
T cd00860          79 GS------------------MSLDEFIEKLK   91 (91)
T ss_pred             EE------------------EEHHHHHHHHC
T ss_conf             78------------------77999999749


No 44 
>pfam03129 HGTP_anticodon Anticodon binding domain. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases it is probably the anticodon binding domain.
Probab=99.59  E-value=3.4e-14  Score=111.32  Aligned_cols=92  Identities=25%  Similarity=0.428  Sum_probs=79.4

Q ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEE
Q ss_conf             14899826976899999999999998798399971899998899999987799899998872874881899787888364
Q gi|254780928|r  377 PVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKEL  456 (496)
Q Consensus       377 ~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~  456 (496)
                      +|.|++++.+......|..+++.||++||+|++++. +.++++++++|++.|+||++|+|++|+++|+|+||+|.+|+|.
T Consensus         1 qV~Vipi~~~~~~~~~a~~i~~~Lr~~gi~v~~d~~-~~~~~~k~~~a~~~g~p~~iiiG~~E~~~~~v~ik~r~~~~~~   79 (93)
T pfam03129         1 QVVVIPLGEKDELEDYAQKLAEELREAGIRVELDDR-NESLGKKFRDADLIGIPFRLVVGEKELENGTVTVRDRDTGEKE   79 (93)
T ss_pred             CEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEECC-CCCHHHHHHHHHHHCCCEEEEECHHHHHCCEEEEEECCCCCEE
T ss_conf             999998228676899999999999878997999889-9997899998987099907889778885898999999999788


Q ss_pred             EEECCCHHHHHHCCCCCEEECHHHHHHHHHH
Q ss_conf             3311201443202335103079999999999
Q gi|254780928|r  457 SREIKNNESWREARVAQITIPISELVSTVKK  487 (496)
Q Consensus       457 ~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~~  487 (496)
                                        +++++++++.+++
T Consensus        80 ------------------~v~~~~~~~~i~~   92 (93)
T pfam03129        80 ------------------TVSLEELVEKLKE   92 (93)
T ss_pred             ------------------EEEHHHHHHHHHH
T ss_conf             ------------------9879999999974


No 45 
>cd00670 Gly_His_Pro_Ser_Thr_tRS_core Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. These enzymes belong to class II aminoacyl-tRNA synthetases (aaRS) based upon their structure and the presence of three characteristic sequence motifs in the core domain. This domain is also found at the C-terminus of eukaryotic GCN2 protein kinase and at the N-terminus of the ATP phosphoribosyltransferase accessory subunit, HisZ and the accessory subunit of mitochondrial polymerase gamma (Pol gamma b) . Most class II tRNA synthetases are dimers, with this subgroup consisting of mostly homodimers. These enzymes attach a specific amino acid to the 3' OH group of ribose of the appropriate tRNA.
Probab=99.58  E-value=1.9e-14  Score=112.99  Aligned_cols=146  Identities=20%  Similarity=0.301  Sum_probs=118.3

Q ss_pred             HHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCC----CCEEEECCCCHHHHHHHHHHH
Q ss_conf             9999999999999999859848016520228875202675543332216898699----988999888838999999951
Q gi|254780928|r   23 IRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDD----GQWISLRYDLTAPLARYVAEN   98 (496)
Q Consensus        23 ~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~----g~~l~LRpDlT~~~aR~~~~~   98 (496)
                      +++++.+.+.+.+.+.++||++|.+|.|-..+++... |..+....+||.+.|.+    ++.++|+|-.-+|++.++...
T Consensus         2 a~L~~aL~~~~~~~~~~~G~~~v~~P~l~~~~~~~~s-g~~~~f~~~~y~v~~~~~~~~~~~~~L~PTsE~~~~~~~~~~   80 (235)
T cd00670           2 TALWRALERFLDDRMAEYGYQEILFPFLAPTVLFFKG-GHLDGYRKEMYTFEDKGRELRDTDLVLRPAACEPIYQIFSGE   80 (235)
T ss_pred             HHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHC-CCCCCCCCCEEEEECCCCCCCCCCEEEEECCCHHHHHHHHCC
T ss_conf             8899999999999999869989989855789999223-867545205289823776667873899307869999999483


Q ss_pred             HH-HCCCCHHHHHHHHHHCCCCC-CCC--CCCCCCCCCHHHHHCCCH--HHHHHHHHHHHHHHHHCCCCCCCCEEECCCC
Q ss_conf             12-05541123310133302587-644--421111100012100002--4578899999999975188877711303660
Q gi|254780928|r   99 FD-TIVFPCRTYRIGPVFRNEKH-GPG--RFRQFIQCDVDNVGSSAE--TADAEMCMMMADTLEAVGIKRNDYHIGINNR  172 (496)
Q Consensus        99 ~~-~~~~p~k~yy~g~vfR~e~p-~~G--r~REf~Q~g~eiiG~~~~--~~DaEii~l~~~~l~~lgl~~~~~~I~in~~  172 (496)
                      .. ...+|+|++++++|||+|.. .+|  |.|||+|.+..+|+.+..  ..-.+++..+.++++.||++   |.+.+...
T Consensus        81 i~s~~dLPlr~~~~s~~fR~E~~~~~Gl~Rv~eF~k~E~~~~~~~e~~~~~~~~~~~~~~~i~~~L~l~---y~v~~~~~  157 (235)
T cd00670          81 ILSYRALPLRLDQIGPCFRHEPSGRRGLMRVREFRQVEYVVFGEPEEAEEERREWLELAEEIARELGLP---VRVVVADD  157 (235)
T ss_pred             CCCHHHCCEEEEEECCEECCCCCCCCCCEEEEEEEEEEEEEEECHHHHHHHHHHHHHHHHHHHHHCCCC---EEEEECCC
T ss_conf             287687995454456533367899999836789998507999688999999999999999999986997---79997586


No 46 
>KOG2298 consensus
Probab=99.53  E-value=6.8e-12  Score=96.39  Aligned_cols=417  Identities=19%  Similarity=0.215  Sum_probs=216.1

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHH-HCCCEEEECCCHHHHHHHHCCCCCCCCCCC----------------------
Q ss_conf             998765886689999999999999999-859848016520228875202675543332----------------------
Q gi|254780928|r   12 PRGFADCPTKEIRIRNRILDSIRNIYE-NYGFDPIETPLLEYSDSLGKFLPDEDRPNK----------------------   68 (496)
Q Consensus        12 P~G~~D~~p~~~~~~~~i~~~l~~~f~-~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k----------------------   68 (496)
                      ..|.+||.|..+.++..|.+.||+-|- .-+--||+.|++-+.+.|..++- -|...-                      
T Consensus        35 VsGLyD~GP~Gcalk~Nil~~WRkhFilEE~MlEvdct~ltP~~VlkaSGH-VdkF~D~mvkD~ktGecfRADHLvk~~~  113 (599)
T KOG2298          35 VSGLYDFGPPGCALKSNILSLWRKHFILEEDMLEVDCTMLTPEPVLKASGH-VDKFADWMVKDEKTGECFRADHLVKDAE  113 (599)
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCEEECCCCCCCHHHHHCCCC-HHHHHHHHHCCCCCCCEEHHHHHHHHHH
T ss_conf             332212599860567769999999874130204401675780887634664-6666677740755652220567889999


Q ss_pred             -------------------------------------------------------CEEE-EECCC-CCEEEECCCCH---
Q ss_conf             -------------------------------------------------------2168-98699-98899988883---
Q gi|254780928|r   69 -------------------------------------------------------GVFS-LQDDD-GQWISLRYDLT---   88 (496)
Q Consensus        69 -------------------------------------------------------~~y~-f~D~~-g~~l~LRpDlT---   88 (496)
                                                                             .||. .+-++ +-.--|||+-.   
T Consensus       114 ~rl~~~~~~~~~~e~e~iLa~~d~~s~~el~~~~~kyni~sP~tgn~Ls~p~~FNLMF~T~IGpsG~~kgyLRPETAQG~  193 (599)
T KOG2298         114 ERLKKKASAEVKAEMEKILAKLDGYSGQELGELISKYNIKSPVTGNDLSEPRQFNLMFETQIGPSGGLKGYLRPETAQGQ  193 (599)
T ss_pred             HHHHCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEECCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             86201122677888999998750787588888998615789876887677711110011121677785543274001231


Q ss_pred             -HHHHHHHHHHHHHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCH--------HHHHHHHHHHHHHHH
Q ss_conf             -899999995112055411233101333025-87644--421111100012100002--------457889999999997
Q gi|254780928|r   89 -APLARYVAENFDTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAE--------TADAEMCMMMADTLE  156 (496)
Q Consensus        89 -~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~--------~~DaEii~l~~~~l~  156 (496)
                       +.+-|.+--|+  ..+|+--.+||+.||+| .|.+|  |.|||+++-+|-|-.+..        .++.++..+-.+. +
T Consensus       194 FlNFkrlle~N~--~KlPFA~AqiG~~fRNEISpRsGLlRvrEF~maEIEHFvdP~~K~h~kF~~V~~~~l~l~~~~~-q  270 (599)
T KOG2298         194 FLNFKRLLEFNQ--GKLPFASAQIGKSFRNEISPRSGLLRVREFTMAEIEHFVDPLLKSHPKFSLVAAEKLRLFPRDK-Q  270 (599)
T ss_pred             CCCHHHHHHHCC--CCCCCHHHHHCHHHHHCCCCCCCCEEEEEEEHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCHHH-H
T ss_conf             014899987528--8776348874657651337555743678754677653489777787366655431554233234-4


Q ss_pred             HCCCCCCCCEE-------ECCC------CHHHHHHHHHHCCCHHHHHHHHHHH-----HHHHHHCC-----CCCHHHHHH
Q ss_conf             51888777113-------0366------0558999998325603564334555-----33322001-----289678998
Q gi|254780928|r  157 AVGIKRNDYHI-------GINN------RKILDGILEKIGLHGDDKLNERLIV-----LRAIDKLD-----KFGLQGVKL  213 (496)
Q Consensus       157 ~lgl~~~~~~I-------~in~------~~il~~il~~lgi~~~~~~~~~~~~-----~~~idkl~-----k~~~~~~~~  213 (496)
                      .-|-.....+|       .+|+      .+-+..++..+|+..+. ++.++..     ..+.|..|     -.+|-+-. 
T Consensus       271 ~~g~~a~~~~lgEaV~kg~V~netlGyfi~Ri~~fL~~lGid~~r-lRFRqH~~nEMAHYA~DCWDaEi~tSYGWIEcV-  348 (599)
T KOG2298         271 LSGQSAQKVALGEAVAKGTVNNETLGYFIGRIYLFLNKLGIDKER-LRFRQHMANEMAHYAFDCWDAEIKTSYGWIECV-  348 (599)
T ss_pred             HCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCHHH-CCHHHHHHHHHHHHHCCCCCHHHHHCCCCEEEE-
T ss_conf             346505674798998760445303678899999999984765532-106777653333330153223242102757874-


Q ss_pred             HHHHCCCCHHH-HHH---CCCC--CCHH-HH--HHHHHHHCCCCH-HHH-HHHHHHHCCCHHH--HHHHHHHHHHHHHHH
Q ss_conf             62101650035-553---0489--9977-89--988874047856-889-9899860357325--888999999999987
Q gi|254780928|r  214 LLGEGRTDNSG-DFT---KGAN--LTSE-QI--DIMVSFLSIDLE-KSM-HELYELVKGTIAG--EKGFNELVVISELVR  280 (496)
Q Consensus       214 ~l~~~~~~~~~-~~~---~~~~--~~~~-~~--~~~~~~~~~~~~-~~~-~~l~~~~~~~~~~--~~~l~~l~~i~~~l~  280 (496)
                          +..|.+. ++.   +..+  +..+ ..  ++-.+....... +.+ ...++-.+.....  ...-+++......|.
T Consensus       349 ----G~ADRs~yDL~~Hs~~t~~~Lv~~~kl~ePkeve~~~i~~~kk~~g~~fk~~ak~v~~~l~~~s~~e~~~~~~~L~  424 (599)
T KOG2298         349 ----GCADRAAYDLSTHSRASKVWLVAELRLREPKEVEFAVIPPNKKELGCAFKKDAKGVNETLIFPSGKELIETLENLG  424 (599)
T ss_pred             ----ECCCHHHEEEECCCCCCCCCEEEHHHCCCCCEEEEEEECCCHHHCCHHHHHCCCCHHHHHHCCCHHHHHHHHHHHH
T ss_conf             ----1043544233247655677655111048860688988644244306123413510357760587889999999762


Q ss_pred             HCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCCCCCCC--CCCCCCCCCC-CEEEECCHH
Q ss_conf             5088844300110100122123412489985466677676663101100323235521--1123456774-213311016
Q gi|254780928|r  281 KSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGLV--SRFKGQNVPA-TGFSIGISR  357 (496)
Q Consensus       281 ~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~L~--~~f~~~~~pa-vGfaigver  357 (496)
                      ..|.    +.+          |+   |+..-.               ...=+|+-...  ..+    +|- +-=|||+-|
T Consensus       425 ~~g~----~~~----------~v---~~l~k~---------------~v~i~~~~k~~hV~e~----~P~VIEPSfGiGR  468 (599)
T KOG2298         425 DHGL----LHM----------YV---VNLSKL---------------HVRIKRKTKVPHVREV----NPDVIEPSFGIGR  468 (599)
T ss_pred             CCCC----EEE----------EE---EECCCC---------------EEEEEEEEEEEEEEEE----CCCCCCCCCHHHH
T ss_conf             1773----899----------98---740321---------------0455202422457861----6875545400467


Q ss_pred             HHHHHHHCCCC-----------CCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHH
Q ss_conf             89999973687-----------7665557714899826976899999999999998798399971899998899999987
Q gi|254780928|r  358 LIVALKSLESS-----------TNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADR  426 (496)
Q Consensus       358 l~~~l~~~~~~-----------~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~  426 (496)
                      |+.+|-++.-.           .++...+..|.|.+++.+.+.......+.+.|+++||.+-++. ++-|+++.+...+.
T Consensus       469 I~Y~l~EHsF~R~~de~R~~~sfpp~vAPiK~~v~pls~n~ef~pv~~~ls~~L~~~gis~kvdd-s~~SIGrrYAr~DE  547 (599)
T KOG2298         469 ISYQLTEHSFTRKGDEQRKVLSFPPLVAPIKVALDPLSPNLEFRPVCQGLSNELTENGISVKVDD-SSSSIGRRYARTDE  547 (599)
T ss_pred             HHHHHHHHHHCCCCCCCCCEECCCCCCCCEEEEEEECCCCHHHHHHHHHHHHHHHHCCCEEEECC-CCCCHHHHHHCCCC
T ss_conf             88998765515676545643314765363489997236732578999999999986787699657-78747653213553


Q ss_pred             CCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHHHHHHHHHHHHHH
Q ss_conf             7998999988728748818997878883643311201443202335103079999999999998642
Q gi|254780928|r  427 RNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISELVSTVKKILQENK  493 (496)
Q Consensus       427 ~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~~~l~~~~  493 (496)
                      .|+||.|.+..+.+++++|++|+..|-                  .|+.+.++++...|.+++.-.+
T Consensus       548 lgipFgiTvDfdtlk~~tVTlReRdS~------------------~QvR~~i~e~~s~v~~~~~g~~  596 (599)
T KOG2298         548 LGIPFGVTVDFDTLKNGTVTLRERDST------------------MQVRMHISKLKSFLIKYISGAK  596 (599)
T ss_pred             CCCCEEEEECHHHHCCCEEEEEECCCH------------------HHHHHHHHHHHHHHHHHHCCCC
T ss_conf             367437997442413760798615428------------------8787639989999999960465


No 47 
>cd00738 HGTP_anticodon HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only. This domain is also found in the accessory subunit of mitochondrial polymerase gamma (Pol gamma b).
Probab=99.52  E-value=2.4e-13  Score=105.77  Aligned_cols=90  Identities=20%  Similarity=0.265  Sum_probs=74.4

Q ss_pred             CCEEEEEEECCC-HHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCC
Q ss_conf             771489982697-6899999999999998798399971899998899999987799899998872874881899787888
Q gi|254780928|r  375 MGPVLITTMDHD-SDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKG  453 (496)
Q Consensus       375 ~~~v~V~~~~~~-~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g  453 (496)
                      |.+|.|+++..+ .+...+|.+++++|+++||+|+++.. +.++++++++|+..|+||++|+|++|+++|+|++|++.+|
T Consensus         1 P~qv~Iipi~~~~~e~~~~a~~l~~~L~~~gi~v~~Ddr-~~~~g~k~~~a~~~giP~~iiiG~~e~e~~~v~vr~r~~~   79 (94)
T cd00738           1 PIDVAIVPLTDPRVEAREYAQKLLNALLANGIRVLYDDR-ERKIGKKFREADLRGVPFAVVVGEDELENGKVTVKSRDTG   79 (94)
T ss_pred             CEEEEEEEECCCCHHHHHHHHHHHHHHHHCCCEEEEECC-CCCHHHHHHHHHHCCCCEEEEECCHHHHCCEEEEEECCCC
T ss_conf             919999984389778999999999999988998999879-9997599999997499899998800343798999998999


Q ss_pred             CEEEEECCCHHH
Q ss_conf             364331120144
Q gi|254780928|r  454 KELSREIKNNES  465 (496)
Q Consensus       454 ~q~~~~~~~~~~  465 (496)
                      +|..+.++++.+
T Consensus        80 eq~~v~~~e~~~   91 (94)
T cd00738          80 ESETLHVDELPE   91 (94)
T ss_pred             CEEEEEHHHHHH
T ss_conf             778989999888


No 48 
>cd00858 GlyRS_anticodon GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=99.43  E-value=3e-12  Score=98.72  Aligned_cols=101  Identities=15%  Similarity=0.211  Sum_probs=85.2

Q ss_pred             CCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEE
Q ss_conf             66555771489982697689999999999999879839997189999889999998779989999887287488189978
Q gi|254780928|r  370 NNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKD  449 (496)
Q Consensus       370 ~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~  449 (496)
                      +.+-+|..|.|+++..+.+....|..++++|+++||+|+++. ++ ++++.++.|+..|+||.++||++++++|+|+||+
T Consensus        21 P~~lAP~qv~IiPi~~~d~~~~~a~~i~~~L~~~gi~v~~Dd-~~-s~G~K~~~~d~~giP~~ivIg~~~le~~~VtiR~   98 (121)
T cd00858          21 PPALAPIKVAVLPLVKRDELVEIAKEISEELRELGFSVKYDD-SG-SIGRRYARQDEIGTPFCVTVDFDTLEDGTVTIRE   98 (121)
T ss_pred             CCCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHCCCEEEEEC-CC-CHHHHHHHHHHHCCCEEEEEECCEECCCEEEEEE
T ss_conf             886388379999741607779999999999987797799703-88-8314446788748983999927610378799999


Q ss_pred             CCCCCEEEEECCCHHHHHHCCCCCEEECHHHHHHHHHHHHH
Q ss_conf             78883643311201443202335103079999999999998
Q gi|254780928|r  450 LAKGKELSREIKNNESWREARVAQITIPISELVSTVKKILQ  490 (496)
Q Consensus       450 l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~~~l~  490 (496)
                      ..|++                  |.+|+++++++.++++++
T Consensus        99 Rdt~~------------------q~~v~i~el~~~i~~llk  121 (121)
T cd00858          99 RDSMR------------------QVRVKIEELPSYLRELIR  121 (121)
T ss_pred             CCCCC------------------EEEEEHHHHHHHHHHHHC
T ss_conf             89995------------------789999999999999859


No 49 
>KOG4163 consensus
Probab=99.22  E-value=1.5e-09  Score=81.19  Aligned_cols=342  Identities=18%  Similarity=0.152  Sum_probs=192.9

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCC-CCCCCCCEEEEECCCC-----CEEEEC
Q ss_conf             7998765886689999999999999999859848016520228875202675-5433322168986999-----889998
Q gi|254780928|r   11 LPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPD-EDRPNKGVFSLQDDDG-----QWISLR   84 (496)
Q Consensus        11 ~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~-~~~~~k~~y~f~D~~g-----~~l~LR   84 (496)
                      -.+|++=+-|-.+.+++.|.+-+-..++.-|-+....|+|-....+-+--.. .+ ..-++ ....++|     +-++.|
T Consensus        86 dvsGcyilRP~s~aIWe~Iq~wfd~~ik~lGv~ncYFPmfVs~~~LEkEk~Hve~-FaPEv-AwVTr~G~seLeepiaiR  163 (551)
T KOG4163          86 DVSGCYILRPWSYAIWEAIQDWFDAEIKKLGVKNCYFPMFVSKSVLEKEKDHVEG-FAPEV-AWVTRAGNSELEEPIAIR  163 (551)
T ss_pred             CCCCEEEECCHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHCC-CCCCE-EEEEECCCCCCCCCEEEC
T ss_conf             3541489553478999999999987888736434010332478887655655415-78532-799703884114642234


Q ss_pred             CC----CHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCC--CCCCC-CCCCC-CCCCHHHHHCCCHHHHHHHHHH---HHH
Q ss_conf             88----83899999995112055411233101333025--87644-42111-1100012100002457889999---999
Q gi|254780928|r   85 YD----LTAPLARYVAENFDTIVFPCRTYRIGPVFRNE--KHGPG-RFRQF-IQCDVDNVGSSAETADAEMCMM---MAD  153 (496)
Q Consensus        85 pD----lT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e--~p~~G-r~REf-~Q~g~eiiG~~~~~~DaEii~l---~~~  153 (496)
                      |-    +-+.++.++..|.   .+|+|+-+--+|-|.|  .|+.- |-||| ||-|---+ .+...||-|++++   ...
T Consensus       164 PTSETvmyp~yakWi~ShR---DLPlkLNQW~nVvRWEfk~p~PFlRtrEFLWQEGHTAf-at~~eA~eEvlqiLdlYa~  239 (551)
T KOG4163         164 PTSETVMYPYYAKWIQSHR---DLPLKLNQWCNVVRWEFKHPQPFLRTREFLWQEGHTAF-ATPEEAEEEVLQILDLYAR  239 (551)
T ss_pred             CCCCCEECHHHHHHHHHHC---CCCHHHHHHHHHEEEECCCCCCCHHHHHHHHHCCCCHH-CCHHHHHHHHHHHHHHHHH
T ss_conf             6752110388899887604---67546654322235302489751235577774573010-7976778999999999999


Q ss_pred             HHHHCCCCCCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCC
Q ss_conf             99751888777113036605589999983256035643345553332200128967899862101650035553048999
Q gi|254780928|r  154 TLEAVGIKRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLT  233 (496)
Q Consensus       154 ~l~~lgl~~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~  233 (496)
                      +...+                       +.+|--.-              -|...+.+                ..... 
T Consensus       240 vy~el-----------------------lAiPVvkG--------------rKse~EkF----------------aGgd~-  265 (551)
T KOG4163         240 VYEEL-----------------------LAIPVVKG--------------RKSEKEKF----------------AGGDY-  265 (551)
T ss_pred             HHHHH-----------------------HCCCCCCC--------------CCCHHHHC----------------CCCCC-
T ss_conf             98762-----------------------03430147--------------63453302----------------57750-


Q ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHH--HHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEE
Q ss_conf             77899888740478568899899860357325888--9999999999875088844300110100122123412489985
Q gi|254780928|r  234 SEQIDIMVSFLSIDLEKSMHELYELVKGTIAGEKG--FNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAIL  311 (496)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~--l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~  311 (496)
                         -..+..|+...+..               .++  -.+|.+                           +.--+|++.+
T Consensus       266 ---TttvEa~i~~~Grg---------------iQgaTSH~LGQ---------------------------NFSkmF~i~~  300 (551)
T KOG4163         266 ---TTTVEAFIPCSGRG---------------IQGATSHHLGQ---------------------------NFSKMFEIVF  300 (551)
T ss_pred             ---EEEEEEEECCCCCC---------------CCCCCHHHHHH---------------------------HHHHHHCEEE
T ss_conf             ---47776652466655---------------55432025667---------------------------7998623441


Q ss_pred             CCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECC------
Q ss_conf             46667767666310110032323552111234567742133110168999997368776655577148998269------
Q gi|254780928|r  312 GFPVMNEKQKPVVFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDH------  385 (496)
Q Consensus       312 ~~~~~~~~~~~~~~~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~------  385 (496)
                      ..... .....+-+.|-              |-++--+|..+=+     --.+.....++...+.+|.|+.++.      
T Consensus       301 ed~~~-g~~~fv~QnSW--------------g~sTRtiGvmiM~-----HgDdkGLvLPPrVA~vQvVvvP~git~~~s~  360 (551)
T KOG4163         301 EDPGE-GEKEFVWQNSW--------------GLSTRTIGVMIMT-----HGDDKGLVLPPRVAPVQVVVVPVGITDATSE  360 (551)
T ss_pred             CCCCC-CCHHHEEECCC--------------CCCCCEEEEEEEE-----ECCCCCCCCCCCCCCEEEEEEECCCCCCCCH
T ss_conf             58874-11220331255--------------5342113479998-----3178653048752413799995663566746


Q ss_pred             --CHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCH
Q ss_conf             --768999999999999987983999718999988999999877998999988728748818997878883643311201
Q gi|254780928|r  386 --DSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNN  463 (496)
Q Consensus       386 --~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~  463 (496)
                        ....+..+..+...|-.+||||+.++.++.+.+=.|..-+-.|+|.-+-+|+++++++.|.+=-..+|+.        
T Consensus       361 ~~~~~l~~a~~~v~~~L~~~giR~~~D~rDnytpGwKfnhwElkGVPlRiEiGPrD~~~~qv~~VrRd~~~K--------  432 (551)
T KOG4163         361 EDKQELLDACSAVESRLLGAGIRAEADLRDNYTPGWKFNHWELKGVPLRIEIGPRDLASNQVVAVRRDTGEK--------  432 (551)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCCCCCCEEECCCEEEEEECCCHHHHCEEEEEECCCCCC--------
T ss_conf             778999999999999985168167503434678885333004327416887563302008389998357753--------


Q ss_pred             HHHHHCCCCCEEECHHHHHHHHHHHHHHHHHC
Q ss_conf             44320233510307999999999999864204
Q gi|254780928|r  464 ESWREARVAQITIPISELVSTVKKILQENKEE  495 (496)
Q Consensus       464 ~~~~~~~~~q~~v~~~~l~~~~~~~l~~~~~~  495 (496)
                                .+||.++|...|+.+|++.+.+
T Consensus       433 ----------~~v~~~~l~~~v~elLe~iq~~  454 (551)
T KOG4163         433 ----------KDVSLGDLEKTVKELLEKIQTN  454 (551)
T ss_pred             ----------CCCCHHHHHHHHHHHHHHHHHH
T ss_conf             ----------4557788999999999999999


No 50 
>cd00861 ProRS_anticodon_short ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=99.22  E-value=2.2e-10  Score=86.63  Aligned_cols=87  Identities=21%  Similarity=0.214  Sum_probs=71.1

Q ss_pred             CEEEEEEECC-CHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCC
Q ss_conf             7148998269-768999999999999987983999718999988999999877998999988728748818997878883
Q gi|254780928|r  376 GPVLITTMDH-DSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGK  454 (496)
Q Consensus       376 ~~v~V~~~~~-~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~  454 (496)
                      .+|.|+++.. +......+.++++.|+++|++|.++. .+.++++.++.|+..|+||.+|||++|+++|+|+||+..+|+
T Consensus         2 ~qv~Iipi~~~~~~~~~~a~~l~~~L~~~gi~v~~Dd-r~~~~G~K~~~ael~GiP~~iiiG~k~~~~~~v~vr~R~~~~   80 (94)
T cd00861           2 FDVVIIPMNMKDEVQQELAEKLYAELQAAGVDVLLDD-RNERPGVKFADADLIGIPYRIVVGKKSAAEGIVEIKVRKTGE   80 (94)
T ss_pred             EEEEEEECCCCCHHHHHHHHHHHHHHHHCCCEEEEEC-CCCHHHHHHHHHHHCCCCEEEEECCCCHHCCEEEEEECCCCC
T ss_conf             4999997489988999999999999988798999987-997277999999974998799990662117999999978995


Q ss_pred             EEEEECCCH
Q ss_conf             643311201
Q gi|254780928|r  455 ELSREIKNN  463 (496)
Q Consensus       455 q~~~~~~~~  463 (496)
                      +..+.++++
T Consensus        81 ~~~v~~~~~   89 (94)
T cd00861          81 KEEISIDEL   89 (94)
T ss_pred             EEEECHHHH
T ss_conf             689719999


No 51 
>cd00862 ProRS_anticodon_zinc ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only, and an additional C-terminal zinc-binding domain specific to this subfamily of aaRSs.
Probab=99.11  E-value=4.6e-09  Score=78.04  Aligned_cols=109  Identities=22%  Similarity=0.282  Sum_probs=88.3

Q ss_pred             CCCCCCCCEEEEEEECCC----HHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCC
Q ss_conf             766555771489982697----6899999999999998798399971899998899999987799899998872874881
Q gi|254780928|r  369 TNNIKEMGPVLITTMDHD----SDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGM  444 (496)
Q Consensus       369 ~~~~~~~~~v~V~~~~~~----~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~  444 (496)
                      .|+...+.+|.|+.+...    ...+.++.++++.|.++||+|.++..+..+.+..+.+.+.+|+|+.|-||++|+++|+
T Consensus         4 lPP~iAP~QVVIiPi~~k~~~~~~v~~~~~~i~~~L~~~~iRv~iD~rd~~~pG~K~~~wE~kGVPiRIEIGprDle~~~   83 (202)
T cd00862           4 LPPRVAPIQVVIVPIGIKDEKREEVLEAADELAERLKAAGIRVHVDDRDNYTPGWKFNDWELKGVPLRIEIGPRDLEKNT   83 (202)
T ss_pred             CCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHCCCEEEEECHHHHHCCC
T ss_conf             68420585499997348723289999999999999986798899977878688888899998089779998715863791


Q ss_pred             EEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHHHHHHHHHHHHHHHC
Q ss_conf             899787888364331120144320233510307999999999999864204
Q gi|254780928|r  445 LQIKDLAKGKELSREIKNNESWREARVAQITIPISELVSTVKKILQENKEE  495 (496)
Q Consensus       445 v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~~~l~~~~~~  495 (496)
                      |++....+++.                  .+||++++++.+..+|++-+++
T Consensus        84 v~v~rRD~~~K------------------~~v~~~el~~~i~~~L~~iq~~  116 (202)
T cd00862          84 VVIVRRDTGEK------------------KTVPLAELVEKVPELLDEIQED  116 (202)
T ss_pred             EEEEEECCCCE------------------EEEEHHHHHHHHHHHHHHHHHH
T ss_conf             89999179957------------------8978899999999999999999


No 52 
>cd00770 SerRS_core Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate.  Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. SerRS synthetase is a homodimer.
Probab=99.09  E-value=6.7e-11  Score=89.95  Aligned_cols=145  Identities=16%  Similarity=0.266  Sum_probs=108.4

Q ss_pred             CCCCC--CCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHH
Q ss_conf             98765--8866899999999999999998598480165202288752026755433322168986999889998888389
Q gi|254780928|r   13 RGFAD--CPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAP   90 (496)
Q Consensus        13 ~G~~D--~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~   90 (496)
                      .|.+.  +.|..+.+.+.+.+-+++....+||++|.||.+=..+++... |..+....+||...+   ..+.|.|-.-+|
T Consensus        40 sG~rf~~l~g~ga~Le~AL~~f~~d~~~~~Gy~eV~tP~iv~~~~~~~s-G~~~~~~e~~y~i~~---~~~~Li~tae~~  115 (297)
T cd00770          40 SGSRFYYLKGDGALLERALINFALDFLTKRGFTPVIPPFLVRKEVMEGT-GQLPKFDEQLYKVEG---EDLYLIATAEVP  115 (297)
T ss_pred             CCCEEEEECCHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCHHHHHHHH-CCCCCCHHHHHCCCC---HHHHHHHCCCCC
T ss_conf             9877799888899999999999999999879989988530138998543-578763565210355---055554405666


Q ss_pred             HHHHHHHH-HHHCCCCHHHHHHHHHHCCCCCCC-----C--CCCCCCCCCHHHHHCCCHHHH--HHHHHHHHHHHHHCCC
Q ss_conf             99999951-120554112331013330258764-----4--421111100012100002457--8899999999975188
Q gi|254780928|r   91 LARYVAEN-FDTIVFPCRTYRIGPVFRNEKHGP-----G--RFRQFIQCDVDNVGSSAETAD--AEMCMMMADTLEAVGI  160 (496)
Q Consensus        91 ~aR~~~~~-~~~~~~p~k~yy~g~vfR~e~p~~-----G--r~REf~Q~g~eiiG~~~~~~D--aEii~l~~~~l~~lgl  160 (496)
                      ++-++... .....+|+|++.++++||+|....     |  |.|||.|...-+|..++...+  -|++..+.++++.|||
T Consensus       116 l~~~~~~~~~~~~dLPlr~~~~s~cfR~Eags~G~d~~GL~RvhqF~kvE~~~~c~pe~s~~~~e~~~~~~e~~l~~L~l  195 (297)
T cd00770         116 LAALHRDEILEEEELPLKYAGYSPCFRKEAGSAGRDTRGLFRVHQFEKVEQFVFTKPEESWEELEELISNAEEILQELGL  195 (297)
T ss_pred             EEEEEEEEECCHHHCCCCEEECCCHHHHCCCCCCCCCCCEEEEEECCEEEEEEECCHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             22344200317755886502246341320377775555457887211003776168788999999999999999998155


Q ss_pred             C
Q ss_conf             8
Q gi|254780928|r  161 K  161 (496)
Q Consensus       161 ~  161 (496)
                      +
T Consensus       196 p  196 (297)
T cd00770         196 P  196 (297)
T ss_pred             C
T ss_conf             0


No 53 
>cd00774 GlyRS-like_core Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP binding and hydrolysis. This alignment contains only sequences from the GlyRS form which homodimerizes. The heterotetramer glyQ is in a different family of class II aaRS. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. This domain is also found at the N-terminus of the accessory subunit of mitochondrial polymerase gamma (Pol gamma b). Pol gamma b stimulates processive DNA synthesis and is functional as a homodimer, which can associate with the catalytic subunit Pol gamma alpha to form a heterotrimer. Despite significant both structural and sequence similarity with Gly
Probab=99.09  E-value=4.9e-10  Score=84.33  Aligned_cols=143  Identities=17%  Similarity=0.236  Sum_probs=100.6

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHH--HCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCH-
Q ss_conf             998765886689999999999999999--85984801652022887520267554333221689869998899988883-
Q gi|254780928|r   12 PRGFADCPTKEIRIRNRILDSIRNIYE--NYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLT-   88 (496)
Q Consensus        12 P~G~~D~~p~~~~~~~~i~~~l~~~f~--~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT-   88 (496)
                      ..|+.||.|..+.+++.|.+.+++.|-  +-+..+|++|++.+.-.|....|.           .+.++...-||||.. 
T Consensus        21 ~ag~yDyGPlG~~LK~Ni~~~W~~~fv~~~~~~~~id~~ii~p~LmF~T~iG~-----------~~~~~~~~yLRPETAQ   89 (254)
T cd00774          21 VAGFYDYGPLGVELKNNIKSAWRKSFVLEEEDMLEIDSPIITPELMFKTSIGP-----------VESGGNLGYLRPETAQ   89 (254)
T ss_pred             HHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCCEECCCCC-----------CCCCCCCEEECHHHHH
T ss_conf             31061548237999999999999998743798799541003663220012156-----------5589860353634534


Q ss_pred             ---HHHHHHHHHHHHHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCH---HHHHHHHHHHHHHHHHCC
Q ss_conf             ---899999995112055411233101333025-87644--421111100012100002---457889999999997518
Q gi|254780928|r   89 ---APLARYVAENFDTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAE---TADAEMCMMMADTLEAVG  159 (496)
Q Consensus        89 ---~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~---~~DaEii~l~~~~l~~lg  159 (496)
                         +.+.|.+-.  ....+|+-..++|++||+| .|+.|  |.|||+|+-+|.|-.+..   .-| +....-...+..++
T Consensus        90 GifvnFk~~~~~--~r~kLPFGiaQIGk~FRNEIsPr~~l~R~REF~q~EiE~F~~P~~~~~~~~-~w~~~~l~~~~~~~  166 (254)
T cd00774          90 GIFVNFKNLLEF--NRRKLPFGVAQIGKSFRNEISPRNGLFRVREFTQAEIEFFVDPEKSHPWFD-YWADQRLKWLPKFA  166 (254)
T ss_pred             HHHHHHHHHHHH--CCCCCCEEEEEEEECCCCCCCCCCCCCCHHCHHHHEEEEEECCCCCHHHHH-HHHHHHHHHHHHHC
T ss_conf             779878999996--488888445654202267347776754000002125788857986425789-99999986638738


Q ss_pred             CCCCCCEEE
Q ss_conf             887771130
Q gi|254780928|r  160 IKRNDYHIG  168 (496)
Q Consensus       160 l~~~~~~I~  168 (496)
                      +...++.+.
T Consensus       167 ~~~~~~~~~  175 (254)
T cd00774         167 QSPENLRLT  175 (254)
T ss_pred             CCCCCEEEE
T ss_conf             996653673


No 54 
>cd02426 Pol_gamma_b_Cterm C-terminal domain of mitochondrial DNA polymerase gamma B subunit, which is required for processivity. Polymerase gamma replicates and repairs mitochondrial DNA. The c-terminal domain of its B subunit is strikingly similar to the anticodon-binding domain of glycyl tRNA synthetase.
Probab=98.98  E-value=8.5e-09  Score=76.28  Aligned_cols=99  Identities=18%  Similarity=0.181  Sum_probs=79.3

Q ss_pred             CCCEEEEEEECCC-HHHHHHHHHHHHHHHHCCCEE--EEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEEC
Q ss_conf             5771489982697-689999999999999879839--9971899998899999987799899998872874881899787
Q gi|254780928|r  374 EMGPVLITTMDHD-SDSLSKYQMYTQMLRTAGIRA--EMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDL  450 (496)
Q Consensus       374 ~~~~v~V~~~~~~-~~~~~~~~~ia~~Lr~~Gi~~--e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l  450 (496)
                      +|..|-|++...+ .+....+..+.+.|+.+|+.+  .+.++...++++.+...+.+|+||.|+|+.+.+++|+|+||+.
T Consensus        26 AP~Kvai~~~~~~~~eL~~~a~~l~~~L~~~gi~v~~~~~~d~~~sIGkrY~r~DeiGtP~citvD~~TLedgtVtlR~R  105 (128)
T cd02426          26 APYKVAIDCGKGDTAELRDLCQGLKNELREAGLSVWPGYLETQHSSLEQLLDKYDEMGVLFTLLISEQTLENGLLQLRSR  105 (128)
T ss_pred             CCEEEEEEECCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCEEEEECCCCCCCCCEEEEEC
T ss_conf             77179997036881888999999999998739943546354543478898877664288479997787434795898854


Q ss_pred             CCCCEEEEECCCHHHHHHCCCCCEEECHHHHHHHHHHHHH
Q ss_conf             8883643311201443202335103079999999999998
Q gi|254780928|r  451 AKGKELSREIKNNESWREARVAQITIPISELVSTVKKILQ  490 (496)
Q Consensus       451 ~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~~~l~  490 (496)
                      .|.+                  |..|+++++.+++.+.++
T Consensus       106 DT~~------------------QerI~I~dl~~yl~~~i~  127 (128)
T cd02426         106 DTTL------------------KETIHISDLPDYLLRYIA  127 (128)
T ss_pred             CCCH------------------HEEEEHHHHHHHHHHHHC
T ss_conf             7602------------------135769998999999863


No 55 
>COG0173 AspS Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=98.96  E-value=1.7e-08  Score=74.28  Aligned_cols=102  Identities=27%  Similarity=0.444  Sum_probs=71.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHH
Q ss_conf             68999999999999999985984801652022887520267554333221689869998899988883899999995112
Q gi|254780928|r   21 KEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFD  100 (496)
Q Consensus        21 ~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~  100 (496)
                      .-...|.++...+++.+..+||.+|+||+|      +++.+++.+.  .+.----+.|+-.+|+-  .+++-.-+.+-. 
T Consensus       139 ~~l~lR~kv~~~iR~~ld~~gF~EiETPiL------tkSTPEGARD--fLVPSRv~~G~FYALPQ--SPQlfKQLLMvs-  207 (585)
T COG0173         139 KNLKLRSKVTKAIRNFLDDQGFLEIETPIL------TKSTPEGARD--FLVPSRVHPGKFYALPQ--SPQLFKQLLMVA-  207 (585)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCEEEECCCC------CCCCCCCCCC--CCCCCCCCCCCEEECCC--CHHHHHHHHHHH-
T ss_conf             999999999999999776549857346741------4679865544--30134558996530688--879999999880-


Q ss_pred             HCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHH
Q ss_conf             055411233101333025876444211111000121
Q gi|254780928|r  101 TIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNV  136 (496)
Q Consensus       101 ~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eii  136 (496)
                      ..   -|+|+|.+|||+|....-|.-||+|.|+|+=
T Consensus       208 Gf---dRYyQIarCFRDEDlRaDRQPEFTQiD~EmS  240 (585)
T COG0173         208 GF---DRYYQIARCFRDEDLRADRQPEFTQIDLEMS  240 (585)
T ss_pred             CC---CCEEEEEEEECCCCCCCCCCCCCEEEEEEEE
T ss_conf             53---3002356540466444446875336767764


No 56 
>cd00775 LysRS_core Lys_tRNA synthetase (LysRS) class II core domain.  Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three characteristic sequence motifs in the core domain. It is found in eukaryotes as well as some prokaryotes and archaea.  However, LysRS belongs to class I aaRS's  in some prokaryotes and archaea. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate.
Probab=98.95  E-value=1.6e-08  Score=74.53  Aligned_cols=101  Identities=25%  Similarity=0.324  Sum_probs=63.0

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEE-CCCCCEEEECCCCHHHHH--HHHHHH
Q ss_conf             89999999999999999859848016520228875202675543332216898-699988999888838999--999951
Q gi|254780928|r   22 EIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQ-DDDGQWISLRYDLTAPLA--RYVAEN   98 (496)
Q Consensus        22 ~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~-D~~g~~l~LRpDlT~~~a--R~~~~~   98 (496)
                      -.++|.+|...+++.|...||.||.||+|..+    ..++ .    ...|... ...|...-|+-  .+++.  ++++. 
T Consensus         7 ~~~~Rs~i~~~iR~ff~~~gF~Ev~TPiL~~~----~~g~-~----~~~f~~~~~~~~~~~yL~q--SpQl~~q~l~~~-   74 (329)
T cd00775           7 TFIVRSKIISYIRKFLDDRGFLEVETPMLQPI----AGGA-A----ARPFITHHNALDMDLYLRI--APELYLKRLIVG-   74 (329)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCEEEECCCCCCC----CCCC-C----CCCEEECCCCCCCCCCCCC--CHHHHHHHHHHC-
T ss_conf             99999999999999999889889979865566----8875-6----7531322446786723068--989999999856-


Q ss_pred             HHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCC
Q ss_conf             12055411233101333025876444211111000121000
Q gi|254780928|r   99 FDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSS  139 (496)
Q Consensus        99 ~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~  139 (496)
                        .  + -|.|+||++||.|....-|.-||||+++|..+.+
T Consensus        75 --g--~-~rvfqI~p~FR~E~~~~rHl~EFtmle~E~~f~d  110 (329)
T cd00775          75 --G--F-ERVYEIGRNFRNEGIDLTHNPEFTMIEFYEAYAD  110 (329)
T ss_pred             --C--C-CCEEEEEECCCCCCCCCCCCCHHHHHHHHHHCCC
T ss_conf             --7--7-7679981022479999774734563457774479


No 57 
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=98.94  E-value=1e-07  Score=69.31  Aligned_cols=98  Identities=27%  Similarity=0.375  Sum_probs=61.9

Q ss_pred             HHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECC---CCCEEEECCCCHHHH--HHHHHH
Q ss_conf             999999999999999985984801652022887520267554333221689869---998899988883899--999995
Q gi|254780928|r   23 IRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDD---DGQWISLRYDLTAPL--ARYVAE   97 (496)
Q Consensus        23 ~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~---~g~~l~LRpDlT~~~--aR~~~~   97 (496)
                      .++|.+|...+|+.|..+||.||+||++...    . +|....      .|..+   -+..+.||=  .+++  -|.++.
T Consensus       171 f~~Rs~ii~~iR~~l~~~gF~EVeTPiL~~~----~-gGA~Ar------pF~t~~n~l~~~~yL~~--SPqLylk~l~vg  237 (491)
T PRK00484        171 FRKRSKIISAIRRFLDNRGFLEVETPMLQPI----P-GGAAAR------PFITHHNALDIDLYLRI--APELYLKRLIVG  237 (491)
T ss_pred             HHHHHHHHHHHHHHHHHCCEEEEECCCCCCC----C-CCCCCC------CCCCCCCCCCCCEEECC--CHHHHHHHHHHC
T ss_conf             9999999999999998676899867877666----8-875667------65564456685544206--878987778762


Q ss_pred             HHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCC
Q ss_conf             112055411233101333025876444211111000121000
Q gi|254780928|r   98 NFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSS  139 (496)
Q Consensus        98 ~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~  139 (496)
                      .     + -|.|+||++||+|....-|.-||||+++|.-..+
T Consensus       238 G-----~-ervfeI~r~FR~E~~~~rH~pEFT~lE~e~af~d  273 (491)
T PRK00484        238 G-----F-ERVFEIGRNFRNEGIDTRHNPEFTMIEFYQAYAD  273 (491)
T ss_pred             C-----C-HHHEEHHHHHHCCCCCCCCCCCEEEEEEEEECCC
T ss_conf             7-----2-0222248766257554341840102136772479


No 58 
>PRK09537 pylS pyrolysyl-tRNA synthetase; Reviewed
Probab=98.80  E-value=1.3e-08  Score=75.00  Aligned_cols=131  Identities=22%  Similarity=0.448  Sum_probs=95.1

Q ss_pred             HHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCC-CCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHHCCCCH
Q ss_conf             99999999999859848016520228875202675-54333221689869998899988883899999995112055411
Q gi|254780928|r   28 RILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPD-EDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDTIVFPC  106 (496)
Q Consensus        28 ~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~-~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~~~~p~  106 (496)
                      +++.-+.+.|-..||-+|..|++-+.+-..+.+-+ .+..+|++|+.    .+.+||||-+.+.+--++-.-....+.|+
T Consensus       211 kler~it~ffvdrgfleikspilip~eyiermgid~d~elskQiFrv----d~n~CLRPMLAPnLYnylrkL~R~lpdPI  286 (420)
T PRK09537        211 KLERDITKFFVDRGFLEIKSPILIPAEYIERMGIDNDTELSKQIFRV----DKNFCLRPMLAPNLYNYLRKLDRALPDPI  286 (420)
T ss_pred             HHHHHHHHHHHCCCCEEECCCEECCHHHHHHHCCCCHHHHHHHHEEE----CCCCCCCCCCCHHHHHHHHHHHHHCCCCE
T ss_conf             77888899854145135148504219999985788605655451674----34533241014269999999986168871


Q ss_pred             HHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCEE
Q ss_conf             2331013330258764442111110001210000245788999999999751888777113
Q gi|254780928|r  107 RTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDYHI  167 (496)
Q Consensus       107 k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~~~I  167 (496)
                      |.|.||++||.|..++.+..||+..+|--.|+.-...  -.=.++.++|+.+|+   +|.|
T Consensus       287 rIFEIGpCyRKESdG~~HLeEFTMlNfcqmgsgctre--nle~~i~efl~~lgI---dfei  342 (420)
T PRK09537        287 KIFEIGPCYRKESDGKEHLEEFTMVNFCQMGSGCTRE--NLEALITEFLNHLGI---DFEI  342 (420)
T ss_pred             EEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCCCHH--HHHHHHHHHHHHCCC---EEEE
T ss_conf             5886204303444106788777777688644898678--899999999986197---2798


No 59 
>cd00776 AsxRS_core Asx tRNA synthetase (AspRS/AsnRS) class II core domain.  Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as a subgroup of AspRS.  AsnRS and AspRS are homodimers, which attach either asparagine or aspartate to the 3'OH group of ribose of the appropriate tRNA.  While archaea lack asnRS, they possess a non-discriminating aspRS, which can mischarge Asp-tRNA with Asn. Subsequently, a tRNA-dependent aspartate amidotransferase converts the bound aspartate to asparagine. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate.
Probab=98.80  E-value=3.4e-07  Score=65.91  Aligned_cols=97  Identities=26%  Similarity=0.455  Sum_probs=62.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEEC--CCCHHHHHHHHHHH
Q ss_conf             6899999999999999998598480165202288752026755433322168986999889998--88838999999951
Q gi|254780928|r   21 KEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLR--YDLTAPLARYVAEN   98 (496)
Q Consensus        21 ~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LR--pDlT~~~aR~~~~~   98 (496)
                      .-.++|..|...+++.|...||.||+||+|-...      +++   ....|.. +.-|+.+.||  |++   .-|.++..
T Consensus        22 ~~l~~Rs~i~~~iR~fl~~~gF~EVeTP~L~~~~------~eg---~a~~f~~-~~~~~~~yL~~Spel---~Kqlli~G   88 (322)
T cd00776          22 AIFRIRSEVLRAFREFLRENGFTEVHTPKITSTD------TEG---GAELFKV-SYFGKPAYLAQSPQL---YKEMLIAA   88 (322)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCC------CCC---CCCCCCC-CCCCCCEEECCCHHH---HHHHHHCC
T ss_conf             9999999999999999998899999798400788------986---5466762-105876001548588---99997534


Q ss_pred             HHHCCCCHHHHHHHHHHCCCCCCCC-CCCCCCCCCHHHH
Q ss_conf             1205541123310133302587644-4211111000121
Q gi|254780928|r   99 FDTIVFPCRTYRIGPVFRNEKHGPG-RFRQFIQCDVDNV  136 (496)
Q Consensus        99 ~~~~~~p~k~yy~g~vfR~e~p~~G-r~REf~Q~g~eii  136 (496)
                           . -|.|++|+|||+|..... |.-||+|+.+|.-
T Consensus        89 -----~-~rVfei~~~FR~E~~~t~rH~pEFTmlE~e~a  121 (322)
T cd00776          89 -----L-ERVYEIGPVFRAEKSNTRRHLSEFWMLEAEMA  121 (322)
T ss_pred             -----C-CCEEEECCEEECCCCCCCCCHHHHHHHHHHHH
T ss_conf             -----2-44388726140799987534788876525552


No 60 
>TIGR00459 aspS_bact aspartyl-tRNA synthetase; InterPro: IPR004524   The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases .   Aspartyl tRNA synthetase 6.1.1.12 from EC is an alpha2 dimer that belongs to class IIb. Structural analysis combined with mutagenesis and enzymology data on the yeast enzyme point to a tRNA binding process that starts by a recognition event between the tRNA anticodon loop and the synthetase anticodon binding module .     This family represents aspartyl-tRNA synthetases from the bacteria and from mitochondria. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn). ; GO: 0000166 nucleotide binding, 0004815 aspartate-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006422 aspartyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=98.70  E-value=6.1e-08  Score=70.74  Aligned_cols=104  Identities=28%  Similarity=0.501  Sum_probs=76.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCC----CCCCEEEEECCCCCEEEECCCCHHHHHHHH
Q ss_conf             6689999999999999999859848016520228875202675543----332216898699988999888838999999
Q gi|254780928|r   20 TKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDR----PNKGVFSLQDDDGQWISLRYDLTAPLARYV   95 (496)
Q Consensus        20 p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~----~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~   95 (496)
                      -....+|..|...+|+.|..+||-+|+||+|      +++-+|+.+    +++ + +-.|-.|+-.+|+  -.+++=.-+
T Consensus       148 ~~~L~lR~~v~~~~Rn~l~~~gFleiETP~L------tKsTPEGARDyLVPsR-v-~rsdG~g~FYALp--QSPQlfKQL  217 (653)
T TIGR00459       148 QQRLKLRHKVTKAVRNFLDQQGFLEIETPIL------TKSTPEGARDYLVPSR-V-HRSDGKGEFYALP--QSPQLFKQL  217 (653)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCEEECCCC------CCCCCCCHHHCCCCCC-C-CCCCCCCCEECCC--CCHHHHHHH
T ss_conf             9998668898999986664278706506777------7888431101577553-0-0368588451468--975689998


Q ss_pred             HHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHH
Q ss_conf             951120554112331013330258764442111110001210
Q gi|254780928|r   96 AENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVG  137 (496)
Q Consensus        96 ~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG  137 (496)
                      .+= .+.   =|+|||.+|||+|...+-|.=||||+|+|+==
T Consensus       218 LMv-sG~---drYyQIArCFRDEDLRADRQPEFTQiD~E~SF  255 (653)
T TIGR00459       218 LMV-SGV---DRYYQIARCFRDEDLRADRQPEFTQIDMEMSF  255 (653)
T ss_pred             HHH-CCC---CCCEEEEEEECCCCCCCCCCCCCCHHHHHHHC
T ss_conf             751-255---53135788976625666577873244263112


No 61 
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=98.64  E-value=4.2e-07  Score=65.32  Aligned_cols=115  Identities=22%  Similarity=0.422  Sum_probs=70.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCC-CEEEECCCCHHHHHHHHHHH
Q ss_conf             66899999999999999998598480165202288752026755433322168986999-88999888838999999951
Q gi|254780928|r   20 TKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDG-QWISLRYDLTAPLARYVAEN   98 (496)
Q Consensus        20 p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g-~~l~LRpDlT~~~aR~~~~~   98 (496)
                      ..-++++..+...+++.|...||.+|.||.+-.++      .+   -..++|...--+. .-|+=    +.++   +.+-
T Consensus       131 ~Av~kirs~i~~a~~eff~~~gF~eV~tP~i~~~~------~E---Gg~elF~v~yf~~~a~Ltq----S~QL---yke~  194 (435)
T COG0017         131 QAVFKIRSSILRAIREFFYENGFTEVHTPIITASA------TE---GGGELFKVDYFDKEAYLTQ----SPQL---YKEA  194 (435)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCEEECCCEEECCC------CC---CCCEEEEEEECCCCEEEEC----CHHH---HHHH
T ss_conf             77894999999999999975895896594685347------89---9850577750685667714----7889---9999


Q ss_pred             HHHCCCCHHHHHHHHHHCCCCCCCC-CCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHH
Q ss_conf             1205541123310133302587644-421111100012100002457889999999997
Q gi|254780928|r   99 FDTIVFPCRTYRIGPVFRNEKHGPG-RFRQFIQCDVDNVGSSAETADAEMCMMMADTLE  156 (496)
Q Consensus        99 ~~~~~~p~k~yy~g~vfR~e~p~~G-r~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~  156 (496)
                      +.. .+ -|.|.+|++||.|+...- |.-|||+.++|+-..+  ..  |++.++-+.+.
T Consensus       195 ~~~-al-~rVf~igP~FRAE~s~T~RHL~EF~~ld~Emaf~~--~~--d~m~l~E~~i~  247 (435)
T COG0017         195 LAA-AL-ERVFTIGPTFRAEKSNTRRHLSEFWMLDPEMAFAD--LN--DVMDLAEELIK  247 (435)
T ss_pred             HHH-HH-CCEEEECCCEECCCCCCCCHHHHHHEECCEECCCC--HH--HHHHHHHHHHH
T ss_conf             999-85-76489567255477897003666733021113676--88--89999999999


No 62 
>TIGR02367 PylS pyrrolysyl-tRNA synthetase; InterPro: IPR012739    PylS is the archaeal enzyme responsible for charging the pyrrolysine tRNA, PylT, by ligating a free molecule of pyrrolysine. Pyrrolysine is encoded at an in-frame UAG (amber) at least in several corrinoid-dependent methyltransferases of the archaeal genera Methanosarcina and Methanococcoides, e.g. trimethylamine methyltransferase. .
Probab=98.62  E-value=5.2e-08  Score=71.20  Aligned_cols=138  Identities=20%  Similarity=0.411  Sum_probs=102.5

Q ss_pred             HHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCC-CCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHHCCCC
Q ss_conf             999999999999859848016520228875202675-5433322168986999889998888389999999511205541
Q gi|254780928|r   27 NRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPD-EDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDTIVFP  105 (496)
Q Consensus        27 ~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~-~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~~~~p  105 (496)
                      -+++..+.+.|-..||-+|..|+|-+.+-..+.+-+ ....+|++|+.    ...+||||-+.+.+-.|+-.--+..|-|
T Consensus       243 Gkler~it~ffvdrGfleiksPiliP~ey~ermGi~ndtelskqifrv----dkn~ClrPmlaP~lynylrkldr~lP~P  318 (453)
T TIGR02367       243 GKLEREITKFFVDRGFLEIKSPILIPLEYVERMGIDNDTELSKQIFRV----DKNLCLRPMLAPTLYNYLRKLDRILPDP  318 (453)
T ss_pred             HHHHHHHHHHHHHCCEEEECCCCCCCHHHHHHCCCCCCHHHHHHHHHH----HHHHHCCCCHHHHHHHHHHHHHHHCCCC
T ss_conf             467666766653124023236310105688650776402566666644----1001012100056899999987537896


Q ss_pred             HHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCEEECCCCHH
Q ss_conf             123310133302587644421111100012100002457889999999997518887771130366055
Q gi|254780928|r  106 CRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDYHIGINNRKI  174 (496)
Q Consensus       106 ~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~~~I~in~~~i  174 (496)
                      +|.|.+|++||.|..++.+.-||+.+.|=-.|+.-.-..  +=.++.++|+.|++   +|.| +|+.++
T Consensus       319 ik~fe~GPCyrkesdGkehleeftm~nfCqmGsGCtren--le~~i~~fl~~l~i---df~i-vGdsCm  381 (453)
T TIGR02367       319 IKVFEVGPCYRKESDGKEHLEEFTMLNFCQMGSGCTREN--LEALIKEFLDYLEI---DFKI-VGDSCM  381 (453)
T ss_pred             EEEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCCHHH--HHHHHHHHHHHHCC---CEEE-ECCEEE
T ss_conf             479860675243565335666666555431478732677--99999998876154---2478-524246


No 63 
>COG0172 SerS Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=98.54  E-value=8.2e-07  Score=63.41  Aligned_cols=147  Identities=16%  Similarity=0.174  Sum_probs=105.3

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHH
Q ss_conf             99876588668999999999999999985984801652022887520267554333221689869998899988883899
Q gi|254780928|r   12 PRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPL   91 (496)
Q Consensus        12 P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~   91 (496)
                      ..+|.-+.+..+++.+.+.+-+.+....|||+++.+|.+=..+++...+ .-......||...|.   .+.|-|-.-+|+
T Consensus       163 Gsrf~~~~~~~a~L~rAL~~f~ld~~~~~Gf~e~~~P~lv~~e~m~gtg-qlpkf~e~~y~v~~~---~~~LipTaEvpl  238 (429)
T COG0172         163 GSRFYFYKGKGARLERALIQFMLDLHTKHGFTEVLPPYLVNLESMFGTG-QLPKFEEDLYKVEDP---DLYLIPTAEVPL  238 (429)
T ss_pred             CCCEEEECCHHHHHHHHHHHHHHHHHHHCCCEEEECCEEECHHHHHCCC-CCCCCCCCCEEECCC---CEEEEECCHHHH
T ss_conf             8743898077899999999999999987696586576060598862237-898880121584589---879970202156


Q ss_pred             HHHHHHHHHH-CCCCHHHHHHHHHHCCCCC-----CCCCCCCCCCCCHHHHHC---CCHHHHH-HHHHHHHHHHHHCCCC
Q ss_conf             9999951120-5541123310133302587-----644421111100012100---0024578-8999999999751888
Q gi|254780928|r   92 ARYVAENFDT-IVFPCRTYRIGPVFRNEKH-----GPGRFRQFIQCDVDNVGS---SAETADA-EMCMMMADTLEAVGIK  161 (496)
Q Consensus        92 aR~~~~~~~~-~~~p~k~yy~g~vfR~e~p-----~~Gr~REf~Q~g~eiiG~---~~~~~Da-Eii~l~~~~l~~lgl~  161 (496)
                      +-++...-.. ..+|+|++-..++||.|.-     .+|-.|.+-=.=+|.+--   +....+- |++..+-++++.|+|+
T Consensus       239 ~~l~~~Eil~~~~LP~k~~~~S~cFR~EAGs~GrdtrGliRvHQF~KVE~v~~~~Pe~S~~~~E~m~~~ae~il~~LeLP  318 (429)
T COG0172         239 TNLHRDEILDEEDLPIKYTAYSPCFRSEAGSAGKDTRGLIRVHQFDKVELVVITKPEESEEELEEMLGNAEEVLQELELP  318 (429)
T ss_pred             HHHHCCCCCCCCCCCEEEEEECHHHHCCCCCCCCCCCCEEEEEEEEEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             78651620152127802678772542145656643553014664355899997070116999999999999999970898


Q ss_pred             C
Q ss_conf             7
Q gi|254780928|r  162 R  162 (496)
Q Consensus       162 ~  162 (496)
                      -
T Consensus       319 y  319 (429)
T COG0172         319 Y  319 (429)
T ss_pred             C
T ss_conf             3


No 64 
>pfam00152 tRNA-synt_2 tRNA synthetases class II (D, K and N).
Probab=98.48  E-value=1.8e-06  Score=61.14  Aligned_cols=117  Identities=21%  Similarity=0.305  Sum_probs=73.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHH
Q ss_conf             68999999999999999985984801652022887520267554333221689869998899988883899999995112
Q gi|254780928|r   21 KEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFD  100 (496)
Q Consensus        21 ~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~  100 (496)
                      .-.++|..|...+++.|...||.||+||+|....     +++    ..+.|......++..-|+----...-|+++... 
T Consensus        20 ~~l~~Rs~i~~~iR~ff~~~~f~EV~TP~L~~~~-----~e~----~a~~F~~~~~~~~~~yL~~Spel~~k~ll~~g~-   89 (341)
T pfam00152        20 ANLKLRSKIIRAIREFLDERGFLEVETPILTKST-----PEG----GARDFLVPKFYAKEAYLPQSPQLYKQLLMVAGF-   89 (341)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCC-----CCC----CCCEEEECCCCCCCEEECCCHHHHHHHHHHCCC-
T ss_conf             9999999999999999998898998798200558-----987----776645026789823405488999999986588-


Q ss_pred             HCCCCHHHHHHHHHHCCCCCCCC-CCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHH
Q ss_conf             05541123310133302587644-421111100012100002457889999999997
Q gi|254780928|r  101 TIVFPCRTYRIGPVFRNEKHGPG-RFRQFIQCDVDNVGSSAETADAEMCMMMADTLE  156 (496)
Q Consensus       101 ~~~~p~k~yy~g~vfR~e~p~~G-r~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~  156 (496)
                           -|.|++|++||.|..... |.-||+++.++..+.+-  .  +++.++-+++.
T Consensus        90 -----~rVfei~~~FR~E~~~t~rH~~EFtmlE~y~a~~d~--~--d~m~~~E~li~  137 (341)
T pfam00152        90 -----DRVFQIAPCFRDEDLRTDRHPPEFTQLDLEMSFVDY--E--DVMDLTEDLIK  137 (341)
T ss_pred             -----CCCEEEECHHCCCCCCCCCCCHHHHHHHHHHHCCCH--H--HHHHHHHHHHH
T ss_conf             -----763797232027989886550778877675535999--9--99999999999


No 65 
>pfam01409 tRNA-synt_2d tRNA synthetases class II core domain (F). Other tRNA synthetase sub-families are too dissimilar to be included. This family includes only phenylalanyl-tRNA synthetases. This is the core catalytic domain.
Probab=98.45  E-value=2.3e-06  Score=60.52  Aligned_cols=107  Identities=30%  Similarity=0.459  Sum_probs=77.5

Q ss_pred             HHHHHHHHHHHHHHHHCCCEEEECCCHH----HHHHHHCCCCCCCCCCC---CEEEEEC-CCCCEEEECCCCHHHHHHHH
Q ss_conf             9999999999999998598480165202----28875202675543332---2168986-99988999888838999999
Q gi|254780928|r   24 RIRNRILDSIRNIYENYGFDPIETPLLE----YSDSLGKFLPDEDRPNK---GVFSLQD-DDGQWISLRYDLTAPLARYV   95 (496)
Q Consensus        24 ~~~~~i~~~l~~~f~~~G~~~I~tP~lE----~~~~~~~~~~~~~~~~k---~~y~f~D-~~g~~l~LRpDlT~~~aR~~   95 (496)
                      .-...+.+.++++|...||++++.|-+|    ..|.|.   -..+++.+   ..|-+.+ ..++.+.||.-.|+--+|.+
T Consensus        17 HPi~~~~~~i~~~f~~~GF~~~~g~eves~~~NFDaLn---~P~dHPaR~~~DTfy~~~~~~~~~~vLRtHTS~~q~r~l   93 (243)
T pfam01409        17 HPLTRVLEEIRDIFLSMGFEEVEGPEVESDFYNFDALN---IPQDHPARDMQDTFYLKKPLKARRLLLRTHTTPVQARTL   93 (243)
T ss_pred             CHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHC---CCCCCCCCCCCCEEEECCCCCCCCEEECCCCCHHHHHHH
T ss_conf             85999999999999877986876983564277777557---898898767676034336666768657687988999999


Q ss_pred             HHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHH
Q ss_conf             95112055411233101333025876444211111000121
Q gi|254780928|r   96 AENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNV  136 (496)
Q Consensus        96 ~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eii  136 (496)
                      ..+.   ..|+|.+++|+|||+|....-++-+|+|+..=++
T Consensus        94 ~~~~---~~p~r~~~~grvyR~d~~DatH~~~FhQ~Eg~vv  131 (243)
T pfam01409        94 AEKN---KPPIKIFSIGRVFRRDQVDATHLPEFHQVEGLVV  131 (243)
T ss_pred             HHCC---CCCEEEECCCEEEECCCCCCCCCCEEEEEEEEEE
T ss_conf             7427---9984898143133258898431531057557896


No 66 
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=98.44  E-value=2.1e-06  Score=60.79  Aligned_cols=145  Identities=18%  Similarity=0.228  Sum_probs=102.4

Q ss_pred             CCCCC--CCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHH
Q ss_conf             98765--8866899999999999999998598480165202288752026755433322168986999889998888389
Q gi|254780928|r   13 RGFAD--CPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAP   90 (496)
Q Consensus        13 ~G~~D--~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~   90 (496)
                      .|.|.  +-+..+.+.+.+.+-..+....+||++|.||.|=..+.+...+.-. ....++|.+.+   ..+.|-|-.-+|
T Consensus       158 SGsRF~~Lkg~~A~LerALi~f~ld~~~~~Gy~~v~~P~lv~~~~~~gtGqlP-kfe~~~Y~i~~---~dl~Li~TAEvp  233 (422)
T PRK05431        158 SGSRFYVLKGDGARLERALIQFMLDLHTEEGYTEVIPPYLVNEESMYGTGQLP-KFEEDLFKIED---DDLYLIPTAEVP  233 (422)
T ss_pred             CCCCEEEEHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHHHHCCCC-CCHHHHHHHCC---CCEEEECCCCCC
T ss_conf             07870460048999999999999999998799799673763678874453797-44877541058---871760565321


Q ss_pred             HHHHHHHH-HHHCCCCHHHHHHHHHHCCCCC-----CCCCCCCCCCCC-HHHHHCCCH----HHHHHHHHHHHHHHHHCC
Q ss_conf             99999951-1205541123310133302587-----644421111100-012100002----457889999999997518
Q gi|254780928|r   91 LARYVAEN-FDTIVFPCRTYRIGPVFRNEKH-----GPGRFRQFIQCD-VDNVGSSAE----TADAEMCMMMADTLEAVG  159 (496)
Q Consensus        91 ~aR~~~~~-~~~~~~p~k~yy~g~vfR~e~p-----~~Gr~REf~Q~g-~eiiG~~~~----~~DaEii~l~~~~l~~lg  159 (496)
                      ++-++... .....+|+|++-+.++||.|.-     .+|-+|. +|+. +|+|.-..+    ..=-|++..+.++++.||
T Consensus       234 L~~~~~~eil~~~~LPik~~~~S~CFR~EAGs~GkdtrGl~Rv-HQF~KVE~f~~~~pe~S~~~~e~~~~~~e~i~~~L~  312 (422)
T PRK05431        234 LTNLHRDEILDEEELPIKYTAYSPCFRSEAGSAGRDTRGLIRQ-HQFDKVELVKFTKPEDSYAELEELTGNAEEILQKLE  312 (422)
T ss_pred             HHHHHHCCCCCHHHCCHHHEEECCHHHHCCCCCCCCCCCCEEE-EEECEEEEEEECCHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             2334401133654398445278836530313367556761244-300003433535867799999999999999998759


Q ss_pred             CCC
Q ss_conf             887
Q gi|254780928|r  160 IKR  162 (496)
Q Consensus       160 l~~  162 (496)
                      |+-
T Consensus       313 lpy  315 (422)
T PRK05431        313 LPY  315 (422)
T ss_pred             CCC
T ss_conf             850


No 67 
>cd00496 PheRS_alpha_core Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA,  PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs.  PheRS is an alpha-2/ beta-2 tetramer.
Probab=98.42  E-value=2.2e-06  Score=60.56  Aligned_cols=107  Identities=26%  Similarity=0.433  Sum_probs=75.8

Q ss_pred             HHHHHHHHHHHHHCCCEEEECCCHHHHH-HHHCCCCCCCCCCCC---EEEEECCCCCEEEECCCCHHHHHHHHHHHHHHC
Q ss_conf             9999999999998598480165202288-752026755433322---168986999889998888389999999511205
Q gi|254780928|r   27 NRILDSIRNIYENYGFDPIETPLLEYSD-SLGKFLPDEDRPNKG---VFSLQDDDGQWISLRYDLTAPLARYVAENFDTI  102 (496)
Q Consensus        27 ~~i~~~l~~~f~~~G~~~I~tP~lE~~~-~~~~~~~~~~~~~k~---~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~~  102 (496)
                      ..+.+.++++|...||++++.|-+|... -|-.-.-..+.+.++   .|-+ +. ...++||.--|+--+|++..+    
T Consensus         4 ~~~~~~i~~~f~~~GF~~~~gp~ie~~~~NFD~Ln~P~dHPaR~~~DTfy~-~~-~~~~lLRtHTS~~q~r~l~~~----   77 (218)
T cd00496           4 NKVIEEIEDIFVSMGFTEVEGPEVETDFYNFDALNIPQDHPARDMQDTFYI-ND-PARLLLRTHTSAVQARALAKL----   77 (218)
T ss_pred             HHHHHHHHHHHHHCCCEEECCCCCCCCHHHHHHHCCCCCCCCCCCCCEEEE-CC-CCCCEECCCCCHHHHHHHHHC----
T ss_conf             899999999998779868228951231030453385988755372432786-37-766021578756679999745----


Q ss_pred             CCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCC
Q ss_conf             5411233101333025876444211111000121000
Q gi|254780928|r  103 VFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSS  139 (496)
Q Consensus       103 ~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~  139 (496)
                      ..|+|.+++|+|||+|...+-++-+|+|+..=+++..
T Consensus        78 ~~p~~~~~~G~VyR~D~iDatH~~~FhQ~Eg~~v~~~  114 (218)
T cd00496          78 KPPIRIFSIGRVYRNDEIDATHLPEFHQIEGLVVDKG  114 (218)
T ss_pred             CCCCEEEECCCEEECCCCCCCCCCEEEEEEEEEEECC
T ss_conf             8981799425046538898431531257637999565


No 68 
>PRK09350 lysyl-tRNA synthetase; Provisional
Probab=98.41  E-value=2.9e-06  Score=59.79  Aligned_cols=122  Identities=19%  Similarity=0.217  Sum_probs=72.1

Q ss_pred             CCCCH----HHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEE--EEECC---CCCEEEECCC
Q ss_conf             65886----689999999999999999859848016520228875202675543332216--89869---9988999888
Q gi|254780928|r   16 ADCPT----KEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVF--SLQDD---DGQWISLRYD   86 (496)
Q Consensus        16 ~D~~p----~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y--~f~D~---~g~~l~LRpD   86 (496)
                      -+|-|    +-.++|.+|...+|+.|...||.||+||+|-.      ....+..  ...|  .|..+   .+..+.|+. 
T Consensus         5 ~~w~~~as~~~l~~Rs~i~~~iR~ff~~~gFlEVeTP~L~~------~t~~~~~--~~~f~~~~~~~~~~~~~~~yL~~-   75 (325)
T PRK09350          5 ASWQPSASIKNLLKRAAIIAEIRRFFADRGVLEVETPAMSQ------ATVTDIH--LVPFETRFVGPGHSQGKTLWLMT-   75 (325)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCC------CCCCCCC--CCCEEEECCCCCCCCCCCEEEEC-
T ss_conf             87777147999999999999999999988968977984257------7887646--76222102565545676645507-


Q ss_pred             CHHHHH--HHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHH
Q ss_conf             838999--99995112055411233101333025876444211111000121000024578899999999975
Q gi|254780928|r   87 LTAPLA--RYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEA  157 (496)
Q Consensus        87 lT~~~a--R~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~  157 (496)
                       .+++.  |.++...      -|.|+||+|||.|....-|.-||||++++..+.+-.    +++.++-++++.
T Consensus        76 -SPql~~k~l~~~G~------~rvfqI~~~FR~E~~~~~H~pEFtmlE~~~~~~d~~----d~m~~~e~ll~~  137 (325)
T PRK09350         76 -SPEYHMKRLLAAGS------GPIFQLCRSFRNEEAGRYHNPEFTMLEWYRPHYDMY----RLMNEVDDLLQQ  137 (325)
T ss_pred             -CHHHHHHHHHHCCC------CCEEEEEHHHCCCCCCCCCCCHHHHHHHHHHCCCHH----HHHHHHHHHHHH
T ss_conf             -91999999986678------855896113228999876573778889998154899----999999999999


No 69 
>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional
Probab=98.39  E-value=2.6e-06  Score=60.13  Aligned_cols=130  Identities=25%  Similarity=0.414  Sum_probs=82.1

Q ss_pred             HHHHHHHHHHHHHHHHHCCCEEEECCCHHH----HHHHHCCCCCCCCCCCC---EEEEECC-------------------
Q ss_conf             999999999999999985984801652022----88752026755433322---1689869-------------------
Q gi|254780928|r   23 IRIRNRILDSIRNIYENYGFDPIETPLLEY----SDSLGKFLPDEDRPNKG---VFSLQDD-------------------   76 (496)
Q Consensus        23 ~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~----~~~~~~~~~~~~~~~k~---~y~f~D~-------------------   76 (496)
                      ..-..++.+.++++|..-||+++..|.+|.    .|.|   ....+++.++   .|-+.++                   
T Consensus       244 ~Hp~~~~~~~~r~i~~~mGF~e~~g~~ve~~fwNfdaL---f~Pq~HPARd~~Dtf~l~~~~~~~lp~~~~~~Vk~~HE~  320 (501)
T PRK04172        244 KHPYREFIEEVRDILVEMGFEEVKGPIVETEFWNFDAL---FQPQDHPAREMQDTFYLKYPSKGELPEELVERVKEVHEH  320 (501)
T ss_pred             CCHHHHHHHHHHHHHHHCCCEEEECCCEECCCCCHHHH---CCCCCCCCCCCCCEEEECCCCCCCCCHHHHHHHHHHHHC
T ss_conf             48899999999999997897685366101000033430---589899855544537865765455737889889998742


Q ss_pred             C----------------CCEEEECCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCC
Q ss_conf             9----------------988999888838999999951120554112331013330258764442111110001210000
Q gi|254780928|r   77 D----------------GQWISLRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSA  140 (496)
Q Consensus        77 ~----------------g~~l~LRpDlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~  140 (496)
                      +                .+.+.||---|+--+|+++.+.   ..|+|.+++|+|||+|....-|.-||+|+.-=+++..=
T Consensus       321 Gg~~gS~Gw~y~w~~~~~~~~~lRthtt~~~~r~l~~~~---~~p~~~f~~~rvfR~e~~d~tH~~~F~Q~eg~v~~~~~  397 (501)
T PRK04172        321 GGDTGSRGWGYKWDEDIAKRLVLRTHTTALSARYLAERP---EPPGKYFSIGRVFRPETIDATHLPEFYQLEGIVMGEDV  397 (501)
T ss_pred             CCCCCCCCCCCCCCHHHHHHHCCCCCCCHHHHHHHHHCC---CCCEEEECCCCEEECCCCCCCCCCEEEEEEEEEECCCC
T ss_conf             776788776777785566430104367466799997468---99835735650542688886544133222489984888


Q ss_pred             HHHHHHHHHHHHHHHHHCCC
Q ss_conf             24578899999999975188
Q gi|254780928|r  141 ETADAEMCMMMADTLEAVGI  160 (496)
Q Consensus       141 ~~~DaEii~l~~~~l~~lgl  160 (496)
                      ..+  .++.++.++++++|+
T Consensus       398 ~~~--~L~g~l~~f~~~~g~  415 (501)
T PRK04172        398 SFR--HLLGILKEFYKRLGF  415 (501)
T ss_pred             CHH--HHHHHHHHHHHHHCC
T ss_conf             799--999999999998588


No 70 
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=98.38  E-value=2.7e-06  Score=60.05  Aligned_cols=99  Identities=25%  Similarity=0.393  Sum_probs=62.5

Q ss_pred             HHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHHCCC
Q ss_conf             99999999999999859848016520228875202675543332216898699988999888838999999951120554
Q gi|254780928|r   25 IRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDTIVF  104 (496)
Q Consensus        25 ~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~~~~  104 (496)
                      +|.++...+|+.|..+||.||+||+|      .++.+++..  .-+.-..-..|.-.+|+=  .+++-.-..+- ...  
T Consensus       158 ~Rskv~~~iR~~l~~~gF~EVETP~L------~~stpEGAr--dflvPsr~~~~~fyaLpQ--SPQlyKQlLMv-gG~--  224 (706)
T PRK12820        158 KRHRIIKCARDFLDSRGFLEIETPIL------TKSTPEGAR--DYLVPSRIHPKEFYALPQ--SPQLFKQLLMI-AGF--  224 (706)
T ss_pred             HHHHHHHHHHHHHHHCCCEEEECCEE------CCCCCCCCC--CCCCCEECCCCCEECCCC--CHHHHHHHHHH-CCC--
T ss_conf             99999999999998779889668704------456753245--750024458876500566--82999999986-286--


Q ss_pred             CHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHH
Q ss_conf             112331013330258764442111110001210
Q gi|254780928|r  105 PCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVG  137 (496)
Q Consensus       105 p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG  137 (496)
                       =|+|+|++|||+|....-|.-||+|+++|.-=
T Consensus       225 -dRyFqIarcFRdEd~r~dRqPEFTqlDiEmSF  256 (706)
T PRK12820        225 -ERYFQLARCFRDEDLRPNRQPEFTQLDIEASF  256 (706)
T ss_pred             -CEEEEEEEEECCCCCCCCCCCCEEEEEEEHHC
T ss_conf             -61799600112899998879834068742134


No 71 
>PRK06462 asparagine synthetase A; Reviewed
Probab=98.33  E-value=6e-06  Score=57.77  Aligned_cols=118  Identities=19%  Similarity=0.203  Sum_probs=71.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEE-ECCCCCEEEECCCCHHHHHHHHHHH
Q ss_conf             668999999999999999985984801652022887520267554333221689-8699988999888838999999951
Q gi|254780928|r   20 TKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSL-QDDDGQWISLRYDLTAPLARYVAEN   98 (496)
Q Consensus        20 p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f-~D~~g~~l~LRpDlT~~~aR~~~~~   98 (496)
                      -.-.++|..|...+++.|...||.||+||+|....    ..+.+.     .+.| .+--|..+.|+--.-.-.=|+++..
T Consensus        26 ~~ifriRs~i~~~iR~f~~~~gF~EV~TPiL~~~~----~~~~~~-----~~~~~~~~~~~~~~L~~Spql~lk~li~~g   96 (332)
T PRK06462         26 SLVLKIQSSILRYTREFLDGRGFVEVLPPIISPST----DPLMGD-----AKPASIDFYGVEYYLADSMIFHKQLMLRLL   96 (332)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCC----CCCCCC-----CCCCEEECCCCCEEECCCHHHHHHHHHHCC
T ss_conf             99999999999999999988899998797236778----876677-----601058448986331458699999998638


Q ss_pred             HHHCCCCHHHHHHHHHHCCCCCCCC---CCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHH
Q ss_conf             1205541123310133302587644---421111100012100002457889999999997
Q gi|254780928|r   99 FDTIVFPCRTYRIGPVFRNEKHGPG---RFRQFIQCDVDNVGSSAETADAEMCMMMADTLE  156 (496)
Q Consensus        99 ~~~~~~p~k~yy~g~vfR~e~p~~G---r~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~  156 (496)
                           + -|.|++|++||.|...+.   |.-||+++.++....+  ..  +++.++-+.++
T Consensus        97 -----~-~rVfeIg~~FR~E~~d~~t~rHlpEFt~lE~y~a~~d--~~--d~m~~~E~li~  147 (332)
T PRK06462         97 -----K-GKVFYLSPNFRLEPVDKDTGRHLYEFTQLDIEIEGAD--LE--EVMSLAEDLIK  147 (332)
T ss_pred             -----C-CCEEEECCHHHCCCCCCCCCCCCHHHHHHHHHHHHCC--HH--HHHHHHHHHHH
T ss_conf             -----9-9779974523168777677765457776558787389--99--99999999999


No 72 
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=98.28  E-value=7.8e-06  Score=57.07  Aligned_cols=101  Identities=25%  Similarity=0.325  Sum_probs=62.7

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEE-CCCCCEEEECCCCHHHH--HHHHHHH
Q ss_conf             89999999999999999859848016520228875202675543332216898-69998899988883899--9999951
Q gi|254780928|r   22 EIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQ-DDDGQWISLRYDLTAPL--ARYVAEN   98 (496)
Q Consensus        22 ~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~-D~~g~~l~LRpDlT~~~--aR~~~~~   98 (496)
                      -.++|.+|...+|+.|...||.||+||+|...    . +|....    -|.+. +.-+..+.||=  .+++  -|.++..
T Consensus       183 ~~~~Rs~ii~~iR~~l~~~gF~EVeTPil~~~----~-gGa~Ar----pf~t~~~~~~~~~yL~q--SPQLykk~LmvgG  251 (505)
T PRK12445        183 TFVVRSKILAAIRQFMVARGFMEVETPMMQVI----P-GGASAR----PFITHHNALDLDMYLRI--APELYLKRLVVGG  251 (505)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCEEEECCCCCCC----C-CCCCCC----EEEECCCCCCCCEEECC--CCHHHHHHHHHCC
T ss_conf             99999999999999999779389978875554----5-876661----03304667886743416--9399999998579


Q ss_pred             HHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCC
Q ss_conf             12055411233101333025876444211111000121000
Q gi|254780928|r   99 FDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSS  139 (496)
Q Consensus        99 ~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~  139 (496)
                           + -|.|+||+|||+|....-|.-||||+++|.-..+
T Consensus       252 -----f-dRvfeI~r~FRnE~~~~~H~PEFT~lE~e~af~d  286 (505)
T PRK12445        252 -----F-ERVFEINRNFRNEGISVRHNPEFTMMELYMAYAD  286 (505)
T ss_pred             -----C-CCEEEHHHHHHCCCCCCCCCHHHHHHHHHHHCCC
T ss_conf             -----7-4457627876078888665444543568763278


No 73 
>cd00669 Asp_Lys_Asn_RS_core Asp_Lys_Asn_tRNA synthetase class II core domain. This domain is the core catalytic domain of class II aminoacyl-tRNA synthetases of the subgroup containing aspartyl, lysyl, and asparaginyl tRNA synthetases. It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. Nearly all class II tRNA synthetases are dimers and enzymes in this subgroup are homodimers. These enzymes attach a specific amino acid to the 3' OH group of ribose of the appropriate tRNA.
Probab=98.28  E-value=8e-06  Score=56.98  Aligned_cols=112  Identities=21%  Similarity=0.346  Sum_probs=69.8

Q ss_pred             HHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECC-CCCEEEECCCCHHHHH--HHHHHHHH
Q ss_conf             99999999999999985984801652022887520267554333221689869-9988999888838999--99995112
Q gi|254780928|r   24 RIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDD-DGQWISLRYDLTAPLA--RYVAENFD  100 (496)
Q Consensus        24 ~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~-~g~~l~LRpDlT~~~a--R~~~~~~~  100 (496)
                      ++|..+...+++.|...||.||+||+|....      +++   ..+.|.+.-. .|....|+--  +.+.  |.++..  
T Consensus         2 r~Rs~i~~~iR~ff~~~~f~EV~TP~l~~~~------~~~---~~~~f~~~~~~~~~~~~L~~S--pel~~k~ll~~g--   68 (269)
T cd00669           2 KVRSKIIKAIRDFMDDRGFLEVETPMLQKIT------GGA---GARPFLVKYNALGLDYYLRIS--PQLFKKRLMVGG--   68 (269)
T ss_pred             CHHHHHHHHHHHHHHHCCCEEEECCEEECCC------CCC---CCCEEEEECCCCCCEEEECCC--HHHHHHHHHHCC--
T ss_conf             1699999999999998898998798530578------987---674257313789940773438--899999998658--


Q ss_pred             HCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHH
Q ss_conf             05541123310133302587644421111100012100002457889999999997
Q gi|254780928|r  101 TIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLE  156 (496)
Q Consensus       101 ~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~  156 (496)
                         . -|.|++|++||.|..+.=|.-||++..++..+.+  .  -+++.++-+.+.
T Consensus        69 ---~-~~if~i~~~FR~e~~~~rH~~EFtmlE~y~~~~d--~--~~~m~~~e~li~  116 (269)
T cd00669          69 ---L-DRVFEINRNFRNEDLRARHQPEFTMMDLEMAFAD--Y--EDVIELTERLVR  116 (269)
T ss_pred             ---C-CCEEEEECCCCCCCCCCCCCHHHHHHHHHCCCCC--H--HHHHHHHHHHHH
T ss_conf             ---8-8679984621078986554348775787514899--9--999999999999


No 74 
>COG2269 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=98.26  E-value=8.8e-05  Score=50.22  Aligned_cols=141  Identities=20%  Similarity=0.241  Sum_probs=76.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCC---CCEEEECCCCHHHHHHHHH
Q ss_conf             6689999999999999999859848016520228875202675543332216898699---9889998888389999999
Q gi|254780928|r   20 TKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDD---GQWISLRYDLTAPLARYVA   96 (496)
Q Consensus        20 p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~---g~~l~LRpDlT~~~aR~~~   96 (496)
                      -+....|.+|...++..|..+||-||+||++..      ......+...---.|..++   +..+-|.+-=-...-|.++
T Consensus        13 ~~~ll~Ra~i~~~iR~FF~erg~lEVeTp~Ls~------a~vtd~hL~~F~Te~~~~~~~~~~~l~L~TSPEy~mKrLLA   86 (322)
T COG2269          13 IDNLLKRAAIIAAIRRFFAERGVLEVETPALSV------APVTDIHLHPFETEFLGPGGAKGKPLWLHTSPEYHMKRLLA   86 (322)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCEEECCHHHHC------CCCCCCCEEEEEEEEECCCCCCCCEEEEECCCHHHHHHHHH
T ss_conf             899998999999999999876925853367650------78986423445667654676665303665680777899997


Q ss_pred             HHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCC-----CCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCEEECCC
Q ss_conf             51120554112331013330258764442111-----1100012100002457889999999997518887771130366
Q gi|254780928|r   97 ENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQF-----IQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDYHIGINN  171 (496)
Q Consensus        97 ~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf-----~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~~~I~in~  171 (496)
                      ...      -+.|++|+|||++.-+.=|--||     |+.++|.--   ...  |+=.+...+++.-+..         .
T Consensus        87 ag~------~~ifql~kvfRN~E~G~~H~PEFTMLEWYrv~~d~~~---lm~--e~~~Ll~~vl~~~~~E---------~  146 (322)
T COG2269          87 AGS------GPIFQLGKVFRNEEMGRLHNPEFTMLEWYRVGCDYYR---LMN--EVDDLLQLVLECVEAE---------R  146 (322)
T ss_pred             CCC------CCCHHHHHHHHCCCCCCCCCCCEEEEEEECCCCCHHH---HHH--HHHHHHHHHHHCCCCC---------E
T ss_conf             548------8601454777263325667984367651006785999---999--9999999997037853---------5


Q ss_pred             CHHHHHHHHHHCCCH
Q ss_conf             055899999832560
Q gi|254780928|r  172 RKILDGILEKIGLHG  186 (496)
Q Consensus       172 ~~il~~il~~lgi~~  186 (496)
                      ...-+++++.+|+..
T Consensus       147 ls~~eaF~r~~gid~  161 (322)
T COG2269         147 LSYQEAFLRYLGIDP  161 (322)
T ss_pred             EEHHHHHHHHHCCCC
T ss_conf             559999999838894


No 75 
>KOG1885 consensus
Probab=98.24  E-value=0.00012  Score=49.33  Aligned_cols=99  Identities=26%  Similarity=0.376  Sum_probs=55.3

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHH
Q ss_conf             89999999999999999859848016520228875202675543332216898699988999888838999999951120
Q gi|254780928|r   22 EIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDT  101 (496)
Q Consensus        22 ~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~  101 (496)
                      -..+|.+|++-+|+.+...||-||+||++..     ..+|....   --.+....-+..|.||=-=-.=+-+.++...  
T Consensus       224 ~f~~RakII~~iRkfld~rgFlEVETPmmn~-----iaGGA~Ak---PFIT~hndldm~LylRiAPEL~lK~LvVGGl--  293 (560)
T KOG1885         224 RFRIRAKIISYIRKFLDSRGFLEVETPMMNM-----IAGGATAK---PFITHHNDLDMDLYLRIAPELYLKMLVVGGL--  293 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCEEECCHHHCC-----CCCCCCCC---CEEECCCCCCCCEEEEECHHHHHHHHHHCCH--
T ss_conf             9999999999999986544956844465525-----46863257---6043145567551456365999998986017--


Q ss_pred             CCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHH
Q ss_conf             554112331013330258764442111110001
Q gi|254780928|r  102 IVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVD  134 (496)
Q Consensus       102 ~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~e  134 (496)
                          -|.|.||+.||+|--..-|--||+-|-|-
T Consensus       294 ----drVYEIGr~FRNEGIDlTHNPEFTTcEfY  322 (560)
T KOG1885         294 ----DRVYEIGRQFRNEGIDLTHNPEFTTCEFY  322 (560)
T ss_pred             ----HHHHHHHHHHHHCCCCCCCCCCCCHHHHH
T ss_conf             ----89999878763057665458774218999


No 76 
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=98.24  E-value=8.4e-06  Score=56.83  Aligned_cols=112  Identities=23%  Similarity=0.330  Sum_probs=65.4

Q ss_pred             HHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECC--CCHHHHHHHHHHHHH
Q ss_conf             999999999999999985984801652022887520267554333221689869998899988--883899999995112
Q gi|254780928|r   23 IRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRY--DLTAPLARYVAENFD  100 (496)
Q Consensus        23 ~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRp--DlT~~~aR~~~~~~~  100 (496)
                      .++|..|...+++.|..+||.||+||+|-....   .+|.      +.|.+. .-|+...||=  ++-  .-|+++..  
T Consensus       137 ~r~Rs~i~~~iR~fl~~~gF~EVeTP~l~~~~~---eGga------~~f~~~-~~~~~~yL~~Spqly--~q~li~~G--  202 (434)
T PRK05159        137 FKIRSEVLRAFREFLYEEGFTEIFTPKIVATGT---EGGT------ELFPVK-YFEKEAFLAQSPQLY--KQMMMAAG--  202 (434)
T ss_pred             HHHHHHHHHHHHHHHHHCCCEEEECCCCCCCCC---CCCC------CCCCEE-ECCCEEEECCCCHHH--HHHHHHCC--
T ss_conf             999999999999999877919997874325678---8755------658613-127533414683799--99987635--


Q ss_pred             HCCCCHHHHHHHHHHCCCCCCCC-CCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHH
Q ss_conf             05541123310133302587644-421111100012100002457889999999997
Q gi|254780928|r  101 TIVFPCRTYRIGPVFRNEKHGPG-RFRQFIQCDVDNVGSSAETADAEMCMMMADTLE  156 (496)
Q Consensus       101 ~~~~p~k~yy~g~vfR~e~p~~G-r~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~  156 (496)
                         + -|.|++|++||+|..... |.-||+|+++|.-..+-    -+++.++-+.+.
T Consensus       203 ---~-~rvfeI~~~FR~E~~~t~RH~pEFT~lE~e~af~d~----~d~m~~~E~li~  251 (434)
T PRK05159        203 ---F-ERVFEIGPAFRAEEHNTTRHLNEAISIDVEMGFIDE----EDVMDLLENLLK  251 (434)
T ss_pred             ---C-CCEEEECCCEECCCCCCCCCHHHHHHHHHHHCCCCH----HHHHHHHHHHHH
T ss_conf             ---6-855996601023658754453567656666310689----999999999999


No 77 
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=98.24  E-value=2e-05  Score=54.41  Aligned_cols=145  Identities=23%  Similarity=0.320  Sum_probs=75.9

Q ss_pred             HHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHHCC
Q ss_conf             99999999999999985984801652022887520267554333221689869998899988883899999995112055
Q gi|254780928|r   24 RIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDTIV  103 (496)
Q Consensus        24 ~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~~~  103 (496)
                      ..|-+|.+.+++.+...||-||+||++...-     +|....+=   .+...-=+..+.||=---.-+-|.++...    
T Consensus       181 ~~Rs~ii~~iR~fl~~~gFlEVETP~lq~i~-----GGA~ArPF---~ThhNald~dlyLRIApELyLKRliVGG~----  248 (502)
T COG1190         181 IKRSKIIRAIREFLDDRGFLEVETPMLQPIP-----GGAAARPF---ITHHNALDMDLYLRIAPELYLKRLIVGGF----  248 (502)
T ss_pred             HHHHHHHHHHHHHHHHCCCEEECCCCCCCCC-----CCCCCCCC---EEEECCCCCCEEEEECCHHHHHHHHHCCC----
T ss_conf             9999999999999987797584160003557-----87322650---12202367756876241899998875372----


Q ss_pred             CCHHHHHHHHHHCCCCCCCCCC-----CCCCCCCHHHHHCCCHHHHHHHHHHHHHHHH-HCCCCCCCCEEECCC----CH
Q ss_conf             4112331013330258764442-----1111100012100002457889999999997-518887771130366----05
Q gi|254780928|r  104 FPCRTYRIGPVFRNEKHGPGRF-----RQFIQCDVDNVGSSAETADAEMCMMMADTLE-AVGIKRNDYHIGINN----RK  173 (496)
Q Consensus       104 ~p~k~yy~g~vfR~e~p~~Gr~-----REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~-~lgl~~~~~~I~in~----~~  173 (496)
                        -|.|.+|++||+|--..-|-     -|+||+=+|.=  +-..--.++++.++..+. ...++-+...|.++-    ..
T Consensus       249 --erVfEIgr~FRNEGid~tHNPEFTmlE~Y~AYaDy~--D~m~ltE~Li~~~a~~v~gt~~v~y~~~~id~~~pf~ri~  324 (502)
T COG1190         249 --ERVFEIGRNFRNEGIDTTHNPEFTMLEFYQAYADYE--DLMDLTEELIKELAKEVNGTTKVTYGGQEIDFSKPFKRIT  324 (502)
T ss_pred             --HHHEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHCCCEEEEECCEEEECCCCEEEEE
T ss_conf             --142230552003787666484235689999985799--9999999999999999549737878997675489722566


Q ss_pred             HHHHHHHHHCC
Q ss_conf             58999998325
Q gi|254780928|r  174 ILDGILEKIGL  184 (496)
Q Consensus       174 il~~il~~lgi  184 (496)
                      +.+++.+..|+
T Consensus       325 m~dal~e~~g~  335 (502)
T COG1190         325 MVDALKEYLGV  335 (502)
T ss_pred             HHHHHHHHHCC
T ss_conf             48999987186


No 78 
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=98.20  E-value=8.9e-06  Score=56.66  Aligned_cols=96  Identities=24%  Similarity=0.334  Sum_probs=61.3

Q ss_pred             HHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECC----CCCEEEECCCCHHHHHHHHHHHHH
Q ss_conf             9999999999999985984801652022887520267554333221689869----998899988883899999995112
Q gi|254780928|r   25 IRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDD----DGQWISLRYDLTAPLARYVAENFD  100 (496)
Q Consensus        25 ~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~----~g~~l~LRpDlT~~~aR~~~~~~~  100 (496)
                      +|.+|...+++.+..+||.||+||+|...     .+|++.+.      |..+    .+. +.||=---.-.-|.++... 
T Consensus       778 ~RS~Vi~aiR~~L~~~GFlEVETPiLq~~-----~GGA~ARP------FlThsna~d~~-~YLriAPELflKRLmVGGf-  844 (1099)
T PRK02983        778 ARSAVLRAVRETLVAKGFLEVETPILQQI-----HGGANARP------FLTHINAYDLD-LYLRIAPELYLKRLCVGGV-  844 (1099)
T ss_pred             HHHHHHHHHHHHHHHCCCEEEECCCCCCC-----CCCCCCCC------CCCCCCCCCCC-CEEECCHHHHHHHHHHCCC-
T ss_conf             99999999999998789889557546778-----88756785------30103367866-1451480899999986486-


Q ss_pred             HCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHC
Q ss_conf             05541123310133302587644421111100012100
Q gi|254780928|r  101 TIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGS  138 (496)
Q Consensus       101 ~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~  138 (496)
                           -|.|+|+++||+|....-|.-||+|+.++.-..
T Consensus       845 -----eRVFEI~RcFRNEglradHnPEFTmLE~Y~Ay~  877 (1099)
T PRK02983        845 -----ERVFELGRAFRNEGVDFSHNPEFTLLEAYQAHA  877 (1099)
T ss_pred             -----CCCEEECCCCCCCCCCCCCCCCHHHHHHHHHHC
T ss_conf             -----311343254467999987494079999999847


No 79 
>COG0016 PheS Phenylalanyl-tRNA synthetase alpha subunit [Translation, ribosomal structure and biogenesis]
Probab=98.14  E-value=3.4e-05  Score=52.88  Aligned_cols=144  Identities=22%  Similarity=0.336  Sum_probs=89.9

Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHH-HHHCCCCCCCCCCCC---EEEEECCCCCEEE
Q ss_conf             710379987658866899999999999999998598480165202288-752026755433322---1689869998899
Q gi|254780928|r    7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSD-SLGKFLPDEDRPNKG---VFSLQDDDGQWIS   82 (496)
Q Consensus         7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~-~~~~~~~~~~~~~k~---~y~f~D~~g~~l~   82 (496)
                      ..+.+| |. ...+....-...+.+.++++|..-||++++.|.+|.-- -|-.-.-..+++.++   .|-+.+... .+.
T Consensus        96 ~dv~lp-~~-~~~~G~~Hpl~~~~e~i~~iF~~mGF~~~~gp~IE~d~~NFDaLn~P~dHPARdmqDTFy~~~~~~-~~l  172 (335)
T COG0016          96 IDVTLP-GR-RIYPGSLHPLTQTIEEIEDIFLGMGFTEVEGPEIETDFYNFDALNIPQDHPARDMQDTFYLKDDRE-KLL  172 (335)
T ss_pred             CCCCCC-CC-CCCCCCCCHHHHHHHHHHHHHHHCCCEECCCCCCCCCCCCHHHHCCCCCCCCCCCCCEEEECCCCC-CEE
T ss_conf             775788-86-677898670899999999999974966645882132022524324999998412444378768877-300


Q ss_pred             ECCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHC
Q ss_conf             9888838999999951120554112331013330258764442111110001210000245788999999999751
Q gi|254780928|r   83 LRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAV  158 (496)
Q Consensus        83 LRpDlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~l  158 (496)
                      ||-.-|+--+|+...+..   .|+|.+..|+|||+|....-|.-+|+|+.-=+++..-..+  .+..++.++++.+
T Consensus       173 LRTHTs~vq~R~l~~~~~---~P~k~~~~grvyR~D~~DaTHs~~FhQiEGlvvd~~~s~~--~Lkg~L~~f~~~~  243 (335)
T COG0016         173 LRTHTSPVQARTLAENAK---IPIKIFSPGRVYRNDTVDATHSPEFHQIEGLVVDKNISFA--DLKGTLEEFAKKF  243 (335)
T ss_pred             ECCCCCHHHHHHHHHCCC---CCCEEECCCCEECCCCCCCCCCHHEEEEEEEEEECCCCHH--HHHHHHHHHHHHH
T ss_conf             236682765999984799---9915845663411788776426101336789995895699--9999999999996


No 80 
>PRK00476 aspS aspartyl-tRNA synthetase; Validated
Probab=98.13  E-value=1.6e-05  Score=55.04  Aligned_cols=96  Identities=29%  Similarity=0.546  Sum_probs=59.4

Q ss_pred             HHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEE--EECCCCCEEEECCCCHHHH-HHHH-HHH
Q ss_conf             99999999999999998598480165202288752026755433322168--9869998899988883899-9999-951
Q gi|254780928|r   23 IRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFS--LQDDDGQWISLRYDLTAPL-ARYV-AEN   98 (496)
Q Consensus        23 ~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~--f~D~~g~~l~LRpDlT~~~-aR~~-~~~   98 (496)
                      .++|.++...+++.|...||.||+||+|-      ++.+++..   . |-  .....|.-.+|+-  .+++ .+++ +. 
T Consensus       142 fr~Rs~i~~~iR~fl~~~gFiEVeTPiL~------~s~~eGA~---~-F~vpsr~~~~~fyaL~q--SPQLykq~L~vg-  208 (587)
T PRK00476        142 LKLRSKVTSAIRNFLDDNGFLEIETPILT------KSTPEGAR---D-YLVPSRVHPGKFYALPQ--SPQLFKQLLMVA-  208 (587)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCEECCCCCC------CCCCCCCC---C-CCCCCCCCCCCEECCCC--CHHHHHHHHHHC-
T ss_conf             99999999999999997597400475432------56866664---4-30131057885513567--979999998851-


Q ss_pred             HHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHH
Q ss_conf             12055411233101333025876444211111000121
Q gi|254780928|r   99 FDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNV  136 (496)
Q Consensus        99 ~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eii  136 (496)
                        .  . -|.|.+|++||+|....-|.-||||+++|.-
T Consensus       209 --G--~-erVyeig~~FRnE~~~t~r~pEFt~lE~E~a  241 (587)
T PRK00476        209 --G--F-DRYYQIARCFRDEDLRADRQPEFTQIDIEMS  241 (587)
T ss_pred             --C--C-CEEEEECCCCCCCCCCCCCCCHHHEEEHHHH
T ss_conf             --7--5-5279964312388887666823423111111


No 81 
>KOG2411 consensus
Probab=98.07  E-value=4.2e-05  Score=52.31  Aligned_cols=116  Identities=22%  Similarity=0.365  Sum_probs=69.3

Q ss_pred             HHHHHHHHHHHHHHH-HHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHH
Q ss_conf             999999999999999-9859848016520228875202675543332216898699988999888838999999951120
Q gi|254780928|r   23 IRIRNRILDSIRNIY-ENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDT  101 (496)
Q Consensus        23 ~~~~~~i~~~l~~~f-~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~  101 (496)
                      .++|..+...+++.| .+|||.+|+||+|     |.+.-|.. .  +-+.---.+.|.-.+|+ -.--++-.++ +  ..
T Consensus       178 LrlRS~~v~~iR~yl~n~~GFvevETPtL-----FkrTPgGA-~--EFvVPtr~~~g~FYaLp-QSPQQfKQlL-M--vs  245 (628)
T KOG2411         178 LRLRSNVVKKIRRYLNNRHGFVEVETPTL-----FKRTPGGA-R--EFVVPTRTPRGKFYALP-QSPQQFKQLL-M--VS  245 (628)
T ss_pred             HHHHHHHHHHHHHHHHHHCCEEECCCCCH-----HCCCCCCC-C--EEECCCCCCCCCEEECC-CCHHHHHHHH-H--HH
T ss_conf             99999999999999861047355157202-----01488864-1--23223678988555368-8989999999-8--72


Q ss_pred             CCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHH
Q ss_conf             5541123310133302587644421111100012100002457889999999997
Q gi|254780928|r  102 IVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLE  156 (496)
Q Consensus       102 ~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~  156 (496)
                      .  --|+|++.+|||+|....-|.-||+|+|+|+--.+.    -+|++++-+.+.
T Consensus       246 G--idrYyQiARCfRDEdlR~DRQPEFTQvD~EMsF~~~----~dim~liEdll~  294 (628)
T KOG2411         246 G--IDRYYQIARCFRDEDLRADRQPEFTQVDMEMSFTDQ----EDIMKLIEDLLR  294 (628)
T ss_pred             C--HHHHHHHHHHHCCCCCCCCCCCCCEEEEEEEECCCH----HHHHHHHHHHHH
T ss_conf             3--036776776641345676568764354447853677----878999999999


No 82 
>cd00777 AspRS_core Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the appropriate tRNA. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. AspRS in this family differ from those found in the AsxRS family by a GAD insert in the core domain.
Probab=98.07  E-value=1.9e-05  Score=54.49  Aligned_cols=99  Identities=28%  Similarity=0.444  Sum_probs=61.1

Q ss_pred             HHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHH---HHHHHHHHH
Q ss_conf             99999999999999985984801652022887520267554333221689869998899988883899---999995112
Q gi|254780928|r   24 RIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPL---ARYVAENFD  100 (496)
Q Consensus        24 ~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~---aR~~~~~~~  100 (496)
                      ++|..|...+++.|...||.||+||+|...+    ..|..+.    ........|....|+-   .|-   -|.++..  
T Consensus         2 r~Rs~i~~~iR~ff~~~gflEV~TPiL~~~~----~ega~~f----~~~~~~~~~~~~~L~~---Spel~~k~l~~~g--   68 (280)
T cd00777           2 RLRSRVIKAIRNFLDEQGFVEIETPILTKST----PEGARDF----LVPSRLHPGKFYALPQ---SPQLFKQLLMVSG--   68 (280)
T ss_pred             CHHHHHHHHHHHHHHHCCCEEEECCCCCCCC----CCCCCCC----EECCCCCCCCCCCCCC---CHHHHHHHHHHCC--
T ss_conf             6699999999999998898998798106878----7767664----4244168876036887---9899999998568--


Q ss_pred             HCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCC
Q ss_conf             055411233101333025876444211111000121000
Q gi|254780928|r  101 TIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSS  139 (496)
Q Consensus       101 ~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~  139 (496)
                         . -|.|++|++||.|....-|--||+++.++....+
T Consensus        69 ---~-~rvf~i~~~FR~E~~~~~h~~EFtmLE~e~~~~~  103 (280)
T cd00777          69 ---F-DRYFQIARCFRDEDLRADRQPEFTQIDIEMSFVD  103 (280)
T ss_pred             ---C-CCCEEEECEECCCCCCCCCCHHHHHHHHHCCCCC
T ss_conf             ---7-7757984517478888766347762344226888


No 83 
>PTZ00326 phenylalanyl-tRNA synthetase; Provisional
Probab=98.07  E-value=2.6e-05  Score=53.66  Aligned_cols=132  Identities=21%  Similarity=0.350  Sum_probs=74.1

Q ss_pred             HHHHHHHHHHHHHHHHCCCEEEECCC-HH--H--HHHHHCCCCCCCCCCCC---EEEEECCC------------------
Q ss_conf             99999999999999985984801652-02--2--88752026755433322---16898699------------------
Q gi|254780928|r   24 RIRNRILDSIRNIYENYGFDPIETPL-LE--Y--SDSLGKFLPDEDRPNKG---VFSLQDDD------------------   77 (496)
Q Consensus        24 ~~~~~i~~~l~~~f~~~G~~~I~tP~-lE--~--~~~~~~~~~~~~~~~k~---~y~f~D~~------------------   77 (496)
                      .-..++.+.++++|-.-||+|+.+|- +|  +  .|.|   ....+++.++   .|-+.++.                  
T Consensus       242 hp~~~~~~~~r~if~~mGF~E~~~~~~ves~fwNfDaL---f~Pq~HPARd~~DTF~l~~p~~~~~~~~~~~~~Vk~vHe  318 (505)
T PTZ00326        242 HPLLKVRQEFREIFMEMGFEEMPTNRWVESSFWNFDAL---FIPQQHPARDLQDTFFLSKPETSKFLDAEYVERVKAVHS  318 (505)
T ss_pred             CHHHHHHHHHHHHHHHCCCEECCCCCEEEECCCCCHHH---CCCCCCCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHHC
T ss_conf             88999999999999977976766897133132131110---489899866523347744754245687899998888850


Q ss_pred             -----------------CCEEEECCCCHHHHHHHHHH---HHH--HCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHH
Q ss_conf             -----------------98899988883899999995---112--05541123310133302587644421111100012
Q gi|254780928|r   78 -----------------GQWISLRYDLTAPLARYVAE---NFD--TIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDN  135 (496)
Q Consensus        78 -----------------g~~l~LRpDlT~~~aR~~~~---~~~--~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~ei  135 (496)
                                       .+.+.||---|+--+|++..   +..  ....|.|.|.+|+|||+|....-|.-||+|+.-=+
T Consensus       319 ~G~~gs~Gw~y~W~~~~a~~~~LRthTt~vs~r~l~~~~~~~~~~~~~~P~k~fsi~rv~R~e~~d~th~~~f~Q~eg~~  398 (505)
T PTZ00326        319 GGGYGSIGWQYNWKLEEARKNVLRTHTTAVSARMLYKLAQQYQKGKGFKPKKYFSIDRVFRNETLDATHLAEFHQVEGVV  398 (505)
T ss_pred             CCCCCCCCCCCCCCHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCEEEECCCEEECCCCCCCCCCEEEEEEEEE
T ss_conf             68878887677879778752063657753769999987540465568898147523726415777765340455435789


Q ss_pred             HHCCCHHHHHHHHHHHHHHHHHCCC
Q ss_conf             1000024578899999999975188
Q gi|254780928|r  136 VGSSAETADAEMCMMMADTLEAVGI  160 (496)
Q Consensus       136 iG~~~~~~DaEii~l~~~~l~~lgl  160 (496)
                      ++..-..+  .++.++.++++++|.
T Consensus       399 ~~~~~~~~--~l~~~l~~f~~~~g~  421 (505)
T PTZ00326        399 IDRNLSLG--DLMGTLREFFRRIGI  421 (505)
T ss_pred             ECCCCCHH--HHHHHHHHHHHHHCC
T ss_conf             64888899--999999999998498


No 84 
>PRK06253 O-phosphoseryl-tRNA synthetase; Reviewed
Probab=98.01  E-value=4.4e-06  Score=58.65  Aligned_cols=82  Identities=15%  Similarity=0.267  Sum_probs=60.9

Q ss_pred             CCEEEECCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCC-CCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHH
Q ss_conf             9889998888389999999511205541123310133302587-644421111100012100002457889999999997
Q gi|254780928|r   78 GQWISLRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKH-GPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLE  156 (496)
Q Consensus        78 g~~l~LRpDlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p-~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~  156 (496)
                      -+.+.||.-+|.+.-..++.-....+.|+|+|.+.+|||+|+- ..-|.++|+|+.+=+.|.+-...  ....++-..|+
T Consensus       179 s~~~tLRSHmTsgwfitL~~l~~k~~~P~klFSIDRcFRrEq~eD~~hL~~yhsascvv~~edVn~d--~gkav~~~lL~  256 (527)
T PRK06253        179 SSRLTLRSHMTSGWFITLSALWERKPLPFKLFSIDRCFRREQKEDASRLMTYHSASCVVAGEDVTVD--DGKAVAEGLLS  256 (527)
T ss_pred             CCCCEEHHCCCCHHHHHHHHHHHCCCCCEEEEEEEHEEECHHHCCHHHHHHHHEEEEEEECCCCCHH--HHHHHHHHHHH
T ss_conf             4453410010302788799997267998368741010220000245563454432269975986677--77999999999


Q ss_pred             HCCCC
Q ss_conf             51888
Q gi|254780928|r  157 AVGIK  161 (496)
Q Consensus       157 ~lgl~  161 (496)
                      .||++
T Consensus       257 ~fGF~  261 (527)
T PRK06253        257 QFGFT  261 (527)
T ss_pred             HHCCC
T ss_conf             70975


No 85 
>PRK03932 asnC asparaginyl-tRNA synthetase; Validated
Probab=97.86  E-value=6.7e-05  Score=50.99  Aligned_cols=112  Identities=22%  Similarity=0.398  Sum_probs=62.0

Q ss_pred             HHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCC------------------CCEEEECC
Q ss_conf             999999999999999859848016520228875202675543332216898699------------------98899988
Q gi|254780928|r   24 RIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDD------------------GQWISLRY   85 (496)
Q Consensus        24 ~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~------------------g~~l~LRp   85 (496)
                      ++|..|...+|+.|...||.||+||+|-...      +++.   .++|.....+                  |+...|| 
T Consensus       136 r~RS~i~~~iR~~l~~~~F~EVeTP~L~~~~------~eGa---a~~F~v~~~~~~~~~~~~~~~~~~~~yf~~~~yL~-  205 (462)
T PRK03932        136 RVRNTLAQAIHEFFQENGFVWVHTPIITASD------CEGA---GELFRVTTLDLENLPRTDGKVDFSKDFFGKEAFLT-  205 (462)
T ss_pred             HHHHHHHHHHHHHHHHCCCEEEECCCCCCCC------CCCC---CCCEEECCCCCCCCCCCCCCCCCHHHHCCCCCCCC-
T ss_conf             9999999999999976796799788653568------7645---57404214543445433444331145427762026-


Q ss_pred             CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCC-CCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHH
Q ss_conf             88389999999511205541123310133302587644-42111110001210000245788999999999
Q gi|254780928|r   86 DLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPG-RFRQFIQCDVDNVGSSAETADAEMCMMMADTL  155 (496)
Q Consensus        86 DlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~G-r~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l  155 (496)
                         ++= -.+.+.+.. .+. |.|++|++||+|..... |.-||+|+++|.-..+  ..  +++.++-+++
T Consensus       206 ---~Sp-qLylq~li~-G~e-rVfeIg~~FRnE~~~t~RH~pEFT~lE~e~a~~d--~~--d~m~l~E~li  266 (462)
T PRK03932        206 ---VSG-QLYAEAYAM-ALS-KVYTFGPTFRAENSNTRRHLAEFWMIEPEMAFAD--LE--DNMDLAEDML  266 (462)
T ss_pred             ---CCH-HHHHHHHHH-HCC-CEEEEEHHHHHCCCCCCCCCCCCEEEEEEEECCC--HH--HHHHHHHHHH
T ss_conf             ---576-899999875-206-4899733232056775445430025553110068--99--9999999999


No 86 
>KOG2509 consensus
Probab=97.86  E-value=0.00013  Score=49.19  Aligned_cols=147  Identities=16%  Similarity=0.231  Sum_probs=101.3

Q ss_pred             CCCCCCC--CHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHH
Q ss_conf             9987658--86689999999999999999859848016520228875202675543332216898699988999888838
Q gi|254780928|r   12 PRGFADC--PTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTA   89 (496)
Q Consensus        12 P~G~~D~--~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~   89 (496)
                      ..|.|-|  .+..+.+.+.+.+--.+.....||.+|.||.+-..|+..+.+.... ...+.|.-.|.+ ...+|---.-.
T Consensus       172 vsG~r~Yyl~g~~a~LeqALi~yal~~l~~kGy~pl~~P~i~rkeVm~~cg~~~~-~d~~~~y~ld~~-~~~~LiaTaE~  249 (455)
T KOG2509         172 VSGHRGYYLKGAGAFLEQALINYALDFLNAKGYTPLTTPDILRKEVMQKCGQLPR-FDEEQYYVLDGG-DEKYLIATAEQ  249 (455)
T ss_pred             CCCCCCEEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCCCC-CCCCEEEEECCC-CCCEEEEECCC
T ss_conf             1466515875779999999999999999976982466814536999998565767-883217860688-64226762111


Q ss_pred             HHHHHHHHHH-HHCCCCHHHHHHHHHHCCCCC-----CCCCCC--CCCCCCHHHHHCCCHH----HHHHHHHHHHHHHHH
Q ss_conf             9999999511-205541123310133302587-----644421--1111000121000024----578899999999975
Q gi|254780928|r   90 PLARYVAENF-DTIVFPCRTYRIGPVFRNEKH-----GPGRFR--QFIQCDVDNVGSSAET----ADAEMCMMMADTLEA  157 (496)
Q Consensus        90 ~~aR~~~~~~-~~~~~p~k~yy~g~vfR~e~p-----~~Gr~R--Ef~Q~g~eiiG~~~~~----~DaEii~l~~~~l~~  157 (496)
                      |+|=+..... ....+|+|+.-..++||.|--     .+|-||  ||  --+|.|...++.    .=-|+|....+++++
T Consensus       250 plAa~~~~e~~~~~~lPiK~vg~S~CfR~EaGs~G~d~~GlyRVHqF--~KVE~Fvit~Pe~S~~~~eEmi~~~eef~qs  327 (455)
T KOG2509         250 PLAAYHRDEWLEEDQLPIKYVGVSRCFRAEAGSHGKDTKGLYRVHQF--EKVEQFVITGPEDSWEMLEEMINNQEEFYQS  327 (455)
T ss_pred             HHHHHHCCCCCCCCCCCEEEEEHHHHHHHHHHHCCCCCCCCEEEEEE--EEEEEEEECCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             06665036403611276013430378887760046545551466520--0257888658535699999999999999998


Q ss_pred             CCCCC
Q ss_conf             18887
Q gi|254780928|r  158 VGIKR  162 (496)
Q Consensus       158 lgl~~  162 (496)
                      |||+-
T Consensus       328 Lgip~  332 (455)
T KOG2509         328 LGLPY  332 (455)
T ss_pred             HCCCE
T ss_conf             09960


No 87 
>KOG0556 consensus
Probab=97.76  E-value=0.00033  Score=46.44  Aligned_cols=112  Identities=24%  Similarity=0.391  Sum_probs=66.0

Q ss_pred             HHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCC-CEEEECCCCHHHHHHHHHHHHHHC
Q ss_conf             9999999999999998598480165202288752026755433322168986999-889998888389999999511205
Q gi|254780928|r   24 RIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDG-QWISLRYDLTAPLARYVAENFDTI  102 (496)
Q Consensus        24 ~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g-~~l~LRpDlT~~~aR~~~~~~~~~  102 (496)
                      ++..-|+..+++.....||.+|.||-+     ....+..    ...+|+..-.++ .-|+=-|-+--+.|  ++.   + 
T Consensus       229 riq~gvc~~FRe~L~~kgF~EIhTpKl-----i~asSEG----GanvF~v~Yfk~~A~LAQSPQLyKQMa--I~g---d-  293 (533)
T KOG0556         229 RIQAGVCFAFREYLRSKGFVEIHTPKL-----IGASSEG----GANVFRVSYFKQKAYLAQSPQLYKQMA--ICG---D-  293 (533)
T ss_pred             EHHHHHHHHHHHHHHHCCCCEECCCCC-----CCCCCCC----CCEEEEEEECCCCCHHHCCHHHHHHHH--HHC---C-
T ss_conf             068889999999997568604326320-----1466777----722689986067503205858887788--760---6-


Q ss_pred             CCCHHHHHHHHHHCCCCCCCC-CCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHH
Q ss_conf             541123310133302587644-42111110001210000245788999999999
Q gi|254780928|r  103 VFPCRTYRIGPVFRNEKHGPG-RFRQFIQCDVDNVGSSAETADAEMCMMMADTL  155 (496)
Q Consensus       103 ~~p~k~yy~g~vfR~e~p~~G-r~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l  155 (496)
                       + -|.|.+|+|||.|...-- +.-||.-.|.|+-=...   --||+.++.+.|
T Consensus       294 -f-~rVyeIGpVfRAEdSnthRhltEFvGLD~EMaf~~h---YhEVm~~i~~lf  342 (533)
T KOG0556         294 -F-ERVYEIGPVFRAEDSNTHRHLTEFVGLDLEMAFNEH---YHEVMDTIGELF  342 (533)
T ss_pred             -H-HHEEEECCEEECCCCCHHHHHHHHHCCCHHHHHHHH---HHHHHHHHHHHH
T ss_conf             -1-104652355660446416666776174225477777---999999999999


No 88 
>PRK00488 pheS phenylalanyl-tRNA synthetase subunit alpha; Validated
Probab=97.72  E-value=0.00031  Score=46.69  Aligned_cols=110  Identities=21%  Similarity=0.295  Sum_probs=75.0

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHH-HHHCCCCCCCCCCCCEEE--EECCCCCEEEECCCCHHHHHHHHHHH
Q ss_conf             899999999999999998598480165202288-752026755433322168--98699988999888838999999951
Q gi|254780928|r   22 EIRIRNRILDSIRNIYENYGFDPIETPLLEYSD-SLGKFLPDEDRPNKGVFS--LQDDDGQWISLRYDLTAPLARYVAEN   98 (496)
Q Consensus        22 ~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~-~~~~~~~~~~~~~k~~y~--f~D~~g~~l~LRpDlT~~~aR~~~~~   98 (496)
                      ...--..+.+.+.++|...||+..+-|-+|..- -|..-.-..+++.+.|..  +.+   ....||.--|+--+|....+
T Consensus       105 ~~HPit~~~~ei~~iF~~~Gf~v~~GpeiE~~~~NFdaLn~P~~HPAR~~~DTFy~~---~~~lLRTHTS~~qir~m~~~  181 (338)
T PRK00488        105 GLHPLTRTIERIEDIFVGLGFEVAEGPEIEDDYYNFEALNIPKDHPARDMQDTFYID---DRLLLRTHTSPVQIRTMEKQ  181 (338)
T ss_pred             CCCHHHHHHHHHHHHHHHCCCEEECCCCEEEHHHHHHHHCCCCCCCCCCCCCEEEEC---CCCEECCCCCHHHHHHHHHC
T ss_conf             647699999999999998697696188310045468875699788543646628976---87134356878889999726


Q ss_pred             HHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHC
Q ss_conf             1205541123310133302587644421111100012100
Q gi|254780928|r   99 FDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGS  138 (496)
Q Consensus        99 ~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~  138 (496)
                          ..|+|....|+|||+|....-|.-+|+|+..=+++.
T Consensus       182 ----~pp~~~i~~GrvyR~d~~DatH~~~FhQ~Egl~vd~  217 (338)
T PRK00488        182 ----KPPIRIIAPGRVYRNDSDDATHSPMFHQVEGLVVDK  217 (338)
T ss_pred             ----CCCEEEEECCCCCCCCCCCCCCCEEEEEEEEEEEEC
T ss_conf             ----998699952663158999875350466400589717


No 89 
>cd00769 PheRS_beta_core Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA,  PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. PheRS is an alpha-2/ beta-2 tetramer. While the alpha chain contains a catalytic core domain, the beta chain has a non-catalytic core domain.
Probab=97.44  E-value=0.00038  Score=46.11  Aligned_cols=90  Identities=21%  Similarity=0.310  Sum_probs=66.6

Q ss_pred             HHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECC-CCCEEEECCCCHHHHHHHHHHHHHHCCC
Q ss_conf             999999999999985984801652022887520267554333221689869-9988999888838999999951120554
Q gi|254780928|r   26 RNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDD-DGQWISLRYDLTAPLARYVAENFDTIVF  104 (496)
Q Consensus        26 ~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~-~g~~l~LRpDlT~~~aR~~~~~~~~~~~  104 (496)
                      .+++++++++.+...||.|+.|-.|-..+.+......    .+...++..+ +.+.=.||+.+.+++...++.|......
T Consensus         2 ~~~l~~~ir~~L~~~Gf~Ev~t~s~~~~~~~~~~~~~----~~~~i~l~NPls~e~~~lR~sLlp~LL~~~~~N~~r~~~   77 (198)
T cd00769           2 LQKLERKLRRLLAGLGFQEVITYSLTSPEEAELFDGG----LDEAVELSNPLSEEYSVLRTSLLPGLLDALARNLNRKNK   77 (198)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHCCC----CCCEEEEECCCCHHHHHHHHHHHHHHHHHHHHHCCCCCC
T ss_conf             6799999999999789714130676898999872488----787389708865668898887799999999865056777


Q ss_pred             CHHHHHHHHHHCCCC
Q ss_conf             112331013330258
Q gi|254780928|r  105 PCRTYRIGPVFRNEK  119 (496)
Q Consensus       105 p~k~yy~g~vfR~e~  119 (496)
                      ++|+|.+|+||..+.
T Consensus        78 ~~~lFEiG~vy~~~~   92 (198)
T cd00769          78 PLRLFEIGRVFLKDE   92 (198)
T ss_pred             CCEEEEEEEEEECCC
T ss_conf             732899763896688


No 90 
>TIGR00414 serS seryl-tRNA synthetase; InterPro: IPR002317   The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases .   Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa .; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=96.84  E-value=0.0087  Score=37.27  Aligned_cols=151  Identities=16%  Similarity=0.235  Sum_probs=104.2

Q ss_pred             CCCCC--CCHHHHHHHHHHHHHHHHHH-HHCCCEEEECCCHHHHHHHHCCC--CCCCCCCCCEEEEECCCCCEEEECCCC
Q ss_conf             98765--88668999999999999999-98598480165202288752026--755433322168986999889998888
Q gi|254780928|r   13 RGFAD--CPTKEIRIRNRILDSIRNIY-ENYGFDPIETPLLEYSDSLGKFL--PDEDRPNKGVFSLQDDDGQWISLRYDL   87 (496)
Q Consensus        13 ~G~~D--~~p~~~~~~~~i~~~l~~~f-~~~G~~~I~tP~lE~~~~~~~~~--~~~~~~~k~~y~f~D~~g~~l~LRpDl   87 (496)
                      .|.+.  +....+.+.+.+.....+.. ..+||.++.+|.+-..+.+...+  ..-......+|...|..++.+.|-|-.
T Consensus       190 ~g~~~~~~~~~~~~~~~al~~~~l~~~~~~~g~~~~~~p~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~l~~t~  269 (460)
T TIGR00414       190 AGSRFYYLKGDGAKLERALINFMLDLLREKNGYSELYPPYLVNEELLDGTGFNPQLPKFEEDLFKLEDTDDEKLYLIPTA  269 (460)
T ss_pred             HCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEECCCHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCCCCEEEEEECC
T ss_conf             10101213213678999999999986443226401014035423443102456556530234432126777504652010


Q ss_pred             HHHHHHHHHHHHHH---CCCCHHHHHHHHHHCCCCCC-----CCCC--CCCCCCCHHHHHCC--CHHHHHHHHHHHHHHH
Q ss_conf             38999999951120---55411233101333025876-----4442--11111000121000--0245788999999999
Q gi|254780928|r   88 TAPLARYVAENFDT---IVFPCRTYRIGPVFRNEKHG-----PGRF--RQFIQCDVDNVGSS--AETADAEMCMMMADTL  155 (496)
Q Consensus        88 T~~~aR~~~~~~~~---~~~p~k~yy~g~vfR~e~p~-----~Gr~--REf~Q~g~eiiG~~--~~~~DaEii~l~~~~l  155 (496)
                      -+|++.+.......   ..+|++..-.+++||.|.-.     +|-+  .+|..+..-.+...  +...--+++..+.+++
T Consensus       270 e~~~~~~~~~~~~~~~~~~lp~~~~~~~~cfr~eag~~g~~~~g~~r~h~f~k~e~~~~~~p~~~~~~~~~~~~~~~~~~  349 (460)
T TIGR00414       270 EVPLTNLHRDEILDLPSEELPIKYTGYSPCFRSEAGSYGKDTKGLIRVHQFNKVELVKFCKPEESWEELEELLSDAEKIL  349 (460)
T ss_pred             HHHHHHHHHHHHCCCCCCCCCEEHCCCCHHHHHHCCCCCCCCHHHHHHHHCCCEEEEEEECCHHHHHHHHHHHHHHHHHH
T ss_conf             00122222000102652103400000220233321345541000121110031024566354014899999987899999


Q ss_pred             HHCCCCCC
Q ss_conf             75188877
Q gi|254780928|r  156 EAVGIKRN  163 (496)
Q Consensus       156 ~~lgl~~~  163 (496)
                      ..++++..
T Consensus       350 ~~l~~p~~  357 (460)
T TIGR00414       350 QELELPYR  357 (460)
T ss_pred             HHHCCCHH
T ss_conf             97437511


No 91 
>KOG0554 consensus
Probab=96.49  E-value=0.0047  Score=38.98  Aligned_cols=114  Identities=18%  Similarity=0.250  Sum_probs=70.0

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEE---CCCCCEEEECCCCHHHHHH
Q ss_conf             5886689999999999999999859848016520228875202675543332216898---6999889998888389999
Q gi|254780928|r   17 DCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQ---DDDGQWISLRYDLTAPLAR   93 (496)
Q Consensus        17 D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~---D~~g~~l~LRpDlT~~~aR   93 (496)
                      +.+..-+++|..+.-.....|..|+|..|.||+|-..|-    -|.     -|||+.+   |-++.-..=+-=||+|--=
T Consensus       126 ~~~~av~RvRs~~~~a~h~ffq~~~F~~i~tPiiTtnDC----EGa-----GE~F~Vtt~~d~~~~fFgrp~fLTVSgQL  196 (446)
T KOG0554         126 AKVGAVLRVRSALAFATHSFFQSHDFTYINTPIITTNDC----EGA-----GEVFQVTTLTDYSKDFFGRPAFLTVSGQL  196 (446)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCEEECCCEEECCCC----CCC-----CCEEEEEECCCCCCCCCCCCEEEEEECEE
T ss_conf             578999999989999999999875946733867634577----787-----40589874686543314885079971321


Q ss_pred             HHHHHHHHCCCCHHHHHHHHHHCCCCCCCC-CCCCCCCCCHHHHHCCCHH
Q ss_conf             999511205541123310133302587644-4211111000121000024
Q gi|254780928|r   94 YVAENFDTIVFPCRTYRIGPVFRNEKHGPG-RFRQFIQCDVDNVGSSAET  142 (496)
Q Consensus        94 ~~~~~~~~~~~p~k~yy~g~vfR~e~p~~G-r~REf~Q~g~eiiG~~~~~  142 (496)
                      .+......  + -|.|.+|+.||.|+.+.- +.-|||-.-+|+--.++..
T Consensus       197 hlEa~a~a--L-srvyt~gP~FRAE~s~t~rHLaEFwmlE~E~af~~sl~  243 (446)
T KOG0554         197 HLEAMACA--L-SRVYTFGPTFRAENSHTSRHLAEFWMLEAELAFAESLD  243 (446)
T ss_pred             HHHHHHHH--H-CCEEEECCCEECCCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             59988755--2-32376166132267875467765652427887888888


No 92 
>PRK00629 pheT phenylalanyl-tRNA synthetase subunit beta; Reviewed
Probab=96.33  E-value=0.0085  Score=37.31  Aligned_cols=34  Identities=12%  Similarity=0.328  Sum_probs=18.2

Q ss_pred             HHHHHHHCCCCC----CCCEEECC--------CCHHHHHHHHHHCC
Q ss_conf             999997518887----77113036--------60558999998325
Q gi|254780928|r  151 MADTLEAVGIKR----NDYHIGIN--------NRKILDGILEKIGL  184 (496)
Q Consensus       151 ~~~~l~~lgl~~----~~~~I~in--------~~~il~~il~~lgi  184 (496)
                      +.++|++||++-    +.+.+.+-        -..+.+.+..-.|.
T Consensus       421 i~~iL~~Lgf~v~~~~~~~~v~vPs~R~DI~~e~DLiEEIaRiyGY  466 (786)
T PRK00629        421 VERILTRLGFKVDGDGESLTVTVPSYRFDIEIEADLVEEVARIYGY  466 (786)
T ss_pred             HHHHHHHCCCEEEECCCCEEEECCCCCCCCCCCCHHHHHHHHHCCC
T ss_conf             9999997499998348518998589776668886399999988180


No 93 
>TIGR00458 aspS_arch aspartyl-tRNA synthetase; InterPro: IPR004523   The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases .   Aspartyl tRNA synthetase 6.1.1.12 from EC is an alpha2 dimer that belongs to class IIb. Structural analysis combined with mutagenesis and enzymology data on the yeast enzyme point to a tRNA binding process that starts by a recognition event between the tRNA anticodon loop and the synthetase anticodon binding module .     This family represents aspartyl-tRNA synthetases from the eukaryotic cytosol and from the archaea. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn). ; GO: 0000166 nucleotide binding, 0004815 aspartate-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006422 aspartyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=96.29  E-value=0.019  Score=35.11  Aligned_cols=102  Identities=25%  Similarity=0.456  Sum_probs=62.1

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEEC-CCCCEEEECCCCHHHHHHHHHHHHH
Q ss_conf             899999999999999998598480165202288752026755433322168986-9998899988883899999995112
Q gi|254780928|r   22 EIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQD-DDGQWISLRYDLTAPLARYVAENFD  100 (496)
Q Consensus        22 ~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D-~~g~~l~LRpDlT~~~aR~~~~~~~  100 (496)
                      -.+++..+.+.+|......||.||.||-|     +......    ..++|...- ....-|+=-|-+-=++.  ++..  
T Consensus       154 IF~I~~~~~~~vR~~L~~~~F~Ev~TPKl-----v~~~tEG----Gt~lF~i~YF~~~AfL~QSPQlyKQ~l--~~~g--  220 (466)
T TIGR00458       154 IFRIRSEVLESVREFLAEEGFIEVHTPKL-----VASATEG----GTELFPITYFEREAFLGQSPQLYKQVL--MAAG--  220 (466)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCEEEECCCE-----EECCCCC----CCCCCEEEEECCCCCCCCCCHHHHHHH--HHCC--
T ss_conf             25568999999999873088256307621-----4216688----853320122123000135703566877--6526--


Q ss_pred             HCCCCHHHHHHHHHHCCCCCCC-CCCCCCCCCCHHHHHCCC
Q ss_conf             0554112331013330258764-442111110001210000
Q gi|254780928|r  101 TIVFPCRTYRIGPVFRNEKHGP-GRFRQFIQCDVDNVGSSA  140 (496)
Q Consensus       101 ~~~~p~k~yy~g~vfR~e~p~~-Gr~REf~Q~g~eiiG~~~  140 (496)
                         + -|.|.||||||.|+..- -|..|++.+|+|.--.+.
T Consensus       221 ---~-~rVyEI~PiFRAE~~nT~RHl~E~~siDiE~~F~dh  257 (466)
T TIGR00458       221 ---L-ERVYEIGPIFRAEEHNTRRHLNEAISIDIEMAFEDH  257 (466)
T ss_pred             ---C-CCEEEECCEEECCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             ---5-203550552205666521455444442244442753


No 94 
>KOG2784 consensus
Probab=96.26  E-value=0.015  Score=35.77  Aligned_cols=13  Identities=23%  Similarity=0.020  Sum_probs=6.9

Q ss_pred             CCCCCEEEEEEEC
Q ss_conf             1234124899854
Q gi|254780928|r  300 EYYTGCVYEAILG  312 (496)
Q Consensus       300 dYYTG~vFE~~~~  312 (496)
                      +-||..--|++..
T Consensus       396 npYtepsmeif~y  408 (483)
T KOG2784         396 NPYTEPSMEIFSY  408 (483)
T ss_pred             CCCCCCEEEEEEE
T ss_conf             9888863578774


No 95 
>COG0442 ProS Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=96.16  E-value=0.034  Score=33.46  Aligned_cols=90  Identities=17%  Similarity=0.010  Sum_probs=70.6

Q ss_pred             HHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHH
Q ss_conf             99999999999998798399971899998899999987799899998872874881899787888364331120144320
Q gi|254780928|r  389 SLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWRE  468 (496)
Q Consensus       389 ~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~  468 (496)
                      ....+..++..|...+++++.+..+....+.++.+++-+++|+..-+|.++.+++++++-+-.+++|-.           
T Consensus       304 ~~~~~rd~~~~l~~~~~~~~~D~~~~~~~G~kl~~~e~ieVghif~lG~kyse~~~a~v~~r~g~~~~~-----------  372 (500)
T COG0442         304 VVNYGRDVAEPLEKLGIRVEGDDRSPDGPGFKLNIWEGIEVGHIFELGTKYSEAMNATVLDRDGKEQPK-----------  372 (500)
T ss_pred             HHHHHHHHHHHHHHCCEEEECCCCCCCCCCCEEEEEECCCCCEEEEECCHHHHHCEEEEEECCCCCCCE-----------
T ss_conf             430454445665430258842456899997211021024457799987412541804999248871441-----------


Q ss_pred             CCCCCEEECHHHHHHH-HHHHHHHHHH
Q ss_conf             2335103079999999-9999986420
Q gi|254780928|r  469 ARVAQITIPISELVST-VKKILQENKE  494 (496)
Q Consensus       469 ~~~~q~~v~~~~l~~~-~~~~l~~~~~  494 (496)
                           .+++...+++. |..+++...+
T Consensus       373 -----~mg~ygigvsr~v~a~ieq~~d  394 (500)
T COG0442         373 -----TMGCYGIGVSRLVAALLEQIHD  394 (500)
T ss_pred             -----EEECHHHHHHHHHHHHHHHHCC
T ss_conf             -----7870000034599999997362


No 96 
>CHL00192 syfB phenylalanyl-tRNA synthetase beta chain; Provisional
Probab=96.06  E-value=0.028  Score=33.93  Aligned_cols=35  Identities=17%  Similarity=0.425  Sum_probs=18.2

Q ss_pred             HHHHHHHCCCCC-----CCCEEECC-CC--------HHHHHHHHHHCCC
Q ss_conf             999997518887-----77113036-60--------5589999983256
Q gi|254780928|r  151 MADTLEAVGIKR-----NDYHIGIN-NR--------KILDGILEKIGLH  185 (496)
Q Consensus       151 ~~~~l~~lgl~~-----~~~~I~in-~~--------~il~~il~~lgi~  185 (496)
                      +.++|++||+.-     ..+.+.+- +|        .+.+.+....|..
T Consensus       330 i~~iL~~Lgf~v~~~~~~~~~V~vPs~R~~DI~~e~DLiEEVaRiyGyd  378 (702)
T CHL00192        330 IENILKSLNFKLIYDSLKNWEVIIPSYRQDDIFREIDLIEEIARLYGFD  378 (702)
T ss_pred             HHHHHHHCCCEEEECCCCCEEEECCCCCHHHHCCCCHHHHHHHHHHCCC
T ss_conf             9999997799899547886899889756666477105999999980803


No 97 
>TIGR00457 asnS asparaginyl-tRNA synthetase; InterPro: IPR004522   The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases .   AsparaginyltRNA synthetase (6.1.1.22 from EC) is an alpha2 dimer that belongs to class IIb. There is a striking similarity between asparaginyl-tRNA synthetases and archaeal/eukaryotic type aspartyl-tRNA synthetases (IPR004523 from INTERPRO) and a striking divergence of bacterial type aspartyl-tRNA synthetases (IPR004524 from INTERPRO). This family, AsnS, represents asparaginyl-tRNA synthetases from the three domains of life. Some species lack this enzyme and charge tRNA(asn) by misacylation with Asp, followed by transamidation of Asp to Asn.; GO: 0000166 nucleotide binding, 0004816 asparagine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006421 asparaginyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=95.74  E-value=0.029  Score=33.83  Aligned_cols=124  Identities=20%  Similarity=0.393  Sum_probs=72.7

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEEC-------CC-----------CC
Q ss_conf             8866899999999999999998598480165202288752026755433322168986-------99-----------98
Q gi|254780928|r   18 CPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQD-------DD-----------GQ   79 (496)
Q Consensus        18 ~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D-------~~-----------g~   79 (496)
                      .+..-|++|..+...+.+.|...||..|.||+|--+|.      |+   --+||+...       ++           |+
T Consensus       141 ~~~AvmrvR~~l~~ai~~yF~~~gF~~V~~PilT~~d~------EG---AGElF~v~TLdl~~lp~~~g~~df~~~fFgk  211 (495)
T TIGR00457       141 TLGAVMRVRNALSQAIHEYFQKNGFVKVSPPILTSNDC------EG---AGELFKVSTLDLEKLPRNDGKIDFSKDFFGK  211 (495)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCEEECCCEEECCCC------CC---CCCCCEEEEHHHHCCCCCCCCCCCCCCCCCC
T ss_conf             87789999999999999876047867868863113688------88---7543322003242153326888763024886


Q ss_pred             EEEECCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCC-CCCCCCCCCHHHHHCC--CH--HHHHHHHHHHHHH
Q ss_conf             89998888389999999511205541123310133302587644-4211111000121000--02--4578899999999
Q gi|254780928|r   80 WISLRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPG-RFRQFIQCDVDNVGSS--AE--TADAEMCMMMADT  154 (496)
Q Consensus        80 ~l~LRpDlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~G-r~REf~Q~g~eiiG~~--~~--~~DaEii~l~~~~  154 (496)
                      .=-    ||+|= -..++-.. ..+ -|.|.+||.||.|+..-- |.-|||.+=.|+.=.+  +.  .+|.=|-.++-.+
T Consensus       212 ~ay----LTVSG-QL~~E~~A-~AL-~kvyTfGPTFRAEkS~T~RHLsEFWMiEPE~AF~~l~d~~~~~E~~~k~~~k~V  284 (495)
T TIGR00457       212 EAY----LTVSG-QLYAEAYA-LAL-SKVYTFGPTFRAEKSNTSRHLSEFWMIEPEMAFANLNDLLQLIETLIKYIIKAV  284 (495)
T ss_pred             EEE----EEECC-HHHHHHHH-HHH-CCCEECCCCEECCCCCCCCCHHHHHHHHHHEEECCHHHHHHHHHHHHHHHHHHH
T ss_conf             012----33022-78999999-974-781445874004286487011122101120000013333899999999999998


Q ss_pred             HHH
Q ss_conf             975
Q gi|254780928|r  155 LEA  157 (496)
Q Consensus       155 l~~  157 (496)
                      |++
T Consensus       285 L~~  287 (495)
T TIGR00457       285 LEN  287 (495)
T ss_pred             HCC
T ss_conf             305


No 98 
>TIGR00462 genX lysyl-tRNA synthetase homolog GenX; InterPro: IPR004525   The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases .   This entry represents lysyl-tRNA synthetases from bacteria, as well as other related proteins. Escherichia coli, Haemophilus influenzae, and Aquifex aeolicus each have a protein closely homologous to the C-terminal region of lysyl-tRNA synthetase (LysS). Multiple sequence alignment of these proteins with the homologous regions of collected LysS proteins shows that these proteins form a distinct set rather than just similar truncations of LysS, so they appear to be orthologous. The protein is termed PoxA or GenX after its designation in E. coli. Its function is unknown.; GO: 0000166 nucleotide binding, 0004824 lysine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006430 lysyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=95.64  E-value=0.078  Score=31.06  Aligned_cols=102  Identities=25%  Similarity=0.366  Sum_probs=62.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCC-----EEEECCCCHHHHHHHH
Q ss_conf             68999999999999999985984801652022887520267554333221689869998-----8999888838999999
Q gi|254780928|r   21 KEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQ-----WISLRYDLTAPLARYV   95 (496)
Q Consensus        21 ~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~-----~l~LRpDlT~~~aR~~   95 (496)
                      .....|.++...+|+.|...|+.||+||++-....+     +. ++.---..|..+++.     +|.=-|+.  +.-|.+
T Consensus        19 ~n~LkRa~~i~~iR~FF~e~G~~EV~TP~l~~~~~~-----D~-~l~p~~~~~l~~g~~~~~~~WL~TSPEY--~MK~LL   90 (330)
T TIGR00462        19 KNLLKRAKIIAEIRKFFKERGLLEVETPLLSDFPVT-----DL-HLEPFKTEFLEPGGEQNKVLWLSTSPEY--HMKRLL   90 (330)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCEEECCCCHHCCCCC-----CE-EEEEEEEEEECCCCCCCCEECCCCCCCH--HHHHHH
T ss_conf             677889999999999886178425326301015644-----30-2213688884266533331211458727--899998


Q ss_pred             HHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCC-----CCCCHHHH
Q ss_conf             951120554112331013330258764442111-----11000121
Q gi|254780928|r   96 AENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQF-----IQCDVDNV  136 (496)
Q Consensus        96 ~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf-----~Q~g~eii  136 (496)
                      +...    .  -.|++.+|||++.-++-|--||     |..++|..
T Consensus        91 ~~~~----~--~iFQi~k~FRN~E~G~~H~~EF~MLEWY~~~~d~~  130 (330)
T TIGR00462        91 SAGK----G--PIFQITKVFRNEEAGRLHNPEFTMLEWYRPHYDML  130 (330)
T ss_pred             HHCC----C--CEEEEEEHHHHCCCCCCCCCCCCHHHHHHHHHHHH
T ss_conf             6217----8--62310000100024675775310011121102389


No 99 
>COG3705 HisZ ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism]
Probab=95.23  E-value=0.0026  Score=40.62  Aligned_cols=72  Identities=29%  Similarity=0.596  Sum_probs=54.1

Q ss_pred             HHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCC-CCCCCEEEEC
Q ss_conf             999875088844300110100122123412489985466677676663101100323235521112345-6774213311
Q gi|254780928|r  276 SELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGLVSRFKGQ-NVPATGFSIG  354 (496)
Q Consensus       276 ~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~L~~~f~~~-~~pavGfaig  354 (496)
                      ++.+-..+++......+..+.|-++||||.+||+...       .      -..+|||||.|...++.. .+|++||++.
T Consensus       311 l~~l~~~~~~~~~~~~~~~f~~~~~~~~~~~~e~~~~-------~------r~~g~~~~~~l~~g~~~~~~~~~~~~~~~  377 (390)
T COG3705         311 LDALAQGGLPLEERRYAALFGRELDYYTGAAFEAAQA-------L------RLAGGGRYDRLLTGLGASEEIPGVGFSLW  377 (390)
T ss_pred             HHHHHHCCCCCCCCHHHHCCCCCCHHHHHHHHHHHHH-------H------CCCCCEEEEECCCCCCHHHHHCCCCEEEE
T ss_conf             9999834788544302220375401567799999997-------2------42688078723123520765046430676


Q ss_pred             CHHHHH
Q ss_conf             016899
Q gi|254780928|r  355 ISRLIV  360 (496)
Q Consensus       355 verl~~  360 (496)
                      ++|...
T Consensus       378 ~~~~~~  383 (390)
T COG3705         378 LDRGVA  383 (390)
T ss_pred             ECCCCE
T ss_conf             032100


No 100
>TIGR00470 sepS O-phosphoseryl-tRNA(Cys) synthetase; InterPro: IPR005246   The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases .   All known phenylalanyl-tRNA synthetases, excepting a monomeric mitochondrial form, have an alpha 2 beta 2 heterotetrameric structure. This family of archaeal proteins resembles known phenylalanyl-tRNA synthetase alpha chains but is longer and of unknown function; more generally, it resembles class 2 aminoacyl tRNA ligases. .
Probab=95.17  E-value=0.038  Score=33.11  Aligned_cols=80  Identities=18%  Similarity=0.281  Sum_probs=48.4

Q ss_pred             EEEECCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCC-CCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHC
Q ss_conf             89998888389999999511205541123310133302587-64442111110001210000245788999999999751
Q gi|254780928|r   80 WISLRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKH-GPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAV  158 (496)
Q Consensus        80 ~l~LRpDlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p-~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~l  158 (496)
                      .++||.-||...=-.++.=....++|+|+|.|-+|||+|+- .+.|.--.+.+.|=++|.+=+.-|-  =.+|=-.|..|
T Consensus       192 tlTLRSHMTsGWFItLs~i~dk~~lPlKLFSIDRCFRREQ~ED~shLmtYhSASCVvVdeevsvDdG--KaVAEgLL~qf  269 (558)
T TIGR00470       192 TLTLRSHMTSGWFITLSSIADKLKLPLKLFSIDRCFRREQKEDASHLMTYHSASCVVVDEEVSVDDG--KAVAEGLLEQF  269 (558)
T ss_pred             CCCCHHHCCCHHHHHHHHHHHHCCCCCEEECCCCCCCCCCCCCCCCCCCEEEEEEEEECCCCCCCCC--HHHHHHHHHHH
T ss_conf             4320010100278889878751589711220032314466435310011345466785771243642--68899999870


Q ss_pred             CCC
Q ss_conf             888
Q gi|254780928|r  159 GIK  161 (496)
Q Consensus       159 gl~  161 (496)
                      |++
T Consensus       270 GF~  272 (558)
T TIGR00470       270 GFE  272 (558)
T ss_pred             CCC
T ss_conf             854


No 101
>TIGR00468 pheS phenylalanyl-tRNA synthetase, alpha subunit; InterPro: IPR004529   The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases .   Phenylalanyl-tRNA synthetase (6.1.1.20 from EC) is an alpha2/beta2 tetramer composed of 2 subunits that belongs to class IIc. In eubacteria, a small subunit (pheS gene) can be designated as beta (E. coli) or alpha subunit (nomenclature adopted in InterPro). Reciprocally the large subunit (pheT gene) can be designated as alpha (E. coli) or beta (see IPR004531 from INTERPRO and IPR004532 from INTERPRO). In all other kingdoms the two subunits have equivalent length in eukaryota, and can be identified by specific signatures. The enzyme from Thermus thermophilus has an alpha 2 beta 2 type quaternary structure and is one of the most complicated members of the synthetase family. Identification of phenylalanyl-tRNA synthetase as a member of class II aaRSs was based only on sequence alignment of the small alpha-subunit with other synthetases .   This family describes the alpha subunit, which shows some similarity to class II aminoacyl-tRNA ligases. Mitochondrial phenylalanyl-tRNA synthetase is a single polypeptide chain, active as a monomer, and similar to this chain rather than to the beta chain, but excluded from this family. ; GO: 0000166 nucleotide binding, 0004826 phenylalanine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006432 phenylalanyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=95.07  E-value=0.084  Score=30.86  Aligned_cols=142  Identities=21%  Similarity=0.240  Sum_probs=81.8

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHCCCEEEECCC-HHHHH-HHHCCCCCCCC---CCCCEEEEECC----------------
Q ss_conf             88668999999999999999985984801652-02288-75202675543---33221689869----------------
Q gi|254780928|r   18 CPTKEIRIRNRILDSIRNIYENYGFDPIETPL-LEYSD-SLGKFLPDEDR---PNKGVFSLQDD----------------   76 (496)
Q Consensus        18 ~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~-lE~~~-~~~~~~~~~~~---~~k~~y~f~D~----------------   76 (496)
                      ..+....-...+.+.+.++|...||.+...|. +|..- .|....-..++   .....|-+.++                
T Consensus        75 ~~~g~~~p~~~~~~~~~~~~~~~g~~~~~g~~~~~~~~~~f~~l~~p~~hp~r~~~d~f~~~~p~~~~~~~~~~~~~~~~  154 (362)
T TIGR00468        75 IYPGGLHPLTRVIDEIRDIFLGLGFTEEKGPEYVETDFWNFDALNLPQDHPARDLQDTFYLKDPLTGDLPPELVSDVKDA  154 (362)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHCCEEECCCCEECCCCCCCHHHCCCCCCCCCCCCCEEEECCCCCCCCCHHHHHHHHHH
T ss_conf             14553105789999999987650330104731011110010111277545431123303313742000322467767776


Q ss_pred             -------------------CCCEEEECCCCHH---HHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHH
Q ss_conf             -------------------9988999888838---999999951120554112331013330258764442111110001
Q gi|254780928|r   77 -------------------DGQWISLRYDLTA---PLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVD  134 (496)
Q Consensus        77 -------------------~g~~l~LRpDlT~---~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~e  134 (496)
                                         ..+.+.||-.-|+   -..|.+..+......|.|.+..|.|||++....-+.-+|+|+..=
T Consensus       155 ~~~~~~~g~~gw~~~~~~~~~~~~~lrt~~~~~~~~~~~~~~~~~~~~~pp~~~~~~~~~~r~~~~d~~h~~~f~~~~g~  234 (362)
T TIGR00468       155 HETGGATGSRGWRYEWDEDLARRLLLRTHTTASSAVQLRTLEENPKAKNPPIRIFCPGRVFRRDTVDATHLPEFHQLEGL  234 (362)
T ss_pred             HHHCCCCCCCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCEEEEECCHHHCCCCCCCCCCCHHHHEEEE
T ss_conf             65202122324454445556655554311321356666666541013788625764101110233331014102210023


Q ss_pred             HHHCCCHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             210000245788999999999751888
Q gi|254780928|r  135 NVGSSAETADAEMCMMMADTLEAVGIK  161 (496)
Q Consensus       135 iiG~~~~~~DaEii~l~~~~l~~lgl~  161 (496)
                      ++...-  .-..++.++.+.++.++..
T Consensus       235 ~~~~~~--~~~~l~g~~~~~~~~~~~~  259 (362)
T TIGR00468       235 VVDKNV--SFTNLKGLLEEFLKKLFGE  259 (362)
T ss_pred             EEECCC--CHHHHHHHHHHHHHHHCCC
T ss_conf             541566--4678899999999974132


No 102
>COG0072 PheT Phenylalanyl-tRNA synthetase beta subunit [Translation, ribosomal structure and biogenesis]
Probab=93.51  E-value=0.35  Score=26.80  Aligned_cols=35  Identities=11%  Similarity=0.346  Sum_probs=19.0

Q ss_pred             HHHHHHHCCCCCC----CCEEEC--------CCCHHHHHHHHHHCCC
Q ss_conf             9999975188877----711303--------6605589999983256
Q gi|254780928|r  151 MADTLEAVGIKRN----DYHIGI--------NNRKILDGILEKIGLH  185 (496)
Q Consensus       151 ~~~~l~~lgl~~~----~~~I~i--------n~~~il~~il~~lgi~  185 (496)
                      +.++|++||+...    .+.+.+        ....+++.++...|..
T Consensus       287 i~~iL~rLg~~~~~~~~~~~V~vPs~R~DI~~e~DliEEv~r~yGy~  333 (650)
T COG0072         287 IEKILKRLGFKVEVKGDGLTVTVPSYRVDILIEADLIEEVARIYGYN  333 (650)
T ss_pred             HHHHHHHCCCCEECCCCCEEEECCCCCCCCCCCCHHHHHHHHHHCCC
T ss_conf             99999976990341687469976887213565327888999985714


No 103
>COG2024 Phenylalanyl-tRNA synthetase alpha subunit (archaeal type) [Translation, ribosomal structure and biogenesis]
Probab=91.74  E-value=0.055  Score=32.08  Aligned_cols=81  Identities=22%  Similarity=0.456  Sum_probs=39.0

Q ss_pred             HHHHCCCCCCCCCCCHHHCCCCCCC-CCEEEEEEECCCCCC---CCCCCCCEEEECCCCCCCCC-CCCCCCCCCCCCEEE
Q ss_conf             9875088844300110100122123-412489985466677---67666310110032323552-111234567742133
Q gi|254780928|r  278 LVRKSGYNSNRIKISSTIVRGLEYY-TGCVYEAILGFPVMN---EKQKPVVFGSVGGGGRYDGL-VSRFKGQNVPATGFS  352 (496)
Q Consensus       278 ~l~~~gv~~~~i~~Dl~lvRgLdYY-TG~vFE~~~~~~~~~---~~~~~~~~~aI~~GGRYD~L-~~~f~~~~~pavGfa  352 (496)
                      +|.++|..  ++.|-|---+ --|| -|+-=|++..+....   .+..++-+ -||.=|=|.-. ++.+ +-+.|..-.+
T Consensus       255 lL~qfGFe--~F~FrpDEK~-SKYYvP~TQTEVyAyHPkL~gs~~kysdgWi-EiATFGlYSP~ALaeY-~Id~pVMNLG  329 (536)
T COG2024         255 LLRQFGFE--KFRFRPDEKK-SKYYVPGTQTEVYAYHPKLVGSIEKYSDGWI-EIATFGLYSPIALAEY-GIDYPVMNLG  329 (536)
T ss_pred             HHHHHCCC--CEEECCCCCC-CCCCCCCCCCEEEEECCCCCCCCCCCCCCCE-EEEEECCCCHHHHHHC-CCCCCEEECC
T ss_conf             99971940--0354662003-5534799630477745400365212588708-9996035672779872-9997012032


Q ss_pred             ECCHHHHHHHH
Q ss_conf             11016899999
Q gi|254780928|r  353 IGISRLIVALK  363 (496)
Q Consensus       353 igverl~~~l~  363 (496)
                      +|+||+..+|-
T Consensus       330 lGVERlaMIl~  340 (536)
T COG2024         330 LGVERLAMILH  340 (536)
T ss_pred             HHHHHHHHHHH
T ss_conf             20899999981


No 104
>TIGR00472 pheT_bact phenylalanyl-tRNA synthetase, beta subunit; InterPro: IPR004532   The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases .   Phenylalanyl-tRNA synthetase (6.1.1.20 from EC) is an alpha2/beta2 tetramer composed of 2 subunits that belongs to class IIc. In eubacteria, a small subunit (pheS gene) can be designated as beta (E. coli) or alpha subunit (see IPR002319 from INTERPRO). Reciprocally the large subunit (pheT gene) can be designated as alpha (E. coli) or beta. In all other kingdoms the two subunits have equivalent length in eukaryota, and can be identified by specific signatures. The enzyme from Thermus thermophilus has an alpha 2 beta 2 type quaternary structure and is one of the most complicated members of the synthetase family. Identification of phenylalanyl-tRNA synthetase as a member of class II aaRSs was based only on sequence alignment of the small alpha-subunit with other synthetases .   This family describes the beta subunit. The beta subunits break into two subfamilies that are considerably different in sequence, length, and pattern of gaps (see also IPR004531 from INTERPRO). This family represents the subfamily that includes the beta subunit from bacteria other than spirochetes, as well as a chloroplast-encoded form from Porphyra purpurea. The chloroplast-derived sequence is considerably shorter at the N-terminal.; GO: 0000166 nucleotide binding, 0004826 phenylalanine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006432 phenylalanyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=91.43  E-value=0.17  Score=28.85  Aligned_cols=89  Identities=20%  Similarity=0.253  Sum_probs=65.8

Q ss_pred             HHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECC-CCCEEEECCCCHHHHHHHHHHHHHHCCCCHH
Q ss_conf             999999999985984801652022887520267554333221689869-9988999888838999999951120554112
Q gi|254780928|r   29 ILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDD-DGQWISLRYDLTAPLARYVAENFDTIVFPCR  107 (496)
Q Consensus        29 i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~-~g~~l~LRpDlT~~~aR~~~~~~~~~~~p~k  107 (496)
                      ....++..+...||.|+.|..|...+......-.....-.+.+.+..+ +.+.=+||+-+-.++.+.++.|.+.....+|
T Consensus       523 ~~~~~~~~l~~~G~~E~itYsl~~~~~~~~~~~~~~~~~~~~~~i~NP~s~e~~~lR~sL~~sLL~~~~~N~~r~~~~~~  602 (848)
T TIGR00472       523 FLKKLRKLLVGLGLNEVITYSLVSKEKLEKFNFPKLENLDELVEIKNPLSEERSVLRTSLLPSLLEVLAYNQNRKNKDVK  602 (848)
T ss_pred             HHHHHHHHHHHCCCCEEEEECCCCHHHHHHHCCCCCCCCHHEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCEE
T ss_conf             99999999984898577730138879998716877786101045158983547887664468899999999863897158


Q ss_pred             HHHHHHHHCC
Q ss_conf             3310133302
Q gi|254780928|r  108 TYRIGPVFRN  117 (496)
Q Consensus       108 ~yy~g~vfR~  117 (496)
                      +|.+|+||-.
T Consensus       603 lFE~G~~f~~  612 (848)
T TIGR00472       603 LFEIGKVFAK  612 (848)
T ss_pred             EEEEEEEECC
T ss_conf             9988764268


No 105
>TIGR00499 lysS_bact lysyl-tRNA synthetase; InterPro: IPR002313   The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases .   Lysyl-tRNA synthetase (6.1.1.6 from EC) is an alpha 2 homodimer that belong to both class I and class II. In eubacteria and eukaryota lysyl-tRNA synthetases belong to class II in the same family as aspartyl tRNA synthetase. The class Ic lysyl-tRNA synthetase family is present in archaea and some eubacteria . Moreover in some eubacteria there is a gene X, which is similar to a part of lysyl-tRNA synthetase from class II. Lysyl-tRNA synthetase is duplicated in some species with, for example in E. coli, as a constitutive gene (lysS) and an induced one (lysU). No residues are directly involved in catalysis, but a number of highly conserved amino acids and three metal ions coordinate the substrates and stabilise the pentavalent transition state. Lysine is activated by being attached to the alpha-phosphate of AMP before being transferred to the cognate tRNA. The refined crystal structures give "snapshots" of the active site corresponding to key steps in the aminoacylation reaction and provide the structural framework for understanding the mechanism of lysine activation. The active site of LysU is shaped to position the substrates for the nucleophilic attack of the lysine carboxylate on the ATP alpha-phosphate. No residues are directly involved in catalysis, but a number of highly conserved amino acids and three metal ions coordinate the substrates and stabilise the pentavalent transition state. A loop close to the catalytic pocket, disordered in the lysine-bound structure, becomes ordered upon adenine binding .; GO: 0000166 nucleotide binding, 0004824 lysine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006430 lysyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=89.62  E-value=1.5  Score=22.72  Aligned_cols=98  Identities=24%  Similarity=0.336  Sum_probs=54.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHH
Q ss_conf             68999999999999999985984801652022887520267554333221689869998899988883899999995112
Q gi|254780928|r   21 KEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFD  100 (496)
Q Consensus        21 ~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~  100 (496)
                      .....+..+...++..+...||.+++||++....     +|...   +-..+-...-+..+.||----.-+-|.+.... 
T Consensus       188 ~~~~~~~~~~~~~~~~~~~~g~~e~e~p~~~~~~-----gg~~~---~pf~~~~n~~~~~~~~~~~~e~~l~~l~~gg~-  258 (538)
T TIGR00499       188 DTFLKRSKIIAAIRRFLDDRGFLEVETPLLQVIP-----GGANA---RPFITHHNALDLDLYLRIAPELYLKRLVVGGL-  258 (538)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCEEECCCHHHCCC-----CCCCC---CCCEECCCCCCCCHHHHHHHHHHHHHHHHCCH-
T ss_conf             6778899999999998762484221131010126-----76544---65010023224421211225778877764013-


Q ss_pred             HCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCC
Q ss_conf             05541123310133302587644421111100
Q gi|254780928|r  101 TIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCD  132 (496)
Q Consensus       101 ~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g  132 (496)
                           -|.|.+|++||.|-...-+--||+.+.
T Consensus       259 -----~~~~e~g~~f~neg~~~~hnpef~~~e  285 (538)
T TIGR00499       259 -----EKVYEIGRNFRNEGVDTTHNPEFTSLE  285 (538)
T ss_pred             -----HHHHHHHHHHHCCCCCCCCCCCHHHHH
T ss_conf             -----677876433310466544575302455


No 106
>cd00777 AspRS_core Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the appropriate tRNA. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. AspRS in this family differ from those found in the AsxRS family by a GAD insert in the core domain.
Probab=84.91  E-value=0.27  Score=27.58  Aligned_cols=33  Identities=30%  Similarity=0.544  Sum_probs=21.4

Q ss_pred             CCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCC
Q ss_conf             355211123456774213311016899999736
Q gi|254780928|r  334 YDGLVSRFKGQNVPATGFSIGISRLIVALKSLE  366 (496)
Q Consensus       334 YD~L~~~f~~~~~pavGfaigverl~~~l~~~~  366 (496)
                      |+.++..+.--..|+-|||+|+|||+..+-...
T Consensus       235 ~~~~l~a~~~G~pP~~G~glGiDRLvm~l~g~~  267 (280)
T cd00777         235 FGFLLEAFKYGAPPHGGIALGLDRLVMLLTGSE  267 (280)
T ss_pred             HHHHHHHHHCCCCCCCEEEHHHHHHHHHHHCCC
T ss_conf             999999976699987435158999999992898


No 107
>cd00669 Asp_Lys_Asn_RS_core Asp_Lys_Asn_tRNA synthetase class II core domain. This domain is the core catalytic domain of class II aminoacyl-tRNA synthetases of the subgroup containing aspartyl, lysyl, and asparaginyl tRNA synthetases. It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. Nearly all class II tRNA synthetases are dimers and enzymes in this subgroup are homodimers. These enzymes attach a specific amino acid to the 3' OH group of ribose of the appropriate tRNA.
Probab=84.71  E-value=0.35  Score=26.83  Aligned_cols=33  Identities=24%  Similarity=0.419  Sum_probs=22.0

Q ss_pred             CCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCC
Q ss_conf             355211123456774213311016899999736
Q gi|254780928|r  334 YDGLVSRFKGQNVPATGFSIGISRLIVALKSLE  366 (496)
Q Consensus       334 YD~L~~~f~~~~~pavGfaigverl~~~l~~~~  366 (496)
                      |+.++..+..-..|+-|||+|+|||+.++....
T Consensus       224 ~~~yl~a~~~G~pp~~G~glG~dRL~m~~~g~~  256 (269)
T cd00669         224 FEFYLKALEYGLPPHGGLGIGIDRLIMLMTNSP  256 (269)
T ss_pred             HHHHHHHHHCCCCCCEEEEEHHHHHHHHHHCCC
T ss_conf             899999987799997166347999999980899


No 108
>TIGR01608 citD citrate lyase acyl carrier protein; InterPro: IPR006495    This group of sequences represent the acyl carrier protein (gamma subunit) of the holoenzyme citrate lyase (4.1.3.6 from EC) composed of alpha (2.8.3.10 from EC), beta (4.1.3.34 from EC), and acyl carrier protein subunits in a stoichiometric relationship of 6:6:6. Citrate lyase is an enzyme which converts citrate to oxaloacetate. In bacteria, this reaction is involved in citrate fermentation. The acyl carrier protein covalently binds the coenzyme of citrate lyase. The set contains an experimentally characterised member from Leuconostoc mesenteroides . The sequences come from a wide range of Gram-positive bacteria. For Gram-negative bacteria, it appears that only sequences from the gamma proteobacteria are included..
Probab=83.73  E-value=2.6  Score=21.21  Aligned_cols=48  Identities=23%  Similarity=0.433  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHHHCCCCCCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCC
Q ss_conf             89999999997518887771130366055899999832560356433455533322001
Q gi|254780928|r  146 EMCMMMADTLEAVGIKRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLD  204 (496)
Q Consensus       146 Eii~l~~~~l~~lgl~~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~  204 (496)
                      +|..++.+.|+.||++  +..+++++.|-|+..+..         +....++|+.+.-+
T Consensus        44 ~I~~~vkeTL~~lGv~--~a~v~v~DKGAL~~vl~A---------R~~aAv~RA~~~~~   91 (95)
T TIGR01608        44 EIEKVVKETLKELGVE--NAVVKVVDKGALNCVLKA---------RTKAAVLRAAEAND   91 (95)
T ss_pred             HHHHHHHHHHHHCCCC--EEEEEEECCCHHHHHHHH---------HHHHHHHHHHHHCC
T ss_conf             9999999989865944--356887246667889999---------99999998886302


No 109
>pfam00152 tRNA-synt_2 tRNA synthetases class II (D, K and N).
Probab=82.38  E-value=0.46  Score=26.09  Aligned_cols=21  Identities=33%  Similarity=0.684  Sum_probs=16.9

Q ss_pred             CCCCCEEEECCHHHHHHHHHC
Q ss_conf             677421331101689999973
Q gi|254780928|r  345 NVPATGFSIGISRLIVALKSL  365 (496)
Q Consensus       345 ~~pavGfaigverl~~~l~~~  365 (496)
                      -.|+-|||+|+|||+.++-..
T Consensus       307 ~PP~~G~glGidRL~m~l~g~  327 (341)
T pfam00152       307 MPPHGGIGLGLDRLVMLLTGL  327 (341)
T ss_pred             CCCCEEEEEHHHHHHHHHCCC
T ss_conf             799705657899999998089


No 110
>PRK00960 seryl-tRNA synthetase; Provisional
Probab=79.86  E-value=4.3  Score=19.76  Aligned_cols=29  Identities=17%  Similarity=0.173  Sum_probs=15.3

Q ss_pred             HHHHHHCCCCCEEECHHHHHHHHHHHHHH
Q ss_conf             14432023351030799999999999986
Q gi|254780928|r  463 NESWREARVAQITIPISELVSTVKKILQE  491 (496)
Q Consensus       463 ~~~~~~~~~~q~~v~~~~l~~~~~~~l~~  491 (496)
                      +.-|.-+..+|.-..-++=-+.+++.+.+
T Consensus       477 L~RWv~gFLAQ~Gfd~~~WPe~i~~rvge  505 (516)
T PRK00960        477 LTRWVIGFLAQKGFDPDNWPEEIRKRVGE  505 (516)
T ss_pred             HHHHHHHHHHHCCCCCCCCCHHHHHHHHC
T ss_conf             78999999987079812164999988625


No 111
>TIGR02087 LEUD_arch 3-isopropylmalate dehydratase, small subunit; InterPro: IPR011827   3-isopropylmalate dehydratase (or isopropylmalate isomerase; 4.2.1.33 from EC) catalyses the stereo-specific isomerisation of 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate. This enzyme performs the second step in the biosynthesis of leucine, and is present in most prokaryotes and many fungal species. The prokaryotic enzyme is a heterodimer composed of a large (LeuC) and small (LeuD) subunit, while the fungal form is a monomeric enzyme. Both forms of isopropylmalate are related and are part of the larger aconitase family . Aconitases are mostly monomeric proteins which share four domains in common and contain a single, labile [4Fe-4S] cluster. Three structural domains (1, 2 and 3) are tightly packed around the iron-sulphur cluster, while a fourth domain (4) forms a deep active-site cleft. The prokaryotic enzyme is encoded by two adjacent genes, leuC and leuD, corresponding to aconitase domains 1-3 and 4 respectively , . LeuC does not bind an iron-sulphur cluster. It is thought that some prokaryotic isopropylamalate dehydrogenases can also function as homoaconitase 4.2.1.36 from EC, converting cis-homoaconitate to homoisocitric acid in lysine biosynthesis . Homoaconitase has been identified in higher fungi (mitochondria) and several archaea and one thermophilic species of bacteria, Thermus thermophilus .     This entry is most closely related to the 3-isopropylmalate dehydratase IPR004431 from INTERPRO. It also includes members, which cluster with other genes of leucine biosynthesis.    The structure of the Pyrococcus horikoshii small subunit (O59393 from SWISSPROT) has recently been determined . As expected the structure of this polypeptide is similar to that of aconitase domain 4, though one alpha helix is replaced by a short loop with relatively high temperature factor values. This loop region is thought to be important for substrate recognition. Unlike other aconitase family proteins, this subunit formed a tetramer through disulphide linkages, though it is not expected to interfere with its interaction with the large subunit. These disulphide linkages would be expected to confer thermostability on the enzyme, reflecting the thermophilic lifestyle of the organism.; GO: 0003861 3-isopropylmalate dehydratase activity, 0009098 leucine biosynthetic process, 0009316 3-isopropylmalate dehydratase complex.
Probab=76.32  E-value=5.5  Score=19.09  Aligned_cols=112  Identities=17%  Similarity=0.193  Sum_probs=65.4

Q ss_pred             HHHHCCCCCCCCCCCCEEEEEE--ECCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHH-HHHHHHCCCCEEEEE-C
Q ss_conf             9997368776655577148998--26976899999999999998798399971899998899-999987799899998-8
Q gi|254780928|r  361 ALKSLESSTNNIKEMGPVLITT--MDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQ-LKYADRRNCPLAIIQ-G  436 (496)
Q Consensus       361 ~l~~~~~~~~~~~~~~~v~V~~--~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~-~~~A~~~g~~~viii-g  436 (496)
                      +|+....-.+...++.+|.|.=  +|-+++.-+ |   +=.|..+||.|-+.-    |+... ++.|=..|.|.++.- +
T Consensus        34 aM~g~~PeF~~kvr~GDviVAGkNFGcGSSREQ-A---~~ALK~aGv~aviA~----SFARIFYRNAIN~GLP~i~~~e~  105 (159)
T TIGR02087        34 AMEGIDPEFAKKVREGDVIVAGKNFGCGSSREQ-A---ALALKAAGVAAVIAE----SFARIFYRNAINIGLPLIEAKED  105 (159)
T ss_pred             CCCCCCCCHHHHCCCCCEEEECCCCCCCCCHHH-H---HHHHHHCCEEEEEEE----ECCCHHHHHHHHCCCCEEEECCC
T ss_conf             055899631340789978871416477887788-9---999974790489852----01660103233325202631689


Q ss_pred             H-HHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHHHHHHHHHHHHH
Q ss_conf             7-2874881899787888364331120144320233510307999999999999864
Q gi|254780928|r  437 T-GERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISELVSTVKKILQEN  492 (496)
Q Consensus       437 ~-~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~~~l~~~  492 (496)
                      . +..+          .|+..++++++.+  .+....+.+++...+-++.+++|++.
T Consensus       106 vte~~~----------dGD~V~vdl~~ge--ir~~~~~~~~~~~~~~df~L~Il~~G  150 (159)
T TIGR02087       106 VTELIK----------DGDEVEVDLEKGE--IRKVNGKEVYKGRPLPDFLLEILEEG  150 (159)
T ss_pred             CEEEEC----------CCCEEEEECCCCE--EEEECCCEEEECCCCCCHHHHHHHCC
T ss_conf             650213----------7887899757660--88857950786468985589998718


No 112
>TIGR01854 lipid_A_lpxH UDP-2,3-diacylglucosamine hydrolase; InterPro: IPR010138   This entry represents LpxH, or UDP-2,3-diacylglucosamine hydrolase (or pyrophosphatase), which is an essential enzyme in Escherichia coli that catalyses the fourth step in lipid A biosynthesis. This reaction involves pyrophosphate bond hydrolysis of the precursor UDP-2,3-diacylglucosamine to yield 2,3-diacylglucosamine 1-phosphate and UMP . Several Gram-negative bacteria have homologues of LpxH and/or LpxH2, while others have only distant orthologues of LpxH or LpxH2, or lack these enzymes altogether .; GO: 0016462 pyrophosphatase activity, 0009245 lipid A biosynthetic process, 0005737 cytoplasm.
Probab=76.08  E-value=5.3  Score=19.19  Aligned_cols=79  Identities=22%  Similarity=0.258  Sum_probs=56.5

Q ss_pred             ECCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             98888389999999511205541123310133302587644421111100012100002457889999999997518887
Q gi|254780928|r   83 LRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKR  162 (496)
Q Consensus        83 LRpDlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~  162 (496)
                      =|||+|+.+.+++.+.-..  .-=.+|=-|..|           ||      +||.+++.+=++-|+-..+.+..=|++ 
T Consensus        12 ~~P~iTa~Fl~FL~~~A~G--~AdALYILGDLF-----------ea------WIGDD~~~~l~~~va~~~r~vsd~GV~-   71 (241)
T TIGR01854        12 ERPDITALFLDFLREEARG--KADALYILGDLF-----------EA------WIGDDDPSALARSVAEAIRAVSDQGVP-   71 (241)
T ss_pred             CCCHHHHHHHHHHHHHCCC--CCHHHHHHCCHH-----------HC------EECCCCCCHHHHHHHHHHHHHHCCCEE-
T ss_conf             4607899999998752334--000022101200-----------01------146897217999999999987328907-


Q ss_pred             CCCEEECCCCHHHHH--HHHHHC
Q ss_conf             771130366055899--999832
Q gi|254780928|r  163 NDYHIGINNRKILDG--ILEKIG  183 (496)
Q Consensus       163 ~~~~I~in~~~il~~--il~~lg  183 (496)
                        +..-=|||.+|-|  +....|
T Consensus        72 --~YF~~GNRDFLiG~~Far~aG   92 (241)
T TIGR01854        72 --CYFMHGNRDFLIGKRFAREAG   92 (241)
T ss_pred             --EEEECCCCHHHHHHHHHHHHC
T ss_conf             --984059851566689999708


No 113
>TIGR02700 flavo_MJ0208 archaeoflavoprotein, MJ0208 family; InterPro: IPR014073   This entry describes one of two paralogous families of archaeal flavoprotein. The other, described by IPR014072 from INTERPRO and typified by the partially characterised AF1518 of ArchaArchaeoglobus fulgidus, is a homodimeric FMN-containing flavoprotein that accepts electrons from ferredoxin and can transfer them to various oxidoreductases. The function of this protein family is unknown..
Probab=71.55  E-value=6  Score=18.84  Aligned_cols=45  Identities=33%  Similarity=0.513  Sum_probs=26.5

Q ss_pred             CCCCCCCCCCCCCCCCCCCE-------EEECCHHHH-HHHHHCCCCCCCCCCCCEEEEEEECCCHH
Q ss_conf             23235521112345677421-------331101689-99997368776655577148998269768
Q gi|254780928|r  331 GGRYDGLVSRFKGQNVPATG-------FSIGISRLI-VALKSLESSTNNIKEMGPVLITTMDHDSD  388 (496)
Q Consensus       331 GGRYD~L~~~f~~~~~pavG-------faigverl~-~~l~~~~~~~~~~~~~~~v~V~~~~~~~~  388 (496)
                      =||||-|+-+      ||+|       .+|+ |-|+ .|+      .+.-+-..|++|.+++.+..
T Consensus        83 LgkYD~Livs------PAT~NTVaKia~GIA-DsLVTNAv------aQAgKG~Vpv~vVPvDye~g  135 (237)
T TIGR02700        83 LGKYDLLIVS------PATANTVAKIAYGIA-DSLVTNAV------AQAGKGDVPVLVVPVDYEEG  135 (237)
T ss_pred             CCCCCEEEEC------CCCCCCHHHEEECCH-HHHHHHHH------HHCCCCCCCEEEEEEECCCC
T ss_conf             4532657875------851020011000210-03567677------52237754358887521477


No 114
>TIGR01511 ATPase-IB1_Cu copper-translocating P-type ATPase; InterPro: IPR006403   ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (F-, V- and A-ATPases contain rotary motors) and in the type of ions they transport , .  F-ATPases (F1F0-ATPases) in mitochondria, chloroplasts and bacterial plasma membranes are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases) are primarily found in eukaryotic vacuoles, catalysing ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases) are found in Archaea and function like F-ATPases. P-ATPases (E1E2-ATPases) are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP.   P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles . P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H^+, Na^+, K^+, Mg^2+, Ca^2+, Ag^+ and Ag^2+, Zn^2+, Co^2+, Pb^2+, Ni^2+, Cd^2+, Cu^+ and Cu^2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2.   This entry represents P-type ATPases that specialise in cation and copper transport; those transporting copper (3.6.3.4 from EC) have been classified as belonging to the IB subfamily , , . These proteins are involved in a variety of processes in both prokaryotes and eukaryotes. Some of these P-ATPases import copper into cells, such as in Arabidopsis sp., which require copper to create functional hormone receptors for ethylene signalling. Other P-ATPases are involved in copper export out of cells, such as occurs with the efflux of hepatic copper into the bile in eukaryotes. In bacteria, some of these P-ATPases play a role in osmotic adaptation. Certain copper ATPases have been implicated in both Wilson and Menkes diseases .   More information about this protein can be found at Protein of the Month: ATP Synthases .; GO: 0004008 copper-exporting ATPase activity, 0005524 ATP binding, 0046872 metal ion binding, 0046873 metal ion transmembrane transporter activity, 0030001 metal ion transport, 0016020 membrane.
Probab=71.00  E-value=7.3  Score=18.27  Aligned_cols=63  Identities=13%  Similarity=0.082  Sum_probs=49.8

Q ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHC
Q ss_conf             48998269768999999999999987983999718999988999999877998999988728748
Q gi|254780928|r  378 VLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSR  442 (496)
Q Consensus       378 v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~  442 (496)
                      -+++++-.++....++.+..+.|++.||.+.+.-+++  -+..-.-|.+.||.+.-=+-|+|+.+
T Consensus       361 ~l~~~~~~~D~lkp~a~~~i~~Lk~~Gi~~~mLtGDN--~~~A~a~A~~lGI~v~Aev~P~~K~a  423 (545)
T TIGR01511       361 ELAGVLALADQLKPEAKEVIQALKRRGIEPVMLTGDN--RKTAKAVAKELGINVRAEVLPDDKAA  423 (545)
T ss_pred             CEEEEEEECCCCCHHHHHHHHHHHHCCCEEEEEECCC--HHHHHHHHHHHCCEEEECCCHHHHHH
T ss_conf             2799886647468868999999987598799986698--79999999972833331788076899


No 115
>TIGR02071 PBP_1b penicillin-binding protein 1B; InterPro: IPR011813    Bacterial that synthesize a cell wall of peptidoglycan (murein) generally have several transglycosylases and transpeptidases for the task. This family consists of a particular bifunctional transglycosylase/transpeptidase in Escherichia coli and other Proteobacteria, designated penicillin-binding protein 1B.; GO: 0008233 peptidase activity, 0008955 peptidoglycan glycosyltransferase activity, 0009252 peptidoglycan biosynthetic process, 0046677 response to antibiotic, 0009274 peptidoglycan-based cell wall.
Probab=70.72  E-value=3.6  Score=20.30  Aligned_cols=68  Identities=25%  Similarity=0.441  Sum_probs=40.5

Q ss_pred             CCCCCCCCCCCCCC--CCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEE-EECCCHHHHHHHHHHHHHHHHCCCEEE
Q ss_conf             35521112345677--4213311016899999736877665557714899-826976899999999999998798399
Q gi|254780928|r  334 YDGLVSRFKGQNVP--ATGFSIGISRLIVALKSLESSTNNIKEMGPVLIT-TMDHDSDSLSKYQMYTQMLRTAGIRAE  408 (496)
Q Consensus       334 YD~L~~~f~~~~~p--avGfaigverl~~~l~~~~~~~~~~~~~~~v~V~-~~~~~~~~~~~~~~ia~~Lr~~Gi~~e  408 (496)
                      ||.|+.++   ++|  .+|+.+|++++...+..+......+ .+.|.+++ +++..+  +.-| .+.+.|-+.|.++-
T Consensus       506 ~dALa~S~---N~pTV~lGm~vGl~~V~~t~~~LG~~k~~i-~~~PsmlLGA~~ltP--~eva-q~YQtlAsgG~~~p  576 (742)
T TIGR02071       506 YDALARSL---NIPTVNLGMKVGLDKVSQTLKKLGINKDEI-PPVPSMLLGAISLTP--YEVA-QLYQTLASGGERAP  576 (742)
T ss_pred             HHHHHHHH---HHHHHHHHHHCCHHHHHHHHHHHCCCCCCC-CCCCHHHHCCCCCCH--HHHH-HHHHHHHCCCCCCC
T ss_conf             78987653---176788646317678999999828771204-766335521136687--8999-89977625775543


No 116
>cd00733 GlyRS_alpha_core Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the attachment of glycine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. This alignment contains only sequences from the GlyRS form which heterotetramerizes. The homodimer form of GlyRS is in a different family of class II aaRS. Class II assignment is based upon structure and the presence of three characteristic sequence motifs.
Probab=69.27  E-value=4.5  Score=19.67  Aligned_cols=55  Identities=24%  Similarity=0.361  Sum_probs=36.4

Q ss_pred             CCCCHHHHHHHHHHCCCCCCCCCC-------CCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             554112331013330258764442-------111110001210000245788999999999751888777
Q gi|254780928|r  102 IVFPCRTYRIGPVFRNEKHGPGRF-------RQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRND  164 (496)
Q Consensus       102 ~~~p~k~yy~g~vfR~e~p~~Gr~-------REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~  164 (496)
                      .+.|.+..|++++.|   |.-|||       -.++|+-+=+    .|.++ .+-.+..+.|+.+|+...+
T Consensus        43 g~~pw~~aYvqPsrR---P~DgRYG~NPNRlq~y~QfQVil----KPsp~-n~q~lYL~SL~~igid~~~  104 (279)
T cd00733          43 GPEPWNVAYVEPSRR---PTDGRYGENPNRLQHYYQFQVII----KPSPD-NIQELYLESLEALGINPKE  104 (279)
T ss_pred             CCCCCEEEEECCCCC---CCCCCCCCCCCHHCEEEEEEEEE----CCCCH-HHHHHHHHHHHHCCCCCCC
T ss_conf             998631554246779---99987778932310003457998----78956-5899999989984979543


No 117
>KOG0555 consensus
Probab=69.16  E-value=8  Score=18.02  Aligned_cols=99  Identities=18%  Similarity=0.304  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHH
Q ss_conf             68999999999999999985984801652022887520267554333221689869998899988883899999995112
Q gi|254780928|r   21 KEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFD  100 (496)
Q Consensus        21 ~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~  100 (496)
                      .-...|..+...+++.|...||.||.+|.+=-...   -+|      ..+|.|. --|+.--    +|-|---|+-.-..
T Consensus       241 ~vLK~Ra~~lr~~Rd~y~~~~ytEVtPPtmVQTQV---EGG------sTLFkld-YyGEeAy----LTQSSQLYLEtclp  306 (545)
T KOG0555         241 KVLKARAALLRAMRDHYFERGYTEVTPPTMVQTQV---EGG------STLFKLD-YYGEEAY----LTQSSQLYLETCLP  306 (545)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCEECCCCCEEEEEE---CCC------CEEEEEC-CCCCHHH----CCCHHHHHHHHHHH
T ss_conf             99999999999999888744842457971578875---176------0487311-3574033----02235888987655


Q ss_pred             HCCCCHHHHHHHHHHCCCCCCC-CCCCCCCCCCHHHH
Q ss_conf             0554112331013330258764-44211111000121
Q gi|254780928|r  101 TIVFPCRTYRIGPVFRNEKHGP-GRFRQFIQCDVDNV  136 (496)
Q Consensus       101 ~~~~p~k~yy~g~vfR~e~p~~-Gr~REf~Q~g~eii  136 (496)
                      .   --..|+|.+-||.|+..- -|.-|++-+-+|+-
T Consensus       307 A---lgdvy~I~~SyRAEkSrTRRHLsEytHVEaE~a  340 (545)
T KOG0555         307 A---LGDVYCIQQSYRAEKSRTRRHLSEYTHVEAECA  340 (545)
T ss_pred             H---CCCEEEECHHHHHHHHHHHHHHHHHEEEEEECC
T ss_conf             2---076267327566556666665533111023246


No 118
>TIGR00559 pdxJ pyridoxal phosphate biosynthetic protein PdxJ; InterPro: IPR004569    Pyridoxal phosphate is the active form of vitamin B6 (pyridoxine or pyridoxal). PLP is a versatile catalyst, acting as a coenzyme in a multitude of reactions, including decarboxylation, deamination and transamination , , . PLP-dependent enzymes are primarily involved in the biosynthesis of amino acids and amino acid-derived metabolites, but they are also found in the biosynthetic pathways of amino sugars and in the synthesis or catabolism of neurotransmitters; pyridoxal phosphate can also inhibit DNA polymerases and several steroid receptors . Inadequate levels of pyridoxal phosphate in the brain can cause neurological dysfunction, particularly epilepsy .   PLP enzymes exist in their resting state as a Schiff base, the aldehyde group of PLP forming a linkage with the epsilon-amino group of an active site lysine residue on the enzyme. The alpha-amino group of the substrate displaces the lysine epsilon-amino group, in the process forming a new aldimine with the substrate. This aldimine is the common central intermediate for all PLP-catalyzed reactions, enzymatic and non-enzymatic .   In Escherichia coli, the pdx genes involved in vitamin B6 have been characterised , , . This entry represents PdxJ, which catalyses the condensation of 1-amino-3-oxo-4-(phosphohydroxy)propan-2-one and 1-deoxy-D-xylulose-5-phosphate to form pyridoxine-5'-phosphate. The product of the PdxJ reaction is then oxidized by PdxH to pyridoxal 5'-phosphate.; GO: 0008615 pyridoxine biosynthetic process, 0005737 cytoplasm.
Probab=67.12  E-value=8.8  Score=17.75  Aligned_cols=39  Identities=21%  Similarity=0.261  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEE
Q ss_conf             999999999879839997189999889999998779989999
Q gi|254780928|r  393 YQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAII  434 (496)
Q Consensus       393 ~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~vii  434 (496)
                      ..++++.+.++||.|.++.+.   .+.|+++|.+.|++.+=|
T Consensus       115 L~~~~~~~~~~GI~vSlFId~---~~d~i~~A~e~g~~~iE~  153 (265)
T TIGR00559       115 LKELVKRLHEAGIEVSLFIDA---DKDQISAAAEVGADRIEI  153 (265)
T ss_pred             HHHHHHHHHHCCCEEEEEECC---CHHHHHHHHHCCCCEEEE
T ss_conf             999999998679858774254---468889999708984885


No 119
>TIGR00471 pheT_arch phenylalanyl-tRNA synthetase, beta subunit; InterPro: IPR004531   The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases .   Phenylalanyl-tRNA synthetase (6.1.1.20 from EC) is an alpha2/beta2 tetramer composed of 2 subunits that belongs to class IIc. In eubacteria, a small subunit (pheS gene) can be designated as beta (E. coli) or alpha subunit (see IPR002319 from INTERPRO). Reciprocally the large subunit (pheT gene) can be designated as alpha (E. coli) or beta. In all other kingdoms the two subunits have equivalent length in eukaryota, and can be identified by specific signatures. The enzyme from Thermus thermophilus has an alpha 2 beta 2 type quaternary structure and is one of the most complicated members of the synthetase family. Identification of phenylalanyl-tRNA synthetase as a member of class II aaRSs was based only on sequence alignment of the small alpha-subunit with other synthetases .   This family describes the beta subunit. The beta subunits break into two subfamilies that are considerably different in sequence, length, and pattern of gaps (see also IPR004532 from INTERPRO). This family represents the subfamily that includes the beta subunit from eukaryotic cytosol, the archaea, and spirochetes.; GO: 0000166 nucleotide binding, 0004826 phenylalanine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006432 phenylalanyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=66.60  E-value=7.2  Score=18.33  Aligned_cols=13  Identities=15%  Similarity=0.235  Sum_probs=9.6

Q ss_pred             EECCCCCEEEECC
Q ss_conf             9869998899988
Q gi|254780928|r   73 LQDDDGQWISLRY   85 (496)
Q Consensus        73 f~D~~g~~l~LRp   85 (496)
                      +.|..|+.+++||
T Consensus       219 I~Ds~~~V~S~PP  231 (605)
T TIGR00471       219 ILDSKDDVLSMPP  231 (605)
T ss_pred             EEECCCCEEECCC
T ss_conf             7636888773587


No 120
>pfam02091 tRNA-synt_2e Glycyl-tRNA synthetase alpha subunit.
Probab=66.30  E-value=5.6  Score=19.04  Aligned_cols=55  Identities=24%  Similarity=0.317  Sum_probs=36.2

Q ss_pred             CCCCHHHHHHHHHHCCCCCCCCCC-------CCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             554112331013330258764442-------111110001210000245788999999999751888777
Q gi|254780928|r  102 IVFPCRTYRIGPVFRNEKHGPGRF-------RQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRND  164 (496)
Q Consensus       102 ~~~p~k~yy~g~vfR~e~p~~Gr~-------REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~  164 (496)
                      .+.|.+..|++++.|   |.-|||       -.++|+-+=+    .|.++ .+-.+..+.|+.+|+...+
T Consensus        42 gp~pw~~aYvqPsrR---P~DgRYGenPnRlq~y~QfQVi~----KPsp~-n~q~lYL~SL~~lgid~~~  103 (284)
T pfam02091        42 GPEPWNVAYVEPSRR---PTDGRYGENPNRLQHYYQFQVIL----KPSPD-NIQELYLGSLKALGIDPLD  103 (284)
T ss_pred             CCCCCEEEEECCCCC---CCCCCCCCCCCHHHHHEEEEEEE----CCCCH-HHHHHHHHHHHHCCCCCCC
T ss_conf             998641554246779---99987778920420022357897----78946-6899999989983979543


No 121
>TIGR01292 TRX_reduct thioredoxin-disulfide reductase; InterPro: IPR005982    Reactive oxygen species (ROS) are known mediators of intracellular signaling cascades. Excessive production of ROS may, however, lead to oxidative stress, loss of cell function, and ultimately apoptosis or necrosis. A balance between oxidant and antioxidant intracellular systems is hence vital for cell function, regulation, and adaptation to diverse growth conditions. Thioredoxin reductase in conjunction with thioredoxin is a ubiquitous oxidoreductase system with antioxidant and redox regulatory roles. Thioredoxin reductase (1.8.1.9 from EC) reduces oxidised thioredoxin in the presence of NADPH. Reduced thioredoxin serves as an electron donor for thioredoxin peroxidase which consequently reduces H_2O_2 to H_2O. In mammals, extracellular forms of Trx also have cytokine-like effects. Mammalian TrxR has a highly reactive active site selenocysteine residue resulting in a profound reductive capacity, reducing several substrates in addition to Trx .; GO: 0004791 thioredoxin-disulfide reductase activity, 0019430 removal of superoxide radicals, 0005737 cytoplasm.
Probab=63.35  E-value=10  Score=17.29  Aligned_cols=79  Identities=13%  Similarity=0.200  Sum_probs=54.4

Q ss_pred             EEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHH---HHHHHHHHC---CCCEEE------EECHHHHHCCCEEE
Q ss_conf             998269768999999999999987983999718999988---999999877---998999------98872874881899
Q gi|254780928|r  380 ITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFG---NQLKYADRR---NCPLAI------IQGTGERSRGMLQI  447 (496)
Q Consensus       380 V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~---~~~~~A~~~---g~~~vi------iig~~e~~~~~v~v  447 (496)
                      |.|++.+..-+.+|+    -|.+-+-+|-+-+..+ +|.   -.++.+.++   +|+|++      |.|++...=..|+|
T Consensus       154 V~VvGGGdsA~eEA~----yL~~~a~kV~lvHRRd-~fRA~k~~~~r~~~~~eG~I~~l~n~~v~Ei~G~~~~~V~~v~i  228 (321)
T TIGR01292       154 VAVVGGGDSALEEAL----YLTRIAKKVTLVHRRD-KFRAEKILLDRLKKNPEGKIEFLWNSTVEEIVGDNSKKVESVKI  228 (321)
T ss_pred             EEEECCCCHHHHHHH----HHHHCCCEEEEEECCC-CCCCCHHHHHHHHHCCCCCEEEECCCEEEEEECCCCEEEEEEEE
T ss_conf             999879824888889----9985387679997798-63632899989983789878996486899996178315533589


Q ss_pred             EECCCCCEEEEECCCH
Q ss_conf             7878883643311201
Q gi|254780928|r  448 KDLAKGKELSREIKNN  463 (496)
Q Consensus       448 K~l~~g~q~~~~~~~~  463 (496)
                      ||..|+++.+++.+-.
T Consensus       229 ~N~~t~e~~~l~vdGv  244 (321)
T TIGR01292       229 KNTVTGEEEELKVDGV  244 (321)
T ss_pred             EECCCCEEEEEEECEE
T ss_conf             9623884889984447


No 122
>PRK10333 putative ligase; Provisional
Probab=62.53  E-value=3  Score=20.78  Aligned_cols=27  Identities=22%  Similarity=0.517  Sum_probs=19.9

Q ss_pred             CCCCCCCCCCCCCCCCCCCCEEEECCH
Q ss_conf             323235521112345677421331101
Q gi|254780928|r  330 GGGRYDGLVSRFKGQNVPATGFSIGIS  356 (496)
Q Consensus       330 ~GGRYD~L~~~f~~~~~pavGfaigve  356 (496)
                      |||=||..++.+.+.....||+|+...
T Consensus       146 GgGyYDR~L~~~~~~~~~~Igla~~~Q  172 (198)
T PRK10333        146 GGGFYDRTLQNWQHYKTQPVGYAHDCQ  172 (198)
T ss_pred             CCCCHHHHHHHCCCCCCCEEEEEECCE
T ss_conf             874251575644203871899971227


No 123
>TIGR02727 MTHFS_bact 5,10-methenyltetrahydrofolate synthetase; InterPro: IPR002698 5-formyltetrahydrofolate cyclo-ligase or methenyl-THF synthetase 6.3.3.2 from EC catalyses the interchange of 5-formyltetrahydrofolate (5-FTHF) to 5-10-methenyltetrahydrofolate, this requires ATP and Mg^2+ . 5-FTHF is used in chemotherapy where it is clinically known as Leucovorin .; GO: 0005524 ATP binding, 0030272 5-formyltetrahydrofolate cyclo-ligase activity, 0009396 folic acid and derivative biosynthetic process.
Probab=61.91  E-value=3.3  Score=20.54  Aligned_cols=27  Identities=41%  Similarity=0.874  Sum_probs=19.9

Q ss_pred             CCCCCCCCCCCCCCCCCCCCEEEECCH
Q ss_conf             323235521112345677421331101
Q gi|254780928|r  330 GGGRYDGLVSRFKGQNVPATGFSIGIS  356 (496)
Q Consensus       330 ~GGRYD~L~~~f~~~~~pavGfaigve  356 (496)
                      |||=||..++.+.++..|++++++..+
T Consensus       136 GgGyYDR~L~~~~~~~~~~~~ig~~f~  162 (183)
T TIGR02727       136 GGGYYDRFLARLKGKTVPAIKIGLAFD  162 (183)
T ss_pred             CCCHHHHHHHCCCCCCCCEEEEEEEEH
T ss_conf             687467875506788876068885100


No 124
>PRK10846 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional
Probab=61.70  E-value=11  Score=17.10  Aligned_cols=35  Identities=17%  Similarity=0.205  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHC---C-CEEEEEECCCCCHHHHHHHHHHC
Q ss_conf             99999999987---9-83999718999988999999877
Q gi|254780928|r  393 YQMYTQMLRTA---G-IRAEMFLGSSKNFGNQLKYADRR  427 (496)
Q Consensus       393 ~~~ia~~Lr~~---G-i~~e~~~~~~~sl~~~~~~A~~~  427 (496)
                      +..+++.|...   + +..-+-.-.+|.....++.-...
T Consensus       310 a~~L~~~l~~~~~~~k~~~V~g~l~dKD~~~~l~~L~~~  348 (416)
T PRK10846        310 AEYLTGRLKALPKNGRVLAVIGMLHDKDIAGTLAWLKSV  348 (416)
T ss_pred             HHHHHHHHHHCCCCCCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             999999999607799689998413789999999986644


No 125
>cd00003 PNPsynthase Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the biosynthesis of vitamin B6. PNP synthase, a homooctameric enzyme, catalyzes the final step in PNP biosynthesis, the condensation of 1-amino-acetone 3-phosphate and 1-deoxy-D-xylulose 5-phosphate. PNP synthase adopts a TIM barrel topology, intersubunit contacts are mediated by three ''extra'' helices, generating a tetramer of symmetric dimers with shared active sites; the open state has been proposed to accept substrates and to release products, while most of the catalytic events are likely to occur in the closed state; a hydrophilic channel running through the center of the barrel was identified as the essential structural feature that enables PNP synthase to release water molecules produced during the reaction from the closed,
Probab=59.24  E-value=12  Score=16.83  Aligned_cols=17  Identities=18%  Similarity=0.388  Sum_probs=7.4

Q ss_pred             HHHHHHHHHHHHHHCCC
Q ss_conf             89999999999875088
Q gi|254780928|r  268 GFNELVVISELVRKSGY  284 (496)
Q Consensus       268 ~l~~l~~i~~~l~~~gv  284 (496)
                      .++.+....++....|+
T Consensus       167 el~~i~~aa~~A~~lGL  183 (234)
T cd00003         167 ELERIAKAAKLARELGL  183 (234)
T ss_pred             HHHHHHHHHHHHHHCCC
T ss_conf             99999999999998598


No 126
>TIGR02461 osmo_MPG_phos mannosyl-3-phosphoglycerate phosphatase; InterPro: IPR012813    Members of this family are mannosyl-3-phosphoglycerate phosphatase (3.1.3.70 from EC). It acts sequentially after mannosyl-3-phosphoglycerate synthase (2.4.1.217 from EC) in a two-step pathway of biosynthesis of the compatible solute mannosylglycerate, a typical osmolyte of thermophiles.; GO: 0050531 mannosyl-3-phosphoglycerate phosphatase activity, 0051479 mannosylglycerate biosynthetic process, 0005737 cytoplasm.
Probab=58.39  E-value=13  Score=16.74  Aligned_cols=32  Identities=28%  Similarity=0.457  Sum_probs=20.1

Q ss_pred             EECCCCCEEE-ECCCCHHHHHHHHHHHHHHCCCCH
Q ss_conf             9869998899-988883899999995112055411
Q gi|254780928|r   73 LQDDDGQWIS-LRYDLTAPLARYVAENFDTIVFPC  106 (496)
Q Consensus        73 f~D~~g~~l~-LRpDlT~~~aR~~~~~~~~~~~p~  106 (496)
                      |+|-+|.+|. .++|  +.-||=+....++.-.|+
T Consensus         3 FtDLD~TLl~~~~ye--~~pA~e~~~~L~~~G~~~   35 (248)
T TIGR02461         3 FTDLDGTLLDLETYE--PGPAREALEELKDLGFPI   35 (248)
T ss_pred             EECCCCCCCCCCCCC--HHHHHHHHHHHHHCCCEE
T ss_conf             632662117777888--002689999999669738


No 127
>PRK05265 pyridoxine 5'-phosphate synthase; Provisional
Probab=58.15  E-value=13  Score=16.71  Aligned_cols=16  Identities=13%  Similarity=0.266  Sum_probs=6.5

Q ss_pred             HHHHHHHHHHHHHCCC
Q ss_conf             9999999999875088
Q gi|254780928|r  269 FNELVVISELVRKSGY  284 (496)
Q Consensus       269 l~~l~~i~~~l~~~gv  284 (496)
                      ++.+....+++...|+
T Consensus       171 l~~i~~aa~~A~~lGL  186 (240)
T PRK05265        171 LERIAEAAALAASLGL  186 (240)
T ss_pred             HHHHHHHHHHHHHCCC
T ss_conf             9999999999998698


No 128
>PRK13057 putative lipid kinase; Reviewed
Probab=55.55  E-value=14  Score=16.44  Aligned_cols=49  Identities=20%  Similarity=0.038  Sum_probs=23.4

Q ss_pred             HHHHHHHHHCCCEEEECCCHHHHH--HHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHH
Q ss_conf             999999998598480165202288--75202675543332216898699988999888838999
Q gi|254780928|r   31 DSIRNIYENYGFDPIETPLLEYSD--SLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLA   92 (496)
Q Consensus        31 ~~l~~~f~~~G~~~I~tP~lE~~~--~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~a   92 (496)
                      ..++..++.+|++.....+=..-|  -+.+.             ..+.-...++.-=|.|+.-+
T Consensus        16 ~~~~~~l~~~g~~~~~~~T~~~g~a~~~~~~-------------~~~~~d~vv~~GGDGTv~ev   66 (287)
T PRK13057         16 GAARAALEAAGLELVEPHPESPADLSEVIEA-------------HADGVDLVIVGGGDGTLNAA   66 (287)
T ss_pred             HHHHHHHHHCCCEEEEEECCCHHHHHHHHHH-------------HHCCCCEEEEECCHHHHHHH
T ss_conf             9999999987997999954987899999999-------------86699989998858999999


No 129
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=54.81  E-value=14  Score=16.36  Aligned_cols=43  Identities=14%  Similarity=0.268  Sum_probs=27.4

Q ss_pred             HHHHHHHHHHHCCCEEEEE--ECCCCCHHHHHHHHHHCCCCEEEE
Q ss_conf             9999999999879839997--189999889999998779989999
Q gi|254780928|r  392 KYQMYTQMLRTAGIRAEMF--LGSSKNFGNQLKYADRRNCPLAII  434 (496)
Q Consensus       392 ~~~~ia~~Lr~~Gi~~e~~--~~~~~sl~~~~~~A~~~g~~~vii  434 (496)
                      .+.+++......++.--+.  ++...+.+..+.-+...|.|...+
T Consensus       200 ~~~~~~~~f~~~~i~gvIlTKlD~ta~gG~als~~~~~~~PI~fi  244 (270)
T PRK06731        200 DMIEIITNFKDIHIDGIVFTKFDETASSGELLKIPAVSSAPIVLM  244 (270)
T ss_pred             HHHHHHHHHCCCCCCEEEEECCCCCCCCCHHHHHHHHHCCCEEEE
T ss_conf             999999980779998899965358997729999999988597999


No 130
>PRK09348 glyQ glycyl-tRNA synthetase subunit alpha; Validated
Probab=54.27  E-value=11  Score=17.03  Aligned_cols=55  Identities=24%  Similarity=0.306  Sum_probs=36.0

Q ss_pred             CCCCHHHHHHHHHHCCCCCCCCCCC-------CCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             5541123310133302587644421-------11110001210000245788999999999751888777
Q gi|254780928|r  102 IVFPCRTYRIGPVFRNEKHGPGRFR-------QFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRND  164 (496)
Q Consensus       102 ~~~p~k~yy~g~vfR~e~p~~Gr~R-------Ef~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~  164 (496)
                      .+.|.+..|.++.-|   |.-|||-       .++|+-+=+    .|.++ .+-.+..+.|+.+||...+
T Consensus        45 gp~pw~~aYvqPsrR---P~DgRYGeNPNRlq~y~QfQVil----KPsP~-n~q~lyL~SL~~lgid~~~  106 (291)
T PRK09348         45 GPEPWNAAYVQPSRR---PTDGRYGENPNRLQHYYQFQVIL----KPSPD-NIQELYLGSLEALGIDPLE  106 (291)
T ss_pred             CCCCCCEEEECCCCC---CCCCCCCCCCHHHHHEEEEEEEE----CCCCC-CHHHHHHHHHHHHCCCCCC
T ss_conf             887640542134578---88775468912420105568997----78971-3999999999980889753


No 131
>pfam01411 tRNA-synt_2c tRNA synthetases class II (A). Other tRNA synthetase sub-families are too dissimilar to be included. This family includes only alanyl-tRNA synthetases.
Probab=52.47  E-value=16  Score=16.12  Aligned_cols=112  Identities=14%  Similarity=0.190  Sum_probs=65.4

Q ss_pred             HHHHHHHHHHHHCCCEEEEC-CCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHHCCCC-
Q ss_conf             99999999999859848016-5202288752026755433322168986999889998888389999999511205541-
Q gi|254780928|r   28 RILDSIRNIYENYGFDPIET-PLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDTIVFP-  105 (496)
Q Consensus        28 ~i~~~l~~~f~~~G~~~I~t-P~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~~~~p-  105 (496)
                      .|++.+.+.|+++|-..|.+ |++-..+.      +-..++.-|+.|.+-                  +....  .+.| 
T Consensus         1 eiR~~fl~fF~~~gH~~i~s~~lvp~~d~------~llft~Agm~~fkp~------------------~~g~~--~~pp~   54 (545)
T pfam01411         1 EIRQTFLDFFEKKGHTRVPSSPVVPRNDP------TLLFTNAGMNQFKPI------------------FLGGE--DKPPY   54 (545)
T ss_pred             CHHHHHHHHHHHCCCEEECCCCCCCCCCC------CEEEECCCCHHCHHH------------------HCCCC--CCCCC
T ss_conf             96899999998789888078670679999------814640460117376------------------54987--58998


Q ss_pred             HHHHHHHHHHCCC---CCC-CCCCCCCCCCCHHHHHCCC--HHHHHHHHHHHHHHH-HHCCCCCCCCEEEC
Q ss_conf             1233101333025---876-4442111110001210000--245788999999999-75188877711303
Q gi|254780928|r  106 CRTYRIGPVFRNE---KHG-PGRFRQFIQCDVDNVGSSA--ETADAEMCMMMADTL-EAVGIKRNDYHIGI  169 (496)
Q Consensus       106 ~k~yy~g~vfR~e---~p~-~Gr~REf~Q~g~eiiG~~~--~~~DaEii~l~~~~l-~~lgl~~~~~~I~i  169 (496)
                      -|+...+++.|-.   ..+ -||    +...||++|.-+  .+---|.|..+++.| +.|||+...+.+.+
T Consensus        55 ~~l~~~Q~CiR~~DidnVG~t~r----H~T~FEMlGn~SFg~YfK~eai~~a~e~lt~~l~i~~~~l~~t~  121 (545)
T pfam01411        55 NRAVNSQKCIRAGDLDNVGRTAR----HHTFFEMLGNFSFGDYFKEEAIEFAWELLTKELGLDPERLYVTV  121 (545)
T ss_pred             CCCCCCCCCEECCCHHHCCCCCC----CCHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCHHHEEEEE
T ss_conf             87244333244376543367777----53232203345156243789999999997656178866769998


No 132
>TIGR00455 apsK adenylylsulfate kinase; InterPro: IPR002891 Enzyme that catalyses the phosphorylation of adenylylsulphate to 3'-phosphoadenylylsulphate. This domain contains an ATP binding P-loop motif .; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity transferring phosphorus-containing groups, 0000103 sulfate assimilation.
Probab=52.46  E-value=16  Score=16.12  Aligned_cols=11  Identities=27%  Similarity=0.531  Sum_probs=5.9

Q ss_pred             HHHHHHHCCCC
Q ss_conf             99999751888
Q gi|254780928|r  151 MADTLEAVGIK  161 (496)
Q Consensus       151 ~~~~l~~lgl~  161 (496)
                      +.+-|.+.|+.
T Consensus        39 l~~~L~~~G~~   49 (187)
T TIGR00455        39 LEKKLEKKGYR   49 (187)
T ss_pred             HHHHHHHCCCE
T ss_conf             99999966974


No 133
>pfam03740 PdxJ Pyridoxal phosphate biosynthesis protein PdxJ. Members of this family belong to the PdxJ family that catalyses the condensation of 1-deoxy-d-xylulose-5-phosphate (DXP) and 1-amino-3-oxo-4-(phosphohydroxy)propan-2-one to form pyridoxine 5'-phosphate (PNP). This reaction is involved in de novo synthesis of pyridoxine (vitamin B6) and pyridoxal phosphate.
Probab=51.75  E-value=16  Score=16.05  Aligned_cols=16  Identities=19%  Similarity=0.210  Sum_probs=7.6

Q ss_pred             HHHHHHHHHHHHHCCC
Q ss_conf             9999999999875088
Q gi|254780928|r  269 FNELVVISELVRKSGY  284 (496)
Q Consensus       269 l~~l~~i~~~l~~~gv  284 (496)
                      ++.+....++....|+
T Consensus       171 l~~i~~aa~~A~~lGL  186 (239)
T pfam03740       171 LERLAAGAALAFDLGL  186 (239)
T ss_pred             HHHHHHHHHHHHHCCC
T ss_conf             9999999999987498


No 134
>COG4927 Predicted choloylglycine hydrolase [General function prediction only]
Probab=51.55  E-value=9.6  Score=17.49  Aligned_cols=25  Identities=40%  Similarity=0.678  Sum_probs=16.6

Q ss_pred             CCCCCCCCC-------CCCCCCCCCCEEEECC
Q ss_conf             232355211-------1234567742133110
Q gi|254780928|r  331 GGRYDGLVS-------RFKGQNVPATGFSIGI  355 (496)
Q Consensus       331 GGRYD~L~~-------~f~~~~~pavGfaigv  355 (496)
                      |||-|+.-+       .|++...|+-||++++
T Consensus       147 ~g~~DGmNE~GLa~g~tf~~~~~~~~GF~~~~  178 (336)
T COG4927         147 GGCVDGMNEEGLAAGITFGGGRSQGRGFSIIL  178 (336)
T ss_pred             ECCCCCCCCCCCEEEEEECCCCCCCCCEEEEE
T ss_conf             00113656213101566436765678736886


No 135
>TIGR01318 gltD_gamma_fam glutamate synthase, small subunit; InterPro: IPR006006    One pathway for the assimilation of ammonia and glutamate biosynthesis involves glutamate synthase (1.4.1.13 from EC) which transfers the amide group of glutamine to 2-oxoglutarate to yield two molecules of glutamate.  2 L-glutamate + NADP^+ = L-glutamine + 2-oxoglutarate + NADPH + H^+.    This model describes both glutatate synthase small subunit and closely related paralogs of unknown function from a number of gamma and alpha subdivision Proteobacteria, including Escherichia coli. ; GO: 0016639 oxidoreductase activity acting on the CH-NH2 group of donors NAD or NADP as acceptor, 0006537 glutamate biosynthetic process.
Probab=51.17  E-value=16  Score=15.99  Aligned_cols=98  Identities=12%  Similarity=0.259  Sum_probs=39.6

Q ss_pred             CCCCCCCCCCCCCCCCCC----EEEECCHHHHHHHHHCCCCCCCCCCCCE------EEEEEECCCHHHHHHHHHHHHHHH
Q ss_conf             323552111234567742----1331101689999973687766555771------489982697689999999999999
Q gi|254780928|r  332 GRYDGLVSRFKGQNVPAT----GFSIGISRLIVALKSLESSTNNIKEMGP------VLITTMDHDSDSLSKYQMYTQMLR  401 (496)
Q Consensus       332 GRYD~L~~~f~~~~~pav----Gfaigverl~~~l~~~~~~~~~~~~~~~------v~V~~~~~~~~~~~~~~~ia~~Lr  401 (496)
                      |-|-..-.-|-+++.|+|    -|=|.=.|.++-+.+.......+....|      --|.|++.++.. -+++.  +.+|
T Consensus       237 GTY~~~~ggLP~eDa~GV~~ALPFLianTr~lmGl~eyGrPiaGw~~~~P~~~~~Gk~VVVLGGGDTa-MDCvR--TaiR  313 (480)
T TIGR01318       237 GTYRSMRGGLPGEDAPGVLKALPFLIANTRQLMGLPEYGRPIAGWEPEEPLIDVEGKRVVVLGGGDTA-MDCVR--TAIR  313 (480)
T ss_pred             CCCCCCCCCCCCCCCCCHHHHHHHHHHCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCH-HHHHH--HHHH
T ss_conf             43343128778877421666424776615212378887774467776677423477668985888752-57889--9998


Q ss_pred             HCC--CEEEEEECCCCCH---HHHHHHHHHCCCCEEE
Q ss_conf             879--8399971899998---8999999877998999
Q gi|254780928|r  402 TAG--IRAEMFLGSSKNF---GNQLKYADRRNCPLAI  433 (496)
Q Consensus       402 ~~G--i~~e~~~~~~~sl---~~~~~~A~~~g~~~vi  433 (496)
                      ..=  +.| +|-.+-.|+   ++-.+.|...|+.|.=
T Consensus       314 ~GA~~VTC-~YRRDE~nMPGSrrEV~NAREEGV~F~F  349 (480)
T TIGR01318       314 LGAKKVTC-AYRRDEANMPGSRREVANAREEGVEFLF  349 (480)
T ss_pred             HCCCCCCE-EEECCCCCCCCCHHHHCCCHHCCCEEEE
T ss_conf             17761312-6653677878775552661111711321


No 136
>TIGR01162 purE phosphoribosylaminoimidazole carboxylase, catalytic subunit; InterPro: IPR000031   Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. PurK, N5-carboxyaminoimidazole ribonucleotide (N5_CAIR) synthetase, catalyzes the conversion of 5-aminoimidazole ribonucleotide (AIR), ATP, and bicarbonate to N5-CAIR, ADP, and Pi. PurE converts N5-CAIR to CAIR, the sixth step of de novo purine biosynthesis. In the presence of high concentrations of bicarbonate, PurE is reported able to convert AIR to CAIR directly and without ATP. Some members of this family contain two copies of this domain . The crystal structure of PurE indicates a unique quaternary structure that confirms the octameric nature of the enzyme .; GO: 0004638 phosphoribosylaminoimidazole carboxylase activity, 0006189 'de novo' IMP biosynthetic process, 0009320 phosphoribosylaminoimidazole carboxylase complex.
Probab=50.61  E-value=17  Score=15.93  Aligned_cols=26  Identities=31%  Similarity=0.466  Sum_probs=16.8

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCEEECC
Q ss_conf             45788999999999751888777113036
Q gi|254780928|r  142 TADAEMCMMMADTLEAVGIKRNDYHIGIN  170 (496)
Q Consensus       142 ~~DaEii~l~~~~l~~lgl~~~~~~I~in  170 (496)
                      .+|.++..=+.++|++||++   |.+++-
T Consensus         8 ~SD~~~m~~a~~~L~~fgi~---~e~~V~   33 (159)
T TIGR01162         8 DSDLETMKKAAEILEEFGIP---YELRVV   33 (159)
T ss_pred             CCCHHHHHHHHHHHHHCCCC---EEEEEE
T ss_conf             25478999999999855996---678986


No 137
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=50.36  E-value=17  Score=15.91  Aligned_cols=13  Identities=23%  Similarity=0.526  Sum_probs=4.7

Q ss_pred             HHHHHHCCCEEEE
Q ss_conf             9999985984801
Q gi|254780928|r   34 RNIYENYGFDPIE   46 (496)
Q Consensus        34 ~~~f~~~G~~~I~   46 (496)
                      ...|+..||+-+.
T Consensus        20 ~~~l~~~G~~V~~   32 (119)
T cd02067          20 ARALRDAGFEVID   32 (119)
T ss_pred             HHHHHHCCCEEEE
T ss_conf             9999978998998


No 138
>TIGR01719 euk_UDPppase uridine phosphorylase; InterPro: IPR010059   This entry represents a clade of mainly eukaryotic uridine phosphorylases. Genes from human  and mouse  have been characterised. This enzyme is a member of the PHP/UDP subfamily and is closely related to the bacterial uridine (IPR010058 from INTERPRO) and inosine (IPR004402 from INTERPRO) phosphorylase equivalogs. In addition to the eukaryotes, a gene from Mycobacterium leprae is included in this equivalog and may have resulted from lateral gene transfer.; GO: 0004850 uridine phosphorylase activity, 0009166 nucleotide catabolic process, 0005737 cytoplasm.
Probab=49.57  E-value=17  Score=15.83  Aligned_cols=76  Identities=16%  Similarity=0.276  Sum_probs=59.7

Q ss_pred             HHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCC-CEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCC
Q ss_conf             999999998798399971899998899999987799-8999988728748818997878883643311201443202335
Q gi|254780928|r  394 QMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNC-PLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVA  472 (496)
Q Consensus       394 ~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~-~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~  472 (496)
                      ....++|.++|+|- |...+  ++  --.+.++.|+ +.++|-         |+|=|.-.|+|.+.+.+-+.+|-+.   
T Consensus       224 ~a~L~~l~~~GVRN-IEMEs--~~--fA~~t~~~G~P~~A~VC---------VTLLNRL~GDQi~~~~~ql~e~e~R---  286 (301)
T TIGR01719       224 MAFLRKLDALGVRN-IEMES--SM--FASLTSRAGFPKAAVVC---------VTLLNRLEGDQITITKDQLHEFEER---  286 (301)
T ss_pred             HHHHHHHHHCCCCE-EHHHH--HH--HHHHHHHCCCCCCCEEE---------EEHHHCCCCCCCCCCHHHHHHHHCC---
T ss_conf             99999999678952-33889--99--99998625898410023---------2432337987011775553543016---


Q ss_pred             CEEECHHHHHHHHHHHHH
Q ss_conf             103079999999999998
Q gi|254780928|r  473 QITIPISELVSTVKKILQ  490 (496)
Q Consensus       473 q~~v~~~~l~~~~~~~l~  490 (496)
                          |..=+..|+||.|.
T Consensus       287 ----P~~lV~~Yikk~L~  300 (301)
T TIGR01719       287 ----PFRLVARYIKKSLL  300 (301)
T ss_pred             ----HHHHHHHHHHHHHC
T ss_conf             ----68999999998725


No 139
>cd02685 MIT_C MIT_C; domain found C-terminal to MIT (contained within Microtubule Interacting and Trafficking molecules) domains, as well as in some bacterial proteins. The function of this domain is unknown.
Probab=48.57  E-value=18  Score=15.77  Aligned_cols=24  Identities=17%  Similarity=0.188  Sum_probs=13.1

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCCCH
Q ss_conf             9999999999875088844300110
Q gi|254780928|r  269 FNELVVISELVRKSGYNSNRIKISS  293 (496)
Q Consensus       269 l~~l~~i~~~l~~~gv~~~~i~~Dl  293 (496)
                      .+.|.++-+.+...||.. .+.||.
T Consensus        70 ~~~L~~ik~sl~~~gI~~-~~~f~~   93 (148)
T cd02685          70 IEALEEIKQSLASHGVEF-TWEFSD   93 (148)
T ss_pred             HHHHHHHHHHHHHCCCEE-EEEECC
T ss_conf             999999999998659579-999778


No 140
>TIGR01825 gly_Cac_T_rel pyridoxal phosphate-dependent acyltransferase, putative; InterPro: IPR010962    Pyridoxal phosphate is the active form of vitamin B6 (pyridoxine or pyridoxal). PLP is a versatile catalyst, acting as a coenzyme in a multitude of reactions, including decarboxylation, deamination and transamination , , . PLP-dependent enzymes are primarily involved in the biosynthesis of amino acids and amino acid-derived metabolites, but they are also found in the biosynthetic pathways of amino sugars and in the synthesis or catabolism of neurotransmitters; pyridoxal phosphate can also inhibit DNA polymerases and several steroid receptors . Inadequate levels of pyridoxal phosphate in the brain can cause neurological dysfunction, particularly epilepsy .   PLP enzymes exist in their resting state as a Schiff base, the aldehyde group of PLP forming a linkage with the epsilon-amino group of an active site lysine residue on the enzyme. The alpha-amino group of the substrate displaces the lysine epsilon-amino group, in the process forming a new aldimine with the substrate. This aldimine is the common central intermediate for all PLP-catalyzed reactions, enzymatic and non-enzymatic .   This entry contains a number of enzyme families:  Serine palmitoyltransferase Glycine C-acetyltransferase (2-amino-3-ketobutyrate coenzyme A ligase) 5-aminolevulinic acid synthase 8-amino-7-oxononanoate synthase    All transfer the R-group (acetyl, succinyl, or 6-carboxyhexanoyl) from coenzyme A to an amino acid (Gly, Gly, Ala, respectively), with release of CO2 for the latter two reactions.; GO: 0016740 transferase activity, 0030170 pyridoxal phosphate binding.
Probab=48.18  E-value=3.6  Score=20.30  Aligned_cols=100  Identities=16%  Similarity=0.211  Sum_probs=57.8

Q ss_pred             EEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHH-----------CCCEE---------EE
Q ss_conf             13311016899999736877665557714899826976899999999999998-----------79839---------99
Q gi|254780928|r  350 GFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRT-----------AGIRA---------EM  409 (496)
Q Consensus       350 Gfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~-----------~Gi~~---------e~  409 (496)
                      |.+-|-..++..|+++..+.....+..|..|.++-.--+.+..--++..+||+           .|+..         -+
T Consensus       246 GY~AG~~~lidyL~~~aRPFLFSta~~Pa~~~A~~~Av~~l~~~~~l~~kLW~Nt~ylk~~L~~LGydl~~S~tPItPv~  325 (392)
T TIGR01825       246 GYVAGSKELIDYLKARARPFLFSTALPPAVVAALIEAVDVLQESPELMEKLWDNTRYLKAGLSKLGYDLGESETPITPVL  325 (392)
T ss_pred             CCCCCCHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCEE
T ss_conf             42348889999998628986012578807899999999987079314777678899999876761641147668612458


Q ss_pred             EECCCCCHHHHHHHHHH---C-CCCEEEEECHHHHHCCCEEEEECCCCC
Q ss_conf             71899998899999987---7-998999988728748818997878883
Q gi|254780928|r  410 FLGSSKNFGNQLKYADR---R-NCPLAIIQGTGERSRGMLQIKDLAKGK  454 (496)
Q Consensus       410 ~~~~~~sl~~~~~~A~~---~-g~~~viiig~~e~~~~~v~vK~l~~g~  454 (496)
                      ..+ . +.-+  ++.++   . ||=-.-|+=|. +-.|+-+|||+.|=+
T Consensus       326 ~Gd-e-~~A~--efS~rL~~~yGvFa~sivFPT-Vp~g~ARiR~~~tA~  369 (392)
T TIGR01825       326 IGD-E-KVAQ--EFSRRLLDEYGVFAQSIVFPT-VPRGTARIRNIPTAE  369 (392)
T ss_pred             ECC-C-HHHH--HHHHHHHHHCCEEEEEEECCC-CCCCCCCCCCCCCHH
T ss_conf             765-1-5689--999987775290899842165-669884212465613


No 141
>PRK07564 phosphoglucomutase; Validated
Probab=46.78  E-value=6.3  Score=18.67  Aligned_cols=11  Identities=36%  Similarity=0.564  Sum_probs=4.9

Q ss_pred             HHHHHHHHHCC
Q ss_conf             58999998325
Q gi|254780928|r  174 ILDGILEKIGL  184 (496)
Q Consensus       174 il~~il~~lgi  184 (496)
                      .+..+++.+|.
T Consensus       242 ~~~~il~~~g~  252 (544)
T PRK07564        242 YWKAIAERYGL  252 (544)
T ss_pred             HHHHHHHHCCC
T ss_conf             89999998199


No 142
>PRK13054 lipid kinase; Reviewed
Probab=46.47  E-value=19  Score=15.52  Aligned_cols=15  Identities=20%  Similarity=-0.183  Sum_probs=9.2

Q ss_pred             CCEEEECCCCHHHHH
Q ss_conf             988999888838999
Q gi|254780928|r   78 GQWISLRYDLTAPLA   92 (496)
Q Consensus        78 g~~l~LRpDlT~~~a   92 (496)
                      ...++.-=|.|+.-+
T Consensus        58 d~vv~~GGDGTv~ev   72 (299)
T PRK13054         58 ATVIAGGGDGTLNEV   72 (299)
T ss_pred             CEEEEECCCHHHHHH
T ss_conf             899998772299999


No 143
>TIGR02838 spore_V_AC stage V sporulation protein AC; InterPro: IPR014203   This entry describes stage V sporulation protein AC; a paralog of stage V sporulation protein AE. Both are proteins found to be present in a species, if and only if, that species is one of the Firmicutes capable of endospore formation, as of the time of the publication of the genome of Carboxydothermus hydrogenoformans. Mutants in spoVAC have a stage V sporulation defect..
Probab=45.99  E-value=5.6  Score=19.01  Aligned_cols=37  Identities=32%  Similarity=0.488  Sum_probs=25.4

Q ss_pred             EEECCC-CCCCCCCCCCC-CCCCCCCEEEECCHHHHHHHHH
Q ss_conf             110032-32355211123-4567742133110168999997
Q gi|254780928|r  326 GSVGGG-GRYDGLVSRFK-GQNVPATGFSIGISRLIVALKS  364 (496)
Q Consensus       326 ~aI~~G-GRYD~L~~~f~-~~~~pavGfaigverl~~~l~~  364 (496)
                      +|++-| |=||++...+| |--+|-+|||=.+-  -.|||+
T Consensus        64 ~alLTG~G~YDkia~~AGAG~~VPvTGFANam~--S~AlEh  102 (141)
T TIGR02838        64 SALLTGLGVYDKIAQFAGAGSIVPVTGFANAMV--SAALEH  102 (141)
T ss_pred             HHHHHCCCHHHHHHHHCCCCCCCCCCCCHHHHH--HHHHHH
T ss_conf             999715654766775618753146444237899--977742


No 144
>PRK02645 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=45.60  E-value=20  Score=15.44  Aligned_cols=17  Identities=12%  Similarity=0.141  Sum_probs=8.2

Q ss_pred             HHHHHHHHHHCCCEEEE
Q ss_conf             99999999985984801
Q gi|254780928|r   30 LDSIRNIYENYGFDPIE   46 (496)
Q Consensus        30 ~~~l~~~f~~~G~~~I~   46 (496)
                      ...+.+.++.+|.+-+.
T Consensus        21 a~~l~~~L~~rGi~v~~   37 (304)
T PRK02645         21 AERCAKQLEARGIKVLM   37 (304)
T ss_pred             HHHHHHHHHHCCCEEEE
T ss_conf             99999999988899998


No 145
>COG0013 AlaS Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=45.23  E-value=20  Score=15.40  Aligned_cols=29  Identities=24%  Similarity=0.480  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHHHHCCCEEEEC-CCHHHHH
Q ss_conf             9999999999999859848016-5202288
Q gi|254780928|r   26 RNRILDSIRNIYENYGFDPIET-PLLEYSD   54 (496)
Q Consensus        26 ~~~i~~~l~~~f~~~G~~~I~t-P~lE~~~   54 (496)
                      -..|.+.+.+.|+++|-..+.+ |++-..|
T Consensus         8 ~~EiR~~FL~FF~~kgH~~v~s~slVP~nD   37 (879)
T COG0013           8 TNEIRQKFLDFFEKKGHTVVPSSPLVPRND   37 (879)
T ss_pred             HHHHHHHHHHHHHHCCCEECCCCCCCCCCC
T ss_conf             999999999999877973457888678999


No 146
>pfam01812 5-FTHF_cyc-lig 5-formyltetrahydrofolate cyclo-ligase family. 5-formyltetrahydrofolate cyclo-ligase or methenyl-THF synthetase EC:6.3.3.2 catalyses the interchange of 5-formyltetrahydrofolate (5-FTHF) to 5-10-methenyltetrahydrofolate, this requires ATP and Mg2+. 5-FTHF is used in chemotherapy where it is clinically known as Leucovorin.
Probab=43.10  E-value=8.1  Score=17.97  Aligned_cols=26  Identities=31%  Similarity=0.663  Sum_probs=18.3

Q ss_pred             CCCCCCCCCCCCCCCCCCCCEEEECC
Q ss_conf             32323552111234567742133110
Q gi|254780928|r  330 GGGRYDGLVSRFKGQNVPATGFSIGI  355 (496)
Q Consensus       330 ~GGRYD~L~~~f~~~~~pavGfaigv  355 (496)
                      |||=||..++.+.+.....||.++..
T Consensus       136 GgGyYDR~L~~~~~~~~~~Igva~~~  161 (182)
T pfam01812       136 GGGYYDRYLARLQGHGPLTVGLAYDE  161 (182)
T ss_pred             CCCCHHHHHHHCCCCCCEEEEEEEHH
T ss_conf             87407789885545698399998202


No 147
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=42.87  E-value=22  Score=15.17  Aligned_cols=40  Identities=18%  Similarity=0.382  Sum_probs=17.6

Q ss_pred             HHHHHHHHHHHHHHCCCE--EEEEECCCCCHHHHHHHHHHCCCCE
Q ss_conf             999999999999987983--9997189999889999998779989
Q gi|254780928|r  389 SLSKYQMYTQMLRTAGIR--AEMFLGSSKNFGNQLKYADRRNCPL  431 (496)
Q Consensus       389 ~~~~~~~ia~~Lr~~Gi~--~e~~~~~~~sl~~~~~~A~~~g~~~  431 (496)
                      .+....++.+.||++|.+  +-+..+ +..+..  .+|...|+..
T Consensus       146 ~~~~~~~~i~~lr~~~~~~~v~i~vG-G~a~~~--~~a~~~GAD~  187 (201)
T cd02070         146 TMGGMKEVIEALKEAGLRDKVKVMVG-GAPVNQ--EFADEIGADG  187 (201)
T ss_pred             CHHHHHHHHHHHHHCCCCCCCEEEEE-CCCCCH--HHHHHHCCCE
T ss_conf             89999999999997289889859998-801799--9999929887


No 148
>PRK04164 hypothetical protein; Provisional
Probab=42.80  E-value=22  Score=15.16  Aligned_cols=65  Identities=18%  Similarity=0.187  Sum_probs=36.2

Q ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECC--------------CCCHHHHHHHHHHCCCCE-EEEECHH
Q ss_conf             5771489982697689999999999999879839997189--------------999889999998779989-9998872
Q gi|254780928|r  374 EMGPVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGS--------------SKNFGNQLKYADRRNCPL-AIIQGTG  438 (496)
Q Consensus       374 ~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~--------------~~sl~~~~~~A~~~g~~~-viiig~~  438 (496)
                      ....+.|-++..+.+     .++++.||++|+.|......              .|+.++.++..++..-.- ..+--++
T Consensus        89 AlG~v~v~Vit~~~~-----~~L~~~LRe~GfgVT~~~geG~~G~v~il~iv~~Rk~~~~l~~~i~~~dP~AFi~~~d~r  163 (183)
T PRK04164         89 AIGYITVRVITPEYE-----LELANELREAGYGVTSFDGEGRDGPRMVLFILTKRKREKELLKIIKELDPKAFIISYEPR  163 (183)
T ss_pred             ECCEEEEEEECCCCC-----HHHHHHHHHCCCCEEEEEEECCCCCEEEEEEEECCCCHHHHHHHHHHHCCCEEEEEECCE
T ss_conf             054499999858997-----799999998799769999762888589999994356589999999974998799997466


Q ss_pred             HHHCC
Q ss_conf             87488
Q gi|254780928|r  439 ERSRG  443 (496)
Q Consensus       439 e~~~~  443 (496)
                      ..+.|
T Consensus       164 ~~~gG  168 (183)
T PRK04164        164 SIHGG  168 (183)
T ss_pred             EEECC
T ss_conf             88877


No 149
>PRK12809 putative oxidoreductase Fe-S binding subunit; Reviewed
Probab=41.73  E-value=23  Score=15.06  Aligned_cols=63  Identities=6%  Similarity=-0.001  Sum_probs=34.7

Q ss_pred             EEEECCCHHHHHHHHHHHH-HHHHCCCEEEEEECCC----CCHHHHHHHHHHCCCCEEEEECHHHH---HCCCEE
Q ss_conf             9982697689999999999-9998798399971899----99889999998779989999887287---488189
Q gi|254780928|r  380 ITTMDHDSDSLSKYQMYTQ-MLRTAGIRAEMFLGSS----KNFGNQLKYADRRNCPLAIIQGTGER---SRGMLQ  446 (496)
Q Consensus       380 V~~~~~~~~~~~~~~~ia~-~Lr~~Gi~~e~~~~~~----~sl~~~~~~A~~~g~~~viiig~~e~---~~~~v~  446 (496)
                      |.++|.+..    |+..++ .+|.-.-.|.+.|..+    +.-.+-+.+|...|+.|..-..+.++   ++|+|+
T Consensus       454 VVVIGGGnt----AmDcaRTA~RlGA~~VtivYRR~~~eMPA~~~Ev~~A~EEGV~f~~~~~P~~i~~de~G~V~  524 (639)
T PRK12809        454 VVVLGGGDT----TMDCLRTSIRLNAASVTCAYRRDEVSMPGSRKEVVNAREEGVEFQFNVQPQYIACDEDGRLT  524 (639)
T ss_pred             EEEECCCCH----HHHHHHHHHHCCCCEEEECCCCCCCCCCCCCEECCCHHHCCEEEECCCCCEEEEECCCCEEE
T ss_conf             999899821----89999999983998775215477457999700301012187389827885799967986399


No 150
>PRK13337 putative lipid kinase; Reviewed
Probab=40.62  E-value=24  Score=14.95  Aligned_cols=72  Identities=13%  Similarity=0.057  Sum_probs=37.8

Q ss_pred             CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHH--HHHHHHCCCCCCCCCCCCEEEEECCCC
Q ss_conf             987658710379987658866899999999999999998598480165202--288752026755433322168986999
Q gi|254780928|r    1 MGKKTKLRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLE--YSDSLGKFLPDEDRPNKGVFSLQDDDG   78 (496)
Q Consensus         1 m~k~~~~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE--~~~~~~~~~~~~~~~~k~~y~f~D~~g   78 (496)
                      |-|+..+...+-.|-.        ..++....+.+.++.+|++....++=.  +...+.+...            .+.-.
T Consensus         1 mmkr~~~I~NP~sG~g--------~~~~~~~~i~~~l~~~g~~~~~~~T~~~g~a~~~a~~~~------------~~~~d   60 (305)
T PRK13337          1 MMKRARIIYNPTSGRE--------LFKKNLPDVLQKLEQAGYETSAHATTGPGDATLAARQAA------------ERNFD   60 (305)
T ss_pred             CCCEEEEEECCCCCCC--------CHHHHHHHHHHHHHHCCCEEEEEEECCHHHHHHHHHHHH------------HCCCC
T ss_conf             9845999999756886--------467789999999998799699998278028999999987------------77999


Q ss_pred             CEEEECCCCHHHHH
Q ss_conf             88999888838999
Q gi|254780928|r   79 QWISLRYDLTAPLA   92 (496)
Q Consensus        79 ~~l~LRpDlT~~~a   92 (496)
                      ..++.-=|.|+.-+
T Consensus        61 ~vv~~GGDGTv~ev   74 (305)
T PRK13337         61 LVIAAGGDGTLNEV   74 (305)
T ss_pred             EEEEEECCHHHHHH
T ss_conf             89999576289999


No 151
>PRK12775 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional
Probab=39.34  E-value=25  Score=14.82  Aligned_cols=71  Identities=10%  Similarity=0.178  Sum_probs=42.1

Q ss_pred             EEEECCCHHHHHHHHHHHHHHHHCCC-EEEEEECCCC----CHHHHHHHHHHCCCCEEEEECHHHH---HCCC---EEEE
Q ss_conf             99826976899999999999998798-3999718999----9889999998779989999887287---4881---8997
Q gi|254780928|r  380 ITTMDHDSDSLSKYQMYTQMLRTAGI-RAEMFLGSSK----NFGNQLKYADRRNCPLAIIQGTGER---SRGM---LQIK  448 (496)
Q Consensus       380 V~~~~~~~~~~~~~~~ia~~Lr~~Gi-~~e~~~~~~~----sl~~~~~~A~~~g~~~viiig~~e~---~~~~---v~vK  448 (496)
                      |.+++.+.    .|+..|+.-.+.|- .|.+.|..++    .-..-+..|...|+.|.....+-+.   ++|.   |++-
T Consensus       576 VvVIGGGN----TAMDaARTA~RLGAe~VtivYRRte~EMPA~~eEV~~A~EEGV~F~fL~~Pveiigde~G~V~gv~~~  651 (993)
T PRK12775        576 VVVIGAGN----TAMDCLRVARRLGAATVRCVYRRSEAEAPARIEEIRHAKEEGVDFFFLHSPVEILVTEEGSVRAVRLQ  651 (993)
T ss_pred             EEEECCCH----HHHHHHHHHHHCCCCEEEEEEECCHHHCCCCHHHHHHHHHCCCEEEECCCCCEEEECCCCEEEEEEEE
T ss_conf             99989943----69998899997699867999968856389889999879865939996269716786588639899999


Q ss_pred             ECCCCC
Q ss_conf             878883
Q gi|254780928|r  449 DLAKGK  454 (496)
Q Consensus       449 ~l~~g~  454 (496)
                      .|+-|+
T Consensus       652 kMeLGE  657 (993)
T PRK12775        652 KMELGE  657 (993)
T ss_pred             EEECCC
T ss_conf             816679


No 152
>PRK04452 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional
Probab=38.94  E-value=22  Score=15.14  Aligned_cols=33  Identities=33%  Similarity=0.399  Sum_probs=24.3

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCCCHHH---CCCCCC
Q ss_conf             999999999987508884430011010---012212
Q gi|254780928|r  269 FNELVVISELVRKSGYNSNRIKISSTI---VRGLEY  301 (496)
Q Consensus       269 l~~l~~i~~~l~~~gv~~~~i~~Dl~l---vRgLdY  301 (496)
                      ++-++++.-.+.++|++.+.|.+||+.   ..|++|
T Consensus       186 iNlaKqLNi~l~e~Gv~~e~IVmDP~t~alGYGlEy  221 (322)
T PRK04452        186 INLAKQLNILLMKLGLPRERIVMDPTTGALGYGLEY  221 (322)
T ss_pred             HHHHHHHHHHHHHCCCCHHHEEECCCCCCCCCCHHH
T ss_conf             788999999999849986767787775445764677


No 153
>pfam03664 Glyco_hydro_62 Glycosyl hydrolase family 62. Family of alpha -L-arabinofuranosidase (EC 3.2.1.55). This enzyme hydrolysed aryl alpha-L-arabinofuranosides and cleaves arabinosyl side chains from arabinoxylan and arabinan.
Probab=38.93  E-value=18  Score=15.79  Aligned_cols=33  Identities=24%  Similarity=0.471  Sum_probs=20.9

Q ss_pred             CEEEEEEECCCCCCCCCCCCCEEEECCCCCCCC
Q ss_conf             124899854666776766631011003232355
Q gi|254780928|r  304 GCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDG  336 (496)
Q Consensus       304 G~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~  336 (496)
                      .-.||+.--....+..+-...+.+|++||||=.
T Consensus       183 ~nLFEA~~VYkv~G~nqYLmiVEAiGs~gRyFR  215 (271)
T pfam03664       183 NNLFEAVQVYTVDGQNKYLMIVEAYGSGGRYFR  215 (271)
T ss_pred             CCEEEEEEEEEECCCCEEEEEEEEECCCCCEEE
T ss_conf             556454467997589748999999437985787


No 154
>PRK00439 leuD 3-isopropylmalate dehydratase small subunit; Reviewed
Probab=38.68  E-value=25  Score=14.75  Aligned_cols=46  Identities=20%  Similarity=0.205  Sum_probs=27.7

Q ss_pred             HHHHHHHHHCCCEEEEEECCCCCHHHHHH-HHHHCCCCEEEEECHHHHHCC
Q ss_conf             99999999879839997189999889999-998779989999887287488
Q gi|254780928|r  394 QMYTQMLRTAGIRAEMFLGSSKNFGNQLK-YADRRNCPLAIIQGTGERSRG  443 (496)
Q Consensus       394 ~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~-~A~~~g~~~viiig~~e~~~~  443 (496)
                      ...+..|+..||++.+.    +|+...+. .|-..|.|.+..-.-++++.|
T Consensus        65 E~A~~al~~~Gi~~VIA----~SFa~If~rN~in~Gl~~i~~~~~~~i~~g  111 (163)
T PRK00439         65 EHAPLALKAAGVSAVIA----KSFARIFFRNAINIGLPVLECPEADKIEDG  111 (163)
T ss_pred             HHHHHHHHHCCCCEEEE----HHHHHHHHHHHHHCCCCEEECCCHHHCCCC
T ss_conf             99999999859879985----237899983288779956805656544689


No 155
>COG4038 Predicted membrane protein [Function unknown]
Probab=38.29  E-value=10  Score=17.33  Aligned_cols=29  Identities=28%  Similarity=0.520  Sum_probs=23.1

Q ss_pred             CEEEECCCCCCCCCCCCCCCCCCCCCEEEE
Q ss_conf             101100323235521112345677421331
Q gi|254780928|r  324 VFGSVGGGGRYDGLVSRFKGQNVPATGFSI  353 (496)
Q Consensus       324 ~~~aI~~GGRYD~L~~~f~~~~~pavGfai  353 (496)
                      .+++.+|-||-|-.+.++ +-++|+||.|+
T Consensus        19 s~~~~~gp~~~dpiv~~L-N~EiPtvGVSL   47 (87)
T COG4038          19 TLGAAIGPARSDPVVKSL-NLELPTVGVSL   47 (87)
T ss_pred             HHHHHCCCCCCCCHHHHH-CCCCCCCEEEE
T ss_conf             777601886567488886-26777430231


No 156
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=35.54  E-value=28  Score=14.44  Aligned_cols=11  Identities=9%  Similarity=0.323  Sum_probs=4.9

Q ss_pred             HHHHHHCCCEE
Q ss_conf             99999879839
Q gi|254780928|r  397 TQMLRTAGIRA  407 (496)
Q Consensus       397 a~~Lr~~Gi~~  407 (496)
                      ...|++.|+.+
T Consensus       105 ~~~L~~~Gv~~  115 (137)
T PRK02261        105 EKKFKEMGFDR  115 (137)
T ss_pred             HHHHHHCCCCE
T ss_conf             99999779798


No 157
>TIGR02861 SASP_H small acid-soluble spore protein, H-type; InterPro: IPR012610   This family consists of the small acid-soluble spore proteins (SASP) of the H type (sspH). SspH are unique to spores of Bacillus subtilis and are expressed only in the forespore compartment during sporulation of this organism. The sspH genes are monocistronic and are recognised by the forespore-specific sigma factor for RNA polymerase - sigma-G. The specific role of this protein is unclear but is thought to play a role in sporulation under conditions different from that of the common laboratory tests of spore properties .; GO: 0030436 sporulation (sensu Bacteria), 0042601 endospore-forming forespore.
Probab=35.43  E-value=29  Score=14.42  Aligned_cols=53  Identities=17%  Similarity=0.219  Sum_probs=37.2

Q ss_pred             HHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECC-CCCEEEEECCCHHH
Q ss_conf             9999987983999718999988999999877998999988728748818997878-88364331120144
Q gi|254780928|r  397 TQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLA-KGKELSREIKNNES  465 (496)
Q Consensus       397 a~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~-~g~q~~~~~~~~~~  465 (496)
                      |++|-++...++++|...               | |+|=--|.-++|+.+|+.|. +|++..+++.+++|
T Consensus         6 Akei~~S~~~~~V~Y~g~---------------P-V~I~~VDte~~~~A~i~~l~np~~~~~Vpv~~L~E   59 (59)
T TIGR02861         6 AKEIAESKEMINVTYKGV---------------P-VYIEHVDTEQSGTARIYSLDNPGKEQDVPVNSLEE   59 (59)
T ss_pred             HHHHHCCCCCCCEEECCC---------------E-EEEEEECCCCCCCEEEEECCCCCCEEEEECCCCCC
T ss_conf             888761787011566696---------------4-79875358989716887528999789740222369


No 158
>TIGR00216 ispH_lytB 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; InterPro: IPR003451   Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants .    LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood . Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response .; GO: 0019288 isopentenyl diphosphate biosynthetic process mevalonate-independent pathway.
Probab=34.87  E-value=29  Score=14.37  Aligned_cols=13  Identities=23%  Similarity=0.455  Sum_probs=7.6

Q ss_pred             HHHHHHHHHH--HCC
Q ss_conf             9999999997--518
Q gi|254780928|r  147 MCMMMADTLE--AVG  159 (496)
Q Consensus       147 ii~l~~~~l~--~lg  159 (496)
                      .|.++.++++  ..|
T Consensus        17 Ai~~ae~~~~d~~~g   31 (354)
T TIGR00216        17 AIQMAEEALKDKELG   31 (354)
T ss_pred             HHHHHHHHHHCCCCC
T ss_conf             999999998601278


No 159
>TIGR00326 eubact_ribD riboflavin biosynthesis protein RibD; InterPro: IPR004794   This entry describes the riboflavin biosynthesis protein (ribD) as found in Escherichia coli. The N-terminal domain includes the conserved zinc-binding site region that is shared by proteins such as cytosine deaminase, mammalian apolipoprotein B mRNA editing protein, blasticidin-S deaminase, and Bacillus subtilis competence protein comEB. The C-terminal domain is homologous to the full length of yeast HTP reductase, a protein required for riboflavin biosynthesis. A number of archaeal proteins that may be related to the riboflavin biosynthesis protein contain only the C-terminal domain.; GO: 0008703 5-amino-6-(5-phosphoribosylamino)uracil reductase activity, 0008835 diaminohydroxyphosphoribosylaminopyrimidine deaminase activity, 0009231 riboflavin biosynthetic process.
Probab=33.94  E-value=22  Score=15.18  Aligned_cols=31  Identities=13%  Similarity=0.178  Sum_probs=21.5

Q ss_pred             HHHHHHHHHHCCCEEEEEECCCCCHHHHHHHH
Q ss_conf             99999999987983999718999988999999
Q gi|254780928|r  393 YQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYA  424 (496)
Q Consensus       393 ~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A  424 (496)
                      ..++..+||+.+|+. +++..+..|-..|..+
T Consensus       305 ~~~~~~~L~~r~~~~-v~vEgG~~l~~~f~~~  335 (393)
T TIGR00326       305 IEEVMEQLGKRGINS-VLVEGGPNLLGSFIDE  335 (393)
T ss_pred             HHHHHHHHHHCCCCE-EEEECHHHHHHHHHHC
T ss_conf             899999987447548-9872158999999745


No 160
>PRK03372 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=33.86  E-value=30  Score=14.26  Aligned_cols=27  Identities=4%  Similarity=0.067  Sum_probs=12.1

Q ss_pred             HHHHHHHHHHHCCCCCCCCEEECCCCHHHH
Q ss_conf             999999999751888777113036605589
Q gi|254780928|r  147 MCMMMADTLEAVGIKRNDYHIGINNRKILD  176 (496)
Q Consensus       147 ii~l~~~~l~~lgl~~~~~~I~in~~~il~  176 (496)
                      ++..+ +.+...+++  =+-|++||.++|-
T Consensus        82 ~L~aa-r~~~~~~iP--ilGiN~G~lGFLt  108 (303)
T PRK03372         82 FLRAA-ELARNADVP--VLGVNLGHVGFLA  108 (303)
T ss_pred             HHHHH-HHHCCCCCC--EEEEECCCCEEEC
T ss_conf             99999-984447998--8987259821312


No 161
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=33.05  E-value=31  Score=14.18  Aligned_cols=25  Identities=12%  Similarity=0.228  Sum_probs=11.7

Q ss_pred             HHHHHHCCCEEEEEECCCCCHHHHHHH
Q ss_conf             999998798399971899998899999
Q gi|254780928|r  397 TQMLRTAGIRAEMFLGSSKNFGNQLKY  423 (496)
Q Consensus       397 a~~Lr~~Gi~~e~~~~~~~sl~~~~~~  423 (496)
                      ...|++.|+..-+-++  .++.....+
T Consensus        95 ~~~l~~~Gv~~vf~pg--t~~~~iv~~  119 (122)
T cd02071          95 YELLKEMGVAEIFGPG--TSIEEIIDK  119 (122)
T ss_pred             HHHHHHCCCCEEECCC--CCHHHHHHH
T ss_conf             9999977998898958--899999999


No 162
>pfam06506 PrpR_N Propionate catabolism activator. This domain is found at the N terminus of several sigma54- dependent transcriptional activators including PrpR, which activates catabolism of propionate.
Probab=33.02  E-value=31  Score=14.18  Aligned_cols=42  Identities=14%  Similarity=0.219  Sum_probs=27.7

Q ss_pred             HHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHH
Q ss_conf             999999999998798399971899998899999987799899998872
Q gi|254780928|r  391 SKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTG  438 (496)
Q Consensus       391 ~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~  438 (496)
                      .++.....+|.+.|+.+-+  +..  +  ..++|.+.|++.+++-..+
T Consensus       110 ~e~~~~i~~l~~~G~~vvV--G~~--~--~~~~A~~~Gl~~vli~sg~  151 (169)
T pfam06506       110 EEARAAVKELKAQGIKVIV--GDG--L--VCDLAEQAGLQGVLIYSGK  151 (169)
T ss_pred             HHHHHHHHHHHHCCCEEEE--CCC--H--HHHHHHHCCCCEEEEECCH
T ss_conf             9999999999986995998--582--8--9999998399579996678


No 163
>pfam05211 NLBH Neuraminyllactose-binding hemagglutinin precursor (NLBH). This family is comprised of several flagellar sheath adhesin proteins also called neuraminyllactose-binding hemagglutinin precursor (NLBH) or N-acetylneuraminyllactose-binding fibrillar hemagglutinin receptor-binding subunits. NLBH is found exclusively in Helicobacter which are gut colonising bacteria and bind to sialic acid rich macromolecules present on the gastric epithelium.
Probab=33.01  E-value=31  Score=14.17  Aligned_cols=64  Identities=20%  Similarity=0.314  Sum_probs=42.5

Q ss_pred             CCCCCHHHHH--HHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCH
Q ss_conf             7658866899--9999999999999985984801652022887520267554333221689869998899988883
Q gi|254780928|r   15 FADCPTKEIR--IRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLT   88 (496)
Q Consensus        15 ~~D~~p~~~~--~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT   88 (496)
                      +.|-+|.++.  ....+...+..+|++.||+-+...   ..+-|.    .  ...+..|...|-+|. +++++|+-
T Consensus        45 ~sdni~k~Y~~kF~n~l~~qi~~ilek~GY~v~~fk---D~~~l~----~--~~Kkk~~lvL~m~G~-v~ileD~k  110 (228)
T pfam05211        45 YSDNIAKEYENKFKNQLTLQVEEILENQGYKVINFS---DKDDFS----F--AQKKKGYLVLAMNGE-VVILEDPK  110 (228)
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEEEC---CHHHCC----H--HHHHHHEEEEECCCC-EEEECCHH
T ss_conf             112336789999999999999999985693577624---522236----6--765310689962574-88712636


No 164
>cd03085 PGM1 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction, G-1-P produced from sucrose catabolism is converted to G-6-P, the first intermediate in glycolysis. In the other direction, conversion of G-6-P to G-1-P generates a substrate for synthesis of UDP-glucose which is required for synthesis of a variety of cellular constituents including cell wall polymers and glycoproteins. The PGM1 family also includes a non-enzymatic PGM-related protein (PGM-RP) thought to play a structural role in eukaryotes, as well as pp63/parafusin, a phosphoglycoprotein that plays an important role in calcium-regulated exocytosis in ciliated protozoans. PGM1 belongs to the alpha-D-phosphohexomutase superfamily which includes several related enzymes that catalyze a reversible intramolecular phosphoryl t
Probab=32.64  E-value=21  Score=15.30  Aligned_cols=12  Identities=25%  Similarity=0.210  Sum_probs=6.4

Q ss_pred             HHHHHHHHCCCE
Q ss_conf             999999985984
Q gi|254780928|r   32 SIRNIYENYGFD   43 (496)
Q Consensus        32 ~l~~~f~~~G~~   43 (496)
                      ...++|-.+|+.
T Consensus        68 ~~A~VlaanGi~   79 (548)
T cd03085          68 IIIKIAAANGVG   79 (548)
T ss_pred             HHHHHHHHCCCE
T ss_conf             999999878997


No 165
>cd01645 RT_Rtv RT_Rtv: Reverse transcriptases (RTs) from retroviruses (Rtvs). RTs catalyze the conversion of single-stranded RNA into double-stranded viral DNA for integration into host chromosomes. Proteins in this subfamily contain long terminal repeats (LTRs) and are multifunctional enzymes with RNA-directed DNA polymerase, DNA directed DNA polymerase, and ribonuclease hybrid (RNase H) activities. The viral RNA genome enters the cytoplasm as part of a nucleoprotein complex, and the process of reverse transcription generates in the cytoplasm forming a linear DNA duplex via an intricate series of steps. This duplex DNA is colinear with its RNA template, but contains terminal duplications known as LTRs that are not present in viral RNA. It has been proposed that two specialized template switches, known as strand-transfer reactions or "jumps", are required to generate the LTRs.
Probab=32.43  E-value=32  Score=14.11  Aligned_cols=77  Identities=14%  Similarity=0.081  Sum_probs=40.2

Q ss_pred             ECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCC-HHHHHHHHHHHHHHHHCCCE
Q ss_conf             00323235521112345677421331101689999973687766555771489982697-68999999999999987983
Q gi|254780928|r  328 VGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHD-SDSLSKYQMYTQMLRTAGIR  406 (496)
Q Consensus       328 I~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~-~~~~~~~~~ia~~Lr~~Gi~  406 (496)
                      ...||+|--.+--||-++-||+ |.=-+++++.-+........-..-..++  ++.+.+ ++......++.+.|+++|+.
T Consensus       118 ~t~~g~y~~~vlPfGl~naPa~-Fqr~m~~~L~~~~~~~~~~~~~~Y~DDI--lI~s~t~eeh~~~l~~vl~~L~~~gl~  194 (213)
T cd01645         118 KGPAKRYQWKVLPQGMKNSPTI-CQSFVAQALEPFRKQYPDIVIYHYMDDI--LIASDLEGQLREIYEELRQTLLRWGLT  194 (213)
T ss_pred             CCCCEEEEEEEECCCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEEEEEE--EEECCCHHHHHHHHHHHHHHHHHCCCC
T ss_conf             7887058998517634586899-9999999999988638864899984248--995199999999999999999997785


Q ss_pred             E
Q ss_conf             9
Q gi|254780928|r  407 A  407 (496)
Q Consensus       407 ~  407 (496)
                      +
T Consensus       195 l  195 (213)
T cd01645         195 I  195 (213)
T ss_pred             C
T ss_conf             3


No 166
>PRK12769 putative oxidoreductase Fe-S binding subunit; Reviewed
Probab=31.90  E-value=33  Score=14.06  Aligned_cols=62  Identities=6%  Similarity=0.030  Sum_probs=37.5

Q ss_pred             EEEECCCHHHHHHHHHHHHHHHHCCC-EEEEEECCCC----CHHHHHHHHHHCCCCEEEEECHHHH---HCCCE
Q ss_conf             99826976899999999999998798-3999718999----9889999998779989999887287---48818
Q gi|254780928|r  380 ITTMDHDSDSLSKYQMYTQMLRTAGI-RAEMFLGSSK----NFGNQLKYADRRNCPLAIIQGTGER---SRGML  445 (496)
Q Consensus       380 V~~~~~~~~~~~~~~~ia~~Lr~~Gi-~~e~~~~~~~----sl~~~~~~A~~~g~~~viiig~~e~---~~~~v  445 (496)
                      |.+++.+.    .|+..++.....|- .|.+.|..++    .-..-++.|...|+.|..-..+.++   ++|+|
T Consensus       471 VvVIGGGn----tAmDcaRtA~RlGA~~Vt~vYRR~~~eMPA~~~Ev~~A~EEGV~f~~~~~P~ei~~de~G~V  540 (654)
T PRK12769        471 VVVLGGGD----TAMDCVRTALRHGASNVTCAYRRDEANMPGSKKEVKNAREEGANFEFNVQPVALVLDEQGHV  540 (654)
T ss_pred             EEEECCCH----HHHHHHHHHHHCCCCEEEECCCCCCCCCCCCHHHHHHHHHCCCEEEECCCCEEEEECCCCEE
T ss_conf             89988872----46999999997599836604546723499875665578856878994468579997799729


No 167
>TIGR00888 guaA_Nterm GMP synthase, N-terminal domain; InterPro: IPR004739   The N-terminal region of GMP synthase 6.3.5.2 from EC is recognised by this signature. GMP synthase catalyzes the synthesis of GMP from XMP , .  ATP + xanthosine 5'-phosphate + L-glutamine + H(2)O = AMP + diphosphate + GMP + L-glutamate ; GO: 0003922 GMP synthase (glutamine-hydrolyzing) activity, 0005524 ATP binding, 0006177 GMP biosynthetic process.
Probab=31.60  E-value=16  Score=15.99  Aligned_cols=14  Identities=29%  Similarity=0.645  Sum_probs=8.3

Q ss_pred             CCCCCEEEECCHHH
Q ss_conf             67742133110168
Q gi|254780928|r  345 NVPATGFSIGISRL  358 (496)
Q Consensus       345 ~~pavGfaigverl  358 (496)
                      ++|-.|+..|+=-+
T Consensus        70 gVPvLGICYG~Ql~   83 (195)
T TIGR00888        70 GVPVLGICYGMQLM   83 (195)
T ss_pred             CCCEEEEEHHHHHH
T ss_conf             99688762457899


No 168
>COG0752 GlyQ Glycyl-tRNA synthetase, alpha subunit [Translation, ribosomal structure and biogenesis]
Probab=31.46  E-value=33  Score=14.01  Aligned_cols=54  Identities=22%  Similarity=0.279  Sum_probs=35.4

Q ss_pred             CCCCHHHHHHHHHHCCCCCCCCCCCC-------CCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             55411233101333025876444211-------111000121000024578899999999975188877
Q gi|254780928|r  102 IVFPCRTYRIGPVFRNEKHGPGRFRQ-------FIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRN  163 (496)
Q Consensus       102 ~~~p~k~yy~g~vfR~e~p~~Gr~RE-------f~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~  163 (496)
                      .+.|.+..|+++.=   ||+.|||-|       +||+-+=+=    +.+| -+-.+..+.|+.||+...
T Consensus        48 GpePw~aAYVqPSR---RP~DGRYGenPNRlq~yyQfQVilK----PsP~-NiQeLYL~SL~~lGid~~  108 (298)
T COG0752          48 GPEPWNAAYVQPSR---RPTDGRYGENPNRLQHYYQFQVIIK----PSPD-NIQELYLGSLEALGIDPL  108 (298)
T ss_pred             CCCCCCEEEECCCC---CCCCCCCCCCCHHHHHHEEEEEEEC----CCCC-CHHHHHHHHHHHCCCCHH
T ss_conf             99764100105677---9988877889266523315789955----8971-189999988998099901


No 169
>TIGR02016 BchX chlorophyllide reductase iron protein subunit X; InterPro: IPR010246   This entry represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase , . This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or 'iron' protein.; GO: 0005524 ATP binding, 0016628 oxidoreductase activity acting on the CH-CH group of donors NAD or NADP as acceptor, 0051539 4 iron 4 sulfur cluster binding, 0015979 photosynthesis, 0030494 bacteriochlorophyll biosynthetic process.
Probab=31.32  E-value=33  Score=13.99  Aligned_cols=91  Identities=15%  Similarity=0.218  Sum_probs=56.9

Q ss_pred             EEEEECCCHHHHHHHHHHHH---HHHHCCCEEE-----EEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEEC
Q ss_conf             89982697689999999999---9998798399-----971899998899999987799899998872874881899787
Q gi|254780928|r  379 LITTMDHDSDSLSKYQMYTQ---MLRTAGIRAE-----MFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDL  450 (496)
Q Consensus       379 ~V~~~~~~~~~~~~~~~ia~---~Lr~~Gi~~e-----~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l  450 (496)
                      +|++.+.|.+++-.+.+|++   --|+-|=++-     ++-+++.  +.+-+||.+.|+|.+.-|=-++      ++|||
T Consensus       153 Vi~~~sNDrQSly~aNNic~A~~YFr~~GGr~~llGlvvNrDDGs--G~A~~fA~~~gipvLa~iP~d~------~~Rdm  224 (355)
T TIGR02016       153 VIVVTSNDRQSLYVANNICSAAEYFRKLGGRSKLLGLVVNRDDGS--GVAEAFAKEVGIPVLAKIPLDR------KVRDM  224 (355)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHHHCCCCEEEEEEEEECCCCC--CHHHHHHHHCCCCEEEECCCCC------HHCCH
T ss_conf             377613743688888669889999986188604678898646887--1898989870993475267650------01000


Q ss_pred             CCCCEEEEECCCHHHHHHCCCCCEEECHHHHHHHHHHH
Q ss_conf             88836433112014432023351030799999999999
Q gi|254780928|r  451 AKGKELSREIKNNESWREARVAQITIPISELVSTVKKI  488 (496)
Q Consensus       451 ~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~~~  488 (496)
                      ...=.-++.+-+..           -|..+|+..+..-
T Consensus       225 ddsfdfaiklPevG-----------eP~K~lA~~i~~~  251 (355)
T TIGR02016       225 DDSFDFAIKLPEVG-----------EPFKELADDILLA  251 (355)
T ss_pred             HCCCHHEEECCCCC-----------CHHHHHHHHHHHH
T ss_conf             00001202067667-----------6478999999974


No 170
>PRK04165 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional
Probab=31.20  E-value=33  Score=13.98  Aligned_cols=96  Identities=18%  Similarity=0.214  Sum_probs=41.2

Q ss_pred             CCCEEEECCCCH----HHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHH
Q ss_conf             998899988883----8999999951120554112331013330258764442111110001210000245788999999
Q gi|254780928|r   77 DGQWISLRYDLT----APLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMA  152 (496)
Q Consensus        77 ~g~~l~LRpDlT----~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~  152 (496)
                      ||+.+--|.|.|    .++|=.+...+.+...-.|.-.+ +-|+++|.+     |+  .-+|.+-..+...|.|-...+.
T Consensus        76 GgE~Vl~RHektF~npt~~av~v~D~m~e~ei~~r~~~i-~~~~~~rvG-----~~--l~~d~vAvr~~s~d~~~fa~~v  147 (454)
T PRK04165         76 GGETVLYRHEKTFFNPTGIAVDVSDTMSEEEIDERLKEI-NNFQFERVG-----EI--LKLDAVALRNVSGDPEKFAKAV  147 (454)
T ss_pred             CCCEEEEECCEEEECCCCEEEEECCCCCHHHHHHHHHHH-HHCEEEEEC-----CE--EEEEEEEEECCCCCHHHHHHHH
T ss_conf             781689960101007982699933777789999999986-512567723-----41--1520899991789989999999


Q ss_pred             HHHH-HCCCCCCCCEEECCCCHHHHHHHHHHC
Q ss_conf             9997-518887771130366055899999832
Q gi|254780928|r  153 DTLE-AVGIKRNDYHIGINNRKILDGILEKIG  183 (496)
Q Consensus       153 ~~l~-~lgl~~~~~~I~in~~~il~~il~~lg  183 (496)
                      +... ..+++   +.+---+...+++-++.++
T Consensus       148 k~va~~~~~p---liL~s~dp~vl~aaL~~~~  176 (454)
T PRK04165        148 KKVAETTELP---LILCSFDPAVLKAALEVVA  176 (454)
T ss_pred             HHHHHHCCCC---EEEEECCHHHHHHHHHHHC
T ss_conf             9997216997---7998389999999999745


No 171
>pfam02780 Transketolase_C Transketolase, C-terminal domain. The C-terminal domain of transketolase has been proposed as a regulatory molecule binding site.
Probab=30.28  E-value=35  Score=13.88  Aligned_cols=56  Identities=18%  Similarity=0.184  Sum_probs=31.4

Q ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEE-ECCCCCHHH--HHHHHHHCCCCEEEEE
Q ss_conf             771489982697689999999999999879839997-189999889--9999987799899998
Q gi|254780928|r  375 MGPVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMF-LGSSKNFGN--QLKYADRRNCPLAIIQ  435 (496)
Q Consensus       375 ~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~-~~~~~sl~~--~~~~A~~~g~~~viii  435 (496)
                      ..++.|++.+   .....+++.++.|.+.||.+++. +..-+.+..  ..+.+.  ....++++
T Consensus         9 G~di~ii~~G---~~~~~al~aa~~L~~~gi~~~vid~~~ikPlD~~~i~~~~~--~~~~vvtv   67 (124)
T pfam02780         9 GDDVTIVAYG---SMVHEALEAAEELAAEGISAEVIDLRTVKPLDEDTILESVK--KTGRLVVV   67 (124)
T ss_pred             CCCEEEEECC---HHHHHHHHHHHHHHHCCCCEEEEEEEEECCCCHHHHHHHHH--CCCCEEEE
T ss_conf             8979999847---89999999999987759856997423643667899999873--34868998


No 172
>pfam04953 consensus
Probab=29.93  E-value=35  Score=13.84  Aligned_cols=52  Identities=19%  Similarity=0.279  Sum_probs=35.8

Q ss_pred             HHHHHHHHHHHHCCCCCCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHH
Q ss_conf             8999999999751888777113036605589999983256035643345553332200128967
Q gi|254780928|r  146 EMCMMMADTLEAVGIKRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQ  209 (496)
Q Consensus       146 Eii~l~~~~l~~lgl~~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~  209 (496)
                      .|-.++.+.|..+|+.  +..|.+.+.+-|+..+..         +....+.|+.|. +.+.|.
T Consensus        44 ~Ir~~v~etL~~lgV~--~a~v~v~DkGALDc~IrA---------R~~tAv~RA~~~-~~~~w~   95 (97)
T pfam04953        44 AIRQTIRETLAAYGVT--AAQVNVVDKGALDCVIRA---------RVIAAVMRAADI-VDLPWW   95 (97)
T ss_pred             HHHHHHHHHHHHCCCC--EEEEEEECCCHHHHHHHH---------HHHHHHHHHCCC-CCCCCC
T ss_conf             9999999999983973--479999718738999999---------999999985478-778856


No 173
>pfam01071 GARS_A Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain. Phosphoribosylglycinamide synthetase catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by Phosphoribosylglycinamide synthetase is the ATP- dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide. This domain is related to the ATP-grasp domain of biotin carboxylase/carbamoyl phosphate synthetase (see pfam02786).
Probab=29.67  E-value=35  Score=13.82  Aligned_cols=35  Identities=14%  Similarity=0.340  Sum_probs=17.6

Q ss_pred             HHHHHHHHCCCCCCCCEEECCCCHHHHHHHHHHCCC
Q ss_conf             999999751888777113036605589999983256
Q gi|254780928|r  150 MMADTLEAVGIKRNDYHIGINNRKILDGILEKIGLH  185 (496)
Q Consensus       150 l~~~~l~~lgl~~~~~~I~in~~~il~~il~~lgi~  185 (496)
                      .+-++|++.|++...|.+ +++..=+..+++.+|.|
T Consensus         5 ~~r~~l~~~gip~p~~~~-~~~~~ea~~~~~~~g~P   39 (193)
T pfam01071         5 FAKDFMKRHGIPTAEYET-FTDPEEAKSYIREAGFP   39 (193)
T ss_pred             HHHHHHHHCCCCCCCEEE-ECCHHHHHHHHHHCCCC
T ss_conf             999999986989999078-78999999999976998


No 174
>PRK11914 diacylglycerol kinase; Reviewed
Probab=29.65  E-value=35  Score=13.81  Aligned_cols=52  Identities=12%  Similarity=0.010  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHCCCEEEECCCHHHHH--HHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHH
Q ss_conf             999999999998598480165202288--7520267554333221689869998899988883899
Q gi|254780928|r   28 RILDSIRNIYENYGFDPIETPLLEYSD--SLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPL   91 (496)
Q Consensus        28 ~i~~~l~~~f~~~G~~~I~tP~lE~~~--~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~   91 (496)
                      +..+.+.+.++.+|+.....++=+..+  .+.+.          .  ..+.-...++.-=|.|+.-
T Consensus        24 ~~~~~i~~~l~~~g~~~~~~~t~~~~~a~~la~~----------a--~~~g~d~vv~~GGDGTv~e   77 (304)
T PRK11914         24 HAAERAIARLHHRGVDVVEIVGTDAHHARHLVAA----------A--LAKGTDALVVVGGDGVISN   77 (304)
T ss_pred             HHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHH----------H--HHCCCCEEEEEECCHHHHH
T ss_conf             8999999999987990999932787899999998----------8--8649969999956259889


No 175
>COG5410 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.43  E-value=25  Score=14.83  Aligned_cols=22  Identities=50%  Similarity=0.803  Sum_probs=13.7

Q ss_pred             EECCCCCCCCCCCCCCCCCCCCCEEEEC
Q ss_conf             1003232355211123456774213311
Q gi|254780928|r  327 SVGGGGRYDGLVSRFKGQNVPATGFSIG  354 (496)
Q Consensus       327 aI~~GGRYD~L~~~f~~~~~pavGfaig  354 (496)
                      ..++||||.-+   +||.   |+|++-.
T Consensus       140 ~~~gGg~yaTs---~gG~---ATG~GaD  161 (305)
T COG5410         140 VVDGGGVYATS---LGGQ---ATGFGAD  161 (305)
T ss_pred             EEECCEEEEEE---CCCC---CCCCCCC
T ss_conf             94288788873---0565---4577874


No 176
>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.
Probab=28.98  E-value=36  Score=13.74  Aligned_cols=25  Identities=4%  Similarity=0.034  Sum_probs=12.0

Q ss_pred             HHHHHHHCCCEEEEEECCCCCHHHHHH
Q ss_conf             999999879839997189999889999
Q gi|254780928|r  396 YTQMLRTAGIRAEMFLGSSKNFGNQLK  422 (496)
Q Consensus       396 ia~~Lr~~Gi~~e~~~~~~~sl~~~~~  422 (496)
                      +...|++.|+.+-+-+  +.++.+.+.
T Consensus       100 ~~~~l~~~Gv~~vF~p--Gt~~~e~i~  124 (128)
T cd02072         100 VEKRFKEMGFDRVFAP--GTPPEEAIA  124 (128)
T ss_pred             HHHHHHHCCCCEEECC--CCCHHHHHH
T ss_conf             9999996696857499--879999999


No 177
>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily.  Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8.  Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active.  In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation.  Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy.  Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA.  Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid.  Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.  Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=28.52  E-value=37  Score=13.69  Aligned_cols=93  Identities=10%  Similarity=0.033  Sum_probs=41.3

Q ss_pred             EEECCCCCCCCCCCCC-CCCCCCCCEEEECC----HHH-HHHHHHCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHH
Q ss_conf             1100323235521112-34567742133110----168-99999736877665557714899826976899999999999
Q gi|254780928|r  326 GSVGGGGRYDGLVSRF-KGQNVPATGFSIGI----SRL-IVALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQM  399 (496)
Q Consensus       326 ~aI~~GGRYD~L~~~f-~~~~~pavGfaigv----erl-~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~  399 (496)
                      .-.||--||+.|...+ .+.+.--+-|++.-    +.+ -.++.+.....+.    .|  |+.+|...+.... .....+
T Consensus        66 WDTAGqE~y~~lr~~yY~~a~~~ll~Fdvt~~~Sfe~~~~~Wi~Ei~~~~p~----~p--iiLVGnK~DLr~d-~~~l~~  138 (232)
T cd04174          66 WDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWKAEIMDYCPS----TR--ILLIGCKTDLRTD-LSTLME  138 (232)
T ss_pred             EECCCCCCCCHHHHHHHCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCC----CC--EEEEEECHHCCCC-HHHHHH
T ss_conf             8389970100367997406878999996898799998999999999986899----97--8999876021547-577889


Q ss_pred             HHHCCCEEEEEECCCCCHHHHHHHHHHCCCC-EE
Q ss_conf             9987983999718999988999999877998-99
Q gi|254780928|r  400 LRTAGIRAEMFLGSSKNFGNQLKYADRRNCP-LA  432 (496)
Q Consensus       400 Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~-~v  432 (496)
                      |...+.+. +      +.+.....|.+.|+. |+
T Consensus       139 L~~~~~~p-V------t~eeg~~~Ak~iga~~Y~  165 (232)
T cd04174         139 LSNQKQAP-I------SYEQGCALAKQLGAEVYL  165 (232)
T ss_pred             HHHCCCCC-C------CHHHHHHHHHHCCCCEEE
T ss_conf             97568887-5------799999999974997899


No 178
>PRK13371 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=27.73  E-value=38  Score=13.60  Aligned_cols=90  Identities=18%  Similarity=0.186  Sum_probs=45.5

Q ss_pred             HHHHHHHHCCCEEEEEEC--CCCCHHHHHHHHHHCCCCEEEEECHHHHHCC-CEEEEECCCCCEEEEECCCHHHHHH---
Q ss_conf             999999987983999718--9999889999998779989999887287488-1899787888364331120144320---
Q gi|254780928|r  395 MYTQMLRTAGIRAEMFLG--SSKNFGNQLKYADRRNCPLAIIQGTGERSRG-MLQIKDLAKGKELSREIKNNESWRE---  468 (496)
Q Consensus       395 ~ia~~Lr~~Gi~~e~~~~--~~~sl~~~~~~A~~~g~~~viiig~~e~~~~-~v~vK~l~~g~q~~~~~~~~~~~~~---  468 (496)
                      .-+.+|-+...-+-+..+  .+.+=.+..+-|.+.|+|--.|-+.+++..+ .+.-|++. ++.     ..-+.|..   
T Consensus       286 ~A~~~L~~~~vDlmiVVGG~NSSNT~rL~EIa~~~g~pty~Ie~a~ei~~~~~i~h~~~~-~~~-----~~~~~wlp~g~  359 (392)
T PRK13371        286 DAMFSLVEEPLDLMVVIGGFNSSNTTHLQEIAIERGIPSYHIDTAERIGSGNSIEHKPLG-KEL-----VTTENWLPAGP  359 (392)
T ss_pred             HHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHCCCEEEECCHHHCCCCCCCCCCCCC-HHH-----HHHHHHHCCCC
T ss_conf             999998754788899946888841899999999859985993887885951112223330-112-----20133310589


Q ss_pred             ---CCCCCEEECHHHHHHHHHHHHH
Q ss_conf             ---2335103079999999999998
Q gi|254780928|r  469 ---ARVAQITIPISELVSTVKKILQ  490 (496)
Q Consensus       469 ---~~~~q~~v~~~~l~~~~~~~l~  490 (496)
                         +..+.-+-|-.=+-+.+.++++
T Consensus       360 ~~IGiTAGAStPd~iVeeVi~ri~~  384 (392)
T PRK13371        360 ITVGITSGASTPDKVVEEVIEKIFA  384 (392)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHHHH
T ss_conf             6799846868709999999999998


No 179
>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=27.70  E-value=38  Score=13.60  Aligned_cols=126  Identities=26%  Similarity=0.317  Sum_probs=77.8

Q ss_pred             CCCCC---CCHHHHHHHHHHHHHHHHHHHHCCCEEEE-CCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECC---
Q ss_conf             98765---88668999999999999999985984801-652022887520267554333221689869998899988---
Q gi|254780928|r   13 RGFAD---CPTKEIRIRNRILDSIRNIYENYGFDPIE-TPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRY---   85 (496)
Q Consensus        13 ~G~~D---~~p~~~~~~~~i~~~l~~~f~~~G~~~I~-tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRp---   85 (496)
                      +|-=|   |+|-|-.+|+     -.++.+++.+..++ +|+      |+|-+..+  .+ -+  |.-++||-+.|==   
T Consensus       296 kGPGDiLIFlpGEREIRD-----aAE~L~k~~~rhtEIlPL------YARLS~~E--Q~-Rv--F~pHsGRRIVLaTNVA  359 (1320)
T TIGR01967       296 KGPGDILIFLPGEREIRD-----AAEILRKRNLRHTEILPL------YARLSNKE--QQ-RV--FQPHSGRRIVLATNVA  359 (1320)
T ss_pred             CCCCCEEEECCCCCCHHH-----HHHHHHCCCCCCEEEECC------HHHCCHHH--CC-CC--CCCCCCCEEEEECCHH
T ss_conf             899726763788863689-----999984468787044055------22158644--74-40--0685962345330101


Q ss_pred             --CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCC-CC--------CCCCC---------CCCCCCCHHHHHCCCHHHHH
Q ss_conf             --883899999995112055411233101333025-87--------64442---------11111000121000024578
Q gi|254780928|r   86 --DLTAPLARYVAENFDTIVFPCRTYRIGPVFRNE-KH--------GPGRF---------RQFIQCDVDNVGSSAETADA  145 (496)
Q Consensus        86 --DlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e-~p--------~~Gr~---------REf~Q~g~eiiG~~~~~~Da  145 (496)
                        =||+|=.|||..-.....  =|+.|=.+|=|=. +|        .+||.         |=+.+-||+   +.....|=
T Consensus       360 ETSLTVPGI~YVIDtGtARi--SRYS~RTKVQRLPIEpISQASANQRkGRCGRV~~GICIRLYSE~DFn---sRP~FTDP  434 (1320)
T TIGR01967       360 ETSLTVPGIRYVIDTGTARI--SRYSYRTKVQRLPIEPISQASANQRKGRCGRVAPGICIRLYSEEDFN---SRPEFTDP  434 (1320)
T ss_pred             HHHCCCCCCCCEECCCCCCC--CCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCEEEECCCHHHHC---CCCCCCCC
T ss_conf             33057887111356885320--00100330133676603122320068875414777047557757340---78754572


Q ss_pred             HHHHH--HHHHHHHCC
Q ss_conf             89999--999997518
Q gi|254780928|r  146 EMCMM--MADTLEAVG  159 (496)
Q Consensus       146 Eii~l--~~~~l~~lg  159 (496)
                      ||+.+  |.=||+-+-
T Consensus       435 EILRTNLAsVIL~M~a  450 (1320)
T TIGR01967       435 EILRTNLASVILQMLA  450 (1320)
T ss_pred             CHHHHHHHHHHHHHHH
T ss_conf             0767758999999874


No 180
>PRK10786 ribD bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=27.36  E-value=39  Score=13.56  Aligned_cols=43  Identities=14%  Similarity=0.026  Sum_probs=22.4

Q ss_pred             CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCC-CCCCCC-CCCCCHHHH
Q ss_conf             883899999995112055411233101333025876-444211-111000121
Q gi|254780928|r   86 DLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHG-PGRFRQ-FIQCDVDNV  136 (496)
Q Consensus        86 DlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~-~Gr~RE-f~Q~g~eii  136 (496)
                      --|+|++..+....      +|+-++|..  +..|. .|+--+ .-+.|+|+.
T Consensus        79 GkTpPC~~aIi~ag------I~rVvia~~--DPnp~v~GkGi~~L~~aGI~V~  123 (367)
T PRK10786         79 GRTPPCCDALIAAG------VARVVAAMQ--DPNPQVAGRGLYRLQQAGIDVS  123 (367)
T ss_pred             CCCCHHHHHHHHHC------CCEEEEECC--CCCCCCCCCHHHHHHHCCCEEE
T ss_conf             98945999999828------988999688--9882124636999987698899


No 181
>pfam04800 ETC_C1_NDUFA4 ETC complex I subunit conserved region. Family of pankaryotic NADH-ubiquinone oxidoreductase subunits (EC:1.6.5.3) (EC:1.6.99.3) from complex I of the electron transport chain initially identified in Neurospora crassa as a 21 kDa protein.
Probab=27.18  E-value=39  Score=13.54  Aligned_cols=20  Identities=10%  Similarity=0.258  Sum_probs=16.2

Q ss_pred             CHHHHHHHHHHCCCCEEEEE
Q ss_conf             98899999987799899998
Q gi|254780928|r  416 NFGNQLKYADRRNCPLAIIQ  435 (496)
Q Consensus       416 sl~~~~~~A~~~g~~~viii  435 (496)
                      +.+.++.||.+.|++|.|+-
T Consensus        57 skE~Ai~YA~k~gi~y~V~e   76 (101)
T pfam04800        57 TKEAAIAFAERQGWEYDVEE   76 (101)
T ss_pred             CHHHHHHHHHHCCCEEEEEC
T ss_conf             99999999998498289957


No 182
>TIGR01573 cas2 CRISPR-associated protein Cas2; InterPro: IPR003799   This entry describes proteins of unknown function..
Probab=26.93  E-value=33  Score=13.98  Aligned_cols=32  Identities=13%  Similarity=0.392  Sum_probs=26.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCEEEECCCHH
Q ss_conf             66899999999999999998598480165202
Q gi|254780928|r   20 TKEIRIRNRILDSIRNIYENYGFDPIETPLLE   51 (496)
Q Consensus        20 p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE   51 (496)
                      |++....++...++++....+||+.+.-.++|
T Consensus        10 ~~~t~~~~~~~~K~ak~L~~~G~~R~Q~Svf~   41 (103)
T TIGR01573        10 PEDTKGERKRRRKLAKLLEKYGLQRVQYSVFE   41 (103)
T ss_pred             CCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHH
T ss_conf             87674578999999999986340423466664


No 183
>cd07995 TPK Thiamine pyrophosphokinase. Thiamine pyrophosphokinase (TPK, EC:2.7.6.2, also spelled thiamin pyrophosphokinase) catalyzes the transfer of a pyrophosphate group from ATP to vitamin B1 (thiamine) to form the coenzyme thiamine pyrophosphate (TPP). TPP is required for central metabolic functions, and thiamine deficiency is associated with potentially fatal human diseases. The structure of thiamine pyrophosphokinase suggests that the enzyme may operate by a mechanism of pyrophosphoryl transfer similar to those described for pyrophosphokinases functioning in nucleotide biosynthesis.
Probab=26.63  E-value=40  Score=13.47  Aligned_cols=11  Identities=36%  Similarity=0.761  Sum_probs=7.2

Q ss_pred             CCCCCCCCCCC
Q ss_conf             23235521112
Q gi|254780928|r  331 GGRYDGLVSRF  341 (496)
Q Consensus       331 GGRYD~L~~~f  341 (496)
                      |||.|..++.+
T Consensus       101 GgR~DH~lanl  111 (208)
T cd07995         101 GGRLDHTLANL  111 (208)
T ss_pred             CCCHHHHHHHH
T ss_conf             99677899999


No 184
>PRK07535 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated
Probab=25.81  E-value=41  Score=13.38  Aligned_cols=54  Identities=13%  Similarity=0.154  Sum_probs=31.4

Q ss_pred             CCCCCHHHHHCC---CHHHHHHHHHHHHHHHHHCCCCCCCCEEECCCCHHHHHHHHHHC
Q ss_conf             111000121000---02457889999999997518887771130366055899999832
Q gi|254780928|r  128 FIQCDVDNVGSS---AETADAEMCMMMADTLEAVGIKRNDYHIGINNRKILDGILEKIG  183 (496)
Q Consensus       128 f~Q~g~eiiG~~---~~~~DaEii~l~~~~l~~lgl~~~~~~I~in~~~il~~il~~lg  183 (496)
                      -.+.|++++-..   ...-+.|.+.-+.+.++..  ..-.+.|.-.+...+++-|..+.
T Consensus        34 Q~eaGA~~LDVN~g~~~~de~~~m~~~v~~iq~~--~~~Pl~iDS~~~~aiEaaLk~~~   90 (268)
T PRK07535         34 QVEAGANYLDVNAGTAVEEEPETMEWLVETVQEV--VDVPLCIDSPNPEAIEAGLKVAK   90 (268)
T ss_pred             HHHCCCCEEEEECCCCCCCHHHHHHHHHHHHHHC--CCCCEEECCCCHHHHHHHHHHCC
T ss_conf             9984999899608987746899999999999733--89996761898999999999779


No 185
>COG4635 HemG Flavodoxin [Energy production and conversion / Coenzyme metabolism]
Probab=25.55  E-value=42  Score=13.35  Aligned_cols=16  Identities=25%  Similarity=0.397  Sum_probs=8.7

Q ss_pred             CCCHHHHHHHHHHHHH
Q ss_conf             8883899999995112
Q gi|254780928|r   85 YDLTAPLARYVAENFD  100 (496)
Q Consensus        85 pDlT~~~aR~~~~~~~  100 (496)
                      .--|--||++++.++.
T Consensus        11 ~GqT~kIA~~iA~~L~   26 (175)
T COG4635          11 DGQTRKIAEYIASHLR   26 (175)
T ss_pred             CCCHHHHHHHHHHHHH
T ss_conf             7758999999999755


No 186
>COG0761 lytB 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]
Probab=25.33  E-value=42  Score=13.32  Aligned_cols=16  Identities=19%  Similarity=0.287  Sum_probs=11.1

Q ss_pred             HHHHHHHHHHHHCCCC
Q ss_conf             8999999999751888
Q gi|254780928|r  146 EMCMMMADTLEAVGIK  161 (496)
Q Consensus       146 Eii~l~~~~l~~lgl~  161 (496)
                      ..|.++-++++.+|-+
T Consensus        18 RAI~ive~al~~~g~p   33 (294)
T COG0761          18 RAIQIVERALEEYGAP   33 (294)
T ss_pred             HHHHHHHHHHHHCCCC
T ss_conf             9999999999971998


No 187
>cd04601 CBS_pair_IMPDH This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein.  IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key role in the regulation of cell proliferation and differentiation. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain in IMPDH have been associated with retinitis pigmentosa.
Probab=25.26  E-value=42  Score=13.31  Aligned_cols=34  Identities=12%  Similarity=0.296  Sum_probs=13.3

Q ss_pred             HHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEEC
Q ss_conf             8899999987799899998872874881899787
Q gi|254780928|r  417 FGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDL  450 (496)
Q Consensus       417 l~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l  450 (496)
                      +...++.=.+.++..+.++.++..=-|-|+.+|+
T Consensus        74 ~~~~~~~m~~~~i~~lpVvd~~~~lvGiIt~~Di  107 (110)
T cd04601          74 LEEALELLHEHKIEKLPVVDDEGKLKGLITVKDI  107 (110)
T ss_pred             HHHHHHHHHHCCCEEEEEECCCCEEEEEEEHHHH
T ss_conf             9999999986685199999889999999995984


No 188
>PRK13590 putative bifunctional OHCU decarboxylase/allantoate amidohydrolase; Provisional
Probab=24.14  E-value=41  Score=13.37  Aligned_cols=10  Identities=10%  Similarity=0.072  Sum_probs=4.3

Q ss_pred             HHHCCCCEEE
Q ss_conf             9877998999
Q gi|254780928|r  424 ADRRNCPLAI  433 (496)
Q Consensus       424 A~~~g~~~vi  433 (496)
                      |.+.|+++.-
T Consensus       519 a~~lG~~~~~  528 (590)
T PRK13590        519 VAALGLPVHR  528 (590)
T ss_pred             HHHCCCCCCC
T ss_conf             9976999740


No 189
>KOG3846 consensus
Probab=24.08  E-value=41  Score=13.39  Aligned_cols=33  Identities=27%  Similarity=0.495  Sum_probs=18.9

Q ss_pred             HHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEE
Q ss_conf             99999998750888443001101001221234124899
Q gi|254780928|r  272 LVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEA  309 (496)
Q Consensus       272 l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~  309 (496)
                      .+.+++.++..|= .  |  .+-+--|..||||..|.+
T Consensus       201 teDILd~IEkngD-e--i--A~v~fSGvqyYTGQ~Fdi  233 (465)
T KOG3846         201 TEDILDTIEKNGD-E--I--ALVCFSGVQYYTGQYFDI  233 (465)
T ss_pred             HHHHHHHHHHCCC-E--E--EEEEEECCEEECCCCCCH
T ss_conf             7879999973687-6--9--999950524422532241


No 190
>PRK12778 putative bifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta; Provisional
Probab=23.65  E-value=45  Score=13.12  Aligned_cols=57  Identities=11%  Similarity=0.069  Sum_probs=34.9

Q ss_pred             EEEECCCHHHHHHHHHHHHHHHHCCCE-EEEEECCC----CCHHHHHHHHHHCCCCEEEEECHHHH
Q ss_conf             998269768999999999999987983-99971899----99889999998779989999887287
Q gi|254780928|r  380 ITTMDHDSDSLSKYQMYTQMLRTAGIR-AEMFLGSS----KNFGNQLKYADRRNCPLAIIQGTGER  440 (496)
Q Consensus       380 V~~~~~~~~~~~~~~~ia~~Lr~~Gi~-~e~~~~~~----~sl~~~~~~A~~~g~~~viiig~~e~  440 (496)
                      |.+++.+.    .|+..|+.....|-. |.+.|..+    +.-..-+.+|...|+.|.....+.+.
T Consensus       581 VvVIGGGn----tAmD~artA~RlGAe~V~ivyRR~~~emPA~~~Ei~~A~eEGV~f~~l~~P~~i  642 (760)
T PRK12778        581 VAVIGGGN----TAMDSVRTAKRLGAERAMIIYRRSEEEMPARLEEVKHAKEEGIEFLTLHNPIEY  642 (760)
T ss_pred             EEEECCCH----HHHHHHHHHHHCCCCEEEEEECCCHHCCCCCHHHHHHHHHCCCEEEECCCCEEE
T ss_conf             99999976----099999999983998699970377211999989999998579889916897899


No 191
>pfam00604 Flu_PB2 Influenza RNA-dependent RNA polymerase subunit PB2. PB2 can bind 5' end cap structure of RNA.
Probab=23.54  E-value=46  Score=13.11  Aligned_cols=11  Identities=27%  Similarity=0.280  Sum_probs=5.3

Q ss_pred             HHH--HHHHHHCC
Q ss_conf             233--10133302
Q gi|254780928|r  107 RTY--RIGPVFRN  117 (496)
Q Consensus       107 k~y--y~g~vfR~  117 (496)
                      |.|  |++++-|.
T Consensus       113 KvYks~F~r~eRl  125 (759)
T pfam00604       113 KVYKSYFERVERL  125 (759)
T ss_pred             HHHHHHHHHHHHH
T ss_conf             6999999999876


No 192
>PRK13799 unknown domain/N-carbamoyl-L-amino acid hydrolase fusion protein; Provisional
Probab=23.17  E-value=44  Score=13.18  Aligned_cols=18  Identities=28%  Similarity=0.351  Sum_probs=9.6

Q ss_pred             HHHHHH-HHHHCCCCEEEE
Q ss_conf             889999-998779989999
Q gi|254780928|r  417 FGNQLK-YADRRNCPLAII  434 (496)
Q Consensus       417 l~~~~~-~A~~~g~~~vii  434 (496)
                      +.+.++ .|++.|+++.-+
T Consensus       514 l~~~le~aa~~lG~~~~~m  532 (591)
T PRK13799        514 LMKQLEAATDAAGVPLFEL  532 (591)
T ss_pred             HHHHHHHHHHHCCCCCEEE
T ss_conf             9999999999779996242


No 193
>TIGR01494 ATPase_P-type ATPase, P-type (transporting), HAD superfamily, subfamily IC; InterPro: IPR001757   ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (F-, V- and A-ATPases contain rotary motors) and in the type of ions they transport , .  F-ATPases (F1F0-ATPases) in mitochondria, chloroplasts and bacterial plasma membranes are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases) are primarily found in eukaryotic vacuoles, catalysing ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases) are found in Archaea and function like F-ATPases. P-ATPases (E1E2-ATPases) are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP.   P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles . P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H^+, Na^+, K^+, Mg^2+, Ca^2+, Ag^+ and Ag^2+, Zn^2+, Co^2+, Pb^2+, Ni^2+, Cd^2+, Cu^+ and Cu^2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2.    This entry represents the several classes of P-type ATPases, including those that transport K^+ (3.6.3.12 from EC), Mg^2+ (3.6.3.2 from EC), Cd^2+ (3.6.3.3 from EC), Cu ^2+ (3.6.3.4 from EC), Zn^2+ (3.6.3.5 from EC), Na^+ (3.6.3.7 from EC), Ca^2+ (3.6.3.8 from EC), Na^+/K^+ (3.6.3.9 from EC), and H^+/K^+ (3.6.3.10 from EC). These P-ATPases are found in both prokaryotes and eukaryotes.   More information about this protein can be found at Protein of the Month: ATP Synthases . ; GO: 0005524 ATP binding, 0015662 ATPase activity coupled to transmembrane movement of ions phosphorylative mechanism, 0006810 transport, 0016020 membrane.
Probab=23.15  E-value=46  Score=13.06  Aligned_cols=50  Identities=18%  Similarity=0.196  Sum_probs=32.8

Q ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCC
Q ss_conf             4899826976899999999999998798399971899998899999987799
Q gi|254780928|r  378 VLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNC  429 (496)
Q Consensus       378 v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~  429 (496)
                      .+...+..++.....+.+..++|+++||++.+.-+ + +.+...+-|.+.|+
T Consensus       316 ~~lG~~~~~D~lr~~~~~~i~~L~~agi~v~mlTG-D-~~~tA~~ia~~~g~  365 (478)
T TIGR01494       316 ELLGLTAIEDPLREDVKETIEELKRAGIKVWMLTG-D-NVETAIAIAKECGL  365 (478)
T ss_pred             EEEEEEEEECCCCCCHHHHHHHHHHCCCEEEEEEC-C-CHHHHHHHHHHCCC
T ss_conf             07899997345777268999999865998999957-9-87999999985242


No 194
>PRK12446 N-acetylglucosaminyl transferase; Reviewed
Probab=23.11  E-value=46  Score=13.05  Aligned_cols=40  Identities=18%  Similarity=0.038  Sum_probs=21.1

Q ss_pred             HHHHHHCCCEEEEEECCC-CCHHHHHHHHH---HCCCCEEEEECHH
Q ss_conf             999998798399971899-99889999998---7799899998872
Q gi|254780928|r  397 TQMLRTAGIRAEMFLGSS-KNFGNQLKYAD---RRNCPLAIIQGTG  438 (496)
Q Consensus       397 a~~Lr~~Gi~~e~~~~~~-~sl~~~~~~A~---~~g~~~viiig~~  438 (496)
                      ..+|-..|+++-+-|-+. -.=..|+..|.   +.|+  .+++-++
T Consensus       265 iaEl~~~g~PsIlIP~p~~a~~nHQ~~NA~~l~~~ga--a~vi~e~  308 (352)
T PRK12446        265 IFEFLTLQKPMLLIPLSKFASRGDQILNAESFERQGY--ASVLYEE  308 (352)
T ss_pred             HHHHHHHCCCEEEECCCCCCCCCHHHHHHHHHHHCCC--EEEEECC
T ss_conf             9999982998899628987775759999999997798--8996414


No 195
>TIGR00303 TIGR00303 conserved hypothetical protein TIGR00303; InterPro: IPR002805   Nicotinate mononucleotide (NaMN):5,6-dimethylbenzimidazole (DMB) phosphoribosyltransferase (CobT) plays a central role in the synthesis of alpha-ribazole-5'-phosphate, an intermediate for the lower ligand of cobalamin . It is one of the enzymes of the anaerobic pathway of cobalamin biosynthesis, and one of the four proteins (CobU, CobT, CobC, and CobS) involved in the synthesis of the lower ligand and the assembly of the nucleotide loop , .    Vitamin B_12 (cobalamin) is used as a cofactor in a number of enzyme-catalysed reactions in bacteria, archaea and eukaryotes . The biosynthetic pathway to adenosylcobalamin from its five-carbon precursor, 5-aminolaevulinic acid, can be divided into three sections: (1) the biosynthesis of uroporphyrinogen III from 5-aminolaevulinic acid; (2) the conversion of uroporphyrinogen III into the ring-contracted, deacylated intermediate precorrin 6 or cobalt-precorrin 6; and (3) the transformation of this intermediate to form adenosylcobalamin . Cobalamin is synthesised by bacteria and archaea via two alternative routes that differ primarily in the steps of section 2 that lead to the contraction of the macrocycle and excision of the extruded carbon molecule (and its attached methyl group) . One pathway (exemplified by Pseudomonas denitrificans) incorporates molecular oxygen into the macrocycle as a prerequisite to ring contraction, and has consequently been termed the aerobic pathway. The alternative, anaerobic, route (exemplified by Salmonella typhimurium) takes advantage of a chelated cobalt ion, in the absence of oxygen, to set the stage for ring contraction .   This entry represents a group of proteins predicted to have nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase activity..
Probab=22.90  E-value=35  Score=13.83  Aligned_cols=36  Identities=22%  Similarity=0.298  Sum_probs=18.9

Q ss_pred             HHHHHHHHCCCCCCCCEEECCC--------CHHHHHHHHHHCCCH
Q ss_conf             9999997518887771130366--------055899999832560
Q gi|254780928|r  150 MMADTLEAVGIKRNDYHIGINN--------RKILDGILEKIGLHG  186 (496)
Q Consensus       150 l~~~~l~~lgl~~~~~~I~in~--------~~il~~il~~lgi~~  186 (496)
                      +|.-+|..||+.. ++.+.=+|        +++++.=|...|+..
T Consensus       160 TAlGVL~aLG~dA-~g~VsSS~p~nph~lK~~vV~~gL~~AG~e~  203 (350)
T TIGR00303       160 TALGVLLALGYDA-EGKVSSSMPHNPHELKRKVVREGLKKAGIEK  203 (350)
T ss_pred             HHHHHHHHCCCCC-CCCCCCCCCCCCHHHHHHHHHHHHHHCCCCC
T ss_conf             9999998737375-8504378888728899999999887568766


No 196
>PRK04213 GTP-binding protein; Provisional
Probab=22.73  E-value=20  Score=15.36  Aligned_cols=19  Identities=32%  Similarity=0.370  Sum_probs=16.3

Q ss_pred             CHHHHHHHHHHHHHHHHHC
Q ss_conf             7999999999999864204
Q gi|254780928|r  477 PISELVSTVKKILQENKEE  495 (496)
Q Consensus       477 ~~~~l~~~~~~~l~~~~~~  495 (496)
                      -+++|.+.+.+.|.+.+.+
T Consensus       171 Gid~L~~~I~~~L~E~~~~  189 (195)
T PRK04213        171 GIEALKGLINKRLREFKRD  189 (195)
T ss_pred             CHHHHHHHHHHHCHHHCCC
T ss_conf             9999999999967553741


No 197
>PRK01584 alanyl-tRNA synthetase; Provisional
Probab=22.69  E-value=47  Score=13.00  Aligned_cols=130  Identities=13%  Similarity=0.127  Sum_probs=69.0

Q ss_pred             HHHHHHHHHHHHHCCCEEEEC-CCHHHHHHHHCCCCCCCCCCCCEEEEECC-CCCEEEECCCCHHHHHHHHHHHHHHCCC
Q ss_conf             999999999999859848016-52022887520267554333221689869-9988999888838999999951120554
Q gi|254780928|r   27 NRILDSIRNIYENYGFDPIET-PLLEYSDSLGKFLPDEDRPNKGVFSLQDD-DGQWISLRYDLTAPLARYVAENFDTIVF  104 (496)
Q Consensus        27 ~~i~~~l~~~f~~~G~~~I~t-P~lE~~~~~~~~~~~~~~~~k~~y~f~D~-~g~~l~LRpDlT~~~aR~~~~~~~~~~~  104 (496)
                      +.|.+.+.+.|+++|-..|.+ |++-..|.      .-..++.-|..|.+- .|..                     .+.
T Consensus         4 ~eiR~~Fl~fF~~kgH~~v~ssslvp~~dp------tllftnAGm~~Fk~~f~G~~---------------------~p~   56 (593)
T PRK01584          4 DELRKKYIDFFKSKGHVEIAGKSLVPENDP------TVLFNTAGMQPLVPYLLGEP---------------------HPS   56 (593)
T ss_pred             HHHHHHHHHHHHHCCCEECCCCCCCCCCCC------CEEEEECCCCCCCHHHCCCC---------------------CCC
T ss_conf             999999999998789888378771779999------83574045101712325888---------------------999


Q ss_pred             CHHHHHHHHHHCCC---CCCCCCCCCCCCCCHHHHHCCC--HHHHHHHHHHHHHHHH---HCCCCCCCCEEEC--CCCH-
Q ss_conf             11233101333025---8764442111110001210000--2457889999999997---5188877711303--6605-
Q gi|254780928|r  105 PCRTYRIGPVFRNE---KHGPGRFRQFIQCDVDNVGSSA--ETADAEMCMMMADTLE---AVGIKRNDYHIGI--NNRK-  173 (496)
Q Consensus       105 p~k~yy~g~vfR~e---~p~~Gr~REf~Q~g~eiiG~~~--~~~DaEii~l~~~~l~---~lgl~~~~~~I~i--n~~~-  173 (496)
                      --|....+++.|-.   ..  |+-|  +...||+.|.-|  -+---|.|..+++.|.   -||++...+.+.+  ++-. 
T Consensus        57 ~~r~~~~QkCiR~~DldnV--G~~~--H~TfFEMLGn~SFgdYfK~eaI~~awe~lt~~~~l~l~~~rl~vtv~~~D~~~  132 (593)
T PRK01584         57 GDMLVNVQKCLRTGDIDEV--GDLS--HLTFFEMLGNWSLGAYFKEESVKYSFEFLTSPDYLNIPKDKLYVSVFEGDEDI  132 (593)
T ss_pred             CCCCCCCCCEEECCCHHHC--CCCC--CCHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHEEEEEEECCCCC
T ss_conf             9974567531333756336--8887--52777505445233114899999999980663204888324799996058766


Q ss_pred             ----HHHHHHHHHCCCHH
Q ss_conf             ----58999998325603
Q gi|254780928|r  174 ----ILDGILEKIGLHGD  187 (496)
Q Consensus       174 ----il~~il~~lgi~~~  187 (496)
                          =...++..+|+|.+
T Consensus       133 ~~D~E~~~iW~~~Gi~~~  150 (593)
T PRK01584        133 PRDEETAKIWESLGISKD  150 (593)
T ss_pred             CCCHHHHHHHHHCCCCHH
T ss_conf             544889999998199899


No 198
>PRK13059 putative lipid kinase; Reviewed
Probab=22.64  E-value=47  Score=12.99  Aligned_cols=72  Identities=18%  Similarity=0.054  Sum_probs=34.5

Q ss_pred             CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCE
Q ss_conf             98765871037998765886689999999999999999859848016520228875202675543332216898699988
Q gi|254780928|r    1 MGKKTKLRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQW   80 (496)
Q Consensus         1 m~k~~~~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~   80 (496)
                      |+| ..++..+-.|-.        ...+..+.+.+.++.+|++.+.+++=+..+....        .+.   ..+.-...
T Consensus         1 Mkk-~~~I~NP~sG~g--------~~~~~~~~i~~~l~~~~~~~~~~~t~~~~~~~~a--------~~~---~~~~~d~v   60 (294)
T PRK13059          1 MKK-VKFIYNPYSGEN--------AIISELDKVIEIHQKYGYLVVPYRISLGCDLKEA--------FKD---IDESYKYI   60 (294)
T ss_pred             CCE-EEEEECCCCCCC--------CHHHHHHHHHHHHHHCCCEEEEEEEECCCHHHHH--------HHH---HHCCCCEE
T ss_conf             977-999999766886--------6688999999999977988999985356089999--------998---87489889


Q ss_pred             EEECCCCHHHHH
Q ss_conf             999888838999
Q gi|254780928|r   81 ISLRYDLTAPLA   92 (496)
Q Consensus        81 l~LRpDlT~~~a   92 (496)
                      ++.-=|.|+.-+
T Consensus        61 v~~GGDGTinev   72 (294)
T PRK13059         61 LIAGGDGTVDNV   72 (294)
T ss_pred             EEEECCCHHHHH
T ss_conf             999567889999


No 199
>cd01579 AcnA_Bact_Swivel Bacterial Aconitase-like swivel domain. Aconitase (aconitate hydratase or citrate hydrolyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle.  Cis-aconitate is formed as an intermediate product during the course of the reaction. This is the aconitase-like swivel domain, which is believed to undergo swivelling conformational change in the enzyme mechanism. This distinct subfamily is found only in bacteria and archea. Its exact characteristics are not known.
Probab=22.56  E-value=48  Score=12.98  Aligned_cols=55  Identities=11%  Similarity=0.068  Sum_probs=34.2

Q ss_pred             HHHHHHHHHCCCEEEEEECCCCCHHHHHH-HHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEE
Q ss_conf             99999999879839997189999889999-9987799899998872874881899787888364331
Q gi|254780928|r  394 QMYTQMLRTAGIRAEMFLGSSKNFGNQLK-YADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSRE  459 (496)
Q Consensus       394 ~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~-~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~  459 (496)
                      ...+..|+..|++|.+..    |+...+. .|-+.|++-+.+.-++.       ...+.+|++.+++
T Consensus        65 E~A~~al~~~Gi~aVIA~----SFarIf~rN~in~Gllpl~~~~~~~-------~~~i~~GD~levD  120 (121)
T cd01579          65 EHAALAPMYLGVRAVLAK----SFARIHRANLINFGILPLTFADEDD-------YDRFEQGDQLELP  120 (121)
T ss_pred             HHHHHHHHHCCCEEEEEH----HHHHHHHHHHHHCCCCEEEECCHHH-------HHHHCCCCEEEEC
T ss_conf             999999998394599975----8999999878877862088648767-------8874699989840


No 200
>TIGR01268 Phe4hydrox_tetr phenylalanine-4-hydroxylase; InterPro: IPR005961    This entry represents the large, tetrameric form of phenylalanine-4-hydroxylase (PAH; 1.14.16.1 from EC), as found in metazoans. PAH irreversibly converts phenylalanine to tyrosine, and is known to be the rate-limiting step in phenylalanine catabolism in some systems. It is closely related to metazoan tyrosine 3-monooxygenase and tryptophan 5-monoxygenase, and more distantly to monomeric phenylalanine-4-hydroxylases of some Gram-negative bacteria. The member of this family from Drosophila has been described as having both phenylalanine-4-hydroxylase and tryptophan 5-monoxygenase activity . However, a Drosophila member of the tryptophan 5-monoxygenase clade has subsequently been discovered.   A deficiency in PAH can lead to phenylketonuria (PKU), an autosomal recessive genetic disorder characterised by an inability to metabolise phenylalanine, resulting in elevated Phe levels in the bloodstream that can lead to mental retardation if left untreated .    More information about these proteins can be found at Protein of the Month: Phenylalanine Hydroxylase .; GO: 0004505 phenylalanine 4-monooxygenase activity, 0006559 L-phenylalanine catabolic process.
Probab=22.28  E-value=48  Score=12.95  Aligned_cols=36  Identities=17%  Similarity=0.412  Sum_probs=22.5

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHCCCEEEE--CCCHH
Q ss_conf             6588668999999999999999985984801--65202
Q gi|254780928|r   16 ADCPTKEIRIRNRILDSIRNIYENYGFDPIE--TPLLE   51 (496)
Q Consensus        16 ~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~--tP~lE   51 (496)
                      -+|.++|...|+.|...|..+|..|-++|-.  .|+|+
T Consensus       170 v~Yt~eEi~TW~tvf~~L~~LY~thAC~EyNhvFPLL~  207 (445)
T TIGR01268       170 VEYTEEEIETWRTVFKNLTKLYKTHACKEYNHVFPLLQ  207 (445)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHH
T ss_conf             23377878888899998887300013642343143033


No 201
>TIGR02374 nitri_red_nirB nitrite reductase [NAD(P)H], large subunit; InterPro: IPR012744    This entry describes NirB, the large subunit of nitrite reductase [NAD(P)H] (the assimilatory nitrite reductase), which associates with NirD, the small subunit (IPR012748 from INTERPRO). In a few bacteria such as Klebsiella pneumoniae and in fungi, the two regions are fused.; GO: 0008942 nitrite reductase [NAD(P)H] activity, 0050660 FAD binding, 0050661 NADP binding, 0042128 nitrate assimilation.
Probab=21.49  E-value=50  Score=12.84  Aligned_cols=15  Identities=33%  Similarity=0.605  Sum_probs=7.5

Q ss_pred             HHHHHHHHHHCCCHH
Q ss_conf             558999998325603
Q gi|254780928|r  173 KILDGILEKIGLHGD  187 (496)
Q Consensus       173 ~il~~il~~lgi~~~  187 (496)
                      .|++.++....+|++
T Consensus       388 ~L~~~v~k~~dlse~  402 (813)
T TIGR02374       388 RLLDMVLKEADLSED  402 (813)
T ss_pred             HHHHHHHHHHCCCCC
T ss_conf             588886544138887


No 202
>KOG0835 consensus
Probab=21.23  E-value=51  Score=12.81  Aligned_cols=95  Identities=16%  Similarity=0.148  Sum_probs=56.0

Q ss_pred             CCCCHHHH--HHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             88883899--9999951120554112331013330258764442111110001210000245788999999999751888
Q gi|254780928|r   84 RYDLTAPL--ARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIK  161 (496)
Q Consensus        84 RpDlT~~~--aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~  161 (496)
                      +||+-+-+  +=+++....+.  |-+.-.+=+||-|=+    +.++-.|++..|+-........+++..-.++|..||+ 
T Consensus        62 ~~~~e~vv~ACv~LASKiEE~--Prr~rdVinVFh~L~----~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF-  134 (367)
T KOG0835          62 RHDFEIVVMACVLLASKIEEE--PRRIRDVINVFHYLE----QRRESEAAEHLILARLYINLKMQVIRAERRILRELGF-  134 (367)
T ss_pred             CCCHHHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHH----HHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCC-
T ss_conf             336999999999987640126--523767778999999----9975047651456667765203888889999998297-


Q ss_pred             CCCCEEECCCCHHHHHHHHHHCCCHHH
Q ss_conf             777113036605589999983256035
Q gi|254780928|r  162 RNDYHIGINNRKILDGILEKIGLHGDD  188 (496)
Q Consensus       162 ~~~~~I~in~~~il~~il~~lgi~~~~  188 (496)
                        ++++..-| +++-.++..++++...
T Consensus       135 --~~Hv~hPh-klii~YLqtL~~~~~~  158 (367)
T KOG0835         135 --DVHVEHPH-KLIIMYLQTLQLPPNL  158 (367)
T ss_pred             --EEEEECCH-HHHHHHHHHHCCCCCH
T ss_conf             --35662518-9999999985689722


No 203
>KOG2585 consensus
Probab=20.36  E-value=53  Score=12.69  Aligned_cols=56  Identities=13%  Similarity=0.062  Sum_probs=32.4

Q ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECCC----CCHHHHHHHHHHCCCCEEEEE
Q ss_conf             4899826976899999999999998798399971899----998899999987799899998
Q gi|254780928|r  378 VLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSS----KNFGNQLKYADRRNCPLAIIQ  435 (496)
Q Consensus       378 v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~----~sl~~~~~~A~~~g~~~viii  435 (496)
                      |.|++-+.+  .-......++.|+..|+...+++-..    ..++..++.|+...+|.+=.+
T Consensus       269 V~Ilcgpgn--nggdg~v~gRHL~~~G~~~vi~~pk~s~~~~~~~~L~~q~~~~~Ip~v~~~  328 (453)
T KOG2585         269 VAILCGPGN--NGGDGLVCGRHLAQHGYTPVIYYPKRSLNVDLYKSLVKQCDGFSIPSVSEL  328 (453)
T ss_pred             EEEEECCCC--CCCHHHHHHHHHHHCCCEEEEEEECCCCCHHHHHHHHHHHCCCCCCCCCCC
T ss_conf             899957987--531257778899870861479962686404689999998447654552347


No 204
>KOG2395 consensus
Probab=20.35  E-value=53  Score=12.69  Aligned_cols=54  Identities=22%  Similarity=0.342  Sum_probs=29.2

Q ss_pred             CCCCCHHHCCCC---------CCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCC------CCCCCCCCCCCCCCCCEEE
Q ss_conf             300110100122---------1234124899854666776766631011003232------3552111234567742133
Q gi|254780928|r  288 RIKISSTIVRGL---------EYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGR------YDGLVSRFKGQNVPATGFS  352 (496)
Q Consensus       288 ~i~~Dl~lvRgL---------dYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGR------YD~L~~~f~~~~~pavGfa  352 (496)
                      -+.+||. |+|.         +|-||.-|..+..     ...+     .|+.|++      ||.+ ..-....+||.|=+
T Consensus       406 vfriDpR-v~~~~kl~~~q~kqy~~k~nFsc~aT-----T~sG-----~IvvgS~~GdIRLYdri-~~~AKTAlPgLG~~  473 (644)
T KOG2395         406 VFRIDPR-VQGKNKLAVVQSKQYSTKNNFSCFAT-----TESG-----YIVVGSLKGDIRLYDRI-GRRAKTALPGLGDA  473 (644)
T ss_pred             EEEECCC-CCCCCEEEEEECCCCCCCCCCCEEEE-----CCCC-----EEEEEECCCCEEEEHHH-HHHHHHCCCCCCCC
T ss_conf             4775543-36763344341010254665413664-----3884-----39985168857864543-23455306666775


Q ss_pred             E
Q ss_conf             1
Q gi|254780928|r  353 I  353 (496)
Q Consensus       353 i  353 (496)
                      |
T Consensus       474 I  474 (644)
T KOG2395         474 I  474 (644)
T ss_pred             E
T ss_conf             0


No 205
>COG2139 RPL21A Ribosomal protein L21E [Translation, ribosomal structure and biogenesis]
Probab=20.23  E-value=53  Score=12.68  Aligned_cols=21  Identities=29%  Similarity=0.455  Sum_probs=16.2

Q ss_pred             CCCCCCHHHCCCCCC-----CCCEEE
Q ss_conf             430011010012212-----341248
Q gi|254780928|r  287 NRIKISSTIVRGLEY-----YTGCVY  307 (496)
Q Consensus       287 ~~i~~Dl~lvRgLdY-----YTG~vF  307 (496)
                      ..|.+|||+..|+.+     +||.|.
T Consensus        39 V~I~IdpSv~kGmPh~rf~G~TG~Vv   64 (98)
T COG2139          39 VHIDIDPSVHKGMPHPRFQGKTGTVV   64 (98)
T ss_pred             EEEEECCCCCCCCCCCCCCCCCEEEE
T ss_conf             99984762026987753047630798


No 206
>COG0212 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]
Probab=20.09  E-value=33  Score=13.98  Aligned_cols=27  Identities=30%  Similarity=0.762  Sum_probs=19.6

Q ss_pred             CCCCCCCCCCCCCCCCCCCCEEEECCH
Q ss_conf             323235521112345677421331101
Q gi|254780928|r  330 GGGRYDGLVSRFKGQNVPATGFSIGIS  356 (496)
Q Consensus       330 ~GGRYD~L~~~f~~~~~pavGfaigve  356 (496)
                      |||=||..++.+.+++.+-||.++..-
T Consensus       138 GgGyYDR~la~~~~~~~~~ig~~~~~Q  164 (191)
T COG0212         138 GGGYYDRYLANLRGRKTPTVGIAYDCQ  164 (191)
T ss_pred             CCCHHHHHHHHHCCCCCCEEEEEEEEH
T ss_conf             865788998763346887789877001


Done!